Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001682.1 Hibiscus syriacus cultivar Beakdansim tig00003360_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: 56126
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:3954 original size:17 final size:18
Alignment explanation
Indices: 3918--3961 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
3908 TCATGGAATG
*
3918 TAAGATTACCAGTTGGAA
1 TAAGATTACCAGTCGGAA
*
3936 TATGATTACCAG-CGGAA
1 TAAGATTACCAGTCGGAA
3953 TAAGATTAC
1 TAAGATTAC
3962 TAGGAATGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 12 0.52
18 11 0.48
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (18 bp):
TAAGATTACCAGTCGGAA
Found at i:7900 original size:16 final size:16
Alignment explanation
Indices: 7875--7908 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
7865 ATAAATTAAA
*
7875 TTAATAATGTTCGTCG
1 TTAATAATGTTCATCG
*
7891 TTAATGATGTTCATCG
1 TTAATAATGTTCATCG
7907 TT
1 TT
7909 GCTCGTGCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.12, G:0.18, T:0.47
Consensus pattern (16 bp):
TTAATAATGTTCATCG
Found at i:9316 original size:30 final size:30
Alignment explanation
Indices: 9280--9344 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
9270 AGTGCTCCAT
* *
9280 AGGTCGCCGTGTGCTCCTGGAGACCTATGG
1 AGGTCGCCATGTGCTCATGGAGACCTATGG
9310 AGGTCGCCATGTGCTCATGGAGACCTATGG
1 AGGTCGCCATGTGCTCATGGAGACCTATGG
*
9340 TGGTC
1 AGGTC
9345 ACTGTAGCAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.15, C:0.25, G:0.35, T:0.25
Consensus pattern (30 bp):
AGGTCGCCATGTGCTCATGGAGACCTATGG
Found at i:19972 original size:26 final size:27
Alignment explanation
Indices: 19913--19972 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 27
19903 AAAAATATAT
*
19913 AAAATAAAGAAAAAGAAGAAAAAAGTA
1 AAAATAAAGAAAAACAAGAAAAAAGTA
* * * *
19940 TATATAAA-TAAAACAATAAAAAAGTA
1 AAAATAAAGAAAAACAAGAAAAAAGTA
19966 AAAATAA
1 AAAATAA
19973 TATATATATA
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
26 20 0.77
27 6 0.23
ACGTcount: A:0.75, C:0.02, G:0.08, T:0.15
Consensus pattern (27 bp):
AAAATAAAGAAAAACAAGAAAAAAGTA
Found at i:20049 original size:53 final size:52
Alignment explanation
Indices: 19943--20062 Score: 124
Period size: 53 Copynumber: 2.3 Consensus size: 52
19933 AAAAGTATAT
* *
19943 ATAAAT-AAAACAATAAAAAAGTAAAAATAATATATATATATGTATATATATA
1 ATAAATAAAAAC-ATAAAAAAGTAAAAATAATATATATAAATGTATATAGATA
*
19995 ATAAATAAAAACATAAAAAA-TAGTAAAT-ATATATATAAAT-TAATAAATAGATA
1 ATAAATAAAAACATAAAAAAGTA-AAAATAATATATATAAATGT-AT--ATAGATA
20048 ATAAA-AAATAACATA
1 ATAAATAAA-AACATA
20063 TATATATATA
Statistics
Matches: 59, Mismatches: 3, Indels: 11
0.81 0.04 0.15
Matches are distributed among these distances:
50 1 0.02
51 15 0.25
52 21 0.36
53 22 0.37
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.28
Consensus pattern (52 bp):
ATAAATAAAAACATAAAAAAGTAAAAATAATATATATAAATGTATATAGATA
Found at i:20052 original size:41 final size:43
Alignment explanation
Indices: 19938--20078 Score: 123
Period size: 41 Copynumber: 3.3 Consensus size: 43
19928 AAGAAAAAAG
*
19938 TATATATAAATA-AA-ACAATAAAAA-AGT-AAAAATAATATATATA
1 TATATATAAATATAATA-AATAAAAACA-TAAAAAATAACA-A-ATA
* * **
19981 TATGTATATATATAATAAATAAAAACATAAAAAATAGTAAATA
1 TATATATAAATATAATAAATAAAAACATAAAAAATAACAAATA
* * *
20024 TATATATAAAT-TAATAAATAGATA-ATAAAAAATAACATATA
1 TATATATAAATATAATAAATAAAAACATAAAAAATAACAAATA
*
20065 TATATATATATATA
1 TATATATAAATATA
20079 TATGTAATCT
Statistics
Matches: 82, Mismatches: 11, Indels: 11
0.79 0.11 0.11
Matches are distributed among these distances:
41 24 0.29
42 13 0.16
43 22 0.27
44 12 0.15
45 11 0.13
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (43 bp):
TATATATAAATATAATAAATAAAAACATAAAAAATAACAAATA
Found at i:20064 original size:39 final size:38
Alignment explanation
Indices: 19985--20070 Score: 104
Period size: 38 Copynumber: 2.3 Consensus size: 38
19975 TATATATATG
*
19985 TATATATAT-AATAAATAAAAACATAAAAAATAGTAAA
1 TATATATATAAATAAATAAAAACATAAAAAATAATAAA
* * *
20022 TATATATATAAATTAATAAATAGATAATAAAA-AATAACA
1 TATATATATAAATAAATAAAAACATAA-AAAATAATAA-A
20061 TATATATATA
1 TATATATATA
20071 TATATATATA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
37 9 0.21
38 18 0.43
39 15 0.36
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (38 bp):
TATATATATAAATAAATAAAAACATAAAAAATAATAAA
Found at i:20696 original size:37 final size:37
Alignment explanation
Indices: 20646--20753 Score: 189
Period size: 37 Copynumber: 2.9 Consensus size: 37
20636 TTGTGGATCC
* *
20646 TATTTTTAGGAGTTTGAATCATAGTAGAACTCTATCA
1 TATTTTTAGGAGTTTGAATCCTAGTAAAACTCTATCA
20683 TATTTTTAGGAGTTTGAATCCTAGTAAAACTCTATCA
1 TATTTTTAGGAGTTTGAATCCTAGTAAAACTCTATCA
*
20720 TATTTTTAGGAGTTTGAATCCTAGTAAAATTCTA
1 TATTTTTAGGAGTTTGAATCCTAGTAAAACTCTA
20754 ACGTTATGTT
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.42
Consensus pattern (37 bp):
TATTTTTAGGAGTTTGAATCCTAGTAAAACTCTATCA
Found at i:21535 original size:165 final size:164
Alignment explanation
Indices: 21304--22598 Score: 1180
Period size: 165 Copynumber: 7.8 Consensus size: 164
21294 TTTGCCTCTG
* * * * *
21304 AGCTGAATGTAATCGAACTTGAAGGTCTCCGGTTGACAGATAACCCTTCTCGACTTAAGCTATGC
1 AGCTGAGTGTAATCGAACTCGAGGGTCT----TTGGCAGATAACCCTTCTCAACTTAAGCTATGC
* *
21369 TGCAAATGATGTGCCTTGGAGCTGAGCGAAGTCGAACTCAAAGGTCTTTTGGTGATAGATAACCC
