Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 277 of 444
Found at i:79975345 original size:50 final size:49
Alignment explanation
Indices: 79975275--79975783 Score: 157
Period size: 44 Copynumber: 10.8 Consensus size: 49
79975265 CATACCCCTA
* *
79975275 AAGTTGCAGTGGAACGGATTGAAGTTATCATGGTGAATCTTATCTCCCCG
1 AAGTGGCAGTGGAACAGATTGAAGTTATCATGG-GAATCTTATCTCCCCG
* ** ** *
79975325 AAGTGGCAGTGGAGCAGATTGAAGCCA-CA----AATCCCATAC-CCCTG
1 AAGTGGCAGTGGAACAGATTGAAGTTATCATGGGAATCTTAT-CTCCCCG
* * *
79975369 AAGTTGTAGTGGAACAGATTGAAGTTATTATGGCGAATCTTATCTCCCCG
1 AAGTGGCAGTGGAACAGATTGAAGTTATCATGG-GAATCTTATCTCCCCG
** ** * *
79975419 AAGTGGCAGTGGAGTAGATTGAAGCCA-CA----AAT-TCCATAC-CCCTG
1 AAGTGGCAGTGGAACAGATTGAAGTTATCATGGGAATCT-TAT-CTCCCCG
* * * * **
79975463 AAGTTGCAGTGGAACGGATTAAAGTTATCATGGCGAACCTTATCTCCTTG
1 AAGTGGCAGTGGAACAGATTGAAGTTATCATGG-GAATCTTATCTCCCCG
* * * * * * * *
79975513 AAGTTGCGGT-AAAGCAAATTGAA---ACCAT--AAATCTCATGC-CCCTG
1 AAGTGGCAGTGGAA-CAGATTGAAGTTATCATGGGAATCTTAT-CTCCCCG
* * *
79975557 AAGTTGCAGTGGAACGGATTGAAGTTATCATGGCGAATCTTATCTCCCTG
1 AAGTGGCAGTGGAACAGATTGAAGTTATCATGG-GAATCTTATCTCCCCG
* * * * ** * *
79975607 AAGTTGCAGTGGAGCAAATTAAAGCCA-CA----AATCTCATAC-CCCTG
1 AAGTGGCAGTGGAACAGATTGAAGTTATCATGGGAATCTTAT-CTCCCCG
*** * * *
79975651 AAGTTATAGTAGAACAGATTGAAGTTATCATGGCGAATCCTATCTCCCTG
1 AAGTGGCAGTGGAACAGATTGAAGTTATCATGG-GAATCTTATCTCCCCG
* * ** ** *
79975701 AAGTTGC-GATGGAGCAGATTGAAGCCA-CA----AATCCCATAC-CCCTG
1 AAGTGGCAG-TGGAACAGATTGAAGTTATCATGGGAATCTTAT-CTCCCCG
*
79975745 AAGTTGCAGTGGAACAGATTGAAGTTATCATGGTGAATC
1 AAGTGGCAGTGGAACAGATTGAAGTTATCATGG-GAATC
79975784 GTTTTTTCCG
Statistics
Matches: 334, Mismatches: 80, Indels: 90
0.66 0.16 0.18
Matches are distributed among these distances:
43 1 0.00
44 152 0.46
45 15 0.04
47 8 0.02
49 14 0.04
50 143 0.43
51 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (49 bp):
AAGTGGCAGTGGAACAGATTGAAGTTATCATGGGAATCTTATCTCCCCG
Found at i:79975389 original size:94 final size:94
Alignment explanation
Indices: 79975113--79975990 Score: 853
Period size: 94 Copynumber: 9.4 Consensus size: 94
79975103 TCAAATCTAC
* * ** * **
79975113 CATGGTGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCATTAA--CCTTATCTTT
1 CATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAATCCCATA-C-CC
* * *
79975176 CTGAAGTTGTAGTGGAGCAGGTTGAAG--AT
64 CTGAAGTTGCAGTGGAACAGATTGAAGTTAT
* ** * * *
79975205 -A--GCGAATCTTATTTCCCTGAAGTTGCAGTGGAATAGATTTAAGCTACAAGTTACACATCTCA
1 CATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC--C-----ACAAATCCCA
* *
79975267 TACCCCTAAAGTTGCAGTGGAACGGATTGAAGTTAT
59 TACCCCTGAAGTTGCAGTGGAACAGATTGAAGTTAT
* * *
79975303 CATGGTGAATCTTATCTCCCCGAAGTGGCAGTGGAGCAGATTGAAGCCACAAATCCCATACCCCT
1 CATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAATCCCATACCCCT
*
79975368 GAAGTTGTAGTGGAACAGATTGAAGTTAT
66 GAAGTTGCAGTGGAACAGATTGAAGTTAT
* * * * *
79975397 TATGGCGAATCTTATCTCCCCGAAGTGGCAGTGGAGTAGATTGAAGCCACAAATTCCATACCCCT
1 CATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAATCCCATACCCCT
* *
79975462 GAAGTTGCAGTGGAACGGATTAAAGTTAT
66 GAAGTTGCAGTGGAACAGATTGAAGTTAT
* * * ** * * * * *
79975491 CATGGCGAACCTTATCTCCTTGAAGTTGCGGTAAAGCAAATTGAAACCATAAATCTCATGCCCCT
1 CATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAATCCCATACCCCT
*
79975556 GAAGTTGCAGTGGAACGGATTGAAGTTAT
66 GAAGTTGCAGTGGAACAGATTGAAGTTAT
* * *
79975585 CATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAAATTAAAGCCACAAATCTCATACCCCT
1 CATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAATCCCATACCCCT
** *
79975650 GAAGTTATAGTAGAACAGATTGAAGTTAT
66 GAAGTTGCAGTGGAACAGATTGAAGTTAT
*
79975679 CATGGCGAATCCTATCTCCCTGAAGTTGC-GATGGAGCAGATTGAAGCCACAAATCCCATACCCC
1 CATGGCGAATCTTATCTCCCTGAAGTTGCAG-TGGAGCAGATTGAAGCCACAAATCCCATACCCC
79975743 TGAAGTTGCAGTGGAACAGATTGAAGTTAT
65 TGAAGTTGCAGTGGAACAGATTGAAGTTAT
* * * * * *
79975773 CATGGTGAATCGTT-TTTTCC----G--G-AGT--TGCAGATTAAAGCCACAAATCCCATACCTC
1 CATGGCGAATC-TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAATCCCATACCCC
*
79975828 TGAAGTTGCAGTGGAACGGATTGAAGTTAT
65 TGAAGTTGCAGTGGAACAGATTGAAGTTAT
* * * *** * * * *
79975858 CATGGAGAATCCTATCTCCCCGAAGTTATGGTAGAGTAAATTGAAGCCACAAATCCCATACCCTT
1 CATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAATCCCATACCCCT
** * *
79975923 GAAGTTATAGTAGGGTA-A-ATTAAAGTTAT
66 GAAGTTGCAGT--GGAACAGATTGAAGTTAT
* *
79975952 TATGGC-AGACCTTATCTCCCTGAAGTTGCAGTGGAGCAG
1 CATGGCGA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
79975991 GTCAAAAGTT
Statistics
Matches: 648, Mismatches: 108, Indels: 58
0.80 0.13 0.07
Matches are distributed among these distances:
84 1 0.00
85 70 0.11
87 1 0.00
88 2 0.00
89 39 0.06
90 1 0.00
91 2 0.00
92 2 0.00
93 2 0.00
94 456 0.70
95 1 0.00
96 27 0.04
97 1 0.00
98 5 0.01
99 2 0.00
101 36 0.06
ACGTcount: A:0.30, C:0.20, G:0.23, T:0.27
Consensus pattern (94 bp):
CATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAATCCCATACCCCT
GAAGTTGCAGTGGAACAGATTGAAGTTAT
Found at i:79975634 original size:282 final size:273
Alignment explanation
Indices: 79975261--79975990 Score: 950
Period size: 282 Copynumber: 2.6 Consensus size: 273
79975251 CAAGTTACAC
* *
79975261 ATCTCATACCCCTAAAGTTGCAGTGGAACGGATTGAAGTTATCATGGTGAATCTTATCTCCCCGA
1 ATCTCATACCCCTGAAGTTGCAGTGGAACGGATTGAAGTTATCATGGAGAATCTTATCTCCCCGA
* * *
79975326 AGTGGCAGTGGAGCAGATTGAAGCCACAAATCCCATACCCCTGAAGTTGTAGTGGAACAGATTGA
66 AGTTGCAGTGGAGCAAATTGAAGCCACAAATCCCATACCCCTGAAGTTATAGTGGAACAGATTGA
* * * *
79975391 AGTTATTATGGCGAATCTTATCTCCCCGAAGTGGCAGTGGAGTAGATTGAAGCCACAAATTCCAT
131 AGTTATTATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAATCCCAT
*
79975456 ACCCCTGAAGTTGCAGTGGAACGGATTAAAGTTATCATGGCGAA-CCTTATCTCCTTGAAGTTGC
196 ACCCCTGAAGTTGCAGTGGAACAGATTAAAGTTATCATGGCGAATCCTTATCTCC--GAAGTTGC
*
79975520 GGTAAAGCAAATTGAAA-CCATAA
259 -----AG---ATT-AAAGCCACAA
* * *
79975543 ATCTCATGCCCCTGAAGTTGCAGTGGAACGGATTGAAGTTATCATGGCGAATCTTATCTCCCTGA
1 ATCTCATACCCCTGAAGTTGCAGTGGAACGGATTGAAGTTATCATGGAGAATCTTATCTCCCCGA
* * *
79975608 AGTTGCAGTGGAGCAAATTAAAGCCACAAATCTCATACCCCTGAAGTTATAGTAGAACAGATTGA
66 AGTTGCAGTGGAGCAAATTGAAGCCACAAATCCCATACCCCTGAAGTTATAGTGGAACAGATTGA
* *
79975673 AGTTATCATGGCGAATCCTATCTCCCTGAAGTTGC-GATGGAGCAGATTGAAGCCACAAATCCCA
131 AGTTATTATGGCGAATCTTATCTCCCTGAAGTTGCAG-TGGAGCAGATTGAAGCCACAAATCCCA
* * * * * *
79975737 TACCCCTGAAGTTGCAGTGGAACAGATTGAAGTTATCATGGTGAATCGTTTTTTCCGGAGTTGCA
195 TACCCCTGAAGTTGCAGTGGAACAGATTAAAGTTATCATGGCGAATCCTTATCTCCGAAGTTGCA
79975802 GATTAAAGCCACAA
260 GATTAAAGCCACAA
* * *
79975816 ATCCCATACCTCTGAAGTTGCAGTGGAACGGATTGAAGTTATCATGGAGAATCCTATCTCCCCGA
1 ATCTCATACCCCTGAAGTTGCAGTGGAACGGATTGAAGTTATCATGGAGAATCTTATCTCCCCGA
*** * * * *
79975881 AGTTATGGTAGAGTAAATTGAAGCCACAAATCCCATACCCTTGAAGTTATAGTAGGGTA-A-ATT
66 AGTTGCAGTGGAGCAAATTGAAGCCACAAATCCCATACCCCTGAAGTTATAGT--GGAACAGATT
* *
79975944 AAAGTTATTATGGC-AGACCTTATCTCCCTGAAGTTGCAGTGGAGCAG
129 GAAGTTATTATGGCGA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAG
79975991 GTCAAAAGTT
Statistics
Matches: 397, Mismatches: 44, Indels: 23
0.86 0.09 0.05
Matches are distributed among these distances:
272 4 0.01
273 154 0.39
274 2 0.01
275 2 0.01
276 2 0.01
281 8 0.02
282 218 0.55
283 7 0.02
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.26
Consensus pattern (273 bp):
ATCTCATACCCCTGAAGTTGCAGTGGAACGGATTGAAGTTATCATGGAGAATCTTATCTCCCCGA
AGTTGCAGTGGAGCAAATTGAAGCCACAAATCCCATACCCCTGAAGTTATAGTGGAACAGATTGA
AGTTATTATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACAAATCCCAT
ACCCCTGAAGTTGCAGTGGAACAGATTAAAGTTATCATGGCGAATCCTTATCTCCGAAGTTGCAG
ATTAAAGCCACAA
Found at i:79976030 original size:45 final size:45
Alignment explanation
Indices: 79975962--79976053 Score: 148
Period size: 45 Copynumber: 2.0 Consensus size: 45
79975952 TATGGCAGAC
*
79975962 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTCAAAAGTTACAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAACAGGTCAAAAGTTACAAAT
* * *
79976007 CTTATCTCCCTGAAGTTGTAGTGGAATAGGTCAAAAGTTATAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAACAGGTCAAAAGTTACAAAT
79976052 CT
1 CT
79976054 CAATCCCCGA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (45 bp):
CTTATCTCCCTGAAGTTGCAGTGGAACAGGTCAAAAGTTACAAAT
Found at i:79978017 original size:14 final size:14
Alignment explanation
Indices: 79978000--79978043 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
79977990 TTGTGTATTC
79978000 TTTTTATATTTTTA
1 TTTTTATATTTTTA
*
79978014 TTTTTATATATTTA
1 TTTTTATATTTTTA
*
79978028 -TTTTAT-TTTATA
1 TTTTTATATTTTTA
79978040 TTTT
1 TTTT
79978044 GTATGTTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
12 4 0.15
13 9 0.35
14 13 0.50
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTTATATTTTTA
Found at i:79978023 original size:16 final size:14
Alignment explanation
Indices: 79978000--79978043 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 14
79977990 TTGTGTATTC
79978000 TTTTTATATTTTTAT
1 TTTTTATATTTTT-T
79978015 TTTTATATATTTATTT
1 TTTT-TATATTT-TTT
79978031 TATTTTATATTTT
1 T-TTTTATATTTT
79978044 GTATGTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
15 5 0.19
16 16 0.62
17 5 0.19
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTTATATTTTTT
Found at i:79978126 original size:13 final size:13
Alignment explanation
Indices: 79978108--79978139 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
79978098 TAAAAAATTT
79978108 GTTATTTATTATC
1 GTTATTTATTATC
*
79978121 GTTATTTATTATT
1 GTTATTTATTATC
79978134 GTTATT
1 GTTATT
79978140 GTTATTAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.22, C:0.03, G:0.09, T:0.66
Consensus pattern (13 bp):
GTTATTTATTATC
Found at i:79978132 original size:3 final size:3
Alignment explanation
Indices: 79978126--79978174 Score: 53
Period size: 3 Copynumber: 16.3 Consensus size: 3
79978116 TTATCGTTAT
* * * * *
79978126 TTA TTA TTG TTA TTG TTA TTA GTA TTA TTA TTG TTA TTA TTA CTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
79978174 T
1 T
79978175 GGTCATTTTC
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.27, C:0.02, G:0.08, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:79981414 original size:26 final size:26
Alignment explanation
Indices: 79981384--79981448 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 26
79981374 TTAGAATTCT
79981384 ATGTATATAATTATATA-AAATTAAA
1 ATGTATATAATTATATATAAATTAAA
79981409 ATTGTATA-ATATTATATATTAAATTAAA
1 A-TGTATATA-ATTATATA-TAAATTAAA
*
79981437 ATGTATGTAATT
1 ATGTATATAATT
79981449 TTAAATTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
25 2 0.06
26 14 0.41
27 8 0.24
28 10 0.29
