Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold189
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: 1445563
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.32
Warning! 59187 characters in sequence are not A, C, G, or T
File 1 of 4
Found at i:1853 original size:200 final size:200
Alignment explanation
Indices: 1510--1910 Score: 748
Period size: 200 Copynumber: 2.0 Consensus size: 200
1500 GGATTTCAGA
*
1510 AAAGAGGAGGTGAGTCAGTTTGACTGCTTAAGTACCAAGCTCTTCCTAGATCCAATCCTAGACAT
1 AAAGAGGAGGTGAGTCAATTTGACTGCTTAAGTACCAAGCTCTTCCTAGATCCAATCCTAGACAT
* *
1575 GTATATACCTATTGCCACACTTTAGACTTTACTACTTGTCCATATTTACTTTTGATTTCCATCTC
66 GTATATACCTATTGCCACACTTTAGACTTTACTACTTGTCCATATTTACTTTTGATTCCCATATC
* * *
1640 TTATTTTATTGTGCGGAAATAAAAAATTTCTAATTAATCCTAATTCTAAGCTAAGTTGATAAAAT
131 TTATTTTATTGTGCAGAAATAAAAAATTCCTAATTAATCCTAATTCTAAGCTAAGTTGATAAAAA
1705 TTAAT
196 TTAAT
1710 AAAGAGGAGGTGAGTCAATTTGACTGCTTAAGTACCAAGCTCTTCCTAGATCCAATCCTAGACAT
1 AAAGAGGAGGTGAGTCAATTTGACTGCTTAAGTACCAAGCTCTTCCTAGATCCAATCCTAGACAT
1775 GTATATACCTATTGCCACACTTTAGACTTTACTACTTGTCCATATTTACTTTTGATTCCCATATC
66 GTATATACCTATTGCCACACTTTAGACTTTACTACTTGTCCATATTTACTTTTGATTCCCATATC
1840 TTATTTTATTGTGCAGAAATAAAAAATTCCTAATTAATCCTAATTCTAAGCTAAGTTGATAAAAA
131 TTATTTTATTGTGCAGAAATAAAAAATTCCTAATTAATCCTAATTCTAAGCTAAGTTGATAAAAA
1905 TTAAT
196 TTAAT
1910 A
1 A
1911 TATAAATTAT
Statistics
Matches: 195, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
200 195 1.00
ACGTcount: A:0.33, C:0.18, G:0.12, T:0.37
Consensus pattern (200 bp):
AAAGAGGAGGTGAGTCAATTTGACTGCTTAAGTACCAAGCTCTTCCTAGATCCAATCCTAGACAT
GTATATACCTATTGCCACACTTTAGACTTTACTACTTGTCCATATTTACTTTTGATTCCCATATC
TTATTTTATTGTGCAGAAATAAAAAATTCCTAATTAATCCTAATTCTAAGCTAAGTTGATAAAAA
TTAAT
Found at i:12086 original size:19 final size:22
Alignment explanation
Indices: 12038--12088 Score: 63
Period size: 19 Copynumber: 2.5 Consensus size: 22
12028 GAATATTCCA
*
12038 GAATGTATTTGCTCATTTACTT
1 GAATGTATTTGCTCATTTACAT
*
12060 GCATGTATTTG-T-ATTTA-AT
1 GAATGTATTTGCTCATTTACAT
12079 GAATGTATTT
1 GAATGTATTT
12089 AGAGTGGATG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
19 10 0.38
20 5 0.19
21 1 0.04
22 10 0.38
ACGTcount: A:0.25, C:0.08, G:0.16, T:0.51
Consensus pattern (22 bp):
GAATGTATTTGCTCATTTACAT
Found at i:21103 original size:58 final size:60
Alignment explanation
Indices: 21012--21135 Score: 173
Period size: 58 Copynumber: 2.1 Consensus size: 60
21002 TTAAAGTTTT
*
21012 TTTTTTTGTTCCAAGTTAGGCCTTGAACTTGGCAATTGTTCCAACATT-GAGGCTTGAACC
1 TTTTTTTGATCCAAGTTAGGCCTTGAACTTGGCAATTGTTCCAACATTGGA-GCTTGAACC
* * * *
21072 TTTTTTT-ATCCAAGTTAGTCC-TGAACTTGGCAGTTGTTCCCACTTTGGAGCTTGAACC
1 TTTTTTTGATCCAAGTTAGGCCTTGAACTTGGCAATTGTTCCAACATTGGAGCTTGAACC
21130 TTTTTT
1 TTTTTT
21136 CTTTGTCCAA
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
58 37 0.64
59 14 0.24
60 7 0.12
ACGTcount: A:0.19, C:0.20, G:0.19, T:0.42
Consensus pattern (60 bp):
TTTTTTTGATCCAAGTTAGGCCTTGAACTTGGCAATTGTTCCAACATTGGAGCTTGAACC
Found at i:21277 original size:60 final size:59
Alignment explanation
Indices: 21185--21321 Score: 157
Period size: 60 Copynumber: 2.3 Consensus size: 59
21175 CCCAATTCGT
* * ** *
21185 GAACAATTGCCAAGCTCAGTGATTAATTTGGACAAAAAAAAAGTTCAAGCCCCAATGTGG
1 GAACAATTGCCAAGTTCAGGGATTAACATGGACAAAAAAAAAGTTCAAGCCCCAAAGT-G
* * * * *
21245 GAACAATTGCCAAGTTTAGGGCTTAACATGGACCAAAAAAAAGTTCAGGCCCTAAAGTG
1 GAACAATTGCCAAGTTCAGGGATTAACATGGACAAAAAAAAAGTTCAAGCCCCAAAGTG
*
21304 GAAAAAGTTGCCAAGTTC
1 GAACAA-TTGCCAAGTTC
21322 GGGGGNNNNN
Statistics
Matches: 64, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
59 6 0.09
60 58 0.91
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.21
Consensus pattern (59 bp):
GAACAATTGCCAAGTTCAGGGATTAACATGGACAAAAAAAAAGTTCAAGCCCCAAAGTG
Found at i:34036 original size:19 final size:19
Alignment explanation
Indices: 34012--34051 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
34002 ATTAATTTTG
34012 ATCAAATAAAATAAAATTA
1 ATCAAATAAAATAAAATTA
* *
34031 ATCAAATCAATTAAAATTA
1 ATCAAATAAAATAAAATTA
34050 AT
1 AT
34052 ATGATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.30
Consensus pattern (19 bp):
ATCAAATAAAATAAAATTA
Found at i:36730 original size:15 final size:15
Alignment explanation
Indices: 36710--36741 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
36700 CATTTCACTA
*
36710 TTATGTCTTTTATAT
1 TTATGTCTTTCATAT
36725 TTATGTCTTTCATAT
1 TTATGTCTTTCATAT
36740 TT
1 TT
36742 TGCATTAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.09, G:0.06, T:0.66
Consensus pattern (15 bp):
TTATGTCTTTCATAT
Found at i:57027 original size:29 final size:29
Alignment explanation
Indices: 56985--57044 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
56975 ATGAAGAAAG
56985 AATGTACCAAATATCATGCCTAGCATGCA
1 AATGTACCAAATATCATGCCTAGCATGCA
57014 AATGTACCAAATATCATGCCTAGCATGCA
1 AATGTACCAAATATCATGCCTAGCATGCA
57043 AA
1 AA
57045 GAAATATATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.40, C:0.23, G:0.13, T:0.23
Consensus pattern (29 bp):
AATGTACCAAATATCATGCCTAGCATGCA
Found at i:59315 original size:27 final size:26
Alignment explanation
Indices: 59292--59497 Score: 191
Period size: 27 Copynumber: 7.7 Consensus size: 26
59282 AAGGGTATAA
59292 CAGTCATTTTACCCTATGATGGTATTT
1 CAGTCATTTTACCCTATGA-GGTATTT
*
59319 CGGTCATTTTACCCTATGGAGGTATTT
1 CAGTCATTTTACCCTAT-GAGGTATTT
*
59346 CAGTCATTCTACCCTATGAGGGTATTT
1 CAGTCATTTTACCCTATGA-GGTATTT
* * *
59373 -AGGTTATTTTAACCTATGGGGGTATTT
1 CA-GTCATTTTACCCTAT-GAGGTATTT
*
59400 CTA-TCATTTTACCCTATGGGGGTATTT
1 C-AGTCATTTTACCCTAT-GAGGTATTT
* * *
59427 CGGTTATTTTACCCTATAAAGGTATTT
1 CAGTCATTTTACCCTAT-GAGGTATTT
** * *
59454 TGGTTATTTTACCCTATGGGGGTATTT
1 CAGTCATTTTACCCTAT-GAGGTATTT
*
59481 CAATCATTTTACCCTAT
1 CAGTCATTTTACCCTAT
59498 TTCAGTCATT
Statistics
Matches: 150, Mismatches: 22, Indels: 14
0.81 0.12 0.08
Matches are distributed among these distances:
26 3 0.02
27 143 0.95
28 3 0.02
29 1 0.01
ACGTcount: A:0.21, C:0.17, G:0.18, T:0.43
Consensus pattern (26 bp):
CAGTCATTTTACCCTATGAGGTATTT
Found at i:59350 original size:54 final size:54
Alignment explanation
Indices: 59292--59497 Score: 252
Period size: 54 Copynumber: 3.8 Consensus size: 54
59282 AAGGGTATAA
*
59292 CAGTCATTTTACCCTATGATGGTATTTCGGTCATTTTACCCTATGGAGGTATTT
1 CAGTCATTTTACCCTATGAGGGTATTTCGGTCATTTTACCCTATGGAGGTATTT
* * * * *
59346 CAGTCATTCTACCCTATGAGGGTATTTAGGTTATTTTAACCTATGGGGGTATTT
1 CAGTCATTTTACCCTATGAGGGTATTTCGGTCATTTTACCCTATGGAGGTATTT
* * **
59400 CTA-TCATTTTACCCTATGGGGGTATTTCGGTTATTTTACCCTATAAAGGTATTT
1 C-AGTCATTTTACCCTATGAGGGTATTTCGGTCATTTTACCCTATGGAGGTATTT
** * * **
59454 TGGTTATTTTACCCTATGGGGGTATTTCAATCATTTTACCCTAT
1 CAGTCATTTTACCCTATGAGGGTATTTCGGTCATTTTACCCTAT
59498 TTCAGTCATT
Statistics
Matches: 131, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
54 130 0.99
55 1 0.01
ACGTcount: A:0.21, C:0.17, G:0.18, T:0.43
Consensus pattern (54 bp):
CAGTCATTTTACCCTATGAGGGTATTTCGGTCATTTTACCCTATGGAGGTATTT
Found at i:59407 original size:81 final size:81
Alignment explanation
Indices: 59297--59497 Score: 285
Period size: 81 Copynumber: 2.5 Consensus size: 81
59287 TATAACAGTC
** **
59297 ATTTTACCCTATGATGGTATTTCGGTCATTTTACCCTATGGAGGTATTTCAGTCATTCTACCCTA
1 ATTTTACCCTATGGGGGTATTTCAATCATTTTACCCTATGGAGGTATTTCAGTCATTCTACCCTA
* *
59362 TGAGGGTATTTAGGTT
66 TAAAGGTATTTAGGTT
* * * * * *
59378 ATTTTAACCTATGGGGGTATTTCTATCATTTTACCCTATGGGGGTATTTCGGTTATTTTACCCTA
1 ATTTTACCCTATGGGGGTATTTCAATCATTTTACCCTATGGAGGTATTTCAGTCATTCTACCCTA
*
59443 TAAAGGTATTTTGGTT
66 TAAAGGTATTTAGGTT
59459 ATTTTACCCTATGGGGGTATTTCAATCATTTTACCCTAT
1 ATTTTACCCTATGGGGGTATTTCAATCATTTTACCCTAT
59498 TTCAGTCATT
Statistics
Matches: 106, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 106 1.00
ACGTcount: A:0.21, C:0.16, G:0.18, T:0.44
Consensus pattern (81 bp):
ATTTTACCCTATGGGGGTATTTCAATCATTTTACCCTATGGAGGTATTTCAGTCATTCTACCCTA
TAAAGGTATTTAGGTT
Found at i:67967 original size:24 final size:24
Alignment explanation
Indices: 67940--67991 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
67930 TTTCTAGAAG
* *
67940 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
*
67964 ATTTAGCATTTATTAGCATAATTT
1 ATTTAGCATTTATTAGCATAATAT
67988 ATTT
1 ATTT
67992 GACCTACGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.54
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:73081 original size:54 final size:55
Alignment explanation
Indices: 72998--73108 Score: 215
Period size: 54 Copynumber: 2.0 Consensus size: 55
72988 CTAGCTGGAG
72998 TGTTAGAAGAAGTGAAAAACTCGGTGGTCCACTTTGGGGTTGATAATGAGGATCT
1 TGTTAGAAGAAGTGAAAAACTCGGTGGTCCACTTTGGGGTTGATAATGAGGATCT
73053 TGTTAGAA-AAGTGAAAAACTCGGTGGTCCACTTTGGGGTTGATAATGAGGATCT
1 TGTTAGAAGAAGTGAAAAACTCGGTGGTCCACTTTGGGGTTGATAATGAGGATCT
73107 TG
1 TG
73109 CCTATCCCCT
Statistics
Matches: 56, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
54 48 0.86
55 8 0.14
ACGTcount: A:0.29, C:0.11, G:0.31, T:0.30
Consensus pattern (55 bp):
TGTTAGAAGAAGTGAAAAACTCGGTGGTCCACTTTGGGGTTGATAATGAGGATCT
Found at i:75083 original size:23 final size:23
Alignment explanation
Indices: 75026--75074 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
75016 TTTCAGATTC
*
75026 AATCAAAAAAAATCAAAATCAAAG
1 AATC-AAAAAAATCAAAATCAAAA
75050 AATCAAAAAAATCAAAAT-AAAA
1 AATCAAAAAAATCAAAATCAAAA
75072 AAT
1 AAT
75075 GAGAGAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 6 0.25
23 14 0.58
24 4 0.17
ACGTcount: A:0.73, C:0.10, G:0.02, T:0.14
Consensus pattern (23 bp):
AATCAAAAAAATCAAAATCAAAA
Found at i:75170 original size:11 final size:11
Alignment explanation
Indices: 75156--75194 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
75146 AAAAAAAAGG
75156 AAAAATCAAAA
1 AAAAATCAAAA
75167 AAAAATCAAAA
1 AAAAATCAAAA
*
75178 AAAAATGAAAA
1 AAAAATCAAAA
75189 AGAAAA
1 A-AAAA
75195 AGAAGAAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
11 22 0.85
12 4 0.15
ACGTcount: A:0.82, C:0.05, G:0.05, T:0.08
Consensus pattern (11 bp):
AAAAATCAAAA
Found at i:75188 original size:28 final size:28
Alignment explanation
Indices: 75128--75181 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
75118 ATGAAAATAA
*
75128 AAAAATCAAAATAAAAGTAAAAAAAAGG
1 AAAAATCAAAATAAAAATAAAAAAAAGG
75156 AAAAATCAAAA-AAAAATCAAAAAAAA
1 AAAAATCAAAATAAAAAT-AAAAAAAA
75182 ATGAAAAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 5 0.21
28 19 0.79
ACGTcount: A:0.80, C:0.06, G:0.06, T:0.09
Consensus pattern (28 bp):
AAAAATCAAAATAAAAATAAAAAAAAGG
Found at i:75194 original size:15 final size:15
Alignment explanation
Indices: 75184--75214 Score: 53
Period size: 15 Copynumber: 2.0 Consensus size: 15
75174 AAAAAAAAAT
75184 GAAAAAGAAAAAGAA
1 GAAAAAGAAAAAGAA
75199 GAAAAAGAAAATAGAA
1 GAAAAAGAAAA-AGAA
75215 AAAGGAGAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.03