62 TGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGATAGATAACCC
*
21434 TTCTACCTTTGAGTTATGCTGTAAATAATGTGCCCTCGA
127 TTCTACC-TTGAGTTATGCTGTAAATGATGTGCCCTCGA
****
21473 AGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAGTTTTTCTCAACTTAAGCTATGCTGCA
1 AGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAACCCTTCTCAACTTAAGCTATGCTGCA
* * * * * * *
21538 TATGATGTGCCTTGGAGCTGAGCATAATCCAACTCGAAGGTCTTTCGTTGGTAGATAACCCTTCT
66 AATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGATAGATAACCCTTCT
* * * * * *
21603 CAACTTAAGTTATGCTGCAAATGATATG-CCTTGG
131 -ACCTTGAGTTATGCTGTAAATGATGTGCCCTCGA
* * ** * * * * * *
21637 AGCTGAGCGTAGTTTACCTCGAAGGTCTTTTAGAGACATATAACCCTTCT-AGCCTTGAGTTATG
1 AGCTGAGTGTAATCGAACTCGAGGGTC-TTT-G-G-CAGATAACCCTTCTCA-ACTTAAGCTATG
* * * * * ** * *
21701 CTGTAAATGATGTGCCCTCGAATCTGAGTGTAACCGAACTTGAGGGTC-TTT-G-G-TAGATAAC
61 CTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGATAGATAAC
* * * * *
21762 CCTTCT-CGACTTAAGCTATGCTGCAAATGATGTG-CCTTGG
125 CCTTCTAC--CTTGAGTTATGCTGTAAATGATGTGCCCTCGA
* * * * * * * *
21802 AGCTTAGCGTAGTCGAACTCGAAGGTATTTGGTTGGCAGATAACCCTACTCGACTTAAGTTATGC
1 AGCTGAGTGTAATCGAACTCG-AGG-GTCT--TTGGCAGATAACCCTTCTCAACTTAAGCTATGC
* ** * * *
21867 TGCAAATGATATGCCTTAAAGCTAAGCGTAGTCAAACTCGAAGGTCTTTTGGAGATAGATAACCC
62 TGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGATAGATAACCC
* * *
21932 CTCCAGCCTTGAGTTATGCTGTAAATGATGTACCCTCGA
127 TTCTA-CCTTGAGTTATGCTGTAAATGATGTGCCCTCGA
* * * * *
21971 AACTGAGTGTAATCGAACTTGAGGGTCTTTGGTAGATAGCCCTTCT-AGACTTAAGCTATGCTAC
1 AGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAACCCTTCTCA-ACTTAAGCTATGCTGC
*
22035 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGAGATAGATAA-CCTCT
65 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGATAGATAACCCT-T
*
22099 CTAGCCTTGAGTTATGCTGTAAATGATGTTCCCTCGA
129 CTA-CCTTGAGTTATGCTGTAAATGATGTGCCCTCGA
* * * * *
22136 AACTGAGTGTAATCGAACTTGAGGGTCTTTGGCAGATAATCATTCTCGACTTAAGCTATGCTGCA
1 AGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAACCCTTCTCAACTTAAGCTATGCTGCA
* * * * * * *
22201 AATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAATGTATTTTGGAGACATATAATCCTTAT
66 AATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGATAGATAACCCTTCT
* * * * *
22266 AGCCTTGAGTTATACTGTAGATAATGTACCCTCAA
131 A-CCTTGAGTTATGCTGTAAATGATGTGCCCTCGA
* * * *
22301 AGCTGAGTGTAATCGAACTTGAGGGTCTTTGGCAGATAACCCTTCTCGATTTAAGTTATGCTGCA
1 AGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAACCCTTCTCAACTTAAGCTATGCTGCA
* * *
22366 AATGATGTGCCTTAGAACTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTTGGTAGATAACCCTTC
66 AATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGG-TGATAGATAACCCTTC
* * * * *
22430 T-CGACTTAAGTTATGTTGTAAATGATATG-CCTTGG
130 TAC--CTTGAGTTATGCTGTAAATGATGTGCCCTCGA
* * * * * * *
22465 AGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGACAAATAACCCTTCT-AGCCTTGAGTTATG
1 AGCTGAGTGTAATCGAACTCGAGGGTC-TTT-G-G-CAGATAACCCTTCTCA-ACTTAAGCTATG
* * **
22529 CTGTAAATGATGTGTCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGATGGCAGATAAC
61 CTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGG-TGATAGATAAC
22593 CCTTCT
125 CCTTCT
22599 CGATTTAAGC
Statistics
Matches: 929, Mismatches: 164, Indels: 67
0.80 0.14 0.06
Matches are distributed among these distances:
163 1 0.00
164 81 0.09
165 600 0.65
166 13 0.01
167 8 0.01
168 156 0.17
169 69 0.07
170 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (164 bp):
AGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGATAACCCTTCTCAACTTAAGCTATGCTGCA
AATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGATAGATAACCCTTCT
ACCTTGAGTTATGCTGTAAATGATGTGCCCTCGA
Found at i:21748 original size:249 final size:249
Alignment explanation
Indices: 21316--22621 Score: 1183
Period size: 249 Copynumber: 5.2 Consensus size: 249
21306 CTGAATGTAA
* * * * *
21316 TCGAACTTGAAGGTC-TCCGGTTGACAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATG
1 TCGAACTCGAAGGTCTTTC-GTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATA
* * * *
21380 TGCCTTGGAGCTGAGCGAAGTCGAACTCAAAGGTCTTTTGGTGATAGATAACCCTTCTA-CCTTT
65 TGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTTGGAGATAGATAACCCTTCTAGCC-TT
* * * *
21444 GAGTTATGCTGTAAATAATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGA
129 GAGTTATGCTGTAAATGATGTGCCCTCGAAACTGAGTGTAATCGAACTTGAGGGTCTTTGGTAGA
*** * * *
21509 TAGTTTTTCTCAACTTAAGCTATGCTGCATATGATGTGCCTTGGAGCTGAGCATAA
194 TAGCCCTTCTCAACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAG
* * *
21565 TCCAACTCGAAGGTCTTTCGTTGGTAGATAACCCTTCTCAACTTAAGTTATGCTGCAAATGATAT
1 TCGAACTCGAAGGTCTTTCGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATAT
** * * * *
21630 GCCTTGGAGCTGAGCGTAGTTTACCTCGAAGGTCTTTTAGAGACATATAACCCTTCTAGCCTTGA
66 GCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTTGGAGATAGATAACCCTTCTAGCCTTGA
* *
21695 GTTATGCTGTAAATGATGTGCCCTCGAATCTGAGTGTAACCGAACTTGAGGGTCTTTGGTAGATA
131 GTTATGCTGTAAATGATGTGCCCTCGAAACTGAGTGTAATCGAACTTGAGGGTCTTTGGTAGATA
* * *
21760 ACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTTAGCGTAG
196 GCCCTTCTCAACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAG
* * *
21814 TCGAACTCGAAGGTATTTGGTTGGCAGATAACCCTACTCGACTTAAGTTATGCTGCAAATGATAT
1 TCGAACTCGAAGGTCTTTCGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATAT
** * * *
21879 GCCTTAAAGCTAAGCGTAGTCAAACTCGAAGGTCTTTTGGAGATAGATAACCCCTCCAGCCTTGA
