Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008979.1 Hibiscus syriacus cultivar Beakdansim tig00112339_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: 1115631
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 6
Found at i:681685 original size:16 final size:15
Alignment explanation
Indices: 681659--681732 Score: 58
Period size: 16 Copynumber: 4.3 Consensus size: 15
681649 ATATTATGTT
681659 ATATTTATTTTTTAA
1 ATATTTATTTTTTAA
681674 ATATTTAGTTTTTGTATTA
1 ATATTTA-TTTTT-TA--A
681693 TGCTATATTTATTTTTTTAA
1 ----ATATTTA-TTTTTTAA
681713 ATATTTTATTTTTTAA
1 ATA-TTTATTTTTTAA
681729 ATAT
1 ATAT
681733 AAAAAGTAAA
Statistics
Matches: 49, Mismatches: 1, Indels: 18
0.72 0.01 0.26
Matches are distributed among these distances:
15 8 0.16
16 19 0.39
17 6 0.12
19 1 0.02
20 1 0.02
22 2 0.04
23 12 0.24
ACGTcount: A:0.30, C:0.01, G:0.04, T:0.65
Consensus pattern (15 bp):
ATATTTATTTTTTAA
Found at i:681725 original size:39 final size:39
Alignment explanation
Indices: 681635--681727 Score: 134
Period size: 38 Copynumber: 2.4 Consensus size: 39
681625 TTATATATTT
* *
681635 ATATGTTAGTTTTTATATTATGTTATATTTATTTTTTAA
1 ATATTTTAGTTTTTATATTATGCTATATTTATTTTTTAA
*
681674 ATA-TTTAGTTTTTGTATTATGCTATATTTATTTTTTTAA
1 ATATTTTAGTTTTTATATTATGCTATATTTA-TTTTTTAA
*
681713 ATATTTTATTTTTTA
1 ATATTTTAGTTTTTA
681728 AATATAAAAA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
38 24 0.51
39 14 0.30
40 9 0.19
ACGTcount: A:0.27, C:0.01, G:0.06, T:0.66
Consensus pattern (39 bp):
ATATTTTAGTTTTTATATTATGCTATATTTATTTTTTAA
Found at i:683350 original size:20 final size:20
Alignment explanation
Indices: 683325--683376 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
683315 CTCGAAGGGA
*
683325 ACCGATTCCCCCCAGGGGGT
1 ACCGATTCCCCCAAGGGGGT
683345 ACCGATTCCCCCAAGGGGGT
1 ACCGATTCCCCCAAGGGGGT
683365 ACCGATTCCCCC
1 ACCGATTCCCCC
683377 TTGTATAACG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.17, C:0.42, G:0.25, T:0.15
Consensus pattern (20 bp):
ACCGATTCCCCCAAGGGGGT
Found at i:684580 original size:21 final size:21
Alignment explanation
Indices: 684556--684595 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
684546 TTTTCAAAGG
684556 CATGCACCGATGCATCAATAC
1 CATGCACCGATGCATCAATAC
*
684577 CATGCATCGATGCATCAAT
1 CATGCACCGATGCATCAAT
684596 GAATAAATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.30, G:0.15, T:0.23
Consensus pattern (21 bp):
CATGCACCGATGCATCAATAC
Found at i:684645 original size:19 final size:19
Alignment explanation
Indices: 684621--684659 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
684611 TCGAATGCAT
*
684621 TCCATGCACCGATGCACTC
1 TCCATGCACCGATACACTC
*
684640 TCCATGCATCGATACACTC
1 TCCATGCACCGATACACTC
684659 T
1 T
684660 GATTTAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.23, C:0.38, G:0.13, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATACACTC
Found at i:684683 original size:64 final size:64
Alignment explanation
Indices: 684556--684766 Score: 207
Period size: 64 Copynumber: 3.2 Consensus size: 64
684546 TTTTCAAAGG
* * *
684556 CATGCACCGATGCA-TCAATACCATGCATCGATGCA-TCAATGAATAAATTGAAACATCGAATGC
1 CATGCACCGATGCACTC--T-CCATGCATCGATGCACTC-ATGATTTAATTAAAACATCGAATGC
684619 ATT
62 ATT
*
684622 CCATGCACCGATGCACTCTCCATGCATCGATACACTC-TGATTTAATTAAAACATCGAATGCATT
1 -CATGCACCGATGCACTCTCCATGCATCGATGCACTCATGATTTAATTAAAACATCGAATGCA-T
684686 T
64 T
* * ** * * *
684687 GATGCATCGATGCACAATCCATGCATCGATGCAC-CAGGATATT-TTTCAAACATCGAATGCACT
1 CATGCACCGATGCACTCTCCATGCATCGATGCACTCATGAT-TTAATTAAAACATCGAATGCA-T
684750 T
64 T
*
684751 CATGCATCGATGCACT
1 CATGCACCGATGCACT
684767 AGGAGTCCAA
Statistics
Matches: 124, Mismatches: 15, Indels: 13
0.82 0.10 0.09
Matches are distributed among these distances:
63 1 0.01
64 86 0.69
65 18 0.15
66 3 0.02
67 14 0.11
68 2 0.02
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.27
Consensus pattern (64 bp):
CATGCACCGATGCACTCTCCATGCATCGATGCACTCATGATTTAATTAAAACATCGAATGCATT
Found at i:687445 original size:30 final size:30
Alignment explanation
Indices: 687409--687468 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
687399 ACAATTTAAG
687409 GCAAAATGTTTTTGGACTTGAATTGAATTT
1 GCAAAATGTTTTTGGACTTGAATTGAATTT
* *
687439 GCAAAATTTTTTTGGATTTGAATTGAATTT
1 GCAAAATGTTTTTGGACTTGAATTGAATTT
687469 ATTCAAAGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.30, C:0.05, G:0.18, T:0.47
Consensus pattern (30 bp):
GCAAAATGTTTTTGGACTTGAATTGAATTT
Found at i:687576 original size:21 final size:21
Alignment explanation
Indices: 687550--687607 Score: 107
Period size: 21 Copynumber: 2.8 Consensus size: 21
687540 AGGGTGTCAA
687550 AGTGCATCCATGCATCCCTGC
1 AGTGCATCCATGCATCCCTGC
*
687571 AGTGCATCCATGTATCCCTGC
1 AGTGCATCCATGCATCCCTGC
687592 AGTGCATCCATGCATC
1 AGTGCATCCATGCATC
687608 TGCACTAATG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.21, C:0.34, G:0.19, T:0.26
Consensus pattern (21 bp):
AGTGCATCCATGCATCCCTGC
Found at i:687701 original size:21 final size:21
Alignment explanation
Indices: 687672--687745 Score: 114
Period size: 21 Copynumber: 3.6 Consensus size: 21
687662 GCAATTAGTT
*
687672 CATCGATGCATCCTTGCCATG
1 CATCCATGCATCCTTGCCATG
* *
687693 CAGCGATGCATCCTTGCCATG
1 CATCCATGCATCCTTGCCATG
687714 CATCCATGCATCC-TGCCATG
1 CATCCATGCATCCTTGCCATG
687734 CATCCATGCATC
1 CATCCATGCATC
687746 GATGCATCCT
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
20 19 0.38
21 31 0.62
ACGTcount: A:0.20, C:0.36, G:0.18, T:0.26
Consensus pattern (21 bp):
CATCCATGCATCCTTGCCATG
Found at i:687720 original size:8 final size:8
Alignment explanation
Indices: 687709--687801 Score: 84
Period size: 8 Copynumber: 13.1 Consensus size: 8
687699 TGCATCCTTG
687709 CCATGCAT
1 CCATGCAT
687717 CCATGCAT
1 CCATGCAT
687725 CC-TG---
1 CCATGCAT
687729 CCATGCAT
1 CCATGCAT
687737 CCATGCAT
1 CCATGCAT
*
687745 CGATGCAT
1 CCATGCAT
687753 CC-TG---
1 CCATGCAT
687757 CCATGCAT
1 CCATGCAT
687765 CCATGCAT
1 CCATGCAT
*
687773 CGATGCAT
1 CCATGCAT
687781 -CATG---
1 CCATGCAT
687785 CCATGCAT
1 CCATGCAT
687793 CCATGCAT
1 CCATGCAT
687801 C
1 C
687802 AAGGCTGCAA
Statistics
Matches: 69, Mismatches: 4, Indels: 24
0.71 0.04 0.25
Matches are distributed among these distances:
4 4 0.06
5 8 0.12
7 7 0.10
8 50 0.72
ACGTcount: A:0.23, C:0.37, G:0.16, T:0.25
Consensus pattern (8 bp):
CCATGCAT
Found at i:687732 original size:20 final size:20
Alignment explanation
Indices: 687672--687801 Score: 128
Period size: 20 Copynumber: 6.6 Consensus size: 20
687662 GCAATTAGTT
*
687672 CATCGATGCATCCTTGCCATG
1 CATCCATGCATCC-TGCCATG
* *
687693 CAGCGATGCATCCTTGCCATG
1 CATCCATGCATCC-TGCCATG
687714 CATCCATGCATCCTGCCATG
1 CATCCATGCATCCTGCCATG
687734 CATCCATGCAT-C-G--ATG
1 CATCCATGCATCCTGCCATG
*
687750 CATCC-TGCCATGCAT-CCATG
1 CATCCATG-CAT-CCTGCCATG
* *
687770 CATCGATGCATCATGCCATG
1 CATCCATGCATCCTGCCATG
687790 CATCCATGCATC
1 CATCCATGCATC
687802 AAGGCTGCAA
Statistics
Matches: 95, Mismatches: 6, Indels: 17
0.81 0.05 0.14
Matches are distributed among these distances:
15 2 0.02
16 11 0.12
18 1 0.01
19 4 0.04
20 44 0.46
21 33 0.35
ACGTcount: A:0.22, C:0.35, G:0.18, T:0.25
Consensus pattern (20 bp):
CATCCATGCATCCTGCCATG
Found at i:687743 original size:28 final size:28
Alignment explanation
Indices: 687709--687801 Score: 168
Period size: 28 Copynumber: 3.3 Consensus size: 28
687699 TGCATCCTTG
*
687709 CCATGCATCCATGCATCCTGCCATGCAT
1 CCATGCATCGATGCATCCTGCCATGCAT
687737 CCATGCATCGATGCATCCTGCCATGCAT
1 CCATGCATCGATGCATCCTGCCATGCAT
*
687765 CCATGCATCGATGCATCATGCCATGCAT
1 CCATGCATCGATGCATCCTGCCATGCAT
687793 CCATGCATC
1 CCATGCATC
687802 AAGGCTGCAA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 63 1.00
ACGTcount: A:0.23, C:0.37, G:0.16, T:0.25
Consensus pattern (28 bp):
CCATGCATCGATGCATCCTGCCATGCAT
Found at i:697926 original size:23 final size:24
Alignment explanation
Indices: 697899--697950 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
697889 ATGTTGTTTA
* *
697899 GTGTTTGTTTA-ATGTTCACGAAC
1 GTGTTTATTTATATGTCCACGAAC
697922 GTGTTTATTTATATGTCCACGAAC
1 GTGTTTATTTATATGTCCACGAAC
697946 GTGTT
1 GTGTT
697951 CATGAACAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 10 0.38
24 16 0.62
ACGTcount: A:0.21, C:0.13, G:0.21, T:0.44
Consensus pattern (24 bp):
GTGTTTATTTATATGTCCACGAAC
Found at i:701716 original size:20 final size:21
Alignment explanation
Indices: 701691--701729 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
701681 TATGTAAAGT
701691 AGTATCAATACCAT-AGGCAA
1 AGTATCAATACCATCAGGCAA
*
701711 AGTATCGATACCATCAGGC
1 AGTATCAATACCATCAGGC
701730 CCCAATGGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.21
Consensus pattern (21 bp):
AGTATCAATACCATCAGGCAA
Found at i:705851 original size:19 final size:19
Alignment explanation
Indices: 705823--705859 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
705813 AAATGATTTT
* *
705823 ATTTTGAAAGCTAAAATGG
1 ATTTTCAAAGCCAAAATGG
705842 ATTTTCAAAGCCAAAATG
1 ATTTTCAAAGCCAAAATG
705860 AAATTTTGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.11, G:0.16, T:0.30
Consensus pattern (19 bp):
ATTTTCAAAGCCAAAATGG
Found at i:712555 original size:2 final size:2
Alignment explanation
Indices: 712548--712575 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
712538 GAGAAATTGC
712548 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
712576 TCAATTACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:717467 original size:15 final size:15
Alignment explanation
