Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007945.1 Hibiscus syriacus cultivar Beakdansim tig00110367_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: 116619
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Found at i:2825 original size:23 final size:23
Alignment explanation
Indices: 2794--2857 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
2784 ATAGGTAAAC
*
2794 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
2817 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
2840 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
2858 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:2864 original size:23 final size:23
Alignment explanation
Indices: 2794--2866 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
2784 ATAGGTAAAC
* **
2794 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
2817 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
2840 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
2863 ATAT
1 ATAT
2867 TGTAAAGTGT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:3252 original size:23 final size:23
Alignment explanation
Indices: 3221--3284 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
3211 ATAGGTAAAC
*
3221 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
3244 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
3267 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
3285 TGGTTATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:3291 original size:23 final size:23
Alignment explanation
Indices: 3221--3293 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
3211 ATAGGTAAAC
* **
3221 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGTGCTT
*
3244 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
*
3267 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
3290 ATAT
1 ATAT
3294 TGTAAGTGTC
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.34, C:0.05, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:3706 original size:23 final size:21
Alignment explanation
Indices: 3645--3698 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 21
3635 AAACATATGA
*
3645 GTAATAGGTAGCCCTTATATAAT
1 GTAATAGGTAG--TTTATATAAT
*
3668 GTAATA--TCGTTTATATAAT
1 GTAATAGGTAGTTTATATAAT
3687 GTAATAGGTAGT
1 GTAATAGGTAGT
3699 GGTTATATTG
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
19 15 0.58
21 5 0.19
23 6 0.23
ACGTcount: A:0.35, C:0.07, G:0.19, T:0.39
Consensus pattern (21 bp):
GTAATAGGTAGTTTATATAAT
Found at i:3787 original size:417 final size:425
Alignment explanation
Indices: 2697--4537 Score: 3341
Period size: 417 Copynumber: 4.4 Consensus size: 425
2687 AATTCGCAGT
2697 ACACTGTT-AAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTAT-
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
2760 AAAAGTATGGACACTTTCAATAAAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATAAAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
2825 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
131 TAATA-GTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGT-AAGTGTCTATCCTTTTTAT
2890 AAAAGTGTCCATACTTTTTTCACTGTGGAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTA
194 AAAAGTGTCCATAC-TTTTTCACTGTGGAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTA
2955 AGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTA
258 AGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGG--TATATTATTA
3020 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCAA
321 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCAA
3085 ATGAAATTATTAAATCAATATTGTAGGTGG-AAACATGAA
386 ATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
3124 ACACTGTTAAAAAAATTGAAACATAAATTACAT-AGTTTT-AAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
3187 AAAAGTATGGACACTTTCAATAAAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATAAAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
3252 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAGTGTCTATCC-TTTTATA
131 TAATA-GTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAGTGTCTATCCTTTTTATA
3316 AAAGTGTCCATACTTTTTCACTGTGGAAAACATTAATTTAAGGTTATC-TTTGAGTGAGTTTTAA
195 AAAGTGTCCATACTTTTTCACTGTGG-AAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAA
3380 GATATTAATTTAGT-ATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATA-TATTATTA
259 GATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATTATTATTA
3443 AATT-AAAATTCT-AATAATATTTTATAAAATAT-AAAACAATCAAATAATTTTTTGTGCAAATG
324 AATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCAAATG
3505 AAATTATT-AATCAATATTGTAGGTGGAAAACATGAA
389 AAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
3541 AC-CTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
3605 AAAAGTATGGACACTTTCAATAAAATAGGTAAACATATGA-GTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATAAAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
3669 T-A-A-TATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATA
131 TAATAGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGT-AAGTGTCTATCCTTTTTATA
3731 AAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTA
195 AAAGTGTCCATAC-TTTTTCACTGTGG-AAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTA
3796 AGATATTAATTTAGTAATTATAGGCGTCTAATGA--T-TTTTTTACGTTACGGTATATTATTATT
258 AGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATTATTATT
3858 AAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAA-TTTTTGTGCAAAT
323 AAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCAAAT
3922 GAAATT-TT-AATC-ATATTGTAGGTGGAAAACATGAA
388 GAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
3957 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
4022 AAAAGTATGGACACTTTCAATAAAATAGGTAAAC-TATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATAAAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
4086 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAGTGTCTATCCTTTTTAT-
131 TAATA-GTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAGTGTCTATCCTTTTTATA
4150 AAAGTGTCCATACTTTTTCACTGTGGAAACATTAA-TTAAGGTTATCTTTTGAGTGAGTTTTAAG
195 AAAGTGTCCATACTTTTTCACTGTGGAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAG
4214 ATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATTATTATTAA
260 ATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATTATTATTAA
4279 ATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCAAATGA
325 ATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCAAATGA
4344 AATTATTAAATCAATATTGTAGGTGGAAAACATGAA
390 AATTATTAAATCAATATTGTAGGTGGAAAACATGAA
4380 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
*
4445 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTT-TAT-ATG
66 AAAAGTATGGACACTTTCAATAAAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
4508 TAATAGGTATCG-TT-TATAATGTAATAGGTA
131 TAATA-GTATCGTTTATATAATGTAATAGGTA
4538 TCTATCTCGC
Statistics
Matches: 1384, Mismatches: 1, Indels: 65
0.95 0.00 0.04
Matches are distributed among these distances:
413 38 0.03
414 12 0.01
415 40 0.03
416 188 0.14
417 254 0.18
418 156 0.11
419 115 0.08
420 66 0.05
421 46 0.03
422 19 0.01
423 161 0.12
424 65 0.05
425 41 0.03
426 35 0.03
427 124 0.09
428 24 0.02
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.38
Consensus pattern (425 bp):
ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
AAAAGTATGGACACTTTCAATAAAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
TAATAGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAGTGTCTATCCTTTTTATAA
AAGTGTCCATACTTTTTCACTGTGGAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGA
TATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATTATTATTAAA
TTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCAAATGAA
ATTATTAAATCAATATTGTAGGTGGAAAACATGAA
Found at i:4086 original size:23 final size:23
Alignment explanation
Indices: 4060--4118 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 23
4050 GTAAACTATG
4060 ATGTAATAGGTAGCCCTTATATA
