Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01011322.1 Corchorus olitorius cultivar O-4 contig11355, 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: 106472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:2896 original size:36 final size:36
Alignment explanation
Indices: 2795--2898 Score: 109
Period size: 36 Copynumber: 2.8 Consensus size: 36
2785 GTTGGACTTT
* * *
2795 GAAAATGAAATTATAAAGCTGAAGAGATCCTCGAGTAG
1 GAAAATGAAA-TATAAAGC-AAAGAGATCCTCAAATAG
* * * *
2833 GAAAAGGAAATTTAAAGGAAAAAGATCCTCAAATAG
1 GAAAATGAAATATAAAGCAAAGAGATCCTCAAATAG
* *
2869 GAAAATGAAATGTAAAGCAAAGTGATCCTC
1 GAAAATGAAATATAAAGCAAAGAGATCCTC
2899 GAACAGGATT
Statistics
Matches: 54, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
36 39 0.72
37 6 0.11
38 9 0.17
ACGTcount: A:0.49, C:0.11, G:0.21, T:0.19
Consensus pattern (36 bp):
GAAAATGAAATATAAAGCAAAGAGATCCTCAAATAG
Found at i:3025 original size:77 final size:77
Alignment explanation
Indices: 2953--3111 Score: 191
Period size: 77 Copynumber: 2.1 Consensus size: 77
2943 TAGGATTCCG
* * * *
2953 AAATCAACTGATAAAGCAACGA-CCCGAA-TAAGATTGAAAATGAACAC-ATAAAGCAATGATCC
1 AAATAAACTGATAAAGCAACGATCCCAAACTAAGATTG-AAATAAAC-CGACAAAGCAATGATCC
3015 TAAACCAGGATTGA
64 TAAACCAGGATTGA
* * * *
3029 AAATAAACTGATAAAGTAATGATCCTAAACTAGGATTGAAATAAACCGACAAAGCAATGATCCTA
1 AAATAAACTGATAAAGCAACGATCCCAAACTAAGATTGAAATAAACCGACAAAGCAATGATCCTA
*
3094 AACCAGGATCG-
66 AACCAGGATTGA
3105 AAATAAA
1 AAATAAA
3112 TTAACTTATG
Statistics
Matches: 71, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
76 27 0.38
77 37 0.52
78 7 0.10
ACGTcount: A:0.50, C:0.17, G:0.15, T:0.18
Consensus pattern (77 bp):
AAATAAACTGATAAAGCAACGATCCCAAACTAAGATTGAAATAAACCGACAAAGCAATGATCCTA
AACCAGGATTGA
Found at i:3031 original size:39 final size:39
Alignment explanation
Indices: 2984--3193 Score: 205
Period size: 39 Copynumber: 5.4 Consensus size: 39
2974 ACCCGAATAA
* *
2984 GATTGAAAATGAACACATAAAGCAATGATCCTAAACCAG
1 GATTGAAAATAAACTCATAAAGCAATGATCCTAAACCAG
* * *
3023 GATTGAAAATAAACTGATAAAGTAATGATCCTAAACTAG
1 GATTGAAAATAAACTCATAAAGCAATGATCCTAAACCAG
*
3062 GATTG-AAATAAAC-CGACAAAGCAATGATCCTAAACCAG
1 GATTGAAAATAAACTC-ATAAAGCAATGATCCTAAACCAG
* * * * * *
3100 GATCGAAATAAATTAACTTATGAAGCAAT-AGTCTTAAATCAG
1 GATTG--A-AAATAAACTCATAAAGCAATGA-TCCTAAACCAG
*
3142 GATT-AAAAT-AACTCATAAAGCAATGATCCTAAATCAG
1 GATTGAAAATAAACTCATAAAGCAATGATCCTAAACCAG
*
3179 GATTCGAAAAGAAAC
1 GATT-GAAAATAAAC
3194 CGATAAAATA
Statistics
Matches: 139, Mismatches: 21, Indels: 21
0.77 0.12 0.12
Matches are distributed among these distances:
37 27 0.19
38 37 0.27
39 44 0.32
40 3 0.02
41 1 0.01
42 27 0.19
ACGTcount: A:0.48, C:0.15, G:0.15, T:0.22
Consensus pattern (39 bp):
GATTGAAAATAAACTCATAAAGCAATGATCCTAAACCAG
Found at i:3088 original size:38 final size:38
Alignment explanation
Indices: 3002--3111 Score: 166
Period size: 38 Copynumber: 2.9 Consensus size: 38
2992 ATGAACACAT
* *
3002 AAAGCAATGATCCTAAACCAGGATTGAAAATAAACTGAT
1 AAAGCAATGATCCTAAACCAGGATTG-AAATAAACCGAC
* *
3041 AAAGTAATGATCCTAAACTAGGATTGAAATAAACCGAC
1 AAAGCAATGATCCTAAACCAGGATTGAAATAAACCGAC
*
3079 AAAGCAATGATCCTAAACCAGGATCGAAATAAA
1 AAAGCAATGATCCTAAACCAGGATTGAAATAAA
3112 TTAACTTATG
Statistics
Matches: 64, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
38 40 0.62
39 24 0.38
ACGTcount: A:0.49, C:0.16, G:0.15, T:0.19
Consensus pattern (38 bp):
AAAGCAATGATCCTAAACCAGGATTGAAATAAACCGAC
Found at i:19639 original size:26 final size:23
Alignment explanation
Indices: 19583--19640 Score: 64
Period size: 26 Copynumber: 2.4 Consensus size: 23
19573 TTAGAGCCCG
19583 TATTT-ATTTATTTATTTGTTGT
1 TATTTAATTTATTTATTTGTTGT
*
19605 TATAATAATTCTATTATATTTGTTGT
1 TAT-TTAATT-TATT-TATTTGTTGT
19631 TGATTTAATT
1 T-ATTTAATT
19641 AGACGTAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
22 3 0.10
23 1 0.03
24 3 0.10
25 4 0.14
26 16 0.55
27 2 0.07
ACGTcount: A:0.26, C:0.02, G:0.09, T:0.64
Consensus pattern (23 bp):
TATTTAATTTATTTATTTGTTGT
Found at i:20840 original size:16 final size:16
Alignment explanation
Indices: 20819--20849 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
20809 CAGAAAGCAC
20819 AAAAGCTCTGAAGTAG
1 AAAAGCTCTGAAGTAG
20835 AAAAGCTCTGAAGTA
1 AAAAGCTCTGAAGTA
20850 ATTTCAGATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.13, G:0.23, T:0.19
Consensus pattern (16 bp):
AAAAGCTCTGAAGTAG
Found at i:21005 original size:41 final size:41
Alignment explanation
Indices: 20943--21348 Score: 512
Period size: 41 Copynumber: 9.9 Consensus size: 41
20933 TTTTCGTTTG
20943 TTCAAGATCAAGTCATCGAGACCCTTGAATTAAATTATCAA
1 TTCAAGATCAAGTCATCGAGACCCTTGAATTAAATTATCAA
** * *
20984 TTCAAGATTGAGTCA-CAGAGACCCATGAATCAAATTATCAA
1 TTCAAGATCAAGTCATC-GAGACCCTTGAATTAAATTATCAA
** *
21025 TTCAAGATTGAGTCATCGAGACCCTTGAATTAAATTAACAA
1 TTCAAGATCAAGTCATCGAGACCCTTGAATTAAATTATCAA
** *
21066 TTCAAGATTGAGTCATCGATACCCTTGAATTAAATTATCAA
1 TTCAAGATCAAGTCATCGAGACCCTTGAATTAAATTATCAA
*
21107 TTCAAGAACAAGTCATCGAGACCCTTGAATTAAATTATCAA
1 TTCAAGATCAAGTCATCGAGACCCTTGAATTAAATTATCAA
**
21148 TTCAAGATTGAGTCATCGAGACCCTTGAATTAAATTATCAA
1 TTCAAGATCAAGTCATCGAGACCCTTGAATTAAATTATCAA
*
21189 TTCAAGAACAAGTCATCGAGACCCTTGAATTAAATTATCAA
1 TTCAAGATCAAGTCATCGAGACCCTTGAATTAAATTATCAA
* * * *
21230 TTCAAGAACAAGTAATCGAGACTCTTGAATCGAATTATTATCAA
1 TTCAAGATCAAGTCATCGAGACCCTTGAAT-TAA--ATTATCAA
* ** * * *
21274 TTCAAGACCAAGTCGCCGAGACCCTTGAATTAGATTGTTAA
1 TTCAAGATCAAGTCATCGAGACCCTTGAATTAAATTATCAA
* *
21315 TTCAAGACCAAGTCATTC-A-ACCCTTGAATCAAAT
1 TTCAAGATCAAGTCA-TCGAGACCCTTGAATTAAAT
21349 CAAATCAAAC
Statistics
Matches: 324, Mismatches: 35, Indels: 13
0.87 0.09 0.03
Matches are distributed among these distances:
40 14 0.04
41 272 0.84
42 4 0.01
43 1 0.00
44 33 0.10
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.29
Consensus pattern (41 bp):
TTCAAGATCAAGTCATCGAGACCCTTGAATTAAATTATCAA
Found at i:23149 original size:59 final size:59
