Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr3
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: 26558743
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1281270 characters in sequence are not A, C, G, or T
File 18 of 79
Found at i:6017759 original size:19 final size:19
Alignment explanation
Indices: 6017735--6017773 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
6017725 AGTGTTGACT
*
6017735 ACGAAATACATGACTTTGA
1 ACGAAATACATGAATTTGA
6017754 ACGAAATACATGAATTTGA
1 ACGAAATACATGAATTTGA
6017773 A
1 A
6017774 ATGGAGTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.46, C:0.13, G:0.15, T:0.26
Consensus pattern (19 bp):
ACGAAATACATGAATTTGA
Found at i:6019483 original size:37 final size:37
Alignment explanation
Indices: 6019418--6019509 Score: 112
Period size: 37 Copynumber: 2.5 Consensus size: 37
6019408 ACAAGATCAA
* * * **
6019418 TTTCTTTGCAAAGAATTACTCATGTTCATCTTTGTCT
1 TTTCTTTGCAAGGAATCACTCATATTCATCTTCATCT
*
6019455 TTTCTTTGCAAGGAATCACTCCTATTCATCTTCATCT
1 TTTCTTTGCAAGGAATCACTCATATTCATCTTCATCT
* *
6019492 TTTCCTTACAAGGAATCA
1 TTTCTTTGCAAGGAATCA
6019510 TTGATCTGTC
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 47 1.00
ACGTcount: A:0.24, C:0.23, G:0.10, T:0.43
Consensus pattern (37 bp):
TTTCTTTGCAAGGAATCACTCATATTCATCTTCATCT
Found at i:6024267 original size:28 final size:26
Alignment explanation
Indices: 6024223--6024274 Score: 86
Period size: 28 Copynumber: 1.9 Consensus size: 26
6024213 ATATTATTAA
6024223 TATAATATATATATGTTATAATAAGG
1 TATAATATATATATGTTATAATAAGG
6024249 TATAATATATTATTATGTTATAATAA
1 TATAATATA-TA-TATGTTATAATAA
6024275 ACATTAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 9 0.38
27 2 0.08
28 13 0.54
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (26 bp):
TATAATATATATATGTTATAATAAGG
Found at i:6024947 original size:2 final size:2
Alignment explanation
Indices: 6024940--6024969 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
6024930 AATGTTATTA
*
6024940 AT AT AT AT AT AT AT AT AC AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6024970 CTATTGTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:6027074 original size:6 final size:6
Alignment explanation
Indices: 6027063--6027097 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
6027053 CATATTTAAC
*
6027063 GTATAT GTATAT GTATAT GTATAAT ATATAT GTAT
1 GTATAT GTATAT GTATAT GTAT-AT GTATAT GTAT
6027098 TGATTTTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
6 21 0.81
7 5 0.19
ACGTcount: A:0.37, C:0.00, G:0.14, T:0.49
Consensus pattern (6 bp):
GTATAT
Found at i:6031195 original size:28 final size:28
Alignment explanation
Indices: 6031147--6031200 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
6031137 ATATTATTAA
6031147 TATAATATATATATATATTATAATAAGG
1 TATAATATATATATATATTATAATAAGG
*
6031175 TATAATATAT-TATTATGTTATAATAA
1 TATAATATATATA-TATATTATAATAA
6031201 ACATTAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 2 0.08
28 22 0.92
ACGTcount: A:0.48, C:0.00, G:0.06, T:0.46
Consensus pattern (28 bp):
TATAATATATATATATATTATAATAAGG
Found at i:6037096 original size:90 final size:91
Alignment explanation
Indices: 6036897--6037151 Score: 257
Period size: 90 Copynumber: 2.8 Consensus size: 91
6036887 ACTATTATTC
* * * * *
6036897 AAAATCTTCATATTATTTTTGTATCCGTAAATCAATTTTAGTCTATATTATTTGTTC-GTTGAAT
1 AAAATATTCATATTATTTTTGTATCTGTAAATAAATTTTAGTCTGTATTATTTG-TCGGTCGAAT
* * * *
6036961 TTCATATTTT-TGTATATTAATTTTGT
65 TTTATATTTTCTGTATATCAAATTTCT
** * *
6036987 AAAATATTTGTATCATTTTTGAATCTGTAAA-AATATTTTAGTCTGTATTATTTGTCGGTCGAAT
1 AAAATATTCATATTATTTTTGTATCTGTAAATAA-ATTTTAGTCTGTATTATTTGTCGGTCGAAT
6037051 TTTATATTTTCT-TATATCAAATTTCT
65 TTTATATTTTCTGTATATCAAATTTCT
* * * * * * ** *
6037077 AAAATGTTCATATTGTTTTTTTATTTGTAAATAAAATTTAGTATGTGCTATTTGTTGGTCGAATT
1 AAAATATTCATATTATTTTTGTATCTGTAAATAAATTTTAGTCTGTATTATTTGTCGGTCGAATT
*
6037142 ATATATTTTC
66 TTATATTTTC
6037152 GAATATTAGT
Statistics
Matches: 134, Mismatches: 27, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
89 3 0.02
90 128 0.96
91 3 0.02
ACGTcount: A:0.29, C:0.08, G:0.11, T:0.53
Consensus pattern (91 bp):
AAAATATTCATATTATTTTTGTATCTGTAAATAAATTTTAGTCTGTATTATTTGTCGGTCGAATT
TTATATTTTCTGTATATCAAATTTCT
Found at i:6041131 original size:19 final size:19
Alignment explanation
Indices: 6041090--6041135 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 19
6041080 TGTATGCAAT
6041090 TTCAAAAAATAAAATATGA
1 TTCAAAAAATAAAATATGA
6041109 ---AAAAAATAAAATCAT-A
1 TTCAAAAAATAAAAT-ATGA
6041125 TTCAAAAAATA
1 TTCAAAAAATA
6041136 TGATATGATC
Statistics
Matches: 23, Mismatches: 0, Indels: 8
0.74 0.00 0.26
Matches are distributed among these distances:
16 13 0.57
17 2 0.09
19 8 0.35
ACGTcount: A:0.67, C:0.07, G:0.02, T:0.24
Consensus pattern (19 bp):
TTCAAAAAATAAAATATGA
Found at i:6043358 original size:110 final size:110
Alignment explanation
Indices: 6043149--6043350 Score: 257
Period size: 110 Copynumber: 1.8 Consensus size: 110
6043139 TTGATGTCAG
* ** *
6043149 CCATCTAGTTCCCTAAACCCAAATTTTTTTATCTAATAAAGTGGGTGTCAACCATTAGTGCGTCA
1 CCATCTAGTTCCCTAAACCCAAATTTTTTTATCTAATAAAATGAATATCAACCATTAGTGCGTCA
* *
6043214 GCACCCAAAAAAAATTTTTTTTTAATAAGAAAAAGGTAATGTTGA
66 ACACCCAAAAAAAATTATTTTTTAATAAGAAAAAGGTAATGTTGA
* * * * *
6043259 CCATCTAGTTCCC-CAACCCAAAATTTTTTTATCTGATAAAATGAATATCGACTATTAGTGTG-C
1 CCATCTAGTTCCCTAAACCC-AAATTTTTTTATCTAATAAAATGAATATCAACCATTAGTGCGTC
6043322 TAACA-CCAAAAAACAATTATTTTTTAATA
65 -AACACCCAAAAAA-AATTATTTTTTAATA
6043351 TTAAAAAGTG
Statistics
Matches: 78, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
109 14 0.18
110 64 0.82
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.34
Consensus pattern (110 bp):
CCATCTAGTTCCCTAAACCCAAATTTTTTTATCTAATAAAATGAATATCAACCATTAGTGCGTCA
ACACCCAAAAAAAATTATTTTTTAATAAGAAAAAGGTAATGTTGA
Found at i:6049958 original size:19 final size:20
Alignment explanation
Indices: 6049921--6049972 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
6049911 TAAAATATAA
6049921 ATTTTGAATTTTTATAAA-T
1 ATTTTGAATTTTTATAAATT
6049940 ATTTTGAATTTTTGA-AAATT
1 ATTTTGAATTTTT-ATAAATT
* *
6049960 ACTTTGGATTTTT
1 ATTTTGAATTTTT
6049973 TGTAATTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.58
Consensus pattern (20 bp):
ATTTTGAATTTTTATAAATT
Found at i:6053682 original size:88 final size:88
Alignment explanation
Indices: 6053533--6053721 Score: 297
Period size: 88 Copynumber: 2.1 Consensus size: 88
6053523 AGAAATATGG
* * * *
6053533 CTTGTAGCTTCAATTTTCTTCGCAACAATTTCAAGGGGACGAGATTTATGGTTTTAGTCTGCTCC
1 CTTGTATCTTCAATATTATTCGCAACAATTTCAAGGGGACGAGATTCATGGTTTTAGTCTGCTCC
6053598 ACTACAACGTCAGGGAGATAAGA
66 ACTACAACGTCAGGGAGATAAGA
*
6053621 CTTGTATCTTCAATATTATTCGCAACAATTTCAAGGGGACGAGATTCGTGGTTTTAGTCTGCTCC
1 CTTGTATCTTCAATATTATTCGCAACAATTTCAAGGGGACGAGATTCATGGTTTTAGTCTGCTCC
* * *
6053686 ACTGCAACGTTAGGGGGATAAGA
66 ACTACAACGTCAGGGAGATAAGA
*
6053709 CTTGTATTTTCAA
1 CTTGTATCTTCAA
6053722 CTTGCTCCAC
Statistics
Matches: 92, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
88 92 1.00
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (88 bp):
CTTGTATCTTCAATATTATTCGCAACAATTTCAAGGGGACGAGATTCATGGTTTTAGTCTGCTCC
ACTACAACGTCAGGGAGATAAGA
Found at i:6053973 original size:44 final size:43
Alignment explanation
Indices: 6053866--6054241 Score: 162
Period size: 44 Copynumber: 8.7 Consensus size: 43
6053856 TTTCTGTCTA
* * * *
6053866 CTCCACTGTAACTTCATGGAGATAAGACTA--GA-TGCGATCTG
1 CTCCACTGTAAC-TCAGGGAGATAAGATTATCGACTTCAATCTG
* * ** * *
6053907 CTCTACTGTAACTTCAGAGAGATAAGATCT-TTTATTTCAATTTG
1 CTCCACTGTAAC-TCAGGGAGATAAGAT-TATCGACTTCAATCTG
*
6053951 CTCCACTGTAATCTCAGGGAGATAGGATTATCGACTTCAATCTG
1 CTCCACTGTAA-CTCAGGGAGATAAGATTATCGACTTCAATCTG
* * * *
6053995 CTCCACTGCAACCTCAGGGAGATAAGATTAGCCATCTTCGATCTG
1 CTCCACTGTAA-CTCAGGGAGATAAGATTATCGA-CTTCAATCTG
* * * * * *
6054040 CCCCACTGCAACTTCA-GGAGGATAAGACCT-GCTTAC-TCAGTCTG
1 CTCCACTGTAAC-TCAGGGA-GATAAGA-TTATC-GACTTCAATCTG
* * ** * * *
6054084 CTCCGCTGCAACTTCAGGGAGATAAGA-CCT-GA-TGCGATCTA
1 CTCCACTGTAAC-TCAGGGAGATAAGATTATCGACTTCAATCTG
* ** ** * * * *
6054125 CTCTACTACAACTTCAGAAAGATAAGATCTAT-TACTTTAACCTT
1 CTCCACTGTAAC-TCAGGGAGATAAGAT-TATCGACTTCAATCTG
* * * * *
6054169 CTCCTCTGCAACTTCAGGGAGATAGGATCATCGGCTTCAATCTG
1 CTCCACTGTAAC-TCAGGGAGATAAGATTATCGACTTCAATCTG
6054213 CTCCACTGTAACTTCAGGGAGATAAGATT
1 CTCCACTGTAAC-TCAGGGAGATAAGATT
6054242 TGCCATCTTT
Statistics
Matches: 253, Mismatches: 64, Indels: 33
0.72 0.18 0.09
Matches are distributed among these distances:
41 51 0.20
42 1 0.00
43 6 0.02
44 157 0.62
45 36 0.14
46 2 0.01
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.28
Consensus pattern (43 bp):
CTCCACTGTAACTCAGGGAGATAAGATTATCGACTTCAATCTG
Found at i:6054110 original size:218 final size:218
Alignment explanation
