Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168026.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_28, 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: 15507587
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 34 of 91
Found at i:5810576 original size:21 final size:23
Alignment explanation
Indices: 5810521--5810576 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 23
5810511 TCATATCTTA
*
5810521 AGGTCTTATAAATTATGCTCGAAT
1 AGGTCTTACAAATTATGCTC-AAT
*
5810545 A--TCTTAGAAATTATGC-C-AT
1 AGGTCTTACAAATTATGCTCAAT
5810564 AGGTCTTACAAAT
1 AGGTCTTACAAAT
5810577 CGTTTCTTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
19 3 0.11
21 10 0.36
22 14 0.50
24 1 0.04
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (23 bp):
AGGTCTTACAAATTATGCTCAAT
Found at i:5812287 original size:16 final size:16
Alignment explanation
Indices: 5812268--5812302 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
5812258 TTTCATTTCA
5812268 TTTTCCTTTTTTTCTC
1 TTTTCCTTTTTTTCTC
* *
5812284 TTTTTCTTTTTTTTTC
1 TTTTCCTTTTTTTCTC
5812300 TTT
1 TTT
5812303 CATGTTTTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTTCCTTTTTTTCTC
Found at i:5814531 original size:23 final size:23
Alignment explanation
Indices: 5814466--5814531 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 23
5814456 ATGCCAACCC
*
5814466 AATAATCAAATAAATTAGTAC-A
1 AATAAACAAATAAATTAGTACAA
* * *
5814488 CATAAA-AAATAAA-AATCTACAA
1 AATAAACAAATAAATTA-GTACAA
5814510 AATAAACAAATAAATTAGTACA
1 AATAAACAAATAAATTAGTACA
5814532 CATAAAGAAT
Statistics
Matches: 33, Mismatches: 7, Indels: 7
0.70 0.15 0.15
Matches are distributed among these distances:
20 1 0.03
21 10 0.30
22 10 0.30
23 11 0.33
24 1 0.03
ACGTcount: A:0.64, C:0.11, G:0.03, T:0.23
Consensus pattern (23 bp):
AATAAACAAATAAATTAGTACAA
Found at i:5814536 original size:22 final size:22
Alignment explanation
Indices: 5814467--5814537 Score: 74
Period size: 22 Copynumber: 3.2 Consensus size: 22
5814457 TGCCAACCCA
*
5814467 ATAATCAAATAAATTAGTACAC
1 ATAAACAAATAAATTAGTACAC
* * *
5814489 ATAAA-AAATAAA-AATCTACAAA
1 ATAAACAAATAAATTA-GTAC-AC
5814511 ATAAACAAATAAATTAGTACAC
1 ATAAACAAATAAATTAGTACAC
5814533 ATAAA
1 ATAAA
5814538 GAATTATAGA
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
20 1 0.03
21 10 0.26
22 16 0.42
23 10 0.26
24 1 0.03
ACGTcount: A:0.63, C:0.11, G:0.03, T:0.23
Consensus pattern (22 bp):
ATAAACAAATAAATTAGTACAC
Found at i:5816073 original size:23 final size:23
Alignment explanation
Indices: 5816043--5816088 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
5816033 TGTTTACAAG
5816043 GTGAATTAACTTTTCTATGTTGC
1 GTGAATTAACTTTTCTATGTTGC
5816066 GTGAATTAACTTTTCTATGTTGC
1 GTGAATTAACTTTTCTATGTTGC
5816089 TAGCTAAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.13, G:0.17, T:0.48
Consensus pattern (23 bp):
GTGAATTAACTTTTCTATGTTGC
Found at i:5817564 original size:8 final size:8
Alignment explanation
Indices: 5817551--5817576 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
5817541 TAGGCTTTTC
5817551 TTAGATTG
1 TTAGATTG
5817559 TTAGATTG
1 TTAGATTG
5817567 TTAGATTG
1 TTAGATTG
5817575 TT
1 TT
5817577 GCTCAAGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.54
Consensus pattern (8 bp):
TTAGATTG
Found at i:5819754 original size:30 final size:30
Alignment explanation
Indices: 5819718--5819776 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
5819708 AGCAAATTTC
*
5819718 CATTAA-TCCAGCTAATTTGAAATCAATCTT
1 CATTAATTCCAGC-AATGTGAAATCAATCTT
* *
5819748 CATTAATTCTATCAATGTGAAATCAATCT
1 CATTAATTCCAGCAATGTGAAATCAATCT
5819777 CCAATCCAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.37, C:0.19, G:0.07, T:0.37
Consensus pattern (30 bp):
CATTAATTCCAGCAATGTGAAATCAATCTT
Found at i:5820481 original size:22 final size:22
Alignment explanation
Indices: 5820453--5820502 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
5820443 TTGTCTTTTT
*
5820453 ATAGGATATGTGCATATTACTC
1 ATAGGATATGTACATATTACTC
* *
5820475 ATAGGATATGTACATTTTACTT
1 ATAGGATATGTACATATTACTC
5820497 ATAGGA
1 ATAGGA
5820503 CATACACATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38
Consensus pattern (22 bp):
ATAGGATATGTACATATTACTC
Found at i:5820544 original size:28 final size:24
Alignment explanation
Indices: 5820511--5820576 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 24
5820501 GACATACACA
5820511 TATACTTTTAGGATATATATATATAT
1 TATACTTTTAGGATATATATA-A-AT
* *
5820537 GTAGTACTTCTAGG-T-TATGTAAAT
1 -TA-TACTTTTAGGATATATATAAAT
5820561 TATACTTTTAGGATAT
1 TATACTTTTAGGATAT
5820577 GTACATTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
22 9 0.27
23 3 0.09
24 3 0.09
25 1 0.03
26 5 0.15
27 3 0.09
28 9 0.27
ACGTcount: A:0.33, C:0.06, G:0.14, T:0.47
Consensus pattern (24 bp):
TATACTTTTAGGATATATATAAAT
Found at i:5824260 original size:846 final size:834
Alignment explanation
Indices: 5822128--5825104 Score: 2689
Period size: 852 Copynumber: 3.5 Consensus size: 834
5822118 ATGTCCACGG
* * *
5822128 ATGAGAAATAAGATCCACTAGTTATAAAAAATTACAAACATGCAATCCATATCAAGCACTCACAA
1 ATGAGAAATAAGATCCACTAGTTGTAAAGAATTACAAACATACAATCCATATCAAGCACTCACAA
* * * * * *
5822193 TTAATA-CTCATAAAACCT-TTCAACCTCCTCTAGTCCTACGTAGTATTCTCAACCCAAACAAAC
66 TTAATATC-CATAAACCCTCTT-AATCT-TTTTAGTCCTATGAAGTATTCTCAACCCAAACAAAC
* * *
5822256 ACATA--CATATACACATTCATGCACTCATACCTATGTTGACCCTTTCAATCTCCTCTAGTCCAC
128 ACATACCCATATACAC-TT-ATGCACTCATACCTAT-ATGACCTTTTCAATCTCTTCTAGTCCAC
5822319 TCACAAACATTCACACCACCATACCTATGTAGACCATCTCATTCTCCTCTAGTCCACTCAAACAT
190 TCACAAACATTCACACCACCATACCTATGTAGACCATCTCATTCTCCTCTAGTCCACTCAAACAT
* * * * *
5822384 ACACGGC-CATAAAGACATTAATCTCCT-ATAGTCTTATAGAGTATCTATCCCATAAAATCCTAT
255 ACAC-ACTCATAAAGACATTAATCT-TTAATAGTCTTATA-AG-AT-GATCTCATAAAATCTTAT
**
5822447 AACTCTCTTACATTTTTTCTCATACCTAATTTTGTAGAGACTTCACCTATTTATAAGCATACTAA
315 AACTCTCTTACATTTTTTCTCATACCTAATCCTGTAGAGACTTCACCTATTTATAAGCATACTAA
* * ** * * *
5822512 CTTGCCCATCAAGAATCTCCTTAATCGTAGAA-TTTTTTTTACAAGTCTTTTTGTCCAT-AAATA
380 CTTGCCTATCAAGAATCTCTTTCCTCTTAGAATTTTTTTTTGCAAGTCTTCTTGTCCATCAAATA
* * * *
5822575 ATACCTAGTCAATCCCAAACAAATTTGTTATTG-GATTTGAGTCACTATTCCTAACAATCTCCAC
445 ATATCTAGTCAATTCTAAACAAATTTGTTA-TGAGATTTGAGTCACTATTCCTAACAATCTCTAC
* * * *
5822639 CTTAACTCCAATTCCAACAATCATCAGTCTTTATGCTAGATGTGCTTAGCTCCACCTATAATGGA
509 CTTGACTCAAATT------ATCATCAGTCTTTATGCTAGATGTGCTTGGCTCCACCTACAATGGA
* * * *
5822704 AGTCTCGTAACAATCTTCCCTGTATGTCTTCACGCTTCACACAAATCGATCGATTAAAGCATGAA
568 AGTCTCGTAACAATCTTCTCTGTATGTCTTCACGCTTCACACAAATAGATCAATTAAAACATGAA
* * * * * * **
5822769 CTTAAAATCTTCATTGAATTGAGCTACTCTAAGCTTACGTCTTCCCA-TATCTCAACCTTCAGGT
633 CTTGAACTCTTCATTGAATTGAGCTCCTCTAGGCTTACGTCTTCTCATTAT-TGAACCTTCAACT
* * * * *
5822833 CTGATATCACTT-ATAGGGCAAAAACCTCAATCCAATCAAACATCCAAGCCAACAGAAGCAAAAT
697 TTGATACCACTTGTTA-GGCAAAAA-CTCCATCCAATCAAACATCCAAGCCAAGA-AAGCAAAAT
* * * * * * ***
5822897 CAAACCATCAATTAATTACACAAGAGACATTAATTTAATGTAGTTCAACCCAGTAGTTCGACCCA
759 CAAATCATCAATCAATCACAAAAGAGATAATAATTTAATG-A-TT-TGGCCA-T-GTTCGACCCA
*
5822962 ACCGACCTACG----T
819 ACTGACCTACGTTCAT
* *
5822974 -T----AAT----T-CACTAGTTGTAGAGAATTACAAAACATACAATTCATATCAAGCACTCACA
1 ATGAGAAATAAGATCCACTAGTTGTAAAGAATTAC-AAACATACAATCCATATCAAGCACTCACA
* * * * **
5823029 ATTAATACCCATAAATCCTCTCAATCTTTTCAGTCCTATAGAA-TATTCTCAACTTAAACAAACA
65 ATTAATATCCATAAACCCTCTTAATCTTTTTAGTCCTAT-GAAGTATTCTCAACCCAAACAAACA
* * * * * * * * * *
5823093 TATAACTATATACACTTATGCACCCATACTTATATGGACCATCTCAGTCTCTTCTAATCCATTCA
129 CATACCCATATACACTTATGCACTCATACCTATAT-GACCTTTTCAATCTCTTCTAGTCCACTCA
* * * * *
5823158 TAAACATTCACACCACCAGACTTATATAAACCATCTCA-T-T-CTCT-GTCCACTCAAACATACA
193 CAAACATTCACACCACCATACCTATGTAGACCATCTCATTCTCCTCTAGTCCACTCAAACATACA
* * * * *
5823219 CA-TCCATAAGGA-AGTTAATC-TCATATAGTCCTATAAGGTGTCTATCTTATAAAATCTTATAA
258 CACT-CATAAAGACA-TTAATCTTTA-ATAGTCTTATAAGATG---ATCTCATAAAATCTTATAA
* *
5823281 CTCTCTTATATTTTTTCTCATACCTAA-CCTTGTA-AAAGCTGT-ACCTATTTATAAGCATACTA
317 CTCTCTTACATTTTTTCTCATACCTAATCC-TGTAGAGA-CT-TCACCTATTTATAAGCATACTA
* * * * * * *
5823343 ATTTACCTATCAAAAATCTCTTTCCTCTTAGAATTCTTCTTATGTAAGTATTCTTGTCCATCAAA
379 ACTTGCCTATCAAGAATCTCTTTCCTCTTAGAATT-TTTTTTTGCAAGTCTTCTTGTCCATCAAA
* *
5823408 TAATATCTAGTCAATTCTAAACAAATTTGTTATGAGATTTAAGTCATTATTCCTAACAATCTCTA
443 TAATATCTAGTCAATTCTAAACAAATTTGTTATGAGATTTGAGTCACTATTCCTAACAATCTCTA
* *
5823473 CCTTGACTCAAATT-TCATCAATCTTTATGCTAGATGTGCTTGGCTTCACCTACAATGGAAGTCT
508 CCTTGACTCAAATTATCATCAGTCTTTATGCTAGATGTGCTTGGCTCCACCTACAATGGAAGTCT
* * * * * * *
5823537 CGTAACAATTTTCTCTATGTGTCTTCATGCTTCATACAAACT-GATCAATCAAAACATGAACTCG
573 CGTAACAATCTTCTCTGTATGTCTTCACGCTTCACACAAA-TAGATCAATTAAAACATGAACTTG
* * * *
5823601 AACTCTTTC-TTGAATTGAGCTCCTCTAGGCTTGCATCTTCTCATGTATTGAGCCTTCAACTTTA
637 AACTC-TTCATTGAATTGAGCTCCTCTAGGCTTACGTCTTCTCAT-TATTGAACCTTCAACTTTG
** ** * * * * *
5823665 ATACCACTTGTTAAACAGAAGGCTTCCATCTAATCATATATCCAAGCCAGTGAAAGCAAAGTCAA
700 ATACCACTTGTTAGGCA-AAAAC-TCCATCCAATCAAACATCCAAGCCA-AGAAAGCAAAATCAA
* ** * *
5823730 ATGATCAATCAATCACAAAAGAGATAGCAATTTAACATGATTTGGCTCAATGGTTCAACCCAATT
762 ATCATCAATCAATCACAAAAGAGATAATAATTT-A-ATGATTTGGC-C-AT-GTTCGACCCAACT
*
5823795 GACTTACGTTCAT
822 GACCTACGTTCAT
* * * * *
5823808 GATGAAAAATAAGATCCATTAGTTGTAAAGAATTACATACATACAATCCATATCAAGCACTTATA
1 -ATGAGAAATAAGATCCACTAGTTGTAAAGAATTACAAACATACAATCCATATCAAGCACTCACA
* ** * * * *
5823873 ATTAATATACATGGACCCTCTTAATCTCTTTTAGTCTTATGAAGTATTCTCAATCTAAACAAATA
65 ATTAATATCCATAAACCCTCTTAATCT-TTTTAGTCCTATGAAGTATTCTCAACCCAAACAAACA
* * *
5823938 TATACCCATCTACACTTATGCACTCATACCTATATAGACCTTTTCAATCTCTTCTAGTCTACTCA
129 CATACCCATATACACTTATGCACTCATACCTATAT-GACCTTTTCAATCTCTTCTAGTCCACTCA
* * * * *
5824003 CAAACATTCACACCACCATACTTATGTAGACCATCTTATTTTCTTCTAGTCCACTCAAATATACA
193 CAAACATTCACACCACCATACCTATGTAGACCATCTCATTCTCCTCTAGTCCACTCAAACATACA
* * *
5824068 CACTCATAATGACATTAATCTTTAATAATCTTATAAGATGATCTCATAAAATCTTACAACTCTCT
258 CACTCATAAAGACATTAATCTTTAATAGTCTTATAAGATGATCTCATAAAATCTTATAACTCTCT
* * *
5824133 TACATCTTTTT-TTATACCTAATCCTGTAGAGACTTCACCTATTTATAAGCATACGAACTTGTCT
323 TACAT-TTTTTCTCATACCTAATCCTGTAGAGACTTCACCTATTTATAAGCATACTAACTTGCCT
* * *
5824197 ATCAAGAATCTCTTTCCTCTTAAAATTTTTTTTCTGCAAGTCTTCTTATCCATCAAGTAATATCT
387 ATCAAGAATCTCTTTCCTCTTAGAATTTTTTTT-TGCAAGTCTTCTTGTCCATCAAATAATATCT
* * * * * *
5824262 AGTCAA-TCTCAAATAAATTTGTTATGAGATTTGAGTTACTATTCTTAACAATATCTACATGGAC
451 AGTCAATTCT-AAACAAATTTGTTATGAGATTTGAGTCACTATTCCTAACAATCTCTACCTTGAC
* * ** * * *
5824326 TAAATTCTATTAATCATCAGTCTTTATGCTAAACATGCTTGGCTCCACCTTCAATAGAAGTCTTG
515 TCAA----ATT-ATCATCAGTCTTTATGCTAGATGTGCTTGGCTCCACCTACAATGGAAGTCTCG
* ** *
5824391 TAATAATCTTCTCTGTATGTCTTCACATTTCACACAAATAGATCCATTAAAACATGAACTTGAAC
575 TAACAATCTTCTCTGTATGTCTTCACGCTTCACACAAATAGATCAATTAAAACATGAACTTGAAC
* * *
5824456 TCTTCATTGAATCGAGCTCCTCTAGGTTTATGTCTTCTCA-TATCTCGAACCTTCAACTTTGATA