Consensus pattern (15 bp):
GAAAAAGAAAAAGAA
Found at i:76142 original size:51 final size:50
Alignment explanation
Indices: 76060--76157 Score: 133
Period size: 51 Copynumber: 1.9 Consensus size: 50
76050 TGAAGAAGGA
* * ** *
76060 AAAGGGACCAAGGTGAAAACTTGCAAAGGGCGCTTTGATTCCTAAAAAAAG
1 AAAGAGACCAAAGTGAAAACCCGCAAAGGGCGCTTTGAGTCC-AAAAAAAG
*
76111 AAAGAGACCAAAGTGAAAACCCGCAAGGGGCGCTTTGAGTCCAAAAA
1 AAAGAGACCAAAGTGAAAACCCGCAAAGGGCGCTTTGAGTCCAAAAA
76158 TAAATAAATA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
50 5 0.12
51 36 0.88
ACGTcount: A:0.42, C:0.18, G:0.26, T:0.14
Consensus pattern (50 bp):
AAAGAGACCAAAGTGAAAACCCGCAAAGGGCGCTTTGAGTCCAAAAAAAG
Found at i:77529 original size:44 final size:44
Alignment explanation
Indices: 77434--78244 Score: 326
Period size: 44 Copynumber: 18.7 Consensus size: 44
77424 AGATGGCAAT
* * ** *
77434 TCTTATCTCCCTGAGGTTGCAGTAGAGCAGATTG-AA-GCCGATAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATAACG--GA
* * *
77478 TCCTATCTCCCTGAAGTTGTAGTGGAGCGGATTGAAATAACGGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATAACGGA
* ** * * * *
77522 TCTTATCTCTCTGAAGTTGCAGCAGAGTAGA-TCACATCA-GG-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATAACGGA
* ** * *
77563 TCTTATCTCCCTGAGGTTGCAGTGGAGCAGACCGAAGA-AGCAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-ATAACGGA
** * * * ** **
77607 TCTTATCTCCCT-AAGCAGTAGTGGAGTAGATCGAAGATGGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-ATAACGGA
* ** *
77651 TCTTATCTCCCTGAGGTTGCAGTGGAGCAGATTG-AA-GCCGATAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATAACG--GA
* * * *
77695 TCCTATCTCCCTGAAGTTTCAATGGAGCGGATTGAAATAACGGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATAACGGA
* * * * * **
77739 TCTTATCTCTCTGAAGTTGCAGTAGAGTAGA-TCACACCA-GG-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATAACGGA
* * ** * *
77780 TCTTATCTCCCTGAGGTTGCAGCGGAGCAGACCGAAGA-AGCAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-ATAACGGA
* ** * * * ** **
77824 TCTTATTTCCCT-AAGCAGTAGTGGAGTAAATTGAAGATGGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-ATAACGGA
** *
77868 TCTTATCTCCCT-AAGGTTGCAGTGGAGCAGATTG-AA-GCCGATAA
1 TCTTATCTCCCTGAA-GTTGCAGTGGAGCAGATTGAAATAACG--GA
* * *
77912 TCCTATCTCCCTGAAGTTAC-GATGGAGCGGATTGAAATAACGGA
1 TCTTATCTCCCTGAAGTTGCAG-TGGAGCAGATTGAAATAACGGA
* ** ** * * *
77956 TCTTATCTCTCTGAAGTTATAGCAGAGTAGATT-ACATCA-GG-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATAACGGA
* * ** ** *
77997 TCTTATCTCCCTGAGGCTGCAGTGGAGCAGACCGAAGAATCTCAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG-A-AATAACGGA
* ** * * * ** **
78043 TCTTATTTCCCT-AAGCAGTAGTGGAGTAGATCGAAGATGGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-ATAACGGA
* * * * *
78087 TCTTATCTCTCTGAGGTTGCAGTAGAGCAGATTGAAGT--CGATAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATAACG--GA
* * * *
78131 TCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTGAAATAACAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATAACGGA
* * * * * *
78175 TCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCG-CATCA-GG-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATAACGGA
78216 TCTTATCTCCCTGAAGTTGCAGTGGAGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCA
78245 AACCGAAGAA
Statistics
Matches: 570, Mismatches: 161, Indels: 75
0.71 0.20 0.09
Matches are distributed among these distances:
41 101 0.18
42 14 0.02
43 60 0.11
44 306 0.54
45 71 0.12
46 18 0.03
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAATAACGGA
Found at i:77768 original size:217 final size:217
Alignment explanation
Indices: 77387--78364 Score: 1519
Period size: 217 Copynumber: 4.5 Consensus size: 217
77377 CAATAGAAAT
* *
77387 AGATCTTAGTTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGCAATTCTTATCTCCCTGAGGTT
1 AGATCTTATTTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGCAAATCTTATCTCCCTGAGGTT
* *
77452 GCAGTAGAGCAGATTGAAGCCGATAATCCTATCTCCCTGAAGTTGT-AGTGGAGCGGATTGAAAT
66 GCAGTGGAGCAGATTGAAGCCGATAATCCTATCTCCCTGAAGTT-TCAATGGAGCGGATTGAAAT
77516 AACGGATCTTATCTCTCTGAAGTTGCAGCAGAGTAGATCACATCAGGTCTTATCTCCCTGAGGTT
130 AACGGATCTTATCTCTCTGAAGTTGCAGCAGAGTAGATCACATCAGGTCTTATCTCCCTGAGGTT
77581 GCAGTGGAGCAGACCGAAGAAGC
195 GCAGTGGAGCAGACCGAAGAAGC
*
77604 AGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGCAAATCTTATCTCCCTGAGGTT
1 AGATCTTATTTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGCAAATCTTATCTCCCTGAGGTT
77669 GCAGTGGAGCAGATTGAAGCCGATAATCCTATCTCCCTGAAGTTTCAATGGAGCGGATTGAAATA
66 GCAGTGGAGCAGATTGAAGCCGATAATCCTATCTCCCTGAAGTTTCAATGGAGCGGATTGAAATA
* *
77734 ACGGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCACACCAGGTCTTATCTCCCTGAGGTTG
131 ACGGATCTTATCTCTCTGAAGTTGCAGCAGAGTAGATCACATCAGGTCTTATCTCCCTGAGGTTG
*
77799 CAGCGGAGCAGACCGAAGAAGC
196 CAGTGGAGCAGACCGAAGAAGC
* * *
77821 AGATCTTATTTCCCTAAGCAGTAGTGGAGTAAATTGAAGATGGCAAATCTTATCTCCCTAAGGTT
1 AGATCTTATTTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGCAAATCTTATCTCCCTGAGGTT
* *
77886 GCAGTGGAGCAGATTGAAGCCGATAATCCTATCTCCCTGAAGTTACGATGGAGCGGATTGAAATA
66 GCAGTGGAGCAGATTGAAGCCGATAATCCTATCTCCCTGAAGTTTCAATGGAGCGGATTGAAATA
** * *
77951 ACGGATCTTATCTCTCTGAAGTTATAGCAGAGTAGATTACATCAGGTCTTATCTCCCTGAGGCTG
131 ACGGATCTTATCTCTCTGAAGTTGCAGCAGAGTAGATCACATCAGGTCTTATCTCCCTGAGGTTG
*
78016 CAGTGGAGCAGACCGAAGAATCTC
196 CAGTGGAGCAGACCGAAGAA--GC
*
78040 AGATCTTATTTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGCAAATCTTATCTCTCTGAGGTT
1 AGATCTTATTTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGCAAATCTTATCTCCCTGAGGTT
* * * * *
78105 GCAGTAGAGCAGATTGAAGTCGATAATCCTATCTCCCTGAAGTTGCAGTAGAGCGGATTGAAATA
66 GCAGTGGAGCAGATTGAAGCCGATAATCCTATCTCCCTGAAGTTTCAATGGAGCGGATTGAAATA
* * * *
78170 ACAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAAGTTG
131 ACGGATCTTATCTCTCTGAAGTTGCAGCAGAGTAGATCACATCAGGTCTTATCTCCCTGAGGTTG
* *
78235 CAGTGGAGCAAACCGAAGAATC
196 CAGTGGAGCAGACCGAAGAAGC
* * * * *
78257 TTAGATCTTATTTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAGATTTTACCATCTCTGAG
1 --AGATCTTATTTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGCAAATCTTATC-TCCCTGAG
* * ***
78322 GATACAGTGGAGTTCATTGAAGCC-AGTAATCCTATCTCCCTGA
63 GTTGCAGTGGAGCAGATTGAAGCCGA-TAATCCTATCTCCCTGA
78365 GGTTGCAGAC
Statistics
Matches: 702, Mismatches: 52, Indels: 11
0.92 0.07 0.01
Matches are distributed among these distances:
216 1 0.00
217 411 0.59
219 248 0.35
220 42 0.06
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.27
Consensus pattern (217 bp):
AGATCTTATTTCCCTAAGCAGTAGTGGAGTAGATCGAAGATGGCAAATCTTATCTCCCTGAGGTT
GCAGTGGAGCAGATTGAAGCCGATAATCCTATCTCCCTGAAGTTTCAATGGAGCGGATTGAAATA
ACGGATCTTATCTCTCTGAAGTTGCAGCAGAGTAGATCACATCAGGTCTTATCTCCCTGAGGTTG
CAGTGGAGCAGACCGAAGAAGC
Found at i:81881 original size:12 final size:12
Alignment explanation
Indices: 81864--81888 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
81854 GGAATTTTGG
81864 AAATATCCATGT
1 AAATATCCATGT
81876 AAATATCCATGT
1 AAATATCCATGT
81888 A
1 A
81889 TTAAGGATAC
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:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (12 bp):
AAATATCCATGT
Found at i:84953 original size:174 final size:173
Alignment explanation
Indices: 84662--85241 Score: 585
Period size: 174 Copynumber: 3.4 Consensus size: 173
84652 ACAAAATCAA
* * * *
84662 AATAAAATTTGTTAAGCGGCGGGAATAAATCCCGAAACAGA--ATTATTTGATTA-AGTTTTCTC
1 AATAAAATATGTTAAACGGCGGGAATAAATCCCGAAACAGATTATTATTTAATTATA-ATTTCTC
**
84724 GTTTGGAAACAAAAT-CGAAATCGAATAAAATCTGTTAAACGGCAGGG-ATAAATCTCGAAACAG
65 GTTTGGAAACAAAATAAAAAAT-GAATAAAATCTGTTAAACGG-AGGGAATAAATCTCGAAACAG
**
84787 A-ATTATTCAA-TTTAATTCTAT-TTTGGAAAC-AAATTTAAAATCG
128 ATATTATTCAATTTTAATT-TATCTTTGGAAACAAAATCAAAAATCG
* *
84830 AATAAAATATGTTAAACGACAGGAATAAATCCCGAAACAGATTATTCAATTTTAATTATAATTTC
1 AATAAAATATGTTAAACGGCGGGAATAAATCCCGAAACAGATTATT--A-TTTAATTATAATTTC
* * *
84895 TCATTTGGAAACAAAATAAAAAATGTAATAAAATCTGTTAAACGGTGGGAATAAATCTCGAAATA
63 TCGTTTGGAAACAAAATAAAAAATG-AATAAAATCTGTTAAACGGAGGGAATAAATCTCGAAACA
* * * *
84960 GATTTTATTTAATTTTTAATTTATCGTTTGGCAACAAAATCAAAAATGG
127 GATATTATTCAA-TTTTAATTTATC-TTTGGAAACAAAATCAAAAATCG
* * * * * *
85009 AATAAAATCTGTTGAACGGTGGGAATAAATCCCGAAACATATT-TTATTTAATTTTAA-TACTCG
1 AATAAAATATGTTAAACGGCGGGAATAAATCCCGAAACAGATTATTATTTAATTATAATTTCTCG
* * * *
85072 TTTGGAAATAAAATAAAAAAAAGAATAAAATCTGTTGAGCGGAGGGAATAAATCTCGAAACAGAT
66 TTTGGAAACAAAAT-AAAAAATGAATAAAATCTGTTAAACGGAGGGAATAAATCTCGAAACAGAT
* * * * *
85137 TTTATTTAATTTT-A-GTACTCGTTTGGAAACAAAATAAAAAATAG
130 ATTATTCAATTTTAATTTA-TC-TTTGGAAACAAAATCAAAAATCG
* * * * * * *
85181 AATAAAATCTGGTGAACGGTGGGAATAAATTCCTGAAATAGATT-TTATTTAATTTTAATTT
1 AATAAAATATGTTAAACGGCGGGAATAAA-TCCCGAAACAGATTATTATTTAATTATAATTT
85242 TTTTATTTTC
Statistics
Matches: 352, Mismatches: 41, Indels: 32
0.83 0.10 0.08
Matches are distributed among these distances:
168 37 0.11
170 3 0.01
171 2 0.01
172 53 0.15
173 60 0.17
174 105 0.30
175 24 0.07
176 4 0.01
177 7 0.02
178 10 0.03
179 47 0.13
ACGTcount: A:0.43, C:0.10, G:0.15, T:0.32
Consensus pattern (173 bp):
AATAAAATATGTTAAACGGCGGGAATAAATCCCGAAACAGATTATTATTTAATTATAATTTCTCG
TTTGGAAACAAAATAAAAAATGAATAAAATCTGTTAAACGGAGGGAATAAATCTCGAAACAGATA
TTATTCAATTTTAATTTATCTTTGGAAACAAAATCAAAAATCG
Found at i:85019 original size:88 final size:87
Alignment explanation
Indices: 84662--85241 Score: 562
Period size: 86 Copynumber: 6.7 Consensus size: 87
84652 ACAAAATCAA
* * * * * * *
84662 AATAAAATTTGTTAAGCGGCGGGAATAAATCCCGAAACAGA-ATTATTTGA--TTAAGTTTTCTC
1 AATAAAATCTGTTAAACGGTGGGAATAAATCTCGAAACAGATTTTATTTAATTTTAA--TTTATC
** *
84724 GTTTGGAAACAAAAT-CGAAATCG
64 GTTTGGAAACAAAATAAAAAATAG
* * *
84747 AATAAAATCTGTTAAACGGCAGGG-ATAAATCTCGAAACAGA-ATTATTCAA-TTTAATTCTAT-
1 AATAAAATCTGTTAAACGG-TGGGAATAAATCTCGAAACAGATTTTATTTAATTTTAATT-TATC
** *
84808 -TTTGGAAAC-AAATTTAAAATCG
64 GTTTGGAAACAAAATAAAAAATAG
* *** * * *
84830 AATAAAATATGTTAAACGACAGGAATAAATCCCGAAACAGATTATTCAATTTTAATTATAATTTC
1 AATAAAATCTGTTAAACGGTGGGAATAAATCTCGAAACAGATT-TT--A-TTTAATTTTAATTTA
*
84895 TCATTTGGAAACAAAATAAAAAAT-G
62 TCGTTTGGAAACAAAATAAAAAATAG
*
84920 TAATAAAATCTGTTAAACGGTGGGAATAAATCTCGAAATAGATTTTATTTAATTTTTAATTTATC
1 -AATAAAATCTGTTAAACGGTGGGAATAAATCTCGAAACAGATTTTATTTAA-TTTTAATTTATC
* * *
84985 GTTTGGCAACAAAATCAAAAATGG
64 GTTTGGAAACAAAATAAAAAATAG
* * *
85009 AATAAAATCTGTTGAACGGTGGGAATAAATCCCGAAACATATTTTATTTAATTTTAA--TACTCG
1 AATAAAATCTGTTAAACGGTGGGAATAAATCTCGAAACAGATTTTATTTAATTTTAATTTA-TCG
* *
85072 TTTGGAAATAAAATAAAAAAAAG
65 TTTGGAAACAAAATAAAAAATAG
* * * *
85095 AATAAAATCTGTTGAGCGGAGGGAATAAATCTCGAAACAGATTTTATTTAATTTT-A-GTACTCG
1 AATAAAATCTGTTAAACGGTGGGAATAAATCTCGAAACAGATTTTATTTAATTTTAATTTA-TCG
85158 TTTGGAAACAAAATAAAAAATAG
65 TTTGGAAACAAAATAAAAAATAG
* * *
85181 AATAAAATCTGGTGAACGGTGGGAATAAAT-TCCTGAAATAGATTTTATTTAATTTTAATTT
