Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold_533 ID=scaffold_533-JGI_221_v2.0
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: 6100
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.29
Warning! 100 characters in sequence are not A, C, G, or T
Found at i:106 original size:46 final size:46
Alignment explanation
Indices: 39--210 Score: 166
Period size: 46 Copynumber: 3.6 Consensus size: 46
29 AGTGGAACAA
39 ATTAAAGCTGAAGGCAGCGAATCTCATTTCCCTAACGTCGTAATAG
1 ATTAAAGCTGAAGGCAGCGAATCTCATTTCCCTAACGTCGTAATAG
* * *
85 ATTAAAGCTGAAGGCATCGAATCTTATTT-CCTAAGCGTTGCAGTGGAACAG
1 ATTAAAGCTGAAGGCAGCGAATCTCATTTCCCTAA-CG-T-C-GT--AATAG
* * * * ** * *
136 ATTAAACCTGAAGCCAGTGAATCTTATTTCCCTGGCGTCGCAGTAG
1 ATTAAAGCTGAAGGCAGCGAATCTCATTTCCCTAACGTCGTAATAG
* *
182 GTTAAAGCTGAATGCAGCGAATCTCATTT
1 ATTAAAGCTGAAGGCAGCGAATCTCATTT
211 TCTTGGCATT
Statistics
Matches: 101, Mismatches: 18, Indels: 14
0.76 0.14 0.11
Matches are distributed among these distances:
45 5 0.05
46 55 0.54
47 1 0.01
48 2 0.02
49 3 0.03
50 1 0.01
51 31 0.31
52 3 0.03
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (46 bp):
ATTAAAGCTGAAGGCAGCGAATCTCATTTCCCTAACGTCGTAATAG
Found at i:175 original size:97 final size:97
Alignment explanation
Indices: 28--3857 Score: 1258
Period size: 97 Copynumber: 39.5 Consensus size: 97
18 TTTGGCATCA
* * ** *
28 CAGTGGAACAAATTAAAGCTGAAGGCAGCGAATCTCATTTCCCTAACGTCGTAATAGATTAAAGC
1 CAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTCGCAATAGATTAAAGC
* **
93 TGAAGGCATCGAATCTTATTTCCTAAGCGTTG
66 TGAAGGCAGCGAATCTTATTTCCTTGGCGTTG
* * * * *
125 CAGTGGAACAGATTAAACCTGAAGCCAGTGAATCTTATTTCCCTGGCGTCGCAGTAGGTTAAAGC
1 CAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTCGCAATAGATTAAAGC
* * * *
190 TGAATGCAGCGAATCTCATTTTCTTGGCATTG
66 TGAAGGCAGCGAATCTTATTTCCTTGGCGTTG
* * * * * * * *
222 CAGTGGAACAAATTAAGGCTAAAGGCAGTGAATCTTATATCCCTAGCGTCGCAGTA-AGCTAAAG
1 CAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTCGCAATAGA-TTAAAG
* *
286 TTGAAGGCAGAGAATCTTATTTCCTTGGCGTTG
65 CTGAAGGCAGCGAATCTTATTTCCTTGGCGTTG
* * ** * * *
319 CAGTGGAACATATTAAAGTTGAAGGCAGTAAATCTTATTTCCTTGGCGTTGCAGTGGAACAGATT
1 CAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCG-T-C---GCAATAGATT
* * * *
384 AAAACTGAAGGTAGCGAA-CTTTATTTCCATGTCG-T-
61 AAAGCTGAAGGCAGCGAATC-TTATTTCCTTGGCGTTG
* * * * * * * * *
419 C-GTAGTA-A-ATTAAAGCTGAAGGTAGCAAATCTTATTTCCTTAGCATTGCAATGGAACAGGTT
1 CAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTCGCAAT-----AGATT
* * * *
481 AAAGCTGAAGGCGGCGAATCTCATCTCCTTGCCGTTG
61 AAAGCTGAAGGCAGCGAATCTTATTTCCTTGGCGTTG
* * ** *
518 TAGTGGAACAGATTAAAGTTGAAGGCAAG-GAATCTTATTTCCCTGGCACCGCAATAGACTAAAG
1 CAGTGGAACAGATTAAAGCTGAAGGC-AGCGAATCTTATTTCCCTGGCGTCGCAATAGATTAAAG
* * *
582 CTAAAGGCGGTGAATCTTATTTCCTTGGCGTTTG
65 CTGAAGGCAGCGAATCTTATTTCCTTGGCG-TTG
* * * * *
616 -AGTAGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGCCGTTGCAGTAGAACAGAGT
1 CAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCG-T-C-G--CAATAGATT
* * * * * * *
680 AAAGCAGAAGGTAACAAATCTTATTTCCCTGACGTCG
61 AAAGCTGAAGGCAGCGAATCTTATTTCCTTGGCGTTG
* * * * * * * *
717 CAGT-----AGACTAAAGCTAAAGCCTA-CGACTCTTATTTCCCCGGCGTTGCAGTGGAACAGGT
1 CAGTGGAACAGATTAAAGCTGAAGGC-AGCGAATCTTATTTCCCTGGCG-T-C---GCAATAGAT
* * *
776 TAAAGCTGAAAGCAGCGAAT-TCCATTTCCTTGGCATTG
60 TAAAGCTGAAGGCAGCGAATCT-TATTTCCTTGGCGTTG
* * * * * * * * *
814 CAGTGGAATAAATTAAAGCTGAATGCAGCAAATCTTATTTCCTTGGCATCGCATTAGGTGAAAGC
1 CAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTCGCAATAGATTAAAGC
* *
879 TGAAGGCAGCAAATCTCATTTCCTTGGCGTTG
66 TGAAGGCAGCGAATCTTATTTCCTTGGCGTTG
* * * * * * *
911 CAGTTGAACTGATTAAAGTTGAAGGCAGCAAATCTTATTTCGCTGGCGTCAG-AGTAGATTAAAC
1 CAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTC-GCAATAGATTAAAG
* * *
975 CTTAAGGCAGTGAATCTTATTTCCTTAGCGTTG
65 CTGAAGGCAGCGAATCTTATTTCCTTGGCGTTG
* *** * * * * * *
1008 CAGTGGAACATATTAAAGCTGAAGGCAATAAATATTATTTCCTTGGCATTGTAGTAGAACAGTTT
1 CAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGC---GTCG--CAATAGATT
* * * *
1073 AAAGCTGAAGGCAGCGAATCTTATTTCCCTGTCATCG
61 AAAGCTGAAGGCAGCGAATCTTATTTCCTTGGCGTTG
* * ** * * *
1110 CAGT-----AGATTCAAGCTGAAGGTAGCGAATCTTATTTCGTTGGCGTTGTAGTGGAACAGA-T
1 CAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGC---GT--CGCAATAGATT
* ** * *
1169 AATAGCTGACGGCAGCGAATCCCATTTTCTTGGCATTG
61 AA-AGCTGAAGGCAGCGAATCTTATTTCCTTGGCGTTG
* * ** * * * *
1207 CAGTGGATCAAATTAAAATTGAAGGTAGCAAATCTTATTTCCTTGGCGTCGCATTAGATTAAAGC
1 CAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTCGCAATAGATTAAAGC
* * * * *
1272 TGAAGGTAGCAAATCTCATTTCTTTGGTGTTG
66 TGAAGGCAGCGAATCTTATTTCCTTGGCGTTG
* * *
1304 CCGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTAGTGTCGCAATAGATTAAAGC
1 CAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTCGCAATAGATTAAAGC
1369 TGAAGGCAGCGAATCTTATTTCCTTGGCGTTG
66 TGAAGGCAGCGAATCTTATTTCCTTGGCGTTG
* * * * * * *
1401 TAGTGGAACAAATTAAAGCTGAAGGCAGTGAATCTTATTTTCTTGGTGTCGCAGTAGATTAAAGC
1 CAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTCGCAATAGATTAAAGC
* * *
1466 TAAAGGCAGCGAATCTCATTTCCTTGGCGTTA
66 TGAAGGCAGCGAATCTTATTTCCTTGGCGTTG
* * * * * * * *
1498 CAGTGGAACAGATTAAAGCTGGAGCCAACAAATCTTATTTCTCTAGCGTCACAGTAGATTAAAGC
1 CAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTCGCAATAGATTAAAGC
* * * *
1563 TGAAGGCAGCGAATCTTATTTCCCTAGCATCG
66 TGAAGGCAGCGAATCTTATTTCCTTGGCGTTG
* * * ** * * * ** *** *** * * ** *
1595 CAGTGGGA-TGGTTTGAGGTTATCATGGCA--G-ATCTTATCTCTATTAAGTTTTAGTGGAGCAG
1 CAGTGGAACAGATTAAAGCTGA--A-GGCAGCGAATCTTATTTCCCTGGCGTCGCAATAGATTAA
* * * * * ***
1656 A-TTAAAGCCA-C-AAACATTA-TCCCTCTAAAGTTG
63 AGCTGAAGGCAGCGAATC-TTATTTCCT-TGGCGTTG
** * * * * * * * * * **
1689 CAGTGGGGCAGGTTGAA---G-A-G-A-CAAATCTTATTTTCCTAGCATCGTAGTGGA--ATGGT
1 CAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTCGCAATAGATTAAAG-
* ** * **
1745 TTGAAGAAG-ATGACGAATCTTATAACCCTGAAGTTG
65 CTGAAG--GCA-G-CGAATCTTATTTCCTTGGCGTTG
** * * * * * ** ** * *
1781 CAGTGGAGTAGATTAAAGCCGATA---ATCTTATTTCTT-TTGCGTTGTAGT-GGAACAGATTAA
1 CAGTGGAACAGATTAAAGCTGA-AGGCAGC-GA-ATCTTATTTCCCTGGCGTCGCAATAGATTAA
* * * * *
1841 AGCTAAAGGCAGCAAATCTTATTTCCCTGGTGTCG
63 AGCTGAAGGCAGCGAATCTTATTTCCTTGGCGTTG
* * * * * *
1876 CAGT-----AGATTACAGCTAAAGGCAGCGAATCTT-GTTCCCTTGGTGTTGTAGTGGAATAGAT
1 CAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCC-T-G-G-CGT--CGCAATAGAT
* **
1935 TAAAGCTGAAGGCAGCAAATCTTATTTTCC-TGGCGACG
60 TAAAGCTGAAGGCAGCGAATCTTA-TTTCCTTGGCGTTG
* ** * * * * * *
1973 CAGT-----AGATTAAAGCTGAAGGCAACGAATCTCCTTTTCTTGGTGTTGTAGTGAAACAGATT
1 CAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCT-G-G-CGT--CGCAATAGATT
* * * * * *
2033 AATGTTGAGGGCAGCAAATCTTATTTACTTGGCGTCG
61 AAAGCTGAAGGCAGCGAATCTTATTTCCTTGGCGTTG
* * * * *
2070 CAGT-----AGATTAAAGTTGAAGGCAGCGAATCTCATTTCCTTGGCGTTGTAGTGGAATAGATT
1 CAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGC---GT--CGCAATAGATT
* *
2130 AAAGCTAAAGGCAGCGAATCTGATTT-CTCTGGCGTTG
61 AAAGCTGAAGGCAGCGAATCTTATTTCCT-TGGCGTTG
* * * *
2167 CAGT-----AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTAGCGTCGTAGTAGATTAAATC
1 CAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTCGCAATAGATTAAAGC
* * * * *** * ** *
2227 AGAAGGAAACGAGTAGGATGGT--TTGAAGTTAT
66 TGAAGGCAGCGAATCTTAT-TTCCTTGGCGTT-G
*** * * * *** ** *
2259 CA-TGG--CAGATTTTATCTCCTTGAAGTCGTAGTAGAATAGATTAAAGCCACAAACCTTATCCC
1 CAGTGGAACAGA--TTA-AAGC-TGAAG--GCAG-CGAAT--CTT--A-TTTC---CC-T-GGCG
* * *** * * ** *
2321 TCTG-AAGTTGCAGTGGGGCAGGTTGAA-G-AGACAAATATTATTTTCC-TGAAGTTA
49 TC-GCAA-TAG-ATTAAAGC----TGAAGGCAG-CGAATCTTA-TTTCCTTGGCGTTG
** * * ** * * * *** * * * * * *
2375 CAGTGGAATGGTTTGAAGAAG-ATG-A-TGAATCTTATATCCCTAAAGTTGCAGTGGAGTAGA-T
1 CAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTCGCAATAGATTAAAGC
* * ** * * *
2436 TAAAGCCA-ATAATCTCATTTCTTTAGCGTTG
66 TGAAGGCAGCGAATCTTATTTCCTTGGCGTTG
* * * * * * * * *
2467 TAGTGGAATAGATTAAAGCTGAAGGCAACAAATCTTATTTCCTTGGCATCGGAGTAGATGAAAGC
1 CAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTCGCAATAGATTAAAGC
* * * **
2532 TGAAGGCATCAAATCTTATTTTCC-TAGCGTCA
66 TGAAGGCAGCGAATCTTA-TTTCCTTGGCGTTG
* * * * *
2564 CAGT-----AGATTAAAGCTAAAGGCAGCGAATCTCATTTCCCTCGCGTTGCAGTGAAACAGATT
1 CAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCG-T-C---GCAATAGATT
* * * ** * * *
2624 CAAGTTGAAGGTAGTAAATCTTATTTCCCTAGCGTCG
61 AAAGCTGAAGGCAGCGAATCTTATTTCCTTGGCGTTG
* * * * *
2661 CAGT-----AGATTAAAGCTGAAGGCAGTGAATCTCATTTCCTTGGCGTTGCAGTGGAACAGATT
1 CAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCG-T-C---GCAATAGATT
* * * **
2721 AAAGCTGAAGGTAGCGAATCTTATTTCCCTGGGGTCA
61 AAAGCTGAAGGCAGCGAATCTTATTTCCTTGGCGTTG
* * * * *
2758 CAGT-----AGATTAAAGCTG-A---A-TGAATCTCATTTCCTTGGCGTTGCAGTGGGACAGATT
