Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007869.1 Hibiscus syriacus cultivar Beakdansim tig00110243_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: 590314
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 3
Found at i:474129 original size:62 final size:62
Alignment explanation
Indices: 474054--474171 Score: 177
Period size: 62 Copynumber: 1.9 Consensus size: 62
474044 TTTTATATTT
*
474054 TATATTTGTTTTAGGTATTTTAGTTTAAATAGGTTTTAGT-ATTTAATTAGGATTTAGAATAC
1 TATATTTGTTTTAGGTATTTTAGTTTAAATA-GTTTAAGTGATTTAATTAGGATTTAGAATAC
* *
474116 TATATTAT-TTTTAGGTATTTTAGTTTAAATAGTTTAAGTGTTTTAATTATGATTTA
1 TATATT-TGTTTTAGGTATTTTAGTTTAAATAGTTTAAGTGATTTAATTAGGATTTA
474172 AGATGTTTTA
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
61 7 0.14
62 43 0.84
63 1 0.02
ACGTcount: A:0.31, C:0.01, G:0.14, T:0.54
Consensus pattern (62 bp):
TATATTTGTTTTAGGTATTTTAGTTTAAATAGTTTAAGTGATTTAATTAGGATTTAGAATAC
Found at i:474787 original size:23 final size:22
Alignment explanation
Indices: 474756--474809 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
474746 TCTCAATCTC
* *
474756 TTTAATTTATTTATTTTATTATT
1 TTTATTTTATTTA-ATTATTATT
* *
474779 TTTCTTTTATTTAATTCTTATT
1 TTTATTTTATTTAATTATTATT
474801 TTTATTTTA
1 TTTATTTTA
474810 AAATCAACTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
22 15 0.58
23 11 0.42
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (22 bp):
TTTATTTTATTTAATTATTATT
Found at i:478173 original size:37 final size:38
Alignment explanation
Indices: 478131--478291 Score: 170
Period size: 37 Copynumber: 4.3 Consensus size: 38
478121 TGTTTTTGAA
* *
478131 GAATTTATATTCAATTAAAATTTGAATATGTTA-TTAC
1 GAATTTATATTCAATTAAAATATGAATATATTATTTAC
* * *
478168 GAATTTATATACAATTGAAATATGAATATATTATTTAT
1 GAATTTATATTCAATTAAAATATGAATATATTATTTAC
* ** * * *
478206 AAATTTATATTTGATT-AAATATAAATACATTATTTAT
1 GAATTTATATTCAATTAAAATATGAATATATTATTTAC
478243 GAATTTATATTCAATTAAAAT-TCGAATATATTA-TTAC
1 GAATTTATATTCAATTAAAATAT-GAATATATTATTTAC
478280 -ACATTTATATTC
1 GA-ATTTATATTC
478292 GAATAGAATA
Statistics
Matches: 103, Mismatches: 17, Indels: 8
0.80 0.13 0.06
Matches are distributed among these distances:
36 1 0.01
37 75 0.73
38 27 0.26
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.46
Consensus pattern (38 bp):
GAATTTATATTCAATTAAAATATGAATATATTATTTAC
Found at i:482519 original size:83 final size:83
Alignment explanation
Indices: 482415--482870 Score: 323
Period size: 83 Copynumber: 5.3 Consensus size: 83
482405 CATTTGGGAT
* * *
482415 GATAACACGGTTCCTACGTGATGAGGATGGCTGGTTATCTAAGGTTGACACGACTCCTACGTGAT
1 GATAACACGGTTCCTACGTGATGAGGACGACTGGTTATCTAAGGTTGACACGGCTCCTACGTGAT
482480 GAGGAGATCTGGTCGAGG
66 GAGGAGATCTGGTCGAGG
* ** ** * * * *
482498 GATAACACGGTTCTTACGTGATGAGGATAACAT-GCCATCATTAGGGATGATAACACAGTTCCTA
1 GATAACACGGTTCCTACGTGATGAGGACGAC-TGGTTATC--TAAGG-T--TGACACGGCTCCTA
* * *
482562 CATGATGAGGACG-TCTGGTTATCTAAG
60 CGTGATGAGGA-GATCTGG---TCGAGG
* * * * * * * * *
482589 GTTGACACGGCTCATATGTGATGAGGA-GATCTGG---TCGAGGGTTGAAACGGTTCCTACGTGA
1 GATAACACGGTTCCTACGTGATGAGGACGA-CTGGTTATCTAAGGTTGACACGGCTCCTACGTGA
* * *
482650 TGAGGATG-GCAGGCCATCATTAGGG
65 TGAGGA-GATCTGG---TC--GA-GG
* * * *
482675 ATGATAACAAGGTTCCTACGTGATGAAGACGACTGGTTATCTAAGGTTGACATGGCTTCTACGTG
1 --GATAACACGGTTCCTACGTGATGAGGACGACTGGTTATCTAAGGTTGACACGGCTCCTACGTG
482740 ATGAGGAGATCTGGTCGAGG
64 ATGAGGAGATCTGGTCGAGG
* * ** * **
482760 GATGACACGATTCCTACGTGATGAGGACGGTTGATTATCTAAGGTTGACGTGGCTCCTACGTGAT
1 GATAACACGGTTCCTACGTGATGAGGACGACTGGTTATCTAAGGTTGACACGGCTCCTACGTGAT
*
482825 GAGGAGATCTGGTCGAAG
66 GAGGAGATCTGGTCGAGG
*
482843 GATGACACGGTTCCTACGTGATGAGGAC
1 GATAACACGGTTCCTACGTGATGAGGAC
482871 ACCAGACCAT
Statistics
Matches: 294, Mismatches: 57, Indels: 44
0.74 0.14 0.11
Matches are distributed among these distances:
83 160 0.54
84 1 0.00
85 9 0.03
86 7 0.02
88 53 0.18
89 3 0.01
90 3 0.01
91 58 0.20
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (83 bp):
GATAACACGGTTCCTACGTGATGAGGACGACTGGTTATCTAAGGTTGACACGGCTCCTACGTGAT
GAGGAGATCTGGTCGAGG
Found at i:482519 original size:131 final size:131
Alignment explanation
Indices: 482282--482786 Score: 760
Period size: 131 Copynumber: 3.9 Consensus size: 131
482272 TTATCTAAGA
* **
482282 ATGATAACATGGTTCCTACGTGATGAGGACGACTGGTTATCTAAATTTGACACGGCTCCTACGTG
1 ATGATAACACGGTTCCTACGTGATGAGGACGACTGGTTATCTAAGGTTGACACGGCTCCTACGTG
** * *
482347 ATGAGGAGATCTGGTCGAGGGATGAAATAGTTCCTATGTGATGAGGATGACAGGCCATCATTTGG
66 ATGAGGAGATCTGGTCGAGGGATGAAACGGTTCCTACGTGATGAGGATGACAGGCCATCATTAGG
482412 G
131 G
* * *
482413 ATGATAACACGGTTCCTACGTGATGAGGATGGCTGGTTATCTAAGGTTGACACGACTCCTACGTG
1 ATGATAACACGGTTCCTACGTGATGAGGACGACTGGTTATCTAAGGTTGACACGGCTCCTACGTG
* * *
482478 ATGAGGAGATCTGGTCGAGGGAT-AACACGGTTCTTACGTGATGAGGATAACATGCCATCATTAG
66 ATGAGGAGATCTGGTCGAGGGATGAA-ACGGTTCCTACGTGATGAGGATGACAGGCCATCATTAG
482542 GG
130 GG
* * * * *
482544 ATGATAACACAGTTCCTACATGATGAGGACGTCTGGTTATCTAAGGTTGACACGGCTCATATGTG
1 ATGATAACACGGTTCCTACGTGATGAGGACGACTGGTTATCTAAGGTTGACACGGCTCCTACGTG
* *
482609 ATGAGGAGATCTGGTCGAGGGTTGAAACGGTTCCTACGTGATGAGGATGGCAGGCCATCATTAGG
66 ATGAGGAGATCTGGTCGAGGGATGAAACGGTTCCTACGTGATGAGGATGACAGGCCATCATTAGG
482674 G
131 G
* * * *
482675 ATGATAACAAGGTTCCTACGTGATGAAGACGACTGGTTATCTAAGGTTGACATGGCTTCTACGTG
1 ATGATAACACGGTTCCTACGTGATGAGGACGACTGGTTATCTAAGGTTGACACGGCTCCTACGTG
* *
482740 ATGAGGAGATCTGGTCGAGGGATGACACGATTCCTACGTGATGAGGA
66 ATGAGGAGATCTGGTCGAGGGATGAAACGGTTCCTACGTGATGAGGA
482787 CGGTTGATTA
Statistics
Matches: 335, Mismatches: 37, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
130 2 0.01
131 331 0.99
132 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (131 bp):
ATGATAACACGGTTCCTACGTGATGAGGACGACTGGTTATCTAAGGTTGACACGGCTCCTACGTG
ATGAGGAGATCTGGTCGAGGGATGAAACGGTTCCTACGTGATGAGGATGACAGGCCATCATTAGG
G
Found at i:482776 original size:214 final size:214
Alignment explanation
Indices: 482556--483000 Score: 676
Period size: 214 Copynumber: 2.1 Consensus size: 214
482546 GATAACACAG
* * *
482556 TTCCTACATGATGAGGAC-GTCTGGTTATCTAAGGTTGACACGGCTCATATGTGATGAGGAGATC
1 TTCCTACGTGATGAGGACGGT-TGATTATCTAAGGTTGACACGGCTCATACGTGATGAGGAGATC
* * *** *
482620 TGGTCGAGGGTTGAAACGGTTCCTACGTGATGAGGATGGCAGGCCATCATTAGGGATGATAACAA
65 TGGTCGAAGGATGAAACGGTTCCTACGTGATGAGGACACCAGACCATCATTAGGGATGATAACAA
* * * * * *
482685 GGTTCCTACGTGATGAAGACGACTGGTTATCTAAGGTTGACATGGCTTCTACGTGATGAGGAGAT
130 GGTTCCTACATGATGAAGACGACTAGTTATCTAAGATTGACATGACTCCTACATGATGAGGAGAT
482750 CTGGTCGAGGGATGACACGA
195 CTGGTCGAGGGATGACACGA
** *
482770 TTCCTACGTGATGAGGACGGTTGATTATCTAAGGTTGACGTGGCTCCTACGTGATGAGGAGATCT
1 TTCCTACGTGATGAGGACGGTTGATTATCTAAGGTTGACACGGCTCATACGTGATGAGGAGATCT
* *
482835 GGTCGAAGGATGACACGGTTCCTACGTGATGAGGACACCAGACCATCATTAGGGATGATAACACG
66 GGTCGAAGGATGAAACGGTTCCTACGTGATGAGGACACCAGACCATCATTAGGGATGATAACAAG
*
482900 GTTCCTACATGATGAGGACGACTAGTTATCTAAGATTGACATGACTCCTACATGATGAGGAGATC
131 GTTCCTACATGATGAAGACGACTAGTTATCTAAGATTGACATGACTCCTACATGATGAGGAGATC
482965 TGGTCGAGGGATGACACGA
196 TGGTCGAGGGATGACACGA
*
482984 TTCTTACGTGATGAGGA
1 TTCCTACGTGATGAGGA
483001 TGGTAGGCCA
Statistics
Matches: 208, Mismatches: 22, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
214 206 0.99
215 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (214 bp):
TTCCTACGTGATGAGGACGGTTGATTATCTAAGGTTGACACGGCTCATACGTGATGAGGAGATCT
GGTCGAAGGATGAAACGGTTCCTACGTGATGAGGACACCAGACCATCATTAGGGATGATAACAAG
GTTCCTACATGATGAAGACGACTAGTTATCTAAGATTGACATGACTCCTACATGATGAGGAGATC
TGGTCGAGGGATGACACGA
Found at i:482903 original size:262 final size:260
Alignment explanation
Indices: 482376--483524 Score: 793
Period size: 262 Copynumber: 4.4 Consensus size: 260
482366 GGATGAAATA
* * * *
482376 GTTCCTATGTGATGAGGATGACAGGCCATCATTTGGGATGATAACACGGTTCCTACGTGATGAGG
1 GTTCCTACGTGATGAGGATGACAGGCCATC--TAGGGATGATAACAAGGCTCCTACGTGATGAGG
* * * * *
482441 ATG-GCTGGTTATCTAAGGTTGACACGACTCCTACGTGATGAGGA-GATCTGG-TC-GAGGGATA
64 A-GATCTGG---TCGAAGGATGACACGACTTCTACGTGATGAGGATGATCAGGCTCAGAGGGATA
* * *** * * * *
482502 ACACGGTTCTTACGTGATGAGGATAACATGCCATCAT-TAGGGATGATAACACAGTTCCTACATG
125 ACACGATTCCTACGTGATGAGGACGGC-TG--ATTATCTAAGG-T--TAACACGGCTCCTACATG
* * * * * *
482566 ATGAGGACG-TCTGGTTATCTAAGGTTGACACGGCTCATATGTGATGAGGAGATC-TG--GTC--
184 ATGAGGA-GATCTGG---TCGAAGGATGACACGGTTCATACGTGATGAGGACATCATGCCATCAT
* *
482625 GAGGGTTG--AA-ACG
245 TAGGGATGATAACACG
* * *
482638 GTTCCTACGTGATGAGGATGGCAGGCCATCATTAGGGATGATAACAAGGTTCCTACGTGATGAAG
1 GTTCCTACGTGATGAGGATGACAGGCCATC--TAGGGATGATAACAAGGCTCCTACGTGATGAGG
* * * * * *
482703 ACGA-CTGGTTATCTAAGGTTGACATGGCTTCTACGTGATGAGGA-GATCTGG-TC-GAGGGATG
64 A-GATCTGG---TCGAAGGATGACACGACTTCTACGTGATGAGGATGATCAGGCTCAGAGGGATA
* * ** *
482764 ACACGATTCCTACGTGATGAGGACGGTTGATTATCTAAGGTTGACGTGGCTCCTACGTGATGAGG
125 ACACGATTCCTACGTGATGAGGACGGCTGATTATCTAAGGTTAACACGGCTCCTACATGATGAGG
* *
482829 AGATCTGGTCGAAGGATGACACGGTTCCTACGTGATGAGGACACCA-GACCATCATTAGGGATGA
190 AGATCTGGTCGAAGGATGACACGGTTCATACGTGATGAGGACATCATG-CCATCATTAGGGATGA
482893 TAACACG
254 TAACACG
* * ** * * * * *
482900 GTTCCTACATGATGAGGACGACTA-GTTATCTA-AGAT--TGACATGACTCCTACATGATGAGGA
1 GTTCCTACGTGATGAGGATGAC-AGGCCATCTAGGGATGATAACAAGGCTCCTACGTGATGAGGA
* * *
482961 GATCTGGTCGAGGGATGACACGA-TTCTTACGTGATGAGGATGGT-AGGCCATCATTAGGGATGA