1 AATAAAATCTGTTAAACGGTGGGAATAAATCT-C-GAAACAGATTTTATTTAATTTTAATTT
85242 TTTTATTTTC
Statistics
Matches: 421, Mismatches: 51, Indels: 42
0.82 0.10 0.08
Matches are distributed among these distances:
82 6 0.01
83 48 0.11
84 2 0.00
85 48 0.11
86 134 0.32
87 33 0.08
88 84 0.20
89 8 0.02
90 12 0.03
91 46 0.11
ACGTcount: A:0.43, C:0.10, G:0.15, T:0.32
Consensus pattern (87 bp):
AATAAAATCTGTTAAACGGTGGGAATAAATCTCGAAACAGATTTTATTTAATTTTAATTTATCGT
TTGGAAACAAAATAAAAAATAG
Found at i:89117 original size:2 final size:2
Alignment explanation
Indices: 89110--89146 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
89100 CATTGGAAGC
89110 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
89147 ACAAACCCTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:89543 original size:2 final size:2
Alignment explanation
Indices: 89536--89575 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
89526 GCTAGCAAAA
89536 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
89576 ATGCTAAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:91394 original size:19 final size:20
Alignment explanation
Indices: 91353--91404 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 20
91343 AAAAGCTCAT
*
91353 TTTTTTAG-AATTTAAGATT
1 TTTTTTAGAAATTTAAGATA
*
91372 TTTTTTAGAAATTTTAGA-A
1 TTTTTTAGAAATTTAAGATA
* *
91391 TTTTATAAAAATTT
1 TTTTTTAGAAATTT
91405 CATAAGAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 20 0.71
20 8 0.29
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.56
Consensus pattern (20 bp):
TTTTTTAGAAATTTAAGATA
Found at i:91394 original size:20 final size:19
Alignment explanation
Indices: 91351--91394 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
91341 TTAAAAGCTC
91351 ATTTTTTTAGAATTTAAGA
1 ATTTTTTTAGAATTTAAGA
* *
91370 TTTTTTTTAGAAATTTTAGA
1 ATTTTTTTAG-AATTTAAGA
91390 ATTTT
1 ATTTT
91395 ATAAAAATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.32, C:0.00, G:0.09, T:0.59
Consensus pattern (19 bp):
ATTTTTTTAGAATTTAAGA
Found at i:92713 original size:15 final size:16
Alignment explanation
Indices: 92687--92716 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
92677 AAGTAGCGTA
92687 TTATAGTTTATATGAT
1 TTATAGTTTATATGAT
92703 TTATA-TTTATATGA
1 TTATAGTTTATATGA
92717 GGTGGATGCC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (16 bp):
TTATAGTTTATATGAT
Found at i:94042 original size:43 final size:43
Alignment explanation
Indices: 93995--94087 Score: 116
Period size: 43 Copynumber: 2.2 Consensus size: 43
93985 CTTTATTCTT
*** *
93995 TTTTAAA-AAATTTAACCCTCAACATTTTTTAAAAAAATTAAAA
1 TTTTAAATAAATTTAACCCTCAAC-TTTAAAAAAAAAAGTAAAA
* *
94038 TTTTAAATAAATTTGACCCTCAACTTTAAAAAAAAAAGTCAAA
1 TTTTAAATAAATTTAACCCTCAACTTTAAAAAAAAAAGTAAAA
94081 TTTTAAA
1 TTTTAAA
94088 CACAACAATC
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
43 28 0.65
44 15 0.35
ACGTcount: A:0.51, C:0.12, G:0.02, T:0.35
Consensus pattern (43 bp):
TTTTAAATAAATTTAACCCTCAACTTTAAAAAAAAAAGTAAAA
Found at i:95338 original size:15 final size:16
Alignment explanation
Indices: 95312--95342 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
95302 TATAAAGGGC
95312 TAAAAATGATTTTTTT
1 TAAAAATGATTTTTTT
95328 TAAAAAT-ATTTTTTT
1 TAAAAATGATTTTTTT
95343 AACTTTTAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (16 bp):
TAAAAATGATTTTTTT
Found at i:98050 original size:12 final size:12
Alignment explanation
Indices: 98027--98062 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
98017 CAAATTATGA
98027 GAAATG-GAAAT
1 GAAATGTGAAAT
98038 GAAATGTGAAAT
1 GAAATGTGAAAT
*
98050 GAAATATGAAAT
1 GAAATGTGAAAT
98062 G
1 G
98063 GTGGATTGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 6 0.26
12 17 0.74
ACGTcount: A:0.53, C:0.00, G:0.25, T:0.22
Consensus pattern (12 bp):
GAAATGTGAAAT
Found at i:100277 original size:31 final size:31
Alignment explanation
Indices: 100242--100305 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
100232 TCTATATATA
100242 TACACAAATTCTAAAACCAGTATATCAAAAC
1 TACACAAATTCTAAAACCAGTATATCAAAAC
100273 TACACAAATTCTAAAACCAGTATATCAAAAC
1 TACACAAATTCTAAAACCAGTATATCAAAAC
100304 TA
1 TA
100306 GCCTATACAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.52, C:0.22, G:0.03, T:0.23
Consensus pattern (31 bp):
TACACAAATTCTAAAACCAGTATATCAAAAC
Found at i:116278 original size:25 final size:25
Alignment explanation
Indices: 116245--116292 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
116235 GACTAAATAG
*
116245 AATATGCCACAAAGGAAACATACTA
1 AATATGCCACAAAGAAAACATACTA
116270 AATATGCCACAAAGAAAACATAC
1 AATATGCCACAAAGAAAACATAC
116293 AGAGTCACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.54, C:0.21, G:0.10, T:0.15
Consensus pattern (25 bp):
AATATGCCACAAAGAAAACATACTA
Found at i:123656 original size:101 final size:101
Alignment explanation
Indices: 123481--123683 Score: 379
Period size: 101 Copynumber: 2.0 Consensus size: 101
123471 TATCTCATAA
*
123481 TATATAATTCATTTGCCTACATCGTTTCTTTCATGTGAAAATAGACTCGATAAGATTTAATTTTA
1 TATATAATTCATTTGCCTACATCGTTTCTTTCATGTGAAAATAGACTCGATAAAATTTAATTTTA
123546 TATCTCATTCACTCTCTAATTACATTTCTACTATTT
66 TATCTCATTCACTCTCTAATTACATTTCTACTATTT
*
123582 TATATAATTCATTTGCCTATATCGTTTCTTTCATGTGAAAATAGACTCGATAAAATTTAATTTTA
1 TATATAATTCATTTGCCTACATCGTTTCTTTCATGTGAAAATAGACTCGATAAAATTTAATTTTA
*
123647 TATCTCATTCACTCTCTAATTCCATTTCTACTATTT
66 TATCTCATTCACTCTCTAATTACATTTCTACTATTT
123683 T
1 T
123684 TTGTGATTTT
Statistics
Matches: 99, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
101 99 1.00
ACGTcount: A:0.30, C:0.18, G:0.06, T:0.46
Consensus pattern (101 bp):
TATATAATTCATTTGCCTACATCGTTTCTTTCATGTGAAAATAGACTCGATAAAATTTAATTTTA
TATCTCATTCACTCTCTAATTACATTTCTACTATTT
Found at i:124470 original size:50 final size:50
Alignment explanation
Indices: 124346--124525 Score: 172
Period size: 50 Copynumber: 3.6 Consensus size: 50
124336 GATAATAACA
* * * * *
124346 TGCCAAAGCCATGTCCCAGACATGCTCTTACATGGGATGTT-TCCTGTAC--
1 TGCCAATGCCATATCCCAGACATGGTCTTACATGGGA-GTTCTCATAT-CGG
* *
124395 TGCCAATGTCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATATCCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
* * * **
124445 TGCCCATGCCATGTCCCAGACATGGTCTTAC--GGGAGACCTCTCACCTCGG
1 TGCCAATGCCATATCCCAGACATGGTCTTACATGGGAG--TTCTCATATCGG
*
124495 TGTCAATGCCATATCCCAGACATGGTCTTAC
1 TGCCAATGCCATATCCCAGACATGGTCTTAC
124526 GTGAGACCTC
Statistics
Matches: 109, Mismatches: 17, Indels: 9
0.81 0.13 0.07
Matches are distributed among these distances:
48 9 0.08
49 36 0.33
50 64 0.59
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATATCCCAGACATGGTCTTACATGGGAGTTCTCATATCGG
Found at i:124526 original size:50 final size:50
Alignment explanation
Indices: 124395--124538 Score: 175
Period size: 50 Copynumber: 2.9 Consensus size: 50
124385 TTTCCTGTAC
* * * *
124395 TGCCAATGTCATATCCCAGATATGGTCTTACATGGGAG--TTCTCATATCGG
1 TGCCAATGCCATATCCCAGACATGGTCTTAC--GGGAGACCTCTCACATCGG
* * *
124445 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGAGACCTCTCACCTCGG
1 TGCCAATGCCATATCCCAGACATGGTCTTACGGGAGACCTCTCACATCGG
* *
124495 TGTCAATGCCATATCCCAGACATGGTCTTACGTGAGACCTCTCA
1 TGCCAATGCCATATCCCAGACATGGTCTTACGGGAGACCTCTCA
124539 TACCCTCAAT
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
48 5 0.06
50 76 0.94
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATATCCCAGACATGGTCTTACGGGAGACCTCTCACATCGG
Found at i:132999 original size:21 final size:22
Alignment explanation
Indices: 132975--133021 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
132965 TGTTTAGAAC
*
132975 AATAATA-TGTTAT-AATATTAA
1 AATAATATTGTAATAAAT-TTAA
132996 AATAATATTGTAATAAATTTAA
1 AATAATATTGTAATAAATTTAA
133018 AATA
1 AATA
133022 TACTAAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 7 0.30
22 13 0.57
23 3 0.13
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.40
Consensus pattern (22 bp):
AATAATATTGTAATAAATTTAA
Found at i:144620 original size:103 final size:102
Alignment explanation
Indices: 144434--144641 Score: 380
Period size: 103 Copynumber: 2.0 Consensus size: 102
144424 NNNNNTTCAC
* *
144434 ATTTAAAATACGGTGGAATCAGCACTTAGCAACCACCGATGAATTGGGGAATCAACACTTAGCAA
1 ATTTAAAATACGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAACACTTAGCAA
144499 CCCCTTGGGGGAATCAGCACTTAGCAACCCCCTTTAT
66 CCCCTTGGGGGAATCAGCACTTAGCAACCCCCTTTAT
*
144536 ATTTAAAGATACGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAAGACTTAGCA
1 ATTTAAA-ATACGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAACACTTAGCA
144601 ACCCCTTGGGGGAATCAGCACTTAGCAACCCCCTTTAT
65 ACCCCTTGGGGGAATCAGCACTTAGCAACCCCCTTTAT
144639 ATT
1 ATT
144642 CAATATAATC
Statistics
Matches: 102, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
102 7 0.07
103 95 0.93
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.23
Consensus pattern (102 bp):
ATTTAAAATACGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAACACTTAGCAA
CCCCTTGGGGGAATCAGCACTTAGCAACCCCCTTTAT
Found at i:145969 original size:24 final size:27
Alignment explanation
Indices: 145928--145981 Score: 71
Period size: 25 Copynumber: 2.1 Consensus size: 27
145918 CAATTTGCAT
145928 AAAATATTAATAATTC-AATAAA-TTG
1 AAAATATTAATAATTCAAATAAATTTG
145953 AAAA-ATTAAATAA-TCAAATAAATTTG
1 AAAATATT-AATAATTCAAATAAATTTG
145979 AAA
1 AAA
145982 TTTAGGAGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
24 5 0.19
25 15 0.58
26 6 0.23
ACGTcount: A:0.61, C:0.04, G:0.04, T:0.31
Consensus pattern (27 bp):
AAAATATTAATAATTCAAATAAATTTG
Found at i:151548 original size:29 final size:29
Alignment explanation
Indices: 151494--151549 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
151484 GCTTTTAAAG
* *
151494 ATATTTACAAAAAGAGACAGCTAATTTCA
1 ATATTTACAAAAAGAGACACCAAATTTCA
151523 ATATTTACAAAAAGAGTA-ACCAAATTT
1 ATATTTACAAAAAGAG-ACACCAAATTT
151550 TGCAAATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 23 0.96
30 1 0.04
ACGTcount: A:0.50, C:0.12, G:0.09, T:0.29
Consensus pattern (29 bp):
ATATTTACAAAAAGAGACACCAAATTTCA
Found at i:154682 original size:13 final size:13
Alignment explanation
Indices: 154664--154693 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
154654 GAACTAGATT
*
154664 TTAACTAAGTAAA
1 TTAACTAAGAAAA
154677 TTAACTAAGAAAA
1 TTAACTAAGAAAA
154690 TTAA
1 TTAA
154694 AAGGTAAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.30
Consensus pattern (13 bp):
TTAACTAAGAAAA
Found at i:156048 original size:4 final size:4
Alignment explanation
Indices: 156039--156086 Score: 96
Period size: 4 Copynumber: 12.0 Consensus size: 4
156029 AAGAGTGTAG
156039 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
156087 ACTCATGCTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 44 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:158355 original size:3 final size:3
Alignment explanation