Indices: 717447--717482 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
717437 AAAAGATAGA
*
717447 ATAAAATAAAATTAT
1 ATAAAATAAAATAAT
717462 ATAAAATAAAATAAT
1 ATAAAATAAAATAAT
717477 ATAAAA
1 ATAAAA
717483 AAATTAGCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
ATAAAATAAAATAAT
Found at i:718424 original size:20 final size:20
Alignment explanation
Indices: 718394--718440 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
718384 TGTATAGCTA
*
718394 ATTTT-TTTTATATAATTTT
1 ATTTTATTTTATATAATTGT
718413 ATTTTATTTTATATAATTGT
1 ATTTTATTTTATATAATTGT
*
718433 AGTTTATT
1 ATTTTATT
718441 CTATCTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.68
Consensus pattern (20 bp):
ATTTTATTTTATATAATTGT
Found at i:719346 original size:44 final size:44
Alignment explanation
Indices: 719298--719410 Score: 210
Period size: 44 Copynumber: 2.6 Consensus size: 44
719288 CAAGAATTGA
*
719298 AATCCAATTCCTTATTCTGTTTGGTTGGCAGGAAATTGAATTAG
1 AATCCAATTCCATATTCTGTTTGGTTGGCAGGAAATTGAATTAG
719342 AATCCAATTCCATATTCTGTTTGGTTGGCAGGAAATTGAATTAG
1 AATCCAATTCCATATTCTGTTTGGTTGGCAGGAAATTGAATTAG
719386 AATCCAATTCCATATT-TGTTTGGTT
1 AATCCAATTCCATATTCTGTTTGGTT
719411 CGCACACATG
Statistics
Matches: 68, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
43 9 0.13
44 59 0.87
ACGTcount: A:0.27, C:0.14, G:0.19, T:0.40
Consensus pattern (44 bp):
AATCCAATTCCATATTCTGTTTGGTTGGCAGGAAATTGAATTAG
Found at i:720026 original size:181 final size:188
Alignment explanation
Indices: 719767--720105 Score: 532
Period size: 181 Copynumber: 1.8 Consensus size: 188
719757 ACCCGACCTA
* * *
719767 AAATAATAATAAAATTATTTTTATTCAATAAAAATAGTGACTTATTTGAAAAATATTATATATAG
1 AAATAATAATAAAAATATTTTTATTCAATAAAAACAGTGACTTATTTGAAAAATAGTATATATAG
*
719832 AGGGGTATTATTGTAATTATTCCTAAATATATAAAGTAAAA-T-TATATAT-TTTT-T-GGGTCG
66 AGAGGTATTATTGTAATTATTCCTAAATATATAAAGTAAAATTATATATATATTTTGTCGGGTCG
719892 GGTCAGGTATTTTTCACCCTAAACCGGACCCGACCAAAATAAAGTTTCACCCGACTCG
131 GGTCAGGTATTTTTCACCCTAAACCGGACCCGACCAAAATAAAGTTTCACCCGACTCG
*
719950 AAATAATAA-AAAAATATTTTTATTCAATAAAAACAGTGACTTAATTT-TAAAA-AGTATATATA
1 AAATAATAATAAAAATATTTTTATTCAATAAAAACAGTGACTT-ATTTGAAAAATAGTATATATA
*
720012 GAGAGGTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATATATTTTCGGGTCGG
65 GAGAGGTATTATTGTAATTATTCCTAAATATATAAAGTAAAATTATATATATATTTT---GTCGG
720077 GTCGGGTCAGGTATTTTTCACCCTAAACC
127 GTCGGGTCAGGTATTTTTCACCCTAAACC
720106 CGAACTCGAC
Statistics
Matches: 141, Mismatches: 6, Indels: 12
0.89 0.04 0.08
Matches are distributed among these distances:
181 49 0.35
182 36 0.26
183 20 0.14
184 4 0.03
188 1 0.01
189 31 0.22
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.36
Consensus pattern (188 bp):
AAATAATAATAAAAATATTTTTATTCAATAAAAACAGTGACTTATTTGAAAAATAGTATATATAG
AGAGGTATTATTGTAATTATTCCTAAATATATAAAGTAAAATTATATATATATTTTGTCGGGTCG
GGTCAGGTATTTTTCACCCTAAACCGGACCCGACCAAAATAAAGTTTCACCCGACTCG
Found at i:721119 original size:13 final size:13
Alignment explanation
Indices: 721101--721128 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
721091 TGACATTTTT
721101 TTATTTTTTAATA
1 TTATTTTTTAATA
721114 TTATTTTTTAATA
1 TTATTTTTTAATA
721127 TT
1 TT
721129 TCATATCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
TTATTTTTTAATA
Found at i:723124 original size:42 final size:43
Alignment explanation
Indices: 723039--723138 Score: 177
Period size: 43 Copynumber: 2.4 Consensus size: 43
723029 ATCATTACAT
*
723039 TAATCTTTTAGTGTTTTAATAAAAAAATAAAAAGTAATGATTA
1 TAATCTTTTAGTGTTTTAATAAAAAAATAAAAAATAATGATTA
723082 TAATCTTTTAGTGTTTTAATAAAAAAATAAAAAATAAT-ATTA
1 TAATCTTTTAGTGTTTTAATAAAAAAATAAAAAATAATGATTA
723124 TAATC-TTTAGTGTTT
1 TAATCTTTTAGTGTTT
723139 AGTAAAAGAA
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
41 10 0.18
42 9 0.16
43 37 0.66
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.43
Consensus pattern (43 bp):
TAATCTTTTAGTGTTTTAATAAAAAAATAAAAAATAATGATTA
Found at i:725168 original size:75 final size:75
Alignment explanation
Indices: 724982--725169 Score: 196
Period size: 75 Copynumber: 2.5 Consensus size: 75
724972 TTTATGTTCA
* * * * * * **
724982 TCTACACTTAATATTATAGTTTAAGTCTTAAAATTTGACACTTTAATATTATGGTTTGATTATTT
1 TCTAAACTTAATATTGTGGTTTGAGTCTTGAAATTTGACACTTTAATATTATGATTTGATTATAA
725047 ATTTTATTAT
66 ATTTTATTAT
* * * * * * * *
725057 TCTAAAATTAATATTGTGGTTTGAATATTGAGATTTGACATTTTAATATTGTTATTTGTTTATAA
1 TCTAAACTTAATATTGTGGTTTGAGTCTTGAAATTTGACACTTTAATATTATGATTTGATTATAA
*
725122 ATTTTATTGT
66 ATTTTATTAT
* * *
725132 TTTAAACTTAATATTGTGGTTTGTGTCTTGACATTTGA
1 TCTAAACTTAATATTGTGGTTTGAGTCTTGAAATTTGA
725170 TTTTATTTAT
Statistics
Matches: 90, Mismatches: 23, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
75 90 1.00
ACGTcount: A:0.30, C:0.06, G:0.12, T:0.52
Consensus pattern (75 bp):
TCTAAACTTAATATTGTGGTTTGAGTCTTGAAATTTGACACTTTAATATTATGATTTGATTATAA
ATTTTATTAT
Found at i:727236 original size:25 final size:25
Alignment explanation
Indices: 727199--727249 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
727189 GCCCGAACTT
*
727199 GCATTCCTGGATCCATCGGTGTTAA
1 GCATTCCTAGATCCATCGGTGTTAA
* * *
727224 GCATTTCTAGATCTATCGGTTTTAA
1 GCATTCCTAGATCCATCGGTGTTAA
727249 G
1 G
727250 TTTAAGTCAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.37
Consensus pattern (25 bp):
GCATTCCTAGATCCATCGGTGTTAA
Found at i:739838 original size:2 final size:2
Alignment explanation
Indices: 739833--739864 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
739823 ACACACACAC
739833 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
739865 GTCATCATTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:741512 original size:37 final size:36
Alignment explanation
Indices: 741454--741531 Score: 84
Period size: 37 Copynumber: 2.1 Consensus size: 36
741444 ATATGGTTCA
* *
741454 TATATGTGCATGAGTCGATGTGGTGACATGATATTG
1 TATATGTGCATGAGTAGATGTGGTAACATGATATTG
* * * * *
741490 TATATGTTGCATGATTATATGTGTTAACATGCTTTTG
1 TATATG-TGCATGAGTAGATGTGGTAACATGATATTG
741527 TATAT
1 TATAT
741532 AATGATATAA
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
36 6 0.18
37 28 0.82
ACGTcount: A:0.26, C:0.08, G:0.23, T:0.44
Consensus pattern (36 bp):
TATATGTGCATGAGTAGATGTGGTAACATGATATTG
Found at i:745105 original size:21 final size:21
Alignment explanation
Indices: 745079--745129 Score: 102
Period size: 21 Copynumber: 2.4 Consensus size: 21
745069 GTACTCGAAA
745079 GACCACATAGATGTTCTGAAG
1 GACCACATAGATGTTCTGAAG
745100 GACCACATAGATGTTCTGAAG
1 GACCACATAGATGTTCTGAAG
745121 GACCACATA
1 GACCACATA
745130 TAACATATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.22
Consensus pattern (21 bp):
GACCACATAGATGTTCTGAAG
Found at i:758072 original size:64 final size:64
Alignment explanation
Indices: 758004--758138 Score: 198
Period size: 64 Copynumber: 2.1 Consensus size: 64
757994 ACACTAATTA
* * * *
758004 CATTCGATGTTTCAAAGAGCCAGGAGTGCATCGATGCATGGTTTGTGCATCGGTACACAAAATG
1 CATTCGATGTTTAAAAGAGCCAAGAGTGCATCGAAGCATGGCTTGTGCATCGGTACACAAAATG
* * **
758068 CATTCAATGTTTAAAATATTCAAGAGTGCATCGAAGCATGGCTTGTGCATCGGTACACAAAATG
1 CATTCGATGTTTAAAAGAGCCAAGAGTGCATCGAAGCATGGCTTGTGCATCGGTACACAAAATG
758132 CATTCGA
1 CATTCGA
758139 AATGGGTGTG
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
64 62 1.00
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (64 bp):
CATTCGATGTTTAAAAGAGCCAAGAGTGCATCGAAGCATGGCTTGTGCATCGGTACACAAAATG
Found at i:760834 original size:21 final size:22
Alignment explanation
Indices: 760774--760834 Score: 54
Period size: 21 Copynumber: 2.8 Consensus size: 22
760764 CCCGACGAGG
760774 GTATCGATGCACATTCAAGGAAT
1 GTATCGATGCACATTC-AGGAAT
** * *
760797 ACATCGGTGCATC-TTCATG-AT
1 GTATCGATGCA-CATTCAGGAAT
760818 GTATCGATGCACATTCA
1 GTATCGATGCACATTCA
760835 AGGCATGCAT
Statistics
Matches: 29, Mismatches: 7, Indels: 6
0.69 0.17 0.14
Matches are distributed among these distances:
20 1 0.03
21 14 0.48
22 2 0.07
23 11 0.38
24 1 0.03
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.30
Consensus pattern (22 bp):
GTATCGATGCACATTCAGGAAT
Found at i:760837 original size:44 final size:43
Alignment explanation
Indices: 760774--760873 Score: 132
Period size: 44 Copynumber: 2.3 Consensus size: 43
760764 CCCGACGAGG
*
760774 GTATCGATGCACATTCAAGGAATACATCGGTGCATCT-TC-ATGAT
1 GTATCGATGCACATTCAAGGAATACATCGGTACA-CTGTCTA-G-T
* *
760818 GTATCGATGCACATTCAAGGCATGCATCGGTACACTGTCTAGT
1 GTATCGATGCACATTCAAGGAATACATCGGTACACTGTCTAGT
760861 GTATCGATGCACA
1 GTATCGATGCACA
760874 AAGCACAAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
43 16 0.31
44 34 0.67
45 1 0.02
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (43 bp):
GTATCGATGCACATTCAAGGAATACATCGGTACACTGTCTAGT
Found at i:764549 original size:20 final size:21
Alignment explanation
Indices: 764510--764549 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
764500 GAAGCTTTAA
* *
764510 GATCATCAATTTTCTTTTGAT
1 GATCATCAATTTACTCTTGAT
764531 GATCATC-ATTTACTCTTGA
1 GATCATCAATTTACTCTTGA
764550 AAGTAAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.25, C:0.17, G:0.10, T:0.47
Consensus pattern (21 bp):
GATCATCAATTTACTCTTGAT
Found at i:766721 original size:64 final size:65
Alignment explanation
Indices: 766637--766788 Score: 166
Period size: 65 Copynumber: 2.4 Consensus size: 65
766627 CTAGGGGTGT
* * * **
766637 ATCGGTACAC-TAATTACATTCGAT-ATTTCAAAGAGCCAGGAGTGCA-ACGATGCATGGTTTGT
1 ATCGGTACACAAAATT-CATTCGATGATTTAAAAGAGCCAAGAGTGCATA-GATGCATGACTTGT
766699 GC
64 GC
* * **