65 GATCTGGTCGAAGGATGACACGACTTC-TACGTGATGAGGATGATCAGG-C-TCA-GA-GG--GA
* * * * * * *
483024 TAACACGGTTTCTACGTGATGAGGACGGCTGGTTATCTAAGGTTGATAGGGCTCCTACGTGATGA
123 TAACACGATTCCTACGTGATGAGGACGGCTGATTATCTAAGGTTAACACGGCTCCTACATGATGA
* * * * * * *
483089 AGAGATCTGATCGATGGATGACACGGTTCCTACGTGATGAGGACGTCATGTCATCATTAAGGATG
188 GGAGATCTGGTCGAAGGATGACACGGTTCATACGTGATGAGGACATCATGCCATCATTAGGGATG
*
483154 ATAACACA
253 ATAACACG
* * * ** * * * *
483162 GTTCCTATGTGATGAGGA-CATCTGGTTATCTAAGGTTGA-CACAA--CTCCTACGTAATGAGGA
1 GTTCCTACGTGATGAGGATGA-CAGGCCATCTAGGGATGATAACAAGGCTCCTACGTGATGAGGA
* * * *
483223 GATCTGGTCGAGGGATGACACGATTTCTACGTGATGAGGATG-GCAGGCCATCATTAGGGTTGAT
65 GATCTGGTCGAAGGATGACACGACTTCTACGTGATGAGGATGATCAGG-C-TCA-GA-GG--GAT
*
483287 AACAC-AGTTCCTACGTGATGAGGACGGCTGATTATCTAAGGTTAACACGACTCCTACATGATGA
124 AACACGA-TTCCTACGTGATGAGGACGGCTGATTATCTAAGGTTAACACGGCTCCTACATGATGA
* * * * ***
483351 GGAGATCTGGTCGAGGGTTGACATGGTTCATACATGATGAGGATGGCATGCCATCATTAGGGATG
188 GGAGATCTGGTCGAAGGATGACACGGTTCATACGTGATGAGGACATCATGCCATCATTAGGGATG
483416 ATAACACG
253 ATAACACG
* ** * * * *
483424 GTTCCTACGTGATGAGGATGATAGGTTATCTAAGG-T--TGACACGGCTCCTACGTGATGGGGAG
1 GTTCCTACGTGATGAGGATGACAGGCCATCTAGGGATGATAACAAGGCTCCTACGTGATGAGGAG
* * *
483486 ATCTGGTCGAGGGATGACATG-GTTCCTACGTGATGAGGA
66 ATCTGGTCGAAGGATGACACGACTT-CTACGTGATGAGGA
483525 CAGTAGGCCA
Statistics
Matches: 737, Mismatches: 112, Indels: 76
0.80 0.12 0.08
Matches are distributed among these distances:
253 3 0.00
254 57 0.08
255 2 0.00
256 3 0.00
257 51 0.07
259 15 0.02
260 11 0.01
261 8 0.01
262 576 0.78
263 8 0.01
264 3 0.00
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (260 bp):
GTTCCTACGTGATGAGGATGACAGGCCATCTAGGGATGATAACAAGGCTCCTACGTGATGAGGAG
ATCTGGTCGAAGGATGACACGACTTCTACGTGATGAGGATGATCAGGCTCAGAGGGATAACACGA
TTCCTACGTGATGAGGACGGCTGATTATCTAAGGTTAACACGGCTCCTACATGATGAGGAGATCT
GGTCGAAGGATGACACGGTTCATACGTGATGAGGACATCATGCCATCATTAGGGATGATAACACG
Found at i:482930 original size:345 final size:345
Alignment explanation
Indices: 482419--483133 Score: 1090
Period size: 345 Copynumber: 2.1 Consensus size: 345
482409 TGGGATGATA
* *
482419 ACACGGTTCCTACGTGATGAGGATGGCTGGTTATCTAAGGTTGACACGACTCCTACGTGATGAGG
1 ACACGGTTCCTACGTGATGAGGACGGCTGATTATCTAAGGTTGACACGACTCCTACGTGATGAGG
* * *
482484 AGATCTGGTCGAGGGATAACACGGTTCTTACGTGATGAGGATAACATGCCATCATTAGGGATGAT
66 AGATCTGGTCGAAGGATAACACGGTTCCTACGTGATGAGGACAACATGCCATCATTAGGGATGAT
* * * * **
482549 AACACAGTTCCTACATGATGAGGACGTCTGGTTATCTAAGGTTGACACGGCTCATATGTGATGAG
131 AACACAGTTCCTACATGATGAGGACGACTAGTTATCTAAGATTGACACGACTCATACATGATGAG
* *
482614 GAGATCTGGTCGAGGGTTGAAACGGTTCCTACGTGATGAGGATGGCAGGCCATCATTAGGGATGA
196 GAGATCTGGTCGAGGGATGAAACGATTCCTACGTGATGAGGATGGCAGGCCATCATTAGGGATGA
* *
482679 TAACAAGGTTCCTACGTGATGAAGACGACTGGTTATCTAAGGTTGACATGGCTTCTACGTGATGA
261 TAACAAGGTTCCTACGTGATGAAGACGACTGGTTATCTAAGGTTGACAGGGCTCCTACGTGATGA
* *
482744 GGAGATCTGGTCGAGGGATG
326 AGAGATCTGATCGAGGGATG
* * ** *
482764 ACACGATTCCTACGTGATGAGGACGGTTGATTATCTAAGGTTGACGTGGCTCCTACGTGATGAGG
1 ACACGGTTCCTACGTGATGAGGACGGCTGATTATCTAAGGTTGACACGACTCCTACGTGATGAGG
* *
482829 AGATCTGGTCGAAGGATGACACGGTTCCTACGTGATGAGGACACCA-GACCATCATTAGGGATGA
66 AGATCTGGTCGAAGGATAACACGGTTCCTACGTGATGAGGACAACATG-CCATCATTAGGGATGA
* * *
482893 TAACACGGTTCCTACATGATGAGGACGACTAGTTATCTAAGATTGACATGACTCCTACATGATGA
130 TAACACAGTTCCTACATGATGAGGACGACTAGTTATCTAAGATTGACACGACTCATACATGATGA
* * *
482958 GGAGATCTGGTCGAGGGATGACACGATTCTTACGTGATGAGGATGGTAGGCCATCATTAGGGATG
195 GGAGATCTGGTCGAGGGATGAAACGATTCCTACGTGATGAGGATGGCAGGCCATCATTAGGGATG
* * * * *
483023 ATAACACGGTTTCTACGTGATGAGGACGGCTGGTTATCTAAGGTTGATAGGGCTCCTACGTGATG
260 ATAACAAGGTTCCTACGTGATGAAGACGACTGGTTATCTAAGGTTGACAGGGCTCCTACGTGATG
*
483088 AAGAGATCTGATCGATGGATG
325 AAGAGATCTGATCGAGGGATG
483109 ACACGGTTCCTACGTGATGAGGACG
1 ACACGGTTCCTACGTGATGAGGACG
483134 TCATGTCATC
Statistics
Matches: 332, Mismatches: 37, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
344 1 0.00
345 331 1.00
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.26
Consensus pattern (345 bp):
ACACGGTTCCTACGTGATGAGGACGGCTGATTATCTAAGGTTGACACGACTCCTACGTGATGAGG
AGATCTGGTCGAAGGATAACACGGTTCCTACGTGATGAGGACAACATGCCATCATTAGGGATGAT
AACACAGTTCCTACATGATGAGGACGACTAGTTATCTAAGATTGACACGACTCATACATGATGAG
GAGATCTGGTCGAGGGATGAAACGATTCCTACGTGATGAGGATGGCAGGCCATCATTAGGGATGA
TAACAAGGTTCCTACGTGATGAAGACGACTGGTTATCTAAGGTTGACAGGGCTCCTACGTGATGA
AGAGATCTGATCGAGGGATG
Found at i:483041 original size:393 final size:389
Alignment explanation
Indices: 482635--483525 Score: 1037
Period size: 393 Copynumber: 2.3 Consensus size: 389
482625 GAGGGTTGAA
* *
482635 ACGGTTCCTACGTGATGAGGATGGCAGGCCATCATTAGGGATGATAACAAGGTTCCTACGTGATG
1 ACGGTTCCTACGTGATGAGGATGGCAGGCCATC--TAAGGATGAT---AAGGCTCCTACGTGATG
* * * * *
482700 AAGACGA-CTGGTTATCTAAGGTTGACATGGCTT-CTACGTGATGAGGA-GATC-TG-GTC-GAG
61 AAGA-GATCT-G--ATCGAAGGATGACACGG-TTCCTACGTGATGAGGACG-TCATGCATCTAAG
* * ****
482759 G-GATGACAC-GATTCCTACGTGATGAGGACGGT-TGATTATCTAAGGTTGACGTGGCTCCTACG
120 GAGATAACACAG-TTCCTACGTGATGAGGAC-ATCTGATTATCTAAGGTTGACACAACTCCTACG
* *
482821 TGATGAGGAGATCTGGTCGAAGGATGACACGGTTCCTACGTGATGAGGACACCAGACCATCATTA
183 TAATGAGGAGATCTGGTCGAAGGATGACACGATTCCTACGTGATGAGGACACCAGACCATCATTA
* * *
482886 GGGATGATAACACGGTTCCTACATGATGAGGACGACT-AGTTATCTAAGATTGACATGACTCCTA
248 GGGATGATAACACAGTTCCTACATGATGAGGACGACTGA-TTATCTAAGATTAACACGACTCCTA
* * *
482950 CATGATGAGGAGATCTGGTCGAGGGATGACACGATTCTTACGTGATGAGGATGGTAGGCCATCAT
312 CATGATGAGGAGATCTGGTCGAGGGATGACACGATTCATACATGATGAGGATGGCAGGCCATCAT
483015 TAGGGATGATAAC
377 TAGGGATGATAAC
* * * ** * *
483028 ACGGTTTCTACGTGATGAGGACGGCTGGTTATCTAAGGTTGATAGGGCTCCTACGTGATGAAGAG
1 ACGGTTCCTACGTGATGAGGATGGCAGGCCATCTAAGGATGATAAGGCTCCTACGTGATGAAGAG
*
483093 ATCTGATCGATGGATGACACGGTTCCTACGTGATGAGGACGTCATGTCATCATTAAGGATGATAA
66 ATCTGATCGAAGGATGACACGGTTCCTACGTGATGAGGACGTCATG-CATC--TAAGGA-GATAA
* *
483158 CACAGTTCCTATGTGATGAGGACATCTGGTTATCTAAGGTTGACACAACTCCTACGTAATGAGGA
127 CACAGTTCCTACGTGATGAGGACATCTGATTATCTAAGGTTGACACAACTCCTACGTAATGAGGA
* * *** * *
483223 GATCTGGTCGAGGGATGACACGATTTCTACGTGATGAGGATGGCAGGCCATCATTAGGGTTGATA
192 GATCTGGTCGAAGGATGACACGATTCCTACGTGATGAGGACACCAGACCATCATTAGGGATGATA
* * *
483288 ACACAGTTCCTACGTGATGAGGACGGCTGATTATCTAAGGTTAACACGACTCCTACATGATGAGG
257 ACACAGTTCCTACATGATGAGGACGACTGATTATCTAAGATTAACACGACTCCTACATGATGAGG
* * * *
483353 AGATCTGGTCGAGGGTTGACATGGTTCATACATGATGAGGATGGCATGCCATCATTAGGGATGAT
322 AGATCTGGTCGAGGGATGACACGATTCATACATGATGAGGATGGCAGGCCATCATTAGGGATGAT
483418 AAC
387 AAC
** ** * * * **
483421 ACGGTTCCTACGTGATGAGGATGATAGGTTATCTAAGGTTGACACGGCTCCTACGTGATGGGGAG
1 ACGGTTCCTACGTGATGAGGATGGCAGGCCATCTAAGGATGATAAGGCTCCTACGTGATGAAGAG
* * *
483486 ATCTGGTCGAGGGATGACATGGTTCCTACGTGATGAGGAC
66 ATCTGATCGAAGGATGACACGGTTCCTACGTGATGAGGAC
483526 AGTAGGCCAT
Statistics
Matches: 427, Mismatches: 57, Indels: 28
0.83 0.11 0.05
Matches are distributed among these distances:
384 2 0.00
385 29 0.07
386 3 0.01
387 3 0.01
388 23 0.05
391 11 0.03
392 1 0.00
393 353 0.83
394 2 0.00
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (389 bp):
ACGGTTCCTACGTGATGAGGATGGCAGGCCATCTAAGGATGATAAGGCTCCTACGTGATGAAGAG
ATCTGATCGAAGGATGACACGGTTCCTACGTGATGAGGACGTCATGCATCTAAGGAGATAACACA
GTTCCTACGTGATGAGGACATCTGATTATCTAAGGTTGACACAACTCCTACGTAATGAGGAGATC
TGGTCGAAGGATGACACGATTCCTACGTGATGAGGACACCAGACCATCATTAGGGATGATAACAC
AGTTCCTACATGATGAGGACGACTGATTATCTAAGATTAACACGACTCCTACATGATGAGGAGAT
CTGGTCGAGGGATGACACGATTCATACATGATGAGGATGGCAGGCCATCATTAGGGATGATAAC
Found at i:483115 original size:214 final size:209
Alignment explanation
Indices: 482556--483133 Score: 522
Period size: 214 Copynumber: 2.7 Consensus size: 209
482546 GATAACACAG
* * * * * * *
482556 TTCCTACATGATGAGGACGTCTGG-TTATCTAAGGTTGACACGGCTCATATGTGATGAGGAGATC
1 TTCCTACGTGATGAGGACG-GTGGATCATCTAAGGTTAACACGGCTCCTACGTGATGAGGAGAGC
* * * * * *** *
482620 TGGTCGAGGGTTGAAACGGTTCCTACGTGATGAGGATGGCAGGCCATCATTAGGGATGATAACAA
65 TGGTCGAAGGATGACACGGCTCCTACGTGATGAAGACACCA-G-CATCATTA-GGATG--AACAC
* * * * * *
482685 GGTTCCTACGTGATGAAGACGACTGGTTATCTAAGGTTGACATGGCTTCTACGTGATGAGGAGAT
125 GGTTCCTACGTGATGAGGACGACTAGTTATCTAAGATTGACATGACTCCTACATGATGAGGAGAT
482750 CTGGTCGAGGGATGACACGA
190 CTGGTCGAGGGATGACACGA
* * * ** *
482770 TTCCTACGTGATGAGGACGGTTGATTATCTAAGGTTGACGTGGCTCCTACGTGATGAGGAGATCT
1 TTCCTACGTGATGAGGACGGTGGATCATCTAAGGTTAACACGGCTCCTACGTGATGAGGAGAGCT
* *
482835 GGTCGAAGGATGACACGGTTCCTACGTGATGAGGACACCAGACCATCATTAGGGATGATAACACG
66 GGTCGAAGGATGACACGGCTCCTACGTGATGAAGACACCAG--CATCATTA-GGATG--AACACG
*
482900 GTTCCTACATGATGAGGACGACTAGTTATCTAAGATTGACATGACTCCTACATGATGAGGAGATC
126 GTTCCTACGTGATGAGGACGACTAGTTATCTAAGATTGACATGACTCCTACATGATGAGGAGATC
482965 TGGTCGAGGGATGACACGA
191 TGGTCGAGGGATGACACGA
* * * * *
482984 TTCTTACGTGATGAGGATGGTAGGCCATCAT-TAGGGATGATAACACGGTTTCTACGTGATGAGG
1 TTCCTACGTGATGAGGACGGT-GG--ATCATCTAAGG-T--TAACACGGCTCCTACGTGATGAGG
* * * * * * *
483048 ACG-GCTGGTTATCTAAGGTTGATAGGGCTCCTACGTGATGAAGAGATCTG-ATCGA-T-GGATG
60 A-GAGCTGG---TCGAAGGATGACACGGCTCCTACGTGATGAAGACACCAGCATC-ATTAGGATG
483109 -ACACGGTTCCTACGTGATGAGGACG
120 AACACGGTTCCTACGTGATGAGGACG
483134 TCATGTCATC
Statistics
Matches: 309, Mismatches: 42, Indels: 26
0.82 0.11 0.07