Alignment explanation
Indices: 23085--23275 Score: 177
Period size: 66 Copynumber: 3.1 Consensus size: 59
23075 GCCTAACAAA
* *
23085 AAAAAAGAGCTCACTAAGTTGAAAATCCTATAAAGGACGGCTTAGGCAAAAGTTAGAGC
1 AAAAAAGAGCTCGCTAAGTTGAAAATCCTATAAAGGAAGGCTTAGGCAAAAGTTAGAGC
* * *
23144 AAAAAAAAAAAAAGGGCTCGCTAAGTTGAAAATCCTGTAAAGGATGGCTTAGGCAAAAGTTAGA-
1 -------AAAAAAGAGCTCGCTAAGTTGAAAATCCTATAAAGGAAGGCTTAGGCAAAAGTTAGAG
*
23208 T
59 C
* * * * * * *
23209 AAAAAAAAGTCTTGCTAAGTTGAAAATCCTAAAAAGAAAGGCTTAGACAAAATTTGGAGC
1 AAAAAAGAG-CTCGCTAAGTTGAAAATCCTATAAAGGAAGGCTTAGGCAAAAGTTAGAGC
23269 ACAAAAA
1 A-AAAAA
23276 TAAATGAACT
Statistics
Matches: 106, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
58 7 0.07
59 40 0.38
60 1 0.01
61 5 0.05
66 53 0.50
ACGTcount: A:0.48, C:0.13, G:0.20, T:0.19
Consensus pattern (59 bp):
AAAAAAGAGCTCGCTAAGTTGAAAATCCTATAAAGGAAGGCTTAGGCAAAAGTTAGAGC
Found at i:23185 original size:66 final size:65
Alignment explanation
Indices: 23082--23216 Score: 216
Period size: 66 Copynumber: 2.1 Consensus size: 65
23072 ACTGCCTAAC
23082 AAAAAAAAAGAGCTCACTAAGTTGAAAATCCTATAAAGGACGGCTTAGGCAAAAGTTAGAGCAAA
1 AAAAAAAAAGAGCTCACTAAGTTGAAAATCCTATAAAGGACGGCTTAGGCAAAAGTTAGA-CAAA
23147 A
65 A
* * * * *
23148 AAAAAAAAAGGGCTCGCTAAGTTGAAAATCCTGTAAAGGATGGCTTAGGCAAAAGTTAGATAAAA
1 AAAAAAAAAGAGCTCACTAAGTTGAAAATCCTATAAAGGACGGCTTAGGCAAAAGTTAGACAAAA
23213 AAAA
1 AAAA
23217 GTCTTGCTAA
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
65 8 0.12
66 56 0.88
ACGTcount: A:0.50, C:0.12, G:0.21, T:0.18
Consensus pattern (65 bp):
AAAAAAAAAGAGCTCACTAAGTTGAAAATCCTATAAAGGACGGCTTAGGCAAAAGTTAGACAAAA
Found at i:23980 original size:16 final size:16
Alignment explanation
Indices: 23959--24009 Score: 102
Period size: 16 Copynumber: 3.2 Consensus size: 16
23949 ACAATTCAGA
23959 AAGCAGAAAAGCTCTG
1 AAGCAGAAAAGCTCTG
23975 AAGCAGAAAAGCTCTG
1 AAGCAGAAAAGCTCTG
23991 AAGCAGAAAAGCTCTG
1 AAGCAGAAAAGCTCTG
24007 AAG
1 AAG
24010 TAATTTCAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.45, C:0.18, G:0.25, T:0.12
Consensus pattern (16 bp):
AAGCAGAAAAGCTCTG
Found at i:24529 original size:41 final size:41
Alignment explanation
Indices: 24108--24546 Score: 522
Period size: 41 Copynumber: 10.7 Consensus size: 41
24098 TCGTTTGTTT
*
24108 AAGATAAAGTCATCGAGACCCTTGAATTAAATTATCAATTC
1 AAGATCAAGTCATCGAGACCCTTGAATTAAATTATCAATTC
* ** *
24149 AAAATTGAGTCATCGAGACCCTTGAATTAAATTATCAATTA
1 AAGATCAAGTCATCGAGACCCTTGAATTAAATTATCAATTC
**
24190 AAGATTGAGTCATCGAGACCCTTGAATTAAATTATCAATTC
1 AAGATCAAGTCATCGAGACCCTTGAATTAAATTATCAATTC
** *
24231 AAGATTGAGTCATCGAGACCCTTGAATTAAATTAACAATTC
1 AAGATCAAGTCATCGAGACCCTTGAATTAAATTATCAATTC
**
24272 AAGATTGAGTCATCGAGACCCTTGAATTAAATTATCAATTC
1 AAGATCAAGTCATCGAGACCCTTGAATTAAATTATCAATTC
* * * *
24313 AAGAACAAGTCGTTGAGACCCTTGAATTAAATTATCAATTA
1 AAGATCAAGTCATCGAGACCCTTGAATTAAATTATCAATTC
* ** *
24354 AAAATTGAGTCATCGAGACCCTTGAATTAAATTATCATTTC
1 AAGATCAAGTCATCGAGACCCTTGAATTAAATTATCAATTC
* *
24395 AAGAACAAGTCATCAAGACCCTTGAATTAAATTATCAATTC
1 AAGATCAAGTCATCGAGACCCTTGAATTAAATTATCAATTC
* * * *
24436 AAGAACAAGTCATTGAGACTCTTGAATCGAATTATTATCAATTC
1 AAGATCAAGTCATCGAGACCCTTGAAT-TAA--ATTATCAATTC
** * * * * *
24480 AAGGCCAAGTCGTCAAGACCCTTGAATTAGATTGTTAATTC
1 AAGATCAAGTCATCGAGACCCTTGAATTAAATTATCAATTC
*
24521 AAGACCAAGTCATTC--GACCCTTGAAT
1 AAGATCAAGTCA-TCGAGACCCTTGAAT
24547 CGAATCAAAT
Statistics
Matches: 350, Mismatches: 44, Indels: 9
0.87 0.11 0.02
Matches are distributed among these distances:
40 11 0.03
41 302 0.86
42 4 0.01
43 1 0.00
44 32 0.09
ACGTcount: A:0.38, C:0.18, G:0.14, T:0.30
Consensus pattern (41 bp):
AAGATCAAGTCATCGAGACCCTTGAATTAAATTATCAATTC
Found at i:25615 original size:74 final size:75
Alignment explanation
Indices: 25417--25780 Score: 410
Period size: 75 Copynumber: 4.8 Consensus size: 75
25407 GTTACAAATC
* * * * * *
25417 TTTAGTAATTTGGAAGTTACATGCATGTATGACAT-TTATTTGGACGGTTACAAGTACTTCTAAC
1 TTTAGTAATTTGGAGGTTACATGCA--CA--ACATCATATTTGGACAGTTACAAATACTTGTAAC
*
25481 GTCTATTCAAGGTA
62 GTCTCTTCAAGGTA
* * * *
25495 TTTAATAATTTGGAGGTTACATGCACAACATCATATTCAGG-TAGTTACAGATACTTGTAACGTC
1 TTTAGTAATTTGGAGGTTACATGCACAACATCATATT-TGGACAGTTACAAATACTTGTAACGTC
*
25559 TCTTCAGGGTA
65 TCTTCAAGGTA
* * *
25570 TTTAGTAA-TTGGAGGTTACATGCACAACATCATATTTGGGCAGTTACAAATGCTTGTAACCTCT
1 TTTAGTAATTTGGAGGTTACATGCACAACATCATATTTGGACAGTTACAAATACTTGTAACGTCT
25634 CTTCAAGGTA
66 CTTCAAGGTA
** * * *
25644 TCCAGTAATTTGGAGGTTACATGCACAACATCATATTTGGACGGTTACAAATATTTGTAACGTAT
1 TTTAGTAATTTGGAGGTTACATGCACAACATCATATTTGGACAGTTACAAATACTTGTAACGTCT
*
25709 CTTCAAGATA
66 CTTCAAGGTA
* * * *
25719 TTTACTATTTTGGAGGTTACATGCACAACATTATCTTATTTGGACGGTTACAAATACTTGTA
1 TTTAGTAATTTGGAGGTTACATGCACAAC---ATCATATTTGGACAGTTACAAATACTTGTA
25781 TAGTTATTAC
Statistics
Matches: 245, Mismatches: 34, Indels: 14
0.84 0.12 0.05
Matches are distributed among these distances:
73 2 0.01
74 67 0.27
75 122 0.50
76 3 0.01
78 51 0.21
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.36
Consensus pattern (75 bp):
TTTAGTAATTTGGAGGTTACATGCACAACATCATATTTGGACAGTTACAAATACTTGTAACGTCT
CTTCAAGGTA
Found at i:27383 original size:75 final size:75
Alignment explanation
Indices: 27260--27587 Score: 367
Period size: 75 Copynumber: 4.4 Consensus size: 75
27250 AAATATAAAT
* * *
27260 ATATGATGTTTTGCAAGTAACCTCCAAATTAGTAAATACCTTGAAGAGACGTTACAAATATTCGT
1 ATATGATGTTCTGCATGTAACCTCCAAATTATTAAATACCTTGAAGAGACGTTACAAATATTCGT
27325 AACCGCCCAA
66 AACCGCCCAA
* * * * * * * *
27335 ATATGATATTCTGCATATAACCTCCAAATTACTGAATACCTTGAAGAGAGGTTACAAGTGTTTGT
1 ATATGATGTTCTGCATGTAACCTCCAAATTATTAAATACCTTGAAGAGACGTTACAAATATTCGT
*
27400 AACTGCCCAA
66 AACCGCCCAA
* * * *
27410 ATATGATGTTGTGCATGTAACCT-CTAATTATTAAATGCCTTGAAGAGACGTTACAAGA-ATTTG
1 ATATGATGTTCTGCATGTAACCTCCAAATTATTAAATACCTTGAAGAGACGTTACAA-ATATTCG
*
27473 TAACTGCCCAA
65 TAACCGCCCAA
* * * * * *
27484 ATATGATGGTGTGAATGTAACCTCCAAATTATTAAATACCTTGAATAGACGATACAAGT-TTACG
