Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 ID=Chr02-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: 62769430
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1067035 characters in sequence are not A, C, G, or T
File 138 of 206
Found at i:42144360 original size:23 final size:21
Alignment explanation
Indices: 42144207--42144365 Score: 144
Period size: 19 Copynumber: 8.0 Consensus size: 21
42144197 AATTTTTTAG
*
42144207 GATATGCAATCTT--ATATAT
1 GATATGCAATCTTAGAGATAT
*
42144226 GATATGCAATCCT--AGATAT
1 GATATGCAATCTTAGAGATAT
*
42144245 GATATGCAATCTTAGATATGAT
1 GATATGCAATCTTAGAGAT-AT
42144267 -ATATGCAATCTT--AGATAT
1 GATATGCAATCTTAGAGATAT
*
42144285 GATATGCAATCTTAGATATGAT
1 GATATGCAATCTTAGAGAT-AT
42144307 G-TAT--AATCTT--AGATAT
1 GATATGCAATCTTAGAGATAT
42144323 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAG-AGATAT
* *
42144345 GATTTTGTAATCTTAGAGATA
1 GA-TATGCAATCTTAGAGATA
42144366 CCCTTTGATC
Statistics
Matches: 117, Mismatches: 9, Indels: 25
0.77 0.06 0.17
Matches are distributed among these distances:
16 3 0.03
17 6 0.05
18 2 0.02
19 56 0.48
21 21 0.18
22 18 0.15
23 11 0.09
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.38
Consensus pattern (21 bp):
GATATGCAATCTTAGAGATAT
Found at i:42145123 original size:25 final size:26
Alignment explanation
Indices: 42145080--42145129 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
42145070 TGTACATGTA
42145080 TATATATTTTTAAACGAATATTTTCC
1 TATATATTTTTAAACGAATATTTTCC
* *
42145106 TATAT-TTTTTTAATGAATATTTTC
1 TATATATTTTTAAACGAATATTTTC
42145130 ATATTTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.32, C:0.08, G:0.04, T:0.56
Consensus pattern (26 bp):
TATATATTTTTAAACGAATATTTTCC
Found at i:42149711 original size:23 final size:25
Alignment explanation
Indices: 42149679--42149735 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 25
42149669 TACATCTTTG
*
42149679 CATTCATTTTGAACCAA-TATATTTT
1 CATTC-TTTTGAAACAATTATATTTT
* *
42149704 -ATTCTTTTTAAATAATTATATTTT
1 CATTCTTTTGAAACAATTATATTTT
42149728 CATTCTTT
1 CATTCTTT
42149736 CAGATCTTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 8 0.30
24 12 0.44
25 7 0.26
ACGTcount: A:0.30, C:0.12, G:0.02, T:0.56
Consensus pattern (25 bp):
CATTCTTTTGAAACAATTATATTTT
Found at i:42151903 original size:44 final size:44
Alignment explanation
Indices: 42151855--42152303 Score: 160
Period size: 44 Copynumber: 10.2 Consensus size: 44
42151845 AAGGTTGTAG
*
42151855 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGACGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACGA
* * * *
42151899 ATCTTATCTTTCC-AAG-A-TAGTGGGAAGCAGATTTAAG-CCACCA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACGACGA
* * * * * * * *
42151942 AGCATTGTCTCCCTGAGCAGCAGCGGAGAAGTTTGAAGATTGTA-G-
1 ATC-TTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA-CG-ACGA
* * * *
42151987 ATATTATCTCCCTAAACAGTAGTGGAGCAGATCGAAGACGGCGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACGA
** * * * *
42152031 ATCTTATCTTTCGAAG-A-TAGTGGGAAGCAGATTTAAG-CCACCA
1 ATCTTATCTCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACGACGA
* * * * * * ** * *
42152074 AGCCTTGTCTCTCTCAGTAGCAGTGGAAAAGGTTGAAGATTGTA-G-
1 A-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA-CG-ACGA
* * *
42152119 ATCTTATCTCCCTAAGCAGTAGTGAAGCAGATCGAAGACGGCGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACGA
* * *
42152163 ATCTTATCTTCCC-AAG-A-TAGTGGGAAGCAGATTTAAG-CCACCA
1 ATCTTATC-TCCCTAAGCAGTAGT-GG-AGCAGATTGAAGACGACGA
* * * * * * * *
42152206 AGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTA--A
1 A-TCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA-CG-ACGA
* **
42152251 ATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCAAAGAC-AGCGA
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGA-CGA
42152295 ATCTTATCT
1 ATCTTATCT
42152304 TTCCAAGATA
Statistics
Matches: 278, Mismatches: 92, Indels: 70
0.63 0.21 0.16
Matches are distributed among these distances:
41 1 0.00
42 12 0.04
43 33 0.12
44 202 0.73
45 20 0.07
46 7 0.03
47 3 0.01
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.24
Consensus pattern (44 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACGACGA
Found at i:42151985 original size:132 final size:132
Alignment explanation
Indices: 42151743--42152415 Score: 1078
Period size: 132 Copynumber: 5.1 Consensus size: 132
42151733 CTGAACTGAC
* * *
42151743 AGTGGAGCAGATCGATGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAACATATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* *
42151808 CAAGCCTTGTCTCCCTGAGCAGCAGTGGAGAAGGTTGAAGGTTGTAGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
42151873 GT
131 GT
*
42151875 AGTGGAGCAGATCGAAGACGACGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* * * *
42151940 CAAGCATTGTCTCCCTGAGCAGCAGCGGAGAAGTTTGAAGATTGTAGATATTATCTCCCTAAACA
66 CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
42152005 GT
131 GT
*
42152007 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCGAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
* * * * *
42152072 CAAGCCTTGTCTCTCTCAGTAGCAGTGGAAAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
42152137 GT
131 GT
* *
42152139 AGTGAAGCAGATCGAAGACGGCGAATCTTATCTTCCCAAGATAGTGGGAAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
*
42152204 CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAAATCTTATCTCCCTAAGCA
66 CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
42152269 GT
131 GT
* * * *
42152271 AGTAGAGCAGATCAAAGACAGCGAATCTTATCTTTCCAAGATAGTGGGGAGCAGATTTAAGCCAC
1 AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
*
42152336 CAAGCCTTGTCTCCCTAAGCAGCAGCGGAGAAGGTTGAAGATTGTAGA-CTTTATCTCCCTAAAG
66 CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATC-TTATCTCCCT-AAG
** *
42152400 TTGC
129 CAGT
42152404 AGTGGAGCAGAT
1 AGTGGAGCAGAT
42152416 TAAAGCCGAT
Statistics
Matches: 497, Mismatches: 42, Indels: 3
0.92 0.08 0.01
Matches are distributed among these distances:
131 1 0.00
132 481 0.97
133 15 0.03
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.24
Consensus pattern (132 bp):
AGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAAGCCAC
CAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAAGCA
GT
Found at i:42152435 original size:44 final size:43
Alignment explanation
Indices: 42152386--42152712 Score: 253
Period size: 44 Copynumber: 7.5 Consensus size: 43
42152376 ATTGTAGACT
*
42152386 TTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCGATAGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCC-ATAGTC
* *
42152430 CTATCTCCCTGAAGTTGCAGTGGAGC-GAATTAAAACC-TCAGATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAG-ATTAAAGCCAT-AG-TC
** * *** *
42152474 TTATCTCTTTGAAGTTGCAG-AGAGCAGATCGCA-TC-TAGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCATAGTC
*
42152514 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAG-CA-AGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTA--AAGCCATAGTC
* * *
42152558 TTATC-CTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGCA-AGTC
1 TTATCTC-CCTGAAGTTGCAGTGGAGCAGA-TTAA-A-GCCATAGTC
* *
42152603 TTATCTCCCTGAAGTTGCAGTGGAACAGATTAAAGCCGATAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCC-ATAGTC
* * * **
42152647 CTATCTCTCTGAAGTTGCAGTGGAGCAGACTAAA-TAAGTAAGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA-T-AGTC
42152691 TTATC-CTCCTGAAGTTGCAGTG
1 TTATCTC-CCTGAAGTTGCAGTG
42152713 AGGCAGACTG
Statistics
Matches: 230, Mismatches: 33, Indels: 40
0.76 0.11 0.13
Matches are distributed among these distances:
40 20 0.09
41 9 0.04
42 8 0.03
43 16 0.07
44 145 0.63
45 31 0.13
46 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.28
Consensus pattern (43 bp):
TTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCATAGTC
Found at i:42152623 original size:89 final size:89
Alignment explanation
Indices: 42152387--42152721 Score: 247
Period size: 89 Copynumber: 3.8 Consensus size: 89
42152377 TTGTAGACTT
* * * *** *
42152387 TATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCG-ATAGTCCTATCTCCCTGAAGTTGCAGT
1 TATCTCTCTGAAGTTGCAGTGGAGCAGACTAAATAAGCA-AGTCTTATCTCCCTGAAGTTGCAGT
* *
42152451 GGAGC-GAATTAAAA-CC--TCAGATCT
65 GGAGCAG-ACTAAAAGCCGAT-A-ATCC
* * ** *
42152475 TATCTCTTTGAAGTTGCAG-AGAGCAGA-TCGCAT---CTAGTCTTATCTCCCTGAAGTTGCAGT
1 TATCTCTCTGAAGTTGCAGTGGAGCAGACT-AAATAAGCAAGTCTTATCTCCCTGAAGTTGCAGT
* *
42152535 GGAGCAGACTAAGTAAG-C-A-AGTCT
65 GGAGCAGACTAA--AAGCCGATAATCC
* *
42152559 TATC-CTCCTGAAGTTGCAGTGGGGCAGACTGAAGAT-GGCAAGTCTTATCTCCCTGAAGTTGCA
1 TATCTCT-CTGAAGTTGCAGTGGAGCAGACT-AA-ATAAGCAAGTCTTATCTCCCTGAAGTTGCA
* *
42152622 GTGGAACAGA-TTAAAGCCGATAATCC
63 GTGGAGCAGACTAAAAGCCGATAATCC
*
42152648 TATCTCTCTGAAGTTGCAGTGGAGCAGACTAAATAAGTAAGTCTTATC-CTCCTGAAGTTGCAGT
1 TATCTCTCTGAAGTTGCAGTGGAGCAGACTAAATAAGCAAGTCTTATCTC-CCTGAAGTTGCAGT
42152712 -GAGGCAGACT
65 GGA-GCAGACT
42152722 GAAGATGGCA
Statistics
Matches: 200, Mismatches: 26, Indels: 41
0.75 0.10 0.15
Matches are distributed among these distances:
83 2 0.01
84 51 0.25
85 8 0.04
86 8 0.04
87 16 0.08
88 50 0.25
89 63 0.31
90 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (89 bp):
TATCTCTCTGAAGTTGCAGTGGAGCAGACTAAATAAGCAAGTCTTATCTCCCTGAAGTTGCAGTG
GAGCAGACTAAAAGCCGATAATCC
Found at i:42152921 original size:19 final size:19
Alignment explanation
Indices: 42152897--42153009 Score: 145
Period size: 19 Copynumber: 5.8 Consensus size: 19
42152887 AATTTTTGAG
42152897 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
42152916 GATATGCAATCCAAGATAT
1 GATATGCAATCTTAGATAT
*
42152935 GATATATGCAATCCTAGATAT
1 G--ATATGCAATCTTAGATAT
42152956 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
42152975 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
42152994 GATATATAATCTTAGA
1 GATATGCAATCTTAGA
42153010 ATATATGATT
Statistics
Matches: 86, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
19 68 0.79
21 18 0.21
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:42152942 original size:40 final size:40
Alignment explanation
Indices: 42152898--42152998 Score: 161
Period size: 40 Copynumber: 2.6 Consensus size: 40
42152888 ATTTTTGAGG
42152898 ATATGCAATCTTAGATATGATATGCAATCCAAGATATGAT
1 ATATGCAATCTTAGATATGATATGCAATCCAAGATATGAT
* **
42152938 ATATGCAATCCTAGATATGATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGATATGCAATCCAAGATATGAT
42152978 ATAT--AATCTTAGATATGATAT
1 ATATGCAATCTTAGATATGATAT
42152999 ATAATCTTAG
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
38 16 0.28
40 41 0.72
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.36
Consensus pattern (40 bp):
ATATGCAATCTTAGATATGATATGCAATCCAAGATATGAT
Found at i:42153015 original size:15 final size:17
Alignment explanation
Indices: 42152963--42153015 Score: 61
Period size: 19 Copynumber: 2.9 Consensus size: 17
42152953 TATGATATGC
42152963 AATCTTAGATATGATATAT
1 AATCTTAGA-A-GATATAT
42152982 AATCTTAGATATGATATAT
1 AATCTTAGA-A-GATATAT
*
42153001 AATCTTAGAATATAT
1 AATCTTAGAAGATAT
42153016 GATTTTGTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
17 4 0.12
18 1 0.03
19 28 0.85
ACGTcount: A:0.43, C:0.06, G:0.09, T:0.42
Consensus pattern (17 bp):
AATCTTAGAAGATATAT
Found at i:42153550 original size:13 final size:13
Alignment explanation
Indices: 42153526--42153559 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
42153516 TTGCAATTCA
*
42153526 ATTTAGTTTTTTT
1 ATTTATTTTTTTT
42153539 -TTTATTTTTTTT
1 ATTTATTTTTTTT
42153551 ATTTATTTT
1 ATTTATTTT
42153560 ATTAATTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (13 bp):
ATTTATTTTTTTT
Found at i:42153816 original size:25 final size:26
Alignment explanation
Indices: 42153773--42153822 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
42153763 TGTACATGTA
42153773 TATATATTTTTAAACGAATATTTTCC
1 TATATATTTTTAAACGAATATTTTCC
* *
42153799 TATAT-TTTTTTAATGAATATTTTC
1 TATATATTTTTAAACGAATATTTTC
42153823 ATATTTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.32, C:0.08, G:0.04, T:0.56
Consensus pattern (26 bp):
TATATATTTTTAAACGAATATTTTCC
Found at i:42154609 original size:98 final size:98
Alignment explanation
Indices: 42154492--42154688 Score: 331
Period size: 98 Copynumber: 2.0 Consensus size: 98
42154482 TTTAAAATAA
** * *
42154492 TAAAGGAAATATTTTGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
42154557 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
* *
42154590 TAAAGGAAATATTCCGAGTTTGGGATTCTAGAGGAATCGTGCCCTAATGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
*
42154655 TTAAATCTTGGATGAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
42154688 T
1 T
42154689 TTTATTGTAC
Statistics
Matches: 92, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
98 92 1.00
ACGTcount: A:0.27, C:0.09, G:0.25, T:0.39