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.45
Consensus pattern (26 bp):
ATGTATATAATTATATATAAATTAAA
Found at i:79982176 original size:2 final size:2
Alignment explanation
Indices: 79982169--79982201 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
79982159 TTTAATTAAA
79982169 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
79982202 ACAAAGACAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:79987732 original size:22 final size:22
Alignment explanation
Indices: 79987704--79987749 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
79987694 TAATATAGAC
79987704 TTAATAAAT-GCAAAAAAAAATT
1 TTAATAAATAG-AAAAAAAAATT
*
79987726 TTAATAAATAGAAAGAAAAATT
1 TTAATAAATAGAAAAAAAAATT
79987748 TT
1 TT
79987750 GAAGTGTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 21 0.95
23 1 0.05
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.30
Consensus pattern (22 bp):
TTAATAAATAGAAAAAAAAATT
Found at i:79989742 original size:41 final size:41
Alignment explanation
Indices: 79989697--79989817 Score: 145
Period size: 41 Copynumber: 2.9 Consensus size: 41
79989687 CTAGTATAAC
* *
79989697 ACACCGGCACAGAGCCTACTAGGCAATAAGCCTGAT-TTAAT
1 ACACCGGCACAAAGCCTGCTAGGCAATAAGCCTGATATT-AT
* * *
79989738 ACACCGGCATAAAGCTTGCTAGGCAATAAGCTTGATATTAT
1 ACACCGGCACAAAGCCTGCTAGGCAATAAGCCTGATATTAT
* * *
79989779 ACACCGGTATCAAATCCTGCTAGGCAATAAGACTGATAT
1 ACACCGGCA-CAAAGCCTGCTAGGCAATAAGCCTGATAT
79989818 ATCACAGTTA
Statistics
Matches: 67, Mismatches: 11, Indels: 3
0.83 0.14 0.04
Matches are distributed among these distances:
41 41 0.61
42 26 0.39
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (41 bp):
ACACCGGCACAAAGCCTGCTAGGCAATAAGCCTGATATTAT
Found at i:80000121 original size:2 final size:2
Alignment explanation
Indices: 80000114--80000152 Score: 62
Period size: 2 Copynumber: 19.5 Consensus size: 2
80000104 AGAGTTTTAA
80000114 AT AT AT AT AT AT AT AT AGT -T AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT A
80000153 GTTTCAAATT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 1 0.03
2 33 0.94
3 1 0.03
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:80001455 original size:18 final size:19
Alignment explanation
Indices: 80001429--80001466 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
80001419 TTACTGTTTG
* *
80001429 AATGCCTAATTCA-GTAAA
1 AATGACTAAATCATGTAAA
80001447 AATGACTAAATCATGTAAA
1 AATGACTAAATCATGTAAA
80001466 A
1 A
80001467 TATAAAAGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.50, C:0.13, G:0.11, T:0.26
Consensus pattern (19 bp):
AATGACTAAATCATGTAAA
Found at i:80002619 original size:23 final size:24
Alignment explanation
Indices: 80002557--80002622 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
80002547 TACCAATATA
* * *
80002557 TCAGCTTATAAGAGCTTACTGTTT
1 TCAGCTCATCAGAGCTTACCGTTT
* *
80002581 TCAGCTCGTCAAAGCTTACCGTTT
1 TCAGCTCATCAGAGCTTACCGTTT
80002605 T-AGCTCAAT-AGAGCTTAC
1 TCAGCTC-ATCAGAGCTTAC
80002623 TGTCCATCAG
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
23 13 0.38
24 21 0.62
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.35
Consensus pattern (24 bp):
TCAGCTCATCAGAGCTTACCGTTT
Found at i:80002821 original size:19 final size:19
Alignment explanation
Indices: 80002793--80002856 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
80002783 AAAAATTATG
*
80002793 TGTTACATGGATGAATTAC
1 TGTTATATGGATGAATTAC
* *
80002812 TGTTATATGGATGAAGTAT
1 TGTTATATGGATGAATTAC
***
80002831 TGTTTATACAAATGAATTAC
1 TG-TTATATGGATGAATTAC
80002851 TGTTAT
1 TGTTAT
80002857 CAAATGAATT
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
19 22 0.61
20 14 0.39
ACGTcount: A:0.33, C:0.06, G:0.19, T:0.42
Consensus pattern (19 bp):
TGTTATATGGATGAATTAC
Found at i:80002845 original size:20 final size:20
Alignment explanation
Indices: 80002822--80002877 Score: 80
Period size: 18 Copynumber: 2.9 Consensus size: 20
80002812 TGTTATATGG
*
80002822 ATGAAGTATTGTTTATACAA
1 ATGAATTATTGTTTATACAA
*
80002842 ATGAATTACTG-TTAT-CAA
1 ATGAATTATTGTTTATACAA
80002860 ATGAATTATTGTTTATAC
1 ATGAATTATTGTTTATAC
80002878 GATTGAGAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
18 13 0.42
19 8 0.26
20 10 0.32
ACGTcount: A:0.38, C:0.07, G:0.12, T:0.43
Consensus pattern (20 bp):
ATGAATTATTGTTTATACAA
Found at i:80002862 original size:18 final size:18
Alignment explanation
Indices: 80002803--80002872 Score: 61
Period size: 18 Copynumber: 3.7 Consensus size: 18
80002793 TGTTACATGG
*
80002803 ATGAATTACTGTTAT-ATGG
1 ATGAATTACTGTTATCA--A
* *
80002822 ATGAAGTATTGTTTATACAA
1 ATGAATTACTG-TTAT-CAA
80002842 ATGAATTACTGTTATCAA
1 ATGAATTACTGTTATCAA
*
80002860 ATGAATTATTGTT
1 ATGAATTACTGTT
80002873 TATACGATTG
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
18 15 0.36
19 13 0.31
20 13 0.31
22 1 0.02
ACGTcount: A:0.36, C:0.06, G:0.16, T:0.43
Consensus pattern (18 bp):
ATGAATTACTGTTATCAA
Found at i:80002873 original size:38 final size:38
Alignment explanation
Indices: 80002803--80002877 Score: 107
Period size: 38 Copynumber: 1.9 Consensus size: 38
80002793 TGTTACATGG
*
80002803 ATGAATTACTGTTATATGGATGAAGTATTGTTTATACAA
1 ATGAATTACTGTTATA-GAATGAAGTATTGTTTATACAA
*
80002842 ATGAATTACTGTTATCA-AATGAATTATTGTTTATAC
1 ATGAATTACTGTTAT-AGAATGAAGTATTGTTTATAC
80002878 GATTGAGAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
38 17 0.52
39 15 0.45
40 1 0.03
ACGTcount: A:0.36, C:0.07, G:0.15, T:0.43
Consensus pattern (38 bp):
ATGAATTACTGTTATAGAATGAAGTATTGTTTATACAA
Found at i:80006400 original size:47 final size:46
Alignment explanation
Indices: 80006288--80006414 Score: 143
Period size: 47 Copynumber: 2.7 Consensus size: 46
80006278 GGGTTATCGT
** *
80006288 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAACCACATGATGA
* *
80006334 GAGCT-GATGTAAGACCATGTTTGGGACATGGCATCAACCTCGA-GATGTA
1 GAGCTAG-TGTAAGA-CATGTCTGGGACAT-GCATCAACCAC-ATGATG-A
80006383 -AGCTAGTGTAAGACATGTCTGGGACATGCATC
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATC
80006415 GGCTATGAGA
Statistics
Matches: 69, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
45 1 0.01
46 17 0.25
47 26 0.38
48 22 0.32
49 3 0.04
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCAACCACATGATGA
Found at i:80007983 original size:10 final size:10
Alignment explanation
Indices: 80007963--80008035 Score: 78
Period size: 10 Copynumber: 7.2 Consensus size: 10
80007953 TCTCAACAAA
80007963 AATTACAAAAT
1 AATT-CAAAAT
80007974 AATTCAAAAT
1 AATTCAAAAT
*
80007984 AATTTCCAAA-
1 AA-TTCAAAAT
80007994 AATTCAAAAT
1 AATTCAAAAT
80008004 AATTCAAAAT
1 AATTCAAAAT
*
80008014 AATTTCCAAA-
1 AA-TTCAAAAT
*
80008024 GATTCAAAAT
1 AATTCAAAAT
80008034 AA
1 AA
80008036 ATTTTAAAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
9 12 0.23
10 24 0.46
11 16 0.31
ACGTcount: A:0.58, C:0.12, G:0.01, T:0.29
Consensus pattern (10 bp):
AATTCAAAAT
Found at i:80008004 original size:30 final size:30
Alignment explanation
Indices: 80007959--80008035 Score: 136
Period size: 30 Copynumber: 2.5 Consensus size: 30
80007949 TCTCTCTCAA
80007959 CAAAAATTACAAAATAATTCAAAATAATTTC
1 CAAAAATT-CAAAATAATTCAAAATAATTTC
80007990 CAAAAATTCAAAATAATTCAAAATAATTTC
1 CAAAAATTCAAAATAATTCAAAATAATTTC
*
80008020 CAAAGATTCAAAATAA
1 CAAAAATTCAAAATAA
80008036 ATTTTAAAAT
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
30 37 0.82
31 8 0.18
ACGTcount: A:0.58, C:0.13, G:0.01, T:0.27
Consensus pattern (30 bp):
CAAAAATTCAAAATAATTCAAAATAATTTC
Found at i:80008049 original size:19 final size:20
Alignment explanation
Indices: 80008004--80008053 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
80007994 AATTCAAAAT
80008004 AATTCAAAAT-AATTTCCAA
1 AATTCAAAATAAATTTCCAA
*
80008023 AGATTCAAAATAAATTT-TAA
1 A-ATTCAAAATAAATTTCCAA
80008043 AATTCAAAATA
1 AATTCAAAATA
80008054 TTTATAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 11 0.39
20 12 0.43
21 5 0.18
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.32
Consensus pattern (20 bp):
AATTCAAAATAAATTTCCAA
Found at i:80008063 original size:19 final size:19
Alignment explanation
Indices: 80008004--80008070 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 19
80007994 AATTCAAAAT
*
80008004 AATTCAAAATAATTTCCAAA
1 AATTCAAAATAATTT-TAAA
*
80008024 GATTCAAAATAAATTTT-AA
1 AATTCAAAAT-AATTTTAAA
80008043 AATTCAAAAT-ATTTATAAAA
1 AATTCAAAATAATTT-T-AAA
80008063 AATTCAAA
1 AATTCAAA
80008071 TTTTATATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
17 4 0.10
18 1 0.03
19 11 0.28
20 19 0.47
21 5 0.12
ACGTcount: A:0.57, C:0.09, G:0.01, T:0.33
Consensus pattern (19 bp):
AATTCAAAATAATTTTAAA
Found at i:80029456 original size:40 final size:40
Alignment explanation
Indices: 80029377--80029553 Score: 234
Period size: 40 Copynumber: 4.5 Consensus size: 40
80029367 CGGATGATAA
* * * *
80029377 CCGGACTAAGATCCGAAGGCATTCGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * * *
80029417 CCGGGCTATGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
*
80029457 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
80029497 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
80029537 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
80029554 ATACTTGGGT
Statistics
Matches: 120, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
38 1 0.01
39 15 0.12
40 102 0.85
41 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:80042615 original size:17 final size:16
Alignment explanation
Indices: 80042580--80042612 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
80042570 TCAAATTGGG
80042580 ATTAAGTGTTTCTAAA
1 ATTAAGTGTTTCTAAA
*
80042596 ATTAAGTTTTTCTAAA
1 ATTAAGTGTTTCTAAA
80042612 A
1 A
80042613 ATTTGTGAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.09, T:0.45
Consensus pattern (16 bp):
ATTAAGTGTTTCTAAA
Found at i:80043002 original size:19 final size:19
Alignment explanation
Indices: 80042980--80043016 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
80042970 ACCATTGTCA
80042980 CCCACCGTAATCAAATTTT
1 CCCACCGTAATCAAATTTT
**
80042999 CCCATTGTAATCAAATTT
1 CCCACCGTAATCAAATTT
80043017 GTTATTAATT
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:0.32, C:0.27, G:0.05, T:0.35
Consensus pattern (19 bp):
CCCACCGTAATCAAATTTT
Found at i:80044573 original size:2 final size:2
Alignment explanation
Indices: 80044568--80044604 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
80044558 TTTCGAATTG
80044568 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
80044605 GACATGTTGC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:80044816 original size:12 final size:12
Alignment explanation
Indices: 80044799--80044825 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