1 ATGTAATAGGTAGCCCTTATATA
* **
4083 ATGTAATAGGTATCGTTTATATA
1 ATGTAATAGGTAGCCCTTATATA
4106 ATGTAATAGGTAG
1 ATGTAATAGGTAG
4119 TGGTTATATT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.36, C:0.07, G:0.20, T:0.37
Consensus pattern (23 bp):
ATGTAATAGGTAGCCCTTATATA
Found at i:4125 original size:23 final size:23
Alignment explanation
Indices: 4060--4127 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
4050 GTAAACTATG
**
4060 ATGTAATAGGTAGCCCTTATATA
1 ATGTAATAGGTAGTGCTTATATA
*
4083 ATGTAATAGGTA-TCGTTTATATA
1 ATGTAATAGGTAGT-GCTTATATA
*
4106 ATGTAATAGGTAGTGGTTATAT
1 ATGTAATAGGTAGTGCTTATAT
4128 TGTAAGTGTC
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
23 38 0.97
24 1 0.03
ACGTcount: A:0.34, C:0.06, G:0.21, T:0.40
Consensus pattern (23 bp):
ATGTAATAGGTAGTGCTTATATA
Found at i:4474 original size:840 final size:843
Alignment explanation
Indices: 2697--4537 Score: 3375
Period size: 840 Copynumber: 2.2 Consensus size: 843
2687 AATTCGCAGT
2697 ACACTGTT-AAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTAT-
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
2760 AAAAGTATGGACACTTTCAATAAAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATAAAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
2825 TAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
131 TAATA-GTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTAT
2890 AAAAGTGTCCATACTTTTTTCACTGTGGAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTA
195 AAAAGTGTCCATACTTTTTTCACTGTGGAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTA
2955 AGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTA
260 AGATATTAATTTAGTAATTATAGGCGTCTAATGA-TTATTTTTTACGTTACGG-ATATATTATTA
3020 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCAA
323 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCAA
3085 ATGAAATTATTAAATCAATATTGTAGGTGGAAACATGAAACACTGTTAAAAAAATTGAAACATAA
388 ATGAAATTATTAAATCAATATTGTAGGTGGAAACATGAAACACTGTTAAAAAAATTGAAACATAA
3150 ATTACATAGTTTTAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATAAAATAG
453 ATTACATAGTTTTAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATAAAATAG
3215 GTAAACATATGATGTAATAGGTAGCCCTTATATAATGTAATAGGTATCGTTTATATAATGTAATA
518 GTAAACATATGATGTAATAGGTAGCCCTTATATAATGTAATAGGTATCGTTTATATAATGTAATA
3280 GGTAGTGGTTATATTGTAAGTGTCTATCCTTTTATAAAAGTGTCCATACTTTTTCACTGTGGAAA
583 GGTAGTGGTTATATTGTAAGTGTCTATCCTTTTATAAAAGTGTCCATACTTTTTCACTGTGGAAA
3345 ACATTAATTTAAGGTTATCTTTGAGTGAGTTTTAAGATATTAATTTAGTATTATAGGCGTCTAAT
648 ACATTAATTTAAGGTTATCTTTGAGTGAGTTTTAAGATATTAATTTAGTATTATAGGCGTCTAAT
3410 GATTTATTTTTTACGTTACGGTATATATTATTAAATTAAAATTCTAATAATATTTTATAAAATAT
713 GATTTATTTTTTACGTTACGGTATATATTATTAAATTAAAATTCTAATAATATTTTATAAAATAT
3475 AAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAATCAATATTGTAGGTGGAAAACATGA
778 AAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAATCAATATTGTAGGTGGAAAACATGA
3540 A
843 A
3541 AC-CTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
3605 AAAAGTATGGACACTTTCAATAAAATAGGTAAACATATGA-GTAATAGGTAGCCCTTATATAATG
66 AAAAGTATGGACACTTTCAATAAAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
3669 T-A-A-TATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATA
131 TAATAGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATA
3731 AAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTA
196 AAAGTGTCCATACTTTTTTCACTGTGG-AAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTA
3796 AGATATTAATTTAGTAATTATAGGCGTCTAATGA-T-TTTTTTACGTTACGG-TATATTATTATT
260 AGATATTAATTTAGTAATTATAGGCGTCTAATGATTATTTTTTACGTTACGGATATATTATTATT
3858 AAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAA-TTTTTGTGCAAAT
325 AAATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCAAAT
3922 GAAATT-TT-AATC-ATATTGTAGGTGGAAAACATGAAACACTGTTAAAAAAATTGAAACATAAA
390 GAAATTATTAAATCAATATTGTAGGTGG-AAACATGAAACACTGTTAAAAAAATTGAAACATAAA
3984 TTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATAAAATA
454 TTACAT-AGTTTT-AAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATAAAATA
4049 GGTAAAC-TATGATGTAATAGGTAGCCCTTATATAATGTAATAGGTATCGTTTATATAATGTAAT
517 GGTAAACATATGATGTAATAGGTAGCCCTTATATAATGTAATAGGTATCGTTTATATAATGTAAT
4113 AGGTAGTGGTTATATTGTAAGTGTCTATCCTTTT-TATAAAGTGTCCATACTTTTTCACTGTGG-
582 AGGTAGTGGTTATATTGTAAGTGTCTATCCTTTTATA-AAAGTGTCCATACTTTTTCACTGTGGA
4176 AAACATTAA-TTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTC
646 AAACATTAATTTAAGGTTATC-TTTGAGTGAGTTTTAAGATATTAATTTAGT-ATTATAGGCGTC
4240 TAATGATTTATTTTTTACGTTACGGTATATTATTATTAAATTAAAAATTCTAAATAATATTTTAT
709 TAATGATTTATTTTTTACGTTACGGTATA-TATTATTAAATT-AAAATTCT-AATAATATTTTAT
4305 AAAATATAAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATCAATATTGTAGGTGG
771 AAAATAT-AAAACAATCAAATAATTTTTTGTGCAAATGAAATTATT-AATCAATATTGTAGGTGG
4370 AAAACATGAA
834 AAAACATGAA
4380 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
*
4445 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTT-TAT-ATG
66 AAAAGTATGGACACTTTCAATAAAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
4508 TAATAGGTATCG-TT-TATAATGTAATAGGTA
131 TAATA-GTATCGTTTATATAATGTAATAGGTA
4538 TCTATCTCGC
Statistics
Matches: 976, Mismatches: 1, Indels: 43
0.96 0.00 0.04
Matches are distributed among these distances:
832 24 0.02
833 87 0.09
834 166 0.17
835 89 0.09
836 71 0.07
837 20 0.02
838 53 0.05
839 35 0.04
840 191 0.20
841 104 0.11
842 3 0.00
843 11 0.01
844 82 0.08
845 40 0.04
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.38
Consensus pattern (843 bp):
ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
AAAAGTATGGACACTTTCAATAAAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
TAATAGTATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTGTCTATCCTTTTTATA
AAAGTGTCCATACTTTTTTCACTGTGGAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAA
GATATTAATTTAGTAATTATAGGCGTCTAATGATTATTTTTTACGTTACGGATATATTATTATTA
AATTAAAAATTCTAAATAATATTTTATAAAATATAAAAACAATCAAATAATTTTTTGTGCAAATG
AAATTATTAAATCAATATTGTAGGTGGAAACATGAAACACTGTTAAAAAAATTGAAACATAAATT
ACATAGTTTTAAAAAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATAAAATAGGTA
AACATATGATGTAATAGGTAGCCCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGT
AGTGGTTATATTGTAAGTGTCTATCCTTTTATAAAAGTGTCCATACTTTTTCACTGTGGAAAACA
TTAATTTAAGGTTATCTTTGAGTGAGTTTTAAGATATTAATTTAGTATTATAGGCGTCTAATGAT
TTATTTTTTACGTTACGGTATATATTATTAAATTAAAATTCTAATAATATTTTATAAAATATAAA
ACAATCAAATAATTTTTTGTGCAAATGAAATTATTAATCAATATTGTAGGTGGAAAACATGAA
Found at i:4538 original size:21 final size:20
Alignment explanation
Indices: 4484--4539 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 20
4474 TAAACATATG
*
4484 ATGTAATAGGTAGCCCTTTAT
1 ATGTAATAGGTA-TCCTTTAT
*
4505 ATGTAATAGGTATCGTTTAT
1 ATGTAATAGGTATCCTTTAT
4525 AATGTAATAGGTATC
1 -ATGTAATAGGTATC
4540 TATCTCGCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 6 0.19
21 26 0.81
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (20 bp):
ATGTAATAGGTATCCTTTAT
Found at i:4764 original size:18 final size:18
Alignment explanation
Indices: 4743--4779 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
4733 GTAATTGGAG
4743 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
4761 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
4779 T
1 T
4780 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:4787 original size:24 final size:24
Alignment explanation
Indices: 4735--4781 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
4725 TTTAATATGT
* *
4735 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
4759 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
4782 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:8831 original size:64 final size:63
Alignment explanation
Indices: 8708--8844 Score: 143
Period size: 64 Copynumber: 2.2 Consensus size: 63
8698 CCTTTAACAT
* * * *
8708 GTGCATCGATGCACTACCCATGCATCGATACACCAATCACCTTCGATGTTTTCATTTTAAGGGG