Matches are distributed among these distances:
213 3 0.01
214 231 0.75
215 1 0.00
216 4 0.01
217 10 0.03
219 28 0.09
220 2 0.01
222 30 0.10
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (209 bp):
TTCCTACGTGATGAGGACGGTGGATCATCTAAGGTTAACACGGCTCCTACGTGATGAGGAGAGCT
GGTCGAAGGATGACACGGCTCCTACGTGATGAAGACACCAGCATCATTAGGATGAACACGGTTCC
TACGTGATGAGGACGACTAGTTATCTAAGATTGACATGACTCCTACATGATGAGGAGATCTGGTC
GAGGGATGACACGA
Found at i:483189 original size:476 final size:476
Alignment explanation
Indices: 482294--483262 Score: 1404
Period size: 476 Copynumber: 2.0 Consensus size: 476
482284 GATAACATGG
* *
482294 TTCCTACGTGATGAGGACGACTGGTTATCTAAATTTGACACGGCTCCTACGTGATGAGGAGATCT
1 TTCCTACGTGATGAGGACGACTGATTATCTAAAGTTGACACGGCTCCTACGTGATGAGGAGATCT
* * * * * *
482359 GGTCGAGGGATGAAATAGTTCCTATGTGATGAGGATGACAGGCCATCATTTGGGATGATAACACG
66 GGTCGAAGGATGAAACAGTTCCTACGTGATGAGGATCACAGACCATCATTAGGGATGATAACACG
* * * * * *
482424 GTTCCTACGTGATGAGGATGGCTGGTTATCTAAGGTTGACACGACTCCTACGTGATGAGGAGATC
131 GTTCCTACATGATGAGGACGACTAGTTATCTAAGATTGACACGACTCCTACATGATGAGGAGATC
* *
482489 TGGTCGAGGGATAACACGGTTCTTACGTGATGAGGATAACATGCCATCATTAGGGATGATAACAC
196 TGGTCGAGGGATAACACGATTCTTACGTGATGAGGATAACAGGCCATCATTAGGGATGATAACAC
* * *
482554 AGTTCCTACATGATGAGGACGTCTGGTTATCTAAGGTTGACACGGCTCATATGTGATGAGGAGAT
261 AGTTCCTACATGATGAGGACGGCTGGTTATCTAAGGTTGACACGGCTCATACGTGATGAAGAGAT
* * * *
482619 CTGGTCGAGGGTTGAAACGGTTCCTACGTGATGAGGATGGCAGGCCATCATTAGGGATGATAACA
326 CTGATCGAGGGATGAAACGGTTCCTACGTGATGAGGACGGCAGGCCATCATTAAGGATGATAACA
*** * *
482684 AGGTTCCTACGTGATGAAGACGACTGGTTATCTAAGGTTGACATGGCTTCTACGTGATGAGGAGA
391 AGGTTCCTACGTGATGAAGACGACTGGTTATCTAAGGTTGACACAACTCCTACGTAATGAGGAGA
482749 TCTGGTCGAGGGATGACACGA
456 TCTGGTCGAGGGATGACACGA
** * **
482770 TTCCTACGTGATGAGGACGGTTGATTATCTAAGGTTGACGTGGCTCCTACGTGATGAGGAGATCT
1 TTCCTACGTGATGAGGACGACTGATTATCTAAAGTTGACACGGCTCCTACGTGATGAGGAGATCT
* *
482835 GGTCGAAGGATGACACGGTTCCTACGTGATGAGGA-CACCAGACCATCATTAGGGATGATAACAC
66 GGTCGAAGGATGAAACAGTTCCTACGTGATGAGGATCA-CAGACCATCATTAGGGATGATAACAC
*
482899 GGTTCCTACATGATGAGGACGACTAGTTATCTAAGATTGACATGACTCCTACATGATGAGGAGAT
130 GGTTCCTACATGATGAGGACGACTAGTTATCTAAGATTGACACGACTCCTACATGATGAGGAGAT
* ***
482964 CTGGTCGAGGGATGACACGATTCTTACGTGATGAGGATGGTAGGCCATCATTAGGGATGATAACA
195 CTGGTCGAGGGATAACACGATTCTTACGTGATGAGGATAACAGGCCATCATTAGGGATGATAACA
* * * * * *
483029 CGGTTTCTACGTGATGAGGACGGCTGGTTATCTAAGGTTGATAGGGCTCCTACGTGATGAAGAGA
260 CAGTTCCTACATGATGAGGACGGCTGGTTATCTAAGGTTGACACGGCTCATACGTGATGAAGAGA
* * * * *
483094 TCTGATCGATGGATGACACGGTTCCTACGTGATGAGGACGTCATGTCATCATTAAGGATGATAAC
325 TCTGATCGAGGGATGAAACGGTTCCTACGTGATGAGGACGGCAGGCCATCATTAAGGATGATAAC
* *
483159 ACA-GTTCCTATGTGATGAGGAC-ATCTGGTTATCTAAGGTTGACACAACTCCTACGTAATGAGG
390 A-AGGTTCCTACGTGATGAAGACGA-CTGGTTATCTAAGGTTGACACAACTCCTACGTAATGAGG
483222 AGATCTGGTCGAGGGATGACACGA
453 AGATCTGGTCGAGGGATGACACGA
*
483246 TTTCTACGTGATGAGGA
1 TTCCTACGTGATGAGGA
483263 TGGCAGGCCA
Statistics
Matches: 436, Mismatches: 54, Indels: 6
0.88 0.11 0.01
Matches are distributed among these distances:
475 2 0.00
476 433 0.99
477 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (476 bp):
TTCCTACGTGATGAGGACGACTGATTATCTAAAGTTGACACGGCTCCTACGTGATGAGGAGATCT
GGTCGAAGGATGAAACAGTTCCTACGTGATGAGGATCACAGACCATCATTAGGGATGATAACACG
GTTCCTACATGATGAGGACGACTAGTTATCTAAGATTGACACGACTCCTACATGATGAGGAGATC
TGGTCGAGGGATAACACGATTCTTACGTGATGAGGATAACAGGCCATCATTAGGGATGATAACAC
AGTTCCTACATGATGAGGACGGCTGGTTATCTAAGGTTGACACGGCTCATACGTGATGAAGAGAT
CTGATCGAGGGATGAAACGGTTCCTACGTGATGAGGACGGCAGGCCATCATTAAGGATGATAACA
AGGTTCCTACGTGATGAAGACGACTGGTTATCTAAGGTTGACACAACTCCTACGTAATGAGGAGA
TCTGGTCGAGGGATGACACGA
Found at i:483535 original size:131 final size:130
Alignment explanation
Indices: 482764--483536 Score: 972
Period size: 131 Copynumber: 5.9 Consensus size: 130
482754 TCGAGGGATG
* * * ** *
482764 ACACGATTCCTACGTGATGAGGACGGTTGATTATCTAAGGTTGACGTGGCTCCTACGTGATGAGG
1 ACACGGTTCCTACGTGATGAGGAC-GATGGTTATCTAAGGTTGACACGACTCCTACGTGATGAGG
* ** *
482829 AGATCTGGTCGAAGGATGACACGGTTCCTACGTGATGAGGACACCAGACCATCATTAGGGATGAT
65 AGATCTGGTCGAGGGATGACACGGTTCCTACGTGATGAGGACGGCAGGCCATCATTAGGGATGAT
482894 A
130 A
* * * * *
482895 ACACGGTTCCTACATGATGAGGACGACTAGTTATCTAAGATTGACATGACTCCTACATGATGAGG
1 ACACGGTTCCTACGTGATGAGGACGA-TGGTTATCTAAGGTTGACACGACTCCTACGTGATGAGG
* * * *
482960 AGATCTGGTCGAGGGATGACACGATTCTTACGTGATGAGGATGGTAGGCCATCATTAGGGATGAT
65 AGATCTGGTCGAGGGATGACACGGTTCCTACGTGATGAGGACGGCAGGCCATCATTAGGGATGAT
483025 A
130 A
* * * * * *
483026 ACACGGTTTCTACGTGATGAGGACGGCTGGTTATCTAAGGTTGATAGGGCTCCTACGTGATGAAG
1 ACACGGTTCCTACGTGATGAGGAC-GATGGTTATCTAAGGTTGACACGACTCCTACGTGATGAGG
* * * * * *
483091 AGATCTGATCGATGGATGACACGGTTCCTACGTGATGAGGACGTCATGTCATCATTAAGGATGAT
65 AGATCTGGTCGAGGGATGACACGGTTCCTACGTGATGAGGACGGCAGGCCATCATTAGGGATGAT
483156 A
130 A
* * * *
483157 ACACAGTTCCTATGTGATGAGGAC-ATCTGGTTATCTAAGGTTGACACAACTCCTACGTAATGAG
1 ACACGGTTCCTACGTGATGAGGACGA--TGGTTATCTAAGGTTGACACGACTCCTACGTGATGAG
* * * *
483221 GAGATCTGGTCGAGGGATGACACGATTTCTACGTGATGAGGATGGCAGGCCATCATTAGGGTTGA
64 GAGATCTGGTCGAGGGATGACACGGTTCCTACGTGATGAGGACGGCAGGCCATCATTAGGGATGA
483286 TA
129 TA
* * * * *
483288 ACACAGTTCCTACGTGATGAGGACGGCTGATTATCTAAGGTTAACACGACTCCTACATGATGAGG
1 ACACGGTTCCTACGTGATGAGGAC-GATGGTTATCTAAGGTTGACACGACTCCTACGTGATGAGG
* * * * * *
483353 AGATCTGGTCGAGGGTTGACATGGTTCATACATGATGAGGATGGCATGCCATCATTAGGGATGAT
65 AGATCTGGTCGAGGGATGACACGGTTCCTACGTGATGAGGACGGCAGGCCATCATTAGGGATGAT
483418 A
130 A
* * *
483419 ACACGGTTCCTACGTGATGAGGATGATAGGTTATCTAAGGTTGACACGGCTCCTACGTGATGGGG
1 ACACGGTTCCTACGTGATGAGGACGAT-GGTTATCTAAGGTTGACACGACTCCTACGTGATGAGG
* * *
483484 AGATCTGGTCGAGGGATGACATGGTTCCTACGTGATGAGGACAGTAGGCCATC
65 AGATCTGGTCGAGGGATGACACGGTTCCTACGTGATGAGGACGGCAGGCCATC
483537 TGTTGAAAAC
Statistics
Matches: 548, Mismatches: 87, Indels: 14
0.84 0.13 0.02
Matches are distributed among these distances:
130 3 0.01
131 544 0.99
132 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (130 bp):
ACACGGTTCCTACGTGATGAGGACGATGGTTATCTAAGGTTGACACGACTCCTACGTGATGAGGA
GATCTGGTCGAGGGATGACACGGTTCCTACGTGATGAGGACGGCAGGCCATCATTAGGGATGATA
Found at i:483535 original size:262 final size:261
Alignment explanation
Indices: 482770--483536 Score: 1070
Period size: 262 Copynumber: 2.9 Consensus size: 261
482760 GATGACACGA
* **
482770 TTCCTACGTGATGAGGACGGTTGATTATCTAAGGTTGACGTGGCTCCTACGTGATGAGGAGATCT
1 TTCCTACGTGATGAGGACGGCTGATTATCTAAGGTTGACACGGCTCCTACGTGATGAGGAGATCT
*
482835 GGTCGAAGGATGACACGGTTCCTACGTGATGAGGACACCA-GACCATCATTAGGGATGATAACAC
66 GGTCGAAGGATGACACGGTTCCTACGTGATGAGGACGCCATG-CCATCATTAGGGATGATAACAC
* * * *
482899 GGTTCCTACATGATGAGGACGACTA-GTTATCTAAGATTGACATGACTCCTACATGATGAGGAGA
130 GGTTCCTACGTGATGAGGA-GA-TAGGTTATCTAAGGTTGACACGACTCCTACGTGATGAGGAGA
*
482963 TCTGGTCGAGGGATGACACGATTCTTACGTGATGAGGATGGTAGGCCATCATTAGGGATGATAAC
193 TCTGGTCGAGGGATGACACGATTCCTACGTGATGAGGATGGTAGGCCATCATTAGGGATGATAAC
*
483028 ACGG
258 ACAG
* * * * *
483032 TTTCTACGTGATGAGGACGGCTGGTTATCTAAGGTTGATAGGGCTCCTACGTGATGAAGAGATCT
1 TTCCTACGTGATGAGGACGGCTGATTATCTAAGGTTGACACGGCTCCTACGTGATGAGGAGATCT
* * * * * *
483097 GATCGATGGATGACACGGTTCCTACGTGATGAGGACGTCATGTCATCATTAAGGATGATAACACA
66 GGTCGAAGGATGACACGGTTCCTACGTGATGAGGACGCCATGCCATCATTAGGGATGATAACACG
* * * * *
483162 GTTCCTATGTGATGAGGACATCTGGTTATCTAAGGTTGACACAACTCCTACGTAATGAGGAGATC
131 GTTCCTACGTGATGAGGAGAT-AGGTTATCTAAGGTTGACACGACTCCTACGTGATGAGGAGATC
* * *
483227 TGGTCGAGGGATGACACGATTTCTACGTGATGAGGATGGCAGGCCATCATTAGGGTTGATAACAC
195 TGGTCGAGGGATGACACGATTCCTACGTGATGAGGATGGTAGGCCATCATTAGGGATGATAACAC
483292 AG
260 AG
* * *
483294 TTCCTACGTGATGAGGACGGCTGATTATCTAAGGTTAACACGACTCCTACATGATGAGGAGATCT
1 TTCCTACGTGATGAGGACGGCTGATTATCTAAGGTTGACACGGCTCCTACGTGATGAGGAGATCT
* * * * * * *
483359 GGTCGAGGGTTGACATGGTTCATACATGATGAGGATGGCATGCCATCATTAGGGATGATAACACG
66 GGTCGAAGGATGACACGGTTCCTACGTGATGAGGACGCCATGCCATCATTAGGGATGATAACACG
* *
483424 GTTCCTACGTGATGAGGATGATAGGTTATCTAAGGTTGACACGGCTCCTACGTGATGGGGAGATC
131 GTTCCTACGTGATGAGGA-GATAGGTTATCTAAGGTTGACACGACTCCTACGTGATGAGGAGATC
* * **
483489 TGGTCGAGGGATGACATGGTTCCTACGTGATGAGGACAGTAGGCCATC
195 TGGTCGAGGGATGACACGATTCCTACGTGATGAGGATGGTAGGCCATC
483537 TGTTGAAAAC
Statistics
Matches: 441, Mismatches: 60, Indels: 8
0.87 0.12 0.02
Matches are distributed among these distances:
260 1 0.00
261 1 0.00
262 436 0.99
263 3 0.01
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.26
Consensus pattern (261 bp):
TTCCTACGTGATGAGGACGGCTGATTATCTAAGGTTGACACGGCTCCTACGTGATGAGGAGATCT
GGTCGAAGGATGACACGGTTCCTACGTGATGAGGACGCCATGCCATCATTAGGGATGATAACACG
GTTCCTACGTGATGAGGAGATAGGTTATCTAAGGTTGACACGACTCCTACGTGATGAGGAGATCT
GGTCGAGGGATGACACGATTCCTACGTGATGAGGATGGTAGGCCATCATTAGGGATGATAACACA
G
Found at i:485951 original size:23 final size:24
Alignment explanation
Indices: 485925--485969 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
485915 CATCAATGAT
485925 TTTCGAAAAT-AATTTTTTTTTAA
1 TTTCGAAAATCAATTTTTTTTTAA
**
485948 TTTCGAATTTCAATTTTTTTTT
1 TTTCGAAAATCAATTTTTTTTT
485970 GAAAAATTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.27, C:0.07, G:0.04, T:0.62
Consensus pattern (24 bp):
TTTCGAAAATCAATTTTTTTTTAA
Found at i:486421 original size:24 final size:24
Alignment explanation
Indices: 486394--486456 Score: 117