80044789 TTACGTATAA
80044799 GACCATGTTTGG
1 GACCATGTTTGG
80044811 GACCATGTTTGG
1 GACCATGTTTGG
80044823 GAC
1 GAC
80044826 ATTGGCATCG
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:0.19, C:0.19, G:0.33, T:0.30
Consensus pattern (12 bp):
GACCATGTTTGG
Found at i:80047542 original size:47 final size:47
Alignment explanation
Indices: 80047488--80047772 Score: 419
Period size: 47 Copynumber: 6.1 Consensus size: 47
80047478 TTAGGATTTT
** * * *
80047488 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
80047535 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
80047582 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
80047629 ATGTGATGAATGTGAACATGCATATATGTCATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
80047676 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * * *
80047723 ATGTGATGAACGTGGGA-GTGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCA
80047770 ATG
1 ATG
80047773 CGAAATGTGT
Statistics
Matches: 221, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
47 219 0.99
48 2 0.01
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:80047635 original size:22 final size:22
Alignment explanation
Indices: 80047564--80047635 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
80047554 GCATATATGA
80047564 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
80047586 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
80047611 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
80047633 GAT
1 GAT
80047636 GAATGTGAAC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 11 0.30
23 9 0.24
24 9 0.24
25 8 0.22
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:80047802 original size:46 final size:46
Alignment explanation
Indices: 80047746--80047928 Score: 276
Period size: 46 Copynumber: 4.0 Consensus size: 46
80047736 GGGAGTGTAT
* *
80047746 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
*
80047792 ATATGAGGTAAAGCCGAGTGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
*
80047838 ATATGAGGTAAAGCCGAATGGCTAATGCAAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
* * * * **
80047884 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATG
80047929 TGTATATATA
Statistics
Matches: 125, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 125 1.00
ACGTcount: A:0.34, C:0.09, G:0.32, T:0.25
Consensus pattern (46 bp):
ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
Found at i:80052809 original size:39 final size:39
Alignment explanation
Indices: 80052763--80052849 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
80052753 CCGGCAATTA
*
80052763 GCCTGCTAGGTATAAACCTGAACTTATCACCGGCACGAG
1 GCCTGCTAGGTATAAACCTGAACTTATCACCAGCACGAG
* *
80052802 GCTTGCTAGGTATAAACTTGAACTTATCACCAGCACGAG
1 GCCTGCTAGGTATAAACCTGAACTTATCACCAGCACGAG
80052841 GCCTGCTAG
1 GCCTGCTAG
80052850 ACATTAAGTC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (39 bp):
GCCTGCTAGGTATAAACCTGAACTTATCACCAGCACGAG
Found at i:80059209 original size:120 final size:120
Alignment explanation
Indices: 80058996--80059229 Score: 468
Period size: 120 Copynumber: 1.9 Consensus size: 120
80058986 TACGTACCTG
80058996 GACAATTTAATCTATCGAACGAATCTAGATGTCGTATAGCATAAATCCCATATTCATAGACTTTT
1 GACAATTTAATCTATCGAACGAATCTAGATGTCGTATAGCATAAATCCCATATTCATAGACTTTT
80059061 TTATTTCACCGGCAATTAGCCTGCTAGGTATAAACCTGAACTTATCACCAGCCTC
66 TTATTTCACCGGCAATTAGCCTGCTAGGTATAAACCTGAACTTATCACCAGCCTC
80059116 GACAATTTAATCTATCGAACGAATCTAGATGTCGTATAGCATAAATCCCATATTCATAGACTTTT
1 GACAATTTAATCTATCGAACGAATCTAGATGTCGTATAGCATAAATCCCATATTCATAGACTTTT
80059181 TTATTTCACCGGCAATTAGCCTGCTAGGTATAAACCTGAACTTATCACC
66 TTATTTCACCGGCAATTAGCCTGCTAGGTATAAACCTGAACTTATCACC
80059230 GGCACGAGGC
Statistics
Matches: 114, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 114 1.00
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.32
Consensus pattern (120 bp):
GACAATTTAATCTATCGAACGAATCTAGATGTCGTATAGCATAAATCCCATATTCATAGACTTTT
TTATTTCACCGGCAATTAGCCTGCTAGGTATAAACCTGAACTTATCACCAGCCTC
Found at i:80059242 original size:39 final size:39
Alignment explanation
Indices: 80059199--80059285 Score: 165
Period size: 39 Copynumber: 2.2 Consensus size: 39
80059189 CCGGCAATTA
*
80059199 GCCTGCTAGGTATAAACCTGAACTTATCACCGGCACGAG
1 GCCTGCTAGGTATAAACCTGAACTTATCACCGGCACAAG
80059238 GCCTGCTAGGTATAAACCTGAACTTATCACCGGCACAAG
1 GCCTGCTAGGTATAAACCTGAACTTATCACCGGCACAAG
80059277 GCCTGCTAG
1 GCCTGCTAG
80059286 ACATTCAGTC
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.21
Consensus pattern (39 bp):
GCCTGCTAGGTATAAACCTGAACTTATCACCGGCACAAG
Found at i:80065985 original size:40 final size:40
Alignment explanation
Indices: 80065781--80065985 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
80065771 CGGAGTTTAA
** * *
80065781 CCGGATATAGCT-ACTCGTTCAAATACCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
80065821 CCGGTTATAGTAGCTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
80065861 CCGGATTTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
80065901 CCGAATTTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* *
80065941 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
80065981 CCGGA
1 CCGGA
80065986 CATCATTCGA
Statistics
Matches: 143, Mismatches: 18, Indels: 8
0.85 0.11 0.05
Matches are distributed among these distances:
39 4 0.03
40 128 0.90
41 11 0.08
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:80068155 original size:40 final size:41
Alignment explanation
Indices: 80068061--80068281 Score: 246
Period size: 40 Copynumber: 5.6 Consensus size: 41
80068051 TATTCGAATG
*
80068061 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTA-GTGACT
* * * *
80068102 ATAACCGGACTAAGAT-CCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAG-TGACT
*
80068142 ATATCCGGGCTAAGA-CCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
* *
80068182 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
* * *
80068222 ATATCCGGGCTAAGA-CCCGAAGGC-CTTGTGCAAGT-AGTT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGA-CT
80068261 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGATCCCGAAG
80068282 ATTTCTTGAG
Statistics
Matches: 154, Mismatches: 18, Indels: 19
0.81 0.09 0.10
Matches are distributed among these distances:
37 1 0.01
38 14 0.09
39 15 0.10
40 94 0.61
41 29 0.19
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (41 bp):
ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGTGACT
Found at i:80081479 original size:28 final size:29
Alignment explanation
Indices: 80081447--80081548 Score: 127
Period size: 29 Copynumber: 3.6 Consensus size: 29
80081437 TACCTGTATC
* *
80081447 TGGCCCATTAAGCCC-AATCA-TTTTCATA
1 TGGCCCATTAGGCCCAAATCACATTT-ATA
* *
80081475 TGGCCCATTAGGCCCAAATCACCTATATA
1 TGGCCCATTAGGCCCAAATCACATTTATA
80081504 TGGCCCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTTATA
**
80081533 TGGCCTGTTAGGCCCA
1 TGGCCCATTAGGCCCA
80081549 GTCACATACA
Statistics
Matches: 65, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
28 14 0.22
29 49 0.75
30 2 0.03
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.27
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTTATA
Found at i:80081544 original size:58 final size:57
Alignment explanation
Indices: 80081438--80081548 Score: 143
Period size: 58 Copynumber: 1.9 Consensus size: 57
80081428 AAATTCACAT
* * *
80081438 ACCTGTATCTGGCCCATTAAGCCCAATCATTTTCATATGGCCCATTAGGCCCAAATC
1 ACCTATATATGGCCCATTAAGCCCAATCAATTTCATATGGCCCATTAGGCCCAAATC
* **
80081495 ACCTATATATGGCCCATTAGGCCCAAATCACATTT-ATATGGCCTGTTAGGCCCA
1 ACCTATATATGGCCCATTAAGCCC-AATCA-ATTTCATATGGCCCATTAGGCCCA
80081549 GTCACATACA
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
57 21 0.46
58 22 0.48
59 3 0.07
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.28
Consensus pattern (57 bp):
ACCTATATATGGCCCATTAAGCCCAATCAATTTCATATGGCCCATTAGGCCCAAATC
Found at i:80081782 original size:16 final size:16
Alignment explanation
Indices: 80081742--80081784 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
80081732 TAGCCAAACA
*
80081742 TTCGGCTTTTCGGTAT
1 TTCGGCTTTTCGGCAT
*
80081758 TTCGACTTTTCGGCAT
1 TTCGGCTTTTCGGCAT
*
80081774 TTTGGCTTTTC
1 TTCGGCTTTTC
80081785 AGTTTTTTCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.07, C:0.21, G:0.21, T:0.51
Consensus pattern (16 bp):
TTCGGCTTTTCGGCAT
Found at i:80085289 original size:5 final size:5
Alignment explanation
Indices: 80085279--80085334 Score: 53
Period size: 5 Copynumber: 11.0 Consensus size: 5
80085269 AAGTCACCCC
* *
80085279 TTTTA TTTTA TTTTA TTTTA -TTTA TTATTA -TTTC TTATA TTTATA TTTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT-TTA TTTTA TTTTA TTT-TA -TTTTA
80085330 TTTTA
1 TTTTA
80085335 CTTATTTTTC
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
4 6 0.14
5 26 0.62
6 7 0.17
7 3 0.07
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:80085340 original size:15 final size:14
Alignment explanation
Indices: 80085279--80085343 Score: 60
Period size: 15 Copynumber: 4.3 Consensus size: 14
80085269 AAGTCACCCC
*
80085279 TTTTATTTTATTTT
1 TTTTATTTTATTAT
80085293 ATTTTATTTATTATTAT
1 -TTTTA-TT-TTATTAT
80085310 TTCTTATATTTA-TAT
1 TT-TTAT-TTTATTAT
80085325 TTTTATTTTACTTAT
1 TTTTATTTTA-TTAT
80085340 TTTT
1 TTTT
80085344 CTTATACTTA
Statistics
Matches: 43, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
13 4 0.09
14 4 0.09
15 17 0.40
16 8 0.19
17 10 0.23
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (14 bp):
TTTTATTTTATTAT
Found at i:80085359 original size:32 final size:31
Alignment explanation
Indices: 80085294--80085368 Score: 89
Period size: 32 Copynumber: 2.4 Consensus size: 31
80085284 TTTTATTTTA
* *
80085294 TTTTATTTATTATTATTTCTTATATTTATAT
1 TTTTATTTATTATTATTTCTTATACTTAGAT
80085325 TTTTATTTTACTTATT-TTTCTTATACTTAGAT
1 TTTTA-TTTA-TTATTATTTCTTATACTTAGAT
*
80085357 TTTAAATTTATT
1 TTT-TATTTATT
80085369 TTAATTTTTC
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
31 7 0.18
32 25 0.66
33 6 0.16
ACGTcount: A:0.25, C:0.05, G:0.01, T:0.68
Consensus pattern (31 bp):
TTTTATTTATTATTATTTCTTATACTTAGAT
Found at i:80087439 original size:42 final size:43
Alignment explanation
Indices: 80087333--80087443 Score: 143
Period size: 43 Copynumber: 2.6 Consensus size: 43
80087323 ATGTACAATG
* * *
80087333 CCAATGTCCCAAACGTGGTCTTACATGTAATCAAATATCGATA
1 CCAATGTCCCAAACATGGTCTTACACGAAATCAAATATCGATA
* * * *
80087376 CCACTGTCCCAAATAGGGTCTTACACGAAATCAAATAT-GATG
1 CCAATGTCCCAAACATGGTCTTACACGAAATCAAATATCGATA
*
80087418 TCAATGTCCCAAACATGGTCTTACAC
1 CCAATGTCCCAAACATGGTCTTACAC
80087444 ATAAATCATA
Statistics
Matches: 57, Mismatches: 11, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