766701 ATCGGTACACAAAATTCATTCGATGTTTTAAAATATTCAAGAGTGCATAGATGCATGACTTGTGC
1 ATCGGTACACAAAATTCATTCGATGATTTAAAAGAGCCAAGAGTGCATAGATGCATGACTTGTGC
* *
766766 ATTGGTACACAAAATGCATTCGA
1 ATCGGTACACAAAATTCATTCGA
766789 AATGGGTGTG
Statistics
Matches: 74, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
64 18 0.24
65 55 0.74
66 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (65 bp):
ATCGGTACACAAAATTCATTCGATGATTTAAAAGAGCCAAGAGTGCATAGATGCATGACTTGTGC
Found at i:769898 original size:22 final size:22
Alignment explanation
Indices: 769834--769907 Score: 58
Period size: 22 Copynumber: 3.4 Consensus size: 22
769824 TTTTTTAGTC
* * * *
769834 AAAGTCAATAGTTAGACCAGTC
1 AAAGTCAACAGTCAGACCGGTA
* * * *
769856 AAAGTTAACGGTCATATCGGTA
1 AAAGTCAACAGTCAGACCGGTA
*
769878 AAAGTCAACAGTCAGACCGGTT
1 AAAGTCAACAGTCAGACCGGTA
*
769900 AAATTCAA
1 AAAGTCAA
769908 TGGGTTGGGT
Statistics
Matches: 38, Mismatches: 14, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.41, C:0.18, G:0.19, T:0.23
Consensus pattern (22 bp):
AAAGTCAACAGTCAGACCGGTA
Found at i:772673 original size:2 final size:2
Alignment explanation
Indices: 772666--772698 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
772656 TATTGGTTTG
772666 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
772699 TAGAACTTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:775904 original size:35 final size:36
Alignment explanation
Indices: 775852--775924 Score: 112
Period size: 35 Copynumber: 2.1 Consensus size: 36
775842 ATTAAAATCT
775852 CTAAACCTAAAAATATACAATGAAGG-AAAAAGGGA
1 CTAAACCTAAAAATATACAATGAAGGAAAAAAGGGA
* * *
775887 CTAAACCTTAAATTATACAGTGAAGGAAAAAAGGGA
1 CTAAACCTAAAAATATACAATGAAGGAAAAAAGGGA
775923 CT
1 CT
775925 TTTCTATTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 23 0.68
36 11 0.32
ACGTcount: A:0.52, C:0.12, G:0.18, T:0.18
Consensus pattern (36 bp):
CTAAACCTAAAAATATACAATGAAGGAAAAAAGGGA
Found at i:776182 original size:24 final size:24
Alignment explanation
Indices: 776154--776208 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
776144 ACTTTATATT
776154 GCATTTACAATATTCTCAATTATA
1 GCATTTACAATATTCTCAATTATA
*
776178 GCATTTACAATATTCTCCATTATA
1 GCATTTACAATATTCTCAATTATA
776202 GCATTTA
1 GCATTTA
776209 ATCTTGCCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.35, C:0.18, G:0.05, T:0.42
Consensus pattern (24 bp):
GCATTTACAATATTCTCAATTATA
Found at i:782332 original size:17 final size:18
Alignment explanation
Indices: 782295--782335 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
782285 TTGACCATTT
782295 TTGACCCAACCCGACCCG
1 TTGACCCAACCCGACCCG
*
782313 TTGACCCGACCCGA-CCG
1 TTGACCCAACCCGACCCG
782330 TTGACC
1 TTGACC
782336 GTTGATCGGG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.20, C:0.46, G:0.20, T:0.15
Consensus pattern (18 bp):
TTGACCCAACCCGACCCG
Found at i:782396 original size:30 final size:29
Alignment explanation
Indices: 782343--782448 Score: 133
Period size: 29 Copynumber: 3.7 Consensus size: 29
782333 ACCGTTGATC
*
782343 GGGTGATATTTTGGGAA-TTAATTCAAAA
1 GGGTGCTATTTTGGGAATTTAATTCAAAA
*
782371 TGGGTGCTATTATGGGAATTTAATTCAAAA
1 -GGGTGCTATTTTGGGAATTTAATTCAAAA
* *
782401 AGGTGCTATTTTGGGAATTTAATTAAAAA
1 GGGTGCTATTTTGGGAATTTAATTCAAAA
* * *
782430 AGGTGCAATTTTGGTAATT
1 GGGTGCTATTTTGGGAATT
782449 ATTTTAAAAA
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
29 58 0.84
30 11 0.16
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.38
Consensus pattern (29 bp):
GGGTGCTATTTTGGGAATTTAATTCAAAA
Found at i:783614 original size:117 final size:117
Alignment explanation
Indices: 783400--783691 Score: 462
Period size: 117 Copynumber: 2.5 Consensus size: 117
783390 GGAAGTATTT
* *
783400 CAGGCTCCTTTGCTGTGTGCTCAGGGTAAGTCCTTACTGGTGTGCAGGTGGGTGTATGGTTCTGG
1 CAGGCTCCTTTGCTGTGTGCTTAGGGTAAGTCCTTACTGGTGTGCAGGTGGGTGTATGGTACTGG
* **
783465 GGAACCTACACATTGTAGTGATTGGAGTGACTGGATGGGGAAGTTATTACTG
66 GGAACCTACACATTGTAGTGATTGGAGCGACTGGATGAAGAAGTTATTACTG
*
783517 CAGGCTCCTTTGGTGTGTGCTTAGGGTAAGTCCTTACTGGTGTGCAGGTGGGTGTATGGTACTGG
1 CAGGCTCCTTTGCTGTGTGCTTAGGGTAAGTCCTTACTGGTGTGCAGGTGGGTGTATGGTACTGG
* *
783582 GGAACCTACACATTGTAGTTA-TGGAAGCGACTGGATGAAGACGTTATTACTG
66 GGAACCTACACATTGTAGTGATTGG-AGCGACTGGATGAAGAAGTTATTACTG
**
783634 CAGGCTCCTCAGCT-TCGTGCTTAGGGTAAGTCCTTACTGGTGTGCAGGTGGGTGTATG
1 CAGGCTCCTTTGCTGT-GTGCTTAGGGTAAGTCCTTACTGGTGTGCAGGTGGGTGTATG
783692 TTTCGGGGAA
Statistics
Matches: 162, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
116 4 0.02
117 158 0.98
ACGTcount: A:0.18, C:0.16, G:0.34, T:0.31
Consensus pattern (117 bp):
CAGGCTCCTTTGCTGTGTGCTTAGGGTAAGTCCTTACTGGTGTGCAGGTGGGTGTATGGTACTGG
GGAACCTACACATTGTAGTGATTGGAGCGACTGGATGAAGAAGTTATTACTG
Found at i:789529 original size:29 final size:29
Alignment explanation
Indices: 789470--789568 Score: 128
Period size: 29 Copynumber: 3.4 Consensus size: 29
789460 ACCAGGTGAC
** *
789470 ATTTTGGGAA-TTAATTCGAAAGGGGTACT
1 ATTTTGGGAATTTAATTC-AAAAAGGTGCT
*
789499 ATTCTGGGAATTTAATTCAAAAAGGTGCT
1 ATTTTGGGAATTTAATTCAAAAAGGTGCT
*
789528 ATTTTGGGAATTTAATTTAAAAAGGTGCT
1 ATTTTGGGAATTTAATTCAAAAAGGTGCT
*
789557 ATTTTGGTAATT
1 ATTTTGGGAATT
789569 ATTTTAAAAA
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
29 55 0.89
30 7 0.11
ACGTcount: A:0.32, C:0.06, G:0.22, T:0.39
Consensus pattern (29 bp):
ATTTTGGGAATTTAATTCAAAAAGGTGCT
Found at i:789589 original size:28 final size:29
Alignment explanation
Indices: 789470--789580 Score: 127
Period size: 29 Copynumber: 3.9 Consensus size: 29
789460 ACCAGGTGAC
* ** *
789470 ATTTTGGGAA-TTAATTCGAAAGGGGTACT
1 ATTTTGGGAATTTAATT-TAAAAAGGTGCT
* *
789499 ATTCTGGGAATTTAATTCAAAAAGGTGCT
1 ATTTTGGGAATTTAATTTAAAAAGGTGCT
789528 ATTTTGGGAATTTAATTTAAAAAGGTGCT
1 ATTTTGGGAATTTAATTTAAAAAGGTGCT
* *
789557 ATTTTGGTAA-TTATTTTAAAAAGG
1 ATTTTGGGAATTTAATTTAAAAAGG
789581 GTGTTTTTTC
Statistics
Matches: 72, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
28 13 0.18
29 53 0.74
30 6 0.08
ACGTcount: A:0.34, C:0.05, G:0.22, T:0.39
Consensus pattern (29 bp):
ATTTTGGGAATTTAATTTAAAAAGGTGCT
Found at i:790727 original size:117 final size:117
Alignment explanation
Indices: 790513--790804 Score: 437
Period size: 117 Copynumber: 2.5 Consensus size: 117
790503 GGAAGTATTT
* *
790513 CAGGCTCCTTTGC-TGTGTGCTCAGGGTAAGTCCTTACTGGTGTGCAGGTGGGTGTATGGTTCTG
1 CAGGCTCCTTT-CTTGTGTGCTTAGGGTAAGTCCTTACTGGTGTGCAGGTGGGTGTATGGTACTG
* * *
790577 GGGAACCTACACATTGTAGTGATTGGTGTGACTGGATGGGGAAGTTATTACTG
65 GGGAACCTACACATTGTAGTGATTGGAGCGACTGGATGGAGAAGTTATTACTG
*
790630 CAGGCTCCTTTTTTGTGTGCTTAGGGTAAGTCCTTACTGGTGTGCAGGTGGGTGTATGGTACTGG
1 CAGGCTCCTTTCTTGTGTGCTTAGGGTAAGTCCTTACTGGTGTGCAGGTGGGTGTATGGTACTGG
* *
790695 GGAACCTACACATTGTAGTTA-TGGAAGCGACTGGATGGAGACGTTATTACTG
66 GGAACCTACACATTGTAGTGATTGG-AGCGACTGGATGGAGAAGTTATTACTG
** *
790747 CAGGCTCCTCAGCTT-CGTGCTTAGGGTAAGTCCTTACTGGTGTGCAGGTGGGTGTATG
1 CAGGCTCCT-TTCTTGTGTGCTTAGGGTAAGTCCTTACTGGTGTGCAGGTGGGTGTATG
790805 TTTCGGGGAA
Statistics
Matches: 160, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
116 3 0.02
117 155 0.97
118 2 0.01
ACGTcount: A:0.17, C:0.16, G:0.34, T:0.32
Consensus pattern (117 bp):
CAGGCTCCTTTCTTGTGTGCTTAGGGTAAGTCCTTACTGGTGTGCAGGTGGGTGTATGGTACTGG
GGAACCTACACATTGTAGTGATTGGAGCGACTGGATGGAGAAGTTATTACTG
Found at i:791316 original size:22 final size:22
Alignment explanation
Indices: 791281--791341 Score: 77
Period size: 22 Copynumber: 2.8 Consensus size: 22
791271 GGGTTTACGC
* *
791281 GGTCCTTCGAGACATATACAGA
1 GGTCCTTCGGGACAAATACAGA
* * *
791303 GGTTCTTCGGGACAAATATATA
1 GGTCCTTCGGGACAAATACAGA
791325 GGTCCTTCGGGACAAAT
1 GGTCCTTCGGGACAAAT
791342 TTCACATGCC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.26
Consensus pattern (22 bp):
GGTCCTTCGGGACAAATACAGA
Found at i:792218 original size:19 final size:19
Alignment explanation
Indices: 792193--792241 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
792183 ACTGTTCACG
* *
792193 GTACTGTTCATATCGTATA
1 GTACTGTTCATACCATATA
*
792212 TTACTGTTCATACCATATA
1 GTACTGTTCATACCATATA
792231 GTACTGTTCAT
1 GTACTGTTCAT
792242 GAAAACGTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.27, C:0.18, G:0.12, T:0.43
Consensus pattern (19 bp):
GTACTGTTCATACCATATA
Found at i:804829 original size:28 final size:29
Alignment explanation
Indices: 804770--804830 Score: 106
Period size: 29 Copynumber: 2.1 Consensus size: 29
804760 TGATTAAATA
804770 TTATTAAAATCAAAGGAAAAAATGTTTCT
1 TTATTAAAATCAAAGGAAAAAATGTTTCT
*
804799 TTATTAAAATCAACGGAAAAAATGTTT-T
1 TTATTAAAATCAAAGGAAAAAATGTTTCT
804827 TTAT
1 TTAT
804831 ACCGTTGTCG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 5 0.16
29 26 0.84
ACGTcount: A:0.46, C:0.07, G:0.10, T:0.38
Consensus pattern (29 bp):
TTATTAAAATCAAAGGAAAAAATGTTTCT
Found at i:809217 original size:14 final size:14
Alignment explanation
Indices: 809192--809226 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
809182 AATATATTTA
809192 TTTTAA-ATTAATT
1 TTTTAAGATTAATT
809205 TTTTAAGATTAATT
1 TTTTAAGATTAATT
809219 TTATTAAG
1 TT-TTAAG
809227 TCTTTCATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 6 0.30
14 9 0.45
15 5 0.25
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (14 bp):
TTTTAAGATTAATT
Found at i:809272 original size:25 final size:27
Alignment explanation
Indices: 809244--809293 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
809234 TTTTCAGAAC
*
809244 AATCTTAT-AATTTAATTTT-TCATTA
1 AATCTTATAAATTAAATTTTATCATTA
*
809269 AATCTTTTAAATTAAATTTTATCAT
1 AATCTTATAAATTAAATTTTATCAT