Period size: 24 Copynumber: 2.6 Consensus size: 24
486384 GCATGAACAA
486394 GATGAATCGATGCACATTCAAAGG
1 GATGAATCGATGCACATTCAAAGG
486418 GATGAATCGATGCACATTCAAAGG
1 GATGAATCGATGCACATTCAAAGG
*
486442 GATGCATCGATGCAC
1 GATGAATCGATGCAC
486457 TGTTAAGTGA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 38 1.00
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.21
Consensus pattern (24 bp):
GATGAATCGATGCACATTCAAAGG
Found at i:504742 original size:21 final size:23
Alignment explanation
Indices: 504696--504743 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
504686 ATCAAATATA
*
504696 ATAATATATTAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
504719 ATAATATAATAGGTAGCGCTTAT
1 ATAATATAATAGGTAGCGCTTAT
504742 AT
1 AT
504744 TGACCTATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.08, G:0.17, T:0.38
Consensus pattern (23 bp):
ATAATATAATAGGTAGCGCTTAT
Found at i:505669 original size:181 final size:181
Alignment explanation
Indices: 505364--505809 Score: 696
Period size: 181 Copynumber: 2.5 Consensus size: 181
505354 ACTTTTTTAC
505364 TACCGGTTTTATCATTTCGAGATCGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
1 TACCGGTTTTATCATTTCGAGAT-GATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
* * * * **
505429 TACATTTTTATAAAGTATCGACGCTTTATTGGCGCTATAACTTCTTTTCTTTTAAATTCCAAAAG
65 TATATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTATTCGCTTTTAAATTCCAAAAG
* *
505494 TGTCGATACTTATAATAAAGTATCGACACTATCAACATATCCGGTAGCTCTT
130 TGTCGATACCTATAATAAAGTATCGACACTATCAACATATCCGGTAGCGCTT
* *
505546 TACCGGTTTTGTCATTTCGAGATGGTTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGAT
1 TACCGGTTTTATCATTTCGAGATGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGAT
*
505611 ATAGTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTATTCGCTTTTAAATTCCAAAAGT
66 ATATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTATTCGCTTTTAAATTCCAAAAGT
*
505676 GTCGATACCTATAATAAAGTATCGACACTATCAACATATCTGGTAGCGCTT
131 GTCGATACCTATAATAAAGTATCGACACTATCAACATATCCGGTAGCGCTT
* ** * * * *
505727 TACCTGTTTTATCATTTATAGACCGATTTTGTCAT-TTTTGACTTGTTTTATTGTTATGGATCGA
1 TACCGGTTTTATCATTTCGAGA-TGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGA
505791 TATATTTTTATAAAGTATC
65 TATATTTTTATAAAGTATC
505810 AAAACTATCA
Statistics
Matches: 241, Mismatches: 22, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
181 209 0.87
182 32 0.13
ACGTcount: A:0.27, C:0.15, G:0.14, T:0.43
Consensus pattern (181 bp):
TACCGGTTTTATCATTTCGAGATGATTTTGTCATATTTTTACCTGTTATATTGTTATGGATCGAT
ATATTTTTATAAAGTATCGACACTTTATTAGCGCTATAACTTATTCGCTTTTAAATTCCAAAAGT
GTCGATACCTATAATAAAGTATCGACACTATCAACATATCCGGTAGCGCTT
Found at i:507292 original size:30 final size:30
Alignment explanation
Indices: 507225--507309 Score: 133
Period size: 26 Copynumber: 3.0 Consensus size: 30
507215 AATTATGCCT
507225 ATTGTCAGTGTCAATCATCACCATAACACA
1 ATTGTCAGTGTCAATCATCACCATAACACA
*
507255 A-T-T--GTGTCAATCCTCACCATAACACA
1 ATTGTCAGTGTCAATCATCACCATAACACA
507281 ATTGTCAGTGTCAATCATCACCATAACAC
1 ATTGTCAGTGTCAATCATCACCATAACAC
507310 GATTTGTTCA
Statistics
Matches: 49, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
26 23 0.47
27 1 0.02
28 2 0.04
29 1 0.02
30 22 0.45
ACGTcount: A:0.35, C:0.28, G:0.09, T:0.27
Consensus pattern (30 bp):
ATTGTCAGTGTCAATCATCACCATAACACA
Found at i:509214 original size:206 final size:199
Alignment explanation
Indices: 508572--509428 Score: 1396
Period size: 199 Copynumber: 4.3 Consensus size: 199
508562 AATTATTATG
* * * * * * *
508572 TTTTGGGATCGACAATTGTTATAAATGTATCG-CAATTTTGTTGTGCACTTGGTTCTGAAATACA
1 TTTTGGGATCGACACTTGTTACAAATGTATCGACACTTTT-TAGGGCACTTGTTTTTGAAATACA
* * * *
508636 TTCTGGATAAAAAGTATCGACACTTGTTCCATTTGTGTCGATACTGTTTGTACACATGTTTTCTC
65 TTCTGGACAAAAAGTATCGACACTTGTTCTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTC
* * * * *
508701 AAAAACCGATACATTTAGACCGGTTATATTG-TTAATTTACCTATTACATTATAATTATGGTTTT
130 AAAAACCGGTATATTTAGACCGTTTACA-TGAATAATTTACCTATTACATTATAATTATGGTTTT
508765 CGATGT
194 CGATGT
*
508771 TTTTGGGATCGACACTTGTTACAAATGTATCGAAACTTTTTAGGGCACTTGTTTTTGAAATACAT
1 TTTTGGGATCGACACTTGTTACAAATGTATCGACACTTTTTAGGGCACTTGTTTTTGAAATACAT
508836 TCTGGACAAAAAGTATCGACACTTGTTCTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCA
66 TCTGGACAAAAAGTATCGACACTTGTTCTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCA
*
508901 AAAACCGGTATATTTAGACCGTTTACATGAATAATTTACCTATTACATTATAATTATGGTTTTTG
131 AAAACCGGTATATTTAGACCGTTTACATGAATAATTTACCTATTACATTATAATTATGGTTTTCG
*
508966 ATCT
196 ATGT
*
508970 TTTTGGGATCGACACTTGTTACAAATGTATTGACACTTTTTAGGGCACTTGTTTTTGAAATACAT
1 TTTTGGGATCGACACTTGTTACAAATGTATCGACACTTTTTAGGGCACTTGTTTTTGAAATACAT
*
509035 TCTGGACAAAAAGTATCGACACTTGTTCTATTTGTTTCGATACTTTTTGTACACCTGTTTTCTCA
66 TCTGGACAAAAAGTATCGACACTTGTTCTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTC-
*
509100 AAAACCAAAATCCGGTATATTTAGACCATTTACATGAATAATTTACCTATTACATTATAATTATG
130 ---A--AAAA-CCGGTATATTTAGACCGTTTACATGAATAATTTACCTATTACATTATAATTATG
*
509165 GTTTTTGATGT
189 GTTTTCGATGT
509176 TTTTGGGATCGACACTTGTTACAAATGTATCGACACTTTTTAGGGCACTTGTTTTTGAAATACAT
1 TTTTGGGATCGACACTTGTTACAAATGTATCGACACTTTTTAGGGCACTTGTTTTTGAAATACAT
509241 TCTGGACAAAAAGTATCGACACTTGTTCTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCA
66 TCTGGACAAAAAGTATCGACACTTGTTCTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCA
*
509306 AAAACCAGTATATTTAGACCGTTTACATGAATAATTTACCTATTA-ATTATAATTATGGTTTTCG
131 AAAACCGGTATATTTAGACCGTTTACATGAATAATTTACCTATTACATTATAATTATGGTTTTCG
509370 ATGT
196 ATGT
509374 TTTTGGGATCGACACTTGTTACAAATGTATCGACACTTTTTAGGGCACTTGTTTT
1 TTTTGGGATCGACACTTGTTACAAATGTATCGACACTTTTTAGGGCACTTGTTTT
509429 CTCAAAAACC
Statistics
Matches: 620, Mismatches: 29, Indels: 19
0.93 0.04 0.03
Matches are distributed among these distances:
198 79 0.13
199 336 0.54
200 9 0.01
202 1 0.00
203 1 0.00
205 4 0.01
206 190 0.31
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.41
Consensus pattern (199 bp):
TTTTGGGATCGACACTTGTTACAAATGTATCGACACTTTTTAGGGCACTTGTTTTTGAAATACAT
TCTGGACAAAAAGTATCGACACTTGTTCTATTTGTGTCGATACTTTTTGTACACCTGTTTTCTCA
AAAACCGGTATATTTAGACCGTTTACATGAATAATTTACCTATTACATTATAATTATGGTTTTCG
ATGT
Found at i:509319 original size:405 final size:397
Alignment explanation
Indices: 508572--509428 Score: 1394
Period size: 405 Copynumber: 2.1 Consensus size: 397
508562 AATTATTATG
* * * * * * *
508572 TTTTGGGATCGACAATTGTTATAAATGTATCG-CAATTTTGTTGTGCACTTGGTTCTGAAATACA
1 TTTTGGGATCGACACTTGTTACAAATGTATCGACACTTTT-TAGGGCACTTGTTTTTGAAATACA
*
508636 TTCTGGATAAAAAGTATCGACACTTGTTCCATTTGTGTCGATACTGTTTGTACACATGTTTTCTC
65 TTCTGGACAAAAAGTATCGACACTTGTTCCATTTGTGTCGATACTGTTTGTACACATGTTTTCTC
* * *
508701 AAAAACCGATACATTTAGACCGGTTATATTGTTAATTTACCTATTACATTATAATTATGGTTTTC
130 AAAAACCGATACATTTAGACCAGTTACATTGATAATTTACCTATTACATTATAATTATGGTTTTC
508766 GATGTTTTTGGGATCGACACTTGTTACAAATGTATCGAAACTTTTTAGGGCACTTGTTTTTGAAA
195 GATGTTTTTGGGATCGACACTTGTTACAAATGTATCGAAACTTTTTAGGGCACTTGTTTTTGAAA
508831 TACATTCTGGACAAAAAGTATCGACACTTGTTCTATTTGTGTCGATACTTTTTGTACACCTGTTT
260 TACATTCTGGACAAAAAGTATCGACACTTGTTCTATTTGTGTCGATACTTTTTGTACACCTGTTT
*
508896 TCTCAAAAACCGGTATATTTAGACCGTTTACATGAATAATTTACCTATTACATTATAATTATGGT
325 TCTCAAAAACCAGTATATTTAGACCGTTTACATGAATAATTTACCTATTA-ATTATAATTATGGT
*
508961 TTTTGATCT
389 TTTCGATCT
*
508970 TTTTGGGATCGACACTTGTTACAAATGTATTGACACTTTTTAGGGCACTTGTTTTTGAAATACAT
1 TTTTGGGATCGACACTTGTTACAAATGTATCGACACTTTTTAGGGCACTTGTTTTTGAAATACAT
* * * *
509035 TCTGGACAAAAAGTATCGACACTTGTTCTATTTGTTTCGATACTTTTTGTACACCTGTTTTCTCA
66 TCTGGACAAAAAGTATCGACACTTGTTCCATTTGTGTCGATACTGTTTGTACACATGTTTTCTC-
* * *
509100 AAAACCAAAATCCGGTATATTTAGACCATTTACA-TGAATAATTTACCTATTACATTATAATTAT
130 ---A--AAAA-CCGATACATTTAGACCAGTTACATTG-ATAATTTACCTATTACATTATAATTAT
* *
509164 GGTTTTTGATGTTTTTGGGATCGACACTTGTTACAAATGTATCGACACTTTTTAGGGCACTTGTT
188 GGTTTTCGATGTTTTTGGGATCGACACTTGTTACAAATGTATCGAAACTTTTTAGGGCACTTGTT
509229 TTTGAAATACATTCTGGACAAAAAGTATCGACACTTGTTCTATTTGTGTCGATACTTTTTGTACA
253 TTTGAAATACATTCTGGACAAAAAGTATCGACACTTGTTCTATTTGTGTCGATACTTTTTGTACA
509294 CCTGTTTTCTCAAAAACCAGTATATTTAGACCGTTTACATGAATAATTTACCTATTAATTATAAT
318 CCTGTTTTCTCAAAAACCAGTATATTTAGACCGTTTACATGAATAATTTACCTATTAATTATAAT
*
509359 TATGGTTTTCGATGT
383 TATGGTTTTCGATCT
509374 TTTTGGGATCGACACTTGTTACAAATGTATCGACACTTTTTAGGGCACTTGTTTT
1 TTTTGGGATCGACACTTGTTACAAATGTATCGACACTTTTTAGGGCACTTGTTTT
509429 CTCAAAAACC
Statistics
Matches: 425, Mismatches: 25, Indels: 12
0.92 0.05 0.03
Matches are distributed among these distances:
398 109 0.26
399 6 0.01
402 1 0.00
404 81 0.19
405 228 0.54
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.41
Consensus pattern (397 bp):
TTTTGGGATCGACACTTGTTACAAATGTATCGACACTTTTTAGGGCACTTGTTTTTGAAATACAT
TCTGGACAAAAAGTATCGACACTTGTTCCATTTGTGTCGATACTGTTTGTACACATGTTTTCTCA
AAAACCGATACATTTAGACCAGTTACATTGATAATTTACCTATTACATTATAATTATGGTTTTCG
ATGTTTTTGGGATCGACACTTGTTACAAATGTATCGAAACTTTTTAGGGCACTTGTTTTTGAAAT
ACATTCTGGACAAAAAGTATCGACACTTGTTCTATTTGTGTCGATACTTTTTGTACACCTGTTTT
CTCAAAAACCAGTATATTTAGACCGTTTACATGAATAATTTACCTATTAATTATAATTATGGTTT
TCGATCT
Found at i:511406 original size:199 final size:199
Alignment explanation
Indices: 510896--512119 Score: 1530
Period size: 198 Copynumber: 6.3 Consensus size: 199