42 25 0.44
43 32 0.56
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.26
Consensus pattern (43 bp):
CCAATGTCCCAAACATGGTCTTACACGAAATCAAATATCGATA
Found at i:80089424 original size:18 final size:17
Alignment explanation
Indices: 80089397--80089438 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
80089387 TTTTTATTGT
80089397 TAAAAAAAATCAAA-AAA
1 TAAAAAAAAT-AAAGAAA
80089414 TAAAGAAAAATAAAGAAA
1 TAAA-AAAAATAAAGAAA
80089432 TAAAAAA
1 TAAAAAA
80089439 TATATATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 10 0.43
18 13 0.57
ACGTcount: A:0.81, C:0.02, G:0.05, T:0.12
Consensus pattern (17 bp):
TAAAAAAAATAAAGAAA
Found at i:80091858 original size:6 final size:6
Alignment explanation
Indices: 80091849--80091903 Score: 87
Period size: 6 Copynumber: 9.3 Consensus size: 6
80091839 GTATTTTATT
80091849 TTTTTA TTTTT- TTTATT- TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
1 TTTTTA TTTTTA TTT-TTA TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA
80091896 TTTTTA TT
1 TTTTTA TT
80091904 GGTATCTTAA
Statistics
Matches: 47, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.11
6 42 0.89
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTA
Found at i:80091864 original size:17 final size:17
Alignment explanation
Indices: 80091842--80091894 Score: 81
Period size: 17 Copynumber: 3.1 Consensus size: 17
80091832 TTGATGAGTA
80091842 TTTTATTTTTTTATTTT
1 TTTTATTTTTTTATTTT
80091859 TTTTATTTTTTTATTTT
1 TTTTATTTTTTTATTTT
80091876 TATTT-TTATTTTTATTTT
1 T-TTTATT-TTTTTATTTT
80091894 T
1 T
80091895 ATTTTTATTG
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
17 20 0.59
18 14 0.41
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (17 bp):
TTTTATTTTTTTATTTT
Found at i:80092306 original size:31 final size:31
Alignment explanation
Indices: 80092255--80092314 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 31
80092245 TGATTGAATC
*
80092255 AAAACTAAAATTTCAAAATTTTAAAAATACA
1 AAAACTAAAATTTCAAAATTTAAAAAATACA
80092286 AAAACTAAAA-TT-AACCAATTTAAAAAATA
1 AAAACTAAAATTTCAA--AATTTAAAAAATA
80092315 TCACGAGTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 2 0.08
30 2 0.08
31 22 0.85
ACGTcount: A:0.63, C:0.10, G:0.00, T:0.27
Consensus pattern (31 bp):
AAAACTAAAATTTCAAAATTTAAAAAATACA
Found at i:80092497 original size:71 final size:72
Alignment explanation
Indices: 80092416--80092558 Score: 261
Period size: 72 Copynumber: 2.0 Consensus size: 72
80092406 TGGGGACATT
*
80092416 TCTAGGATGAGCTTTACT-AAAAAAACGACATATGAAAAGCTTTTACCAAAATATCTAATGATTT
1 TCTAGGATGAGCTTTACTAAAAAAAACGACATATAAAAAGCTTTTACCAAAATATCTAATGATTT
80092480 ACCCATA
66 ACCCATA
*
80092487 TCTAGGATGAGCTTTACTAAAAAAAACGACATATAAAAAGGTTTTACCAAAATATCTAATGATTT
1 TCTAGGATGAGCTTTACTAAAAAAAACGACATATAAAAAGCTTTTACCAAAATATCTAATGATTT
80092552 ACCCATA
66 ACCCATA
80092559 AAAATATTGA
Statistics
Matches: 69, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
71 18 0.26
72 51 0.74
ACGTcount: A:0.43, C:0.16, G:0.11, T:0.29
Consensus pattern (72 bp):
TCTAGGATGAGCTTTACTAAAAAAAACGACATATAAAAAGCTTTTACCAAAATATCTAATGATTT
ACCCATA
Found at i:80096161 original size:18 final size:17
Alignment explanation
Indices: 80096124--80096162 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
80096114 AATAAAACGA
*
80096124 TTTTTTGAAAATGATAG
1 TTTTTTGAAAATAATAG
*
80096141 TTTTTCTGAAAATAATTG
1 TTTTT-TGAAAATAATAG
80096159 TTTT
1 TTTT
80096163 CAAGAAGACA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.31, C:0.03, G:0.13, T:0.54
Consensus pattern (17 bp):
TTTTTTGAAAATAATAG
Found at i:80100135 original size:79 final size:79
Alignment explanation
Indices: 80099991--80100209 Score: 257
Period size: 79 Copynumber: 2.7 Consensus size: 79
80099981 GAATCACATA
* * * * *
80099991 CCTTCGGAATTTAACCGGATATAGCTACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTATAG
1 CCTTCGGGACTTAACCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATATAG
80100055 TAACTCGCACAAATG
65 TAACTCGCACAAATG
* *
80100070 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGGAAT-TA
1 CCTTCGGGACTTAA-CCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATATA
80100133 GTAACTCGCACAAATG
64 GTAACTCGCACAAATG
* * *
80100149 CCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTA-ACCGGATATAGT-AC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
80100210 TATCATTCGA
Statistics
Matches: 120, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
78 3 0.03
79 61 0.51
80 45 0.38
81 11 0.09
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CCTTCGGGACTTAACCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATATAGT
AACTCGCACAAATG
Found at i:80100138 original size:39 final size:41
Alignment explanation
Indices: 80100005--80100209 Score: 237
Period size: 40 Copynumber: 5.1 Consensus size: 41
80099995 CGGAATTTAA
* *
80100005 CCGG-ATATAGCT-ACTCGCTCAAATGCCTTCGGGACATAGC
1 CCGGAATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
80100045 CCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
80100085 CCGG-ATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
80100124 CCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
80100164 CCGG-ATATAGTCACTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGAATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
80100205 CCGGA
1 CCGGA
80100210 TATCATTCGA
Statistics
Matches: 143, Mismatches: 14, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
38 2 0.01
39 34 0.24
40 81 0.57
41 23 0.16
42 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (41 bp):
CCGGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:80103042 original size:12 final size:12
Alignment explanation
Indices: 80103027--80103056 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
80103017 TTTTGCTTTC
80103027 TTTTTCTTTCTT
1 TTTTTCTTTCTT
80103039 TTTTTCTTTCTT
1 TTTTTCTTTCTT
*
80103051 TCTTTC
1 TTTTTC
80103057 CCTGTTCTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (12 bp):
TTTTTCTTTCTT
Found at i:80103585 original size:49 final size:49
Alignment explanation
Indices: 80103527--80103698 Score: 172
Period size: 49 Copynumber: 3.5 Consensus size: 49
80103517 GTTATGTGTT
* *
80103527 AGTGTAAGACCTATCTGGGACATGGCATCGACAC-CGATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCGATAGATGAAAGCC
* * **
80103576 AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCGATATATGAAAGTT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
* * * ** **
80103625 AGTGTAAGACCTGTCTAGGACACGGCATCGACTTTAAT-G-TGCTA-CC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
80103671 TAGTGTAAGACCATGTCTGGGACATGGC
1 -AGTGTAAGACC-TGTCTGGGACATGGC
80103699 GTCGGCATTT
Statistics
Matches: 101, Mismatches: 19, Indels: 7
0.80 0.15 0.06
Matches are distributed among these distances:
47 14 0.14
48 14 0.14
49 73 0.72
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCGATAGATGAAAGCC
Found at i:80104888 original size:20 final size:21
Alignment explanation
Indices: 80104849--80104888 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
80104839 GTCATAATGG
80104849 CCATACAGGCATGTTGCCCTT
1 CCATACAGGCATGTTGCCCTT
* *
80104870 CCATACGGGCGTG-TGCCCT
1 CCATACAGGCATGTTGCCCT
80104889 ACTTCAAGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.15, C:0.35, G:0.25, T:0.25
Consensus pattern (21 bp):
CCATACAGGCATGTTGCCCTT
Found at i:80109214 original size:20 final size:21
Alignment explanation
Indices: 80109189--80109228 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
80109179 CTCATGAAAT
80109189 AGGGC-ACACGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
80109209 AGGGCAACACGCCCGTGTGG
1 AGGGCAACACGCCCGTGTGG
80109229 TCATTATAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.20, C:0.30, G:0.40, T:0.10
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:80111123 original size:2 final size:2
Alignment explanation
Indices: 80111116--80111145 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
80111106 CGGCTCTTGC
80111116 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
80111146 GTTTGCACAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:80111911 original size:40 final size:40
Alignment explanation
Indices: 80111854--80112011 Score: 216
Period size: 40 Copynumber: 4.0 Consensus size: 40
80111844 TCGAATGATG
* * *
80111854 TCCGGGCTAAGTCCCGAAGGC-TCTGTGCTAAGTTACTAAA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
80111894 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
80111934 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
80111974 TCCGGGA-TAAGTCCCGAAGGCATTTGTGCGAGCTACTA
1 TCC-GGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
80112012 TAACCGAGCT
Statistics
Matches: 110, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
39 1 0.01
40 99 0.90
41 10 0.09
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:80112032 original size:40 final size:38
Alignment explanation
Indices: 80111858--80112039 Score: 197
Period size: 40 Copynumber: 4.6 Consensus size: 38
80111848 ATGATGTCCG
* *
80111858 GGCTAAGTCCCGAAGGC-TCTGTGCTAAGTTACTAAATCC
1 GGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAATCC
80111897 GGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAATCC
1 GG-CTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAATCC
80111937 GGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAATCC
1 GG-CTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAATCC
* *
80111977 GGGATAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA-CC
1 -GGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AATCC
* *
80112017 GAGCTATGTCTCGAAGGTATTTG
1 G-GCTAAGTC-CGAAGGCATTTG
80112040 AACGAGTAGC
Statistics
Matches: 128, Mismatches: 7, Indels: 15
0.85 0.05 0.10
Matches are distributed among these distances:
39 5 0.04
40 112 0.88
41 11 0.09
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (38 bp):
GGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAATCC
Found at i:80119026 original size:25 final size:25
Alignment explanation
Indices: 80118965--80119026 Score: 58
Period size: 25 Copynumber: 2.5 Consensus size: 25
80118955 AATTGAATTT
*
80118965 TATTTT-TATTTACTATAAAATTAA
1 TATTTTATATTTACTATAAAATAAA
* *
80118989 T-TTTAATTTTTTA-TATAAAAATAAA
1 TATTTTA-TATTTACTAT-AAAATAAA
80119014 TATTTTATATTTA
1 TATTTTATATTTA
80119027 AAACAGTGAA
Statistics
Matches: 29, Mismatches: 5, Indels: 7
0.71 0.12 0.17
Matches are distributed among these distances:
23 3 0.10
24 4 0.14
25 18 0.62
26 4 0.14
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (25 bp):
TATTTTATATTTACTATAAAATAAA
Found at i:80120443 original size:14 final size:15
Alignment explanation