Indices: 6053861--6054432 Score: 837
Period size: 218 Copynumber: 2.6 Consensus size: 218
6053851 ATTTCTTTCT
* * * * *
6053861 GTCTACTCCACTGTAACTTCATGGAGATAAGA-CTAGATGCGATCTGCTCTACTGTAACTTCAGA
1 GTCTACTCCGCTGCAACTTCAGGGAGATAAGACCT-GATGCGATCTACTCTACTGCAACTTCAGA
* * *
6053925 GAGATAAGATCTTTTA-TTTCAATTTGCTCCACTGTAA-TCTCAGGGAGATAGGATTATCGACTT
65 GAGATAAGATCTATTACTTT-AACTTGCTCCTCTGTAACT-TCAGGGAGATAGGATTATCGACTT
6053988 CAATCTGCTCCACTGCAACCTCAGGGAGATAAGATTAGCCATCTTCGATCTGCCCCACTGCAACT
128 CAATCTGCTCCACTGCAACCTCAGGGAGATAAGATTAGCCATCTTCGATCTGCCCCACTGCAACT
6054053 TCAGGAGGATAAGACCTGCTTACTCA
193 TCAGGAGGATAAGACCTGCTTACTCA
* * *
6054079 GTCTGCTCCGCTGCAACTTCAGGGAGATAAGACCTGATGCGATCTACTCTACTACAACTTCAGAA
1 GTCTACTCCGCTGCAACTTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTCAGAG
* * *
6054144 AGATAAGATCTATTACTTTAACCTT-CTCCTCTGCAACTTCAGGGAGATAGGATCATCGGCTTCA
66 AGATAAGATCTATTACTTTAA-CTTGCTCCTCTGTAACTTCAGGGAGATAGGATTATCGACTTCA
* * * * * *
6054208 ATCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGCCATCTTTGATCTGCCCCACTGTAACTTT
130 ATCTGCTCCACTGCAACCTCAGGGAGATAAGATTAGCCATCTTCGATCTGCCCCACTGCAACTTC
* * *
6054273 AGGGGGATTAGACCTGCTTACTTA
195 AGGAGGATAAGACCTGCTTACTCA
6054297 GTCTACTCCGCTGCAACTTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTCAGAG
1 GTCTACTCCGCTGCAACTTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTCAGAG
** * *
6054362 AGATAAGATCTATTACTTTAACCCGCTCCTCTGTAACTTCAGGGAGATAGGATTAACGACTTAAA
66 AGATAAGATCTATTACTTTAACTTGCTCCTCTGTAACTTCAGGGAGATAGGATTATCGACTTCAA
6054427 TCTGCT
131 TCTGCT
6054433 TCTCCACTGT
Statistics
Matches: 316, Mismatches: 33, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
217 1 0.00
218 307 0.97
219 8 0.03
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.29
Consensus pattern (218 bp):
GTCTACTCCGCTGCAACTTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTCAGAG
AGATAAGATCTATTACTTTAACTTGCTCCTCTGTAACTTCAGGGAGATAGGATTATCGACTTCAA
TCTGCTCCACTGCAACCTCAGGGAGATAAGATTAGCCATCTTCGATCTGCCCCACTGCAACTTCA
GGAGGATAAGACCTGCTTACTCA
Found at i:6054332 original size:44 final size:44
Alignment explanation
Indices: 6053991--6054410 Score: 195
Period size: 44 Copynumber: 9.6 Consensus size: 44
6053981 TCGACTTCAA
* * * *
6053991 TCTGCTCCACTGCAACCTCAGGGAGATAAGA-TTAGC-CATCTTCG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACCT-GCTTA-CTTAG
* *
6054035 ATCTGCCCCACTGCAACTTCA-GGAGGATAAGACCTGCTTACTCAG
1 -TCTGCTCCACTGCAACTTCAGGGA-GATAAGACCTGCTTACTTAG
* * * *
6054080 TCTGCTCCGCTGCAACTTCAGGGAGATAAGACCTG-ATGC-GA-
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACCTGCTTACTTAG
* * * ** * * *
6054121 TCTACTCTACTACAACTTCAGAAAGATAAGATCT-ATTACTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACCTGCTTAC-TTAG
* * * * * *
6054165 CCTTCTCCTCTGCAACTTCAGGGAGATAGGATCATCGGCTT-C--AA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-C--CTGCTTACTTAG
* ** * *
6054209 TCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGC-CATCTTTG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACCTGCTTA-CTTAG
* * * * *
6054253 ATCTGCCCCACTGTAACTTTAGGGGGATTAGACCTGCTTACTTAG
1 -TCTGCTCCACTGCAACTTCAGGGAGATAAGACCTGCTTACTTAG
* * * * *
6054298 TCTACTCCGCTGCAACTTCAGGGAGATAAGACCTG-ATGC-GA-
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACCTGCTTACTTAG
* * * * * *
6054339 TCTACTCTACTGCAACTTCAGAGAGATAAGATCT-ATTACTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACCTGCTTAC-TTAG
* * * *
6054383 CCCGCTCCTCTGTAACTTCAGGGAGATA
1 TCTGCTCCACTGCAACTTCAGGGAGATA
6054411 GGATTAACGA
Statistics
Matches: 278, Mismatches: 75, Indels: 45
0.70 0.19 0.11
Matches are distributed among these distances:
41 63 0.23
42 3 0.01
43 6 0.02
44 132 0.47
45 67 0.24
46 3 0.01
47 2 0.01
48 2 0.01
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (44 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACCTGCTTACTTAG
Found at i:6054523 original size:218 final size:213
Alignment explanation
Indices: 6053861--6054506 Score: 718
Period size: 218 Copynumber: 3.0 Consensus size: 213
6053851 ATTTCTTTCT
* * * * *
6053861 GTCTACTCCACTGTAACTTCATGGAGATAAGA-CTAGATGCGATCTGCTCTACTGTAACTTCAGA
1 GTCTACTCCGCTGCAACTTCAGGGAGATAAGACCT-GATGCGATCTACTCTACTGCAACTTCAGA
* ** *
6053925 GAGATAAGATCTTTTA-TTTCAATTTGCTCCACTGTAA-TCTCAGGGAGATAGGATTATCGACTT
65 GAGATAAGATCTATTACTTT-AACCTGCTCCTCTGTAACT-TCAGGGAGATAGGATTATCGACTT
* * * *
6053988 CAATCTGCTCCACTGCAACCTCAGGGAGATAAGATTAGCCATCTTCGATCTGCCCCACTGCAACT
128 CAATCTGCTCCACTG-TA-CT-TGGGAGATAAGATTA-CCATCTTCGATCTGCCCCACTAC-TCT
6054053 TCA-GGAGGATA-AGACCTGCTTAC-TCA
188 T-AGGGA-GATAGA-ACCTGCTTACTTCA
* * *
6054079 GTCTGCTCCGCTGCAACTTCAGGGAGATAAGACCTGATGCGATCTACTCTACTACAACTTCAGAA
1 GTCTACTCCGCTGCAACTTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTCAGAG
* * * *
6054144 AGATAAGATCTATTACTTTAACCTTCTCCTCTGCAACTTCAGGGAGATAGGATCATCGGCTTCAA
66 AGATAAGATCTATTACTTTAACCTGCTCCTCTGTAACTTCAGGGAGATAGGATTATCGACTTCAA
* *
6054209 TCTGCTCCACTGTAACTTCAGGGAGATAAGATTTGCCATCTTTGATCTGCCCCACTGTAACT-TT
131 TCTGCTCCACTGT-ACTT--GGGAGATAAGA-TTACCATCTTCGATCTGCCCCAC--T-ACTCTT
*
6054273 AGGGGGATTAG-ACCTGCTTACTT-A
189 AGGGAGA-TAGAACCTGCTTACTTCA
6054297 GTCTACTCCGCTGCAACTTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTCAGAG
1 GTCTACTCCGCTGCAACTTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTCAGAG
* * *
6054362 AGATAAGATCTATTACTTTAACCCGCTCCTCTGTAACTTCAGGGAGATAGGATTAACGACTTAAA
66 AGATAAGATCTATTACTTTAACCTGCTCCTCTGTAACTTCAGGGAGATAGGATTATCGACTTCAA
* **
6054427 TCTGCTTCTCCACTGTA-TTGGGAAGATAAGATTCATCATCTTCGATCTGTTCCACTACTTCTTA
131 TCTG---CTCCACTGTACTTGGG-AGATAAGATT-ACCATCTTCGATCTGCCCCACTAC-TCTTA
* *
6054491 GGGAGACAGAATCTGC
190 GGGAGATAGAACCTGC
6054507 AATCTTCAAC
Statistics
Matches: 365, Mismatches: 41, Indels: 45
0.81 0.09 0.10
Matches are distributed among these distances:
215 2 0.01
216 4 0.01
217 20 0.05
218 310 0.85
219 17 0.05
220 2 0.01
221 10 0.03
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.29
Consensus pattern (213 bp):
GTCTACTCCGCTGCAACTTCAGGGAGATAAGACCTGATGCGATCTACTCTACTGCAACTTCAGAG
AGATAAGATCTATTACTTTAACCTGCTCCTCTGTAACTTCAGGGAGATAGGATTATCGACTTCAA
TCTGCTCCACTGTACTTGGGAGATAAGATTACCATCTTCGATCTGCCCCACTACTCTTAGGGAGA
TAGAACCTGCTTACTTCA
Found at i:6054644 original size:132 final size:132
Alignment explanation
Indices: 6054402--6054675 Score: 440
Period size: 132 Copynumber: 2.1 Consensus size: 132
6054392 CTGTAACTTC
** * * *
6054402 AGGGAGATAGGATTAACGACTTAAATCTGCTTCTCCACTGTATTGGGAAGATAAGATTCATCATC
1 AGGGAGATAGGACAAATGACTTAAATCTGCTTCTCCACTGTATTGGGAAAATAAGATTCACCATC
* *
6054467 TTCGATCTGTTCCACTACTTCTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACTACTGC
66 TTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACTACTGC
6054532 TT
131 TT
* *
6054534 AGGGTGATAGGACAAATGACTTAAATCTGCTTCTCTACTGTATTGGGAAAATAAGATTCACCATC
1 AGGGAGATAGGACAAATGACTTAAATCTGCTTCTCCACTGTATTGGGAAAATAAGATTCACCATC
* **
6054599 TTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTTGACCTACTCCACTACTGC
66 TTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACTACTGC
6054664 TT
131 TT
6054666 AGGGAGATAG
1 AGGGAGATAG
6054676 AATAATTAGA
Statistics
Matches: 129, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
132 129 1.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (132 bp):
AGGGAGATAGGACAAATGACTTAAATCTGCTTCTCCACTGTATTGGGAAAATAAGATTCACCATC
TTCGATCTGCTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACTACTGC
TT
Found at i:6054730 original size:132 final size:132
Alignment explanation
Indices: 6054419--6054760 Score: 350
Period size: 132 Copynumber: 2.6 Consensus size: 132
6054409 TAGGATTAAC
* * * ** * * * *
6054419 GACTTAAATCTGCTTCTCCACTGTATTGGGAAGATAAGATTCATCATCTTCGATCTGTTCCACTA
1 GACTTAAATCTACTTCACTACTGTACAGGGAAAATAAAATTCACCATCTTCGATCTGCTCCACTA
* * *
6054484 CTTCTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGTGATAGGACAA
66 CTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGAACAA
6054549 AT
131 AT
* * ** *
6054551 GACTTAAATCTGCTTCTCTACTGTATTGGGAAAATAAGATTCACCATCTTCGATCTGCTCCACTA
1 GACTTAAATCTACTTCACTACTGTACAGGGAAAATAAAATTCACCATCTTCGATCTGCTCCACTA
* ** *
6054616 CTGCTTAGGGTGACAGAATCTGCAATCTTTGACCTACTCCACTACTGCTTAGGGAGATAGAATAA
66 CTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGAACAA
*
6054681 TT
131 AT
** * * ** *
6054683 AGA-TTCTATGTACTTCACT-GTAGTCACAGGG-AGGTAAAA-TCTGCCATCTTCGATCTGCTCC
1 -GACTTAAATCTACTTCACTACT-GT-ACAGGGAAAATAAAATTC-ACCATCTTCGATCTGCTCC
*
6054744 ACTACTGCTTAAGGAGA
62 ACTACTGCTTAGGGAGA
6054761 TAAGATCTGA
Statistics
Matches: 180, Mismatches: 26, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
131 3 0.02
132 171 0.95
133 6 0.03
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (132 bp):
GACTTAAATCTACTTCACTACTGTACAGGGAAAATAAAATTCACCATCTTCGATCTGCTCCACTA
CTGCTTAGGGAGACAGAATCTGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGAACAA
AT
Found at i:6054862 original size:50 final size:49
Alignment explanation
Indices: 6054802--6055032 Score: 162
Period size: 50 Copynumber: 4.6 Consensus size: 49
6054792 TGATGTCGAA
* * *
6054802 GAAATTAGATTCGCCGTCGTAGCTTCAATCTACTTCATTACACAGCCAGG
1 GAAATAAGATTCGCCGTCGTAGCTTCAATCTATTTCATTGCACAG-CAGG
*** * * *
6054852 GAAATAAGATTCTTTGTTGTAGCTTCAATCTATTTAATTGCA-ATGTTAGG
1 GAAATAAGATTCGCCGTCGTAGCTTCAATCTATTTCATTGCACA-G-CAGG
** * ** * **
6054902 GAAGCAAGATTCACCGTCGTAGCTTCAATCTATTTCGCTGCACCGCTTG
1 GAAATAAGATTCGCCGTCGTAGCTTCAATCTATTTCATTGCACAGCAGG
* * * *
6054951 GAAAGTAAGATTCGCCGTTGTGGCTTCAATCT-TTTAAATTGCA-ATGTCGGG
1 GAAA-TAAGATTCGCCGTCGTAGCTTCAATCTATTT-CATTGCACA-G-CAGG
* * *
6055002 GAAGTGAGATTCGTCGTCGTAGCTTCAATCT
1 GAAATAAGATTCGCCGTCGTAGCTTCAATCT
6055033 GTTCCGCTGT
Statistics
Matches: 136, Mismatches: 39, Indels: 12
0.73 0.21 0.06
Matches are distributed among these distances:
49 8 0.06
50 123 0.90
51 5 0.04
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (49 bp):
GAAATAAGATTCGCCGTCGTAGCTTCAATCTATTTCATTGCACAGCAGG
Found at i:6054960 original size:100 final size:101
Alignment explanation
Indices: 6054808--6055909 Score: 667
Period size: 100 Copynumber: 10.8 Consensus size: 101
6054798 CGAAGAAATT
* * ** * * ** ***
6054808 AGATTCGCCGTCGTAGCTTCAATCTACTTCATTACACAGCCAGGGAAA-TAAGATTCTTTGTTGT
1 AGATTCACCGTCGTAGCTTCAATCTATTTCGCTGCACCGCCTTGGAAAGTAAGATTCACCGTTGT
* * **
6054872 AGCTTCAATCTATTT-AATTGCAATGTTAGGGAAGCA
66 GGCTTCAATCT-TTTAAATTGCAATGTCAGGGAAGTG
*
6054908 AGATTCACCGTCGTAGCTTCAATCTATTTCGCTGCACCG-CTTGGAAAGTAAGATTCGCCGTTGT
1 AGATTCACCGTCGTAGCTTCAATCTATTTCGCTGCACCGCCTTGGAAAGTAAGATTCACCGTTGT
*
6054972 GGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGTG
66 GGCTTCAATCTTTTAAATTGCAATGTCAGGGAAGTG
** * * * *
6055008 AGATTCGTCGTCGTAGCTTCAATCTGTTCCGCTGTATCGCCTT-GATAAGTAAGATTCACCGTTG
1 AGATTCACCGTCGTAGCTTCAATCTATTTCGCTGCACCGCCTTGGA-AAGTAAGATTCACCGTTG
* *
6055072 TGGCTTCAATCTTTTGAATTGCAATGTCAGAGAAGTG
65 TGGCTTCAATCTTTTAAATTGCAATGTCAGGGAAGTG
* * * * ** * * * ** * * *
6055109 AGATTCACCATCGTAGCTTCAATTTGTTCCGC-GTC-GTGGCTT-CAATCTGTTCCGCTGCATCG
1 AGATTCACCGTCGTAGCTTCAATCTATTTCGCTG-CACCGCCTTGGAA--AG-TAAGATTCACCG
* ** * * *** * * * *
6055171 CCTG-GGAAGTAAGATTCGCCGTTGTGGCTT-CAATCTTTTGAATTGCAATGTCGG
62 -TTGTGG-CTTCA-A-T---C-TTTTAAATTGCAA---TGT-CA-GGGAA-GT--G
* ** * * **
6055225 GGAAGTGAGATTCACCGTCGTAGCTTCAATCTATTCCACTGCATTG-CTT-GAGAAGTAAGATTC
1 AG-A-T-TCA--C--CGTCGTAGCTTCAATCTATTTCGCTGCACCGCCTTGGA-AAGTAAGATTC
* *
6055288 ACCGTTGTGGCTTCAATCTTTTAAATTGCAATATCGGGGAAGTG
58 ACCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCAGGGAAGTG
* * ** **
6055332 AGATTCACCGTCGTAGCTTCAATCTATTCCACTGCATTGCC-T-GAGAAGTAAGATTTGCCGTTG
1 AGATTCACCGTCGTAGCTTCAATCTATTTCGCTGCACCGCCTTGGA-AAGTAAGATTCACCGTTG
* * * *
6055395 TGGCTTCAATATTTTAAATTCCAATGTCAAGAAAGTG
65 TGGCTTCAATCTTTTAAATTGCAATGTCAGGGAAGTG
* * * * * * * *
6055432 AGATTCGCTGTCGTGGCTTCAATCTGTTCCGCTGCATCGCC-TGGGAAGTAAGATTCACTGTTGT
1 AGATTCACCGTCGTAGCTTCAATCTATTTCGCTGCACCGCCTTGGAAAGTAAGATTCACCGTTGT
* **
6055496 GGCTTCAATCTTTTGAATTGCAATGTTGGGGAAGTG
66 GGCTTCAATCTTTTAAATTGCAATGTCAGGGAAGTG
* * * ** *
6055532 AGTTTCACCGTCGTAGCTTCAATCTGTTCCGCTGCATTG-CTTGGGAAGTAAGATTCACCGTTGT
1 AGATTCACCGTCGTAGCTTCAATCTATTTCGCTGCACCGCCTTGGAAAGTAAGATTCACCGTTGT
* * * *
6055596 AGCTTCAATCTTTTGAATTGCAATGTTAAGGAAGTG
66 GGCTTCAATCTTTTAAATTGCAATGTCAGGGAAGTG
* * * * * *
6055632 AGATTCACCGTCGTGGCTTCAATCTGTTTCGCTACATCG-CTTGGGAAGTAAGATTCGCCGTTGT
1 AGATTCACCGTCGTAGCTTCAATCTATTTCGCTGCACCGCCTTGGAAAGTAAGATTCACCGTTGT
* * * *
6055696 GGCTTTAATCTTTTGAATTGCAATATCGGGGAAGTG
66 GGCTTCAATCTTTTAAATTGCAATGTCAGGGAAGTG
* * * * * *
6055732 AGATTCGCCGTCGTAGCTTCAATCTATTCCACTGCATCACC-TGGAAAGTAAGATTCGCCGTTGT
1 AGATTCACCGTCGTAGCTTCAATCTATTTCGCTGCACCGCCTTGGAAAGTAAGATTCACCGTTGT
* * * *
6055796 AGCTTCAATCTTTTTAATTGCAATGTCGGGGAAGTA
66 GGCTTCAATCTTTTAAATTGCAATGTCAGGGAAGTG
* * * * * * * * * * * *
6055832 AGA-TCTGCTGTTGTAGCTTCAATTTGTTCCACTGCAACG-CTAGGAAAGTAAGATCCGCTGTTG
1 AGATTC-ACCGTCGTAGCTTCAATCTATTTCGCTGCACCGCCTTGGAAAGTAAGATTCACCGTTG
*
6055895 TAGCTTCAATCTTTT
65 TGGCTTCAATCTTTT
6055910 TAACTATCGA
Statistics
Matches: 808, Mismatches: 152, Indels: 84
0.77 0.15 0.08
Matches are distributed among these distances:
99 14 0.02
100 603 0.75
101 86 0.11
102 10 0.01
103 4 0.00
104 2 0.00
105 2 0.00
106 1 0.00
107 2 0.00
108 4 0.00
109 8 0.01
110 3 0.00
111 2 0.00
112 3 0.00
113 2 0.00
114 7 0.01
115 4 0.00
116 2 0.00
117 1 0.00
118 2 0.00
119 2 0.00
120 4 0.00
121 10 0.01
122 1 0.00
123 25 0.03
124 4 0.00
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.33
Consensus pattern (101 bp):
AGATTCACCGTCGTAGCTTCAATCTATTTCGCTGCACCGCCTTGGAAAGTAAGATTCACCGTTGT
GGCTTCAATCTTTTAAATTGCAATGTCAGGGAAGTG
Found at i:6055128 original size:50 final size:50
Alignment explanation
Indices: 6054870--6055131 Score: 165
Period size: 50 Copynumber: 5.2 Consensus size: 50
6054860 ATTCTTTGTT
* * *
6054870 GTAGCTTCAATCTATTT-AATTGCAATGTTAGGGAAGCAAGATTCACCGTC
1 GTAGCTTCAATCT-TTTGAATTGCAATGTCAGAGAAGTAAGATTCACCGTC
* ** ** * *
6054920 GTAGCTTCAATCTATTTCG--CTGCACCGCTTGGA-AAGTAAGATTCGCCGTT
1 GTAGCTTCAATCT-TTT-GAATTGCAATG-TCAGAGAAGTAAGATTCACCGTC
* * * * * **
6054970 GTGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGTGAGATTCGTCGTC
1 GTAGCTTCAATCTTTTGAATTGCAATGTCAGAGAAGTAAGATTCACCGTC
* **** * * * * *
6055020 GTAGCTTCAATCTGTTCCGCTG-TATCGCCTTGATAAGTAAGATTCACCGTT
1 GTAGCTTCAATCTTTTGAATTGCAAT-GTC-AGAGAAGTAAGATTCACCGTC
* * *
6055071 GTGGCTTCAATCTTTTGAATTGCAATGTCAGAGAAGTGAGATTCACCATC
1 GTAGCTTCAATCTTTTGAATTGCAATGTCAGAGAAGTAAGATTCACCGTC
6055121 GTAGCTTCAAT
1 GTAGCTTCAAT
6055132 TTGTTCCGCG
Statistics
Matches: 156, Mismatches: 47, Indels: 18
0.71 0.21 0.08
Matches are distributed among these distances:
49 8 0.05
50 111 0.71
51 35 0.22
52 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (50 bp):
GTAGCTTCAATCTTTTGAATTGCAATGTCAGAGAAGTAAGATTCACCGTC
Found at i:6055150 original size:23 final size:23
Alignment explanation
Indices: 6055119--6055163 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
6055109 AGATTCACCA
*
6055119 TCGTAGCTTCAATTTGTTCCGCG
1 TCGTAGCTTCAATCTGTTCCGCG
*
6055142 TCGTGGCTTCAATCTGTTCCGC
1 TCGTAGCTTCAATCTGTTCCGC
6055164 TGCATCGCCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.11, C:0.29, G:0.22, T:0.38
Consensus pattern (23 bp):
TCGTAGCTTCAATCTGTTCCGCG
Found at i:6055203 original size:50 final size:49
Alignment explanation
Indices: 6055147--6056867 Score: 836
Period size: 50 Copynumber: 35.2 Consensus size: 49
6055137 CCGCGTCGTG
* * *
6055147 GCTTCAATCTGTTCCGCTGCATCGCCTGGGAAGTAAGATTCGCCGTTGTG
1 GCTTCAATCTGTTCCACTGCATCG-CTGGGAAGTAAGATTCGCTGTTGTA
* ** * * * * * *
6055197 GCTTCAATCTTTTGAATTGCAAT-GTCGGGGAAGTGAGATTCACCGTCGTA
1 GCTTCAATCTGTTCCACTGC-ATCG-CTGGGAAGTAAGATTCGCTGTTGTA
* * * * * *
6055247 GCTTCAATCTATTCCACTGCATTGCTTGAGAAGTAAGATTCACCGTTGTG
1 GCTTCAATCTGTTCCACTGCATCGC-TGGGAAGTAAGATTCGCTGTTGTA
* ** * ** * * * * *
6055297 GCTTCAATCTTTTAAATTGCAATATCGGGGAAGTGAGATTCACCGTCGTA
1 GCTTCAATCTGTTCCACTGC-ATCGCTGGGAAGTAAGATTCGCTGTTGTA
* * * * * *
6055347 GCTTCAATCTATTCCACTGCATTGCCTGAGAAGTAAGATTTGCCGTTGTG
1 GCTTCAATCTGTTCCACTGCATCG-CTGGGAAGTAAGATTCGCTGTTGTA
* * ** * * ** * * * *
6055397 GCTTCAATATTTTAAATTCCAAT-GTCAAGAAAGTGAGATTCGCTGTCGTG
1 GCTTCAATCTGTTCCACTGC-ATCG-CTGGGAAGTAAGATTCGCTGTTGTA
* * *
6055447 GCTTCAATCTGTTCCGCTGCATCGCCTGGGAAGTAAGATTCACTGTTGTG
1 GCTTCAATCTGTTCCACTGCATCG-CTGGGAAGTAAGATTCGCTGTTGTA
* ** * * * * * * *
6055497 GCTTCAATCTTTTGAATTGCAAT-GTTGGGGAAGTGAGTTTCACCGTCGTA
1 GCTTCAATCTGTTCCACTGC-ATCGCT-GGGAAGTAAGATTCGCTGTTGTA
* * * *
6055547 GCTTCAATCTGTTCCGCTGCATTGCTTGGGAAGTAAGATTCACCGTTGTA
1 GCTTCAATCTGTTCCACTGCATCGC-TGGGAAGTAAGATTCGCTGTTGTA
* ** * * * * * * * *
6055597 GCTTCAATCTTTTGAATTGCAAT-GTTAAGGAAGTGAGATTCACCGTCGTG
1 GCTTCAATCTGTTCCACTGC-ATCGCT-GGGAAGTAAGATTCGCTGTTGTA
* * * * *
6055647 GCTTCAATCTGTTTCGCTACATCGCTTGGGAAGTAAGATTCGCCGTTGTG
1 GCTTCAATCTGTTCCACTGCATCGC-TGGGAAGTAAGATTCGCTGTTGTA
* * ** * ** * * * *
6055697 GCTTTAATCTTTTGAATTGCAATATCGGGGAAGTGAGATTCGCCGTCGTA
1 GCTTCAATCTGTTCCACTGC-ATCGCTGGGAAGTAAGATTCGCTGTTGTA
* * * *
6055747 GCTTCAATCTATTCCACTGCATCACCTGGAAAGTAAGATTCGCCGTTGTA
1 GCTTCAATCTGTTCCACTGCATC-GCTGGGAAGTAAGATTCGCTGTTGTA
* ** * *
6055797 GCTTCAATCTTTTTAATTGCAAT-GTCGGGGAAGTAAGA-TCTGCTGTTGTA
1 GCTTCAATCTGTTCCACTGC-ATCG-CTGGGAAGTAAGATTC-GCTGTTGTA
* * * *
6055847 GCTTCAATTTGTTCCACTGCAACGCTAGGAAAGTAAGATCCGCTGTTGTA
1 GCTTCAATCTGTTCCACTGCATCGCT-GGGAAGTAAGATTCGCTGTTGTA
* ** * * *
6055897 GCTTCAATCTTTTTAACT--ATCG--AGGAAGCAAGATCCGCTGTTGTA
1 GCTTCAATCTGTTCCACTGCATCGCTGGGAAGTAAGATTCGCTGTTGTA
* * ** *
6055942 GCTTCAATCTGTTCCACTGCAACACTAGAAAAGTAAGATCCGCTGTTGTA
1 GCTTCAATCTGTTCCACTGCATCGCT-GGGAAGTAAGATTCGCTGTTGTA