809294 AACATAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 7 0.33
26 10 0.48
27 4 0.19
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (27 bp):
AATCTTATAAATTAAATTTTATCATTA
Found at i:813661 original size:14 final size:15
Alignment explanation
Indices: 813642--813678 Score: 60
Period size: 14 Copynumber: 2.6 Consensus size: 15
813632 AAGTTAATTG
813642 GTTGACTCAT-ACGA
1 GTTGACTCATAACGA
813656 GTTGACTC-TAACGA
1 GTTGACTCATAACGA
813670 GTTGACTCA
1 GTTGACTCA
813679 GTTCAAGTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 1 0.05
14 20 0.95
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.30
Consensus pattern (15 bp):
GTTGACTCATAACGA
Found at i:819081 original size:252 final size:251
Alignment explanation
Indices: 818637--819139 Score: 826
Period size: 252 Copynumber: 2.0 Consensus size: 251
818627 TGATTATAAG
* *
818637 GTTCGATTGATGCCACTCCTTACTTATAAAGGTGAAAAATATAGTGTATGAAAAAGATGTGTGTA
1 GTTCGATTAATGCCACTCCTTACTTACAAAGGTGAAAAATATAGTGTATGAAAAAGATGTGTGTA
* * * *
818702 TTCGAGGGTTTAAAGACGTGATCGAGTAGGACGTTCAAAAATAAGCTAATAGTGATAGTAATGTT
66 TTCAAGGGTTTAAAGACGTGATCGAGAAAGACGTTCAAAAATAAGCTAATAGTGACAGTAATGTT
* * *
818767 GTTAGCCACAATTCTACTGTTTAGTTTAATAAGATGATATATTGTCACAAAAGGAAGTGCCAATG
131 GTTAGCCACAATTCTACTATTTAGTCTAATAAGATGATATATTGGCACAAAAGGAAGTGCCAATG
* *
818832 ATGGATTAAAGAAAACCCTCGTTTATGCATATGTAGAGTATTAATGAAAGAATGAA
196 ATGGATTAAAGAAAACCCTCGTTTATGCATAAGTAGAGTATTAATAAAAGAATGAA
*
818888 GTTCGATTAATGTCACTCCTTACTTACAAAGGTGAAAAATATAGTGTATGAAAAAGATGTGTGTA
1 GTTCGATTAATGCCACTCCTTACTTACAAAGGTGAAAAATATAGTGTATGAAAAAGATGTGTGTA
* *
818953 TTCAAGGGTTTGAAGAACGTGATCGAGAAAGAGGTTCAAAAATAAGCTAATAGTGACAGTAATGT
66 TTCAAGGGTTTAAAG-ACGTGATCGAGAAAGACGTTCAAAAATAAGCTAATAGTGACAGTAATGT
* * *
819018 TGTTAGCCATAATTCTACTATTTAGTCTAATAAGATGATGTATTGGCACAATAGGAAGTGCCAAT
130 TGTTAGCCACAATTCTACTATTTAGTCTAATAAGATGATATATTGGCACAAAAGGAAGTGCCAAT
* *
819083 GATGGATTAAGGAAAACCCTCGTTTATGCATAAGTAGAGTATTGATAAAAGAATGAA
195 GATGGATTAAAGAAAACCCTCGTTTATGCATAAGTAGAGTATTAATAAAAGAATGAA
819140 ACATTCTATT
Statistics
Matches: 232, Mismatches: 19, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
251 75 0.32
252 157 0.68
ACGTcount: A:0.38, C:0.11, G:0.22, T:0.30
Consensus pattern (251 bp):
GTTCGATTAATGCCACTCCTTACTTACAAAGGTGAAAAATATAGTGTATGAAAAAGATGTGTGTA
TTCAAGGGTTTAAAGACGTGATCGAGAAAGACGTTCAAAAATAAGCTAATAGTGACAGTAATGTT
GTTAGCCACAATTCTACTATTTAGTCTAATAAGATGATATATTGGCACAAAAGGAAGTGCCAATG
ATGGATTAAAGAAAACCCTCGTTTATGCATAAGTAGAGTATTAATAAAAGAATGAA
Found at i:821252 original size:15 final size:15
Alignment explanation
Indices: 821232--821261 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
821222 TACTGATAGG
821232 AAAAAGAAAAGAAAA
1 AAAAAGAAAAGAAAA
*
821247 AAAAAGAAAGGAAAA
1 AAAAAGAAAAGAAAA
821262 GAAAGTTGGA
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:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (15 bp):
AAAAAGAAAAGAAAA
Found at i:824993 original size:20 final size:19
Alignment explanation
Indices: 824949--824996 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
824939 TTGTTCAGAG
*
824949 AAAAATAAAATAAATTAAT
1 AAAAATAAAAGAAATTAAT
**
824968 TTAAATAAAAGAAATATAAT
1 AAAAATAAAAGAAAT-TAAT
824988 AAAAATAAA
1 AAAAATAAA
824997 GTTTGCTAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (19 bp):
AAAAATAAAAGAAATTAAT
Found at i:825041 original size:21 final size:21
Alignment explanation
Indices: 825015--825054 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
825005 AAAAATAAAA
825015 AAAATAAAACGAAAGAAAACG
1 AAAATAAAACGAAAGAAAACG
* *
825036 AAAATAAAATGAAATAAAA
1 AAAATAAAACGAAAGAAAA
825055 ATAAAAAATA
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:0.75, C:0.05, G:0.10, T:0.10
Consensus pattern (21 bp):
AAAATAAAACGAAAGAAAACG
Found at i:829349 original size:35 final size:34
Alignment explanation
Indices: 829294--829396 Score: 118
Period size: 35 Copynumber: 2.9 Consensus size: 34
829284 GATAAAGTTG
* *
829294 AAAAGATAAAATAAAATAAAATAAATAATTATAATTTA
1 AAAAGA-AAAAT--AATAAAATAAATAATAATAA-ATA
829332 AAAAGAAAAATAATAAAATAAATAATAATAAATA
1 AAAAGAAAAATAATAAAATAAATAATAATAAATA
*
829366 AAAAGGGAAAATAATAAAAT-AATAAATAATA
1 AAAA-GAAAAATAATAAAATAAAT-AATAATA
829397 GAAGTAAAGA
Statistics
Matches: 60, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
34 9 0.15
35 40 0.67
37 5 0.08
38 6 0.10
ACGTcount: A:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (34 bp):
AAAAGAAAAATAATAAAATAAATAATAATAAATA
Found at i:829353 original size:20 final size:20
Alignment explanation
Indices: 829303--829391 Score: 56
Period size: 20 Copynumber: 4.3 Consensus size: 20
829293 GAAAAGATAA
*
829303 AATAAAATAAAATAAATAAT
1 AATAAAATAAAATAAAAAAT
* **
829323 TATAATTTAAAA-AGAAAAAT
1 AATAAAATAAAATA-AAAAAT
*
829343 AATAAAATAAATAATAATAAAT
1 AATAAAAT-AA-AATAAAAAAT
**
829365 AA-AAAGGGAAAATAATAAAAT
1 AATAAA-ATAAAATAA-AAAAT
829386 AATAAA
1 AATAAA
829392 TAATAGAAGT
Statistics
Matches: 51, Mismatches: 11, Indels: 12
0.69 0.15 0.16
Matches are distributed among these distances:
19 1 0.02
20 24 0.47
21 13 0.25
22 12 0.24
23 1 0.02
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (20 bp):
AATAAAATAAAATAAAAAAT
Found at i:829396 original size:15 final size:14
Alignment explanation
Indices: 829337--829394 Score: 55
Period size: 15 Copynumber: 4.1 Consensus size: 14
829327 ATTTAAAAAG
829337 AAAAATAATAAAATA
1 AAAAATAAT-AAATA
*
829352 AATAATAATAAATA
1 AAAAATAATAAATA
***
829366 AAAAGGGA-AAATA
1 AAAAATAATAAATA
829379 ATAAAATAATAAATA
1 A-AAAATAATAAATA
829394 A
1 A
829395 TAGAAGTAAA
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
13 6 0.18
14 13 0.39
15 14 0.42
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (14 bp):
AAAAATAATAAATA
Found at i:829457 original size:18 final size:18
Alignment explanation
Indices: 829436--829478 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
829426 GTTTTTAAAA
829436 AAATAAAA-AATAAAAATT
1 AAATAAAAGAA-AAAAATT
*
829454 AAATAAAAGAAAATAATT
1 AAATAAAAGAAAAAAATT
829472 AAATAAA
1 AAATAAA
829479 TAATCTAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 21 0.91
19 2 0.09
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (18 bp):
AAATAAAAGAAAAAAATT
Found at i:830141 original size:71 final size:75
Alignment explanation
Indices: 830063--830252 Score: 246
Period size: 76 Copynumber: 2.6 Consensus size: 75
830053 TAAAACATCT
* * * * *
830063 TAAATCCTAATTAAAACACTTAATA-CTATTTAAACTAAAATACCT-AA-AAA-ATAATATTTTA
1 TAAATCCTAATTAAAATAC-TAAAACCTATTTAAACTAAAATACCTAAACAAAGATAAAATATAA
*
830124 AA-TAATATTC
65 AACTAATATCC
*
830134 TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAACACCTAAAACAAAGATAAAATATAA
1 TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCT-AAACAAAGATAAAATATAA
830199 AACTAATATCC
65 AACTAATATCC
* *
830210 TAAAACTTAATTAAAATACTAAAACCTATTTAAACTAAAATAC
1 TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATAC
830253 AAAGATAAAA
Statistics
Matches: 103, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
70 4 0.04
71 37 0.36
73 2 0.02
74 3 0.03
75 10 0.10
76 47 0.46
ACGTcount: A:0.55, C:0.15, G:0.01, T:0.30
Consensus pattern (75 bp):
TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACCTAAACAAAGATAAAATATAAA
ACTAATATCC
Found at i:830276 original size:76 final size:71
Alignment explanation
Indices: 830063--830289 Score: 233
Period size: 76 Copynumber: 3.1 Consensus size: 71
830053 TAAAACATCT
* * * **
830063 TAAATCCTAATTAAAACACTTAATA-CTATTTAAACTAAAATACCTAAAAAATAATATTTT-AAA
1 TAAAACCTAATTAAAATAC-TAAAACCTATTTAAACTAAAATACAAAAAAAATAA-ATTTTAAAA
*
830126 TAATATTC
64 TAATATCC
* * * *
830134 TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAACACCTAAAACAAAGATAAAATATAA
1 TAAAACCTAATTAAAATACTAAAACCTATTTAAACTAAAATA-C-AAAA-AAA-ATAAATTTTAA
830199 AACTAATATCC
62 AA-TAATATCC
*
830210 TAAAACTTAATTAAAATACTAAAACCTATTTAAACTAAAATACAAAGATAAAATATAATGTTTAA
1 TAAAACCTAATTAAAATACTAAAACCTATTTAAACTAAAATACAAA-A-AAAATA-AAT-TTTAA
*
830275 AATATTATCC
62 AATAATATCC
830285 TAAAA
1 TAAAA
830290 TTGAGTTTAA
Statistics
Matches: 131, Mismatches: 15, Indels: 16
0.81 0.09 0.10
Matches are distributed among these distances:
70 4 0.03
71 34 0.26
72 1 0.01
73 2 0.02
74 12 0.09
75 26 0.20
76 52 0.40
ACGTcount: A:0.55, C:0.13, G:0.01, T:0.30
Consensus pattern (71 bp):
TAAAACCTAATTAAAATACTAAAACCTATTTAAACTAAAATACAAAAAAAATAAATTTTAAAATA
ATATCC
Found at i:836386 original size:96 final size:96
Alignment explanation
Indices: 836211--836388 Score: 230
Period size: 96 Copynumber: 1.9 Consensus size: 96
836201 TTGACTGTTA
* * * *
836211 ATGAACTATGGATACATGATATGTGTTCTATGATTTCCTACTTTCACTGGAAAGTATAATCGTTC
1 ATGAACTATGGATACATGAAACGTGTTATATGATTTCCTACTTTCACTGGAAAATATAATCGTTC
* * *
836276 TTGATTTATAGATCATGGAATATACTGGTTT
66 CTGATTCACAGATCATGGAATATACTGGTTT
* * * * * *
836307 ATGAACTATGGTTACCTGAAACGTGTTATCTGGTTTCCTATTTTCACTGGAAAATATAATTGTTC
1 ATGAACTATGGATACATGAAACGTGTTATATGATTTCCTACTTTCACTGGAAAATATAATCGTTC
*
836372 CTGATTCACGGATCATG
66 CTGATTCACAGATCATG
836389 AAAACTATTG
Statistics
Matches: 68, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
96 68 1.00
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.39
Consensus pattern (96 bp):
ATGAACTATGGATACATGAAACGTGTTATATGATTTCCTACTTTCACTGGAAAATATAATCGTTC
CTGATTCACAGATCATGGAATATACTGGTTT
Found at i:840572 original size:20 final size:20
Alignment explanation
Indices: 840547--840592 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
840537 TGTATATTTG