640 TCTTCATTGAATTGAGCTCCTCTAGGCTTACGTCTTCTCATTAT-T-GAACCTTCAACTTTGATA
* ** *
5824520 CCATTTGTGGGGCAAAAAAC-CCTAATCCAATCAAACATCCAAGCCAACGAAAACAAAATCAAAT
703 CCACTTGTTAGGC-AAAAACTCC--ATCCAATCAAACATCCAAGCCAA-GAAAGCAAAATCAAAT
*
5824584 CATCAATCAATCACATAAGAGATAATAATTTAATG---TGG---T-TT-GACCCAACTGACCTAC
764 CATCAATCAATCACAAAAGAGATAATAATTTAATGATTTGGCCATGTTCGACCCAACTGACCTAC
*
5824641 ATCTACAT
829 GT-T-CAT
* * * * *
5824649 ATGAGAAATAAAATCTACTAGTTGTAGAGAATTACAAGCATACAATTCATATCAAGCACTCACAA
1 ATGAGAAATAAGATCCACTAGTTGTAAAGAATTACAAACATACAATCCATATCAAGCACTCACAA
* * * * *
5824714 TTAATA-CCTATAGACCCTCTTAATCTTCTTTAGTCTTATGAAGTATTCTTAACCCAAATAAAAT
66 TTAATATCC-ATAAACCCTCTTAATCTT-TTTAGTCCTATGAAGTATTCTCAACCCAAA-CAAAC
* * * * * * *
5824778 ACATACCTATTTACACTCATGCA-TCCATACCTATGTGAATCCTCTT-ACTTTCCTT-TAGTCCA
128 ACATACCCATATACACTTATGCACT-CATACCTATATG-A-CCTTTTCAATCT-CTTCTAGTCCA
* * *
5824840 CTCACAAATATTCACACCACTATACCTATGCAGACCATCTCATTCTCCTCTAGTCCACTCAAACA
189 CTCACAAACATTCACACCACCATACCTATGTAGACCATCTCATTCTCCTCTAGTCCACTCAAACA
* * * * * * * * * *
5824905 TATACACCCATACAA-AAAAT-ATC-CT-ATAATCCTAT-AGAGTGTCTATCCCATAAAACCCTA
254 TACACACTCATA-AAGACATTAATCTTTAATAGTCTTATAAGA-TG---ATCTCATAAAATCTTA
* * * * * *
5824965 TAACTCTATTATATATTTTTCTCATACCTAA-CGTTGTAGAGACTTTACCTATTTATAAGTATAT
314 TAACTCTCTTACAT-TTTTTCTCATACCTAATC-CTGTAGAGACTTCACCTATTTATAAGCATAC
* * * * *
5825029 TAACTTACCTATCTAA-AATACAT-TTT-CTCTTAGAATTCTTTTTTTGTAAGTTTTTTTATCCA
377 TAACTTGCCTATC-AAGAAT-C-TCTTTCCTCTTAGAATT-TTTTTTTGCAAGTCTTCTTGTCCA
*
5825091 TCAAGTAATATCTA
438 TCAAATAATATCTA
5825105 ACCAATCACA
Statistics
Matches: 1737, Mismatches: 296, Indels: 200
0.78 0.13 0.09
Matches are distributed among these distances:
828 130 0.07
829 26 0.01
830 86 0.05
831 9 0.01
832 137 0.08
833 6 0.00
834 23 0.01
835 73 0.04
836 118 0.07
837 55 0.03
838 21 0.01
839 17 0.01
840 115 0.07
841 149 0.09
842 98 0.06
843 12 0.01
844 51 0.03
845 141 0.08
846 174 0.10
847 13 0.01
848 3 0.00
849 44 0.03
850 15 0.01
851 6 0.00
852 214 0.12
853 1 0.00
ACGTcount: A:0.34, C:0.24, G:0.09, T:0.33
Consensus pattern (834 bp):
ATGAGAAATAAGATCCACTAGTTGTAAAGAATTACAAACATACAATCCATATCAAGCACTCACAA
TTAATATCCATAAACCCTCTTAATCTTTTTAGTCCTATGAAGTATTCTCAACCCAAACAAACACA
TACCCATATACACTTATGCACTCATACCTATATGACCTTTTCAATCTCTTCTAGTCCACTCACAA
ACATTCACACCACCATACCTATGTAGACCATCTCATTCTCCTCTAGTCCACTCAAACATACACAC
TCATAAAGACATTAATCTTTAATAGTCTTATAAGATGATCTCATAAAATCTTATAACTCTCTTAC
ATTTTTTCTCATACCTAATCCTGTAGAGACTTCACCTATTTATAAGCATACTAACTTGCCTATCA
AGAATCTCTTTCCTCTTAGAATTTTTTTTTGCAAGTCTTCTTGTCCATCAAATAATATCTAGTCA
ATTCTAAACAAATTTGTTATGAGATTTGAGTCACTATTCCTAACAATCTCTACCTTGACTCAAAT
TATCATCAGTCTTTATGCTAGATGTGCTTGGCTCCACCTACAATGGAAGTCTCGTAACAATCTTC
TCTGTATGTCTTCACGCTTCACACAAATAGATCAATTAAAACATGAACTTGAACTCTTCATTGAA
TTGAGCTCCTCTAGGCTTACGTCTTCTCATTATTGAACCTTCAACTTTGATACCACTTGTTAGGC
AAAAACTCCATCCAATCAAACATCCAAGCCAAGAAAGCAAAATCAAATCATCAATCAATCACAAA
AGAGATAATAATTTAATGATTTGGCCATGTTCGACCCAACTGACCTACGTTCAT
Found at i:5829839 original size:15 final size:15
Alignment explanation
Indices: 5829819--5829866 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
5829809 TCTGCTGTTG
5829819 CTGCTGTTGTTGATT
1 CTGCTGTTGTTGATT
**
5829834 CTGCTGAAGTTG--T
1 CTGCTGTTGTTGATT
5829847 -TGCTGTTGTTGATT
1 CTGCTGTTGTTGATT
5829861 CTGCTG
1 CTGCTG
5829867 AAGTTGCTGC
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
12 9 0.35
13 1 0.04
14 1 0.04
15 15 0.58
ACGTcount: A:0.08, C:0.15, G:0.29, T:0.48
Consensus pattern (15 bp):
CTGCTGTTGTTGATT
Found at i:5829850 original size:27 final size:27
Alignment explanation
Indices: 5829815--5829876 Score: 115
Period size: 27 Copynumber: 2.3 Consensus size: 27
5829805 ACAATCTGCT
5829815 GTTGCTGCTGTTGTTGATTCTGCTGAA
1 GTTGCTGCTGTTGTTGATTCTGCTGAA
*
5829842 GTTGTTGCTGTTGTTGATTCTGCTGAA
1 GTTGCTGCTGTTGTTGATTCTGCTGAA
5829869 GTTGCTGC
1 GTTGCTGC
5829877 AGAGCATTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.10, C:0.15, G:0.31, T:0.45
Consensus pattern (27 bp):
GTTGCTGCTGTTGTTGATTCTGCTGAA
Found at i:5829872 original size:15 final size:15
Alignment explanation
Indices: 5829827--5829872 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
5829817 TGCTGCTGTT
5829827 GTTGATTCTGCTGAA
1 GTTGATTCTGCTGAA
**
5829842 GTTG--T-TGCTGTT
1 GTTGATTCTGCTGAA
5829854 GTTGATTCTGCTGAA
1 GTTGATTCTGCTGAA
5829869 GTTG
1 GTTG
5829873 CTGCAGAGCA
Statistics
Matches: 24, Mismatches: 4, Indels: 6
0.71 0.12 0.18
Matches are distributed among these distances:
12 9 0.38
13 1 0.04
14 1 0.04
15 13 0.54
ACGTcount: A:0.13, C:0.11, G:0.30, T:0.46
Consensus pattern (15 bp):
GTTGATTCTGCTGAA
Found at i:5834469 original size:18 final size:18
Alignment explanation
Indices: 5834394--5834463 Score: 70
Period size: 18 Copynumber: 3.9 Consensus size: 18
5834384 ACTCAAGCGA
* *
5834394 TCTCTTTCCCTTTCTCTC
1 TCTCGTTCCCTTTCTCGC
**
5834412 TCTCGTTCCCGGTCTCGC
1 TCTCGTTCCCTTTCTCGC
* *
5834430 TCTC-TATCTCTTTCTCGT
1 TCTCGT-TCCCTTTCTCGC
5834448 TCTCGTTCCCTTTCTC
1 TCTCGTTCCCTTTCTC
5834464 CATCTCCATC
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
17 1 0.02
18 39 0.95
19 1 0.02
ACGTcount: A:0.01, C:0.41, G:0.09, T:0.49
Consensus pattern (18 bp):
TCTCGTTCCCTTTCTCGC
Found at i:5834951 original size:2 final size:2
Alignment explanation
Indices: 5834944--5834974 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
5834934 TCCTCTTATT
5834944 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
5834975 ACTCCTTCTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:5835916 original size:22 final size:24
Alignment explanation
Indices: 5835860--5835917 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 24
5835850 TTAAATTAAG
5835860 ATAAAA-ATAATTAAATTAATATA
1 ATAAAATATAATTAAATTAATATA
5835883 ATACATATATATAATT-AATTAA-ATA
1 ATA-A-A-ATATAATTAAATTAATATA
5835908 ATAAAATATA
1 ATAAAATATA
5835918 TTTTAAAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
22 5 0.16
23 4 0.13
24 2 0.06
25 7 0.23
26 7 0.23
27 6 0.19
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (24 bp):
ATAAAATATAATTAAATTAATATA
Found at i:5836612 original size:28 final size:25
Alignment explanation
Indices: 5836546--5836613 Score: 68
Period size: 28 Copynumber: 2.6 Consensus size: 25
5836536 TGTTACCCAC
5836546 AATTT-TTATTAT-AAAATTATAAT
1 AATTTATTATTATAAAAATTATAAT
* *
5836569 TATTTAATTATAATAAAAATTATATAT
1 AATTT-ATTATTATAAAAATTATA-AT
5836596 GAATTTATTATTTATAAA
1 -AATTTATTA-TTATAAA
5836614 TATAAATTTC
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
23 4 0.11
25 6 0.17
26 9 0.26
27 6 0.17
28 10 0.29
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (25 bp):
AATTTATTATTATAAAAATTATAAT
Found at i:5840899 original size:24 final size:27
Alignment explanation
Indices: 5840851--5840899 Score: 68
Period size: 24 Copynumber: 1.9 Consensus size: 27
5840841 TATTTATTCA
*
5840851 TAAATTATTATATATTTATTTAATATG
1 TAAATTATTATATATTTATTAAATATG
5840878 TAAATT-TTATAT-TTT-TTAAATA
1 TAAATTATTATATATTTATTAAATA
5840900 AAAATATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 6 0.29
25 3 0.14
26 6 0.29
27 6 0.29
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (27 bp):
TAAATTATTATATATTTATTAAATATG
Found at i:5840909 original size:22 final size:24
Alignment explanation
Indices: 5840861--5840909 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 24
5840851 TAAATTATTA
** *
5840861 TATATTTATTTAATATGTAAATTT
1 TATATTTATTTAATATAAAAATAT
5840885 TATATTT-TTTAA-ATAAAAATAT
1 TATATTTATTTAATATAAAAATAT
5840907 TAT
1 TAT
5840910 GATATAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 10 0.45
23 5 0.23
24 7 0.32
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (24 bp):
TATATTTATTTAATATAAAAATAT
Found at i:5841249 original size:21 final size:21
Alignment explanation
Indices: 5841212--5841253 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
5841202 ATTTTATAAT
*
5841212 AAATATTAACTATAATAAAAC
1 AAATATTAACTAAAATAAAAC
5841233 AAATAATTAAC-AAAATAAAAC
1 AAAT-ATTAACTAAAATAAAAC
5841254 CTAAAAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.24
Consensus pattern (21 bp):
AAATATTAACTAAAATAAAAC
Found at i:5844865 original size:17 final size:18
Alignment explanation
Indices: 5844844--5844998 Score: 87
Period size: 17 Copynumber: 8.7 Consensus size: 18
5844834 AATAAATTGA
5844844 ATTCAAAGATTCATAAAG
1 ATTCAAAGATTCATAAAG
5844862 -TTCAAAG-TTCGCA-AAAG
1 ATTCAAAGATT--CATAAAG
*
5844879 ATTC-AAGATTC-TAAAAA
1 ATTCAAAGATTCAT-AAAG
**
5844896 ATTCAAA-ATTCGCCAAAG
1 ATTCAAAGATTC-ATAAAG
* *
5844914 -TTCAAATATTTGCA-AGAG
1 ATTCAAAGA-TT-CATAAAG
5844932 ATTCAAA-ATTCATAAAG
1 ATTCAAAGATTCATAAAG
* **
5844949 ATCCAAAGATTC-GCAAG
1 ATTCAAAGATTCATAAAG
5844966 AGTTCAAAGATTCAATAAAG
1 A-TTCAAAGATTC-ATAAAG
*
5844986 ATTCAAAAATTCA
1 ATTCAAAGATTCA
5844999 CAAGAGATTT
Statistics
Matches: 106, Mismatches: 13, Indels: 36
0.68 0.08 0.23
Matches are distributed among these distances:
16 5 0.05
17 46 0.43
18 32 0.30
19 18 0.17
20 5 0.05
ACGTcount: A:0.47, C:0.15, G:0.12, T:0.26
Consensus pattern (18 bp):
ATTCAAAGATTCATAAAG
Found at i:5844901 original size:35 final size:34
Alignment explanation
Indices: 5844844--5844918 Score: 89
Period size: 35 Copynumber: 2.2 Consensus size: 34
5844834 AATAAATTGA
* * *
5844844 ATTCAAAGATTCATAAAGTTCAAAGTTCGCAAAAG
1 ATTC-AAGATTCAAAAAATTCAAAATTCGCAAAAG
*
5844879 ATTCAAGATTCTAAAAAATTCAAAATTCGCCAAAG
1 ATTCAAGATTC-AAAAAATTCAAAATTCGCAAAAG
5844914 -TTCAA
1 ATTCAA
5844919 ATATTTGCAA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
34 12 0.34
35 23 0.66
ACGTcount: A:0.47, C:0.16, G:0.11, T:0.27
Consensus pattern (34 bp):
ATTCAAGATTCAAAAAATTCAAAATTCGCAAAAG
Found at i:5845003 original size:37 final size:36
Alignment explanation
Indices: 5844926--5845007 Score: 112
Period size: 37 Copynumber: 2.2 Consensus size: 36
5844916 CAAATATTTG
* *
5844926 CAAGAGATTCAAAATTCATAAAGATCCAAAGATTCG
1 CAAGAGATTCAAAATTCATAAAGATCCAAAAATTCA
*
5844962 CAAGAG-TTCAAAGATTCAATAAAGATTCAAAAATTCA
1 CAAGAGATTCAAA-ATTC-ATAAAGATCCAAAAATTCA
5844999 CAAGAGATT
1 CAAGAGATT
5845008 TTTAGATTTG
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
35 6 0.15
36 10 0.25
37 22 0.55
38 2 0.05
ACGTcount: A:0.49, C:0.15, G:0.13, T:0.23
Consensus pattern (36 bp):
CAAGAGATTCAAAATTCATAAAGATCCAAAAATTCA
Found at i:5845006 original size:19 final size:19
Alignment explanation
Indices: 5844926--5845007 Score: 73
Period size: 18 Copynumber: 4.5 Consensus size: 19
5844916 CAAATATTTG
5844926 CAAGAGATTC-AAAATTCA
1 CAAGAGATTCAAAAATTCA
* * * *
5844944 TAA-AGATCCAAAGATTCG
1 CAAGAGATTCAAAAATTCA
*
5844962 CAAGAG-TTCAAAGATTCA
1 CAAGAGATTCAAAAATTCA
*
5844980 -ATAAAGATTCAAAAATTCA
1 CA-AGAGATTCAAAAATTCA
5844999 CAAGAGATT
1 CAAGAGATT
5845008 TTTAGATTTG
Statistics
Matches: 49, Mismatches: 10, Indels: 9
0.72 0.15 0.13
Matches are distributed among these distances:
17 6 0.12