* * ** * * *
6055992 GCTTCAACCTTTTTAACTGC--CG--GGGAAGCAAGATCCGTTGTTGTA
1 GCTTCAATCTGTTCCACTGCATCGCTGGGAAGTAAGATTCGCTGTTGTA
* * * *
6056037 GCGTCAATCTGTTCTACTGCAAT-GCTAGGAAAGTAAGATCCGCTGTTGTA
1 GCTTCAATCTGTTCCACTGC-ATCGCT-GGGAAGTAAGATTCGCTGTTGTA
* ** * * *
6056087 GCTTCAATCTTTTTAACTGC--CG--AGGAAGCAATATTCGCTGTTGTA
1 GCTTCAATCTGTTCCACTGCATCGCTGGGAAGTAAGATTCGCTGTTGTA
* * * ** *
6056132 GCTTCAATCTGTTCCACTGCAACACCAGAAAAGTAAGATCCGCTGTTGTA
1 GCTTCAATCTGTTCCACTGCATC-GCTGGGAAGTAAGATTCGCTGTTGTA
* ** * *
6056182 GCTTCAATCTTTTTAACTGC--CG--GGGAAGCAAGATCCGCTGTTGTA
1 GCTTCAATCTGTTCCACTGCATCGCTGGGAAGTAAGATTCGCTGTTGTA
* * *
6056227 GCTTCAATCTGTTCCACTGCAAT-ACTAGGAAAGTAAGATCCGCTGTTGTA
1 GCTTCAATCTGTTCCACTGC-ATCGCT-GGGAAGTAAGATTCGCTGTTGTA
** * * *
6056277 GCTTCAATCT-TTTAACTGC-T-G--AGGAAGCAAGATCCGCTGTTGTA
1 GCTTCAATCTGTTCCACTGCATCGCTGGGAAGTAAGATTCGCTGTTGTA
* ** **
6056321 GCTTCAATCTGTTCCACTGCAAT-ACTAGAAAAGTAAGA-TCAAATGTTGTA
1 GCTTCAATCTGTTCCACTGC-ATCGCT-GGGAAGTAAGATTC-GCTGTTGTA
* ** * *
6056371 GCTTCAATCTTTTTAACTGC--CG--GGGAAGCAAGATCCGCTGTTGTA
1 GCTTCAATCTGTTCCACTGCATCGCTGGGAAGTAAGATTCGCTGTTGTA
* * * *
6056416 GCTTCAATCTGTTCCACTGCAACACTAGGAAAGTAAGATCCGCTGTTGTA
1 GCTTCAATCTGTTCCACTGCATCGCT-GGGAAGTAAGATTCGCTGTTGTA
* ** * * **
6056466 GCTTCAATCTTTTTAACTG--TCG--GGGAAGCAAGATCCATTGTTGTA
1 GCTTCAATCTGTTCCACTGCATCGCTGGGAAGTAAGATTCGCTGTTGTA
* * * * *
6056511 GCTTTAATCTGTTCCACTGCAACGCTAAGAAAGTAAGATCCGCTGTTGTA
1 GCTTCAATCTGTTCCACTGCATCGCT-GGGAAGTAAGATTCGCTGTTGTA
* ** * *
6056561 GCTTCAATCTTTTTAATTGCAAT-GTCAGGGAAGTAAGA-TCTGCTGTTGTA
1 GCTTCAATCTGTTCCACTGC-ATCG-CTGGGAAGTAAGATTC-GCTGTTGTA
* * * *
6056611 GCTTCAATCTGTTCCACTGCAACGCTAAGAAAGTAAGATCCGCTGTTGTA
1 GCTTCAATCTGTTCCACTGCATCGCT-GGGAAGTAAGATTCGCTGTTGTA
** * * * ** * *
6056661 GCTTCAATCT-TTTTAATTCAAT-GTCGGGGAAGCGAGATTCACCGTTGT-
1 GCTTCAATCTGTTCCACTGC-ATCG-CTGGGAAGTAAGATTCGCTGTTGTA
* * * *
6056709 GACTTCAATCTGTTCCGCTACATCGCCT-GGAAGTAAGATTCGCCGTTGTG
1 G-CTTCAATCTGTTCCACTGCATCG-CTGGGAAGTAAGATTCGCTGTTGTA
** * * * *
6056759 GCTTCAATCT-TTGAATTGGAAT-GTCAGGGAAGTGAGATTCGCTGTTGTA
1 GCTTCAATCTGTTCCACT-GCATCG-CTGGGAAGTAAGATTCGCTGTTGTA
* * * * *
6056808 GCTTCAATCTGCTCCGCTGCATCGCCTGGAAAGTAAGATTCGCCGTTGTG
1 GCTTCAATCTGTTCCACTGCATCG-CTGGGAAGTAAGATTCGCTGTTGTA
6056858 GCTTCAATCT
1 GCTTCAATCT
6056868 TTGAATTGCA
Statistics
Matches: 1253, Mismatches: 337, Indels: 162
0.72 0.19 0.09
Matches are distributed among these distances:
44 30 0.02
45 214 0.17
46 1 0.00
47 9 0.01
48 13 0.01
49 123 0.10
50 841 0.67
51 22 0.02
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.32
Consensus pattern (49 bp):
GCTTCAATCTGTTCCACTGCATCGCTGGGAAGTAAGATTCGCTGTTGTA
Found at i:6055236 original size:123 final size:124
Alignment explanation
Indices: 6055016--6055254 Score: 399
Period size: 123 Copynumber: 1.9 Consensus size: 124
6055006 TGAGATTCGT
* *
6055016 CGTCGTAGCTTCAATCTGTTCCGCTGTATCGCCTTGATAAGTAAGATTCACCGTTGTGGCTTCAA
1 CGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTTGAGAAGTAAGATTCACCGTTGTGGCTTCAA
6055081 TCTTTTGAATTGCAATGTCAGAGAAGTGAGATTCACCATCGTAGCTTCAATTTGTTCCG
66 TCTTTTGAATTGCAATGTCAGAGAAGTGAGATTCACCATCGTAGCTTCAATTTGTTCCG
* * *
6055140 CGTCGTGGCTTCAATCTGTTCCGCTGCATCGCC-TGGGAAGTAAGATTCGCCGTTGTGGCTTCAA
1 CGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTTGAGAAGTAAGATTCACCGTTGTGGCTTCAA
* * *
6055204 TCTTTTGAATTGCAATGTCGGGGAAGTGAGATTCACCGTCGTAGCTTCAAT
66 TCTTTTGAATTGCAATGTCAGAGAAGTGAGATTCACCATCGTAGCTTCAAT
6055255 CTATTCCACT
Statistics
Matches: 107, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
123 76 0.71
124 31 0.29
ACGTcount: A:0.21, C:0.22, G:0.24, T:0.33
Consensus pattern (124 bp):
CGTCGTAGCTTCAATCTGTTCCGCTGCATCGCCTTGAGAAGTAAGATTCACCGTTGTGGCTTCAA
TCTTTTGAATTGCAATGTCAGAGAAGTGAGATTCACCATCGTAGCTTCAATTTGTTCCG
Found at i:6055910 original size:100 final size:100
Alignment explanation
Indices: 6055147--6056878 Score: 1561
Period size: 100 Copynumber: 17.7 Consensus size: 100
6055137 CCGCGTCGTG
* * * * * * *
6055147 GCTTCAATCTGTTCCGCTGCATCGCCT-GGGAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTG
1 GCTTCAATCTGTTCCACTGCAACG-CTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTT
* * * *
6055211 AATTGCAATGTCGGGGAAGTGAGATTCACCGTCGTA
65 AATTGCAATGTCGGGGAAGTAAGATTCGCTGTTGTA
* ** * * * * * *
6055247 GCTTCAATCTATTCCACTGCATTGCT-TGAGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTA
1 GCTTCAATCTGTTCCACTGCAACGCTAGGA-AAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTT
* * * * *
6055311 AATTGCAATATCGGGGAAGTGAGATTCACCGTCGTA
65 AATTGCAATGTCGGGGAAGTAAGATTCGCTGTTGTA
* ** ** * * *
6055347 GCTTCAATCTATTCCACTGCATTGCCT--GAGAAGTAAGATTTGCCGTTGTGGCTTCAATATTTT
1 GCTTCAATCTGTTCCACTGCAACG-CTAGGA-AAGTAAGATCCGCTGTTGTAGCTTCAATCTTTT
* * ** * * * *
6055410 AAATTCCAATGTCAAGAAAGTGAGATTCGCTGTCGTG
64 TAATTGCAATGTCGGGGAAGTAAGATTCGCTGTTGTA
* * * * * * *
6055447 GCTTCAATCTGTTCCGCTGCATCGCCT-GGGAAGTAAGATTCACTGTTGTGGCTTCAATCTTTTG
1 GCTTCAATCTGTTCCACTGCAACG-CTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTT
* * * * * *
6055511 AATTGCAATGTTGGGGAAGTGAGTTTCACCGTCGTA
65 AATTGCAATGTCGGGGAAGTAAGATTCGCTGTTGTA
* ** * * * * * *
6055547 GCTTCAATCTGTTCCGCTGCATTGCTTGGGAAGTAAGATTCACCGTTGTAGCTTCAATCTTTTGA
1 GCTTCAATCTGTTCCACTGCAACGCTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTA
*** * * * * *
6055612 ATTGCAATGTTAAGGAAGTGAGATTCACCGTCGTG
66 ATTGCAATGTCGGGGAAGTAAGATTCGCTGTTGTA
* * * * * * * * * * *
6055647 GCTTCAATCTGTTTCGCTACATCGCTTGGGAAGTAAGATTCGCCGTTGTGGCTTTAATCTTTTGA
1 GCTTCAATCTGTTCCACTGCAACGCTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTA
* * * *
6055712 ATTGCAATATCGGGGAAGTGAGATTCGCCGTCGTA
66 ATTGCAATGTCGGGGAAGTAAGATTCGCTGTTGTA
* * *
6055747 GCTTCAATCTATTCCACTGCATCAC-CT-GGAAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTT
1 GCTTCAATCTGTTCCACTGCA--ACGCTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTT
6055810 TAATTGCAATGTCGGGGAAGTAAGA-TCTGCTGTTGTA
64 TAATTGCAATGTCGGGGAAGTAAGATTC-GCTGTTGTA
*
6055847 GCTTCAATTTGTTCCACTGCAACGCTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTA
1 GCTTCAATCTGTTCCACTGCAACGCTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTA
* * * *
6055912 A---C--TATCGAGGAAGCAAGATCCGCTGTTGTA
66 ATTGCAATGTCGGGGAAGTAAGATTCGCTGTTGTA
* * *
6055942 GCTTCAATCTGTTCCACTGCAACACTAGAAAAGTAAGATCCGCTGTTGTAGCTTCAACCTTTTTA
1 GCTTCAATCTGTTCCACTGCAACGCTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTA
* * * *
6056007 A---C--TGCCGGGGAAGCAAGATCCGTTGTTGTA
66 ATTGCAATGTCGGGGAAGTAAGATTCGCTGTTGTA
* * *
6056037 GCGTCAATCTGTTCTACTGCAATGCTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTA
1 GCTTCAATCTGTTCCACTGCAACGCTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTA
* * * *
6056102 A---C--TGCCGAGGAAGCAATATTCGCTGTTGTA
66 ATTGCAATGTCGGGGAAGTAAGATTCGCTGTTGTA
* * *
6056132 GCTTCAATCTGTTCCACTGCAACACCAGAAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTA
1 GCTTCAATCTGTTCCACTGCAACGCTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTA
* * *
6056197 A---C--TGCCGGGGAAGCAAGATCCGCTGTTGTA
66 ATTGCAATGTCGGGGAAGTAAGATTCGCTGTTGTA
**
6056227 GCTTCAATCTGTTCCACTGCAATACTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATC-TTTTA
1 GCTTCAATCTGTTCCACTGCAACGCTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTA
* * * *
6056291 ACTGC----T-GAGGAAGCAAGATCCGCTGTTGTA
66 ATTGCAATGTCGGGGAAGTAAGATTCGCTGTTGTA
** * ***
6056321 GCTTCAATCTGTTCCACTGCAATACTAGAAAAGTAAGATCAAATGTTGTAGCTTCAATCTTTTTA
1 GCTTCAATCTGTTCCACTGCAACGCTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTA
* * *
6056386 A---C--TGCCGGGGAAGCAAGATCCGCTGTTGTA
66 ATTGCAATGTCGGGGAAGTAAGATTCGCTGTTGTA
*
6056416 GCTTCAATCTGTTCCACTGCAACACTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTA
1 GCTTCAATCTGTTCCACTGCAACGCTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTA
* * **
6056481 A---C--TGTCGGGGAAGCAAGATCCATTGTTGTA
66 ATTGCAATGTCGGGGAAGTAAGATTCGCTGTTGTA
* *
6056511 GCTTTAATCTGTTCCACTGCAACGCTAAGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTA
1 GCTTCAATCTGTTCCACTGCAACGCTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTA
*
6056576 ATTGCAATGTCAGGGAAGTAAGA-TCTGCTGTTGTA
66 ATTGCAATGTCGGGGAAGTAAGATTC-GCTGTTGTA
*
6056611 GCTTCAATCTGTTCCACTGCAACGCTAAGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTA
1 GCTTCAATCTGTTCCACTGCAACGCTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTA
** * *
6056676 ATT-CAATGTCGGGGAAGCGAGATTCACCGTTGT-
66 ATTGCAATGTCGGGGAAGTAAGATTCGCTGTTGTA
* * * * * *
6056709 GACTTCAATCTGTTCCGCTACATCGCCT-GG-AAGTAAGATTCGCCGTTGTGGCTTCAATC-TTT
1 G-CTTCAATCTGTTCCACTGCAACG-CTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTT
* * * *
6056771 GAATTGGAATGTCAGGGAAGTGAGATTCGCTGTTGTA
64 TAATTGCAATGTCGGGGAAGTAAGATTCGCTGTTGTA
* * * * * * *
6056808 GCTTCAATCTGCTCCGCTGCATCGCCT-GGAAAGTAAGATTCGCCGTTGTGGCTTCAATC-TTTG