66 GCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTTGGAGATAGATAACCCTTCTAGCCTTGA
*
21944 GTTATGCTGTAAATGATGTACCCTCGAAACTGAGTGTAATCGAACTTGAGGGTCTTTGGTAGATA
131 GTTATGCTGTAAATGATGTGCCCTCGAAACTGAGTGTAATCGAACTTGAGGGTCTTTGGTAGATA
*
22009 GCCCTTCT-AGACTTAAGCTATGCTACAAATGATGTGCCTTGGAGCTGAGCGTAG
196 GCCCTTCTCA-ACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAG
* ** ** * * * *
22063 TCGAACTCGAAGGTCTTTTGGAGATAGATAA-CCTCTCTAGCCTTGAGTTATGCTGTAAATGATG
1 TCGAACTCGAAGGTCTTTCGTTGGCAGATAACCCT-TCTCGACTTAAGTTATGCTGCAAATGAT-
* * * * * * * * * * * * *
22127 TTCCCTCGAAACTGAGTGTAATCGAACTTGAGGGTC-TTTGGCAGATA-AT---CATTCTCGACT
64 ATGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTTGG-AGATAGATAACCCTTCTAGCCT
* * * * * * * * * ** *
22187 TAAGCTATGCTGCAAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAATGTATTTTGG-A
128 TGAGTTATGCTGTAAATGATGTGCCCTCGAAACTGAGTGTAATCGAACTTGAGGGT-CTTTGGTA
** * * * * * * * * * *** * *
22250 GACATATAATCCTTAT-AGCCTTGAGTTATACTGTAGATAATGTACCCTCAAAGCTGAGTGTAA
192 G----ATAGCCCTTCTCA-ACTTAAGCTATGCTGCAAATGATGT-GCCTTGGAGCTGAGCGTAG
* * * *
22313 TCGAACTTGAGGGTC--T--TTGGCAGATAACCCTTCTCGATTTAAGTTATGCTGCAAATGATGT
1 TCGAACTCGAAGGTCTTTCGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATAT
* * * * * * * *
22374 GCCTTAGAACTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTTGGTAGATAACCCTTCTCGACTTA
66 GCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTTGG-AGATAGATAACCCTTCTAGCCTTG
* * * * * * * * *
22438 AGTTATGTTGTAAATGATATG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGTGAC
130 AGTTATGCTGTAAATGATGTGCCCTCGAAACTGAGTGTAATCGAACTTGAGGGTC-TTTGGT---
* * * * * * *
22502 AAATAACCCTTCT-AGCCTTGAGTTATGCTGTAAATGATGTGTCTTGGAGCTGAGCGTAG
191 AGATAGCCCTTCTCA-ACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAG
* * * *
22561 TCGAACTCGAAGGTCTTTGGATGGCAGATAACCCTTCTCGATTTAAGCTATGCTGCAAATG
1 TCGAACTCGAAGGTCTTTCGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATG
22622 TTTATTTAAA
Statistics
Matches: 872, Mismatches: 159, Indels: 49
0.81 0.15 0.05
Matches are distributed among these distances:
245 61 0.07
246 62 0.07
247 3 0.00
248 29 0.03
249 616 0.71
250 61 0.07
252 39 0.04
253 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (249 bp):
TCGAACTCGAAGGTCTTTCGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATAT
GCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTTGGAGATAGATAACCCTTCTAGCCTTGA
GTTATGCTGTAAATGATGTGCCCTCGAAACTGAGTGTAATCGAACTTGAGGGTCTTTGGTAGATA
GCCCTTCTCAACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGCGTAG
Found at i:22111 original size:414 final size:411
Alignment explanation
Indices: 21252--22621 Score: 1503
Period size: 414 Copynumber: 3.3 Consensus size: 411
21242 CCAATATATT
* * * * ** * *
21252 GACAAATAACCTTTCTTGCCTTGAGTTATTCTTTAAATTTTGTTTG-CCTCTG-AGCTGAATGTA
1 GACAAATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATG--TGCCCTC-GAAACTGAGTGTA
* **
21315 ATCGAACTTGAAGGTCTCCGGTTGACAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATG
63 ATCGAACTTGAGGGTCT----TTGGTAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATG
* * * * *
21380 TGCCTTGGAGCTGAGCGAAGTCGAACTCAAAGGTCTTTTGGTGATAGATAACCCT-TCTACCTTT
124 TGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGT-ATTTGGTGACAGATAACCCTATCGA-C-TT
*
21444 GAGTTATGCTGTAAATAATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGCAGA
186 GAGTTATGCTGTAAATAATGTG-CCTCAAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGG-AGA
**** * * * * * * *
21509 TAG-T-TTTTCT-CA-ACTTAAGCTATGCTGCATATGATGTGCCTTGGAGCTGAGCATAATCCAA
249 TAGATAACCCCTCCAGACTTAAGTTATGCTGCAAATGATGT-CCCTAGAACTGAGCGTAATCGAA
21570 CTCGAAGGTCTTTCGTTGGTAGATAACCCTTCTCA-ACTTAAGTTATGCTGCAAATGATATGCCT
313 CTCGAAGGTC-TT-GTTGGTAGATAACCCTTCT-AGACTTAAGTTATGCTGCAAATGATATGCCT
** * *
21634 TGGAGCTGAGCGTAGTTTACCTCGAAGGTCTTTTAGA
375 TGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTTGGA
* * *
21671 GACATATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAATCTGAGTGTAACC
1 GACAAATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAACTGAGTGTAATC
21736 GAACTTGAGGGTCTTTGGTAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTG
66 GAACTTGAGGGTCTTTGGTAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTG
* * *
21801 GAGCTTAGCGTAGTCGAACTCGAAGGTATTTGGTTGGCAGATAACCCTACTCGACTTAAGTTATG
131 GAGCTGAGCGTAGTCGAACTCGAAGGTATTTGG-TGACAGATAACCCTA-TCGACTTGAGTTATG
* * * * * * * * *
21866 CTGCAAATGATATGCCTTAAAGCTAAGCGTAGTCAAACTCGAAGGTCTTTTGGAGATAGATAACC
194 CTGTAAATAATGTGCCTCAAAGCTGAGTGTAATCGAACTCGAGGGTC-TTTGGAGATAGATAACC
* * * * * * *
21931 CCTCCAGCCTTGAGTTATGCTGTAAATGATGTACCCTCGAAACTGAGTGTAATCGAACTTGAGGG
258 CCTCCAGACTTAAGTTATGCTGCAAATGATGT-CCCTAG-AACTGAGCGTAATCGAACTCGAAGG
* * * *
21996 TC-T-TTGGTAGATAGCCCTTCTAGACTTAAGCTATGCTACAAATGATGTGCCTTGGAGCTGAGC
321 TCTTGTTGGTAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGC
22059 GTAGTCGAACTCGAAGGTCTTTTGGA
386 GTAGTCGAACTCGAAGGTCTTTTGGA
* * *
22085 GATAGATAA-CCTCTCTAGCCTTGAGTTATGCTGTAAATGATGTTCCCTCGAAACTGAGTGTAAT
1 GACAAATAACCCT-TCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAACTGAGTGTAAT
* * *
22149 CGAACTTGAGGGTCTTTGGCAGATAATCATTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTT
65 CGAACTTGAGGGTCTTTGGTAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTT
* * * * * *