Indices: 158347--158380 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
158337 ATCCTTTCCT
158347 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
158381 GCCATAGGCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:158918 original size:2 final size:2
Alignment explanation
Indices: 158913--158944 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
158903 GTAATATATA
158913 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
158945 TCAGACATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:160929 original size:2 final size:2
Alignment explanation
Indices: 160922--160995 Score: 139
Period size: 2 Copynumber: 37.0 Consensus size: 2
160912 TTGTGTATAA
160922 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
*
160964 AG AG AG AG AG AG AG AG AG AG AG AG AG GG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
160996 GGAAAACACA
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 70 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
AG
Found at i:161164 original size:24 final size:22
Alignment explanation
Indices: 161124--161185 Score: 70
Period size: 24 Copynumber: 2.7 Consensus size: 22
161114 GTTTAAGGGT
161124 TTTAGGATTTTAAGGGTTATGG
1 TTTAGGATTTTAAGGGTTATGG
* *
161146 TTTAGGATTCTTTAAGGGTTTTTG
1 TTTAGGA-T-TTTAAGGGTTATGG
*
161170 TTTAGGGTTTGTAAGG
1 TTTAGGATTT-TAAGG
161186 AATTTTGGAT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
22 9 0.26
23 7 0.21
24 18 0.53
ACGTcount: A:0.19, C:0.02, G:0.31, T:0.48
Consensus pattern (22 bp):
TTTAGGATTTTAAGGGTTATGG
Found at i:161837 original size:19 final size:16
Alignment explanation
Indices: 161801--161843 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 16
161791 TTATTTTAGG
161801 AAATTTTTAATTTTTA
1 AAATTTTTAATTTTTA
161817 AAATTTTATATATTCTTTA
1 AAATTTT-TA-ATT-TTTA
161836 AAATTTTT
1 AAATTTTT
161844 TTTATAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 7 0.29
17 2 0.08
18 4 0.17
19 11 0.46
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (16 bp):
AAATTTTTAATTTTTA
Found at i:174078 original size:16 final size:16
Alignment explanation
Indices: 174057--174087 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
174047 ATTTGGTTAA
*
174057 GAAAATTATTTAATTG
1 GAAAATTAATTAATTG
174073 GAAAATTAATTAATT
1 GAAAATTAATTAATT
174088 TATGATGTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (16 bp):
GAAAATTAATTAATTG
Found at i:175155 original size:30 final size:30
Alignment explanation
Indices: 175119--175179 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
175109 TTGACTTAGT
175119 TGGAAATCGAGATTCGTCAAAATTCAGTAC
1 TGGAAATCGAGATTCGTCAAAATTCAGTAC
*
175149 TGGAAATTGAGATTCGTCAAAATTCAGTAC
1 TGGAAATCGAGATTCGTCAAAATTCAGTAC
175179 T
1 T
175180 AAATCATTAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.36, C:0.15, G:0.20, T:0.30
Consensus pattern (30 bp):
TGGAAATCGAGATTCGTCAAAATTCAGTAC
Found at i:179452 original size:22 final size:22
Alignment explanation
Indices: 179424--179467 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
179414 ATAAATTTCC
179424 TATGTTATCCCCCACACTTTAG
1 TATGTTATCCCCCACACTTTAG
179446 TATGTTATCCCCCACACTTTAG
1 TATGTTATCCCCCACACTTTAG
179468 ATAGCACACT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.32, G:0.09, T:0.36
Consensus pattern (22 bp):
TATGTTATCCCCCACACTTTAG
Found at i:182654 original size:13 final size:12
Alignment explanation
Indices: 182638--182695 Score: 62
Period size: 13 Copynumber: 4.4 Consensus size: 12
182628 AATAAAATGC
182638 ATAATAAAATAAA
1 ATAA-AAAATAAA
182651 ATAAAACAAGTAAA
1 ATAAAA-AA-TAAA
*
182665 TTCAAAAAATAAA
1 AT-AAAAAATAAA
182678 ATAAAAAATAAA
1 ATAAAAAATAAA
182690 ACTAAA
1 A-TAAA
182696 GGTAGTTCGA
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
12 13 0.33
13 15 0.38
14 7 0.18
15 4 0.10
ACGTcount: A:0.74, C:0.05, G:0.02, T:0.19
Consensus pattern (12 bp):
ATAAAAAATAAA
Found at i:185971 original size:14 final size:15
Alignment explanation
Indices: 185952--185980 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
185942 GTGGACCATT
185952 ATTTTTAT-TTTTAA
1 ATTTTTATATTTTAA
185966 ATTTTTATATTTTAA
1 ATTTTTATATTTTAA
185981 CTACTTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
ATTTTTATATTTTAA
Found at i:187950 original size:35 final size:35
Alignment explanation
Indices: 187847--187952 Score: 98
Period size: 33 Copynumber: 3.1 Consensus size: 35
187837 TGTATTCACA
187847 TGTTTACTGCAACT-TAAACCATCAATATTTTTACT
1 TGTTTACTGCAACTCT-AACCATCAATATTTTTACT
* * * * * *
187882 TATTT-CTTCCAC-CTAACTAGCTAA-A--TTCACT
1 TGTTTACTGCAACTCTAACCATC-AATATTTTTACT
187913 TGTTTACTGCAACTCTAACCATCAATATTTTTACT
1 TGTTTACTGCAACTCTAACCATCAATATTTTTACT
187948 TGTTT
1 TGTTT
187953 CTTCCACCTA
Statistics
Matches: 52, Mismatches: 12, Indels: 14
0.67 0.15 0.18
Matches are distributed among these distances:
31 9 0.17
32 7 0.13
33 14 0.27
34 8 0.15
35 14 0.27
ACGTcount: A:0.28, C:0.23, G:0.06, T:0.43
Consensus pattern (35 bp):
TGTTTACTGCAACTCTAACCATCAATATTTTTACT
Found at i:187971 original size:66 final size:66
Alignment explanation
Indices: 187840--187963 Score: 214
Period size: 66 Copynumber: 1.9 Consensus size: 66
187830 GCGTTTCTGT
187840 ATTCACATGTTTACTGCAACTTAAACCATCAATATTTTTACTTATTTCTTCCACCTAACTAGCTA
1 ATTCACATGTTTACTGCAACTTAAACCATCAATATTTTTACTTATTTCTTCCACCTAACTAGCTA
187905 A
66 A
* *
187906 ATTCACTTGTTTACTGCAACTCT-AACCATCAATATTTTTACTTGTTTCTTCCACCTAA
1 ATTCACATGTTTACTGCAACT-TAAACCATCAATATTTTTACTTATTTCTTCCACCTAA
187964 GTTGCTAACA
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
66 54 0.98
67 1 0.02
ACGTcount: A:0.29, C:0.25, G:0.05, T:0.41
Consensus pattern (66 bp):
ATTCACATGTTTACTGCAACTTAAACCATCAATATTTTTACTTATTTCTTCCACCTAACTAGCTA
A
Found at i:200942 original size:25 final size:25
Alignment explanation
Indices: 200884--200966 Score: 89
Period size: 25 Copynumber: 3.4 Consensus size: 25
200874 TCCTTAGGGA
*
200884 TTACTGATTCTCAGCTCGTGA-GAGC
1 TTACCGATTCTCAGCTCGT-ATGAGC
* **
200909 TGAATGATTCTCAGCTCGTATGAGC
1 TTACCGATTCTCAGCTCGTATGAGC
* *
200934 TTACCGATT-TTAGCTCGTATAAGC
1 TTACCGATTCTCAGCTCGTATGAGC
200958 TTACCGATT
1 TTACCGATT
200967 TACAGCTTGT
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
24 23 0.46
25 27 0.54
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (25 bp):
TTACCGATTCTCAGCTCGTATGAGC
Found at i:200953 original size:24 final size:24
Alignment explanation
Indices: 200921--200967 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
200911 AATGATTCTC
*
200921 AGCTCGTATGAGCTTACCGATTTT
1 AGCTCGTATAAGCTTACCGATTTT
200945 AGCTCGTATAAGCTTACCGATTT
1 AGCTCGTATAAGCTTACCGATTT
200968 ACAGCTTGTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.36
Consensus pattern (24 bp):
AGCTCGTATAAGCTTACCGATTTT
Found at i:202429 original size:20 final size:20
Alignment explanation
Indices: 202406--202456 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
202396 ATCGAATGCC
202406 CACACGGCCTAAGACACACT
1 CACACGGCCTAAGACACACT
202426 CACACGGCCTAAGACACACT
1 CACACGGCCTAAGACACACT
202446 CACACGGCCTA
1 CACACGGCCTA
202457 GCCACACTGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.33, C:0.41, G:0.16, T:0.10
Consensus pattern (20 bp):
CACACGGCCTAAGACACACT
Found at i:208037 original size:20 final size:23
Alignment explanation
Indices: 208000--208044 Score: 69
Period size: 21 Copynumber: 2.1 Consensus size: 23
207990 TGCAATATTA
208000 AAAATGCTAACTAAAATGT-CTT
1 AAAATGCTAACTAAAATGTACTT
208022 AAAATGC-AAC-AAAATGTACTT
1 AAAATGCTAACTAAAATGTACTT
208043 AA
1 AA
208045 GTACAAACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 7 0.32
21 8 0.36
22 7 0.32
ACGTcount: A:0.51, C:0.13, G:0.09, T:0.27
Consensus pattern (23 bp):
AAAATGCTAACTAAAATGTACTT
Found at i:218975 original size:72 final size:72
Alignment explanation
Indices: 218868--219009 Score: 185
Period size: 72 Copynumber: 2.0 Consensus size: 72
218858 AGGGTTTGCT
* * ** * *
218868 ATACTCACCATTTCTTTCTTCAGGATTTGCCACAAAGGCATTCCCGTCAGATGATAGCTGCCAGG
1 ATACTCACCATTTCTTTCTTCAAGATCTGAAACAAAGGCATTCCAGTCAGATGATAGCCGCCAGG
218933 GCTTTTC
66 GCTTTTC
** * * *
218940 ATACTCACCATTTCTTTCTTCAAGATCTGAAACAAAGGTGTTCCATTCATATGATAGCCGCTAGG
1 ATACTCACCATTTCTTTCTTCAAGATCTGAAACAAAGGCATTCCAGTCAGATGATAGCCGCCAGG
219005 GCTTT
66 GCTTT
219010 CCTTTAGACT
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
72 59 1.00
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (72 bp):
ATACTCACCATTTCTTTCTTCAAGATCTGAAACAAAGGCATTCCAGTCAGATGATAGCCGCCAGG
GCTTTTC
Found at i:219103 original size:28 final size:27
Alignment explanation
Indices: 219049--219122 Score: 80
Period size: 28 Copynumber: 2.7 Consensus size: 27
219039 TTTAAATATT
*
219049 GCCACAAAGGCTTCCCTTCAAGAGTTC
1 GCCACAAAGGCTTCCTTTCAAGAGTTC
*
219076 GCCACAAAGGCTTTCCTTTC-AGTGGTTC
1 GCCACAAAGGC-TTCCTTTCAAG-AGTTC
*
219104 GCCAGAAAGGCATT-CTTTC
1 GCCACAAAGGC-TTCCTTTC
219123 CCAGGTTTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
27 18 0.44
28 23 0.56
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (27 bp):
GCCACAAAGGCTTCCTTTCAAGAGTTC
Found at i:231577 original size:19 final size:19
Alignment explanation
Indices: 231549--231595 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
231539 TTTGACAGCT
231549 TCTA-TTATTTGATTTCTTG
1 TCTATTTATTT-ATTTCTTG
*
231568 T-TATTTATTTATTTCTTT
1 TCTATTTATTTATTTCTTG
231586 TCTATTTATT
1 TCTATTTATT
231596 ATTATTAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 10 0.40
19 15 0.60
ACGTcount: A:0.17, C:0.09, G:0.04, T:0.70
Consensus pattern (19 bp):
TCTATTTATTTATTTCTTG
Found at i:242082 original size:20 final size:20
Alignment explanation
Indices: 242059--242096 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
242049 ATAAGAGAAA
242059 TAAAACTAAAATT-AATAACC
1 TAAAA-TAAAATTGAATAACC
*
242079 TAAAATCAAATTGAATAA
1 TAAAATAAAATTGAATAA
242097 AAATAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 6 0.38
20 10 0.62
ACGTcount: A:0.61, C:0.11, G:0.03, T:0.26
Consensus pattern (20 bp):
TAAAATAAAATTGAATAACC
Found at i:242451 original size:26 final size:27
Alignment explanation
Indices: 242422--242478 Score: 82
Period size: 26 Copynumber: 2.1 Consensus size: 27
242412 AGTAATAATC
*
242422 TAAAATTATAGTAAGAAA-AGCC-AAAT
1 TAAAATTATA-TAAAAAATAGCCTAAAT
242448 TAAAATTATATAAAAAATAGCCTAAAT
1 TAAAATTATATAAAAAATAGCCTAAAT
242475 TAAA
1 TAAA
242479 TAAAACTAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
25 6 0.21
26 14 0.50
27 8 0.29
ACGTcount: A:0.60, C:0.07, G:0.07, T:0.26
Consensus pattern (27 bp):
TAAAATTATATAAAAAATAGCCTAAAT
Found at i:243221 original size:17 final size:17
Alignment explanation
Indices: 243199--243235 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
243189 TAAGACAATG
*
243199 GTTGTTCTTGGATAAGA
1 GTTGTTCTTGAATAAGA
*
243216 GTTGTTCTTGAATAATA
1 GTTGTTCTTGAATAAGA
243233 GTT
1 GTT