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGGGATTCTAAAGGAATCGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
Found at i:42156515 original size:21 final size:21
Alignment explanation
Indices: 42156464--42156518 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
42156454 CACTGTTATT
42156464 GAGAAGGAAGTTGCTGCTACAG
1 GAGAA-GAAGTTGCTGCTACAG
* * *
42156486 AAGAGGAAGTTGTTGCTGA-AG
1 GAGAAGAAGTTGCTGCT-ACAG
42156507 GAGAAGAAGTTG
1 GAGAAGAAGTTG
42156519 ATGCAAATGA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.35, C:0.07, G:0.38, T:0.20
Consensus pattern (21 bp):
GAGAAGAAGTTGCTGCTACAG
Found at i:42156849 original size:14 final size:15
Alignment explanation
Indices: 42156830--42156859 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
42156820 AAAATGAAAG
42156830 AAGGAGGA-GAAGAA
1 AAGGAGGAGGAAGAA
42156844 AAGGAGGAGGAAGAA
1 AAGGAGGAGGAAGAA
42156859 A
1 A
42156860 CATCGTGCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.57, C:0.00, G:0.43, T:0.00
Consensus pattern (15 bp):
AAGGAGGAGGAAGAA
Found at i:42156993 original size:17 final size:17
Alignment explanation
Indices: 42156971--42157003 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
42156961 ATAAGTACAC
*
42156971 ATTGTCATTGCATTTTT
1 ATTGTCATTACATTTTT
42156988 ATTGTCATTACATTTT
1 ATTGTCATTACATTTT
42157004 CATGTTAGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.12, G:0.09, T:0.58
Consensus pattern (17 bp):
ATTGTCATTACATTTTT
Found at i:42157071 original size:19 final size:19
Alignment explanation
Indices: 42157047--42157091 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
42157037 AGTTTAGGGG
42157047 AATGCACATGGGGCTTAGA
1 AATGCACATGGGGCTTAGA
*
42157066 AATGCACATGGGGCTTTGA
1 AATGCACATGGGGCTTAGA
42157085 AATGCAC
1 AATGCAC
42157092 CCACATTTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.29, T:0.22
Consensus pattern (19 bp):
AATGCACATGGGGCTTAGA
Found at i:42157779 original size:20 final size:21
Alignment explanation
Indices: 42157754--42157793 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
42157744 AAATGATCAT
42157754 TTGCCTTACTAAAA-TTTTTG
1 TTGCCTTACTAAAACTTTTTG
*
42157774 TTGCCTTAGTAAAACTTTTT
1 TTGCCTTACTAAAACTTTTT
42157794 TAGCCTTGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.25, C:0.15, G:0.10, T:0.50
Consensus pattern (21 bp):
TTGCCTTACTAAAACTTTTTG
Found at i:42157799 original size:20 final size:20
Alignment explanation
Indices: 42157756--42157800 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
42157746 ATGATCATTT
*
42157756 GCCTTACTAAAATTTTTGTT
1 GCCTTACTAAAATTTTTGTA
*
42157776 GCCTTAGTAAAACTTTTT-TA
1 GCCTTACTAAAA-TTTTTGTA
42157796 GCCTT
1 GCCTT
42157801 GCTAGTTTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.24, C:0.18, G:0.11, T:0.47
Consensus pattern (20 bp):
GCCTTACTAAAATTTTTGTA
Found at i:42161388 original size:50 final size:50
Alignment explanation
Indices: 42161329--42161573 Score: 267
Period size: 50 Copynumber: 4.9 Consensus size: 50
42161319 CATTGAGATT
* * * *
42161329 ATGAGAGGTCCCAAGTCAGACCATGTTTGGGGCATGGCGTTGGCACTGAG
1 ATGAGAGGTCCCAAGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
* * *
42161379 ATGAGAGGTCCTATGTAAGACCACGTCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCAAGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
* *
42161429 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAG
1 ATGAGAGGTCCCAAGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
* * * * * *
42161479 CTGAGAGGTCCCCCA-TAAGACCATGTCTGGGACATGGCATGGGCACCTAT
1 ATGAGAGGT-CCCAAGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
* ** * * * * *
42161529 ATAAGAACTCTCATGTAAGACCATATCTGGGATATGGCATTGGCA
1 ATGAGAGGTCCCAAGTAAGACCATGTCTGGGACATGGCGTTGGCA
42161574 GTACATGAAA
Statistics
Matches: 166, Mismatches: 27, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
49 2 0.01
50 161 0.97
51 3 0.02
ACGTcount: A:0.26, C:0.22, G:0.31, T:0.22
Consensus pattern (50 bp):
ATGAGAGGTCCCAAGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
Found at i:42161465 original size:100 final size:99
Alignment explanation
Indices: 42161276--42161622 Score: 307
Period size: 100 Copynumber: 3.4 Consensus size: 99
42161266 ATTCGGGTAA
* * * * *
42161276 AGAGATCCAATGTAAGACTATGTCTTGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCCC
1 AGAGGTCCTATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATGAGAGGTCCC
* * * *
42161341 AAGTCAGACCATGTTTGGGGCATGGCGTTGGCACTGAGATG
60 ATGTAAGACCATGTCTGGGACATGGCGTTGGCACT-AGATG
* *
42161382 AGAGGTCCTATGTAAGACCACGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAA
1 AGAGGTCCTATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCATGTAA
* *
42161447 GACCATGTCTGGGACATGGCGTTGGCACCAAGCTG
66 GACCATGTCTGGGACATGGCGTTGGCA-CTAGATG
**** * * * * ** *
42161482 AGAGGTCCCCCATAAGACCATGTCTGGGACATGGCATGGGCACCTATATAAGAACTCTCATGTAA
1 AGAGGTCCTATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCATGTAA
* * * * *
42161547 GACCATATCTGGGATATGGCATTGGCAGTACATG
66 GACCATGTCTGGGACATGGCGTTGGCACTAGATG
* ** * * *
42161581 AAACATCCTATGTAAGACTATGTCTGGGACATAGCTTTGGCA
1 AGAGGTCCTATGTAAGACCATGTCTGGGACATGGCATTGGCA
42161623 TGTTATATTC
Statistics
Matches: 196, Mismatches: 44, Indels: 9
0.79 0.18 0.04
Matches are distributed among these distances:
99 34 0.17
100 121 0.62
101 1 0.01
103 3 0.02
105 1 0.01
106 36 0.18
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (99 bp):
AGAGGTCCTATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCATGTAA
GACCATGTCTGGGACATGGCGTTGGCACTAGATG
Found at i:42163219 original size:50 final size:50
Alignment explanation
Indices: 42163111--42163507 Score: 409
Period size: 50 Copynumber: 7.8 Consensus size: 50
42163101 ATTTGGGTAA
* * * **
42163111 AGAGATCCCATGTAAGACCATGTCTGGGACATGTCATTGGCATCATTGACATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-C-----CAAGATG
* * *
42163167 AGAGGTCCCATGTAGGACCATGTCTGGGACATGCCGTTTGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
*
42163217 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
* * * * *
42163267 AGACGTCCCATGAAAGACCATGTCTAGGACATGGCGTTGGCACCGAGAAG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
*
42163317 AGAGGTCCCATGTAACACCATGTCTGGGACATGGCGTTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
** * * * *
42163367 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCTATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
** * * * * ** *
42163417 AGAACTCTCATGTAAGACCATATCTGGGATATGGCATTGGCA-GTACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
* ** * * *
42163466 AAACATCCCATGTAAGACTATGTCTGGGACATAGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
42163508 TGTTATATTC
Statistics
Matches: 294, Mismatches: 47, Indels: 7
0.84 0.14 0.02
Matches are distributed among these distances:
49 38 0.13
50 218 0.74
55 1 0.00
56 37 0.13
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
Found at i:42170123 original size:50 final size:50
Alignment explanation
Indices: 42170015--42170411 Score: 402
Period size: 50 Copynumber: 7.8 Consensus size: 50
42170005 ATTTGGGTAA
* * * *
42170015 AGAGATCCCATGTAAGACCATGTCTGGGACATGTCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-C--CGAG---ATG
* * *
42170071 AGAGGTCCCATGCAGGACCATGTCTGGGACATGCCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
*
42170121 AGAGGTCCCATGTAAGATCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* * * * *
42170171 AGACGTCCCATGAAAGACCATGTCTAGGACATGGCGTTGGAACCGAGAAG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* *
42170221 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
** * * * *
42170271 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCTATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
** * * * * * *
42170321 AGAACTCTCATGTAAGACCATATCTGGGATATGGCATTGGCA--GTACAAG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCG-AGATG
* ** * * *
42170370 AAACATCCCATGTAAGACTATGTCTGGGACATAGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
42170412 TGTTATATTC
Statistics
Matches: 291, Mismatches: 49, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
49 36 0.12
50 214 0.74
53 3 0.01
55 1 0.00
56 37 0.13
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
Found at i:42170969 original size:19 final size:19
Alignment explanation
Indices: 42170933--42170968 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
42170923 AATAATTAAA
42170933 AATTAAAAAATTGTAAAAT
1 AATTAAAAAATTGTAAAAT
42170952 AATT-AAAAATTGTAAAA
1 AATTAAAAAATTGTAAAA
42170969 AAAAATTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.31
Consensus pattern (19 bp):
AATTAAAAAATTGTAAAAT
Found at i:42177502 original size:33 final size:33
Alignment explanation
Indices: 42177465--42177527 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
42177455 TCTTCTACTC
* *
42177465 ATCTCCCTCTGGTCCTGTTGTGGCCTTCTCATT
1 ATCTCCCTCTGGCCCTGTTGTGGCCGTCTCATT
*
42177498 ATCTCCCTCTGGCCCTTTTGTGGCCGTCTC
1 ATCTCCCTCTGGCCCTGTTGTGGCCGTCTC
42177528 CATAGTGGCA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.05, C:0.37, G:0.19, T:0.40
Consensus pattern (33 bp):
ATCTCCCTCTGGCCCTGTTGTGGCCGTCTCATT
Found at i:42186739 original size:11 final size:11
Alignment explanation
Indices: 42186665--42186739 Score: 52
Period size: 11 Copynumber: 6.7 Consensus size: 11
42186655 TTTCGAAAAA
42186665 AATATTAATTT
1 AATATTAATTT
42186676 AATAATTTAATATT
1 AAT-A-TTAAT-TT
42186690 AA-ATTAAATTT
1 AATATT-AATTT
42186701 AATACTT-ATCTT
1 AATA-TTAAT-TT
*
42186713 AATAGT-ATTT
1 AATATTAATTT
42186723 --TATTAATTT
1 AATATTAATTT
42186732 AATATTAA
1 AATATTAA
42186740 AGTGATTGTC
Statistics
Matches: 52, Mismatches: 2, Indels: 20
0.70 0.03 0.27
Matches are distributed among these distances:
8 3 0.06
9 4 0.08
10 2 0.04
11 20 0.38
12 12 0.23
13 7 0.13
14 4 0.08
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (11 bp):
AATATTAATTT
Found at i:42187847 original size:11 final size:11
Alignment explanation
Indices: 42187831--42187859 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
42187821 CTAGCAATAC
42187831 ATCACCATTAT
1 ATCACCATTAT
42187842 ATCACCATTAT
1 ATCACCATTAT
42187853 ATCACCA
1 ATCACCA
42187860 AAACAAGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.38, C:0.31, G:0.00, T:0.31
Consensus pattern (11 bp):
ATCACCATTAT
Found at i:42198009 original size:17 final size:18
Alignment explanation
Indices: 42197977--42198010 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
42197967 ATTTTATTTT
42197977 CAATTTATACCCTAATTC
1 CAATTTATACCCTAATTC
*
42197995 CAATTTA-ATCCTAATT
1 CAATTTATACCCTAATT
42198011 AACTCATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.35, C:0.24, G:0.00, T:0.41
Consensus pattern (18 bp):
CAATTTATACCCTAATTC
Found at i:42198899 original size:201 final size:204
Alignment explanation
Indices: 42198528--42198944 Score: 732
Period size: 213 Copynumber: 2.0 Consensus size: 204
42198518 ACTTAAACTA
42198528 TAAGAAAATATTTTATTTTATTACAAGTGTATTTTTATATATTTTACACATGTTTAATTTAATCA
1 TAAGAAAATATTTTATTTTATTACAAGTGTATTTTTATATATTTTACACATGTTTAATTTAATCA
42198593 CCATACACTTGTCTTTAATTTAATTTATTCCATAATATAATAATTATAATACAAATGTATATACA
66 CCATACACTTGTCTTTAATTTAATTTATTCCATAATATAATAATTATAATACAAATG--------
42198658 TATATTATTACATATGTACAACTTTAATACCCTACATTTGTCACAATTTGATTTAATTTATAATA
123 -ATATTATTACATATGTACAACTTTAATACCCTACATTTGTCACAATTTGATTTAATTTATAATA
42198723 TAATATCATAATTTTAAT
187 TAATATCATAATTTTAAT
42198741 TAAGAAAATATTTTATTTTATTACAAGTGTATTTTTATATATTTTACACATGTTTAATTTAATCA
1 TAAGAAAATATTTTATTTTATTACAAGTGTATTTTTATATATTTTACACATGTTTAATTTAATCA
42198806 CCATACACTTGTCTTTAATTTAATTTATTCCATAATATAATAATTATAATACAAATG-TA-TA-T
66 CCATACACTTGTCTTTAATTTAATTTATTCCATAATATAATAATTATAATACAAATGATATTATT
42198868 ACATATGTACAACTTTAATACCCTACATTTGTCACAATTTGATTTAATTTATAATATAATATCAT
131 ACATATGTACAACTTTAATACCCTACATTTGTCACAATTTGATTTAATTTATAATATAATATCAT
42198933 AATTTTAAT
196 AATTTTAAT
42198942 TAA
1 TAA
42198945 TATAAATTAC
Statistics
Matches: 204, Mismatches: 0, Indels: 12
0.94 0.00 0.06
Matches are distributed among these distances:
201 78 0.38
202 2 0.01
203 2 0.01
213 122 0.60
ACGTcount: A:0.39, C:0.11, G:0.04, T:0.46
Consensus pattern (204 bp):
TAAGAAAATATTTTATTTTATTACAAGTGTATTTTTATATATTTTACACATGTTTAATTTAATCA
CCATACACTTGTCTTTAATTTAATTTATTCCATAATATAATAATTATAATACAAATGATATTATT
ACATATGTACAACTTTAATACCCTACATTTGTCACAATTTGATTTAATTTATAATATAATATCAT
AATTTTAAT
Found at i:42203081 original size:25 final size:25
Alignment explanation
Indices: 42203031--42203081 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
42203021 TCCGACGCAC
* ** *
42203031 AGCTTGTGTGAGCATATTGATTTAT
1 AGCTTGTGAGAGCATACCGATCTAT
42203056 AGCTTGTGAGAGCATACCGATCTAT
1 AGCTTGTGAGAGCATACCGATCTAT
42203081 A
1 A
42203082 ACTCGAGTGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.35
