Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007851.1 Hibiscus syriacus cultivar Beakdansim tig00110210_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: 1608033
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 9
Found at i:480138 original size:109 final size:112
Alignment explanation
Indices: 479923--480255 Score: 458
Period size: 109 Copynumber: 3.0 Consensus size: 112
479913 AGAATTATGA
* * * * * *
479923 AAAAGGTTGAACAAGCTCTTCTTATTGTGAACTTCTTCTTCC-TCTTCAGATAAGTTCTTCTTAT
1 AAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAGAA-TTCTTCTCAT
* * * *
479987 TATGAACTTTCTCTGGAAATGTTGACCCATCAAGTGATGAATTTGAAC
65 TATGAACTCTATCTGGAAATGCTGATCCATCAAGTGATGAATTTGAAC
480035 AAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG-GAATTCTTCTCA-T
1 AAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAGAATTCTTCTCATT
* * *
480098 ATG-ACTCGAACTGGAAAAGCTGATCCATCAAGTGATGAATTTGAAC
66 ATGAACTCTATCTGGAAATGCTGATCCATCAAGTGATGAATTTGAAC
* *
480144 AAAAGGTTAAACAAGTTCTTCTCATTATGAACTCCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGA-GAATTCTTCTCAT
* * *
480209 TATGAACTCTATCTGGTAATGCTGATCCATCAATTGATGGATTTGAA
65 TATGAACTCTATCTGGAAATGCTGATCCATCAAGTGATGAATTTGAA
480256 TCTTTGCTAA
Statistics
Matches: 195, Mismatches: 21, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
109 85 0.44
110 4 0.02
111 19 0.10
112 44 0.23
113 43 0.22
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.37
Consensus pattern (112 bp):
AAAAGGTTAAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAGAATTCTTCTCATT
ATGAACTCTATCTGGAAATGCTGATCCATCAAGTGATGAATTTGAAC
Found at i:480138 original size:345 final size:354
Alignment explanation
Indices: 479564--480216 Score: 934
Period size: 345 Copynumber: 1.9 Consensus size: 354
479554 GAGTCATTCC
* * * *
479564 AAAGGTTGAATAAGCTCTTCTTATTTTGAACTTCTTCTTTCTTCTTCAGATGAGTTCTTCTCATT
1 AAAGGTTGAACAAGCTCTTCTTATTGTGAACTTCTTCTTTCCTCTTCAGATAAGTTCTTCTCATT
* **
479629 ATGAACTTTCTCTGGAAAGGTTGATGCTAATCTATCTGCTTCTGTGATAGAATTATGCAAAAGGT
66 ATGAACTTTCTCTGGAAAGGTTGA-GC--A-CCA-CTGC-TAAGTGATAGAATTATGCAAAAGGT
* * * *
479694 TGAACAAGCTCTTCTCATTGTGAACTTCTTCTTCCTCTTAAGATAAGTTCTTCTTATTATGAACT
125 TAAACAAGCTCTTCTCATTATGAACTTCTTCTTCCTCTTAAGAGAAGTTCTTCTCATTATGAACT
**** * *
479759 TTCTCTGGAAATGTTGATCCATCAAGTGATGAATTTGAACAAAAGGTTAAACAAGTTCTTCTCAT
190 CGAACTGGAAAAGCTGATCCATCAAGTGATGAATTTGAACAAAAGGTTAAACAAGTTCTTCTCAT
*
479824 TATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGGGAAAGCTAA
255 TATGAACTCCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGGGAAAGCTAA
479889 TGCTAATCTATCTGCTTCTGTGATAGAATTATGAA
320 TGCTAATCTATCTGCTTCTGTGATAGAATTATGAA
*
479924 AAAGGTTGAACAAGCTCTTCTTATTGTGAACTTCTTC-TTCCTCTTCAGATAAGTTCTTCTTATT
1 AAAGGTTGAACAAGCTCTTCTTATTGTGAACTTCTTCTTTCCTCTTCAGATAAGTTCTTCTCATT
*
479988 ATGAACTTTCTCTGGAAATGTTGA-C-CCA-T-C-AAGTGAT-GAATT-TGAACAAAAGGTTAAA
66 ATGAACTTTCTCTGGAAAGGTTGAGCACCACTGCTAAGTGATAGAATTATG--CAAAAGGTTAAA
* *
480046 CAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAG-GAA-TTCTTCTCA-TATG-ACTCGA
129 CAAGCTCTTCTCATTATGAACTTCTTCTTCC-TCTTAAGAGAAGTTCTTCTCATTATGAACTCGA
480107 ACTGGAAAAGCTGATCCATCAAGTGATGAATTTGAACAAAAGGTTAAACAAGTTCTTCTCATTAT
193 ACTGGAAAAGCTGATCCATCAAGTGATGAATTTGAACAAAAGGTTAAACAAGTTCTTCTCATTAT
*
480172 GAACTCCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACT
258 GAACTCCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACT
480217 CTATCTGGTA
Statistics
Matches: 267, Mismatches: 23, Indels: 21
0.86 0.07 0.07
Matches are distributed among these distances:
345 108 0.40
346 6 0.02
347 13 0.05
348 47 0.18
349 6 0.02
350 1 0.00
351 1 0.00
353 2 0.01
357 1 0.00
359 47 0.18
360 35 0.13
ACGTcount: A:0.28, C:0.19, G:0.15, T:0.39
Consensus pattern (354 bp):
AAAGGTTGAACAAGCTCTTCTTATTGTGAACTTCTTCTTTCCTCTTCAGATAAGTTCTTCTCATT
ATGAACTTTCTCTGGAAAGGTTGAGCACCACTGCTAAGTGATAGAATTATGCAAAAGGTTAAACA
AGCTCTTCTCATTATGAACTTCTTCTTCCTCTTAAGAGAAGTTCTTCTCATTATGAACTCGAACT
GGAAAAGCTGATCCATCAAGTGATGAATTTGAACAAAAGGTTAAACAAGTTCTTCTCATTATGAA
CTCCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGAACTTTCTCTGGGAAAGCTAATGCTAA
TCTATCTGCTTCTGTGATAGAATTATGAA
Found at i:481202 original size:93 final size:93
Alignment explanation
Indices: 481042--482166 Score: 1747
Period size: 93 Copynumber: 12.2 Consensus size: 93
481032 CTTATTTCTA
* *
481042 CTATGAGCACATTCATCTT-TCAAATCCAATGATTGGTTTTTGTGGTTCATACCAAACCAGATTA
1 CTATGAGCACATTCATCTTCTCAAATCCAATGATTGGTTTTT-AGGTTCATACCAAACCAGATCA
*
481106 GATATCTCAAAGAACACTTCCAGAAGATG
65 GATAACTCAAAGAACACTTCCAGAAGATG
481135 CTATGAGCACATTCATCTTCT-AAATCCAATGATTGGTTTTTAAGGTTCATACCAAACCAGATCA
1 CTATGAGCACATTCATCTTCTCAAATCCAATGATTGGTTTTT-AGGTTCATACCAAACCAGATCA
481199 GATAACTCAAAGAACACTTCCAGAAGATG
65 GATAACTCAAAGAACACTTCCAGAAGATG
* *
481228 CTATGAGCACATTCATCTTC-CAAATTCAATGATTGGTTTTTAGGTTTATACCAAACCAGATCAG
1 CTATGAGCACATTCATCTTCTCAAATCCAATGATTGGTTTTTAGGTTCATACCAAACCAGATCAG
*
481292 ATAACTCAAAGAACACTTCCAGAATATG
66 ATAACTCAAAGAACACTTCCAGAAGATG
* * * * *
481320 CTATGAGCACATTCAT-TTTTCAAGTCCAATGATGGGGTTTTGGAGTTCATACCAAACCAGATCA
1 CTATGAGCACATTCATCTTCTCAAATCCAATGATTGGTTTTTAG-GTTCATACCAAACCAGATCA
481384 GATAACTCAAAGAACACTTCCAGAAGATG
65 GATAACTCAAAGAACACTTCCAGAAGATG
* *
481413 CTATGAGCACATTCATCTTC-CAAATCCAATGATTAGTTTTTAGGGTTCATATCAAACCAGATCA
1 CTATGAGCACATTCATCTTCTCAAATCCAATGATTGGTTTTTA-GGTTCATACCAAACCAGATCA
481477 GATAACTCAAAGAACACTTCCAGAAGATG
65 GATAACTCAAAGAACACTTCCAGAAGATG
* *
481506 CTATGAGCACATTCATCTTC-CAAATTCAATGATTGGTTTTTAGGTTTATACCAAACCAGATCAG
1 CTATGAGCACATTCATCTTCTCAAATCCAATGATTGGTTTTTAGGTTCATACCAAACCAGATCAG
481570 ATAACTCAAAGAACACTTCCAGAAGATG
66 ATAACTCAAAGAACACTTCCAGAAGATG
* * * *
481598 CTATGAGCACATTCAT-TTTTCAAGT-CGATGATTGGTTTTTAGGTTTATACCAAACCAGATCAG
1 CTATGAGCACATTCATCTTCTCAAATCCAATGATTGGTTTTTAGGTTCATACCAAACCAGATCAG
*
481661 ATAACTCAAAGAACACTTCCAAAAGATG
66 ATAACTCAAAGAACACTTCCAGAAGATG
* * * * *
481689 CTATGAGCACATTCAT-TTTTCAAGTCCAATGATGGGGTTTTGGAGTTCATACCAAACCAGATCA
1 CTATGAGCACATTCATCTTCTCAAATCCAATGATTGGTTTTTAG-GTTCATACCAAACCAGATCA
481753 GATAACTCAAAGAACACTTCCAGAAGATG
65 GATAACTCAAAGAACACTTCCAGAAGATG
* *
481782 CTATGAGCACATTCATCTTC-CAAATCCAATGATTAGTTTTTAGGGTTCATATCAAACCAGATCA
1 CTATGAGCACATTCATCTTCTCAAATCCAATGATTGGTTTTTA-GGTTCATACCAAACCAGATCA
481846 GATAACTCAAAGAACACTTCCAGAAGATG
65 GATAACTCAAAGAACACTTCCAGAAGATG
* *
481875 CTATGAGCACATTCATCTTC-CAAATTCAATGATTGGTTTTTAGGTTTATACCAAACCAGATCAG
1 CTATGAGCACATTCATCTTCTCAAATCCAATGATTGGTTTTTAGGTTCATACCAAACCAGATCAG
481939 ATAACTCAAAGAACACTTCCAGAAGATG
66 ATAACTCAAAGAACACTTCCAGAAGATG
* * * *
481967 CTATGAGCACATTCAT-TTTTCAAGT-CGATGATTGGTTTTTAGGTTTATACCAAACCAGATCAG
1 CTATGAGCACATTCATCTTCTCAAATCCAATGATTGGTTTTTAGGTTCATACCAAACCAGATCAG
482030 ATAACTCAAAGAACACTTCCAGAAGATG
66 ATAACTCAAAGAACACTTCCAGAAGATG
* * * * *
482058 CTATGAGCACATTCAT-TTTTCAAGTCCAATGATGGGGTTTTGGAGTTCATACCAAACCAGATCA
1 CTATGAGCACATTCATCTTCTCAAATCCAATGATTGGTTTTTAG-GTTCATACCAAACCAGATCA
482122 GATAACTCAAAGAACACTTCCAGAAGATG
65 GATAACTCAAAGAACACTTCCAGAAGATG
482151 CTATGAGCACATTCAT
1 CTATGAGCACATTCAT
482167 TTTTTACTTG
Statistics
Matches: 963, Mismatches: 55, Indels: 28
0.92 0.05 0.03
Matches are distributed among these distances:
91 185 0.19
92 245 0.25
93 526 0.55
94 7 0.01
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (93 bp):
CTATGAGCACATTCATCTTCTCAAATCCAATGATTGGTTTTTAGGTTCATACCAAACCAGATCAG
ATAACTCAAAGAACACTTCCAGAAGATG
Found at i:481539 original size:278 final size:277
Alignment explanation
Indices: 481042--482170 Score: 1798
Period size: 278 Copynumber: 4.1 Consensus size: 277
481032 CTTATTTCTA
* * *
481042 CTATGAGCACATTCATCTTTCAAATCCAATGATTGGTTTTTGTGGTTCATACCAAACCAGATTAG
1 CTATGAGCACATTCATTTTTCAAATCCAATGATTGGTTTTT-AGGTTCATACCAAACCAGATCAG
* *
481107 ATATCTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCTAAATCCAATGATTGGT
65 ATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAATCCAATGATTGGT
*
481172 TTTTAAGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCA
130 TTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCA
* *
481237 CATTCATCTTCCAAATTCAATGATTGGTTTTTAGGTTTATACCAAACCAGATCAGATAACTCAAA
195 CATTCATCTTCCAAATCCAATGATTGGTTTTTAGGTTCATACCAAACCAGATCAGATAACTCAAA
*
481302 GAACACTTCCAGAATATG
260 GAACACTTCCAGAAGATG
* * * *
481320 CTATGAGCACATTCATTTTTCAAGTCCAATGATGGGGTTTTGGAGTTCATACCAAACCAGATCAG
1 CTATGAGCACATTCATTTTTCAAATCCAATGATTGGTTTTTAG-GTTCATACCAAACCAGATCAG
*
481385 ATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAATCCAATGATTAGT
65 ATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAATCCAATGATTGGT
*
481450 TTTTAGGGTTCATATCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCA
130 TTTTAGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCA
* *
481515 CATTCATCTTCCAAATTCAATGATTGGTTTTTAGGTTTATACCAAACCAGATCAGATAACTCAAA
195 CATTCATCTTCCAAATCCAATGATTGGTTTTTAGGTTCATACCAAACCAGATCAGATAACTCAAA
481580 GAACACTTCCAGAAGATG
260 GAACACTTCCAGAAGATG
* * *
481598 CTATGAGCACATTCATTTTTCAAGT-CGATGATTGGTTTTTAGGTTTATACCAAACCAGATCAGA
1 CTATGAGCACATTCATTTTTCAAATCCAATGATTGGTTTTTAGGTTCATACCAAACCAGATCAGA
* * * * * *
481662 TAACTCAAAGAACACTTCCAAAAGATGCTATGAGCACATTCATTTTTCAAGTCCAATGATGGGGT
66 TAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAATCCAATGATTGGTT
481727 TTT-GGAGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCA
131 TTTAGG-GTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCA
* *
481791 CATTCATCTTCCAAATCCAATGATTAGTTTTTAGGGTTCATATCAAACCAGATCAGATAACTCAA
195 CATTCATCTTCCAAATCCAATGATTGGTTTTTA-GGTTCATACCAAACCAGATCAGATAACTCAA
481856 AGAACACTTCCAGAAGATG
259 AGAACACTTCCAGAAGATG
* * * *
481875 CTATGAGCACATTCATCTTCCAAATTCAATGATTGGTTTTTAGGTTTATACCAAACCAGATCAGA
1 CTATGAGCACATTCATTTTTCAAATCCAATGATTGGTTTTTAGGTTCATACCAAACCAGATCAGA
* * * *
481940 TAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATTTTTCAAGT-CGATGATTGGTT
66 TAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAATCCAATGATTGGTT
*
482004 TTTA-GGTTTATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAC
131 TTTAGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAC
* * * * * *
482068 ATTCATTTTTCAAGTCCAATGATGGGGTTTTGGAGTTCATACCAAACCAGATCAGATAACTCAAA
196 ATTCATCTTCCAAATCCAATGATTGGTTTTTAG-GTTCATACCAAACCAGATCAGATAACTCAAA
482133 GAACACTTCCAGAAGATG
260 GAACACTTCCAGAAGATG
482151 CTATGAGCACATTCATTTTT
1 CTATGAGCACATTCATTTTT
482171 TACTTGAATC
Statistics
Matches: 797, Mismatches: 48, Indels: 14
0.93 0.06 0.02
Matches are distributed among these distances:
275 3 0.00
276 319 0.40
277 97 0.12
278 378 0.47
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.29
Consensus pattern (277 bp):
CTATGAGCACATTCATTTTTCAAATCCAATGATTGGTTTTTAGGTTCATACCAAACCAGATCAGA
TAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAATCCAATGATTGGTT
TTTAGGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAC
ATTCATCTTCCAAATCCAATGATTGGTTTTTAGGTTCATACCAAACCAGATCAGATAACTCAAAG
AACACTTCCAGAAGATG
Found at i:481739 original size:369 final size:369
Alignment explanation
Indices: 481042--482166 Score: 2090
Period size: 369 Copynumber: 3.0 Consensus size: 369
481032 CTTATTTCTA
* * * *
481042 CTATGAGCACATTCATCTTTCAAATCCAATGATTGGTTTTT-GTGGTTCATACCAAACCAGATTA
1 CTATGAGCACATTCATCTTCCAAATCCAATGATTAGTTTTTAG-GGTTCATATCAAACCAGATCA
* * *
481106 GATATCTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCTAAATCCAATGATTGG
65 GATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAATTCAATGATTGG
*
481171 TTTTTAAGGTTCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGC
130 TTTTT-AGGTTTATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGC
* * * *
481236 ACATTCATCTTCCAAATTCAATGATTGGTTTTTAGGTTTATACCAAACCAGATCAGATAACTCAA
194 ACATTCATTTTTC-AAGTCGATGATTGGTTTTTAGGTTTATACCAAACCAGATCAGATAACTCAA
*