18 23 0.47
19 19 0.39
20 1 0.02
ACGTcount: A:0.49, C:0.15, G:0.13, T:0.23
Consensus pattern (19 bp):
CAAGAGATTCAAAAATTCA
Found at i:5853386 original size:16 final size:15
Alignment explanation
Indices: 5853354--5853405 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
5853344 AATATCTATG
* *
5853354 TAAATAATAAATAAA
1 TAAATAACAAATCAA
5853369 TAAATAAGCAAATCAA
1 TAAATAA-CAAATCAA
*
5853385 TAAATAACAAAGCAA
1 TAAATAACAAATCAA
*
5853400 AAAATA
1 TAAATA
5853406 GATAATCGAC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
15 19 0.59
16 13 0.41
ACGTcount: A:0.69, C:0.08, G:0.04, T:0.19
Consensus pattern (15 bp):
TAAATAACAAATCAA
Found at i:5853388 original size:20 final size:20
Alignment explanation
Indices: 5853363--5853400 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
5853353 GTAAATAATA
5853363 AATAAATAA-ATAAGCAAATC
1 AATAAATAACA-AAGCAAATC
5853383 AATAAATAACAAAGCAAA
1 AATAAATAACAAAGCAAA
5853401 AAATAGATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.68, C:0.11, G:0.05, T:0.16
Consensus pattern (20 bp):
AATAAATAACAAAGCAAATC
Found at i:5853440 original size:17 final size:17
Alignment explanation
Indices: 5853418--5853450 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
5853408 TAATCGACAC
5853418 AAAATA-AAACTAAAAAG
1 AAAATAGAAA-TAAAAAG
5853435 AAAATAGAAATAAAAA
1 AAAATAGAAATAAAAA
5853451 TAAATGCCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.79, C:0.03, G:0.06, T:0.12
Consensus pattern (17 bp):
AAAATAGAAATAAAAAG
Found at i:5854702 original size:26 final size:22
Alignment explanation
Indices: 5854649--5854708 Score: 59
Period size: 21 Copynumber: 2.6 Consensus size: 22
5854639 TAATTATTTT
*
5854649 TATAAATTTAATTTTTAATTAA
1 TATAAATATAATTTTTAATTAA
5854671 TA-AAATATAATTATATTAATATCAA
1 TATAAATATAATT-T-TTAAT-T-AA
*
5854696 TATAAATAAAATT
1 TATAAATATAATT
5854709 CCTCTACGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
21 9 0.29
22 3 0.10
23 5 0.16
24 1 0.03
25 4 0.13
26 9 0.29
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (22 bp):
TATAAATATAATTTTTAATTAA
Found at i:5855038 original size:10 final size:9
Alignment explanation
Indices: 5855019--5855081 Score: 60
Period size: 10 Copynumber: 7.0 Consensus size: 9
5855009 ATATCAATGT
5855019 AAATAAATA
1 AAATAAATA
5855028 AAATCAAATA
1 AAAT-AAATA
*
5855038 AAATGAATCA
1 AAATAAAT-A
5855048 AAATAAA-A
1 AAATAAATA
*
5855056 AAGTAAAT-
1 AAATAAATA
5855064 AAA-AAATAA
1 AAATAAAT-A
5855073 AAATAAATA
1 AAATAAATA
5855082 CCAAAGAAGA
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
7 4 0.09
8 9 0.20
9 11 0.25
10 20 0.45
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.19
Consensus pattern (9 bp):
AAATAAATA
Found at i:5855534 original size:21 final size:21
Alignment explanation
Indices: 5855508--5855547 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
5855498 CAAAACAATC
*
5855508 TTTAATTTGTATCCAAATATT
1 TTTAATTTATATCCAAATATT
*
5855529 TTTAATTTATATTCAAATA
1 TTTAATTTATATCCAAATA
5855548 AACACTTAAG
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:0.38, C:0.07, G:0.03, T:0.53
Consensus pattern (21 bp):
TTTAATTTATATCCAAATATT
Found at i:5857663 original size:197 final size:197
Alignment explanation
Indices: 5857328--5857721 Score: 718
Period size: 197 Copynumber: 2.0 Consensus size: 197
5857318 TCTTGTGGCA
5857328 TTCAAGAACCCCATGGGTTCATTGTAATATTGACACATATTATATTTTTACTTGTTTATGGTTTG
1 TTCAAGAACCCCATGGGTTCATTGTAATATTGACACATATTATATTTTTACTTGTTTATGGTTTG
* *
5857393 TTGTTTGTTGGTTATTTTTTAGTAGGAAAATTGTTATGTGATATTATGAAATCCCAAAGGTTCAT
66 TTATTTGTTGGTTATTTTTTAGTAGGAAAATTGTTATGTAATATTATGAAATCCCAAAGGTTCAT
* *
5857458 TGCAATATTATATTGATTTA-AGGGTAAAAAAATAATTTTACAGTTTGGCAGGTGTCAAGCAACT
131 TACAATATTATATTGATTTAGA-GGTAAAAAAATAATTTTACAATTTGGCAGGTGTCAAGCAACT
5857522 ATC
195 ATC
5857525 TTCAAGAACCCCATGGGTTCATTGTAATATTGACACATATTATATTTTTACTTGTTTATGGTTTG
1 TTCAAGAACCCCATGGGTTCATTGTAATATTGACACATATTATATTTTTACTTGTTTATGGTTTG
5857590 TTATTTGTTGGTTATTTTTTAGTAGGAAAATTGTTATGTAATATTATGAAATCCCAAAGGTTCAT
66 TTATTTGTTGGTTATTTTTTAGTAGGAAAATTGTTATGTAATATTATGAAATCCCAAAGGTTCAT
* *
5857655 TACAATATTATATTGATTTAGAGGTAAAAAAATAATTTTATAATTTGGCAGGTGTTAAGCAACTA
131 TACAATATTATATTGATTTAGAGGTAAAAAAATAATTTTACAATTTGGCAGGTGTCAAGCAACTA
5857720 TC
196 TC
5857722 CCCTAACTAT
Statistics
Matches: 190, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
197 189 0.99
198 1 0.01
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.42
Consensus pattern (197 bp):
TTCAAGAACCCCATGGGTTCATTGTAATATTGACACATATTATATTTTTACTTGTTTATGGTTTG
TTATTTGTTGGTTATTTTTTAGTAGGAAAATTGTTATGTAATATTATGAAATCCCAAAGGTTCAT
TACAATATTATATTGATTTAGAGGTAAAAAAATAATTTTACAATTTGGCAGGTGTCAAGCAACTA
TC
Found at i:5861321 original size:62 final size:62
Alignment explanation
Indices: 5861224--5861347 Score: 230
Period size: 62 Copynumber: 2.0 Consensus size: 62
5861214 TTTATCTTTA
5861224 AAAGAAAATGAAAATTATTATAAAAAATGGTAAAATGAATATGAGGTTGGTTACACGATTGT
1 AAAGAAAATGAAAATTATTATAAAAAATGGTAAAATGAATATGAGGTTGGTTACACGATTGT
* *
5861286 AAAGAAAATTAAAATTATTATTAAAAATGGTAAAATGAATATGAGGTTGGTTACACGATTGT
1 AAAGAAAATGAAAATTATTATAAAAAATGGTAAAATGAATATGAGGTTGGTTACACGATTGT
5861348 TGGGTTCTTA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.48, C:0.03, G:0.19, T:0.31
Consensus pattern (62 bp):
AAAGAAAATGAAAATTATTATAAAAAATGGTAAAATGAATATGAGGTTGGTTACACGATTGT
Found at i:5862205 original size:15 final size:15
Alignment explanation
Indices: 5862185--5862251 Score: 52
Period size: 14 Copynumber: 4.6 Consensus size: 15
5862175 AGGTTTAAAA
5862185 TTTTTAAACCACATT
1 TTTTTAAACCACATT
** *
5862200 TTTTT-AA--TTATA
1 TTTTTAAACCACATT
5862212 TTTTTAAA-CACATT
1 TTTTTAAACCACATT
*
5862226 TTTTTCAAACCAAAATT
1 TTTTT-AAACC-ACATT
5862243 TTTTTAAAC
1 TTTTTAAAC
5862252 GACTACAGCA
Statistics
Matches: 40, Mismatches: 7, Indels: 9
0.71 0.12 0.16
Matches are distributed among these distances:
12 7 0.17
13 2 0.05
14 9 0.22
15 8 0.20
16 5 0.12
17 9 0.22
ACGTcount: A:0.36, C:0.13, G:0.00, T:0.51
Consensus pattern (15 bp):
TTTTTAAACCACATT
Found at i:5862715 original size:26 final size:25
Alignment explanation
Indices: 5862685--5862735 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
5862675 TATTATTAAT
5862685 ATATTTTTTAATATAAATTAAAAAAA
1 ATATTTTTT-ATATAAATTAAAAAAA
* *
5862711 ATATTTTTTATTTAAATTATAAAAA
1 ATATTTTTTATATAAATTAAAAAAA
5862736 TTTTCTAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 14 0.61
26 9 0.39
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (25 bp):
ATATTTTTTATATAAATTAAAAAAA
Found at i:5864945 original size:119 final size:119
Alignment explanation
Indices: 5864810--5865048 Score: 433
Period size: 119 Copynumber: 2.0 Consensus size: 119
5864800 TACAACATTG
*
5864810 TTATGTTAGAAACATATAAACCTGTTCAAAGGTTAGGCTACCCACTTATGTCCTAAGGCTTGCCC
1 TTATGTTAGAAACATATAAACCTGTTCAAAGGTTAGGCTACCCACCTATGTCCTAAGGCTTGCCC
*
5864875 AAGTTTTGTGGGGTTTTGGATGAAAAATTAGAGCCCATTAAATGGGCTTGGGCA
66 AAGTTTTGTGGGGTTTTGGATAAAAAATTAGAGCCCATTAAATGGGCTTGGGCA
* * *
5864929 TTATGTTAGAAACATATAAACCTGTTCAAGGGTTGGGCTACCCACCTATGTCTTAAGGCTTGCCC
1 TTATGTTAGAAACATATAAACCTGTTCAAAGGTTAGGCTACCCACCTATGTCCTAAGGCTTGCCC
5864994 AAGTTTTGTGGGGTTTTGGATAAAAAATTAGAGCCCATTAAATGGGCTTGGGCA
66 AAGTTTTGTGGGGTTTTGGATAAAAAATTAGAGCCCATTAAATGGGCTTGGGCA
5865048 T
1 T
5865049 AATTTTTAAT
Statistics
Matches: 115, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
119 115 1.00
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (119 bp):
TTATGTTAGAAACATATAAACCTGTTCAAAGGTTAGGCTACCCACCTATGTCCTAAGGCTTGCCC
AAGTTTTGTGGGGTTTTGGATAAAAAATTAGAGCCCATTAAATGGGCTTGGGCA
Found at i:5865219 original size:21 final size:23
Alignment explanation
Indices: 5865186--5865240 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 23
5865176 AATTATATAC
5865186 ATTTTAT-TAAAC-TTAATTTTT-
1 ATTTTATAT-AACTTTAATTTTTA
*
5865207 ATTTTATATAACTTTTATTTTTA
1 ATTTTATATAACTTTAATTTTTA
5865230 ATTTTTATATA
1 A-TTTTATATA
5865241 TATGTGAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 10 0.34
22 9 0.31
23 1 0.03
24 9 0.31
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.64
Consensus pattern (23 bp):
ATTTTATATAACTTTAATTTTTA
Found at i:5865938 original size:70 final size:70
Alignment explanation
Indices: 5865858--5866122 Score: 205
Period size: 70 Copynumber: 3.7 Consensus size: 70
5865848 TTTTTTTTTT
* * *
5865858 AATTTAACAAAGACAACATTTCTAAGATAGAAAATATAATTTTTGCTAAAAATAAAAAAATATTT
1 AATTCAACAAAGACGACATTTCTAAGATAGAAAATATAATTTTTGTTAAAAATAAAAAAATATTT
5865923 TTCAA
66 TTCAA
* ** * *** * * *
5865928 AATTCAACAAAGATGATGTTTCTAA-ATTAGAAAGCT-CGGTATTTGTTGAAAATATTAAAAAT-
1 AATTCAACAAAGACGACATTTCTAAGA-TAGAAA-ATATAATTTTTGTTAAAAATA-AAAAAATA
5865990 TTTTT-AA
63 TTTTTCAA
* * * * *
5865997 AATTCAACAAATACGATATTTCTAAAATAGAAATTGTAATTTTTGTTAAAAATATAAAAAAAATA
1 AATTCAACAAAGACGACATTTCTAAGATAGAAAATATAATTTTTGTT-AAAA-AT-AAAAAAATA
*
5866062 TTTTTCCAG
63 TTTTT-CAA
* ** * * * *
5866071 AATTCAACAAATATTACCTTTCTAAGATAGAAAATATAGTCTTTATTAAAAA
1 AATTCAACAAAGACGACATTTCTAAGATAGAAAATATAATTTTTGTTAAAAA
5866123 AATGACATTT
Statistics
Matches: 150, Mismatches: 34, Indels: 20
0.74 0.17 0.10
Matches are distributed among these distances:
68 1 0.01
69 38 0.25
70 47 0.31
71 15 0.10
72 7 0.05
73 4 0.03
74 38 0.25
ACGTcount: A:0.48, C:0.09, G:0.08, T:0.35
Consensus pattern (70 bp):
AATTCAACAAAGACGACATTTCTAAGATAGAAAATATAATTTTTGTTAAAAATAAAAAAATATTT
TTCAA
Found at i:5866042 original size:69 final size:71
Alignment explanation
Indices: 5865858--5866081 Score: 217
Period size: 69 Copynumber: 3.2 Consensus size: 71
5865848 TTTTTTTTTT
* * * * * * *
5865858 AATTTAACAAAGACAACATTTCTAAGATAGAAAATATAATTTTTGCTAAAAATA-AAAAAATATT
1 AATTCAACAAAGACGATATTTCTAAAATAGAAATTGTAATTTTTGTTAAAAATATAAAAAATATT
5865922 TTTCAA
66 TTTCAA
* * * * * *
5865928 AATTCAACAAAGATGATGTTTCTAAATTAGAAAGCTCGGT-A--TTTGTTGAAAATATTAAAAAT
1 AATTCAACAAAGACGATATTTCTAAAATAGAAA--T-TGTAATTTTTGTTAAAAATATAAAAAAT
5865990 -TTTTT-AA
63 ATTTTTCAA
*
5865997 AATTCAACAAATACGATATTTCTAAAATAGAAATTGTAATTTTTGTTAAAAATATAAAAAAAATA
1 AATTCAACAAAGACGATATTTCTAAAATAGAAATTGTAATTTTTGTTAAAAATAT--AAAAAATA
*
5866062 TTTTTCCAG
64 TTTTT-CAA
5866071 AATTCAACAAA
1 AATTCAACAAA
5866082 TATTACCTTT
Statistics
Matches: 121, Mismatches: 21, Indels: 20
0.75 0.13 0.12
Matches are distributed among these distances:
66 2 0.02
67 2 0.02
69 44 0.36
70 42 0.35
71 12 0.10
72 6 0.05
73 1 0.01
74 12 0.10
ACGTcount: A:0.49, C:0.08, G:0.08, T:0.35
Consensus pattern (71 bp):
AATTCAACAAAGACGATATTTCTAAAATAGAAATTGTAATTTTTGTTAAAAATATAAAAAATATT
TTTCAA
Found at i:5866238 original size:116 final size:111
Alignment explanation
Indices: 5866036--5866347 Score: 290
Period size: 110 Copynumber: 2.7 Consensus size: 111
5866026 GAAATTGTAA
* * * * **
5866036 TTTTTGTTAAAAATATAAAAAAAATATTTTTCCAGAATTCAACAAATATTACCTTTCTAAGATAG
1 TTTTTGTTAAAAATAT-AAAAAAATATTTTT-TAGAATTAAACAAAAATGATGTTTCTAAGATA-