22214 GGAGCTGAGCGTAGTCGAACTCGAATGTATTTTGGAGACATATAATCCTTATAGCCTTGAGTTAT
130 GGAGCTGAGCGTAGTCGAACTCGAAGGTA-TTTGGTGACAGATAA-CCCTATCGACTTGAGTTAT
* * * * *
22279 ACTGTAGATAATGTACCCTCAAAGCTGAGTGTAATCGAACTTGAGGGTCTTT-G-G-CAGATAAC
193 GCTGTAAATAATGT-GCCTCAAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGAGATAGATAAC
* * * *
22341 CCTTCTC-GATTTAAGTTATGCTGCAAATGATGTGCCTTAGAACTGAGCGTAGTCGAACTCGAAG
257 CCCTC-CAGACTTAAGTTATGCTGCAAATGATGT-CCCTAGAACTGAGCGTAATCGAACTCGAAG
* * *
22405 GTCTTTGGTTGGTAGATAACCCTTCTCGACTTAAGTTATGTTGTAAATGATATGCCTTGGAGCTG
320 GTC-TT-GTTGGTAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTG
*
22470 AGCGTAGTCGAACTCGAAGGTCTTTTGGT
383 AGCGTAGTCGAACTCGAAGGTCTTTTGGA
* * * * * *
22499 GACAAATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTG-TCTTGGAGCTGAGCGTAGTC
1 GACAAATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAACTGAGTGTAATC
* * *
22563 GAACTCGAAGGTCTTTGGATGGCAGATAACCCTTCTCGATTTAAGCTATGCTGCAAATG
66 GAACTTGAGGGTCTTTGG-T---AGATAACCCTTCTCGACTTAAGCTATGCTGCAAATG
22622 TTTATTTAAA
Statistics
Matches: 802, Mismatches: 123, Indels: 54
0.82 0.13 0.06
Matches are distributed among these distances:
410 23 0.03
411 37 0.05
412 3 0.00
413 72 0.09
414 476 0.59
415 41 0.05
416 6 0.01
417 60 0.07
418 49 0.06
419 35 0.04
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.31
Consensus pattern (411 bp):
GACAAATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCTCGAAACTGAGTGTAATC
GAACTTGAGGGTCTTTGGTAGATAACCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTG
GAGCTGAGCGTAGTCGAACTCGAAGGTATTTGGTGACAGATAACCCTATCGACTTGAGTTATGCT
GTAAATAATGTGCCTCAAAGCTGAGTGTAATCGAACTCGAGGGTCTTTGGAGATAGATAACCCCT
CCAGACTTAAGTTATGCTGCAAATGATGTCCCTAGAACTGAGCGTAATCGAACTCGAAGGTCTTG
TTGGTAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATATGCCTTGGAGCTGAGCGTAGT
CGAACTCGAAGGTCTTTTGGA
Found at i:26620 original size:21 final size:20
Alignment explanation
Indices: 26595--26734 Score: 81
Period size: 21 Copynumber: 6.8 Consensus size: 20
26585 AAATAGTAAG
26595 TAAAATAAATAAAAAAAT--A
1 TAAAA-AAATAAAAAAATAAA
26614 TACAAAAAATATAAAAAATAAA
1 TA-AAAAAATA-AAAAAATAAA
* * *
26636 GAAAAAGAAGAAAAAAGT--A
1 TAAAAA-AATAAAAAAATAAA
* *
26655 TATATAAATAAAACAAATAAA
1 TAAAAAAATAAAA-AAATAAA
*
26676 TAAAATAATAAAAAAATAAAA
1 TAAAAAAATAAAAAAAT-AAA
* * *
26697 TATATATATATATATAAAATAAA
1 TA-A-AAAAATA-AAAAAATAAA
*
26720 TAAAAACATAAAAAA
1 TAAAAAAATAAAAAA
26735 TAATATATAT
Statistics
Matches: 91, Mismatches: 18, Indels: 23
0.69 0.14 0.17
Matches are distributed among these distances:
18 6 0.07
19 14 0.15
20 18 0.20
21 31 0.34
22 7 0.08
23 9 0.10
24 6 0.07
ACGTcount: A:0.74, C:0.02, G:0.03, T:0.21
Consensus pattern (20 bp):
TAAAAAAATAAAAAAATAAA
Found at i:26629 original size:9 final size:9
Alignment explanation
Indices: 26601--26736 Score: 59
Period size: 9 Copynumber: 14.6 Consensus size: 9
26591 TAAGTAAAAT
26601 AAATA-AAA
1 AAATATAAA
26609 AAATATACAAA
1 AAATAT--AAA
26620 AAATATAAA
1 AAATATAAA
*
26629 AAATAAAGAA
1 AAATATA-AA
* *
26639 AAAGAAGAAA
1 AAA-TATAAA
*
26649 AAAGTATATAT
1 AAA-TATA-AA
26660 AAATA-AAA
1 AAATATAAA
26668 CAAATA-AATA
1 -AAATATAA-A
26678 AAATAATAAA
1 AAAT-ATAAA
26688 AAA-ATAAA
1 AAATATAAA
* *
26696 ATATATATAT
1 AAATATA-AA
*
26706 ATATATAAA
1 AAATATAAA
26715 ATAA-AT-AA
1 A-AATATAAA
*
26723 AAACATAAA
1 AAATATAAA
26732 AAATA
1 AAATA
26737 ATATATATAT
Statistics
Matches: 101, Mismatches: 12, Indels: 29
0.71 0.08 0.20
Matches are distributed among these distances:
7 2 0.02
8 18 0.18
9 34 0.34
10 30 0.30
11 17 0.17
ACGTcount: A:0.74, C:0.02, G:0.03, T:0.21
Consensus pattern (9 bp):
AAATATAAA
Found at i:26640 original size:20 final size:19
Alignment explanation
Indices: 26601--26695 Score: 68
Period size: 20 Copynumber: 4.8 Consensus size: 19
26591 TAAGTAAAAT
*
26601 AAATAAAAAAATATACAAA
1 AAATAAAAAAATAAACAAA
*
26620 AAATATAAAAAATAAAGAAA
1 AAATA-AAAAAATAAACAAA
* * *
26640 AAGA-AGAAAAAAGTATA-TAT
1 AA-ATA-AAAAAA-TAAACAAA
*
26660 AAATAAAACAAATAAATAAA
1 AAATAAAA-AAATAAACAAA
26680 ATAATAAAAAAATAAA
1 A-AATAAAAAAATAAA
26696 ATATATATAT
Statistics
Matches: 60, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
19 12 0.20
20 37 0.62
21 11 0.18
ACGTcount: A:0.77, C:0.02, G:0.04, T:0.17
Consensus pattern (19 bp):
AAATAAAAAAATAAACAAA
Found at i:26664 original size:40 final size:42
Alignment explanation
Indices: 26596--26801 Score: 136
Period size: 44 Copynumber: 4.7 Consensus size: 42
26586 AATAGTAAGT
* * * *
26596 AAAATAAATAAA-AAAATATACAAAAAATATAAAAAATAAAGA
1 AAAATAAAAAAATAAAATATA-TATAAATATAAAAAATAAAAA
* * *
26638 AAAA-GAAGAAA-AAAGTATATATAAATA-AAACAAATAAATAA
1 AAAATAAAAAAATAAAATATATATAAATATAAA-AAATAAA-AA
* *
26679 AATAATAAAAAAATAAAATATATATATATATATAAAATAAATAA
1 AA-AATAAAAAAATAAAATATATATAAATATAAAAAATAAA-AA
* *
26723 AAACAT-AAAAAATAATATATATATGTATATATATAAATTAATAAAACA
1 AAA-ATAAAAAAATAA-A-ATATA--TATAAATATAAA-AAATAAAA-A
* *
26771 AATAAT-AAAAAATAATATATATATATATATA
1 AA-AATAAAAAAATAAAATATATATAAATATA
26802 TGTAATCTAA
Statistics
Matches: 136, Mismatches: 14, Indels: 26
0.77 0.08 0.15
Matches are distributed among these distances:
39 3 0.02
40 13 0.10
41 15 0.11
42 6 0.04
43 15 0.11
44 39 0.29
45 7 0.05
46 5 0.04
47 12 0.09
48 20 0.15
49 1 0.01
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (42 bp):
AAAATAAAAAAATAAAATATATATAAATATAAAAAATAAAAA
Found at i:26687 original size:8 final size:8