1 GCTTCAATCTGTTCCACTGCAACG-CTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTT
6056871 AATTGCAA
65 AATTGCAA
6056879 ACTATGGTTT
Statistics
Matches: 1450, Mismatches: 153, Indels: 59
0.87 0.09 0.04
Matches are distributed among these distances:
92 1 0.00
94 84 0.06
95 515 0.36
96 1 0.00
97 9 0.01
98 81 0.06
99 94 0.06
100 659 0.45
101 5 0.00
102 1 0.00
ACGTcount: A:0.25, C:0.21, G:0.23, T:0.32
Consensus pattern (100 bp):
GCTTCAATCTGTTCCACTGCAACGCTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTTTTA
ATTGCAATGTCGGGGAAGTAAGATTCGCTGTTGTA
Found at i:6055975 original size:95 final size:95
Alignment explanation
Indices: 6055744--6056869 Score: 1334
Period size: 95 Copynumber: 11.7 Consensus size: 95
6055734 ATTCGCCGTC
* * * * *
6055744 GTAGCTTCAATCTATTCCACTGCATCACCT-GGAAAGTAAGATTCGCCGTTGTAGCTTCAATCTT
1 GTAGCTTCAATCTGTTCCACTGCAACA-CTAGAAAAGTAAGATCCGCTGTTGTAGCTTCAATCTT
* * *
6055808 TTTAATTGCAATGTCGGGGAAGTAAGATCTGCTGTT
65 TTTAA---C--TGCCGGGGAAGCAAGATCCGCTGTT
* * *
6055844 GTAGCTTCAATTTGTTCCACTGCAACGCTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTT
1 GTAGCTTCAATCTGTTCCACTGCAACACTAGAAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTT
** *
6055909 TTAACTATCGAGGAAGCAAGATCCGCTGTT
66 TTAACTGCCGGGGAAGCAAGATCCGCTGTT
*
6055939 GTAGCTTCAATCTGTTCCACTGCAACACTAGAAAAGTAAGATCCGCTGTTGTAGCTTCAACCTTT
1 GTAGCTTCAATCTGTTCCACTGCAACACTAGAAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTT
*
6056004 TTAACTGCCGGGGAAGCAAGATCCGTTGTT
66 TTAACTGCCGGGGAAGCAAGATCCGCTGTT
* * ** *
6056034 GTAGCGTCAATCTGTTCTACTGCAATGCTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTT
1 GTAGCTTCAATCTGTTCCACTGCAACACTAGAAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTT
* * *
6056099 TTAACTGCCGAGGAAGCAATATTCGCTGTT
66 TTAACTGCCGGGGAAGCAAGATCCGCTGTT
*
6056129 GTAGCTTCAATCTGTTCCACTGCAACACCAGAAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTT
1 GTAGCTTCAATCTGTTCCACTGCAACACTAGAAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTT
6056194 TTAACTGCCGGGGAAGCAAGATCCGCTGTT
66 TTAACTGCCGGGGAAGCAAGATCCGCTGTT
* *
6056224 GTAGCTTCAATCTGTTCCACTGCAATACTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATC-TT
1 GTAGCTTCAATCTGTTCCACTGCAACACTAGAAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTT
* *
6056288 TTAACTGCTGAGGAAGCAAGATCCGCTGTT
66 TTAACTGCCGGGGAAGCAAGATCCGCTGTT
* ***
6056318 GTAGCTTCAATCTGTTCCACTGCAATACTAGAAAAGTAAGATCAAATGTTGTAGCTTCAATCTTT
1 GTAGCTTCAATCTGTTCCACTGCAACACTAGAAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTT
6056383 TTAACTGCCGGGGAAGCAAGATCCGCTGTT
66 TTAACTGCCGGGGAAGCAAGATCCGCTGTT
*
6056413 GTAGCTTCAATCTGTTCCACTGCAACACTAGGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTT
1 GTAGCTTCAATCTGTTCCACTGCAACACTAGAAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTT
* **
6056478 TTAACTGTCGGGGAAGCAAGATCCATTGTT
66 TTAACTGCCGGGGAAGCAAGATCCGCTGTT
* *
6056508 GTAGCTTTAATCTGTTCCACTGCAACGCTA-AGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTT
1 GTAGCTTCAATCTGTTCCACTGCAACACTAGA-AAAGTAAGATCCGCTGTTGTAGCTTCAATCTT
* * * *
6056572 TTTAATTGCAATGTCAGGGAAGTAAGATCTGCTGTT
65 TTTAA---C--TGCCGGGGAAGCAAGATCCGCTGTT
*
6056608 GTAGCTTCAATCTGTTCCACTGCAACGCTA-AGAAAGTAAGATCCGCTGTTGTAGCTTCAATCTT
1 GTAGCTTCAATCTGTTCCACTGCAACACTAGA-AAAGTAAGATCCGCTGTTGTAGCTTCAATCTT
* * * * *
6056672 TTTAATTCAATGTCGGGGAAGCGAGATTCACCGTT
65 TTTAA--C--TGCCGGGGAAGCAAGATCCGCTGTT
* * * * * * * *
6056707 GT-GACTTCAATCTGTTCCGCTACATCGCCT-G-GAAGTAAGATTCGCCGTTGTGGCTTCAATCT
1 GTAG-CTTCAATCTGTTCCACTGCAAC-ACTAGAAAAGTAAGATCCGCTGTTGTAGCTTCAATCT
* * ** *
6056769 TTGAATTGGAA-TGTCAGGGAAGTGAGATTCGCTGTT
64 TT---TT--AACTGCCGGGGAAGCAAGATCCGCTGTT
* * * * * * * *
6056805 GTAGCTTCAATCTGCTCCGCTGCATCGCCT-GGAAAGTAAGATTCGCCGTTGTGGCTTCAATCTT
1 GTAGCTTCAATCTGTTCCACTGCAAC-ACTAGAAAAGTAAGATCCGCTGTTGTAGCTTCAATCTT
6056869 T
65 T
6056870 GAATTGCAAA
Statistics
Matches: 920, Mismatches: 88, Indels: 37
0.88 0.08 0.04
Matches are distributed among these distances:
94 88 0.10
95 520 0.57
97 1 0.00
98 79 0.09
99 78 0.08
100 150 0.16
101 2 0.00
103 2 0.00
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.32
Consensus pattern (95 bp):
GTAGCTTCAATCTGTTCCACTGCAACACTAGAAAAGTAAGATCCGCTGTTGTAGCTTCAATCTTT
TTAACTGCCGGGGAAGCAAGATCCGCTGTT
Found at i:6058071 original size:44 final size:43
Alignment explanation
Indices: 6058006--6058111 Score: 124
Period size: 43 Copynumber: 2.5 Consensus size: 43
6057996 TGCCTCGATC
*
6058006 TGAT-CAAAATTTGAGCTGCTCTAATCACCACCATGCCCCAATT
1 TGATCCAAAATTTGAGCCGCTCTAATCA-CACCATGCCCCAATT
* * ** * *
6058049 TGATCCAAAATTTAAGCCGCTCTGATCACTTCGTGCCCCATTT
1 TGATCCAAAATTTGAGCCGCTCTAATCACACCATGCCCCAATT
*
6058092 TGTTCCAAAATTTGAGCCGC
1 TGATCCAAAATTTGAGCCGC
6058112 CCTTTTTGGG
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
43 33 0.62
44 20 0.38
ACGTcount: A:0.26, C:0.29, G:0.14, T:0.30
Consensus pattern (43 bp):
TGATCCAAAATTTGAGCCGCTCTAATCACACCATGCCCCAATT
Found at i:6072066 original size:6 final size:6
Alignment explanation
Indices: 6072055--6072093 Score: 53
Period size: 6 Copynumber: 6.3 Consensus size: 6
6072045 TTAACTTCTC
6072055 CTTTTT CTTTTT C-TTTT CTTTTTT CTTATTT CTTTTT CT
1 CTTTTT CTTTTT CTTTTT C-TTTTT CTT-TTT CTTTTT CT
6072094 CTTATTTTTG
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
5 5 0.17
6 14 0.47
7 11 0.37
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (6 bp):
CTTTTT
Found at i:6072096 original size:15 final size:14
Alignment explanation
Indices: 6072058--6072100 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
6072048 ACTTCTCCTT
6072058 TTTC-TTTTTC-T-
1 TTTCTTTTTTCTTA
6072069 TTTCTTTTTTCTTA
1 TTTCTTTTTTCTTA
6072083 TTTCTTTTTCTCTTA
1 TTTCTTTTT-TCTTA
6072098 TTT
1 TTT
6072101 TTGACATTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
11 4 0.14
12 6 0.21
13 1 0.04
14 9 0.32
15 8 0.29
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.79
Consensus pattern (14 bp):
TTTCTTTTTTCTTA
Found at i:6072120 original size:10 final size:10
Alignment explanation
Indices: 6072107--6072146 Score: 80
Period size: 10 Copynumber: 4.0 Consensus size: 10
6072097 ATTTTTGACA
6072107 TTGATTTTTT
1 TTGATTTTTT
6072117 TTGATTTTTT
1 TTGATTTTTT
6072127 TTGATTTTTT
1 TTGATTTTTT
6072137 TTGATTTTTT
1 TTGATTTTTT
6072147 GATTTTTCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 30 1.00
ACGTcount: A:0.10, C:0.00, G:0.10, T:0.80
Consensus pattern (10 bp):
TTGATTTTTT
Found at i:6072126 original size:8 final size:9
Alignment explanation
Indices: 6072107--6072153 Score: 60
Period size: 10 Copynumber: 5.0 Consensus size: 9
6072097 ATTTTTGACA
6072107 TTGATTTTTT
1 TTGA-TTTTT
6072117 TTGATTTTTT
1 TTGA-TTTTT
6072127 TTGATTTTTT
1 TTGA-TTTTT
6072137 TTGA-TTTT
1 TTGATTTTT
6072145 TTGATTTTT
1 TTGATTTTT
6072154 CTTTCGAGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
8 8 0.22
9 4 0.11
10 24 0.67
ACGTcount: A:0.11, C:0.00, G:0.11, T:0.79
Consensus pattern (9 bp):
TTGATTTTT
Found at i:6076606 original size:3 final size:3
Alignment explanation
Indices: 6076598--6076633 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
6076588 TAAATGAGGA
6076598 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
6076634 TTAAGAAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:6077375 original size:14 final size:14
Alignment explanation
Indices: 6077353--6077382 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
6077343 TTTCTTATGT
*
6077353 AAAAGATAAAATAA
1 AAAAAATAAAATAA
6077367 AAAAAATAAAATAA
1 AAAAAATAAAATAA
6077381 AA
1 AA
6077383 CAAGCAAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.13
Consensus pattern (14 bp):
AAAAAATAAAATAA
Found at i:6084566 original size:90 final size:90
Alignment explanation
Indices: 6084453--6085536 Score: 1611
Period size: 90 Copynumber: 12.1 Consensus size: 90
6084443 CTAGACCTGT
* * *
6084453 TATCTTCGATCTACATCGCTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTCCGCT
1 TATCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATCTTCGATCTACTCCGCT
*
6084518 ACCAACATAGGAAGGCAAGATCTGC
66 ACCAACATAGGAAGACAAGATCTGC
* *
6084543 TAT-TTTCGATCTACGTCGTTGCCAATACAGGAAGACAAGATCTGTTATCTTCGATCTACTCCGC
1 TATCTTT-GATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATCTTCGATCTACTCCGC
* *
6084607 TGCCAACATAGGAAGATAAGATCTGC
65 TACCAACATAGGAAGACAAGATCTGC
*
6084633 TATCTTTGATCTACTTCGTTGCCAATACAGGAAGACAAGATCTGTTATCTTCGATCTACTCCGCT
1 TATCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATCTTCGATCTACTCCGCT
* *
6084698 GCCAACATAGGAAGATAAGATCTGC
66 ACCAACATAGGAAGACAAGATCTGC
* *
6084723 TATCTTTGATCTACTTCGTTGCCAATACAGGAAGACAAGATCTGTTATCTTCAATCTACTCCGCT
1 TATCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATCTTCGATCTACTCCGCT
6084788 ACCAACATAGGAAGACAAGATCTGC
66 ACCAACATAGGAAGACAAGATCTGC
* * * *