Consensus pattern (25 bp):
AGCTTGTGAGAGCATACCGATCTAT
Found at i:42206983 original size:14 final size:14
Alignment explanation
Indices: 42206964--42207010 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
42206954 AGGAGAAAAG
42206964 AAAAGAAAAAGATC
1 AAAAGAAAAAGATC
* * *
42206978 AAAAGAGAGAGA-G
1 AAAAGAAAAAGATC
*
42206991 GAAAGAAAAAGATC
1 AAAAGAAAAAGATC
42207005 AAAAGA
1 AAAAGA
42207011 GAGAGAGGAG
Statistics
Matches: 24, Mismatches: 8, Indels: 2
0.71 0.24 0.06
Matches are distributed among these distances:
13 9 0.38
14 15 0.62
ACGTcount: A:0.68, C:0.04, G:0.23, T:0.04
Consensus pattern (14 bp):
AAAAGAAAAAGATC
Found at i:42206999 original size:27 final size:27
Alignment explanation
Indices: 42206965--42207019 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
42206955 GGAGAAAAGA
42206965 AAAGAAAAAGATCAAAAGAGAGAGAGG
1 AAAGAAAAAGATCAAAAGAGAGAGAGG
42206992 AAAGAAAAAGATCAAAAGAGAGAGAGG
1 AAAGAAAAAGATCAAAAGAGAGAGAGG
42207019 A
1 A
42207020 GGTTATGGAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.64, C:0.04, G:0.29, T:0.04
Consensus pattern (27 bp):
AAAGAAAAAGATCAAAAGAGAGAGAGG
Found at i:42208355 original size:15 final size:15
Alignment explanation
Indices: 42208335--42208363 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
42208325 ATGAGGCACA
42208335 CAATATCTCCCTCTG
1 CAATATCTCCCTCTG
42208350 CAATATCTCCCTCT
1 CAATATCTCCCTCT
42208364 AAAGCATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.41, G:0.03, T:0.34
Consensus pattern (15 bp):
CAATATCTCCCTCTG
Found at i:42224163 original size:12 final size:12
Alignment explanation
Indices: 42224148--42224172 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
42224138 AAAATATGAG
42224148 AAATATGTTAAT
1 AAATATGTTAAT
42224160 AAATATGTTAAT
1 AAATATGTTAAT
42224172 A
1 A
42224173 TTACCACCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (12 bp):
AAATATGTTAAT
Found at i:42232744 original size:27 final size:28
Alignment explanation
Indices: 42232668--42232789 Score: 92
Period size: 27 Copynumber: 4.5 Consensus size: 28
42232658 TAGTTCGCTA
*
42232668 GGATAGTAAACAAAGGG-TAGTCCATTG
1 GGATAGTAAACACAGGGCTAGTCCATTG
* * * * *
42232695 AGAAAATAAACA-TGGGCTAGTCTATTG
1 GGATAGTAAACACAGGGCTAGTCCATTG
* *
42232722 GGATAGTAAACACAGGG-TAGTCTATCG
1 GGATAGTAAACACAGGGCTAGTCCATTG
* * *
42232749 AGATAG-AAA-ATATGGGTTAGTCCATTG
1 GGATAGTAAACACA-GGGCTAGTCCATTG
*
42232776 GGACAGTAAACACA
1 GGATAGTAAACACA
42232790 TTGTTACATT
Statistics
Matches: 72, Mismatches: 17, Indels: 10
0.73 0.17 0.10
Matches are distributed among these distances:
25 2 0.03
26 9 0.12
27 53 0.74
28 6 0.08
29 2 0.03
ACGTcount: A:0.39, C:0.12, G:0.26, T:0.23
Consensus pattern (28 bp):
GGATAGTAAACACAGGGCTAGTCCATTG
Found at i:42232764 original size:54 final size:54
Alignment explanation
Indices: 42232668--42232789 Score: 156
Period size: 54 Copynumber: 2.3 Consensus size: 54
42232658 TAGTTCGCTA
* * *
42232668 GGATAGTAAACAAAGGGTAGTCCATTGAGAAAATAAACATGGGCTAGTCTATTG
1 GGATAGTAAACACAGGGTAGTCCATCGAGAAAATAAACATGGGCTAGTCCATTG
* * * *
42232722 GGATAGTAAACACAGGGTAGTCTATCGAGATAGA-AAATATGGGTTAGTCCATTG
1 GGATAGTAAACACAGGGTAGTCCATCGAGA-AAATAAACATGGGCTAGTCCATTG
*
42232776 GGACAGTAAACACA
1 GGATAGTAAACACA
42232790 TTGTTACATT
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
54 57 0.97
55 2 0.03
ACGTcount: A:0.39, C:0.12, G:0.26, T:0.23
Consensus pattern (54 bp):
GGATAGTAAACACAGGGTAGTCCATCGAGAAAATAAACATGGGCTAGTCCATTG
Found at i:42238399 original size:27 final size:27
Alignment explanation
Indices: 42238369--42238437 Score: 66
Period size: 27 Copynumber: 2.6 Consensus size: 27
42238359 GTTGGGATAG
* *
42238369 TAAATACGAAGTAGTCTATTGGAACAA
1 TAAATACGAAGTAGTCTATCGAAACAA
* * ** *
42238396 TAAAAATGGGGTAGTCTATCGAAACAG
1 TAAATACGAAGTAGTCTATCGAAACAA
*
42238423 TAAATTCGAAGTAGT
1 TAAATACGAAGTAGT
42238438 TCGTTGGGAC
Statistics
Matches: 30, Mismatches: 12, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.42, C:0.10, G:0.22, T:0.26
Consensus pattern (27 bp):
TAAATACGAAGTAGTCTATCGAAACAA
Found at i:42247063 original size:23 final size:22
Alignment explanation
Indices: 42247037--42247079 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
42247027 TTAAAGCTAC
42247037 AAAAGATGAGGATTATGTGAGGA
1 AAAAG-TGAGGATTATGTGAGGA
* *
42247060 AAAAGTGAGGGTTCTGTGAG
1 AAAAGTGAGGATTATGTGAG
42247080 TACCCTAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.37, C:0.02, G:0.37, T:0.23
Consensus pattern (22 bp):
AAAAGTGAGGATTATGTGAGGA
Found at i:42249012 original size:18 final size:18
Alignment explanation
Indices: 42248975--42249018 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
42248965 CATAGTTTGG
*
42248975 CAAATTAATATAGTTCAC
1 CAAATTAATACAGTTCAC
*
42248993 CATATTAATACAGATT-AC
1 CAAATTAATACAG-TTCAC
42249011 CAAATTAA
1 CAAATTAA
42249019 CACAATTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 20 0.91
19 2 0.09
ACGTcount: A:0.48, C:0.16, G:0.05, T:0.32
Consensus pattern (18 bp):
CAAATTAATACAGTTCAC
Found at i:42249452 original size:28 final size:28
Alignment explanation
Indices: 42249347--42249458 Score: 89
Period size: 28 Copynumber: 3.8 Consensus size: 28
42249337 ATATATAATC
*
42249347 AACCATGAATATATATTATATATATAATACCAA
1 AACCATGCATATATATTATATA-A-AAT---AA
** * *
42249380 AATCCATTAATATATACTATGTAAAATAA
1 AA-CCATGCATATATATTATATAAAATAA
* *
42249409 AGCCATGCATATATATTATATAAGATAA
1 AACCATGCATATATATTATATAAAATAA
* *
42249437 AATCATGCATATATATAATATA
1 AACCATGCATATATATTATATA
42249459 TGTATAACCA
Statistics
Matches: 66, Mismatches: 12, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
28 40 0.61
29 3 0.05
32 3 0.05
33 3 0.05
34 17 0.26
ACGTcount: A:0.50, C:0.11, G:0.05, T:0.34
Consensus pattern (28 bp):
AACCATGCATATATATTATATAAAATAA
Found at i:42249497 original size:26 final size:24
Alignment explanation
Indices: 42249447--42249516 Score: 68
Period size: 26 Copynumber: 2.8 Consensus size: 24
42249437 AATCATGCAT
* *
42249447 ATATATAATATATGTATAACCACCC
1 ATATAT-ATATATATATAACAACCC
* *
42249472 ACGTGTATATATATATATCACAACCC
1 A--TATATATATATATATAACAACCC
42249498 ATATATATATAATATATAA
1 ATATATATAT-ATATATAA
42249517 GATGCATATA
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
24 8 0.22
25 8 0.22
26 16 0.44
27 4 0.11
ACGTcount: A:0.46, C:0.16, G:0.04, T:0.34
Consensus pattern (24 bp):
ATATATATATATATATAACAACCC
Found at i:42255242 original size:54 final size:56
Alignment explanation
Indices: 42255179--42255312 Score: 159
Period size: 54 Copynumber: 2.5 Consensus size: 56
42255169 AGTGGCAATT
* **
42255179 GAAGACCATATAGTGTAAGCCCTAGTCGTTAA-CTATGGCATCAAATGGGGAAA-A
1 GAAGACCATATAGTGTAAGACCTAGTCCATAAGCTATGGCATCAAATGGGGAAACA
* ** *
42255233 GAAGACCATATAGTCTAAGGTCTAG-CCATAAGCTATGGCATCATATGGGGAAACA
1 GAAGACCATATAGTGTAAGACCTAGTCCATAAGCTATGGCATCAAATGGGGAAACA
* *
42255288 -AAGACCACATTGTGTAAGACCTAGT
1 GAAGACCATATAGTGTAAGACCTAGT
42255313 TTGAGACTAT
Statistics
Matches: 66, Mismatches: 11, Indels: 5
0.80 0.13 0.06
Matches are distributed among these distances:
53 4 0.06
54 61 0.92
55 1 0.02
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.22
Consensus pattern (56 bp):
GAAGACCATATAGTGTAAGACCTAGTCCATAAGCTATGGCATCAAATGGGGAAACA
Found at i:42255481 original size:31 final size:31
Alignment explanation
Indices: 42255443--42255602 Score: 118
Period size: 31 Copynumber: 5.2 Consensus size: 31
42255433 AAGTGATGTT
42255443 TTTGTGGCTGAATCTATTATATGTGGAAGCC
1 TTTGTGGCTGAATCTATTATATGTGGAAGCC
* * *
42255474 TTTGTGGCT-ATTCTTTATTATATAT-G-AGCA
1 TTTGTGGCTGAATC--TATTATATGTGGAAGCC
* *
42255504 TTTATGGCTAAATCTATTATATGTGGAAGCC
1 TTTGTGGCTGAATCTATTATATGTGGAAGCC
* **
42255535 TTTGTGGTTGTTCTCTATTATATG-GG-AGCC
1 TTTGTGGCTG-AATCTATTATATGTGGAAGCC
* * * *
42255565 ATAT-TGAC-GAAACATATTATATATGGAAGCC
1 -TTTGTGGCTGAATC-TATTATATGTGGAAGCC
42255596 TTTGTGG
1 TTTGTGG
42255603 TTGTTCTCGG
Statistics
Matches: 97, Mismatches: 21, Indels: 22
0.69 0.15 0.16
Matches are distributed among these distances:
28 1 0.01
29 18 0.19
30 25 0.26
31 33 0.34
32 20 0.21
ACGTcount: A:0.25, C:0.12, G:0.22, T:0.41
Consensus pattern (31 bp):
TTTGTGGCTGAATCTATTATATGTGGAAGCC
Found at i:42255554 original size:32 final size:31
Alignment explanation
Indices: 42255455--42255558 Score: 104
Period size: 32 Copynumber: 3.4 Consensus size: 31
42255445 TGTGGCTGAA
42255455 TCTATTATATGTGGAAGCCTTTGTGGCTATTC
1 TCTATTATATGTGGAAGCCTTTGTGGCT-TTC
* * * * ***
42255487 TTTATTATATAT-G-AGCATTTATGGCTAAA
1 TCTATTATATGTGGAAGCCTTTGTGGCTTTC
*
42255516 TCTATTATATGTGGAAGCCTTTGTGGTTGTTC
1 TCTATTATATGTGGAAGCCTTTGTGGCT-TTC
42255548 TCTATTATATG
1 TCTATTATATG
42255559 GGAGCCATAT
Statistics
Matches: 54, Mismatches: 15, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
29 10 0.19
30 12 0.22
31 11 0.20
32 21 0.39
ACGTcount: A:0.23, C:0.12, G:0.19, T:0.46
Consensus pattern (31 bp):
TCTATTATATGTGGAAGCCTTTGTGGCTTTC
Found at i:42255554 original size:61 final size:61
Alignment explanation
Indices: 42255447--42255610 Score: 206
Period size: 61 Copynumber: 2.7 Consensus size: 61
42255437 GATGTTTTTG
* * * * * *
42255447 TGGCTGAATCTATTATATGTGGAAGCCTTTGTGGCTATTCTTTATTATATATGAG-CATTT
1 TGGCTAAATCTATTATATGTGGAAGCCTTTGTGGTTGTTCTCTATTATATAGGAGCCATAT
*
42255507 ATGGCTAAATCTATTATATGTGGAAGCCTTTGTGGTTGTTCTCTATTATATGGGAGCCATAT
1 -TGGCTAAATCTATTATATGTGGAAGCCTTTGTGGTTGTTCTCTATTATATAGGAGCCATAT
* * *
42255569 TGACGAAA-CATATTATATATGGAAGCCTTTGTGGTTGTTCTC
1 TGGCTAAATC-TATTATATGTGGAAGCCTTTGTGGTTGTTCTC
42255611 GGATACATGT
Statistics
Matches: 91, Mismatches: 10, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
60 1 0.01
61 86 0.95
62 4 0.04
ACGTcount: A:0.24, C:0.13, G:0.21, T:0.41
Consensus pattern (61 bp):
TGGCTAAATCTATTATATGTGGAAGCCTTTGTGGTTGTTCTCTATTATATAGGAGCCATAT
Found at i:42255680 original size:62 final size:61
Alignment explanation
Indices: 42255457--42255687 Score: 198
Period size: 61 Copynumber: 3.8 Consensus size: 61
42255447 TGGCTGAATC
* * * * * ** * *
42255457 TATTATATGTGGAAGCCTTTGTGGCTATTCTTTATTATATATGAG-CATTTATGGCTAAATC-
1 TATTATATGTGGAAGCCTTTGTGGTTGTTCTCTATTACATGTGAGCCATAGA-GAC-AAAACA
* * ** *
42255518 TATTATATGTGGAAGCCTTTGTGGTTGTTCTCTATTATATGGGAGCCATATTGACGAAACA
1 TATTATATGTGGAAGCCTTTGTGGTTGTTCTCTATTACATGTGAGCCATAGAGACAAAACA
* * * * *
42255579 TATTATATATGGAAGCCTTTGTGGTTGTTCTCGGA-TACATGTGATCCCTAGAGGCAAAAGCA
1 TATTATATGTGGAAGCCTTTGTGGTTGTTCTC-TATTACATGTGAGCCATAGAGACAAAA-CA
* * * *
42255641 TGTTATATGTGGAAGCCTTTATGGTCGTTCTCTATTACATGTAAGCC
1 TATTATATGTGGAAGCCTTTGTGGTTGTTCTCTATTACATGTGAGCC
42255688 TTCGTGGCGA
Statistics
Matches: 138, Mismatches: 27, Indels: 9
0.79 0.16 0.05
Matches are distributed among these distances:
60 3 0.02
61 90 0.65
62 45 0.33
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.39
Consensus pattern (61 bp):
TATTATATGTGGAAGCCTTTGTGGTTGTTCTCTATTACATGTGAGCCATAGAGACAAAACA
Found at i:42255842 original size:30 final size:30
Alignment explanation
Indices: 42255770--42255844 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 30
42255760 TGAATGAATT
* * *
42255770 TGGATGCCCTTGTTGCTATCTAATGATGTG
1 TGGATGCCTTTGTGGCTATCTAATGATGTA
***
42255800 TGGGCACCTTTGTGGCTATCTAATGATGTA
1 TGGATGCCTTTGTGGCTATCTAATGATGTA
*
42255830 TGGATGCGTTTGTGG
1 TGGATGCCTTTGTGG
42255845 ATATTTAAGT
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.16, C:0.15, G:0.31, T:0.39
Consensus pattern (30 bp):
TGGATGCCTTTGTGGCTATCTAATGATGTA
Found at i:42259644 original size:20 final size:20
Alignment explanation
Indices: 42259621--42259697 Score: 95
Period size: 20 Copynumber: 3.9 Consensus size: 20
42259611 AAGATGATGA
42259621 ACCATTTCATTTACTTACTT
1 ACCATTTCATTTACTTACTT
*
42259641 ACCATTCCATTTACTTACTCT
1 ACCATTTCATTTACTTACT-T
*
42259662 -TCACTTT-ATTTACTTACTT
1 ACCA-TTTCATTTACTTACTT
*
42259681 TCCATTTCATTTACTTA
1 ACCATTTCATTTACTTA
42259698 GCATAAGTTT
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
19 4 0.08
20 42 0.86
21 3 0.06
ACGTcount: A:0.23, C:0.26, G:0.00, T:0.51
Consensus pattern (20 bp):
ACCATTTCATTTACTTACTT
Found at i:42272338 original size:30 final size:30
Alignment explanation
Indices: 42272281--42272342 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
42272271 GTTTTTTGAA
* *
42272281 AATATTTACAAAAAGAGGCATCTAATTTTT
1 AATATTTACAAAAAGAGGCACCAAATTTTT
42272311 AATATTTACAAAAAGA-GCAACCAAATTTTT
1 AATATTTACAAAAAGAGGC-ACCAAATTTTT
42272341 AA
1 AA
42272343 AAATAATTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 2 0.07
30 27 0.93
ACGTcount: A:0.48, C:0.11, G:0.08, T:0.32
Consensus pattern (30 bp):
AATATTTACAAAAAGAGGCACCAAATTTTT
Found at i:42280978 original size:43 final size:43
Alignment explanation
Indices: 42280894--42280996 Score: 118
Period size: 43 Copynumber: 2.4 Consensus size: 43
42280884 ATTATAGGTC
* *
42280894 CACACGGCCT-GAGACACAGGCGTGTGACTCAGCCATATGTGA