* * *
5866101 AAAATATAGTCTTTATT-AAAAAAATGACATTTCT-AAGATAGAAAACGAAGTTG
63 AAAA-AAAGTCTTTGTTGAAAAAAATGACATTT-TAAAGAT--AAAA-GAA-TAG
* * *
5866154 TTTTTATTAAAAATATAAAAAAATATTTTTTAAAATTTAACAAAAATGATGTTTCTAAGATAAAA
1 TTTTTGTTAAAAATATAAAAAAATATTTTTTAGAATTAAACAAAAATGATGTTTCTAAGATAAAA
* * ** *
5866219 ACAAAGTTTTTGTTGAAAAAGATGATGTTTTAAAGATAAAAGCATAG
66 A-AAAGTCTTTGTTGAAAAAAATGACATTTTAAAGATAAAAGAATAG
* ** * * *
5866266 TTTTTGTTGAAAATAT--AAATTTTTTTTTTAGAATTAAATAAAAATGATGTTTTTAAGATAAAA
1 TTTTTGTTAAAAATATAAAAAAATATTTTTTAGAATTAAACAAAAATGATGTTTCTAAGATAAAA
5866329 AAATAGTCTTTGTTGAAAA
66 AAA-AGTCTTTGTTGAAAA
5866348 TATTAAAAAA
Statistics
Matches: 164, Mismatches: 27, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
109 2 0.01
110 55 0.34
112 16 0.10
113 2 0.01
114 4 0.02
115 14 0.09
116 42 0.26
117 14 0.09
118 15 0.09
ACGTcount: A:0.46, C:0.05, G:0.10, T:0.38
Consensus pattern (111 bp):
TTTTTGTTAAAAATATAAAAAAATATTTTTTAGAATTAAACAAAAATGATGTTTCTAAGATAAAA
AAAAGTCTTTGTTGAAAAAAATGACATTTTAAAGATAAAAGAATAG
Found at i:5866255 original size:41 final size:40
Alignment explanation
Indices: 5866195--5866278 Score: 125
Period size: 41 Copynumber: 2.1 Consensus size: 40
5866185 AAAATTTAAC
5866195 AAAAATGATGTTTCTAAGATAAAAACAAAGTTTTTGTTGA
1 AAAAATGATGTTTCTAAGATAAAAACAAAGTTTTTGTTGA
* *
5866235 AAAAGATGATGTTT-TAAAGATAAAAGCATAGTTTTTGTTGA
1 AAAA-ATGATGTTTCT-AAGATAAAAACAAAGTTTTTGTTGA
5866276 AAA
1 AAA
5866279 TATAAATTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
40 5 0.12
41 35 0.88
ACGTcount: A:0.45, C:0.04, G:0.17, T:0.35
Consensus pattern (40 bp):
AAAAATGATGTTTCTAAGATAAAAACAAAGTTTTTGTTGA
Found at i:5866437 original size:37 final size:37
Alignment explanation
Indices: 5866366--5866438 Score: 103
Period size: 37 Copynumber: 2.0 Consensus size: 37
5866356 AAATAAAAAA
**
5866366 TAAAATATCTTTATTTAATATTATTACATGTAAAATC
1 TAAAATATCTTTATTTAATATTATTACACATAAAATC
*
5866403 TAAAATA-CATTTATTTAATATTATTATACATAAAAT
1 TAAAATATC-TTTATTTAATATTATTACACATAAAAT
5866439 TTATTCAAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
36 1 0.03
37 31 0.97
ACGTcount: A:0.47, C:0.07, G:0.01, T:0.45
Consensus pattern (37 bp):
TAAAATATCTTTATTTAATATTATTACACATAAAATC
Found at i:5867010 original size:26 final size:25
Alignment explanation
Indices: 5866972--5867032 Score: 72
Period size: 26 Copynumber: 2.5 Consensus size: 25
5866962 TCATTTGTGA
* *
5866972 ATATTAAACAAACATGTTTATGAAT
1 ATATTAAACAAACATATTCATGAAT
*
5866997 ATATATAAATAAACATATTCATGAAT
1 ATAT-TAAACAAACATATTCATGAAT
5867023 A-A-TAAACAAA
1 ATATTAAACAAA
5867033 TTATAATTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
23 7 0.23
25 5 0.16
26 19 0.61
ACGTcount: A:0.56, C:0.08, G:0.05, T:0.31
Consensus pattern (25 bp):
ATATTAAACAAACATATTCATGAAT
Found at i:5867079 original size:28 final size:28
Alignment explanation
Indices: 5867023--5867087 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 28
5867013 ATTCATGAAT
* *
5867023 AATAAACAAATTATAATTAAACAATTTA
1 AATAAACAAAATACAATTAAACAATTTA
*
5867051 AATAAACAAACATACAATTATAA-AATTAA
1 AATAAACAAA-ATACAATTA-AACAATTTA
5867080 GAATAAAC
1 -AATAAAC
5867088 GAATAATAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
28 10 0.32
29 12 0.39
30 9 0.29
ACGTcount: A:0.63, C:0.09, G:0.02, T:0.26
Consensus pattern (28 bp):
AATAAACAAAATACAATTAAACAATTTA
Found at i:5867114 original size:11 final size:11
Alignment explanation
Indices: 5867083--5867124 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
5867073 AAATTAAGAA
**
5867083 TAAACGAATAA
1 TAAACGAATCC
5867094 TAAACGAATCC
1 TAAACGAATCC
5867105 TAAACGAATCC
1 TAAACGAATCC
*
5867116 CAAACGAAT
1 TAAACGAAT
5867125 AAACTTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 28 1.00
ACGTcount: A:0.52, C:0.21, G:0.10, T:0.17
Consensus pattern (11 bp):
TAAACGAATCC
Found at i:5868147 original size:19 final size:19
Alignment explanation
Indices: 5868123--5868160 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
5868113 TAAAAAAGAC
* *
5868123 ATTAAATAATTTTTAAATT
1 ATTAAAAAATTTTAAAATT
5868142 ATTAAAAAATTTTAAAATT
1 ATTAAAAAATTTTAAAATT
5868161 TAAAATTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
ATTAAAAAATTTTAAAATT
Found at i:5870758 original size:17 final size:17
Alignment explanation
Indices: 5870738--5870780 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
5870728 TATTTTATAC
**
5870738 AATAAAAATTTTTGTAT
1 AATAAAAATTTTTAAAT
*
5870755 AATAAAAGTTTTTAAAT
1 AATAAAAATTTTTAAAT
5870772 AA-AAAAATT
1 AATAAAAATT
5870781 ATGCTTTCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 6 0.27
17 16 0.73
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.40
Consensus pattern (17 bp):
AATAAAAATTTTTAAAT
Found at i:5872362 original size:2 final size:2
Alignment explanation
Indices: 5872355--5872380 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
5872345 TTACTTTTAT
5872355 CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA
5872381 TATATAACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:5872894 original size:22 final size:22
Alignment explanation
Indices: 5872869--5873166 Score: 111
Period size: 22 Copynumber: 13.7 Consensus size: 22
5872859 AAATCAATGT
*
5872869 TAATATAATAGTAAATAATTGA
1 TAATATAGTAGTAAATAATTGA
* * * *
5872891 TAATTTAGTAATTAATCATTGA
1 TAATATAGTAGTAAATAATTGA
*
5872913 -AA-ACT--TA-AAAATAATTGA
1 TAATA-TAGTAGTAAATAATTGA
*
5872931 T-ATAACTTAGTAGT-AATCATTGA
1 TAAT-A--TAGTAGTAAATAATTGA
* * * *
5872954 TAACT-TAATAGTTAATTAGTGA
1 TAA-TATAGTAGTAAATAATTGA
* * * *
5872976 TAATTTAATAGTAAATCATGGA
1 TAATATAGTAGTAAATAATTGA
* *
5872998 TAACT-TAGTAGTAAATTAGTGA
1 TAA-TATAGTAGTAAATAATTGA
* * *
5873020 TAACT-TAATAGTAAATAAATAA
1 TAA-TATAGTAGTAAATAATTGA
* *
5873042 TAATTTAGTAGTTAATAATTGA
1 TAATATAGTAGTAAATAATTGA
* * *
5873064 TAAT-TAGTAGTAAATTAGTAA
1 TAATATAGTAGTAAATAATTGA
* * *
5873085 TAATATAATAGTAACTACA-TAA
1 TAATATAGTAGTAAATA-ATTGA
*
5873107 TAATTTAGTAGTAAATTAATT-A
1 TAATATAGTAGTAAA-TAATTGA
* ***
5873129 TAATATAGTTGTAAATGCGT-A
1 TAATATAGTAGTAAATAATTGA
5873150 TTAATATAGTAGTAAAT
1 -TAATATAGTAGTAAAT
5873167 CAATAATAAC
Statistics
Matches: 210, Mismatches: 47, Indels: 38
0.71 0.16 0.13
Matches are distributed among these distances:
18 9 0.04
19 2 0.01
20 1 0.00
21 32 0.15
22 148 0.70
23 16 0.08
24 1 0.00
25 1 0.00
ACGTcount: A:0.47, C:0.04, G:0.11, T:0.38
Consensus pattern (22 bp):
TAATATAGTAGTAAATAATTGA
Found at i:5872959 original size:41 final size:40
Alignment explanation
Indices: 5872881--5872961 Score: 110
Period size: 41 Copynumber: 2.0 Consensus size: 40
5872871 ATATAATAGT
* *
5872881 AAATAATTGATAATTTAGTAATTAATCATTGAAAACTTAA
1 AAATAATTGATAACTTAGTAAGTAATCATTGAAAACTTAA
*
5872921 AAATAATTGATATAACTTAGT-AGTAATCATTGATAACTTAA
1 AAATAATTG--ATAACTTAGTAAGTAATCATTGAAAACTTAA
5872962 TAGTTAATTA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
40 9 0.25
41 18 0.50
42 9 0.25
ACGTcount: A:0.48, C:0.06, G:0.09, T:0.37
Consensus pattern (40 bp):
AAATAATTGATAACTTAGTAAGTAATCATTGAAAACTTAA
Found at i:5873000 original size:44 final size:43
Alignment explanation
Indices: 5872932--5873078 Score: 163
Period size: 44 Copynumber: 3.4 Consensus size: 43
5872922 AATAATTGAT
* *
5872932 ATAACTTAGTAGT-AATCATTGATAACTTAATAGTTAATTAGTG
1 ATAACTTAATAGTAAATCA-TGATAACTTAGTAGTTAATTAGTG
* *
5872975 ATAATTTAATAGTAAATCATGGATAACTTAGTAGTAAATTAGTG
1 ATAACTTAATAGTAAATCAT-GATAACTTAGTAGTTAATTAGTG
* * * * *
5873019 ATAACTTAATAGTAAATAAATAATAATTTAGTAGTTAATAATTG
1 ATAACTTAATAGTAAAT-CATGATAACTTAGTAGTTAATTAGTG
*
5873063 ATAA-TTAGTAGTAAAT
1 ATAACTTAATAGTAAAT
5873079 TAGTAATAAT
Statistics
Matches: 89, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
43 23 0.26
44 64 0.72
45 2 0.02
ACGTcount: A:0.45, C:0.04, G:0.13, T:0.38
Consensus pattern (43 bp):
ATAACTTAATAGTAAATCATGATAACTTAGTAGTTAATTAGTG
Found at i:5873160 original size:44 final size:43
Alignment explanation
Indices: 5873019--5873175 Score: 136
Period size: 44 Copynumber: 3.6 Consensus size: 43
5873009 TAAATTAGTG
* * * * * *
5873019 ATAACTTAATAGTAAATAAATAATAATTTAGTAGTTAATA-ATTG
1 ATAA-TTAGTAGTAAATTAATAATAATATAATAGTAAATACA-TA
* *
5873063 ATAATTAGTAGTAAATTAGTAATAATATAATAGTAACTACATA
1 ATAATTAGTAGTAAATTAATAATAATATAATAGTAAATACATA
* * * * *
5873106 ATAATTTAGTAGTAAATTAATTATAATATAGTTGTAAATGCGTA
1 ATAA-TTAGTAGTAAATTAATAATAATATAATAGTAAATACATA
* *
5873150 TTAATATAGTAGTAAATCAATAATAA
1 ATAAT-TAGTAGTAAATTAATAATAA
5873176 CTTATTAAAA
Statistics
Matches: 92, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
43 34 0.37
44 58 0.63
ACGTcount: A:0.49, C:0.03, G:0.10, T:0.38
Consensus pattern (43 bp):
ATAATTAGTAGTAAATTAATAATAATATAATAGTAAATACATA
Found at i:5873440 original size:21 final size:21
Alignment explanation
Indices: 5873381--5873505 Score: 103
Period size: 21 Copynumber: 6.0 Consensus size: 21
5873371 AGTAATTAAT
*
5873381 AATTAG-A-AACTTAAGAGTA
1 AATTAGTATAACTTAATAGTA
**
5873400 AATTAGTATAACTTGGTAGTA
1 AATTAGTATAACTTAATAGTA
*
5873421 AATTAGTATAACTTAATAGTT
1 AATTAGTATAACTTAATAGTA
* * *
5873442 AATCAATGACAACTTAATAGTA
1 AATTAGT-ATAACTTAATAGTA
* *
5873464 AATTATGAATAATTTAATA-TA
1 AATTA-GTATAACTTAATAGTA
* *
5873485 AATAAGTGATAACTTAGTAGT
1 AATTAGT-ATAACTTAATAGT
5873506 GAATCATGGA
Statistics
Matches: 81, Mismatches: 19, Indels: 9
0.74 0.17 0.08
Matches are distributed among these distances:
19 6 0.07
20 2 0.02
21 47 0.58
22 26 0.32
ACGTcount: A:0.46, C:0.06, G:0.13, T:0.35
Consensus pattern (21 bp):
AATTAGTATAACTTAATAGTA
Found at i:5873499 original size:43 final size:44
Alignment explanation
Indices: 5873391--5873521 Score: 126
Period size: 43 Copynumber: 3.0 Consensus size: 44
5873381 AATTAGAAAC
* * * * *
5873391 TTAAGAGTAAATTAGT-ATAACTTGGTAGTAAATTA-GTATAAC
1 TTAATAGTAAATAAGTGATAACTTAGTAGTAAATTATGAATAAT
* * *
5873433 TTAATAGTTAATCAA-TGACAACTTAATAGTAAATTATGAATAAT
1 TTAATAGTAAAT-AAGTGATAACTTAGTAGTAAATTATGAATAAT
* * *
5873477 TTAATA-TAAATAAGTGATAACTTAGTAGTGAATCATGGATAAT
1 TTAATAGTAAATAAGTGATAACTTAGTAGTAAATTATGAATAAT
5873520 TT
1 TT
5873522 GGTAATAAAT
Statistics
Matches: 71, Mismatches: 14, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
42 13 0.18
43 47 0.66
44 11 0.15
ACGTcount: A:0.44, C:0.05, G:0.14, T:0.37
Consensus pattern (44 bp):
TTAATAGTAAATAAGTGATAACTTAGTAGTAAATTATGAATAAT
Found at i:5873845 original size:22 final size:22
Alignment explanation
Indices: 5873820--5873870 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
5873810 ACTTTTATAA
*
5873820 TAAATTATTAATAACTTAATAC
1 TAAATCATTAATAACTTAATAC
* *
5873842 TAAATCATTCATAACTTAATAG
1 TAAATCATTAATAACTTAATAC
5873864 TAAATCA
1 TAAATCA
5873871 ATCATAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.49, C:0.12, G:0.02, T:0.37
Consensus pattern (22 bp):
TAAATCATTAATAACTTAATAC
Found at i:5873875 original size:22 final size:22
Alignment explanation
Indices: 5873830--5873886 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 22