1 GTGCATCGATGCACTACCCATGCATCAATACACCAATCACATTCGATGTTTTCATTTTAA-AGA
* * * ** *
8772 GTGCATCGATGCACT-CCTTATGCATCAATGCACTAATTGCATTCGATG-TTTCTTCTTTAAAGA
1 GTGCATCGATGCACTACC-CATGCATCAATACACCAATCACATTCGATGTTTTCAT-TTTAAAGA
8835 GTGCATCGAT
1 GTGCATCGAT
8845 ACACATTGAA
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
63 18 0.30
64 43 0.70
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.33
Consensus pattern (63 bp):
GTGCATCGATGCACTACCCATGCATCAATACACCAATCACATTCGATGTTTTCATTTTAAAGA
Found at i:15518 original size:34 final size:32
Alignment explanation
Indices: 15465--15534 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 32
15455 ACCTTACAAC
*
15465 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
*
15497 TCCCTAGCTTTTACACGGGCTAAGCTAGAACCTT
1 TCCCTAG-TTTTAC-CGGGCTAAACTAGAACCTT
15531 TCCC
1 TCCC
15535 CTTTACAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 22 0.65
ACGTcount: A:0.21, C:0.31, G:0.16, T:0.31
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
Found at i:15843 original size:21 final size:21
Alignment explanation
Indices: 15817--15858 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
15807 CCAGAATGGG
*
15817 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
15838 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
15859 ATATTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:16104 original size:30 final size:31
Alignment explanation
Indices: 16057--16147 Score: 168
Period size: 31 Copynumber: 3.0 Consensus size: 31
16047 AAATTTTGAA
16057 TAAATTCAATT-AAGTCCAAAAA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
16086 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
16117 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
16148 CCTTAAATTG
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
29 11 0.18
30 11 0.18
31 38 0.63
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.33
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:16339 original size:24 final size:24
Alignment explanation
Indices: 16306--16354 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
16296 AAGCTCCCCC
*
16306 TTTTTCATTAAGAAATTGATTTTT
1 TTTTTCATTAAGAAATTGAATTTT
*
16330 TTTTTTATTAAGAAATTGAATTTT
1 TTTTTCATTAAGAAATTGAATTTT
16354 T
1 T
16355 CAAACCAAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.31, C:0.02, G:0.08, T:0.59
Consensus pattern (24 bp):
TTTTTCATTAAGAAATTGAATTTT
Found at i:18398 original size:33 final size:32
Alignment explanation
Indices: 18337--18405 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 32
18327 ACCTTACAAC
*
18337 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
*
18369 TCCCTAGCTTTTACACGGGCT-AGCTAGAACCTT
1 TCCCTAG-TTTTAC-CGGGCTAAACTAGAACCTT
18402 TCCC
1 TCCC
18406 CTTTACAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
32 7 0.21
33 20 0.61
34 6 0.18
ACGTcount: A:0.20, C:0.32, G:0.16, T:0.32
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
Found at i:18720 original size:20 final size:21
Alignment explanation
Indices: 18683--18723 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
18673 CCAGAATGGG
*
18683 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
18704 GGGAATCGATA-CCCTTCATA
1 GGGAATCGATACCCCTTCATA
18724 ATTCAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:18854 original size:18 final size:18
Alignment explanation
Indices: 18831--18880 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
18821 CCCGGGTTAC
*
18831 TGTTCAAACAGTGATTTA
1 TGTTCAAACAGTAATTTA
*
18849 TGTTCAAATAGTAATTTA
1 TGTTCAAACAGTAATTTA
*
18867 CTG-TCAAATAGTAA
1 -TGTTCAAACAGTAA
18881 ATTACTATTC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 27 0.93
19 2 0.07
ACGTcount: A:0.38, C:0.10, G:0.14, T:0.38
Consensus pattern (18 bp):
TGTTCAAACAGTAATTTA
Found at i:18885 original size:18 final size:18
Alignment explanation
Indices: 18852--18886 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
18842 TGATTTATGT
*
18852 TCAAATAGTAATTTACTG
1 TCAAATAGTAAATTACTG
18870 TCAAATAGTAAATTACT
1 TCAAATAGTAAATTACT
18887 ATTCAAAAAC
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:0.43, C:0.11, G:0.09, T:0.37
Consensus pattern (18 bp):
TCAAATAGTAAATTACTG
Found at i:18892 original size:19 final size:18
Alignment explanation
Indices: 18851--18893 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
18841 GTGATTTATG
*
18851 TTCAAATAGTAATTTACT
1 TTCAAATAGTAAATTACT
*
18869 GTCAAATAGTAAATTACT
1 TTCAAATAGTAAATTACT
18887 ATTCAAA
1 -TTCAAA
18894 AACATTTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.44, C:0.12, G:0.07, T:0.37
Consensus pattern (18 bp):
TTCAAATAGTAAATTACT
Found at i:19011 original size:31 final size:31
Alignment explanation
Indices: 18952--19041 Score: 159
Period size: 31 Copynumber: 3.0 Consensus size: 31
18942 AAATTTTGAA
18952 TAAATTCAATT-AAGTCC-AAAA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
18980 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
19011 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
19042 CCTTAAATTG
Statistics
Matches: 59, Mismatches: 0, Indels: 3
0.95 0.00 0.05
Matches are distributed among these distances:
28 11 0.19
29 6 0.10
30 4 0.07
31 38 0.64
ACGTcount: A:0.42, C:0.18, G:0.07, T:0.33
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:19322 original size:168 final size:166
Alignment explanation
Indices: 19044--19377 Score: 650
Period size: 168 Copynumber: 2.0 Consensus size: 166
19034 CCATTTTGCC
19044 TTAAATTGTTATATCGAAACATAGTTTAACAAAACACTTCAAGGTTTATACCTCAAAATCTTGAA
1 TTAAATTGTTATATCGAAACATAGTTTAACAAAACACTTCAAGGTTTATACCTCAAAATCTTGAA
19109 TACAAACTTCCCTAAGAGTAATTACAAATTTAGCAAACAAAAGAAAACCTCTCAAAGGCCAATAG
66 TACAAACTTCCCTAAGAGTAATTACAAATTTAGCAAACAAAAGAAAACCTCTCAAAGGCC-ATAG
19174 TTTTGCACAAATTAAGCACTCACCAAAAATCACACTTG
130 -TTTGCACAAATTAAGCACTCACCAAAAATCACACTTG
19212 TTAAATTGTTATATCGAAACATAGTTTAACAAAACACTTCAAGGTTTATACCTCAAAATCTTGAA
1 TTAAATTGTTATATCGAAACATAGTTTAACAAAACACTTCAAGGTTTATACCTCAAAATCTTGAA
19277 TACAAACTTCCCTAAGAGTAATTACAAATTTAGCAAACAAAAGAAAACCTCTCAAAGGCCATAGT
66 TACAAACTTCCCTAAGAGTAATTACAAATTTAGCAAACAAAAGAAAACCTCTCAAAGGCCATAGT
19342 TTGCACAAATTAAGCACTCACCAAAAATCACACTTG
131 TTGCACAAATTAAGCACTCACCAAAAATCACACTTG
19378 AGCAAATTTA
Statistics
Matches: 166, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
166 37 0.22
167 4 0.02
168 125 0.75
ACGTcount: A:0.43, C:0.20, G:0.10, T:0.27
Consensus pattern (166 bp):
TTAAATTGTTATATCGAAACATAGTTTAACAAAACACTTCAAGGTTTATACCTCAAAATCTTGAA
TACAAACTTCCCTAAGAGTAATTACAAATTTAGCAAACAAAAGAAAACCTCTCAAAGGCCATAGT
TTGCACAAATTAAGCACTCACCAAAAATCACACTTG
Found at i:21223 original size:24 final size:24
Alignment explanation
Indices: 21191--21242 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
21181 GCTAGGAAGG
21191 AATTTAGGACTATATTTATATATA
1 AATTTAGGACTATATTTATATATA
21215 AATTTAGGACTATATTTATATATA
1 AATTTAGGACTATATTTATATATA
21239 AATT
1 AATT
21243 CATGAAGACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.46
Consensus pattern (24 bp):
AATTTAGGACTATATTTATATATA
Found at i:22139 original size:35 final size:36
Alignment explanation
Indices: 22058--22142 Score: 102
Period size: 35 Copynumber: 2.4 Consensus size: 36
22048 ACTTTAAAAC
* *
22058 TTACAAAACAATCCTCAATTTCATTCTAAACCCCAAA
1 TTACAAAATAAT-CTCAATTGCATTCTAAACCCCAAA
* *
22095 TT-CTTAAATAAT-TCAATTGCATTCTAAACCCTAAA
1 TTAC-AAAATAATCTCAATTGCATTCTAAACCCCAAA
22130 TTACAAAATAATC
1 TTACAAAATAATC
22143 AAAATAATAT
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
35 30 0.75
36 2 0.05
37 8 0.20
ACGTcount: A:0.44, C:0.24, G:0.01, T:0.32
Consensus pattern (36 bp):
TTACAAAATAATCTCAATTGCATTCTAAACCCCAAA
Found at i:32079 original size:23 final size:23
Alignment explanation
Indices: 32040--32106 Score: 73
Period size: 23 Copynumber: 2.8 Consensus size: 23
32030 AATATGTTAT
32040 TATTAATTATTATTTAATTTAACTA
1 TATT-ATTATTATTTAATTTAA-TA
* *
32065 TATTATT-TTATTTAAATCAATA
1 TATTATTATTATTTAATTTAATA
*