Alignment explanation
Indices: 26669--26737 Score: 52
Period size: 8 Copynumber: 8.1 Consensus size: 8
26659 TAAATAAAAC
26669 AAATAAATA
1 AAAT-AATA
26678 AAATAATA
1 AAATAATA
*
26686 AAAAAATA
1 AAATAATA
26694 AAATATATA
1 AAATA-ATA
*
26703 TATATATATA
1 -AAATA-ATA
26713 AAATAAATA
1 AAAT-AATA
26722 AAA-ACATA
1 AAATA-ATA
26730 AAA-AATA
1 AAATAATA
26737 A
1 A
26738 TATATATATG
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
7 5 0.10
8 22 0.42
9 16 0.31
10 9 0.17
ACGTcount: A:0.74, C:0.01, G:0.00, T:0.25
Consensus pattern (8 bp):
AAATAATA
Found at i:26701 original size:44 final size:43
Alignment explanation
Indices: 26622--26801 Score: 165
Period size: 44 Copynumber: 4.1 Consensus size: 43
26612 TATACAAAAA
* * * * *
26622 ATATAAAAAATAAA-GAAA-AAGAAGAAA-AAAGTATATATAA
1 ATATAAAAAATAAATAAAATAATAAAAAATAAAATATATATAT
26662 ATA-AAACAAATAAATAAAATAATAAAAAAATAAAATATATATAT
1 ATATAAA-AAATAAATAAAATAAT-AAAAAATAAAATATATATAT
*
26706 ATATATAAAATAAATAAAA-ACATAAAAAATAATATATATATGTATAT
1 ATATAAAAAATAAATAAAATA-ATAAAAAATAA-A-ATATA--TATAT
* *
26753 ATATAAATTAATAAA-ACAAATAATAAAAAATAATATATATATAT
1 ATATAAA-AAATAAATA-AAATAATAAAAAATAAAATATATATAT
26797 ATATA
1 ATATA
26802 TGTAATCTAA
Statistics
Matches: 117, Mismatches: 9, Indels: 24
0.78 0.06 0.16
Matches are distributed among these distances:
39 3 0.03
40 10 0.09
41 3 0.03
42 2 0.02
43 15 0.13
44 39 0.33
45 7 0.06
46 5 0.04
47 12 0.10
48 20 0.17
49 1 0.01
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.27
Consensus pattern (43 bp):
ATATAAAAAATAAATAAAATAATAAAAAATAAAATATATATAT
Found at i:26714 original size:48 final size:47
Alignment explanation
Indices: 26653--26802 Score: 191
Period size: 45 Copynumber: 3.2 Consensus size: 47
26643 AAGAAAAAAG
* * *
26653 TATATATAAATAAAACAAATAAATAAAATAATAAAAAAATAAAATATA
1 TATATATATATAAAATAAATAAA-AAAATAATAAAAAAATAATATATA
* *
26701 TATATATATATAAAATAAATAAAAACATAA-AAAATAAT-ATATATA
1 TATATATATATAAAATAAATAAAAAAATAATAAAAAAATAATATATA
* *
26746 TGTATATATAT-AAATTAATAAAACAAATAAT-AAAAAATAATATATA
1 TATATATATATAAAATAAATAAAA-AAATAATAAAAAAATAATATATA
26792 TATATATATAT
1 TATATATATAT
26803 GTAATCTAAA
Statistics
Matches: 89, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
44 11 0.12
45 27 0.30
46 24 0.27
47 6 0.07
48 21 0.24
ACGTcount: A:0.66, C:0.02, G:0.01, T:0.31
Consensus pattern (47 bp):
TATATATATATAAAATAAATAAAAAAATAATAAAAAAATAATATATA
Found at i:26725 original size:35 final size:35
Alignment explanation
Indices: 26675--26746 Score: 103
Period size: 35 Copynumber: 2.1 Consensus size: 35
26665 AAACAAATAA
*
26675 ATAAAATAATAAAAAA-ATAAAATATATATATATAT
1 ATAAAATAATAAAAAACATAAAAAATA-ATATATAT
26710 ATAAAATAA-ATAAAAACATAAAAAATAATATATAT
1 ATAAAATAATA-AAAAACATAAAAAATAATATATAT
26745 AT
1 AT
26747 GTATATATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
34 1 0.03
35 24 0.71
36 9 0.26
ACGTcount: A:0.69, C:0.01, G:0.00, T:0.29
Consensus pattern (35 bp):
ATAAAATAATAAAAAACATAAAAAATAATATATAT
Found at i:26955 original size:14 final size:15
Alignment explanation
Indices: 26936--26974 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
26926 AAATGTGCGT
*
26936 ATAAATAAAGTTA-A
1 ATAAATAAAATTATA
26950 ATAAATAAAATTATA
1 ATAAATAAAATTATA
*
26965 ATAATTAAAA
1 ATAAATAAAA
26975 CATAAATGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (15 bp):
ATAAATAAAATTATA
Found at i:27417 original size:37 final size:37
Alignment explanation
Indices: 27367--27474 Score: 153
Period size: 37 Copynumber: 2.9 Consensus size: 37
27357 TTGTAGATCT
* * *
27367 TATTTTTAGGAGTTTAAATCATAGTAGAACTCTATCC
1 TATTTTTAGGAGTTTGAATCATAGTAAAACTCTATCA
* *
27404 TATTTTTAAGAGTTTGAATCCTAGTAAAACTCTATCA
1 TATTTTTAGGAGTTTGAATCATAGTAAAACTCTATCA
* *
27441 TATTTTTAGGAGTTTGAATCATAATAAAATTCTA
1 TATTTTTAGGAGTTTGAATCATAGTAAAACTCTA
27475 ACGTTATGTT
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 62 1.00
ACGTcount: A:0.35, C:0.11, G:0.12, T:0.42
Consensus pattern (37 bp):
TATTTTTAGGAGTTTGAATCATAGTAAAACTCTATCA
Found at i:28773 original size:2 final size:2
Alignment explanation
Indices: 28766--28790 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
28756 TAATGTTATG
28766 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 T
28791 GAATAAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:30565 original size:12 final size:13
Alignment explanation
Indices: 30548--30576 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
30538 CTTAATTGCG
30548 AAAATTAAAA-TT
1 AAAATTAAAATTT
30560 AAAATTAAAATTT
1 AAAATTAAAATTT
30573 AAAA
1 AAAA
30577 CATTCGATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AAAATTAAAATTT
Found at i:30671 original size:16 final size:16
Alignment explanation
Indices: 30650--30681 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
30640 GATAATGAAT
*
30650 AATAAAAAAATAATAA
1 AATAAAAAAACAATAA
30666 AATAAAAAAACAATAA
1 AATAAAAAAACAATAA
30682 TAGTTGGCAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.16
Consensus pattern (16 bp):
AATAAAAAAACAATAA
Found at i:30675 original size:19 final size:19
Alignment explanation
Indices: 30647--30683 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
30637 TTAGATAATG
*
30647 AATAATAAAAAAATAATAA
1 AATAAAAAAAAAATAATAA
*
30666 AATAAAAAAACAATAATA
1 AATAAAAAAAAAATAATA
30684 GTTGGCAGGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (19 bp):