481301 AGAACACTTCCAGAATATGCTATGAGCACATTCATTTTTCAAGTCCAATGATGGGGTTTTGGAGT
258 AGAACACTTCCAGAAGATGCTATGAGCACATTCATTTTTCAAGTCCAATGATGGGGTTTTGGAGT
481366 TCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATG
323 TCATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATG
481413 CTATGAGCACATTCATCTTCCAAATCCAATGATTAGTTTTTAGGGTTCATATCAAACCAGATCAG
1 CTATGAGCACATTCATCTTCCAAATCCAATGATTAGTTTTTAGGGTTCATATCAAACCAGATCAG
481478 ATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAATTCAATGATTGGT
66 ATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAATTCAATGATTGGT
481543 TTTTAGGTTTATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAC
131 TTTTAGGTTTATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAC
481608 ATTCATTTTTCAAGTCGATGATTGGTTTTTAGGTTTATACCAAACCAGATCAGATAACTCAAAGA
196 ATTCATTTTTCAAGTCGATGATTGGTTTTTAGGTTTATACCAAACCAGATCAGATAACTCAAAGA
*
481673 ACACTTCCAAAAGATGCTATGAGCACATTCATTTTTCAAGTCCAATGATGGGGTTTTGGAGTTCA
261 ACACTTCCAGAAGATGCTATGAGCACATTCATTTTTCAAGTCCAATGATGGGGTTTTGGAGTTCA
481738 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATG
326 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATG
481782 CTATGAGCACATTCATCTTCCAAATCCAATGATTAGTTTTTAGGGTTCATATCAAACCAGATCAG
1 CTATGAGCACATTCATCTTCCAAATCCAATGATTAGTTTTTAGGGTTCATATCAAACCAGATCAG
481847 ATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAATTCAATGATTGGT
66 ATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAATTCAATGATTGGT
481912 TTTTAGGTTTATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAC
131 TTTTAGGTTTATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAC
481977 ATTCATTTTTCAAGTCGATGATTGGTTTTTAGGTTTATACCAAACCAGATCAGATAACTCAAAGA
196 ATTCATTTTTCAAGTCGATGATTGGTTTTTAGGTTTATACCAAACCAGATCAGATAACTCAAAGA
482042 ACACTTCCAGAAGATGCTATGAGCACATTCATTTTTCAAGTCCAATGATGGGGTTTTGGAGTTCA
261 ACACTTCCAGAAGATGCTATGAGCACATTCATTTTTCAAGTCCAATGATGGGGTTTTGGAGTTCA
482107 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATG
326 TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATG
482151 CTATGAGCACATTCAT
1 CTATGAGCACATTCAT
482167 TTTTTACTTG
Statistics
Matches: 738, Mismatches: 15, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
369 543 0.74
370 69 0.09
371 125 0.17
372 1 0.00
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (369 bp):
CTATGAGCACATTCATCTTCCAAATCCAATGATTAGTTTTTAGGGTTCATATCAAACCAGATCAG
ATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCAAATTCAATGATTGGT
TTTTAGGTTTATACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAC
ATTCATTTTTCAAGTCGATGATTGGTTTTTAGGTTTATACCAAACCAGATCAGATAACTCAAAGA
ACACTTCCAGAAGATGCTATGAGCACATTCATTTTTCAAGTCCAATGATGGGGTTTTGGAGTTCA
TACCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATG
Found at i:493849 original size:18 final size:20
Alignment explanation
Indices: 493804--493850 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 20
493794 TGAAATATTA
493804 ATAAGAAAATATATAAATACT
1 ATAA-AAAATATATAAATACT
*
493825 AT-GAAAATA-ATAAATA-T
1 ATAAAAAATATATAAATACT
493842 ATAAAAAAT
1 ATAAAAAAT
493851 TTGAAAAGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
17 3 0.13
18 12 0.52
19 6 0.26
21 2 0.09
ACGTcount: A:0.66, C:0.02, G:0.04, T:0.28
Consensus pattern (20 bp):
ATAAAAAATATATAAATACT
Found at i:495944 original size:3 final size:3
Alignment explanation
Indices: 495936--496043 Score: 153
Period size: 3 Copynumber: 36.0 Consensus size: 3
495926 TATATATATT
* * *
495936 TAA TAA TAA TAA TAA TAA TAA TAA TAT TTA TAA TAA TAA TAA TTA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
495984 TAA TAA TAA TTA TAG TAA TAA TAA TAA TAA TAA TAA TAA TTA TAG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
496032 TAA TAA TAA TAA
1 TAA TAA TAA TAA
496044 ATAAATTAAA
Statistics
Matches: 91, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 91 1.00
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:495972 original size:30 final size:30
Alignment explanation
Indices: 495936--496043 Score: 180
Period size: 30 Copynumber: 3.6 Consensus size: 30
495926 TATATATATT
*
495936 TAATAATAATAATAATAATAATAATATTTA
1 TAATAATAATAATAATAATAATAATAATTA
*
495966 TAATAATAATAATTATAATAATAATAATTA
1 TAATAATAATAATAATAATAATAATAATTA
*
495996 TAGTAATAATAATAATAATAATAATAATTA
1 TAATAATAATAATAATAATAATAATAATTA
*
496026 TAGTAATAATAATAATAA
1 TAATAATAATAATAATAA
496044 ATAAATTAAA
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 74 1.00
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (30 bp):
TAATAATAATAATAATAATAATAATAATTA
Found at i:498525 original size:4 final size:4
Alignment explanation
Indices: 498512--498557 Score: 85
Period size: 4 Copynumber: 11.8 Consensus size: 4
498502 ACTATTTAAT
498512 TTTA -TTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
498558 TACATTAATT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 3 0.07
4 38 0.93
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:498730 original size:18 final size:19
Alignment explanation
Indices: 498693--498732 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
498683 GGATTACATG
498693 TAATATATATCTTATAACT
1 TAATATATATCTTATAACT
*
498712 TAATGTATATCTT-TAACT
1 TAATATATATCTTATAACT
498730 TAA
1 TAA
498733 ACTCGCATCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.40, C:0.10, G:0.03, T:0.47
Consensus pattern (19 bp):
TAATATATATCTTATAACT
Found at i:498839 original size:13 final size:13
Alignment explanation
Indices: 498821--498850 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
498811 ATATTTTTTT
498821 TTAAATTTATATC
1 TTAAATTTATATC
498834 TTAAATTTATATC
1 TTAAATTTATATC
498847 TTAA
1 TTAA
498851 CTAAAGTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (13 bp):
TTAAATTTATATC
Found at i:499002 original size:2 final size:2
Alignment explanation
Indices: 498997--499022 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
498987 AAAAAGAATA
498997 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
499023 TGCTTTAGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:499384 original size:24 final size:23
Alignment explanation
Indices: 499353--499398 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
499343 TATCGGTATA
*
499353 AAATAAATACATTAAATTAAATTT
1 AAATAAATA-AATAAATTAAATTT
*
499377 AAATAAATAAATAAATTTAATT
1 AAATAAATAAATAAATTAAATT
499399 ATCAAATTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 11 0.55
24 9 0.45
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (23 bp):
AAATAAATAAATAAATTAAATTT
Found at i:511925 original size:2 final size:2
Alignment explanation
Indices: 511918--511942 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
511908 ATTTTTATCA
511918 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
511943 AAATAAAGTC
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:515305 original size:19 final size:18
Alignment explanation
Indices: 515258--515307 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
515248 CGCTACATTT
515258 TTTTTTGTTATTTTTATGA
1 TTTTTTGTTATTTTTAT-A
*
515277 TTTTTGGTTATTTTTACT-
1 TTTTTTGTTATTTTTA-TA
515295 TTCTTTTGTTATT
1 TT-TTTTGTTATT
515308 GTCTTTTTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 2 0.07
19 24 0.89
20 1 0.04
ACGTcount: A:0.12, C:0.04, G:0.10, T:0.74
Consensus pattern (18 bp):
TTTTTTGTTATTTTTATA
Found at i:515433 original size:15 final size:17
Alignment explanation
Indices: 515413--515444 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
515403 CATAATATAA
515413 TAAATTG-AAG-TAGAT
1 TAAATTGCAAGATAGAT
515428 TAAATTGCAAGATAGAT
1 TAAATTGCAAGATAGAT
515445 AAAAATACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.47, C:0.03, G:0.19, T:0.31
Consensus pattern (17 bp):
TAAATTGCAAGATAGAT
Found at i:526898 original size:121 final size:122
Alignment explanation
Indices: 526572--526891 Score: 338
Period size: 124 Copynumber: 2.6 Consensus size: 122
526562 TCCGATGAGG
* * * * ** *
526572 GAGAAGAAGTTCATAATAAGAAGAAATTGTTCAACCATTATTCGATTCTATCACATAAGGAGTTG
1 GAGAAGAAGTTAATAATGAGAAGAACTTATTCAACC--TGCTCGATTCCATCACATAAGGAGTTG
** * * * * *
526637 GATCAGCACCATAACTACGTTTGATTCCATCATATAAGAAGTTAGGTCAACATTTTCGA
64 GATCAGCACCAGCACTACGTTTGATTCCATAAAAAAAGAAGTTAGGTCAACATTTCCAA
* * * * * *
526696 GAGAAGTAGTTCATAATTAGAAGAACTTGTTCAACCTTTGTTCGATTCCATCACATAAGTAGTTG
1 GAGAAGAAGTTAATAATGAGAAGAACTTATTCAACC--TGCTCGATTCCATCACATAAGGAGTTG
* * * *
526761 GATCAACACCAGCACTAGGTTTGATTCCATAAAAAAAG-AGTTGGGTCAACGTTTCCAA
64 GATCAGCACCAGCACTACGTTTGATTCCATAAAAAAAGAAGTTAGGTCAACATTTCCAA
* * *
526819 GAGGAGAAGTTAATAATGAGAATAACTTATTCAACAC-GCTCGATTCCATCAAATAAGGAGTTGG
1 GAGAAGAAGTTAATAATGAGAAGAACTTATTCAAC-CTGCTCGATTCCATCACATAAGGAGTTGG
526883 ATCAGCACC
65 ATCAGCACC
526892 GACACTAATG
Statistics
Matches: 167, Mismatches: 28, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
121 32 0.19
123 45 0.27
124 90 0.54
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.28
Consensus pattern (122 bp):
GAGAAGAAGTTAATAATGAGAAGAACTTATTCAACCTGCTCGATTCCATCACATAAGGAGTTGGA
TCAGCACCAGCACTACGTTTGATTCCATAAAAAAAGAAGTTAGGTCAACATTTCCAA
Found at i:535912 original size:31 final size:31
Alignment explanation
Indices: 535818--535912 Score: 74
Period size: 31 Copynumber: 3.1 Consensus size: 31
535808 CTATAGGGTA
535818 TTACTTTATTAAGTC-CATCGACTATTAAAAG
1 TTACTTTATTAAGTCTC-TCGACTATTAAAAG
** * * * *
535849 TTAC-AAAAT-GGTCAT-TCAACTA-TAGAATG
1 TTACTTTATTAAGTC-TCTCGACTATTA-AAAG
535878 TTACTTTATTAAGTCTCTCGACTATTAAAAG
1 TTACTTTATTAAGTCTCTCGACTATTAAAAG
535909 TTAC
1 TTAC
535913 AAAATGGTAA
Statistics
Matches: 45, Mismatches: 12, Indels: 14
0.63 0.17 0.20
Matches are distributed among these distances:
28 2 0.04
29 16 0.36
30 5 0.11
31 20 0.44
32 2 0.04
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (31 bp):
TTACTTTATTAAGTCTCTCGACTATTAAAAG
Found at i:536549 original size:34 final size:33
Alignment explanation
Indices: 536511--536578 Score: 109
Period size: 33 Copynumber: 2.0 Consensus size: 33
536501 GAAAATAAAT
* *
536511 CAACGTATTTGAGTCCTTATTGAAACACTAAAAC
1 CAACGTATTTGAGT-CATATTAAAACACTAAAAC
536545 CAACGTATTTGAGTCATATTAAAACACTAAAAC
1 CAACGTATTTGAGTCATATTAAAACACTAAAAC
536578 C
1 C
536579 GAAGCATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 18 0.56
34 14 0.44
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.28
Consensus pattern (33 bp):
CAACGTATTTGAGTCATATTAAAACACTAAAAC
Found at i:536575 original size:33 final size:34
Alignment explanation
Indices: 536511--536595 Score: 111
Period size: 34 Copynumber: 2.5 Consensus size: 34
536501 GAAAATAAAT
* *
536511 CAACGTATTTGAGTCCTTATTGAAACACTAAAAC
1 CAACGTATTTGAGTCCATATTAAAACACTAAAAC
536545 CAACGTATTTGAGT-CATATTAAAACACTAAAAC
1 CAACGTATTTGAGTCCATATTAAAACACTAAAAC
*
536578 CGAA-GCATTTTGAGTCCA
1 C-AACGTA-TTTGAGTCCA
536596 AGTAGGACTC
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
33 20 0.44
34 23 0.51
35 2 0.04
ACGTcount: A:0.39, C:0.20, G:0.13, T:0.28
Consensus pattern (34 bp):
CAACGTATTTGAGTCCATATTAAAACACTAAAAC
Found at i:536981 original size:26 final size:26
Alignment explanation
Indices: 536935--536990 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
536925 TAATTTTTTT
*
536935 TATTTCTTTTTACATTTATA-TATATA
1 TATTTCTTTTTACATTAATATTAT-TA
*
536961 TATTTCATTTTT-TATTAATATTATTA
1 TATTTC-TTTTTACATTAATATTATTA
536987 TATT
1 TATT
536991 AATATTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
26 18 0.69
27 8 0.31
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.64
Consensus pattern (26 bp):
TATTTCTTTTTACATTAATATTATTA
Found at i:536992 original size:14 final size:13
Alignment explanation
Indices: 536971--537004 Score: 59
Period size: 14 Copynumber: 2.5 Consensus size: 13
536961 TATTTCATTT
536971 TTTATTAATATTA
1 TTTATTAATATTA
536984 TTATATTAATATTA
1 TT-TATTAATATTA
536998 TTTATTA
1 TTTATTA