1 CACACGGCCTGGAGACACAGGCGCGTCACTCAGCCATATGTGA
* * * * *
42280936 CACACGGCCTGGCGACATAGTCGCGTCACTCAGCCGTGTGTGA
1 CACACGGCCTGGAGACACAGGCGCGTCACTCAGCCATATGTGA
* *
42280979 CACATGGCCTGGTGACAC
1 CACACGGCCTGGAGACAC
42280997 GGTCGTGTGT
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
42 10 0.20
43 40 0.80
ACGTcount: A:0.22, C:0.31, G:0.29, T:0.17
Consensus pattern (43 bp):
CACACGGCCTGGAGACACAGGCGCGTCACTCAGCCATATGTGA
Found at i:42286215 original size:177 final size:179
Alignment explanation
Indices: 42285919--42286279 Score: 600
Period size: 177 Copynumber: 2.0 Consensus size: 179
42285909 TTAACTCTTA
*
42285919 AGTTGTGCTCAATGTTTGATCATGAGTGGTAGTAATTGGTTTGGATCTAAGCATGGTGTTTGAAG
1 AGTTGTGCTCAATGTTTGATCATGAATGGTAGTAATTGGTTTGGATCTAAGCATGGTGTTTGAAG
42285984 TCAAGGTAAGCAAATTCAATGTGTGTGTATGGTGGCTTGTATGTTTGACTTAAGAGATG-A-AGA
66 TCAAGGTAAGCAAATTCAATGTGTGTGTATGGTGGCTTGTATGTTTGACTTAAGAGATGAATAGA
* *
42286047 AGCACTATGTGATGTGAATTTTGAAAGAAAACTTAGTTAAGTTTAGGTG
131 AGCACTATGTGATGAGAATTTTGAAAGAAAACTTAGTTAAGTCTAGGTG
* *
42286096 AGTTGTGCTCAATGTTTGATCATGAATGGTAGTAATTGGTTTGGATCTAGGCATGGTGTTTGAGG
1 AGTTGTGCTCAATGTTTGATCATGAATGGTAGTAATTGGTTTGGATCTAAGCATGGTGTTTGAAG
* *
42286161 TCAAGGTTAGCAAATTCAATGTGTGTGTATGGTGGCTTGTATGTTTGACTTAAGATATGAATATT
66 TCAAGGTAAGCAAATTCAATGTGTGTGTATGGTGGCTTGTATGTTTGACTTAAGAGATG-A-A-T
* *
42286226 ATAAGCACTATGTGATGAGATTTTTGAAAGAAAACTTAGTTAAGTCTAGGTG
128 AGAAGCACTATGTGATGAGAATTTTGAAAGAAAACTTAGTTAAGTCTAGGTG
42286278 AG
1 AG
42286280 CGCAATTGGC
Statistics
Matches: 170, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
177 119 0.70
180 1 0.01
182 50 0.29
ACGTcount: A:0.29, C:0.07, G:0.28, T:0.36
Consensus pattern (179 bp):
AGTTGTGCTCAATGTTTGATCATGAATGGTAGTAATTGGTTTGGATCTAAGCATGGTGTTTGAAG
TCAAGGTAAGCAAATTCAATGTGTGTGTATGGTGGCTTGTATGTTTGACTTAAGAGATGAATAGA
AGCACTATGTGATGAGAATTTTGAAAGAAAACTTAGTTAAGTCTAGGTG
Found at i:42286470 original size:21 final size:20
Alignment explanation
Indices: 42286442--42286482 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
42286432 CGATAGAAGT
*
42286442 CCAGGTTGTATCAGTAGAAC
1 CCAGGTTGTACCAGTAGAAC
*
42286462 CCAGAGTTGTACCGGTAGAAC
1 CCAG-GTTGTACCAGTAGAAC
42286483 TCTTAGTTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.22
Consensus pattern (20 bp):
CCAGGTTGTACCAGTAGAAC
Found at i:42286958 original size:54 final size:54
Alignment explanation
Indices: 42286844--42286965 Score: 133
Period size: 54 Copynumber: 2.3 Consensus size: 54
42286834 ACTAGCTGTT
* ** *
42286844 GACTATGACATCATATGGGGAAAATAAGACAATATAGTGTAAGGTCTAGTCGTTA
1 GACTATGGCATCATATGGGGAAAATAAGACAATATAGTGTAAGACCTAATCG-TA
* *
42286899 G-CTATGGCATCATATGGGG-AAATGAAGACCATATTGTGTAAGACCTAATC-TA
1 GACTATGGCATCATATGGGGAAAAT-AAGACAATATAGTGTAAGACCTAATCGTA
*
42286951 GGACTATGGCGTCAT
1 -GACTATGGCATCAT
42286966 CTGGAAATGA
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
52 2 0.04
53 5 0.09
54 49 0.86
55 1 0.02
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (54 bp):
GACTATGGCATCATATGGGGAAAATAAGACAATATAGTGTAAGACCTAATCGTA
Found at i:42294769 original size:101 final size:101
Alignment explanation
Indices: 42294627--42294839 Score: 291
Period size: 101 Copynumber: 2.1 Consensus size: 101
42294617 TATTCAAACG
* ** *
42294627 TAAGACCATGGTTTGACCATGGCAATGTTTATATGTAAGACCACAGCTGGGCTATGGCATTCCGA
1 TAAGACCATGGTTGGACCATGGCAACATTTATACGTAAGACCACAGCTGGGCTATGGCATTCCGA
* * *
42294692 TGATAAGACCATGATTAGGTTATGGCACTATGGACA
66 TGATAAGACCATAACTAGGTTATGGCACTATGAACA
** * * *
42294728 TAAGACCATGGTTGGACCATGGCGGCATTTATACGTAAGACCATAGTTGGGCTATGGCATTCTGA
1 TAAGACCATGGTTGGACCATGGCAACATTTATACGTAAGACCACAGCTGGGCTATGGCATTCCGA
* **
42294793 TGATAAGACCATAACTGGGTTATGGCACTATGAATG
66 TGATAAGACCATAACTAGGTTATGGCACTATGAACA
42294829 TAAGACCATGG
1 TAAGACCATGG
42294840 CCCTGTAAGA
Statistics
Matches: 97, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
101 97 1.00
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (101 bp):
TAAGACCATGGTTGGACCATGGCAACATTTATACGTAAGACCACAGCTGGGCTATGGCATTCCGA
TGATAAGACCATAACTAGGTTATGGCACTATGAACA
Found at i:42294805 original size:33 final size:33
Alignment explanation
Indices: 42294655--42294837 Score: 101
Period size: 33 Copynumber: 5.5 Consensus size: 33
42294645 ATGGCAATGT
* *
42294655 TTAT-ATG-TAAGACCACAGCTGGGCTATGGCA
1 TTATGATGATAAGACCATAGTTGGGCTATGGCA
** * *
42294686 TTCCGATGATAAGACCAT-GATTAGGTTATGGCA
1 TTATGATGATAAGACCATAG-TTGGGCTATGGCA
* * * * *
42294719 CTATGGA-CATAAGACCATGGTTGGACCATGGCGGCA
1 TTAT-GATGATAAGACCATAGTTGGGCTAT---GGCA
*
42294755 TTTAT-ACG-TAAGACCATAGTTGGGCTATGGCA
1 -TTATGATGATAAGACCATAGTTGGGCTATGGCA
* ** *
42294787 TTCTGATGATAAGACCATAACTGGGTTATGGCA
1 TTATGATGATAAGACCATAGTTGGGCTATGGCA
*
42294820 CTATGAATG-TAAGACCAT
1 TTATG-ATGATAAGACCAT
42294838 GGCCCTGTAA
Statistics
Matches: 113, Mismatches: 26, Indels: 24
0.69 0.16 0.15
Matches are distributed among these distances:
31 5 0.04
32 10 0.09
33 67 0.59
34 6 0.05
35 18 0.16
36 4 0.04
37 3 0.03
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.27
Consensus pattern (33 bp):
TTATGATGATAAGACCATAGTTGGGCTATGGCA
Found at i:42300500 original size:19 final size:19
Alignment explanation
Indices: 42300437--42300501 Score: 53
Period size: 19 Copynumber: 3.2 Consensus size: 19
42300427 AAATCTATCT
42300437 TTTTTATATATTTT-ATAGTAA
1 TTTTTATA-ATTTTAATA--AA
*
42300458 TTTCTATATATTTTTAA-AACA
1 TTT-T-TATAATTTTAATAA-A
42300479 TTTTTATAATTTTAATAAA
1 TTTTTATAATTTTAATAAA
42300498 TTTT
1 TTTT
42300502 ATCTATATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 12
0.73 0.04 0.24
Matches are distributed among these distances:
19 15 0.41
20 4 0.11
21 7 0.19
22 6 0.16
23 5 0.14
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.60
Consensus pattern (19 bp):
TTTTTATAATTTTAATAAA
Found at i:42300513 original size:21 final size:21
Alignment explanation
Indices: 42300487--42300567 Score: 58
Period size: 21 Copynumber: 3.8 Consensus size: 21
42300477 CATTTTTATA
42300487 ATTTTAATAAATTTTATCTAT
1 ATTTTAATAAATTTTATCTAT
** *
42300508 ATTTT-ATATTTATTTATTTAT
1 ATTTTAATAAAT-TTTATCTAT
* *
42300529 AAATTTTAAGATATTTT-TCTAT
1 --ATTTTAATAAATTTTATCTAT
*
42300551 ATTTTTATAAAATTTTA
1 ATTTTAAT-AAATTTTA
42300568 ATGTTTTTAT
Statistics
Matches: 45, Mismatches: 9, Indels: 11
0.69 0.14 0.17
Matches are distributed among these distances:
20 10 0.22
21 19 0.42
22 4 0.09
23 8 0.18
24 4 0.09
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.60
Consensus pattern (21 bp):
ATTTTAATAAATTTTATCTAT
Found at i:42300521 original size:11 final size:11
Alignment explanation
Indices: 42300436--42300559 Score: 68
Period size: 10 Copynumber: 11.8 Consensus size: 11
42300426 AAAATCTATC
*
42300436 TTTTTTATATA
1 TTTTATATATA
42300447 TTTTATAGTA-A
1 TTTTATA-TATA
42300458 TTTCTATATAT-
1 TTT-TATATATA
* *
42300469 TTTTA-AAACA
1 TTTTATATATA
42300479 TTTT-TATA-A
1 TTTTATATATA
*
42300488 TTTTA-ATAAA
1 TTTTATATATA
*
42300498 TTTTATCTATA
1 TTTTATATATA
*
42300509 TTTTATATTTA
1 TTTTATATATA
* *
42300520 TTTATTTATAAA
1 TTT-TATATATA
*
42300532 TTTTA-AGATA
1 TTTTATATATA
*
42300542 TTTT-TCTATA
1 TTTTATATATA
42300552 TTTT-TATA
1 TTTTATATA
42300560 AAATTTTAAT
Statistics
Matches: 86, Mismatches: 17, Indels: 21
0.69 0.14 0.17
Matches are distributed among these distances:
9 10 0.12
10 31 0.36
11 31 0.36
12 14 0.16
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (11 bp):
TTTTATATATA
Found at i:42300589 original size:17 final size:18
Alignment explanation
Indices: 42300552--42300601 Score: 66
Period size: 17 Copynumber: 2.8 Consensus size: 18
42300542 TTTTTCTATA
*
42300552 TTTTTATAAAATTTTAATG
1 TTTTTAT-AATTTTTAATG
*
42300571 TTTTTAT-ATTTTTAGTG
1 TTTTTATAATTTTTAATG
42300588 TTTTTATAATTTTT
1 TTTTTATAATTTTT
42300602 TTAAATATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 15 0.54
18 6 0.21
19 7 0.25
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (18 bp):
TTTTTATAATTTTTAATG
Found at i:42301109 original size:11 final size:10
Alignment explanation
Indices: 42301074--42301130 Score: 53
Period size: 11 Copynumber: 5.5 Consensus size: 10
42301064 AAATTTTTAA
*
42301074 TTTTTTAACT
1 TTTTTTAAAT
* *
42301084 TTCTTTATAT
1 TTTTTTAAAT
42301094 ATTTTTTAGAAT
1 -TTTTTTA-AAT
42301106 TTTTTTAAA-
1 TTTTTTAAAT
42301115 TTTTTTATAAT
1 TTTTTTA-AAT
42301126 TTTTT
1 TTTTT
42301131 AAAAAATTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
9 7 0.18
10 11 0.29
11 18 0.47
12 2 0.05
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.70
Consensus pattern (10 bp):
TTTTTTAAAT
Found at i:42301117 original size:20 final size:19
Alignment explanation
Indices: 42301067--42301203 Score: 68
Period size: 19 Copynumber: 7.2 Consensus size: 19
42301057 TTCTAGAAAA
*
42301067 TTTTT-AATTTTTTAACTT
1 TTTTTAAATTTTTTAAATT
*
42301085 TCTTTATATATTTTTTAGAATT
1 T-TTT-TAAATTTTTTA-AATT
42301107 TTTTTAAATTTTTTATAA-T
1 TTTTTAAATTTTTTA-AATT
***
42301126 TTTTTAAAAAATTTAAA--
1 TTTTTAAATTTTTTAAATT
* * *
42301143 TTTTGAATTTTTTTATAAAT
1 TTTTTAAATTTTTTA-AATT
* **
42301163 ATTTTAAATTTTAGAAATT
1 TTTTTAAATTTTTTAAATT
* *
42301182 GTTTTGAATTTTTGT-AATT
1 TTTTTAAATTTTT-TAAATT
42301201 TTT
1 TTT
42301204 GTTGAGAGAA
Statistics
Matches: 88, Mismatches: 23, Indels: 15
0.70 0.18 0.12
Matches are distributed among these distances:
17 10 0.11
18 5 0.06
19 35 0.40
20 23 0.26
21 11 0.12
22 4 0.05
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.63
Consensus pattern (19 bp):
TTTTTAAATTTTTTAAATT
Found at i:42301118 original size:9 final size:9
Alignment explanation
Indices: 42301067--42301203 Score: 73
Period size: 9 Copynumber: 14.4 Consensus size: 9
42301057 TTCTAGAAAA
42301067 TTTTT-AAT
1 TTTTTAAAT
*
42301075 TTTTTAACT
1 TTTTTAAAT
42301084 TTCTTTATATAT
1 TT-TTTA-A-AT
42301096 TTTTTAGAATT
1 TTTTTA-AA-T
42301107 TTTTTAAAT
1 TTTTTAAAT
42301116 TTTTTATAAT
1 TTTTTA-AAT
*
42301126 TTTTTAAAA
1 TTTTTAAAT
**
42301135 AATTTAAA-
1 TTTTTAAAT
* *
42301143 TTTTGAATTT
1 TTTTTAA-AT
42301153 TTTTATAAAT
1 TTTT-TAAAT
*
42301163 ATTTTAAAT
1 TTTTTAAAT
**
42301172 TTTAGAAAT
1 TTTTTAAAT
*
42301181 TGTTTTGAAT
1 T-TTTTAAAT
42301191 TTTTGT-AAT
1 TTTT-TAAAT
42301200 TTTT
1 TTTT
42301204 GTTGAGAGAA
Statistics
Matches: 99, Mismatches: 19, Indels: 21
0.71 0.14 0.15
Matches are distributed among these distances:
8 9 0.09
9 41 0.41
10 31 0.31
11 15 0.15
12 3 0.03
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.63
Consensus pattern (9 bp):
TTTTTAAAT
Found at i:42303542 original size:19 final size:19
Alignment explanation
Indices: 42303518--42303589 Score: 99
Period size: 19 Copynumber: 3.7 Consensus size: 19
42303508 AATCTTCAAG
42303518 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
42303537 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* *
42303556 GATATATGGAATCTTGGATAT
1 G--ATATGCAATCTTAGATAT
*
42303577 GATATACAATCTT
1 GATATGCAATCTT
42303590 GGAAGATATG
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
19 30 0.64
21 17 0.36
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:42303568 original size:21 final size:21
Alignment explanation
Indices: 42303519--42303615 Score: 96
Period size: 19 Copynumber: 4.7 Consensus size: 21
42303509 ATCTTCAAGG
42303519 ATATGCAATCTTAGATATG--
1 ATATGCAATCTTAGATATGAT
42303538 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
* *
42303559 ATATGGAATCTTGGATATGAT
1 ATATGCAATCTTAGATATGAT
42303580 ATA--CAATCTTGGAAGATATGAT
1 ATATGCAATCTT---AGATATGAT
* *
42303602 -TTTGTAATCTTAGA
1 ATATGCAATCTTAGA
42303616 GATTTAATTT
Statistics
Matches: 65, Mismatches: 6, Indels: 13
0.77 0.07 0.15
Matches are distributed among these distances:
19 25 0.38
20 3 0.05
21 23 0.35
22 8 0.12
23 6 0.09
ACGTcount: A:0.36, C:0.08, G:0.18, T:0.38
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:42303569 original size:40 final size:41
Alignment explanation
Indices: 42303519--42303615 Score: 117
Period size: 40 Copynumber: 2.4 Consensus size: 41
42303509 ATCTTCAAGG
*
42303519 ATATGCAATCTTAGATATGATATGCAATCTT-AGATATGAT
1 ATATGCAATCTTAGATATGATATACAATCTTGAGATATGAT
* *
42303559 ATATGGAATCTTGGATATGATATACAATCTTGGAAGATATGAT
1 ATATGCAATCTTAGATATGATATACAATCTT-G-AGATATGAT
* *
42303602 -TTTGTAATCTTAGA
1 ATATGCAATCTTAGA
42303616 GATTTAATTT
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
40 28 0.58
42 11 0.23
43 9 0.19
ACGTcount: A:0.36, C:0.08, G:0.18, T:0.38
Consensus pattern (41 bp):
ATATGCAATCTTAGATATGATATACAATCTTGAGATATGAT
Found at i:42310636 original size:88 final size:88
Alignment explanation
Indices: 42310487--42311537 Score: 1516
Period size: 88 Copynumber: 12.0 Consensus size: 88
42310477 GAAATCACAA
* *
42310487 AGCCTTGCCTCCCTAGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTATCGA
*
42310552 CAGCGAAGCAGATCGAAGATACC
66 CAGTGAAGCAGATCGAAGATACC