5873820 TAAATTATTA
* *
5873830 ATAACTTAATACTAAATCATTC
1 ATAACTTAATAGTAAATCAATC
5873852 ATAACTTAATAGTAAATCAATC
1 ATAACTTAATAGTAAATCAATC
* *
5873874 ATAAATTAGTAGT
1 ATAACTTAATAGT
5873887 GAATTGATTA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.47, C:0.12, G:0.05, T:0.35
Consensus pattern (22 bp):
ATAACTTAATAGTAAATCAATC
Found at i:5874303 original size:22 final size:21
Alignment explanation
Indices: 5874278--5874359 Score: 74
Period size: 22 Copynumber: 3.8 Consensus size: 21
5874268 TTTTTAAAAA
* *
5874278 ATAACTTAATAATTAATTATTG
1 ATAAATTAATAATAAATTA-TG
* *
5874300 ATAAATTAGTAATAAATCATG
1 ATAAATTAATAATAAATTATG
*
5874321 ATAAATTAATAGTAAATTAGTG
1 ATAAATTAATAATAAATTA-TG
* * *
5874343 ACAACTTAATAGTAAAT
1 ATAAATTAATAATAAAT
5874360 CAATTCAGTA
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
21 18 0.36
22 32 0.64
ACGTcount: A:0.50, C:0.05, G:0.09, T:0.37
Consensus pattern (21 bp):
ATAAATTAATAATAAATTATG
Found at i:5874417 original size:22 final size:22
Alignment explanation
Indices: 5874389--5874750 Score: 89
Period size: 22 Copynumber: 16.2 Consensus size: 22
5874379 ATTGATAAAT
5874389 TAGTAAATCATAAATAATTTAG
1 TAGTAAATCATAAATAATTTAG
*
5874411 TAGTAAATCA-ATGATAATTTAG
1 TAGTAAATCATA-AATAATTTAG
** * * * *
5874433 TAGTTTATCATTGAA-AACTAAA
1 TAGTAAATCA-TAAATAATTTAG
* * *
5874455 AAGTAAATCA-ATATAATTGAG
1 TAGTAAATCATAAATAATTTAG
** * *
5874476 TAGTAAATCATCGATAACTTAA
1 TAGTAAATCATAAATAATTTAG
* ** * *
5874498 TAGTTAATCATTGATAACTTAA
1 TAGTAAATCATAAATAATTTAG
* *
5874520 TAATAAATTACT-AATAA--TAG
1 TAGTAAATCA-TAAATAATTTAG
* *
5874540 TTGTAAATCA-ATGATAATTTAG
1 TAGTAAATCATA-AATAATTTAG
*
5874562 TTA-TAAATCA-ATGATAATTTAG
1 -TAGTAAATCATA-AATAATTTAG
* * * *
5874584 TAGTAAATTAGTTAATTATTAATAACT
1 TAGTAAATCA-TAAATAATT--T-A-G
* * *
5874611 TTGTATTAAATCATTAATAAATTAG
1 TAG--T-AAATCATAAATAATTTAG
* *
5874636 TAGCAAATCAGT-TATAACTTTA-
1 TAGTAAATCA-TAAATAA-TTTAG
* * * *
5874658 TAATAAATTATTAGTAATTTAG
1 TAGTAAATCATAAATAATTTAG
* ** * *
5874680 TAATAAATTTTCAATAATTTAA
1 TAGTAAATCATAAATAATTTAG
* **
5874702 TAGTAAATTATTTATAATTTAG
1 TAGTAAATCATAAATAATTTAG
*
5874724 TAGTAAATCATAGATAATTTAG
1 TAGTAAATCATAAATAATTTAG
5874746 TAGTA
1 TAGTA
5874751 GATAACTAAT
Statistics
Matches: 250, Mismatches: 65, Indels: 50
0.68 0.18 0.14
Matches are distributed among these distances:
20 14 0.06
21 21 0.08
22 182 0.73
23 12 0.05
25 3 0.01
26 2 0.01
27 3 0.01
29 8 0.03
30 5 0.02
ACGTcount: A:0.46, C:0.06, G:0.09, T:0.40
Consensus pattern (22 bp):
TAGTAAATCATAAATAATTTAG
Found at i:5874478 original size:65 final size:65
Alignment explanation
Indices: 5874390--5874562 Score: 192
Period size: 65 Copynumber: 2.6 Consensus size: 65
5874380 TTGATAAATT
* *
5874390 AGTAAATCATAAATAATTTAGTAGTAAATCAATGATAATTTAGTAGTTTATCATTGAAAAC-TAA
1 AGTAAATCA-ATATAA-TTAGTAGTAAATCAATGATAATTTAGTAGTTAATCATTGAAAACTTAA
5874454 AA
64 AA
* * *
5874456 AGTAAATCAATATAATTGAGTAGTAAATC-ATCGATAACTTAATAGTTAATCATTGATAACTTAA
1 AGTAAATCAATATAATT-AGTAGTAAATCAAT-GATAATTTAGTAGTTAATCATTGAAAACTTAA
*
5874520 TA
64 AA
* * *
5874522 A-TAAATTACTAATAA-TAGTTGTAAATCAATGATAATTTAGT
1 AGTAAATCAAT-ATAATTAGTAGTAAATCAATGATAATTTAGT
5874563 TATAAATCAA
Statistics
Matches: 91, Mismatches: 11, Indels: 12
0.80 0.10 0.11
Matches are distributed among these distances:
64 23 0.25
65 50 0.55
66 18 0.20
ACGTcount: A:0.47, C:0.07, G:0.10, T:0.36
Consensus pattern (65 bp):
AGTAAATCAATATAATTAGTAGTAAATCAATGATAATTTAGTAGTTAATCATTGAAAACTTAAAA
Found at i:5874507 original size:43 final size:44
Alignment explanation
Indices: 5874389--5874591 Score: 132
Period size: 44 Copynumber: 4.7 Consensus size: 44
5874379 ATTGATAAAT
* * * *
5874389 TAGTAAATCATAAATAATTTAGTAGTAAATCAATGATAATTTAG
1 TAGTAAATCATAGATAACTTAATAGTAAATCAATGATAATTGAG
** * * * *
5874433 TAGTTTATCATTGAAAACTAAAAAGTAAATCAAT-ATAATTGAG
1 TAGTAAATCATAGATAACTTAATAGTAAATCAATGATAATTGAG
* * * *
5874476 TAGTAAATCATCGATAACTTAATAGTTAATCATTGATAACTT-AA
1 TAGTAAATCATAGATAACTTAATAGTAAATCAATGATAA-TTGAG
* * * * *
5874520 TAATAAATTACTA-ATAA--TAGTTGTAAATCAATGATAATTTAG
1 TAGTAAATCA-TAGATAACTTAATAGTAAATCAATGATAATTGAG
* *
5874562 TTA-TAAATCA-ATGATAATTTAGTAGTAAAT
1 -TAGTAAATCATA-GATAACTTAATAGTAAAT
5874592 TAGTTAATTA
Statistics
Matches: 121, Mismatches: 29, Indels: 18
0.72 0.17 0.11
Matches are distributed among these distances:
40 1 0.01
41 2 0.02
42 27 0.22
43 36 0.30
44 52 0.43
45 3 0.02
ACGTcount: A:0.47, C:0.06, G:0.10, T:0.36
Consensus pattern (44 bp):
TAGTAAATCATAGATAACTTAATAGTAAATCAATGATAATTGAG
Found at i:5874741 original size:44 final size:43
Alignment explanation
Indices: 5874617--5874750 Score: 119
Period size: 44 Copynumber: 3.0 Consensus size: 43
5874607 AACTTTGTAT
* * * * * *
5874617 TAAATCATTAATAAATTAGTAGCAAATCAGTTATAACTTT-ATAA
1 TAAATTATTTATAATTTAGTAGTAAATCA-TAATAA-TTTAATAG
* **
5874661 TAAATTA-TTAGTAATTTAGTAATAAATTTTCAATAATTTAATAG
1 TAAATTATTTA-TAATTTAGTAGTAAATCAT-AATAATTTAATAG
*
5874705 TAAATTATTTATAATTTAGTAGTAAATCATAGATAATTTAGTAG
1 TAAATTATTTATAATTTAGTAGTAAATCATA-ATAATTTAATAG
5874749 TA
1 TA
5874751 GATAACTAAT
Statistics
Matches: 72, Mismatches: 13, Indels: 10
0.76 0.14 0.11
Matches are distributed among these distances:
43 7 0.10
44 62 0.86
45 3 0.04
ACGTcount: A:0.46, C:0.04, G:0.08, T:0.42
Consensus pattern (43 bp):
TAAATTATTTATAATTTAGTAGTAAATCATAATAATTTAATAG
Found at i:5874762 original size:22 final size:21
Alignment explanation
Indices: 5874672--5874767 Score: 75
Period size: 22 Copynumber: 4.4 Consensus size: 21
5874662 AAATTATTAG
* **
5874672 TAATTTAGTAATAAATTTTCAA
1 TAATTTAGTAGTAAATAAT-AA
* * *
5874694 TAATTTAATAGTAAATTATTTA
1 TAATTTAGTAGTAAA-TAATAA
*
5874716 TAATTTAGTAGTAAATCATAGA
1 TAATTTAGTAGTAAATAATA-A
*
5874738 TAATTTAGTAGTAGATAACTAA
1 TAATTTAGTAGTAAATAA-TAA
*
5874760 TAACTTAG
1 TAATTTAG
5874768 CAGCTAATCA
Statistics
Matches: 60, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
21 2 0.03
22 53 0.88
23 5 0.08
ACGTcount: A:0.45, C:0.04, G:0.09, T:0.42
Consensus pattern (21 bp):
TAATTTAGTAGTAAATAATAA
Found at i:5879596 original size:74 final size:75
Alignment explanation
Indices: 5879467--5879642 Score: 225
Period size: 74 Copynumber: 2.4 Consensus size: 75
5879457 CACCTAAGGC
* * * * *
5879467 AAGGGATCGATCCCCTTTTAAAGGGATCGATTGATTGCTCAGACAGAATGTTTCCCAAGTTTGAA
1 AAGGGATCGATCCCCTCTTAAAGGGATCAATAGATTACTCAGACAGAATGTTTCCCAAGTTCGAA
5879532 AACCCAG-AA
66 AACCCAGCAA
* * * *
5879541 AAGGGATCAATCCCCTCTTAAAAGGGATCAATCAG-TTACTTAGATAGAATG-TTCCCCAGTTCG
1 AAGGGATCGATCCCCTCTT-AAAGGGATCAAT-AGATTACTCAGACAGAATGTTTCCCAAGTTCG
5879604 AAAACCCAGCAA
64 AAAACCCAGCAA
5879616 AA-GGATCGATCCCCTCTTAAAGGGATC
1 AAGGGATCGATCCCCTCTTAAAGGGATC
5879643 GATCGGGTAA
Statistics
Matches: 89, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
73 9 0.10
74 51 0.57
75 28 0.31
76 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.24
Consensus pattern (75 bp):
AAGGGATCGATCCCCTCTTAAAGGGATCAATAGATTACTCAGACAGAATGTTTCCCAAGTTCGAA
AACCCAGCAA
Found at i:5881279 original size:9 final size:9
Alignment explanation
Indices: 5881265--5881289 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
5881255 TGGATAAGGG
5881265 GAAGATGCT
1 GAAGATGCT
5881274 GAAGATGCT
1 GAAGATGCT
5881283 GAAGATG
1 GAAGATG
5881290 AAGATGGCCA
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:0.36, C:0.08, G:0.36, T:0.20
Consensus pattern (9 bp):
GAAGATGCT
Found at i:5884234 original size:20 final size:20
Alignment explanation
Indices: 5884194--5884235 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
5884184 CTGAAATGCG
* *
5884194 CAAAACCGATCGATCTCTTT
1 CAAAACAGATCGATCGCTTT
*
5884214 CAAAACAGATCGATCGGTTT
1 CAAAACAGATCGATCGCTTT
5884234 CA
1 CA
5884236 TGCAAAGACC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.26
Consensus pattern (20 bp):
CAAAACAGATCGATCGCTTT
Found at i:5885812 original size:13 final size:13
Alignment explanation
Indices: 5885794--5885818 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5885784 ATCTTTCATT
5885794 CTATTGTTGTGTG
1 CTATTGTTGTGTG
5885807 CTATTGTTGTGT
1 CTATTGTTGTGT
5885819 TGTTTAATGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.08, G:0.28, T:0.56
Consensus pattern (13 bp):
CTATTGTTGTGTG
Found at i:5886345 original size:21 final size:21
Alignment explanation
Indices: 5886319--5886372 Score: 101
Period size: 20 Copynumber: 2.6 Consensus size: 21
5886309 GTTTTGATAG
5886319 AAGGGATCGATCCCCTACCAA
1 AAGGGATCGATCCCCTACCAA
5886340 AAGGGATCGAT-CCCTACCAA
1 AAGGGATCGATCCCCTACCAA
5886360 AAGGGATCGATCC
1 AAGGGATCGATCC
5886373 TATTTTCAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 20 0.62
21 12 0.38
ACGTcount: A:0.33, C:0.30, G:0.22, T:0.15
Consensus pattern (21 bp):
AAGGGATCGATCCCCTACCAA
Found at i:5886585 original size:20 final size:20
Alignment explanation
Indices: 5886560--5886610 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
5886550 CACCTAAGGT
* *
5886560 AAGGGATTGATCCCCTTTTA
1 AAGGGATCGATCCCCTTTCA
5886580 AAGGGATCGAT-CCCTTTCA
1 AAGGGATCGATCCCCTTTCA
5886599 AAGGGATCGATC
1 AAGGGATCGATC
5886611 GATTGCTTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 18 0.64
20 10 0.36
ACGTcount: A:0.27, C:0.22, G:0.24, T:0.27
Consensus pattern (20 bp):
AAGGGATCGATCCCCTTTCA
Found at i:5886741 original size:74 final size:76
Alignment explanation
Indices: 5886579--5886757 Score: 199
Period size: 74 Copynumber: 2.4 Consensus size: 76
5886569 ATCCCCTTTT
* * * * *
5886579 AAAGGGATCGAT-CCC-TTTCAAAGGGATCGA-TCGATTGCTTAGACAGAATGTTTTCAAAGTTC
1 AAAGGGATCGATCCCCTTTTAAAAGGGATCGATTAGATTGCTCAGACAAAATGTTTCCAAAGTTC
* *
5886641 GAAAACCTAGA
66 AAAAACCCAGA
* ** * *
5886652 AAAAGGATTAATCCCCTTTTAAAAGGGATCGATTAG-TTGCTCAGATAAAATGTTTCCCAA-TTC
1 AAAGGGATCGATCCCCTTTTAAAAGGGATCGATTAGATTGCTCAGACAAAATGTTTCCAAAGTTC
5886715 AAAAACCCAGA
66 AAAAACCCAGA
*
5886726 AAAGGGATCGATCCCCTCTTAAAA-GGATCGAT
1 AAAGGGATCGATCCCCTTTTAAAAGGGATCGAT
5886758 CGGATAAGAC
Statistics
Matches: 87, Mismatches: 16, Indels: 6
0.80 0.15 0.06
Matches are distributed among these distances:
73 17 0.20
74 35 0.40
75 33 0.38
76 2 0.02
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (76 bp):
AAAGGGATCGATCCCCTTTTAAAAGGGATCGATTAGATTGCTCAGACAAAATGTTTCCAAAGTTC
AAAAACCCAGA
Found at i:5887350 original size:15 final size:15
Alignment explanation
Indices: 5887330--5887363 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
5887320 TATCGAACCT
*
5887330 TTATAAATCTCTGTG
1 TTATAAATCTCGGTG
5887345 TTAT-AATCTCGGTG
1 TTATAAATCTCGGTG
5887359 TTATA
1 TTATA
5887364 TACTCTATCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.26, C:0.12, G:0.15, T:0.47
Consensus pattern (15 bp):
TTATAAATCTCGGTG
Found at i:5899275 original size:10 final size:9
Alignment explanation
Indices: 5899244--5899284 Score: 55
Period size: 9 Copynumber: 4.3 Consensus size: 9
5899234 AACCAAATCA
5899244 TTTTAAGAT