1 CAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTCGCA-----ATAGATT
* * * * *
2813 AAAGTTGAAGGTAACGAATCTTATTTCCTGGGC-TCG
61 AAAGCTGAAGGCAGCGAATCTTATTTCCTTGGCGTTG
* * * ** * *
2849 AAGT-----AGATTAAAGCAGAAGGAAGCGAATCTTATTTCTTTGGCGTTGCAGTGGAACAGATT
1 CAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCG-T-C---GCAATAGATT
* * * *
2909 AAATCTGAAGGCAGCGAATCTTATTTCCCTGGAGTCG
61 AAAGCTGAAGGCAGCGAATCTTATTTCCTTGGCGTTG
* * * * * * * * *
2946 CAGT-----AGATTAAAGCTAAAGGCTGCAAATCTTATTTCCCTGCCGTTGTAGTAAATTAAAGT
1 CAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTCGCAATAGATTAAAGC
* * *
3006 TGAAGGCAGCGAATCTCATTTCTTTGGCATTGG
66 TGAAGGCAGCGAATCTTATTTCCTTGGCGTT-G
* ** * * *
3039 C-GTCGCAGTAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTGGCAGTAGATTAAAT
1 CAGT-GGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTCGCAATAGATTAAAG
* * * **
3103 CAGAAGGACA-CGAGTCTTATTCCCTCAGCGTTG
65 CTGAAGG-CAGCGAATCTTATTTCCTTGGCGTTG
* * * * ** *
3136 CAGTGGAACAGATTAAAGTTGAAGCCAGCGAATTTTATTTCCCCGGCGTCGCTGTAGATTAAACC
1 CAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTCGCAATAGATTAAAGC
* **
3201 TGAAGGCCGCGAATCTTATTTCCTTTTCGTTG
66 TGAAGGCAGCGAATCTTATTTCCTTGGCGTTG
* * * * *
3233 CAGTAGAACAGATTAAAGCTGAA-GCAGTGAATCTTATTTCCCTGGCGTCGTAGTAGATTAAAAC
1 CAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTCGCAATAGATTAAAGC
* *
3297 TGAAGGCAGTGAATCTTATTTCGATT-GCGTTG
66 TGAAGGCAGCGAATCTTATTTC-CTTGGCGTTG
* * * ** * * **
3329 TAGTGGAACAGATTAAAGTTGAAGGTAGTAAATCTTATTTCCCTAGCGTCACAGCAGATTAAAGC
1 CAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTCGCAATAGATTAAAGC
* * *
3394 TGAAGGCAGCAAATCTCT-TTTCCCTGGCATTG
66 TGAAGGCAGCGAATCT-TATTTCCTTGGCGTTG
* * ** * * * *
3426 CAGTGGAACAGATTAAAGCTGAATGTAGTAAATCTTATTTCCCTGGCATCGTAGTAGATTAAAGT
1 CAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTCGCAATAGATTAAAGC
* * **
3491 TGAAGGCGGTGAATCTTATTTCCTCAGCGTTG
66 TGAAGGCAGCGAATCTTATTTCCTTGGCGTTG
* * * * * *
3523 TAGTGGAACAGATTAAAGCT-AATGGTAGCGAATCTTATTTACCTGGAGTCGTAGTAGATTAAA-
1 CAGTGGAACAGATTAAAGCTGAA-GGCAGCGAATCTTATTTCCCTGGCGTCGCAATAGATTAAAG
* * *
3586 CTTGAAGGCAGCGAATCTCATTTCCCTGGTGTTG
65 C-TGAAGGCAGCGAATCTTATTTCCTTGGCGTTG
* * * * * * *
3620 CAGT-----AGATTAAAGCTGAAGGAAGCAAATCTTA-TTCCTTTGGCATCACAGTGGAACAAAT
1 CAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCC-CTGGCGT--C---GCAATAGAT
* * *
3679 TAAAGCTGAAGGCAGCGAATCTCATTTTCTTGGCATTG
60 TAAAGCTGAAGGCAGCGAATCTTATTTCCTTGGCGTTG
* * * * * * *
3717 CAGTGGAACAGATTAACGCTAAAGGCAGTGAATCTTATATCCCTAGCGTCGCAGTA-AGCTAAAG
1 CAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTCGCAATAGA-TTAAAG
* *
3781 TTGAAGGCAGAGAATCTTATTTCCTTGGCGTTG
65 CTGAAGGCAGCGAATCTTATTTCCTTGGCGTTG
* * *
3814 CAGTGGAACATATTAAAGTTGAAGGCAGCGAATCTCATTTCCCT
1 CAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCT
3858 AACGTCGTAN
Statistics
Matches: 2824, Mismatches: 709, Indels: 400
0.72 0.18 0.10
Matches are distributed among these distances:
86 2 0.00
87 3 0.00
88 22 0.01
89 3 0.00
90 16 0.01
91 32 0.01
92 235 0.08
93 20 0.01
94 26 0.01
95 56 0.02
96 194 0.07
97 1764 0.62
98 114 0.04
99 24 0.01
100 14 0.00
101 15 0.01
102 222 0.08
103 8 0.00
104 1 0.00
105 2 0.00
106 1 0.00
107 2 0.00
109 6 0.00
110 1 0.00
111 5 0.00
112 4 0.00
113 3 0.00
114 1 0.00
115 2 0.00
116 9 0.00
117 16 0.01
119 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (97 bp):
CAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTCGCAATAGATTAAAGC
TGAAGGCAGCGAATCTTATTTCCTTGGCGTTG
Found at i:322 original size:46 final size:47
Alignment explanation
Indices: 87--1585 Score: 504
Period size: 51 Copynumber: 30.6 Consensus size: 47
77 CGTAATAGAT
** **
87 TAAAGCTGAAGGCATCGAATCTTATTTCCTAAGCGTTGCAGTGGAACAGA
1 TAAAGCTGAAGGCAGAGAATCTTATTTCCTTGGCGTTGCAGT-GAAC--A
* * * * * ***
137 TTAAACCTGAAGCCAGTGAATCTTATTTCCCTGGCGTCGCAGT-AGGT
1 -TAAAGCTGAAGGCAGAGAATCTTATTTCCTTGGCGTTGCAGTGAACA
* * * * *
184 TAAAGCTGAATGCAGCGAATCTCATTTTCTTGGCATTGCAGTGGAACAAA
1 TAAAGCTGAAGGCAGAGAATCTTATTTCCTTGGCGTTGCAGT-GAAC--A
* * * * * * *
234 TTAAGGCTAAAGGCAGTGAATCTTATATCCCTAGCGTCGCAGT-AAGC-
1 -TAAAGCTGAAGGCAGAGAATCTTATTTCCTTGGCGTTGCAGTGAA-CA
*
281 TAAAGTTGAAGGCAGAGAATCTTATTTCCTTGGCGTTGCAGTGGAACATA
1 TAAAGCTGAAGGCAGAGAATCTTATTTCCTTGGCGTTGCAGT-GAAC--A
*
331 TTAAAGTTGAAGGCAGTA-AATCTTATTTCCTTGGCGTTGCAGTGGAACAGA
1 -TAAAGCTGAAGGCAG-AGAATCTTATTTCCTTGGCGTTGCAGT-GAAC--A
* * * * * * *
382 TTAAAACTGAAGGTAGCGAA-CTTTATTTCCATGTCGTCGTAGT-AA-A
1 -TAAAGCTGAAGGCAGAGAATC-TTATTTCCTTGGCGTTGCAGTGAACA
* * * *
428 TTAAAGCTGAAGGTAGCA-AATCTTATTTCCTTAGCATTGCAATGGAACA
1 -TAAAGCTGAAGGCAG-AGAATCTTATTTCCTTGGCGTTGCAGT-GAACA
* * * * * *
477 GGTTAAAGCTGAAGGCGGCGAATCTCATCTCCTTGCCGTTGTAGTGGAACAGA
1 ---TAAAGCTGAAGGCAGAGAATCTTATTTCCTTGGCGTTGCAGT-GAAC--A
* * *** *
530 TTAAAGTTGAAGGCA-AGGAATCTTATTTCCCTGGCACCGCAAT-AGAC-
1 -TAAAGCTGAAGGCAGA-GAATCTTATTTCCTTGGCGTTGCAGTGA-ACA
* * *
577 TAAAGCTAAAGGCGGTGAATCTTATTTCCTTGGCGTTTG-AGTAGAACAGA
1 TAAAGCTGAAGGCAGAGAATCTTATTTCCTTGGCG-TTGCAGT-GAAC--A
* * *
627 TTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGCCGTTGCAGTAGAACAGA
1 -TAAAGCTGAAGGCAGAGAATCTTATTTCCTTGGCGTTGCAGT-GAAC--A
* * * * * *
678 GTAAAGCAGAAGGTA-ACAAATCTTATTTCCCTGACGTCGCAGT-AGAC-
1 -TAAAGCTGAAGGCAGA-GAATCTTATTTCCTTGGCGTTGCAGTGA-ACA
* * * * **
725 TAAAGCTAAAGCCTA-CGACTCTTATTTCCCCGGCGTTGCAGTGGAACA
1 TAAAGCTGAAGGC-AGAGAATCTTATTTCCTTGGCGTTGCAGT-GAACA
* * * * *
773 GGTTAAAGCTGAAAGCAGCGAAT-TCCATTTCCTTGGCATTGCAGTGGAATAAA
1 ---TAAAGCTGAAGGCAGAGAATCT-TATTTCCTTGGCGTTGCAGT-G-A-ACA
* * * * **
826 TTAAAGCTGAATGCAGCA-AATCTTATTTCCTTGGCATCGCA-T-TAGG
1 -TAAAGCTGAAGGCAG-AGAATCTTATTTCCTTGGCGTTGCAGTGAACA
*
872 TGAAAGCTGAAGGCAGCA-AATCTCATTTCCTTGGCGTTGCAGTTGAACTGA
1 T-AAAGCTGAAGGCAG-AGAATCTTATTTCCTTGGCGTTGCAG-TGAAC--A
* * * *
923 TTAAAGTTGAAGGCAGCA-AATCTTATTTCGC-TGGCG-T-CAGAGTAGA
1 -TAAAGCTGAAGGCAG-AGAATCTTATTTC-CTTGGCGTTGCAGTGAACA
* * * *
969 TTAAACCTTAAGGCAGTGAATCTTATTTCCTTAGCGTTGCAGTGGAACATA
1 -TAAAGCTGAAGGCAGAGAATCTTATTTCCTTGGCGTTGCAGT-GAAC--A
* * * *
1020 TTAAAGCTGAAGGCA-ATAAATATTATTTCCTTGGCATTGTAGTAGAACA
1 -TAAAGCTGAAGGCAGA-GAATCTTATTTCCTTGGCGTTGCAGT-GAACA
* * * * * *
1069 GTTTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGTCATCGCAGT-AGA-T
1 ---TAAAGCTGAAGGCAGAGAATCTTATTTCCTTGGCGTTGCAGTGA-ACA
* * * * *
1118 TCAAGCTGAAGGTAGCGAATCTTATTTCGTTGGCGTTGTAGTGGAACAGA
1 TAAAGCTGAAGGCAGAGAATCTTATTTCCTTGGCGTTGCAGT-GAAC--A
* * ** * * *
1168 TAATAGCTGACGGCAGCGAATCCCATTTTCTTGGCATTGCAGTGGATCAAA
1 TAA-AGCTGAAGGCAGAGAATCTTATTTCCTTGGCGTTGCAGT-GA--ACA
** * * * *
1219 TTAAAATTGAAGGTAGCA-AATCTTATTTCCTTGGCGTCGCA-TTAGA-T
1 -TAAAGCTGAAGGCAG-AGAATCTTATTTCCTTGGCGTTGCAGTGA-ACA
* * * * *
1266 TAAAGCTGAAGGTAGCA-AATCTCATTTCTTTGGTGTTGCCGTGGAACAGA
1 TAAAGCTGAAGGCAG-AGAATCTTATTTCCTTGGCGTTGCAGT-GAAC--A
* * * * * * *
1316 TTAAAGCTGAAGGCAGCGAATCTTATTTCCCTAGTGTCGCAAT-AGA-T
1 -TAAAGCTGAAGGCAGAGAATCTTATTTCCTTGGCGTTGCAGTGA-ACA
* *
1363 TAAAGCTGAAGGCAGCGAATCTTATTTCCTTGGCGTTGTAGTGGAACAAA
1 TAAAGCTGAAGGCAGAGAATCTTATTTCCTTGGCGTTGCAGT-GAAC--A
* * * * *
1413 TTAAAGCTGAAGGCAGTGAATCTTATTTTCTTGGTGTCGCAGT-AGA-T
1 -TAAAGCTGAAGGCAGAGAATCTTATTTCCTTGGCGTTGCAGTGA-ACA
* * * *
1460 TAAAGCTAAAGGCAGCGAATCTCATTTCCTTGGCGTTACAGTGGAACAGA
1 TAAAGCTGAAGGCAGAGAATCTTATTTCCTTGGCGTTGCAGT-GAAC--A
* * * * ** *
1510 TTAAAGCTGGAGCCA-ACAAATCTTATTT-CTCTAGCGTCACAGT-AGA-T
1 -TAAAGCTGAAGGCAGA-GAATCTTATTTCCT-TGGCGTTGCAGTGA-ACA
*
1557 TAAAGCTGAAGGCAGCGAATCTTATTTCC
1 TAAAGCTGAAGGCAGAGAATCTTATTTCC
1586 CTAGCATCGC
Statistics
Matches: 1090, Mismatches: 251, Indels: 218
0.70 0.16 0.14
Matches are distributed among these distances:
45 2 0.00
46 384 0.35
47 15 0.01
48 18 0.02
49 20 0.02
50 22 0.02
51 617 0.57
52 8 0.01
53 4 0.00
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (47 bp):
TAAAGCTGAAGGCAGAGAATCTTATTTCCTTGGCGTTGCAGTGAACA
Found at i:353 original size:148 final size:146
Alignment explanation
Indices: 28--1598 Score: 912
Period size: 148 Copynumber: 10.7 Consensus size: 146
18 TTTGGCATCA
* * ** *
28 CAGTGGAACAAATTAAAGCTGAAGGCAGCGAATCTCATTTCCCTAACG-T-C-GT--AATAGATT
1 CAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTCATTTCCTTGGCGTTGCAGTGGAACAGATT
* * * * *
88 AAAGCTGAAGGCATCGAATCTTATTT-CCTAAGCGTTGCAGTGGAACAGATTAAACCTGAAGCCA
66 AAAGCTGAAGGCAGCGAATCTTATTTCCCT--GCGTCGCAGT-----AG-CTAAAGCTGAAGGCA
* * *
152 GTGAATCTTATTTCCCTGGCGTCG
123 GAGAATCTTATTTCCTTGGCGTTG
* * * * *
176 CAGT-----AGGTTAAAGCTGAATGCAGCGAATCTCATTTTCTTGGCATTGCAGTGGAACAAATT
1 CAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTCATTTCCTTGGCGTTGCAGTGGAACAGATT
* * * * *
236 AAGGCTAAAGGCAGTGAATCTTATATCCCTAGCGTCGCAGTAAGCTAAAGTTGAAGGCAGAGAAT
66 AAAGCTGAAGGCAGCGAATCTTATTTCCCT-GCGTCGCAGT-AGCTAAAGCTGAAGGCAGAGAAT
301 CTTATTTCCTTGGCGTTG
129 CTTATTTCCTTGGCGTTG
* * ** *