*
42310575 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTATCGA
*
42310640 CAGCGAAGCAGATCGAAGATACC
66 CAGTGAAGCAGATCGAAGATACC
* * **
42310663 AGCTTTGCCTCCCTGGGTTGTAGTGGCGCAGGTTGAAGATAGCAGATCTTGCCTTCCTACATCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTATCGA
42310728 CAGTGAAGCAGATCGAAGATACC
66 CAGTGAAGCAGATCGAAGATACC
** ** *
42310751 AGCCTTGCCTCCCT-ATTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTACATCAA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTATCGA
** *
42310815 CAGCAAAGCAGATTGAAGATACC
66 CAGTGAAGCAGATCGAAGATACC
** * *
42310838 AGCCTTATCTCCCTGGGTCGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTATCGA
* *
42310903 CAGTGAAGCAAATCGAAGATACT
66 CAGTGAAGCAGATCGAAGATACC
* * *
42310926 AGCCTTGCCTCCCTGGGTCGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTTCTGCATCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTATCGA
* *
42310991 CAGCGAAACAGATCGAAGATACC
66 CAGTGAAGCAGATCGAAGATACC
** * * *
42311014 AGCCTTGCCTCCCT-ATTTGTAATGGAGCAGGTTGAAGATAGCATATCTTACCTTCCTGTA-CTG
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTATC-G
*
42311077 ACAGTGAAGCAGATCGAAGATATC
65 ACAGTGAAGCAGATCGAAGATACC
* * * *
42311101 AGTCTTCCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGAAGATCTTGCCTTCCTGTAACGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTATCGA
*
42311166 CAGCGAAGCAGATCGAAGATACC
66 CAGTGAAGCAGATCGAAGATACC
* *
42311189 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGTAGATCTTGCCTTCCTGTACCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTATCGA
42311254 CAGTGAAGCAGATCGAAGATACC
66 CAGTGAAGCAGATCGAAGATACC
* * * *
42311277 AGCCTTGCCTCCCTGGGTCGTAGTGGAGTAGGTTGAAGATAGCAGATCTTGCCTTCTTGTACCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTATCGA
42311342 CAGTGAAGCAGATCGAAGATACC
66 CAGTGAAGCAGATCGAAGATACC
* *
42311365 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAAATCTTGCCTTCCTGTACCGA
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTATCGA
*
42311430 CAGTGAAGCAGATCAAAGATACC
66 CAGTGAAGCAGATCGAAGATACC
* * * * * * ** * * *
42311453 AGCCTTGCCTCCCTGGGTTGTCGTGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTATTGG
1 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTATCGA
* *
42311518 C-GTGAAGTAGATCAAAGATA
66 CAGTGAAGCAGATCGAAGATA
42311538 GCAGATCTTG
Statistics
Matches: 874, Mismatches: 85, Indels: 9
0.90 0.09 0.01
Matches are distributed among these distances:
86 1 0.00
87 168 0.19
88 704 0.81
89 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (88 bp):
AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTATCGA
CAGTGAAGCAGATCGAAGATACC
Found at i:42310971 original size:263 final size:263
Alignment explanation
Indices: 42310487--42311502 Score: 1532
Period size: 263 Copynumber: 3.9 Consensus size: 263
42310477 GAAATCACAA
*
42310487 AGCCTTGCCTCCCTAGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGA
1 AGCCTTGCCTCCCTA-GTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTACATCGA
42310552 CAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAG
65 CAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAG
* * *
42310617 CAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGATACCAGCTTTGCCTCCCTGGGTT
130 CAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTT
* *
42310682 GTAGTGGCGCAGGTTGAAGATAGCAGATCTTGCCTTCCTACATCGACAGTGAAGCAGATCGAAGA
195 GTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGA
42310747 TACC
260 TACC
* *
42310751 AGCCTTGCCTCCCTATTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTACATCAAC
1 AGCCTTGCCTCCCTAGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTACATCGAC
* * ** *
42310816 AGCAAAGCAGATTGAAGATACCAGCCTTATCTCCCTGGGTCGTAGTGGAGCAGGTTGAAGATAGC
66 AGCGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGC
* * * *
42310881 AGATCTTGCCTTCCTGTACCGACAGTGAAGCAAATCGAAGATACTAGCCTTGCCTCCCTGGGTCG
131 AGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTTG
* * *
42310946 TAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTTCTGCATCGACAGCGAAACAGATCGAAGAT
196 TAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGAT
42311011 ACC
261 ACC
* * * *
42311014 AGCCTTGCCTCCCTATTTGTAATGGAGCAGGTTGAAGATAGCATATCTTACCTTCCTGTAC-T-G
1 AGCCTTGCCTCCCTAGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCC--TACATCG
* * * *
42311077 ACAGTGAAGCAGATCGAAGATATCAGTCTTCCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATA
64 ACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATA
* *
42311142 GAAGATCTTGCCTTCCTGTAACGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGT
129 GCAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGT
* * *
42311207 TGTAGTGGAGCAGGTTGAAGATAGTAGATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCGAAG
194 TGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAG
42311272 ATACC
259 ATACC
* * * * ** *
42311277 AGCCTTGCCTCCCTGGGTCGTAGTGGAGTAGGTTGAAGATAGCAGATCTTGCCTTCTTGTACCGA
1 AGCCTTGCCTCCCT-AGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTACATCGA
*
42311342 CAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAG
65 CAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAG
* * *
42311407 CAAATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCAAAGATACCAGCCTTGCCTCCCTGGGTT
130 CAGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTT
* * * * * *
42311472 GTCGTGAAGTAGATCGAAGAAAGCAGATCTT
195 GTAGTGGAGCAGGTTGAAGATAGCAGATCTT
42311503 ATCTTCATGT
Statistics
Matches: 677, Mismatches: 70, Indels: 10
0.89 0.09 0.01
Matches are distributed among these distances:
262 1 0.00
263 475 0.70
264 198 0.29
265 3 0.00
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (263 bp):
AGCCTTGCCTCCCTAGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTACATCGAC
AGCGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGC
AGATCTTGCCTTCCTGTACCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTTG
TAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGAT
ACC
Found at i:42311150 original size:351 final size:352
Alignment explanation
Indices: 42310487--42311473 Score: 1552
Period size: 351 Copynumber: 2.8 Consensus size: 352
42310477 GAAATCACAA
* * * *
42310487 AGCCTTGCCTCCCTAGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCGA
1 AGCCTTACCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGA
* *
42310552 CAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAG
66 CAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTCGTAGTGGAGCAGGTTGAAGATAG
* *
42310617 CAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGATACCAGCTTTGCCTCCCTGGGTT
131 CAGATCTTGCCTTTCTGCATCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTT
* *
42310682 GTAGTGGCGCAGGTTGAAGATAGCAGATCTTGCCTTCC--TACATCGACAGTGAAGCAGATCGAA
196 GTAGTGGAGCAGGTTGAAGATAGCAAATCTTGCCTTCCTGTAC-T-GACAGTGAAGCAGATCGAA
** *
42310745 GATACCAGCCTTGCCTCCCT-ATTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTA
259 GATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGAAGATCTTGCCTTCCTA
* *
42310809 CATCAACAGCAAAGCAGATTGAAGATACC
324 CAACAACAGCAAAGCAGATCGAAGATACC
* *
42310838 AGCCTTATCTCCCTGGGTCGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGA
1 AGCCTTACCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGA
* *
42310903 CAGTGAAGCAAATCGAAGATACTAGCCTTGCCTCCCTGGGTCGTAGTGGAGCAGGTTGAAGATAG
66 CAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTCGTAGTGGAGCAGGTTGAAGATAG
* **
42310968 CAGATCTTGCCTTTCTGCATCGACAGCGAAACAGATCGAAGATACCAGCCTTGCCTCCCT-ATTT
131 CAGATCTTGCCTTTCTGCATCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTT
* * *
42311032 GTAATGGAGCAGGTTGAAGATAGCATATCTTACCTTCCTGTACTGACAGTGAAGCAGATCGAAGA
196 GTAGTGGAGCAGGTTGAAGATAGCAAATCTTGCCTTCCTGTACTGACAGTGAAGCAGATCGAAGA
* * * **
42311097 TATCAGTCTTCCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGAAGATCTTGCCTTCCTGTA
261 TACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGAAGATCTTGCCTTCCTACA
* *
42311162 ACGACAGCGAAGCAGATCGAAGATACC
326 ACAACAGCAAAGCAGATCGAAGATACC
* *
42311189 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGTAGATCTTGCCTTCCTGTACCGA
1 AGCCTTACCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGA
*
42311254 CAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTCGTAGTGGAGTAGGTTGAAGATAG
66 CAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTCGTAGTGGAGCAGGTTGAAGATAG
* * *
42311319 CAGATCTTGCC-TTCTTGTACCGACAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGT
131 CAGATCTTGCCTTTC-TGCATCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGT
* *
42311383 TGTAGTGGAGCAGGTTGAAGATAGCAAATCTTGCCTTCCTGTACCGACAGTGAAGCAGATCAAAG
195 TGTAGTGGAGCAGGTTGAAGATAGCAAATCTTGCCTTCCTGTACTGACAGTGAAGCAGATCGAAG
42311448 ATACCAGCCTTGCCTCCCTGGGTTGT
260 ATACCAGCCTTGCCTCCCTGGGTTGT
42311474 CGTGAAGTAG
Statistics
Matches: 579, Mismatches: 52, Indels: 9
0.90 0.08 0.01
Matches are distributed among these distances:
350 75 0.13
351 417 0.72
352 87 0.15
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (352 bp):
AGCCTTACCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGA
CAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTCGTAGTGGAGCAGGTTGAAGATAG
CAGATCTTGCCTTTCTGCATCGACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTT
GTAGTGGAGCAGGTTGAAGATAGCAAATCTTGCCTTCCTGTACTGACAGTGAAGCAGATCGAAGA
TACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGAAGATCTTGCCTTCCTACA
ACAACAGCAAAGCAGATCGAAGATACC
Found at i:42311524 original size:44 final size:44
Alignment explanation
Indices: 42311474--42311904 Score: 578
Period size: 44 Copynumber: 9.8 Consensus size: 44
42311464 CCTGGGTTGT
* *
42311474 CGTGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTATTGG
1 CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGG
*
42311518 CGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGG
1 CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGG
*** *
42311562 CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGG
1 CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGG
* * *
42311606 TGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
1 -CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGG
*
42311651 CGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGG
1 CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGG
*
42311695 CGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGG
1 CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGG
*** *
42311739 CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGG
1 CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGG
* * * * *
42311783 TGGCGAAGTAAATCGAAGAAAGTAGATCTTGTCTTCATGTATTGG
1 -CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGG
* *
42311828 C--GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATCGG
1 CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGG
* * * * *
42311870 CATGAAATAGATCAAAGGTAGCAGATCTTATCTTC
1 CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTC
42311905 CCATACTGGT
Statistics
Matches: 341, Mismatches: 42, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
42 39 0.11
44 230 0.67
45 72 0.21
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.29
Consensus pattern (44 bp):
CGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCATGTATTGG
Found at i:42311581 original size:176 final size:176
Alignment explanation
Indices: 42310487--42311774 Score: 1283
Period size: 176 Copynumber: 7.3 Consensus size: 176
42310477 GAAATCACAA
* * *
42310487 AGCCTTGCCTCCCTAG-GTTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGCATCG
1 AGCCTTGCCTCCCT-GTATTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCG
* * * * *
42310551 ACAGCGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATA
65 ACAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGAAGTAGATCGAAGATA
* * * *
42310616 GCAGATCTTGCCTTCCTGCATCGACAGCGAAGCAGATCGAAGATACC
130 GCAGATCTTGCCTTCATGTATCGACAGTGAAGCAGATCAAAGATACC
* ** * ** *
42310663 AGCTTTGCCTCCCTGGGTTGTAGTGGCGCAGGTTGAAGATAGCAGATCTTGCCTTCCTACATCGA
1 AGCCTTGCCTCCCTGTATTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGA
** * * * *
42310728 CAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCT-ATTTGTAGTGGAGCAGGTTGAAGATAG
66 CAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGAAGTAGATCGAAGATAG
* ** * ** **
42310792 CAGATCTTGCCTTCCTACATCAACAGCAAAGCAGATTGAAGATACC
131 CAGATCTTGCCTTCATGTATCGACAGTGAAGCAGATCAAAGATACC
** ** *
42310838 AGCCTTATCTCCCTGGGTCGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGA
1 AGCCTTGCCTCCCTGTATTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGA
* * * * * * *
42310903 CAGTGAAGCAAATCGAAGATACTAGCCTTGCCTCCCTGGGTCGTAGTGGAGCAGGTTGAAGATAG
66 CAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGAAGTAGATCGAAGATAG
* * * *
42310968 CAGATCTTGCCTTTC-TGCATCGACAGCGAAACAGATCGAAGATACC
131 CAGATCTTGCC-TTCATGTATCGACAGTGAAGCAGATCAAAGATACC