6084813 TATCTTTGATCTGA-TTCGCTGCCAATACAGGAAGACAATATCTATTATCTTCGATCTACTTCAC
1 TATCTTTGATCT-ACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATCTTCGATCTACTCCGC
* * *
6084877 TACCAATATAGGAAGACAAGATTTGT
65 TACCAACATAGGAAGACAAGATCTGC
* * * * * * * * * *
6084903 TATCTTCGATCTAC-TCTGCTACCAACATAGGAAGAAAAAATCTGCTATATTTGATCTACTTCGC
1 TATCTTTGATCTACTTC-GCTGCCAATACAGGAAGACAAGATCTGTTATCTTCGATCTACTCCGC
* * * **
6084967 TGCCAATATAGGAAGACAATATCTAT
65 TACCAACATAGGAAGACAAGATCTGC
* * *
6084993 TATCTTCGATCTACTTCGCTACCAATATAGG-AGACAAGATCTGTTATCTTCGATCTACTCCGCT
1 TATCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATCTTCGATCTACTCCGCT
*
6085057 ACCAACATAGGAAGACAAGATTTGC
66 ACCAACATAGGAAGACAAGATCTGC
* *
6085082 TATCTTTGATCTACTTCGTTGCCAATACAGGAAGACAAGATCTATTATCTTCGATCTACTCCGCT
1 TATCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATCTTCGATCTACTCCGCT
*
6085147 ACCAACATAGGAAGATAAGATCTGC
66 ACCAACATAGGAAGACAAGATCTGC
* *
6085172 TATCTTTGATCTACTTCGTTGCCAATATAGGAAGACAAGATCTGTTATCTTCGATCTACTCCGCT
1 TATCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATCTTCGATCTACTCCGCT
*
6085237 ACCAATATAGGAAGACAAGATCTGC
66 ACCAACATAGGAAGACAAGATCTGC
* *
6085262 TATCTTCGATCTACTTCGCTGCCAATACAAGAAGACAAGATCTGTTATCTTCGATCTACTCCGCT
1 TATCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATCTTCGATCTACTCCGCT
6085327 ACC-ACATAGGAAGACAAGATCTGC
66 ACCAACATAGGAAGACAAGATCTGC
* * *
6085351 TATCTTCGATCTACTTCGCTGCCAATACAAGAAGACAAGATCTGTTATCTTCGATCTACTCTGCT
1 TATCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATCTTCGATCTACTCCGCT
6085416 ACCAACATAGGAAGACAAGATCTGC
66 ACCAACATAGGAAGACAAGATCTGC
* * * *
6085441 TATCTTTGATCTGCTTCGCTGCCAATACAGGAAGACAATATCTGTTATATTCGATCTACTCCGAT
1 TATCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATCTTCGATCTACTCCGCT
*
6085506 ACCAATATAGGAAGACAAGATCTGC
66 ACCAACATAGGAAGACAAGATCTGC
6085531 TATCTT
1 TATCTT
6085537 CAACCTACTC
Statistics
Matches: 913, Mismatches: 73, Indels: 16
0.91 0.07 0.02
Matches are distributed among these distances:
89 165 0.18
90 742 0.81
91 6 0.01
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.30
Consensus pattern (90 bp):
TATCTTTGATCTACTTCGCTGCCAATACAGGAAGACAAGATCTGTTATCTTCGATCTACTCCGCT
ACCAACATAGGAAGACAAGATCTGC
Found at i:6085545 original size:45 final size:45
Alignment explanation
Indices: 6084453--6085547 Score: 1309
Period size: 45 Copynumber: 24.4 Consensus size: 45
6084443 CTAGACCTGT
*
6084453 TATCTTCGATCTACAT-CGCTGCCAATACAGGAAGACAAGATCTGC
1 TATCTTCGATCTAC-TCCGCTGCCAATATAGGAAGACAAGATCTGC
* * *
6084498 TATCTTCGATCTACTCCGCTACCAACATAGGAAGGCAAGATCTGC
1 TATCTTCGATCTACTCCGCTGCCAATATAGGAAGACAAGATCTGC
* * * *
6084543 TATTTTCGATCTACGT-CGTTGCCAATACAGGAAGACAAGATCTGT
1 TATCTTCGATCTAC-TCCGCTGCCAATATAGGAAGACAAGATCTGC
* *
6084588 TATCTTCGATCTACTCCGCTGCCAACATAGGAAGATAAGATCTGC
1 TATCTTCGATCTACTCCGCTGCCAATATAGGAAGACAAGATCTGC
* * * * *
6084633 TATCTTTGATCTACTTCGTTGCCAATACAGGAAGACAAGATCTGT
1 TATCTTCGATCTACTCCGCTGCCAATATAGGAAGACAAGATCTGC
* *
6084678 TATCTTCGATCTACTCCGCTGCCAACATAGGAAGATAAGATCTGC
1 TATCTTCGATCTACTCCGCTGCCAATATAGGAAGACAAGATCTGC
* * * * *
6084723 TATCTTTGATCTACTTCGTTGCCAATACAGGAAGACAAGATCTGT
1 TATCTTCGATCTACTCCGCTGCCAATATAGGAAGACAAGATCTGC
* * *
6084768 TATCTTCAATCTACTCCGCTACCAACATAGGAAGACAAGATCTGC
1 TATCTTCGATCTACTCCGCTGCCAATATAGGAAGACAAGATCTGC
* * * * **
6084813 TATCTTTGATCTGA-TTCGCTGCCAATACAGGAAGACAATATCTAT
1 TATCTTCGATCT-ACTCCGCTGCCAATATAGGAAGACAAGATCTGC
* * * * *
6084858 TATCTTCGATCTACTTCACTACCAATATAGGAAGACAAGATTTGT
1 TATCTTCGATCTACTCCGCTGCCAATATAGGAAGACAAGATCTGC
* * * * *
6084903 TATCTTCGATCTACTCTGCTACCAACATAGGAAGAAAAAATCTGC
1 TATCTTCGATCTACTCCGCTGCCAATATAGGAAGACAAGATCTGC
* * * * **
6084948 TATATTTGATCTACTTCGCTGCCAATATAGGAAGACAATATCTAT
1 TATCTTCGATCTACTCCGCTGCCAATATAGGAAGACAAGATCTGC
* * *
6084993 TATCTTCGATCTACTTCGCTACCAATATAGG-AGACAAGATCTGT
1 TATCTTCGATCTACTCCGCTGCCAATATAGGAAGACAAGATCTGC
* * *
6085037 TATCTTCGATCTACTCCGCTACCAACATAGGAAGACAAGATTTGC
1 TATCTTCGATCTACTCCGCTGCCAATATAGGAAGACAAGATCTGC
* * * * **
6085082 TATCTTTGATCTACTTCGTTGCCAATACAGGAAGACAAGATCTAT
1 TATCTTCGATCTACTCCGCTGCCAATATAGGAAGACAAGATCTGC
* * *
6085127 TATCTTCGATCTACTCCGCTACCAACATAGGAAGATAAGATCTGC
1 TATCTTCGATCTACTCCGCTGCCAATATAGGAAGACAAGATCTGC
* * * *
6085172 TATCTTTGATCTACTTCGTTGCCAATATAGGAAGACAAGATCTGT
1 TATCTTCGATCTACTCCGCTGCCAATATAGGAAGACAAGATCTGC
*
6085217 TATCTTCGATCTACTCCGCTACCAATATAGGAAGACAAGATCTGC
1 TATCTTCGATCTACTCCGCTGCCAATATAGGAAGACAAGATCTGC
* * * *
6085262 TATCTTCGATCTACTTCGCTGCCAATACAAGAAGACAAGATCTGT
1 TATCTTCGATCTACTCCGCTGCCAATATAGGAAGACAAGATCTGC
* *
6085307 TATCTTCGATCTACTCCGCTACC-ACATAGGAAGACAAGATCTGC
1 TATCTTCGATCTACTCCGCTGCCAATATAGGAAGACAAGATCTGC
* * * *
6085351 TATCTTCGATCTACTTCGCTGCCAATACAAGAAGACAAGATCTGT
1 TATCTTCGATCTACTCCGCTGCCAATATAGGAAGACAAGATCTGC
* * *
6085396 TATCTTCGATCTACTCTGCTACCAACATAGGAAGACAAGATCTGC
1 TATCTTCGATCTACTCCGCTGCCAATATAGGAAGACAAGATCTGC
* * * * * *
6085441 TATCTTTGATCTGCTTCGCTGCCAATACAGGAAGACAATATCTGT
1 TATCTTCGATCTACTCCGCTGCCAATATAGGAAGACAAGATCTGC
* * *
6085486 TATATTCGATCTACTCCGATACCAATATAGGAAGACAAGATCTGC
1 TATCTTCGATCTACTCCGCTGCCAATATAGGAAGACAAGATCTGC
* *
6085531 TATCTTCAACCTACTCC
1 TATCTTCGATCTACTCC
6085548 ACTACTGCTC
Statistics
Matches: 879, Mismatches: 164, Indels: 14
0.83 0.16 0.01
Matches are distributed among these distances:
44 81 0.09
45 796 0.91
46 2 0.00
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (45 bp):
TATCTTCGATCTACTCCGCTGCCAATATAGGAAGACAAGATCTGC
Found at i:6095940 original size:15 final size:16
Alignment explanation
Indices: 6095922--6095954 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
6095912 AATGTAAACA
6095922 AATTTGAAAAT-AATG
1 AATTTGAAAATGAATG
6095937 AATTTGAAAATGAATG
1 AATTTGAAAATGAATG
6095953 AA
1 AA
6095955 AAAAGGAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.55, C:0.00, G:0.15, T:0.30
Consensus pattern (16 bp):
AATTTGAAAATGAATG
Found at i:6096244 original size:22 final size:21
Alignment explanation
Indices: 6096209--6096266 Score: 53
Period size: 22 Copynumber: 2.7 Consensus size: 21
6096199 AAAGGGTATC
* *
6096209 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
6096230 TACAAAATCATATCTTTTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
6096253 TGCATATCATATCT
1 TACAAATCATATCT
6096267 AAGATTGCAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
21 4 0.13
22 17 0.57
23 9 0.30
ACGTcount: A:0.41, C:0.16, G:0.05, T:0.38
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:6096260 original size:17 final size:17
Alignment explanation
Indices: 6096238--6096289 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 17
6096228 ATTACAAAAT
6096238 CATATCTTTTAAGATTG
1 CATATCTTTTAAGATTG
*
6096255 CATATCATATCTAAGATTG
1 CATATC-T-TTTAAGATTG
* *
6096274 CATATCCTTGAAGATT
1 CATATCTTTTAAGATT
6096290 ATGTTTCCAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 13 0.45
18 1 0.03
19 15 0.52
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (17 bp):
CATATCTTTTAAGATTG
Found at i:6111111 original size:71 final size:70
Alignment explanation
Indices: 6111036--6111975 Score: 1341
Period size: 71 Copynumber: 13.2 Consensus size: 70
6111026 AATGTTGTCT
6111036 AATTGTTGCATATATGCTGTCTAATTTTTGATGTAAAAATGCTGCTCAATTTGGTATATATATGC
1 AATTGTTGC-TATATGCTGTCTAATTTTTGATGTAAAAATGCTGCTCAATTTGGTATATATATGC
6111101 TGCCCA
65 TGCCCA
*
6111107 AATTGTTGTCTATATGCTGTCTAATTTTTGATGTAAAAATGCTACTCAATTTGGTATATATATGC
1 AATTGTTG-CTATATGCTGTCTAATTTTTGATGTAAAAATGCTGCTCAATTTGGTATATATATGC
6111172 TGCCCA
65 TGCCCA
* * * *
6111178 AA-TGTTGTGTATTATGCTGTCCAATTTTTGATGTAAAAATACTGCTCAATTTGTTATATATATG
1 AATTGTTG-CTA-TATGCTGTCTAATTTTTGATGTAAAAATGCTGCTCAATTTGGTATATATATG
6111242 CTGCCCA
64 CTGCCCA
* *
6111249 AATTGTTGTGTATATGCTGTCCAATTTTTGATGTAAAAATGCTGCTCAATTTGGTATATATATGC
1 AATTGTTG-CTATATGCTGTCTAATTTTTGATGTAAAAATGCTGCTCAATTTGGTATATATATGC
6111314 TGCCCA
65 TGCCCA
*
6111320 AATTGTTGTCTATATGCTGTCTAATTTTTGATGTAAAAATGCTACTCAATTTGGTATATATATGC
1 AATTGTTG-CTATATGCTGTCTAATTTTTGATGTAAAAATGCTGCTCAATTTGGTATATATATGC
6111385 TGCCCA
65 TGCCCA
*
6111391 AATTGTTGTCTATATGCTGTCTAATTTTTGATGTAAAAATGCTACTCAATTTGGTATATATATGC
1 AATTGTTG-CTATATGCTGTCTAATTTTTGATGTAAAAATGCTGCTCAATTTGGTATATATATGC
6111456 TGCCCA
65 TGCCCA
*
6111462 AATTGTTGTCTATATGCTGTCTAATTTTTTATGTAAAAATGCTGCTCAATTTGGTATATATATGC
1 AATTGTTG-CTATATGCTGTCTAATTTTTGATGTAAAAATGCTGCTCAATTTGGTATATATATGC
6111527 TGCCCA
65 TGCCCA
* * * *
6111533 AATTGTTGTGTATATGCTGTCCAATTTTTGATGTAAAAATACTGCTCAATTTGGTACATATATGC
1 AATTGTTG-CTATATGCTGTCTAATTTTTGATGTAAAAATGCTGCTCAATTTGGTATATATATGC
6111598 TGCCCA
65 TGCCCA
*
6111604 AATTGTTGTCTATATGCTGTCTAATTTTTTATGTAAAAATGCTGCTCAATTTGGTATATATATGC
1 AATTGTTG-CTATATGCTGTCTAATTTTTGATGTAAAAATGCTGCTCAATTTGGTATATATATGC
6111669 TGCCCA
65 TGCCCA
* * * * *
6111675 AAATGTTGTGTATATGCTGTCCAATTTTTGATGTAAAAATACTGCTCAATTTGTTATATATATGC