319 CAGTGGAACATATTAAAGTTGAAGGCAGTAAATCTTATTTCCTTGGCGTTGCAGTGGAACAGATT
1 CAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTCATTTCCTTGGCGTTGCAGTGGAACAGATT
* * * * ** *
384 AAAACTGAAGGTAGCGAA-CTTTATTTCCATGTCGTCGTAGTAAATTAAAGCTGAAGGTAGCA-A
66 AAAGCTGAAGGCAGCGAATC-TTATTTCCCTG-CGTCGCAGT-AGCTAAAGCTGAAGGCAG-AGA
* *
447 ATCTTATTTCCTTAGCATTG
127 ATCTTATTTCCTTGGCGTTG
* * * * * *
467 CAATGGAACAGGTTAAAGCTGAAGGCGGCGAATCTCATCTCCTTGCCGTTGTAGTGGAACAGATT
1 CAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTCATTTCCTTGGCGTTGCAGTGGAACAGATT
* ** * * * *
532 AAAGTTGAAGGCAAG-GAATCTTATTTCCCTGGCACCGCAATAGACTAAAGCTAAAGGCGGTGAA
66 AAAGCTGAAGGC-AGCGAATCTTATTTCCCT-GCGTCGCAGTAG-CTAAAGCTGAAGGCAGAGAA
596 TCTTATTTCCTTGGCGTTTG
128 TCTTATTTCCTTGGCG-TTG
* * * * * *
616 -AGTAGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGCCGTTGCAGTAGAACAGAGT
1 CAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTCATTTCCTTGGCGTTGCAGTGGAACAGATT
* * * * * * * *
680 AAAGCAGAAGGTAACAAATCTTATTTCCCTGACGTCGCAGTAGACTAAAGCTAAAGCCTA-CGAC
66 AAAGCTGAAGGCAGCGAATCTTATTTCCCTG-CGTCGCAGTAG-CTAAAGCTGAAGGC-AGAGAA
**
744 TCTTATTTCCCCGGCGTTG
128 TCTTATTTCCTTGGCGTTG
* * * * *
763 CAGTGGAACAGGTTAAAGCTGAAAGCAGCGAAT-TCCATTTCCTTGGCATTGCAGTGGAATAAAT
1 CAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCT-CATTTCCTTGGCGTTGCAGTGGAACAGAT
* * * * * *
827 TAAAGCTGAATGCAGCAAATCTTATTTCCTTGGCATCGCATTAGGTGAAAGCTGAAGGCAGCA-A
65 TAAAGCTGAAGGCAGCGAATCTTATTTCCCT-GCGTCGCAGTAGCT-AAAGCTGAAGGCAG-AGA
*
891 ATCTCATTTCCTTGGCGTTG
127 ATCTTATTTCCTTGGCGTTG
* * * * * **
911 CAGTTGAACTGATTAAAGTTGAAGGCAGCAAATCTTATTTCGC-TGGCG-T-CA---GAGTAGAT
1 CAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTCATTTC-CTTGGCGTTGCAGTGGAACAGAT
* * * * * *
970 TAAACCTTAAGGCAGTGAATCTTATTTCCTTAGCGTTGCAGTGGAACATATTAAAGCTGAAGGCA
65 TAAAGCTGAAGGCAGCGAATCTTATTTCCCT-GCGTCGCAGT--AGC----TAAAGCTGAAGGCA
* * *
1035 -ATAAATATTATTTCCTTGGCATTG
123 GA-GAATCTTATTTCCTTGGCGTTG
* * * * * * * *
1059 TAGTAGAACAGTTTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGTCATCGCAGT-----AGATT
1 CAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTCATTTCCTTGGCGTTGCAGTGGAACAGATT
* * ** * * * *
1119 CAAGCTGAAGGTAGCGAATCTTATTTCGTTGGCGTTGTAGTGGAACAGATAATAGCTGACGGCAG
66 AAAGCTGAAGGCAGCGAATCTTATTTCCCT-GCGTCGCAGT-----AGCTAA-AGCTGAAGGCAG
* ** * *
1184 CGAATCCCATTTTCTTGGCATTG
124 AGAATCTTATTTCCTTGGCGTTG
* * ** * * * * *
1207 CAGTGGATCAAATTAAAATTGAAGGTAGCAAATCTTATTTCCTTGGCGTCGCA-T----TAGATT
1 CAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTCATTTCCTTGGCGTTGCAGTGGAACAGATT
* * * ** * * * *
1267 AAAGCTGAAGGTAGCAAATCTCATTTCTTTGGTGTTGCCGTGGAACAGATTAAAGCTGAAGGCAG
66 AAAGCTGAAGGCAGCGAATCTTATTTCCCT-GCGTCGCAGT-----AG-CTAAAGCTGAAGGCAG
* * * *
1332 CGAATCTTATTTCCCTAGTG-T-
124 AGAATCTTATTTCCTTGGCGTTG
* * * * *
1353 C---GCAATAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCTTGGCGTTGTAGTGGAACAAATT
1 CAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTCATTTCCTTGGCGTTGCAGTGGAACAGATT
* * * * * * *
1415 AAAGCTGAAGGCAGTGAATCTTATTTTCTTGGTGTCGCAGTAGATTAAAGCTAAAGGCAGCGAAT
66 AAAGCTGAAGGCAGCGAATCTTATTTCCCT-GCGTCGCAGTAG-CTAAAGCTGAAGGCAGAGAAT
* *
1480 CTCATTTCCTTGGCGTTA
129 CTTATTTCCTTGGCGTTG
* * * * * * **
1498 CAGTGGAACAGATTAAAGCTGGAGCCAACAAATCTTATTT-CTCTAGCGTCACAGT-----AGAT
1 CAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTCATTTCCT-TGGCGTTGCAGTGGAACAGAT
*
1557 TAAAGCTGAAGGCAGCGAATCTTATTTCCCTAGCATCGCAGT
65 TAAAGCTGAAGGCAGCGAATCTTATTTCCCT-GCGTCGCAGT
1599 GGGATGGTTT
Statistics
Matches: 1114, Mismatches: 247, Indels: 129
0.75 0.17 0.09
Matches are distributed among these distances:
143 218 0.20
144 5 0.00
145 3 0.00
146 6 0.01
147 20 0.02
148 841 0.75
149 18 0.02
150 2 0.00
151 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (146 bp):
CAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTCATTTCCTTGGCGTTGCAGTGGAACAGATT
AAAGCTGAAGGCAGCGAATCTTATTTCCCTGCGTCGCAGTAGCTAAAGCTGAAGGCAGAGAATCT
TATTTCCTTGGCGTTG
Found at i:880 original size:393 final size:392
Alignment explanation
Indices: 14--1440 Score: 1308
Period size: 393 Copynumber: 3.6 Consensus size: 392
4 GCAAATCTTA
** * * * * * ** *
14 TTCCTTTGGCATCACAGTGGAACAAATTAAAGCTGAAGGCAGCGAATCTCATTTCCCTAACGTCG
1 TTCC-TTGGCATTGCAGTGG-ATAAATTAAAGCTGAAGGTAGCAAATCTTATTTCCTTGGCATCG
* * * * * * ** **
79 TAATAGATTAAAGCTGAAGGCATCGAATCTTATTTCCTAAGCGTTGCAGTGGAACAGATTAAACC
64 CATTAGGTTAAAGCTGAAGGCAGCAAATCTCATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGT
* * ** * * * * * *
144 TGAAGCCAGTGAATCTTATTTCCCTGGCGTCGCAGTAGGTTAAAGCTGAATGCAGCGAATCTCAT
129 TGAAGGCAGCGAATCTTATTTCCCTGGCACCGCAATAGATTAAAGCTAAAGGCAGTGAATCTTAT
* * * * * * *
209 TTTCTTGGCATTGCAGTGGAACAAATTAAGGCTAAAGGCAGTGAATCTTATATCCCTAG-CGTCG
194 TTCCTTGGCGTTGCAGTGGAACAAATTAAAGCTGAAGGCAGTGAATCTTATTTCCCT-GCCATTG
* ** * * * * * *
273 CAGT---A-AG-CTAAAGTTGAAGGCAGA-GAATCTTATTTCCTTGGCGTTGCAGTGGAACATAT
258 CAGTAGAACAGAGTAAAGCAGAAGGCA-ACAAATCTTATTTCCCTGACATCGCAGTAG-AC----
* * ** ** * *
332 TAAAGTTGAAGGC-AGTAAATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAA-AACTGAAGG
317 TAAAGCT-AAAGCTAGCGAATCTTATTTCCCCGGCGTTGCAGTGGAACAGA-TAATAGCTGAAAG
* **
395 TAGCGAA-CTTTAT
380 CAGCGAATC-CCAT
* * * * * *
408 TTCCATGTC-GT-C-GTAG-TAAATTAAAGCTGAAGGTAGCAAATCTTATTTCCTTAGCATTGCA
1 TTCCTTGGCATTGCAGTGGATAAATTAAAGCTGAAGGTAGCAAATCTTATTTCCTTGGCATCGC-
* * * * * *
469 ATGGAACAGGTTAAAGCTGAAGGCGGCGAATCTCATCTCCTTGCCGTTGTAGTGGAACAGATTAA
65 AT----TAGGTTAAAGCTGAAGGCAGCAAATCTCATTTCCTTGGCGTTGCAGTGGAACAGATTAA
* *
534 AGTTGAAGGCAAG-GAATCTTATTTCCCTGGCACCGCAATAGACTAAAGCTAAAGGCGGTGAATC
126 AGTTGAAGGC-AGCGAATCTTATTTCCCTGGCACCGCAATAGATTAAAGCTAAAGGCAGTGAATC
* * *
598 TTATTTCCTTGGCGTTTG-AGTAGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGCC
190 TTATTTCCTTGGCG-TTGCAGTGGAACAAATTAAAGCTGAAGGCAGTGAATCTTATTTCCCTGCC
* * *
662 GTTGCAGTAGAACAGAGTAAAGCAGAAGGTAACAAATCTTATTTCCCTGACGTCGCAGTAGACTA
254 ATTGCAGTAGAACAGAGTAAAGCAGAAGGCAACAAATCTTATTTCCCTGACATCGCAGTAGACTA
* *
727 AAGCTAAAGCCTA-CGACTCTTATTTCCCCGGCGTTGCAGTGGAACAGGTTAA-AGCTGAAAGCA
319 AAGCTAAAG-CTAGCGAATCTTATTTCCCCGGCGTTGCAGTGGAACA-GATAATAGCTGAAAGCA
*
790 GCGAATTCCAT
382 GCGAATCCCAT
* *
801 TTCCTTGGCATTGCAGTGGAATAAATTAAAGCTGAATGCAGCAAATCTTATTTCCTTGGCATCGC
1 TTCCTTGGCATTGCAGTGG-ATAAATTAAAGCTGAAGGTAGCAAATCTTATTTCCTTGGCATCGC
* * *
866 ATTAGGTGAAAGCTGAAGGCAGCAAATCTCATTTCCTTGGCGTTGCAGTTGAACTGATTAAAGTT
65 ATTAGGTTAAAGCTGAAGGCAGCAAATCTCATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGTT
* * * * * * *
931 GAAGGCAGCAAATCTTATTTCGCTGGCGTCAG-AGTAGATTAAACCTTAAGGCAGTGAATCTTAT
130 GAAGGCAGCGAATCTTATTTCCCTGGC-ACCGCAATAGATTAAAGCTAAAGGCAGTGAATCTTAT
* * * * * * * *
995 TTCCTTAGCGTTGCAGTGGAACATATTAAAGCTGAAGGCAATAAATATTATTTCCTTGGCATTGT
194 TTCCTTGGCGTTGCAGTGGAACAAATTAAAGCTGAAGGCAGTGAATCTTATTTCCCTGCCATTGC
** * * * * * *
1060 AGTAGAACAGTTTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGTCATCGCAGTAGATTCAAGCT
259 AGTAGAACAGAGTAAAGCAGAAGGCAACAAATCTTATTTCCCTGACATCGCAGTAGACTAAAGCT
* * *** * **
1125 GAAGGTAGCGAATCTTATTTCGTTGGCGTTGTAGTGGAACAGATAATAGCTGACGGCAGCGAATC
324 AAAGCTAGCGAATCTTATTTCCCCGGCGTTGCAGTGGAACAGATAATAGCTGAAAGCAGCGAATC
1190 CCAT
389 CCAT
* ** *
1194 TTTCTTGGCATTGCAGTGGATCAAATTAAAATTGAAGGTAGCAAATCTTATTTCCTTGGCGTCGC
1 TTCCTTGGCATTGCAGTGGAT-AAATTAAAGCTGAAGGTAGCAAATCTTATTTCCTTGGCATCGC
* * * * * *
1259 ATTAGATTAAAGCTGAAGGTAGCAAATCTCATTTCTTTGGTGTTGCCGTGGAACAGATTAAAGCT
65 ATTAGGTTAAAGCTGAAGGCAGCAAATCTCATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGTT
* *** * *
1324 GAAGGCAGCGAATCTTATTTCCCTAGTGTCGCAATAGATTAAAGCTGAAGGCAGCGAATCTTATT
130 GAAGGCAGCGAATCTTATTTCCCTGGCACCGCAATAGATTAAAGCTAAAGGCAGTGAATCTTATT
*
1389 TCCTTGGCGTTGTAGTGGAACAAATTAAAGCTGAAGGCAGTGAATCTTATTT
195 TCCTTGGCGTTGCAGTGGAACAAATTAAAGCTGAAGGCAGTGAATCTTATTT
1441 TCTTGGTGTC
Statistics
Matches: 843, Mismatches: 160, Indels: 61
0.79 0.15 0.06
Matches are distributed among these distances:
388 35 0.04
389 1 0.00
390 3 0.00
391 1 0.00
392 18 0.02
393 685 0.81
394 14 0.02
395 1 0.00
396 4 0.00
397 7 0.01
398 74 0.09
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (392 bp):
TTCCTTGGCATTGCAGTGGATAAATTAAAGCTGAAGGTAGCAAATCTTATTTCCTTGGCATCGCA
TTAGGTTAAAGCTGAAGGCAGCAAATCTCATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGTTG
AAGGCAGCGAATCTTATTTCCCTGGCACCGCAATAGATTAAAGCTAAAGGCAGTGAATCTTATTT
CCTTGGCGTTGCAGTGGAACAAATTAAAGCTGAAGGCAGTGAATCTTATTTCCCTGCCATTGCAG
TAGAACAGAGTAAAGCAGAAGGCAACAAATCTTATTTCCCTGACATCGCAGTAGACTAAAGCTAA
AGCTAGCGAATCTTATTTCCCCGGCGTTGCAGTGGAACAGATAATAGCTGAAAGCAGCGAATCCC
AT
Found at i:945 original size:245 final size:244
Alignment explanation
Indices: 304--1596 Score: 896
Period size: 245 Copynumber: 5.3 Consensus size: 244
294 AGAGAATCTT
* * * ** * *
304 ATTTCCTTGGCGTTGCAGTGGAACATATTAAAGTTGAAGGCAGTAAATCTTATTTCCTTGGCGTT
1 ATTTCCTTGGCATTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGC-AT
* * * * * * * *
369 GCAGTGGAACAGATTAAAACTGAAGGTAGCGAA-CTTTATTTCCATGTCG-T-C-GTAGTA-A-A
65 -C---GCAATAGATTAAAGCTGAAGGCAGCGAATC-TTATTTCCTTGGCGTTGCAGTGGAACAGA
* * * * * * * *
428 TTAAAGCTGAAGGTAGCAAATCTTATTTCCTTAGCATTGCAATGGAACAGGTTAAAGCTGAAGGC
125 TTAAAGCTGAAGGCAGCAAATCTTATTTCCCTGGCGTCGCAGTAG-AC----TAAAGCTAAAGGC
* * * * * * * *
493 GGCGAATCTCATCTCCTTGCCGTTGTAGTGGAACAGATTAAAGTTGAAGGCAAGGAA-TCTT
185 AGCGAATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGC-AGCAATTC-C
* * * * * * * * *
554 ATTTCCCTGGCA---C--CGCAATAGACTAAAGCTAAAGGCGGTGAATCTTATTTCCTTGGCGTT
1 ATTTCCTTGGCATTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGC---
* * * * *
614 TGAGTAG-AACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGCCGTTGCAGTAGAACAGA
63 --A-TCGCAATAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCTTGGCGTTGCAGTGGAACAGA
* * * * * *
678 GTAAAGCAGAAGGTAACAAATCTTATTTCCCTGACGTCGCAGTAGACTAAAGCTAAAGCCTA-CG
125 TTAAAGCTGAAGGCAGCAAATCTTATTTCCCTGGCGTCGCAGTAGACTAAAGCTAAAGGC-AGCG
* ** * *
742 ACTCTTATTTCCCCGGCGTTGCAGTGGAACAGGTTAAAGCTGAAAGCAGCGAATTCC
189 AATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGC-AATTCC
* * * * *
799 ATTTCCTTGGCATTGCAGTGGAATAAATTAAAGCTGAATGCAGCAAATCTTATTTCCTTGGCATC
1 ATTTCCTTGGCATTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCATC
* * * * * * *
864 GCATTAGGTGAAAGCTGAAGGCAGCAAATCTCATTTCCTTGGCGTTGCAGTTGAACTGATTAAAG
66 GCAATAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAG
* * * * * *
929 TTGAAGGCAGCAAATCTTATTTCGCTGGCGTCAG-AGTAGATTAAACCTTAAGGCAGTGAATCTT
131 CTGAAGGCAGCAAATCTTATTTCCCTGGCGTC-GCAGTAGACTAAAGCTAAAGGCAGCGAATCTT
* * ** *
993 ATTTCCTTAGCGTTGCAGTGGAACATATTAAAGCTGAAGGCAATAAATAT-T
195 ATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGC-AGCAAT-TCC
* * * *
1044 ATTTCCTTGGCATTGTAGTAGAACAGTTTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGTCATC
1 ATTTCCTTGGCATTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCATC
* * * * *
1109 GCAGTAGATTCAAGCTGAAGGTAGCGAATCTTATTTCGTTGGCGTTGTAGTGGAACAGA-TAATA
66 GCAATAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAA-A
* * ** * * * * * ** * * *
1173 GCTGACGGCAGCGAATCCCATTTTCTTGGCATTGCAGTGGATCAAATTAAAATTGAAGGTAGCAA
130 GCTGAAGGCAGCAAATCTTATTTCCCTGGCGTCGCAGTAGA-C----TAAAGCTAAAGGCAGCGA
* * * *
1238 ATCTTATTTCCTTGGCGTCGCA-T----TAGATTAAAGCTGAAGGTAGCAAATCTC
190 ATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCAATTC-C
* ** * * **
1289 ATTTCTTTGGTGTTGCCGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTAGTGTC
1 ATTTCCTTGGCATTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCATC
* *
1354 GCAATAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCTTGGCGTTGTAGTGGAACAAATTAAAG
66 GCAATAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAG
** * * * * *
1419 CTGAAGGCAGTGAATCTTATTTTCTTGGTGTCGCAGTAGATTAAAGCTAAAGGCAGCGAATCTCA
131 CTGAAGGCAGCAAATCTTATTTCCCTGGCGTCGCAGTAGACTAAAGCTAAAGGCAGCGAATCTTA
* * * * * *
1484 TTTCCTTGGCGTTACAGTGGAACAGATTAAAGCTGGAGCCAACAAATCTT
196 TTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCAATTC-C
* * ** *
1534 ATTT-CTCTAGCGTCACAGT-----AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTAGCAT
1 ATTTCCT-TGGCATTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCAT
1593 CGCA
65 CGCA
1597 GTGGGATGGT
Statistics
Matches: 823, Mismatches: 180, Indels: 90
0.75 0.16 0.08
Matches are distributed among these distances:
240 74 0.09
241 1 0.00
243 1 0.00
244 13 0.02
245 596 0.72
246 11 0.01
247 2 0.00
248 6 0.01
249 5 0.01
250 114 0.14
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (244 bp):
ATTTCCTTGGCATTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCATC
GCAATAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAG
CTGAAGGCAGCAAATCTTATTTCCCTGGCGTCGCAGTAGACTAAAGCTAAAGGCAGCGAATCTTA
TTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCAATTCC
Found at i:1891 original size:46 final size:46
Alignment explanation
Indices: 1834--2224 Score: 298
Period size: 46 Copynumber: 8.2 Consensus size: 46
1824 GTAGTGGAAC
* * *
1834 AGATTAAAGCTAAAGGCAGCAAATCTTATTTCCCTGGTGTCGCAGT
1 AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTCGCAGT
* * * * * *
1880 AGATTACAGCTAAAGGCAGCGAATCTT-GTTCCCTTGGTGTTGTAGTGGAAT
1 AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCC-TGGCGTCGCA---G--T
* * *
1931 AGATTAAAGCTGAAGGCAGCAAATCTTATTTTCCTGGCGACGCAGT
1 AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTCGCAGT
* ** * * * * *
1977 AGATTAAAGCTGAAGGCAACGAATCTCCTTTTCTTGGTGTTGTAGT
1 AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTCGCAGT
* * * * * *
2023 GAAACAGATTAATGTTGAGGGCAGCAAATCTTATTTACTTGGCGTCGCAGT
1 -----AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTCGCAGT
* * * * *
2074 AGATTAAAGTTGAAGGCAGCGAATCTCATTTCCTTGGCGTTGTAGTGGAAT
1 AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTCGCA---G--T
* * * *
2125 AGATTAAAGCTAAAGGCAGCGAATCTGATTTCTCTGGCGTTGCAGT
1 AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTCGCAGT
* *
2171 AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTAGCGTCGTAGT
1 AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTCGCAGT
2217 AGATTAAA
1 AGATTAAA
2225 TCAGAAGGAA
Statistics
Matches: 275, Mismatches: 53, Indels: 34
0.76 0.15 0.09
Matches are distributed among these distances:
45 5 0.02
46 157 0.57
48 2 0.01
49 2 0.01
51 105 0.38
52 4 0.01
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.30
Consensus pattern (46 bp):
AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTCGCAGT
Found at i:2594 original size:143 final size:141
Alignment explanation
Indices: 2446--3409 Score: 484
Period size: 143 Copynumber: 6.7 Consensus size: 141
2436 TAAAGCCAAT
* * * * *
2446 AATCTCATTTCTTTAGCGTTGTAGTGGAATAGATTAAAGCTGAAGGCAACAAATCTTATTTCCTT
1 AATCTCATTTCTTTGGCGTTGCAGTGCAATAGATTAAAGCTGAAGGCAGCAAATCTTATTTCCCT
* *
2511 GGCATCGGAGTAGATGAAAGCTGAAGGCATCAAATCTTATTTTCCTAGCGTCACAGTAGATTAAA
66 GGCATCGCAGTAGATTAAAGCTGAAGGCATCAAATCTTA-TTTCCT-GCGTCACAGTAGATTAAA
2576 GCTAAAGGCAGCG
129 GCTAAAGGCAGCG
** * * * * * * *
2589 AATCTCATTTCCCTCGCGTTGCAGTGAAACAGATTCAAGTTGAAGGTAGTAAATCTTATTTCCCT
1 AATCTCATTTCTTTGGCGTTGCAGTGCAATAGATTAAAGCTGAAGGCAGCAAATCTTATTTCCCT
* * * * **
2654 AGCGTCGCAGTAGATTAAAGCTGAAGGCAGT-GAATCTCATTTCCTTGGCGTTGCAGTGGAACAG
66 GGCATCGCAGTAGATTAAAGCTGAAGGCA-TCAAATCTTATTTCC-T-GCGTCACAGT-----AG
* *
2718 ATTAAAGCTGAAGGTAGCG
123 ATTAAAGCTAAAGGCAGCG
* ** * * * * *
2737 AATCTTATTTCCCTGG-GGT-CA---CAGTAGATTAAAGCTGAA---TG--AATCTCATTTCCTT
1 AATCTCATTTCTTTGGCGTTGCAGTGCAATAGATTAAAGCTGAAGGCAGCAAATCTTATTTCCCT
* * * * * * *
2792 GGCGTTGCAGTGGGACAGATTAAAGTTGAAGGTAACGAATCTTATTTCCTGGGCTCGA-AGTAGA
66 GGCATCGCAGT-----AGATTAAAGCTGAAGGCATCAAATCTTATTTCCTGCG-TC-ACAGTAGA
*
2856 TTAAAGC-AGAAGGAAGCG
124 TTAAAGCTA-AAGGCAGCG
* * * * *
2874 AATCTTATTTCTTTGGCGTTGCAGTGGAACAGATTAAATCTGAAGGCAGCGAATCTTATTTCCCT
1 AATCTCATTTCTTTGGCGTTGCAGTGCAATAGATTAAAGCTGAAGGCAGCAAATCTTATTTCCCT
* *** *
2939 GG-AGTCGCAGTAGATTAAAGCTAAAGGC-TGCAAATCTTATTTCCCTGCCGTTGTAGTAAATTA
66 GGCA-TCGCAGTAGATTAAAGCTGAAGGCAT-CAAATCTTATTT-CCTG-CGTCACAGTAGATTA
* *
3002 AAGTTGAAGGCAGCG
127 AAGCTAAAGGCAGCG
* * *
3017 AATCTCATTTCTTTGGCATTGGC-GTCGCAGTAGATTAAAGCTGAAGGCAGCGAATCTTATTTCC
1 AATCTCATTTCTTTGGCGTT-GCAGT-GCAATAGATTAAAGCTGAAGGCAGCAAATCTTATTTCC
* * * * * * * **
3081 CTGGCGTGGCAGTAGATTAAATCAGAAGGACA-CGAGTCTTATTCCCTCAGCGTTGCAGTGGAAC
64 CTGGCATCGCAGTAGATTAAAGCTGAAGG-CATCAAATCTTATTTCCT--GCGTCACAGT-----
* * *
3145 AGATTAAAGTTGAAGCCAGCG
121 AGATTAAAGCTAAAGGCAGCG
* * *** * * * * *
3166 AATTTTATTTCCCCGGCGTCGC--TG---TAGATTAAACCTGAAGGCCGCGAATCTTATTTCCTT
1 AATCTCATTTCTTTGGCGTTGCAGTGCAATAGATTAAAGCTGAAGGCAGCAAATCTTATTTCCCT
** * * * **
3226 TTCGTTGCAGTAGAACAGATTAAAGCTGAA-GCAGT-GAATCTTATTTCCCTGGCGTCGTAGTAG
66 GGCATCGCAGT-----AGATTAAAGCTGAAGGCA-TCAAATCTTATTT-CCT-GCGTCACAGTAG
* * *
3289 ATTAAAACTGAAGGCAGTG
123 ATTAAAGCTAAAGGCAGCG
* * * * * * * *
3308 AATCTTATTTCGATT-GCGTTGTAGTGGAACAGATTAAAGTTGAAGGTAGTAAATCTTATTTCCC
1 AATCTCATTTC-TTTGGCGTTGCAGTGCAATAGATTAAAGCTGAAGGCAGCAAATCTTATTTCCC
* * * * *
3372 TAGCGTCACAGCAGATTAAAGCTGAAGGCAGCAAATCT
65 TGGCATCGCAGTAGATTAAAGCTGAAGGCATCAAATCT
3410 CTTTTCCCTG
Statistics
Matches: 630, Mismatches: 131, Indels: 120
0.72 0.15 0.14
Matches are distributed among these distances:
137 32 0.05
138 23 0.04
139 2 0.00
140 1 0.00
141 2 0.00
142 95 0.15
143 230 0.37
144 80 0.13
145 3 0.00
146 5 0.01
147 75 0.12
148 50 0.08
149 32 0.05
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (141 bp):
AATCTCATTTCTTTGGCGTTGCAGTGCAATAGATTAAAGCTGAAGGCAGCAAATCTTATTTCCCT
GGCATCGCAGTAGATTAAAGCTGAAGGCATCAAATCTTATTTCCTGCGTCACAGTAGATTAAAGC
TAAAGGCAGCG
Found at i:3004 original size:188 final size:190
Alignment explanation