840547 TGATATATGTTCCATCTCCA
1 TGATATATGTTCCATCTCCA
840567 TGATATATGTTCCATCTCCA
1 TGATATATGTTCCATCTCCA
840587 TGATAT
1 TGATAT
840593 TATGCACATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.26, C:0.22, G:0.11, T:0.41
Consensus pattern (20 bp):
TGATATATGTTCCATCTCCA
Found at i:843335 original size:30 final size:31
Alignment explanation
Indices: 843268--843355 Score: 108
Period size: 31 Copynumber: 2.9 Consensus size: 31
843258 GAGTCGAGGG
* *
843268 TTACCTATGTATTTCGAGACATATGGACAGT
1 TTACCTATGTACTTCGAGACATATGGACAGA
* *
843299 TTACCTATGTCCTTCGGGACATATGGACA-A
1 TTACCTATGTACTTCGAGACATATGGACAGA
*
843329 TTACCTATGTTCTTCGCA-ACATATGGA
1 TTACCTATGTACTTCG-AGACATATGGA
843356 TATTGGTCCT
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
30 24 0.48
31 26 0.52
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.34
Consensus pattern (31 bp):
TTACCTATGTACTTCGAGACATATGGACAGA
Found at i:847762 original size:23 final size:23
Alignment explanation
Indices: 847712--847762 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
847702 ATAATTAAAT
* *
847712 CCCAACCGTTCACACTCTCCCCA
1 CCCATCCGCTCACACTCTCCCCA
847735 CCCATCCGCTCACACT-TCCCCCA
1 CCCATCCGCTCACACTCT-CCCCA
847758 CCCAT
1 CCCAT
847763 TCACTTAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 1 0.04
23 24 0.96
ACGTcount: A:0.20, C:0.59, G:0.04, T:0.18
Consensus pattern (23 bp):
CCCATCCGCTCACACTCTCCCCA
Found at i:847943 original size:20 final size:23
Alignment explanation
Indices: 847905--847945 Score: 61
Period size: 20 Copynumber: 1.9 Consensus size: 23
847895 TATATTCCAC
847905 TAAATTAATATTTAGTATTTTAT
1 TAAATTAATATTTAGTATTTTAT
847928 TAAATT-AT-TTTA-TATTTT
1 TAAATTAATATTTAGTATTTT
847946 TTTGCAGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.33
21 4 0.22
22 2 0.11
23 6 0.33
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (23 bp):
TAAATTAATATTTAGTATTTTAT
Found at i:848075 original size:27 final size:28
Alignment explanation
Indices: 848045--848098 Score: 76
Period size: 26 Copynumber: 2.0 Consensus size: 28
848035 TTAGTAATAA
*
848045 TTTATTTATTTAATTTTT-T-ATTATTAG
1 TTTATATA-TTAATTTTTGTAATTATTAG
848072 TTTATATATTAATTTTTGTAATTATTA
1 TTTATATATTAATTTTTGTAATTATTA
848099 ATAATTTTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 9 0.38
27 8 0.33
28 7 0.29
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.67
Consensus pattern (28 bp):
TTTATATATTAATTTTTGTAATTATTAG
Found at i:870420 original size:85 final size:83
Alignment explanation
Indices: 870285--870447 Score: 272
Period size: 85 Copynumber: 1.9 Consensus size: 83
870275 ACGACACATG
* *
870285 AATGTGTGTCATTTTCATTTATGACGGGGGCTTCAATGACACGCAATGTAAGTAATAAATGAGTG
1 AATGTGTGTCATCTTCATTTATGACGGGGGCTTCAATGACACGCAATGTAAGTAATAAAT--GCG
870350 TCATAAATTTATGACACACA
64 TCATAAATTTATGACACACA
* *
870370 AATGTGTGTCATCTTCATTTATGACGGGGGCTTCAATGACGCGCAATGTAAGTCATAAATGCGTC
1 AATGTGTGTCATCTTCATTTATGACGGGGGCTTCAATGACACGCAATGTAAGTAATAAATGCGTC
870435 ATAAATTTATGAC
66 ATAAATTTATGAC
870448 GCATAGTTGC
Statistics
Matches: 74, Mismatches: 4, Indels: 2
0.93 0.05 0.03
Matches are distributed among these distances:
83 17 0.23
85 57 0.77
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.32
Consensus pattern (83 bp):
AATGTGTGTCATCTTCATTTATGACGGGGGCTTCAATGACACGCAATGTAAGTAATAAATGCGTC
ATAAATTTATGACACACA
Found at i:872903 original size:2 final size:2
Alignment explanation
Indices: 872896--872927 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
872886 AATCCTAATC
872896 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
872928 GACTTAATTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:873685 original size:34 final size:32
Alignment explanation
Indices: 873625--873694 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
873615 CCTTACAAAC
*
873625 TCCCTAGTTTTTCCGGGATAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGATAAACTAGAACCTT
* *
873657 TCCCTAGCTTTTACACGGGATTAGCTAGAACCTT
1 TCCCTAG-TTTTAC-CGGGATAAACTAGAACCTT
873691 TCCC
1 TCCC
873695 CTTTACAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 21 0.64
ACGTcount: A:0.23, C:0.29, G:0.16, T:0.33
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGATAAACTAGAACCTT
Found at i:874003 original size:21 final size:21
Alignment explanation
Indices: 873977--874018 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
873967 CCAGAATGGG
873977 GGGAATC-AGTACCCCTTCATA
1 GGGAATCGA-TACCCCTTCATA
873998 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
874019 ATATTCAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.24
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:874175 original size:30 final size:30
Alignment explanation
Indices: 874131--874187 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
874121 GGGTACTGTT
*
874131 ATTCAATTAAGTCCAAATA-CATTTTGTAA
1 ATTCAATTAAGTCCAAAAACCATTTTGTAA
874160 ATTCAATTCAAGTCCAAAAACCATTTTG
1 ATTCAATT-AAGTCCAAAAACCATTTTG
874188 CCTTAAATTG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 8 0.32
30 10 0.40
31 7 0.28
ACGTcount: A:0.40, C:0.18, G:0.07, T:0.35
Consensus pattern (30 bp):
ATTCAATTAAGTCCAAAAACCATTTTGTAA
Found at i:875925 original size:229 final size:228
Alignment explanation
Indices: 875525--876015 Score: 919
Period size: 229 Copynumber: 2.1 Consensus size: 228
875515 GTTATATTGT
* * *
875525 AAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTA
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTA
875590 TCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATAAAAAAATCAAAT
66 TCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATAAAAAAATCAAAT
875655 AATTTTGTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAA
131 AATTTTGTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAA
875720 AAAAATTGAAACATAAATTACATAACTTTAAAA
196 AAAAATTGAAACATAAATTACATAACTTTAAAA
875753 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGT-GAAAACATATTTATTATT
* *
875818 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAATAATCAAA
65 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATAAAAAAATCAAA
*
875883 TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
130 TAATTTTGTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAA
875948 AAAAAATTGAAACATAAATTACATAACTTTAAAA
195 AAAAAATTGAAACATAAATTACATAACTTTAAAA
875982 AAAGTATATATCATTTTTATAAAAGTGTCCATAC
1 AAAGTATATATCATTTTTATAAAAGTGTCCATAC
876016 GTATAAAAGT
Statistics
Matches: 256, Mismatches: 6, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
228 44 0.17
229 212 0.83
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (228 bp):
AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTA
TCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATAAAAAAATCAAAT
AATTTTGTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAA
AAAAATTGAAACATAAATTACATAACTTTAAAA
Found at i:876087 original size:20 final size:19
Alignment explanation
Indices: 876050--876110 Score: 79
Period size: 20 Copynumber: 3.1 Consensus size: 19
876040 AAGAAATATT
*
876050 AAAATGAT-ATACCAGGTAA
1 AAAATGATAAAACC-GGTAA
876069 AAATATGATAAAACCGGTAA
1 AAA-ATGATAAAACCGGTAA
876089 CAAAATGATAAAACCGGTAA
1 -AAAATGATAAAACCGGTAA
876109 AA
1 AA
876111 CGTTACCGGA
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
19 5 0.13
20 26 0.68
21 7 0.18
ACGTcount: A:0.56, C:0.11, G:0.15, T:0.18
Consensus pattern (19 bp):
AAAATGATAAAACCGGTAA
Found at i:876268 original size:20 final size:19
Alignment explanation
Indices: 876245--876291 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
876235 CGATATAACA
876245 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
876265 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
876285 GGTAAAA
1 GGTAAAA
876292 TGATACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:876293 original size:17 final size:19
Alignment explanation
Indices: 876254--876296 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
876244 AGGTAAAAAT
876254 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
876274 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
876291 ATGATA
1 ATGATA
876297 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:878536 original size:21 final size:21
Alignment explanation
Indices: 878512--878555 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
878502 AAGACAATCA
878512 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
878533 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
878554 AG
1 AG
878556 GCATAAGGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.11, G:0.32, T:0.16
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:878631 original size:33 final size:33
Alignment explanation
Indices: 878589--878654 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
878579 AAATAGATGG
*
878589 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
878622 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
878655 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:878896 original size:15 final size:14
Alignment explanation
Indices: 878854--878892 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
878844 AGAAAAGAGG
878854 GAGGAGGAAGAAGA
1 GAGGAGGAAGAAGA
878868 -AGAGATGGAAGAAGA
1 GAG-GA-GGAAGAAGA
878883 GAGGAGGAAG
1 GAGGAGGAAG
878893 GAAGTCAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
13 2 0.09
14 7 0.32
15 11 0.50
16 2 0.09
ACGTcount: A:0.49, C:0.00, G:0.49, T:0.03
Consensus pattern (14 bp):
GAGGAGGAAGAAGA
Found at i:885204 original size:31 final size:31
Alignment explanation