* * * * *
42311014 AGCCTTGCCTCCCTAT-TTGTAATGGAGCAGGTTGAAGATAGCATATCTTACCTTCCTGTACTGA
1 AGCCTTGCCTCCCTGTATTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGA
* * * * * * *
42311078 CAGTGAAGCAGATCGAAGATATCAGTCTTCCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAG
66 CAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGAAGTAGATCGAAGATAG
* * * * *
42311143 AAGATCTTGCCTTCCTGTAACGACAGCGAAGCAGATCGAAGATACC
131 CAGATCTTGCCTTCATGTATCGACAGTGAAGCAGATCAAAGATACC
** *
42311189 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGTAGATCTTGCCTTCCTGTACCGA
1 AGCCTTGCCTCCCTGTATTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGA
* * * *
42311254 CAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTCGTAGTGGAGTAGGTTGAAGATAG
66 CAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGAAGTAGATCGAAGATAG
* * *
42311319 CAGATCTTGCCTTCTTGTACCGACAGTGAAGCAGATCGAAGATACC
131 CAGATCTTGCCTTCATGTATCGACAGTGAAGCAGATCAAAGATACC
** *
42311365 AGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGTTGAAGATAGCAAATCTTGCCTTCCTGTACCGA
1 AGCCTTGCCTCCCTGTATTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGA
* * *
42311430 CAGTGAAGCAGATCAAAGATACCAGCCTTGCCTCCCTGGGTTGTCGTGAAGTAGATCGAAGAAAG
66 CAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGAAGTAGATCGAAGATAG
** * * * *
42311495 CAGATCTTATCTTCATGTATTGGC-GTGAAGTAGATCAAAGATAGC
131 CAGATCTTGCCTTCATGTATCGACAGTGAAGCAGATCAAAGATACC
* * * * ** * * * * * ** *
42311540 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTG
1 AG-CCTTGCCTCCCTGTATTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCG
*** * * * * * * * * ** ** *
42311605 GTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGAT
65 ACAGTGAAGCAGATCGAAGATACCAG-CCTTGCCTCCCTGGGTTGTAGTGAAGTAGATCGAAGAT
* * * * *
42311670 AGCAGATCTTGTCTTCATGTATTGGC-GTGAAGTAGATCAAAGATAGC
129 AGCAGATCTTGCCTTCATGTATCGACAGTGAAGCAGATCAAAGATACC
* * * * ** * * * * *
42311717 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCC
1 AG-CCTTGCCTCCCTGTATTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCC
42311775 CATACTGGTG
Statistics
Matches: 989, Mismatches: 116, Indels: 13
0.88 0.10 0.01
Matches are distributed among these distances:
174 3 0.00
175 334 0.34
176 516 0.52
177 136 0.14
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (176 bp):
AGCCTTGCCTCCCTGTATTGTAGTGGAGCAGGTTGAAGATAGCAGATCTTGCCTTCCTGTACCGA
CAGTGAAGCAGATCGAAGATACCAGCCTTGCCTCCCTGGGTTGTAGTGAAGTAGATCGAAGATAG
CAGATCTTGCCTTCATGTATCGACAGTGAAGCAGATCAAAGATACC
Found at i:42311641 original size:133 final size:132
Alignment explanation
Indices: 42311477--42311861 Score: 558
Period size: 133 Copynumber: 2.9 Consensus size: 132
42311467 GGGTTGTCGT
*
42311477 GAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAG
1 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAG
*
42311542 ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGT
66 ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCACATACTGG-
*
42311607 GGC
130 CGC
42311610 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAG
1 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAG
* ** *
42311675 ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGGC
66 ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCACATACTGGC
*
42311740 GT
131 GC
* *** * * * * * * *
42311742 GAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACTGGTGGCGAAGTAAATCGAAGAAAGTA
1 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG-CGTGAAGTAGATCAAAGATAGCA
*
42311807 GATCTTGTCTTCATGTATTGGC--GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCA
65 GATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCA
42311862 TGTATCGGCA
Statistics
Matches: 230, Mismatches: 21, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
131 31 0.13
132 37 0.16
133 162 0.70
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.29
Consensus pattern (132 bp):
GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAGCAG
ATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCACATACTGGC
GC
Found at i:42311770 original size:177 final size:177
Alignment explanation
Indices: 42311474--42311904 Score: 758
Period size: 177 Copynumber: 2.4 Consensus size: 177
42311464 CCTGGGTTGT
*
42311474 CGTGAAGTAGATCGAAGAAAGCAGATCTTATCTTCATGTATTGGCGTGAAGTAGATCAAAGATAG
1 CGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAG
42311539 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACT
66 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACT
*
42311604 GGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
131 GGTGGCGAAGTAAATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
* *
42311651 CGTGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAG
1 CGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAG
42311716 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACT
66 CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACT
*
42311781 GGTGGCGAAGTAAATCGAAGAAAGTAGATCTTGTCTTCATGTATTGG
131 GGTGGCGAAGTAAATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
* * * *
42311828 C--GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATCGGCATGAAATAGATCAAAGGTAG
1 CGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAG
*
42311891 CAGATCTTATCTTC
66 CAGATCTTGTCTTC
42311905 CCATACTGGT
Statistics
Matches: 242, Mismatches: 12, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
175 69 0.29
177 173 0.71
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.29
Consensus pattern (177 bp):
CGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCAAAGATAG
CAGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGCAGATCTTGTCTTCCCATACT
GGTGGCGAAGTAAATCGAAGAAAGCAGATCTTGTCTTCATGTATTGG
Found at i:42312323 original size:21 final size:21
Alignment explanation
Indices: 42312278--42312340 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
42312268 ATCTTCAAGG
42312278 ATATGCAATCTTAGATATG--
1 ATATGCAATCTTAGATATGAT
42312297 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
*
42312318 ATATGCAATCTTGGATATGAT
1 ATATGCAATCTTAGATATGAT
42312339 AT
1 AT
42312341 GTAATCTTGG
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
19 19 0.46
21 22 0.54
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.38
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:42312323 original size:40 final size:41
Alignment explanation
Indices: 42312278--42312374 Score: 126
Period size: 40 Copynumber: 2.4 Consensus size: 41
42312268 ATCTTCAAGG
42312278 ATATGCAATCTTAGATATGATATGCAATCTT-AGATATGAT
1 ATATGCAATCTTAGATATGATATGCAATCTTGAGATATGAT
* *
42312318 ATATGCAATCTTGGATATGATATGTAATCTTGGAAGATATGAT
1 ATATGCAATCTTAGATATGATATGCAATCTT-G-AGATATGAT
* *
42312361 -TTTGTAATCTTAGA
1 ATATGCAATCTTAGA
42312375 GATTTAATTT
Statistics
Matches: 49, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
40 29 0.59
42 11 0.22
43 9 0.18
ACGTcount: A:0.35, C:0.08, G:0.18, T:0.39
Consensus pattern (41 bp):
ATATGCAATCTTAGATATGATATGCAATCTTGAGATATGAT
Found at i:42312351 original size:19 final size:19
Alignment explanation
Indices: 42312277--42312348 Score: 108
Period size: 19 Copynumber: 3.7 Consensus size: 19
42312267 AATCTTCAAG
42312277 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
42312296 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
42312315 GATATATGCAATCTTGGATAT
1 G--ATATGCAATCTTAGATAT
*
42312336 GATATGTAATCTT
1 GATATGCAATCTT
42312349 GGAAGATATG
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
19 31 0.63
21 18 0.37
ACGTcount: A:0.35, C:0.10, G:0.17, T:0.39
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:42312384 original size:22 final size:23
Alignment explanation
Indices: 42312340--42312384 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
42312330 GGATATGATA
* *
42312340 TGTAATCTTGGAAGATATGATTT
1 TGTAATCTTAGAAGATATAATTT
*
42312363 TGTAATCTTAG-AGATTTAATTT
1 TGTAATCTTAGAAGATATAATTT
42312385 GTAGATACCC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.31, C:0.04, G:0.18, T:0.47
Consensus pattern (23 bp):
TGTAATCTTAGAAGATATAATTT
Found at i:42317415 original size:20 final size:20
Alignment explanation
Indices: 42317371--42317408 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
42317361 GTATCAAAAT
**
42317371 ATTTATCAATATTTTTAAGG
1 ATTTATCAATATTGATAAGG
42317391 ATTTATCAATATTGATAA
1 ATTTATCAATATTGATAA
42317409 TGTTTTAGGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.05, G:0.08, T:0.47
Consensus pattern (20 bp):
ATTTATCAATATTGATAAGG
Found at i:42317648 original size:33 final size:33
Alignment explanation
Indices: 42317578--42317650 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 33
42317568 AAAGTCAAGT
* *
42317578 TTGAGAAAATTCAACCCCGACAAAGCCCGAGAC
1 TTGAGAAAATTCAACCCCAACAAAACCCGAGAC
* *
42317611 -TGAGAAAATTCGAGCCCCAACAAAACCTGAG-C
1 TTGAGAAAATTC-AACCCCAACAAAACCCGAGAC
42317643 TTGAGAAA
1 TTGAGAAA
42317651 GCCCTAGTCC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
32 12 0.35
33 22 0.65
ACGTcount: A:0.41, C:0.26, G:0.19, T:0.14
Consensus pattern (33 bp):
TTGAGAAAATTCAACCCCAACAAAACCCGAGAC
Found at i:42317996 original size:17 final size:16
Alignment explanation
Indices: 42317976--42318040 Score: 51
Period size: 17 Copynumber: 3.9 Consensus size: 16
42317966 ATCATATGTA
42317976 TAATAAATATATAAATT
1 TAATAAATATA-AAATT
* *
42317993 TAATAATTATAAAATC
1 TAATAAATATAAAATT
* * *
42318009 T-AGAAATTTTAAATT
1 TAATAAATATAAAATT
42318024 TAATGATAATATAAAAT
1 TAAT-A-AATATAAAAT
42318041 ATATAAAGAC
Statistics
Matches: 35, Mismatches: 10, Indels: 5
0.70 0.20 0.10
Matches are distributed among these distances:
15 10 0.29
16 6 0.17
17 11 0.31
18 8 0.23
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.40
Consensus pattern (16 bp):
TAATAAATATAAAATT
Found at i:42319288 original size:22 final size:22
Alignment explanation
Indices: 42319262--42319306 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
42319252 AGTATTAAAA
*
42319262 ATATATTTT-TAATTGATATTTT
1 ATATATTTTATAATT-AAATTTT
42319284 ATATATTTTATAATTAAATTTT
1 ATATATTTTATAATTAAATTTT
42319306 A
1 A
42319307 ATTTAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (22 bp):
ATATATTTTATAATTAAATTTT
Found at i:42319318 original size:29 final size:30
Alignment explanation
Indices: 42319286--42319344 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
42319276 GATATTTTAT
42319286 ATATTTTATAATTAAATTTTAATT-TAAAA
1 ATATTTTATAATTAAATTTTAATTATAAAA
* *
42319315 ATATTTTATTATTTAATTTTAATTATAAAA
1 ATATTTTATAATTAAATTTTAATTATAAAA
42319345 TTCTTTATCC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 22 0.81
30 5 0.19
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (30 bp):
ATATTTTATAATTAAATTTTAATTATAAAA
Found at i:42319720 original size:14 final size:14
Alignment explanation
Indices: 42319699--42319735 Score: 51
Period size: 12 Copynumber: 2.8 Consensus size: 14
42319689 AACAATTAAT
*
42319699 ATATGATATATG--
1 ATATGAGATATGAA
42319711 ATATGAGATATGAA
1 ATATGAGATATGAA
42319725 ATATGAGATAT
1 ATATGAGATAT
42319736 CATTATATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.50
14 11 0.50
ACGTcount: A:0.46, C:0.00, G:0.19, T:0.35
Consensus pattern (14 bp):
ATATGAGATATGAA
Found at i:42327317 original size:17 final size:18
Alignment explanation
Indices: 42327287--42327325 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
42327277 AACAAATAAT
* *
42327287 AAAATTTAATAAAATTTA
1 AAAATTCAATAAAATTCA
42327305 AAAATTCAA-AAAATTCA
1 AAAATTCAATAAAATTCA
42327322 AAAA
1 AAAA
42327326 ATATAAAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (18 bp):
AAAATTCAATAAAATTCA
Found at i:42327318 original size:9 final size:9
Alignment explanation
Indices: 42327304--42327361 Score: 50
Period size: 9 Copynumber: 6.3 Consensus size: 9
42327294 AATAAAATTT
42327304 AAAAATTCA
1 AAAAATTCA
42327313 AAAAATTCA
1 AAAAATTCA
42327322 AAAAATAT-A
1 AAAAAT-TCA
*
42327331 AAAACTTTCA
1 AAAA-ATTCA
42327341 AAAATATAT-A
1 AAAA-AT-TCA
42327351 AAAAA-TCA
1 AAAAATTCA
42327359 AAA
1 AAA
42327362 TATCTGTAGT
Statistics
Matches: 41, Mismatches: 3, Indels: 11
0.75 0.05 0.20
Matches are distributed among these distances:
7 1 0.02
8 4 0.10
9 22 0.54
10 13 0.32
11 1 0.02
ACGTcount: A:0.69, C:0.09, G:0.00, T:0.22
Consensus pattern (9 bp):
AAAAATTCA
Found at i:42327326 original size:18 final size:18
Alignment explanation
Indices: 42327312--42327361 Score: 66
Period size: 18 Copynumber: 2.7 Consensus size: 18
42327302 TTAAAAATTC
42327312 AAAAAATTCAAAAAATAT
1 AAAAAATTCAAAAAATAT
*
42327330 AAAAACTTTCAAAAATATAT
1 AAAAA-ATTCAAAAA-ATAT
42327350 AAAAAA-TCAAAA
1 AAAAAATTCAAAA
42327362 TATCTGTAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 11 0.39
19 8 0.29
20 9 0.32
ACGTcount: A:0.70, C:0.08, G:0.00, T:0.22
Consensus pattern (18 bp):
AAAAAATTCAAAAAATAT
Found at i:42327738 original size:21 final size:21