510886 GGTTATAATT
* * * * * *
510896 ATTATGTTTTTCGATGTTTTTGGGATCGAAAATTGTTATAAATGTATCGAAACTTTGTT-GTGCA
1 ATTATGGTTTTCGATGTTTTTGGGATCGACACTTGTTACAAATGTATCGACACTTT-TTAGGGCA
* * *
510960 CTTGGTTCTGAAATACATTCTGGACAAAAAGTATCGACACTTGTTCCATTTGTGTCGATA-TTGT
65 CTTGTTTTTGAAATACATTCTGGACAAAAAGTATCGACACTTGTTCTATTTGTGTCGATACTT-T
* *
511024 TTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGTTATATTG-CTAATTTACCTATTA
129 TTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGTTACA-TGAATAATTTACCTATTA
511088 CATTATA
193 CATTATA
* *
511095 ATTATGGTTTT-GATGTTTTTGGGATCGACACTTGTTGCAAATGTATCGACACTTTTTAGGGAAC
1 ATTATGGTTTTCGATGTTTTTGGGATCGACACTTGTTACAAATGTATCGACACTTTTTAGGGCAC
511159 TTGTTTTTGAAATACATTCTGGACAAAAAGTATCGACACTTGTTCTATTTGTGTCGATACTTTTT
66 TTGTTTTTGAAATACATTCTGGACAAAAAGTATCGACACTTGTTCTATTTGTGTCGATACTTTTT
* *
511224 GTACACTTGTTTTCTCAAAAACCGGTATATTTAGACCGTTTACATGAATAATTTACCTATTACAT
131 GTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGTTACATGAATAATTTACCTATTACAT
511289 TATA
196 TATA
*
511293 ATTATGGTTTTCGATGTTTTTGGGATCGACACTTGTTACAAATGTATAGACACTTTTTAGGGCAC
1 ATTATGGTTTTCGATGTTTTTGGGATCGACACTTGTTACAAATGTATCGACACTTTTTAGGGCAC
* * * ** *
511358 TTGTTTTTGAAATAAATTCTGGGAAAAAAAAT-TTAACACTTGTTCTATTTGTGTCGATACTTTC
66 TTGTTTTTGAAATACATTCT-GGACAAAAAGTATCGACACTTGTTCTATTTGTGTCGATACTTTT
* *
511422 TGTACA-CTGTTTTCTCAAAAACCGGTATATTTAGACCGGTTATATTG-CTAATTTACCTATTAC
130 TGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGTTACA-TGAATAATTTACCTATTAC
511485 ATTATA
194 ATTATA
511491 ATTATGGTTTTCGATGTTTTTGGGATCGACACTTGTTACAAATGTATCGACACTTTTTAGGGCAC
1 ATTATGGTTTTCGATGTTTTTGGGATCGACACTTGTTACAAATGTATCGACACTTTTTAGGGCAC
*
511556 TTGTTTTTGAAATACATTCTGGACAAAAAGTATCGACACTTGTTCTATTTGTGTCGATGCTTTTT
66 TTGTTTTTGAAATACATTCTGGACAAAAAGTATCGACACTTGTTCTATTTGTGTCGATACTTTTT
* *
511621 TTACACCTGTTTTCTCAAAAACCGGTATATTTAGA-CGTTTACATGAATAATTTACCTATTACAT
131 GTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGTTACATGAATAATTTACCTATTACAT
511685 TATA
196 TATA
* * * ** *
511689 ATTATGGTTTTCGATGTTTTTTGGATCGACAC-T-TT-----T-TA-GGGCACTTGTTT-TTGAA
1 ATTATGGTTTTCGATGTTTTTGGGATCGACACTTGTTACAAATGTATCGACACTT-TTTAGGGCA
* *** * * * * * * **** * * * *
511744 ATAAATTTGGAAAAAAAGTATCGAC-GCTTGT-TC--TATTTGTGTCGATACTTTTTGTAC-A-C
65 CTTGTTTTTGAAATACATTCTGGACAAAAAGTATCGACACTTGT-TC--TA-TTTGTGT-CGATA
* * * ***
511803 CTATTT-T----C-------TCAAAAATCGGTATATTTAGACCGGTTATATTTCTAATTTACCTA
125 CTTTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGTTACATGAATAATTTACCTA
511856 TTACATTATA
190 TTACATTATA
*
511866 ATTATGGTTTTCGATGTTTTTGGGATCGACACTTGTTACAAATGTATCGACACTTTTTATGGCAC
1 ATTATGGTTTTCGATGTTTTTGGGATCGACACTTGTTACAAATGTATCGACACTTTTTAGGGCAC
*
511931 TTGTTTTTGAAATACATTCTGGACAAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTT
66 TTGTTTTTGAAATACATTCTGGACAAAAAGTATCGACACTTGTTCTATTTGTGTCGATACTTTTT
* * *
511996 GTACACATGTTTTCTCAAAAACCGGTATATTTAGATCGTTTACATGAATAATTTACCTATTACAT
131 GTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGTTACATGAATAATTTACCTATTACAT
512061 TATA
196 TATA
*
512065 ATTATGGTTTTCGATGTTTTTGGGATCGACACTTGTTATAAATGTATCGACACTT
1 ATTATGGTTTTCGATGTTTTTGGGATCGACACTTGTTACAAATGTATCGACACTT
512120 AAGTTTACCT
Statistics
Matches: 876, Mismatches: 105, Indels: 88
0.82 0.10 0.08
Matches are distributed among these distances:
176 20 0.02
177 59 0.07
178 1 0.00
179 2 0.00
183 1 0.00
184 1 0.00
185 11 0.01
186 33 0.04
187 12 0.01
188 12 0.01
189 31 0.04
190 11 0.01
191 1 0.00
196 2 0.00
197 16 0.02
198 405 0.46
199 249 0.28
200 9 0.01
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (199 bp):
ATTATGGTTTTCGATGTTTTTGGGATCGACACTTGTTACAAATGTATCGACACTTTTTAGGGCAC
TTGTTTTTGAAATACATTCTGGACAAAAAGTATCGACACTTGTTCTATTTGTGTCGATACTTTTT
GTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGTTACATGAATAATTTACCTATTACAT
TATA
Found at i:511831 original size:176 final size:178
Alignment explanation
Indices: 511536--512098 Score: 655
Period size: 199 Copynumber: 3.1 Consensus size: 178
511526 TTACAAATGT
* *
511536 ATCGACACTTTTTAGGGCACTTGTTTTTGAAATACATTCTGGACAAAAAGTATCGACACTTGTTC
1 ATCGACACTTTTTAGGGCACTTGTTTTTGAAATAAATTCTGGAAAAAAAGTATCGACACTTGTTC
* * * *
511601 TATTTGTGTCGATGCTTTTTTTACACCTGTTTTCTCAAAAACCGGTATATTTAGA-CGTTTACAT
66 TATTTGTGTCGATACTTTTTGTACACCTATTTTCTCAAAAACCGGTATATTTAGACCGGTTACAT
*
511665 GAATAATTTACCTATTACATTATAATTATGGTTTTCGATGTTTTTTGG
131 GAATAATTTACCTATTACATTATAATTATGGTTTTCGATGTTTTTGGG
*
511713 ATCGACACTTTTTAGGGCACTTGTTTTTGAAATAAATT-TGGAAAAAAAGTATCGACGCTTGTTC
1 ATCGACACTTTTTAGGGCACTTGTTTTTGAAATAAATTCTGGAAAAAAAGTATCGACACTTGTTC
* *
511777 TATTTGTGTCGATACTTTTTGTACACCTATTTTCTCAAAAATCGGTATATTTAGACCGGTTATAT
66 TATTTGTGTCGATACTTTTTGTACACCTATTTTCTCAAAAACCGGTATATTTAGACCGGTTACAT
***
511842 TTCTAATTTACCTATTACATTATAATTATGGTTTTCGATGTTTTTGGG
131 GAATAATTTACCTATTACATTATAATTATGGTTTTCGATGTTTTTGGG
* * * * * *** * *
511890 ATCGACACTTGTTACAAATGTATCGACACTT-TTTATGGCACTTGTTTTTGAAATACATTCTGGA
1 ATCGACAC-T-TT-----T-TA-GGGCACTTGTTT-TTGAAATAAATTCTGGAA-A-A------A
* * *
511954 CAAAAAGTATCGACACTTGTTTTATTTGTGTCGATACTTTTTGTACACATGTTTTCTCAAAAACC
48 -A---AGTATCGACACTTGTTCTATTTGTGTCGATACTTTTTGTACACCTATTTTCTCAAAAACC
* *
512019 GGTATATTTAGATCGTTTACATGAATAATTTACCTATTACATTATAATTATGGTTTTCGATGTTT
109 GGTATATTTAGACCGGTTACATGAATAATTTACCTATTACATTATAATTATGGTTTTCGATGTTT
512084 TTGGG
174 TTGGG
512089 ATCGACACTT
1 ATCGACACTT
512099 GTTATAAATG
Statistics
Matches: 329, Mismatches: 33, Indels: 28
0.84 0.08 0.07
Matches are distributed among these distances:
176 75 0.23
177 96 0.29
178 1 0.00
179 2 0.01
184 1 0.00
185 5 0.02
186 12 0.04
187 4 0.01
188 1 0.00
189 1 0.00
195 1 0.00
196 1 0.00
197 1 0.00
198 1 0.00
199 127 0.39
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.43
Consensus pattern (178 bp):
ATCGACACTTTTTAGGGCACTTGTTTTTGAAATAAATTCTGGAAAAAAAGTATCGACACTTGTTC
TATTTGTGTCGATACTTTTTGTACACCTATTTTCTCAAAAACCGGTATATTTAGACCGGTTACAT
GAATAATTTACCTATTACATTATAATTATGGTTTTCGATGTTTTTGGG
Found at i:512087 original size:375 final size:376
Alignment explanation
Indices: 510957--512098 Score: 1826
Period size: 375 Copynumber: 3.0 Consensus size: 376
510947 ACTTTGTTGT
* * * * *
510957 GCACTTGGTTCTGAAATACATTCTGGACAAAAAGTATCGACACTTGTTCCATTTGTGTCGATA-T
1 GCACTTGTTTTTGAAATAAATTCTGGAAAAAAAGTATCGACACTTGTTCTATTTGTGTCGATACT
511021 TGTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGTTATATTGCTAATTTACCTAT
66 T-TTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGTTATATTGCTAATTTACCTAT
*
511086 TACATTATAATTATGGTTTT-GATGTTTTTGGGATCGACACTTGTTGCAAATGTATCGACACTTT
130 TACATTATAATTATGGTTTTCGATGTTTTTGGGATCGACACTTGTTACAAATGTATCGACACTTT
*
511150 TTAGGGAACTTGTTTTTGAAATACATTCTGGACAAAAAGTATCGACACTTGTTCTATTTGTGTCG
195 TTAGGGCACTTGTTTTTGAAATACATTCTGGACAAAAAGTATCGACACTTGTTCTATTTGTGTCG
*
511215 ATACTTTTTGTACACTTGTTTTCTCAAAAACCGGTATATTTAGACCGTTTACATGAATAATTTAC
260 ATACTTTTTGTACACATGTTTTCTCAAAAACCGGTATATTTAGA-CGTTTACATGAATAATTTAC
511280 CTATTACATTATAATTATGGTTTTCGATGTTTTTGGGATCGACACTTGTTACAAATGTATAGACA
324 CTATTACATTATAATTATGGTTTTCGATGTTTTT-GG---G--A-----T-C---------GACA
511345 CTTTTTAGG
368 CTTTTTAGG
* **
511354 GCACTTGTTTTTGAAATAAATTCTGGGAAAAAAAAT-TTAACACTTGTTCTATTTGTGTCGATAC
1 GCACTTGTTTTTGAAATAAATTCT-GGAAAAAAAGTATCGACACTTGTTCTATTTGTGTCGATAC
*
511418 TTTCTGTACA-CTGTTTTCTCAAAAACCGGTATATTTAGACCGGTTATATTGCTAATTTACCTAT
65 TTTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGTTATATTGCTAATTTACCTAT
511482 TACATTATAATTATGGTTTTCGATGTTTTTGGGATCGACACTTGTTACAAATGTATCGACACTTT
130 TACATTATAATTATGGTTTTCGATGTTTTTGGGATCGACACTTGTTACAAATGTATCGACACTTT
511547 TTAGGGCACTTGTTTTTGAAATACATTCTGGACAAAAAGTATCGACACTTGTTCTATTTGTGTCG
195 TTAGGGCACTTGTTTTTGAAATACATTCTGGACAAAAAGTATCGACACTTGTTCTATTTGTGTCG
* * *
511612 ATGCTTTTTTTACACCTGTTTTCTCAAAAACCGGTATATTTAGACGTTTACATGAATAATTTACC
260 ATACTTTTTGTACACATGTTTTCTCAAAAACCGGTATATTTAGACGTTTACATGAATAATTTACC
*
511677 TATTACATTATAATTATGGTTTTCGATGTTTTTTGGATCGACACTTTTTAGG
325 TATTACATTATAATTATGGTTTTCGATGTTTTTGGGATCGACACTTTTTAGG
*
511729 GCACTTGTTTTTGAAATAAATT-TGGAAAAAAAGTATCGACGCTTGTTCTATTTGTGTCGATACT
1 GCACTTGTTTTTGAAATAAATTCTGGAAAAAAAGTATCGACACTTGTTCTATTTGTGTCGATACT
* * *
511793 TTTTGTACACCTATTTTCTCAAAAATCGGTATATTTAGACCGGTTATATTTCTAATTTACCTATT
66 TTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGTTATATTGCTAATTTACCTATT
511858 ACATTATAATTATGGTTTTCGATGTTTTTGGGATCGACACTTGTTACAAATGTATCGACACTTTT
131 ACATTATAATTATGGTTTTCGATGTTTTTGGGATCGACACTTGTTACAAATGTATCGACACTTTT
* *
511923 TATGGCACTTGTTTTTGAAATACATTCTGGACAAAAAGTATCGACACTTGTTTTATTTGTGTCGA
196 TAGGGCACTTGTTTTTGAAATACATTCTGGACAAAAAGTATCGACACTTGTTCTATTTGTGTCGA
511988 TACTTTTTGTACACATGTTTTCTCAAAAACCGGTATATTTAGATCGTTTACATGAATAATTTACC
261 TACTTTTTGTACACATGTTTTCTCAAAAACCGGTATATTTAGA-CGTTTACATGAATAATTTACC
512053 TATTACATTATAATTATGGTTTTCGATGTTTTTGGGATCGACACTT
325 TATTACATTATAATTATGGTTTTCGATGTTTTTGGGATCGACACTT
512099 GTTATAAATG
Statistics
Matches: 710, Mismatches: 29, Indels: 33
0.92 0.04 0.04
Matches are distributed among these distances:
373 10 0.01
374 35 0.05
375 255 0.36
376 66 0.09
384 1 0.00
385 1 0.00
390 1 0.00
392 1 0.00
395 1 0.00
396 128 0.18
397 200 0.28
398 11 0.02
ACGTcount: A:0.28, C:0.15, G:0.16, T:0.42
Consensus pattern (376 bp):
GCACTTGTTTTTGAAATAAATTCTGGAAAAAAAGTATCGACACTTGTTCTATTTGTGTCGATACT