537005 TTTTTTTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 7 0.35
14 13 0.65
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTATTAATATTA
Found at i:540917 original size:110 final size:110
Alignment explanation
Indices: 540769--541419 Score: 987
Period size: 110 Copynumber: 6.0 Consensus size: 110
540759 ATGGTTGTTT
* *
540769 CTCAACTTCACAGCGAA--GGCG--TGACTGTCAACAAACAACTTTTCAGTTTCATTTAGATTCA
1 CTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCA
* * *
540830 ATTTCAACTTCACAACGAAGGATATTGGACTCGAGGCAACACAAA
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAG
* *
540875 CTCAACTTCACAGCGAAAGGGCGGCTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCA
1 CTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCA
540940 ATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAG
* *
540985 CTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAAAAACTTTTCAATTTCATTCAGAGTCA
1 CTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCA
*
541050 ATTTCAACTTCACAGCGAATGATATTGGACTCGAGACAACACAAG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAG
* * **
541095 CTCAACTTCACATCGAAGGGGTGACTGACTGTCAACAAACAACTTTAAAGTTTCATTCAGAGTCA
1 CTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCA
*
541160 ATTTCAACTTCACAGCGAAGGATATTAGACTCGAGACAACACAAG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAG
* * *
541205 CTTAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAATAACTTTTCAGTTCCATTCAGAGTCA
1 CTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCA
**
541270 ATTTCAACTTCACAGCGAAGGATATTGGACTTTAGACAACACAAG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAG
* * ** *
541315 CTCAACTTCACAGCGAATGGGCGGCTGGTTGTCAACAAACAACTTTCCAGTTTCA-T---AGTCA
1 CTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCA
* *
541376 ATTTCAACTTCAC-GCCGAAGGATATTGGCCTCGAAACAACACAA
66 ATTTCAACTTCACAG-CGAAGGATATTGGACTCGAGACAACACAA
541420 ATATTTTTCT
Statistics
Matches: 500, Mismatches: 40, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
105 1 0.00
106 60 0.12
108 4 0.01
109 1 0.00
110 434 0.87
ACGTcount: A:0.34, C:0.24, G:0.18, T:0.24
Consensus pattern (110 bp):
CTCAACTTCACAGCGAAGGGGCGACTGACTGTCAACAAACAACTTTTCAGTTTCATTCAGAGTCA
ATTTCAACTTCACAGCGAAGGATATTGGACTCGAGACAACACAAG
Found at i:541620 original size:84 final size:83
Alignment explanation
Indices: 541494--542091 Score: 483
Period size: 84 Copynumber: 7.2 Consensus size: 83
541484 GTGCCCACCA
** * * *
541494 AAAG-CCTTCGAGTTTGACTACGCTCACCTCCAAGGCATATCATTTGCAGCATAACTTAAGTCAA
1 AAAGACCTTCGAGTTCAACTACACTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCAA
541558 GAAGGGTTATCTGCCAAC
66 GAAGGGTTATCTGCCAAC
* * * * *
541576 TAAATACCTTCGAGTTCAACTACACTAAGCTCCAAGGCACATCATTTGTAGCATAGCTTAAGTCG
1 -AAAGACCTTCGAGTTCAACTACACTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCA
* *
541641 AGAAGGGCTATCT-TC--C
65 AGAAGGGTTATCTGCCAAC
* * * * * * * * *
541657 AAAGACCCTCAAGTTCAATTACACTCAGCTTCGAGGGCGCATCATTTACAGCATAACTCAAGGCT
1 AAAGACCTTCGAGTTCAACTACACTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAAGTC-
* * *
541722 AA-AAGGGTTATTTGTCACC
64 AAGAAGGGTTATCTGCCAAC
* * * * * * * * * *
541741 AAAATACCTTCAAGTTTAACTACGCTCAGCTCTAAGGCATAGCATTTGCAGCATAGCCTAAGTCG
1 -AAAGACCTTCGAGTTCAACTACACTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCA
*
541806 AGAAGGGTTATCTGCTAACC
65 AGAAGGGTTATCTGCCAA-C
* * * * ** * * * *
541826 AAAGACCTTCGAGTTCGATTATACTCATCTCCGGGGGTACATCATTTGCAGCATAACTCAAGGCT
1 AAAGACCTTCGAGTTCAACTACACTCAGCTCC-AAGGCACATCATTTGCAGCATAACTTAAGTCA
541891 AGAAGGGTTATCTGCCAAC
65 AGAAGGGTTATCTGCCAAC
** * * * ** * *
541910 AAAGACCTTCGAGTTTGACTACGCTCAGCTCAAAAGCACATCATTTATAGGATAACTTAAGTCGA
1 AAAGACCTTCGAGTTCAACTACACTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCAA
* * *
541975 GAAGGGCTATTTACCAAACC
66 GAAGGGTTATCTGCC-AA-C
* * * * * * *
541995 AAAGACATTCGAGTTCAACTCCACTCAGCTCAAAAGCACCATCATTTGCAGCATAGCTCAAGGCA
1 AAAGACCTTCGAGTTCAACTACACTCAGCTCCAAGGCA-CATCATTTGCAGCATAACTTAAGTCA
542060 AGAAGGGTTATCTG-C--C
65 AGAAGGGTTATCTGCCAAC
542076 AAAGACCTTCGAGTTC
1 AAAGACCTTCGAGTTC
542092 GATTCCATTC
Statistics
Matches: 399, Mismatches: 103, Indels: 28
0.75 0.19 0.05
Matches are distributed among these distances:
80 24 0.06
81 52 0.13
82 3 0.01
83 40 0.10
84 151 0.38
85 99 0.25
86 30 0.08
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (83 bp):
AAAGACCTTCGAGTTCAACTACACTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCAA
GAAGGGTTATCTGCCAAC
Found at i:541899 original size:169 final size:167
Alignment explanation
Indices: 541527--542077 Score: 615
Period size: 169 Copynumber: 3.3 Consensus size: 167
541517 TCACCTCCAA
* * * *
541527 GGCATATCATTTGCAGCATAACTTAAGTCAAGAAGGGTTATCTGCCAACTAAATACCTTCGAGTT
1 GGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAAC-AAATACCTTCGAGTT
* * * *
541592 CAACTACACTAAGCTCCAAGGCACATCATTTGTAGCATAGCTTAAGTCGAGAAGGGCTATCT-T-
65 TAACTACGCTCAGCTCAAAGGCACATCATTTGTAGCATAGCTTAAGTCGAGAAGGGCTATCTCTA
* * *
541655 -CCAAAGACCCTCAAGTTCAATTACACTCAGCTTCGAG
130 ACCAAAGACCTTCGAGTTCAATTACACTCAGCTCCGAG
* * * * * * *
541692 GGCGCATCATTTACAGCATAACTCAAGGCTAAAAGGGTTATTTGTCACCAAAATACCTTCAAGTT
1 GGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAAC-AAATACCTTCGAGTT
* * * * * *
541757 TAACTACGCTCAGCTCTAAGGCATAGCATTTGCAGCATAGCCTAAGTCGAGAAGGGTTATCTGCT
65 TAACTACGCTCAGCTCAAAGGCACATCATTTGTAGCATAGCTTAAGTCGAGAAGGGCTATCT-CT
* * * *
541822 AACCAAAGACCTTCGAGTTCGATTATACTCATCTCCGGG
129 AACCAAAGACCTTCGAGTTCAATTACACTCAGCTCCGAG
* *
541861 GGTACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTT
1 GGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAATACCTTCGAGTTT
* * * * * * *
541926 GACTACGCTCAGCTCAAAAGCACATCATTTATAGGATAACTTAAGTCGAGAAGGGCTATTTACCA
66 AACTACGCTCAGCTCAAAGGCACATCATTTGTAGCATAGCTTAAGTCGAGAAGGGCTATCT--CT
* * * * *
541991 AACCAAAGACATTCGAGTTCAACTCCACTCAGCT-CAAA
129 AACCAAAGACCTTCGAGTTCAATTACACTCAGCTCCGAG
* * *
542029 AGCACCATCATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAA
1 GGCA-CATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAA
542078 AGACCTTCGA
Statistics
Matches: 316, Mismatches: 64, Indels: 8
0.81 0.16 0.02
Matches are distributed among these distances:
165 106 0.34
167 1 0.00
168 66 0.21
169 143 0.45
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (167 bp):
GGCACATCATTTGCAGCATAACTCAAGGCTAGAAGGGTTATCTGCCAACAAATACCTTCGAGTTT
AACTACGCTCAGCTCAAAGGCACATCATTTGTAGCATAGCTTAAGTCGAGAAGGGCTATCTCTAA
CCAAAGACCTTCGAGTTCAATTACACTCAGCTCCGAG
Found at i:542591 original size:33 final size:33
Alignment explanation
Indices: 542549--542644 Score: 165
Period size: 33 Copynumber: 2.9 Consensus size: 33
542539 ATAAATCAAA
*
542549 GTATTTGAGTCCTATTGAAACACTAAAACCAGC
1 GTATTTGAGTCCTATTGAAACACTAAAACCAAC
*
542582 GTATTTGAGTCCTATTGAAAAACTAAAACCAAC
1 GTATTTGAGTCCTATTGAAACACTAAAACCAAC
*
542615 ATATTTGAGTCCTATTGAAACACTAAAACC
1 GTATTTGAGTCCTATTGAAACACTAAAACC
542645 GAAGCATTTT
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.28
Consensus pattern (33 bp):
GTATTTGAGTCCTATTGAAACACTAAAACCAAC
Found at i:543887 original size:22 final size:22
Alignment explanation
Indices: 543857--543914 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 22
543847 TTAAATTATG
*
543857 ATATATTTTAAAT-ATGTTATTT
1 ATATTTTTTAAATCAT-TTATTT
543879 ATATTTTTTATTAATCATTTATTT
1 ATATTTTTTA--AATCATTTATTT
*
543903 -TATTTTTAAAAT
1 ATATTTTTTAAAT
543915 TTTATTAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
21 3 0.10
22 9 0.29
23 8 0.26
24 9 0.29
25 2 0.06
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (22 bp):
ATATTTTTTAAATCATTTATTT
Found at i:544297 original size:26 final size:28
Alignment explanation
Indices: 544230--544297 Score: 68
Period size: 29 Copynumber: 2.4 Consensus size: 28
544220 TTTGATCATT
* *
544230 ACAAATTATTTCATTATTATTTTGATATG
1 ACAAATAATTT-ATTATTATTTTAATATG
**
544259 ACAACATCTTTTATTATTA-TTTAATATG
1 ACAA-ATAATTTATTATTATTTTAATATG
544287 A-AAATAATTTA
1 ACAAATAATTTA
544298 AATTATAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
26 6 0.18
27 2 0.06
28 9 0.27
29 11 0.33
30 5 0.15
ACGTcount: A:0.40, C:0.07, G:0.04, T:0.49
Consensus pattern (28 bp):
ACAAATAATTTATTATTATTTTAATATG
Found at i:545868 original size:27 final size:25
Alignment explanation
Indices: 545788--545880 Score: 104
Period size: 25 Copynumber: 3.7 Consensus size: 25
545778 GTTAACAACA
545788 ATTAAATAT-TTTATATATATTAACTT
1 ATTAAATATATTT-TAT-TATTAACTT
545814 A--AAATATATTTT-TATATTAACTT
1 ATTAAATATATTTTAT-TATTAACTT
545837 ATTAAATATATTTTATTATTAACTT
1 ATTAAATATATTTTATTATTAACTT
*
545862 AATTTAAAAATATTTTATT
1 -A-TTAAATATATTTTATT
545881 TTTATTTTCA
Statistics
Matches: 60, Mismatches: 1, Indels: 11
0.83 0.01 0.15
Matches are distributed among these distances:
23 12 0.20
24 7 0.12
25 23 0.38
26 3 0.05
27 15 0.25
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (25 bp):
ATTAAATATATTTTATTATTAACTT
Found at i:545893 original size:27 final size:27
Alignment explanation
Indices: 545791--545901 Score: 99
Period size: 27 Copynumber: 4.2 Consensus size: 27
545781 AACAACAATT
*
545791 AAATATTTTA-TA-TATA-TTAACTTAA
1 AAATATTTTATTATTA-ACTTAATTTAA
545816 AATATATTTT-TATATTAACTT-A-TTAA
1 AA-ATATTTTAT-TATTAACTTAATTTAA
*
545842 ATATATTTTATTATTAACTTAATTTAA
1 AAATATTTTATTATTAACTTAATTTAA
* ** *
545869 AAATATTTTATTTTTATTTTCATTTAA
1 AAATATTTTATTATTAACTTAATTTAA
545896 AAATAT
1 AAATAT
545902 ATACTTTATG
Statistics
Matches: 72, Mismatches: 6, Indels: 14
0.78 0.07 0.15
Matches are distributed among these distances:
25 18 0.25
26 14 0.19
27 36 0.50
28 4 0.06
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (27 bp):
AAATATTTTATTATTAACTTAATTTAA
Found at i:548547 original size:55 final size:55
Alignment explanation
Indices: 548476--548900 Score: 483
Period size: 55 Copynumber: 7.7 Consensus size: 55
548466 CTTCAAATGG
*
548476 CGGGTCCGCTCCCTATTCTTTCAAGGAGTATA-AGACTCGAACAATCTTCAGAAAA
1 CGGGTCCGCTCCCTATTCTTTCAAGGAGTATAGA-ACTCGAACAATCTTCATAAAA
* * * * * * *
548531 TGCGTCTGCTCCCTATTCATTCAGGGAGTATA-AGACTCGAATAATATTCA-ATAAA
1 CGGGTCCGCTCCCTATTCTTTCAAGGAGTATAGA-ACTCGAACAATCTTCATA-AAA
* * * *
548586 CGGGTCCGATCCCTATTCATCCAGGGAGTATAGAACTCGAACAATCTTCATAAAA
1 CGGGTCCGCTCCCTATTCTTTCAAGGAGTATAGAACTCGAACAATCTTCATAAAA
*
548641 CGGGTCCGCTCTCTATTCCTTT--AGAGAGTATAGAACTCGAACAATCTTCA-ACAAA
1 CGGGTCCGCTCCCTATT-CTTTCAAG-GAGTATAGAACTCGAACAATCTTCATA-AAA
* *
548696 CGGGTCCGCTCCCTATTCATTCAGGGAGTATAGAACTCGAACAATCTTCATAAAA
1 CGGGTCCGCTCCCTATTCTTTCAAGGAGTATAGAACTCGAACAATCTTCATAAAA
* *
548751 CGGGTCCGCTCTCTATT-TCTTC-AGAGAGTATAGAACTCGAAGAATCTTCATAAAA
1 CGGGTCCGCTCCCTATTCT-TTCAAG-GAGTATAGAACTCGAACAATCTTCATAAAA
* *
548806 CGGGTCCGCTCTCTATTCCTTC-AGAGAGTATAGAACTCGAACAATCTTCATAAAA
1 CGGGTCCGCTCCCTATTCTTTCAAG-GAGTATAGAACTCGAACAATCTTCATAAAA
* * * *
548861 CGAGTCTGCTCTCTATTCTTT-TAGAGAGTATAGAACTCGA
1 CGGGTCCGCTCCCTATTCTTTCAAG-GAGTATAGAACTCGA
548901 TCTTCATAAA
Statistics
Matches: 326, Mismatches: 31, Indels: 26
0.85 0.08 0.07
Matches are distributed among these distances:
54 7 0.02
55 313 0.96
56 6 0.02
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.28
Consensus pattern (55 bp):
CGGGTCCGCTCCCTATTCTTTCAAGGAGTATAGAACTCGAACAATCTTCATAAAA
Found at i:548670 original size:110 final size:110
Alignment explanation
Indices: 548476--548900 Score: 586
Period size: 110 Copynumber: 3.9 Consensus size: 110
548466 CTTCAAATGG
* * * * * *
548476 CGGGTCCGCTCCCTATTCTTTCAAGGAGTATA-AGACTCGAACAATCTTCAGAAAATGCGTCTGC
1 CGGGTCCGCTCCCTATTCATTCAGGGAGTATAGA-ACTCGAACAATCTTCATAAAACGGGTCCGC
* * * * *
548540 TCCCTATTCATTCAGGGAGTATA-AGACTCGAATAATATTCAATAAA
65 TCTCTATTCCTTCAGAGAGTATAGA-ACTCGAACAATCTTCAATAAA
* *
548586 CGGGTCCGATCCCTATTCATCCAGGGAGTATAGAACTCGAACAATCTTCATAAAACGGGTCCGCT
1 CGGGTCCGCTCCCTATTCATTCAGGGAGTATAGAACTCGAACAATCTTCATAAAACGGGTCCGCT