Alignment explanation
Indices: 42327697--42327739 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
42327687 AATATTAAAA
*
42327697 ATATATATTTAATTGATATTT
1 ATATATATTTAATTGAAATTT
*
42327718 ATATATTTTATAATT-AAATTT
1 ATATATATT-TAATTGAAATTT
42327739 A
1 A
42327740 AATAATAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (21 bp):
ATATATATTTAATTGAAATTT
Found at i:42331912 original size:4 final size:4
Alignment explanation
Indices: 42331903--42331948 Score: 92
Period size: 4 Copynumber: 11.5 Consensus size: 4
42331893 GTTTATACCT
42331903 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
42331949 ATAATTTATG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 42 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:42335083 original size:25 final size:27
Alignment explanation
Indices: 42335038--42335097 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 27
42335028 AATTTTCTCG
* *
42335038 AAATTTTATTGGGGGCAAAATTGT-TA
1 AAATTTTATTCGGGGCAAAATTGTCAA
*
42335064 AAATTTTA-TCGGGGTAAAATTGTCAA
1 AAATTTTATTCGGGGCAAAATTGTCAA
42335090 AAATTTTA
1 AAATTTTA
42335098 CTAGGGTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
25 13 0.43
26 17 0.57
ACGTcount: A:0.38, C:0.05, G:0.18, T:0.38
Consensus pattern (27 bp):
AAATTTTATTCGGGGCAAAATTGTCAA
Found at i:42335104 original size:26 final size:25
Alignment explanation
Indices: 42335054--42335107 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 25
42335044 TATTGGGGGC
* *
42335054 AAAATTGTTAAAATTTTATCGGGGT
1 AAAATTGTAAAAATTTTATCAGGGT
42335079 AAAATTGTCAAAAATTTTA-CTAGGGT
1 AAAATTGT-AAAAATTTTATC-AGGGT
42335105 AAA
1 AAA
42335108 TTTGGGATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 9 0.36
26 16 0.64
ACGTcount: A:0.43, C:0.06, G:0.17, T:0.35
Consensus pattern (25 bp):
AAAATTGTAAAAATTTTATCAGGGT
Found at i:42346600 original size:22 final size:22
Alignment explanation
Indices: 42346575--42346626 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
42346565 ACTTTCGATA
42346575 AATAAAAAATATTAAATAT-TTT
1 AATAAAAAATA-TAAATATATTT
*
42346597 AATAATATAATATAAATATATTT
1 AATAA-AAAATATAAATATATTT
*
42346620 ATTAAAA
1 AATAAAA
42346627 TTTTAGAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
22 13 0.52
23 12 0.48
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
AATAAAAAATATAAATATATTT
Found at i:42348928 original size:21 final size:21
Alignment explanation
Indices: 42348895--42348934 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
42348885 TTGAGACCAA
*
42348895 ATATATTTAAATATAAAATGT
1 ATATATTTAAATAAAAAATGT
* *
42348916 ATATTTTTTAATAAAAAAT
1 ATATATTTAAATAAAAAAT
42348935 TTAAGTTCAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (21 bp):
ATATATTTAAATAAAAAATGT
Found at i:42349203 original size:3 final size:3
Alignment explanation
Indices: 42349195--42349242 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
42349185 CGGTTTGAGA
*
42349195 ATT ATT ATT ATT ATT ATT GTT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
42349243 TCTTTTATTA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:42349929 original size:22 final size:23
Alignment explanation
Indices: 42349899--42349943 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
42349889 CAACCAATCC
**
42349899 ATTTCAACATATTTTTAAGATAA
1 ATTTCAACATATTCATAAGATAA
42349922 ATTT-AACATATTCATAAGATAA
1 ATTTCAACATATTCATAAGATAA
42349944 CCTCATCACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.47, C:0.09, G:0.04, T:0.40
Consensus pattern (23 bp):
ATTTCAACATATTCATAAGATAA
Found at i:42354184 original size:18 final size:18
Alignment explanation
Indices: 42354161--42354219 Score: 82
Period size: 18 Copynumber: 3.3 Consensus size: 18
42354151 AAAAAACATA
* *
42354161 TAATTCGGGCAATTCGGG
1 TAATTCGGGTAATTCGGT
* *
42354179 TAATTCGGTTAAGTCGGT
1 TAATTCGGGTAATTCGGT
42354197 TAATTCGGGTAATTCGGT
1 TAATTCGGGTAATTCGGT
42354215 TAATT
1 TAATT
42354220 TTTAACCAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.24, C:0.12, G:0.27, T:0.37
Consensus pattern (18 bp):
TAATTCGGGTAATTCGGT
Found at i:42354195 original size:9 final size:9
Alignment explanation
Indices: 42354161--42354219 Score: 73
Period size: 9 Copynumber: 6.6 Consensus size: 9
42354151 AAAAAACATA
*
42354161 TAATTCGGG
1 TAATTCGGT
* *
42354170 CAATTCGGG
1 TAATTCGGT
42354179 TAATTCGGT
1 TAATTCGGT
*
42354188 TAAGTCGGT
1 TAATTCGGT
*
42354197 TAATTCGGG
1 TAATTCGGT
42354206 TAATTCGGT
1 TAATTCGGT
42354215 TAATT
1 TAATT
42354220 TTTAACCAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 43 1.00
ACGTcount: A:0.24, C:0.12, G:0.27, T:0.37
Consensus pattern (9 bp):
TAATTCGGT
Found at i:42358852 original size:111 final size:112
Alignment explanation
Indices: 42358648--42358939 Score: 432
Period size: 111 Copynumber: 2.6 Consensus size: 112
42358638 ATAAACGAGG
* *
42358648 AATCGAAACCCAGCACCTTAGGGCACG-TTCCTCGAATTT-CCAAACGCAAAACATTGCCTTATT
1 AATCGACACCCAGCACCTTAGGGCACGTTTTCTCGAATTTCCCAAACGCAAAACATTGCCTTATT
* * *
42358711 TTGAAATTTTTGAAGAATGATATTAAGCCATTTGGTTGAACGAGAAA
66 TTAAAAGTTTTGAAGAAGGATATTAAGCCATTTGGTTGAACGAGAAA
*
42358758 AATCGACACCCAGCACCTTAGGGCA-GATTTTCTCGAATTTCCCAAGCGCAAAACATTGCCTTAT
1 AATCGACACCCAGCACCTTAGGGCACG-TTTTCTCGAATTTCCCAAACGCAAAACATTGCCTTAT
*
42358822 TCTTAAAAGTTTT-AA-AAGGATATTAAGCCATTTGGTTGGACGAGAAA
65 T-TTAAAAGTTTTGAAGAAGGATATTAAGCCATTTGGTTGAACGAGAAA
* * * *
42358869 AATCAACACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCCAAACGCGAAATATTGCCTTATT
1 AATCGACACCCAGCACCTTAGGGCACGTTTTCTCGAATTTCCCAAACGCAAAACATTGCCTTATT
42358934 TTAAAA
66 TTAAAA
42358940 CATTTTCCTT
Statistics
Matches: 166, Mismatches: 11, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
109 1 0.01
110 30 0.18
111 100 0.60
112 26 0.16
113 9 0.05
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (112 bp):
AATCGACACCCAGCACCTTAGGGCACGTTTTCTCGAATTTCCCAAACGCAAAACATTGCCTTATT
TTAAAAGTTTTGAAGAAGGATATTAAGCCATTTGGTTGAACGAGAAA
Found at i:42360648 original size:3 final size:3
Alignment explanation
Indices: 42360640--42360676 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
42360630 CTTCCTGTTC
42360640 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
42360677 TTAAACTGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:42374372 original size:2 final size:2
Alignment explanation
Indices: 42374365--42374410 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
42374355 CAACTGTTGA
42374365 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
42374407 AT AT
1 AT AT
42374411 NNNNNNNNNN
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:42374518 original size:2 final size:2
Alignment explanation
Indices: 42374511--42374555 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
42374501 NNNNNNNNNN
42374511 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
42374553 TA T
1 TA T
42374556 TAATAAAGAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:42387352 original size:21 final size:20
Alignment explanation
Indices: 42387322--42387360 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
42387312 ATGTTTTAGG
42387322 AAAAGAAGAAGGAAAAAATAAA
1 AAAAGAAGAA--AAAAAATAAA
42387344 AAAAG-AGAAAAAAAATA
1 AAAAGAAGAAAAAAAATA
42387361 CAAATAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 8 0.47
21 4 0.24
22 5 0.29
ACGTcount: A:0.79, C:0.00, G:0.15, T:0.05
Consensus pattern (20 bp):
AAAAGAAGAAAAAAAATAAA
Found at i:42407764 original size:29 final size:29
Alignment explanation
Indices: 42407729--42407792 Score: 103
Period size: 29 Copynumber: 2.2 Consensus size: 29
42407719 TCATCGACCA
42407729 ATGAAAAAAGATAGCTTCGGCTATCGAA-T
1 ATGAAAAAAGATAGCTTCGGCTATC-AATT
*
42407758 ATGAAAAGAGATAGCTTCGGCTATCAATT
1 ATGAAAAAAGATAGCTTCGGCTATCAATT
42407787 ATGAAA
1 ATGAAA
42407793 GGGATGGTGA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
28 2 0.06
29 31 0.94
ACGTcount: A:0.42, C:0.12, G:0.20, T:0.25
Consensus pattern (29 bp):
ATGAAAAAAGATAGCTTCGGCTATCAATT
Found at i:42407958 original size:117 final size:116
Alignment explanation
Indices: 42407728--42407998 Score: 375
Period size: 115 Copynumber: 2.3 Consensus size: 116
42407718 ATCATCGACC
** * *
42407728 AATGAAAAAAGATAGCTTCGGCTATCGAATATGAAAAGAGATAGCTTCGGCTATCAATTATGAAA
1 AATGAAAAGGGATAGCTTCGACTATCGAATATGAAAAGAGATAGCTTCGACTATCAATTATGAAA
* * *
42407793 GGGATGGTGATGATCATCAACTATGAAAAGGGATGGTGACGACCATCGAGT
66 GGGATGGTGACGACCATCAACTATGAAAAGGGATGGTGACAACCATCGAGT
* *
42407844 -GTGAAAAGGGATAGCTTCGACTATCGAATATGAAAA-ATGATAGCTTCGACTATCGATTAATGA
1 AATGAAAAGGGATAGCTTCGACTATCGAATATGAAAAGA-GATAGCTTCGACTATCAATT-ATG-
*
42407907 AAAGGGATGGTGACGACCATCAACTATGAAAAGGGATGGTGACAACCATCGATT
63 AAAGGGATGGTGACGACCATCAACTATGAAAAGGGATGGTGACAACCATCGAGT
* * * *
42407961 AATGAAAAGGGATGGTTTTGACCATCGAATATGAAAAG
1 AATGAAAAGGGATAGCTTCGACTATCGAATATGAAAAG
42407999 GGACGGTTAC
Statistics
Matches: 135, Mismatches: 15, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
114 1 0.01
115 50 0.37
116 3 0.02
117 50 0.37
118 31 0.23
ACGTcount: A:0.38, C:0.13, G:0.25, T:0.23
Consensus pattern (116 bp):
AATGAAAAGGGATAGCTTCGACTATCGAATATGAAAAGAGATAGCTTCGACTATCAATTATGAAA
GGGATGGTGACGACCATCAACTATGAAAAGGGATGGTGACAACCATCGAGT
Found at i:42407984 original size:59 final size:59
Alignment explanation
Indices: 42407790--42408014 Score: 208
Period size: 59 Copynumber: 3.8 Consensus size: 59
42407780 ATCAATTATG
* * * * *
42407790 AAAGGGATGGTGATGATCATC-AACTATGAAAAGGGATGGTGACGACCATCGAGT-GTGA
1 AAAGGGATGGTGACGACCATCGAA-TATGAAAAGGGATGGTGACAACCATCGATTAATGA
* * * ** * * * *
42407848 AAAGGGATAGCT-TCGACTATCGAATATGAAAAATGATAGCT-TCGACTATCGATTAATGA
1 AAAGGGAT-GGTGACGACCATCGAATATGAAAAGGGAT-GGTGACAACCATCGATTAATGA
42407907 AAAGGGATGGTGACGACCATC-AACTATGAAAAGGGATGGTGACAACCATCGATTAATGA
1 AAAGGGATGGTGACGACCATCGAA-TATGAAAAGGGATGGTGACAACCATCGATTAATGA
*** * *
42407966 AAAGGGATGGTTTTGACCATCGAATATGAAAAGGGACGGTTACAACCAT
1 AAAGGGATGGTGACGACCATCGAATATGAAAAGGGATGGTGACAACCAT
42408015 TGTTTAGCAC
Statistics
Matches: 133, Mismatches: 26, Indels: 15
0.76 0.15 0.09
Matches are distributed among these distances:
58 40 0.30
59 91 0.68
60 2 0.02
ACGTcount: A:0.37, C:0.14, G:0.27, T:0.22
Consensus pattern (59 bp):
AAAGGGATGGTGACGACCATCGAATATGAAAAGGGATGGTGACAACCATCGATTAATGA
Found at i:42407995 original size:88 final size:87
Alignment explanation
Indices: 42407786--42408001 Score: 213
Period size: 88 Copynumber: 2.5 Consensus size: 87
42407776 GGCTATCAAT
** * * * *
42407786 TATG-AAAGGGATGGTGATGATCATC-AACTATGAAAAGGGATGGTGACGACCATCGAGTGTGAA
1 TATGAAAAGGGATGGTTTTGACCATCGAA-TATGAAAAGGGATGGTGACGACCATCAACTATGAA
* * *
42407849 AAGGGATAGCTTCGACTATCGAA
65 AAGGGATAGCTACAACCATCGAA
** * * * * *
42407872 TATGAAAAATGATAGCTTCGACTATCGATTAATGAAAAGGGATGGTGACGACCATCAACTATGAA
1 TATGAAAAGGGATGGTTTTGACCATCGAAT-ATGAAAAGGGATGGTGACGACCATCAACTATGAA
* *
42407937 AAGGGAT-GGTGACAACCATCGAT
65 AAGGGATAGCT-ACAACCATCGAA
42407960 TAATGAAAAGGGATGGTTTTGACCATCGAATATGAAAAGGGA
1 T-ATGAAAAGGGATGGTTTTGACCATCGAATATGAAAAGGGA
42408002 CGGTTACAAC
Statistics
Matches: 100, Mismatches: 25, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
86 4 0.04
87 15 0.15
88 59 0.59
89 22 0.22
ACGTcount: A:0.38, C:0.12, G:0.27, T:0.23
Consensus pattern (87 bp):
TATGAAAAGGGATGGTTTTGACCATCGAATATGAAAAGGGATGGTGACGACCATCAACTATGAAA
AGGGATAGCTACAACCATCGAA
Found at i:42408013 original size:29 final size:29
Alignment explanation
Indices: 42407786--42408014 Score: 144
Period size: 29 Copynumber: 7.9 Consensus size: 29
42407776 GGCTATCAAT
** *
42407786 TATG-AAAGGGATGGTGATGATCATC-AA
1 TATGAAAAGGGATGGTGACAACCATCGAA
* *
42407813 CTATGAAAAGGGATGGTGACGACCATCGAG
1 -TATGAAAAGGGATGGTGACAACCATCGAA
* * * * *
42407843 TGTGAAAAGGGATAGCT-TCGACTATCGAA
1 TATGAAAAGGGAT-GGTGACAACCATCGAA
** * * * * *
42407872 TATGAAAAATGATAGCT-TCGACTATCGAT
1 TATGAAAAGGGAT-GGTGACAACCATCGAA
*
42407901 TAATGAAAAGGGATGGTGACGACCATC-AA
1 T-ATGAAAAGGGATGGTGACAACCATCGAA
*
42407930 CTATGAAAAGGGATGGTGACAACCATCGAT
1 -TATGAAAAGGGATGGTGACAACCATCGAA
****
42407960 TAATGAAAAGGGATGGTTTTGACCATCGAA
1 T-ATGAAAAGGGATGGTGACAACCATCGAA
* *
42407990 TATGAAAAGGGACGGTTACAACCAT
1 TATGAAAAGGGATGGTGACAACCAT
42408015 TGTTTAGCAC
Statistics
Matches: 164, Mismatches: 29, Indels: 15
0.79 0.14 0.07
Matches are distributed among these distances:
28 4 0.02
29 114 0.70
30 46 0.28
ACGTcount: A:0.37, C:0.14, G:0.27, T:0.23
Consensus pattern (29 bp):
TATGAAAAGGGATGGTGACAACCATCGAA
Found at i:42411278 original size:21 final size:20
Alignment explanation
Indices: 42411240--42411279 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
42411230 CATGTTTTTA
42411240 CTAAATAAATCTTAATTAAC
1 CTAAATAAATCTTAATTAAC
42411260 CTAAATTAATATC-TAATTAA
1 CTAAA-TAA-ATCTTAATTAA
42411280 TCATGCCATC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.28
21 10 0.56
22 3 0.17