1 ATATGATGTTCTGCATGTAACCTCCAAATTATTAAATACCTTGAAGAGACGTTACAAATATT-CG
*
27548 TAACCGTCCAA
65 TAACCGCCCAA
* *
27559 ATATAAT-TTCATTCATGTAACCTCCAAAT
1 ATATGATGTTC-TGCATGTAACCTCCAAAT
27588 CACTAAAGAT
Statistics
Matches: 212, Mismatches: 36, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
74 67 0.32
75 145 0.68
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (75 bp):
ATATGATGTTCTGCATGTAACCTCCAAATTATTAAATACCTTGAAGAGACGTTACAAATATTCGT
AACCGCCCAA
Found at i:27474 original size:74 final size:75
Alignment explanation
Indices: 27260--27541 Score: 370
Period size: 75 Copynumber: 3.8 Consensus size: 75
27250 AAATATAAAT
* * * *
27260 ATATGATGTTTTGCAAGTAACCTCCAAATTAGTAAATACCTTGAAGAGACGTTACAA-ATATTCG
1 ATATGATGTTGTGCATGTAACCTCCAAATTATTAAATACCTTGAAGAGACGTTACAAGA-ATTTG
*
27324 TAACCGCCCAA
65 TAACTGCCCAA
* * * * * * **
27335 ATATGATATTCTGCATATAACCTCCAAATTACTGAATACCTTGAAGAGAGGTTACAAGTGTTTGT
1 ATATGATGTTGTGCATGTAACCTCCAAATTATTAAATACCTTGAAGAGACGTTACAAGAATTTGT
27400 AACTGCCCAA
66 AACTGCCCAA
* *
27410 ATATGATGTTGTGCATGTAACCT-CTAATTATTAAATGCCTTGAAGAGACGTTACAAGAATTTGT
1 ATATGATGTTGTGCATGTAACCTCCAAATTATTAAATACCTTGAAGAGACGTTACAAGAATTTGT
27474 AACTGCCCAA
66 AACTGCCCAA
* * * *
27484 ATATGATGGTGTGAATGTAACCTCCAAATTATTAAATACCTTGAATAGACGATACAAG
1 ATATGATGTTGTGCATGTAACCTCCAAATTATTAAATACCTTGAAGAGACGTTACAAG
27542 TTTACGTAAC
Statistics
Matches: 178, Mismatches: 27, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
74 65 0.37
75 113 0.63
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.30
Consensus pattern (75 bp):
ATATGATGTTGTGCATGTAACCTCCAAATTATTAAATACCTTGAAGAGACGTTACAAGAATTTGT
AACTGCCCAA
Found at i:27559 original size:149 final size:150
Alignment explanation
Indices: 27135--27562 Score: 493
Period size: 149 Copynumber: 2.8 Consensus size: 150
27125 TTCAGTCTAT
* *
27135 ATACCTTGAAGAGACGTTACAAGTATTTGTAACCGTCCAAATATATGATGTTGTGCATGTAACCT
1 ATACCTTGAAGAGACGTTACAAGAATTTGTAACCG-CCCAA-ATATGATGTTGTGCATGTAACCT
* * *
27200 CCAAACTAGTAAATACCTTGAAGAGACGTTACAAATATTCGTAACCGCCCAAATATAAATATATG
64 CCAAATTACTAAATACCTTGAAGAGACGTTACAAGTATTCGTAACCGCCC-------AA-ATATG
*
27265 ATGTTTTGCAAGTAACCTCCAAATTAGTAA
121 ATGTTGTGCAAGTAACCTCCAAATTAGTAA
* * * *
27295 ATACCTTGAAGAGACGTTACAA-ATATTCGTAACCGCCCAAATATGATATTCTGCATATAACCTC
1 ATACCTTGAAGAGACGTTACAAGA-ATTTGTAACCGCCCAAATATGATGTTGTGCATGTAACCTC
* * * * *
27359 CAAATTACTGAATACCTTGAAGAGAGGTTACAAGTGTTTGTAACTGCCCAAATATGATGTTGTGC
65 CAAATTACTAAATACCTTGAAGAGACGTTACAAGTATTCGTAACCGCCCAAATATGATGTTGTGC
* * *
27424 ATGTAACCT-CTAATTATTAA
130 AAGTAACCTCCAAATTAGTAA
* * * *
27444 ATGCCTTGAAGAGACGTTACAAGAATTTGTAACTGCCCAAATATGATGGTGTGAATGTAACCTCC
1 ATACCTTGAAGAGACGTTACAAGAATTTGTAACCGCCCAAATATGATGTTGTGCATGTAACCTCC
* * * *
27509 AAATTATTAAATACCTTGAATAGACGATACAAGT-TTACGTAACCGTCCAAATAT
66 AAATTACTAAATACCTTGAAGAGACGTTACAAGTATT-CGTAACCGCCCAAATAT
27563 AATTTCATTC
Statistics
Matches: 231, Mismatches: 34, Indels: 17
0.82 0.12 0.06
Matches are distributed among these distances:
148 2 0.01
149 107 0.46
150 22 0.10
151 2 0.01
158 62 0.27
159 4 0.02
160 32 0.14
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (150 bp):
ATACCTTGAAGAGACGTTACAAGAATTTGTAACCGCCCAAATATGATGTTGTGCATGTAACCTCC
AAATTACTAAATACCTTGAAGAGACGTTACAAGTATTCGTAACCGCCCAAATATGATGTTGTGCA
AGTAACCTCCAAATTAGTAA
Found at i:34152 original size:74 final size:74
Alignment explanation
Indices: 34063--34209 Score: 267
Period size: 74 Copynumber: 2.0 Consensus size: 74
34053 TCCCGAACTA
* *
34063 TTGCATTAAAGACATTTAGCCCCATGAACTACAAAACGAGAGAAAATGACCCCTAAAGTTACCAG
1 TTGCATTAAAGACATTTAGCCCCATGAACTACAAAACGAGACAAAATCACCCCTAAAGTTACCAG
*
34128 TTGCCACTT
66 TTACCACTT
34137 TTGCATTAAAGACATTTAGCCCCATGAACTACAAAACGAGACAAAATCACCCCTAAAGTTACCAG
1 TTGCATTAAAGACATTTAGCCCCATGAACTACAAAACGAGACAAAATCACCCCTAAAGTTACCAG
34202 TTACCACT
66 TTACCACT
34210 GTTAGGACAT
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
74 70 1.00
ACGTcount: A:0.39, C:0.26, G:0.13, T:0.22
Consensus pattern (74 bp):
TTGCATTAAAGACATTTAGCCCCATGAACTACAAAACGAGACAAAATCACCCCTAAAGTTACCAG
TTACCACTT
Found at i:38030 original size:21 final size:21
Alignment explanation
Indices: 38006--38048 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
37996 GTCTTTTTTG
*
38006 TTTCTTCTTT-CTTTTTTTCTT
1 TTTCTT-TTTCCTTTTATTCTT
38027 TTTCTTTTTCCTTTTATTCTT
1 TTTCTTTTTCCTTTTATTCTT
38048 T
1 T
38049 CAATTAACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.02, C:0.19, G:0.00, T:0.79
Consensus pattern (21 bp):
TTTCTTTTTCCTTTTATTCTT
Found at i:45870 original size:31 final size:28
Alignment explanation
Indices: 45832--45896 Score: 78
Period size: 28 Copynumber: 2.2 Consensus size: 28
45822 AATTATACTC
45832 AATTGACAGATTCTATT-AAGTAGAGGGACCA
1 AATTGACAG-TT-T-TTGAAGTAG-GGGACCA
*
45863 AATTGACAGTTTTTGTAGTAGGGGACCA
1 AATTGACAGTTTTTGAAGTAGGGGACCA
45891 AATTGA
1 AATTGA
45897 TCCCTTTTGG
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
28 15 0.47
29 6 0.19
30 2 0.06
31 9 0.28
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.29
Consensus pattern (28 bp):
AATTGACAGTTTTTGAAGTAGGGGACCA
Found at i:45904 original size:29 final size:30
Alignment explanation
Indices: 45848--45920 Score: 96
Period size: 28 Copynumber: 2.5 Consensus size: 30
45838 CAGATTCTAT
* *
45848 TAAGTAGAGGGACCAAATTGACAGTTTTTG
1 TAAGTAGAGGGACCAAATTGACACTTTTGG
*
45878 T-AGTAG-GGGACCAAATTGATCCCTTTTGG
1 TAAGTAGAGGGACCAAATTGA-CACTTTTGG
45907 TAAGTAGAGGGACC
1 TAAGTAGAGGGACC
45921 TATACAGTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
28 13 0.35
29 12 0.32
30 6 0.16
31 6 0.16
ACGTcount: A:0.30, C:0.14, G:0.29, T:0.27
Consensus pattern (30 bp):
TAAGTAGAGGGACCAAATTGACACTTTTGG
Found at i:49455 original size:26 final size:26
Alignment explanation
Indices: 49426--49476 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
49416 ATCTGTAGAA
49426 ACATGAAAA-GATGCCTTTCTATGAGT
1 ACATGAAAATG-TGCCTTTCTATGAGT
*