1 TTTTAAGAT
5899253 TTTTAAGAT
1 TTTTAAGAT
5899262 TTTTAAGGAGT
1 TTTTAA-GA-T
*
5899273 TTTTATGAT
1 TTTTAAGAT
5899282 TTT
1 TTT
5899285 ACTTTGAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 19 0.66
10 4 0.14
11 6 0.21
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.59
Consensus pattern (9 bp):
TTTTAAGAT
Found at i:5899277 original size:20 final size:18
Alignment explanation
Indices: 5899244--5899284 Score: 55
Period size: 20 Copynumber: 2.2 Consensus size: 18
5899234 AACCAAATCA
5899244 TTTTAAGATTTTTAAGAT
1 TTTTAAGATTTTTAAGAT
*
5899262 TTTTAAGGAGTTTTTATGAT
1 TTTTAA-GA-TTTTTAAGAT
5899282 TTT
1 TTT
5899285 ACTTTGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 6 0.30
19 2 0.10
20 12 0.60
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.59
Consensus pattern (18 bp):
TTTTAAGATTTTTAAGAT
Found at i:5902626 original size:33 final size:33
Alignment explanation
Indices: 5902592--5902672 Score: 81
Period size: 33 Copynumber: 2.4 Consensus size: 33
5902582 AAACCCTAAA
*
5902592 CCAAAACCTTAAATACTAAACTTCAAACTAAAAC
1 CCAAAACC-TAAATACCAAACTTCAAACTAAAAC
* * * *
5902626 CCTAAACCTAAATCCCAAACTTTAAACCTTAAAC
1 CCAAAACCTAAATACCAAACTTCAAA-CTAAAAC
*
5902660 CCTAAATCCTAAA
1 CC-AAAACCTAAA
5902673 CCAAACCCTA
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
33 15 0.39
34 15 0.39
35 8 0.21
ACGTcount: A:0.48, C:0.30, G:0.00, T:0.22
Consensus pattern (33 bp):
CCAAAACCTAAATACCAAACTTCAAACTAAAAC
Found at i:5902644 original size:26 final size:26
Alignment explanation
Indices: 5902615--5902686 Score: 83
Period size: 26 Copynumber: 2.7 Consensus size: 26
5902605 TACTAAACTT
5902615 CAAACTAAAACCCTAAACCTAAATCC
1 CAAACTAAAACCCTAAACCTAAATCC
* *
5902641 CAAACTTTAAACCTTAAACCCTAAATCC
1 CAAAC-TAAAACCCTAAA-CCTAAATCC
* *
5902669 TAAAC-CAAACCCTAAACC
1 CAAACTAAAACCCTAAACC
5902687 CAAAACTTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
25 2 0.05
26 14 0.36
27 10 0.26
28 13 0.33
ACGTcount: A:0.47, C:0.35, G:0.00, T:0.18
Consensus pattern (26 bp):
CAAACTAAAACCCTAAACCTAAATCC
Found at i:5902724 original size:13 final size:12
Alignment explanation
Indices: 5902586--5902754 Score: 67
Period size: 13 Copynumber: 13.2 Consensus size: 12
5902576 CTATGCAAAC
*
5902586 CCTAAACCAAAA
1 CCTAAACCTAAA
*
5902598 CCTTAAATACTAAA
1 CC-TAAA-CCTAAA
*
5902612 CTTCAAA-CTAAAA
1 CCT-AAACCT-AAA
5902625 CCCTAAACCTAAA
1 -CCTAAACCTAAA
* *
5902638 TCCCAAACTTTAAA
1 -CCTAAAC-CTAAA
5902652 CCTTAAACCCTAAA
1 CC-TAAA-CCTAAA
5902666 TCCTAAACC-AAA
1 -CCTAAACCTAAA
*
5902678 CCCTAAACCCAAA
1 -CCTAAACCTAAA
* *
5902691 ACTTAACCTTAAA
1 CCTAAACC-TAAA
**
5902704 CCCGAACCTAAA
1 CCTAAACCTAAA
5902716 TCCTAAACCCT-AA
1 -CCTAAA-CCTAAA
*
5902729 CCTAGATCCTAAA
1 CCTA-AACCTAAA
*
5902742 CC-AACCCTAAA
1 CCTAAACCTAAA
5902753 CC
1 CC
5902755 CCGAACCAAC
Statistics
Matches: 121, Mismatches: 20, Indels: 33
0.70 0.11 0.19
Matches are distributed among these distances:
11 9 0.07
12 33 0.27
13 46 0.38
14 30 0.25
15 3 0.02
ACGTcount: A:0.46, C:0.34, G:0.01, T:0.19
Consensus pattern (12 bp):
CCTAAACCTAAA
Found at i:5902731 original size:19 final size:20
Alignment explanation
Indices: 5902622--5902743 Score: 101
Period size: 19 Copynumber: 6.2 Consensus size: 20
5902612 CTTCAAACTA
*
5902622 AAACCCTAAACCTAAATCCC
1 AAACCCTAAACCTAAATCCT
** *
5902642 AAACTTTAAACCTTAAACCCT
1 AAACCCTAAACC-TAAATCCT
* *
5902663 AAATCCTAAACC-AAACCCT
1 AAACCCTAAACCTAAATCCT
* *
5902682 AAACCC-AAAACTTAA-CCTT
1 AAACCCTAAACCTAAATCC-T
*
5902701 AAACCC-GAACCTAAATCCT
1 AAACCCTAAACCTAAATCCT
*
5902720 AAACCCT-AACCTAGATCCT
1 AAACCCTAAACCTAAATCCT
5902739 AAACC
1 AAACC
5902744 AACCCTAAAC
Statistics
Matches: 83, Mismatches: 14, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
18 6 0.07
19 50 0.60
20 12 0.14
21 15 0.18
ACGTcount: A:0.44, C:0.35, G:0.02, T:0.19
Consensus pattern (20 bp):
AAACCCTAAACCTAAATCCT
Found at i:5902758 original size:50 final size:51
Alignment explanation
Indices: 5902660--5902777 Score: 127
Period size: 50 Copynumber: 2.4 Consensus size: 51
5902650 AACCTTAAAC
* * *
5902660 CCTAAATCCTAAA-CCAAACCCTAAACCCAAAACTTAACCTTAAACCCGAA
1 CCTAAATCCTAAACCCTAACCCTAAACCCAAAACTCAACCCTAAACCCGAA
* * *
5902710 CCTAAATCCTAAACCCTAA-CCTAGATCCTAAAC-CAACCCTAAACCCCGAA
1 CCTAAATCCTAAACCCTAACCCTAAACCCAAAACTCAACCCTAAA-CCCGAA
**
5902760 CC-AACCCCTAAACCCTAA
1 CCTAAATCCTAAACCCTAA
5902778 AACCAAGTTG
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
49 22 0.38
50 32 0.55
51 4 0.07
ACGTcount: A:0.42, C:0.40, G:0.03, T:0.15
Consensus pattern (51 bp):
CCTAAATCCTAAACCCTAACCCTAAACCCAAAACTCAACCCTAAACCCGAA
Found at i:5902781 original size:8 final size:7
Alignment explanation
Indices: 5902622--5902778 Score: 74
Period size: 7 Copynumber: 24.4 Consensus size: 7
5902612 CTTCAAACTA
5902622 AAACCCT
1 AAACCCT
5902629 AAA-CCT
1 AAACCCT
5902635 AAATCCC-
1 AAA-CCCT
**
5902642 AAACTTT
1 AAACCCT
*
5902649 AAACCTT
1 AAACCCT
5902656 AAACCCT
1 AAACCCT
*
5902663 AAATCCT
1 AAACCCT
5902670 AAA-CC-
1 AAACCCT
5902675 AAACCCT
1 AAACCCT
5902682 AAACCC-
1 AAACCCT
*
5902688 AAA-ACT
1 AAACCCT
* *
5902694 TAACCTT
1 AAACCCT
5902701 AAACCC-
1 AAACCCT
*
5902707 GAA-CCT
1 AAACCCT
*
5902713 AAATCCT
1 AAACCCT
5902720 AAACCCT
1 AAACCCT
5902727 -AA-CCT
1 AAACCCT
* *
5902732 AGATCCT
1 AAACCCT
5902739 AAA-CC-
1 AAACCCT
5902744 -AACCCT
1 AAACCCT
*
5902750 AAACCCC
1 AAACCCT
*
5902757 GAA-CC-
1 AAACCCT
*
5902762 AACCCCT
1 AAACCCT
5902769 AAACCCT
1 AAACCCT
5902776 AAA
1 AAA
5902779 ACCAAGTTGA
Statistics
Matches: 113, Mismatches: 21, Indels: 32
0.68 0.13 0.19
Matches are distributed among these distances:
4 2 0.02
5 12 0.11
6 29 0.26
7 68 0.60
8 2 0.02
ACGTcount: A:0.44, C:0.38, G:0.02, T:0.17
Consensus pattern (7 bp):
AAACCCT
Found at i:5902901 original size:35 final size:35
Alignment explanation
Indices: 5902836--5902903 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
5902826 TCACATGCAT
* * *
5902836 TATTTAATTGTCGTGCATTCATAATTTATTATTCA
1 TATTTAATTATCATGCATTCATAATATATTATTCA
*
5902871 TATTTAATTATCATGCATAT-ATCATATATTATT
1 TATTTAATTATCATGCAT-TCATAATATATTATT
5902904 ATTATTATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
35 27 0.96
36 1 0.04
ACGTcount: A:0.32, C:0.10, G:0.06, T:0.51
Consensus pattern (35 bp):
TATTTAATTATCATGCATTCATAATATATTATTCA
Found at i:5904012 original size:2 final size:2
Alignment explanation
Indices: 5904005--5904038 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
5903995 TAATTCTTAG
*
5904005 TA TA TA TA TA TA TA TA TA TT 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
5904039 ACAAAAGCAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:5906842 original size:3 final size:3
Alignment explanation
Indices: 5906834--5906863 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
5906824 AGAGAGGGAG
5906834 GAA GAA GAA GAA GAA GAA -AA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
5906864 CATGCCAGGG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:5907533 original size:36 final size:36
Alignment explanation
Indices: 5907486--5907587 Score: 177
Period size: 36 Copynumber: 2.8 Consensus size: 36
5907476 CTGTTAATGG
*
5907486 TCGTTAGTGGAGCCTCGGTCGTTGTTCATTTGGTAT
1 TCGTTAGTGGAGCCTCGGTAGTTGTTCATTTGGTAT
*
5907522 TCGTTAGTGGAGCCTTGGTAGTTGTTCATTTGGTAT
1 TCGTTAGTGGAGCCTCGGTAGTTGTTCATTTGGTAT
*
5907558 TTGTTAGTGGAGCCTCGGTAGTTGTTCATT
1 TCGTTAGTGGAGCCTCGGTAGTTGTTCATT
5907588 CGGGAGTAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 62 1.00
ACGTcount: A:0.13, C:0.14, G:0.30, T:0.43
Consensus pattern (36 bp):
TCGTTAGTGGAGCCTCGGTAGTTGTTCATTTGGTAT
Found at i:5911996 original size:29 final size:29
Alignment explanation
Indices: 5911954--5912011 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
5911944 ATAAGGGTCA
5911954 AGAATAAGCCCATATTCAAAGCCGTATTT
1 AGAATAAGCCCATATTCAAAGCCGTATTT
*
5911983 AGAATAAGCCCATATTCAAAGCTGTATTT
1 AGAATAAGCCCATATTCAAAGCCGTATTT
5912012 GTCCAAACTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (29 bp):
AGAATAAGCCCATATTCAAAGCCGTATTT
Found at i:5914020 original size:2 final size:2
Alignment explanation
Indices: 5913977--5914005 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
5913967 AAGTTTTTAG
5913977 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 A
5914006 CCCAATAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5915286 original size:10 final size:11
Alignment explanation
Indices: 5915270--5915313 Score: 56
Period size: 10 Copynumber: 4.1 Consensus size: 11
5915260 ATTTTGACTC
5915270 ATATTATTTTT
1 ATATTATTTTT
5915281 -TATTATTTTT
1 ATATTATTTTT
5915291 CATATTATTTTT
1 -ATATTATTTTT
*
5915303 AT-TTATCTTT
1 ATATTATTTTT
5915313 A
1 A
5915314 AAATATTCAG
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
10 18 0.60
11 2 0.07
12 10 0.33
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (11 bp):
ATATTATTTTT
Found at i:5915298 original size:12 final size:12
Alignment explanation
Indices: 5915268--5915302 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
5915258 AAATTTTGAC
5915268 TCATATTATTTT
1 TCATATTATTTT
5915280 T--TATTATTTT
1 TCATATTATTTT
5915290 TCATATTATTTT
1 TCATATTATTTT
5915302 T
1 T
5915303 ATTTATCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
10 10 0.48
12 11 0.52
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (12 bp):
TCATATTATTTT
Found at i:5915731 original size:3 final size:3
Alignment explanation
Indices: 5915723--5915776 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
5915713 AAAAATATCT
5915723 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
5915771 TTA TTA
1 TTA TTA
5915777 CGATGGAACA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:5918505 original size:226 final size:231
Alignment explanation
Indices: 5918088--5918543 Score: 729
Period size: 226 Copynumber: 2.0 Consensus size: 231
5918078 TAGCCTTGAA
*
5918088 GTACAGCTCACTAGAATCTTGCATGAACCTAAAGAGTAAGCTGGTTGAATGCATGAACATCTGGC
1 GTACAGCTCACTAGAATCTTGCATGAAACTAAAGAGTAAGCTGGTTGAATGCATGAACATCTGGC
5918153 AATTGTTGCTAATCAAAATATAGCAACCATCCAATCAAATTCCTATATATAGACCATCCACCTTG
66 AATTGTTGCTAATCAAAATATAGCAACCATCCAATCAAATTCCTATATATAGACCATCCACCTTG
5918218 TCTGCTCCATTTTCCTTAACCACCTTCTCATTTCGAACTTATGGAGTGGTTGACTGGTTTGCAGT
131 TCTGCTCCATTTTCCTTAACCACCTTCTCATTTCGAACTTATGGAGTGGTTGACTGGTTTGCAGT
5918283 TTTTCAATGCCAAACTTGATAAAAACTTCATTTGCAG
196 TTTTC-ATGCCAAACTTGATAAAAACTTCATTTGCAG
5918320 GTACAG-TCACTAGAATC-TGCATGAAACTAAAGAGTAAGCTGGTTGAAT-CATGAA-ATCTGGC
1 GTACAGCTCACTAGAATCTTGCATGAAACTAAAGAGTAAGCTGGTTGAATGCATGAACATCTGGC
* * *
5918381 ATTTGTTGCT-ATC-AAATATAGCAAAGCATCCAATCAAAATTTCTATATATAGA-CATCCA-CT
66 AATTGTTGCTAATCAAAATATAGC-AACCATCCAATC-AAATTCCTATATATAGACCATCCACCT
5918442 TGTCTG-TCCATTTTTCC-TAACCACCTTCTTCATTTCGGAA-TTAATGGAGT-GTTGACTGGTT
129 TGTCTGCTCCA-TTTTCCTTAACCACCTTC-TCATTTC-GAACTT-ATGGAGTGGTTGACTGGTT
5918503 TGCAGTTTTTCATGCCAAACTTGATAAAAACTTCATTTGCA