Indices: 2475--3093 Score: 672
Period size: 188 Copynumber: 3.2 Consensus size: 190
2465 TGTAGTGGAA
* * * ** *
2475 TAGATTAAAGCTGAAGGCAACAAATCTTATTTCCTTGGC-AT-C---GGAGTAGATGAAAGCTGA
1 TAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGA
* * * * * *
2535 AGGCATCAAATCTTATTTTCCTAGCGTCACAGTAGATTAAAGCTAAAGGCAGCGAATCTCATTTC
66 AGGCAGCGAATCTTATTTCCCTGGAGTCACAGTAGATTAAAGCTAAAGGCTGC-AATCTCATTTC
* ** *
2600 CCT-CGCGTTGCAGTGAAACAGATTCAAGTTGAAGGTAGTAAATCTTATTTCCCTAGCGTCGCAG
130 CCTGC-CGTTGCAGTG--ACAGATTAAAGTTGAAGGTAGCGAATCTTATTT-CCTGGCGTCGCAG
* *
2664 TAGATTAAAGCTGAAGGCAGTGAATCTCATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGA
1 TAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGA
* * *
2729 AGGTAGCGAATCTTATTTCCCTGGGGTCACAGTAGATTAAAGCTGAA---TG-AATCTCATTTCC
66 AGGCAGCGAATCTTATTTCCCTGGAGTCACAGTAGATTAAAGCTAAAGGCTGCAATCTCATTTCC
* * * *
2790 TTGGCGTTGCAGTGGGACAGATTAAAGTTGAAGGTAACGAATCTTATTTCCTGG-GCTCGAAG
131 CTGCCGTTGCAGT--GACAGATTAAAGTTGAAGGTAGCGAATCTTATTTCCTGGCG-TCGCAG
* * * *
2852 TAGATTAAAGCAGAAGGAAGCGAATCTTATTTCTTTGGCGTTGCAGTGGAACAGATTAAATCTGA
1 TAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGA
* *
2917 AGGCAGCGAATCTTATTTCCCTGGAGTCGCAGTAGATTAAAGCTAAAGGCTGCAAATCTTATTTC
66 AGGCAGCGAATCTTATTTCCCTGGAGTCACAGTAGATTAAAGCTAAAGGCTGC-AATCTCATTTC
* * *
2982 CCTGCCGTTGTAGT-A-A-ATTAAAGTTGAAGGCAGCGAATCTCATTTCTTTGGCATTGGCGTCG
130 CCTGCCGTTGCAGTGACAGATTAAAGTTGAAGGTAGCGAATCTTATTTC-----C--TGGCGTCG
3044 CAG
188 CAG
* *
3047 TAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTGGCAGT
1 TAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCTTGGCGTTGCAGT
3094 AGATTAAATC
Statistics
Matches: 361, Mismatches: 47, Indels: 38
0.81 0.11 0.09
Matches are distributed among these distances:
187 1 0.00
188 138 0.38
189 87 0.24
190 2 0.01
191 5 0.01
193 22 0.06
194 55 0.15
195 50 0.14
196 1 0.00
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (190 bp):
TAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGA
AGGCAGCGAATCTTATTTCCCTGGAGTCACAGTAGATTAAAGCTAAAGGCTGCAATCTCATTTCC
CTGCCGTTGCAGTGACAGATTAAAGTTGAAGGTAGCGAATCTTATTTCCTGGCGTCGCAG
Found at i:3079 original size:52 final size:46
Alignment explanation
Indices: 2475--3857 Score: 791
Period size: 46 Copynumber: 28.8 Consensus size: 46
2465 TGTAGTGGAA
* * * * *
2475 TAGATTAAAGCTGAAGGCAACAAATCTTATTTCCTTGGCATCGGAG
1 TAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTCGCAG
* * * * * *
2521 TAGATGAAAGCTGAAGGCATCAAATCTTATTTTCCTAGCGTCACAG
1 TAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTCGCAG
* * * *
2567 TAGATTAAAGCTAAAGGCAGCGAATCTCATTTCCCTCGCGTTGCAG
1 TAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTCGCAG
* * * ** *
2613 TGAAACAGATTCAAGTTGAAGGTAGTAAATCTTATTTCCCTAGCGTCGCAG
1 T-----AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTCGCAG
* * * *
2664 TAGATTAAAGCTGAAGGCAGTGAATCTCATTTCCTTGGCGTTGCAG
1 TAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTCGCAG
* * *
2710 TGGAACAGATTAAAGCTGAAGGTAGCGAATCTTATTTCCCTGGGGTCACAG
1 T-----AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTCGCAG
* * * *
2761 TAGATTAAAGCTG-A---A-TGAATCTCATTTCCTTGGCGTTGCAG
1 TAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTCGCAG
* * * *
2802 TGGGACAGATTAAAGTTGAAGGTAACGAATCTTATTT-CCTGG-GCTCGAAG
1 T-----AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCG-TCGCAG
* * ** *
2852 TAGATTAAAGCAGAAGGAAGCGAATCTTATTTCTTTGGCGTTGCAG
1 TAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTCGCAG
* *
2898 TGGAACAGATTAAATCTGAAGGCAGCGAATCTTATTTCCCTGGAGTCGCAG
1 T-----AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTCGCAG
* * * * * *
2949 TAGATTAAAGCTAAAGGCTGCAAATCTTATTTCCCTGCCGTTGTAG
1 TAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTCGCAG
* * * *
2995 TAAATTAAAGTTGAAGGCAGCGAATCTCATTTCTTTGGCATTGGCGTCGCAG
1 TAGATTAAAGCTGAAGGCAGCGAATCTTATTTC-----C-CTGGCGTCGCAG
*
3047 TAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTGGCAG
1 TAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTCGCAG
* * * * *
3093 TAGATTAAATCAGAAGGACA-CGAGTCTTA-TTCCCTCAGCGTTGCAG
1 TAGATTAAAGCTGAAGG-CAGCGAATCTTATTTCCCT-GGCGTCGCAG
* * * * *
3139 TGGAACAGATTAAAGTTGAAGCCAGCGAATTTTATTTCCCCGGCGTCGCTG
1 T-----AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTCGCAG
* * * ** *
3190 TAGATTAAACCTGAAGGCCGCGAATCTTATTTCCTTTTCGTTGCAG
1 TAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTCGCAG
* *
3236 TAGAACAGATTAAAGCTGAA-GCAGTGAATCTTATTTCCCTGGCGTCGTAG
1 T-----AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTCGCAG
* * ** * * *
3286 TAGATTAAAACTGAAGGCAGTGAATCTTATTTCGATTGCGTTGTAG
1 TAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTCGCAG
* * ** * *
3332 TGGAACAGATTAAAGTTGAAGGTAGTAAATCTTATTTCCCTAGCGTCACAG
1 T-----AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTCGCAG
* * * *
3383 CAGATTAAAGCTGAAGGCAGCAAATCTCT-TTTCCCTGGCATTGCAG
1 TAGATTAAAGCTGAAGGCAGCGAATCT-TATTTCCCTGGCGTCGCAG
* * ** * *
3429 TGGAACAGATTAAAGCTGAATGTAGTAAATCTTATTTCCCTGGCATCGTAG
1 T-----AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTCGCAG
* * * * * *
3480 TAGATTAAAGTTGAAGGCGGTGAATCTTATTT-CCTCAGCGTTGTAG
1 TAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCT-GGCGTCGCAG
* * * *
3526 TGGAACAGATTAAAGCT-AATGGTAGCGAATCTTATTTACCTGGAGTCGTAG
1 T-----AGATTAAAGCTGAA-GGCAGCGAATCTTATTTCCCTGGCGTCGCAG
* * *
3577 TAGATTAAA-CTTGAAGGCAGCGAATCTCATTTCCCTGGTGTTGCAG
1 TAGATTAAAGC-TGAAGGCAGCGAATCTTATTTCCCTGGCGTCGCAG
* * * * *
3623 TAGATTAAAGCTGAAGGAAGCAAATCTTA-TTCCTTTGGCATCACAG
1 TAGATTAAAGCTGAAGGCAGCGAATCTTATTTCC-CTGGCGTCGCAG
* * * * * *
3669 TGGAACAAATTAAAGCTGAAGGCAGCGAATCTCATTTTCTTGGCATTGCAG
1 T-----AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTCGCAG
* * * * *
3720 TGGAACAGATTAACGCTAAAGGCAGTGAATCTTATATCCCTAGCGTCGCAG
1 T-----AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTCGCAG
* * * * *
3771 TA-AGCTAAAGTTGAAGGCAGAGAATCTTATTTCCTTGGCGTTGCAG
1 TAGA-TTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTCGCAG
* * *
3817 TGGAACATATTAAAGTTGAAGGCAGCGAATCTCATTTCCCT
1 T-----AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCT
3858 AACGTCGTAN
Statistics
Matches: 1037, Mismatches: 214, Indels: 167
0.73 0.15 0.12
Matches are distributed among these distances:
41 21 0.02
42 1 0.00
45 56 0.05
46 484 0.47
47 9 0.01
49 1 0.00
50 39 0.04
51 376 0.36
52 50 0.05
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.29
Consensus pattern (46 bp):
TAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGGCGTCGCAG
Found at i:3858 original size:97 final size:97
Alignment explanation
Indices: 2446--6093 Score: 906
Period size: 97 Copynumber: 37.5 Consensus size: 97
2436 TAAAGCCAAT
* * * * * * * *
2446 AATCTCATTTCTTTAGCGTTGTAGTGGAATAGATTAAAGCTGAAGGCAACAAATCTTATTTCCTT
1 AATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCT
* * * * * *
2511 GGCATCGGAGTAGATGAAAGCTGAAGGCATCA
66 GGCGTCGCAGTAGATTAAAGTTGAAGGCAGCG
* ** * *
2543 AATCTTATTTTCC-TAGCGTCACAGT-----AGATTAAAGCTAAAGGCAGCGAATCTCATTTCCC
1 AATCTTA-TTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCC
* * * * **
2602 TCGCGTTGCAGTGAAACAGATTCAAGTTGAAGGTAGTA
65 TGGCGTCGCAGT-----AGATTAAAGTTGAAGGCAGCG
* * * * * *
2640 AATCTTATTTCCCTAGCGTCGCAGT-----AGATTAAAGCTGAAGGCAGTGAATCTCATTTCCTT
1 AATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCT
* * *
2700 GGCGTTGCAGTGGAACAGATTAAAGCTGAAGGTAGCG
66 GGCGTCGCAGT-----AGATTAAAGTTGAAGGCAGCG
* * ** * * *
2737 AATCTTATTTCCCTGGGGTCACAGT-----AGATTAAAGCTG-A---A-TGAATCTCATTTCCTT
1 AATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCT
* * *
2792 GGCGTTGCAGTGGGACAGATTAAAGTTGAAGGTAACG
66 GGCGTCGCAGT-----AGATTAAAGTTGAAGGCAGCG
* * * * * **
2829 AATCTTATTTCCTGGGC-TCGAAGT-----AGATTAAAGCAGAAGGAAGCGAATCTTATTTCTTT
1 AATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCT
*
2888 GGCGTTGCAGTGGAACAGATTAAA-TCTGAAGGCAGCG
66 GGCGTCGCAGT-----AGATTAAAGT-TGAAGGCAGCG
* * * * * *
2925 AATCTTATTTCCCTGGAGTCGCAGT-----AGATTAAAGCTAAAGGCTGCAAATCTTATTTCCCT
1 AATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCT
* * * *
2985 GCCGTTGTAGTAAATTAAAGTTGAAGGCAGCG
66 GGCGTCGCAGTAGATTAAAGTTGAAGGCAGCG
* * * * **
3017 AATCTCATTTCTTTGGCATTGGC-GTCGCAGTAGATTAAAGCTGAAGGCAGCGAATCTTATTTCC
1 AATCTTATTTCCTTGGCGTT-GCAGT-GGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCC
* *
3081 CTGGCGTGGCAGTAGATTAAA-TCAGAAGGACA-CG
64 CTGGCGTCGCAGTAGATTAAAGT-TGAAGG-CAGCG
* * ** * * * *
3115 AGTCTTATTCCCTCAGCGTTGCAGTGGAACAGATTAAAGTTGAAGCCAGCGAATTTTATTTCCCC
1 AATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCT
* ** *
3180 GGCGTCGCTGTAGATTAAACCTGAAGGCCGCG
66 GGCGTCGCAGTAGATTAAAGTTGAAGGCAGCG
** * *
3212 AATCTTATTTCCTTTTCGTTGCAGTAGAACAGATTAAAGCTGAA-GCAGTGAATCTTATTTCCCT
1 AATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCT
* ** *
3276 GGCGTCGTAGTAGATTAAAACTGAAGGCAGTG
66 GGCGTCGCAGTAGATTAAAGTTGAAGGCAGCG
* * * * **
3308 AATCTTATTTCGATT-GCGTTGTAGTGGAACAGATTAAAGTTGAAGGTAGTAAATCTTATTTCCC
1 AATCTTATTTC-CTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCC
* * * * *
3372 TAGCGTCACAGCAGATTAAAGCTGAAGGCAGCA
65 TGGCGTCGCAGTAGATTAAAGTTGAAGGCAGCG
* * * * **
3405 AATCTCT-TTTCCCTGGCATTGCAGTGGAACAGATTAAAGCTGAATGTAGTAAATCTTATTTCCC
1 AATCT-TATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCC
* * * *
3469 TGGCATCGTAGTAGATTAAAGTTGAAGGCGGTG
65 TGGCGTCGCAGTAGATTAAAGTTGAAGGCAGCG
** * * *
3502 AATCTTATTTCCTCAGCGTTGTAGTGGAACAGATTAAAGCT-AATGGTAGCGAATCTTATTTACC
1 AATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAA-GGCAGCGAATCTTATTTCCC
* * *
3566 TGGAGTCGTAGTAGATTAAACTTGAAGGCAGCG
65 TGGCGTCGCAGTAGATTAAAGTTGAAGGCAGCG
* * * * * *
3599 AATCTCATTTCCCTGGTGTTGCAGT-----AGATTAAAGCTGAAGGAAGCAAATCTTA-TTCCTT
1 AATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCC-C
* * * *
3658 TGGCATCACAGTGGAACAAATTAAAGCTGAAGGCAGCG
65 TGGCGTCGCAGT-----AGATTAAAGTTGAAGGCAGCG
* * * * * * *
3696 AATCTCATTTTCTTGGCATTGCAGTGGAACAGATTAACGCTAAAGGCAGTGAATCTTATATCCCT
1 AATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCT
* * *
3761 AGCGTCGCAGTA-AGCTAAAGTTGAAGGCAGAG
66 GGCGTCGCAGTAGA-TTAAAGTTGAAGGCAGCG
* * *
3793 AATCTTATTTCCTTGGCGTTGCAGTGGAACATATTAAAGTTGAAGGCAGCGAATCTCATTTCCCT
1 AATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCT
** * **********************
3858 AACGTCGTA-NNNNNNNNNNNNNNNNNNNNNN
66 GGCGTCGCAGTAGATTAAAGTTGAAGGCAGCG
*****************************************************************
3889 NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
1 AATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCT
************* ** *
3954 NNNNNNNNNNNNNATTAAACCTGAA-GCAGTG
66 GGCGTCGCAGTAGATTAAAGTTGAAGGCAGCG
* * * * * * *
3985 AATCTTATTTCCCTGGCGTCGCAGT-----AGGTTAAAGCTGAATGCAGCGAATCTCATTTTCTT
1 AATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCT
* * * * * *
4045 GGCATTGCAGTGGAACAGATTAACGCTAAAGGCAGTG
66 GGCGTCGCAGT-----AGATTAAAGTTGAAGGCAGCG
* * * * * * * *
4082 AATCTTATATCCCTAGCGTCGCAGT---A-AG-CTAAAGTTGAAGGCAGAGAATCTTATTTCCTT
1 AATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCT
* * **
4142 GGCGTTGCAGTGGAACATATTAAAGTTGAAGGCAGTA
66 GGCGTCGCAGT-----AGATTAAAGTTGAAGGCAGCG
* * *
4179 AATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAACTGAAGGTAGCGAA-CTTTATTTCCA
1 AATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATC-TTATTTCCC
* * * * *
4243 TGTCGTCGCAGTAAATTAAAGCTGAAGGTAGCA
65 TGGCGTCGCAGTAGATTAAAGTTGAAGGCAGCG
* * * * * * * *
4276 AATCTTATTTCCTTAGCATTGCAATGGAACAGGTTAAAGCTGAAGGCGGCGAATCTCATCTCCTT
1 AATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCT
* * * *
4341 GCCGTTGTAGTGGAACAGATTAAAGCTGAAGGCAAG-G
66 GGCGTCGCAGT-----AGATTAAAGTTGAAGGC-AGCG
* ** * * * * * * * *
4378 AATCTTATTTCC----C-TGGCACCGCAATAGACTAAAGGTAAAGGC-GATGAATCTTACTTCCT
1 AATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAG-CGAATCTTATTTCCC
* * *
4437 TGGCGTTTCAGTAGAACAGATTAAAGCTGAAGGCAGCG
65 TGGCG--TC-GCAG--TAGATTAAAGTTGAAGGCAGCG
* * * * * * * *
4475 AATCTTATTTCCCTGCCGTTGCAGTAGAACAGAGTAAAGCAGAAGGTAACAAATCTTATTTCCCT
1 AATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCT
* * * * *
4540 GACGTCGCAGTAGACTAAAGCTAAAGCCTA-CG
66 GGCGTCGCAGTAGATTAAAGTTGAAGGC-AGCG
* ** * * * *
4572 ACTCTTATTTCCCCGGCGTTGCAGTGGAACAGGTTAAAGCTGAAAGCAGCGAAT-TCCATTTCCT
1 AATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCT-TATTTCCC
* * * * * *
4636 TGGCATTGCAGTGGAATAAATTAAAGCTGAATGCAGCA
65 TGGCGTCGCA---G--TAGATTAAAGTTGAAGGCAGCG
* * * * * * *
4674 AATCTTATTTCCTTGGCATCGCA-T----TAGGTGAAAGCTGAAGGCAGCAAATCTCATTT-CCT
1 AATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCT
* *
4733 GGCGTTGCAGTTGAATTGATTAAAGTTGAAGGCAGCA
66 GGCGTCGCAG-T--A--GATTAAAGTTGAAGGCAGCG
** * * * *
4770 AATCTTATTTCGC-TGGCG-T-CA---GAGTAGATTAAACCTTAAGGCAGTGAATCTTATTTCCT
1 AATCTTATTTC-CTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCC
* * * * ***
4829 TAGCGTTGCAGTGGAACATATTAAAGCTGAAGGCAATA
65 TGGCGTCGCAGT-----AGATTAAAGTTGAAGGCAGCG
* * * * * * * *
4867 AATATTATTTCCTTGGCATTGTAGTAGAACAGTTTAAAGTTGAAGGCAGCAAATCTTATTTCGCT
1 AATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCT
* *
4932 GGCGTCAG-AGTAGATTAAACCTT-AAGGCAGTG
66 GGCGTC-GCAGTAGATTAAA-GTTGAAGGCAGCG
* * *** *
4964 AATCTTATTTCCTTAGCGTTGCAGTGGAACATATTAAAGCTGAAGGCAATAAATCTTATTTCCTT
1 AATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCT
* * * * *
5029 GACATTGTAGTAGAACAGATTAAAGCTGAAGGCAGCG
66 GGC---GTCGCAG--TAGATTAAAGTTGAAGGCAGCG
* * * * * * * * **
5066 AATCTTATTTCCCTGTCATCGCAGT-----ATATTCAAGCTGAAGGTAGCGAATCTTTTTTCGTT
1 AATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCT
* * * *
5126 GGCGTTGCAGTGGAACAGATTATAGCTGACGGCAGCG
66 GGCGTCGCAGT-----AGATTAAAGTTGAAGGCAGCG
** * * * * ** *
5163 AATCCCATTTTCTTGGCATTGCAGTGGATCAAATTAAAATTGAAGGCAGCAAATCTTATTTCCCT
1 AATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCT
** * * * * * *
5228 AACATCGCAGTAGACTAAAGCTAAAGCCAACG
66 GGCGTCGCAGTAGATTAAAGTTGAAGGCAGCG
* ** * * * * *
5260 ACTCTTATTTCCCCGGCATTGCAGTGGAATAGATTAAAGCTGAAAGCAGCGAAT-TCCATTTCCT
1 AATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCT-TATTTCCC
* * * * *
5324 TGGCATTGCAG-AGGAACAAATTAAAGCTGAAGGGAGCA
65 TGGCGTCGCAGTA-G-----ATTAAAGTTGAAGGCAGCG
* * * * * * *
5362 AATCTTATTTCCTTGGCATCGCA-T----TAGATGAAAGCTGAAGGCAGCAAATCTCATTTCCTT
1 AATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCT
* * * * *
5422 GGCATTGCAGTTGAACTGATTAAAGTTGAAGACAACA
66 GGCGTCGCAG-T--A--GATTAAAGTTGAAGGCAGCG
* * ** * * * *
5459 AATCTTATTTCGTTGCCG-T-CA---GAGTAGATTAAACCTTAAGGCAGTGAATCTTATTTCCTT
1 AATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCT
* * * * ***
5519 AGCGTTGCAGTGGAACATATTAAAGCTGAAGGCAATA
66 GGCGTCGCAGT-----AGATTAAAGTTGAAGGCAGCG
* * * * *
5556 AATCTTATTTCCTTGGCGTTGCAGTTGAACTGATTAAAGTTGAAGGCAGCAAATCTTATTTCACT
1 AATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCT
* *
5621 GGCGTCAG-AGTAGATTAAACCTT-AAGGCAGTG
66 GGCGTC-GCAGTAGATTAAA-GTTGAAGGCAGCG
* * *** *
5653 AATCTTATTTCCTTAGCGTTGCAGTGGAACATATTAAAGCTGAAGGCAATAAATCTTATTTCCTT
1 AATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCT
* * * * *
5718 GACATTGTAGTAGAACAGATTAAAGCTGAAGGCAGCG
66 GGC---GTCGCAG--TAGATTAAAGTTGAAGGCAGCG
* * * * * * * * **
5755 AATCTTATTTCCCTGTCATCGCAGT-----ATATTCAAGCTGAAGGTAGCGAATCTTTTTTCGTT
1 AATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCT
* * * *
5815 GGCGTTGCAGTGGAACAGATTATAGCTGACGGCAGCG
66 GGCGTCGCAGT-----AGATTAAAGTTGAAGGCAGCG
** * * * * ** * *
5852 AATCCCATTTTCTTGGCATTGCAGTGGATCAAATTAAAATTGAAGGCAGCAAATCTTATTTCCTT
1 AATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCT
* * * * * *
5917 GGCATTGCATTAGATTAAAGCTGAAGGTAGCA
66 GGCGTCGCAGTAGATTAAAGTTGAAGGCAGCG
* * *
5949 AATCTCATTTCTTTGGTGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCT
1 AATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCT
* * * *
6014 GTCGTCGCAGTTGATTAAAGTTGAAGGCAACA
66 GGCGTCGCAGTAGATTAAAGTTGAAGGCAGCG
* * * * *
6046 AATTTTATTTCCTTGGAGTTGTAGTAGAACAGATTCAAGCAT-AAGGCA
1 AATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGC-TGAAGGCA
6094 CCAAATC
Statistics
Matches: 2619, Mismatches: 760, Indels: 344
0.70 0.20 0.09
Matches are distributed among these distances:
91 19 0.01
92 168 0.06
93 7 0.00
94 13 0.00
95 4 0.00
96 235 0.09
97 1638 0.63
98 86 0.03
99 13 0.00
100 16 0.01
101 10 0.00
102 403 0.15
103 7 0.00
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.29
Consensus pattern (97 bp):
AATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCT
GGCGTCGCAGTAGATTAAAGTTGAAGGCAGCG
Found at i:4055 original size:46 final size:45
Alignment explanation
Indices: 3968--4055 Score: 104
Period size: 46 Copynumber: 1.9 Consensus size: 45
3958 NNNNNNNNNA
* * *
3968 TTAAACCTGAAGCAGTGAATCTTATTTCCCTGGCGTCGCAGTAGG
1 TTAAACCTGAAGCAGCGAATCTCATTTCCCTGGCATCGCAGTAGG
* * * *
4013 TTAAAGCTGAATGCAGCGAATCTCATTTTCTTGGCATTGCAGT
1 TTAAACCTGAA-GCAGCGAATCTCATTTCCCTGGCATCGCAGT
4056 GGAACAGATT
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
45 10 0.29
46 25 0.71
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (45 bp):
TTAAACCTGAAGCAGCGAATCTCATTTCCCTGGCATCGCAGTAGG
Found at i:4152 original size:46 final size:47
Alignment explanation
Indices: 3969--6011 Score: 360
Period size: 51 Copynumber: 41.6 Consensus size: 47
3959 NNNNNNNNAT
* * * * * *
3969 TAAACCTGAA-GCAGTGAATCTTATTTCCCTGGCGTCGCAGT-AGGT
1 TAAAGCTGAAGGCAGAGAATCTTATTTCCTTGGCGTTGCAGTGAAGC
* * * * * *
4014 TAAAGCTGAATGCAGCGAATCTCATTTTCTTGGCATTGCAGTGGAACAGAT
1 TAAAGCTGAAGGCAGAGAATCTTATTTCCTTGGCGTTGCAGT-G-A-AG-C
* * * * * * *
4065 TAACGCTAAAGGCAGTGAATCTTATATCCCTAGCGTCGCAGT-AAGC