Indices: 80120426--80120455 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
80120416 ATTTTTGTTC
80120426 ATATA-TTTAAAACT
1 ATATATTTTAAAACT
80120440 ATATATTTTAAAACT
1 ATATATTTTAAAACT
80120455 A
1 A
80120456 GAGCAAGCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (15 bp):
ATATATTTTAAAACT
Found at i:80120770 original size:2 final size:2
Alignment explanation
Indices: 80120722--80120751 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
80120712 AAAAATAAAT
80120722 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
80120752 CACAAAGTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:80120998 original size:23 final size:26
Alignment explanation
Indices: 80120949--80121002 Score: 69
Period size: 23 Copynumber: 2.2 Consensus size: 26
80120939 TTCCAAAACT
80120949 CAAATATACTATACTAAGTTATAACC
1 CAAATATACTATACTAAGTTATAACC
* *
80120975 CAAATA-A-TATACTCA-TTATTACC
1 CAAATATACTATACTAAGTTATAACC
80120998 CAAAT
1 CAAAT
80121003 TCAAAATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 12 0.46
24 7 0.27
25 1 0.04
26 6 0.23
ACGTcount: A:0.46, C:0.20, G:0.02, T:0.31
Consensus pattern (26 bp):
CAAATATACTATACTAAGTTATAACC
Found at i:80121447 original size:25 final size:25
Alignment explanation
Indices: 80121419--80121468 Score: 66
Period size: 27 Copynumber: 2.0 Consensus size: 25
80121409 AAGTTAGCTC
*
80121419 TCATAT-TATATTATATAATGTTATA
1 TCATATATATAGTATATAAT-TTATA
80121444 TCATATCATATAGTATATAATTTAT
1 TCATAT-ATATAGTATATAATTTAT
80121469 TAAAGTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 6 0.27
26 4 0.18
27 12 0.55
ACGTcount: A:0.40, C:0.06, G:0.04, T:0.50
Consensus pattern (25 bp):
TCATATATATAGTATATAATTTATA
Found at i:80121563 original size:14 final size:14
Alignment explanation
Indices: 80121544--80121587 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
80121534 ATAATCTATA
80121544 ATATATTAA-TAGTT
1 ATATATTAATTA-TT
80121558 ATATATTAATTATT
1 ATATATTAATTATT
*
80121572 ATATATTATTTATT
1 ATATATTAATTATT
80121586 AT
1 AT
80121588 TGTACTAGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
14 26 0.93
15 2 0.07
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (14 bp):
ATATATTAATTATT
Found at i:80121578 original size:7 final size:7
Alignment explanation
Indices: 80121517--80121587 Score: 56
Period size: 7 Copynumber: 10.0 Consensus size: 7
80121507 ATATCATGTA
80121517 ATATTAT
1 ATATTAT
*
80121524 ATATTTT
1 ATATTAT
*
80121531 ATTATAAT
1 A-TATTAT
* *
80121539 CTATAAT
1 ATATTAT
80121546 ATATTA-
1 ATATTAT
80121552 ATAGTTAT
1 ATA-TTAT
80121560 ATATTA-
1 ATATTAT
80121566 ATTATTAT
1 A-TATTAT
80121574 ATATTAT
1 ATATTAT
*
80121581 TTATTAT
1 ATATTAT
80121588 TGTACTAGTT
Statistics
Matches: 52, Mismatches: 7, Indels: 10
0.75 0.10 0.14
Matches are distributed among these distances:
6 4 0.08
7 40 0.77
8 8 0.15
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.56
Consensus pattern (7 bp):
ATATTAT
Found at i:80121586 original size:35 final size:35
Alignment explanation
Indices: 80121503--80121586 Score: 89
Period size: 35 Copynumber: 2.3 Consensus size: 35
80121493 AATTAAACAT
* *
80121503 TATAATATCATGTAATATTATATATTTTATTATAATC
1 TATAATAT-AT-TAATATTATATATTTAATTATAATA
*
80121540 TATAATATATTAATAGTTATATA-TTAATTATTATA
1 TATAATATATTAATA-TTATATATTTAATTATAATA
* *
80121575 TATTATTTATTA
1 TATAATATATTA
80121587 TTGTACTAGT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
35 24 0.59
36 9 0.22
37 8 0.20
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (35 bp):
TATAATATATTAATATTATATATTTAATTATAATA
Found at i:80136640 original size:46 final size:46
Alignment explanation
Indices: 80136590--80136762 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
80136580 TGGTTGAGCA
80136590 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
80136636 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
80136681 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
80136729 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
80136763 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:80136746 original size:93 final size:93
Alignment explanation
Indices: 80136587--80136757 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
80136577 GGATGGTTGA
* *
80136587 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
80136652 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
80136680 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
80136745 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
80136758 ACTTAGGGGC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:80139768 original size:2 final size:2
Alignment explanation
Indices: 80139761--80139795 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
80139751 AACTTTAGCT
80139761 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
80139796 GTTTTTCTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:80142470 original size:30 final size:30
Alignment explanation
Indices: 80142426--80142488 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
80142416 ACTTAACAAG
80142426 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
* * *
80142456 CAAATGTCTTTAAAATAATAACAAAATTGA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
80142486 CAA
1 CAA
80142489 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.56, C:0.14, G:0.05, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:80142542 original size:11 final size:11
Alignment explanation
Indices: 80142524--80142563 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
80142514 ACAATAACAA
80142524 CAAAATAATAG
1 CAAAATAATAG
*
80142535 CAACATAATAG
1 CAAAATAATAG
*
80142546 TAAAATAATAG
1 CAAAATAATAG
80142557 CAAAATA
1 CAAAATA
80142564 GGGAGAAAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.62, C:0.10, G:0.07, T:0.20
Consensus pattern (11 bp):
CAAAATAATAG
Found at i:80142542 original size:22 final size:22
Alignment explanation
Indices: 80142517--80142559 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
80142507 TATCCAAACA
80142517 ATAACAACAAAATAATAGCAAC
1 ATAACAACAAAATAATAGCAAC
* **
80142539 ATAATAGTAAAATAATAGCAA
1 ATAACAACAAAATAATAGCAA
80142560 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.63, C:0.12, G:0.07, T:0.19
Consensus pattern (22 bp):
ATAACAACAAAATAATAGCAAC
Found at i:80145614 original size:16 final size:16
Alignment explanation
Indices: 80145580--80145613 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
80145570 CCACTTTTGG
*
80145580 TTTCACTAACCTAATT
1 TTTCACTAACCCAATT
80145596 TTTC-CTAACCCAATT
1 TTTCACTAACCCAATT
80145611 TTT
1 TTT
80145614 TGGATGTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.26, C:0.26, G:0.00, T:0.47
Consensus pattern (16 bp):
TTTCACTAACCCAATT
Found at i:80150957 original size:17 final size:17
Alignment explanation
Indices: 80150935--80150970 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
80150925 AAGCCAAAGT
* *
80150935 AACTTTTATTCAGGAAC
1 AACTTTCATTCAAGAAC
80150952 AACTTTCATTCAAGAAC
1 AACTTTCATTCAAGAAC
80150969 AA
1 AA
80150971 TCATCGTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (17 bp):
AACTTTCATTCAAGAAC
Found at i:80154729 original size:30 final size:30
Alignment explanation
Indices: 80154693--80154759 Score: 134
Period size: 30 Copynumber: 2.2 Consensus size: 30
80154683 GTGTCTCGGT
80154693 CGTGTGTGACACACGGTTATGTTACACGGC
1 CGTGTGTGACACACGGTTATGTTACACGGC
80154723 CGTGTGTGACACACGGTTATGTTACACGGC
1 CGTGTGTGACACACGGTTATGTTACACGGC
80154753 CGTGTGT
1 CGTGTGT
80154760 CCCCTGGTGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.18, C:0.22, G:0.31, T:0.28
Consensus pattern (30 bp):
CGTGTGTGACACACGGTTATGTTACACGGC
Found at i:80163654 original size:21 final size:21
Alignment explanation
Indices: 80163628--80163706 Score: 65
Period size: 21 Copynumber: 3.9 Consensus size: 21
80163618 CTTTACAGCA
80163628 CATTATGGATAAACCACTCAT
1 CATTATGGATAAACCACTCAT
* **
80163649 CATTATGTATGTACCA--C-T
1 CATTATGGATAAACCACTCAT
* *
80163667 CGTTGTGGATAAACCACTCAT
1 CATTATGGATAAACCACTCAT
* **
80163688 CCTTATGGATGTACCACTC
1 CATTATGGATAAACCACTC
80163707 GTTGTGGATA
Statistics
Matches: 43, Mismatches: 12, Indels: 6
0.70 0.20 0.10
Matches are distributed among these distances:
18 12 0.28
19 1 0.02
20 1 0.02
21 29 0.67
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (21 bp):
CATTATGGATAAACCACTCAT
Found at i:80163684 original size:18 final size:18
Alignment explanation
Indices: 80163661--80163723 Score: 63
Period size: 18 Copynumber: 3.3 Consensus size: 18
80163651 TTATGTATGT
80163661 ACCACTCGTTGTGGATAA
1 ACCACTCGTTGTGGATAA
* * **
80163679 ACCACTCATCCTTATGGATGT
1 ACCA--C-TCGTTGTGGATAA
80163700 ACCACTCGTTGTGGATAA
1 ACCACTCGTTGTGGATAA
80163718 ACCACT
1 ACCACT
80163724 AATAATAAAA
Statistics
Matches: 34, Mismatches: 8, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
18 19 0.56
19 1 0.03
20 1 0.03
21 13 0.38
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (18 bp):
ACCACTCGTTGTGGATAA
Found at i:80163687 original size:39 final size:39
Alignment explanation
Indices: 80163633--80163723 Score: 164
Period size: 39 Copynumber: 2.3 Consensus size: 39
80163623 CAGCACATTA
*
80163633 TGGATAAACCACTCATCATTATGTATGTACCACTCGTTG
1 TGGATAAACCACTCATCATTATGGATGTACCACTCGTTG
*
80163672 TGGATAAACCACTCATCCTTATGGATGTACCACTCGTTG
1 TGGATAAACCACTCATCATTATGGATGTACCACTCGTTG
80163711 TGGATAAACCACT
1 TGGATAAACCACT
80163724 AATAATAAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 50 1.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (39 bp):
TGGATAAACCACTCATCATTATGGATGTACCACTCGTTG
Found at i:80164381 original size:43 final size:43
Alignment explanation
Indices: 80164309--80164393 Score: 111
Period size: 43 Copynumber: 2.0 Consensus size: 43
80164299 AGCTATTAAT
*
80164309 ACGGTGTGGATAAACCAATCAATGATGCAGATAA-ACTGCTCAA
1 ACGGTGTGGATAAACCAATCAAAGATGCAGATAATA-TGCTCAA
* *
80164352 ACGGTGTGGATAAGCCACTCAACAG-TGCAGATAATATGCTCA
1 ACGGTGTGGATAAACCAATCAA-AGATGCAGATAATATGCTCA
80164394 CACTTCCTTC
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
43 35 0.95
44 2 0.05
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.21
Consensus pattern (43 bp):
ACGGTGTGGATAAACCAATCAAAGATGCAGATAATATGCTCAA
Found at i:80170649 original size:53 final size:53
Alignment explanation
Indices: 80170450--80170656 Score: 180
Period size: 53 Copynumber: 3.8 Consensus size: 53
80170440 ATTAGGGTTT
* * * * *
80170450 AAGGATACCAAGTAAGACCATGCCAAGGCATGACATTGGTAAGTTTAACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGACAATGGTAAG-TTCATAAGGC
* * ** * * * * *
80170504 AAGGAAATCATGTAAGACCATGTTAAGACATGGCATTGATAAACTACTATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGACAATGGT-AAGTTC-ATAAGGC