49452 ACATGAAAATGTGTCTTTCTATGAG
1 ACATGAAAATGTGCCTTTCTATGAG
49477 AGATCGCATC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 22 0.96
27 1 0.04
ACGTcount: A:0.33, C:0.14, G:0.20, T:0.33
Consensus pattern (26 bp):
ACATGAAAATGTGCCTTTCTATGAGT
Found at i:51030 original size:22 final size:21
Alignment explanation
Indices: 51005--51058 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 21
50995 GAAGTTCGTG
51005 TTTGAAGACTTATTGAAGATAA
1 TTTGAAGA-TTATTGAAGATAA
*
51027 TTTGAAGA-T-TTGAAGATCA
1 TTTGAAGATTATTGAAGATAA
51046 -TTGAAGAATTATT
1 TTTGAAG-ATTATT
51059 TCGAGAAGCA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
18 6 0.21
19 10 0.36
20 2 0.07
21 2 0.07
22 8 0.29
ACGTcount: A:0.39, C:0.04, G:0.19, T:0.39
Consensus pattern (21 bp):
TTTGAAGATTATTGAAGATAA
Found at i:58418 original size:18 final size:18
Alignment explanation
Indices: 58397--58431 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
58387 GGGTAATTAC
*
58397 AAAAAAATTGTTTTCATA
1 AAAAAAAGTGTTTTCATA
58415 AAAAAAAGTGTTTTCAT
1 AAAAAAAGTGTTTTCAT
58432 GATAGAGGAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.06, G:0.09, T:0.37
Consensus pattern (18 bp):
AAAAAAAGTGTTTTCATA
Found at i:59294 original size:22 final size:21
Alignment explanation
Indices: 59269--59322 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 21
59259 GAAGTTTGTG
59269 TTTGAAGACTTATTGAAGATAA
1 TTTGAAGA-TTATTGAAGATAA
*
59291 TTTGAAGA-T-TTGAAGATCA
1 TTTGAAGATTATTGAAGATAA
59310 -TTGAAGAATTATT
1 TTTGAAG-ATTATT
59323 TCGAGAAGCA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
18 6 0.21
19 10 0.36
20 2 0.07
21 2 0.07
22 8 0.29
ACGTcount: A:0.39, C:0.04, G:0.19, T:0.39
Consensus pattern (21 bp):
TTTGAAGATTATTGAAGATAA
Found at i:62899 original size:19 final size:18
Alignment explanation
Indices: 62859--62902 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
62849 ACTTGCATAG
*
62859 ATTATCTTTGCATTTTTAC
1 ATTAT-TTTGCATTATTAC
*
62878 ATTATTTTGCATTCATTGC
1 ATTATTTTGCATT-ATTAC
62897 ATTATT
1 ATTATT
62903 AGGAAATAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.23, C:0.14, G:0.07, T:0.57
Consensus pattern (18 bp):
ATTATTTTGCATTATTAC
Found at i:64352 original size:21 final size:20
Alignment explanation
Indices: 64328--64372 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
64318 ATAGTTTAGA
* *
64328 TTTACTTTACTTTGCTTTGTT
1 TTTACTTTA-ATTGCTTTCTT
*
64349 TTTAGTTTAATTGCTTTCTT
1 TTTACTTTAATTGCTTTCTT
64369 TTTA
1 TTTA
64373 ATTGTTATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.13, C:0.11, G:0.09, T:0.67
Consensus pattern (20 bp):
TTTACTTTAATTGCTTTCTT
Found at i:64650 original size:39 final size:40
Alignment explanation
Indices: 64594--64670 Score: 113
Period size: 39 Copynumber: 1.9 Consensus size: 40
64584 ATCCTAAGAA
*
64594 TTTTCTCTTGGTCTTTGCGTTTTT-AATAAAAAAAATTAT
1 TTTTCTCTTGGTCTTTGCGTTTTTGAAAAAAAAAAATTAT
*
64633 TTTTCTTTTGTGT-TTTGCGTTTTTGAAAAAAAAAAATT
1 TTTTCTCTTG-GTCTTTGCGTTTTTGAAAAAAAAAAATT
64671 GTGTTTTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
39 20 0.59
40 14 0.41
ACGTcount: A:0.29, C:0.08, G:0.12, T:0.52
Consensus pattern (40 bp):
TTTTCTCTTGGTCTTTGCGTTTTTGAAAAAAAAAAATTAT
Found at i:66532 original size:20 final size:21
Alignment explanation
Indices: 66479--66532 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 21
66469 TTTTCTTCCT
* *
66479 TTGCTTTGATTTGATTGATTA
1 TTGCCTTGATTTGATTGACTA
* *
66500 TTGCTTTGA-TTGATTGCCTA
1 TTGCCTTGATTTGATTGACTA
66520 TT-CCTTGATTTGA
1 TTGCCTTGATTTGA
66533 ATTAGTTGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 5 0.17
20 15 0.52
21 9 0.31
ACGTcount: A:0.17, C:0.11, G:0.19, T:0.54
Consensus pattern (21 bp):
TTGCCTTGATTTGATTGACTA
Found at i:75706 original size:18 final size:18
Alignment explanation
Indices: 75683--75718 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
75673 AGTGAAATTA
*
75683 AAAATATTAAATAAAAAT
1 AAAATATAAAATAAAAAT
*
75701 AAAATATAAAATAGAAAT
1 AAAATATAAAATAAAAAT
75719 GTCCAAAGGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (18 bp):
AAAATATAAAATAAAAAT
Found at i:76905 original size:25 final size:25
Alignment explanation
Indices: 76871--76919 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
76861 CCAAACAATC
76871 TTGAGCACTCTCGCTCGGTCTCTAT
1 TTGAGCACTCTCGCTCGGTCTCTAT
76896 TTGAGCACTCTCGCTCGGTCTCTA
1 TTGAGCACTCTCGCTCGGTCTCTA
76920 CAAATCAATC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.12, C:0.33, G:0.20, T:0.35
Consensus pattern (25 bp):
TTGAGCACTCTCGCTCGGTCTCTAT
Found at i:78592 original size:894 final size:892
Alignment explanation
Indices: 76622--80306 Score: 4954
Period size: 894 Copynumber: 4.0 Consensus size: 892
76612 TATTAGCCTG
* * *
76622 TGTTGTAACCCTGATATCACAAACCGTAATCTATCAAATTAATCATGAAAGCAGAAGCAACTAAA
1 TGTTGTAACCC-GATATCCCAAACCGTAATCTATCAAATTAATCATGCAAGCGGAAGCAACTAAA
*
76687 ATAATAAACCATCCACACAAGAAACAAGAATTTACGTGGTTCGACACTGAACTTACCTACGTCCA
65 ATAATAAACCATCCACACAAGAAACAAGAATTTACGTGGTTCGACACTGAACTTGCCTACGTCCA
*
76752 CGGAGGAGAAGAGAAATCCACTAGCTATAGAAAATTACATCAACACATAATTATCAATAACTCTC
130 CGGAGGAGAAGAGAAATCCACTAGTTATAGAAAATTACATCAACACATAATTATCAATAACTCTC
76817 ACTCAATCTCTCAACCCAATCTAACAATCAATCCTAAACCAAATCCAAACAATCTTGAGCACTCT
195 ACTCAATCTCTCAA-CCAATCTAACAATCAATCCTAAACCAAA-CC---CAA-----A-CA----
*
76882 CGCTCGGTCTCTATTTGAGCACTCTCGCTCGGTCTCTACAAATCAATCATCACATCTACCAAACC
245 --------ATC---TTGAGCACTCTCGCTCGGTCTCTACAAATCAATCATCACATCTACCAAACC
76947 AAACAATCACACACACACACCCATGAGGACAATCCTTTTGTCCTATGGGGTGTCTCCACCCAAAT
299 AAACAATCACACACACACACCCATGAGGACAATCCTTTTGTCCTATGGGGTGTCTCCACCCAAAT
* *
77012 CTAACCCTTAGACTACATCTTGTCTCCAAACATACAAAATCTTATAGAGAAACTCTCTATTTATA
364 CTAACCCTTAGACTACATCTTTTCTCCAAACATACAAAATCCTATAGAGAAACTCTCTATTTATA
* *
77077 CTAGCATAAACTTAGCCTCCAAGAATCCCTTTCCTACTAGGATTCTTGTTTACCAAGTCTTTTTC
429 CTTGCACAAACTTAGCCTCCAAGAATCCCTTTCCTACTAGGATTCTTGTTTACCAAGTCTTTTTC
*
77142 TCCACCAAGCAATATGCCTAAAAAATCCTAATCCAAATCTAATTAGGATTTGAGTCAAAATCCTA