1 AATTGTTG-CTATATGCTGTCTAATTTTTGATGTAAAAATGCTGCTCAATTTGGTATATATATGC
6111740 TGCCCA
65 TGCCCA
* *
6111746 AATTGTTGTCTATATGCTGTCCAATTTTTGATGTAAAAATGCTGCTCAATTTGTTATATATATGC
1 AATTGTTG-CTATATGCTGTCTAATTTTTGATGTAAAAATGCTGCTCAATTTGGTATATATATGC
6111811 TGCCCA
65 TGCCCA
* * * **
6111817 AATTGTTGTGTATATGCTGTCCAATTTTAGATGTAAAAAAAAATGCTGCTCAATTTGGTATGCAT
1 AATTGTTG-CTATATGCTGTCTAATTTTTGATGT----AAAAATGCTGCTCAATTTGGTATATAT
6111882 ATGCTG-CCA
61 ATGCTGCCCA
* * * * * * *
6111891 AATTATTGTATATATGCTGTCTATTTTTTTG-TGTAACAATGTTGC-CTAGTTTGGTATATAAAT
1 AATTGTTG-CTATATGCTGTCTA-ATTTTTGATGTAAAAATGCTGCTC-AATTTGGTATATATAT
*
6111954 GCTGTCCA
63 GCTGCCCA
*
6111962 AATTGATG-TATATG
1 AATTGTTGCTATATG
6111976 GGCTGCCCAA
Statistics
Matches: 809, Mismatches: 50, Indels: 22
0.92 0.06 0.02
Matches are distributed among these distances:
69 7 0.01
70 33 0.04
71 698 0.86
72 10 0.01
74 26 0.03
75 35 0.04
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (70 bp):
AATTGTTGCTATATGCTGTCTAATTTTTGATGTAAAAATGCTGCTCAATTTGGTATATATATGCT
GCCCA
Found at i:6111268 original size:142 final size:142
Alignment explanation
Indices: 6111036--6111966 Score: 1476
Period size: 142 Copynumber: 6.5 Consensus size: 142
6111026 AATGTTGTCT
6111036 AATTGTTG-CATATATGCTGTCTAATTTTTGATGTAAAAATGCTGCTCAATTTGGTATATATATG
1 AATTGTTGTC-TATATGCTGTCTAATTTTTGATGTAAAAATGCTGCTCAATTTGGTATATATATG
* * *
6111100 CTGCCCAAATTGTTGTCTATATGCTGTCTAATTTTTGATGTAAAAATGCTACTCAATTTGGTATA
65 CTGCCCAAATTGTTGTGTATATGCTGTCCAATTTTTGATGTAAAAATGCTGCTCAATTTGGTATA
6111165 TATATGCTGCCCA
130 TATATGCTGCCCA
* * * *
6111178 AA-TGTTGTGTATTATGCTGTCCAATTTTTGATGTAAAAATACTGCTCAATTTGTTATATATATG
1 AATTGTTGTCTA-TATGCTGTCTAATTTTTGATGTAAAAATGCTGCTCAATTTGGTATATATATG
6111242 CTGCCCAAATTGTTGTGTATATGCTGTCCAATTTTTGATGTAAAAATGCTGCTCAATTTGGTATA
65 CTGCCCAAATTGTTGTGTATATGCTGTCCAATTTTTGATGTAAAAATGCTGCTCAATTTGGTATA
6111307 TATATGCTGCCCA
130 TATATGCTGCCCA
*
6111320 AATTGTTGTCTATATGCTGTCTAATTTTTGATGTAAAAATGCTACTCAATTTGGTATATATATGC
1 AATTGTTGTCTATATGCTGTCTAATTTTTGATGTAAAAATGCTGCTCAATTTGGTATATATATGC
* * *
6111385 TGCCCAAATTGTTGTCTATATGCTGTCTAATTTTTGATGTAAAAATGCTACTCAATTTGGTATAT
66 TGCCCAAATTGTTGTGTATATGCTGTCCAATTTTTGATGTAAAAATGCTGCTCAATTTGGTATAT
6111450 ATATGCTGCCCA
131 ATATGCTGCCCA
*
6111462 AATTGTTGTCTATATGCTGTCTAATTTTTTATGTAAAAATGCTGCTCAATTTGGTATATATATGC
1 AATTGTTGTCTATATGCTGTCTAATTTTTGATGTAAAAATGCTGCTCAATTTGGTATATATATGC
* *
6111527 TGCCCAAATTGTTGTGTATATGCTGTCCAATTTTTGATGTAAAAATACTGCTCAATTTGGTACAT
66 TGCCCAAATTGTTGTGTATATGCTGTCCAATTTTTGATGTAAAAATGCTGCTCAATTTGGTATAT
6111592 ATATGCTGCCCA
131 ATATGCTGCCCA
*
6111604 AATTGTTGTCTATATGCTGTCTAATTTTTTATGTAAAAATGCTGCTCAATTTGGTATATATATGC
1 AATTGTTGTCTATATGCTGTCTAATTTTTGATGTAAAAATGCTGCTCAATTTGGTATATATATGC
* * *
6111669 TGCCCAAAATGTTGTGTATATGCTGTCCAATTTTTGATGTAAAAATACTGCTCAATTTGTTATAT
66 TGCCCAAATTGTTGTGTATATGCTGTCCAATTTTTGATGTAAAAATGCTGCTCAATTTGGTATAT
6111734 ATATGCTGCCCA
131 ATATGCTGCCCA
* *
6111746 AATTGTTGTCTATATGCTGTCCAATTTTTGATGTAAAAATGCTGCTCAATTTGTTATATATATGC
1 AATTGTTGTCTATATGCTGTCTAATTTTTGATGTAAAAATGCTGCTCAATTTGGTATATATATGC
*
6111811 TGCCCAAATTGTTGTGTATATGCTGTCCAATTTTAGATGTAAAAAAAAATGCTGCTCAATTTGGT
66 TGCCCAAATTGTTGTGTATATGCTGTCCAATTTTTGATGT----AAAAATGCTGCTCAATTTGGT
**
6111876 ATGCATATGCTG-CCA
127 ATATATATGCTGCCCA
* * * * * * *
6111891 AATTATTGTATATATGCTGTCTATTTTTTTG-TGTAACAATGTTGC-CTAGTTTGGTATATAAAT
1 AATTGTTGTCTATATGCTGTCTA-ATTTTTGATGTAAAAATGCTGCTC-AATTTGGTATATATAT
*
6111954 GCTGTCCAAATTG
64 GCTGCCCAAATTG
6111967 ATGTATATGG
Statistics
Matches: 736, Mismatches: 44, Indels: 15
0.93 0.06 0.02
Matches are distributed among these distances:
141 7 0.01
142 625 0.85
143 8 0.01
144 1 0.00
145 60 0.08
146 35 0.05
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (142 bp):
AATTGTTGTCTATATGCTGTCTAATTTTTGATGTAAAAATGCTGCTCAATTTGGTATATATATGC
TGCCCAAATTGTTGTGTATATGCTGTCCAATTTTTGATGTAAAAATGCTGCTCAATTTGGTATAT
ATATGCTGCCCA
Found at i:6111851 original size:23 final size:22
Alignment explanation
Indices: 6111046--6111851 Score: 153
Period size: 23 Copynumber: 34.1 Consensus size: 22
6111036 AATTGTTGCA
*
6111046 TATATGCTGTCTAATTTTTGATG
1 TATATGCTGTCCAA-TTTTGATG
* * *
6111069 TAAAAATGCTG-CTCAATTTGGTATA
1 T--ATATGCTGTC-CAATTTTG-ATG
* *
6111094 TATATGCTGCCCAAATTGTTG-TC
1 TATATGCTGTCC-AATT-TTGATG
*
6111117 TATATGCTGTCTAATTTTTGATG
1 TATATGCTGTCCAA-TTTTGATG
* * * *
6111140 TAAAAATGCT-ACTCAATTTGGTATA
1 T--ATATGCTGTC-CAATTTTG-ATG
* *
6111165 TATATGCTGCCCAAATGTTG-TG
1 TATATGCTGTCC-AATTTTGATG
6111187 TATTATGCTGTCCAATTTTTGATG
1 TA-TATGCTGTCCAA-TTTTGATG
* * * *
6111211 TAAAAATACTG-CTCAATTTGTTATA
1 T--ATATGCTGTC-CAATTT-TGATG
*
6111236 TATATGCTGCCCAAATTGTTG-TG
1 TATATGCTGTCC-AATT-TTGATG
6111259 TATATGCTGTCCAATTTTTGATG
1 TATATGCTGTCCAA-TTTTGATG
* * *
6111282 TAAAAATGCTG-CTCAATTTGGTATA
1 T--ATATGCTGTC-CAATTTTG-ATG
* *
6111307 TATATGCTGCCCAAATTGTTG-TC
1 TATATGCTGTCC-AATT-TTGATG
*
6111330 TATATGCTGTCTAATTTTTGATG
1 TATATGCTGTCCAA-TTTTGATG
* * * *
6111353 TAAAAATGCT-ACTCAATTTGGTATA
1 T--ATATGCTGTC-CAATTTTG-ATG
* *
6111378 TATATGCTGCCCAAATTGTTG-TC
1 TATATGCTGTCC-AATT-TTGATG
*
6111401 TATATGCTGTCTAATTTTTGATG
1 TATATGCTGTCCAA-TTTTGATG
* * * *
6111424 TAAAAATGCT-ACTCAATTTGGTATA
1 T--ATATGCTGTC-CAATTTTG-ATG
* *
6111449 TATATGCTGCCCAAATTGTTG-TC
1 TATATGCTGTCC-AATT-TTGATG
* *
6111472 TATATGCTGTCTAATTTTTTATG
1 TATATGCTGTCCAA-TTTTGATG
* * *
6111495 TAAAAATGCTG-CTCAATTTGGTATA
1 T--ATATGCTGTC-CAATTTTG-ATG
*
6111520 TATATGCTGCCCAAATTGTTG-TG
1 TATATGCTGTCC-AATT-TTGATG
6111543 TATATGCTGTCCAATTTTTGATG
1 TATATGCTGTCCAA-TTTTGATG
* * * **
6111566 TAAAAATACTG-CTCAATTTGGTACA
1 T--ATATGCTGTC-CAATTTTG-ATG
* *
6111591 TATATGCTGCCCAAATTGTTG-TC
1 TATATGCTGTCC-AATT-TTGATG
* *
6111614 TATATGCTGTCTAATTTTTTATG
1 TATATGCTGTCCAA-TTTTGATG
* * *
6111637 TAAAAATGCTG-CTCAATTTGGTATA
1 T--ATATGCTGTC-CAATTTTG-ATG
* *
6111662 TATATGCTGCCCAAAATGTTG-TG
1 TATATGCTGTCC--AATTTTGATG
6111685 TATATGCTGTCCAATTTTTGATG
1 TATATGCTGTCCAA-TTTTGATG
* * * *
6111708 TAAAAATACTG-CTCAATTTGTTATA
1 T--ATATGCTGTC-CAATTT-TGATG
* *
6111733 TATATGCTGCCCAAATTGTTG-TC
1 TATATGCTGTCC-AATT-TTGATG
6111756 TATATGCTGTCCAATTTTTGATG
1 TATATGCTGTCCAA-TTTTGATG
* * *
6111779 TAAAAATGCTG-CTCAATTTGTTATA
1 T--ATATGCTGTC-CAATTT-TGATG
*
6111804 TATATGCTGCCCAAATTGTTG-TG
1 TATATGCTGTCC-AATT-TTGATG
6111827 TATATGCTGTCCAATTTTAGATG
1 TATATGCTGTCCAATTTT-GATG
6111850 TA
1 TA
6111852 AAAAAAAATG
Statistics
Matches: 568, Mismatches: 116, Indels: 198
0.64 0.13 0.22
Matches are distributed among these distances:
21 4 0.01
22 52 0.09
23 251 0.44
24 108 0.19
25 152 0.27
26 1 0.00
ACGTcount: A:0.28, C:0.14, G:0.16, T:0.42
Consensus pattern (22 bp):
TATATGCTGTCCAATTTTGATG
Found at i:6119430 original size:71 final size:71
Alignment explanation
Indices: 6119355--6119945 Score: 830
Period size: 71 Copynumber: 8.3 Consensus size: 71
6119345 AATGCTGTCT
*
6119355 AATTGTTGCATATATGCTGTCTAATTTTTGATGTAAAAATGCTGCTCAATTTGGTATATATATGC
1 AATTGTTGTATATATGCTGTCTAATTTTTGATGTAAAAATGCTGCTCAATTTGGTATATATATGC
6119420 TGCCCA
66 TGCCCA
* *
6119426 AATTGTTTTTTATATGCTGTCTAATTTTTGATGTAAAAATGCTGCTCAATTTGGTATATATATGC
1 AATTGTTGTATATATGCTGTCTAATTTTTGATGTAAAAATGCTGCTCAATTTGGTATATATATGC
6119491 TGCCCA
66 TGCCCA
* * *
6119497 AATTGTTTTTTATATGCTGTCTAATTTTTGATGTAAAAATGCTGCTCAATTTGGTACATATATGC
1 AATTGTTGTATATATGCTGTCTAATTTTTGATGTAAAAATGCTGCTCAATTTGGTATATATATGC
*
6119562 TACCCA
66 TGCCCA
* * *
6119568 AATTGTTGTCTATATGCTGTCTCATTTTTGATGTAAAAATACTGCTCAATTTGGTATATATATGC
1 AATTGTTGTATATATGCTGTCTAATTTTTGATGTAAAAATGCTGCTCAATTTGGTATATATATGC
6119633 TGCCCA
66 TGCCCA
* *
6119639 AATTGTTGTGTATATGCTGT-TCAATTTTTGATGTAAAAATGCTGCTCAATTTGGTACATATATG
1 AATTGTTGTATATATGCTGTCT-AATTTTTGATGTAAAAATGCTGCTCAATTTGGTATATATATG
6119703 CTGCCCA
65 CTGCCCA
* *
6119710 AATTGTTGTCTATATGCTGTCTAATTTTTGATGTAAAAATGCTGCTCAATTTGTTATATATATGC
1 AATTGTTGTATATATGCTGTCTAATTTTTGATGTAAAAATGCTGCTCAATTTGGTATATATATGC
6119775 TGCCCA
66 TGCCCA
* * * * *
6119781 AATTGTTGTGTATATGCTGTCCAATTTTAGATGTAAAAAAAAAATGATGCTCAATTTGGTATACA
1 AATTGTTGTATATATGCTGTCTAATTTTTGATGT-----AAAAATGCTGCTCAATTTGGTATATA
*
6119846 TTTGCTG-CCA
61 TATGCTGCCCA
* * * * *
6119856 AATTATTGTATATATGCTATCTAATTTTT-AGTGTAAAAATTCTGC-CTAGTTTGGTATATAAAT
1 AATTGTTGTATATATGCTGTCTAATTTTTGA-TGTAAAAATGCTGCTC-AATTTGGTATATATAT
*
6119919 GCTGGCCA
64 GCTGCCCA
* *
6119927 AATTGATGTATATGTGCTG
1 AATTGTTGTATATATGCTG
6119946 CCCAAACAGG
Statistics
Matches: 470, Mismatches: 40, Indels: 20
0.89 0.08 0.04
Matches are distributed among these distances:
69 1 0.00
70 26 0.06
71 382 0.81
72 1 0.00
74 1 0.00
75 30 0.06
76 29 0.06
ACGTcount: A:0.28, C:0.13, G:0.16, T:0.42
Consensus pattern (71 bp):
AATTGTTGTATATATGCTGTCTAATTTTTGATGTAAAAATGCTGCTCAATTTGGTATATATATGC
TGCCCA
Found at i:6119815 original size:23 final size:22