* * * * * *
80170559 AAAGATCCCATGTAAGACCGTGCCAAGGCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGACAATGGTAAGTTCATAAGGC
* * *
80170612 AAGGATACCACGTAAGACTATGTCAAGACATGACAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGACAATGGTAAGTT
80170657 TAAAAAGGAA
Statistics
Matches: 117, Mismatches: 34, Indels: 5
0.75 0.22 0.03
Matches are distributed among these distances:
53 43 0.37
54 36 0.31
55 38 0.32
ACGTcount: A:0.38, C:0.17, G:0.24, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGACAATGGTAAGTTCATAAGGC
Found at i:80176027 original size:8 final size:8
Alignment explanation
Indices: 80176014--80176079 Score: 66
Period size: 8 Copynumber: 8.6 Consensus size: 8
80176004 TCTATTTCAA
80176014 AAAAAAAG
1 AAAAAAAG
80176022 AAAAAAAG
1 AAAAAAAG
80176030 -AAAAAA-
1 AAAAAAAG
* * *
80176036 AAGATAAT
1 AAAAAAAG
*
80176044 AAAAAGAG
1 AAAAAAAG
80176052 AAAAAAAG
1 AAAAAAAG
*
80176060 -AATAAAG
1 AAAAAAAG
80176067 AAAAAAAG
1 AAAAAAAG
80176075 AAAAA
1 AAAAA
80176080 TGGAGAGGCC
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
7 16 0.35
8 30 0.65
ACGTcount: A:0.83, C:0.00, G:0.12, T:0.05
Consensus pattern (8 bp):
AAAAAAAG
Found at i:80176047 original size:22 final size:24
Alignment explanation
Indices: 80176018--80176079 Score: 85
Period size: 22 Copynumber: 2.7 Consensus size: 24
80176008 TTTCAAAAAA
80176018 AAAGAAAAAAAGAAAAAAAAG-AT
1 AAAGAAAAAAAGAAAAAAAAGAAT
* *
80176041 -AATAAAAAGAG-AAAAAAAGAAT
1 AAAGAAAAAAAGAAAAAAAAGAAT
80176063 AAAGAAAAAAAGAAAAA
1 AAAGAAAAAAAGAAAAA
80176080 TGGAGAGGCC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
21 8 0.25
22 11 0.34
23 9 0.28
24 4 0.12
ACGTcount: A:0.82, C:0.00, G:0.13, T:0.05
Consensus pattern (24 bp):
AAAGAAAAAAAGAAAAAAAAGAAT
Found at i:80177066 original size:43 final size:41
Alignment explanation
Indices: 80177019--80177161 Score: 121
Period size: 43 Copynumber: 3.3 Consensus size: 41
80177009 CGCCTTAATC
80177019 CCCTAAGCAGTAGGGTAACAGGCTAAAATTACAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGG-TAAAATTAC-GATCTTATCT
* * **
80177062 CCCTAAGCAGTAGCGG-AACAGAT-CAACGACGACTCGCCTTAATC-
1 CCCTAAGCAGTAG-GGTAACAGGTAAAATTACGA-T---CTT-ATCT
* *
80177106 CCCTAAGCAATAGGGTAACAGGTCAAAATTGCGGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGT-AAAATTAC-GATCTTATCT
80177149 CCCTAAGCAGTAG
1 CCCTAAGCAGTAG
80177162 TGGAGCAGAT
Statistics
Matches: 78, Mismatches: 11, Indels: 22
0.70 0.10 0.20
Matches are distributed among these distances:
40 2 0.03
41 5 0.06
42 4 0.05
43 35 0.45
44 23 0.29
45 3 0.04
46 4 0.05
47 2 0.03
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.22
Consensus pattern (41 bp):
CCCTAAGCAGTAGGGTAACAGGTAAAATTACGATCTTATCT
Found at i:80177155 original size:87 final size:85
Alignment explanation
Indices: 80177008--80177216 Score: 291
Period size: 87 Copynumber: 2.5 Consensus size: 85
80176998 ACAAAATTCA
80177008 GCGCCTTAATCCCCTAAGCAGTAGGGTAACAGG-CTAAAATTACAGATCTTATCTCCCTAAGCAG
1 GCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTCTAAAATTACAGATCTTATCTCCCTAAGCAG
*
80177072 TAGCGGAACAGATC-AACGAC
66 TAGCGGAACAGATCGAA-GAT
* * *
80177092 GACTCGCCTTAATCCCCTAAGCAATAGGGTAACAGGTC-AAAATTGCGGATCTTATCTCCCTAAG
1 G---CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTCTAAAATTACAGATCTTATCTCCCTAAG
* *
80177156 CAGTAGTGGAGCAGATCGAAGAT
63 CAGTAGCGGAACAGATCGAAGAT
*
80177179 GCGCCTTAAACCCCTAAGCAGTAGGGTAACAGGT-TAAA
1 GCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTCTAAA
80177217 GTATAGCAGA
Statistics
Matches: 111, Mismatches: 8, Indels: 12
0.85 0.06 0.09
Matches are distributed among these distances:
84 35 0.32
87 73 0.66
88 3 0.03
ACGTcount: A:0.33, C:0.24, G:0.22, T:0.21
Consensus pattern (85 bp):
GCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTCTAAAATTACAGATCTTATCTCCCTAAGCAG
TAGCGGAACAGATCGAAGAT
Found at i:80177532 original size:83 final size:83
Alignment explanation
Indices: 80177376--80177565 Score: 220
Period size: 83 Copynumber: 2.2 Consensus size: 83
80177366 GCTGAAGCAG
* *
80177376 ATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAGAACATAGCAGATTTTACTC
1 ATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAGAACATAGCAGATTTGACTC
*
80177441 TCAGATGTTCTAAAACAA
66 TCACATGTTCTAAAACAA
* * * **
80177459 ATCCAAGATGATTTGGTATCCTTGTGTTTCCAAGGAACAAATCGA-ACACATAGCTGATTTGGTT
1 ATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAGA-ACATAGCAGATTTGACT
* *
80177523 TTCACATGTTTACACTAAAGCAA
65 CTCACATG-TT---CTAAAACAA
* *
80177546 ATCTAAGATTATTTGGCATC
1 ATCCAAGATGATTTGGCATC
80177566 TCTGCATTGT
Statistics
Matches: 89, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
82 1 0.01
83 61 0.69
84 2 0.02
87 25 0.28
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (83 bp):
ATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAATCGAGAACATAGCAGATTTGACTC
TCACATGTTCTAAAACAA
Found at i:80179688 original size:5 final size:5
Alignment explanation
Indices: 80179668--80179718 Score: 52
Period size: 5 Copynumber: 10.0 Consensus size: 5
80179658 TTATAGTATC
*
80179668 TATAT TACATT TATAT TATAT TATAT TATAT T-TAAT TATAT T-TAAT
1 TATAT TATA-T TATAT TATAT TATAT TATAT TAT-AT TATAT TAT-AT
80179714 TATAT
1 TATAT
80179719 ATTATTCCTT
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
4 2 0.05
5 31 0.79
6 6 0.15
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:80179721 original size:12 final size:10
Alignment explanation
Indices: 80179671--80179718 Score: 62
Period size: 10 Copynumber: 4.7 Consensus size: 10
80179661 TAGTATCTAT
*
80179671 ATTACATTTA
1 ATTATATTTA
80179681 TATTATA-TTA
1 -ATTATATTTA
80179691 TATTATATTTA
1 -ATTATATTTA
80179702 ATTATATTTA
1 ATTATATTTA
80179712 ATTATAT
1 ATTATAT
80179719 ATTATTCCTT
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
10 27 0.77
11 8 0.23
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (10 bp):
ATTATATTTA
Found at i:80182572 original size:14 final size:16
Alignment explanation
Indices: 80182553--80182584 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
80182543 TCGATACCTT
80182553 TTTGCATT-CA-TACA
1 TTTGCATTACATTACA
80182567 TTTGCATTACATTACA
1 TTTGCATTACATTACA
80182583 TT
1 TT
80182585 AAATAAAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 2 0.12
16 6 0.38
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (16 bp):
TTTGCATTACATTACA
Found at i:80186824 original size:87 final size:85
Alignment explanation
Indices: 80186677--80186885 Score: 248
Period size: 87 Copynumber: 2.5 Consensus size: 85
80186667 ACAAAATTCA
*
80186677 GCGCCTTAATCCCCTAAGCAGTAGGGTAACAGG-CTAAAATTACAGATTTTATCTCCCTAAGCAG
1 GCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTCTAAAATTACAGATCTTATCTCCCTAAGCAG
*
80186741 TAACGGAACAGATC-AACGAC
66 TAACGGAACAGATCGAA-GAT
* **
80186761 GACTCGCCTTAATCCCCTAAGCAATAGGGTAACAGGTC-AAAATT-GTGAATCTTATCTCCCTAA
1 G---CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTCTAAAATTACAG-ATCTTATCTCCCTAA
** *
80186824 GCAGTAGTGGAGCAGATCGAAGAT
62 GCAGTAACGGAACAGATCGAAGAT
* *
80186848 GCGCCTTAAACCCCTAAGCAGCAGGGTAACAGGT-TAAA
1 GCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTCTAAA
80186886 GTATAGCAGA
Statistics
Matches: 107, Mismatches: 11, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
84 34 0.32
86 1 0.01
87 69 0.64
88 3 0.03
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.22
Consensus pattern (85 bp):
GCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTCTAAAATTACAGATCTTATCTCCCTAAGCAG
TAACGGAACAGATCGAAGAT
Found at i:80187434 original size:288 final size:288
Alignment explanation
Indices: 80186914--80187687 Score: 1237
Period size: 289 Copynumber: 2.7 Consensus size: 288
80186904 TTAGGTGCTC
* * *
80186914 ACACTGAAGCAGATCCAAGATGATTTGGCATCTCTGTATTGTCAGAGAAAAAATAGAAGTTTGGC
1 ACACTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA-AAAAAATCGAAGTTTGGC
* * * * * *
80186979 GTCTCCATATTCGATGGAGGGCAGACACATAACAGATCTAACCTTCAGATATTTATGCTAAAGCA
65 TTCTCCATATTCGACGGAGGGTAGACACATAGCAGATCTAACCTTCAGATGTTTATGCTGAAGCA
80187044 GATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAGAACATAGCAGATTTGACT
130 GATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAGAACATAGCAGATTTGACT
*
80187109 CTTAGATGTACTCAAACAAATCCAAGATGATTTGGTATCCTTGT-TTTGCAAGGAAAAAATCAAA
195 CTTAGATGTACTCAAACAAATCCAAGATAATTTGGTATCCTTGTGTTTGCAAGGAAAAAATCAAA
*
80187173 GACATAGCTAATTTGGCTTTCACGTGTTT
260 CACATAGCTAATTTGGCTTTCACGTGTTT
**
80187202 ACGTTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAAAAGAAATCGAAGTTTGGC
1 ACACTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAAAA-AAATCGAAGTTTGGC
*
80187267 TTCTCCATATTCGACGGATGGTAGACACATAGCAGATCTAACCTTCAGATGTTTATGCTGAAGCA
65 TTCTCCATATTCGACGGAGGGTAGACACATAGCAGATCTAACCTTCAGATGTTTATGCTGAAGCA
*
80187332 GATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAGAACATAGTAGATTTGACT
130 GATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAGAACATAGCAGATTTGACT
* * *
80187397 CTTAGATGTTCTCAAACAAATCCAAGATAATTTGGTATCCTTGTGTTTGCAAGGAACAAATCGAA
195 CTTAGATGTACTCAAACAAATCCAAGATAATTTGGTATCCTTGTGTTTGCAAGGAAAAAATCAAA
*
80187462 CACATAGCTGATTTGGCTTTCACGTGTTT
260 CACATAGCTAATTTGGCTTTCACGTGTTT
* *
80187491 ACACTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGATAACAAATCAAAGTTTGG-
1 ACACTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA-AAAAAATCGAAGTTTGGC
* * * * *
80187555 TGTCTCCATATCCGACGGAGGGTAGACGCATGGCAGATCTAACCTTCAGATGTTTATACTGAAGT
65 T-TCTCCATATTCGACGGAGGGTAGACACATAGCAGATCTAACCTTCAGATGTTTATGCTGAAGC
* * *
80187620 AGATCCTAGATGATTTGGCATTCTTATGTTTACAAGGAACAAATCGAGGACATAGCAGATTTGAC
129 AGATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAGAACATAGCAGATTTGAC
80187685 TCT
194 TCT
80187688 CGAGGTCCTC
Statistics
Matches: 449, Mismatches: 33, Indels: 7
0.92 0.07 0.01
Matches are distributed among these distances:
287 3 0.01
288 221 0.49
289 223 0.50
290 2 0.00
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.30
Consensus pattern (288 bp):
ACACTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGAAAAAAATCGAAGTTTGGCT
TCTCCATATTCGACGGAGGGTAGACACATAGCAGATCTAACCTTCAGATGTTTATGCTGAAGCAG
ATCCAAGATGATTTGGCATTCTTGTGTTTACAAGGAACAAATCGAGAACATAGCAGATTTGACTC
TTAGATGTACTCAAACAAATCCAAGATAATTTGGTATCCTTGTGTTTGCAAGGAAAAAATCAAAC
ACATAGCTAATTTGGCTTTCACGTGTTT
Found at i:80189178 original size:22 final size:22
Alignment explanation
Indices: 80189148--80189189 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
80189138 GATCCTTCCG
*
80189148 TTTTCTTTTT-TTTTCAATTTCA
1 TTTTATTTTTATTTT-AATTTCA
80189170 TTTTATTTTTATTTTAATTT
1 TTTTATTTTTATTTTAATTT
80189190 GGCCTTAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.76