AATAAAAAAAAAATAATAA
Found at i:32075 original size:18 final size:20
Alignment explanation
Indices: 32044--32092 Score: 64
Period size: 19 Copynumber: 2.4 Consensus size: 20
32034 AACAATATAT
*
32044 ATATATATTAATAAATAAATAA
1 ATATATAATAAT-AA-AAATAA
32066 AT-TATAATAATAAAAATAA
1 ATATATAATAATAAAAATAA
32085 ATATATAA
1 ATATATAA
32093 AACCTGGTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 8 0.32
20 7 0.28
21 8 0.32
22 2 0.08
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
ATATATAATAATAAAAATAA
Found at i:32985 original size:106 final size:106
Alignment explanation
Indices: 32542--33733 Score: 1862
Period size: 106 Copynumber: 11.5 Consensus size: 106
32532 ATTGCTCCGT
* * * * * **
32542 GTCCAATATCCTCCGCCGTGAAGTTGAAATTGGCTCTGGAACTGGGGAAATTGTTTGTTGACAGT
1 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCT-GAAATTGGGAAGTTGTTTGTTGACAAC
* * * * * *
32607 CAGCCGCCCCTTCGTTGTGAAGTTGAGCTTGCGTTATCTTGA
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGA
*
32649 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG-TTGTTGACAACC
1 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACC
*
32713 AGCGGTCCCTTCGTCGTGAAGTTTAACTTGCGTTGTCTGGA
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGA
* * * *
32754 GTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGACATTGGAAAATTG-TTGTTGACAACC
1 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACC
*
32818 AGCGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTGGA
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGA
32859 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACC
1 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACC
32924 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGA
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGA
** * *
32965 GTCCAATATGTTTCG-T-T---G-TG-AA----CT-TGAAGTTGGGAAATTGTTTGTTGACAACC
1 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACC
*
33018 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGCCTGGA
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGA
* *
33059 GTCCAATGTCCTTCG-T-T----TTG--A--GG-T-TGAAATTGGGAAATTGTTTGTTGACAACC
1 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACC
33112 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGA
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGA
33153 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG-TTGTTGACAACC
1 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACC
33217 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGA
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGA
* *
33258 GTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACC
1 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACC
* *
33323 AGCGGTCCCTTCATCGTGAAGTTGAACTTACGTTGTCTGGA
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGA
33364 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACC
1 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACC
* *
33429 AGCGGTCCCTTCGTCGTGAAGTTGAACTTACGGTGTCTGGA
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGA
33470 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACC
1 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACC
33535 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGA
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGA
* *
33576 GTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACC
1 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACC
*
33641 AGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTGGA
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGA
33682 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG
1 GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG
33734 AAATTTACTC
Statistics
Matches: 1014, Mismatches: 54, Indels: 35
0.92 0.05 0.03
Matches are distributed among these distances:
93 1 0.00
94 166 0.16
95 3 0.00
96 1 0.00
99 2 0.00
100 5 0.00
101 1 0.00
102 1 0.00
104 3 0.00
105 295 0.29
106 501 0.49
107 35 0.03
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.33
Consensus pattern (106 bp):
GTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACC
AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGA
Found at i:33037 original size:51 final size:51
Alignment explanation
Indices: 32976--33137 Score: 142
Period size: 51 Copynumber: 3.3 Consensus size: 51
32966 TCCAATATGT
* * *
32976 TTCGTTGTGAACTTGAAGTTGGGAAATTGTTTGTTGACAACCAGCGGTCCC
1 TTCGTCGTGAAGTTGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCC
* * ** ** **
33027 TTCGTCGTGAAGTTGAACTTGCG---TTGCCTG--GA-GTCCA-ATGT-CC
1 TTCGTCGTGAAGTTGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCC
** *
33070 TTCGTTTTGAGGTTGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCC
1 TTCGTCGTGAAGTTGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCC
33121 TTCGTCGTGAAGTTGAA
1 TTCGTCGTGAAGTTGAA
33138 CTTGCGTTGT
Statistics
Matches: 79, Mismatches: 24, Indels: 16
0.66 0.20 0.13
Matches are distributed among these distances:
43 20 0.25
44 2 0.03
45 3 0.04
46 7 0.09
48 7 0.09
49 3 0.04
50 2 0.03
51 35 0.44
ACGTcount: A:0.20, C:0.18, G:0.28, T:0.34
Consensus pattern (51 bp):
TTCGTCGTGAAGTTGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCC
Found at i:33342 original size:399 final size:406
Alignment explanation
Indices: 32586--33733 Score: 1698
Period size: 399 Copynumber: 2.8 Consensus size: 406