32087 TTTTATTATTATTTTAATTT
1 TATTATTATTA-TTTAATTT
32107 TACAGTTTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
22 8 0.23
23 14 0.40
24 9 0.26
25 4 0.11
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (23 bp):
TATTATTATTATTTAATTTAATA
Found at i:33220 original size:17 final size:15
Alignment explanation
Indices: 33198--33237 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 15
33188 GATGCAAATG
33198 TTAAATATTATTAAAA
1 TTAAATATTA-TAAAA
*
33214 CTTAAATATTATAATA
1 -TTAAATATTATAAAA
33230 TTAAATAT
1 TTAAATAT
33238 GCATGTCTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 8 0.36
16 4 0.18
17 10 0.45
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (15 bp):
TTAAATATTATAAAA
Found at i:33305 original size:16 final size:16
Alignment explanation
Indices: 33284--33325 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
33274 TATTATAAAG
33284 ATAAATTCGACTAGTT
1 ATAAATTCGACTAGTT
* *
33300 ATAAATTCAACTATTT
1 ATAAATTCGACTAGTT
33316 ATAAATTCGA
1 ATAAATTCGA
33326 TTTAAATTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.43, C:0.12, G:0.07, T:0.38
Consensus pattern (16 bp):
ATAAATTCGACTAGTT
Found at i:33375 original size:14 final size:14
Alignment explanation
Indices: 33356--33417 Score: 51
Period size: 14 Copynumber: 4.7 Consensus size: 14
33346 TTTAAATATT
33356 TAATTATTATTAAA
1 TAATTATTATTAAA
33370 T-A--ATTATT-AA
1 TAATTATTATTAAA
*
33380 TAATCATTATTAAA
1 TAATTATTATTAAA
* * *
33394 TCATTAGTATCAAA
1 TAATTATTATTAAA
*
33408 TCATTATTAT
1 TAATTATTAT
33418 AATTTCATTA
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
10 3 0.08
11 7 0.18
13 7 0.18
14 22 0.56
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (14 bp):
TAATTATTATTAAA
Found at i:33538 original size:11 final size:12
Alignment explanation
Indices: 33361--33540 Score: 77
Period size: 11 Copynumber: 14.6 Consensus size: 12
33351 ATATTTAATT
*
33361 ATTATT-AAATA
1 ATTATTAAAATC
33372 ATTATTAATAATC
1 ATTATTAA-AATC
33385 ATTATT-AAATC
1 ATTATTAAAATC
*
33396 ATTAGTATCAAATC
1 ATTA-T-TAAAATC
*
33410 ATTATTATAATTTC
1 ATTATTA-AA-ATC
* *
33424 ATTATTACTAATA
1 ATTATTA-AAATC
* *
33437 ATTACT-AAATA
1 ATTATTAAAATC
*
33448 ATTAATATCAAATC
1 ATT-AT-TAAAATC
* *
33462 ATTA--AATATT
1 ATTATTAAAATC
* *
33472 AATAAT-AAATC
1 ATTATTAAAATC
*
33483 ATTATTAGTAATC
1 ATTATTA-AAATC
*
33496 ATTACTAAAATC
1 ATTATTAAAATC
33508 ATTAAATATAAAATC
1 ATT--AT-TAAAATC
33523 ATTATTAAAA-C
1 ATTATTAAAATC
33534 ATTATTA
1 ATTATTA
33541 TCAAATCATA
Statistics
Matches: 129, Mismatches: 23, Indels: 34
0.69 0.12 0.18
Matches are distributed among these distances:
10 6 0.05
11 36 0.28
12 17 0.13
13 33 0.26
14 27 0.21
15 10 0.08
ACGTcount: A:0.49, C:0.08, G:0.01, T:0.42
Consensus pattern (12 bp):
ATTATTAAAATC
Found at i:33705 original size:22 final size:23
Alignment explanation
Indices: 33662--33705 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
33652 ATGTAAAAAA
* *
33662 ATAAATTCGGCATATTTATAAAG
1 ATAAATTCGACATAGTTATAAAG
33685 ATAAATTCGAC-TAGTTATAAA
1 ATAAATTCGACATAGTTATAAA
33706 TTCAACTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.45, C:0.09, G:0.11, T:0.34
Consensus pattern (23 bp):
ATAAATTCGACATAGTTATAAAG
Found at i:33706 original size:16 final size:16
Alignment explanation
Indices: 33685--33726 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
33675 ATTTATAAAG
33685 ATAAATTCGACTAGTT
1 ATAAATTCGACTAGTT
* *
33701 ATAAATTCAACTATTT
1 ATAAATTCGACTAGTT
33717 ATAAATTCGA
1 ATAAATTCGA
33727 TTTAAATTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.43, C:0.12, G:0.07, T:0.38
Consensus pattern (16 bp):
ATAAATTCGACTAGTT
Found at i:33767 original size:11 final size:11
Alignment explanation
Indices: 33753--33933 Score: 78
Period size: 13 Copynumber: 14.7 Consensus size: 11
33743 TCTATTTAAA
*
33753 TATTTAATCAT
1 TATTAAATCAT
*
33764 TATTAAATAAT
1 TATTAAATCAT
33775 TATTAGTAATCAT
1 TATTA--AATCAT
33788 TATTAAATCAT
1 TATTAAATCAT
*
33799 TAGTATCAAATCAG
1 TA-T-T-AAATCAT
33813 TATTATAAATTCAT
1 TA-T-TAAA-TCAT
*
33827 TATTACTAATCAA
1 TATTA--AATCAT
*
33840 TACTAAATCAT
1 TATTAAATCAT
33851 TAGTATCAAATCAT
1 TA-T-T-AAATCAT
33865 TATTATTAATCAT
1 TATTA--AATCAT
33878 TAATATCAAATCAT
1 T-AT-T-AAATCAT
* *
33892 TA--AATATTAA
1 TATTAA-ATCAT
*
33902 TAATAAATCAT
1 TATTAAATCAT
33913 TATTAGTAATCAT
1 TATTA--AATCAT
*
33926 TACTAAAT
1 TATTAAAT
33934 GATATCATTA
Statistics
Matches: 133, Mismatches: 16, Indels: 42
0.70 0.08 0.22
Matches are distributed among these distances:
9 2 0.02
10 5 0.04
11 40 0.30
12 6 0.05
13 42 0.32
14 36 0.27
15 1 0.01
16 1 0.01
ACGTcount: A:0.45, C:0.10, G:0.03, T:0.42
Consensus pattern (11 bp):
TATTAAATCAT
Found at i:33811 original size:14 final size:14
Alignment explanation
Indices: 33786--33893 Score: 86
Period size: 14 Copynumber: 8.1 Consensus size: 14
33776 ATTAGTAATC
*
33786 ATTATTAAATCATT
1 ATTATCAAATCATT
* *
33800 AGTATCAAATCAGT
1 ATTATCAAATCATT
33814 ATTAT-AAATTCATT
1 ATTATCAAA-TCATT
*
33828 ATTA-CTAATCA--
1 ATTATCAAATCATT
33839 A-TA-CTAAATCATT
1 ATTATC-AAATCATT
*
33852 AGTATCAAATCATT
1 ATTATCAAATCATT
*
33866 ATTAT-TAATCATT
1 ATTATCAAATCATT
*
33879 AATATCAAATCATT
1 ATTATCAAATCATT
33893 A
1 A
33894 AATATTAATA
Statistics
Matches: 75, Mismatches: 11, Indels: 16
0.74 0.11 0.16
Matches are distributed among these distances:
10 3 0.04
11 6 0.08
13 18 0.24
14 47 0.63
15 1 0.01
ACGTcount: A:0.44, C:0.12, G:0.03, T:0.41
Consensus pattern (14 bp):
ATTATCAAATCATT
Found at i:33829 original size:52 final size:51
Alignment explanation
Indices: 33762--34015 Score: 166
Period size: 52 Copynumber: 5.0 Consensus size: 51
33752 ATATTTAATC
* * * *
33762 ATTATTAAATAATTATTAGTAATCATTATTAAATCATTAGTATCAAATCAGT
1 ATTA-TAAATCATTATTACTAATCAATACTAAATCATTAGTATCAAATCAGT
*
33814 ATTATAAATTCATTATTACTAATCAATACTAAATCATTAGTATCAAATCATT
1 ATTATAAA-TCATTATTACTAATCAATACTAAATCATTAGTATCAAATCAGT
* * * * *
33866 ATTATTAATCATTAATATCAAATC-AT--TAAAT-ATTAATAAT-AAATCATT
1 ATTATAAATCATTATTA-CTAATCAATACTAAATCATTAGT-ATCAAATCAGT
* * * ** * *
33914 ATTAGT-AATCATTACTAAATGATATCATTACTAAATCATTAAAAATAAAATCATT
1 ATTA-TAAATCATTA-TTACT-A-ATCAATACTAAATCATT-AGTATCAAATCAGT
* * * *
33969 ATTATCAAATCATTA--AAT-ATTAATAATAAATCATTATTATCAAATCA
1 ATTAT-AAATCATTATTACTAATCAATACTAAATCATTAGTATCAAATCA
34016 TAATACTAGT
Statistics
Matches: 166, Mismatches: 21, Indels: 33
0.75 0.10 0.15
Matches are distributed among these distances:
48 25 0.15
49 19 0.11
50 17 0.10
51 15 0.09
52 54 0.33
53 8 0.05
54 6 0.04
55 14 0.08
56 8 0.05
ACGTcount: A:0.48, C:0.10, G:0.02, T:0.40
Consensus pattern (51 bp):
ATTATAAATCATTATTACTAATCAATACTAAATCATTAGTATCAAATCAGT
Found at i:33893 original size:21 final size:20
Alignment explanation
Indices: 33869--33914 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
33859 AATCATTATT
33869 ATTAATCATTAAT-ATCAAATC
1 ATTAAT-ATTAATAAT-AAATC
33890 ATTAAATATTAATAATAAATC
1 ATT-AATATTAATAATAAATC
33911 ATTA
1 ATTA
33915 TTAGTAATCA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
20 1 0.04
21 17 0.74
22 5 0.22
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (20 bp):
ATTAATATTAATAATAAATC
Found at i:34000 original size:35 final size:37
Alignment explanation
Indices: 33945--34016 Score: 121
Period size: 35 Copynumber: 2.0 Consensus size: 37
33935 ATATCATTAC
33945 TAAATCATTAAAAATAAAATCATTATTATCAAATCAT
1 TAAATCATTAAAAATAAAATCATTATTATCAAATCAT
*
33982 TAAAT-ATTAATAAT-AAATCATTATTATCAAATCAT
1 TAAATCATTAAAAATAAAATCATTATTATCAAATCAT
34017 AATACTAGTA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
35 21 0.62
36 8 0.24
37 5 0.15
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.38
Consensus pattern (37 bp):
TAAATCATTAAAAATAAAATCATTATTATCAAATCAT
Found at i:34053 original size:21 final size:23
Alignment explanation
Indices: 33989--34083 Score: 67
Period size: 24 Copynumber: 4.2 Consensus size: 23
33979 CATTAAATAT
*
33989 TAATAATAAATCATTATTATCAAA
1 TAAT-ATAAATCATTATTATTAAA
* * *