190 TGCAGTTTTTCATGCCAAACTTGATAAAAACTTCATTTGCA
5918544 TATTTCTTTT
Statistics
Matches: 214, Mismatches: 4, Indels: 19
0.90 0.02 0.08
Matches are distributed among these distances:
225 45 0.21
226 54 0.25
227 30 0.14
228 32 0.15
229 6 0.03
230 30 0.14
231 11 0.05
232 6 0.03
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.33
Consensus pattern (231 bp):
GTACAGCTCACTAGAATCTTGCATGAAACTAAAGAGTAAGCTGGTTGAATGCATGAACATCTGGC
AATTGTTGCTAATCAAAATATAGCAACCATCCAATCAAATTCCTATATATAGACCATCCACCTTG
TCTGCTCCATTTTCCTTAACCACCTTCTCATTTCGAACTTATGGAGTGGTTGACTGGTTTGCAGT
TTTTCATGCCAAACTTGATAAAAACTTCATTTGCAG
Found at i:5924651 original size:22 final size:22
Alignment explanation
Indices: 5924626--5924667 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
5924616 TTTAGTGTCA
*
5924626 TTGATTTAGCTTTAAAGGAACT
1 TTGATCTAGCTTTAAAGGAACT
*
5924648 TTGATCTATCTTTAAAGGAA
1 TTGATCTAGCTTTAAAGGAA
5924668 GTCAAGTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.10, G:0.17, T:0.40
Consensus pattern (22 bp):
TTGATCTAGCTTTAAAGGAACT
Found at i:5927471 original size:6 final size:6
Alignment explanation
Indices: 5927455--5927494 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
5927445 ATTGATAGTC
* * *
5927455 TTGTTT GTGTTT TTGTTT TTTTTT TTTTTT TTGTTT TTGT
1 TTGTTT TTGTTT TTGTTT TTGTTT TTGTTT TTGTTT TTGT
5927495 AGTTTTGATG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (6 bp):
TTGTTT
Found at i:5929515 original size:28 final size:28
Alignment explanation
Indices: 5929462--5929515 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
5929452 TGCCCCAAAG
* *
5929462 TCAAACTTAGTCAAACTAGATAAAAAAA
1 TCAAACTTAATCAAAATAGATAAAAAAA
* *
5929490 TCAAACTTAATCAAAATTGATCAAAA
1 TCAAACTTAATCAAAATAGATAAAAA
5929516 TCGATCAAAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.56, C:0.15, G:0.06, T:0.24
Consensus pattern (28 bp):
TCAAACTTAATCAAAATAGATAAAAAAA
Found at i:5930547 original size:14 final size:14
Alignment explanation
Indices: 5930522--5930562 Score: 50
Period size: 13 Copynumber: 3.1 Consensus size: 14
5930512 CAGTAGTGTG
5930522 AAATAG-AGGAAAA
1 AAATAGAAGGAAAA
5930535 AAATAGAAGGAAAA
1 AAATAGAAGGAAAA
* *
5930549 ACAT-GAAAGAAAA
1 AAATAGAAGGAAAA
5930562 A
1 A
5930563 GGAAAAGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 15 0.60
14 10 0.40
ACGTcount: A:0.71, C:0.02, G:0.20, T:0.07
Consensus pattern (14 bp):
AAATAGAAGGAAAA
Found at i:5931574 original size:7 final size:7
Alignment explanation
Indices: 5931562--5931596 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
5931552 AAATTCCATG
5931562 AAATCCT
1 AAATCCT
5931569 AAATCCT
1 AAATCCT
*
5931576 AAACCCT
1 AAATCCT
*
5931583 AAAACCT
1 AAATCCT
5931590 AAATCCT
1 AAATCCT
5931597 GAACGCAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.23
Consensus pattern (7 bp):
AAATCCT
Found at i:5931585 original size:14 final size:14
Alignment explanation
Indices: 5931566--5931644 Score: 54
Period size: 14 Copynumber: 5.6 Consensus size: 14
5931556 TCCATGAAAT
*
5931566 CCTAAATCCTAAAC
1 CCTAAAACCTAAAC
*
5931580 CCTAAAACCTAAAT
1 CCTAAAACCTAAAC
* *
5931594 CCT-GAACGCAAAAAC
1 CCTAAAAC-C-TAAAC
* **
5931609 GCTAAATGCTAAAC
1 CCTAAAACCTAAAC
*
5931623 CCTAAAACCAAAAC
1 CCTAAAACCTAAAC
5931637 CC-AAAACC
1 CCTAAAACC
5931645 CTAACCTAGA
Statistics
Matches: 48, Mismatches: 14, Indels: 7
0.70 0.20 0.10
Matches are distributed among these distances:
13 9 0.19
14 32 0.67
15 6 0.12
16 1 0.02
ACGTcount: A:0.48, C:0.33, G:0.05, T:0.14
Consensus pattern (14 bp):
CCTAAAACCTAAAC
Found at i:5931592 original size:21 final size:21
Alignment explanation
Indices: 5931566--5931648 Score: 94
Period size: 21 Copynumber: 3.9 Consensus size: 21
5931556 TCCATGAAAT
5931566 CCTAAATCCTAAACCCTAAAA
1 CCTAAATCCTAAACCCTAAAA
* * *
5931587 CCTAAATCCTGAACGCAAAAA
1 CCTAAATCCTAAACCCTAAAA
*
5931608 CGCTAAATGCTAAACCCTAAAA
1 C-CTAAATCCTAAACCCTAAAA
* * *
5931630 CCAAAACCCAAAACCCTAA
1 CCTAAATCCTAAACCCTAA
5931649 CCTAGACCCT
Statistics
Matches: 50, Mismatches: 11, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
21 33 0.66
22 17 0.34
ACGTcount: A:0.48, C:0.33, G:0.05, T:0.14
Consensus pattern (21 bp):
CCTAAATCCTAAACCCTAAAA
Found at i:5933368 original size:13 final size:13
Alignment explanation
Indices: 5933324--5933371 Score: 60
Period size: 13 Copynumber: 3.7 Consensus size: 13
5933314 AATGAAACCC
*
5933324 AAAAAATAAAAAA
1 AAAAAACAAAAAA
** *
5933337 AAAATCCAAAACA
1 AAAAAACAAAAAA
5933350 AAAAAACAAAAAA
1 AAAAAACAAAAAA
5933363 AAAAAACAA
1 AAAAAACAA
5933372 CAACGACAAC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.85, C:0.10, G:0.00, T:0.04
Consensus pattern (13 bp):
AAAAAACAAAAAA
Found at i:5933388 original size:6 final size:6
Alignment explanation
Indices: 5933325--5933403 Score: 58
Period size: 6 Copynumber: 13.7 Consensus size: 6
5933315 ATGAAACCCA
* * *
5933325 AAAAAT AAAAA- AAAAATC CAAAAC AAAAA- AACAA- AAAAA- AAAAAC
1 AAAAAC AAAAAC AAAAA-C AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC
* * * *
5933370 AACAAC GACAAC AAAAAC AAAATC AAAAAC AAAA
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAAAC AAAA
5933404 TTTTTCAAAA
Statistics
Matches: 60, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
5 18 0.30
6 38 0.63
7 4 0.07
ACGTcount: A:0.80, C:0.15, G:0.01, T:0.04
Consensus pattern (6 bp):
AAAAAC
Found at i:5933638 original size:38 final size:38
Alignment explanation
Indices: 5933595--5933674 Score: 108
Period size: 38 Copynumber: 2.1 Consensus size: 38
5933585 GAGTTGAAAA
* * *
5933595 TAATAAGATAGTATATGCATTTCAT-TTCATGCACATTT
1 TAATAAAATAGTACATGCATTTCATCTT-ATGCACATAT
*
5933633 TAATAAAATAGTGCATGCATTTCATCTTATGCACATAT
1 TAATAAAATAGTACATGCATTTCATCTTATGCACATAT
5933671 TAAT
1 TAAT
5933675 GGTAGTATCA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
38 35 0.95
39 2 0.05
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (38 bp):
TAATAAAATAGTACATGCATTTCATCTTATGCACATAT
Found at i:5939413 original size:8 final size:8
Alignment explanation
Indices: 5939400--5939564 Score: 100
Period size: 8 Copynumber: 20.6 Consensus size: 8
5939390 TTAGGGTATC
5939400 GTTTTAGG
1 GTTTTAGG
5939408 GTTTTAGG
1 GTTTTAGG
**
5939416 G-TTTAAA
1 GTTTTAGG
* *
5939423 GTCTTAGA
1 GTTTTAGG
*
5939431 TTTTTGAGG
1 GTTTT-AGG
*
5939440 TTTTTAGG
1 GTTTTAGG
*
5939448 GTTTTAAG
1 GTTTTAGG
5939456 GTTTTAGG
1 GTTTTAGG
*
5939464 GTTTT-GA
1 GTTTTAGG
*
5939471 ATTTTAGG
1 GTTTTAGG
* *
5939479 TTTTTAAG
1 GTTTTAGG
*
5939487 GTTTTAATG
1 GTTTT-AGG
*
5939496 GTTCTAGG
1 GTTTTAGG
*
5939504 GTTTTAAG
1 GTTTTAGG
* *
5939512 GTTTAAAG
1 GTTTTAGG
*
5939520 GTTTTGGG
1 GTTTTAGG
*
5939528 GTTTTAAG
1 GTTTTAGG
* *
5939536 GTTTAAAG
1 GTTTTAGG
*
5939544 GTTTTGGG
1 GTTTTAGG
*
5939552 GTTTTAAG
1 GTTTTAGG
5939560 GTTTT
1 GTTTT
5939565 GAATTTAGGG
Statistics
Matches: 120, Mismatches: 33, Indels: 8
0.75 0.20 0.05
Matches are distributed among these distances:
7 10 0.08
8 97 0.81
9 13 0.11
ACGTcount: A:0.19, C:0.01, G:0.29, T:0.50
Consensus pattern (8 bp):
GTTTTAGG
Found at i:5939522 original size:24 final size:24
Alignment explanation
Indices: 5939400--5939563 Score: 145
Period size: 24 Copynumber: 6.8 Consensus size: 24
5939390 TTAGGGTATC
*
5939400 GTTTTAGGGTTTTAGGGTTTAAA-
1 GTTTTAGGGTTTTAAGGTTTAAAG
* ** * * *
5939423 GTCTTAGATTTTTGAGGTTTTTAGG
1 GTTTTAGGGTTTTAAGG-TTTAAAG
* * *
5939448 GTTTTAAGGTTTTAGGGTTTTGAA-
1 GTTTTAGGGTTTTAAGGTTT-AAAG
* *
5939472 -TTTTAGGTTTTTAAGGTTTTAATG
1 GTTTTAGGGTTTTAAGG-TTTAAAG
*
5939496 GTTCTAGGGTTTTAAGGTTTAAAG
1 GTTTTAGGGTTTTAAGGTTTAAAG
*
5939520 GTTTTGGGGTTTTAAGGTTTAAAG
1 GTTTTAGGGTTTTAAGGTTTAAAG
*
5939544 GTTTTGGGGTTTTAAGGTTT
1 GTTTTAGGGTTTTAAGGTTT
5939564 TGAATTTAGG
Statistics
Matches: 110, Mismatches: 25, Indels: 11
0.75 0.17 0.08
Matches are distributed among these distances:
23 26 0.24
24 58 0.53
25 26 0.24
ACGTcount: A:0.20, C:0.01, G:0.29, T:0.50
Consensus pattern (24 bp):
GTTTTAGGGTTTTAAGGTTTAAAG
Found at i:5939654 original size:3 final size:3
Alignment explanation
Indices: 5939648--5939684 Score: 65
Period size: 3 Copynumber: 12.0 Consensus size: 3
5939638 CTTCTTTTTC
5939648 ATT ATT ATT AATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT
5939685 CTATTTTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:5943357 original size:70 final size:70
Alignment explanation
Indices: 5943166--5943358 Score: 185
Period size: 70 Copynumber: 2.8 Consensus size: 70
5943156 ACTAAATCAT
** * * * *
5943166 GATGATCAGGACTAAACTGCAAGTCAATAAATAAAAATGACTGAGACTGAATC-ATGAGTCAAAG
1 GATGATCAAAACTAAATTGCAAGTCAAGAAATAAAAACGACCGAGACTGAA-CAATGAGTCAAAG
5943230 AATAAA
65 AATAAA
* * * * * * * **
5943236 GATGATCGAGACTGAGTTGCAAGTCAGGAAATAAAAACGA-CGATGATTGAACAATTAGTTGAAG
1 GATGATCAAAACTAAATTGCAAGTCAAGAAATAAAAACGACCGA-GACTGAACAATGAGTCAAAG
5943300 AATAAA
65 AATAAA
* *
5943306 GATGAGT-AAAACTAAATTGTAAGTCAAGAAATAAAAACGACCGGGACTGAACA
1 GATGA-TCAAAACTAAATTGCAAGTCAAGAAATAAAAACGACCGAGACTGAACA
5943359 GCCAATTGAA
Statistics
Matches: 98, Mismatches: 21, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
69 3 0.03
70 92 0.94
71 3 0.03
ACGTcount: A:0.47, C:0.12, G:0.21, T:0.20
Consensus pattern (70 bp):
GATGATCAAAACTAAATTGCAAGTCAAGAAATAAAAACGACCGAGACTGAACAATGAGTCAAAGA
ATAAA
Found at i:5943390 original size:70 final size:70
Alignment explanation
Indices: 5943175--5943390 Score: 177
Period size: 70 Copynumber: 3.1 Consensus size: 70
5943165 TGATGATCAG
* * * ** * **
5943175 GACTAAACTGCAAGTCAATAAATAAAAATGACTGA-GACTGAATC-ATGAGTCAAAGAATAAAGA
1 GACTAAATTGCAAGTCAAGAAATAAAAACGAC-GAGGACTGAA-CAACCAATTGAAGAATAAAGA
*
5943238 TGATCGA
64 TGATTGA
* * * * * ** *
5943245 GACTGAGTTGCAAGTCAGGAAATAAAAACGACGATGATTGAACAATTAGTTGAAGAATAAAGATG
1 GACTAAATTGCAAGTCAAGAAATAAAAACGACGAGGACTGAACAACCAATTGAAGAATAAAGATG
* *
5943310 AGTAA
66 ATTGA
* * * *
5943315 AACTAAATTGTAAGTCAAGAAATAAAAACGACCG-GGACTGAACAGCCAATTGAAGAATATAGAT
1 GACTAAATTGCAAGTCAAGAAATAAAAACGA-CGAGGACTGAACAACCAATTGAAGAATAAAGAT
5943379 GATTGA
65 GATTGA
5943385 GACTAA
1 GACTAA
5943391 GCCAAAAGTT
Statistics
Matches: 115, Mismatches: 28, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
69 3 0.03
70 110 0.96
71 2 0.02
ACGTcount: A:0.47, C:0.12, G:0.21, T:0.20
Consensus pattern (70 bp):
GACTAAATTGCAAGTCAAGAAATAAAAACGACGAGGACTGAACAACCAATTGAAGAATAAAGATG
ATTGA
Found at i:5943424 original size:70 final size:69
Alignment explanation
Indices: 5943326--5943481 Score: 159
Period size: 70 Copynumber: 2.2 Consensus size: 69
5943316 ACTAAATTGT
* * ** * ** * *
5943326 AAGTCAAGAAATAAAAACGACCGGGACTGAACAGCCAATTGAAGAATATAGATGATTGAGACTAA
1 AAGTCAAGAAATAAAGATGATTGTGACTGAACAGCCAATCAAAGAATAAAGATGATCGAGACTAA
5943391 GCCAA
66 GCC-A
* * ** *
5943396 AAGTTAAGAAATAAAGATGATTGTGACTGAACCGTGAATCAAAGAATAAAGATGATCGAGATTAA
1 AAGTCAAGAAATAAAGATGATTGTGACTGAACAGCCAATCAAAGAATAAAGATGATCGAGACTAA
*
5943461 GCCC
66 GCCA
*
5943465 AAGTCAGGAAATAAAGA