494 TCCACCAAGCAATAGGCCTAAAAAATCCTAATCCAAATCTAATTAGGATTTGAGTCAAAATCCTA
**
77207 ATTATCTCCACCTTGACTCAAATTCCATCAAATCTTCAATCTTCAATCAATCTTCAAGAACATGC
559 ACAATCTCCACCTTGACTCAAATTCCATCAAATCTTCAATCTTCAATCAATCTTCAAGAACATGC
*
77272 TTGGCTCCACCTACAATGAAAGTCTCCCAATCTTCAATCAATCTTCTCTTGTGTGTCTTCATCTT
624 TTGGCTCCACCTACAATGAAAGTCTCCCAATCTTCAAGCAATCTTCTCTTGTGTGTCTTCATCTT
77337 CACCGCATCATCTTCAACTTTAATTCCGAATCCAATCTTGCTTTTCATCCAAATCTGATTTGAAA
689 CACCGCATCATCTTCAACTTTAATTCCGAATCCAATCTTGCTTTTCATCCAAATCTGATTTGAAA
*
77402 AGTCAACATGCAATCTTCAAAACAATCATCAAGCAGTGAAATTTGGCAATCTCCACGACAACCAA
754 AGTCAACATGCAATCTTCAAAACAATCATCAAGCAGAGAAATTTGGCAATCTCCACGACAACCAA
*
77467 ATATACCGAACCATATCACAAGTTTGGGCTACCAGGCAACCTCCAATACATTCAACCTGAGCTCG
819 ATCTACCGAACCATATCACAAGTTTGGGCTACCAGGCAACCTCCAATACATTCAACCTGAGCTCG
77532 GATACCAAT
884 GATACCAAT
* *
77541 TGTTGTAATCCGGATATCCCAAACCGTAATCTACCAAATTAATCATGCAAGCGGAAGCAACTAAA
1 TGTTGTAA-CCCGATATCCCAAACCGTAATCTATCAAATTAATCATGCAAGCGGAAGCAACTAAA
* *
77606 ATAATAAACCATCCATACAAGAAACAAGAATTTACATGGTTCGACACTGAACTTGCCTACGTCCA
65 ATAATAAACCATCCACACAAGAAACAAGAATTTACGTGGTTCGACACTGAACTTGCCTACGTCCA
*
77671 AGGAGGAGAAGAGAAATCCACTAGTTATAGAAAATTACATCAACACATAATTATCAATAACTCTC
130 CGGAGGAGAAGAGAAATCCACTAGTTATAGAAAATTACATCAACACATAATTATCAATAACTCTC
*
77736 ACTCAATCTCTCAACACAATCTAACAATCAATCCTAAACCAAATCCAAACAATCTTGAGCACTCT
195 ACTCAATCTCTCAAC-CAATCTAACAATCAATCCTAAACCAAACCCAAACAATCTTGAGCACTCT
*
77801 CGCTCGGTCTCTACAAATCAATCATCACATCTACCAAACCAAACAATCACACGCACACACCCATG
259 CGCTCGGTCTCTACAAATCAATCATCACATCTACCAAACCAAACAATCACACACACACACCCATG
* * *
77866 AGGACCATCCTTTTGCCCTATGGGGTGTCTCCACCCAAATCTAA-CCTTAGATTACATCTTTTCT
324 AGGACAATCCTTTTGTCCTATGGGGTGTCTCCACCCAAATCTAACCCTTAGACTACATCTTTTCT
77930 CCAAACATACAAAATCCTATAGAGAAACTCTCTATTTATACTTGCACAAACTTAGCCTCCAAGAA
389 CCAAACATACAAAATCCTATAGAGAAACTCTCTATTTATACTTGCACAAACTTAGCCTCCAAGAA
* *
77995 TCCTTTTCCTACTAGGATTCTTGTTTACCAAGTCTTTTTGTCCACCAAGCAATAGGCCTAAAAAA
454 TCCCTTTCCTACTAGGATTCTTGTTTACCAAGTCTTTTTCTCCACCAAGCAATAGGCCT-AAAAA
78060 ATCCTAATCCAAATCTAATTAGGATTTGAGTCAAAATCCTAACAATCTCCACCTTGACTCAAATT
518 ATCCTAATCCAAATCTAATTAGGATTTGAGTCAAAATCCTAACAATCTCCACCTTGACTCAAATT
78125 CCATCAAATCTTCAATCTTCAATCAATCTTCAAGAACATGCTTGGCTCCACCTACAATGAAAGTC
583 CCATCAAATCTTCAATCTTCAATCAATCTTCAAGAACATGCTTGGCTCCACCTACAATGAAAGTC
* * *
78190 TCACAATCTTCAAGCAATCTTCTCATGTGTGTCTTCATCTTCATCGCATCATCTTCAACTTTAAT
648 TCCCAATCTTCAAGCAATCTTCTCTTGTGTGTCTTCATCTTCACCGCATCATCTTCAACTTTAAT
*
78255 TCCGAATCCAATCTTGCTTTTGATCCAAATCTGATTTGAAAAGTCAACATGCAATCTTCAAAACA
713 TCCGAATCCAATCTTGCTTTTCATCCAAATCTGATTTGAAAAGTCAACATGCAATCTTCAAAACA
* * *
78320 ATCATCAAGTAGAGAAATTTGGCAATCTCCACGACAACCAAATTTGCCGAACCATATCACAAGTT
778 ATCATCAAGCAGAGAAATTTGGCAATCTCCACGACAACCAAATCTACCGAACCATATCACAAGTT
*
78385 TGTGCTACCAGGCAACCTCCAATACATTCAACCTGAGCTCGGATACCAAT
843 TGGGCTACCAGGCAACCTCCAATACATTCAACCTGAGCTCGGATACCAAT
78435 TGTTGTAACCCGAATATCCCAAACCGTAATCT-TCCAAATTAATCATGCAAGCGGAAGCAACTAA
1 TGTTGTAACCCG-ATATCCCAAACCGTAATCTAT-CAAATTAATCATGCAAGCGGAAGCAACTAA
* *
78499 AATAATAAACCATCCACACAAGAAATAAGAATTTACGTGGTTCGGCACTGAACTTGCCTACGTCC
64 AATAATAAACCATCCACACAAGAAACAAGAATTTACGTGGTTCGACACTGAACTTGCCTACGTCC
78564 ACGGAGGAGAAGAGAAATCCACTAGTTATAGAAAATTACATCAACACATAATTATCAATAACTCT
129 ACGGAGGAGAAGAGAAATCCACTAGTTATAGAAAATTACATCAACACATAATTATCAATAACTCT
*
78629 CACTCAATCTCTCAATCCACTCTAACAATCAATCCTAAACCAAACCCAAACAATCTTGAGCACTC
194 CACTCAATCTCTCAA-CCAATCTAACAATCAATCCTAAACCAAACCCAAACAATCTTGAGCACTC
* ** ** * * ***
78694 TCACTCGGTCTCTATTTGAGCATTCTCGCTCGGTCTCTGTTTGAGCACTCTCGCTCGGTCTCTAC
258 TCGCTCGGTCTC----T-A-CA-AATCAATC---ATC------A-CA-TCT-AC-C--AAAC--C
* * ** * * ** ** * ****
78759 AAATCAATCATCACATCTACCAAACCAAACAATCACACACACACACCCATGAGGACAATCCTTTT
299 AAA-CAATCA-CACA-C-A-CACACC---C-AT--GA-GGACA-ATCCTTTTGTCCTAT-GGGGT
** ****** * * ** ** **** *
78824 GTCTTTATGGGGTGTCTCCACCC--AAATCTA-A-C-CCT-TAGAATACAT-CTTTTCTCCAAAT
350 GTCTCCA-CCCAAATCT-AACCCTTAGA-CTACATCTTTTCTCCAA-ACATAC-AAAATCC-TAT
* * * ** * ** * * * *
78882 ATACAAAATC-CTATAGAGAAACTCTTTATTTATA-TTAG-CACAAACTTGGCCTCCAAGAATCC
409 AGAGAAACTCTCTAT--TTATACT-TGCA--CAAACTTAGCCTCCAA---G---------AATCC
78944 CTTTCCTACTAGGATTCTTGTTTACCAAGTCTTTTTCTCCACCAAGCAATAGGCCTAAAAAATCC
457 CTTTCCTACTAGGATTCTTGTTTACCAAGTCTTTTTCTCCACCAAGCAATAGGCCTAAAAAATCC
79009 TAATCCAAATCTAATTAGGATTTGAGTCAAAATCCTAACAATCTCCACCTTGACTCAAATTCCAT
522 TAATCCAAATCTAATTAGGATTTGAGTCAAAATCCTAACAATCTCCACCTTGACTCAAATTCCAT
* *
79074 CAAATCTTCAATTTTCAATCAATCTTCAAGAAGATGCTTGGCTCCACCTACAATGAAAGTCTCCC
587 CAAATCTTCAATCTTCAATCAATCTTCAAGAACATGCTTGGCTCCACCTACAATGAAAGTCTCCC
* *
79139 AATTTTCAAGCAATCTTCTCTTGTGTGTCTTCATCTTCACCGCATCATCTTCAACTTTAATTCCA
652 AATCTTCAAGCAATCTTCTCTTGTGTGTCTTCATCTTCACCGCATCATCTTCAACTTTAATTCCG
*
79204 AATCCAATCTTGCTTTTCATCCAAATCTGATTTGAAAAGTCAACATGCAATCTTCAACACAATCA
717 AATCCAATCTTGCTTTTCATCCAAATCTGATTTGAAAAGTCAACATGCAATCTTCAAAACAATCA
*
79269 TCAAGCAGTGAAATTTGGCAATCTCCACGACAACCAAATCTACCGAACCATATCACAAGTTTGGG
782 TCAAGCAGAGAAATTTGGCAATCTCCACGACAACCAAATCTACCGAACCATATCACAAGTTTGGG
*
79334 TTACCAGGCAACCTCCAATACATTCAACCTGAGCTCGGATACCAAT
847 CTACCAGGCAACCTCCAATACATTCAACCTGAGCTCGGATACCAAT
* *
79380 TGTTGTAATCCGTATATCCCAAACCGTAATCTATCAAATTAATCATGCAAGCGGAAACAACTAAA
1 TGTTGTAACCCG-ATATCCCAAACCGTAATCTATCAAATTAATCATGCAAGCGGAAGCAACTAAA
* *
79445 ATAATAAACCATCCACACAAGAAACAAGAATTTACGTGGTTCGGCAATGAACTTGCCTACGTCCA
65 ATAATAAACCATCCACACAAGAAACAAGAATTTACGTGGTTCGACACTGAACTTGCCTACGTCCA
79510 CGGAGGAGAAGAGAAATCCACTAGTTATAGAAAATTACATCAACACATAATTATCAATAACTCTC
130 CGGAGGAGAAGAGAAATCCACTAGTTATAGAAAATTACATCAACACATAATTATCAATAACTCTC
*
79575 ACTCAA--TCT-ATCCAATCTAACAATCAATCCTAAACCAAACCCAAACAATCTTGAGCACTCTC
195 ACTCAATCTCTCAACCAATCTAACAATCAATCCTAAACCAAACCCAAACAATCTTGAGCA-----
79637 GCTCGGTCTGTATTTGAGCACTCTCGCTCGATCTCTACAAATCAATCATCACATCTACCAAACCA
255 -CTC--TC---------G----CTCG---G-TCTCTACAAATCAATCATCACATCTACCAAACCA