* *
548651 CTCTATTCCTTTAGAGAGTATAGAACTCGAACAATCTTCAACAAA
66 CTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAATAAA
548696 CGGGTCCGCTCCCTATTCATTCAGGGAGTATAGAACTCGAACAATCTTCATAAAACGGGTCCGCT
1 CGGGTCCGCTCCCTATTCATTCAGGGAGTATAGAACTCGAACAATCTTCATAAAACGGGTCCGCT
* *
548761 CTCTATTTCTTCAGAGAGTATAGAACTCGAAGAATCTTC-ATAAAA
66 CTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAAT-AAA
* * * * *
548806 CGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAACGAGTCTGCT
1 CGGGTCCGCTCCCTATTCATTCAGGGAGTATAGAACTCGAACAATCTTCATAAAACGGGTCCGCT
* *
548871 CTCTATTCTTTTAGAGAGTATAGAACTCGA
66 CTCTATTCCTTCAGAGAGTATAGAACTCGA
548901 TCTTCATAAA
Statistics
Matches: 283, Mismatches: 29, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
109 1 0.00
110 280 0.99
111 2 0.01
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.28
Consensus pattern (110 bp):
CGGGTCCGCTCCCTATTCATTCAGGGAGTATAGAACTCGAACAATCTTCATAAAACGGGTCCGCT
CTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCAATAAA
Found at i:548736 original size:165 final size:165
Alignment explanation
Indices: 548476--548900 Score: 576
Period size: 165 Copynumber: 2.6 Consensus size: 165
548466 CTTCAAATGG
* * *
548476 CGGGTCCGCTCCCTATT-CTTTCA-AGGAGTATA-AGACTCGAACAATCTTCAGAAAATGCGTCT
1 CGGGTCCGCTCTCTATTCCTTT-AGA-GAGTATAGA-ACTCGAACAATCTTCAGAAAACGAGTCT
*
548538 GCTCCCTATTCATTCAGGGAGTATA-AGACTCGAATAATATTCA-ATAAACGGGTCCGATCCCTA
63 GCTCCCTATTCATTCAGGGAGTATAGA-ACTCGAACAATATTCATA-AAACGGGTCCGATCCCTA
*
548601 -TTCATCCAGGGAGTATAGAACTCGAACAATCTTCATAAAA
126 TTTC-TCCAGAGAGTATAGAACTCGAACAATCTTCATAAAA
* *
548641 CGGGTCCGCTCTCTATTCCTTTAGAGAGTATAGAACTCGAACAATCTTCA-ACAAACGGGTCCGC
1 CGGGTCCGCTCTCTATTCCTTTAGAGAGTATAGAACTCGAACAATCTTCAGA-AAACGAGTCTGC
* * *
548705 TCCCTATTCATTCAGGGAGTATAGAACTCGAACAATCTTCATAAAACGGGTCCGCTCTCTATTTC
65 TCCCTATTCATTCAGGGAGTATAGAACTCGAACAATATTCATAAAACGGGTCCGATCCCTATTTC
* *
548770 TTCAGAGAGTATAGAACTCGAAGAATCTTCATAAAA
130 TCCAGAGAGTATAGAACTCGAACAATCTTCATAAAA
* *
548806 CGGGTCCGCTCTCTATTCCTTCAGAGAGTATAGAACTCGAACAATCTTCATAAAACGAGTCTGCT
1 CGGGTCCGCTCTCTATTCCTTTAGAGAGTATAGAACTCGAACAATCTTCAGAAAACGAGTCTGCT
* * * *
548871 CTCTATTCTTTTAGAGAGTATAGAACTCGA
66 CCCTATTCATTCAGGGAGTATAGAACTCGA
548901 TCTTCATAAA
Statistics
Matches: 234, Mismatches: 18, Indels: 16
0.87 0.07 0.06
Matches are distributed among these distances:
164 1 0.00
165 221 0.94
166 12 0.05
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.28
Consensus pattern (165 bp):
CGGGTCCGCTCTCTATTCCTTTAGAGAGTATAGAACTCGAACAATCTTCAGAAAACGAGTCTGCT
CCCTATTCATTCAGGGAGTATAGAACTCGAACAATATTCATAAAACGGGTCCGATCCCTATTTCT
CCAGAGAGTATAGAACTCGAACAATCTTCATAAAA
Found at i:550293 original size:14 final size:14
Alignment explanation
Indices: 550272--550457 Score: 63
Period size: 14 Copynumber: 13.3 Consensus size: 14
550262 ATTTTTCTTC
550272 TTCT-TTTTTATTT
1 TTCTCTTTTTATTT
*
550285 TTCTCTTTTTGTTT
1 TTCTCTTTTTATTT
*
550299 TTCTC-TTTCATTT
1 TTCTCTTTTTATTT
550312 TT-T-TTATTCTATTT
1 TTCTCTT-TT-TATTT
* * *
550326 TCCATTTTTTCTCTTT
1 TTC-TCTTTT-TATTT
*
550342 TTTTCTTTTCGT-TTT
1 TTCTCTTTT--TATTT
*
550357 TTC-CATCTTT-TTT
1 TTCTC-TTTTTATTT
*
550370 TTCTCATTTTT-CTT
1 TTCTC-TTTTTATTT
* *
550384 TTCTTCTTTTTCTTC
1 TTC-TCTTTTTATTT
*
550399 TTCTCTTTTTTATTA
1 TTCTC-TTTTTATTT
*
550414 TTAT-TTTTTCATTT
1 TTCTCTTTTT-ATTT
*
550428 TT-TCATTTT-TTT
1 TTCTCTTTTTATTT
550440 TTCTC-TTTTATTT
1 TTCTCTTTTTATTT
550453 CTTCT
1 -TTCT
550458 TCAAGCGAAA
Statistics
Matches: 134, Mismatches: 21, Indels: 35
0.71 0.11 0.18
Matches are distributed among these distances:
12 11 0.08
13 32 0.24
14 50 0.37
15 29 0.22
16 10 0.07
17 2 0.01
ACGTcount: A:0.07, C:0.17, G:0.01, T:0.75
Consensus pattern (14 bp):
TTCTCTTTTTATTT
Found at i:550313 original size:33 final size:33
Alignment explanation
Indices: 550263--550326 Score: 78
Period size: 33 Copynumber: 1.9 Consensus size: 33
550253 TGAACCCTCA
* *
550263 TTTTTCTTCTTC-TTTTTTATTTTTCTCTTTTTG
1 TTTTTCTTCTTCATTTTTT-TTATTCTATTTTTG
550296 TTTTTC-TCTTTCATTTTTTTTATTCTATTTT
1 TTTTTCTTC-TTCATTTTTTTTATTCTATTTT
550327 CCATTTTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
32 2 0.07
33 19 0.70
34 6 0.22
ACGTcount: A:0.06, C:0.14, G:0.02, T:0.78
Consensus pattern (33 bp):
TTTTTCTTCTTCATTTTTTTTATTCTATTTTTG
Found at i:550357 original size:43 final size:42
Alignment explanation
Indices: 550296--550443 Score: 107
Period size: 49 Copynumber: 3.2 Consensus size: 42
550286 TCTCTTTTTG
*
550296 TTTTTCTCTTTCATTTTTTTTATTCTATTTTCCATTTTTTCTCTT
1 TTTTTCT-TTTC--TTTTTTTATTTTATTTTCCATTTTTTCTCTT
* * *
550341 TTTTTCTTTTCGTTTTTTCCATCTTTTTTTTCTCATTTTTCTTTTCTT
1 TTTTTCTTTTC-TTTTTT-TAT-TTTATTTTC-CA-TTTT-TTCTCTT
* *
550389 CTTTTTCTTCTTCTCTTTTTTATTATTATTTTTTCATTTTTTCATTTT
1 -TTTTTCTT-TTCT-TTTTTTATT-TTA-TTTTCCATTTTTTC-TCTT
550437 TTTTTCT
1 TTTTTCT
550444 CTTTTATTTC
Statistics
Matches: 82, Mismatches: 10, Indels: 20
0.73 0.09 0.18
Matches are distributed among these distances:
43 6 0.07
44 6 0.07
45 14 0.17
46 2 0.02
47 13 0.16
48 14 0.17
49 15 0.18
50 12 0.15
ACGTcount: A:0.07, C:0.17, G:0.01, T:0.75
Consensus pattern (42 bp):
TTTTTCTTTTCTTTTTTTATTTTATTTTCCATTTTTTCTCTT
Found at i:550379 original size:23 final size:22
Alignment explanation
Indices: 550323--550380 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 22
550313 TTTTATTCTA
550323 TTTTC-CATTTTTTCTCTTTTT
1 TTTTCTCATTTTTTCTCTTTTT
* *
550344 TTCTTTTCGTTTTTTC-CATCTTTT
1 TT-TTCTCATTTTTTCTC-T-TTTT
550368 TTTTCTCATTTTT
1 TTTTCTCATTTTT
550381 CTTTTCTTCT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
21 2 0.07
22 3 0.10
23 18 0.62
24 6 0.21
ACGTcount: A:0.05, C:0.19, G:0.02, T:0.74
Consensus pattern (22 bp):
TTTTCTCATTTTTTCTCTTTTT
Found at i:556014 original size:17 final size:17
Alignment explanation
Indices: 555992--556029 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
555982 CCACACCCAA
555992 CTCATGGGTGATACCAC
1 CTCATGGGTGATACCAC
556009 CTCATGGGTGATACCAC
1 CTCATGGGTGATACCAC
556026 CTCA
1 CTCA
556030 CTAACATTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.24
Consensus pattern (17 bp):
CTCATGGGTGATACCAC
Found at i:560208 original size:46 final size:46
Alignment explanation
Indices: 560105--560208 Score: 174
Period size: 45 Copynumber: 2.3 Consensus size: 46
560095 CCATGCTTTG
560105 TTATTCACAAAAATAAATCCTAACCGCATGATATCTAATTCGCATGC
1 TTATTCA-AAAAATAAATCCTAACCGCATGATATCTAATTCGCATGC
*
560152 TTATTCAAAAAATAAA-CCTAACCGCATGATATCTAGTTCGCATGC
1 TTATTCAAAAAATAAATCCTAACCGCATGATATCTAATTCGCATGC
*
560197 TTATTCGAAAAA
1 TTATTCAAAAAA
560209 CAAAAATAAA
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
45 39 0.71
46 9 0.16
47 7 0.13
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (46 bp):
TTATTCAAAAAATAAATCCTAACCGCATGATATCTAATTCGCATGC
Found at i:571007 original size:46 final size:46
Alignment explanation
Indices: 570957--571064 Score: 137
Period size: 46 Copynumber: 2.3 Consensus size: 46
570947 TGCTTTAATA
* * * *
570957 TCATGCTGAGTGCTTTAACGTTGGGAGTAGAAAGGGGAGACAGTGT
1 TCATGCTGAGCGCTTCAACGTTAGGAGTAGAAAGGGGAGACAGAGT
** *
571003 TCATGCTGAGCGCTTCAACGTTAGGAGTAGGCATGGGAGACAGAGT
1 TCATGCTGAGCGCTTCAACGTTAGGAGTAGAAAGGGGAGACAGAGT
571049 TCATG-TCGAGCGCTTC
1 TCATGCT-GAGCGCTTC
571065 CATAAGGGAG
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
45 1 0.02
46 53 0.98
ACGTcount: A:0.24, C:0.17, G:0.34, T:0.25
Consensus pattern (46 bp):
TCATGCTGAGCGCTTCAACGTTAGGAGTAGAAAGGGGAGACAGAGT
Found at i:571201 original size:46 final size:46
Alignment explanation
Indices: 570957--571201 Score: 128
Period size: 46 Copynumber: 5.3 Consensus size: 46
570947 TGCTTTAATA
* * * * * *
570957 TCATGCTGAGTGCTTTAACGTTGGGAGTAGAAAGGGGAGACAGTGT
1 TCATGCCGAGCGCTTCAACGTTGGGAGTAGACAGGGGAGATAGAGT
* * * * *
571003 TCATGCTGAGCGCTTCAACGTTAGGAGTAGGCATGGGAGACAGAGT
1 TCATGCCGAGCGCTTCAACGTTGGGAGTAGACAGGGGAGATAGAGT
* * * *
571049 TCATGTCGAGCGCTTC--CATAAGGGAGTAGACA--GGATGACTTGA-T
1 TCATGCCGAGCGCTTCAACGT-TGGGAGTAGACAGGGGA-GA-TAGAGT
* * * * ***
571093 CTGATGTCGAGCGCTCCAACG-TGTGGAGTAGACAAGGTGCTTTA-A-T
1 -TCATGCCGAGCGCTTCAACGTTG-GGAGTAGAC-AGGGGAGATAGAGT
* ** * *
571139 ATCACGCTAAGTGCTTCAACGTTGGGAGTAGGCAGGGGAGATAGAGT
1 -TCATGCCGAGCGCTTCAACGTTGGGAGTAGACAGGGGAGATAGAGT
571186 TCATGCCGAGCGCTTC
1 TCATGCCGAGCGCTTC
571202 TAGAGGGGAG
Statistics
Matches: 145, Mismatches: 41, Indels: 26
0.68 0.19 0.12
Matches are distributed among these distances:
43 3 0.02
44 5 0.03
45 32 0.22
46 98 0.68
47 6 0.04
49 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.33, T:0.24
Consensus pattern (46 bp):
TCATGCCGAGCGCTTCAACGTTGGGAGTAGACAGGGGAGATAGAGT
Found at i:571308 original size:138 final size:137
Alignment explanation
Indices: 571010--571327 Score: 379
Period size: 138 Copynumber: 2.3 Consensus size: 137
571000 TGTTCATGCT
* * * *
571010 GAGCGCTTCAACGTTAGGAGTAGGCATGGGAGACAGAGTTCATGTCGAGCGCTTCCATAAGGGAG
1 GAGCGCTTCAACGTTAGGAGTAGGCAGGGGAGATAGAGTTCATGCCGAGCGCTTCCAGAAGGGAG
* * * *
571075 TAGACAGGATGACTTGATCTGATGTCGAGCGCTCCAACGTGTGGAGTAGACAAGGTGCTTTAATA
66 TAGACAAGATGACCTAATCTGATGCCGAGCGCTCCAACGTGTGGAGTAGACAAGGTGCTTTAATA
*
571140 TCACGCT
131 TCACGCC
* * * * *
571147 AAGTGCTTCAACGTTGGGAGTAGGCAGGGGAGATAGAGTTCATGCCGAGCGCTTCTAGAGGGGAG
1 GAGCGCTTCAACGTTAGGAGTAGGCAGGGGAGATAGAGTTCATGCCGAGCGCTTCCAGAAGGGAG
* * * * * *
571212 TA-AGCATATATGACCTAATCTGATGCCGAGTGCTCCAATGTGTGGAGTAGGCAATGTGTTTTAA
66 TAGA-CA-AGATGACCTAATCTGATGCCGAGCGCTCCAACGTGTGGAGTAGACAAGGTGCTTTAA
571276 TATCACGCC
129 TATCACGCC
* * * *
571285 GAGCGCTTTAATGTGTAGG-GTAGGAAGGGAAGATAGAGTTCAT
1 GAGCGCTTCAACGT-TAGGAGTAGGCAGGGGAGATAGAGTTCAT
571328 ATTGAGCGCT
Statistics
Matches: 151, Mismatches: 27, Indels: 5
0.83 0.15 0.03
Matches are distributed among these distances:
136 1 0.01
137 60 0.40
138 87 0.58
139 3 0.02
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.25
Consensus pattern (137 bp):
GAGCGCTTCAACGTTAGGAGTAGGCAGGGGAGATAGAGTTCATGCCGAGCGCTTCCAGAAGGGAG
TAGACAAGATGACCTAATCTGATGCCGAGCGCTCCAACGTGTGGAGTAGACAAGGTGCTTTAATA
TCACGCC
Found at i:571335 original size:46 final size:46
Alignment explanation
Indices: 571284--571385 Score: 150
Period size: 46 Copynumber: 2.2 Consensus size: 46
571274 AATATCACGC
* *
571284 CGAGCGCTTTAATGTGTAGGGTAGGAAGGGAAGATAGAGTTCATAT
1 CGAGCGCTTCAACGTGTAGGGTAGGAAGGGAAGATAGAGTTCATAT
* * * *
571330 TGAGCGCTTCAACGTGTGGGGTAGGCAGGGAAGATAGAGTTCATGT
1 CGAGCGCTTCAACGTGTAGGGTAGGAAGGGAAGATAGAGTTCATAT
571376 CGAGCGCTTC
1 CGAGCGCTTC
571386 CAGAGGGGAG
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.25, C:0.14, G:0.36, T:0.25
Consensus pattern (46 bp):
CGAGCGCTTCAACGTGTAGGGTAGGAAGGGAAGATAGAGTTCATAT
Found at i:574379 original size:15 final size:15
Alignment explanation
Indices: 574359--574389 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
574349 GCACTAAAGG
574359 GTGCATCGATACACT
1 GTGCATCGATACACT
*
574374 GTGCATGGATACACT
1 GTGCATCGATACACT
574389 G
1 G
574390 CAAAATGCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (15 bp):
GTGCATCGATACACT
Found at i:574725 original size:33 final size:34
Alignment explanation
Indices: 574688--574759 Score: 83
Period size: 34 Copynumber: 2.1 Consensus size: 34
574678 CCTTTACAAC
* *
574688 TCCCTAG-TTTTTCACTGGATAAACTAGAACATT
1 TCCCTAGCTTTTACACGGGATAAACTAGAACATT
* * * *
574721 TCCCTAGCTTTTACACGGGCTTAGCTAGAACCTT
1 TCCCTAGCTTTTACACGGGATAAACTAGAACATT
574755 TCCCT
1 TCCCT
574760 TCACAAAAGG
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
33 7 0.22
34 25 0.78
ACGTcount: A:0.24, C:0.28, G:0.14, T:0.35
Consensus pattern (34 bp):
TCCCTAGCTTTTACACGGGATAAACTAGAACATT
Found at i:575147 original size:20 final size:20
Alignment explanation
Indices: 575109--575147 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
575099 CCGTTGCAGC
*