243236 ATTTTAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.24, C:0.05, G:0.24, T:0.46
Consensus pattern (17 bp):
GTTGTTCTTGAATAAGA
Found at i:246727 original size:27 final size:27
Alignment explanation
Indices: 246696--246749 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
246686 TTTAAGAATT
246696 TCAATTCAATACTAAATAGGCATTTAA
1 TCAATTCAATACTAAATAGGCATTTAA
246723 TCAATTCAATACTAAATAGGCATTTAA
1 TCAATTCAATACTAAATAGGCATTTAA
246750 CAAATCCACG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.44, C:0.15, G:0.07, T:0.33
Consensus pattern (27 bp):
TCAATTCAATACTAAATAGGCATTTAA
Found at i:249723 original size:44 final size:44
Alignment explanation
Indices: 249631--249867 Score: 153
Period size: 44 Copynumber: 5.2 Consensus size: 44
249621 CCTTTATTTT
* * *
249631 AATCCGCTCCATTGTAATCTTAGGGAGAT-AGAATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAG-ATTACTAGCTTC
* * * *
249675 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTT
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
* * *
249719 AATCTGACGTGATCTACTCTACTGTAA-CTTCAGAGAGATAAGATCCT-TTA-TTTC
1 AA--T--C-TG--CT-C-C-ACTGTAATC-TCAGGGAGATAAGAT--TACTAGCTTC
* * *
249773 AATCCGCTCCACTATAATCTCAGGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
* * *
249817 AATCTGCT-CGCTGTAATCTCAGGGAGGTAAGAATTA-TGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAG-ATTACTAGCTTC
249860 AATCTGCT
1 AATCTGCT
249868 TCCTTACACT
Statistics
Matches: 150, Mismatches: 25, Indels: 37
0.71 0.12 0.17
Matches are distributed among these distances:
42 1 0.01
43 35 0.23
44 69 0.46
45 4 0.03
46 2 0.01
47 2 0.01
48 1 0.01
49 3 0.02
50 1 0.01
51 2 0.01
52 2 0.01
53 2 0.01
54 24 0.16
55 1 0.01
56 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.32
Consensus pattern (44 bp):
AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
Found at i:249733 original size:142 final size:142
Alignment explanation
Indices: 249490--249865 Score: 583
Period size: 142 Copynumber: 2.7 Consensus size: 142
249480 TGGTGCTTGG
* *
249490 ATCCACTCCACTGTAATATCAGGGAGATAGAATTACTAGCTTCAATCTGCTCCGCTGTAATCTCA
1 ATCCGCTCCACTGTAATCTCAGGGAGATAGAATTACTAGCTTCAATCTGCTCCGCTGTAATCTCA
* * * * *
249555 GGGAGATAAGACTTCTTGCTCCAACCTGGCGCGATCTACTCTACTGTAACTTCAAAGAGATAAGA
66 GGGAGATAAGAATTCTGGCTTCAATCTGACGCGATCTACTCTACTGTAACTTCAAAGAGATAAGA
*
249620 TCCTTTATTTTA
131 TCCTTTATTTCA
* *
249632 ATCCGCTCCATTGTAATCTTAGGGAGATAGAATTACTAGCTTCAATCTGCTCCGCTGTAATCTCA
1 ATCCGCTCCACTGTAATCTCAGGGAGATAGAATTACTAGCTTCAATCTGCTCCGCTGTAATCTCA
* * * *
249697 GGGAGATAAGATTTCTGGCTTTAATCTGACGTGATCTACTCTACTGTAACTTCAGAGAGATAAGA
66 GGGAGATAAGAATTCTGGCTTCAATCTGACGCGATCTACTCTACTGTAACTTCAAAGAGATAAGA
249762 TCCTTTATTTCA
131 TCCTTTATTTCA
* *
249774 ATCCGCTCCACTATAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCT-CGCTGTAATCTCA
1 ATCCGCTCCACTGTAATCTCAGGGAGATAGAATTACTAGCTTCAATCTGCTCCGCTGTAATCTCA
* *
249838 GGGAGGTAAGAATTATGGCTTCAATCTG
66 GGGAGATAAGAATTCTGGCTTCAATCTG
249866 CTTCCTTACA
Statistics
Matches: 213, Mismatches: 21, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
141 37 0.17
142 176 0.83
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (142 bp):
ATCCGCTCCACTGTAATCTCAGGGAGATAGAATTACTAGCTTCAATCTGCTCCGCTGTAATCTCA
GGGAGATAAGAATTCTGGCTTCAATCTGACGCGATCTACTCTACTGTAACTTCAAAGAGATAAGA
TCCTTTATTTCA
Found at i:266926 original size:23 final size:23
Alignment explanation
Indices: 266891--266935 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
266881 TCTTATTTAA
**
266891 TTCAAATTGATTAT-AATATTATT
1 TTCAAATAAATTATCAA-ATTATT
266914 TTCAAATAAATTATCAAATTAT
1 TTCAAATAAATTATCAAATTAT
266936 AAAATGACAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.47
Consensus pattern (23 bp):
TTCAAATAAATTATCAAATTATT
Found at i:272128 original size:18 final size:17
Alignment explanation
Indices: 272100--272134 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
272090 NTTATTAAGA
*
272100 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
272117 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
272135 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:272850 original size:66 final size:67
Alignment explanation
Indices: 272763--272943 Score: 186
Period size: 66 Copynumber: 2.7 Consensus size: 67
272753 TGTAATTATG
*
272763 TAAGTTGTGTATTAT-TAAAGTTATGTATTATGTAAGTTATGTAAAATTTTAATTAAATTATGTA
1 TAAGTTGTGTATTATGT-AAGTTATGTATTATGTAAGTTATGTAAAATATTAATTAAATTATGTA
272827 A-T
65 AGT
* * *** * * **
272829 TAAGTTGTGTATAATGTAAGTTATATAGGCTGTAAGTTGTGTATAATATTAATTATGTTATGTAA
1 TAAGTTGTGTATTATGTAAGTTATGTATTATGTAAGTTATGTAAAATATTAATTAAATTATGTAA
272894 GT
66 GT
** *
272896 TGTGTATAGTGTAAGTTATGTAAGTAATGTATTATGTAAGTTATGTAA
1 TAAGT-T-GTGT-A-TTATGTAAGTTATGTATTATGTAAGTTATGTAA
272944 GTTATGTATT
Statistics
Matches: 89, Mismatches: 20, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
66 53 0.60
67 5 0.06
68 1 0.01
69 4 0.04
70 1 0.01
71 25 0.28
ACGTcount: A:0.35, C:0.01, G:0.19, T:0.46
Consensus pattern (67 bp):
TAAGTTGTGTATTATGTAAGTTATGTATTATGTAAGTTATGTAAAATATTAATTAAATTATGTAA
GT
Found at i:272915 original size:30 final size:30
Alignment explanation
Indices: 272812--273061 Score: 116
Period size: 34 Copynumber: 8.4 Consensus size: 30
272802 TGTAAAATTT
* *
272812 TAAT-TAAATTATGTAAT-TAAGTTGTGTA
1 TAATGTAAGTTATGTTATGTAAGTTGTGTA
*
272840 TAATGTAAGTTAT-ATAGGCTGTAAGTTGTGTA
1 TAATGTAAGTTATGTTA---TGTAAGTTGTGTA
*
272872 TAATATTAA-TTATGTTATGTAAGTTGTGTA
1 TAAT-GTAAGTTATGTTATGTAAGTTGTGTA
* *
272902 TAGTGTAAGTTATG-TAAGTAA----TGTA
1 TAATGTAAGTTATGTTATGTAAGTTGTGTA
* *
272927 TTATGT-A---A-GTTATGTAAGTTATGTA
1 TAATGTAAGTTATGTTATGTAAGTTGTGTA
* * *
272952 TTATGTAAGTTATTTAAGTTATGCAAGTGGTGTA
1 TAATGTAAGTTA--T--GTTATGTAAGTTGTGTA
* * * *
272986 TTATGTAAGTTATGTAAGTTATGTAGGCTATGTA
1 TAATGTAAGTTA--T--GTTATGTAAGTTGTGTA
* * *
273020 TTATGCAAGTTAT-TTATGTAAGTGGTGTA
1 TAATGTAAGTTATGTTATGTAAGTTGTGTA
*
273049 TTATGTAAGTTAT
1 TAATGTAAGTTAT
273062 CTAAGTTATG
Statistics
Matches: 174, Mismatches: 26, Indels: 43
0.72 0.11 0.18
Matches are distributed among these distances:
20 1 0.01
21 7 0.04
24 1 0.01
25 18 0.10
26 1 0.01
28 5 0.03
29 41 0.24
30 21 0.12
31 1 0.01
32 20 0.11
33 5 0.03
34 53 0.30
ACGTcount: A:0.32, C:0.02, G:0.21, T:0.45
Consensus pattern (30 bp):
TAATGTAAGTTATGTTATGTAAGTTGTGTA
Found at i:272917 original size:9 final size:9
Alignment explanation
Indices: 272885--273122 Score: 140
Period size: 9 Copynumber: 28.3 Consensus size: 9
272875 TATTAATTAT
272885 GTTATGTAA
1 GTTATGTAA
*
272894 GTTGTGT-A
1 GTTATGTAA
272902 --TAGTGTAA
1 GTTA-TGTAA
272910 GTTATGTAA
1 GTTATGTAA
*
272919 GTAATGT-A
1 GTTATGTAA
272927 -TTATGTAA
1 GTTATGTAA
272935 GTTATGTAA
1 GTTATGTAA
272944 GTTATGT-A
1 GTTATGTAA
272952 -TTATGTAA
1 GTTATGTAA
*
272960 GTTATTTAA
1 GTTATGTAA
*
272969 GTTATGCAA
1 GTTATGTAA
**
272978 GTGGTGT-A
1 GTTATGTAA
272986 -TTATGTAA
1 GTTATGTAA
272994 GTTATGTAA
1 GTTATGTAA
*
273003 GTTATGTAG
1 GTTATGTAA
*
273012 GCTATGT-A
1 GTTATGTAA
*
273020 -TTATGCAA
1 GTTATGTAA
273028 GTTA--T--
1 GTTATGTAA
273033 -TTATGTAA
1 GTTATGTAA
**
273041 GTGGTGT-A
1 GTTATGTAA
273049 -TTATGTAA
1 GTTATGTAA
*
273057 GTTATCTAA
1 GTTATGTAA
*
273066 GTTATGTAG
1 GTTATGTAA
*
273075 GCTATGT-A
1 GTTATGTAA
*
273083 -TTATCTAA
1 GTTATGTAA
*
273091 GTTTTTATGTTA
1 G---TTATGTAA
273103 -TTATGTAA
1 GTTATGTAA
*
273111 GTTATGCAA
1 GTTATGTAA
273120 GTT
1 GTT
273123 TATATATAAG
Statistics
Matches: 171, Mismatches: 33, Indels: 50
0.67 0.13 0.20
Matches are distributed among these distances:
4 3 0.02
6 2 0.01
7 30 0.18
8 19 0.11
9 109 0.64
10 2 0.01
12 6 0.04
ACGTcount: A:0.29, C:0.03, G:0.22, T:0.46
Consensus pattern (9 bp):
GTTATGTAA
Found at i:272919 original size:25 final size:25
Alignment explanation
Indices: 272885--273122 Score: 154
Period size: 25 Copynumber: 9.5 Consensus size: 25
272875 TATTAATTAT
*
272885 GTTATGTAAGTTGTGTA-TAGTGTAA
1 GTTATGTAAGTTATGTATTA-TGTAA
*
272910 GTTATGTAAGTAATGTATTATGTAA
1 GTTATGTAAGTTATGTATTATGTAA
272935 GTTATGTAAGTTATGTATTATGTAA
1 GTTATGTAAGTTATGTATTATGTAA
* * **
272960 GTTATTTAAGTTATGCAAGTGGTGT-A
1 GTTATGTAAGTTATG-TA-TTATGTAA
*
272986 -TTATGTAAGTTATGTAAGTTATGTAG
1 GTTATGTAAGTTATGT-A-TTATGTAA
* * *
273012 GCTATGT-A-TTATGCA--A-GTTA
1 GTTATGTAAGTTATGTATTATGTAA
* **
273032 TTTATGTAAGTGGTGTATTATGTAA
1 GTTATGTAAGTTATGTATTATGTAA
* *
273057 GTTATCTAAGTTATGTAGGCTATGT-A
1 GTTATGTAAGTTATGTA--TTATGTAA
*
273083 -TTATCTAAGTTTTTATGTTATTATGTAA
1 GTTATGTAAG---TTATG-TATTATGTAA
*
273111 GTTATGCAAGTT
1 GTTATGTAAGTT
273123 TATATATAAG
Statistics
Matches: 164, Mismatches: 30, Indels: 37
0.71 0.13 0.16
Matches are distributed among these distances:
20 7 0.04
21 2 0.01
22 4 0.02
24 2 0.01
25 107 0.65
26 8 0.05
27 19 0.12
28 6 0.04
29 9 0.05
ACGTcount: A:0.29, C:0.03, G:0.22, T:0.46
Consensus pattern (25 bp):
GTTATGTAAGTTATGTATTATGTAA
Found at i:272943 original size:34 final size:33
Alignment explanation
Indices: 272927--273093 Score: 173
Period size: 34 Copynumber: 5.1 Consensus size: 33
272917 AAGTAATGTA
272927 TTATGTAAGTTATGTAAGTTATGTATTATGTAAG
1 TTATGTAAGTTATGTAAG-TATGTATTATGTAAG
* * *
272961 TTATTTAAGTTATGCAAGTGGTGTATTATGTAAG
1 TTATGTAAGTTATGTAAGT-ATGTATTATGTAAG
* *
272995 TTATGTAAGTTATGTAGGCTATGTATTATGCAAG
1 TTATGTAAGTTATGTAAG-TATGTATTATGTAAG
*
273029 TTA--T---TTATGTAAGTGGTGTATTATGTAAG
1 TTATGTAAGTTATGTAAGT-ATGTATTATGTAAG
* * *
273058 TTATCTAAGTTATGTAGGCTATGTATTATCTAAG
1 TTATGTAAGTTATGTAAG-TATGTATTATGTAAG
273092 TT
1 TT
273094 TTTATGTTAT
Statistics
Matches: 110, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
28 1 0.01
29 23 0.21
31 1 0.01
32 1 0.01
33 1 0.01
34 81 0.74
35 2 0.02
ACGTcount: A:0.29, C:0.04, G:0.22, T:0.46
Consensus pattern (33 bp):
TTATGTAAGTTATGTAAGTATGTATTATGTAAG
Found at i:273160 original size:12 final size:12
Alignment explanation
Indices: 273145--273169 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
273135 TCTATAGGAG
273145 TTATGTAAGTTA
1 TTATGTAAGTTA
273157 TTATGTAAGTTA
1 TTATGTAAGTTA
273169 T
1 T
273170 GTATTATGTA
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:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (12 bp):
TTATGTAAGTTA
Found at i:273323 original size:21 final size:22
Alignment explanation
Indices: 273297--273393 Score: 76
Period size: 23 Copynumber: 4.4 Consensus size: 22
273287 TTTGAAAAAA
*
273297 TATATA-AAATTTAAATAAATG
1 TATATACAAATTTAAATATATG
* *
273318 TATATATACATATTAAAAGTATATG
1 --TATATACAAATTTAAA-TATATG
273343 T-TATACAAATTTAAATATATG
1 TATATACAAATTTAAATATATG
* *
273364 TTATATATACATATT-AATATATG
1 -TATATACAAAT-TTAAATATATG
273387 T-TATACA
1 TATATACA
273394 TTAATAATAT
Statistics
Matches: 61, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
21 11 0.18
22 14 0.23
23 22 0.36
24 9 0.15
25 5 0.08
ACGTcount: A:0.48, C:0.04, G:0.05, T:0.42
Consensus pattern (22 bp):
TATATACAAATTTAAATATATG
Found at i:273324 original size:23 final size:23