*
79702 AACAATCACACACACACACACATGAGGACAATCCTTTTGTCCTATGGGGTGTCTCCACCCAAATC
300 AACAATCACACACACACACCCATGAGGACAATCCTTTTGTCCTATGGGGTGTCTCCACCCAAATC
*
79767 TAACCCTTAGACTACATCTTTTCTCCAAACATACAAAATCCTATAGAGAAACTCTCTACTTATAC
365 TAACCCTTAGACTACATCTTTTCTCCAAACATACAAAATCCTATAGAGAAACTCTCTATTTATAC
* *
79832 TTGCACAAACTTAGCCTCCAAGAACCCCTTTGCTACTAGGATTCTTGTTTACCAAGTCTTTTTCT
430 TTGCACAAACTTAGCCTCCAAGAATCCCTTTCCTACTAGGATTCTTGTTTACCAAGTCTTTTTCT
* * *
79897 CCACCAAGCAATAGGCTTAAAAAAATCCTAATCCAAATTTAATTAGGATTTGAGGCAAAATCCTA
495 CCACCAAGCAATAGGCCT-AAAAAATCCTAATCCAAATCTAATTAGGATTTGAGTCAAAATCCTA
79962 ACAATCTCCACCTTGACTCAAATTCCATCAAATCTTCAATTTTCAATAAATCTTCAATCAATCTT
559 ACAATCTCCACCTTGACTCAAATTCCATCAAA---TC----TTC----AATCTTCAATCAATCTT
** *
80027 CAAGGCCATGCTTGGCTCCACCTACAATGAAAGTCTCCCAATCTTCAAGCAATATTCTCTTGTGT
613 CAAGAACATGCTTGGCTCCACCTACAATGAAAGTCTCCCAATCTTCAAGCAATCTTCTCTTGTGT
*
80092 GTCTTCGTCTTCACCGCATCATCTTCAACTTTAATTCCGAATCCAATCTTGCTTTTCATCCAAAT
678 GTCTTCATCTTCACCGCATCATCTTCAACTTTAATTCCGAATCCAATCTTGCTTTTCATCCAAAT
80157 CTGATTTGAAAAGTCAACATGCAATCTTCAAAACAATCATCAAGCA-ATGAAATTTGGCAATCTC
743 CTGATTTGAAAAGTCAACATGCAATCTTCAAAACAATCATCAAGCAGA-GAAATTTGGCAATCTC
* * *
80221 CACGACAACCAAATCTACCGAACTATATAACAAGTTTGGGCTACCATGCAACCTCCAATACATTC
807 CACGACAACCAAATCTACCGAACCATATCACAAGTTTGGGCTACCAGGCAACCTCCAATACATTC
* *
80286 AACCTGAGCTCTGATAGCAAT
872 AACCTGAGCTCGGATACCAAT
80307 AATCTCCACC
Statistics
Matches: 2443, Mismatches: 206, Indels: 226
0.85 0.07 0.08
Matches are distributed among these distances:
893 139 0.06
894 739 0.30
895 1 0.00
897 2 0.00
898 1 0.00
899 1 0.00
900 2 0.00
901 4 0.00
904 2 0.00
909 2 0.00
910 2 0.00
911 2 0.00
912 3 0.00
913 1 0.00
914 1 0.00
915 61 0.02
916 77 0.03
918 6 0.00
919 231 0.09
920 5 0.00
921 1 0.00
922 1 0.00
923 8 0.00
924 1 0.00
925 2 0.00
926 9 0.00
927 294 0.12
928 13 0.01
929 19 0.01
930 20 0.01
931 25 0.01
932 16 0.01
933 12 0.00
934 10 0.00
935 6 0.00
936 2 0.00
937 5 0.00
938 1 0.00
939 1 0.00
940 4 0.00
941 51 0.02
942 5 0.00
943 3 0.00
944 1 0.00
945 559 0.23
946 61 0.02
947 4 0.00
948 3 0.00
949 4 0.00
950 1 0.00
956 2 0.00
959 4 0.00
960 2 0.00
961 1 0.00
962 5 0.00
965 1 0.00
966 4 0.00
ACGTcount: A:0.35, C:0.27, G:0.11, T:0.27
Consensus pattern (892 bp):
TGTTGTAACCCGATATCCCAAACCGTAATCTATCAAATTAATCATGCAAGCGGAAGCAACTAAAA
TAATAAACCATCCACACAAGAAACAAGAATTTACGTGGTTCGACACTGAACTTGCCTACGTCCAC
GGAGGAGAAGAGAAATCCACTAGTTATAGAAAATTACATCAACACATAATTATCAATAACTCTCA
CTCAATCTCTCAACCAATCTAACAATCAATCCTAAACCAAACCCAAACAATCTTGAGCACTCTCG
CTCGGTCTCTACAAATCAATCATCACATCTACCAAACCAAACAATCACACACACACACCCATGAG
GACAATCCTTTTGTCCTATGGGGTGTCTCCACCCAAATCTAACCCTTAGACTACATCTTTTCTCC
AAACATACAAAATCCTATAGAGAAACTCTCTATTTATACTTGCACAAACTTAGCCTCCAAGAATC
CCTTTCCTACTAGGATTCTTGTTTACCAAGTCTTTTTCTCCACCAAGCAATAGGCCTAAAAAATC
CTAATCCAAATCTAATTAGGATTTGAGTCAAAATCCTAACAATCTCCACCTTGACTCAAATTCCA
TCAAATCTTCAATCTTCAATCAATCTTCAAGAACATGCTTGGCTCCACCTACAATGAAAGTCTCC
CAATCTTCAAGCAATCTTCTCTTGTGTGTCTTCATCTTCACCGCATCATCTTCAACTTTAATTCC
GAATCCAATCTTGCTTTTCATCCAAATCTGATTTGAAAAGTCAACATGCAATCTTCAAAACAATC
ATCAAGCAGAGAAATTTGGCAATCTCCACGACAACCAAATCTACCGAACCATATCACAAGTTTGG
GCTACCAGGCAACCTCCAATACATTCAACCTGAGCTCGGATACCAAT
Found at i:78720 original size:25 final size:25
Alignment explanation
Indices: 78684--78757 Score: 121
Period size: 25 Copynumber: 3.0 Consensus size: 25
78674 CCAAACAATC
*
78684 TTGAGCACTCTCACTCGGTCTCTAT
1 TTGAGCACTCTCGCTCGGTCTCTAT
* *
78709 TTGAGCATTCTCGCTCGGTCTCTGT
1 TTGAGCACTCTCGCTCGGTCTCTAT
78734 TTGAGCACTCTCGCTCGGTCTCTA
1 TTGAGCACTCTCGCTCGGTCTCTA
78758 CAAATCAATC
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 44 1.00
ACGTcount: A:0.12, C:0.31, G:0.20, T:0.36
Consensus pattern (25 bp):
TTGAGCACTCTCGCTCGGTCTCTAT
Found at i:80283 original size:927 final size:917
Alignment explanation
Indices: 77790--80306 Score: 4128
Period size: 945 Copynumber: 2.7 Consensus size: 917
77780 CCAAACAATC
*
77790 TTGAGCACTCTCGCTCGGTCTCTACAAATCAATCATCACATCTACCAAACCAAACAATCACACGC
1 TTGAGCACTCTCGCTCGGTCTCTACAAATCAATCATCACATCTACCAAACCAAACAATCACACAC
* * *
77855 ACACACCCATGAGGACCATCCTTTTGCCCTATGGGGTGTCTCCACCCAAATCTAA-CCTTAGATT
66 ACACACCCATGAGGACAATCCTTTTGTCCTATGGGGTGTCTCCACCCAAATCTAACCCTTAGACT
77919 ACATCTTTTCTCCAAACATACAAAATCCTATAGAGAAACTCTCTATTTATACTTGCACAAACTTA
131 ACATCTTTTCTCCAAACATACAAAATCCTATAGAGAAACTCTCTATTTATACTTGCACAAACTTA
* *
77984 GCCTCCAAGAATCCTTTTCCTACTAGGATTCTTGTTTACCAAGTCTTTTTGTCCACCAAGCAATA
196 GCCTCCAAGAATCCCTTTCCTACTAGGATTCTTGTTTACCAAGTCTTTTTCTCCACCAAGCAATA
78049 GGCCTAAAAAAATCCTAATCCAAATCTAATTAGGATTTGAGTCAAAATCCTAACAATCTCCACCT
261 GGCCT-AAAAAATCCTAATCCAAATCTAATTAGGATTTGAGTCAAAATCCTAACAATCTCCACCT
78114 TGACTCAAATTCCATCAAATCTTCAATCTTCAATCAATCTTCAAGAACATGCTTGGCTCCACCTA
325 TGACTCAAATTCCATCAAATCTTCAATCTTCAATCAATCTTCAAGAACATGCTTGGCTCCACCTA
* * *
78179 CAATGAAAGTCTCACAATCTTCAAGCAATCTTCTCATGTGTGTCTTCATCTTCATCGCATCATCT
390 CAATGAAAGTCTCCCAATCTTCAAGCAATCTTCTCTTGTGTGTCTTCATCTTCACCGCATCATCT
*
78244 TCAACTTTAATTCCGAATCCAATCTTGCTTTTGATCCAAATCTGATTTGAAAAGTCAACATGCAA
455 TCAACTTTAATTCCGAATCCAATCTTGCTTTTCATCCAAATCTGATTTGAAAAGTCAACATGCAA
* * *
78309 TCTTCAAAACAATCATCAAGTAGA-GAAATTTGGCAATCTCCACGACAACCAAATTTGCCGAACC
520 TCTTCAAAACAATCATCAAGCA-ATGAAATTTGGCAATCTCCACGACAACCAAATCTACCGAACC
*
78373 ATATCACAAGTTTGTGCTACCAGGCAACCTCCAATACATTCAACCTGAGCTCGGATACCAATTGT
584 ATATCACAAGTTTGGGCTACCAGGCAACCTCCAATACATTCAACCTGAGCTCGGATACCAATTGT
* *
78438 TGTAACCCGAATATCCCAAACCGTAATCT-TCCAAATTAATCATGCAAGCGGAAGCAACTAAAAT
649 TGTAATCCGTATATCCCAAACCGTAATCTAT-CAAATTAATCATGCAAGCGGAAGCAACTAAAAT
* *
78502 AATAAACCATCCACACAAGAAATAAGAATTTACGTGGTTCGGCACTGAACTTGCCTACGTCCACG
713 AATAAACCATCCACACAAGAAACAAGAATTTACGTGGTTCGACACTGAACTTGCCTACGTCCACG
78567 GAGGAGAAGAGAAATCCACTAGTTATAGAAAATTACATCAACACATAATTATCAATAACTCTCAC
778 GAGGAGAAGAGAAATCCACTAGTTATAGAAAATTACATCAACACATAATTATCAATAACTCTCAC
*