34013 TCATA-ATA-CTAGTATT-TTAAA
1 TAATATAAATC-ATTATTATTAAA
34034 T-ATA-AAATCATTATTATTAAA
1 TAATATAAATCATTATTATTAAA
34055 TAATTACTAAATCA-TATTATTAAA
1 TAA-TA-TAAATCATTATTATTAAA
*
34079 GAATA
1 TAATA
34084 ATTCTTGGTA
Statistics
Matches: 57, Mismatches: 7, Indels: 15
0.72 0.09 0.19
Matches are distributed among these distances:
20 10 0.18
21 13 0.23
22 8 0.14
23 5 0.09
24 15 0.26
25 6 0.11
ACGTcount: A:0.51, C:0.07, G:0.02, T:0.40
Consensus pattern (23 bp):
TAATATAAATCATTATTATTAAA
Found at i:37491 original size:17 final size:17
Alignment explanation
Indices: 37469--37528 Score: 84
Period size: 17 Copynumber: 3.4 Consensus size: 17
37459 CTAATATAAA
37469 TTAAACAAAATATTTTT
1 TTAAACAAAATATTTTT
37486 TTAAACAACAATATATATTT
1 TTAAACAA-AATAT-T-TTT
*
37506 TTAAACACAATATTTTT
1 TTAAACAAAATATTTTT
37523 TTAAAC
1 TTAAAC
37529 GGTAATAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
17 17 0.44
18 6 0.15
19 6 0.15
20 10 0.26
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.43
Consensus pattern (17 bp):
TTAAACAAAATATTTTT
Found at i:37779 original size:4 final size:4
Alignment explanation
Indices: 37770--37796 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
37760 GGACAGCCAT
37770 TAAC TAAC TAAC TAAC TAAC TAAC TAA
1 TAAC TAAC TAAC TAAC TAAC TAAC TAA
37797 TTTACACATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.22, G:0.00, T:0.26
Consensus pattern (4 bp):
TAAC
Found at i:38209 original size:44 final size:48
Alignment explanation
Indices: 38151--38256 Score: 148
Period size: 44 Copynumber: 2.3 Consensus size: 48
38141 GTTTAAACAC
* *
38151 ACTAACAAATTAATTAAATAATTTTTT-TA-CATAT-A-ATAACTTAA
1 ACTAACAAACTAATTAAATAATTTTTTATATAATATAATATAACTTAA
* *
38195 ACTAAGAAACTAATTAACTAATTTTTTATATAATATAATATAACTTAA
1 ACTAACAAACTAATTAAATAATTTTTTATATAATATAATATAACTTAA
38243 ACTAACAAACTAAT
1 ACTAACAAACTAAT
38257 ATAATATACT
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
44 24 0.45
45 2 0.04
46 4 0.08
47 1 0.02
48 22 0.42
ACGTcount: A:0.51, C:0.10, G:0.01, T:0.38
Consensus pattern (48 bp):
ACTAACAAACTAATTAAATAATTTTTTATATAATATAATATAACTTAA
Found at i:38275 original size:27 final size:28
Alignment explanation
Indices: 38225--38284 Score: 113
Period size: 27 Copynumber: 2.2 Consensus size: 28
38215 ATTTTTTATA
38225 TAATATAATATAACTTAAACTAACAAAC
1 TAATATAATATAACTTAAACTAACAAAC
38253 TAATATAATAT-ACTTAAACTAACAAAC
1 TAATATAATATAACTTAAACTAACAAAC
38280 TAATA
1 TAATA
38285 ATTTATACTA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 21 0.66
28 11 0.34
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (28 bp):
TAATATAATATAACTTAAACTAACAAAC
Found at i:38291 original size:27 final size:27
Alignment explanation
Indices: 38229--38293 Score: 98
Period size: 27 Copynumber: 2.4 Consensus size: 27
38219 TTTATATAAT
38229 ATAATATA-ACTTAAACTAACAAACTA
1 ATAATATATACTTAAACTAACAAACTA
38255 AT-ATAATATACTTAAACTAACAAACTA
1 ATAAT-ATATACTTAAACTAACAAACTA
*
38282 ATAATTTATACT
1 ATAATATATACT
38294 AACAAACTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
25 2 0.06
26 5 0.14
27 26 0.74
28 2 0.06
ACGTcount: A:0.54, C:0.14, G:0.00, T:0.32
Consensus pattern (27 bp):
ATAATATATACTTAAACTAACAAACTA
Found at i:38539 original size:25 final size:24
Alignment explanation
Indices: 38503--38573 Score: 83
Period size: 22 Copynumber: 3.0 Consensus size: 24
38493 TATAACTCAC
*
38503 TTTGAGCATTGAAGGCTACAATAAA
1 TTTGAGCGTTGAAGGCT-CAATAAA
* *
38528 TTTGAGCGTTGAAGGCT--GTAAT
1 TTTGAGCGTTGAAGGCTCAATAAA
38550 TTTGAGCGTTGAAGGCTGCAATAA
1 TTTGAGCGTTGAAGGCT-CAATAA
38574 TGCAACAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
22 20 0.51
25 19 0.49
ACGTcount: A:0.31, C:0.11, G:0.27, T:0.31
Consensus pattern (24 bp):
TTTGAGCGTTGAAGGCTCAATAAA
Found at i:46093 original size:2 final size:2
Alignment explanation
Indices: 46088--46134 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
46078 GCTTAATCAA
46088 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
46130 AT AT A
1 AT AT A
46135 GCACAAGATT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:46918 original size:2 final size:2
Alignment explanation
Indices: 46911--46948 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
46901 GAAATAAAGA
46911 AT AT AT AT AT AT AT AT -T AT AT AT AT AT AT AT -T AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
46949 GGTTAATATT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 32 0.94
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:46932 original size:13 final size:12
Alignment explanation
Indices: 46911--46948 Score: 62
Period size: 11 Copynumber: 3.3 Consensus size: 12
46901 GAAATAAAGA
46911 ATATATATATAT
1 ATATATATATAT
46923 ATAT-TATATAT
1 ATATATATATAT
46934 ATATATAT-TAT
1 ATATATATATAT
46945 ATAT
1 ATAT
46949 GGTTAATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 18 0.72
12 7 0.28
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (12 bp):
ATATATATATAT
Found at i:46932 original size:15 final size:15
Alignment explanation
Indices: 46912--46948 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
46902 AAATAAAGAA
46912 TATATATATATATAT
1 TATATATATATATAT
46927 TATATATATATATAT
1 TATATATATATATAT
46942 TATATAT
1 TATATAT
46949 GGTTAATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TATATATATATATAT
Found at i:52999 original size:106 final size:106
Alignment explanation
Indices: 52814--54643 Score: 3073
Period size: 106 Copynumber: 17.3 Consensus size: 106
52804 TACAGCCTTT
52814 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
52879 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTC
*
52920 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
52985 CGAAGGGACTGCTGGTTGTCAATAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTC
*
53026 AGAGCCAATTTCAACTTCACAACGAAAGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
53091 CGAAGGGACCGCTGGTTGTCAATAACCAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTC
* *
53132 AGAGCCAATTTCAACTTTACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
53197 CGAAGGGACCACTGGTTGTCAATAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTC
*
53238 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* * *
53303 CGAAGGGACCGCTAGTTGTCAATAAATAAATTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTC
*
53344 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* *
53409 AGAAGGGACCGCTGGTTGTCAATAACCAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTC
*
53450 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
53515 CGAAGGGACCGCTGGTTGTCAATAAACAAATTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTC
*
53556 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
53621 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTC
*
53662 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACATCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* *
53727 CGAAGGGACCGCCGGTTGTCAATAACCAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTC
* *
53768 AGAGCCAATTTCAACTTCTCAACAAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
53833 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTC
*
53874 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* * *
53939 CGAAGGGACCGCTGGTTATCAATAAACAATTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTC
53980 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* *
54045 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTC
* * * * *
54086 AGAGCCAATTCCAACTTCACAGCGAAGGATATTGGACTCAAGATAACACAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
54151 CGAAGGGACCGCTGGTTGTCAAAAAACAACTT-TCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCT-CAATTTC
* * *
54192 AGAGCCAATTTCAATTTCAGAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
54257 CGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTC
*
54298 AGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* *
54363 CGAAGGGACCGCTGGTTGTCAATAAACAATTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTC
*
54404 AGAGCCAATTTCAACTTCACAACTAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* *
54469 CGAAGGGACCGCTGGTTGTTAATAAACAACTTCCCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTC
* * * * * *
54510 AGAGCCAATTTCGACTTCTCAGCGAAGGATCTTGGAC-CCAAGACAACACAAGCTCAACTTCACG
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCC-AGACAACGCAAGTTCAACTTCACG
* * * *
54574 ACGAAGGGGCGGCTGATTGTCAA-CAA-AA-TT-TC-A-TTC
65 ACGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTC
* *
54610 AGAGTCAATTTCAACTTCACAGCGAAGGATATTG
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTG
54644 ACATCGAAAT
Statistics
Matches: 1636, Mismatches: 85, Indels: 12
0.94 0.05 0.01
Matches are distributed among these distances:
100 33 0.02
101 1 0.00
102 1 0.00
103 2 0.00
104 2 0.00
105 4 0.00
106 1592 0.97
107 1 0.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
CGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTC
Found at i:63497 original size:27 final size:27
Alignment explanation
Indices: 63457--63576 Score: 204
Period size: 27 Copynumber: 4.4 Consensus size: 27
63447 GATAATGACT
*
63457 CTGAATCATTCAGAATGAACTTCTGTG
1 CTGAATCATTCAGAATGTACTTCTGTG
*
63484 CAGAATCATTCAGAATGTACTTCTGTG
1 CTGAATCATTCAGAATGTACTTCTGTG
*
63511 CTGAATCATTCAGAATGTACTACTGTG
1 CTGAATCATTCAGAATGTACTTCTGTG
*
63538 CTGAATCATTCATAATGTACTTCTGTG
1 CTGAATCATTCAGAATGTACTTCTGTG
63565 CTGAATCATTCA
1 CTGAATCATTCA
63577 ACACTGAATC
Statistics
Matches: 87, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 87 1.00
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (27 bp):
CTGAATCATTCAGAATGTACTTCTGTG
Found at i:65755 original size:21 final size:21
Alignment explanation
Indices: 65729--65773 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
65719 GATTTCTGGG
* *
65729 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
65750 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
65771 CAA
1 CAA
65774 ACGAACAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:67654 original size:151 final size:149
Alignment explanation
Indices: 67453--67769 Score: 528
Period size: 151 Copynumber: 2.1 Consensus size: 149
67443 GAGTCGAGGG
* *
67453 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
* *
67518 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTGTTA
66 ACTTGATCCCTAGTATATATATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
* *
67583 TATGGCACTACGGTGTAAT
131 TATGGCACTAAGGTGCAAT
* *
67602 TCTACGCGGTCCTTCGGGATATATATATATATTCTGTGGAACGTGTGTGAAGTCTTGAAAGACAC
1 TCTACGCGGTCCTTCGGG--ACATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACAC
67667 ATACTTGATCCCTAGTATATATATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTAT
64 ATACTTGATCCCTAGTATATATATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTAT
67732 TATATGGCACTAAGGTGCAAT
129 TATATGGCACTAAGGTGCAAT
67753 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
67770 TACAATTATA
Statistics
Matches: 157, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
149 18 0.11
150 1 0.01
151 138 0.88
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (149 bp):
TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
ACTTGATCCCTAGTATATATATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
TATGGCACTAAGGTGCAAT
Found at i:70588 original size:21 final size:21
Alignment explanation
Indices: 70562--70606 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
70552 GATTTCTGGG
* *
70562 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
70583 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
70604 CAA
1 CAA
70607 ACGAACAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:72594 original size:149 final size:149
Alignment explanation
Indices: 72280--72583 Score: 554
Period size: 149 Copynumber: 2.0 Consensus size: 149
72270 GAGTCGAGGG
* *
72280 TCTACGCGGTCCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
*
72345 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTGTTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
*
72410 TATGGCACTACGGTGCAAT
131 TAGGGCACTACGGTGCAAT
*
72429 TCTACGCGGTCCTTCGGGATATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
*
72494 ACTTGATTCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
72559 TAGGGCACTACGGTGCAAT
131 TAGGGCACTACGGTGCAAT
72578 TCTACG
1 TCTACG
72584 TGGCACTTCG
Statistics
Matches: 149, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
149 149 1.00
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.35
Consensus pattern (149 bp):
TCTACGCGGTCCTTCGGGACATATATATATTCTGTGGAACATGTGTGAAGTCTTGAAAGACACAT
ACTTGATCCCTAGTATATGTATATGATTCTTAAGGAATAATATGTGGTCCTTATGGACATTATTA
TAGGGCACTACGGTGCAAT
Found at i:72595 original size:23 final size:23
Alignment explanation
Indices: 72555--72606 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
72545 TATGGACATT
72555 ATTATA-G-GGCACTACGGTGCA
1 ATTATACGTGGCACTACGGTGCA
* *
72576 ATTCTACGTGGCACTTCGGTGCA
1 ATTATACGTGGCACTACGGTGCA
72599 ATTATACG
1 ATTATACG
72607 AGCTGTGGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 5 0.19
22 1 0.04
23 20 0.77
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (23 bp):
ATTATACGTGGCACTACGGTGCA
Found at i:74524 original size:27 final size:27
Alignment explanation
Indices: 74486--74578 Score: 168
Period size: 27 Copynumber: 3.4 Consensus size: 27
74476 GATAATGACT
74486 CTGAATCATTCAGAATGTACTTCTGTG
1 CTGAATCATTCAGAATGTACTTCTGTG
*
74513 CTGAATCATTCAGAATGTACTACTGTG
1 CTGAATCATTCAGAATGTACTTCTGTG
*
74540 CTGAATCATTCATAATGTACTTCTGTG
1 CTGAATCATTCAGAATGTACTTCTGTG
74567 CTGAATCATTCA
1 CTGAATCATTCA
74579 ACACTGAATC
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 63 1.00
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.37
Consensus pattern (27 bp):
CTGAATCATTCAGAATGTACTTCTGTG
Found at i:74711 original size:14 final size:14
Alignment explanation
Indices: 74692--74722 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
74682 TCTCTTGCAA
74692 CAATTGAGTAACTC
1 CAATTGAGTAACTC
74706 CAATTGAGTAACTC
1 CAATTGAGTAACTC
74720 CAA
1 CAA
74723 GAGAAGCAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (14 bp):
CAATTGAGTAACTC
Found at i:78030 original size:15 final size:15
Alignment explanation
Indices: 78010--78039 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
78000 AAACTTTGAA
*
78010 AAACATTTTTCAAAG
1 AAACATTTTCCAAAG
78025 AAACATTTTCCAAAG
1 AAACATTTTCCAAAG
78040 TTGGTTGCCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.47, C:0.17, G:0.07, T:0.30
Consensus pattern (15 bp):
AAACATTTTCCAAAG
Found at i:82576 original size:15 final size:15
Alignment explanation
Indices: 82556--82585 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
82546 AAACTTTGAA
*
82556 AAACATTTTTCAAAG
1 AAACATTTTCCAAAG
82571 AAACATTTTCCAAAG
1 AAACATTTTCCAAAG
82586 TTGGTTGCCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.47, C:0.17, G:0.07, T:0.30
Consensus pattern (15 bp):
AAACATTTTCCAAAG
Found at i:89276 original size:24 final size:24
Alignment explanation
Indices: 89249--89304 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
89239 CTATTCTTTC
89249 GCTTCAATTAAGCTCAAATTTTAG
1 GCTTCAATTAAGCTCAAATTTTAG
*
89273 GCTTCAATTGAGCTCAAATTTTAG
1 GCTTCAATTAAGCTCAAATTTTAG
89297 GCTTCAAT
1 GCTTCAAT
89305 CGAACTTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.38
Consensus pattern (24 bp):
GCTTCAATTAAGCTCAAATTTTAG
Found at i:90517 original size:21 final size:21
Alignment explanation
Indices: 90478--90517 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
90468 ATATTTAGTT
*
90478 TGTCATGTAAATTTCGTGAAC
1 TGTCATGTAAAATTCGTGAAC
90499 TGTCATGTAAACATT-GTGA
1 TGTCATGTAAA-ATTCGTGA
90518 GGATCAACAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (21 bp):
TGTCATGTAAAATTCGTGAAC
Found at i:92038 original size:23 final size:22
Alignment explanation
Indices: 92008--92076 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 22
91998 TAAGAATCTT