Alignment explanation
Indices: 273296--273372 Score: 77
Period size: 23 Copynumber: 3.3 Consensus size: 23
273286 TTTTGAAAAA
*
273296 ATATATAAAATTTAAATAAATGT
1 ATATATAAAATTTAAATATATGT
* *
273319 ATATATACATATTAAAAGTATATGT
1 ATATATA-AAATTTAAA-TATATGT
*
273344 -TATA-CAAATTTAAATATATGTT
1 ATATATAAAATTTAAATATATG-T
273366 ATATATA
1 ATATATA
273373 CATATTAATA
Statistics
Matches: 42, Mismatches: 7, Indels: 9
0.72 0.12 0.16
Matches are distributed among these distances:
21 6 0.14
22 8 0.19
23 11 0.26
24 11 0.26
25 6 0.14
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.42
Consensus pattern (23 bp):
ATATATAAAATTTAAATATATGT
Found at i:273375 original size:47 final size:43
Alignment explanation
Indices: 273299--273393 Score: 138
Period size: 46 Copynumber: 2.1 Consensus size: 43
273289 TGAAAAAATA
273299 TATA-AAATTTAAATAAATGTATATATACATATTAAAAGTATATGT
1 TATACAAATTTAAATAAATGTATATATACATATT--AA-TATATGT
*
273344 TATACAAATTTAAATATATGTTATATATACATATTAATATATGT
1 TATACAAATTTAAATAAATG-TATATATACATATTAATATATGT
273388 TATACA
1 TATACA
273394 TTAATAATAT
Statistics
Matches: 47, Mismatches: 1, Indels: 5
0.89 0.02 0.09
Matches are distributed among these distances:
44 13 0.28
45 6 0.13
46 14 0.30
47 14 0.30
ACGTcount: A:0.48, C:0.04, G:0.05, T:0.42
Consensus pattern (43 bp):
TATACAAATTTAAATAAATGTATATATACATATTAATATATGT
Found at i:273382 original size:23 final size:24
Alignment explanation
Indices: 273307--273391 Score: 99
Period size: 23 Copynumber: 3.7 Consensus size: 24
273297 TATATAAAAT
*
273307 TTAAATAAATG-TATATATACATA
1 TTAAATATATGTTATATATACATA
*
273330 TTAAAAGTATATGTTATACA-A-AT-
1 TT-AAA-TATATGTTATATATACATA
273353 TTAAATATATGTTATATATACATA
1 TTAAATATATGTTATATATACATA
273377 TT-AATATATGTTATA
1 TTAAATATATGTTATA
273392 CATTAATAAT
Statistics
Matches: 53, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
21 12 0.23
22 4 0.08
23 19 0.36
24 7 0.13
25 6 0.11
26 5 0.09
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.44
Consensus pattern (24 bp):
TTAAATATATGTTATATATACATA
Found at i:273924 original size:14 final size:14
Alignment explanation
Indices: 273905--273931 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
273895 GAACAACAAC
273905 ATGATTAACTAAAG
1 ATGATTAACTAAAG
273919 ATGATTAACTAAA
1 ATGATTAACTAAA
273932 AAACCTTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.07, G:0.11, T:0.30
Consensus pattern (14 bp):
ATGATTAACTAAAG
Found at i:273980 original size:13 final size:13
Alignment explanation
Indices: 273962--273986 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
273952 AAAATTTACC
273962 TTCAGAAAATTCA
1 TTCAGAAAATTCA
273975 TTCAGAAAATTC
1 TTCAGAAAATTC
273987 CGTTCATTCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (13 bp):
TTCAGAAAATTCA
Found at i:275679 original size:47 final size:48
Alignment explanation
Indices: 275615--275713 Score: 137
Period size: 47 Copynumber: 2.1 Consensus size: 48
275605 CATACTTTTG
* * * ** *
275615 TTTAGGTAATATTTATAAAAATTAGATAAAATTATGAATTTTAGT-TT
1 TTTAAGTAAAATTTATAAAAATTAGACAAAATTAAAAAATTTAGTGTT
275662 TTTAAGTAAAATTTATAAAAATTAGACAAAATTAAAAAATTTAGTGTT
1 TTTAAGTAAAATTTATAAAAATTAGACAAAATTAAAAAATTTAGTGTT
275710 TTTA
1 TTTA
275714 TTTCATTTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
47 39 0.87
48 6 0.13
ACGTcount: A:0.46, C:0.01, G:0.09, T:0.43
Consensus pattern (48 bp):
TTTAAGTAAAATTTATAAAAATTAGACAAAATTAAAAAATTTAGTGTT
Found at i:276310 original size:14 final size:14
Alignment explanation
Indices: 276291--276324 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
276281 AACCCCAAAT
276291 CCCTAAC-TCTTAAC
1 CCCTAACGTC-TAAC
276305 CCCTAACGTCTAAC
1 CCCTAACGTCTAAC
276319 CCCTAA
1 CCCTAA
276325 ACCCCTAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 17 0.89
15 2 0.11
ACGTcount: A:0.29, C:0.44, G:0.03, T:0.24
Consensus pattern (14 bp):
CCCTAACGTCTAAC
Found at i:276347 original size:22 final size:22
Alignment explanation
Indices: 276302--276347 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
276292 CCTAACTCTT
** *
276302 AACCCCTAACGTCTAACCCCTA
1 AACCCCTAACACCTAAACCCTA
*
276324 AACCCCTAACACCTAAACCTTA
1 AACCCCTAACACCTAAACCCTA
276346 AA
1 AA
276348 TCCCAACCCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.39, C:0.41, G:0.02, T:0.17
Consensus pattern (22 bp):
AACCCCTAACACCTAAACCCTA
Found at i:276634 original size:305 final size:308
Alignment explanation
Indices: 276085--276781 Score: 946
Period size: 305 Copynumber: 2.2 Consensus size: 308
276075 ATATATATAT
* *
276085 ATATAGTACTCCCTAAACCTTAAAATATGAACTCCTAAACCAGCCTTAAATCTTAAATTTATCAT
1 ATATA-TACTCCCTAAACCTTAAAATATGAACTCCTAAACCGGCCTTAAATTTTAAATTTATCAT
* *
276150 ATACCCTAAACTAATTAAAAACCCTAAACATTTTTATTATTATCTTTTACAACTACATAATAACA
65 ATACCCTAAACTAATTAAAAACCCTAAACAATTTTATTATTATATTTTACAACTACATAATAACA
* **
276215 TATTTAAAATATAAAGAAAAAATAATAATCTAAACCCAAAACCCTAACCCGACCCCTGAATTTGT
130 TATTTAAAATATAAAGAAAAAATAATAATCTAAACCCAAAACCCTAACCCGACCCCTAAATTCAT
* * *
276280 AAACCCCAAATCCCTAACTCTTAACCCCTAACGTCTAACCCCTAAACCCCTAACACCTAAACCTT
195 AAACCCCAAATCCCTAACTATTAACCCCTAACGTCTAAACCCTAAACCCCTAACACCTAAACATT
276345 AAATCCCAACCC-TT-AA-AT-AT-TAAACCATAATCCCTAA-AAATCC
260 AAATCCCAACCCATTAAACATAATCTAAACCATAATCCCTAATAAATCC
*
276388 ATATATACTACCTAAACCTTAAAATATGAACTCCTAAACCGGCCTTAAATTTTAAATTTATCATA
1 ATATATACTCCCTAAACCTTAAAATATGAACTCCTAAACCGGCCTTAAATTTTAAATTTATCATA
* *
276453 TACCCTAAACTAATT-AAAACTCTAAACAATTTTATTATTATATTAAATTACAATTACACATATA
66 TACCCTAAACTAATTAAAAACCCTAAACAATTTTATTATTATATT---TTACAACT--AC--ATA
* *
276517 ATAACATATTTAAAATAT-AA-ATAAAA-AATAATCTAATCCCAAAACCCTAACCCGACCCCTAA
124 ATAACATATTTAAAATATAAAGAAAAAATAATAATCTAAACCCAAAACCCTAACCCGACCCCTAA
* * *
276579 ATTCATAAACCCCAAATCCCTAACTATTAACCCCTAACGTTTAAACCCTAAACCCCTAGCCCCTA
189 ATTCATAAACCCCAAATCCCTAACTATTAACCCCTAACGTCTAAACCCTAAACCCCTAACACCTA
* *
276644 AACATTAAATCCCAACCCTTAATTAAACCATAATCCCTAATCCATAATCCCTAATTAATCC
254 AACATTAAATCCCAACCC---ATTAAA-CATAAT--CTAAACCATAATCCCTAATAAATCC
* * * **
276705 ATATATACTCCCTAAAACCTTAAAATATGAACTCTTAAACTGACCTTAAATCTTTAAATAAAATC
1 ATATATACTCCCT-AAACCTTAAAATATGAACTCCTAAACCGGCCTTAAAT-TTTAAAT-TTATC
276770 ATATACCCTAAA
63 ATATACCCTAAA
276782 TTGAAAACCC
Statistics
Matches: 346, Mismatches: 26, Indels: 27
0.87 0.07 0.07
Matches are distributed among these distances:
301 26 0.08
302 72 0.21
303 5 0.01
304 7 0.02
305 109 0.32
306 7 0.02
307 2 0.01
308 21 0.06
309 2 0.01
310 2 0.01
312 2 0.01
313 2 0.01
316 16 0.05
317 17 0.05
318 34 0.10
319 7 0.02
320 15 0.04
ACGTcount: A:0.43, C:0.26, G:0.02, T:0.29
Consensus pattern (308 bp):
ATATATACTCCCTAAACCTTAAAATATGAACTCCTAAACCGGCCTTAAATTTTAAATTTATCATA
TACCCTAAACTAATTAAAAACCCTAAACAATTTTATTATTATATTTTACAACTACATAATAACAT
ATTTAAAATATAAAGAAAAAATAATAATCTAAACCCAAAACCCTAACCCGACCCCTAAATTCATA
AACCCCAAATCCCTAACTATTAACCCCTAACGTCTAAACCCTAAACCCCTAACACCTAAACATTA
AATCCCAACCCATTAAACATAATCTAAACCATAATCCCTAATAAATCC
Found at i:276690 original size:14 final size:14
Alignment explanation
Indices: 276671--276698 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
276661 CTTAATTAAA
276671 CCATAATCCCTAAT
1 CCATAATCCCTAAT
276685 CCATAATCCCTAAT
1 CCATAATCCCTAAT
276699 TAATCCATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.36, G:0.00, T:0.29
Consensus pattern (14 bp):
CCATAATCCCTAAT
Found at i:277122 original size:41 final size:41
Alignment explanation
Indices: 277077--277177 Score: 112
Period size: 41 Copynumber: 2.5 Consensus size: 41
277067 AATGTTTTTT
* * *
277077 GCGGCGCTTTAACAAAAACGCTGCTAAAACCAAGACCATTA
1 GCGGCGCTTTAAAAAAAACACAGCTAAAACCAAGACCATTA
** * *
277118 GCGGCATTTTAAAAAAAACACAGGTAAAACCTAGACCATTA
1 GCGGCGCTTTAAAAAAAACACAGCTAAAACCAAGACCATTA
* **
277159 CCGGCGCTTTTTAAAAAAC
1 GCGGCGCTTTAAAAAAAAC
277178 CTAGCGGCAC
Statistics
Matches: 48, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.41, C:0.24, G:0.16, T:0.20
Consensus pattern (41 bp):
GCGGCGCTTTAAAAAAAACACAGCTAAAACCAAGACCATTA
Found at i:277210 original size:104 final size:103
Alignment explanation
Indices: 277090--277280 Score: 267
Period size: 103 Copynumber: 1.8 Consensus size: 103
277080 GCGCTTTAAC
* * * *
277090 AAAAACGCTGCTAAAACCAAGACCATTAGCGGC-ATTTTAAAAAAAACACAGGTAAAACCTAGAC
1 AAAAACGCCGCTAAAACCAAGACCATTAGCGGCGATTTGAAAAAAAAC-C-GCTAAAACCCAGAC
*
277154 CATTACCGGCGCTTTTTAAAAAACCTAGCGGCACTTTTTA
64 CATTACCGGCGCTTTTAAAAAAACCTAGCGGCACTTTTTA
* * * *
277194 AAAAACGCCGCTAAAACCTAGAGCATTAGCGGCGCTTTGAAAAAAAGCCGCTAAAACCCAGACCA
1 AAAAACGCCGCTAAAACCAAGACCATTAGCGGCGATTTGAAAAAAAACCGCTAAAACCCAGACCA
*
277259 TTAGCGGCGCTTTTAAAAAAAC
66 TTACCGGCGCTTTTAAAAAAAC
277281 GCCGCTAAAA
Statistics
Matches: 76, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
103 34 0.45
104 31 0.41
105 11 0.14
ACGTcount: A:0.40, C:0.24, G:0.16, T:0.19
Consensus pattern (103 bp):
AAAAACGCCGCTAAAACCAAGACCATTAGCGGCGATTTGAAAAAAAACCGCTAAAACCCAGACCA
TTACCGGCGCTTTTAAAAAAACCTAGCGGCACTTTTTA
Found at i:277238 original size:41 final size:41
Alignment explanation
Indices: 277179--277312 Score: 207
Period size: 41 Copynumber: 3.3 Consensus size: 41
277169 TTAAAAAACC
* * *
277179 TAGCGGCACTTTTTAAAAAACGCCGCTAAAACCTAGAGCAT
1 TAGCGGCGCTTTTAAAAAAACGCCGCTAAAACCCAGAGCAT
* *
277220 TAGCGGCGCTTTGAAAAAAA-GCCGCTAAAACCCAGACCAT
1 TAGCGGCGCTTTTAAAAAAACGCCGCTAAAACCCAGAGCAT
*
277260 TAGCGGCGCTTTTAAAAAAACGCCGCTAAAACCCGGAGCAT
1 TAGCGGCGCTTTTAAAAAAACGCCGCTAAAACCCAGAGCAT
277301 TAGCGGCGCTTT
1 TAGCGGCGCTTT
277313 CTCATAAACG
Statistics
Matches: 84, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
40 37 0.44
41 47 0.56
ACGTcount: A:0.34, C:0.26, G:0.21, T:0.19
Consensus pattern (41 bp):
TAGCGGCGCTTTTAAAAAAACGCCGCTAAAACCCAGAGCAT
Found at i:277238 original size:63 final size:63
Alignment explanation
Indices: 277116--277239 Score: 160
Period size: 63 Copynumber: 2.0 Consensus size: 63
277106 CCAAGACCAT
* **
277116 TAGCGGCATTTTAAAAAAAACACAGGTAAAACCTAGACCATTACCGGCGCTTTTTAAAAAACC
1 TAGCGGCATTTTAAAAAAAACACAGCTAAAACCTAGACCATTACCGGCGCTTTGAAAAAAACC
* * * * *
277179 TAGCGGCACTTTT-TAAAAAACGCCGCTAAAACCTAGAGCATTAGCGGCGCTTTGAAAAAAA
1 TAGCGGCA-TTTTAAAAAAAACACAGCTAAAACCTAGACCATTACCGGCGCTTTGAAAAAAA
277240 GCCGCTAAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
63 48 0.92
64 4 0.08
ACGTcount: A:0.40, C:0.22, G:0.17, T:0.22
Consensus pattern (63 bp):
TAGCGGCATTTTAAAAAAAACACAGCTAAAACCTAGACCATTACCGGCGCTTTGAAAAAAACC
Found at i:277322 original size:41 final size:40
Alignment explanation
Indices: 277179--277330 Score: 196
Period size: 41 Copynumber: 3.7 Consensus size: 40
277169 TTAAAAAACC
* *
277179 TAGCGGCACTTTTTAAAAAACGCCGCTAAAACCTAGAGCAT
1 TAGCGGCGC-TTTTAAAAAACGCCGCTAAAACCCAGAGCAT
* * *
277220 TAGCGGCGCTTTGAAAAAAAGCCGCTAAAACCCAGACCAT
1 TAGCGGCGCTTTTAAAAAACGCCGCTAAAACCCAGAGCAT
*
277260 TAGCGGCGCTTTTAAAAAAACGCCGCTAAAACCCGGAGCAT