TTTTGTACACCTGTTTTCTCAAAAACCGGTATATTTAGACCGGTTATATTGCTAATTTACCTATT
ACATTATAATTATGGTTTTCGATGTTTTTGGGATCGACACTTGTTACAAATGTATCGACACTTTT
TAGGGCACTTGTTTTTGAAATACATTCTGGACAAAAAGTATCGACACTTGTTCTATTTGTGTCGA
TACTTTTTGTACACATGTTTTCTCAAAAACCGGTATATTTAGACGTTTACATGAATAATTTACCT
ATTACATTATAATTATGGTTTTCGATGTTTTTGGGATCGACACTTTTTAGG
Found at i:522079 original size:18 final size:19
Alignment explanation
Indices: 522032--522080 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
522022 TTACATTCAC
*
522032 ATACAAAATTATAAATCAT
1 ATACAAAATTAAAAATCAT
*
522051 ATACAAAATTAAAAATCTT
1 ATACAAAATTAAAAATCAT
522070 ATAC-AAATTAA
1 ATACAAAATTAA
522081 CCATGCATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
18 7 0.25
19 21 0.75
ACGTcount: A:0.59, C:0.10, G:0.00, T:0.31
Consensus pattern (19 bp):
ATACAAAATTAAAAATCAT
Found at i:524279 original size:22 final size:21
Alignment explanation
Indices: 524251--524306 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 21
524241 AACCTGCATT
*
524251 TATAATAAAAGTTATCATTTTA
1 TATAATAAAA-CTATCATTTTA
524273 TATAATAACTATACTATCATTTTA
1 TATAATAA--A-ACTATCATTTTA
524297 TATAA-AAAAC
1 TATAATAAAAC
524307 AAAAACATTC
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
20 2 0.07
21 1 0.03
22 8 0.27
23 2 0.07
24 16 0.53
25 1 0.03
ACGTcount: A:0.48, C:0.09, G:0.02, T:0.41
Consensus pattern (21 bp):
TATAATAAAACTATCATTTTA
Found at i:525292 original size:17 final size:19
Alignment explanation
Indices: 525265--525303 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
525255 TACTGTCAAC
525265 ATTTAAAATTTGTAAT-CA
1 ATTTAAAATTTGTAATCCA
*
525283 ATTT-AAATTTTTAATCCA
1 ATTTAAAATTTGTAATCCA
525301 ATT
1 ATT
525304 ACATTTCAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.41, C:0.08, G:0.03, T:0.49
Consensus pattern (19 bp):
ATTTAAAATTTGTAATCCA
Found at i:525595 original size:19 final size:20
Alignment explanation
Indices: 525548--525596 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
525538 CATTTATACA
525548 ACCTA-AAATATCATTTTCT
1 ACCTATAAATATCATTTTCT
525567 ACCTAT-AATATCATTTT-T
1 ACCTATAAATATCATTTTCT
525585 ACCTATAAATAT
1 ACCTATAAATAT
525597 TAACTAAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
18 7 0.25
19 21 0.75
ACGTcount: A:0.39, C:0.18, G:0.00, T:0.43
Consensus pattern (20 bp):
ACCTATAAATATCATTTTCT
Found at i:526593 original size:20 final size:21
Alignment explanation
Indices: 526565--526603 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
526555 GTAGCTTTTT
526565 ACCGATTTTGTCAT-TTTGGG
1 ACCGATTTTGTCATATTTGGG
* *
526585 ACCGGTTTTTTCATATTTG
1 ACCGATTTTGTCATATTTG
526604 TACCTGTAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.15, C:0.15, G:0.21, T:0.49
Consensus pattern (21 bp):
ACCGATTTTGTCATATTTGGG
Found at i:526649 original size:182 final size:182
Alignment explanation
Indices: 525979--526636 Score: 874
Period size: 182 Copynumber: 3.6 Consensus size: 182
525969 TACGCGTACT
* * * * *
525979 TATTAAAGTATCGACACTTTCAACATATCCGTTATCTATTTACCTATTTTGTCA-TTTTGAGACC
1 TATTAAATTATCGACACTTTCAACATATCCGGTAACT-TTTTCCGATTTTGTCATTTTTGAGACC
* * * * * *
526043 GATTTTATCATATTTTTACCTGTTATATTGTTTTGGATCGATACATTTTCATAAAGTGTCAACAT
65 GGTTTTATCATATTTTTACCTGTAATATTGTTATGGATCGATACATTTTCATAAAGTATCGACAC
*
526108 TTTTTA-GCGCTATAACTTCTTCTCTTTTAAATTAAGAAAGTGTCGATACTTA
130 TTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTA
* * * * * *
526160 TATTAAATTATCGACACTTTTAACATATCCAGTAACTTTTTCTGGTTTTGTCATTTTTTAGA-CT
1 TATTAAATTATCGACACTTTCAACATATCCGGTAACTTTTTCCGATTTTGTCATTTTTGAGACCG
* * * * *
526224 GTTTTATCACATTTTTACCTGTTTATATTGGTAAGGATCGATACATTTTCATAAAGTGTCGACAC
66 GTTTTATCATATTTTTACCTG-TAATATTGTTATGGATCGATACATTTTCATAAAGTATCGACAC
* *
526289 TTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATAATAA
130 TTTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTA
* * * *
526342 TATTAAATTATCGACACTTTCAATATATCCGGTAACTTTTTCTGGTTTTGTCATTTTTTAGACCG
1 TATTAAATTATCGACACTTTCAACATATCCGGTAACTTTTTCCGATTTTGTCATTTTTGAGACCG
* * **
526407 GTTTTATCATATTTTTACCTGTAATATTGTTGTGGATCGATATATTTTTTTAAAGTATCGACACT
66 GTTTTATCATATTTTTACCTGTAATATTGTTATGGATCGATACATTTTCATAAAGTATCGACACT
* *
526472 TTATAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTTTCGATACTTA
131 TTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTA
* * *
526524 TATTAAATTATCGACACTTTCAATATATCCGGTAGCTTTTTACCGATTTTGTCA-TTTTGGGACC
1 TATTAAATTATCGACACTTTCAACATATCCGGTAACTTTTT-CCGATTTTGTCATTTTTGAGACC
* * * * *
526588 GGTTTTTTCATATTTGTACCTGTAATATTGCTATGGAGCGATCCATTTT
65 GGTTTTATCATATTTTTACCTGTAATATTGTTATGGATCGATACATTTT
526637 TCATTTGTAT
Statistics
Matches: 422, Mismatches: 50, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
180 32 0.08
181 83 0.20
182 276 0.65
183 31 0.07
ACGTcount: A:0.27, C:0.16, G:0.13, T:0.45
Consensus pattern (182 bp):
TATTAAATTATCGACACTTTCAACATATCCGGTAACTTTTTCCGATTTTGTCATTTTTGAGACCG
GTTTTATCATATTTTTACCTGTAATATTGTTATGGATCGATACATTTTCATAAAGTATCGACACT
TTTTAGGCGCTATAACTTCTTCTCTTTTAAATTCAGAAAGTGTCGATACTTA
Found at i:526807 original size:11 final size:11
Alignment explanation
Indices: 526791--526815 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
526781 ATCCGGTAAC
526791 GCCGTATATTA
1 GCCGTATATTA
526802 GCCGTATATTA
1 GCCGTATATTA
526813 GCC
1 GCC
526816 CGCCTTTCCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (11 bp):
GCCGTATATTA
Found at i:529289 original size:27 final size:26
Alignment explanation
Indices: 529241--529291 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
529231 GGTCTGACGT
* *
529241 GGCAGTTTCTAGAAGGTTTAGTCAGC
1 GGCAGTTTCTAGAAGATCTAGTCAGC
529267 GGCAGTTTACTAGAAGATCTAGTCA
1 GGCAGTTT-CTAGAAGATCTAGTCA
529292 ACGCGCCTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.29
Consensus pattern (26 bp):
GGCAGTTTCTAGAAGATCTAGTCAGC
Found at i:535286 original size:20 final size:20
Alignment explanation
Indices: 535258--535308 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
535248 AATGAATGGA
* *
535258 TGTTACAATTGCATTTAACT
1 TGTTCCAATTGCATTTAACG
535278 TGTTCCAATTGCATTTAACG
1 TGTTCCAATTGCATTTAACG
535298 TGTTCCAATTG
1 TGTTCCAATTG
535309 GTGATATTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.25, C:0.18, G:0.14, T:0.43
Consensus pattern (20 bp):
TGTTCCAATTGCATTTAACG
Found at i:535714 original size:27 final size:27
Alignment explanation
Indices: 535675--535752 Score: 122
Period size: 27 Copynumber: 2.9 Consensus size: 27
535665 AGTCTGACGT
*
535675 GGCAG-TTTCTAGAAGGTTCAGTCAGC
1 GGCAGTTTTCTAGAAGGTCCAGTCAGC
535701 GGCAGTTTTCTAGAAGGTCCAGTCAGC
1 GGCAGTTTTCTAGAAGGTCCAGTCAGC
* *
535728 GGCAGTTTTCTAGAAGATCTAGTCA
1 GGCAGTTTTCTAGAAGGTCCAGTCA
535753 ACGTGCCTTC
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
26 5 0.10
27 43 0.90
ACGTcount: A:0.24, C:0.19, G:0.28, T:0.28
Consensus pattern (27 bp):
GGCAGTTTTCTAGAAGGTCCAGTCAGC
Found at i:539876 original size:13 final size:13
Alignment explanation
Indices: 539858--539890 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
539848 TTGATTCAAT
539858 GTGCTTTTTTGGG
1 GTGCTTTTTTGGG
539871 GTGCTTTTTTGGG
1 GTGCTTTTTTGGG
*
539884 GTTCTTT
1 GTGCTTT
539891 CCTTGCCTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.00, C:0.09, G:0.33, T:0.58
Consensus pattern (13 bp):
GTGCTTTTTTGGG
Found at i:548781 original size:15 final size:15
Alignment explanation
Indices: 548761--548809 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
548751 ATGGATTCAA
548761 AATTTGAATTATATT
1 AATTTGAATTATATT
* *
548776 AATTTGACTGA-A--
1 AATTTGAATTATATT
548788 AATTTGAATTATATT
1 AATTTGAATTATATT
548803 AATTTGA
1 AATTTGA
548810 CTGAAAATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
12 9 0.33
13 1 0.04
14 1 0.04
15 16 0.59
ACGTcount: A:0.41, C:0.02, G:0.10, T:0.47
Consensus pattern (15 bp):
AATTTGAATTATATT
Found at i:548797 original size:27 final size:27
Alignment explanation
Indices: 548759--548831 Score: 137
Period size: 27 Copynumber: 2.7 Consensus size: 27
548749 AAATGGATTC
548759 AAAATTTGAATTATATTAATTTGACTG
1 AAAATTTGAATTATATTAATTTGACTG
548786 AAAATTTGAATTATATTAATTTGACTG
1 AAAATTTGAATTATATTAATTTGACTG
*
548813 AAAATTTGAATTACATTAA
1 AAAATTTGAATTATATTAA
548832 ACTAAATGAC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.44, C:0.04, G:0.10, T:0.42
Consensus pattern (27 bp):
AAAATTTGAATTATATTAATTTGACTG
Found at i:548869 original size:12 final size:12
Alignment explanation
Indices: 548852--548903 Score: 52
Period size: 12 Copynumber: 4.1 Consensus size: 12
548842 TAAAACATAA
548852 TAAAATAAAATT
1 TAAAATAAAATT
548864 TAAAATATAAA-T
1 TAAAATA-AAATT
548876 TAAAATTAAAATT
1 TAAAA-TAAAATT
*
548889 CATAAAATATAATT
1 --TAAAATAAAATT
548903 T
1 T
548904 TAGTGATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
12 17 0.50
13 6 0.18
14 6 0.18
15 5 0.15
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (12 bp):
TAAAATAAAATT
Found at i:550083 original size:21 final size:21
Alignment explanation
Indices: 550053--550113 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 21
550043 GGTGTTGGGT
*
550053 CGGG-TTTGGATCTGGGCTTC
1 CGGGTTTTGGATCTGGGCCTC
* *
550073 CGGGTTTTGGATCTAGACCTC
1 CGGGTTTTGGATCTGGGCCTC
* *
550094 CGGGTTCTAGATCTGGGCCT
1 CGGGTTTTGGATCTGGGCCT
550114 ATAAAATTAA
