Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008419.1 Hibiscus syriacus cultivar Beakdansim tig00111199_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: 1038719
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
File 4 of 5
Found at i:597116 original size:3 final size:3
Alignment explanation
Indices: 597108--597157 Score: 73
Period size: 3 Copynumber: 16.0 Consensus size: 3
597098 AAATTTAAAT
*
597108 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TATA TTA TTTA TTA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA -TTA TTA TTA
597155 TTA
1 TTA
597158 CAAAACCCAA
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
3 37 0.86
4 6 0.14
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:606517 original size:93 final size:93
Alignment explanation
Indices: 606357--606638 Score: 460
Period size: 93 Copynumber: 3.0 Consensus size: 93
606347 TAAGAAGACC
*
606357 CATAGCATCTTTTGGAAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACC
1 CATAGCATCTTCTGG-AAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACC
606422 AATCATTGAATTTGGAAGATGAATGTGCT
65 AATCATTGAATTTGGAAGATGAATGTGCT
606451 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCA
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCA
606516 ATCATTGAATTTGGAAGATGAATGTGCT
66 ATCATTGAATTTGGAAGATGAATGTGCT
* * * *
606544 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTAGTATG-AACTC-CAAAATC
1 CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAAC-CACAGAACC
* * *
606607 AATCATTGGATTTGAAAGATGAATTTGCT
65 AATCATTGAATTTGGAAGATGAATGTGCT
606636 CAT
1 CAT
606639 GGTAGAAATA
Statistics
Matches: 179, Mismatches: 8, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
92 37 0.21
93 128 0.72
94 14 0.08
ACGTcount: A:0.29, C:0.15, G:0.21, T:0.36
Consensus pattern (93 bp):
CATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCA
ATCATTGAATTTGGAAGATGAATGTGCT
Found at i:606923 original size:115 final size:114
Alignment explanation
Indices: 606541--606972 Score: 722
Period size: 114 Copynumber: 3.8 Consensus size: 114
606531 AGATGAATGT
*
606541 GCTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTAGTATGAACTCCAAAA
1 GCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGTATGAACTCCAAAA
606605 TCAATCATTGGATTTGAAAGATGAATTTGCTCATGGTAGAAATAATGAG
66 TCAATCATTGGATTTGAAAGATGAATTTGCTCATGGTAGAAATAATGAG
*
606654 GCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATTTGATTTGGTATGAACTCCAAAA
1 GCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGTATGAACTCCAAAA
606719 TCAATCATTGGATTTGAAAGATGAATTTGCTCATGGTAGAAATAATGAG
66 TCAATCATTGGATTTGAAAGATGAATTTGCTCATGGTAGAAATAATGAG
606768 GCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGTATGAACTCCAAAA
1 GCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGTATGAACTCCAAAA
* *
606833 TCAATCATTGGATTTGAAAGATGAATTTTGCTCATAGTAGAAATAAGGAG
66 TCAATCATTGGATTTGAAAGATGAA-TTTGCTCATGGTAGAAATAATGAG
* * * * * * *
606883 ACCCAATAGCATCTTTTGGAAGTGTTCTTTGAGTTATCTGATCTGATTCGGTAGGAACCCCAGAA
1 GCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGTATGAACTCCAAAA
* * *
606948 CCGATCATTGGAATTGAAAGATGAA
66 TCAATCATTGGATTTGAAAGATGAA
606973 CTGCATGATC
Statistics
Matches: 302, Mismatches: 15, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
113 4 0.01
114 196 0.65
115 102 0.34
ACGTcount: A:0.31, C:0.14, G:0.21, T:0.34
Consensus pattern (114 bp):
GCTCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTTGGTATGAACTCCAAAA
TCAATCATTGGATTTGAAAGATGAATTTGCTCATGGTAGAAATAATGAG
Found at i:610160 original size:76 final size:76
Alignment explanation
Indices: 610034--610799 Score: 1379
Period size: 76 Copynumber: 10.1 Consensus size: 76
610024 CTATTTCCCA
*
610034 CATCTGTAAGTCCTTCGGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
610099 AACCTTCGGGT
66 AGCCTTCGGGT
610110 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
610175 AGCCTTCGGGT
66 AGCCTTCGGGT
610186 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
*
610251 AAGCCTTAGGGT
65 AAGCCTTCGGGT
* *
610263 CATCTGTAAGTCCTTCATTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
610328 AACCTTCGGGT
66 AGCCTTCGGGT
*
610339 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
610404 AGCCTTCGGGT
66 AGCCTTCGGGT
610415 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
610480 AGCCTTCAGGT
66 AGCCTTCGGGT
610491 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
*
610556 AAGGCTTCGGGT
65 AAGCCTTCGGGT
610568 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
610633 AACCTTCGGGT
66 AGCCTTCGGGT
* *
610644 CATCTGTAAATCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTGTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
610709 AGCCTTCGGGT
66 AGCCTTCGGGT
*
610720 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
**
610785 AATCTTCGGGT
66 AGCCTTCGGGT
610796 CATC
1 CATC
610800 AGCATTACCA
Statistics
Matches: 663, Mismatches: 25, Indels: 4
0.96 0.04 0.01
Matches are distributed among these distances:
76 515 0.78
77 148 0.22
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.35
Consensus pattern (76 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTCGGGT
Found at i:610435 original size:229 final size:228
Alignment explanation
Indices: 610034--610799 Score: 1390
Period size: 229 Copynumber: 3.4 Consensus size: 228
610024 CTATTTCCCA
*
610034 CATCTGTAAGTCCTTCGGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
610099 AACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
610164 GATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAAGCCTT
131 GATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAAGCCTT
610229 CGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGT
195 CGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGT
* *
610263 CATCTGTAAGTCCTTCATTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
610328 AACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
*
610393 GATATTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
131 GATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
610458 GGGAGCTTTTTGATGTTTTCAAAGCCTTCA-GGT
196 GGGAGCTTTTTGATGTTTTCAAAGCCTT-AGGGT
610491 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCC-AAAAAGCCTTCGGGAGCTTTTTGATGTTTTCA
**
610556 AAGGCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
65 AAACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTT
* *
610621 TGATGTTTTCAAAACCTTCGGGTCATCTGTAAATCCTTCAGTGCATGATGTTTCCAAAAAGCCTT
130 TGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTT
* *
610686 CGGGAGCTTTTTGATGTGTTCAAAGCCTTCGGGT
195 CGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGT
*
610720 CATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
610785 AATCTTCGGGTCATC
66 AACCTTCGGGTCATC
610800 AGCATTACCA
Statistics
Matches: 518, Mismatches: 16, Indels: 7
0.96 0.03 0.01
Matches are distributed among these distances:
228 119 0.23
229 399 0.77
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.35
Consensus pattern (228 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
GATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
GGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGT
Found at i:610592 original size:305 final size:305
Alignment explanation
Indices: 610034--610799 Score: 1415
Period size: 305 Copynumber: 2.5 Consensus size: 305
610024 CTATTTCCCA
*
610034 CATCTGTAAGTCCTTCGGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
610099 AACCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
610164 GATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAAGCCTT
131 GATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAAGCCTT
*
610229 CGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTTCATTGCATGATGTTTC
196 CGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTC
610294 CAAAAAGCCTTCGAGAGCTTTTTGATGTTTTCAAAACCTTCGGGT
261 CAAAAAGCCTTCGAGAGCTTTTTGATGTTTTCAAAACCTTCGGGT
*
610339 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATATTTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
610404 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
*
610469 GATGTTTTCAAAGCCTTCAGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAAGCCTT
131 GATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAAGCCTT
* *
610534 CGGGAGCTTTTTGATGTTTTCAAAGGCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTC
196 CGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTC
*
610599 CAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAACCTTCGGGT
261 CAAAAAGCCTTCGAGAGCTTTTTGATGTTTTCAAAACCTTCGGGT
* *
610644 CATCTGTAAATCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTGTTCAA
1 CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
610709 AGCCTTCGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
**
610774 GATGTTTTCAAAATCTTCGGGTCATC
131 GATGTTTTCAAAGCCTTCGGGTCATC
610800 AGCATTACCA
Statistics
Matches: 446, Mismatches: 15, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
305 446 1.00
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.35
Consensus pattern (305 bp):
CATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
GATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTCCAAAAAAGCCTT
CGGGAGCTTTTTGATGTTTTCAAAGCCTTAGGGTCATCTGTAAGTCCTTCAGTGCATGATGTTTC
CAAAAAGCCTTCGAGAGCTTTTTGATGTTTTCAAAACCTTCGGGT
Found at i:610945 original size:113 final size:113
Alignment explanation
Indices: 610815--611559 Score: 966
Period size: 113 Copynumber: 6.5 Consensus size: 113
610805 TACCAGGTAG
610815 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* * *
610880 AACCTTTTGCTCAAATCCATCACTTGATGGACCAGCTTTGCCAGAAAA
66 AACCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGAGAA
*
610928 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* *
610993 AATCTTTTGCTCAAATCCATCA-TTCGATGGATCAGCTTTTCCAGAAAA
66 AACCTTTTGCTCAAATCCATCACTT-GATGGATCAGCTTTTCCAGAGAA
*
611041 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
611106 AA-CTTTTCGCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGAGAA
66 AACCTTTT-GCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGAGAA
* **
611154 AGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* * * ** *
611219 GACCATTTG-T-ATAATTCTATCACAGAAGAAGATAGAACAACATCAGCTTTTCCAGAGAA
66 AACCTTTTGCTCA-AA-TCCATCAC-----TTGAT-G-----GATCAGCTTTTCCAGAGAA
611278 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
1 AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
* * * * * * * * *
611343 AACCTTTTGTTTAAATTCATCATTTGATGGATTAACATTGCCAG-GTAG
66 AACCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGAG-AA
* ** *
611391 AGTTCATAATGAGAAGAACTCGTCAT-CTGAA-GAAGAAGAAGTTCATAATGAGAAGAATTTATT
1 AGTTCATAATGAGAAGAACTCATC-TGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTT
* * *
611454 CAACCTTTTGCTTAAATTCATCACTTGATGGATCAACTTTTCCAGAGAA
65 CAACCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGAGAA
* *
611503 AGTTCATAATGAGGAGAACTCATCTGAA-AGAGAAAGAAGAAGTTCATAATGAGAAGA
1 AGTTCATAATGAGAAGAACTCATCTGAAGA-AGGAAGAAGAAGTTCATAATGAGAAGA
611560 GCTTATTCAA
Statistics
Matches: 561, Mismatches: 46, Indels: 50
0.85 0.07 0.08
Matches are distributed among these distances:
111 3 0.01
112 106 0.19
113 341 0.61
114 7 0.01
118 4 0.01
119 4 0.01
124 92 0.16
125 3 0.01
126 1 0.00
ACGTcount: A:0.39, C:0.14, G:0.19, T:0.27
Consensus pattern (113 bp):
AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTC
AACCTTTTGCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGAGAA
Found at i:611444 original size:20 final size:20
Alignment explanation
Indices: 611391--611447 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 20
611381 TGCCAGGTAG
*
611391 AGTTCATAATGAGAAGAACT
1 AGTTCATAATGAGAAGAACA
* * *
611411 CG-TCAT-CTGAAGAAGAAGA
1 AGTTCATAATG-AGAAGAACA
611430 AGTTCATAATGAGAAGAA
1 AGTTCATAATGAGAAGAA
611448 TTTATTCAAC
Statistics
Matches: 28, Mismatches: 6, Indels: 6
0.70 0.15 0.15
Matches are distributed among these distances:
18 2 0.07
19 12 0.43
20 12 0.43
21 2 0.07
ACGTcount: A:0.46, C:0.11, G:0.23, T:0.21
Consensus pattern (20 bp):
AGTTCATAATGAGAAGAACA
Found at i:611560 original size:349 final size:348
Alignment explanation
Indices: 610912--611645 Score: 1025
Period size: 349 Copynumber: 2.1 Consensus size: 348
610902 CTTGATGGAC
* *
610912 CAGCTTTGCCAGAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAA
1 CAGCTTTCCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAA
* * * *
610977 TGAGAAGAATTTGTTCAATCTTTTGCTCAAATCCATCATTCGATGGATCAGCTTTTCCAGAAAAA
66 TGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTCGATGGATCAACATTGCCAGAAAAA
*
611042 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCA
131 GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG--ATTCATAATGAGAAGAATTTATTCA
*
611107 ACTTTTCGCTCAAATCCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAA
194 ACTTTTCGCTCAAATCCATCACTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAA
* * * *
611172 CTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAGCTTGTTCGACCATTTGTATAATTCT
259 CTCATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAGCTTATTCAACCATTTGAATAACTCT
611237 ATCACAGAA-GAAGATAGAACAACAT
324 ATCACAGAAGGAA-ATAGAACAACAT
* *
611262 CAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAA
1 CAGCTTTCCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAA
* * * * * ** *
611327 TGAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATCATTTGATGGATTAACATTGCCAGGTAGA
66 TGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTCGATGGATCAACATTGCCAGAAAAA
611392 GTTCATAATGAGAAGAACTCGTCATCTGAAGAA-GAAGAAG-TTCATAATGAGAAGAATTTATTC
131 GTTCATAATGAGAAGAA--C-TCATCTGAAGAAGGAAGAAGATTCATAATGAGAAGAATTTATTC
* * *
611455 AACCTTTT-GCTTAAATTCATCACTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGGAG
193 AA-CTTTTCGCTCAAATCCATCACTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAG
* * * *
611519 AACTCATCTGAA-AGAGAAAGAAGAAGTTCATAATGAGAAGAGCTTATTCAATCTTTTGAATGAC
257 AACTCATCTGAAGAAAG-AAGAAGAAGTTCATAATGAGAAGAGCTTATTCAACCATTTGAATAAC
**
611583 TCTATCACAGAAGGAAATAGGTCAACAT
321 TCTATCACAGAAGGAAATAGAACAACAT
* *
611611 CA---TCCCCAGTGGAAAAGTTCATAATGAGAAGAACT
1 CAGCTTTCCCAG-AG-AAAGTTCATAATGAGAAGAACT
611646 AATCCCAAAG
Statistics
Matches: 343, Mismatches: 33, Indels: 18
0.87 0.08 0.05
Matches are distributed among these distances:
346 5 0.01
347 1 0.00
348 25 0.07
349 152 0.44
350 140 0.41
352 8 0.02
353 12 0.03
ACGTcount: A:0.39, C:0.15, G:0.19, T:0.27
Consensus pattern (348 bp):
CAGCTTTCCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAA
TGAGAAGAATTTGTTCAACCTTTTGCTCAAATCCATCATTCGATGGATCAACATTGCCAGAAAAA
GTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGATTCATAATGAGAAGAATTTATTCAAC
TTTTCGCTCAAATCCATCACTTGATGGATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACT
CATCTGAAGAAAGAAGAAGAAGTTCATAATGAGAAGAGCTTATTCAACCATTTGAATAACTCTAT
CACAGAAGGAAATAGAACAACAT
Found at i:611590 original size:113 final size:111
Alignment explanation
Indices: 611260--611577 Score: 426
Period size: 112 Copynumber: 2.8 Consensus size: 111
611250 ATAGAACAAC
*
611260 ATCAGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCAT
1 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG-A-GAAGAAGAAGTTCAT
* * *
611325 AATGAGAAGAATTTGTTCAACCTTTTGTTTAAATTCATCATTTGATGG
64 AATGAGAAGAATTTATTCAACCTTTTGATTAAATTCATCACTTGATGG
* * * *
611373 ATTAACATTGCCAG-GTAGAGTTCATAATGAGAAGAACTCGTCATCTG-A-AGAAGAAGAAGTTC
1 ATCAACTTTTCCAGAG-AAAGTTCATAATGAGAAGAA--C-TCATCTGAAGAGAAGAAGAAGTTC
*
611435 ATAATGAGAAGAATTTATTCAACCTTTTGCTTAAATTCATCACTTGATGG
62 ATAATGAGAAGAATTTATTCAACCTTTTGATTAAATTCATCACTTGATGG
*
611485 ATCAACTTTTCCAGAGAAAGTTCATAATGAGGAGAACTCATCTGAAAGAGAAAGAAGAAGTTCAT
1 ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTG-AAGAG-AAGAAGAAGTTCAT
** *
611550 AATGAGAAGAGCTTATTCAATCTTTTGA
64 AATGAGAAGAATTTATTCAACCTTTTGA
611578 ATGACTCTAT
Statistics
Matches: 179, Mismatches: 17, Indels: 18
0.84 0.08 0.08
Matches are distributed among these distances:
109 7 0.04
110 1 0.01
111 1 0.01
112 92 0.51
113 69 0.39
115 2 0.01
116 7 0.04
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (111 bp):
ATCAACTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAGAAGAAGAAGTTCATAA
TGAGAAGAATTTATTCAACCTTTTGATTAAATTCATCACTTGATGG
Found at i:611813 original size:3 final size:3
Alignment explanation
Indices: 611805--611857 Score: 79
Period size: 3 Copynumber: 17.0 Consensus size: 3
611795 AAATTTAAAT
611805 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TATA TTA TTTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA -TTA TTA
*
611852 ATA TTA
1 TTA TTA
611858 CAAAACCCAA
Statistics
Matches: 46, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
3 40 0.87
4 6 0.13
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:614861 original size:75 final size:74
Alignment explanation
Indices: 614722--614870 Score: 289
Period size: 75 Copynumber: 2.0 Consensus size: 74
614712 GTATATATGA
614722 AGCTTCCTTTAGGATATTCTTCACATGAAACAGTTCTGATTTAGTTTGTCAATTACACAAGTCTA
1 AGCTTCCTTTAGGATATTCTTCACATGAAACAGTTCTGATTTAGTTTGTCAATTACACAAGTCTA
614787 TCTATGGCC
66 TCTATGGCC
614796 AGCTTCCTTTAGGATATTCTTCACATGAAACAGGTTCTGATTTAGTTTGTCAATTACACAAGTCT
1 AGCTTCCTTTAGGATATTCTTCACATGAAACA-GTTCTGATTTAGTTTGTCAATTACACAAGTCT
614861 ATCTATGGCC
65 ATCTATGGCC
614871 TCAAACAAGC
Statistics
Matches: 74, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
74 32 0.43
75 42 0.57
ACGTcount: A:0.27, C:0.20, G:0.15, T:0.38
Consensus pattern (74 bp):
AGCTTCCTTTAGGATATTCTTCACATGAAACAGTTCTGATTTAGTTTGTCAATTACACAAGTCTA
TCTATGGCC
Found at i:615349 original size:16 final size:16
Alignment explanation
Indices: 615325--615369 Score: 72
Period size: 16 Copynumber: 2.8 Consensus size: 16
615315 TAATAAATAA
*
615325 ACGATCATAAACGAAC
1 ACGAACATAAACGAAC
*
615341 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
615357 ACGAACATAAACG
1 ACGAACATAAACG
615370 TTGGAGACTC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.53, C:0.22, G:0.13, T:0.11
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:616425 original size:10 final size:10
Alignment explanation
Indices: 616424--616498 Score: 51
Period size: 10 Copynumber: 6.7 Consensus size: 10
616414 AACATAACCG
616424 AACGAACATA
1 AACGAACATA
*
616434 AACGAGCATAA
1 AACGAACAT-A
616445 CCGAACGAACATA
1 ---AACGAACATA
*
616458 AACGAGCATAA
1 AACGAACAT-A
616469 CCGAACGAACATA
1 ---AACGAACATA
616482 AACGAACATA
1 AACGAACATA
*
616492 ACCGAAC
1 AACGAAC
616499 GTTCACGAAC
Statistics
Matches: 52, Mismatches: 5, Indels: 16
0.71 0.07 0.22
Matches are distributed among these distances:
10 32 0.62
11 2 0.04
13 2 0.04
14 16 0.31
ACGTcount: A:0.52, C:0.25, G:0.15, T:0.08
Consensus pattern (10 bp):
AACGAACATA
Found at i:616509 original size:24 final size:24
Alignment explanation
Indices: 616407--616499 Score: 168
Period size: 24 Copynumber: 3.9 Consensus size: 24
616397 ATGAATGAAT
616407 ATAAACGAACATAACCGAACGAAC
1 ATAAACGAACATAACCGAACGAAC
*
616431 ATAAACGAGCATAACCGAACGAAC
1 ATAAACGAACATAACCGAACGAAC
*
616455 ATAAACGAGCATAACCGAACGAAC
1 ATAAACGAACATAACCGAACGAAC
616479 ATAAACGAACATAACCGAACG
1 ATAAACGAACATAACCGAACG
616500 TTCACGAACG
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 67 1.00
ACGTcount: A:0.52, C:0.25, G:0.15, T:0.09
Consensus pattern (24 bp):
ATAAACGAACATAACCGAACGAAC
Found at i:619640 original size:20 final size:20
Alignment explanation
Indices: 619615--619661 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
619605 TATTCCCTGA
619615 TAATCTTTTATTCCCAATAG
1 TAATCTTTTATTCCCAATAG
* *
619635 TAATCTTTTATTCCTAATGG
1 TAATCTTTTATTCCCAATAG
619655 TAATCTT
1 TAATCTT
619662 ACATTCCGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.28, C:0.17, G:0.06, T:0.49
Consensus pattern (20 bp):
TAATCTTTTATTCCCAATAG
Found at i:619667 original size:20 final size:20
Alignment explanation
Indices: 619624--619668 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
619614 ATAATCTTTT
**
619624 ATTCCCAATAGTAATCTTTT
1 ATTCCCAATAGTAATCTTAC
* *
619644 ATTCCTAATGGTAATCTTAC
1 ATTCCCAATAGTAATCTTAC
619664 ATTCC
1 ATTCC
619669 GTGAACCAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.22, G:0.07, T:0.42
Consensus pattern (20 bp):
ATTCCCAATAGTAATCTTAC
Found at i:620241 original size:2 final size:2
Alignment explanation
Indices: 620234--620284 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
620224 CAAATAACTT
620234 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
620276 TA TA TA TA T
1 TA TA TA TA T
620285 GTTTTTAAAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:622851 original size:14 final size:16
Alignment explanation
Indices: 622832--622864 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
622822 TTCCTTATTG
622832 TTATTATT-T-AAAAT
1 TTATTATTGTAAAAAT
622846 TTATTATTGTAAAAAT
1 TTATTATTGTAAAAAT
622862 TTA
1 TTA
622865 ATTTTCTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.47
15 1 0.06
16 8 0.47
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
TTATTATTGTAAAAAT
Found at i:625583 original size:23 final size:23
Alignment explanation
Indices: 625553--625623 Score: 81
Period size: 23 Copynumber: 3.1 Consensus size: 23
625543 ATCTCTATTA
625553 ATGAAAAATAGTTAAGTCTTTTC
1 ATGAAAAATAGTTAAGTCTTTTC
* *
625576 ATGAAAAATAGTTAATTCATTTC
1 ATGAAAAATAGTTAAGTCTTTTC
*** *
625599 ACCCAAAA-AGTCAAGTCTTTTC
1 ATGAAAAATAGTTAAGTCTTTTC
625621 ATG
1 ATG
625624 TTAATCTTTT
Statistics
Matches: 38, Mismatches: 10, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
22 12 0.32
23 26 0.68
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.35
Consensus pattern (23 bp):
ATGAAAAATAGTTAAGTCTTTTC
Found at i:628338 original size:19 final size:20
Alignment explanation
Indices: 628309--628346 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
628299 AGAAATTTGT
628309 TGAAGGTGCATCGATGCATA
1 TGAAGGTGCATCGATGCATA
628329 TGAA-GTGCATCGATGCAT
1 TGAAGGTGCATCGATGCAT
628347 TAATTTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (20 bp):
TGAAGGTGCATCGATGCATA
Found at i:629179 original size:149 final size:149
Alignment explanation
Indices: 628865--629168 Score: 590
Period size: 149 Copynumber: 2.0 Consensus size: 149
628855 GGGTAGAGGG
* *
628865 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGATACAT
1 TCTACGCGGTCCTTCGGGATATATATATATTCTATGGAACATGTGTGAAGTCTTGTAAGACACAT
628930 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTA
628995 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
629014 TCTACGCGGTCCTTCGGGATATATATATATTCTATGGAACATGTGTGAAGTCTTGTAAGACACAT
1 TCTACGCGGTCCTTCGGGATATATATATATTCTATGGAACATGTGTGAAGTCTTGTAAGACACAT
629079 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTA
629144 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
629163 TCTACG