1 AAGTCAAGAAATAAAGA
5943482 CAATTGAAAG
Statistics
Matches: 69, Mismatches: 17, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
69 15 0.22
70 54 0.78
ACGTcount: A:0.47, C:0.13, G:0.22, T:0.18
Consensus pattern (69 bp):
AAGTCAAGAAATAAAGATGATTGTGACTGAACAGCCAATCAAAGAATAAAGATGATCGAGACTAA
GCCA
Found at i:5943614 original size:105 final size:104
Alignment explanation
Indices: 5943430--5943620 Score: 247
Period size: 105 Copynumber: 1.8 Consensus size: 104
5943420 GACTGAACCG
* * **
5943430 TGAATCAAAGAATAAAGATGATCGAGATTAAGCCCAAGTCAGGAAATAAAGACAATTGAAAGTAA
1 TGAATCAAAGAATAAAGATAATCGAGATTAAGCCCAAATCAGGAAATAAAGACAATTGAAACAAA
* *
5943495 ACCGTGAGTTAAAGAATAAAGATAACTAGGACTAAAACA
66 ACCGTAAGTCAAAGAATAAAGATAACTAGGACTAAAACA
* * * * * **
5943534 TGAATCGAAGAATAAAGATAATCGGGATTGAGCAGCAAATCAGGAAATAAAGACGATTGGGACAA
1 TGAATCAAAGAATAAAGATAATCGAGATTAAGC-CCAAATCAGGAAATAAAGACAATTGAAACAA
*
5943599 AACCTTAAGTCAAAGAATAAAG
65 AACCGTAAGTCAAAGAATAAAG
5943621 GTGACTGTGA
Statistics
Matches: 72, Mismatches: 14, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
104 29 0.40
105 43 0.60
ACGTcount: A:0.50, C:0.12, G:0.21, T:0.18
Consensus pattern (104 bp):
TGAATCAAAGAATAAAGATAATCGAGATTAAGCCCAAATCAGGAAATAAAGACAATTGAAACAAA
ACCGTAAGTCAAAGAATAAAGATAACTAGGACTAAAACA
Found at i:5943955 original size:69 final size:70
Alignment explanation
Indices: 5943824--5943975 Score: 184
Period size: 69 Copynumber: 2.2 Consensus size: 70
5943814 CAAATCGAAG
* * *
5943824 AATAAAGATGATGGAGACTGAGTTACAAGTCAGAAAATAAAGACGACCATGACTCAACCACGAGT
1 AATAAAGATGATCGAGACTGAGTTACAAGTCAGAAAATAAAAACGACCATGACTAAACCACGAGT
5943889 CAAAA
66 CAAAA
* * * *
5943894 AATAAAGATGA-CGAGA-TCGAGTTGCAAGTCAGGAAATAAAAACTACCGA-GACTAAATCACGA
1 AATAAAGATGATCGAGACT-GAGTTACAAGTCAGAAAATAAAAACGACC-ATGACTAAACCACGA
*
5943956 GTCAAAG
64 GTCAAAA
*
5943963 AATAAAAATGATC
1 AATAAAGATGATC
5943976 AGGACTAAAC
Statistics
Matches: 70, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
68 1 0.01
69 56 0.80
70 13 0.19
ACGTcount: A:0.48, C:0.16, G:0.20, T:0.16
Consensus pattern (70 bp):
AATAAAGATGATCGAGACTGAGTTACAAGTCAGAAAATAAAAACGACCATGACTAAACCACGAGT
CAAAA
Found at i:5945299 original size:23 final size:23
Alignment explanation
Indices: 5945133--5945331 Score: 117
Period size: 23 Copynumber: 8.9 Consensus size: 23
5945123 AAGCTTGTTG
*
5945133 GTGCCAACTAATATGAGCTTAAA
1 GTGCCAACTAATATGGGCTTAAA
* ** * *
5945156 ATTTCAACTAATCTGGGCTT-AG
1 GTGCCAACTAATATGGGCTTAAA
*
5945178 GTGCCAACTAAT-TGGGCTTAAT
1 GTGCCAACTAATATGGGCTTAAA
* * **
5945200 GTGCTAGCTAATATGGGCTT-GG
1 GTGCCAACTAATATGGGCTTAAA
*** ** *
5945222 GTTATAGTTAATATGGGCTT-GA
1 GTGCCAACTAATATGGGCTTAAA
5945244 GTGCCAAACTAATA-GGG--TATAA
1 GTGCC-AACTAATATGGGCTTA-AA
*
5945266 GAGCCAACTAATATGGGCTTAAA
1 GTGCCAACTAATATGGGCTTAAA
* * *
5945289 GTGCCAGCTAATTTGGGTTTAAA
1 GTGCCAACTAATATGGGCTTAAA
*
5945312 GTGCCAGCTAA-ATTGGGCTT
1 GTGCCAACTAATA-TGGGCTT
5945332 GATGCCACCT
Statistics
Matches: 136, Mismatches: 31, Indels: 18
0.74 0.17 0.10
Matches are distributed among these distances:
20 1 0.01
21 15 0.11
22 52 0.38
23 66 0.49
24 2 0.01
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (23 bp):
GTGCCAACTAATATGGGCTTAAA
Found at i:5945586 original size:14 final size:13
Alignment explanation
Indices: 5945569--5945629 Score: 58
Period size: 13 Copynumber: 4.9 Consensus size: 13
5945559 GATAGGCTTT
5945569 CTTTTCTTTTCTTG
1 CTTTT-TTTTCTTG
*
5945583 CTTTTTTTTTTTG
1 CTTTTTTTTCTTG
*
5945596 CTCTTTTTTC-T-
1 CTTTTTTTTCTTG
5945607 -TTTTTTTT-TTG
1 CTTTTTTTTCTTG
*
5945618 CTCTTTTTTCTT
1 CTTTTTTTTCTT
5945630 TTTTTCTTGG
Statistics
Matches: 38, Mismatches: 5, Indels: 9
0.73 0.10 0.17
Matches are distributed among these distances:
10 8 0.21
12 8 0.21
13 17 0.45
14 5 0.13
ACGTcount: A:0.00, C:0.16, G:0.05, T:0.79
Consensus pattern (13 bp):
CTTTTTTTTCTTG
Found at i:5945602 original size:9 final size:7
Alignment explanation
Indices: 5945570--5945633 Score: 60
Period size: 7 Copynumber: 8.6 Consensus size: 7
5945560 ATAGGCTTTC
5945570 TTTTCTT
1 TTTTCTT
5945577 TTCTTGCTT
1 TT-TT-CTT
5945586 TTTT-TT
1 TTTTCTT
5945592 TTTGCTCTT
1 TTT--TCTT
5945601 TTTTCTT
1 TTTTCTT
5945608 TTTT-TT
1 TTTTCTT
5945614 TTTGCTCTT
1 TTT--TCTT
5945623 TTTTCTT
1 TTTTCTT
5945630 TTTT
1 TTTT
5945634 TCTTGGTTGA
Statistics
Matches: 49, Mismatches: 0, Indels: 16
0.75 0.00 0.25
Matches are distributed among these distances:
6 10 0.20
7 18 0.37
8 6 0.12
9 15 0.31
ACGTcount: A:0.00, C:0.14, G:0.05, T:0.81
Consensus pattern (7 bp):
TTTTCTT
Found at i:5945611 original size:22 final size:22
Alignment explanation
Indices: 5945573--5945634 Score: 106
Period size: 22 Copynumber: 2.7 Consensus size: 22
5945563 GGCTTTCTTT
5945573 TCTTTTCTTGCTTTTTTTTTTTGC
1 TCTTTT-TT-CTTTTTTTTTTTGC
5945597 TCTTTTTTCTTTTTTTTTTTGC
1 TCTTTTTTCTTTTTTTTTTTGC
5945619 TCTTTTTTCTTTTTTT
1 TCTTTTTTCTTTTTTT
5945635 CTTGGTTGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
22 30 0.79
23 2 0.05
24 6 0.16
ACGTcount: A:0.00, C:0.15, G:0.05, T:0.81
Consensus pattern (22 bp):
TCTTTTTTCTTTTTTTTTTTGC
Found at i:5945637 original size:15 final size:15
Alignment explanation
Indices: 5945565--5945637 Score: 62
Period size: 15 Copynumber: 4.7 Consensus size: 15
5945555 CAATGATAGG
5945565 CTTTCTTTTCTTTTCTT
1 CTTT-TTTTCTTTT-TT
*
5945582 GC-TTTTTT-TTTTTG
1 -CTTTTTTTCTTTTTT
5945596 CTCTTTTTTCTTTTTT
1 CT-TTTTTTCTTTTTT
*
5945612 -TTTTTGCTCTTTTTT
1 CTTTTT-TTCTTTTTT
5945627 CTTTTTTTCTT
1 CTTTTTTTCTT
5945638 GGTTGAATTT
Statistics
Matches: 46, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
13 1 0.02
14 5 0.11
15 23 0.50
16 14 0.30
17 2 0.04
18 1 0.02
ACGTcount: A:0.00, C:0.16, G:0.04, T:0.79
Consensus pattern (15 bp):
CTTTTTTTCTTTTTT
Found at i:5946170 original size:12 final size:12
Alignment explanation
Indices: 5946153--5946179 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
5946143 CAATGATGCA
5946153 AATGCTTCTTGC
1 AATGCTTCTTGC
5946165 AATGCTTCTTGC
1 AATGCTTCTTGC
5946177 AAT
1 AAT
5946180 TGCAAAATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.22, G:0.15, T:0.41
Consensus pattern (12 bp):
AATGCTTCTTGC
Found at i:5952528 original size:3 final size:3
Alignment explanation
Indices: 5952520--5952569 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
5952510 TCCTATTTGC
5952520 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
5952568 AT
1 AT
5952570 GTTTAAGAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:5955757 original size:14 final size:14
Alignment explanation
Indices: 5955730--5955764 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
5955720 CAAAAACAAA
5955730 AAAAAAAGAGAAAG
1 AAAAAAAGAGAAAG
5955744 AAGAAAAAGA-AAAG
1 AA-AAAAAGAGAAAG
5955758 AAAAAAA
1 AAAAAAA
5955765 TTACGAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 5 0.25
14 8 0.40
15 7 0.35
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (14 bp):
AAAAAAAGAGAAAG
Found at i:5957214 original size:9 final size:9
Alignment explanation
Indices: 5957200--5957295 Score: 66
Period size: 9 Copynumber: 9.6 Consensus size: 9
5957190 CATGTCAGTA
*
5957200 TAAAAATTC
1 TAAAAATTT
5957209 TAAAAATTTAT
1 TAAAAA-TT-T
5957220 TAAAAATTT
1 TAAAAATTT
5957229 TAAAAATGTT
1 TAAAAAT-TT
*
5957239 TTAAAATTT
1 TAAAAATTT
5957248 TCAAAAAAATTCT
1 T---AAAAATT-T
*
5957261 AAAAAATATTTT
1 -TAAAA-A-TTT
5957273 TAAAAATTT
1 TAAAAATTT
*
5957282 AAAAAATTT
1 TAAAAATTT
5957291 TAAAA
1 TAAAA
5957296 GAAATTTGGC
Statistics
Matches: 70, Mismatches: 7, Indels: 20
0.72 0.07 0.21
Matches are distributed among these distances:
9 32 0.46
10 13 0.19
11 14 0.20
12 8 0.11
13 3 0.04
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (9 bp):
TAAAAATTT
Found at i:5957225 original size:20 final size:20
Alignment explanation
Indices: 5957200--5957244 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
5957190 CATGTCAGTA
5957200 TAAAAATTCTAAAAAT-TTAT
1 TAAAAATTCTAAAAATGTT-T
*
5957220 TAAAAATTTTAAAAATGTTT
1 TAAAAATTCTAAAAATGTTT
5957240 TAAAA
1 TAAAA
5957245 TTTTCAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 21 0.91
21 2 0.09
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (20 bp):
TAAAAATTCTAAAAATGTTT
Found at i:5957256 original size:31 final size:30
Alignment explanation
Indices: 5957209--5957295 Score: 95
Period size: 31 Copynumber: 2.8 Consensus size: 30
5957199 ATAAAAATTC
5957209 TAAAAATTTATTAAAAATTTTAAAAAT-GTTT
1 TAAAAATTTA--AAAAATTTTAAAAATAGTTT
* * *
5957240 TAAAATTTTCAAAAAAATTCTAAAAAATATTTT
1 TAAAAATTT--AAAAAATT-TTAAAAATAGTTT
5957273 TAAAAATTTAAAAAATTTTAAAA
1 TAAAAATTTAAAAAATTTTAAAA
5957296 GAAATTTGGC
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
30 5 0.11
31 23 0.49
32 7 0.15
33 12 0.26
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.40
Consensus pattern (30 bp):
TAAAAATTTAAAAAATTTTAAAAATAGTTT
Found at i:5957263 original size:20 final size:19
Alignment explanation
Indices: 5957222--5957264 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
5957212 AAATTTATTA
** *
5957222 AAAATTTTAAAAATGTTTT
1 AAAATTTTAAAAAAATTCT
5957241 AAAATTTTCAAAAAAATTCT
1 AAAATTTT-AAAAAAATTCT
5957261 AAAA
1 AAAA
5957265 AATATTTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (19 bp):
AAAATTTTAAAAAAATTCT
Found at i:5957302 original size:12 final size:11
Alignment explanation
Indices: 5957221--5957302 Score: 59
Period size: 11 Copynumber: 7.7 Consensus size: 11
5957211 AAAATTTATT
5957221 AAAAATTTTAA
1 AAAAATTTTAA
**
5957232 AAATGTTTT--
1 AAAAATTTTAA
5957241 -AAAATTTTCAA
1 AAAAATTTT-AA
*
5957252 AAAAATTCTAA
1 AAAAATTTTAA
*
5957263 AAAATATTTT-T
1 AAAA-ATTTTAA
5957274 AAAAA-TTT-A
1 AAAAATTTTAA
5957283 AAAAATTTTAA
1 AAAAATTTTAA
5957294 AAGAAATTT
1 AA-AAATTT
5957303 GGCATAATTT
Statistics
Matches: 55, Mismatches: 8, Indels: 15
0.71 0.10 0.19
Matches are distributed among these distances:
8 6 0.11
9 8 0.15
10 4 0.07
11 20 0.36
12 17 0.31
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.39
Consensus pattern (11 bp):
AAAAATTTTAA
Found at i:5958410 original size:26 final size:26
Alignment explanation
Indices: 5958370--5958420 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
5958360 AAAAAGGCGG
* *
5958370 TTTTTTT-GAATTTTTTGAAATTTTAA
1 TTTTTTTAAAATTTTTAG-AATTTTAA
5958396 TTTTTTTAAAATTTTTAGAATTTTA
1 TTTTTTTAAAATTTTTAGAATTTTA
5958421 GAATTTTAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 14 0.64
27 8 0.36
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (26 bp):
TTTTTTTAAAATTTTTAGAATTTTAA
Found at i:5958447 original size:8 final size:8
Alignment explanation
Indices: 5958408--5958435 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
5958398 TTTTTAAAAT
5958408 TTTTAGAA
1 TTTTAGAA
5958416 TTTTAGAA
1 TTTTAGAA
5958424 TTTTAGAA
1 TTTTAGAA
5958432 TTTT
1 TTTT
5958436 TTTTAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (8 bp):
TTTTAGAA
Done.