1 TAGCGGCGCTTTT-AAAAAACGCCGCTAAAACCCAGAGCAT
* * *
277301 TAGCGGCGCTTTCTCATAAACGCCACTAAA
1 TAGCGGCGCTTT-TAAAAAACGCCGCTAAA
277331 GCCACCGAAT
Statistics
Matches: 97, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
40 39 0.40
41 57 0.59
42 1 0.01
ACGTcount: A:0.35, C:0.27, G:0.19, T:0.19
Consensus pattern (40 bp):
TAGCGGCGCTTTTAAAAAACGCCGCTAAAACCCAGAGCAT
Found at i:277801 original size:3 final size:3
Alignment explanation
Indices: 277793--277828 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
277783 ATGTTAAAGA
277793 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
277829 TGTAAATAGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:278260 original size:3 final size:3
Alignment explanation
Indices: 278254--278283 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
278244 CGGCGGCCCC
278254 TAT TAT TAT T-T TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
278284 TGTAAATAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TAT
Found at i:278660 original size:455 final size:456
Alignment explanation
Indices: 277798--278708 Score: 1815
Period size: 455 Copynumber: 2.0 Consensus size: 456
277788 AAAGAATTAT
277798 TATTATTATTATTATTATTATTATTATTATTTGTAAATAGAGAACGATTCATTTGTCGATTCTTT
1 TATTATTATTATTATTATTATTATTATTATTTGTAAATAGAGAACGATTCATTTGTCGATTCTTT
277863 GAGATTGATGTAAGGACAAATTATTTCTTAATTTAGTATCTTCTTGATTTCCGAGAAAGTAACAT
66 GAGATTGATGTAAGGACAAATTATTTCTTAATTTAGTATCTTCTTGATTTCCGAGAAAGTAACAT
277928 CTAATCCGCCAAACGAATTCAAAATCTTGAAATCCAAGAAAATAAAATTCTTCCAAGTCACTCCC
131 CTAATCCGCCAAACGAATTCAAAATCTTGAAATCCAAGAAAATAAAATTCTTCCAAGTCACTCCC
277993 TTCTCTACTACCACATCATCCTAAACTTTCGCACCTATATTTTTCCCAGAAAAAGAACTCCTTCA
196 TTCTCTACTACCACATCATCCTAAACTTTCGCACCTATATTTTTCCCAGAAAAAGAACTCCTTCA
278058 TTTTCCTTCCTAAGAAAATAAACACACACCCAAACATACATACACATATGAAAAAGAAAAACCTG
261 TTTTCCTTCCTAAGAAAATAAACACACACCCAAACATACATACACATATGAAAAAGAAAAACCTG
278123 CCATGAATGCTTCAACCAAGCTTGGCATAGCTCTCCTCGTTATCTTCACAACATGCCTTTTCGCT
326 CCATGAATGCTTCAACCAAGCTTGGCATAGCTCTCCTCGTTATCTTCACAACATGCCTTTTCGCT
278188 CTTCTCTTAGAGCTGGTTTACGTCCTTCAGCGAAAACGTCAACCATTAATCGTCAGCGGCGGCCC
391 CTTCTCTTAGAGCTGGTTTACGTCCTTCAGCGAAAACGTCAACCATTAATCGTCAGCGGCGGCCC
278253 C
456 C
278254 TATTATTATT-TTATTATTATTATTATTATTTGTAAATAGAGAACGATTCATTTGTCGATTCTTT
1 TATTATTATTATTATTATTATTATTATTATTTGTAAATAGAGAACGATTCATTTGTCGATTCTTT
278318 GAGATTGATGTAAGGACAAATTATTTCTTAATTTAGTATCTTCTTGATTTCCGAGAAAGTAACAT
66 GAGATTGATGTAAGGACAAATTATTTCTTAATTTAGTATCTTCTTGATTTCCGAGAAAGTAACAT
278383 CTAATCCGCCAAACGAATTCAAAATCTTGAAATCCAAGAAAATAAAATTCTTCCAAGTCACTCCC
131 CTAATCCGCCAAACGAATTCAAAATCTTGAAATCCAAGAAAATAAAATTCTTCCAAGTCACTCCC
278448 TTCTCTACTACCACATCATCCTAAACTTTCGCACCTATATTTTTCCCAGAAAAAGAACTCCTTCA
196 TTCTCTACTACCACATCATCCTAAACTTTCGCACCTATATTTTTCCCAGAAAAAGAACTCCTTCA
278513 TTTTCCTTCCTAAGAAAATAAACACACACCCAAACATACATACACATATGAAAAAGAAAAACCTG
261 TTTTCCTTCCTAAGAAAATAAACACACACCCAAACATACATACACATATGAAAAAGAAAAACCTG
278578 CCATGAATGCTTCAACCAAGCTTGGCATAGCTCTCCTCGTTATCTTCACAACATGCCTTTTCGCT
326 CCATGAATGCTTCAACCAAGCTTGGCATAGCTCTCCTCGTTATCTTCACAACATGCCTTTTCGCT
278643 CTTCTCTTAGAGCTGGTTTACGTCCTTCAGCGAAAACGTCAACCATTAATCGTCAGCGGCGGCCC
391 CTTCTCTTAGAGCTGGTTTACGTCCTTCAGCGAAAACGTCAACCATTAATCGTCAGCGGCGGCCC
278708 C
456 C
278709 GGTGTAATCA
Statistics
Matches: 455, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
455 445 0.98
456 10 0.02
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (456 bp):
TATTATTATTATTATTATTATTATTATTATTTGTAAATAGAGAACGATTCATTTGTCGATTCTTT
GAGATTGATGTAAGGACAAATTATTTCTTAATTTAGTATCTTCTTGATTTCCGAGAAAGTAACAT
CTAATCCGCCAAACGAATTCAAAATCTTGAAATCCAAGAAAATAAAATTCTTCCAAGTCACTCCC
TTCTCTACTACCACATCATCCTAAACTTTCGCACCTATATTTTTCCCAGAAAAAGAACTCCTTCA
TTTTCCTTCCTAAGAAAATAAACACACACCCAAACATACATACACATATGAAAAAGAAAAACCTG
CCATGAATGCTTCAACCAAGCTTGGCATAGCTCTCCTCGTTATCTTCACAACATGCCTTTTCGCT
CTTCTCTTAGAGCTGGTTTACGTCCTTCAGCGAAAACGTCAACCATTAATCGTCAGCGGCGGCCC
C
Found at i:279348 original size:22 final size:22
Alignment explanation
Indices: 279303--279348 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
279293 TACTCAATTA
* *
279303 TTAATTTTTTAAATTTAATCAT
1 TTAATTTTTAAAATTAAATCAT
279325 TTAATTTTTCAAAATTAAAT-AT
1 TTAATTTTT-AAAATTAAATCAT
279347 TT
1 TT
279349 TAGCCTTTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (22 bp):
TTAATTTTTAAAATTAAATCAT
Found at i:280854 original size:25 final size:24
Alignment explanation
Indices: 280826--280880 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 24
280816 GGTATTTTAT
280826 GGTTTTTGGTTT-TTAAGGGCTTGAG
1 GGTTTTT-GTTTATTAA-GGCTTGAG
* * *
280851 GGTTTATGTTTATTTAGGTTTGAG
1 GGTTTTTGTTTATTAAGGCTTGAG
280875 GGTTTT
1 GGTTTT
280881 ATGGGTTTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
24 16 0.64
25 9 0.36
ACGTcount: A:0.13, C:0.02, G:0.33, T:0.53
Consensus pattern (24 bp):
GGTTTTTGTTTATTAAGGCTTGAG
Found at i:282282 original size:77 final size:77
Alignment explanation
Indices: 282155--282299 Score: 272
Period size: 77 Copynumber: 1.9 Consensus size: 77
282145 TACTATCGAC
*
282155 CCAAGCCGCAATCTATCGTGAATCCGGCCTCTACGTAATCCACCCAGTTGACAATGAACGGAAGG
1 CCAAGCCGCAATCTACCGTGAATCCGGCCTCTACGTAATCCACCCAGTTGACAATGAACGGAAGG
282220 AATTGCTAGCGA
66 AATTGCTAGCGA
*
282232 CCAAGCCGCAATCTACCGTGAATCCGGGCTCTACGTAATCCACCCAGTTGACAATGAACGGAAGG
1 CCAAGCCGCAATCTACCGTGAATCCGGCCTCTACGTAATCCACCCAGTTGACAATGAACGGAAGG
282297 AAT
66 AAT
282300 CCCCAAAACT
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
77 66 1.00
ACGTcount: A:0.30, C:0.29, G:0.22, T:0.19
Consensus pattern (77 bp):
CCAAGCCGCAATCTACCGTGAATCCGGCCTCTACGTAATCCACCCAGTTGACAATGAACGGAAGG
AATTGCTAGCGA
Found at i:284061 original size:48 final size:48
Alignment explanation
Indices: 283979--284144 Score: 269
Period size: 48 Copynumber: 3.5 Consensus size: 48
283969 GGTCGCATAT
*
283979 GTGGCATGGACTGTGTGCAGGCCACCAATATTCTGTTAAGATACAAGG
1 GTGGCAAGGACTGTGTGCAGGCCACCAATATTCTGTTAAGATACAAGG
* *
284027 GTAGCAAGGACTGTGTGCAGGCCACCAATTTTCTGTTAAGATACAAGG
1 GTGGCAAGGACTGTGTGCAGGCCACCAATATTCTGTTAAGATACAAGG
* *
284075 GTGGCATGGACTGTGTGCAGACCACCAATATTCTGTTAAGATACAAGG
1 GTGGCAAGGACTGTGTGCAGGCCACCAATATTCTGTTAAGATACAAGG
* *
284123 GTGGCACGGACTATGTGCAGGC
1 GTGGCAAGGACTGTGTGCAGGC
284145 TACCGAAATC
Statistics
Matches: 108, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 108 1.00
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (48 bp):
GTGGCAAGGACTGTGTGCAGGCCACCAATATTCTGTTAAGATACAAGG
Found at i:294844 original size:29 final size:29
Alignment explanation
Indices: 294811--294868 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
294801 TTAAATATGC
294811 TTAGTAAGTTCATATGTTTTAAACATAAA
1 TTAGTAAGTTCATATGTTTTAAACATAAA
294840 TTAGTAAGTTCATATGTTTTAAACATAAA
1 TTAGTAAGTTCATATGTTTTAAACATAAA
294869 GCTCACCTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.41
Consensus pattern (29 bp):
TTAGTAAGTTCATATGTTTTAAACATAAA
Found at i:295940 original size:12 final size:12
Alignment explanation
Indices: 295923--295952 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
295913 AGCCACACGC
295923 CCGTGTGCAAGG
1 CCGTGTGCAAGG
*
295935 CCGTGTGCTAGG
1 CCGTGTGCAAGG
295947 CCGTGT
1 CCGTGT
295953 AACTGCCTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.10, C:0.27, G:0.40, T:0.23
Consensus pattern (12 bp):
CCGTGTGCAAGG
Found at i:301814 original size:39 final size:39
Alignment explanation
Indices: 301760--301861 Score: 141
Period size: 39 Copynumber: 2.6 Consensus size: 39
301750 AACATGTTTT
* *
301760 TGAGTATTGTGATATATGCTTGAATGTTATGTGATAATA
1 TGAGTATTGTGATATATGCTTAAATGCTATGTGATAATA
* *
301799 TGAGTATTGTAATATATGCTTAAATGCTATGTGATTATA
1 TGAGTATTGTGATATATGCTTAAATGCTATGTGATAATA
* * *
301838 TGTGTAATGTGATACATGCTTAAA
1 TGAGTATTGTGATATATGCTTAAA
301862 AGTGAATATG
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 55 1.00
ACGTcount: A:0.32, C:0.05, G:0.21, T:0.42
Consensus pattern (39 bp):
TGAGTATTGTGATATATGCTTAAATGCTATGTGATAATA
Found at i:303841 original size:17 final size:14
Alignment explanation
Indices: 303812--303861 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
303802 AATTTTGATT
*
303812 ATTTTGGTTAATTA
1 ATTTTGATTAATTA
303826 ATTTTGAATTTTAATTA
1 ATTTTG-A--TTAATTA
*
303843 CTTTTGATTAATTA
1 ATTTTGATTAATTA
303857 ATTTT
1 ATTTT
303862 ATATCACATT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
14 17 0.57
16 1 0.03
17 12 0.40
ACGTcount: A:0.30, C:0.02, G:0.08, T:0.60
Consensus pattern (14 bp):
ATTTTGATTAATTA
Found at i:303854 original size:31 final size:30
Alignment explanation
Indices: 303802--303861 Score: 93
Period size: 31 Copynumber: 2.0 Consensus size: 30
303792 AATTTTGATA
* *
303802 AATTTTGATTATTTTGGTTAATTAATTTTG
1 AATTTTAATTATTTTGATTAATTAATTTTG
303832 AATTTTAATTACTTTTGATTAATTAATTTT
1 AATTTTAATTA-TTTTGATTAATTAATTTT
303862 ATATCACATT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 10 0.37
31 17 0.63
ACGTcount: A:0.30, C:0.02, G:0.08, T:0.60
Consensus pattern (30 bp):
AATTTTAATTATTTTGATTAATTAATTTTG
Found at i:303878 original size:26 final size:24
Alignment explanation
Indices: 303832--303881 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 24
303822 ATTAATTTTG
* *
303832 AATTTTAATTACTTTTGATTAATT
1 AATTTTAATCACTTTTAATTAATT
303856 AATTTTATATCACATTTTAATTAATT
1 AATTTTA-ATCAC-TTTTAATTAATT
303882 CGGCTCGACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 7 0.32
25 4 0.18
26 11 0.50
ACGTcount: A:0.36, C:0.06, G:0.02, T:0.56
Consensus pattern (24 bp):
AATTTTAATCACTTTTAATTAATT
Found at i:312898 original size:113 final size:113
Alignment explanation
Indices: 312700--313039 Score: 619
Period size: 113 Copynumber: 3.0 Consensus size: 113
312690 TGCATATAAG
*
312700 GAATAATATGTAATACAAGAGGAACTAATGACTTTTGGTCAATAATATGAACCTGATATATTAGA
1 GAATATTATGTAATACAAGAGGAACTAATGACTTTTGGTCAATAATATGAACCTGATATATTAGA
312765 TGAGCAACTGATAAAAGTGCTGGGTAATATGTTTAGGTGATGCCGAGA
66 TGAGCAACTGATAAAAGTGCTGGGTAATATGTTTAGGTGATGCCGAGA
312813 GAATATTATGTAATACAAGAGGAACTAATGACTTTTGGTCAATAATATGAACCTGATATATTAGA
1 GAATATTATGTAATACAAGAGGAACTAATGACTTTTGGTCAATAATATGAACCTGATATATTAGA
312878 TGAGCAACTGATAAAAGTGCTGGGTAATATGTTTAGGTGATGCCGAGA
66 TGAGCAACTGATAAAAGTGCTGGGTAATATGTTTAGGTGATGCCGAGA
* * * *
312926 GAATATTATGTAATACAAGAGGAACTAATGACTTTAGGTTAATGATATGAATCTGATATATTAGA
1 GAATATTATGTAATACAAGAGGAACTAATGACTTTTGGTCAATAATATGAACCTGATATATTAGA
*
312991 TGAGCAACTGAT-AAAGTGCTGGGTAATATTTTTAGGTGATGCCGAGA
66 TGAGCAACTGATAAAAGTGCTGGGTAATATGTTTAGGTGATGCCGAGA
313038 GA
1 GA
313040 GAATATTGGA
Statistics
Matches: 221, Mismatches: 6, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
112 36 0.16
113 185 0.84
ACGTcount: A:0.37, C:0.09, G:0.23, T:0.30
Consensus pattern (113 bp):
GAATATTATGTAATACAAGAGGAACTAATGACTTTTGGTCAATAATATGAACCTGATATATTAGA
TGAGCAACTGATAAAAGTGCTGGGTAATATGTTTAGGTGATGCCGAGA
Found at i:313811 original size:18 final size:17