78632 TCAATCTCTCAATCCACTCTAACAATCAATCCTAAACCAAACCCAAACAATCTTGAGCACTCTCA
843 TCAA-CTCTC-ATCCAATCTAACAATCAATCCTAAACCAAACCCAAACAATCTTGAGCA--CT--
*
78697 CTCGGTCTCTATTTGAGCATTCTCGCTCGGTCTCTGT
902 CTC-G-CTC-----G-G-----T--CT--G----TAT
78734 TTGAGCACTCTCGCTCGGTCTCTACAAATCAATCATCACATCTACCAAACCAAACAATCACACAC
1 TTGAGCACTCTCGCTCGGTCTCTACAAATCAATCATCACATCTACCAAACCAAACAATCACACAC
* *
78799 ACACACCCATGAGGACAATCCTTTTGTCTTTATGGGGTGTCTCCACCCAAATCTAACCCTTAGAA
66 ACACACCCATGAGGACAATCCTTTTGTC-CTATGGGGTGTCTCCACCCAAATCTAACCCTTAGAC
* *
78864 TACATCTTTTCTCCAAATATACAAAATCCTATAGAGAAACTCTTTATTTATA-TTAGCACAAACT
130 TACATCTTTTCTCCAAACATACAAAATCCTATAGAGAAACTCTCTATTTATACTT-GCACAAACT
*
78928 TGGCCTCCAAGAATCCCTTTCCTACTAGGATTCTTGTTTACCAAGTCTTTTTCTCCACCAAGCAA
194 TAGCCTCCAAGAATCCCTTTCCTACTAGGATTCTTGTTTACCAAGTCTTTTTCTCCACCAAGCAA
78993 TAGGCCTAAAAAATCCTAATCCAAATCTAATTAGGATTTGAGTCAAAATCCTAACAATCTCCACC
259 TAGGCCTAAAAAATCCTAATCCAAATCTAATTAGGATTTGAGTCAAAATCCTAACAATCTCCACC
* *
79058 TTGACTCAAATTCCATCAAATCTTCAATTTTCAATCAATCTTCAAGAAGATGCTTGGCTCCACCT
324 TTGACTCAAATTCCATCAAATCTTCAATCTTCAATCAATCTTCAAGAACATGCTTGGCTCCACCT
*
79123 ACAATGAAAGTCTCCCAATTTTCAAGCAATCTTCTCTTGTGTGTCTTCATCTTCACCGCATCATC
389 ACAATGAAAGTCTCCCAATCTTCAAGCAATCTTCTCTTGTGTGTCTTCATCTTCACCGCATCATC
*
79188 TTCAACTTTAATTCCAAATCCAATCTTGCTTTTCATCCAAATCTGATTTGAAAAGTCAACATGCA
454 TTCAACTTTAATTCCGAATCCAATCTTGCTTTTCATCCAAATCTGATTTGAAAAGTCAACATGCA
* *
79253 ATCTTCAACACAATCATCAAGCAGTGAAATTTGGCAATCTCCACGACAACCAAATCTACCGAACC
519 ATCTTCAAAACAATCATCAAGCAATGAAATTTGGCAATCTCCACGACAACCAAATCTACCGAACC
*
79318 ATATCACAAGTTTGGGTTACCAGGCAACCTCCAATACATTCAACCTGAGCTCGGATACCAATTGT
584 ATATCACAAGTTTGGGCTACCAGGCAACCTCCAATACATTCAACCTGAGCTCGGATACCAATTGT
*
79383 TGTAATCCGTATATCCCAAACCGTAATCTATCAAATTAATCATGCAAGCGGAAACAACTAAAATA
649 TGTAATCCGTATATCCCAAACCGTAATCTATCAAATTAATCATGCAAGCGGAAGCAACTAAAATA
* *
79448 ATAAACCATCCACACAAGAAACAAGAATTTACGTGGTTCGGCAATGAACTTGCCTACGTCCACGG
714 ATAAACCATCCACACAAGAAACAAGAATTTACGTGGTTCGACACTGAACTTGCCTACGTCCACGG
79513 AGGAGAAGAGAAATCCACTAGTTATAGAAAATTACATCAACACATAATTATCAATAACTCTCACT
779 AGGAGAAGAGAAATCCACTAGTTATAGAAAATTACATCAACACATAATTATCAATAACTCTCACT
79578 CAA-TCT-ATCCAATCTAACAATCAATCCTAAACCAAACCCAAACAATCTTGAGCACTCTCGCTC
844 CAACTCTCATCCAATCTAACAATCAATCCTAAACCAAACCCAAACAATCTTGAGCACTCTCGCTC
79641 GGTCTGTAT
909 GGTCTGTAT
*
79650 TTGAGCACTCTCGCTCGATCTCTACAAATCAATCATCACATCTACCAAACCAAACAATCACACAC
1 TTGAGCACTCTCGCTCGGTCTCTACAAATCAATCATCACATCTACCAAACCAAACAATCACACAC
*
79715 ACACACACATGAGGACAATCCTTTTGTCCTATGGGGTGTCTCCACCCAAATCTAACCCTTAGACT
66 ACACACCCATGAGGACAATCCTTTTGTCCTATGGGGTGTCTCCACCCAAATCTAACCCTTAGACT
*
79780 ACATCTTTTCTCCAAACATACAAAATCCTATAGAGAAACTCTCTACTTATACTTGCACAAACTTA
131 ACATCTTTTCTCCAAACATACAAAATCCTATAGAGAAACTCTCTATTTATACTTGCACAAACTTA
* *
79845 GCCTCCAAGAACCCCTTTGCTACTAGGATTCTTGTTTACCAAGTCTTTTTCTCCACCAAGCAATA
196 GCCTCCAAGAATCCCTTTCCTACTAGGATTCTTGTTTACCAAGTCTTTTTCTCCACCAAGCAATA
* * *
79910 GGCTTAAAAAAATCCTAATCCAAATTTAATTAGGATTTGAGGCAAAATCCTAACAATCTCCACCT
261 GGCCT-AAAAAATCCTAATCCAAATCTAATTAGGATTTGAGTCAAAATCCTAACAATCTCCACCT
**
79975 TGACTCAAATTCCATCAAATCTTCAATTTTCAATAAATCTTCAATCAATCTTCAAGGCCATGCTT
325 TGACTCAAATTCCATCAAA---TC----TTC----AATCTTCAATCAATCTTCAAGAACATGCTT
* *
80040 GGCTCCACCTACAATGAAAGTCTCCCAATCTTCAAGCAATATTCTCTTGTGTGTCTTCGTCTTCA
379 GGCTCCACCTACAATGAAAGTCTCCCAATCTTCAAGCAATCTTCTCTTGTGTGTCTTCATCTTCA
80105 CCGCATCATCTTCAACTTTAATTCCGAATCCAATCTTGCTTTTCATCCAAATCTGATTTGAAAAG
444 CCGCATCATCTTCAACTTTAATTCCGAATCCAATCTTGCTTTTCATCCAAATCTGATTTGAAAAG
80170 TCAACATGCAATCTTCAAAACAATCATCAAGCAATGAAATTTGGCAATCTCCACGACAACCAAAT
509 TCAACATGCAATCTTCAAAACAATCATCAAGCAATGAAATTTGGCAATCTCCACGACAACCAAAT
* * * *
80235 CTACCGAACTATATAACAAGTTTGGGCTACCATGCAACCTCCAATACATTCAACCTGAGCTCTGA
574 CTACCGAACCATATCACAAGTTTGGGCTACCAGGCAACCTCCAATACATTCAACCTGAGCTCGGA
*
80300 TAGCAAT
639 TACCAAT
80307 AATCTCCACC
Statistics
Matches: 1494, Mismatches: 61, Indels: 53
0.93 0.04 0.03
Matches are distributed among these distances:
915 160 0.11
916 171 0.11
919 2 0.00
920 1 0.00
922 2 0.00
923 3 0.00
924 1 0.00
927 281 0.19
929 1 0.00
930 1 0.00
935 3 0.00
936 1 0.00
937 3 0.00
939 2 0.00
941 47 0.03
943 3 0.00
944 90 0.06
945 586 0.39
946 136 0.09
ACGTcount: A:0.34, C:0.27, G:0.11, T:0.28
Consensus pattern (917 bp):
TTGAGCACTCTCGCTCGGTCTCTACAAATCAATCATCACATCTACCAAACCAAACAATCACACAC
ACACACCCATGAGGACAATCCTTTTGTCCTATGGGGTGTCTCCACCCAAATCTAACCCTTAGACT
ACATCTTTTCTCCAAACATACAAAATCCTATAGAGAAACTCTCTATTTATACTTGCACAAACTTA
GCCTCCAAGAATCCCTTTCCTACTAGGATTCTTGTTTACCAAGTCTTTTTCTCCACCAAGCAATA
GGCCTAAAAAATCCTAATCCAAATCTAATTAGGATTTGAGTCAAAATCCTAACAATCTCCACCTT
GACTCAAATTCCATCAAATCTTCAATCTTCAATCAATCTTCAAGAACATGCTTGGCTCCACCTAC
AATGAAAGTCTCCCAATCTTCAAGCAATCTTCTCTTGTGTGTCTTCATCTTCACCGCATCATCTT
CAACTTTAATTCCGAATCCAATCTTGCTTTTCATCCAAATCTGATTTGAAAAGTCAACATGCAAT
CTTCAAAACAATCATCAAGCAATGAAATTTGGCAATCTCCACGACAACCAAATCTACCGAACCAT
ATCACAAGTTTGGGCTACCAGGCAACCTCCAATACATTCAACCTGAGCTCGGATACCAATTGTTG
TAATCCGTATATCCCAAACCGTAATCTATCAAATTAATCATGCAAGCGGAAGCAACTAAAATAAT
AAACCATCCACACAAGAAACAAGAATTTACGTGGTTCGACACTGAACTTGCCTACGTCCACGGAG
GAGAAGAGAAATCCACTAGTTATAGAAAATTACATCAACACATAATTATCAATAACTCTCACTCA
ACTCTCATCCAATCTAACAATCAATCCTAAACCAAACCCAAACAATCTTGAGCACTCTCGCTCGG
TCTGTAT
Found at i:80589 original size:332 final size:332
Alignment explanation
Indices: 80010--80638 Score: 997
Period size: 332 Copynumber: 1.9 Consensus size: 332
80000 ATTTTCAATA
* *
80010 AATCTTCAATCAATCTTCAAGGCCATGCTTGGCTCCACCTACAATGAAAGTCTCCCAATCTTCAA
1 AATCTTCAATCAATCTTCAAGGACATGCTTGGCTCCACCTACAATGAAAGTCCCCCAATCTTCAA
* *
80075 GCAATATTCTCTTGTGTGTCTTCGTCTTCACCGCATCATCTTCAACTTTAATTCCGAATCCAATC
66 GCAATATTCTCTAGTGTGTCTTCATCTTCACCGCATCATCTTCAACTTTAATTCCGAATCCAATC
* *
80140 TTGCTTTTCATCCAAATCTGATTTGAAAAGTCAACATGCAATCTTCAAAACAATCATCAAGCAAT
131 TTGCTTTTCATCCAAATCTGATTTGAAAAGCCAACATGCAATCTTCAAAACAATCATCAAGCAAC
* *