575109 CAGGGTGCATGGATGCACTG
1 CAGGGTGCATGGATACACTG
575129 CAGGGTGCATCGG-TACACT
1 CAGGGTGCAT-GGATACACT
575148 TGGGGTGCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.21, C:0.23, G:0.36, T:0.21
Consensus pattern (20 bp):
CAGGGTGCATGGATACACTG
Found at i:575260 original size:20 final size:20
Alignment explanation
Indices: 575235--575285 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
575225 TACATTGTTC
575235 ATGGATACACTGCATA-GTAT
1 ATGGATACACTGCA-AGGTAT
* *
575255 ATGGATGCACTGCAAGGTGT
1 ATGGATACACTGCAAGGTAT
575275 ATGGATACACT
1 ATGGATACACT
575286 TTGACACCCT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 1 0.04
20 26 0.96
ACGTcount: A:0.31, C:0.16, G:0.25, T:0.27
Consensus pattern (20 bp):
ATGGATACACTGCAAGGTAT
Found at i:577252 original size:24 final size:25
Alignment explanation
Indices: 577194--577252 Score: 77
Period size: 24 Copynumber: 2.4 Consensus size: 25
577184 ATAAATTGCA
577194 CCGAAGTG-CCGCGTAGAAATTTGTC
1 CCGAA-TGACCGCGTAGAAATTTGTC
* *
577219 CCTAAAGACCGCGTAG-AATTTGTC
1 CCGAATGACCGCGTAGAAATTTGTC
577243 CCGAATGACC
1 CCGAATGACC
577253 ACATATAAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 17 0.59
25 12 0.41
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.22
Consensus pattern (25 bp):
CCGAATGACCGCGTAGAAATTTGTC
Found at i:577492 original size:30 final size:31
Alignment explanation
Indices: 577434--577513 Score: 99
Period size: 31 Copynumber: 2.6 Consensus size: 31
577424 TTACAATTCA
* * *
577434 CATAATTTATATCGCATAGACATGTCA-TTTC
1 CATAACTT-TATCACATAAACATGTCATTTTC
* *
577465 CATACCTTTATCACATAAACATTTCATTTTC
1 CATAACTTTATCACATAAACATGTCATTTTC
577496 CATAACTTTATCACATAA
1 CATAACTTTATCACATAA
577514 TTCATATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
30 15 0.36
31 27 0.64
ACGTcount: A:0.35, C:0.23, G:0.04, T:0.39
Consensus pattern (31 bp):
CATAACTTTATCACATAAACATGTCATTTTC
Found at i:583828 original size:3 final size:3
Alignment explanation
Indices: 583820--583848 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
583810 TGAGGCAATT
583820 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
583849 TTATAAAGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:584125 original size:25 final size:25
Alignment explanation
Indices: 584065--584149 Score: 79
Period size: 25 Copynumber: 3.5 Consensus size: 25
584055 CACCACAGCT
* *
584065 CGTATAAA-TTGCACTGAAGTGCCG
1 CGTAGAAATTTGCACCGAAGTGCCG
**
584089 CGTAGAGTTTTGCACCGAAGTGCCG
1 CGTAGAAATTTGCACCGAAGTGCCG
*
584114 CGTAGAAATTTGTC-TCGAA-TGACCG
1 CGTAGAAATTTG-CACCGAAGTG-CCG
584139 CGTAG-AATTTG
1 CGTAGAAATTTG
584150 TCCCGAATGA
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
24 13 0.25
25 37 0.73
26 1 0.02
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (25 bp):
CGTAGAAATTTGCACCGAAGTGCCG
Found at i:584156 original size:24 final size:24
Alignment explanation
Indices: 584086--584161 Score: 84
Period size: 25 Copynumber: 3.1 Consensus size: 24
584076 CACTGAAGTG
*
584086 CCGCGTAGAGTTT-TGCACCGAAGTG-
1 CCGCGTAGAATTTGT-C-CCGAA-TGA
*
584111 CCGCGTAGAAATTTGTCTCGAATGA
1 CCGCGTAG-AATTTGTCCCGAATGA
584136 CCGCGTAGAATTTGTCCCGAATGA
1 CCGCGTAGAATTTGTCCCGAATGA
584160 CC
1 CC
584162 ACATATAAAC
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
24 19 0.42
25 20 0.44
26 5 0.11
27 1 0.02
ACGTcount: A:0.24, C:0.25, G:0.26, T:0.25
Consensus pattern (24 bp):
CCGCGTAGAATTTGTCCCGAATGA
Found at i:584409 original size:30 final size:31
Alignment explanation
Indices: 584360--584430 Score: 99
Period size: 30 Copynumber: 2.3 Consensus size: 31
584350 ACATAATTTA
* *
584360 TATCGCATAGACATATCATTCT-CATACCTT
1 TATCACATAAACATATCATTCTCCATACCTT
* *
584390 TATCACATAAACATTTCATTTTCCATACCTT
1 TATCACATAAACATATCATTCTCCATACCTT
584421 TATCACATAA
1 TATCACATAA
584431 TTCATATAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 18 0.50
31 18 0.50
ACGTcount: A:0.34, C:0.25, G:0.03, T:0.38
Consensus pattern (31 bp):
TATCACATAAACATATCATTCTCCATACCTT
Found at i:584849 original size:55 final size:55
Alignment explanation
Indices: 584776--584883 Score: 123
Period size: 55 Copynumber: 2.0 Consensus size: 55
584766 CATAAATCCT
* *
584776 ATTCGATGTTTGTATTT-AATGGT-GTGCATCGATGCACTCCTTATGCATCGATGAC
1 ATTCGATGTTTGTATTTAAAT--TAATGCATCGATGCACTCCATATGCATCGATGAC
* * *
584831 ATTCGATGTTT-TCTTTTAAATTAATGCATCGATGCACTTCATGTGCATCGATG
1 ATTCGATGTTTGT-ATTTAAATTAATGCATCGATGCACTCCATATGCATCGATG
584884 CACCTTAAAC
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
54 2 0.04
55 40 0.89
56 3 0.07
ACGTcount: A:0.23, C:0.18, G:0.19, T:0.40
Consensus pattern (55 bp):
ATTCGATGTTTGTATTTAAATTAATGCATCGATGCACTCCATATGCATCGATGAC
Found at i:586416 original size:4 final size:4
Alignment explanation
Indices: 586407--586442 Score: 63
Period size: 4 Copynumber: 9.0 Consensus size: 4
586397 GTGAAAAATT
*
586407 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAGA GAAA
1 GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA GAAA
586443 TAATAATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (4 bp):
GAAA
Found at i:596685 original size:59 final size:59
Alignment explanation
Indices: 596621--596752 Score: 158
Period size: 59 Copynumber: 2.2 Consensus size: 59
596611 GCGAATTGGG
* * * *
596621 AAAATCGCAATGTGATACTGACTATCGCAATGCGATACT-TTTACGCAATGCGATAATAC
1 AAAATCGCAATGAGATACTGACTATCACAACGCGATACTATTT-CGCAACGCGATAATAC
* * *
596680 AAAATCGCAACGAGATACTGACTTTCACAACGCGATTCTGACTTTCGCAACGCGATAATAC
1 AAAATCGCAATGAGATACTGACTATCACAACGCGATACT-A-TTTCGCAACGCGATAATAC
*
596741 ATAATCGCAATG
1 AAAATCGCAATG
596753 CGATTTTCAA
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
59 33 0.54
61 25 0.41
62 3 0.05
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.25
Consensus pattern (59 bp):
AAAATCGCAATGAGATACTGACTATCACAACGCGATACTATTTCGCAACGCGATAATAC
Found at i:596720 original size:20 final size:20
Alignment explanation
Indices: 596687--596736 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
596677 TACAAAATCG
*
596687 CAACGAGATACTGACTTTCA
1 CAACGCGATACTGACTTTCA
* *
596707 CAACGCGATTCTGACTTTCG
1 CAACGCGATACTGACTTTCA
596727 CAACGCGATA
1 CAACGCGATA
596737 ATACATAATC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (20 bp):
CAACGCGATACTGACTTTCA
Found at i:596952 original size:22 final size:22
Alignment explanation
Indices: 596924--596967 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
596914 CACTCTCTCA
*
596924 CCCATCTCCGACGAAATTCGTC
1 CCCATCTCCGACGAAATCCGTC
*
596946 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
596968 TATCTCCATC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.43, G:0.16, T:0.20
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:597243 original size:20 final size:20
Alignment explanation
Indices: 597215--597268 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
597205 TCGCGTTGCG
*
597215 ATTCTCGTTGCGATAGTCAA
1 ATTCGCGTTGCGATAGTCAA
* *
597235 ATTCGCGTTGCGCTAGTCAT
1 ATTCGCGTTGCGATAGTCAA
* *
597255 TTTCGTGTTGCGAT
1 ATTCGCGTTGCGAT
597269 TTTCATTTTC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.17, C:0.20, G:0.24, T:0.39
Consensus pattern (20 bp):
ATTCGCGTTGCGATAGTCAA
Found at i:598598 original size:17 final size:17
Alignment explanation
Indices: 598573--598615 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
598563 TCCACTTCGG
*
598573 GAGCCATCACCTCGCCA
1 GAGCCATCACCTCACCA
*
598590 GAGCTATCACCTCACCA
1 GAGCCATCACCTCACCA
598607 GAGCCATCA
1 GAGCCATCA
598616 TCTGATCGAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.28, C:0.42, G:0.16, T:0.14
Consensus pattern (17 bp):
GAGCCATCACCTCACCA
Found at i:598755 original size:27 final size:27
Alignment explanation
Indices: 598717--598770 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
598707 GCGACCGGCA
598717 AAGATGCCACGACGTTTATCTCCCTGT
1 AAGATGCCACGACGTTTATCTCCCTGT
598744 AAGATGCCACGACGTTTATCTCCCTGT
1 AAGATGCCACGACGTTTATCTCCCTGT
598771 TCTCCACCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.30
Consensus pattern (27 bp):
AAGATGCCACGACGTTTATCTCCCTGT
Found at i:599170 original size:19 final size:20
Alignment explanation
Indices: 599116--599182 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
599106 TAGTTTACTT
* *
599116 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
599136 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
* **
599156 TCGCAATGC-GAAATGAAAA
1 TCGCAACGCGGAAATGACTA
599175 TCGCAACG
1 TCGCAACG
599183 ACAAAATCGC
Statistics
Matches: 39, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
19 14 0.36
20 25 0.64
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:599190 original size:14 final size:14
Alignment explanation
Indices: 599171--599229 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
599161 ATGCGAAATG
599171 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
599185 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
599201 ATGAAATCGCAAACGAC
1 A--AAATCGC-AACGAC
599218 AAAATCGCAACG
1 AAAATCGCAACG
599230 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 14 0.37
15 7 0.18
16 4 0.11
17 4 0.11
18 7 0.18
19 2 0.05
ACGTcount: A:0.49, C:0.24, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:599197 original size:33 final size:33
Alignment explanation
Indices: 599155--599246 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
599145 GGAAATGGCT
599155 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
599188 ATCGCAATGCGAAATG-AAATCGCAAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGC-AACGACAAA
*
599221 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
599247 TGCGATTTGT
Statistics
Matches: 56, Mismatches: 1, Indels: 4
0.92 0.02 0.07
Matches are distributed among these distances:
32 7 0.12
33 42 0.75
34 7 0.12
ACGTcount: A:0.48, C:0.22, G:0.18, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:599325 original size:33 final size:30
Alignment explanation
Indices: 599258--599334 Score: 109
Period size: 33 Copynumber: 2.5 Consensus size: 30
599248 GCGATTTGTG
* *
599258 TTTCGCGTTGTGATTTTGGTTGCGATTTCA
1 TTTCGCATTGCGATTTTGGTTGCGATTTCA
599288 TTTCGCATTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCATTGCGATTTTG--GTTGCGA-TTTCA
599321 TTTCGCATTGCGAT
1 TTTCGCATTGCGAT
599335 AGCCATTTTC
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
30 16 0.38
32 7 0.17
33 19 0.45
ACGTcount: A:0.12, C:0.17, G:0.23, T:0.48
Consensus pattern (30 bp):
TTTCGCATTGCGATTTTGGTTGCGATTTCA
Found at i:601346 original size:20 final size:20
Alignment explanation
Indices: 601321--601359 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
601311 ATATTGAAGG
601321 CAAAACAGACTATCGCAACA
1 CAAAACAGACTATCGCAACA
*
601341 CAAAACTGACTATCGCAAC
1 CAAAACAGACTATCGCAAC
601360 GAGAGAATCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.46, C:0.31, G:0.10, T:0.13
Consensus pattern (20 bp):
CAAAACAGACTATCGCAACA
Found at i:601389 original size:19 final size:19
Alignment explanation
Indices: 601365--601429 Score: 86
Period size: 19 Copynumber: 3.7 Consensus size: 19
601355 GCAACGAGAG
*
601365 AATCGCAATGTGAAATGAA
1 AATCGCAATGCGAAATGAA
601384 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
601403 AATCGCAA--CG--A-GAA
1 AATCGCAATGCGAAATGAA
601417 AATCGCAATGCGA
1 AATCGCAATGCGA
601430 TTTTCATTTC
Statistics
Matches: 42, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
14 11 0.26
15 1 0.02
16 2 0.05
17 2 0.05
19 26 0.62
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:601494 original size:20 final size:20
Alignment explanation
Indices: 601455--601524 Score: 133
Period size: 20 Copynumber: 3.5 Consensus size: 20
601445 GCGATTTTGT
601455 CGTTGCGATAGCCA-TTTCG
1 CGTTGCGATAGCCATTTTCG
601474 CGTTGCGATAGCCATTTTCG
1 CGTTGCGATAGCCATTTTCG
601494 CGTTGCGATAGCCATTTTCG
1 CGTTGCGATAGCCATTTTCG