1 TCTACG
629169 TGGCACTTCG
Statistics
Matches: 153, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
149 153 1.00
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (149 bp):
TCTACGCGGTCCTTCGGGATATATATATATTCTATGGAACATGTGTGAAGTCTTGTAAGACACAT
ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTA
TATGGCACTACGGTGCAAT
Found at i:629180 original size:23 final size:23
Alignment explanation
Indices: 629146--629191 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
629136 CATTATTATA
*
629146 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTATACG
*
629169 TGGCACTTCGGTGCAATTATACG
1 TGGCACTACGGTGCAATTATACG
629192 AGCTGTGGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.22, C:0.24, G:0.26, T:0.28
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTATACG
Found at i:635322 original size:19 final size:20
Alignment explanation
Indices: 635293--635330 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
635283 AGAAATTTGT
635293 TGAAGGTGCATCGATGCATA
1 TGAAGGTGCATCGATGCATA
635313 TGAA-GTGCATCGATGCAT
1 TGAAGGTGCATCGATGCAT
635331 TAATTTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (20 bp):
TGAAGGTGCATCGATGCATA
Found at i:636157 original size:23 final size:23
Alignment explanation
Indices: 636130--636175 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
636120 CATTATTATA
*
636130 TGGCACTAT-GGTGCAATTCTACG
1 TGGCACT-TCGGTGCAATTATACG
636153 TGGCACTTCGGTGCAATTATACG
1 TGGCACTTCGGTGCAATTATACG
636176 AGCTATGGTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 1 0.05
23 20 0.95
ACGTcount: A:0.22, C:0.22, G:0.26, T:0.30
Consensus pattern (23 bp):
TGGCACTTCGGTGCAATTATACG
Found at i:636163 original size:149 final size:149
Alignment explanation
Indices: 635849--636152 Score: 572
Period size: 149 Copynumber: 2.0 Consensus size: 149
635839 GGGTAGAGGG
*
635849 TCTACGCGGTCCTTCAGGATATATATATATTATGTGGAACATGTGTGAAGTCTTGTAAGACACAT
1 TCTACGCGGTCCTTCGGGATATATATATATTATGTGGAACATGTGTGAAGTCTTGTAAGACACAT
635914 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATGATATGTAGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATGATATGTAGTCCTTATGGACATTATTA
635979 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
*
635998 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGTAAGACACAT
1 TCTACGCGGTCCTTCGGGATATATATATATTATGTGGAACATGTGTGAAGTCTTGTAAGACACAT
*
636063 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATGATATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATGATATGTAGTCCTTATGGACATTATTA
*
636128 TATGGCACTATGGTGCAAT
131 TATGGCACTACGGTGCAAT
636147 TCTACG
1 TCTACG
636153 TGGCACTTCG
Statistics
Matches: 151, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
149 151 1.00
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (149 bp):
TCTACGCGGTCCTTCGGGATATATATATATTATGTGGAACATGTGTGAAGTCTTGTAAGACACAT
ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATGATATGTAGTCCTTATGGACATTATTA
TATGGCACTACGGTGCAAT
Found at i:638480 original size:23 final size:23
Alignment explanation
Indices: 638454--638526 Score: 94
Period size: 23 Copynumber: 3.2 Consensus size: 23
638444 AACATCTCTA
638454 TTCATGAAAAATAGTTAAGTCTT
1 TTCATGAAAAATAGTTAAGTCTT
* *
638477 TTCATGAAAAATAGTTAATTCAT
1 TTCATGAAAAATAGTTAAGTCTT
***
638500 TTCACCCAAAA-AGTTAAGTCTT
1 TTCATGAAAAATAGTTAAGTCTT
638522 TTCAT
1 TTCAT
638527 ATTAACCTTT
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
22 13 0.31
23 29 0.69
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (23 bp):
TTCATGAAAAATAGTTAAGTCTT
Found at i:640752 original size:19 final size:18
Alignment explanation
Indices: 640716--640764 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 18
640706 TTCTAAATCA
640716 TTTTTCAAAATTTCATTTT
1 TTTTTCAAAA-TTCATTTT
640735 GTTTTTCAAAA-TCAATTTT
1 -TTTTTCAAAATTC-ATTTT
640754 TGTTTTCAAAA
1 T-TTTTCAAAA
640765 CCAAATCATT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 3 0.11
19 14 0.52
20 10 0.37
ACGTcount: A:0.31, C:0.10, G:0.04, T:0.55
Consensus pattern (18 bp):
TTTTTCAAAATTCATTTT
Found at i:642597 original size:21 final size:21
Alignment explanation
Indices: 642565--642604 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
642555 AAATGCCCAG
642565 TACAGAGGGTATCAGTACTCA
1 TACAGAGGGTATCAGTACTCA
*
642586 TACAG-GGAGTATCGGTACT
1 TACAGAGG-GTATCAGTACT
642605 TCCTTTGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (21 bp):
TACAGAGGGTATCAGTACTCA
Found at i:642679 original size:20 final size:21
Alignment explanation
Indices: 642649--642688 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
642639 TAGCCGTTGG
642649 GCCTGATGGTATCGATACTAA
1 GCCTGATGGTATCGATACTAA
642670 GCCT-ATGGTATCGATACTA
1 GCCTGATGGTATCGATACTA
642689 CTATATAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.30
Consensus pattern (21 bp):
GCCTGATGGTATCGATACTAA
Found at i:646584 original size:12 final size:12
Alignment explanation
Indices: 646567--646601 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
646557 TTTGATACCA
646567 GAACCACTTCCT
1 GAACCACTTCCT
646579 GAACCACTTCCT
1 GAACCACTTCCT
*
646591 GAACCATTTCC
1 GAACCACTTCC
646602 CTGCAGAGCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.26, C:0.40, G:0.09, T:0.26
Consensus pattern (12 bp):
GAACCACTTCCT
Found at i:647542 original size:23 final size:22
Alignment explanation
Indices: 647491--647534 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
647481 TCTTGTACAA
647491 ACAATTTTCTTGCGAGGTTTTT
1 ACAATTTTCTTGCGAGGTTTTT
*
647513 ACAATTTTCTTGTGAGGTTTTT
1 ACAATTTTCTTGCGAGGTTTTT
647535 CTAAATTTGC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.18, C:0.11, G:0.18, T:0.52
Consensus pattern (22 bp):
ACAATTTTCTTGCGAGGTTTTT
Found at i:650677 original size:13 final size:12
Alignment explanation
Indices: 650659--650693 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
650649 TAATTTCTAA
650659 TTTAATCTTAAAT
1 TTTAAT-TTAAAT
*
650672 TTTAATTAAAAT
1 TTTAATTTAAAT
650684 TTTAATTTAA
1 TTTAATTTAA
650694 TTTCTCCATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 14 0.70
13 6 0.30
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (12 bp):
TTTAATTTAAAT
Found at i:650690 original size:18 final size:18
Alignment explanation
Indices: 650641--650695 Score: 51
Period size: 19 Copynumber: 3.0 Consensus size: 18
650631 TACATTCATA
650641 AAAATTGTTAATTTCTAATT
1 AAAATT-TTAATTT-TAATT
* *
650661 -TAATCTTAAATTTTAATT
1 AAAAT-TTTAATTTTAATT
650679 AAAATTTTAA-TTTAATT
1 AAAATTTTAATTTTAATT
650696 TCTCCATAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
17 7 0.24
18 9 0.31
19 12 0.41
20 1 0.03
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.53
Consensus pattern (18 bp):
AAAATTTTAATTTTAATT
Found at i:654590 original size:22 final size:23
Alignment explanation
Indices: 654553--654599 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
654543 AACCCTAAAT
654553 AAGCCCAAAAATCGTATCTGCTA
1 AAGCCCAAAAATCGTATCTGCTA
* *
654576 AAGCCC-AGAATCGTATCTTCTA
1 AAGCCCAAAAATCGTATCTGCTA
654598 AA
1 AA
654600 CTAGCGATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 16 0.73
23 6 0.27
ACGTcount: A:0.38, C:0.26, G:0.13, T:0.23
Consensus pattern (23 bp):
AAGCCCAAAAATCGTATCTGCTA
Found at i:655769 original size:22 final size:21
Alignment explanation
Indices: 655741--655781 Score: 73
Period size: 22 Copynumber: 1.9 Consensus size: 21
655731 AAACTATGAC
655741 TAAGAATACTAGATTGTTCACT
1 TAAGAATACTAGATT-TTCACT
655763 TAAGAATACTAGATTTTCA
1 TAAGAATACTAGATTTTCA
655782 AGTGAACAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (21 bp):
TAAGAATACTAGATTTTCACT
Found at i:661475 original size:18 final size:19
Alignment explanation
Indices: 661436--661480 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
661426 AGTGCCTAAC
*
661436 AATAACAAAATAGATAAAA
1 AATAATAAAATAGATAAAA
*
661455 AATAATAAAATATAT-AAA
1 AATAATAAAATAGATAAAA
661473 AATAATAA
1 AATAATAA
661481 TATTTTCAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 11 0.46
19 13 0.54
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.22
Consensus pattern (19 bp):
AATAATAAAATAGATAAAA
Found at i:663429 original size:23 final size:23
Alignment explanation
Indices: 663400--663446 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
663390 CTTTTTCCCC
663400 TTAATTTTATGAA-TTTAATAATT
1 TTAATTTT-TGAATTTTAATAATT
*
663423 TTAATTTTTGAATTTTCATAATT
1 TTAATTTTTGAATTTTAATAATT
663446 T
1 T
663447 ATTTTGGTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 4 0.18
23 18 0.82
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (23 bp):
TTAATTTTTGAATTTTAATAATT
Found at i:673035 original size:21 final size:21
Alignment explanation
Indices: 672984--673057 Score: 69
Period size: 21 Copynumber: 3.5 Consensus size: 21
672974 ATACACACAC
* * * *
672984 ACTTATATATATTATATATTT
1 ACTTATATACACTATATGTAT
*
673005 ACATATTATA-ACTATAATGTAT
1 ACTTA-TATACACTAT-ATGTAT
*
673027 ACTTATATACATTATATGTAT
1 ACTTATATACACTATATGTAT
673048 ACTTATATAC
1 ACTTATATAC
673058 TTATATAACT
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
21 28 0.64
22 16 0.36
ACGTcount: A:0.41, C:0.09, G:0.03, T:0.47
Consensus pattern (21 bp):
ACTTATATACACTATATGTAT
Found at i:673261 original size:21 final size:21
Alignment explanation
Indices: 673219--673261 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
673209 AAATGAATAA
* *
673219 TTCAGTTCATTTTTTATTAAT
1 TTCAGTTCATATTTTATCAAT
673240 TTCAGTTTCATATTTTA-CAAT
1 TTCAG-TTCATATTTTATCAAT
673261 T
1 T
673262 ATTTGGATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.26, C:0.12, G:0.05, T:0.58
Consensus pattern (21 bp):
TTCAGTTCATATTTTATCAAT
Found at i:705206 original size:20 final size:20
Alignment explanation
Indices: 705183--705220 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
705173 TAAAATTTAA
705183 TTTAAATATATA-AATTATAT
1 TTTAAATAT-TAGAATTATAT
*
705203 TTTAGATATTAGAATTAT
1 TTTAAATATTAGAATTAT
705221 TGAAACGTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 2 0.12
20 14 0.88
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (20 bp):
TTTAAATATTAGAATTATAT
Found at i:708071 original size:13 final size:13
Alignment explanation
Indices: 708053--708082 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
708043 TTTAAAAAAG
708053 TTAAAAATATTAT
1 TTAAAAATATTAT
*
708066 TTAAAAATATTTT
1 TTAAAAATATTAT
708079 TTAA
1 TTAA
708083 GAAAAACATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
TTAAAAATATTAT
Found at i:717706 original size:49 final size:49
Alignment explanation
Indices: 717646--717746 Score: 184
Period size: 49 Copynumber: 2.1 Consensus size: 49
717636 TTAATGAGTA
*
717646 TGAATAGTAAGTGACTTGAAGTTTTATTTTGAAGTATTAAAGTTAACAT
1 TGAATAATAAGTGACTTGAAGTTTTATTTTGAAGTATTAAAGTTAACAT
*
717695 TGAATAATAAGTGACTTGACGTTTTATTTTGAAGTATTAAAGTTAACAT
1 TGAATAATAAGTGACTTGAAGTTTTATTTTGAAGTATTAAAGTTAACAT
717744 TGA
1 TGA
717747 TGTTGTGAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.37, C:0.05, G:0.18, T:0.41
Consensus pattern (49 bp):
TGAATAATAAGTGACTTGAAGTTTTATTTTGAAGTATTAAAGTTAACAT
Found at i:727576 original size:7 final size:7
Alignment explanation
Indices: 727561--727590 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
727551 TGATAATTAC
*
727561 TTTAAAA
1 TTTATAA
727568 TTTATAA
1 TTTATAA
727575 TTTATAA
1 TTTATAA
727582 TTTATAA
1 TTTATAA
727589 TT
1 TT
727591 GTAAGTTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