Alignment explanation
Indices: 313757--313824 Score: 57
Period size: 18 Copynumber: 3.7 Consensus size: 17
313747 ATAATTATTT
313757 TAAATTATAT-TTTATAG
1 TAAATTATATATTT-TAG
*
313774 TATTATATATTATGATTTTAG
1 TA-AAT-TA-TAT-ATTTTAG
*
313795 TAAATTCATATATTTTAT
1 TAAATT-ATATATTTTAG
313813 TAAATTATATAT
1 TAAATTATATAT
313825 AATTTATATT
Statistics
Matches: 42, Mismatches: 3, Indels: 12
0.74 0.05 0.21
Matches are distributed among these distances:
17 8 0.19
18 14 0.33
19 6 0.14
20 6 0.14
21 5 0.12
22 3 0.07
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.54
Consensus pattern (17 bp):
TAAATTATATATTTTAG
Found at i:313831 original size:19 final size:18
Alignment explanation
Indices: 313788--313824 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
313778 ATATATTATG
*
313788 ATTTTAGTAAATTCATAT
1 ATTTTATTAAATTCATAT
313806 ATTTTATTAAATT-ATAT
1 ATTTTATTAAATTCATAT
313823 AT
1 AT
313825 AATTTATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (18 bp):
ATTTTATTAAATTCATAT
Found at i:315341 original size:24 final size:23
Alignment explanation
Indices: 315314--315371 Score: 71
Period size: 25 Copynumber: 2.4 Consensus size: 23
315304 TTTTCTCCTA
*
315314 AATTTTTATTTTATTTAATTATTT
1 AATTTTTATTTTATTGAATTA-TT
*
315338 AATTTTTCAATTTATTGAATTATT
1 AATTTTT-ATTTTATTGAATTATT
315362 AATATTTTAT
1 AAT-TTTTAT
315372 ACTAATTAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 13 0.45
25 16 0.55
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (23 bp):
AATTTTTATTTTATTGAATTATT
Found at i:321779 original size:21 final size:21
Alignment explanation
Indices: 321753--321807 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
321743 CACACGGCGG
*
321753 CACACGGGCGTGTGAGACTTC
1 CACACGGCCGTGTGAGACTTC
321774 CACACGGCCGTGTGAGACTTC
1 CACACGGCCGTGTGAGACTTC
321795 CACACGGCCGTGT
1 CACACGGCCGTGT
321808 CTGCCCTGCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.18, C:0.33, G:0.31, T:0.18
Consensus pattern (21 bp):
CACACGGCCGTGTGAGACTTC
Found at i:327751 original size:40 final size:39
Alignment explanation
Indices: 327706--327954 Score: 173
Period size: 40 Copynumber: 6.2 Consensus size: 39
327696 ACTATTTGAT
* * *
327706 TCAGGGTTACTAGAGTATAAATAGGGGCATATAAT-TGCAA
1 TCAGGGATAC-AGAGTATAAACAGGGGCACAT-ATGTGCAA
* * *
327746 TCAGGGGTACCGAAGTACAAACAGGGGCACATATGTGCAA
1 TCAGGGATACAG-AGTATAAACAGGGGCACATATGTGCAA
* * * *
327786 TTAAGGATACTAAAGTACAAACAGGGGCA-AGTATGTGCAA
1 TCAGGGATAC-AGAGTATAAACAGGGGCACA-TATGTGCAA
* *
327826 TCAGGGGTATCA-AGGTATAAATAGGGGCACATATGTGCAA
1 TCAGGGATA-CAGA-GTATAAACAGGGGCACATATGTGCAA
* ** *
327866 TCAGGGATACCGAAGTATAAACAGGGGCATGTATGTGTAA
1 TCAGGGATACAG-AGTATAAACAGGGGCACATATGTGCAA
* * * * * * *
327906 TCAATGG-TACCGAAATACAAATAGGGGCACGTATGTTCAA
1 TC-AGGGATACAG-AGTATAAACAGGGGCACATATGTGCAA
327946 TCAGGGATA
1 TCAGGGATA
327955 ATTATCTATA
Statistics
Matches: 169, Mismatches: 29, Indels: 22
0.77 0.13 0.10
Matches are distributed among these distances:
39 9 0.05
40 154 0.91
41 6 0.04
ACGTcount: A:0.37, C:0.14, G:0.27, T:0.22
Consensus pattern (39 bp):
TCAGGGATACAGAGTATAAACAGGGGCACATATGTGCAA
Found at i:327865 original size:120 final size:120
Alignment explanation
Indices: 327720--327951 Score: 317
Period size: 120 Copynumber: 1.9 Consensus size: 120
327710 GGTTACTAGA
* *
327720 GTATAAATAGGGGCATATAATTGCAATCAGGGGTACCGAAGTACAAACAGGGGCACATATGTGCA
1 GTATAAATAGGGGCACATAATTGCAATCAGGGATACCGAAGTACAAACAGGGGCACATATGTGCA
* *
327785 ATTAA-GGATA-CTAAAGTACAAACAGGGGCAAGTATGTGCAATCAGGGGTATCAAG
66 ATCAATGG-TACCGAAA-TACAAACAGGGGCAAGTATGTGCAATCAGGGGTATCAAG
* ** *
327840 GTATAAATAGGGGCACAT-ATGTGCAATCAGGGATACCGAAGTATAAACAGGGGCATGTATGTGT
1 GTATAAATAGGGGCACATAAT-TGCAATCAGGGATACCGAAGTACAAACAGGGGCACATATGTGC
* * *
327904 AATCAATGGTACCGAAATACAAATAGGGGCACGTATGTTCAATCAGGG
65 AATCAATGGTACCGAAATACAAACAGGGGCAAGTATGTGCAATCAGGG
327952 ATAATTATCT
Statistics
Matches: 98, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
119 2 0.02
120 90 0.92
121 6 0.06
ACGTcount: A:0.37, C:0.14, G:0.28, T:0.21
Consensus pattern (120 bp):
GTATAAATAGGGGCACATAATTGCAATCAGGGATACCGAAGTACAAACAGGGGCACATATGTGCA
ATCAATGGTACCGAAATACAAACAGGGGCAAGTATGTGCAATCAGGGGTATCAAG
Found at i:327968 original size:80 final size:80
Alignment explanation
Indices: 327706--327954 Score: 279
Period size: 80 Copynumber: 3.1 Consensus size: 80
327696 ACTATTTGAT
* * * * *
327706 TCAGGGTTACTAGAGTATAAATAGGGGCATA-TAAT-TGCAATCAGGGGTACCGAAGTACAAACA
1 TCAGGGATACTAAAGTATAAACAGGGGCA-AGT-ATGTGCAATCAAGGGTACCGAAGTACAAATA
327769 GGGGCACATATGTGCAA
64 GGGGCACATATGTGCAA
* * * * * *
327786 TTAAGGATACTAAAGTACAAACAGGGGCAAGTATGTGCAATCAGGGGTATC-AAGGTATAAATAG
1 TCAGGGATACTAAAGTATAAACAGGGGCAAGTATGTGCAATCAAGGGTACCGAA-GTACAAATAG
327850 GGGCACATATGTGCAA
65 GGGCACATATGTGCAA
** * * * *
327866 TCAGGGATACCGAAGTATAAACAGGGGCATGTATGTGTAATCAATGGTACCGAAATACAAATAGG
1 TCAGGGATACTAAAGTATAAACAGGGGCAAGTATGTGCAATCAAGGGTACCGAAGTACAAATAGG
* *
327931 GGCACGTATGTTCAA
66 GGCACATATGTGCAA
327946 TCAGGGATA
1 TCAGGGATA
327955 ATTATCTATA
Statistics
Matches: 142, Mismatches: 23, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
79 5 0.04
80 135 0.95
81 2 0.01
ACGTcount: A:0.37, C:0.14, G:0.27, T:0.22
Consensus pattern (80 bp):
TCAGGGATACTAAAGTATAAACAGGGGCAAGTATGTGCAATCAAGGGTACCGAAGTACAAATAGG
GGCACATATGTGCAA
Found at i:334470 original size:63 final size:63
Alignment explanation
Indices: 334400--334584 Score: 343
Period size: 63 Copynumber: 2.9 Consensus size: 63
334390 AAATACAATA
334400 AATTGTTTAAAGAAAGATTTTGAGATGAAAGATCTTGGAAAAAAAAAATTTATCTTGGCTTAC
1 AATTGTTTAAAGAAAGATTTTGAGATGAAAGATCTTGGAAAAAAAAAATTTATCTTGGCTTAC
334463 AATTGTTTAAAGAAAGATTTTGAGATGAAAGATCTTGGAAAAAAAAAATTTATCTTGGCTTAC
1 AATTGTTTAAAGAAAGATTTTGAGATGAAAGATCTTGGAAAAAAAAAATTTATCTTGGCTTAC
**
334526 AATTGTTTAAAGAAAGATTTTGAGATGAAAGATCTTGGAAAAACAAATTTTTATCTTGG
1 AATTGTTTAAAGAAAGATTTTGAGATGAAAGATCTTGGAAAAA-AAAAATTTATCTTGG
334585 TCCTGAAGTA
Statistics
Matches: 119, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
63 106 0.89
64 13 0.11
ACGTcount: A:0.42, C:0.06, G:0.18, T:0.34
Consensus pattern (63 bp):
AATTGTTTAAAGAAAGATTTTGAGATGAAAGATCTTGGAAAAAAAAAATTTATCTTGGCTTAC
Found at i:337874 original size:24 final size:24
Alignment explanation
Indices: 337847--337920 Score: 75
Period size: 24 Copynumber: 3.2 Consensus size: 24
337837 AAAGGTTGTG
337847 ATAATTATACATTTAAAAATAATT
1 ATAATTATACATTTAAAAATAATT
* ** *
337871 ATAATT-TA-A--TAGAAATTGTG
1 ATAATTATACATTTAAAAATAATT
*
337891 ATAATTAAACATTTAAAAATAATT
1 ATAATTATACATTTAAAAATAATT
337915 ATAATT
1 ATAATT
337921 TAAATTACAA
Statistics
Matches: 37, Mismatches: 9, Indels: 8
0.69 0.17 0.15
Matches are distributed among these distances:
20 13 0.35
21 1 0.03
22 2 0.05
23 2 0.05
24 19 0.51
ACGTcount: A:0.53, C:0.03, G:0.04, T:0.41
Consensus pattern (24 bp):
ATAATTATACATTTAAAAATAATT
Found at i:337914 original size:18 final size:17
Alignment explanation
Indices: 337891--337924 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
337881 AGAAATTGTG
337891 ATAATTAAACATTTAAAA
1 ATAATTAAA-ATTTAAAA
*
337909 ATAATTATAATTTAAA
1 ATAATTAAAATTTAAA
337925 TTACAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (17 bp):
ATAATTAAAATTTAAAA
Found at i:340521 original size:18 final size:18
Alignment explanation
Indices: 340464--340510 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
340454 TGCTCTCTTC
340464 TTTTAATTTTGGTTGTAA
1 TTTTAATTTTGGTTGTAA
*
340482 TTTTAATTTTGGTTGTAG
1 TTTTAATTTTGGTTGTAA
340500 TTTTAATTTTG
1 TTTTAATTTTG
340511 TGCTTAATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.19, C:0.00, G:0.17, T:0.64
Consensus pattern (18 bp):
TTTTAATTTTGGTTGTAA
Found at i:340686 original size:106 final size:111
Alignment explanation
Indices: 340518--340741 Score: 386
Period size: 106 Copynumber: 2.0 Consensus size: 111
340508 TTGTGCTTAA
340518 TTTTTAAATATAATTAGATCTTATTTGGAATTTGGATATTTATTTTAACATTTAAGTTTGATATC
1 TTTTTAAATATAATTAGATCTTATTTGGAA-TT-GATATTTATTTTAACATTTAAGTTTGATATC
340583 ATTTCTAAACTTATTATTAATACAAGTTTTAAAAATACAATATATTAT
64 ATTTCTAAACTTATTATTAATACAAGTTTTAAAAATACAATATATTAT
340631 TTTTTAAATA-AATTAGATCTTATTTGG-A-T-ATA-TTATTTTAACATTTAAGTTTGATATCAT
1 TTTTTAAATATAATTAGATCTTATTTGGAATTGATATTTATTTTAACATTTAAGTTTGATATCAT
*
340691 TTCTAAACTTATTATTAATACAAGTTTTAAAAATTCAATATATTAT
66 TTCTAAACTTATTATTAATACAAGTTTTAAAAATACAATATATTAT
340737 TTTTT
1 TTTTT
340742 TAAAATTGTT
Statistics
Matches: 110, Mismatches: 1, Indels: 7
0.93 0.01 0.06
Matches are distributed among these distances:
106 78 0.71
107 3 0.03
109 1 0.01
111 1 0.01
112 17 0.15
113 10 0.09
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (111 bp):
TTTTTAAATATAATTAGATCTTATTTGGAATTGATATTTATTTTAACATTTAAGTTTGATATCAT
TTCTAAACTTATTATTAATACAAGTTTTAAAAATACAATATATTAT
Found at i:345553 original size:33 final size:34
Alignment explanation
Indices: 345512--345611 Score: 91
Period size: 33 Copynumber: 2.9 Consensus size: 34
345502 GTTCAGATTC
*
345512 AAAAAAAAACTCAATCAAAATCAAAATCAAAA-A
1 AAAAAAAAAATCAATCAAAATCAAAATCAAAAGA
** *
345545 CAAAAAAAAGAA--AAGAAAAATCAAAGTCAAAAGA
1 -AAAAAAAA-AATCAATCAAAATCAAAATCAAAAGA
*
345579 AAAAAAGAGAAATCAATCAAAGTCAAAAT-AAAA
1 AAAAAA-A-AAATCAATCAAAATCAAAATCAAAA
345612 TATGAAAAGA
Statistics
Matches: 52, Mismatches: 8, Indels: 11
0.73 0.11 0.15
Matches are distributed among these distances:
33 23 0.44
34 12 0.23
35 6 0.12
36 11 0.21
ACGTcount: A:0.72, C:0.11, G:0.07, T:0.10
Consensus pattern (34 bp):
AAAAAAAAAATCAATCAAAATCAAAATCAAAAGA
Found at i:345563 original size:26 final size:26
Alignment explanation
Indices: 345534--345594 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 26
345524 AATCAAAATC
345534 AAAATCAAAAACAAAAAAAAGAAAAGA
1 AAAATCAAAAACAAAAAAAA-AAAAGA
** *
345561 AAAATCAAAGTCAAAAGAAAAAAAGA
1 AAAATCAAAAACAAAAAAAAAAAAGA
*
345587 GAAATCAA
1 AAAATCAA
345595 TCAAAGTCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
26 13 0.43
27 17 0.57
ACGTcount: A:0.75, C:0.08, G:0.10, T:0.07
Consensus pattern (26 bp):
AAAATCAAAAACAAAAAAAAAAAAGA
Found at i:346005 original size:13 final size:13
Alignment explanation
Indices: 345989--346014 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
345979 AAAAAAAAGG
345989 TGAAAAATGAAAA
1 TGAAAAATGAAAA
346002 TGAAAAATGAAAA
1 TGAAAAATGAAAA
346015 AGTAAAATGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.15, T:0.15
Consensus pattern (13 bp):
TGAAAAATGAAAA
Found at i:346021 original size:13 final size:13
Alignment explanation
Indices: 345990--346023 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
345980 AAAAAAAGGT
*
345990 GAAAAATGAAAAT
1 GAAAAATGAAAAA
346003 GAAAAATGAAAAA
1 GAAAAATGAAAAA
*
346016 GTAAAATG
1 GAAAAATG
346024 GAGAGGTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.18, T:0.15
Consensus pattern (13 bp):
GAAAAATGAAAAA
Done.