Indices: 885169--885244 Score: 98
Period size: 31 Copynumber: 2.5 Consensus size: 31
885159 TTGAAAAACA
* **
885169 TAAGTTTTGATCACCTATGTTATAGTTTTAT
1 TAAGTTTTGGTCACCTACATTATAGTTTTAT
* * *
885200 TAAGTTTTGGTAACTTACATTATTGTTTTAT
1 TAAGTTTTGGTCACCTACATTATAGTTTTAT
885231 TAAGTTTTGGTCAC
1 TAAGTTTTGGTCAC
885245 TTGGACGTTG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.25, C:0.09, G:0.14, T:0.51
Consensus pattern (31 bp):
TAAGTTTTGGTCACCTACATTATAGTTTTAT
Found at i:886743 original size:7 final size:7
Alignment explanation
Indices: 886719--886753 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
886709 AGAATAAAAT
886719 AAAATAA
1 AAAATAA
**
886726 AAAATGG
1 AAAATAA
886733 AAAATAA
1 AAAATAA
886740 AAAATAA
1 AAAATAA
886747 AAAATAA
1 AAAATAA
886754 TGATTTAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.80, C:0.00, G:0.06, T:0.14
Consensus pattern (7 bp):
AAAATAA
Found at i:886844 original size:17 final size:17
Alignment explanation
Indices: 886819--886852 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
886809 AATGAGATAA
*
886819 AAATTAAATAAACAAAT
1 AAATAAAATAAACAAAT
*
886836 AAATAAAATAAATAAAT
1 AAATAAAATAAACAAAT
886853 TGGGATAAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (17 bp):
AAATAAAATAAACAAAT
Found at i:892939 original size:17 final size:17
Alignment explanation
Indices: 892914--892947 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
892904 AATGAGATAA
*
892914 AAATTAAATAAACAAAT
1 AAATAAAATAAACAAAT
*
892931 AAATAAAATAAATAAAT
1 AAATAAAATAAACAAAT
892948 TGAGATAAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (17 bp):
AAATAAAATAAACAAAT
Found at i:895656 original size:21 final size:21
Alignment explanation
Indices: 895607--895677 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 21
895597 TTAATGCACA
*
895607 AGGGATC-GATCCTTTT-GTGAA
1 AGGGATCAG-TCCTTTTAGTG-G
*
895628 AGGAATCAGTCCTTTTAGTGG
1 AGGGATCAGTCCTTTTAGTGG
* * *
895649 AGGGATCAATCCTTTTACTCG
1 AGGGATCAGTCCTTTTAGTGG
895670 AGGGATCA
1 AGGGATCA
895678 ATTCTTTTTG
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
21 38 0.90
22 4 0.10
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (21 bp):
AGGGATCAGTCCTTTTAGTGG
Found at i:895678 original size:21 final size:21
Alignment explanation
Indices: 895632--895685 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
895622 TGTGAAAGGA
* * *
895632 ATCAGTCCTTTTAGTGGAGGG
1 ATCAATCCTTTTACTCGAGGG
895653 ATCAATCCTTTTACTCGAGGG
1 ATCAATCCTTTTACTCGAGGG
*
895674 ATCAATTCTTTT
1 ATCAATCCTTTT
895686 TGTAAAGGGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.22, C:0.19, G:0.20, T:0.39
Consensus pattern (21 bp):
ATCAATCCTTTTACTCGAGGG
Found at i:896338 original size:20 final size:20
Alignment explanation
Indices: 896313--896355 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
896303 TACCAAAGTC
896313 ATAAAA-ATTCAAATAACCAA
1 ATAAAACATTCAAAT-ACCAA
*
896333 ATAAAACATTCAAGTACCAA
1 ATAAAACATTCAAATACCAA
896353 ATA
1 ATA
896356 CCAAATAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.60, C:0.16, G:0.02, T:0.21
Consensus pattern (20 bp):
ATAAAACATTCAAATACCAA
Found at i:908942 original size:17 final size:17
Alignment explanation
Indices: 908920--908952 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
908910 CGAGGCTCGG
908920 GTCACGAAGTTCGAACA
1 GTCACGAAGTTCGAACA
908937 GTCACGAAGTTCGAAC
1 GTCACGAAGTTCGAAC
908953 GCTCATCAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.33, C:0.24, G:0.24, T:0.18
Consensus pattern (17 bp):
GTCACGAAGTTCGAACA
Found at i:914166 original size:21 final size:22
Alignment explanation
Indices: 914115--914172 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 22
914105 GTACCCTTAT
*
914115 AGGGGTATCAATACACATTCAA
1 AGGGGTATCGATACACATTCAA
*
914137 AGAGGGTATCGATACACATT-GA
1 AG-GGGTATCGATACACATTCAA
914159 AGGGGTATCGATAC
1 AGGGGTATCGATAC
914173 CTAGTGCACA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 12 0.36
22 5 0.15
23 16 0.48
ACGTcount: A:0.36, C:0.16, G:0.26, T:0.22
Consensus pattern (22 bp):
AGGGGTATCGATACACATTCAA
Found at i:919424 original size:16 final size:16
Alignment explanation
Indices: 919405--919442 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
919395 ACCTTATCTA
919405 TCCACACTAAGGATTT
1 TCCACACTAAGGATTT
919421 TCCACACTAAGGATTT
1 TCCACACTAAGGATTT
919437 TCCACA
1 TCCACA
919443 AATTCACTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.32, C:0.29, G:0.11, T:0.29
Consensus pattern (16 bp):
TCCACACTAAGGATTT
Found at i:920824 original size:23 final size:24
Alignment explanation
Indices: 920798--920844 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
920788 GGATAATATA
920798 TAATAGAAG-AAAAATGTTATAGC
1 TAATAGAAGAAAAAATGTTATAGC
920821 TAATAGAAGAAAAAATGTTATAGC
1 TAATAGAAGAAAAAATGTTATAGC
920845 AAAATTTAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 9 0.39
24 14 0.61
ACGTcount: A:0.53, C:0.04, G:0.17, T:0.26
Consensus pattern (24 bp):
TAATAGAAGAAAAAATGTTATAGC
Found at i:938099 original size:347 final size:347
Alignment explanation
Indices: 937463--938103 Score: 931
Period size: 347 Copynumber: 1.8 Consensus size: 347
937453 TTTATGACAA
*
937463 TGTGTTTCTTCAATCTTTGAGGAAAGGGTGGTGGAGGTCTCACATCATCTGTTGTAGGTGACGAT
1 TGTGTTTCTTCAATCTTTGAGGAAAGGGTGGTGGAGGTCTCACATCATCTGTTGTAGGTGACGAA
* * * * *
937528 GAAACTTTGGCCTTGGCTATAAGTTTCCCATTATCTGTTTGACGAGTTTTTGTACCTTCATCCAT
66 GAAACGTTGGCCTTGGATATAAGTTTCCCATTATCTATTTAACGAGTTTTTGTACCGTCATCCAT
* * * * *
937593 TTCATTCTATTCAGACAATTTTTCATGTTCTACAATTTGAGCTCGATCCTCAGGTTGTATAGTGC
131 TTCATTCTATTCAGAAAATTTTTCATGTTCCACAATTTGAGCTCGATCATCAGGTTGTATACTAC
* * * * * * *
937658 ATTGGCTAGAATCTTCTAACTATTTTCCCCCAAACTTGTCATTCTGGTTAATCTGTGTACCACTC
196 ATTGGCCAGAATCTCCCAACAACTTTCCCCCAAACTTATCATTCTGGTTAATCTGTATACCACTC
*
937723 TTCAGTGTAAGTACACTGCACTATTCCTTTCCATTGATATACAATTGATCCAGAACATCAACAAA
261 CTCAGTGTAAGTACACTGCACTATTCCTTTCCATTGATATACAATTGATCCAGAACATCAACAAA
937788 TTTCTTGAACTAATGTTGTCAT
326 TTTCTTGAACTAATGTTGTCAT
* * *
937810 TGTGTTTCTTCAATCTTTGAGGAAATGGTGGTGGAGGTGTCACATCATCTGTTGTAGGTGATGAA
1 TGTGTTTCTTCAATCTTTGAGGAAAGGGTGGTGGAGGTCTCACATCATCTGTTGTAGGTGACGAA
* ** * * **
937875 GACACGTTGTTCTTGGATATAAGTTTTCCATTATCTATTTAATGAGTTTTTGTACCGTCATCTTT
66 GAAACGTTGGCCTTGGATATAAGTTTCCCATTATCTATTTAACGAGTTTTTGTACCGTCATCCAT
* * * *
937940 TTCATTCTATTCGGAAAATTTTTCATGTTCCATAGTTTGAGCTTGATCATCAGGTTGTATACTAC
131 TTCATTCTATTCAGAAAATTTTTCATGTTCCACAATTTGAGCTCGATCATCAGGTTGTATACTAC
* * *
938005 CTTGGCCAGAATCTCCCAACAACTTTCCTCCAAACTTATCATTCTGGTTAATTTGTATACCACTC
196 ATTGGCCAGAATCTCCCAACAACTTTCCCCCAAACTTATCATTCTGGTTAATCTGTATACCACTC
* * *
938070 CTCAGTGTAAGTACATTGTACTGTTCCTTTCCAT
261 CTCAGTGTAAGTACACTGCACTATTCCTTTCCAT
938104 GATTTTTAAT
Statistics
Matches: 255, Mismatches: 39, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
347 255 1.00
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (347 bp):
TGTGTTTCTTCAATCTTTGAGGAAAGGGTGGTGGAGGTCTCACATCATCTGTTGTAGGTGACGAA
GAAACGTTGGCCTTGGATATAAGTTTCCCATTATCTATTTAACGAGTTTTTGTACCGTCATCCAT
TTCATTCTATTCAGAAAATTTTTCATGTTCCACAATTTGAGCTCGATCATCAGGTTGTATACTAC
ATTGGCCAGAATCTCCCAACAACTTTCCCCCAAACTTATCATTCTGGTTAATCTGTATACCACTC
CTCAGTGTAAGTACACTGCACTATTCCTTTCCATTGATATACAATTGATCCAGAACATCAACAAA
TTTCTTGAACTAATGTTGTCAT
Found at i:938316 original size:21 final size:20
Alignment explanation
Indices: 938292--938330 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
938282 CATCAAAGTC
938292 TTTGTTGAAGCCATGAAATGT
1 TTTGTTGAAGCCAT-AAATGT
*
938313 TTTGTTGAGGCCATAAAT
1 TTTGTTGAAGCCATAAAT
938331 TACTACAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.28, C:0.10, G:0.23, T:0.38
Consensus pattern (20 bp):
TTTGTTGAAGCCATAAATGT
Found at i:941070 original size:54 final size:53
Alignment explanation
Indices: 940987--941098 Score: 127
Period size: 54 Copynumber: 2.1 Consensus size: 53
940977 TGGAAATAAT
* *
940987 CATCAAGAAACCCCTGAAAATCAAGCTTAGTTTCTAAAAAAACTCATTTGAAAA
1 CATCAAGAAACCCCTAAAAATCAAGCTTAGATTCTAAAAAAA-TCATTTGAAAA
* * * ***
941041 TATCAAGAAACCCTTAAAAAT-TAGTCTTAGATTCTTTCAAAATCATTTGAAAA
1 CATCAAGAAACCCCTAAAAATCAAG-CTTAGATTCTAAAAAAATCATTTGAAAA
941094 CATCA
1 CATCA
941099 TATCAAGGAA
Statistics
Matches: 48, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
53 17 0.35
54 31 0.65
ACGTcount: A:0.45, C:0.19, G:0.08, T:0.29
Consensus pattern (53 bp):
CATCAAGAAACCCCTAAAAATCAAGCTTAGATTCTAAAAAAATCATTTGAAAA
Found at i:947453 original size:29 final size:30
Alignment explanation
Indices: 947397--947453 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 30
947387 AGCATAGACT
* *
947397 AGACAAAAGAGAATCAAGTTAGTAGAAACA
1 AGACAAAAGAGAATCAAATTAATAGAAACA
* *
947427 AGACAAAA-TGAATCAAATTAATTGAAA
1 AGACAAAAGAGAATCAAATTAATAGAAA
947454 AGATTAGTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 15 0.65
30 8 0.35
ACGTcount: A:0.58, C:0.09, G:0.16, T:0.18
Consensus pattern (30 bp):
AGACAAAAGAGAATCAAATTAATAGAAACA
Found at i:951229 original size:2 final size:2
Alignment explanation
Indices: 951224--951251 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
951214 ATAGAGACGG
951224 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
951252 GTGTGTGTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:955774 original size:13 final size:13
Alignment explanation
Indices: 955756--955780 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
955746 AATGAATTTT
955756 AAGATTTTCTAAA
1 AAGATTTTCTAAA
955769 AAGATTTTCTAA
1 AAGATTTTCTAA
955781 GTATATTCGA