92008 TGTTCTTGTGACACATTGTTCTA
1 TGTTCTTGTGACACATT-TTCTA
* *
92031 TGTTCTTGTGACACGTTTTTATA
1 TGTTCTTGTGACAC-ATTTTCTA
*
92054 TGCTCTTGTGGCACACATTTTCT
1 TGTTCTTGT-G-ACACATTTTCT
92077 CTACTTTTGT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
23 26 0.68
24 8 0.21
25 4 0.11
ACGTcount: A:0.16, C:0.19, G:0.17, T:0.48
Consensus pattern (22 bp):
TGTTCTTGTGACACATTTTCTA
Found at i:97906 original size:20 final size:20
Alignment explanation
Indices: 97883--97924 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
97873 CAACGCGAAC
*
97883 TCCAATTTCGCAACA-CAGTT
1 TCCAAATTCGCAA-ATCAGTT
97903 TCCAAATTCGCAAATCAGTT
1 TCCAAATTCGCAAATCAGTT
97923 TC
1 TC
97925 TGCAATCGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 1 0.05
20 19 0.95
ACGTcount: A:0.31, C:0.29, G:0.10, T:0.31
Consensus pattern (20 bp):
TCCAAATTCGCAAATCAGTT
Found at i:98108 original size:60 final size:58
Alignment explanation
Indices: 98022--98180 Score: 135
Period size: 60 Copynumber: 2.7 Consensus size: 58
98012 TCGCAACTCG
* *
98022 ATTTCTAAATTCGCAACGCGAATTTCTTTTTCGCAACACAAGTTTCATTTTCGCAACAAGA
1 ATTTCTAAA-TCGCAAC-AGATTTTCTTTTTCGCAACACAA-TTTCATTTTCGCAACAAGA
* ** ** *
98083 TTTTCTAAATCGCAACAAGATTTTCTAAATT-GCAACACGAATTTTGTTTTCGCAACACGA
1 ATTTCTAAATCGCAAC-AGATTTTCT-TTTTCGCAACAC-AATTTCATTTTCGCAACAAGA
* * *
98143 ATTT-TAATTTCGCAACAGCTTTT-ATTTTCGCAACACAA
1 ATTTCTAA-ATCGCAACAGATTTTCTTTTTCGCAACACAA
98181 ATGTTTTGAG
Statistics
Matches: 79, Mismatches: 15, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
57 4 0.05
58 7 0.09
59 9 0.11
60 47 0.59
61 12 0.15
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.36
Consensus pattern (58 bp):
ATTTCTAAATCGCAACAGATTTTCTTTTTCGCAACACAATTTCATTTTCGCAACAAGA
Found at i:98159 original size:20 final size:21
Alignment explanation
Indices: 97970--98159 Score: 148
Period size: 20 Copynumber: 9.4 Consensus size: 21
97960 ATTTTTCAAA
*
97970 TTCGCAACACGGAATTTC-AAA
1 TTCGCAACAC-GAATTTCTAAT
* *
97991 TTCGCAACTCG-ATTTCTAAA
1 TTCGCAACACGAATTTCTAAT
* *
98011 TTCGCAACTCG-ATTTCTAAA
1 TTCGCAACACGAATTTCTAAT
* *
98031 TTCGCAACGCGAATTTCT-TT
1 TTCGCAACACGAATTTCTAAT
*
98051 TTCGCAACAC-AAGTTTC-ATT
1 TTCGCAACACGAA-TTTCTAAT
* *
98071 TTCGCAACAAGATTTTCTAA-
1 TTCGCAACACGAATTTCTAAT
* * * *
98091 ATCGCAACAAGATTTTCTAAA
1 TTCGCAACACGAATTTCTAAT
**
98112 TT-GCAACACGAATTT-TGTT
1 TTCGCAACACGAATTTCTAAT
98131 TTCGCAACACGAATTT-TAAT
1 TTCGCAACACGAATTTCTAAT
98151 TTCGCAACA
1 TTCGCAACA
98160 GCTTTTATTT
Statistics
Matches: 144, Mismatches: 17, Indels: 17
0.81 0.10 0.10
Matches are distributed among these distances:
19 10 0.07
20 116 0.81
21 18 0.12
ACGTcount: A:0.32, C:0.23, G:0.12, T:0.34
Consensus pattern (21 bp):
TTCGCAACACGAATTTCTAAT
Found at i:98171 original size:18 final size:20
Alignment explanation
Indices: 98031--98178 Score: 101
Period size: 20 Copynumber: 7.5 Consensus size: 20
98021 GATTTCTAAA
*
98031 TTCGCAACGCGAATTTCT-TT
1 TTCGCAACACGAATTT-TATT
*
98051 TTCGCAACAC-AAGTTTCATT
1 TTCGCAACACGAA-TTTTATT
* * *
98071 TTCGCAACAAG-ATTTTCTAA
1 TTCGCAACACGAATTTTAT-T
* * * **
98091 ATCGCAACAAGATTTTCTAAA
1 TTCGCAACACGAATTT-TATT
*
98112 TT-GCAACACGAATTTTGTT
1 TTCGCAACACGAATTTTATT
*
98131 TTCGCAACACGAATTTTAAT
1 TTCGCAACACGAATTTTATT
*
98151 TTCGCAACA-G-CTTTTATT
1 TTCGCAACACGAATTTTATT
98169 TTCGCAACAC
1 TTCGCAACAC
98179 AAATGTTTTG
Statistics
Matches: 100, Mismatches: 20, Indels: 17
0.73 0.15 0.12
Matches are distributed among these distances:
18 15 0.15
19 10 0.10
20 69 0.69
21 5 0.05
22 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.36
Consensus pattern (20 bp):
TTCGCAACACGAATTTTATT
Found at i:99127 original size:23 final size:24
Alignment explanation
Indices: 99089--99141 Score: 81
Period size: 23 Copynumber: 2.2 Consensus size: 24
99079 GTATTCGAAA
99089 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
99113 TTTGATC-TGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
99136 TTTGAT
1 TTTGAT
99142 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 20 0.74
24 7 0.26
ACGTcount: A:0.21, C:0.19, G:0.21, T:0.40
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:101640 original size:27 final size:29
Alignment explanation
Indices: 101589--101659 Score: 92
Period size: 28 Copynumber: 2.5 Consensus size: 29
101579 AATTCGCAAC
* *
101589 GCGAAAGTCAAATTTACGTTGCGA-TGTT
1 GCGAAAGTCAAATTCACGTTACGATTGTT
*
101617 GCGAAAGTC-AATTCATGTTACGATTGTT
1 GCGAAAGTCAAATTCACGTTACGATTGTT
*
101645 GCGAAAGACAAATTC
1 GCGAAAGTCAAATTC
101660 GCAATGAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 11 0.30
28 21 0.57
29 5 0.14
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (29 bp):
GCGAAAGTCAAATTCACGTTACGATTGTT
Found at i:103138 original size:21 final size:20
Alignment explanation
Indices: 103114--103203 Score: 72
Period size: 21 Copynumber: 4.3 Consensus size: 20
103104 TGTGAACGGG
**
103114 CTCTTGAACGGTGTGAGGGGC
1 CTCTTGAACAATG-GAGGGGC
103135 CTCTTGAACAATGAGAGGGGC
1 CTCTTGAACAATG-GAGGGGC
* * ***
103156 CTCTTGAATAGTGGGATAAGC
1 CTCTTGAACAAT-GGAGGGGC
*
103177 CTCTTGAACGATAGGAGGGGC
1 CTCTTGAACAAT-GGAGGGGC
103198 CTCTTG
1 CTCTTG
103204 GACGATGGAC
Statistics
Matches: 53, Mismatches: 15, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
21 52 0.98
22 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.34, T:0.24
Consensus pattern (20 bp):
CTCTTGAACAATGGAGGGGC
Found at i:103524 original size:21 final size:21
Alignment explanation
Indices: 103500--103597 Score: 71
Period size: 21 Copynumber: 4.8 Consensus size: 21
103490 GTAGAGCGGC
103500 TACCTCATCACGTAAAGTAGA
1 TACCTCATCACGTAAAGTAGA
* * *
103521 TACCTCA-CATGTAAAGCACCA
1 TACCTCATCACGTAAAGTA-GA
** * *
103542 T-TGTCGTCGCGTAAA--A-A
1 TACCTCATCACGTAAAGTAGA
103559 CTACCTCATCACGTAAAGTAGA
1 -TACCTCATCACGTAAAGTAGA
*
103581 TACCTCACCACGTAAAG
1 TACCTCATCACGTAAAG
103598 CACTATTGTC
Statistics
Matches: 57, Mismatches: 13, Indels: 14
0.68 0.15 0.17
Matches are distributed among these distances:
17 1 0.02
18 1 0.02
19 11 0.19
20 11 0.19
21 32 0.56
22 1 0.02
ACGTcount: A:0.36, C:0.28, G:0.14, T:0.22
Consensus pattern (21 bp):
TACCTCATCACGTAAAGTAGA
Found at i:103566 original size:60 final size:63
Alignment explanation
Indices: 103499--103638 Score: 223
Period size: 60 Copynumber: 2.3 Consensus size: 63
103489 CGTAGAGCGG
* *
103499 CTACCTCATCACGTAAAGTAGATACCTCA-CATGTAAAGCACCATTGTCGTCGCGTAAAA-A-
1 CTACCTCATCACGTAAAGTAGATACCTCACCACGTAAAGCACCATTGTCATCGCGTAAAACAT
*
103559 CTACCTCATCACGTAAAGTAGATACCTCACCACGTAAAGCACTATTGTCATCGCGTAAAACAT
1 CTACCTCATCACGTAAAGTAGATACCTCACCACGTAAAGCACCATTGTCATCGCGTAAAACAT
*
103622 CTACCTCACCACGTAAA
1 CTACCTCATCACGTAAA
103639 AACCGTACCT
Statistics
Matches: 73, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
60 29 0.40
61 27 0.37
62 1 0.01
63 16 0.22
ACGTcount: A:0.35, C:0.29, G:0.13, T:0.23
Consensus pattern (63 bp):
CTACCTCATCACGTAAAGTAGATACCTCACCACGTAAAGCACCATTGTCATCGCGTAAAACAT
Found at i:103636 original size:21 final size:20
Alignment explanation
Indices: 103551--103639 Score: 65
Period size: 21 Copynumber: 4.3 Consensus size: 20
103541 ATTGTCGTCG
*
103551 CGTAAAA-ACTACCTCATCA
1 CGTAAAACACTACCTCACCA
*
103570 CGTAAAGTAGA-TACCTCACCA
1 CGTAAA--ACACTACCTCACCA
* ** * *
103591 CGTAAAGCACTATTGTCATCG
1 CGTAAAACACTA-CCTCACCA
103612 CGTAAAACATCTACCTCACCA
1 CGTAAAACA-CTACCTCACCA
103633 CGTAAAA
1 CGTAAAA
103640 ACCGTACCTC
Statistics
Matches: 52, Mismatches: 12, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
19 7 0.13
20 2 0.04
21 39 0.75
22 4 0.08
ACGTcount: A:0.38, C:0.29, G:0.11, T:0.21
Consensus pattern (20 bp):
CGTAAAACACTACCTCACCA
Found at i:103669 original size:63 final size:61
Alignment explanation
Indices: 103499--103680 Score: 190
Period size: 63 Copynumber: 3.0 Consensus size: 61
103489 CGTAGAGCGG
* * * *
103499 CTACCTCATCACGTAAAGTAGATACCTCA-CATGTAAAGCACCATTGTCGTCGCGTAAAAA
1 CTACCTCACCACGTAAAGAAGATACCTCACCACGCAAAGCACCATTGTCGTCGCGTAAAAA