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
20 4 0.12
21 29 0.88
ACGTcount: A:0.10, C:0.23, G:0.34, T:0.33
Consensus pattern (21 bp):
CGGGTTTTGGATCTGGGCCTC
Found at i:550151 original size:3 final size:3
Alignment explanation
Indices: 550145--550190 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
550135 ATTATTTTTT
*
550145 ATA ATA ATA ATA ATA ATA ACA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
550191 ATGGGACAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:550432 original size:4 final size:4
Alignment explanation
Indices: 550423--550503 Score: 63
Period size: 4 Copynumber: 20.2 Consensus size: 4
550413 TTTGTTTTGC
* * * * * *
550423 CTCT CTCT CTCT CTCC CTCT CCCT CCCT CCCT CCCT CTCT CTCT CCCT
1 CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT
* * * * *
550471 CTCT CCCT CCCT CTCC CTCC CCCT CTCT CTCT C
1 CTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT C
550504 CTTTCCCTCC
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
4 65 1.00
ACGTcount: A:0.00, C:0.64, G:0.00, T:0.36
Consensus pattern (4 bp):
CTCT
Found at i:550514 original size:4 final size:4
Alignment explanation
Indices: 550441--550532 Score: 93
Period size: 4 Copynumber: 23.8 Consensus size: 4
550431 CTCTCTCCCT
* * *
550441 CTCC CTCC CTCC CTCC CTCT CTCT CTCC CTCT CTCC CTCC CT-- CTCC
1 CTCC CTCC CTCC CTCC CTCC CTCC CTCC CTCC CTCC CTCC CTCC CTCC
* * *
550487 CT-C C-CC CTCT CTCT CTCC TTTCC CTCC CTCC CTCC CTCC CTCC CTC
1 CTCC CTCC CTCC CTCC CTCC -CTCC CTCC CTCC CTCC CTCC CTCC CTC
550533 TCCCTCTAAA
Statistics
Matches: 75, Mismatches: 8, Indels: 10
0.81 0.09 0.11
Matches are distributed among these distances:
2 2 0.03
3 4 0.05
4 66 0.88
5 3 0.04
ACGTcount: A:0.00, C:0.67, G:0.00, T:0.33
Consensus pattern (4 bp):
CTCC
Found at i:554379 original size:25 final size:25
Alignment explanation
Indices: 554344--554395 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
554334 ATTTCCAATG
* * *
554344 ATGTTATTATAGAGTATGCTACAAA
1 ATGTTACTATAAAGTATGATACAAA
554369 ATGTTACTATAAAGTATGATACAAA
1 ATGTTACTATAAAGTATGATACAAA
554394 AT
1 AT
554396 TAAGCGATCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.35
Consensus pattern (25 bp):
ATGTTACTATAAAGTATGATACAAA
Found at i:572239 original size:28 final size:26
Alignment explanation
Indices: 572182--572237 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
572172 TCGCTTGAAA
572182 AAAAATG-AA-AAAGACAAAAAAATG
1 AAAAATGAAAGAAAGACAAAAAAATG
*
572206 AAAAATGAAAGAAAGAGAAAAAAATG
1 AAAAATGAAAGAAAGACAAAAAAATG
572232 AGAAAA
1 A-AAAA
572238 ATAAAAGGAG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 7 0.25
25 2 0.07
26 15 0.54
27 4 0.14
ACGTcount: A:0.75, C:0.02, G:0.16, T:0.07
Consensus pattern (26 bp):
AAAAATGAAAGAAAGACAAAAAAATG
Found at i:572244 original size:28 final size:26
Alignment explanation
Indices: 572191--572244 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
572181 AAAAAATGAA
*
572191 AAAGACAAAAAAATGAAAAATGAAAG
1 AAAGACAAAAAAATGAAAAATAAAAG
*
572217 AAAGAGAAAAAAATGAGAAAAATAAAAG
1 AAAGACAAAAAAAT--GAAAAATAAAAG
572245 GAGGGTTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 13 0.54
28 11 0.46
ACGTcount: A:0.74, C:0.02, G:0.17, T:0.07
Consensus pattern (26 bp):
AAAGACAAAAAAATGAAAAATAAAAG
Found at i:573426 original size:48 final size:48
Alignment explanation
Indices: 573368--574078 Score: 801
Period size: 48 Copynumber: 15.6 Consensus size: 48
573358 ATGGATCAAC
* * *
573368 TCTCCCAGATTTGATATTCCCTTCAGAGTAAGTGAAACAGGTCTCTCT
1 TCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTCTCT
573416 TCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAG----TC-
1 TCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTCTCT
* * * * *
573459 T-GCC-ATATCTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCT
1 TCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTCTCT
*
573505 TCTCAAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAG----TC-
1 TCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTCTCT
* * * * *
573548 T-GCC-ATATCTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCT
1 TCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTCTCT
* * *
573594 TCTCAAAGATTTGATATTCCCCTCAGAGTAAGTGGAACAAGTCTCTAT
1 TCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTCTCT
* * * * * *
573642 TCTCCAAGATCTGATATTCCTTTTAGAGTAAGCGGAACAGGTCTATCT
1 TCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTCTCT
573690 TCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAG----TC-
1 TCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTCTCT
* * *
573733 T-GCC-AGATTTGATATTCCCTTCAGAGTAAGTGAAACATGTCTCTCT
1 TCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTCTCT
573779 TCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAG----TC-
1 TCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTCTCT
* * * * *
573822 T-GCC-ATATCTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCT
1 TCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTCTCT
* * *
573868 TCTCAAAGATTTGATATTCCCCTCAGAGTAAGTGGAACAAGTCTCTAT
1 TCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTCTCT
* *
573916 TCTCCAAGATCTGATATTCCCTTCAGAGTAAGCGGAACAAGTCTCTCT
1 TCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTCTCT
573964 TCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAG----TC-
1 TCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTCTCT
* * *
574007 T-GCC-AGATCTGATATTCCCTTCAGAGTAAGTGGAACAGGTCTCT-T
1 TCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTCTCT
* *
574052 TTTCCATGATTTGATATTCCCTTCAGA
1 TCTCCAAGATTTGATATTCCCTTCAGA
574079 AGAAACGAAA
Statistics
Matches: 554, Mismatches: 74, Indels: 71
0.79 0.11 0.10
Matches are distributed among these distances:
41 159 0.29
42 9 0.02
43 5 0.01
44 10 0.02
45 10 0.02
46 6 0.01
47 24 0.04
48 331 0.60
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.32
Consensus pattern (48 bp):
TCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTCTCT
Found at i:573530 original size:89 final size:89
Alignment explanation
Indices: 573372--574078 Score: 1065
Period size: 89 Copynumber: 7.8 Consensus size: 89
573362 ATCAACTCTC
* * *
573372 CCAGATTTGATATTCCCTTCAGAGTAAGTGAAACAGGTCTCTCTTCTCCAAGATTTGATATTCCC
1 CCAGATCTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCTTCTCCAAGATTTGATATTCCC
573437 TTCAGAGTAAGTGGAACAAGTCTG
66 TTCAGAGTAAGTGGAACAAGTCTG
* *
573461 CCATATCTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCTTCTCAAAGATTTGATATTCCC
1 CCAGATCTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCTTCTCCAAGATTTGATATTCCC
573526 TTCAGAGTAAGTGGAACAAGTCTG
66 TTCAGAGTAAGTGGAACAAGTCTG
* *
573550 CCATATCTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCTTCTCAAAGATTTGATATTCCC
1 CCAGATCTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCTTCTCCAAGATTTGATATTCCC
* *
573615 CTCAGAGTAAGTGGAACAAGTCTCTATTCT
66 TTCAGAGTAAGTGGAACAAG--TC---T-G
* * *
573645 CCAAGATCTGATATTCCTTTTAGAGTAAGCGGAACAGGTCTATCTTCTCCAAGATTTGATATTCC
1 CC-AGATCTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCTTCTCCAAGATTTGATATTCC
573710 CTTCAGAGTAAGTGGAACAAGTCTG
65 CTTCAGAGTAAGTGGAACAAGTCTG
* * * *
573735 CCAGATTTGATATTCCCTTCAGAGTAAGTGAAACATGTCTCTCTTCTCCAAGATTTGATATTCCC
1 CCAGATCTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCTTCTCCAAGATTTGATATTCCC
573800 TTCAGAGTAAGTGGAACAAGTCTG
66 TTCAGAGTAAGTGGAACAAGTCTG
* *
573824 CCATATCTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCTTCTCAAAGATTTGATATTCCC
1 CCAGATCTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCTTCTCCAAGATTTGATATTCCC
* *
573889 CTCAGAGTAAGTGGAACAAGTCTCTATTCT
66 TTCAGAGTAAGTGGAACAAG--TC---T-G
*
573919 CCAAGATCTGATATTCCCTTCAGAGTAAGCGGAACAAGTCTCTCTTCTCCAAGATTTGATATTCC
1 CC-AGATCTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCTTCTCCAAGATTTGATATTCC
573984 CTTCAGAGTAAGTGGAACAAGTCTG
65 CTTCAGAGTAAGTGGAACAAGTCTG
* * *
574009 CCAGATCTGATATTCCCTTCAGAGTAAGTGGAACAGGTCTCT-TTTTCCATGATTTGATATTCCC
1 CCAGATCTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCTTCTCCAAGATTTGATATTCCC
574073 TTCAGA
66 TTCAGA
574079 AGAAACGAAA
Statistics
Matches: 566, Mismatches: 38, Indels: 29
0.89 0.06 0.05
Matches are distributed among these distances:
88 26 0.05
89 364 0.64
90 4 0.01
91 6 0.01
94 6 0.01
95 4 0.01
96 156 0.28
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (89 bp):
CCAGATCTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCTTCTCCAAGATTTGATATTCCC
TTCAGAGTAAGTGGAACAAGTCTG
Found at i:573868 original size:274 final size:274
Alignment explanation
Indices: 573368--574078 Score: 1271
Period size: 274 Copynumber: 2.6 Consensus size: 274
573358 ATGGATCAAC
* * * *
573368 TCTCCCAGATTTGATATTCCCTTCAGAGTAAGTGAAACAGGTCTCTCTTCTCCAAGATTTGATAT
1 TCTCCAAGATCTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCTTCTCCAAGATTTGATAT
* *
573433 TCCCTTCAGAGTAAGTGGAACAAGTCTGCCATATCTGATATTCCCTTCAGAGTAAGCGGAACAGG
66 TCCCTTCAGAGTAAGTGGAACAAGTCTGCCAGATCTGATATTCCCTTCAGAGTAAGTGGAACAGG
*
573498 TCTCTCTTCTCAAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCCATATCTGATAT
131 TCTCTCTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCCATATCTGATAT
573563 TCCCTTCAGAGTAAGCGGAACAGGTCTCTCTTCTCAAAGATTTGATATTCCCCTCAGAGTAAGTG
196 TCCCTTCAGAGTAAGCGGAACAGGTCTCTCTTCTCAAAGATTTGATATTCCCCTCAGAGTAAGTG