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:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (13 bp):
AAGATTTTCTAAA
Found at i:961810 original size:21 final size:21
Alignment explanation
Indices: 961784--961884 Score: 102
Period size: 19 Copynumber: 4.9 Consensus size: 21
961774 TTTTGGTGTA
*
961784 GAGGGAATCGATACCCCCCAT
1 GAGGGAATCGATACCCCCTAT
* * *
961805 GAGGGAACCGATTCCCCCTTT
1 GAGGGAATCGATACCCCCTAT
* *
961826 GAAGGGGAACCGATTCCCCCTA-
1 G-A-GGGAATCGATACCCCCTAT
961848 G-GGGAATCGATACCCCCTAT
1 GAGGGAATCGATACCCCCTAT
961868 --GGGAATCGATACCCCCT
1 GAGGGAATCGATACCCCCT
961885 GAGGGTTCTG
Statistics
Matches: 70, Mismatches: 7, Indels: 8
0.82 0.08 0.09
Matches are distributed among these distances:
19 33 0.47
21 18 0.26
22 2 0.03
23 17 0.24
ACGTcount: A:0.25, C:0.33, G:0.25, T:0.18
Consensus pattern (21 bp):
GAGGGAATCGATACCCCCTAT
Found at i:978824 original size:22 final size:21
Alignment explanation
Indices: 978793--978834 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
978783 TCACGTTGTC
* *
978793 CCCTTCTCTTTTTCCTATCTCT
1 CCCTTATCTTCTTCCT-TCTCT
978815 CCCTTATCTTCTTCCTTCTC
1 CCCTTATCTTCTTCCTTCTC
978835 CTTCATCTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.05, C:0.43, G:0.00, T:0.52
Consensus pattern (21 bp):
CCCTTATCTTCTTCCTTCTCT
Found at i:986919 original size:20 final size:20
Alignment explanation
Indices: 986894--986952 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
986884 TCCTTTTTAG
*
986894 TTTTATTTTAATCTT-AATTT
1 TTTTATTTTAAT-TTAAATCT
*
986914 TTTTATTTTAGTTTAAATCT
1 TTTTATTTTAATTTAAATCT
*
986934 TTTTATTTTAGTTTAAATC
1 TTTTATTTTAATTTAAATC
986953 AGGGCAAGTG
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
19 2 0.06
20 34 0.94
ACGTcount: A:0.25, C:0.05, G:0.03, T:0.66
Consensus pattern (20 bp):
TTTTATTTTAATTTAAATCT
Found at i:986942 original size:26 final size:26
Alignment explanation
Indices: 986887--986947 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
986877 TTATTTTTCC
*
986887 TTTTTAGTTTTATTTTAATCTTAATT
1 TTTTTAGTTTTATTTAAATCTTAATT
986913 TTTTTA-TTTTAGTTTAAATCTT--TT
1 TTTTTAGTTTTA-TTTAAATCTTAATT
986937 TATTTTAGTTT
1 T-TTTTAGTTT
986948 AAATCAGGGC
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
24 3 0.10
25 10 0.32
26 18 0.58
ACGTcount: A:0.21, C:0.03, G:0.05, T:0.70
Consensus pattern (26 bp):
TTTTTAGTTTTATTTAAATCTTAATT
Found at i:990493 original size:20 final size:20
Alignment explanation
Indices: 990459--990507 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
990449 TAGCCTCGTC
*
990459 GTGAACTAA-TTTA-TTTGAT
1 GTGAATTAATTTTATTTTG-T
990478 GTGAATTAATTTTATTTTGT
1 GTGAATTAATTTTATTTTGT
*
990498 GTTAATTAAT
1 GTGAATTAAT
990508 GGTTAAAGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 8 0.31
20 14 0.54
21 4 0.15
ACGTcount: A:0.31, C:0.02, G:0.14, T:0.53
Consensus pattern (20 bp):
GTGAATTAATTTTATTTTGT
Found at i:991141 original size:2 final size:2
Alignment explanation
Indices: 991134--991184 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
991124 CTATACCATC
991134 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
991176 AT AT AT AT A
1 AT AT AT AT A
991185 GTGACACCCT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1003645 original size:2 final size:2
Alignment explanation
Indices: 1003638--1003665 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1003628 TCCAATATCA
1003638 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
1003666 GAAAAACTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1005628 original size:11 final size:11
Alignment explanation
Indices: 1005608--1005645 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
1005598 TTTATATGAT
1005608 TAAA-ATAAAA
1 TAAAGATAAAA
1005618 TAAAGATAAAA
1 TAAAGATAAAA
1005629 TAAAGAATAATAA
1 TAAAG-ATAA-AA
1005642 TAAA
1 TAAA
1005646 AGGACTAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 4 0.16
11 11 0.44
12 4 0.16
13 6 0.24
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (11 bp):
TAAAGATAAAA
Found at i:1005902 original size:5 final size:5
Alignment explanation
Indices: 1005892--1005916 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
1005882 GGCTAATGAC
1005892 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
1005917 ATTCGTAGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:1006914 original size:13 final size:14
Alignment explanation
Indices: 1006896--1006926 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
1006886 GGACCGAGTA
1006896 GGGCTTCCGGGTC-
1 GGGCTTCCGGGTCT
1006909 GGGCTTCCGGGTCT
1 GGGCTTCCGGGTCT
1006923 GGGC
1 GGGC
1006927 CTGGATATGC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 13 0.76
14 4 0.24
ACGTcount: A:0.00, C:0.29, G:0.48, T:0.23
Consensus pattern (14 bp):
GGGCTTCCGGGTCT
Found at i:1007751 original size:20 final size:20
Alignment explanation
Indices: 1007726--1007791 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
1007716 TATCTTGTCA
1007726 GAAGGTCTTACAGATGGCCC
1 GAAGGTCTTACAGATGGCCC
** * *
1007746 GAAGGTCTTATCATCTTGCTC
1 GAAGGTCTTA-CAGATGGCCC
*
1007767 GAAAGG-CTTACAGATGACCC
1 G-AAGGTCTTACAGATGGCCC
1007787 GAAGG
1 GAAGG
1007792 ATTTAAGCAT
Statistics
Matches: 35, Mismatches: 9, Indels: 5
0.71 0.18 0.10
Matches are distributed among these distances:
19 4 0.11
20 16 0.46
21 11 0.31
22 4 0.11
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (20 bp):
GAAGGTCTTACAGATGGCCC
Found at i:1007839 original size:42 final size:42
Alignment explanation
Indices: 1007732--1007839 Score: 137
Period size: 42 Copynumber: 2.6 Consensus size: 42
1007722 GTCAGAAGGT
* * * * *
1007732 CTTACAGATGGCCCGAAGGTCTT-ATCATCTTGCTCGAAAGG
1 CTTACAGATGACCCGAAGGTTTTAAGCATCATGCTCGAAAGA
* *
1007773 CTTACAGATGACCCGAAGGATTTAAGCATCATGCTTGAAAGA
1 CTTACAGATGACCCGAAGGTTTTAAGCATCATGCTCGAAAGA
*
1007815 CTTACTGATGACCCGAAGGTTTTAA
1 CTTACAGATGACCCGAAGGTTTTAA
1007840 AATGCAAGAA
Statistics
Matches: 57, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
41 20 0.35
42 37 0.65
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (42 bp):
CTTACAGATGACCCGAAGGTTTTAAGCATCATGCTCGAAAGA
Found at i:1007919 original size:269 final size:268
Alignment explanation
Indices: 1007457--1008110 Score: 1040
Period size: 269 Copynumber: 2.4 Consensus size: 268
1007447 ATTTTACCCT
* * * * *
1007457 AAGGTCTTATGGATGGCCCAAATGACTTATCATCTTGTTCGAAAGGCTTACAAATGACCCGAAGG
1 AAGGTCTTATGGATGGCCCGAAGGTCTTATCATCTTGCTCGAAAGGCTTACAGATGACCCGAAGG
* *
1007522 ATTTAAGAATTATGCTCGAAAAGACTTACTGATGACCCGAAGGATTTACAAAGCAATAAACCCTT
66 ATTTAAGAATCATGCTCG-AAAGACTTACTGATGACCCGAAGGATTTACAAAGCAAGAAACCCTT
* *
1007587 GAAAATCAAGCTTAGTTTCTTAGTTGTCAAGGAGCCCATTAAAATTAGGCTTAGTTTCCTTTAAC
130 GAAAATCAAGCTTAGTTTCTTAGTTGTCAAGGAACCCATTAAAATTAGGCTTAGCTTCCTTTAAC
* *
1007652 AACTCTTTTGAGATAATTAAGAAAGCCCTAAATCAGGCTTAGTTTCTAAAATCTCATTTGAAAAT
195 AACTCTTTTGAGATAATTAAGAAACCCCTAAATCAGGCTTAGTTTCTAAAATCTCATTTG-AAAC
1007717 ATCTTGTCAG
259 ATCTTGTCAG
**
1007727 AAGGTCTTACAGATGGCCCGAAGGTCTTATCATCTTGCTCGAAAGGCTTACAGATGACCCGAAGG
1 AAGGTCTTATGGATGGCCCGAAGGTCTTATCATCTTGCTCGAAAGGCTTACAGATGACCCGAAGG
* * *
1007792 ATTTAAGCATCATGCTTGAAAGACTTACTGATGACCCGAAGGTTTTA-AAATGCAAGAAACCCTT
66 ATTTAAGAATCATGCTCGAAAGACTTACTGATGACCCGAAGGATTTACAAA-GCAAGAAACCCTT
* *
1007856 GAAAATCAAGCTTAGTTTCTTAGTTGTCAAGGAACCCCTTAAAATTAGGCTTAGCTTCCTTTAAT
130 GAAAATCAAGCTTAGTTTCTTAGTTGTCAAGGAACCCATTAAAATTAGGCTTAGCTTCCTTTAAC
1007921 AACTCTTTTGAGATAATTAAGAAACCCCTAAATCAGGCTTAGTTTCTAAAATCTCATTTGAAACA
195 AACTCTTTTGAGATAATTAAGAAACCCCTAAATCAGGCTTAGTTTCTAAAATCTCATTTGAAACA
*
1007986 TCTTGTCTG
260 TCTTGTCAG
* **
1007995 AAGGTCTTATGGATGGCCCGAAGGTCTTATCATCTTGCTAGAAAGGCTTACAGATGACCTAAAGG
1 AAGGTCTTATGGATGGCCCGAAGGTCTTATCATCTTGCTCGAAAGGCTTACAGATGACCCGAAGG
* * * *
1008060 ATTTAAGAATCATGCTCGAAAGACTTACTGATGGCTCGAATGACTTACAAA
66 ATTTAAGAATCATGCTCGAAAGACTTACTGATGACCCGAAGGATTTACAAA
1008111 TTCGGGAAAT
Statistics
Matches: 351, Mismatches: 31, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
268 115 0.33
269 163 0.46
270 73 0.21
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (268 bp):
AAGGTCTTATGGATGGCCCGAAGGTCTTATCATCTTGCTCGAAAGGCTTACAGATGACCCGAAGG
ATTTAAGAATCATGCTCGAAAGACTTACTGATGACCCGAAGGATTTACAAAGCAAGAAACCCTTG
AAAATCAAGCTTAGTTTCTTAGTTGTCAAGGAACCCATTAAAATTAGGCTTAGCTTCCTTTAACA
ACTCTTTTGAGATAATTAAGAAACCCCTAAATCAGGCTTAGTTTCTAAAATCTCATTTGAAACAT
CTTGTCAG
Found at i:1009571 original size:40 final size:39
Alignment explanation
Indices: 1009527--1009609 Score: 121
Period size: 39 Copynumber: 2.1 Consensus size: 39
1009517 TTTAGCATGC
* * *
1009527 CCCAACATTTGCTTCTTGCTGATATGAGCTTTCAAAATGT
1 CCCAA-ATTAGCTGCTTGCTGATATAAGCTTTCAAAATGT
*
1009567 CCCAAGTTAGCTGCTTGCTGATATAAGCTTTCAAAATGT
1 CCCAAATTAGCTGCTTGCTGATATAAGCTTTCAAAATGT
1009606 CCCA
1 CCCA
1009610 CATGGGACTT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
39 34 0.87
40 5 0.13
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.34
Consensus pattern (39 bp):
CCCAAATTAGCTGCTTGCTGATATAAGCTTTCAAAATGT
Found at i:1009824 original size:42 final size:42
Alignment explanation
Indices: 1009777--1009908 Score: 104
Period size: 42 Copynumber: 3.4 Consensus size: 42
1009767 ACTAATGTGA
1009777 GCTTTCAAAATGCCCCACATGGATCATTTCTAGTTGAAATGG
1 GCTTTCAAAATGCCCCACATGGATCATTTCTAGTTGAAATGG
** * ** * * *
1009819 GCTTTCAGCATGACCC-TTTAGA--A---CTA-ATG---TGA
1 GCTTTCAAAATGCCCCACATGGATCATTTCTAGTTGAAATGG
*
1009851 GCTTTCAAAATGCTCCACATGGATCATTTCTAGTTGAAATGG
1 GCTTTCAAAATGCCCCACATGGATCATTTCTAGTTGAAATGG
*