TTTATAA
Found at i:727746 original size:6 final size:6
Alignment explanation
Indices: 727735--727764 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
727725 CAAGAATATT
727735 ATTATA ATTATA ATTATA ATTATA AGTTAT
1 ATTATA ATTATA ATTATA ATTATA A-TTAT
727765 GTTTAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 19 0.83
7 4 0.17
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (6 bp):
ATTATA
Found at i:730033 original size:181 final size:181
Alignment explanation
Indices: 729647--730191 Score: 756
Period size: 182 Copynumber: 3.0 Consensus size: 181
729637 GAAAGTGTCG
* * * *
729647 TAAGTATCGACACTTTGTGAATTTAAAAGAGAAGTAGTTTTAGCGCTTATAAAGTGTCAATATTT
1 TAAGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTT
* * *
729712 TATAACAATAG-ATCGAT-TCACAACGATATAATAGATAAAAATATGACAAAACTGGTCTCTAAA
66 TATAAAAAT-GTATCGATCT-ACAACGATATAACAGGTAAAAATATGACAAAAC-GGTCTCTAAA
* * *
729775 GGACAAAACTGGTATAGAGCGACCGAATATATTGAAAGTGTCGATATTTTAATA
128 AGACAAAACTGGTATAGAGCGACTGGATATATTGAAAGTGTCGATATTTTAATA
* *
729829 TAAGTATCTACACTTTGTGAATTTAAAAGAGAAGCAGTTTTTAGCGCCTATAAAGTGACGATACT
1 TAAGTATCGACACTTTGTGAATTTAAAAGAGAAGCAG-TTTTAGCGCCTATAAAGTGTCGATACT
* * *
729894 TTATAAAAATGTATCGATCTACAACGATATAACAGGTAAAAATATGAC-AATCGATTTCTAAAAG
65 TTATAAAAATGTATCGATCTACAACGATATAACAGGTAAAAATATGACAAAACGGTCTCTAAAAG
* * *
729958 ATAAAACCGGTATAGAGCGACTGGATATATTGAAAGTGTCGATAATTTAATA
130 ACAAAACTGGTATAGAGCGACTGGATATATTGAAAGTGTCGATATTTTAATA
* *
730010 TAAGTATCGACACTTAT-TGAATTTAAAAGAGAAACAGTTTTAGCACCTATAAAGTGTCGATACT
1 TAAGTATCGACACTT-TGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACT
* * * * *
730074 TTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAAT
65 TTATAAAAATGTATCGATCTACAACGATATAACAGGTAAAAATATGACAAAA-CGGTCTCTAAAA
* * *
730139 GACAAAACTGGTAAAGCGCTACTGGATATATTGAAAGTGTCGATATTTTAATA
129 GACAAAACTGGTATAGAGCGACTGGATATATTGAAAGTGTCGATATTTTAATA
730192 AGTACGTGTA
Statistics
Matches: 321, Mismatches: 36, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
180 70 0.22
181 91 0.28
182 95 0.30
183 64 0.20
184 1 0.00
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (181 bp):
TAAGTATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTT
TATAAAAATGTATCGATCTACAACGATATAACAGGTAAAAATATGACAAAACGGTCTCTAAAAGA
CAAAACTGGTATAGAGCGACTGGATATATTGAAAGTGTCGATATTTTAATA
Found at i:730173 original size:363 final size:349
Alignment explanation
Indices: 729350--730191 Score: 1066
Period size: 363 Copynumber: 2.4 Consensus size: 349
729340 TGTCGGTTTA
* * * * * *
729350 TGTCGATACTTTATAAAAATATATTGATCCACATCAATATAACATGAAAAAATATGAAAAAACCG
1 TGTCGATACTTTATAAAAATGTATCGATCCACAACAATATAACAGGTAAAAATATGACAAAACCG
* * * * *
729415 GTCACGAAAAGATAAAA-TCGGTAAAGTGCTACTAGATATATTGAAAGTGTCGATACTTTAATAT
66 GTCTCGAAAAGACAAAACT-GGTAAAGAGCTACTGGATATATTGAAAGTGTCGATATTTTAATAT
*
729479 AAGTATCGACACTTTGTGAATTTAAAAGAGAAACAGTTTTAGCGCCTATAAAGTGTCGATACTTT
130 AAGTATCGACACTTTGTGAATTTAAAAGAGAAACAGTTTTAGCGCCTATAAAGTGACGATACTTT
* *
729544 ATAAAAATGTATCGATACATAACGATATAACAGGAAAAAATATGACAAAACCGGTCTCTAAAAGA
195 ATAAAAATGTATCGATACACAACGATATAACAGGAAAAAATATGAC-AAACCGATCTCTAAAAGA
*
729609 CAACCGGTAAAGCGTTACCGGATATATTGAAAGTGTCGTAAGTATCGACACTTTGTGAATTTAAA
259 AAACCGGTAAAGCG-TACCGGATATATTGAAAGTGTCGTAAGTATCGACACTTTGTGAATTTAAA
** * *
729674 AGAGAAGTAGTTTTAGCGCTTATAAAG
323 AGAGAAACAGTTTTAGCACCTATAAAG
* * * * * * * *
729701 TGTCAATATTTTATAACAATAG-ATCGATTCACAACGATATAATAGATAAAAATATGACAAAACT
1 TGTCGATACTTTATAAAAAT-GTATCGATCCACAACAATATAACAGGTAAAAATATGACAAAACC
* * * * * *
729765 GGTCTCTAAAGGACAAAACTGGTATAGAGCGACCGAATATATTGAAAGTGTCGATATTTTAATAT
65 GGTCTCGAAAAGACAAAACTGGTAAAGAGCTACTGGATATATTGAAAGTGTCGATATTTTAATAT
* *
729830 AAGTATCTACACTTTGTGAATTTAAAAGAGAAGCAGTTTTTAGCGCCTATAAAGTGACGATACTT
130 AAGTATCGACACTTTGTGAATTTAAAAGAGAAACAG-TTTTAGCGCCTATAAAGTGACGATACTT
* * *
729895 TATAAAAATGTATCGAT-CTACAACGATATAACAGGTAAAAATATGAC-AATCGATTTCTAAAAG
194 TATAAAAATGTATCGATAC-ACAACGATATAACAGGAAAAAATATGACAAACCGATCTCTAAAAG
*
729958 ATAAAACCGGTATAGAGCG-ACTGGATATATTGAAAGTGTCGATAATTTAATATAAGTATCGACA
258 --AAAACCGGTA-A-AGCGTACCGGATATATTGAAAGTGTCG-----------TAAGTATCGACA
730022 CTTAT-TGAATTTAAAAGAGAAACAGTTTTAGCACCTATAAAG
308 CTT-TGTGAATTTAAAAGAGAAACAGTTTTAGCACCTATAAAG
*
730064 TGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCG
1 TGTCGATACTTTATAAAAATGTATCGATCCACAACAATATAACAGGTAAAAATATGACAAAACCG
* *
730129 GTCTCGAAATGACAAAACTGGTAAAGCGCTACTGGATATATTGAAAGTGTCGATATTTTAATA
66 GTCTCGAAAAGACAAAACTGGTAAAGAGCTACTGGATATATTGAAAGTGTCGATATTTTAATA
730192 AGTACGTGTA
Statistics
Matches: 415, Mismatches: 55, Indels: 30
0.83 0.11 0.06
Matches are distributed among these distances:
350 13 0.03
351 136 0.33
352 101 0.24
353 1 0.00
354 4 0.01
362 1 0.00
363 158 0.38
364 1 0.00
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.29
Consensus pattern (349 bp):
TGTCGATACTTTATAAAAATGTATCGATCCACAACAATATAACAGGTAAAAATATGACAAAACCG
GTCTCGAAAAGACAAAACTGGTAAAGAGCTACTGGATATATTGAAAGTGTCGATATTTTAATATA
AGTATCGACACTTTGTGAATTTAAAAGAGAAACAGTTTTAGCGCCTATAAAGTGACGATACTTTA
TAAAAATGTATCGATACACAACGATATAACAGGAAAAAATATGACAAACCGATCTCTAAAAGAAA
ACCGGTAAAGCGTACCGGATATATTGAAAGTGTCGTAAGTATCGACACTTTGTGAATTTAAAAGA
GAAACAGTTTTAGCACCTATAAAG
Found at i:732668 original size:33 final size:33
Alignment explanation
Indices: 732626--732692 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
732616 AAATAGATGG
*
732626 AGTGGTGAAAGGAGTTGAGGTGTTGAGAGGTGA
1 AGTGGTGAAAGAAGTTGAGGTGTTGAGAGGTGA
* *
732659 AGTGGTGAAAGAAGTTGAGTTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTTGAGGTGTTGAGAGGTGA
732692 A
1 A
732693 CTTAAGATGG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.28, C:0.00, G:0.46, T:0.25
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTTGAGGTGTTGAGAGGTGA
Found at i:732896 original size:18 final size:18
Alignment explanation
Indices: 732873--732911 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
732863 AAAAAAATAT
732873 GAAGAAGAAAAGAGGGAG
1 GAAGAAGAAAAGAGGGAG
732891 GAAGAAGAAAAGAGGGAG
1 GAAGAAGAAAAGAGGGAG
732909 GAA
1 GAA
732912 ATGAGGAGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (18 bp):
GAAGAAGAAAAGAGGGAG
Found at i:733194 original size:18 final size:18
Alignment explanation
Indices: 733171--733209 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
733161 AAAAAAATAT
733171 GAAGAAGAAAAGATGGAG
1 GAAGAAGAAAAGATGGAG
733189 GAAGAAGAAAAGATGGAG
1 GAAGAAGAAAAGATGGAG
733207 GAA
1 GAA
733210 ATGAGGAGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.38, T:0.05
Consensus pattern (18 bp):
GAAGAAGAAAAGATGGAG
Found at i:733368 original size:298 final size:295
Alignment explanation
Indices: 732815--733408 Score: 1089
Period size: 298 Copynumber: 2.0 Consensus size: 295
732805 GAAATTTATG
732815 GGTGAAATAAAAGAGATGAGCTATGTAGAGCAAAAATAAGATGAACTGAAAAAAATATGAAGAAG
1 GGTGAAATAAAAGAGATGAGCTATGTAGAGCAAAAATAAGATGAACTGAAAAAAATATGAAGAAG
732880 AAAAGAGGGAGGAAGAAGAAAAGAGGGAGGAAATGAGGAGGAAGGATGTCGATGTGATCTATACA
66 AAAAGAGGGAGGAAGAAGAAAAGAGGGAGGAAATGAGGAGGAAGGATGTCGATGTGATCTATACA
732945 CCTGAGAGTGTTATAGATGCAGATTTGGATTCAGAATGTCCTGCACCCTAGAAGAAGAAGCAGAA
131 CCTGAGAGTGTTATAGATGCAGATTTGGATTCAGAATGTCCTGCACCCTAGAAGAAGAAGCAGAA
* * *
733010 GGTAAGTTGAATAAAAGAAAACTTAACTTGATCTTTATCATGTTGTTGTGACAAAAATTTGTATG
196 GGTAAGTTAAATAAAAGAAAACTTAACTTGATCTTTATCATATTGTTGTGACAAAAATTTGTATA
733075 CAAAATTGTAAGTTGAAAAAGCAGATATTCCAAGC
261 CAAAATTGTAAGTTGAAAAAGCAGATATTCCAAGC
733110 GGTGAAATAAAAGAGATGAAGAGCTATGTAGAGCAAAAATAAGATGAACTGAAAAAAATATGAAG
1 GGTGAAATAAAAGAGAT---GAGCTATGTAGAGCAAAAATAAGATGAACTGAAAAAAATATGAAG
* *
733175 AAGAAAAGATGGAGGAAGAAGAAAAGATGGAGGAAATGAGGAGGAAGGATGTCGATGTGATCTAT
63 AAGAAAAGAGGGAGGAAGAAGAAAAGAGGGAGGAAATGAGGAGGAAGGATGTCGATGTGATCTAT
*
733240 ACACCTGAGAGTGTTATAGATGCAGATTTGGATTCGGAATGTCCTGCACCCTAGAAGAAGAAGCA
128 ACACCTGAGAGTGTTATAGATGCAGATTTGGATTCAGAATGTCCTGCACCCTAGAAGAAGAAGCA
*
733305 GAAGGTAAGTTAAATAAAAGAAAACTTAATTTGATCTTTATCATATTGTTGTGACAAAAATTTGT
193 GAAGGTAAGTTAAATAAAAGAAAACTTAACTTGATCTTTATCATATTGTTGTGACAAAAATTTGT
*
733370 ATACAAAATTGTAAGTTGAAAAAGCGGATATTCCAAGC
258 ATACAAAATTGTAAGTTGAAAAAGCAGATATTCCAAGC
733408 G
1 G
733409 AAATTGATGA
Statistics
Matches: 288, Mismatches: 8, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
295 17 0.06
298 271 0.94
ACGTcount: A:0.43, C:0.09, G:0.25, T:0.23
Consensus pattern (295 bp):
GGTGAAATAAAAGAGATGAGCTATGTAGAGCAAAAATAAGATGAACTGAAAAAAATATGAAGAAG
AAAAGAGGGAGGAAGAAGAAAAGAGGGAGGAAATGAGGAGGAAGGATGTCGATGTGATCTATACA
CCTGAGAGTGTTATAGATGCAGATTTGGATTCAGAATGTCCTGCACCCTAGAAGAAGAAGCAGAA
GGTAAGTTAAATAAAAGAAAACTTAACTTGATCTTTATCATATTGTTGTGACAAAAATTTGTATA
CAAAATTGTAAGTTGAAAAAGCAGATATTCCAAGC
Found at i:734783 original size:19 final size:19
Alignment explanation
Indices: 734759--734807 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
734749 AATGTAGGGT
734759 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
734778 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
734797 TAATTTTGTAT
1 TAATTTTGTAT
734808 GTGAATGTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:736031 original size:200 final size:199
Alignment explanation
Indices: 735161--736317 Score: 1543
Period size: 199 Copynumber: 5.8 Consensus size: 199
735151 GTAAACATAT
735161 GTGTCGATACATTTATAAAAA-TATCGATCCCAAAAACATCGAAACCCG-TAATTATAATGTAAT
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAA-CCGATAATTATAATGTAAT
* * ** * * *
735224 AAGTAATTTTGTAATATAACCGATATAAATATACCAAATTTATGTGAGAATAGGTCTACATAATG
65 AGGTAAATTTACAATGTAACCGATATAAATATACCGATTTTATGTGAGAATAGGTCTACATAATG
* * * * *
735289 TATCAACACTTTCTCATTTTGTGTCGATACTTTTTGTCCAGAATGAATGGCCAAAATGATGAACG
130 TATCGACACTTT-TGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAACG
**
735354 CAT-TT
194 CATAAA
* * * * *
735359 GTGTCAATACATTTATTAAAAGTATTGATCCCAGAAACATCGAAACTC-ATAAATATAATGTAAT
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAAC-CGATAATTATAATGTAAT
* * * * *
735423 ATGTAAATTTACAATGTAACTGATATAACTATACCGATTTTATGAGAAAATAGGTCTACATAATG
65 AGGTAAATTTACAATGTAACCGATATAAATATACCGATTTTATGTGAGAATAGGTCTACATAATG
* * * * * * * *
735488 TATCGCCACTTATGGAATTTGTGTCGATACTGTTTGTTCAGAAGGAATGCCCAAAAGGGTGCACC
130 TATCGACACTT-TTGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAACG
735553 CATAAA
194 CATAAA
* * * * ** *
735559 GTGTCGATACATTTTATGAAAAGTTTCGATCCTAAAAACATTGAAACCCCTAATTATAATATAAT
1 GTGTCGATACA-TTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAAT
* ** * * *
735624 AGGTAATTTTTTAATATAACCGGTATAAATATACCGATTTTATGTGAGAATATGTCTACATAATG
65 AGGTAAATTTACAATGTAACCGATATAAATATACCGATTTTATGTGAGAATAGGTCTACATAATG
* * *
735689 TGTCGACACTTTTTAATTTTGTGTCGATACTTTTTTGTCCAGAATGAATGTCCAAAATGGTGAAC
130 TATCGACACTTTTGAA-TTTGTGTCGATAC-TTTTTGTCCAGAATGAATGCCCAAAATGGTGAAC
735754 GCATAAA
193 GCATAAA
* *
735761 GTGTCGATACATTTATAAAACGTATCGATCCCAAAAACAACGAAACCGATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
* * *
735826 GGTAAATTTAAAATGTAACCGGTATAAATATACCGGTTTTATGTGAGAATAGGTCTACATAATGT
66 GGTAAATTTACAATGTAACCGATATAAATATACCGATTTTATGTGAGAATAGGTCTACATAATGT
*
735891 GTCGACACTTTTGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAACGCA
131 ATCGACACTTTTGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAACGCA
735956 TAAA
196 TAAA
* * * *
735960 GTGTCGATACATATAAAAAAAAATATCGATTCCAAAAACATCGAAACCGATAATTATAATGTAAT
1 GTGTCGATACAT-TTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAAT
* *
736025 AGGTAAATTTACAATGTACCCGATATAAATATATCGATTTTATGTGAGAATAGGTCTACATAATG
65 AGGTAAATTTACAATGTAACCGATATAAATATACCGATTTTATGTGAGAATAGGTCTACATAATG
* * *
736090 TGTCGACACTTTTGAATTTGTGTCGATACTTTTTTTCCAGAATGAATGTCCAAAATGGTGAACGC
130 TATCGACACTTTTGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAACGC
736155 ATAAA
195 ATAAA
* * * * *
736160 GTGTCGATACATATATAAAAACTATCTATTCCAAAAACATCGAAATCGATAATTATAATGTAATA
1 GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
* **
736225 GGTAAATTTACAATGTAACCGATATAAATATATCGATTTTATGTGAGAATAGGTGAAC-TAATGT
66 GGTAAATTTACAATGTAACCGATATAAATATACCGATTTTATGTGAGAATAGGTCTACATAATGT
736289 ATCGACACGTTTT-AGATTTGTGTCGATAC
131 ATCGACAC-TTTTGA-ATTTGTGTCGATAC
736318 AATTTTAAAT
Statistics
Matches: 844, Mismatches: 103, Indels: 23
0.87 0.11 0.02
Matches are distributed among these distances:
198 34 0.04
199 315 0.37
200 214 0.25
201 236 0.28
202 45 0.05
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.33
Consensus pattern (199 bp):
GTGTCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATA
GGTAAATTTACAATGTAACCGATATAAATATACCGATTTTATGTGAGAATAGGTCTACATAATGT
ATCGACACTTTTGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAACGCA
TAAA
Found at i:739183 original size:24 final size:24
Alignment explanation
Indices: 739132--739184 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
739122 TTTCATATGT
* * *
739132 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATA
* *
739156 AATTTGAGTTTGAGTTTCAATATA
1 AATTTGAGTTTGAATTTAAATATA
739180 AATTT
1 AATTT
739185 CGGCTCCATT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATA
Found at i:740391 original size:170 final size:176
Alignment explanation
Indices: 740090--740452 Score: 542
Period size: 170 Copynumber: 2.1 Consensus size: 176
740080 TTTTTTAATT
* *
740090 GTGTCGATAC-TTTTGTCCAGAATGAATGTCCAAAATGGTGAACACATAAAGTGTCGATACATTT
1 GTGTCGACACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAACACAT-AAGTGTC-ATACATTT
* * *
740154 ATAAAAGGTATCGATCCCAAAAATATTGAAACTAATAATTATAATGTAATAGGTAAATTTACAAT
64 ATAAAA-GTATCGATCCCAAAAACATCGAAACCAATAATTATAATGTAATAGGTAAATTTACAAT
* *
740219 GTAACCAGTATAAATATACCGATTTTATGAGAAAATAGGGGAACATAAG
128 GTAACCAATATAAATATACCGATTTTATGAGAAAATAAGGGAACATAAG
* * *
740268 GTGTTGACACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAACGCAT-A-TGT-TTACATTTAT
1 GTGTCGACACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAACACATAAGTGTCATACATTTAT
740330 AAAA-T-T-GATCCCAAAAACATCGAAACCAATAATTATAATGTAATAGGTAAATTTACAATGTA
66 AAAAGTATCGATCCCAAAAACATCGAAACCAATAATTATAATGTAATAGGTAAATTTACAATGTA
* *
740392 ACCAATATAAATATACCGGTTTTATGAGAAAATAAGGGAACATAAT
131 ACCAATATAAATATACCGATTTTATGAGAAAATAAGGGAACATAAG
740438 GTGTCGACACTTTTT
1 GTGTCGACACTTTTT
740453 AAATATGTGT
Statistics
Matches: 171, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
170 109 0.64
171 1 0.01
172 1 0.01
174 13 0.08
176 3 0.02
177 1 0.01
178 8 0.05
179 35 0.20
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.30
Consensus pattern (176 bp):
GTGTCGACACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAACACATAAGTGTCATACATTTAT
AAAAGTATCGATCCCAAAAACATCGAAACCAATAATTATAATGTAATAGGTAAATTTACAATGTA
ACCAATATAAATATACCGATTTTATGAGAAAATAAGGGAACATAAG
Found at i:740462 original size:21 final size:21
Alignment explanation
Indices: 740436--740494 Score: 109
Period size: 21 Copynumber: 2.8 Consensus size: 21
740426 AGGGAACATA
740436 ATGTGTCGACACTTTTTAAAT
1 ATGTGTCGACACTTTTTAAAT
740457 ATGTGTCGACACTTTTTAAAT
1 ATGTGTCGACACTTTTTAAAT
*
740478 ATGTGTCGATACTTTTT
1 ATGTGTCGACACTTTTT
740495 GTCCAGAATG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.25, C:0.14, G:0.15, T:0.46
Consensus pattern (21 bp):
ATGTGTCGACACTTTTTAAAT
Found at i:740657 original size:221 final size:212
Alignment explanation
Indices: 740276--740694 Score: 563
Period size: 221 Copynumber: 1.9 Consensus size: 212
740266 AGGTGTTGAC
** *
740276 ACTTTTTGTCCAGAATGAATGCCCAAAATGGTGAACGCATATGTTTACATTTATAAAATTGATCC
1 ACTTTTTGTCCAGAATGAATGCAAAAAATGGTGAACGCATATGTATACATTTATAAAATTGATCC
*
740341 CAAAAACATCGAAACCAATAATTATAATGTAATAGGTAAATTTACAATGTAACCAATATAAATAT
66 CAAAAACATCGAAACCAACAATTATAATGTAATAGGTAAATTTACAATGTAACCAATATAAATAT
* * *
740406 ACCGGTTTTATGAGAAAATAAGGGAACATAATGTGTCGACACT-TTTTAAATATGTGTCGACACT
131 ACCGGTTTTATGAGAAAATAAGGAAACATAACGTATCGACA-TGTTTTAAATATGTGTCGACACT
740470 TTTTAAATATGTGTCGAT
195 TTTTAAATATGTGTCGAT
*
740488 ACTTTTTGTCCAGAATGAATGCAAAAAATGGTGAACGCATAAAGTGTCGATATATTTATAAAAAG
1 ACTTTTTGTCCAGAATGAATGCAAAAAATGGTGAACGCAT--A-TGT--ATACATTTAT-AAAA-
* * * * *
740553 TATCGATCCCAAAAATATTGAAACCGACAATTATAATGTAATATGTAAATTTACAATGTAACCGA
59 T-T-GATCCCAAAAACATCGAAACCAACAATTATAATGTAATAGGTAAATTTACAATGTAACCAA
* * * *
740618 TATAAATGTACCGGTTTTATGAGAAAAT-AGTTAAACATAACGTATCGACATGTTTTAGATTTGT
122 TATAAATATACCGGTTTTATGAGAAAATAAG-GAAACATAACGTATCGACATGTTTTAAATATGT
*
740682 GTCGATACTTTTT
186 GTCGACACTTTTT
740695 GTCCAAAATG
Statistics
Matches: 178, Mismatches: 18, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
212 38 0.21
214 1 0.01
215 3 0.02
217 8 0.04
218 4 0.02
219 1 0.01
220 4 0.02
221 119 0.67
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (212 bp):
ACTTTTTGTCCAGAATGAATGCAAAAAATGGTGAACGCATATGTATACATTTATAAAATTGATCC
CAAAAACATCGAAACCAACAATTATAATGTAATAGGTAAATTTACAATGTAACCAATATAAATAT
ACCGGTTTTATGAGAAAATAAGGAAACATAACGTATCGACATGTTTTAAATATGTGTCGACACTT
TTTAAATATGTGTCGAT
Found at i:740824 original size:200 final size:199
Alignment explanation
Indices: 740462--740888 Score: 613
Period size: 200 Copynumber: 2.1 Consensus size: 199
740452 TAAATATGTG
* * *
740462 TCGACACTTTTTAAATATGTGTCGATACTTTTTGTCCAGAATGAATGCAAAAAATGGTGAACGCA
1 TCGACA-TTTTTAAATTTGTGTCGATACTTTTTGTCCAAAATGAATGCAAAAAAGGGTGAACGCA
* * * *
740527 TAAAGTGTCGATATATTTATAAAAAGTATCGATCCCAAAAATATTGAAACCGACAATTATAATGT
65 TAAAGTGTCGATATATTTATAAAAAGAATCGATCCCAAAAACATCGAAACCGACAATTATAATGC
* * *
740592 AATATGTAAATTTACAATGTAACCGATATAAATGTACCGGTTTTATGAGAAAATAGTTAAACATA
130 AATAGGTAAATTTACAATGTAACCGATATAAATATACCGGTTTTATGAGAAAATAGGTAAACATA
740657 ACGTA
195 ACGTA
* * *
740662 TCGACATGTTTTAGATTTGTGTCGATACTTTTTGTCCAAAATGAATGC-CAAAAGGGTTGCACGC
1 TCGACAT-TTTTAAATTTGTGTCGATACTTTTTGTCCAAAATGAATGCAAAAAAGGG-TGAACGC
* * *
740726 ATAAAGTGTCGATATATTTTTAAAAAGAATCGATCCCAAAAACATCGAAACTGATAATTATAATG
64 ATAAAGTGTCGATATATTTATAAAAAGAATCGATCCCAAAAACATCGAAACCGACAATTATAATG
* * * *
740791 CAATAGGTAAATTTACAATGTAACCGGTATAAATATACTGGTTTTATGAGAGAATAGGTCAACAT
129 CAATAGGTAAATTTACAATGTAACCGATATAAATATACCGGTTTTATGAGAAAATAGGTAAACAT
*
740856 AATGTA
194 AACGTA
* *
740862 TCGACACTTTTAAATTTTTGTCGATAC
1 TCGACATTTTTAAATTTGTGTCGATAC
740889 ATTTAAATAA
Statistics
Matches: 201, Mismatches: 24, Indels: 5
0.87 0.10 0.02
Matches are distributed among these distances:
199 25 0.12
200 176 0.88
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (199 bp):
TCGACATTTTTAAATTTGTGTCGATACTTTTTGTCCAAAATGAATGCAAAAAAGGGTGAACGCAT
AAAGTGTCGATATATTTATAAAAAGAATCGATCCCAAAAACATCGAAACCGACAATTATAATGCA
ATAGGTAAATTTACAATGTAACCGATATAAATATACCGGTTTTATGAGAAAATAGGTAAACATAA
CGTA
Found at i:745409 original size:198 final size:195
Alignment explanation
Indices: 745001--745499 Score: 592
Period size: 198 Copynumber: 2.6 Consensus size: 195
744991 CCTATATATA
* *
745001 TGTCGATACATTT-TCTAAAAGTATCGA-CCCAAAAAATCG-AACCAATAATTATAATGTAATAG
1 TGTCGATACATTTAT-TAAAAGTATCGATCCCAAAAAATCGAAACCGATAATTATAATGTAATAT
* * * *
745063 GTAAA---ACAATGTAATCGGTATATATATATCAG--TAAT-AG-AAATAGTCAACATAATGTAT
65 GTAAATTTACAATGTAATCGGTATAAATATA-CCGTTTTATGAGAAAATAGTCAACATAAAGTAT
*
745121 CGACACTTGTGTAATTTGTGTCGATACTTATTGTCCAGAATGATGCCCAAATGGTGCACGCATAA
129 CGACACTTGTGTAATTTGTGTCGATACTTATTGTCCAGAATGATGACCAAATGGTGCACGCATAA
745186 AG
194 AG
* * * * *
745188 TGTCGATACAGTTATTAAAAGTATTGATCCCAATAAATTGAAACCGATATTTATAATGTAATATG
1 TGTCGATACATTTATTAAAAGTATCGATCCCAAAAAATCGAAACCGATAATTATAATGTAATATG
* *
745253 TAAATTTATAATGTAATCGGTATAAATATACCGGTTTTATGAGAAAATAGGTCATCATAAAGTAT
66 TAAATTTACAATGTAATCGGTATAAATATACC-GTTTTATGAGAAAATA-GTCAACATAAAGTAT
* * *
745318 TGACACTTGT-TAAATTTGTGTCGATA-TATTTTGTCCATAATGAAT-ACCAAATGGGTGCACGC
129 CGACACTTGTGT-AATTTGTGTCGATACT-TATTGTCCAGAATG-ATGACCAAAT-GGTGCACGC
745380 ATAAAG
190 ATAAAG
* *
745386 TGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTACAATGTGATAT
1 TGTCGATACATTTATTAAAAGTATCGATCCCAAAAA-ATCGAAACCGATAATTATAATGTAATAT
* * ** * * *
745451 ATAACTTTACAATGTACCCGATAGAAATATACCGTTTTATGAAAAAATA
65 GTAAATTTACAATGTAATCGGTATAAATATACCGTTTTATGAGAAAATA
745500 AGTCGATACA
Statistics
Matches: 263, Mismatches: 32, Indels: 23
0.83 0.10 0.07
Matches are distributed among these distances:
187 23 0.09
188 11 0.04
189 25 0.10
191 1 0.00
192 22 0.08
194 3 0.01
195 2 0.01
196 7 0.03
197 54 0.21
198 65 0.25
199 50 0.19
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.32
Consensus pattern (195 bp):
TGTCGATACATTTATTAAAAGTATCGATCCCAAAAAATCGAAACCGATAATTATAATGTAATATG
TAAATTTACAATGTAATCGGTATAAATATACCGTTTTATGAGAAAATAGTCAACATAAAGTATCG
ACACTTGTGTAATTTGTGTCGATACTTATTGTCCAGAATGATGACCAAATGGTGCACGCATAAAG
Found at i:745534 original size:112 final size:113
Alignment explanation
Indices: 745387--745593 Score: 283
Period size: 112 Copynumber: 1.8 Consensus size: 113
745377 CGCATAAAGT
* * *
745387 GTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTACAATGTGATATA
1 GTCGATACATTTA-TAAAAGTATCGATCCAAAAAACATCGAAACCGATAATTACAATGTAATAGA
*
745452 TAACTTTACAATG-TACCCGATAGAAATATACCGTTTTATGAAAAAATAA
65 TAAATTTACAATGTTA-CCGATAGAAATATACCGTTTTATGAAAAAATAA
** * * *
745501 GTCGATACATTTA-AATTGTATCGATCCAAAAAACATCGAAACCGATATTTATAATGTAATAGGT
1 GTCGATACATTTATAAAAGTATCGATCCAAAAAACATCGAAACCGATAATTACAATGTAATAGAT
* *
745565 AAATTTGCAATGTTACCGATATAAATATA
66 AAATTTACAATGTTACCGATAGAAATATA
745594 TCGATTTACT
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
112 66 0.81
113 2 0.02
114 13 0.16
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.30
Consensus pattern (113 bp):
GTCGATACATTTATAAAAGTATCGATCCAAAAAACATCGAAACCGATAATTACAATGTAATAGAT
AAATTTACAATGTTACCGATAGAAATATACCGTTTTATGAAAAAATAA
Found at i:745697 original size:23 final size:23
Alignment explanation
Indices: 745671--745729 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 23
745661 CGGTTAAATG
*
745671 CCTATTTTATTATATAAGCGCTA
1 CCTATTATATTATATAAGCGCTA
745694 CCTATTATATTATATAAGCGCTA
1 CCTATTATATTATATAAGCGCTA
* *
745717 CCTAATATGTTAT
1 CCTATTATATTAT
745730 TGTACTTAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.32, C:0.17, G:0.08, T:0.42
Consensus pattern (23 bp):
CCTATTATATTATATAAGCGCTA
Found at i:775564 original size:20 final size:21
Alignment explanation
Indices: 775539--775578 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
775529 TTCCTTGGCA
*
775539 TGAATT-TTTTTTTTTATTGT
1 TGAATTATTTTTTTATATTGT
775559 TGAATTATTTTTTTATATTG
1 TGAATTATTTTTTTATATTG
775579 CAGTCTTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.20, C:0.00, G:0.10, T:0.70
Consensus pattern (21 bp):
TGAATTATTTTTTTATATTGT
Found at i:776566 original size:17 final size:17
Alignment explanation
Indices: 776546--776578 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
776536 AATTTCTTTT
*
776546 AATTTTATACATATTTC
1 AATTTTACACATATTTC
776563 AATTTTACACATATTT
1 AATTTTACACATATTT
776579 GAGAGCGTTA
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:0.36, C:0.12, G:0.00, T:0.52