573628 GAACAAGTCTCTAT
261 GAACAAGTCTCTAT
* * *
573642 TCTCCAAGATCTGATATTCCTTTTAGAGTAAGCGGAACAGGTCTATCTTCTCCAAGATTTGATAT
1 TCTCCAAGATCTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCTTCTCCAAGATTTGATAT
* * *
573707 TCCCTTCAGAGTAAGTGGAACAAGTCTGCCAGATTTGATATTCCCTTCAGAGTAAGTGAAACATG
66 TCCCTTCAGAGTAAGTGGAACAAGTCTGCCAGATCTGATATTCCCTTCAGAGTAAGTGGAACAGG
573772 TCTCTCTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCCATATCTGATAT
131 TCTCTCTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCCATATCTGATAT
573837 TCCCTTCAGAGTAAGCGGAACAGGTCTCTCTTCTCAAAGATTTGATATTCCCCTCAGAGTAAGTG
196 TCCCTTCAGAGTAAGCGGAACAGGTCTCTCTTCTCAAAGATTTGATATTCCCCTCAGAGTAAGTG
573902 GAACAAGTCTCTAT
261 GAACAAGTCTCTAT
*
573916 TCTCCAAGATCTGATATTCCCTTCAGAGTAAGCGGAACAAGTCTCTCTTCTCCAAGATTTGATAT
1 TCTCCAAGATCTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCTTCTCCAAGATTTGATAT
573981 TCCCTTCAGAGTAAGTGGAACAAGTCTGCCAGATCTGATATTCCCTTCAGAGTAAGTGGAACAGG
66 TCCCTTCAGAGTAAGTGGAACAAGTCTGCCAGATCTGATATTCCCTTCAGAGTAAGTGGAACAGG
* *
574046 TCTCT-TTTTCCATGATTTGATATTCCCTTCAGA
131 TCTCTCTTCTCCAAGATTTGATATTCCCTTCAGA
574079 AGAAACGAAA
Statistics
Matches: 415, Mismatches: 22, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
273 26 0.06
274 389 0.94
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.32
Consensus pattern (274 bp):
TCTCCAAGATCTGATATTCCCTTCAGAGTAAGCGGAACAGGTCTCTCTTCTCCAAGATTTGATAT
TCCCTTCAGAGTAAGTGGAACAAGTCTGCCAGATCTGATATTCCCTTCAGAGTAAGTGGAACAGG
TCTCTCTTCTCCAAGATTTGATATTCCCTTCAGAGTAAGTGGAACAAGTCTGCCATATCTGATAT
TCCCTTCAGAGTAAGCGGAACAGGTCTCTCTTCTCAAAGATTTGATATTCCCCTCAGAGTAAGTG
GAACAAGTCTCTAT
Found at i:583840 original size:5 final size:5
Alignment explanation
Indices: 583827--584103 Score: 117
Period size: 5 Copynumber: 55.6 Consensus size: 5
583817 AATATTATTA
*
583827 ATAAT ATAAC ATAAT ATAAT ATAAT ATAAT A-AAT AT-AT AATAA- ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT -ATAAT ATAAT
* * *
583875 ACTAA- ATAAT AT-AT AATATAT GTACTAT ATAA- AT-AT ATACT ATACT
1 A-TAAT ATAAT ATAAT -ATA-AT ATA--AT ATAAT ATAAT ATAAT ATAAT
* *
583921 ATAAT AT-AT ATAAT A-CAT A-AAT ACT-AT ATAAAT ATACT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT A-TAAT AT-AAT ATAAT ATAAT ATAAT
* *
583969 A-ACAT ATAATAT ATAAT ATAAT ATAGT ACT-AT A-ATAT ATAAT ATACTGT
1 ATA-AT AT-A-AT ATAAT ATAAT ATAAT A-TAAT ATA-AT ATAAT ATA--AT
* * *
584018 ATAAT -T-AT ATACT ATAA- ATATT ATGATAT ATAAT ATGA- ATAAT ATAAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT AT-A-AT ATAAT ATAAT ATAAT AT-AAT
* * *
584067 GTTAT ATAAT AT-AT AT-AT AATAAT ATAAC ATAAT ATA
1 ATAAT ATAAT ATAAT ATAAT -ATAAT ATAAT ATAAT ATA
584104 TACTATATAT
Statistics
Matches: 210, Mismatches: 27, Indels: 70
0.68 0.09 0.23
Matches are distributed among these distances:
3 3 0.01
4 45 0.21
5 122 0.58
6 21 0.10
7 19 0.09
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:583874 original size:43 final size:44
Alignment explanation
Indices: 583826--584103 Score: 150
Period size: 45 Copynumber: 6.4 Consensus size: 44
583816 TAATATTATT
583826 AATAATATAACATAATATAATATAATATA-ATAAATATATAATA
1 AATAATATAACATAATATAATATAATATATATAAATATATAATA
* *
583869 AATAATACTAA-ATAATATATAATATATGTACTATATAAATATATACT-
1 AATAATA-TAACAT-A-ATATAATATA-ATA-TATATAAATATATAATA
* *
583916 -ATACTATAATAT-ATATAATACATAAATACTATATAAATATACT-AT-
1 AATAATATAACATAATATAAT--AT-AATA-TATATAAATATA-TAATA
*
583961 AAT-ATAATAACAT-ATA-ATATATAATATA-ATATAGTACTATAATA
1 AATAAT-ATAACATAATATA-ATATAATATATATA-AATA-TATAATA
* * *
584005 TATAATAT-AC-T-GTATAAT-T-ATATACTATAAATATTATGATA
1 AATAATATAACATAATATAATATAATATA-TATAAATA-TATAATA
* * *
584046 TATAATATGA-ATAATATAA-AT-GT-TATAT-AATATAT-ATA
1 AATAATATAACATAATATAATATAATATATATAAATATATAATA
584084 TAATAATATAACATAATATA
1 -AATAATATAACATAATATA
584104 TACTATATAT
Statistics
Matches: 190, Mismatches: 17, Indels: 59
0.71 0.06 0.22
Matches are distributed among these distances:
38 3 0.02
39 11 0.06
40 17 0.09
41 24 0.13
42 18 0.09
43 34 0.18
44 10 0.05
45 35 0.18
46 24 0.13
47 2 0.01
48 12 0.06
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.38
Consensus pattern (44 bp):
AATAATATAACATAATATAATATAATATATATAAATATATAATA
Found at i:583893 original size:7 final size:7
Alignment explanation
Indices: 583845--584168 Score: 121
Period size: 7 Copynumber: 42.9 Consensus size: 7
583835 ACATAATATA
583845 ATATAAT
1 ATATAAT
583852 ATAATAAAT
1 AT-AT-AAT
583861 ATATAAT
1 ATATAAT
*
583868 AAATAAT
1 ATATAAT
583875 ACTAAATAAT
1 A-T--ATAAT
583885 ATATAAT
1 ATATAAT
*
583892 ATATGTACT
1 ATA--TAAT
583901 ATATAAAT
1 ATAT-AAT
583909 ATATACTAT
1 ATATA--AT
583918 ACTATAAT
1 A-TATAAT
583926 ATAT-AT
1 ATATAAT
583932 A-ATACAT
1 ATATA-AT
* *
583939 AAATACT
1 ATATAAT
583946 ATATAA-
1 ATATAAT
583952 ATAT-A-
1 ATATAAT
*
583957 CTATAAT
1 ATATAAT
*
583964 ATAATAAC
1 AT-ATAAT
583972 ATATAAT
1 ATATAAT
583979 ATATAAT
1 ATATAAT
583986 ATAATATAGT
1 AT-ATA-A-T
583996 ACTATAAT
1 A-TATAAT
584004 ATATAAT
1 ATATAAT
*
584011 ATACT-GT
1 ATA-TAAT
*
584018 ATA-ATT
1 ATATAAT
*
584024 ATATACT
1 ATATAAT
584031 ATA-AAT
1 ATATAAT
*
584037 ATTATGAT
1 A-TATAAT
584045 ATATAAT
1 ATATAAT
584052 ATGAATAAT
1 AT--ATAAT
584061 ATA-AATGTT
1 ATATAA---T
584070 ATATAAT
1 ATATAAT
584077 ATAT-AT
1 ATATAAT
584083 ATAATAAT
1 AT-ATAAT
584091 ATAACATAAT
1 AT---ATAAT
*
584101 ATATACT
1 ATATAAT
584108 ATAT-AT
1 ATATAAT
*
584114 ACTATTACT
1 A-TA-TAAT
*
584123 ATTACAATAT
1 A-TA-TA-AT
584133 ATATAAT
1 ATATAAT
* *
584140 ACCATACT
1 A-TATAAT
584148 ATATAAT
1 ATATAAT
584155 ATATAAT
1 ATATAAT
584162 AGTATAA
1 A-TATAA
584169 CAATATTTGT
Statistics
Matches: 245, Mismatches: 30, Indels: 83
0.68 0.08 0.23
Matches are distributed among these distances:
5 6 0.02
6 23 0.09
7 107 0.44
8 47 0.19
9 35 0.14
10 26 0.11
11 1 0.00
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (7 bp):
ATATAAT
Found at i:583909 original size:17 final size:17
Alignment explanation
Indices: 583883--584134 Score: 67
Period size: 17 Copynumber: 15.8 Consensus size: 17
583873 ATACTAAATA
583883 ATATATAATATATGTACT
1 ATATATAATATAT-TACT
583901 ATATA-AATATA-TACT
1 ATATATAATATATTACT
583916 ATACTATAATATA-TA-T
1 ATA-TATAATATATTACT
* *
583932 A-ATA-CATA-AATACT
1 ATATATAATATATTACT
*
583946 ATATA-AATATACTA-T
1 ATATATAATATATTACT
*
583961 A-ATATAATA-ACATA-T
1 ATATATAATATA-TTACT
*
583976 AATATATAATATAATA-T
1 -ATATATAATATATTACT
*
583993 AGTACTATAATATA-TAAT
1 A-TA-TATAATATATTACT
*
584011 ATACTGT-ATA-ATTA-T
1 ATA-TATAATATATTACT
584026 ATACTATAA-ATATTA-T
1 ATA-TATAATATATTACT
584042 GATATATAATATGA--A-T
1 -ATATATAATAT-ATTACT
*
584058 A-ATATAA-ATGTTA-T
1 ATATATAATATATTACT
* *
584072 ATAATATATATATAATAAT
1 AT-ATATA-ATATATTACT
*
584091 ATAACATAATATA-TACT
1 AT-ATATAATATATTACT
*
584108 ATATAT-A-CTATTACT
1 ATATATAATATATTACT
*
584123 AT-TACAATATAT
1 ATATATAATATAT
584135 ATAATACCAT
Statistics
Matches: 189, Mismatches: 15, Indels: 62
0.71 0.06 0.23
Matches are distributed among these distances:
12 1 0.01
13 7 0.04
14 21 0.11
15 41 0.22
16 38 0.20
17 46 0.24
18 27 0.14
19 8 0.04
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.40
Consensus pattern (17 bp):
ATATATAATATATTACT
Found at i:584096 original size:124 final size:130
Alignment explanation
Indices: 583816--584124 Score: 294
Period size: 124 Copynumber: 2.4 Consensus size: 130
583806 AAACCAAAAG
583816 TAATAT-TAT-TAATAATATAACATA-ATATAATATAATATAATAAATATA-TAATAAATAATAC
1 TAATATATATATAATAATATAACATATA-AT-ATATAATATAAT--ATATACT-ATAAATAATAC
*
583877 TAAATAATATATAATATATGTACTATATAAATATATACTATACTATAATATATATAATACATAAA
61 TAAATAATATATAATATATATAC-ATATAAATATATACTATACTATAATATATATAATA-ATAAA
583942 TACTATA
124 TACTATA
583949 TAA-ATATACTATAAT-ATAATAACATATAATATATAATATAATATAGTACTAT-AAT-ATA-TA
1 TAATATATA-TATAATAAT-ATAACATATAATATATAATATAATATA-TACTATAAATAATACTA
* *
584009 ATATACTGTATAAT-TATATAC-TATAAATAT-TA-TGATA-TATAATATGA-ATAAT-ATAAAT
63 A-ATAATATATAATATATATACATATAAATATATACT-ATACTATAATAT-ATATAATAATAAAT
**
584067 GTTATA
125 ACTATA
*
584073 TAATATATATATAATAATATAAC--ATAATATATACTATATATACTATTACTAT
1 TAATATATATATAATAATATAACATATAATATATAATATA-ATA-TA-TACTAT
584125 TACAATATAT
Statistics
Matches: 155, Mismatches: 7, Indels: 37
0.78 0.04 0.19
Matches are distributed among these distances:
122 14 0.09
123 3 0.02
124 32 0.21
125 7 0.05
126 14 0.09
127 6 0.04
128 9 0.06
130 9 0.06
131 13 0.08
132 8 0.05
133 9 0.06
134 16 0.10
135 14 0.09
136 1 0.01
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (130 bp):
TAATATATATATAATAATATAACATATAATATATAATATAATATATACTATAAATAATACTAAAT
AATATATAATATATATACATATAAATATATACTATACTATAATATATATAATAATAAATACTATA
Found at i:589629 original size:2 final size:2
Alignment explanation
Indices: 589622--589665 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
589612 GAAAAAGGGA
589622 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
589664 AT
1 AT
589666 GTGTGTGTGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:589670 original size:2 final size:2
Alignment explanation
Indices: 589665--589693 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
589655 TATATATATA
589665 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
589694 ATATATATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Done.