32576 TCTGGAACTG
** * * * * * *
32586 GGGAAATTGTTTGTTGACAGTCAGCCGCCCCTTCGTTGTGAAGTTGAGCTTGCGTTATCTTGAGT
1 GGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
* * *
32651 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAACCAGC
66 CCAATATCCTTCGTTTTGAGGTTGAAATTGG----GAAATT-----G-T-TTGTTGACAACCAGC
*
32716 GGTCCCTTCGTCGTGAAGTTTAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGA
120 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGA
* * * *
32781 AATTGGCTCTGACATTGGAAAATTGTTGTTGACAACCAGCGGTCCCTTCGTTGTGAAGTTGAACT
185 AATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACT
32846 TGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG
250 TGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG
* * **
32911 TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATGT
315 TTTGTTGACAACCAGCGGTCCCTTCATCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCC
*
32976 TTCG-T-T-G-TG-AA-CT-TGAAGTT
380 TTCGCTGTAGTTGAAAGCTCTGAAATT
*
32996 GGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGCCTGGAGT
1 GGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
*
33061 CCAATGTCCTTCGTTTTGAGGTTGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGT
66 CCAATATCCTTCGTTTTGAGGTTGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGT
*
33126 CGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTG
131 CGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
33191 AAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
196 AAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
33256 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
261 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
33321 CCAGCGGTCCCTTCATCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGCTGTGAA
326 CCAGCGGTCCCTTCATCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGCTGT--A
33386 GTTGAAATTGGCTCTGAAATT
389 GTTGAAA---GCTCTGAAATT
* * *
33407 GGGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGGTGTCTGGAGT
1 GGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
*
33472 CCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAACCAG
66 CCAATATCCTTCG-T-T----TTG--A--GG-T-TGAAATTGGGAAATTGTTTGTTGACAACCAG
33537 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTG
119 CGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTG
*
33602 AAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
184 AAATTGGCTCTGAAATTGGGAAGTTG-TTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
*
33667 CTTACGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGT
248 CTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGT
33732 TG
313 TG
33734 AAATTTACTC
Statistics
Matches: 676, Mismatches: 37, Indels: 36
0.90 0.05 0.05
Matches are distributed among these distances:
399 267 0.39
400 2 0.00
401 2 0.00
404 1 0.00
405 2 0.00
406 8 0.01
410 85 0.13
411 79 0.12
412 1 0.00
413 1 0.00
417 3 0.00
419 1 0.00
421 2 0.00
422 1 0.00
423 119 0.18
424 102 0.15
ACGTcount: A:0.21, C:0.18, G:0.27, T:0.34
Consensus pattern (406 bp):
GGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGT
CCAATATCCTTCGTTTTGAGGTTGAAATTGGGAAATTGTTTGTTGACAACCAGCGGTCCCTTCGT
CGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
AAATTGGGAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
CCAGCGGTCCCTTCATCGTGAAGTTGAACTTACGTTGTCTGGAGTCCAATATCCTTCGCTGTAGT
TGAAAGCTCTGAAATT
Found at i:37266 original size:12 final size:13
Alignment explanation
Indices: 37249--37277 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
37239 CTTAATTGCG
37249 AAAATTAAAA-TT
1 AAAATTAAAATTT
37261 AAAATTAAAATTT
1 AAAATTAAAATTT
37274 AAAA
1 AAAA
37278 CATTCGATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AAAATTAAAATTT
Found at i:37372 original size:16 final size:16
Alignment explanation
Indices: 37351--37382 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
37341 GATAATGAAT
*
37351 AATAAAAAAATAATAA
1 AATAAAAAAACAATAA
37367 AATAAAAAAACAATAA
1 AATAAAAAAACAATAA
37383 TAGTTGGCAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.16
Consensus pattern (16 bp):
AATAAAAAAACAATAA
Found at i:37376 original size:19 final size:19
Alignment explanation
Indices: 37348--37384 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
37338 TTAGATAATG
*
37348 AATAATAAAAAAATAATAA
1 AATAAAAAAAAAATAATAA
*
37367 AATAAAAAAACAATAATA
1 AATAAAAAAAAAATAATA
37385 GTTGGCAGGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (19 bp):
AATAAAAAAAAAATAATAA
Found at i:38777 original size:18 final size:20
Alignment explanation
Indices: 38746--38794 Score: 64
Period size: 19 Copynumber: 2.4 Consensus size: 20
38736 AACAATATAT
*
38746 ATATATATTAATAAATAAATAA
1 ATATATAATAAT-AA-AAATAA
38768 AT-TATAATAATAAAAATAA
1 ATATATAATAATAAAAATAA
38787 ATATATAA
1 ATATATAA
38795 AACCCGGTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 8 0.32
20 7 0.28
21 8 0.32
22 2 0.08
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
ATATATAATAATAAAAATAA
Found at i:40788 original size:510 final size:509
Alignment explanation
Indices: 39761--41286 Score: 2730
Period size: 510 Copynumber: 3.0 Consensus size: 509
39751 TAGGGACCCA
*
39761 ACCTGAGATTTACTCATTCTCTACCTACAGAGAACAAAAAAGAAAAATAAAAGAGATTAAGGTGG
1 ACCTGAGATTTACTCATTCTCTACCTACAGAGAACAAAAAAGAAAAATAAAAGAGATTAGGGTGG
* * *
39826 TTTGAAATTATGACTAGGGTAAGAGTGTCCCATGCTTTAGCACCTAGGCTAGGCCACTATGTTGT