Consensus pattern (17 bp):
AATTTTACACATATTTC
Found at i:777726 original size:11 final size:11
Alignment explanation
Indices: 777710--777759 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 11
777700 TTAGAGTTAA
777710 TTAAAATATGT
1 TTAAAATATGT
777721 TTAAAATA--T
1 TTAAAATATGT
*
777730 TTAAAATGTGT
1 TTAAAATATGT
*
777741 TTAAAGT-T-T
1 TTAAAATATGT
777750 TTAAAATATG
1 TTAAAATATG
777760 AAAAACACTA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
9 15 0.47
10 2 0.06
11 15 0.47
ACGTcount: A:0.44, C:0.00, G:0.10, T:0.46
Consensus pattern (11 bp):
TTAAAATATGT
Found at i:777733 original size:20 final size:20
Alignment explanation
Indices: 777710--777759 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
777700 TTAGAGTTAA
777710 TTAAAATATGTTTAAAATAT
1 TTAAAATATGTTTAAAATAT
* * *
777730 TTAAAATGTGTTTAAAGTTT
1 TTAAAATATGTTTAAAATAT
777750 TTAAAATATG
1 TTAAAATATG
777760 AAAAACACTA
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:0.44, C:0.00, G:0.10, T:0.46
Consensus pattern (20 bp):
TTAAAATATGTTTAAAATAT
Found at i:796216 original size:64 final size:64
Alignment explanation
Indices: 796147--796301 Score: 242
Period size: 64 Copynumber: 2.4 Consensus size: 64
796137 ACTCACCATT
* *
796147 TCGAATGCATTTTATGCATCGATGCAC-TTCCATGCATCGATGCACTCAGG-TTTTTATGAAAAC
1 TCGAATGCATTTTATGCATCGATGCACATACCATGCATCGATGCACTCAGGCTTGTT-T-AAAAC
796210 A
64 A
* *
796211 TCGAATGCATTTTATGCATCGTTGCACATACCATGCATCGATGCATTCAGGCTTGTTTAAAACA
1 TCGAATGCATTTTATGCATCGATGCACATACCATGCATCGATGCACTCAGGCTTGTTTAAAACA
796275 TCGAATGCATTTTATGCATCGATGCAC
1 TCGAATGCATTTTATGCATCGATGCAC
796302 CCTTAGTGCA
Statistics
Matches: 84, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
64 58 0.69
65 22 0.26
66 4 0.05
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (64 bp):
TCGAATGCATTTTATGCATCGATGCACATACCATGCATCGATGCACTCAGGCTTGTTTAAAACA
Found at i:802130 original size:133 final size:133
Alignment explanation
Indices: 801892--802154 Score: 508
Period size: 133 Copynumber: 2.0 Consensus size: 133
801882 CATTCCATGC
801892 TAATAGTTAGGGGGAGTTTATGATCTTTGGTGAAAATTAATTATATGTTCAAATGTAGTTTAAGG
1 TAATAGTTAGGGGGAGTTTATGATCTTTGGTGAAAATTAATTATATGTTCAAATGTAGTTTAAGG
*
801957 ATAAAATTGAGTGATTGAACATGATTAATTTTCAATATATGAGTTGCCAATACCACTAGAGCTAA
66 ATAAAATTGAGTGATTGAAAATGATTAATTTTCAATATATGAGTTGCCAATACCACTAGAGCTAA
802022 TGT
131 TGT
802025 TAATAGTTAGGGGGAGTTTATGATCTTTGGTGAAAATTAATTATATGTTCAAATGTAGTTTAAGG
1 TAATAGTTAGGGGGAGTTTATGATCTTTGGTGAAAATTAATTATATGTTCAAATGTAGTTTAAGG
*
802090 ATAAAATTGAGTGATTGAAAATGATTAATTTTCAATATATGAGTTGCCAATACTACTAGAGCTAA
66 ATAAAATTGAGTGATTGAAAATGATTAATTTTCAATATATGAGTTGCCAATACCACTAGAGCTAA
802155 ATAATTTAGC
Statistics
Matches: 128, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
133 128 1.00
ACGTcount: A:0.36, C:0.07, G:0.20, T:0.37
Consensus pattern (133 bp):
TAATAGTTAGGGGGAGTTTATGATCTTTGGTGAAAATTAATTATATGTTCAAATGTAGTTTAAGG
ATAAAATTGAGTGATTGAAAATGATTAATTTTCAATATATGAGTTGCCAATACCACTAGAGCTAA
TGT
Found at i:802232 original size:21 final size:21
Alignment explanation
Indices: 802207--802287 Score: 65
Period size: 21 Copynumber: 3.7 Consensus size: 21
802197 TTTGTGCATA
802207 ATGCATCGATACACTATAAAG
1 ATGCATCGATACACTATAAAG
* * *
802228 GTGCATCGATGCATCACTATGAAT
1 ATGCATCGAT--A-CACTATAAAG
*
802252 ATGCATCGATACA-TCATGAAG
1 ATGCATCGATACACT-ATAAAG
* *
802273 ATGCACCGATGCACT
1 ATGCATCGATACACT
802288 CCTTGAATGT
Statistics
Matches: 48, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
20 1 0.02
21 27 0.56
22 2 0.04
23 1 0.02
24 17 0.35
ACGTcount: A:0.35, C:0.22, G:0.19, T:0.25
Consensus pattern (21 bp):
ATGCATCGATACACTATAAAG
Found at i:802283 original size:45 final size:44
Alignment explanation
Indices: 802207--802305 Score: 121
Period size: 45 Copynumber: 2.2 Consensus size: 44
802197 TTTGTGCATA
* *
802207 ATGCATCGATACACTATAAAGGTGCATCGATGCA-TCACTATGAAT
1 ATGCATCGATACACTATAAAGATGCACCGATGCACTC-CT-TGAAT
*
802252 ATGCATCGATACA-TCATGAAGATGCACCGATGCACTCCTTGAAT
1 ATGCATCGATACACT-ATAAAGATGCACCGATGCACTCCTTGAAT
*
802296 GTGCATCGAT
1 ATGCATCGAT
802306 GCACATTGTC
Statistics
Matches: 48, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
44 15 0.31
45 31 0.65
46 2 0.04
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.26
Consensus pattern (44 bp):
ATGCATCGATACACTATAAAGATGCACCGATGCACTCCTTGAAT
Found at i:803504 original size:27 final size:27
Alignment explanation
Indices: 803474--803527 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
803464 ACTCGGGAGG
* *
803474 TAGTTCTTCACGAGCTCCTCCTGCACC
1 TAGTTCTTCACGAGCTCCACCGGCACC
* *
803501 TAGTTCTTCTCGTGCTCCACCGGCACC
1 TAGTTCTTCACGAGCTCCACCGGCACC
803528 AGCTGCGGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.13, C:0.41, G:0.17, T:0.30
Consensus pattern (27 bp):
TAGTTCTTCACGAGCTCCACCGGCACC
Found at i:812711 original size:21 final size:21
Alignment explanation
Indices: 812662--812721 Score: 77
Period size: 21 Copynumber: 2.9 Consensus size: 21
812652 AGTGATTTTT
*
812662 CCAAAAAGGATCGATCGCTTA
1 CCAAAAAGGATCGATCCCTTA
812683 CCAAAAAGGATCGATCCCTTGA
1 CCAAAAAGGATCGATCCCTT-A
* *
812705 CC-GAAAGAATCGATCCC
1 CCAAAAAGGATCGATCCC
812722 AAACTCTCTG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
21 32 0.91
22 3 0.09
ACGTcount: A:0.37, C:0.28, G:0.18, T:0.17
Consensus pattern (21 bp):
CCAAAAAGGATCGATCCCTTA
Found at i:819276 original size:18 final size:17
Alignment explanation
Indices: 819236--819283 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
819226 CTAAAGACCC
*
819236 AAATTAATTTTAATAATA
1 AAATTAATTTT-TTAATA
*
819254 TAATTAATTTTTTAATTA
1 AAATTAATTTTTTAA-TA
*
819272 AAATTGATTTTT
1 AAATTAATTTTT
819284 AAAATTAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
17 3 0.12
18 22 0.88
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (17 bp):
AAATTAATTTTTTAATA
Found at i:844765 original size:10 final size:10
Alignment explanation
Indices: 844750--844785 Score: 56
Period size: 9 Copynumber: 3.6 Consensus size: 10
844740 TAAGCATCTG
844750 ATAAAATAAA
1 ATAAAATAAA
844760 ATAAAAT-AA
1 ATAAAATAAA
844769 ATAAAATGAAA
1 ATAAAAT-AAA
844780 ATAAAA
1 ATAAAA
844786 CGAAATGGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 9 0.38
10 7 0.29
11 8 0.33
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (10 bp):
ATAAAATAAA
Found at i:844772 original size:4 final size:5
Alignment explanation
Indices: 844750--844785 Score: 56
Period size: 5 Copynumber: 7.2 Consensus size: 5
844740 TAAGCATCTG
844750 ATAAA ATAAA ATAAA AT-AA ATAAA ATGAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA AT-AAA ATAAA A
844786 CGAAATGGGT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 4 0.14
5 20 0.69
6 5 0.17
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:844772 original size:14 final size:15
Alignment explanation
Indices: 844753--844784 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
844743 GCATCTGATA
844753 AAATAAAAT-AAAAT
1 AAATAAAATGAAAAT
844767 AAATAAAATGAAAAT
1 AAATAAAATGAAAAT
844782 AAA
1 AAA
844785 ACGAAATGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (15 bp):
AAATAAAATGAAAAT
Found at i:848024 original size:45 final size:45
Alignment explanation
Indices: 847975--848065 Score: 130
Period size: 45 Copynumber: 2.0 Consensus size: 45
847965 CAAAATAACC
* * *
847975 TGAGTGCATCGATGCATGGCT-TGTGCATTGATGCATCAAATGCAT
1 TGAGTGCATCGATGCATGG-TATGTGCATCGATACATAAAATGCAT
*
848020 TGAGTGCATTGATGCATGGTATGTGCATCGATACATAAAATGCAT
1 TGAGTGCATCGATGCATGGTATGTGCATCGATACATAAAATGCAT
848065 T
1 T
848066 CGATGTTCAA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 1 0.02
45 40 0.98
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.32
Consensus pattern (45 bp):
TGAGTGCATCGATGCATGGTATGTGCATCGATACATAAAATGCAT
Found at i:850743 original size:23 final size:23
Alignment explanation
Indices: 850713--850794 Score: 80
Period size: 23 Copynumber: 3.6 Consensus size: 23
850703 GCATGGCCTT
850713 GTGCATCGATGCACATTCAAAGG
1 GTGCATCGATGCACATTCAAAGG
* *
850736 GTGCATCGGTGCATC-TTC--ATG
1 GTGCATCGATGCA-CATTCAAAGG
* *
850757 ATGTATCGATGCACATTCAAAGG
1 GTGCATCGATGCACATTCAAAGG
*
850780 GATACATCGATGCAC
1 G-TGCATCGATGCAC
850795 TGTTAAGTGT
Statistics
Matches: 45, Mismatches: 9, Indels: 9
0.71 0.14 0.14
Matches are distributed among these distances:
20 1 0.02
21 15 0.33
23 17 0.38
24 12 0.27
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (23 bp):
GTGCATCGATGCACATTCAAAGG
Found at i:850806 original size:44 final size:44
Alignment explanation
Indices: 850717--850813 Score: 126
Period size: 44 Copynumber: 2.2 Consensus size: 44
850707 GGCCTTGTGC
* * *
850717 ATCGATGCACATTCAAAGGGTGCATCGGTGCATCTTCATGATGT
1 ATCGATGCACATTCAAAGGGTACATCGATGCATCTTCAAGATGT
*
850761 ATCGATGCACATTCAAAGGGATACATCGATGCA-CTGTTAAG-TGT
1 ATCGATGCACATTCAAAGGG-TACATCGATGCATCT-TCAAGATGT
850805 ATCGATGCA
1 ATCGATGCA
850814 TGAAGCACAA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
44 34 0.72
45 13 0.28
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.28
Consensus pattern (44 bp):
ATCGATGCACATTCAAAGGGTACATCGATGCATCTTCAAGATGT
Found at i:859133 original size:45 final size:45
Alignment explanation
Indices: 859076--859173 Score: 130
Period size: 45 Copynumber: 2.2 Consensus size: 45
859066 TTGATGTTTC
*
859076 AAAATAGC-CTGAGTGCATCGATGCATGGCT-TGTGCAT-TGATGCAT
1 AAAAT-GCACTGAGTGCATCAATGCATGG-TATGTGCATCT-ATGCAT
*
859121 CAAATGCACTGAGTGCATCAATGCATGGTATGTGCATCTATGCAT
1 AAAATGCACTGAGTGCATCAATGCATGGTATGTGCATCTATGCAT
859166 AAAATGCA
1 AAAATGCA
859174 TTCGATGTTC
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
44 3 0.06
45 43 0.91
46 1 0.02
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (45 bp):
AAAATGCACTGAGTGCATCAATGCATGGTATGTGCATCTATGCAT
Found at i:859218 original size:20 final size:20
Alignment explanation
Indices: 859193--859230 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
859183 CAATTTATTC
859193 ATTGGTGCATCGATGCATGG
1 ATTGGTGCATCGATGCATGG
*
859213 ATTGGTGCATCGGTGCAT
1 ATTGGTGCATCGATGCAT
859231 CACTTTGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.18, C:0.16, G:0.34, T:0.32
Consensus pattern (20 bp):
ATTGGTGCATCGATGCATGG
Found at i:865134 original size:54 final size:54
Alignment explanation
Indices: 865041--865391 Score: 459
Period size: 54 Copynumber: 6.6 Consensus size: 54
865031 ACATTACTAT
* * * *
865041 GTGGTTTGCACACATAATG-CCATACTGTAATTCAC--ACTCATTATGAATTAC
1 GTGGGTTGCACACATAGTGTCGATACGGTAATTCACAAACTCATTATGAATTAC
* * *
865092 ATGGGCTGCACACATAGTGTCGATACGGTAATTCACAAACTCATTATGAATTAT
1 GTGGGTTGCACACATAGTGTCGATACGGTAATTCACAAACTCATTATGAATTAC
* * *
865146 ATGGGGTT---CACATAGTGCCGATACGGTAATTCATAAACTCATTATGAATTAC
1 GT-GGGTTGCACACATAGTGTCGATACGGTAATTCACAAACTCATTATGAATTAC
*
865198 GTGGGTTGCACACATAGTGTCGATATGGTAATTCACAAACTCATTATGAATTAC
1 GTGGGTTGCACACATAGTGTCGATACGGTAATTCACAAACTCATTATGAATTAC
* *
865252 TTGGGTTGCATACATAGTGGT-GATACGGTAATTCACAAACTCATTATGAATTAC
1 GTGGGTTGCACACATAGT-GTCGATACGGTAATTCACAAACTCATTATGAATTAC
* * *
865306 GT-GGTTGCACTCATAGTGCCGATACGATAATTCACAAACTCATTATGAATTAC
1 GTGGGTTGCACACATAGTGTCGATACGGTAATTCACAAACTCATTATGAATTAC
*
865359 GTGGGTTGCACACATAGTG-CTGATACGATAATT
1 GTGGGTTGCACACATAGTGTC-GATACGGTAATT
865392 ACGGCATATA
Statistics
Matches: 265, Mismatches: 24, Indels: 19
0.86 0.08 0.06
Matches are distributed among these distances:
51 20 0.08
52 57 0.22
53 48 0.18
54 134 0.51
55 6 0.02
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (54 bp):
GTGGGTTGCACACATAGTGTCGATACGGTAATTCACAAACTCATTATGAATTAC
Found at i:865251 original size:160 final size:157
Alignment explanation
Indices: 865041--865378 Score: 486
Period size: 160 Copynumber: 2.1 Consensus size: 157
865031 ACATTACTAT
* *
865041 GTGGTTTGCACACATAATGCCATACTGTAATTCACACTCATTATGAATTACATGGGCTGCACACA
1 GTGGGTTGCACACATAGTGCCATACTGTAATTCACACTCATTATGAATTACATGGGCTGCACACA
*
865106 TAGT-GTCGATACGGTAATTCACAAACTCATTATGAATTATATGGGGTT-CA-CATAGTGCCGAT
66 TAGTGGT-GATACGGTAATTCACAAACTCATTATGAA-T-TACGGGGTTGCACCATAGTGCCGAT
* *
865168 ACGGTAATTCATAAACTCATTATGAATTAC
128 ACGATAATTCACAAACTCATTATGAATTAC
* * *
865198 GTGGGTTGCACACATAGTGTCGATA-TGGTAATTCACAAACTCATTATGAATTACTTGGGTTGCA
1 GTGGGTTGCACACATAGTG-CCATACT-GTAATTCAC--ACTCATTATGAATTACATGGGCTGCA
* *
865262 TACATAGTGGTGATACGGTAATTCACAAACTCATTATGAATTACGTGGTTGCACTCATAGTGCCG
62 CACATAGTGGTGATACGGTAATTCACAAACTCATTATGAATTACGGGGTTGCAC-CATAGTGCCG
865327 ATACGATAATTCACAAACTCATTATGAATTAC
126 ATACGATAATTCACAAACTCATTATGAATTAC
865359 GTGGGTTGCACACATAGTGC
1 GTGGGTTGCACACATAGTGC
865379 TGATACGATA
Statistics
Matches: 163, Mismatches: 10, Indels: 13
0.88 0.05 0.07
Matches are distributed among these distances:
157 18 0.11
158 20 0.12
159 3 0.02
160 61 0.37
161 61 0.37
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.31
Consensus pattern (157 bp):
GTGGGTTGCACACATAGTGCCATACTGTAATTCACACTCATTATGAATTACATGGGCTGCACACA
TAGTGGTGATACGGTAATTCACAAACTCATTATGAATTACGGGGTTGCACCATAGTGCCGATACG
ATAATTCACAAACTCATTATGAATTAC
Found at i:865356 original size:107 final size:107
Alignment explanation
Indices: 865062--865391 Score: 474
Period size: 107 Copynumber: 3.1 Consensus size: 107
865052 ACATAATGCC
* * *
865062 ATACTGTAATTCAC--ACTCATTATGAATTACATGGGCTGCACACATAGTGTCGATACGGTAATT
1 ATACGGTAATTCACAAACTCATTATGAATTACGTGGGTTGCACACATAGTGTCGATACGGTAATT
*
865125 CACAAACTCATTATGAATTA-TATGGGGTT-C-ACATAGTGCCG
66 CACAAACTCATTATGAATTACT-T-GGGTTGCAACATAGTGCTG
* *
865166 ATACGGTAATTCATAAACTCATTATGAATTACGTGGGTTGCACACATAGTGTCGATATGGTAATT
1 ATACGGTAATTCACAAACTCATTATGAATTACGTGGGTTGCACACATAGTGTCGATACGGTAATT
*
865231 CACAAACTCATTATGAATTACTTGGGTTGCATACATAGTGGTG
66 CACAAACTCATTATGAATTACTTGGGTTGCA-ACATAGTGCTG
* * *
865274 ATACGGTAATTCACAAACTCATTATGAATTACGT-GGTTGCACTCATAGTGCCGATACGATAATT
1 ATACGGTAATTCACAAACTCATTATGAATTACGTGGGTTGCACACATAGTGTCGATACGGTAATT
*
865338 CACAAACTCATTATGAATTACGTGGGTTGCACACATAGTGCTG
66 CACAAACTCATTATGAATTACTTGGGTTGCA-ACATAGTGCTG
*
865381 ATACGATAATT
1 ATACGGTAATT
865392 ACGGCATATA
Statistics
Matches: 204, Mismatches: 16, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
104 12 0.06
105 5 0.02
106 68 0.33
107 77 0.38
108 42 0.21
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.32
Consensus pattern (107 bp):
ATACGGTAATTCACAAACTCATTATGAATTACGTGGGTTGCACACATAGTGTCGATACGGTAATT
CACAAACTCATTATGAATTACTTGGGTTGCAACATAGTGCTG
Found at i:869337 original size:22 final size:23
Alignment explanation
Indices: 869284--869370 Score: 81
Period size: 26 Copynumber: 3.6 Consensus size: 23
869274 GGAAGAAAAA
869284 GAAG-AAGAA-AAATGAATTATG
1 GAAGAAAGAAGAAATGAATTATG
869305 GAAGAGGAAGAAGAAGAAATGAATTATG
1 G-A-A-G-A-AAGAAGAAATGAATTATG
869333 GAAGAAGGAGAAAGAAATGAATTAT-
1 GAAGAA--AG-AAGAAATGAATTATG
869358 GAAGAAAGAAGAA
1 GAAGAAAGAAGAA
869371 GATTTGGTGA
Statistics
Matches: 56, Mismatches: 0, Indels: 19
0.75 0.00 0.25
Matches are distributed among these distances:
21 1 0.02
22 6 0.11
23 4 0.07
24 2 0.04
25 9 0.16
26 15 0.27
27 6 0.11
28 13 0.23
ACGTcount: A:0.57, C:0.00, G:0.29, T:0.14
Consensus pattern (23 bp):
GAAGAAAGAAGAAATGAATTATG
Found at i:869896 original size:17 final size:17
Alignment explanation
Indices: 869874--869910 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
869864 GATTATCTTT
*
869874 CTTCAAAAAAATCCGCA
1 CTTCAAAAAAATCCACA
869891 CTTCAAAAAAATCCACA
1 CTTCAAAAAAATCCACA
869908 CTT
1 CTT
869911 TTTTTTAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.46, C:0.30, G:0.03, T:0.22
Consensus pattern (17 bp):
CTTCAAAAAAATCCACA
Found at i:875235 original size:18 final size:18
Alignment explanation
Indices: 875212--875246 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
875202 AAGAAATTAC
875212 TAAGAGTCCTAGCTAAGG
1 TAAGAGTCCTAGCTAAGG
*
875230 TAAGAGTTCTAGCTAAG
1 TAAGAGTCCTAGCTAAG
875247 TTAAAAGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.26
Consensus pattern (18 bp):
TAAGAGTCCTAGCTAAGG
Found at i:875255 original size:18 final size:18
Alignment explanation
Indices: 875220--875255 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
875210 ACTAAGAGTC
*
875220 CTAGCTAAGGTAAGAGTT
1 CTAGCTAAGGTAAAAGTT
*
875238 CTAGCTAAGTTAAAAGTT
1 CTAGCTAAGGTAAAAGTT
875256 ATCTTTATCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.31
Consensus pattern (18 bp):
CTAGCTAAGGTAAAAGTT
Found at i:878485 original size:18 final size:18
Alignment explanation
Indices: 878462--878496 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
878452 AAGAAATTAC
878462 TAAGAGTCCTAGCTAAGG
1 TAAGAGTCCTAGCTAAGG
*
878480 TAAGAGTTCTAGCTAAG
1 TAAGAGTCCTAGCTAAG
878497 TTAAAGTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.26
Consensus pattern (18 bp):
TAAGAGTCCTAGCTAAGG
Found at i:878924 original size:18 final size:18
Alignment explanation
Indices: 878901--878935 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
878891 AAGAAATTAC
878901 TAAGAGTCCTAGCTAAGG
1 TAAGAGTCCTAGCTAAGG
*
878919 TAAGAGTTCTAGCTAAG
1 TAAGAGTCCTAGCTAAG
878936 TTAAAAGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.34, C:0.14, G:0.26, T:0.26
Consensus pattern (18 bp):
TAAGAGTCCTAGCTAAGG
Found at i:878944 original size:18 final size:18
Alignment explanation
Indices: 878909--878944 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
878899 ACTAAGAGTC
*
878909 CTAGCTAAGGTAAGAGTT
1 CTAGCTAAGGTAAAAGTT
*
878927 CTAGCTAAGTTAAAAGTT
1 CTAGCTAAGGTAAAAGTT
878945 ATTTATCTAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.31
Consensus pattern (18 bp):
CTAGCTAAGGTAAAAGTT
Found at i:880228 original size:85 final size:84
Alignment explanation
Indices: 880123--880293 Score: 308
Period size: 85 Copynumber: 2.0 Consensus size: 84
880113 TATTACAAGG
880123 GTCAGATGGAAGCTTGGGATGGACCTGCCTTACTCCTATTTAGGTAATGTTTCCAGGGACTTGTA
1 GTCAGATGGAAGCTTGGGATGGACCTGCCTTACTCCTATTTAGGTAATGTTTCCAGGGACTTGTA
880188 TA-CCTTTTAGGGGACTTCTA
66 TACCCTTTTA--GGACTTCTA
*
880208 GTCAGATGGACGCTTGGGATGGACCTGCCTTACTCCTATTTAGGTAATGTTTCCAGGGACTTGTA
1 GTCAGATGGAAGCTTGGGATGGACCTGCCTTACTCCTATTTAGGTAATGTTTCCAGGGACTTGTA
880273 TACCCTTTTAGGACTTCTA
66 TACCCTTTTAGGACTTCTA
880292 GT
1 GT
880294 TTTATTGCCA
Statistics
Matches: 84, Mismatches: 1, Indels: 3
0.95 0.01 0.03
Matches are distributed among these distances:
84 11 0.13
85 66 0.79
86 7 0.08
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.35
Consensus pattern (84 bp):
GTCAGATGGAAGCTTGGGATGGACCTGCCTTACTCCTATTTAGGTAATGTTTCCAGGGACTTGTA
TACCCTTTTAGGACTTCTA
Found at i:883988 original size:197 final size:199
Alignment explanation
Indices: 883635--884035 Score: 727
Period size: 197 Copynumber: 2.0 Consensus size: 199
883625 TATGCACAAC
*
883635 ATTG-AGCTATTCAGAGCTTTCATCCATCAAGACAATCTTGTTAATTTACTATTGATTGTAGGTC
1 ATTGAAGCTATTCAGAGCTTTCATCCACCAAGACAATCTTGTTAATTTACTATTGATTGTAGGTC
*
883699 GTTTCACCTGGTGGAATAACAGAGAAAGTCCTTTTATAAGGCTTGGTCGTTTTCTGGGCGATGCT
66 GTTTCACCTGGTGGAATAACAGAGAAAGTCCTTTTATAAGGCTTGATCGTTTTCTGGGCGATGCT
883764 AGATTCTTGGCGGCTTTCCCAAATATTTCGC-AAAGCTACTTCTGAAGTCTCTTTCAAATCGTAA
131 AGATTCTTGGCGGCTTTCCCAAATATTTCGCAAAAGCTACTTCTGAAGTCTCTTTCAAATCGTAA
883828 CACA
196 CACA
*
883832 ATTGAAGCTATTCAGAGC-TTCATCCACCAAGACAATCTTGTTAATTTACTATTGATTGTGGGTC
1 ATTGAAGCTATTCAGAGCTTTCATCCACCAAGACAATCTTGTTAATTTACTATTGATTGTAGGTC
*
883896 GTTTCACCTGGTGGAATAACAGAGAAAGTCCTTTTATAAGGCTTGATCGTTTTCTGGGGGATGCT
66 GTTTCACCTGGTGGAATAACAGAGAAAGTCCTTTTATAAGGCTTGATCGTTTTCTGGGCGATGCT
**
883961 AGATTCTTGGCGGCTTTCCCAAATATTTCGCAAAAGCTACTTCTGAAGTCTCTTTCAGTTCGTAA
131 AGATTCTTGGCGGCTTTCCCAAATATTTCGCAAAAGCTACTTCTGAAGTCTCTTTCAAATCGTAA
884026 CACA
196 CACA
884030 ATTGAA
1 ATTGAA
884036 ATCGTAAACG
Statistics
Matches: 196, Mismatches: 6, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
197 142 0.72
198 54 0.28
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.35
Consensus pattern (199 bp):
ATTGAAGCTATTCAGAGCTTTCATCCACCAAGACAATCTTGTTAATTTACTATTGATTGTAGGTC
GTTTCACCTGGTGGAATAACAGAGAAAGTCCTTTTATAAGGCTTGATCGTTTTCTGGGCGATGCT
AGATTCTTGGCGGCTTTCCCAAATATTTCGCAAAAGCTACTTCTGAAGTCTCTTTCAAATCGTAA
CACA
Found at i:897457 original size:19 final size:19
Alignment explanation
Indices: 897433--897476 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
897423 TAAGAAATTA
897433 TAAAATAACAAAAATATTT
1 TAAAATAACAAAAATATTT
* * *
897452 TAAAATTATAAAAGTATTT
1 TAAAATAACAAAAATATTT
*
897471 AAAAAT
1 TAAAAT
897477 CATGTTCCTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (19 bp):
TAAAATAACAAAAATATTT
Found at i:897471 original size:18 final size:17
Alignment explanation
Indices: 897414--897474 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 17
897404 TAACACCATC
897414 TTAAAATTATAAGAA-AT
1 TTAAAATTATAA-AATAT
* *
897431 TATAAAATAACAAAAATATT
1 T-TAAAATTA-TAAAATA-T
897451 TTAAAATTATAAAAGTAT
1 TTAAAATTATAAAA-TAT
897469 TTAAAA
1 TTAAAA
897475 ATCATGTTCC
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
17 1 0.03
18 20 0.57
19 12 0.34
20 2 0.06
ACGTcount: A:0.61, C:0.02, G:0.03, T:0.34
Consensus pattern (17 bp):
TTAAAATTATAAAATAT
Found at i:929860 original size:44 final size:45
Alignment explanation
Indices: 929771--929861 Score: 132
Period size: 44 Copynumber: 2.0 Consensus size: 45
929761 TTTTCTATTC
* * *
929771 TACTGTGAAGGTTTTTATGGCAGGGGGGTGTTTTTAAGTTTTATG
1 TACTGTAAAGGCTTTTATGGCAGGGGGATGTTTTTAAGTTTTATG
929816 TACTGTAAAGGCTTTTAT-GCTA-GGGGATGTTTTTAAGTTTTATG
1 TACTGTAAAGGCTTTTATGGC-AGGGGGATGTTTTTAAGTTTTATG
929860 TA
1 TA
929862 TTGTTATTGG
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
44 25 0.60
45 17 0.40
ACGTcount: A:0.21, C:0.05, G:0.29, T:0.45
Consensus pattern (45 bp):
TACTGTAAAGGCTTTTATGGCAGGGGGATGTTTTTAAGTTTTATG
Found at i:949493 original size:136 final size:136
Alignment explanation
Indices: 949242--949567 Score: 499
Period size: 136 Copynumber: 2.4 Consensus size: 136
949232 GATGGATTTG
* * * *
949242 AACTATCTCGAGCGATATGATGTTGATCCAACTCCTCATATGATGGAATCGAGTCAAAATGTGAT
1 AACTATCTCGAGCGAGATGATGTTGATCCAACTCCTTATATGATGGAATCGAGCCAAAAGGTGAT
*
949307 ATTGATCCAACTCCTTATATAATGGATTTAAACCTCAAGTAAAATGATATTGAAGTTTAAGTTTC
66 ATTGATCCAACTCCTTATATAATGAATTTAAACCTCAAGTAAAATGATATTGAAGTTTAAGTTTC
**
949372 AAGGGA
131 AAGAAA
* * **
949378 AACTATCTCGAGCGAGATGATGTTGATCCAACTTCTTACATGATGGAATTTAGCCAAAAGGTGAT
1 AACTATCTCGAGCGAGATGATGTTGATCCAACTCCTTATATGATGGAATCGAGCCAAAAGGTGAT
* * * * *
949443 ATTGATCCAACTCCTTATGTGATGAATTTAAACCTCAAGTGAAATTATATTGAAGTTTGAGTTTC
66 ATTGATCCAACTCCTTATATAATGAATTTAAACCTCAAGTAAAATGATATTGAAGTTTAAGTTTC
949508 AAGAAA
131 AAGAAA
*
949514 AACTATCTCGAGCGAGATGATGTTGATCCAACTCCTTATGTGATGGAATCGAGC
1 AACTATCTCGAGCGAGATGATGTTGATCCAACTCCTTATATGATGGAATCGAGC
949568 AATGGTTTAA
Statistics
Matches: 169, Mismatches: 21, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
136 169 1.00