1009893 GCTTTCAACATGCCCC
1 GCTTTCAAAATGCCCC
1009909 TTTAGAACAA
Statistics
Matches: 61, Mismatches: 19, Indels: 20
0.61 0.19 0.20
Matches are distributed among these distances:
32 14 0.23
33 3 0.05
35 3 0.05
36 3 0.05
38 3 0.05
39 3 0.05
41 3 0.05
42 29 0.48
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.31
Consensus pattern (42 bp):
GCTTTCAAAATGCCCCACATGGATCATTTCTAGTTGAAATGG
Found at i:1009836 original size:74 final size:74
Alignment explanation
Indices: 1009711--1009916 Score: 376
Period size: 74 Copynumber: 2.8 Consensus size: 74
1009701 CCATTTGGAT
*
1009711 AATGCCCCATATGGATCATTTCTAGTTGAAATGGGCTTTCAGCATGCCCCTTTAGAACTAATGTG
1 AATGCCCCACATGGATCATTTCTAGTTGAAATGGGCTTTCAGCATGCCCCTTTAGAACTAATGTG
1009776 AGCTTTCAA
66 AGCTTTCAA
*
1009785 AATGCCCCACATGGATCATTTCTAGTTGAAATGGGCTTTCAGCATGACCCTTTAGAACTAATGTG
1 AATGCCCCACATGGATCATTTCTAGTTGAAATGGGCTTTCAGCATGCCCCTTTAGAACTAATGTG
1009850 AGCTTTCAA
66 AGCTTTCAA
* *
1009859 AATGCTCCACATGGATCATTTCTAGTTGAAATGGGCTTTCAACATGCCCCTTTAGAAC
1 AATGCCCCACATGGATCATTTCTAGTTGAAATGGGCTTTCAGCATGCCCCTTTAGAAC
1009917 AAGGTAATCA
Statistics
Matches: 127, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
74 127 1.00
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (74 bp):
AATGCCCCACATGGATCATTTCTAGTTGAAATGGGCTTTCAGCATGCCCCTTTAGAACTAATGTG
AGCTTTCAA
Found at i:1011150 original size:20 final size:20
Alignment explanation
Indices: 1011127--1011188 Score: 63
Period size: 20 Copynumber: 3.1 Consensus size: 20
1011117 ATTACTGTTC
*
1011127 ATACAGTATAGGTACTATTT
1 ATACAGTATAGATACTATTT
* * *
1011147 ATACAATATTGATACTATTC
1 ATACAGTATAGATACTATTT
* *
1011167 ATACAGTACA-TTACTATTT
1 ATACAGTATAGATACTATTT
1011186 ATA
1 ATA
1011189 AAAATTATTT
Statistics
Matches: 33, Mismatches: 9, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
19 10 0.30
20 23 0.70
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.40
Consensus pattern (20 bp):
ATACAGTATAGATACTATTT
Found at i:1011426 original size:22 final size:22
Alignment explanation
Indices: 1011401--1011442 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
1011391 ATGTTTAATG
1011401 AAAAAGATATCAATTGTTAACA
1 AAAAAGATATCAATTGTTAACA
*
1011423 AAAAGGATATCAATTGTTAA
1 AAAAAGATATCAATTGTTAA
1011443 AAAGATACCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.07, G:0.12, T:0.29
Consensus pattern (22 bp):
AAAAAGATATCAATTGTTAACA
Found at i:1011449 original size:18 final size:18
Alignment explanation
Indices: 1011401--1011459 Score: 73
Period size: 18 Copynumber: 3.1 Consensus size: 18
1011391 ATGTTTAATG
1011401 AAAAAGATATCAATTGTT
1 AAAAAGATATCAATTGTT
1011419 AACAAAAAGGATATCAATTGTT
1 ---AAAAA-GATATCAATTGTT
*
1011441 AAAAAGATACCAATTGTT
1 AAAAAGATATCAATTGTT
1011459 A
1 A
1011460 CCAATTGTTG
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
18 13 0.36
19 5 0.14
21 5 0.14
22 13 0.36
ACGTcount: A:0.51, C:0.08, G:0.12, T:0.29
Consensus pattern (18 bp):
AAAAAGATATCAATTGTT
Found at i:1022064 original size:3 final size:3
Alignment explanation
Indices: 1022058--1022090 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
1022048 TATTATTATT
1022058 TAA TAA TAA TAA TAA TAA TAA TAA -AGA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA
1022091 AAAGAATGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 1 0.04
3 26 0.93
4 1 0.04
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:1033839 original size:132 final size:132
Alignment explanation
Indices: 1033602--1033860 Score: 491
Period size: 132 Copynumber: 2.0 Consensus size: 132
1033592 TAACAGCTAT
1033602 ATTGTTATGTCAAGACCCACTAGAATCTGTTGACACAAAAAGCAGTGCATTTTTTCTCACCTTGA
1 ATTGTTATGTCAAGACCCACTAGAATCTGTTGACACAAAAAGCAGTGCATTTTTTCTCACCTTGA
1033667 ATTCAGAATAATTTAGCTTTTCAAAAGCTTTGGAAGTCAACTCCTTGGATCTGAAGGTCACACTA
66 ATTCAGAATAATTTAGCTTTTCAAAAGCTTTGGAAGTCAACTCCTTGGATCTGAAGGTCACACTA
1033732 GA
131 GA
* *
1033734 ATTGTTATGTCAAGCCCCACTAGAATCTGTTGACACAAAAAGCATTGCATTTTTTCTCACCTTGA
1 ATTGTTATGTCAAGACCCACTAGAATCTGTTGACACAAAAAGCAGTGCATTTTTTCTCACCTTGA
*
1033799 ATTCAGAATAATTTAGCTTTTCAATAGCTTTGGAAGTCAACTCCTTGGATCTGAAGGTCACA
66 ATTCAGAATAATTTAGCTTTTCAAAAGCTTTGGAAGTCAACTCCTTGGATCTGAAGGTCACA
1033861 AAAGCATAAC
Statistics
Matches: 124, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
132 124 1.00
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (132 bp):
ATTGTTATGTCAAGACCCACTAGAATCTGTTGACACAAAAAGCAGTGCATTTTTTCTCACCTTGA
ATTCAGAATAATTTAGCTTTTCAAAAGCTTTGGAAGTCAACTCCTTGGATCTGAAGGTCACACTA
GA
Found at i:1034013 original size:169 final size:169
Alignment explanation
Indices: 1033734--1034043 Score: 611
Period size: 169 Copynumber: 1.8 Consensus size: 169
1033724 TCACACTAGA
*
1033734 ATTGTTATGTCAAGCCCCACTAGAATCTGTTGACACAAAAAGCATTGCATTTTTTCTCACCTTGA
1 ATTGTTATGTCAAGCCCCACTAGAATCTGTTGACACAAAAAGCAGTGCATTTTTTCTCACCTTGA
1033799 ATTCAGAATAATTTAGCTTTTCAATAGCTTTGGAAGTCAACTCCTTGGATCTGAAGGTCACAAAA
66 ATTCAGAATAATTTAGCTTTTCAATAGCTTTGGAAGTCAACTCCTTGGATCTGAAGGTCACAAAA
1033864 GCATAACCCTTGGATCTGAAACAAATAAATAACGGCTAT
131 GCATAACCCTTGGATCTGAAACAAATAAATAACGGCTAT
1033903 ATTGTTATGTCAAGCCCCACTAGAATCTGTTGACACAAAAAGCAGTGCATTTTTTCTCACCTTGA
1 ATTGTTATGTCAAGCCCCACTAGAATCTGTTGACACAAAAAGCAGTGCATTTTTTCTCACCTTGA
1033968 ATTCAGAATAATTTAGCTTTTCAATAGCTTTGGAAGTCAACTCCTTGGATCTGAAGGTCACAAAA
66 ATTCAGAATAATTTAGCTTTTCAATAGCTTTGGAAGTCAACTCCTTGGATCTGAAGGTCACAAAA
1034033 GCATAACCCTT
131 GCATAACCCTT
1034044 ACACTAACCT
Statistics
Matches: 140, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
169 140 1.00
ACGTcount: A:0.33, C:0.21, G:0.15, T:0.31
Consensus pattern (169 bp):
ATTGTTATGTCAAGCCCCACTAGAATCTGTTGACACAAAAAGCAGTGCATTTTTTCTCACCTTGA
ATTCAGAATAATTTAGCTTTTCAATAGCTTTGGAAGTCAACTCCTTGGATCTGAAGGTCACAAAA
GCATAACCCTTGGATCTGAAACAAATAAATAACGGCTAT
Found at i:1034146 original size:15 final size:16
Alignment explanation
Indices: 1034126--1034182 Score: 71
Period size: 16 Copynumber: 3.6 Consensus size: 16
1034116 GTTTACTTCA
*
1034126 GAATGATT-AAGCGCT
1 GAATGATTCAAACGCT
*
1034141 GAATGATTCAAATGCT
1 GAATGATTCAAACGCT
* *
1034157 GAATGATTCAAATGTT
1 GAATGATTCAAACGCT
1034173 GAATGATTCA
1 GAATGATTCA
1034183 GAGGCTCTGA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
15 8 0.21
16 30 0.79
ACGTcount: A:0.37, C:0.11, G:0.21, T:0.32
Consensus pattern (16 bp):
GAATGATTCAAACGCT
Found at i:1034159 original size:16 final size:16
Alignment explanation
Indices: 1034138--1034182 Score: 81
Period size: 16 Copynumber: 2.8 Consensus size: 16
1034128 ATGATTAAGC
1034138 GCTGAATGATTCAAAT
1 GCTGAATGATTCAAAT
1034154 GCTGAATGATTCAAAT
1 GCTGAATGATTCAAAT
*
1034170 GTTGAATGATTCA
1 GCTGAATGATTCA
1034183 GAGGCTCTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (16 bp):
GCTGAATGATTCAAAT
Found at i:1034195 original size:18 final size:17
Alignment explanation
Indices: 1034139--1034196 Score: 66
Period size: 16 Copynumber: 3.5 Consensus size: 17
1034129 TGATTAAGCG
*
1034139 CTGAATGATTCAAATG-
1 CTGAATGATTCAAAGGT
*
1034155 CTGAATGATTCAAATGT
1 CTGAATGATTCAAAGGT
*
1034172 -TGAATGATTCAGAGGCT
1 CTGAATGATTCAAAGG-T
1034189 CTGAATGA
1 CTGAATGA
1034197 CTGAATCATT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
16 29 0.78
17 1 0.03
18 7 0.19
ACGTcount: A:0.34, C:0.12, G:0.22, T:0.31
Consensus pattern (17 bp):
CTGAATGATTCAAAGGT
Found at i:1036053 original size:21 final size:20
Alignment explanation
Indices: 1035967--1036124 Score: 86
Period size: 21 Copynumber: 7.8 Consensus size: 20
1035957 AAATGACCAA
**
1035967 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
1035986 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
1036006 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
1036026 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
1036047 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
1036068 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
1036088 CCAAAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
1036109 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
1036125 ACACATAAAT
Statistics
Matches: 104, Mismatches: 29, Indels: 11
0.72 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:1036115 original size:20 final size:20
Alignment explanation
Indices: 1036091--1036360 Score: 290
Period size: 20 Copynumber: 13.5 Consensus size: 20
1036081 CGATTTTCCA
** *
1036091 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGAATCCGT
*
1036111 AAATCGCAACGCGAA-CACAT
1 AAATCGCAACGCGAATC-CGT
*
1036131 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGAATCCGT
* *
1036151 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGAATCCGT
* *
1036171 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGAATCCGT
* *
1036191 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGAATCCGT
* *
1036211 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGAATCCGT
* *
1036231 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGAATCCGT
* *
1036251 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGAATCCGT
**
1036271 AAATCGCAACGATAATCCGT
1 AAATCGCAACGCGAATCCGT
* *
1036291 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGAATCCGT
**
1036311 AAATCGCAACGATAATCCGT
1 AAATCGCAACGCGAATCCGT
* *
1036331 AAATCGCAACGAGAATCTGT
1 AAATCGCAACGCGAATCCGT
*
1036351 AAATCACAAC
1 AAATCGCAAC
1036361 ACTGAAATTT
Statistics
Matches: 222, Mismatches: 26, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
20 221 1.00
21 1 0.00
ACGTcount: A:0.37, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
AAATCGCAACGCGAATCCGT
Done.