601514 CGTTGCGATAG
1 CGTTGCGATAG
601525 TCAAATGAAT
Statistics
Matches: 50, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
19 14 0.28
20 36 0.72
ACGTcount: A:0.16, C:0.24, G:0.27, T:0.33
Consensus pattern (20 bp):
CGTTGCGATAGCCATTTTCG
Found at i:602968 original size:24 final size:23
Alignment explanation
Indices: 602911--602970 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
602901 TAGTCAGTAT
*
602911 TCGAAATTTGATCTTGGTCAATA
1 TCGAAATTTGATATTGGTCAATA
* *
602934 TCCGGACTTTGATATTGGTCAATA
1 T-CGAAATTTGATATTGGTCAATA
*
602958 CTCGAATTTTGAT
1 -TCGAAATTTGAT
602971 GATGTTTCAG
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
23 1 0.03
24 28 0.93
25 1 0.03
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.40
Consensus pattern (23 bp):
TCGAAATTTGATATTGGTCAATA
Found at i:603162 original size:12 final size:12
Alignment explanation
Indices: 603145--603169 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
603135 ATATAATCCT
603145 GAAGAAGAAAAA
1 GAAGAAGAAAAA
603157 GAAGAAGAAAAA
1 GAAGAAGAAAAA
603169 G
1 G
603170 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:605462 original size:19 final size:19
Alignment explanation
Indices: 605440--605603 Score: 98
Period size: 19 Copynumber: 9.7 Consensus size: 19
605430 GGAAATTACT
*
605440 ATCGCAATGTGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
605459 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
605473 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
605492 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
605506 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* * *
605525 ATTGCAA--CG--CT-AAT
1 ATCGCAATGCGAAATGAAA
*
605539 TTCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
605558 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
605572 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
605591 ATCGCAACGCGAA
1 ATCGCAATGCGAA
605604 TTTAATTTCG
Statistics
Matches: 107, Mismatches: 18, Indels: 40
0.65 0.11 0.24
Matches are distributed among these distances:
14 36 0.34
15 4 0.04
16 8 0.07
17 7 0.07
18 4 0.04
19 48 0.45
ACGTcount: A:0.43, C:0.18, G:0.23, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:605477 original size:14 final size:14
Alignment explanation
Indices: 605458--605512 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
605448 GTGAAATGAA
605458 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
605472 AATCGCAATGCGAAATGAA
1 AATCGCAA--CG--A-GAG
605491 AATCGCAACGAGAG
1 AATCGCAACGAGAG
605505 AATCGCAA
1 AATCGCAA
605513 TGCGAAATGA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.45, C:0.20, G:0.24, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:605477 original size:33 final size:33
Alignment explanation
Indices: 605440--605599 Score: 250
Period size: 33 Copynumber: 4.8 Consensus size: 33
605430 GGAAATTACT
*
605440 ATCGCAATGTGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
605473 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* **
605506 ATCGCAATGCGAAATGAAAATTGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
* *
605538 TTTCGCAATGCGAAATGAAAATCGCAACGAGGGA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
605572 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
605600 CGAATTTAAT
Statistics
Matches: 115, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
32 1 0.01
33 113 0.98
34 1 0.01
ACGTcount: A:0.43, C:0.18, G:0.23, T:0.16
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:605783 original size:14 final size:14
Alignment explanation
Indices: 605764--605798 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
605754 TCAATTAAAT
605764 AAATCAACTTTTAC
1 AAATCAACTTTTAC
*
605778 AAATCACCTTTTAC
1 AAATCAACTTTTAC
605792 AAATCAA
1 AAATCAA
605799 TTAAACAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (14 bp):
AAATCAACTTTTAC
Found at i:607203 original size:42 final size:41
Alignment explanation
Indices: 607144--607349 Score: 155
Period size: 42 Copynumber: 4.9 Consensus size: 41
607134 GTGAATCGGG
* *
607144 CTCTTGAATGGTGGGAGGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGA-CTCTTCAAGGATGACAGTGGC
* * * *
607186 CTCTTGAACGGTGGGAGGGGACTC-TCGAGGAATGATAGGGGA
1 CTCTTGAACGGTGGGA-GGGACTCTTCAAGG-ATGACAGTGGC
* * * * * *
607228 CTCTTCAACGATAGGAATGGACTCTTGAGGGATGACAGTGGC
1 CTCTTGAACGGT-GGGAGGGACTCTTCAAGGATGACAGTGGC
* * *
607270 CTCTTGAACGGTGGGAGGGGACTC-TCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGA-GGGACTCTTCAAGG-ATGACAGTGGC
* * * * *
607312 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGACAG
1 CTCTTGAACGGTGGGAG-GGACTCTTCAAGGATGACAG
607350 GCGAGTCGGG
Statistics
Matches: 124, Mismatches: 32, Indels: 16
0.72 0.19 0.09
Matches are distributed among these distances:
41 11 0.09
42 100 0.81
43 13 0.10
ACGTcount: A:0.24, C:0.18, G:0.36, T:0.22
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGACTCTTCAAGGATGACAGTGGC
Found at i:607210 original size:21 final size:21
Alignment explanation
Indices: 607144--607294 Score: 58
Period size: 21 Copynumber: 7.2 Consensus size: 21
607134 GTGAATCGGG
*
607144 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
607164 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
607186 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
* **
607207 CTCTCG-A-GGAATGATAGGGGA
1 CTCTTGAACGG--TGGGAGGGGA
* * * **
607228 CTCTTCAACGATAGGAATGGA
1 CTCTTGAACGGTGGGAGGGGA
* ** * *
607249 CTCTTG-AGGGATGACAGTGGC
1 CTCTTGAACGG-TGGGAGGGGA
607270 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
607291 CTCT
1 CTCT
607295 CGAGGAATGA
Statistics
Matches: 86, Mismatches: 37, Indels: 14
0.63 0.27 0.10
Matches are distributed among these distances:
19 2 0.02
20 3 0.03
21 74 0.86
22 6 0.07
23 1 0.01
ACGTcount: A:0.23, C:0.19, G:0.36, T:0.23
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:607285 original size:84 final size:84
Alignment explanation
Indices: 607174--607349 Score: 334
Period size: 84 Copynumber: 2.1 Consensus size: 84
607164 CCTCTTCAAC
607174 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGACTCTTCAACGA
1 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGACTCTTCAACGA
607239 TAGGAATGGACTCTTGAGG
66 TAGGAATGGACTCTTGAGG
*
607258 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGCCTCTTCAACGA
1 GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGACTCTTCAACGA
*
607323 TAGGAGTGGACTCTTGAGG
66 TAGGAATGGACTCTTGAGG
607342 GATGACAG
1 GATGACAG
607350 GCGAGTCGGG
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
84 90 1.00
ACGTcount: A:0.24, C:0.17, G:0.38, T:0.21
Consensus pattern (84 bp):
GATGACAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGACTCTTCAACGA
TAGGAATGGACTCTTGAGG
Found at i:607681 original size:92 final size:89
Alignment explanation
Indices: 607568--607749 Score: 292
Period size: 92 Copynumber: 2.0 Consensus size: 89
607558 ATTTCAAACT
* *
607568 TTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACTTTTAGCA
1 TTCAACCAAAAGACAAAACAAAAACAAATACTAACTTCACAGTGTT-AAGAA-ACA-GTTTAGCA
607633 GAATTGGCAGCAACCGAATAAATTTAC
63 GAATTGGCAGCAACCGAATAAATTTAC
* *
607660 TTCAACCAAAAGACAAAACAAAAACAAATACTAACTTCACAGTGTTAATAAACAGTTTAGCAGTA
1 TTCAACCAAAAGACAAAACAAAAACAAATACTAACTTCACAGTGTTAAGAAACAGTTTAGCAGAA
*
607725 TTGTCAGCAACCGAATAAATTTAC
66 TTGGCAGCAACCGAATAAATTTAC
607749 T
1 T
607750 AAGCAATCTA
Statistics
Matches: 85, Mismatches: 5, Indels: 3
0.91 0.05 0.03
Matches are distributed among these distances:
89 33 0.39
90 3 0.04
91 4 0.05
92 45 0.53
ACGTcount: A:0.47, C:0.19, G:0.11, T:0.23
Consensus pattern (89 bp):
TTCAACCAAAAGACAAAACAAAAACAAATACTAACTTCACAGTGTTAAGAAACAGTTTAGCAGAA
TTGGCAGCAACCGAATAAATTTAC
Found at i:608579 original size:21 final size:22
Alignment explanation
Indices: 608538--608580 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
608528 AATAACAAAC
*
608538 ATTAGTAATTGTTAAATAATTA
1 ATTAGTAATTGTTAAAAAATTA
608560 ATTA-TAATT-TTGAAAAAATTA
1 ATTAGTAATTGTT-AAAAAATTA
608581 TATAGAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 2 0.11
21 13 0.68
22 4 0.21
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (22 bp):
ATTAGTAATTGTTAAAAAATTA
Found at i:609447 original size:20 final size:19
Alignment explanation
Indices: 609416--609475 Score: 66
Period size: 21 Copynumber: 3.0 Consensus size: 19
609406 TCTTTTGGTG
609416 AAATGAAATCGCAACGAGA
1 AAATGAAATCGCAACGAGA
* *
609435 TAATGAGAATCGCAAAGCAGA
1 AAATGA-AATCGCAACG-AGA
*
609456 AAATGACTATCGCAACGAGA
1 AAATGA-AATCGCAACGAGA
609476 GAATCGCAAC
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
19 5 0.15
20 12 0.36
21 16 0.48
ACGTcount: A:0.48, C:0.17, G:0.22, T:0.13
Consensus pattern (19 bp):
AAATGAAATCGCAACGAGA
Found at i:609533 original size:19 final size:19
Alignment explanation
Indices: 609511--609575 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 19
609501 GCGACGAGAG
609511 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
* *
609530 AATCGCGA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
609544 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
609563 AATCGCAATGCGA
1 AATCGCAACGCGA
609576 TTTGGTTTCG
Statistics
Matches: 36, Mismatches: 5, Indels: 10
0.71 0.10 0.20
Matches are distributed among these distances:
14 9 0.25
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 21 0.58
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:609535 original size:33 final size:33
Alignment explanation
Indices: 609439--609568 Score: 179
Period size: 33 Copynumber: 3.8 Consensus size: 33
609429 ACGAGATAAT
* ** *
609439 GAGAATCGCAAAGCAGAAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-G-AAATGAAAATCGCGACGA
**
609474 GAGAATCGCAACGCCGAAATGACTATCGCGACGA
1 GAGAATCGCAACG-CGAAATGAAAATCGCGACGA
609508 GAGAATCGCAACGCGAAATGAAAATCGCGACGA
1 GAGAATCGCAACGCGAAATGAAAATCGCGACGA
609541 GAGAATCGCAACGCGAAATGAAAATCGC
1 GAGAATCGCAACGCGAAATGAAAATCGC
609569 AATGCGATTT
Statistics
Matches: 90, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
33 46 0.51
34 30 0.33
35 13 0.14
36 1 0.01
ACGTcount: A:0.42, C:0.22, G:0.25, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGAAAATCGCGACGA
Found at i:610212 original size:20 final size:20
Alignment explanation
Indices: 610187--610240 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
610177 GATTTTGTAT
610187 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
*
610207 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
610227 TATCGCATTGCGAT
1 TATCGCATTGCGAT
610241 TTTTCCCAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:610352 original size:21 final size:21
Alignment explanation
Indices: 610312--610352 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
610302 ACTGTAGACC
**
610312 ATCGCAACGCGATTTCCAACT
1 ATCGCAACGCGAAATCCAACT
*
610333 ATCGCAACGCGAAATGCAAC
1 ATCGCAACGCGAAATCCAAC
610353 GCGAATTTGC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.34, C:0.32, G:0.17, T:0.17
Consensus pattern (21 bp):
ATCGCAACGCGAAATCCAACT
Found at i:610876 original size:22 final size:21
Alignment explanation
Indices: 610842--610882 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
610832 ATAATTATTT
610842 AAAAAATTAAATAAAAATACC
1 AAAAAATTAAATAAAAATACC
*
610863 AAAAATATTTAATAAAAATA
1 AAAAA-ATTAAATAAAAATA
610883 ATTTTTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (21 bp):
AAAAAATTAAATAAAAATACC
Found at i:611354 original size:16 final size:16
Alignment explanation
Indices: 611333--611367 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
611323 TTCTAATTTT
611333 TTTTTTTGAGTTCAAG
1 TTTTTTTGAGTTCAAG
611349 TTTTTTTGAGTTCAAG
1 TTTTTTTGAGTTCAAG
611365 TTT
1 TTT
611368 CAATATTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.17, C:0.06, G:0.17, T:0.60
Consensus pattern (16 bp):