66 TTTGAAATTATGACTAGGGTAAGGGTGTCCCATGCCTTAGCATCTAGGCTAGGCCACTATGTTGT
*
39891 AATATAATAATAAAAATTAATTTTAAATGCTTAGCCTTGGGTTAAAATACCCAAAACCAGAACCC
131 AATATAATAATAAAAATTAATTTTAAATGCTTAGGCTTGGGTTAAAATACCCAAAACCAGAACCC
* *
39956 CTGTGTTCGTGTTTCAACCTCAAACCTAAACTCTTTCTTCCCTAACCCTAGCCACCGCA-CCCTG
196 CTGTGTTCGTGTTTCAACCTCAAACCCAAACTCTTTCTTCCCTAACCCTAGCCACCGCACCCCTC
* * *
40020 CACAATTCGCCCCGCTCTGGTCGTCATTGCAGTGTTTCGACCCAACCAGTTGAACCGACGTCCTT
261 CACAATTCACCCCGCTCTGGTCGCCATTGCAGTGTTCCGACCCAACCAGTTGAACCGACGTCCTT
* *
40085 CGACGACCCGTCCCTAGCCGTCAACGACTCCAATCGGTCGATGAGCATCGATAATTGAAGGAGGA
326 CGACGACCCGTCCCTAGCCGTCAACGACTCCAATCGGTCGCTGAGCATCGATAATCGAAGGAGGA
* * * *
40150 AACTTTTATGTTAATGTCGTTATTCTTAACGATTGTCGTCGATTTAGTCATTATCTTACCTCACC
391 AACTTTTGTGTTAATGTCGTTGTTCTTAACGATTGTCGCCGATTTAGTCATCATCTTACCTCACC
40215 ACCTACGCCGTTCACCTCCCCACTGTTATCTGCTCATAACCCGACCGAGTTCTCT
456 ACCTACG-CGTTCACCTCCCCACTGTTATCTGCTCATAACCCGACCGAGTTCTCT
*
40270 ACCTGAGATTTACTCATTCTATACCTACAGAGAACAAAAAAGAAAAATAAAAGAGATTAGGGTGG
1 ACCTGAGATTTACTCATTCTCTACCTACAGAGAACAAAAAAGAAAAATAAAAGAGATTAGGGTGG
*
40335 TTTGAAATTATGACTAGGGTAAGGGTGTCCTATGCCTTAGCATCTAGGCTAGGCCACTATGTTGT
66 TTTGAAATTATGACTAGGGTAAGGGTGTCCCATGCCTTAGCATCTAGGCTAGGCCACTATGTTGT
40400 AATATAATAATAAAAATTAATTTTAAATGCTTAGGCTTGGGTTAAAATACCCAAAACCAGAACCC
131 AATATAATAATAAAAATTAATTTTAAATGCTTAGGCTTGGGTTAAAATACCCAAAACCAGAACCC
40465 CTGTGTTCGTGTTTCAACCTCAAACCCAAACTCTTTCTTCCCTAACCCTAGCCACCGCACCCCTC
196 CTGTGTTCGTGTTTCAACCTCAAACCCAAACTCTTTCTTCCCTAACCCTAGCCACCGCACCCCTC
* *
40530 CACAATTCACCCCGCTCTGGTCGCCATTGTAGTGTTCCGACCCAACCAGTTGAACTGACGTCCTT
261 CACAATTCACCCCGCTCTGGTCGCCATTGCAGTGTTCCGACCCAACCAGTTGAACCGACGTCCTT
**
40595 CGACGAATCGTCCCTAGCCGTCAACGACTCCAATCGGTCGCTGAGCATCGATAATCGAAGGAGGA
326 CGACGACCCGTCCCTAGCCGTCAACGACTCCAATCGGTCGCTGAGCATCGATAATCGAAGGAGGA
*
40660 AACTTTTGTGTTAATGTCGTTGTTCTTAACGATTGTCGCCGATTTAGTCATCATCTTACCTCACT
391 AACTTTTGTGTTAATGTCGTTGTTCTTAACGATTGTCGCCGATTTAGTCATCATCTTACCTCACC
40725 ACCTACGACGTTCACCTCCCCACTGTTATCTGCTCATAACCCGACCGAGTTCTCT
456 ACCTACG-CGTTCACCTCCCCACTGTTATCTGCTCATAACCCGACCGAGTTCTCT
40780 ACCTGAGATTTACTCATTCTCTACCTACAGAGAACAAAAAAGAAAAATAAAAGAGATTAGGGTGG
1 ACCTGAGATTTACTCATTCTCTACCTACAGAGAACAAAAAAGAAAAATAAAAGAGATTAGGGTGG
40845 TTTGAAATTATGACTAGGGTAAGGGTGTCCCATGCCTTAGCATCTAGGCTAGGCCACTATGTTGT
66 TTTGAAATTATGACTAGGGTAAGGGTGTCCCATGCCTTAGCATCTAGGCTAGGCCACTATGTTGT
40910 AATATAATAATAAAAATTAATTTTAAATGCTTAGGCTTGGGTTAAAATACCCAAAACCAGAACCC
131 AATATAATAATAAAAATTAATTTTAAATGCTTAGGCTTGGGTTAAAATACCCAAAACCAGAACCC
40975 CTGTGTTCGTGTTTCAACCTCAAACCCAAACTCTTTCTTCCCTAACCCTAGCCACCGCACCCCTC
196 CTGTGTTCGTGTTTCAACCTCAAACCCAAACTCTTTCTTCCCTAACCCTAGCCACCGCACCCCTC
* * *
41040 CATAATTCACCCCGCTCTGGTCACCATTGCAGTGTTCCAACCCAACCAGTTGAACCGACGTCCTT
261 CACAATTCACCCCGCTCTGGTCGCCATTGCAGTGTTCCGACCCAACCAGTTGAACCGACGTCCTT
* * * *
41105 CGACGACCCGTCCCCAGCCGTCAACGACTCTAATCGGTCGCCGAGCATCAATAATCGAAGGAGGA
326 CGACGACCCGTCCCTAGCCGTCAACGACTCCAATCGGTCGCTGAGCATCGATAATCGAAGGAGGA
41170 AACTTTTGTGTTAATGTCGTTGTTCTTAACGATTGTCGCCGATTTAGTCATCATCTTACCTCACC
391 AACTTTTGTGTTAATGTCGTTGTTCTTAACGATTGTCGCCGATTTAGTCATCATCTTACCTCACC
* *
41235 ACCTACGCTGTTCACCTCCCCACTGTTATCTACTCATAACCCGACTGAGTTC
456 ACCTACGC-GTTCACCTCCCCACTGTTATCTGCTCATAACCCGACCGAGTTC
41287 ATCATCCACC
Statistics
Matches: 975, Mismatches: 40, Indels: 3
0.96 0.04 0.00
Matches are distributed among these distances:
509 247 0.25
510 728 0.75
ACGTcount: A:0.28, C:0.27, G:0.17, T:0.28
Consensus pattern (509 bp):
ACCTGAGATTTACTCATTCTCTACCTACAGAGAACAAAAAAGAAAAATAAAAGAGATTAGGGTGG
TTTGAAATTATGACTAGGGTAAGGGTGTCCCATGCCTTAGCATCTAGGCTAGGCCACTATGTTGT
AATATAATAATAAAAATTAATTTTAAATGCTTAGGCTTGGGTTAAAATACCCAAAACCAGAACCC
CTGTGTTCGTGTTTCAACCTCAAACCCAAACTCTTTCTTCCCTAACCCTAGCCACCGCACCCCTC
CACAATTCACCCCGCTCTGGTCGCCATTGCAGTGTTCCGACCCAACCAGTTGAACCGACGTCCTT
CGACGACCCGTCCCTAGCCGTCAACGACTCCAATCGGTCGCTGAGCATCGATAATCGAAGGAGGA
AACTTTTGTGTTAATGTCGTTGTTCTTAACGATTGTCGCCGATTTAGTCATCATCTTACCTCACC
ACCTACGCGTTCACCTCCCCACTGTTATCTGCTCATAACCCGACCGAGTTCTCT
Found at i:48806 original size:16 final size:17
Alignment explanation
Indices: 48774--48808 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
48764 TCATCTCAGC
48774 TTAGGTCTATTTCGATT
1 TTAGGTCTATTTCGATT
*
48791 TTAGGT-TATTTTGATT
1 TTAGGTCTATTTCGATT
48807 TT
1 TT
48809 GAATCAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.17, C:0.06, G:0.17, T:0.60
Consensus pattern (17 bp):
TTAGGTCTATTTCGATT
Found at i:50149 original size:22 final size:22
Alignment explanation
Indices: 50124--50169 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
50114 TAGAGCGGGG
50124 ATGGGTATAAATTTAGTGGGTA
1 ATGGGTATAAATTTAGTGGGTA
*
50146 ATGGGTATAAGTTTAGTGGGTA
1 ATGGGTATAAATTTAGTGGGTA
50168 AT
1 AT
50170 AGGTGAGTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.37
Consensus pattern (22 bp):
ATGGGTATAAATTTAGTGGGTA
Found at i:51691 original size:20 final size:20
Alignment explanation
Indices: 51655--51708 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
51645 TTATATTTAT
*
51655 CCCAGATTAAT-AAAAAATG
1 CCCATATTAATAAAAAAATG
51674 CCCATATTAATAAAAAAATG
1 CCCATATTAATAAAAAAATG
51694 CCCATATTAATAAAA
1 CCCATATTAATAAAA
51709 TAAAGTGTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 10 0.30
20 23 0.70
ACGTcount: A:0.54, C:0.17, G:0.06, T:0.24
Consensus pattern (20 bp):
CCCATATTAATAAAAAAATG
Done.