Consensus pattern (22 bp):
TTTTATTTTTATTTTAATTTCA
Found at i:80189503 original size:12 final size:12
Alignment explanation
Indices: 80189481--80189561 Score: 66
Period size: 12 Copynumber: 7.0 Consensus size: 12
80189471 TATTATCCAT
80189481 TATATTATTATTA
1 TATATT-TTATTA
80189494 TATATTTTATCTA
1 TATATTTTAT-TA
*
80189507 TA-A---AATTA
1 TATATTTTATTA
80189515 T--ATTTTATTA
1 TATATTTTATTA
80189525 TATATTTTATTA
1 TATATTTTATTA
**
80189537 TATATTTCCTTA
1 TATATTTTATTA
80189549 TATTATTTTATTA
1 TA-TATTTTATTA
80189562 AAATTATGTA
Statistics
Matches: 55, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
7 1 0.02
8 3 0.05
9 2 0.04
10 5 0.09
12 26 0.47
13 18 0.33
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.62
Consensus pattern (12 bp):
TATATTTTATTA
Found at i:80189523 original size:31 final size:31
Alignment explanation
Indices: 80189479--80189538 Score: 104
Period size: 31 Copynumber: 1.9 Consensus size: 31
80189469 TGTATTATCC
80189479 ATTATATTATTATTATATATTTTATCTATAAA
1 ATTATATTATTATTATATATTTTAT-TATAAA
80189511 ATTATATT-TTATTATATATTTTATTATA
1 ATTATATTATTATTATATATTTTATTATA
80189539 TATTTCCTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
30 4 0.14
31 16 0.57
32 8 0.29
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (31 bp):
ATTATATTATTATTATATATTTTATTATAAA
Found at i:80189542 original size:19 final size:18
Alignment explanation
Indices: 80189483--80189535 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 18
80189473 TTATCCATTA
80189483 TATTAT-TATTATATATTT
1 TATTATATATT-TATATTT
* *
80189501 TATCTATAAAATTATATTT
1 TAT-TATATATTTATATTT
80189520 TATTATATATTT-TATT
1 TATTATATATTTATATT
80189536 ATATATTTCC
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
17 4 0.14
18 10 0.34
19 13 0.45
20 2 0.07
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (18 bp):
TATTATATATTTATATTT
Found at i:80189550 original size:34 final size:36
Alignment explanation
Indices: 80189471--80189559 Score: 93
Period size: 31 Copynumber: 2.6 Consensus size: 36
80189461 ATTATATTTG
80189471 TATTATCCATTATATTATTATTATATATTTTATCTATA
1 TATT-TCC-TTATATTATTATTATATATTTTATCTATA
**
80189509 -A---AATTATATT-TTATTATATATTTTAT-TATA
1 TATTTCCTTATATTATTATTATATATTTTATCTATA
80189539 TATTTCCTTATATTATT-TTAT
1 TATTTCCTTATATTATTATTAT
80189560 TAAAATTATG
Statistics
Matches: 42, Mismatches: 4, Indels: 14
0.70 0.07 0.23
Matches are distributed among these distances:
30 4 0.10
31 17 0.40
32 7 0.17
34 11 0.26
35 2 0.05
37 1 0.02
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.61
Consensus pattern (36 bp):
TATTTCCTTATATTATTATTATATATTTTATCTATA
Found at i:80195738 original size:16 final size:15
Alignment explanation
Indices: 80195706--80195745 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
80195696 TTCTATTTCG
80195706 AAAAAA-AAAGAAAA
1 AAAAAAGAAAGAAAA
*
80195720 AAAAAAGAAAGAGAGA
1 AAAAAAGAAAGA-AAA
80195736 AAAAAAGAAA
1 AAAAAAGAAA
80195746 AATGGAGAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 6 0.26
15 5 0.22
16 12 0.52
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (15 bp):
AAAAAAGAAAGAAAA
Found at i:80196735 original size:43 final size:43
Alignment explanation
Indices: 80196688--80196830 Score: 123
Period size: 43 Copynumber: 3.3 Consensus size: 43
80196678 CGCCTTAATC
80196688 CCCTAAGCAGTAGGGTAACAGG-CTAAAATTACAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGTC-AAAATTACAGATCTTATCT
* * * * * * *
80196731 CCCTAAACAGTAGCAG-AACAGATCAACGATGACTCG-CCTTAATC-
1 CCCTAAGCAGTAG-GGTAACAGGTCAA-AATTAC-AGATCTT-ATCT
* * *
80196775 CCCTAAGCAATAGGGTAACAGGTCAAAATTGCGGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGTCAAAATTACAGATCTTATCT
80196818 CCCTAAGCAGTAG
1 CCCTAAGCAGTAG
80196831 TGGAGCAGAT
Statistics
Matches: 75, Mismatches: 17, Indels: 16
0.69 0.16 0.15
Matches are distributed among these distances:
42 4 0.05
43 38 0.51
44 29 0.39
45 4 0.05
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.22
Consensus pattern (43 bp):
CCCTAAGCAGTAGGGTAACAGGTCAAAATTACAGATCTTATCT
Found at i:80196829 original size:87 final size:85
Alignment explanation
Indices: 80196677--80196885 Score: 282
Period size: 87 Copynumber: 2.5 Consensus size: 85
80196667 ACAAAATTCA
80196677 GCGCCTTAATCCCCTAAGCAGTAGGGTAACAGG-CTAAAATTACAGATCTTATCTCCCTAAACAG
1 GCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTCTAAAATTACAGATCTTATCTCCCTAAACAG
80196741 TAGCAGAACAGATC-AACGAT
66 TAGCAGAACAGATCGAA-GAT
* * * *
80196761 GACTCGCCTTAATCCCCTAAGCAATAGGGTAACAGGTC-AAAATTGCGGATCTTATCTCCCTAAG
1 G---CGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTCTAAAATTACAGATCTTATCTCCCTAAA
** *
80196825 CAGTAGTGGAGCAGATCGAAGAT
63 CAGTAGCAGAACAGATCGAAGAT
*
80196848 GCGCCTTAACCCCCTAAGCAGTAGGGTAACAGGT-TAAA
1 GCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTCTAAA
80196886 GTATAGCAGA
Statistics
Matches: 110, Mismatches: 9, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
84 35 0.32
87 72 0.65
88 3 0.03
ACGTcount: A:0.33, C:0.24, G:0.21, T:0.22
Consensus pattern (85 bp):
GCGCCTTAATCCCCTAAGCAGTAGGGTAACAGGTCTAAAATTACAGATCTTATCTCCCTAAACAG
TAGCAGAACAGATCGAAGAT
Found at i:80199215 original size:12 final size:12
Alignment explanation
Indices: 80199193--80199273 Score: 73
Period size: 12 Copynumber: 7.0 Consensus size: 12
80199183 TATTATCCAT
80199193 TATATTATTATTA
1 TATATT-TTATTA
80199206 TATATTTTA-TA
1 TATATTTTATTA
* *
80199217 TATA---AAAT-
1 TATATTTTATTA
80199225 TATATTTTATTA
1 TATATTTTATTA
80199237 TATATTTTATTA
1 TATATTTTATTA
**
80199249 TATATTTCCTTA
1 TATATTTTATTA
80199261 TATTATTTTATTA
1 TA-TATTTTATTA
80199274 AAATTATGTA
Statistics
Matches: 55, Mismatches: 7, Indels: 12
0.74 0.09 0.16
Matches are distributed among these distances:
8 5 0.09
9 1 0.02
11 8 0.15
12 27 0.49
13 14 0.25
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (12 bp):
TATATTTTATTA
Found at i:80199220 original size:24 final size:24
Alignment explanation
Indices: 80199193--80199271 Score: 66
Period size: 22 Copynumber: 3.6 Consensus size: 24
80199183 TATTATCCAT
80199193 TATATTATTATTATATATTTTATA
1 TATATTATTATTATATATTTTATA
*
80199217 TATA--A--AAT-TATATTTTATTA
1 TATATTATTATTATATATTTTA-TA
**
80199237 TATATT-TTATTATATATTTCCT-
1 TATATTATTATTATATATTTTATA
80199259 TATATTATT-TTAT
1 TATATTATTATTAT
80199272 TAAAATTATG
Statistics
Matches: 44, Mismatches: 4, Indels: 16
0.69 0.06 0.25
Matches are distributed among these distances:
19 9 0.20
20 8 0.18
22 11 0.25
23 5 0.11
24 11 0.25
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (24 bp):
TATATTATTATTATATATTTTATA
Found at i:80199262 original size:34 final size:35
Alignment explanation
Indices: 80199171--80199271 Score: 106
Period size: 31 Copynumber: 3.0 Consensus size: 35
80199161 CAATCATGTA
*
80199171 ATATTATATT-TATATTATCCATTATATTATTATTAT
1 ATATTTTATTATATATT-TCC-TTATATTATTATTAT
***
80199207 ATATTTTA-TATATA--AAATTATATT-TTATTAT
1 ATATTTTATTATATATTTCCTTATATTATTATTAT
80199238 ATATTTTATTATATATTTCCTTATATTATT-TTAT
1 ATATTTTATTATATATTTCCTTATATTATTATTAT
80199272 TAAAATTATG
Statistics
Matches: 53, Mismatches: 7, Indels: 12
0.74 0.10 0.17
Matches are distributed among these distances:
31 15 0.28
32 13 0.25
34 11 0.21
35 3 0.06
36 11 0.21
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (35 bp):
ATATTTTATTATATATTTCCTTATATTATTATTAT
Found at i:80199390 original size:5 final size:5
Alignment explanation
Indices: 80199370--80199415 Score: 58
Period size: 5 Copynumber: 9.0 Consensus size: 5
80199360 TTATAGTATC
*
80199370 TATAT TACATT TATAT TATAT TATAT TATAT TATAT T-TAAT TATAT
1 TATAT TATA-T TATAT TATAT TATAT TATAT TATAT TAT-AT TATAT
80199416 ATTATTCCTT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
4 1 0.03
5 30 0.83
6 5 0.14
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:80199421 original size:15 final size:17
Alignment explanation
Indices: 80199360--80199420 Score: 58
Period size: 16 Copynumber: 3.6 Consensus size: 17
80199350 TTATTCTTAT
80199360 TTATAGTATCTATATTACA
1 TTATA-TAT-TATATTACA
*
80199379 TT-TATATTATATTATA
1 TTATATATTATATTACA
80199395 -T-TATATTATATTTA-A
1 TTATATATTATA-TTACA
80199410 TTATATATTAT
1 TTATATATTAT
80199421 TCCTTAAAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
15 11 0.29
16 12 0.32
17 11 0.29
18 2 0.05
19 2 0.05
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (17 bp):
TTATATATTATATTACA
Found at i:80204524 original size:53 final size:53
Alignment explanation
Indices: 80204331--80204534 Score: 156
Period size: 53 Copynumber: 3.8 Consensus size: 53
80204321 AGGGTTTAAG
* * * * * * * *
80204331 GATACCAAGTAAGACCATGCCAAGGCATGACATTGGTAAGTTTTACAAGGCAAG
1 GATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAG-TTCATAACGCAAA
* * * * * * ***
80204385 GAAATCATGTTAGACCATGCCAAGACATTGCATTGATAAACAACTATAACGCAAA
1 GATACCATGTAAGACCATGCCAAGACATGGCAATGGT-AAGTTC-ATAACGCAAA
* * * * * *
80204440 GATCCCATGTAAGACCGTGCCAAGGCATGGCAATGGTGAGTTCATAAGGCAAG
1 GATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAACGCAAA
* *
80204493 GATACCATGTAAGATCATGTCAAGACATGGCAATGGTAAGTT
1 GATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
80204535 TAAAAAGGAA
Statistics
Matches: 112, Mismatches: 36, Indels: 5
0.73 0.24 0.03
Matches are distributed among these distances:
53 44 0.39
54 31 0.28
55 37 0.33
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.22
Consensus pattern (53 bp):
GATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAACGCAAA
Found at i:80210473 original size:10 final size:9
Alignment explanation
Indices: 80210448--80210549 Score: 62
Period size: 10 Copynumber: 10.8 Consensus size: 9
80210438 GTACAATATT
80210448 TTTTTTATA
1 TTTTTTATA
**
80210457 AATTTTATA
1 TTTTTTATA
*
80210466 TTTCTTTACA
1 TTT-TTTATA
80210476 TTTTTTATAA
1 TTTTTTAT-A
80210486 TTTTCTTATGA
1 TTTT-TTAT-A
*
80210497 TTTTATA-A
1 TTTTTTATA
**
80210505 AATTTTATAA
1 TTTTTTAT-A
*
80210515 TTTTTTCTA
1 TTTTTTATA
*
80210524 TATTTCTATA
1 T-TTTTTATA
*
80210534 TATTTTATA
1 TTTTTTATA
80210543 TTTTTTA
1 TTTTTTA
80210550 CGATTTTTCT
Statistics
Matches: 68, Mismatches: 19, Indels: 12
0.69 0.19 0.12
Matches are distributed among these distances:
8 5 0.07
9 26 0.38
10 28 0.41
11 9 0.13
ACGTcount: A:0.28, C:0.05, G:0.01, T:0.66
Consensus pattern (9 bp):
TTTTTTATA
Found at i:80210489 original size:9 final size:9
Alignment explanation
Indices: 80210449--80210647 Score: 70
Period size: 9 Copynumber: 21.6 Consensus size: 9
80210439 TACAATATTT
80210449 TTTTTATAA
1 TTTTTATAA
* *
80210458 ATTTTATAT
1 TTTTTATAA
* *
80210467 TTCTTTACAT
1 TT-TTTATAA
80210477 TTTTTATAA
1 TTTTTATAA
*
80210486 TTTTCTTATGA