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (20 bp):
CTAAATAAATCTTAATTAAC
Found at i:42417669 original size:5 final size:5
Alignment explanation
Indices: 42417659--42417693 Score: 54
Period size: 5 Copynumber: 7.2 Consensus size: 5
42417649 AGTAAAAACT
*
42417659 ATAAA ATAAA ATAAA ATAAA ATAAA A-ATA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA A
42417694 GCTATAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
4 3 0.11
5 24 0.89
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:42420692 original size:31 final size:33
Alignment explanation
Indices: 42420657--42420717 Score: 90
Period size: 31 Copynumber: 1.9 Consensus size: 33
42420647 TTTCTCTCTT
42420657 TTAGTCACTCAACT-AT-AAATTTTTTTTTCAA
1 TTAGTCACTCAACTAATCAAATTTTTTTTTCAA
* *
42420688 TTAGTCTCTCAACTAATCAAGTTTTTTTTT
1 TTAGTCACTCAACTAATCAAATTTTTTTTT
42420718 GTCTTTTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 13 0.50
32 2 0.08
33 11 0.42
ACGTcount: A:0.28, C:0.16, G:0.05, T:0.51
Consensus pattern (33 bp):
TTAGTCACTCAACTAATCAAATTTTTTTTTCAA
Found at i:42421094 original size:36 final size:35
Alignment explanation
Indices: 42421054--42421122 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 35
42421044 AACTTTTTAA
*
42421054 TTATTTTCACTATTTTA-AATATAAAATATAAAATAT
1 TTATTTTCA-TATTATATAATATAAAATA-AAAATAT
* *
42421090 TTATTTTTATATTATATTATATAAAATAAAAAT
1 TTATTTTCATATTATATAATATAAAATAAAAAT
42421123 TAATTATATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
35 11 0.38
36 18 0.62
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (35 bp):
TTATTTTCATATTATATAATATAAAATAAAAATAT
Found at i:42428448 original size:42 final size:42
Alignment explanation
Indices: 42428389--42428471 Score: 166
Period size: 42 Copynumber: 2.0 Consensus size: 42
42428379 ATGATTATTC
42428389 TTAAAAGGTCCTTAGTTAAGTATTATTGTGGGATTGGACAAT
1 TTAAAAGGTCCTTAGTTAAGTATTATTGTGGGATTGGACAAT
42428431 TTAAAAGGTCCTTAGTTAAGTATTATTGTGGGATTGGACAA
1 TTAAAAGGTCCTTAGTTAAGTATTATTGTGGGATTGGACAA
42428472 CAATAATGCA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.31, C:0.07, G:0.24, T:0.37
Consensus pattern (42 bp):
TTAAAAGGTCCTTAGTTAAGTATTATTGTGGGATTGGACAAT
Found at i:42429595 original size:138 final size:138
Alignment explanation
Indices: 42429435--42430249 Score: 1197
Period size: 138 Copynumber: 5.9 Consensus size: 138
42429425 TATGTTCTCT
42429435 ATTTGATTCATACAAAATATTAATTTTATATGTTTTACCGAATTTATTAATATAAACAATTATAT
1 ATTTGATTCATACAAAATATTAATTTTATATGTTTTACCGAATTTATTAATATAAACAATTATAT
* * * *
42429500 TAATTAATTTCGGTCAAAATTTAAAAGAAATGGGAATTAATATTCTTTTGGAAAGAATGTAATTA
66 TAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGAAAGAATATAATTA
42429565 ATATATGA
131 ATATATGA
* * * * **
42429573 ATTTGATTAATACAAAATATTAATTTTATATATTTTATCAAATTTATTAATATAAACAATTGCAT
1 ATTTGATTCATACAAAATATTAATTTTATATGTTTTACCGAATTTATTAATATAAACAATTATAT
* * * * *
42429638 TAATTAATTTCGGTCAAAATATAAAAGACGTGAAAATTGATATTC-TTTGCAAAGAAAATAATTA
66 TAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGAAAGAATATAATTA
42429702 ATATATGA
131 ATATATGA
* ** *
42429710 ATTTGATTCATGCAAAATATTAATTATATATAT-TTTTACCGAATTTATTAATATAAACTGTTAG
1 ATTTGATTCATACAAAATATTAATT-T-TATATGTTTTACCGAATTTATTAATATAAACAATTAT
** *
42429774 ATTAATTAATTTCTATCAAAATATAAAAGACATGGAAATTAGTATTCTTTTGGAAAGAATATAAT
64 ATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGAAAGAATATAAT
42429839 TAATATATGA
129 TAATATATGA
* * * * *
42429849 ATTTGATTCATACAAAATACTAATTGTATATGTTTTACCAAATTTATTAATATAAAAAATTACAT
1 ATTTGATTCATACAAAATATTAATTTTATATGTTTTACCGAATTTATTAATATAAACAATTATAT
* * *
42429914 TAATTAATTTTGGTCAAAATATGAAAA-ACATGGAAATTAAAATTC-TTTGGAAAGAAAATAATT
66 TAATTAATTTCGGTCAAAATAT-AAAAGACATGGAAATTAATATTCTTTTGGAAAGAATATAATT
42429977 AATATATGA
130 AATATATGA
* *
42429986 CTTTGATTCATACAAAATATTAATTTTATATGTTTTACCGAATTTATTAATATAAACAGTTATAT
1 ATTTGATTCATACAAAATATTAATTTTATATGTTTTACCGAATTTATTAATATAAACAATTATAT
* *
42430051 TAATTAATTTCGGTCAAAATATAAAAGACATGAAAATTACTATTCTTTTGGAAAGAATATAATTA
66 TAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGAAAGAATATAATTA
42430116 ATATATGA
131 ATATATGA
* * * * *
42430124 ATTTGATTCATACAAAATAATAATTGTATATATTTTACCGAATTTATTAACATAAATAATTATAT
1 ATTTGATTCATACAAAATATTAATTTTATATGTTTTACCGAATTTATTAATATAAACAATTATAT
** *
42430189 TAATTAATTTTTGTCAAAATATAAAAGGCATGGAAATTAATATTCTTTTGGAAAGAATATA
66 TAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGAAAGAATATA
42430250 GTTTCTTTTT
Statistics
Matches: 601, Mismatches: 69, Indels: 14
0.88 0.10 0.02
Matches are distributed among these distances:
136 4 0.01
137 172 0.29
138 368 0.61
139 57 0.09
ACGTcount: A:0.44, C:0.07, G:0.09, T:0.40
Consensus pattern (138 bp):
ATTTGATTCATACAAAATATTAATTTTATATGTTTTACCGAATTTATTAATATAAACAATTATAT
TAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGAAAGAATATAATTA
ATATATGA
Found at i:42436684 original size:138 final size:137
Alignment explanation
Indices: 42436440--42437122 Score: 981
Period size: 138 Copynumber: 5.0 Consensus size: 137
42436430 GTATAAATAC
* * **
42436440 TTAATATATGAATTTGATTAATACAAAATATTAACTGTATATATTTTACCGA---A--AATATAA
1 TTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACAAATTTATTAATATAA
* *
42436500 ACAATTATATTAATTAATTTAGGTCAAAATATAAAAGACATGAAAATTAATATTCTTTTGGAAAG
66 ACAGTTATATTAATTAATTTTGGTCAAAATATAAAAGACATGAAAATTAATATTCTTTTGGAAAG
42436565 AATATAA
131 AATATAA
* *
42436572 TTAATATATGAATTTGATTCATACAAAATATTAATTTTATATATTTTACAAAATTTATTAATATG
1 TTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTAC-AAATTTATTAATATA
* * * *
42436637 AACAGTTATATTAATTAATTTCGGTCATAATATAAAAGATATGAAAATTAATATTCTTTTGAAAA
65 AACAGTTATATTAATTAATTTTGGTCAAAATATAAAAGACATGAAAATTAATATTCTTTTGGAAA
42436702 GAATATAA
130 GAATATAA
* *
42436710 TTAATATATGAATTTGATTCAAACAAAATATTAATTGTCA-ATATTTTACCGAATTTATTAATAT
1 TTAATATATGAATTTGATTCATACAAAATATTAATTGT-ATATATTTTA-CAAATTTATTAATAT
* * *
42436774 AAACAGTTACATAAATTAATTTTGGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGAA
64 AAACAGTTATATTAATTAATTTTGGTCAAAATATAAAAGACATGAAAATTAATATTCTTTTGGAA
42436839 ATG-ATATAA
129 A-GAATATAA
*
42436848 TTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACTGAATTTATTAATATA
1 TTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTAC-AAATTTATTAATATA
* ** * * *
42436913 AAAAACTATATTAATTAATTTTGATCAAAATATAAAACACATGAAAATTAATATTCTTATGGAAA
65 AACAGTTATATTAATTAATTTTGGTCAAAATATAAAAGACATGAAAATTAATATTCTTTTGGAAA
*
42436978 TAATATAA
130 GAATATAA
* *
42436986 TTAATATATGAATTTGATTCATACATATTATTAATTGTATATATTTTATCAAATTTATTAATATA
1 TTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTA-CAAATTTATTAATATA
*
42437051 AATAGTTATATTAATTAATTTTGGTCAAAATATAAAAG--AT-AAAATTAATATTCTTTTGGAAA
65 AACAGTTATATTAATTAATTTTGGTCAAAATATAAAAGACATGAAAATTAATATTCTTTTGGAAA
*
42437113 GTATATAA
130 GAATATAA
42437121 TT
1 TT
42437123 CGTTTTTCTA
Statistics
Matches: 494, Mismatches: 44, Indels: 23
0.88 0.08 0.04
Matches are distributed among these distances:
132 46 0.09
133 1 0.00
135 29 0.06
136 3 0.01
137 2 0.00
138 409 0.83
139 4 0.01
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.41
Consensus pattern (137 bp):
TTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACAAATTTATTAATATAA
ACAGTTATATTAATTAATTTTGGTCAAAATATAAAAGACATGAAAATTAATATTCTTTTGGAAAG
AATATAA
Found at i:42454850 original size:38 final size:38
Alignment explanation
Indices: 42454799--42454872 Score: 139
Period size: 38 Copynumber: 1.9 Consensus size: 38
42454789 TCTAACAAAC
42454799 CATTTCGCATGGCAACTTATATACAATTCAAAATTAAT
1 CATTTCGCATGGCAACTTATATACAATTCAAAATTAAT
*
42454837 CATTTCGTATGGCAACTTATATACAATTCAAAATTA
1 CATTTCGCATGGCAACTTATATACAATTCAAAATTA
42454873 GCCATAGTCT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.39, C:0.18, G:0.08, T:0.35
Consensus pattern (38 bp):
CATTTCGCATGGCAACTTATATACAATTCAAAATTAAT
Found at i:42455820 original size:30 final size:30
Alignment explanation
Indices: 42455515--42455809 Score: 448
Period size: 30 Copynumber: 9.7 Consensus size: 30
42455505 ATCCAATGCT
* *
42455515 CAAATCAATTCGGCAATATATATGTATACATATA
1 CAAATCAATTCGGC-A-ATGTA--TATCCATATA
* *
42455549 CAAATCAATTCGGCAACGTATATCTATATA
1 CAAATCAATTCGGCAATGTATATCCATATA
**
42455579 CAAATCAATTAAGCAATGTATATCCATATA
1 CAAATCAATTCGGCAATGTATATCCATATA
*
42455609 CAAGTCAATTCGGCAATGTATATCCATATA
1 CAAATCAATTCGGCAATGTATATCCATATA
42455639 CAAATCAATTCGGCAATGTATATCCATATA
1 CAAATCAATTCGGCAATGTATATCCATATA
*
42455669 CAAATCAATTCGGCAACGTATATCCATATA
1 CAAATCAATTCGGCAATGTATATCCATATA
42455699 CAAATCAATTCGGCAATGTATATCCATATA
1 CAAATCAATTCGGCAATGTATATCCATATA
*
42455729 CAAATCAATTCTGCAATGTATATCCATATA
1 CAAATCAATTCGGCAATGTATATCCATATA
*
42455759 CAAATCAATTCGGCAATGTATACCCATATA
1 CAAATCAATTCGGCAATGTATATCCATATA
*
42455789 C-AATCAATTCGGCAATATATA
1 CAAATCAATTCGGCAATGTATA
42455810 AAACATATAC
Statistics
Matches: 243, Mismatches: 18, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
29 19 0.08
30 206 0.85
32 3 0.01
33 1 0.00
34 14 0.06
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (30 bp):
CAAATCAATTCGGCAATGTATATCCATATA
Found at i:42461293 original size:16 final size:16
Alignment explanation
Indices: 42461274--42461307 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
42461264 ATTATTACTT
*
42461274 TTATACATTATTTCAA
1 TTATACACTATTTCAA
*
42461290 TTATACGCTATTTCAA
1 TTATACACTATTTCAA
42461306 TT
1 TT
42461308 TATTACTACT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.32, C:0.15, G:0.03, T:0.50
Consensus pattern (16 bp):
TTATACACTATTTCAA
Found at i:42468204 original size:67 final size:67
Alignment explanation
Indices: 42468108--42468244 Score: 274
Period size: 67 Copynumber: 2.0 Consensus size: 67
42468098 TGTTTCCTGT
42468108 GTGTTCATCGTCCTAATGAGAGAAAGGGGGGGGGGGATATTATATACATATAGATAGCTAGTTTT
1 GTGTTCATCGTCCTAATGAGAGAAAGGGGGGGGGGGATATTATATACATATAGATAGCTAGTTTT
42468173 CA
66 CA
42468175 GTGTTCATCGTCCTAATGAGAGAAAGGGGGGGGGGGATATTATATACATATAGATAGCTAGTTTT
1 GTGTTCATCGTCCTAATGAGAGAAAGGGGGGGGGGGATATTATATACATATAGATAGCTAGTTTT
42468240 CA
66 CA
42468242 GTG
1 GTG
42468245 GTGTAGTGCT
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 70 1.00
ACGTcount: A:0.29, C:0.10, G:0.31, T:0.30
Consensus pattern (67 bp):
GTGTTCATCGTCCTAATGAGAGAAAGGGGGGGGGGGATATTATATACATATAGATAGCTAGTTTT
CA
Found at i:42473488 original size:7 final size:7
Alignment explanation
Indices: 42473467--42473503 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
42473457 CAAGCATGAA
42473467 ATGTGAT
1 ATGTGAT
42473474 -TGTGAT
1 ATGTGAT
*
42473480 ATATGAT
1 ATGTGAT
42473487 ATGTGAT
1 ATGTGAT
42473494 ATGTGAT
1 ATGTGAT
42473501 ATG
1 ATG
42473504 AAAATGGTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
6 6 0.22
7 21 0.78
ACGTcount: A:0.30, C:0.00, G:0.27, T:0.43
Consensus pattern (7 bp):
ATGTGAT
Found at i:42473664 original size:41 final size:41
Alignment explanation
Indices: 42473619--42473808 Score: 184
Period size: 41 Copynumber: 4.6 Consensus size: 41
42473609 TACGAGTTTA
* * * *
42473619 TACTTCGGTTTATCTGATTATGCATTTTATGCC-ATCATATT
1 TACTTCGGTTTATCCGATGATGCACTATATGCCAAT-ATATT
* * * *
42473660 TACTTTGGTGTAACCGATGATGCACTATGTGCCAATATATT
1 TACTTCGGTTTATCCGATGATGCACTATATGCCAATATATT
* * * * *
42473701 TACTTCGGTTTATTCGATGATACACTATGTGCTAGTATATT
1 TACTTCGGTTTATCCGATGATGCACTATATGCCAATATATT
* * ** * *
42473742 TACTTCTGTTTATTCGATGATATACTATGTGCCAGTATATT
1 TACTTCGGTTTATCCGATGATGCACTATATGCCAATATATT
*
42473783 TACTTTGGTTTATCCGATGATGCACT
1 TACTTCGGTTTATCCGATGATGCACT
42473809 GAGGTGCCAG
Statistics
Matches: 125, Mismatches: 23, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
41 123 0.98
42 2 0.02
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.44
Consensus pattern (41 bp):
TACTTCGGTTTATCCGATGATGCACTATATGCCAATATATT
Found at i:42478315 original size:41 final size:41
Alignment explanation
Indices: 42478258--42478340 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
42478248 TGATATGAAG
*
42478258 ATAGATTTTTATTCTTAAATAAATCAGGTAACAAATGTCTT
1 ATAGATTTTTATTCTTAAATAAATCACGTAACAAATGTCTT
42478299 ATAGATTTTTATTCTTAAATAAATCACGTAACAAATGTCTT
1 ATAGATTTTTATTCTTAAATAAATCACGTAACAAATGTCTT
42478340 A
1 A
42478341 GATAATAGAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.41
Consensus pattern (41 bp):
ATAGATTTTTATTCTTAAATAAATCACGTAACAAATGTCTT
Found at i:42486250 original size:9 final size:9
Alignment explanation
Indices: 42486236--42486281 Score: 65
Period size: 9 Copynumber: 5.1 Consensus size: 9
42486226 ATATCTTATA
42486236 TCAATTTGG
1 TCAATTTGG
42486245 TCAATTTGG
1 TCAATTTGG
**
42486254 TCAATTTTA
1 TCAATTTGG
*
42486263 TAAATTTGG
1 TCAATTTGG
42486272 TCAATTTGG
1 TCAATTTGG
42486281 T
1 T
42486282 TAGGAATAAG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 31 1.00
ACGTcount: A:0.26, C:0.09, G:0.17, T:0.48
Consensus pattern (9 bp):
TCAATTTGG
Done.