TTTTTTTGAGTTCAAG
Found at i:612276 original size:124 final size:124
Alignment explanation
Indices: 612117--612354 Score: 316
Period size: 124 Copynumber: 1.9 Consensus size: 124
612107 ACAGTATCGA
** * * *
612117 TTTTATTATTATTGTGCATAACAAAATGGTAAAAATTACCAAAAACA-TCATTATTTTTATTGGT
1 TTTTATTATTATTGTGCATAACAAAACCGTAAAAATTACCAAAAACACT-ATTATTTCTATCGAT
* * * *
612181 TTTGTTATTATTTTGACATTTTACCGGATTTTTTAACAAAATCGGTAAAATCACTACCAG
65 TTTATTATTATTTTGACATTTTACAGGATTTCTTAACAAAACCGGTAAAATCACTACCAG
* * * *
612241 TTTTGTTATTGTTGTGTATAACAAAACCGTAAAAATTACCAAAAATACTATTATTTCTATCGATT
1 TTTTATTATTATTGTGCATAACAAAACCGTAAAAATTACCAAAAACACTATTATTTCTATCGATT
* * *
612306 TTATTATTATTTTGGCATTTTACAGGGTTTCTTAATAAAACCGGTAAAA
66 TTATTATTATTTTGACATTTTACAGGATTTCTTAACAAAACCGGTAAAA
612355 GCGCTATCGG
Statistics
Matches: 97, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
124 96 0.99
125 1 0.01
ACGTcount: A:0.35, C:0.12, G:0.11, T:0.42
Consensus pattern (124 bp):
TTTTATTATTATTGTGCATAACAAAACCGTAAAAATTACCAAAAACACTATTATTTCTATCGATT
TTATTATTATTTTGACATTTTACAGGATTTCTTAACAAAACCGGTAAAATCACTACCAG
Found at i:612981 original size:199 final size:198
Alignment explanation
Indices: 612641--613105 Score: 567
Period size: 199 Copynumber: 2.3 Consensus size: 198
612631 AATTTAAAAA
* * * *
612641 GTAATAGGTAAATTTACAATGTAACCGGTATAAATATACCGATTTATGATAGAATATGTCAACAT
1 GTAATAGGTAAATTTACAATGTAACCGGTAGAAATATACCGATTTATGAGAAAATAAGTCAACAT
612706 AATGTATCGACACGAATTTAAAAAGTGTCGATACATTCTGTCCAGAATGAATGACAAACGAGATG
66 AATGTATCGACACGAATTTAAAAAGTGTCGATACATTCTGTCCAGAATGAATGACAAACGAGATG
* * * *
612771 CACGCATAAAGTGTCGCTACATTTATTAAA-AGTATCGATCCCAAAAACATCGAAACCGATAATT
131 CACACATAAAGTGTCGATACATTTA--AAATAGTATCGATCCCAAAAACATCAAAACCAATAATT
612835 ACAAT
194 ACAAT
* * * *
612840 GTAATAGGTAAATTTACAATGTACCCGGTAGAAATATACTGGTTTTATGAGAAAATAAGTCTACA
1 GTAATAGGTAAATTTACAATGTAACCGGTAGAAATATAC-CGATTTATGAGAAAATAAGTCAACA
* *** * * ** * *
612905 TAATGTATCGACACG-TTTTAAGTTTGTGTCGATAC-TTTTTTCCAGAATGAATTCCCAACGAGG
65 TAATGTATCGACACGAATTTAA-AAAGTGTCGATACATTCTGTCCAGAATGAATGACAAACGAGA
*
612968 TGCACACATAAAGTGTCGATACATTTAAAATTGTATCGATCCCAAAAACATCAAAACCAATAATT
129 TGCACACATAAAGTGTCGATACATTTAAAATAGTATCGATCCCAAAAACATCAAAACCAATAATT
*
613033 ATAAT
194 ACAAT
* ** * * * * * *
613038 GTAATAGGTAAATTTACAATGTTATTGATATAAATATACCGGTTTAGTTAGAAAATAGGTCAATA
1 GTAATAGGTAAATTTACAATGTAACCGGTAGAAATATACCGATTTA-TGAGAAAATAAGTCAACA
613103 TAA
65 TAA
613106 GCGCTACCTA
Statistics
Matches: 226, Mismatches: 36, Indels: 9
0.83 0.13 0.03
Matches are distributed among these distances:
197 8 0.04
198 85 0.38
199 89 0.39
200 44 0.19
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.30
Consensus pattern (198 bp):
GTAATAGGTAAATTTACAATGTAACCGGTAGAAATATACCGATTTATGAGAAAATAAGTCAACAT
AATGTATCGACACGAATTTAAAAAGTGTCGATACATTCTGTCCAGAATGAATGACAAACGAGATG
CACACATAAAGTGTCGATACATTTAAAATAGTATCGATCCCAAAAACATCAAAACCAATAATTAC
AAT
Found at i:613192 original size:88 final size:87
Alignment explanation
Indices: 613100--613310 Score: 316
Period size: 88 Copynumber: 2.4 Consensus size: 87
613090 AAATAGGTCA
*
613100 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAACATGTTATTGTACTTGATAATATTT
*
613165 CCGGTTAAATGCTTATTTTTATT
66 CCGGTTAAATGCCTA-TTTTATT
* * * *
613188 ATATAAGCACTATCTATTACATTATATAAGTGTTACCTAACATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAACATGTTATTGTACTTGATAATATTT
*
613253 CTGGTTAAATGCCTATTTTATT
66 CCGGTTAAATGCCTATTTTATT
* *
613275 ATATAAG-GATTACCTATTACATTATATAAGCACTAC
1 ATATAAGCG-CTACCTATTACATTATATAAGCGCTAC
613311 TTATTACATT
Statistics
Matches: 109, Mismatches: 13, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
87 36 0.33
88 73 0.67
ACGTcount: A:0.33, C:0.14, G:0.10, T:0.42
Consensus pattern (87 bp):
ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAACATGTTATTGTACTTGATAATATTT
CCGGTTAAATGCCTATTTTATT
Found at i:613290 original size:23 final size:23
Alignment explanation
Indices: 613272--613333 Score: 88
Period size: 23 Copynumber: 2.7 Consensus size: 23
613262 TGCCTATTTT
* *
613272 ATTATATAAGGATTACCTATTAC
1 ATTATATAAGCACTACCTATTAC
*
613295 ATTATATAAGCACTACTTATTAC
1 ATTATATAAGCACTACCTATTAC
*
613318 ATTATATAAGCGCTAC
1 ATTATATAAGCACTAC
613334 ATAATATATT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (23 bp):
ATTATATAAGCACTACCTATTAC
Found at i:613344 original size:23 final size:23
Alignment explanation
Indices: 613272--613345 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 23
613262 TGCCTATTTT
* * * *
613272 ATTATATAAGGATTACCTATTAC
1 ATTATATAAGCACTACATAATAC
* *
613295 ATTATATAAGCACTACTTATTAC
1 ATTATATAAGCACTACATAATAC
* *
613318 ATTATATAAGCGCTACATAATAT
1 ATTATATAAGCACTACATAATAC
613341 ATTAT
1 ATTAT
613346 TGTACTTAAT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.41, C:0.14, G:0.07, T:0.39
Consensus pattern (23 bp):
ATTATATAAGCACTACATAATAC
Found at i:616794 original size:15 final size:15
Alignment explanation
Indices: 616776--616813 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
616766 GATGGCGAAG
616776 GAAAAAGAAGATCAA
1 GAAAAAGAAGATCAA
*
616791 G-AAAAGAAAGATGAA
1 GAAAAAG-AAGATCAA
616806 GAAAAAGA
1 GAAAAAGA
616814 TTGGTGTTGC
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
14 5 0.25
15 10 0.50
16 5 0.25
ACGTcount: A:0.68, C:0.03, G:0.24, T:0.05
Consensus pattern (15 bp):
GAAAAAGAAGATCAA
Found at i:621977 original size:31 final size:31
Alignment explanation
Indices: 621939--622034 Score: 122
Period size: 31 Copynumber: 3.1 Consensus size: 31
621929 AGAGTCGAGG
*
621939 GTTTACCTATG-TCTTTCGAGACATATGGACA
1 GTTTACCTAGGTTC-TTCGAGACATATGGACA
* *
621970 GTTTACCTAGGTTCTTCGGGACCTATGGACA
1 GTTTACCTAGGTTCTTCGAGACATATGGACA
* * *
622001 GTTTACCTAGGTTCGTCGGGACCTATGGACA
1 GTTTACCTAGGTTCTTCGAGACATATGGACA
622032 GTT
1 GTT
622035 GCCGAGGTTC
Statistics
Matches: 60, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
31 58 0.97
32 2 0.03
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.33
Consensus pattern (31 bp):
GTTTACCTAGGTTCTTCGAGACATATGGACA
Found at i:622076 original size:29 final size:30
Alignment explanation
Indices: 622020--622091 Score: 92
Period size: 29 Copynumber: 2.4 Consensus size: 30
622010 GGTTCGTCGG
* * * *
622020 GACCTATGGACAGTTGCCGAGGTTCTTTAT
1 GACCTCTGGATAGTTACCGAGGGTCTTTAT
*
622050 GACCTCTGGATAGTTACCG-GGGTCTTTGT
1 GACCTCTGGATAGTTACCGAGGGTCTTTAT
622079 GACCTCTGGATAG
1 GACCTCTGGATAG
622092 GTCCTTCGGG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 21 0.57
30 16 0.43
ACGTcount: A:0.18, C:0.21, G:0.29, T:0.32
Consensus pattern (30 bp):
GACCTCTGGATAGTTACCGAGGGTCTTTAT
Found at i:626254 original size:30 final size:31
Alignment explanation
Indices: 626108--626234 Score: 195
Period size: 31 Copynumber: 4.1 Consensus size: 31
626098 AGAGTCGAGG
* * *
626108 GTTTACCTATG-TCTTTCGAGACATATGGACA
1 GTTTACCTAGGTTC-TTCGGGACCTATGGACA
626139 GTTTACCTAGGTTCTTCGGGACCTATGGACA
1 GTTTACCTAGGTTCTTCGGGACCTATGGACA
626170 GTTTACCTAGGTTCTTCGGGACCTATGGACA
1 GTTTACCTAGGTTCTTCGGGACCTATGGACA
626201 GTTTACCTAGGTT-TGTCGGGACCTATGGACA
1 GTTTACCTAGGTTCT-TCGGGACCTATGGACA
626232 GTT
1 GTT
626235 GCCGAGGTTC
Statistics
Matches: 91, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
30 1 0.01
31 88 0.97
32 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.34
Consensus pattern (31 bp):
GTTTACCTAGGTTCTTCGGGACCTATGGACA
Found at i:626278 original size:62 final size:62
Alignment explanation
Indices: 626131--626272 Score: 173
Period size: 62 Copynumber: 2.3 Consensus size: 62
626121 TTTCGAGACA
* * *
626131 TATGGACAGTTTACCTAGGTTCT-TCGGGACCTATGGACAGTTTACCTAGGTTCTTCGGGACC
1 TATGGACAGTTTACCGAGGTT-TGTCGGGACCTATGGACAGTTTACCGAGGTTCTTCAGGACC
* * * *
626193 TATGGACAGTTTACCTAGGTTTGTCGGGACCTATGGACAG-TTGCCGAGGTTCTTTATGACC
1 TATGGACAGTTTACCGAGGTTTGTCGGGACCTATGGACAGTTTACCGAGGTTCTTCAGGACC
* *
626254 TCTGGATAG-TTACCGAGGT
1 TATGGACAGTTTACCGAGGT
626273 CTTTGTGACC
Statistics
Matches: 71, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
60 9 0.13
61 24 0.34
62 38 0.54
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.32
Consensus pattern (62 bp):
TATGGACAGTTTACCGAGGTTTGTCGGGACCTATGGACAGTTTACCGAGGTTCTTCAGGACC
Found at i:626284 original size:29 final size:30
Alignment explanation
Indices: 626220--626291 Score: 101
Period size: 29 Copynumber: 2.4 Consensus size: 30
626210 GGTTTGTCGG
* * *
626220 GACCTATGGACAGTTGCCGAGGTTCTTTAT
1 GACCTCTGGATAGTTACCGAGGTTCTTTAT
*
626250 GACCTCTGGATAGTTACCGAGG-TCTTTGT
1 GACCTCTGGATAGTTACCGAGGTTCTTTAT
626279 GACCTCTGGATAG
1 GACCTCTGGATAG
626292 GTCCTTCGGG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
29 19 0.50
30 19 0.50
ACGTcount: A:0.19, C:0.21, G:0.28, T:0.32
Consensus pattern (30 bp):
GACCTCTGGATAGTTACCGAGGTTCTTTAT
Found at i:628080 original size:13 final size:13
Alignment explanation
Indices: 628062--628086 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
628052 ACCTAGATAG
628062 GGTATCGATACCC
1 GGTATCGATACCC
628075 GGTATCGATACC
1 GGTATCGATACC
628087 ATCAGTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (13 bp):
GGTATCGATACCC
Found at i:637897 original size:47 final size:47
Alignment explanation
Indices: 637839--637929 Score: 155
Period size: 47 Copynumber: 1.9 Consensus size: 47
637829 TAATTTAGGA
*
637839 CAATAAATCATACAAATCTTTCAACCTGACGGCTTTGACATCAAGCT
1 CAATAAATCATACAAATCTTTCAACATGACGGCTTTGACATCAAGCT
* *
637886 CAATAACTCATACAAATCTTTCAACATGATGGCTTTGACATCAA
1 CAATAAATCATACAAATCTTTCAACATGACGGCTTTGACATCAA
637930 AATATCAACT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 41 1.00
ACGTcount: A:0.37, C:0.24, G:0.10, T:0.29
Consensus pattern (47 bp):
CAATAAATCATACAAATCTTTCAACATGACGGCTTTGACATCAAGCT
Found at i:653710 original size:105 final size:105
Alignment explanation
Indices: 653524--654088 Score: 1022
Period size: 105 Copynumber: 5.4 Consensus size: 105
653514 AGGTTTTACC
*
653524 CAGAGTCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* *
653589 ACGAAGGGACCACTGGTTGTCAACAAACATTTCTCAAATT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
* *
653629 CAGAGCCAATTTTAACTTCACAACGAAGGATATTGGACTCTAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
653694 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
653734 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* *
653799 ACGAAGGGACCGCTGGTTGTCAGCAAACATTTCCCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
653839 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* * *
653904 ACGAATGGACCGCTGTTTGTCAACAAACATTTATCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
653944 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
654009 ACGAAGGGACCGCTGGTTGTCAACAAATATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
654049 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
654089 GGAACAATAC
Statistics
Matches: 442, Mismatches: 18, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
105 442 1.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (105 bp):
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
Found at i:656908 original size:29 final size:26
Alignment explanation
Indices: 656874--656930 Score: 78
Period size: 26 Copynumber: 2.1 Consensus size: 26
656864 ATTCTGCTAT
*
656874 TGGTATGAAAAGAAAAATTCTTGAGATAA
1 TGGTATG-AAA-AAAAA-TCGTGAGATAA
656903 TGGTATGAAAAAAAATCGTGAGATAA
1 TGGTATGAAAAAAAATCGTGAGATAA
656929 TG
1 TG
656931 TTGTTGGAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 12 0.44
27 5 0.19
28 3 0.11
29 7 0.26
ACGTcount: A:0.47, C:0.04, G:0.23, T:0.26
Consensus pattern (26 bp):
TGGTATGAAAAAAAATCGTGAGATAA
Found at i:658035 original size:26 final size:27
Alignment explanation
Indices: 657989--658049 Score: 65
Period size: 26 Copynumber: 2.3 Consensus size: 27
657979 TTTTACATTG
* *