* * * * *
103559 CTACCTCATCACGTAAAGTAGATACCTCACCACGTAAAGCACTATTGTCATCGCGTAAAACA
1 CTACCTCACCACGTAAAGAAGATACCTCACCACGCAAAGCACCATTGTCGTCGCGTAAAA-A
* * * *
103621 TCTACCTCACCACGTAAA-AACCG-TACCTCATCACGCCATGCACCATTGTCGTCACGTAAA
1 -CTACCTCACCACGTAAAGAA--GATACCTCACCACGCAAAGCACCATTGTCGTCGCGTAAA
103681 GTACGACCAT
Statistics
Matches: 105, Mismatches: 12, Indels: 7
0.85 0.10 0.06
Matches are distributed among these distances:
60 29 0.28
61 27 0.26
62 2 0.02
63 46 0.44
64 1 0.01
ACGTcount: A:0.34, C:0.31, G:0.13, T:0.23
Consensus pattern (61 bp):
CTACCTCACCACGTAAAGAAGATACCTCACCACGCAAAGCACCATTGTCGTCGCGTAAAAA
Found at i:105445 original size:20 final size:20
Alignment explanation
Indices: 105408--105445 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
105398 CTAAAATCGC
* *
105408 GTTGCGAATTTCATTTTCGT
1 GTTGCGAATTTAAGTTTCGT
105428 GTTGCGAATTTAAGTTTC
1 GTTGCGAATTTAAGTTTC
105446 AAAAATTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.13, G:0.21, T:0.47
Consensus pattern (20 bp):
GTTGCGAATTTAAGTTTCGT
Found at i:105794 original size:22 final size:22
Alignment explanation
Indices: 105764--105814 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
105754 GATAGAGGGG
* * *
105764 GTCGTCGGATATGGGGACGGAT
1 GTCGCCGGAGATGGGGACAGAT
*
105786 TTCGCCGGAGATGGGGACAGAT
1 GTCGCCGGAGATGGGGACAGAT
105808 GTCGCCG
1 GTCGCCG
105815 TAGAGAGTGA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.18, C:0.20, G:0.43, T:0.20
Consensus pattern (22 bp):
GTCGCCGGAGATGGGGACAGAT
Found at i:105940 original size:19 final size:20
Alignment explanation
Indices: 105918--105955 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
105908 AATATTGTGT
105918 TTCGAATT-CGAAAATAAAA
1 TTCGAATTGCGAAAATAAAA
**
105937 TTCGCGTTGCGAAAATAAA
1 TTCGAATTGCGAAAATAAA
105956 CGCGCTTTGC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.45, C:0.13, G:0.16, T:0.26
Consensus pattern (20 bp):
TTCGAATTGCGAAAATAAAA
Found at i:106002 original size:20 final size:20
Alignment explanation
Indices: 105979--106019 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
105969 TTTGACTTCT
105979 GTGTTGCGAATTACAAATTC
1 GTGTTGCGAATTACAAATTC
* *
105999 GTGTTGCGATTTACATATTC
1 GTGTTGCGAATTACAAATTC
106019 G
1 G
106020 CTTCGCAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.24, C:0.15, G:0.22, T:0.39
Consensus pattern (20 bp):
GTGTTGCGAATTACAAATTC
Found at i:106261 original size:21 final size:22
Alignment explanation
Indices: 106229--106274 Score: 85
Period size: 21 Copynumber: 2.1 Consensus size: 22
106219 TATCTATTTT
106229 AAATGAGTTTATTATATAAATA
1 AAATGAGTTTATTATATAAATA
106251 AAATGAG-TTATTATATAAATA
1 AAATGAGTTTATTATATAAATA
106272 AAA
1 AAA
106275 GATCAATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.54, C:0.00, G:0.09, T:0.37
Consensus pattern (22 bp):
AAATGAGTTTATTATATAAATA
Found at i:115737 original size:35 final size:36
Alignment explanation
Indices: 115698--115797 Score: 114
Period size: 35 Copynumber: 2.7 Consensus size: 36
115688 TTTCAGTATT
*
115698 TTGTTCACGTAATTCGTTTTCGGAAAATGTTTT-TG
1 TTGTTCACGTAATTCGTTTTCGGAAAACGTTTTCTG
*
115733 TTGTTTCACGTAA-TCGTTTCCGGAAAACGTTTTCCCGTG
1 TTG-TTCACGTAATTCGTTTTCGGAAAACGTTTT--C-TG
*
115772 TTTTTCACGTAATTCGTTTTCCGGAA
1 TTGTTCACGTAATTCGTTTT-CGGAA
115798 TGTAATTCAT
Statistics
Matches: 54, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
35 21 0.39
36 9 0.17
38 9 0.17
39 10 0.19
40 5 0.09
ACGTcount: A:0.19, C:0.18, G:0.19, T:0.44
Consensus pattern (36 bp):
TTGTTCACGTAATTCGTTTTCGGAAAACGTTTTCTG
Found at i:116009 original size:21 final size:21
Alignment explanation
Indices: 115967--116025 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 21
115957 CATTTTCATC
*
115967 AAAATATTAATTATTAAATATTT
1 AAAATA-TATTTATT-AATATTT
115990 AAAATATATTTATTAATATTT
1 AAAATATATTTATTAATATTT
*
116011 ATAATA-ATTATATTA
1 AAAATATATT-TATTA
116026 TTTTTAATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.09
21 17 0.52
22 7 0.21
23 6 0.18
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AAAATATATTTATTAATATTT
Found at i:116033 original size:18 final size:17
Alignment explanation
Indices: 116006--116039 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
115996 TATTTATTAA
116006 TATTTATAATAATTATAT
1 TATTTATAAT-ATTATAT
*
116024 TATTTTTAATATTATA
1 TATTTATAATATTATA
116040 AAATAATCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TATTTATAATATTATAT
Found at i:116098 original size:27 final size:27
Alignment explanation
Indices: 116059--116144 Score: 75
Period size: 29 Copynumber: 3.0 Consensus size: 27
116049 ATATATAAAG
* * *
116059 ATATAAGATATTTTATTTATTTTAATA
1 ATATAATAAATTTTATATATTTTAATA
116086 ATATAATAAATTTTTTATATATATTTAATA
1 ATATAATAAA--TTTTATATAT-TTTAATA
* *
116116 AT-GAATAATATTATTATATATTTCAATA
1 ATATAATAA-ATT-TTATATATTTTAATA
116144 A
1 A
116145 ATTTTAGTAA
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
27 8 0.16
28 9 0.18
29 22 0.45
30 10 0.20
ACGTcount: A:0.45, C:0.01, G:0.02, T:0.51
Consensus pattern (27 bp):
ATATAATAAATTTTATATATTTTAATA
Found at i:116122 original size:29 final size:29
Alignment explanation
Indices: 116069--116144 Score: 84
Period size: 29 Copynumber: 2.6 Consensus size: 29
116059 ATATAAGATA
* *
116069 TTTTATTTATTTTAATAATATAATAA-ATT
1 TTTTATATATTTTAATAATAGAATAATA-T
116098 TTTTATATATATTTAATAAT-GAATAATAT
1 TTTTATATAT-TTTAATAATAGAATAATAT
* *
116127 TATTATATATTTCAATAA
1 TTTTATATATTTTAATAA
116145 ATTTTAGTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
28 7 0.17
29 24 0.59
30 10 0.24
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (29 bp):
TTTTATATATTTTAATAATAGAATAATAT
Found at i:116395 original size:14 final size:15
Alignment explanation
Indices: 116374--116454 Score: 96
Period size: 14 Copynumber: 5.6 Consensus size: 15
116364 TTCCAGAAAT
*
116374 GTAATTCATTTTCCA
1 GTAATTCATATTCCA
*
116389 G-AATTCAAATTCCA
1 GTAATTCATATTCCA
*
116403 GTAA-TCATTTTCCA
1 GTAATTCATATTCCA
116417 GTAATTCA-ATTCCA
1 GTAATTCATATTCCA
* *
116431 GTAATTCAAACTCCA
1 GTAATTCATATTCCA
116446 GTAATTCAT
1 GTAATTCAT
116455 TTTCGGAAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
14 37 0.66
15 19 0.34
ACGTcount: A:0.35, C:0.21, G:0.07, T:0.37
Consensus pattern (15 bp):
GTAATTCATATTCCA
Found at i:116400 original size:20 final size:20
Alignment explanation
Indices: 116342--116391 Score: 100
Period size: 20 Copynumber: 2.5 Consensus size: 20
116332 TTTTCAGATG
116342 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
116362 TTTTCCAGAAATGTAATTCA
1 TTTTCCAGAAATGTAATTCA
116382 TTTTCCAGAA
1 TTTTCCAGAA
116392 TTCAAATTCC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.34, C:0.16, G:0.10, T:0.40
Consensus pattern (20 bp):
TTTTCCAGAAATGTAATTCA
Found at i:116422 original size:29 final size:30
Alignment explanation
Indices: 116374--116453 Score: 112
Period size: 29 Copynumber: 2.8 Consensus size: 30
116364 TTCCAGAAAT
116374 GTAATTCATTTTCCAG-AATTCAAATTCCA
1 GTAATTCATTTTCCAGTAATTCAAATTCCA
116403 GTAA-TCATTTTCCAGTAATTC-AATTCCA
1 GTAATTCATTTTCCAGTAATTCAAATTCCA
***
116431 GTAATTCAAACTCCAGTAATTCA
1 GTAATTCATTTTCCAGTAATTCA
116454 TTTTCGGAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
28 22 0.49
29 23 0.51
ACGTcount: A:0.35, C:0.21, G:0.07, T:0.36
Consensus pattern (30 bp):
GTAATTCATTTTCCAGTAATTCAAATTCCA
Found at i:116437 original size:43 final size:44
Alignment explanation
Indices: 116374--116458 Score: 129
Period size: 43 Copynumber: 2.0 Consensus size: 44
116364 TTCCAGAAAT
* *
116374 GTAATTCATTTTCCAGAATTCAAATTCCAGTAA-TCATTTTCCA
1 GTAATTCATATTCCAGAATTCAAACTCCAGTAATTCATTTTCCA
116417 GTAATTCA-ATTCCAGTAATTCAAACTCCAGTAATTCATTTTC
1 GTAATTCATATTCCAG-AATTCAAACTCCAGTAATTCATTTTC
116459 GGAAAAACCA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
42 6 0.16
43 24 0.63
44 8 0.21
ACGTcount: A:0.33, C:0.21, G:0.07, T:0.39
Consensus pattern (44 bp):
GTAATTCATATTCCAGAATTCAAACTCCAGTAATTCATTTTCCA
Done.