1 -TTT-TTATAA
80210497 -TTTTATAAA
1 TTTTTAT-AA
*
80210506 ATTTTATAA
1 TTTTTATAA
*
80210515 TTTTTTCTATA
1 -TTTTTATA-A
*
80210526 TTTCTAT-A
1 TTTTTATAA
*
80210534 TATTTTATAT
1 T-TTTTATAA
**
80210544 TTTTTACGA
1 TTTTTATAA
*
80210553 TTTTTCTAA
1 TTTTTATAA
80210562 TTTTTAATAA
1 TTTTT-ATAA
**
80210572 AATTTA-AA
1 TTTTTATAA
80210580 TATTTTAT--
1 T-TTTTATAA
80210588 TTTTTATTAAA
1 TTTTTA-T-AA
* *
80210599 ATTTAATAA
1 TTTTTATAA
*
80210608 TTTTTATGA
1 TTTTTATAA
*
80210617 TTTTTATTGA
1 TTTTTA-TAA
80210627 TTTTTAT--
1 TTTTTATAA
*
80210634 TTTTTATCA
1 TTTTTATAA
80210643 TTTTT
1 TTTTT
80210648 TGCCACATGT
Statistics
Matches: 141, Mismatches: 30, Indels: 38
0.67 0.14 0.18
Matches are distributed among these distances:
7 12 0.09
8 10 0.07
9 64 0.45
10 45 0.32
11 10 0.07
ACGTcount: A:0.30, C:0.04, G:0.02, T:0.64
Consensus pattern (9 bp):
TTTTTATAA
Found at i:80210499 original size:11 final size:10
Alignment explanation
Indices: 80210448--80210571 Score: 50
Period size: 10 Copynumber: 13.0 Consensus size: 10
80210438 GTACAATATT
80210448 TTTTTTATAA
1 TTTTTTATAA
*
80210458 -ATTTTAT-A
1 TTTTTTATAA
*
80210466 TTTCTTTA-CA
1 TTT-TTTATAA
80210476 TTTTTTATAA
1 TTTTTTATAA
*
80210486 TTTTCTTATGA
1 TTTT-TTATAA
80210497 --TTTTATAA
1 TTTTTTATAA
**
80210505 AATTTTATAA
1 TTTTTTATAA
*
80210515 TTTTTTCT-A
1 TTTTTTATAA
*
80210524 TATTTCTAT-A
1 T-TTTTTATAA
*
80210534 TATTTTAT-A
1 TTTTTTATAA
**
80210543 TTTTTTACGA
1 TTTTTTATAA
*
80210553 -TTTTTCTAA
1 TTTTTTATAA
*
80210562 TTTTTAATAA
1 TTTTTTATAA
80210572 AATTTAAATA
Statistics
Matches: 85, Mismatches: 19, Indels: 20
0.69 0.15 0.16
Matches are distributed among these distances:
8 6 0.07
9 33 0.39
10 41 0.48
11 5 0.06
ACGTcount: A:0.29, C:0.06, G:0.02, T:0.64
Consensus pattern (10 bp):
TTTTTTATAA
Found at i:80210513 original size:29 final size:27
Alignment explanation
Indices: 80210478--80210556 Score: 81
Period size: 29 Copynumber: 2.8 Consensus size: 27
80210468 TCTTTACATT
80210478 TTTTATAATTTTCTTATGATTTTATAAAA
1 TTTTATAATTTT-TTATGATTTTAT-AAA
*
80210507 TTTTATAATTTTTTCTAT-ATTTCTATATA
1 TTTTATAA-TTTTT-TATGATTT-TATAAA
*
80210536 TTTTAT-ATTTTTTACGATTTT
1 TTTTATAATTTTTTATGATTTT
80210557 TCTAATTTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
26 3 0.07
27 9 0.20
28 1 0.02
29 21 0.48
30 10 0.23
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.65
Consensus pattern (27 bp):
TTTTATAATTTTTTATGATTTTATAAA
Found at i:80210558 original size:29 final size:28
Alignment explanation
Indices: 80210511--80210567 Score: 64
Period size: 29 Copynumber: 2.0 Consensus size: 28
80210501 ATAAAATTTT
*
80210511 ATAATTTTTTCTATATTTCTATATATTTT
1 ATAATTTTTTCGATATTTCTA-ATATTTT
*
80210540 AT-ATTTTTTACGATTTTTCTAAT-TTTT
1 ATAATTTTTT-CGATATTTCTAATATTTT
80210567 A
1 A
80210568 ATAAAATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
27 5 0.20
28 9 0.36
29 11 0.44
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.65
Consensus pattern (28 bp):
ATAATTTTTTCGATATTTCTAATATTTT
Found at i:80210606 original size:25 final size:27
Alignment explanation
Indices: 80210562--80210611 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
80210552 ATTTTTCTAA
80210562 TTTTTAATAAAATTTAAAT-ATTTTAT
1 TTTTTAATAAAATTTAAATAATTTTAT
*
80210588 TTTTTATTAAAATTT-AATAATTTT
1 TTTTTAATAAAATTTAAATAATTTT
80210612 TATGATTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 3 0.14
26 19 0.86
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (27 bp):
TTTTTAATAAAATTTAAATAATTTTAT
Found at i:80216271 original size:24 final size:24
Alignment explanation
Indices: 80216239--80216299 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
80216229 AAAATCCAAT
* * *
80216239 GCACTATGTGTGCG-GTTTACTATG
1 GCACTATGTGTGCGAGTGTAAT-TA
80216263 GCACTATGTGTGCGAGTGTAATTA
1 GCACTATGTGTGCGAGTGTAATTA
80216287 GCACTATGTGTGC
1 GCACTATGTGTGC
80216300 AAATACGGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 28 0.85
25 5 0.15
ACGTcount: A:0.20, C:0.16, G:0.30, T:0.34
Consensus pattern (24 bp):
GCACTATGTGTGCGAGTGTAATTA
Found at i:80222811 original size:39 final size:39
Alignment explanation
Indices: 80222757--80222900 Score: 225
Period size: 39 Copynumber: 3.7 Consensus size: 39
80222747 TCGATTGATA
*
80222757 ACCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTCT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTCT
* *
80222796 ACCGGGCTAAGTCCCGAAGGCATTTATGCAAGTTATTCT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTCT
* * *
80222835 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTAT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTCT
80222874 AACCGGGCTAAGTCCCGAAGGCATTTG
1 -ACCGGGCTAAGTCCCGAAGGCATTTG
80222901 AGCTAGTGGC
Statistics
Matches: 96, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 70 0.73
40 26 0.27
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.24
Consensus pattern (39 bp):
ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTCT
Found at i:80222931 original size:79 final size:78
Alignment explanation
Indices: 80222757--80222933 Score: 198
Period size: 79 Copynumber: 2.3 Consensus size: 78
80222747 TCGATTGATA
* * * *
80222757 ACCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTCTACCGGGCTAAGTCCCGAAGGCATTTA
1 ACCGGGCTAACTCCCGAAGGCATTCGTGCGAGTCACTATACCGGGCTAAGTCCCGAAGGCATTTA
* * *
80222822 TGCAAGTTATTCT
66 TGCAAGTGACTAT
* *
80222835 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTATAACCGGGCTAAGTCCCGAAGGCATTT
1 ACCGGGCTAACTCCCGAAGGCATTCGTGCGAGTCACTAT-ACCGGGCTAAGTCCCGAAGGCATTT
* *
80222900 GA-GCTAGTGGCTAT
65 -ATGCAAGTGACTAT
80222914 ATCC-GGCTAAACT-CCGAAGG
1 A-CCGGGCT-AACTCCCGAAGG
80222934 TACTCGTTTG
Statistics
Matches: 85, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
78 35 0.41
79 44 0.52
80 6 0.07
ACGTcount: A:0.24, C:0.25, G:0.27, T:0.24
Consensus pattern (78 bp):
ACCGGGCTAACTCCCGAAGGCATTCGTGCGAGTCACTATACCGGGCTAAGTCCCGAAGGCATTTA
TGCAAGTGACTAT
Found at i:80222933 original size:39 final size:40
Alignment explanation
Indices: 80222754--80222933 Score: 145
Period size: 39 Copynumber: 4.6 Consensus size: 40
80222744 TATTCGATTG
* * * * *
80222754 ATAACCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATT
1 ATAACCGGGCTAACTCCCGAAGGCATTTGAGCGAGTCACT
* * * * *
80222794 CT-ACCGGGCTAAGTCCCGAAGGCATTT-ATGCAAGTTATT
1 ATAACCGGGCTAACTCCCGAAGGCATTTGA-GCGAGTCACT
* * *
80222833 CT-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACT
1 ATAACCGGGCTAACTCCCGAAGGCATTTGAGCGAGTCACT
* * **
80222872 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCT
1 ATAACCGGGCTAACTCCCGAAGGCATTTGAGCGAGTCACT
*
80222912 ATATCC-GGCTAAACT-CCGAAGG
1 ATAACCGGGCT-AACTCCCGAAGG
80222934 TACTCGTTTG
Statistics
Matches: 121, Mismatches: 15, Indels: 9
0.83 0.10 0.06
Matches are distributed among these distances:
39 79 0.65
40 42 0.35
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAACTCCCGAAGGCATTTGAGCGAGTCACT
Found at i:80224490 original size:24 final size:24
Alignment explanation
Indices: 80224463--80224516 Score: 108
Period size: 24 Copynumber: 2.2 Consensus size: 24
80224453 TTGAGAGTGT
80224463 AGCGCCTGCTCCCGCACAAGGGAC
1 AGCGCCTGCTCCCGCACAAGGGAC
80224487 AGCGCCTGCTCCCGCACAAGGGAC
1 AGCGCCTGCTCCCGCACAAGGGAC
80224511 AGCGCC
1 AGCGCC
80224517 GGCGGACTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.20, C:0.43, G:0.30, T:0.07
Consensus pattern (24 bp):
AGCGCCTGCTCCCGCACAAGGGAC
Found at i:80230839 original size:39 final size:39
Alignment explanation
Indices: 80230783--80230964 Score: 283
Period size: 39 Copynumber: 4.6 Consensus size: 39
80230773 TCGATTGATA
**
80230783 ACCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTATTCT
1 ACCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTATTCT
*
80230822 ATCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTATTCT
1 ACCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTATTCT
80230861 ACCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTATTCT
1 ACCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTATTCT
* * * *
80230900 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTAT
1 ACCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTATTCT
*
80230939 AACCGGGCTAAGTCCTGAAGGCATTT
1 -ACCGGGCTAAGTCCCGAAGGCATTT
80230965 GAGCTAGTGG
Statistics
Matches: 133, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 109 0.82
40 24 0.18
ACGTcount: A:0.23, C:0.24, G:0.27, T:0.26
Consensus pattern (39 bp):
ACCGGGCTAAGTCCCGAAGGCATTTATGCGAGTTATTCT
Found at i:80235544 original size:24 final size:24
Alignment explanation
Indices: 80235512--80235572 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
80235502 AAAATCCAAT
* * *
80235512 GCACTATGTGTGCG-GTTTACTATG
1 GCACTATGTGTGCGAGTGTAAT-TA
80235536 GCACTATGTGTGCGAGTGTAATTA
1 GCACTATGTGTGCGAGTGTAATTA
80235560 GCACTATGTGTGC
1 GCACTATGTGTGC
80235573 AAATACGGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 28 0.85
25 5 0.15
ACGTcount: A:0.20, C:0.16, G:0.30, T:0.34
Consensus pattern (24 bp):
GCACTATGTGTGCGAGTGTAATTA
Found at i:80237511 original size:24 final size:24
Alignment explanation
Indices: 80237484--80237629 Score: 116
Period size: 24 Copynumber: 6.1 Consensus size: 24
80237474 AGGCACCCTC
*
80237484 GAATACACCACAAAGACATTTACA
1 GAATACACCACAAAGACACTTACA
* *
80237508 GAATACACCAGAAAGACACTTATA
1 GAATACACCACAAAGACACTTACA
* *
80237532 GAATACACCACAAAGGCAGTTACA
1 GAATACACCACAAAGACACTTACA
** * *
80237556 -AAGTATGCCACAAAGGCACTAACA
1 GAA-TACACCACAAAGACACTTACA
* ** * *
80237580 TAATATGCCATAAA-ACACTTATA
1 GAATACACCACAAAGACACTTACA
* *
80237603 GAGTACACCACAAAGGGCACTTACA
1 GAATACACCACAAA-GACACTTACA
80237628 GA
1 GA
80237630 GTATGCCATG
Statistics
Matches: 96, Mismatches: 22, Indels: 7
0.77 0.18 0.06
Matches are distributed among these distances:
23 17 0.18
24 68 0.71
25 11 0.11
ACGTcount: A:0.47, C:0.23, G:0.14, T:0.16
Consensus pattern (24 bp):
GAATACACCACAAAGACACTTACA
Found at i:80242223 original size:55 final size:55
Alignment explanation
Indices: 80242163--80242281 Score: 152
Period size: 55 Copynumber: 2.2 Consensus size: 55
80242153 AATTTTTATC
** *
80242163 ATATATTTTTATTATATATATTATTTATTCTGTTATATTTATATTTTATTATATGTT
1 ATATATTTTTA-T-TATATATTATTTATTCTACTATATTTATATATTATTATATGTT
* * *
80242220 ATATATTTTTATTATATATTATTTATTTTACTATATTTTTATATTATTAT-TATT
1 ATATATTTTTATTATATATTATTTATTCTACTATATTTATATATTATTATATGTT
80242274 AT-TATTTT
1 ATATATTTT
80242282 ATATATTCCT
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
53 6 0.11
54 5 0.09
55 33 0.59
56 1 0.02
57 11 0.20
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (55 bp):
ATATATTTTTATTATATATTATTTATTCTACTATATTTATATATTATTATATGTT
Done.