1 TAAAGCTGAAGGCAGAGAATCTTATTTCCTTGGCGTTGCAGTGAAGC
*
4111 TAAAGTTGAAGGCAGAGAATCTTATTTCCTTGGCGTTGCAGTGGAA-C
1 TAAAGCTGAAGGCAGAGAATCTTATTTCCTTGGCGTTGCAGT-GAAGC
* *
4158 ATATTAAAGTTGAAGGCAGTA-AATCTTATTTCCTTGGCGTTGCAGTGGAACAGAT
1 ----TAAAGCTGAAGGCAG-AGAATCTTATTTCCTTGGCGTTGCAGT-G-A-AG-C
* * * * * * **
4213 TAAAACTGAAGGTAGCGAA-CTTTATTTCCATGTCGTCGCAGT-AAAT
1 TAAAGCTGAAGGCAGAGAATC-TTATTTCCTTGGCGTTGCAGTGAAGC
* * * * *
4259 TAAAGCTGAAGGTAGCA-AATCTTATTTCCTTAGCATTGCAATGGAACAGGT
1 TAAAGCTGAAGGCAG-AGAATCTTATTTCCTTGGCGTTGCAGT-G-A-A-GC
* * * * * * *
4310 TAAAGCTGAAGGCGGCGAATCTCATCTCCTTGCCGTTGTAGTGGAACAGAT
1 TAAAGCTGAAGGCAGAGAATCTTATTTCCTTGGCGTTGCAGT-G-A-AG-C
* *** *
4361 TAAAGCTGAAGGCA-AGGAATCTTATTTCCCTGGCACCGCAAT--AGAC
1 TAAAGCTGAAGGCAGA-GAATCTTATTTCCTTGGCGTTGCAGTGAAG-C
* * * * *
4407 TAAAGGTAAAGGC-GATGAATCTTACTTCCTTGGCGTTTCAGTAGAACAGAT
1 TAAAGCTGAAGGCAGA-GAATCTTATTTCCTTGGCGTTGCAGT-G-A-AG-C
* * * *
4458 TAAAGCTGAAGGCAGCGAATCTTATTTCCCTGCCGTTGCAGTAGAACAGAG
1 TAAAGCTGAAGGCAGAGAATCTTATTTCCTTGGCGTTGCAGT-G-A-AG-C
* * * * * *
4509 TAAAGCAGAAGGTA-ACAAATCTTATTTCCCTGACGTCGCAGT--AGAC
1 TAAAGCTGAAGGCAGA-GAATCTTATTTCCTTGGCGTTGCAGTGAAG-C
* * * * ** *
4555 TAAAGCTAAAGCCTA-CGACTCTTATTTCCCCGGCGTTGCAGTGGAACAGGT
1 TAAAGCTGAAGGC-AGAGAATCTTATTTCCTTGGCGTTGCAGT-G-A-A-GC
* * * * **
4606 TAAAGCTGAAAGCAGCGAAT-TCCATTTCCTTGGCATTGCAGTGGAATAAAT
1 TAAAGCTGAAGGCAGAGAATCT-TATTTCCTTGGCGTTGCAGT-G---AAGC
* * * * *
4657 TAAAGCTGAATGCAGCA-AATCTTATTTCCTTGGCATCGCA-T-TAGG
1 TAAAGCTGAAGGCAG-AGAATCTTATTTCCTTGGCGTTGCAGTGAAGC
* *
4702 TGAAAGCTGAAGGCAGCA-AATCTCATTTCC-TGGCGTTGCAGTTGAATTGAT
1 T-AAAGCTGAAGGCAG-AGAATCTTATTTCCTTGGCGTTGCAG-TGAA--G-C
* * * *
4753 TAAAGTTGAAGGCAGCA-AATCTTATTTCGC-TGGCG-T-CAGAGTAGAT
1 TAAAGCTGAAGGCAG-AGAATCTTATTTC-CTTGGCGTTGCAGTGAAG-C
* * * *
4799 TAAACCTTAAGGCAGTGAATCTTATTTCCTTAGCGTTGCAGTGGAA-C
1 TAAAGCTGAAGGCAGAGAATCTTATTTCCTTGGCGTTGCAGT-GAAGC
* * * * *
4846 ATATTAAAGCTGAAGGCA-ATAAATATTATTTCCTTGGCATTGTAGTAGAACAGTT
1 ----TAAAGCTGAAGGCAGA-GAATCTTATTTCCTTGGCGTTGCAGT-G-A-AG-C
* * * *
4901 TAAAGTTGAAGGCAGCA-AATCTTATTTCGC-TGGCG-T-CAGAGTAGAT
1 TAAAGCTGAAGGCAG-AGAATCTTATTTC-CTTGGCGTTGCAGTGAAG-C
* * * *
4947 TAAACCTTAAGGCAGTGAATCTTATTTCCTTAGCGTTGCAGTGGAA-C
1 TAAAGCTGAAGGCAGAGAATCTTATTTCCTTGGCGTTGCAGT-GAAGC
* * * * *
4994 ATATTAAAGCTGAAGGCA-ATAAATCTTATTTCCTTGACATTGTAGTAGAACAGAT
1 ----TAAAGCTGAAGGCAGA-GAATCTTATTTCCTTGGCGTTGCAGT-G-A-AG-C
* * * * * *
5049 TAAAGCTGAAGGCAGCGAATCTTATTTCCCTGTCATCGCAGT-ATA-T
1 TAAAGCTGAAGGCAGAGAATCTTATTTCCTTGGCGTTGCAGTGA-AGC
* * * * * *
5095 TCAAGCTGAAGGTAGCGAATCTTTTTTCGTTGGCGTTGCAGTGGAACAGAT
1 TAAAGCTGAAGGCAGAGAATCTTATTTCCTTGGCGTTGCAGT-G-A-AG-C
* * * ** * * **
5146 TATAGCTGACGGCAGCGAATCCCATTTTCTTGGCATTGCAGTGGATCAAAT
1 TAAAGCTGAAGGCAGAGAATCTTATTTCCTTGGCGTTGCAGT-G---AAGC
** * ** * *
5197 TAAAATTGAAGGCAGCA-AATCTTATTTCCCTAACATCGCAGT--AGAC
1 TAAAGCTGAAGGCAG-AGAATCTTATTTCCTTGGCGTTGCAGTGAAG-C
* * * ** * *
5243 TAAAGCTAAAGCCA-ACGACTCTTATTTCCCCGGCATTGCAGTGGAATAGAT
1 TAAAGCTGAAGGCAGA-GAATCTTATTTCCTTGGCGTTGCAGT-G-A-AG-C
* * * * *
5294 TAAAGCTGAAAGCAGCGAAT-TCCATTTCCTTGGCATTGCAGAGGAA-C
1 TAAAGCTGAAGGCAGAGAATCT-TATTTCCTTGGCGTTGCAG-TGAAGC
* * * * *
5341 AAATTAAAGCTGAAGGGAGCA-AATCTTATTTCCTTGGCATCGCA-T-TAGA
1 ----TAAAGCTGAAGGCAG-AGAATCTTATTTCCTTGGCGTTGCAGTGAAGC
* * *
5390 TGAAAGCTGAAGGCAGCA-AATCTCATTTCCTTGGCATTGCAGTTGAACTGAT
1 T-AAAGCTGAAGGCAG-AGAATCTTATTTCCTTGGCGTTGCAG-TGAA--G-C
* * * * * * * *
5442 TAAAGTTGAAGACA-ACAAATCTTATTTCGTTGCCG-T-CAGAGTAGAT
1 TAAAGCTGAAGGCAGA-GAATCTTATTTCCTTGGCGTTGCAGTGAAG-C
* * * *
5488 TAAACCTTAAGGCAGTGAATCTTATTTCCTTAGCGTTGCAGTGGAA-C
1 TAAAGCTGAAGGCAGAGAATCTTATTTCCTTGGCGTTGCAGT-GAAGC
* *
5535 ATATTAAAGCTGAAGGCA-ATAAATCTTATTTCCTTGGCGTTGCAGTTGAACTGAT
1 ----TAAAGCTGAAGGCAGA-GAATCTTATTTCCTTGGCGTTGCAG-TGAA--G-C
* * * *
5590 TAAAGTTGAAGGCAGCA-AATCTTATTTCAC-TGGCG-T-CAGAGTAGAT
1 TAAAGCTGAAGGCAG-AGAATCTTATTTC-CTTGGCGTTGCAGTGAAG-C
* * * *
5636 TAAACCTTAAGGCAGTGAATCTTATTTCCTTAGCGTTGCAGTGGAA-C
1 TAAAGCTGAAGGCAGAGAATCTTATTTCCTTGGCGTTGCAGT-GAAGC
* * * * *
5683 ATATTAAAGCTGAAGGCA-ATAAATCTTATTTCCTTGACATTGTAGTAGAACAGAT
1 ----TAAAGCTGAAGGCAGA-GAATCTTATTTCCTTGGCGTTGCAGT-G-A-AG-C
* * * * * *
5738 TAAAGCTGAAGGCAGCGAATCTTATTTCCCTGTCATCGCAGT-ATA-T
1 TAAAGCTGAAGGCAGAGAATCTTATTTCCTTGGCGTTGCAGTGA-AGC
* * * * * *
5784 TCAAGCTGAAGGTAGCGAATCTTTTTTCGTTGGCGTTGCAGTGGAACAGAT
1 TAAAGCTGAAGGCAGAGAATCTTATTTCCTTGGCGTTGCAGT-G-A-AG-C
* * * ** * * **
5835 TATAGCTGACGGCAGCGAATCCCATTTTCTTGGCATTGCAGTGGATCAAAT
1 TAAAGCTGAAGGCAGAGAATCTTATTTCCTTGGCGTTGCAGT-G---AAGC
** * * *
5886 TAAAATTGAAGGCAGCA-AATCTTATTTCCTTGGCATTGCA-T-TAGAT
1 TAAAGCTGAAGGCAG-AGAATCTTATTTCCTTGGCGTTGCAGTGAAG-C
* * * * *
5932 TAAAGCTGAAGGTAGCA-AATCTCATTTCTTTGGTGTTGCAGTGGAACAGAT
1 TAAAGCTGAAGGCAG-AGAATCTTATTTCCTTGGCGTTGCAGT-G-A-AG-C
*
5983 TAAAGCTGAAGGCAGCGAATCTTATTTCC
1 TAAAGCTGAAGGCAGAGAATCTTATTTCC
6012 CTGTCGTCGC
Statistics
Matches: 1479, Mismatches: 347, Indels: 338
0.68 0.16 0.16
Matches are distributed among these distances:
44 1 0.00
45 25 0.02
46 472 0.32
47 12 0.01
48 30 0.02
49 28 0.02
50 40 0.03
51 846 0.57
52 16 0.01
53 9 0.01
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.29
Consensus pattern (47 bp):
TAAAGCTGAAGGCAGAGAATCTTATTTCCTTGGCGTTGCAGTGAAGC
Found at i:4250 original size:148 final size:147
Alignment explanation
Indices: 3969--6093 Score: 943
Period size: 148 Copynumber: 14.4 Consensus size: 147
3959 NNNNNNNNAT
* * * * * *
3969 TAAACCTGAA-GCAGTGAATCTTATTTCCCTGGCGTCGCAGT-----AGGTTAAAGCTGAATGCA
1 TAAAGCTGAAGGCAGAGAATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCA
* * * * * *
4028 GCGAATCTCATTTTCTTGGCATTGCAGTGGAACAGATTAACGCTAAAGGCAGTGAATCTTATATC
66 GCGAATCTCATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTC
*
4093 CCTAGCGTCGCAGTAAGC
131 CCTGGCGTCGCAGT-AGC
* * *
4111 TAAAGTTGAAGGCAGAGAATCTTATTTCCTTGGCGTTGCAGTGGAACATATTAAAGTTGAAGGCA
1 TAAAGCTGAAGGCAGAGAATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCA
** * * *
4176 GTAAATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAACTGAAGGTAGCGAA-CTTTATTT
66 GCGAATCTCATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATC-TTATTT
* * **
4240 CCATGTCGTCGCAGTAAAT
130 CCCTGGCGTCGCAGT-AGC
* * * * *
4259 TAAAGCTGAAGGTAGCA-AATCTTATTTCCTTAGCATTGCAATGGAACAGGTTAAAGCTGAAGGC
1 TAAAGCTGAAGGCAG-AGAATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGC
* * * *
4323 GGCGAATCTCATCTCCTTGCCGTTGTAGTGGAACAGATTAAAGCTGAAGGCAAG-GAATCTTATT
65 AGCGAATCTCATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGC-AGCGAATCTTATT
** *
4387 TCCCTGGCACCGCAATAGAC
129 TCCCTGGCGTCGCAGTAG-C
* * * * *
4407 TAAAGGTAAAGGC-GATGAATCTTACTTCCTTGGCGTTTCAGTAGAACAGATTAAAGCTGAAGGC
1 TAAAGCTGAAGGCAGA-GAATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGC
* * * * * * * * *
4471 AGCGAATCTTATTTCCCTGCCGTTGCAGTAGAACAGAGTAAAGCAGAAGGTAACAAATCTTATTT
65 AGCGAATCTCATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTT
*
4536 CCCTGACGTCGCAGTAGAC
130 CCCTGGCGTCGCAGTAG-C
* * * * ** * *
4555 TAAAGCTAAAGCCTA-CGACTCTTATTTCCCCGGCGTTGCAGTGGAACAGGTTAAAGCTGAAAGC
1 TAAAGCTGAAGGC-AGAGAATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGC
* * * * *
4619 AGCGAAT-TCCATTTCCTTGGCATTGCAGTGGAATAAATTAAAGCTGAATGCAGCAAATCTTATT
65 AGCGAATCT-CATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATT
* * * *
4683 TCCTTGGCATCGCATTAGG
129 TCCCTGGCGTCGCAGTAGC
* * ** *
4702 TGAAAGCTGAAGGCAGCA-AATCTCATTTCC-TGGCGTTGCAGTTGAATTGATTAAAGTTGAAGG
1 T-AAAGCTGAAGGCAG-AGAATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGG
* * ** * * *
4765 CAGCAAATCTTATTTCGC-TGGCG-T-CA---GAGTAGATTAAACCTTAAGGCAGTGAATCTTAT
64 CAGCGAATCTCATTTC-CTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTAT
* * * *
4824 TTCCTTAGCGTTGCAGTGGAAC
128 TTCCCTGGCGTCGCAGT--AGC
* * * * * * *
4846 ATATTAAAGCTGAAGGCA-ATAAATATTATTTCCTTGGCATTGTAGTAGAACAGTTTAAAGTTGA
1 ----TAAAGCTGAAGGCAGA-GAATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGA
* * ** * * *
4910 AGGCAGCAAATCTTATTTCGC-TGGCG-T-CA---GAGTAGATTAAACCTTAAGGCAGTGAATCT
61 AGGCAGCGAATCTCATTTC-CTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCT
* * * *
4969 TATTTCCTTAGCGTTGCAGTGGAAC
125 TATTTCCCTGGCGTCGCAGT--AGC
* * * * *
4994 ATATTAAAGCTGAAGGCA-ATAAATCTTATTTCCTTGACATTGTAGTAGAACAGATTAAAGCTGA
1 ----TAAAGCTGAAGGCAGA-GAATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGA
* * * * * * * *
5058 AGGCAGCGAATCTTATTTCCCTGTCATCGCAGT-----ATATTCAAGCTGAAGGTAGCGAATCTT
61 AGGCAGCGAATCTCATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTT
* ** * *
5118 TTTTCGTTGGCGTTGCAGTGGAACAGAT
126 ATTTCCCTGGCGTCGCAGT-----AG-C
* * * ** * * * * **
5146 TATAGCTGACGGCAGCGAATCCCATTTTCTTGGCATTGCAGTGGATCAAATTAAAATTGAAGGCA
1 TAAAGCTGAAGGCAGAGAATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCA
* * * ** * * * * * * *
5211 GCAAATCTTATTTCCCTAACATCGCAGT-----AGACTAAAGCTAAAGCCAACGACTCTTATTTC
66 GCGAATCTCATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTC
* * * *
5271 CCCGGCATTGCAGTGGAATAGAT
131 CCTGGCGTCGCA---G--TAG-C
* * * * * * *
5294 TAAAGCTGAAAGCAGCGAAT-TCCATTTCCTTGGCATTGCAGAGGAACAAATTAAAGCTGAAGGG
1 TAAAGCTGAAGGCAGAGAATCT-TATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGC
* * * * * * * *
5358 AGCAAATCTTATTTCCTTGGCATCGCA-T----TAGATGAAAGCTGAAGGCAGCAAATCTCATTT
65 AGCGAATCTCATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTT
* * * *
5418 CCTTGGCATTGCAGTTGAACTGAT
130 CCCTGGCGTCGCAG-T--A--G-C
* * * * * ** * *
5442 TAAAGTTGAAGACA-ACAAATCTTATTTCGTTGCCG-T-CA---GAGTAGATTAAACCTTAAGGC
1 TAAAGCTGAAGGCAGA-GAATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGC
* * * * ***
5501 AGTGAATCTTATTTCCTTAGCGTTGCAGTGGAACATATTAAAGCTGAAGGCAATAAATCTTATTT
65 AGCGAATCTCATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTT
* * *
5566 CCTTGGCGTTGCAGTTGAACTGAT
130 CCCTGGCGTCGCAG-T--A--G-C
* ** * *
5590 TAAAGTTGAAGGCAGCA-AATCTTATTTCAC-TGGCG-T-CA---GAGTAGATTAAACCTTAAGG
1 TAAAGCTGAAGGCAG-AGAATCTTATTTC-CTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGG
* * * * ***
5648 CAGTGAATCTTATTTCCTTAGCGTTGCAGTGGAACATATTAAAGCTGAAGGCAATAAATCTTATT
64 CAGCGAATCTCATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATT
* * * * *
5713 TCCTTGACATTGTAGTAGAAC
129 TCCCTGGCGTCGCAGTAG--C
* * * * * * *
5734 AGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGTCATCGCAGT-----ATATTCAAGCTGAA
1 ----TAAAGCTGAAGGCAGAGAATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAA
* ** * * * **
5794 GGTAGCGAATCTTTTTTCGTTGGCGTTGCAGTGGAACAGATTATAGCTGACGGCAGCGAATCCCA
62 GGCAGCGAATCTCATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTA
* * * * *
5859 TTTTCTTGGCATTGCAGTGGATC
127 TTTCCCTGGCGTCGCAGT--AGC
** * *
5882 AAATTAAAATTGAAGGCAGCA-AATCTTATTTCCTTGGCATTGCA-T----TAGATTAAAGCTGA
1 ----TAAAGCTGAAGGCAG-AGAATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGA
* * * *
5941 AGGTAGCAAATCTCATTTCTTTGGTGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTT
61 AGGCAGCGAATCTCATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTT
* * *
6006 ATTTCCCTGTCGTCGCAGTTGAT
126 ATTTCCCTGGCGTCGCAGTAG-C
* * * * * * *
6029 TAAAGTTGAAGGCA-ACAAATTTTATTTCCTTGGAGTTGTAGTAGAACAGATTCAAGCAT-AAGG
1 TAAAGCTGAAGGCAGA-GAATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGC-TGAAGG
6092 CA
64 CA
6094 CCAAATC
Statistics
Matches: 1590, Mismatches: 307, Indels: 166
0.77 0.15 0.08
Matches are distributed among these distances:
141 1 0.00
142 47 0.03
143 98 0.06
144 5 0.00
145 5 0.00
146 5 0.00
147 78 0.05
148 1336 0.84
149 6 0.00
150 6 0.00
151 2 0.00
153 1 0.00
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.29
Consensus pattern (147 bp):
TAAAGCTGAAGGCAGAGAATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCA
GCGAATCTCATTTCCTTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTC
CCTGGCGTCGCAGTAGC
Found at i:5792 original size:245 final size:241
Alignment explanation
Indices: 4160--6100 Score: 835
Period size: 245 Copynumber: 7.9 Consensus size: 241
4150 AGTGGAACAT
* * * * *
4160 ATTAAAGTTGAAGGCAGTAAATCTTATTTCCTTGGCGTTGCAGTGGAACAGATTAAAACTGAAGG
1 ATTAAACTT-AAGGCAGCAAATCTTATTTCCTTGGCATTGCAGT-GAACATATTAAAGCTGAAGG
* * * * * * * * * *
4225 TAGCGAA-CTTTATTTCCATG-TCGTCGCAGTA-A-ATTAAAGCTGAAGGTAGCAAATCTTATTT
64 CAACAAATC-TTATTTCCTTGCTTGTAGTAGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTT
* * * * * ** * * * * *
4286 CCTTAG-CATTGCAATGGAACAGGTTAAAGCTGAAGGCGGCGAATCTCATCTCCTTGCCGTTGTA
128 CCCT-GTCGTCGC-A--GTATA--TTAAAGCTGAAGGCAACAAATCTTATTTCCTTGGCGTTGCA
* * *
4350 GTGGAACAGATTAAAGCTGAAGGCAAG-GAATCTTATTTCCCTGGCA-CCGCAATAG
187 GTGGAACAGATTAAAGCTGAAGGC-AGCAAATCTTATTT-CCTGGCATCAGCAGTAG
* * * * * * *
4405 ACTAAAGGTAAAGGC-G-ATGAATCTTACTTCCTTGGCGTTTCAGTAGAACAGATTAAAGCTGAA
1 ATTAAA-CTTAAGGCAGCA--AATCTTATTTCCTTGGCATTGCAGT-GAACATATTAAAGCTGAA
* * * * * * * * *
4468 GGCAGCGAATCTTATTTCCCTGCCGTTGCAGTAGAACAGAGTAAAGCAGAAGGTAACAAATCTTA
62 GGCAACAAATCTTATTTCCTTG-C-TTGTAGTAGAACAGATTAAAGCTGAAGGCAGCGAATCTTA
* * * * * * * * **
4533 TTTCCCTGACGTCGCAGTAGACTAAAGCTAAAGCCTACGACTCTTATTTCCCCGGCGTTGCAGTG
125 TTTCCCTGTCGTCGCAGTATATTAAAGCTGAAGGCAACAAATCTTATTTCCTTGGCGTTGCAGTG
* * * * * * *
4598 GAACAGGTTAAAGCTGAAAGCAGCGAAT-TCCATTTCCTTGGCATTGCAGTGGAATAA
190 GAACAGATTAAAGCTGAAGGCAGCAAATCT-TATTTCC-TGGCA-T-CA--GCAGTAG
* * * * ** *
4655 ATTAAAGCTGAATGCAGCAAATCTTATTTCCTTGGCATCGCA-T---TAGGTGAAAGCTGAAGGC
1 ATTAAA-CTTAAGGCAGCAAATCTTATTTCCTTGGCATTGCAGTGAACATATTAAAGCTGAAGGC
* * * * * ** * *
4716 AGCAAATCTCATTTCCTGGCGTTGCAGTTGAATTGATTAAAGTTGAAGGCAGCAAATCTTATTTC
65 AACAAATCTTATTTCCTTGC-TTGTAGTAGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTC
* * * * * *** *
4781 GCTGGCGTCAG-AGTAGATTAAACCTTAAGGCAGTGAATCTTATTTCCTTAGCGTTGCAGTGGAA
129 CCTGTCGTC-GCAGTATATTAAAGCTGAAGGCAACAAATCTTATTTCCTTGGCGTTGCAGTGGAA
* ** * * *
4845 CATATTAAAGCTGAAGGCAATAAATATTATTTCCTTGGCAT-TGTAGTAG
193 CAGATTAAAGCTGAAGGCAGCAAATCTTATTTCC-TGGCATCAGCAGTAG
* * ** * *
4894 AACAGTTTAAAGTTGAAGGCAGCAAATCTTATTTCGC-TGGC-GT-CA--GAGTAGATTAAACCT
1 ---A--TTAAACTT-AAGGCAGCAAATCTTATTTC-CTTGGCATTGCAGTGAACATATTAAAGCT
* *** * * * ***
4954 TAAGGCAGTGAATCTTATTTCCTTAGCGTTGCAGTGGAACATATTAAAGCTGAAGGCAATAAATC
59 GAAGGCAACAAATCTTATTTCCTT-GC-TTGTAGTAGAACAGATTAAAGCTGAAGGCAGCGAATC
* * * * * * * * * * *
5019 TTATTTCCTTGACATTGTAGTAGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCCTGTCA
122 TTATTTCCCTG---TCGTCGCAG--TATATTAAAGCTGAAGGCAACAAATCTTATTTCCTTGGCG
* * * * * * * * *
5084 TCGCAGT-----ATATTCAAGCTGAAGGTAGCGAATCTTTTTTCGTTGGCGT-TGCAGTGGAACA
182 TTGCAGTGGAACAGATTAAAGCTGAAGGCAGCAAATCTTATTTC-CTGGCATCAGCAGT-----A
5143 G
241 G
* * * * ** * * * **
5144 ATTATAGCTGACGGCAGCGAATCCCATTTTCTTGGCATTGCAGTGGATCAAATTAAAATTGAAGG
1 ATTA-AACTTAAGGCAGCAAATCTTATTTCCTTGGCATTGCAGT-GAACATATTAAAGCTGAAGG
* ** * * * * * *
5209 CAGCAAATCTTATTTCCCTAACATCGCAGTAG-AC----TAAAGCTAAAGCCAACGACTCTTATT
64 CAACAAATCTTATTT-CCTTGC-TTGTAGTAGAACAGATTAAAGCTGAAGGCAGCGAATCTTATT
* * * * * * * * *
5269 TCCCCGGCATTGCAGTGGAATAGATTAAAGCTGAAAGCAGCGAAT-TCCATTTCCTTGGCATTGC
127 TCCCTGTCGTCGCAGT---AT--ATTAAAGCTGAAGGCAACAAATCT-TATTTCCTTGGCGTTGC
* * * *
5333 AGAGGAACAAATTAAAGCTGAAGGGAGCAAATCTTATTTCCTTGGCATC-GCATTAG
186 AGTGGAACAGATTAAAGCTGAAGGCAGCAAATCTTATTTCC-TGGCATCAGCAGTAG
* * * *
5389 ATGAAAGCTGAAGGCAGCAAATCTCATTTCCTTGGCATTGCAGTTGAAC-TGATTAAAGTTGAAG
1 ATTAAA-CTTAAGGCAGCAAATCTTATTTCCTTGGCATTGCAG-TGAACAT-ATTAAAGCTGAAG
* * * * * * *
5453 ACAACAAATCTTATTTCGTTGC-CGTCAG-AG--TAGATTAAACCTTAAGGCAGTGAATCTTATT
63 GCAACAAATCTTATTTCCTTGCTTGT-AGTAGAACAGATTAAAGCTGAAGGCAGCGAATCTTATT
* * *
5514 TCCTTAG-CGTTGCAGTGGAACATATTAAAGCTGAAGGCAATAAATCTTATTTCCTTGGCGTTGC
127 TCCCT-GTCGTCGCAGT-----ATATTAAAGCTGAAGGCAACAAATCTTATTTCCTTGGCGTTGC
* * * *
5578 AGTTGAACTGATTAAAGTTGAAGGCAGCAAATCTTATTTCACTGGCGTCAG-AGTAG
186 AGTGGAACAGATTAAAGCTGAAGGCAGCAAATCTTATTTC-CTGGCATCAGCAGTAG
** * *
5634 ATTAAACCTTAAGGCAGTGAATCTTATTTCCTTAGCGTTGCAGTGGAACATATTAAAGCTGAAGG
1 ATTAAA-CTTAAGGCAGCAAATCTTATTTCCTTGGCATTGCAGT-GAACATATTAAAGCTGAAGG
*
5699 CAATAAATCTTATTTCCTTGACATTGTAGTAGAACAGATTAAAGCTGAAGGCAGCGAATCTTATT
64 CAACAAATCTTATTTCCTTG-C-TTGTAGTAGAACAGATTAAAGCTGAAGGCAGCGAATCTTATT
* * * * * * *
5764 TCCCTGTCATCGCAGTATATTCAAGCTGAAGGTAGCGAATCTTTTTTCGTTGGCGTTGCAGTGGA
127 TCCCTGTCGTCGCAGTATATTAAAGCTGAAGGCAACAAATCTTATTTCCTTGGCGTTGCAGTGGA
* * * ** * ** *
5829 ACAGATTATAGCTGACGGCAGCGAATCCCATTTTCTTGGCATTGCAGTGGATCAA
192 ACAGATTAAAGCTGAAGGCAGCAAATCTTA-TTTCCTGGCA-T-CAGCAG-T-AG
* * * *
5884 ATTAAAATTGAAGGCAGCAAATCTTATTTCCTTGGCATTGCA-T---TAGATTAAAGCTGAAGGT
1 ATTAAACTT-AAGGCAGCAAATCTTATTTCCTTGGCATTGCAGTGAACATATTAAAGCTGAAGGC
* * * * * *
5945 AGCAAATCTCATTTCTTTGGTGTTGCAGTGGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTT
65 AACAAATCTTATTTCCTT-G-CTTGTAGTAGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTT
* * * * *
6010 CCCTGTCGTCGCAGT-TGATTAAAGTTGAAGGCAACAAATTTTATTTCCTTGGAGTTGTAGTAGA
128 CCCTGTCGTCGCAGTAT-ATTAAAGCTGAAGGCAACAAATCTTATTTCCTTGGCGTTGCAGTGGA
* *
6074 ACAGATTCAAGCAT-AAGGCACCAAATC
192 ACAGATTAAAGC-TGAAGGCAGCAAATC
Statistics
Matches: 1303, Mismatches: 294, Indels: 198
0.73 0.16 0.11
Matches are distributed among these distances:
239 4 0.00
242 11 0.01
243 6 0.00
244 188 0.14
245 776 0.60
246 20 0.02
247 14 0.01
248 16 0.01
249 11 0.01
250 252 0.19
251 4 0.00
252 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (241 bp):
ATTAAACTTAAGGCAGCAAATCTTATTTCCTTGGCATTGCAGTGAACATATTAAAGCTGAAGGCA
ACAAATCTTATTTCCTTGCTTGTAGTAGAACAGATTAAAGCTGAAGGCAGCGAATCTTATTTCCC
TGTCGTCGCAGTATATTAAAGCTGAAGGCAACAAATCTTATTTCCTTGGCGTTGCAGTGGAACAG
ATTAAAGCTGAAGGCAGCAAATCTTATTTCCTGGCATCAGCAGTAG
Done.