80205 GAAATTTGGCAATCTCCACGACAACCAAATCTACCGAACTATATAACAAGTTTGGGCTACCATGC
196 GAAATTTGGCAATCTCCACGACAACCAAATCTACCGAACCATATAACAAGTTTGGGCTACCAGGC
* * *
80270 AACCTCCAATACATTCAACCTGAGCTCTGATAGCAATAATCTCCACCTTGACTCAAATTCCATCA
261 AACCTCCAATACATTAAACCTGAGCTCGGATACCAATAATCTCCACCTTGACTCAAATTCCATCA
80335 AATTTTC
326 AATTTTC
*
80342 AATCTTCGATCAATCTTCAAGGACATGCTTGGCTCCACCTACAATGAAAGTCCCCCAATCTTCAA
1 AATCTTCAATCAATCTTCAAGGACATGCTTGGCTCCACCTACAATGAAAGTCCCCCAATCTTCAA
* * * * * ***
80407 GCAATCTTCTCTAGTGTGTCTTCATCTTCACTGCATTATCTTGAACTTTAATTTCGAATTTGATC
66 GCAATATTCTCTAGTGTGTCTTCATCTTCACCGCATCATCTTCAACTTTAATTCCGAATCCAATC
* *
80472 TTGTTTTTCATCCAAATCTGATTTGAAAAGCCAACATGCAATCTTCATAACAATCATCAAGCAAC
131 TTGCTTTTCATCCAAATCTGATTTGAAAAGCCAACATGCAATCTTCAAAACAATCATCAAGCAAC
* ** *
80537 GAAATTTGGCAATCTCCACGACAACCAAATCTATCGAACCATATCTCAAGTTTGGGCTACCGGGC
196 GAAATTTGGCAATCTCCACGACAACCAAATCTACCGAACCATATAACAAGTTTGGGCTACCAGGC
* * *
80602 AATCTCCAATCCATTAAACCTGGGCTCGGATACCAAT
261 AACCTCCAATACATTAAACCTGAGCTCGGATACCAAT
80639 TGTTGTAACT
Statistics
Matches: 268, Mismatches: 29, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
332 268 1.00
ACGTcount: A:0.31, C:0.27, G:0.12, T:0.30
Consensus pattern (332 bp):
AATCTTCAATCAATCTTCAAGGACATGCTTGGCTCCACCTACAATGAAAGTCCCCCAATCTTCAA
GCAATATTCTCTAGTGTGTCTTCATCTTCACCGCATCATCTTCAACTTTAATTCCGAATCCAATC
TTGCTTTTCATCCAAATCTGATTTGAAAAGCCAACATGCAATCTTCAAAACAATCATCAAGCAAC
GAAATTTGGCAATCTCCACGACAACCAAATCTACCGAACCATATAACAAGTTTGGGCTACCAGGC
AACCTCCAATACATTAAACCTGAGCTCGGATACCAATAATCTCCACCTTGACTCAAATTCCATCA
AATTTTC
Found at i:84011 original size:16 final size:16
Alignment explanation
Indices: 83987--84021 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
83977 TGGCTACTTC
*
83987 TTCTTCCTCATCTCCT
1 TTCTACCTCATCTCCT
84003 TTCTACCTCATCTCCT
1 TTCTACCTCATCTCCT
84019 TTC
1 TTC
84022 AACAATAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.09, C:0.43, G:0.00, T:0.49
Consensus pattern (16 bp):
TTCTACCTCATCTCCT
Found at i:87381 original size:23 final size:23
Alignment explanation
Indices: 87355--87400 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
87345 TTCTCTAAGA
87355 AGAA-GGCGAATGTCGATGGCTTG
1 AGAACGGC-AATGTCGATGGCTTG
* *
87378 AGAACGGCAATGTTGCTGGCTTG
1 AGAACGGCAATGTCGATGGCTTG
87401 GAGATTGGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.24, C:0.15, G:0.37, T:0.24
Consensus pattern (23 bp):
AGAACGGCAATGTCGATGGCTTG
Found at i:94566 original size:24 final size:25
Alignment explanation
Indices: 94539--94591 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 25
94529 TAAATCTGTA
94539 ATATTGATTAATAATATATAATATAT
1 ATATTGATTAATAATATA-AATATAT
*
94565 ATATTTATTAATAATAT-AATATAT
1 ATATTGATTAATAATATAAATATAT
94589 ATA
1 ATA
94592 GGCGGTTGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 10 0.38
26 16 0.62
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (25 bp):
ATATTGATTAATAATATAAATATAT
Found at i:94574 original size:26 final size:24
Alignment explanation
Indices: 94539--94591 Score: 79
Period size: 24 Copynumber: 2.1 Consensus size: 24
94529 TAAATCTGTA
94539 ATATTGATTAATAATATATAATATAT
1 ATATTGATTAAT-A-ATATAATATAT
*
94565 ATATTTATTAATAATATAATATAT
1 ATATTGATTAATAATATAATATAT
94589 ATA
1 ATA
94592 GGCGGTTGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 14 0.54
25 1 0.04
26 11 0.42
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (24 bp):
ATATTGATTAATAATATAATATAT
Found at i:96098 original size:22 final size:22
Alignment explanation
Indices: 96073--96116 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
96063 TACTCTGTCT
96073 CATTTCATTTGTCCATCTTTCA
1 CATTTCATTTGTCCATCTTTCA
96095 CATTTCATTTGTCCATCTTTCA
1 CATTTCATTTGTCCATCTTTCA
96117 TTTTTGGATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.18, C:0.27, G:0.05, T:0.50
Consensus pattern (22 bp):
CATTTCATTTGTCCATCTTTCA
Found at i:101571 original size:2 final size:2
Alignment explanation
Indices: 101564--101592 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
101554 ACATAAAGAA
101564 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
101593 AGTGTAAATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:101589 original size:50 final size:50
Alignment explanation
Indices: 101514--101615 Score: 150
Period size: 50 Copynumber: 2.0 Consensus size: 50
101504 CTATCTCAAC
*
101514 ATATATAAATAAATATATGTATATATACAAGTATAAATCAACATAAAGAA
1 ATATATAAATAAATATATATATATATACAAGTATAAATCAACATAAAGAA
* * * * *
101564 ATATATATATATATATATATATATATATAAGTGTAAATCAACATAAATAA
1 ATATATAAATAAATATATATATATATACAAGTATAAATCAACATAAAGAA
101614 AT
1 AT
101616 GAAGAAATAT
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 46 1.00
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.34
Consensus pattern (50 bp):
ATATATAAATAAATATATATATATATACAAGTATAAATCAACATAAAGAA
Found at i:101631 original size:50 final size:50
Alignment explanation
Indices: 101514--101639 Score: 146
Period size: 50 Copynumber: 2.5 Consensus size: 50
101504 CTATCTCAAC
* * *
101514 ATATATAAATAAATATATGTATATATACAAGTATAAATCAACATAAAGAA
1 ATATAGAAATATATATATATATATATACAAGTATAAATCAACATAAAGAA
* * * * *
101564 ATATATATATATATATATATATATATATAAGTGTAAATCAACATAAATAA
1 ATATAGAAATATATATATATATATATACAAGTATAAATCAACATAAAGAA
* *
101614 ATGA-AGAAATATGTATATAAATATAT
1 AT-ATAGAAATATATATATATATATAT
101640 TGATCGAGCA
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
50 64 0.98
51 1 0.02
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.34
Consensus pattern (50 bp):
ATATAGAAATATATATATATATATATACAAGTATAAATCAACATAAAGAA
Found at i:102518 original size:11 final size:11
Alignment explanation
Indices: 102502--102527 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
102492 AGATAATTTC
102502 TTTTCTTCTAG
1 TTTTCTTCTAG
102513 TTTTCTTCTAG
1 TTTTCTTCTAG
102524 TTTT
1 TTTT
102528 TTAGGCAAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.15, G:0.08, T:0.69
Consensus pattern (11 bp):
TTTTCTTCTAG
Done.