657989 TTTTA-TATATATTTATTTATT-TTATT
1 TTTTATTATATATTTATATATTAATA-T
*
658015 TTTTATTA-ATATTTGTATATTAATAT
1 TTTTATTATATATTTATATATTAATAT
658041 TTTTATTAT
1 TTTTATTAT
658050 CCTTTTCTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
26 25 0.86
27 4 0.14
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.69
Consensus pattern (27 bp):
TTTTATTATATATTTATATATTAATAT
Found at i:659626 original size:18 final size:18
Alignment explanation
Indices: 659603--659637 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
659593 ACTGAATATT
659603 TGTCCCGAAGGACCACTA
1 TGTCCCGAAGGACCACTA
659621 TGTCCCGAAGGACCACT
1 TGTCCCGAAGGACCACT
659638 GATAATCCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.26, C:0.34, G:0.23, T:0.17
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:661160 original size:24 final size:24
Alignment explanation
Indices: 661133--661208 Score: 72
Period size: 21 Copynumber: 3.4 Consensus size: 24
661123 TAATGATTAG
*
661133 TAATGATTACTAATAATGAAATAC
1 TAATGATTACTAATAATGAAATAA
**
661157 T-A--ATTACTAATAATGATTTAA
1 TAATGATTACTAATAATGAAATAA
* *
661178 TAATGATTACTAAT-AT-TATTAA
1 TAATGATTACTAATAATGAAATAA
661200 TAATGATTA
1 TAATGATTA
661209 AATATAAATA
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
21 17 0.39
22 14 0.32
23 3 0.07
24 10 0.23
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.41
Consensus pattern (24 bp):
TAATGATTACTAATAATGAAATAA
Found at i:661181 original size:21 final size:21
Alignment explanation
Indices: 661123--661181 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
661113 GATTTGATAC
*
661123 TAATGATTAGTAATGATTACTAA
1 TAATGATT--TAATAATTACTAA
** *
661146 TAATGAAATACTAATTACTAA
1 TAATGATTTAATAATTACTAA
661167 TAATGATTTAATAAT
1 TAATGATTTAATAAT
661182 GATTACTAAT
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
21 23 0.79
23 6 0.21
ACGTcount: A:0.47, C:0.05, G:0.08, T:0.39
Consensus pattern (21 bp):
TAATGATTTAATAATTACTAA
Found at i:661191 original size:21 final size:21
Alignment explanation
Indices: 661120--661208 Score: 65
Period size: 24 Copynumber: 4.1 Consensus size: 21
661110 TAAGATTTGA
*
661120 TACTAATGA-TTAGTAATGAT
1 TACTAATGATTTAATAATGAT
* ** * *
661140 TACTAATAATGAAATACTAAT
1 TACTAATGATTTAATAATGAT
661161 TACTAATAATGATTTAATAATGAT
1 TAC---TAATGATTTAATAATGAT
661185 TACTAAT-ATTATTAATAATGAT
1 TACTAATGA-T-TTAATAATGAT
661207 TA
1 TA
661209 AATATAAATA
Statistics
Matches: 52, Mismatches: 11, Indels: 10
0.71 0.15 0.14
Matches are distributed among these distances:
20 9 0.17
21 14 0.27
22 13 0.25
24 16 0.31
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.40
Consensus pattern (21 bp):
TACTAATGATTTAATAATGAT
Found at i:661258 original size:21 final size:22
Alignment explanation
Indices: 661234--661276 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
661224 TAATCAATTT
661234 AAATCGAT-TTTATAAATAGTC
1 AAATCGATGTTTATAAATAGTC
**
661255 AAATTTATGTTTATAAATAGTC
1 AAATCGATGTTTATAAATAGTC
661277 GGATTTTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.42, C:0.07, G:0.09, T:0.42
Consensus pattern (22 bp):
AAATCGATGTTTATAAATAGTC
Found at i:661607 original size:22 final size:21
Alignment explanation
Indices: 661582--661631 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
661572 TTGTAAATAT
661582 ATTCCAACCAATATGCTCTATC
1 ATTCC-ACCAATATGCTCTATC
* * *
661604 ATTCCACCAGTTTGCTCTTTC
1 ATTCCACCAATATGCTCTATC
*
661625 ATCCCAC
1 ATTCCAC
661632 TTGCAAACGT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 19 0.79
22 5 0.21
ACGTcount: A:0.24, C:0.36, G:0.06, T:0.34
Consensus pattern (21 bp):
ATTCCACCAATATGCTCTATC
Found at i:662324 original size:24 final size:24
Alignment explanation
Indices: 662292--662425 Score: 105
Period size: 24 Copynumber: 5.5 Consensus size: 24
662282 ATTAGTATCC
*
662292 AATCATTATTAAATAATTATTAGT
1 AATCATTATTAAATAATTATTAAT
* *
662316 AATCATTATTAGTAATCATTACTAAAT
1 AATCATTATTA--AATAATTA-TTAAT
662343 CATATCATTATTAAATAATTATTAAT
1 -A-ATCATTATTAAATAATTATTAAT
* * *
662369 AATCATTACTAAATCATTAGT-AT
1 AATCATTATTAAATAATTATTAAT
* *
662392 CAA--ATCATTAAAT-ATTAATAAT
1 -AATCATTATTAAATAATTATTAAT
662414 AAATCATTATTA
1 -AATCATTATTA
662426 TTAATCATTA
Statistics
Matches: 88, Mismatches: 13, Indels: 18
0.74 0.11 0.15
Matches are distributed among these distances:
21 5 0.06
22 12 0.14
23 2 0.02
24 36 0.41
25 1 0.01
26 11 0.12
27 10 0.11
28 1 0.01
29 10 0.11
ACGTcount: A:0.47, C:0.09, G:0.02, T:0.42
Consensus pattern (24 bp):
AATCATTATTAAATAATTATTAAT
Found at i:662325 original size:13 final size:12
Alignment explanation
Indices: 662278--662444 Score: 80
Period size: 13 Copynumber: 13.5 Consensus size: 12
662268 ATCAACACTA
*
662278 AATCATTAGTAT
1 AATCATTATTAT
662290 CCAATCATTATTA-
1 --AATCATTATTAT
*
662303 AATAATTATTAGT
1 AATCATTATTA-T
662316 AATCATTATTAGT
1 AATCATTATTA-T
*
662329 AATCATTACTA-
1 AATCATTATTAT
662340 AATCATATCATTATT
1 AATCAT-T-ATTA-T
*
662355 AAATAATTATTAAT
1 -AATCATTATT-AT
*
662369 AATCATTACTA-
1 AATCATTATTAT
*
662380 AATCATTAGTAT
1 AATCATTATTAT
*
662392 CAA--ATCATTA-
1 -AATCATTATTAT
*
662402 AAT-ATTAATAAT
1 AATCATT-ATTAT
662414 AAATCATTATTATT
1 -AATCATTATTA-T
*
662428 AATCATTACTA-
1 AATCATTATTAT
662439 AATCAT
1 AATCAT
662445 ATCATTACTA
Statistics
Matches: 122, Mismatches: 15, Indels: 35
0.71 0.09 0.20
Matches are distributed among these distances:
9 2 0.02
10 2 0.02
11 40 0.33
12 2 0.02
13 51 0.42
14 18 0.15
15 2 0.02
16 5 0.04
ACGTcount: A:0.46, C:0.11, G:0.02, T:0.41
Consensus pattern (12 bp):
AATCATTATTAT
Found at i:662431 original size:59 final size:61
Alignment explanation
Indices: 662354--662498 Score: 172
Period size: 59 Copynumber: 2.4 Consensus size: 61
662344 ATATCATTAT
662354 TAAATAATTATTAATAATCATTACTAAATCAT-T-AGTA-TCAAATCATTAAATATTAATAA
1 TAAATAATTATTAATAATCATTACTAAATCATATCAGTACT-AAATCATTAAATATTAATAA
* * * *
662413 TAAATCATTATTATTAATCATTACTAAATCATATCATTACTAAATCATTAAATATCAAATAA
1 TAAATAATTATTAATAATCATTACTAAATCATATCAGTACTAAATCATTAAATAT-TAATAA
* *
662475 TTTAAT-ATTAATAATAAATCATTA
1 -TAAATAATTATTAAT-AATCATTA
662499 GTAGTATCAA
Statistics
Matches: 73, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
59 30 0.41
60 1 0.01
61 17 0.23
62 13 0.18
63 12 0.16
ACGTcount: A:0.50, C:0.10, G:0.01, T:0.40
Consensus pattern (61 bp):
TAAATAATTATTAATAATCATTACTAAATCATATCAGTACTAAATCATTAAATATTAATAA
Found at i:662440 original size:24 final size:24
Alignment explanation
Indices: 662292--662462 Score: 86
Period size: 24 Copynumber: 6.9 Consensus size: 24
662282 ATTAGTATCC
* * *
662292 AATCATTATTAAATAATTATTAGT-
1 AATCATTATT-ATTAATCATTACTA
*
662316 AATCATTATTAGTAATCATTACTA
1 AATCATTATTATTAATCATTACTA
* *
662340 AATCATATCATTATTAAATAATTATTAA
1 AATCAT-T-ATTATT-AATCATTACT-A
* *
662368 TAATCATTACTA--AATCATTAGTATCA
1 -AATCATTATTATTAATCATTA--CT-A
*
662394 AATCATTAAATATTAAT-A--A-TA
1 AATCATT-ATTATTAATCATTACTA
662415 AATCATTATTATTAATCATTACTA
1 AATCATTATTATTAATCATTACTA
*
662439 AATCATATCATTACTAAATCATTA
1 AATCAT-T-ATTA-TTAATCATTA
662463 AATATCAAAT
Statistics
Matches: 116, Mismatches: 13, Indels: 33
0.72 0.08 0.20
Matches are distributed among these distances:
20 8 0.07
21 9 0.08
22 1 0.01
23 11 0.09
24 31 0.27
25 10 0.09
26 14 0.12
27 21 0.18
28 5 0.04
29 6 0.05
ACGTcount: A:0.46, C:0.11, G:0.02, T:0.42
Consensus pattern (24 bp):
AATCATTATTATTAATCATTACTA
Found at i:662446 original size:99 final size:101
Alignment explanation
Indices: 662265--662462 Score: 285
Period size: 99 Copynumber: 2.0 Consensus size: 101
662255 TCTCAGTACT
* * *
662265 ATAATCAACACTAAATCATTAGTATCCAATCATTATTAAATAATTATTAGTAATCATTATTAGTA
1 ATAATCAACACTAAATCATTAGTATCCAA-CATCATTAAATAATTAATAATAATCATTATTAGTA
*
662330 ATCATTACTAAATCATATCATTATTAAATAATTATTA
65 ATCATTACTAAATCATATCATTACTAAATAATTATTA
** *
662367 ATAATCATTACTAAATCATTAGTAT-CAA-ATCATTAAAT-ATTAATAATAAATCATTATTATTA
1 ATAATCAACACTAAATCATTAGTATCCAACATCATTAAATAATTAATAAT-AATCATTATTAGTA
*
662429 ATCATTACTAAATCATATCATTACTAAATCATTA
65 ATCATTACTAAATCATATCATTACTAAATAATTA
662463 AATATCAAAT
Statistics
Matches: 87, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
98 7 0.08
99 54 0.62
101 3 0.03
102 23 0.26
ACGTcount: A:0.46, C:0.12, G:0.02, T:0.40
Consensus pattern (101 bp):
ATAATCAACACTAAATCATTAGTATCCAACATCATTAAATAATTAATAATAATCATTATTAGTAA
TCATTACTAAATCATATCATTACTAAATAATTATTA
Found at i:662450 original size:16 final size:16
Alignment explanation
Indices: 662429--662460 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
662419 ATTATTATTA
662429 ATCATTACTAAATCAT
1 ATCATTACTAAATCAT
662445 ATCATTACTAAATCAT
1 ATCATTACTAAATCAT
662461 TAAATATCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.38
Consensus pattern (16 bp):
ATCATTACTAAATCAT
Found at i:663048 original size:17 final size:17
Alignment explanation
Indices: 663016--663048 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
663006 CCGGACCGGC
663016 TAGCGAACTGGACATGT
1 TAGCGAACTGGACATGT
*
663033 TAGCGAACTGGTCATG
1 TAGCGAACTGGACATG
663049 CTACCGGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.27, C:0.18, G:0.30, T:0.24
Consensus pattern (17 bp):
TAGCGAACTGGACATGT
Found at i:663904 original size:18 final size:18
Alignment explanation
Indices: 663873--663907 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
663863 CTGGTTCGAA
*
663873 CGGTTCTGATCGGTTCAG
1 CGGTTCTGACCGGTTCAG
*
663891 CGGTTCTGGCCGGTTCA
1 CGGTTCTGACCGGTTCA
663908 CTAATAACGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.09, C:0.26, G:0.34, T:0.31
Consensus pattern (18 bp):
CGGTTCTGACCGGTTCAG
Found at i:665567 original size:50 final size:50
Alignment explanation
Indices: 665492--665592 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
665482 CCTTTTGGTG
665492 ATTTTTGCATTGAATCTTTCTCTCTGAGCCAATTGCATGCCCTATTGTAT
1 ATTTTTGCATTGAATCTTTCTCTCTGAGCCAATTGCATGCCCTATTGTAT
665542 ATTTTTGCATTGAATCTTTCTCTCTGAGCCAATTGCATGCCCTATTGTAT
1 ATTTTTGCATTGAATCTTTCTCTCTGAGCCAATTGCATGCCCTATTGTAT
665592 A
1 A
665593 AGATTTATTT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.21, C:0.22, G:0.14, T:0.44
Consensus pattern (50 bp):
ATTTTTGCATTGAATCTTTCTCTCTGAGCCAATTGCATGCCCTATTGTAT
Found at i:669979 original size:20 final size:20
Alignment explanation
Indices: 669943--669980 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
669933 AATTTAATTT
*
669943 TCAAATATAGTATTAATAAA
1 TCAAATATAATATTAATAAA
669963 TCAAATAGTAATA-TAATA
1 TCAAATA-TAATATTAATA
669981 TTTAAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.34
Consensus pattern (20 bp):
TCAAATATAATATTAATAAA
Found at i:682901 original size:41 final size:42
Alignment explanation
Indices: 682837--682919 Score: 125
Period size: 41 Copynumber: 2.0 Consensus size: 42
682827 GATTTAACAA
* *
682837 ACGAACATCTGCCTTTAATGAATCC-CTTCCGCATATGCTTT
1 ACGAACATCTGCCTTCAACGAATCCACTTCCGCATATGCTTT
682878 ACGAACAGTC-GCCTTCAACGAATCCACTTCCGCATATGCTTT
1 ACGAACA-TCTGCCTTCAACGAATCCACTTCCGCATATGCTTT
682920 TTCTATATCG
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
41 20 0.53
42 18 0.47
ACGTcount: A:0.25, C:0.31, G:0.13, T:0.30
Consensus pattern (42 bp):
ACGAACATCTGCCTTCAACGAATCCACTTCCGCATATGCTTT
Found at i:687737 original size:57 final size:57
Alignment explanation
Indices: 687649--687763 Score: 230
Period size: 57 Copynumber: 2.0 Consensus size: 57
687639 CCCAAAAGAA
687649 TACTACTGACCTTCACTATTTACTTTGTGTAGTTTTCATTTCATTCAAAAATTACTT
1 TACTACTGACCTTCACTATTTACTTTGTGTAGTTTTCATTTCATTCAAAAATTACTT
687706 TACTACTGACCTTCACTATTTACTTTGTGTAGTTTTCATTTCATTCAAAAATTACTT
1 TACTACTGACCTTCACTATTTACTTTGTGTAGTTTTCATTTCATTCAAAAATTACTT
687763 T
1 T
687764 CGGAATAAAG
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.26, C:0.19, G:0.07, T:0.48
Consensus pattern (57 bp):
TACTACTGACCTTCACTATTTACTTTGTGTAGTTTTCATTTCATTCAAAAATTACTT
Done.