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (136 bp):
AACTATCTCGAGCGAGATGATGTTGATCCAACTCCTTATATGATGGAATCGAGCCAAAAGGTGAT
ATTGATCCAACTCCTTATATAATGAATTTAAACCTCAAGTAAAATGATATTGAAGTTTAAGTTTC
AAGAAA
Found at i:952903 original size:21 final size:22
Alignment explanation
Indices: 952874--952914 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
952864 ATCGCGTGTT
952874 TCTTGAATATATCT-TCTATCA
1 TCTTGAATATATCTATCTATCA
*
952895 TCTTTAATATATCTATCTAT
1 TCTTGAATATATCTATCTAT
952915 GAGTTTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.29, C:0.17, G:0.02, T:0.51
Consensus pattern (22 bp):
TCTTGAATATATCTATCTATCA
Found at i:958511 original size:9 final size:9
Alignment explanation
Indices: 958489--958531 Score: 52
Period size: 9 Copynumber: 4.7 Consensus size: 9
958479 AATCCTAAAA
958489 GAAAA-AAT
1 GAAAATAAT
958497 GAAAAATAAT
1 G-AAAATAAT
958507 GAAAATAACT
1 GAAAATAA-T
958517 GAAAATAAT
1 GAAAATAAT
*
958526 AAAAAT
1 GAAAAT
958532 TCGCGTGTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
8 1 0.03
9 17 0.55
10 13 0.42
ACGTcount: A:0.70, C:0.02, G:0.09, T:0.19
Consensus pattern (9 bp):
GAAAATAAT
Found at i:960456 original size:9 final size:9
Alignment explanation
Indices: 960444--960468 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
960434 TGCACAAGGG
960444 CTTGAAGTT
1 CTTGAAGTT
960453 CTTGAAGTT
1 CTTGAAGTT
960462 CTTGAAG
1 CTTGAAG
960469 AAATCCATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.40
Consensus pattern (9 bp):
CTTGAAGTT
Found at i:967617 original size:2 final size:2
Alignment explanation
Indices: 967610--967661 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
967600 CAAGAAACAC
967610 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
967652 TA TA TA TA TA
1 TA TA TA TA TA
967662 GTTGACAATG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:970788 original size:20 final size:20
Alignment explanation
Indices: 970763--970800 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
970753 TATGTCGCTA
970763 TTAGATTTTTAAATTAGTTG
1 TTAGATTTTTAAATTAGTTG
970783 TTAGATTTTTAAATTAGT
1 TTAGATTTTTAAATTAGT
970801 AAATTGAGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.13, T:0.55
Consensus pattern (20 bp):
TTAGATTTTTAAATTAGTTG
Found at i:972168 original size:2 final size:2
Alignment explanation
Indices: 972163--972203 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
972153 CCTTATGTTC
972163 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
972204 CTTTTTAAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:976974 original size:2 final size:2
Alignment explanation
Indices: 976962--976991 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
976952 AAAAATTCTC
976962 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
976992 ATAAAATTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:980101 original size:30 final size:30
Alignment explanation
Indices: 980050--980157 Score: 105
Period size: 30 Copynumber: 3.6 Consensus size: 30
980040 CCCATGAAAG
* *
980050 CAAACCAAAGAAAGA-AGAAACCCACCACAA
1 CAAACCAAAGAAA-ACAAAAACCCATCACAA
*
980080 CAAACCAAAGAAAACAAAAACCC-TCACAG
1 CAAACCAAAGAAAACAAAAACCCATCACAA
* * *
980109 CAGAAGCAAAGGAAACAAAAGCCCATCACAA
1 CA-AACCAAAGAAAACAAAAACCCATCACAA
*
980140 CAAAAACAAAG-AAACAAA
1 C-AAACCAAAGAAAACAAA
980158 TATAGGGGTA
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
29 7 0.11
30 45 0.68
31 13 0.20
32 1 0.02
ACGTcount: A:0.61, C:0.27, G:0.10, T:0.02
Consensus pattern (30 bp):
CAAACCAAAGAAAACAAAAACCCATCACAA
Found at i:980461 original size:22 final size:22
Alignment explanation
Indices: 980436--980481 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
980426 ATTGGTTTAA
980436 TTATAAATTTAGTCCTTCAACT
1 TTATAAATTTAGTCCTTCAACT
980458 TTATAAATTTAGTCCTTCAACT
1 TTATAAATTTAGTCCTTCAACT
980480 TT
1 TT
980482 TAAGTATTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.30, C:0.17, G:0.04, T:0.48
Consensus pattern (22 bp):
TTATAAATTTAGTCCTTCAACT
Found at i:980833 original size:2 final size:2
Alignment explanation
Indices: 980823--980851 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
980813 AGGTTTTTTA
980823 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
980852 TAATTTTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:981156 original size:18 final size:19
Alignment explanation
Indices: 981135--981170 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
981125 ATTATTTAAT
981135 AAATTTA-AATTAAAAAAA
1 AAATTTATAATTAAAAAAA
*
981153 AAATTTATATTTAAAAAA
1 AAATTTATAATTAAAAAA
981171 TTAAATAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
AAATTTATAATTAAAAAAA
Found at i:982255 original size:2 final size:2
Alignment explanation
Indices: 982197--982239 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
982187 TTTATTTTTA
982197 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
982239 A
1 A
982240 ATTGATTCCT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:989207 original size:22 final size:21
Alignment explanation
Indices: 989182--989259 Score: 77
Period size: 22 Copynumber: 3.7 Consensus size: 21
989172 CTCAAATTTA
989182 AAAATTCTAAACCCCAAACCTT
1 AAAATTCTAAACCCCAAA-CTT
** *
989204 AAAAACCTAAATCCCAAAACTT
1 AAAATTCTAAA-CCCCAAACTT
* *
989226 GAAATTCTAAACTCCAAAC-T
1 AAAATTCTAAACCCCAAACTT
*
989246 CAAATTCTAAACCC
1 AAAATTCTAAACCC
989260 TACATCTTAA
Statistics
Matches: 45, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
20 13 0.29
21 6 0.13
22 20 0.44
23 6 0.13
ACGTcount: A:0.47, C:0.29, G:0.01, T:0.22
Consensus pattern (21 bp):
AAAATTCTAAACCCCAAACTT
Found at i:989223 original size:23 final size:23
Alignment explanation
Indices: 989179--989223 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
989169 ACCCTCAAAT
* *
989179 TTAAAAATTCTAAACCCCAAACC
1 TTAAAAATCCTAAACCCAAAACC
989202 TTAAAAA-CCTAAATCCCAAAAC
1 TTAAAAATCCTAAA-CCCAAAAC
989224 TTGAAATTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.51, C:0.29, G:0.00, T:0.20
Consensus pattern (23 bp):
TTAAAAATCCTAAACCCAAAACC
Found at i:989284 original size:14 final size:13
Alignment explanation
Indices: 989251--989299 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 13
989241 AAACTCAAAT
989251 TCTAAACCCTACA
1 TCTAAACCCTACA
*
989264 TCTTAAATCCTACA
1 TC-TAAACCCTACA
*
989278 CTCTAAACCCTAAA
1 -TCTAAACCCTACA
989292 TACTAAAC
1 T-CTAAAC
989300 TTTAAACCCT
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
13 3 0.10
14 25 0.83
15 2 0.07
ACGTcount: A:0.41, C:0.33, G:0.00, T:0.27
Consensus pattern (13 bp):
TCTAAACCCTACA
Found at i:989291 original size:21 final size:21
Alignment explanation
Indices: 989227--989352 Score: 87
Period size: 21 Copynumber: 6.1 Consensus size: 21
989217 CCAAAACTTG
* * *
989227 AAATTCTAAACTCCAAACTC-
1 AAATCCTAAACTCTAAACCCT
* * * * *
989247 AAATTCTAAACCCTACATCTT
1 AAATCCTAAACTCTAAACCCT
*
989268 AAATCCTACACTCTAAACCCT
1 AAATCCTAAACTCTAAACCCT
* *
989289 AAATACTAAACTTTAAACCCT
1 AAATCCTAAACTCTAAACCCT
* *
989310 AAATTCTAAA-TCTTAAACTCT
1 AAATCCTAAACTC-TAAACCCT
* *
989331 AATTCCTAAATTCT-AACCCT
1 AAATCCTAAACTCTAAACCCT
989351 AA
1 AA
989353 TAAGAAAAGT
Statistics
Matches: 82, Mismatches: 21, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
20 22 0.27
21 58 0.71
22 2 0.02
ACGTcount: A:0.42, C:0.28, G:0.00, T:0.30
Consensus pattern (21 bp):
AAATCCTAAACTCTAAACCCT
Found at i:989319 original size:14 final size:14
Alignment explanation
Indices: 989302--989352 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
989292 TACTAAACTT
989302 TAAACCCTAAATTC
1 TAAACCCTAAATTC
* * *
989316 TAAATCTTAAACTC
1 TAAACCCTAAATTC
**
989330 TAATTCCTAAATTC
1 TAAACCCTAAATTC
989344 T-AACCCTAA
1 TAAACCCTAA
989353 TAAGAAAAGT
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
13 6 0.21
14 23 0.79
ACGTcount: A:0.41, C:0.25, G:0.00, T:0.33
Consensus pattern (14 bp):
TAAACCCTAAATTC
Found at i:989929 original size:2 final size:2
Alignment explanation
Indices: 989922--989960 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
989912 TCAACCATTA
989922 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
989961 AAAGATTGTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:992125 original size:21 final size:21
Alignment explanation
Indices: 992095--992134 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
992085 TAATAAATAT
* *
992095 TTGTCTTTCAAAATTTTATAA
1 TTGTCCTTCAAAATATTATAA
992116 TTGTCCTTCAAAATATTAT
1 TTGTCCTTCAAAATATTAT
992135 CTTAAAAGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.12, G:0.05, T:0.50
Consensus pattern (21 bp):
TTGTCCTTCAAAATATTATAA
Found at i:996194 original size:2 final size:2
Alignment explanation
Indices: 996189--996227 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
996179 ATATATATAT
* *
996189 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AA AA AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
996228 TTCTTTGTAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (2 bp):
AG
Found at i:997633 original size:18 final size:18
Alignment explanation
Indices: 997610--997647 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
997600 TCTCACACGT
997610 TCATTGAAGAAGAAGAAA
1 TCATTGAAGAAGAAGAAA
* *
997628 TCATTGAAGAGGATGAAA
1 TCATTGAAGAAGAAGAAA
997646 TC
1 TC
997648 GAGATCTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.47, C:0.08, G:0.24, T:0.21
Consensus pattern (18 bp):
TCATTGAAGAAGAAGAAA
Found at i:999519 original size:19 final size:19
Alignment explanation
Indices: 999470--999520 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 19
999460 AGAATGTTAC
999470 ATGATATGTGATATGAAAAT
1 ATGATATGTGATATG-AAAT
999490 ATGACTATGTGATATG-AAT
1 ATGA-TATGTGATATGAAAT
*
999509 GTGTATATGTGA
1 ATG-ATATGTGA
999521 AAAACATAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 12 0.43
20 5 0.18
21 11 0.39
ACGTcount: A:0.37, C:0.02, G:0.24, T:0.37
Consensus pattern (19 bp):
ATGATATGTGATATGAAAT
Found at i:1002552 original size:64 final size:61
Alignment explanation
Indices: 1002431--1002579 Score: 174
Period size: 64 Copynumber: 2.3 Consensus size: 61
1002421 ATGCACATTC
* * * *
1002431 ATAAGTGCATCGATGCATTCC-TTTAAAAGAAACATCGAATGCCTTTGATGCATCGATGCATA
1 ATAA-TGCATCGATGCA-TCCTTTTAAAAAAAACATCGAATGCATTTGATGCACCGATGCACA
*
1002493 GATAATGCATCGATGCATCCTTTTAAAATAAAAACATCGAATGCATTTTATGCACCGATGCACA
1 -ATAATGCATCGATGCATCCTTTT-AAA-AAAAACATCGAATGCATTTGATGCACCGATGCACA
*
1002557 AGTAGTGCATCGATGCATACCTT
1 A-TAATGCATCGATGCAT-CCTT
1002580 CATTGAAAGA
Statistics
Matches: 75, Mismatches: 6, Indels: 8
0.84 0.07 0.09
Matches are distributed among these distances:
61 3 0.04
62 15 0.20
63 8 0.11
64 45 0.60
65 4 0.05
ACGTcount: A:0.34, C:0.20, G:0.17, T:0.29
Consensus pattern (61 bp):
ATAATGCATCGATGCATCCTTTTAAAAAAAACATCGAATGCATTTGATGCACCGATGCACA
Found at i:1003290 original size:29 final size:30
Alignment explanation
Indices: 1003225--1003296 Score: 92
Period size: 29 Copynumber: 2.4 Consensus size: 30
1003215 GGTTCTTCGG
* * *
1003225 GACCTGTGGACAGTTACCGAGGATCTTTAT
1 GACCTCTGGATAGTTACCGAGGATCTGTAT
* *
1003255 GACCTCTGGATAGTTACCG-GGGTCTGTGT
1 GACCTCTGGATAGTTACCGAGGATCTGTAT
1003284 GACCTCTGGATAG
1 GACCTCTGGATAG
1003297 GTCCTTCGGG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 20 0.54
30 17 0.46
ACGTcount: A:0.19, C:0.21, G:0.31, T:0.29
Consensus pattern (30 bp):
GACCTCTGGATAGTTACCGAGGATCTGTAT
Done.