Alignment explanation
Indices: 6119626--6119815 Score: 75
Period size: 23 Copynumber: 8.1 Consensus size: 22
6119616 ATTTGGTATA
*
6119626 TATATGCTGCCCAAATTGTTG-TG
1 TATATGCTGTCC-AATT-TTGATG
*
6119649 TATATGCTGTTCAATTTTTGATG
1 TATATGCTGTCCAA-TTTTGATG
* * **
6119672 TAAAAATGCTG-CTCAATTTGGTACA
1 T--ATATGCTGTC-CAATTTTG-ATG
* *
6119697 TATATGCTGCCCAAATTGTTG-TC
1 TATATGCTGTCC-AATT-TTGATG
*
6119720 TATATGCTGTCTAATTTTTGATG
1 TATATGCTGTCCAA-TTTTGATG
* * *
6119743 TAAAAATGCTG-CTCAATTTGTTATA
1 T--ATATGCTGTC-CAATTT-TGATG
*
6119768 TATATGCTGCCCAAATTGTTG-TG
1 TATATGCTGTCC-AATT-TTGATG
6119791 TATATGCTGTCCAATTTTAGATG
1 TATATGCTGTCCAATTTT-GATG
6119814 TA
1 TA
6119816 AAAAAAAAAT
Statistics
Matches: 125, Mismatches: 22, Indels: 40
0.67 0.12 0.21
Matches are distributed among these distances:
21 2 0.02
22 15 0.12
23 61 0.49
24 19 0.15
25 28 0.22
ACGTcount: A:0.26, C:0.14, G:0.17, T:0.42
Consensus pattern (22 bp):
TATATGCTGTCCAATTTTGATG
Found at i:6126786 original size:184 final size:183
Alignment explanation
Indices: 6126467--6126862 Score: 471
Period size: 184 Copynumber: 2.2 Consensus size: 183
6126457 AATTTGCAAA
* * * * *
6126467 ATACTTATTCGGTATAAAATAAAAATTTTTAAGTACAATTTATAAAAAAACCATGTTTAAGTGTA
1 ATACTTTTTGGGTATAAAAT-AAAATATTTAAGTACAATTTAAAAAAAAAACATGTTTAAGTGTA
* * * * *
6126532 AAATAAAAAACTAATGCACTTCGTTGAAAAAAAGGAAAAAAACCTATAGAAGCGTGGTTTCTAAT
65 AAATAAAAAACTAATGCACTTCATTGAAAAAAAAGAAAAAAACCTACAAAAGCGTGGATTCTAAT
* *
6126597 ATTATATTAAAACAGTGTC-GGAATGTTTAAACGATACATTATAAAAATTTATCT
130 ATTATATTAAAACACT-TCTAGAATGTTTAAACGATACATTATAAAAATTTATCT
* *
6126651 ATACTTTTTGGGTATAAAAT-AACTATTTACGTACAATTTAGAAAAAAAAACATGTTTAAGTGTA
1 ATACTTTTTGGGTATAAAATAAAATATTTAAGTACAATTTA-AAAAAAAAACATGTTTAAGTGTA
* *
6126715 AAAT-AAAAACTAATGCACTTCATTGGAATAAAGAAAG-AAAAAACTTGCAAAAGCAG-GGATTC
65 AAATAAAAAACTAATGCACTTCATT-GAA-AAA-AAAGAAAAAAACCTACAAAAGC-GTGGATTC
* * * ** *
6126777 TAATATTATATTGAAATACTTCTAGAGTGTTTAAATTATACATTATAAACATTTATCT
126 TAATATTATATTAAAACACTTCTAGAATGTTTAAACGATACATTATAAAAATTTATCT
* *
6126835 ATATTTTTTGGGTAT-AAATAAAAAATTT
1 ATACTTTTTGGGTATAAAATAAAATATTT
6126863 TATGTGGTTC
Statistics
Matches: 180, Mismatches: 25, Indels: 14
0.82 0.11 0.06
Matches are distributed among these distances:
182 36 0.20
183 34 0.19
184 106 0.59
185 4 0.02
ACGTcount: A:0.45, C:0.09, G:0.12, T:0.34
Consensus pattern (183 bp):
ATACTTTTTGGGTATAAAATAAAATATTTAAGTACAATTTAAAAAAAAAACATGTTTAAGTGTAA
AATAAAAAACTAATGCACTTCATTGAAAAAAAAGAAAAAAACCTACAAAAGCGTGGATTCTAATA
TTATATTAAAACACTTCTAGAATGTTTAAACGATACATTATAAAAATTTATCT
Found at i:6138839 original size:26 final size:26
Alignment explanation
Indices: 6138810--6138875 Score: 96
Period size: 26 Copynumber: 2.5 Consensus size: 26
6138800 CCCAACTCAT
* *
6138810 AGCTCGTGTGAGCAGGCCCATTCTAC
1 AGCTCGTGTGAGCAGGCCCATTCCAA
*
6138836 AGCTCGTGTGAGCAGGCCTATTCCAA
1 AGCTCGTGTGAGCAGGCCCATTCCAA
*
6138862 AGCTTGTGTGAGCA
1 AGCTCGTGTGAGCA
6138876 TTTACAATTA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.21, C:0.26, G:0.29, T:0.24
Consensus pattern (26 bp):
AGCTCGTGTGAGCAGGCCCATTCCAA
Found at i:6139010 original size:27 final size:27
Alignment explanation
Indices: 6138968--6139033 Score: 80
Period size: 27 Copynumber: 2.5 Consensus size: 27
6138958 GAGTAAACGG
* *
6138968 AAATGGTAATAT-GAAATAGATATACA
1 AAATGGTTATATGGAAATAAATATACA
* **
6138994 AAATGTTTATATGGAAATAAATATATG
1 AAATGGTTATATGGAAATAAATATACA
6139021 AAATGGTTATATG
1 AAATGGTTATATG
6139034 AAGTGTCTAT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 10 0.30
27 23 0.70
ACGTcount: A:0.48, C:0.02, G:0.17, T:0.33
Consensus pattern (27 bp):
AAATGGTTATATGGAAATAAATATACA
Found at i:6143931 original size:14 final size:15
Alignment explanation
Indices: 6143914--6143947 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
6143904 TAAATGAAAC
*
6143914 AATTTTC-AGGAGAA
1 AATTTTCGAGGACAA
6143928 AATTTTCGAGGACAA
1 AATTTTCGAGGACAA
6143943 AATTT
1 AATTT
6143948 CTAAAGGAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.41, C:0.09, G:0.18, T:0.32
Consensus pattern (15 bp):
AATTTTCGAGGACAA
Found at i:6164601 original size:16 final size:17
Alignment explanation
Indices: 6164577--6164609 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
6164567 GGCTTGAGAT
*
6164577 GAGAGAATTAA-AGAAA
1 GAGAAAATTAAGAGAAA
6164593 GAGAAAATTAAGAGAAA
1 GAGAAAATTAAGAGAAA
6164610 TTCATACCAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.64, C:0.00, G:0.24, T:0.12
Consensus pattern (17 bp):
GAGAAAATTAAGAGAAA
Found at i:6184193 original size:18 final size:18
Alignment explanation
Indices: 6184154--6184193 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
6184144 AAAGAAGTAG
* *
6184154 CTTTGACAGTTGTGTTTG
1 CTTTGACAGTTGTATTTA
6184172 CTTTGACAGTTGTATTTA
1 CTTTGACAGTTGTATTTA
6184190 CTTT
1 CTTT
6184194 AAGAAAAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.15, C:0.12, G:0.20, T:0.53
Consensus pattern (18 bp):
CTTTGACAGTTGTATTTA
Found at i:6212480 original size:29 final size:29
Alignment explanation
Indices: 6212413--6212698 Score: 113
Period size: 29 Copynumber: 10.1 Consensus size: 29
6212403 ATTACCATAT
*
6212413 AAGTGAGCCTTTGTGGCTAACTCTG---A
1 AAGTGAGCCTTTGTGGCTATCTCTGTTAA
6212439 AAG-GATGCCTTTGTGGCTATCT-TAGTTAA
1 AAGTGA-GCCTTTGTGGCTATCTCT-GTTAA
6212468 AAGTGAGCCTTTGTGGCTATCTCTGTTAAA
1 AAGTGAGCCTTTGTGGCTATCTCTGTT-AA
* **
6212498 GAAGT--GCCTTTGTGGC-AGTTTC-CATAA
1 -AAGTGAGCCTTTGTGGCTA-TCTCTGTTAA
* * *
6212525 GAA---AACCTTTGTGG-TAATATCTGTTAT
1 -AAGTGAGCCTTTGTGGCT-ATCTCTGTTAA
* * * *
6212552 AA-TAAAGCCTTTATGTCTATCTCTGTCAA
1 AAGT-GAGCCTTTGTGGCTATCTCTGTTAA
* * * * *
6212581 AAG-GATGCATTTCTGACTATCTTTGTCAA
1 AAGTGA-GCCTTTGTGGCTATCTCTGTTAA
* * * *
6212610 AAG-GATACATTTGTGGCTGTCTCTGTCAA
1 AAGTGA-GCCTTTGTGGCTATCTCTGTTAA
* * *
6212639 AAG-GATGCATTTGTGCCTATCTCTGTCAA
1 AAGTGA-GCCTTTGTGGCTATCTCTGTTAA
* *
6212668 AAG-GATGTCTTTGTGGCTATCTCTGTCAA
1 AAGTGA-GCCTTTGTGGCTATCTCTGTTAA
6212697 AA
1 AA
6212699 TGAACACCTA
Statistics
Matches: 209, Mismatches: 31, Indels: 37
0.75 0.11 0.13
Matches are distributed among these distances:
25 3 0.01
26 33 0.16
27 8 0.04
28 3 0.01
29 152 0.73
30 6 0.03
31 4 0.02
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (29 bp):
AAGTGAGCCTTTGTGGCTATCTCTGTTAA
Found at i:6212641 original size:58 final size:58
Alignment explanation
Indices: 6212568--6212698 Score: 201
Period size: 58 Copynumber: 2.3 Consensus size: 58
6212558 GCCTTTATGT
*
6212568 CTATCTCTGTCAAAAGGATGCATTTCTGACTATCTTTGTCAAAAGGAT-ACATTTGTGG
1 CTATCTCTGTCAAAAGGATGCATTTCTGACTATCTCTGTCAAAAGGATGAC-TTTGTGG
* * * *
6212626 CTGTCTCTGTCAAAAGGATGCATTTGTGCCTATCTCTGTCAAAAGGATGTCTTTGTGG
1 CTATCTCTGTCAAAAGGATGCATTTCTGACTATCTCTGTCAAAAGGATGACTTTGTGG
6212684 CTATCTCTGTCAAAA
1 CTATCTCTGTCAAAA
6212699 TGAACACCTA
Statistics
Matches: 66, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
58 65 0.98
59 1 0.02
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (58 bp):
CTATCTCTGTCAAAAGGATGCATTTCTGACTATCTCTGTCAAAAGGATGACTTTGTGG
Found at i:6213425 original size:19 final size:19
Alignment explanation
Indices: 6213401--6213447 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
6213391 AATGTATTCC
6213401 AATAAGAAACGTTTACATG
1 AATAAGAAACGTTTACATG
6213420 AATAAGAAACGTTTACATG
1 AATAAGAAACGTTTACATG
6213439 AATAAGAAA
1 AATAAGAAA
6213448 GAGGAAATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.53, C:0.09, G:0.15, T:0.23
Consensus pattern (19 bp):
AATAAGAAACGTTTACATG
Found at i:6235457 original size:172 final size:172
Alignment explanation
Indices: 6235142--6235654 Score: 832
Period size: 172 Copynumber: 3.0 Consensus size: 172
6235132 GATGTGGAAA
* * * * *
6235142 ACTTGTCTTGGATTATTTATTTTTGGAATTTGTTTAGCTAAAAATTTATGTCGA-TCTGGTTTGA
1 ACTTGTTTTGGATTATTTGTTTTT-GAAATTGTTTAGCTAAAAATTTAT-TCCATTCTGATTTGA
6235206 ATATGTTTATGTCATGTTTTATGCCAAATGAGTTTAAATATTT-TTTTTAATGTTTTGATTCATG
64 ATATGTTTATGTCATGTTTTATGCCAAATGAGTTTAAATATTTATTTTTAATGTTTTGATTCATG
6235270 TTGGAATGATTTGGTAATGTTTGGACATGATTTTCATGTGAATG
129 TTGGAATGATTTGGTAATGTTTGGACATGATTTTCATGTGAATG
* *
6235314 ACTTGTTTTGGATTATTTGTTTTTGAAATTGTTTAGCTTAAAATTTATTCCATTCCGATTTGAAT
1 ACTTGTTTTGGATTATTTGTTTTTGAAATTGTTTAGCTAAAAATTTATTCCATTCTGATTTGAAT
* *
6235379 ATGTTTATGTCATGTTTTATTCCAAATGAGTTTAAATATTTATTTTTAATGTTTTGATTCATGCT
66 ATGTTTATGTCATGTTTTATGCCAAATGAGTTTAAATATTTATTTTTAATGTTTTGATTCATGTT
* **
6235444 GGAATGATTTGGTAATGTTTAGACATGATTTTCATACGAATG
131 GGAATGATTTGGTAATGTTTGGACATGATTTTCATGTGAATG
*
6235486 GCTTGTTTTGGATTATTTGTTTTTGAAATTGTTTAGCTAAAAATTTATTCCATTCTGATTTGAAT
1 ACTTGTTTTGGATTATTTGTTTTTGAAATTGTTTAGCTAAAAATTTATTCCATTCTGATTTGAAT
* *
6235551 ATGTTTATGTCATGTTTTATGCCAAAATGAGTTTAATTATTTATTATTAATGTTTTGATTCATGT
66 ATGTTTATGTCATGTTTTATGCC-AAATGAGTTTAAATATTTATTTTTAATGTTTTGATTCATGT
* *
6235616 TGGAATGATGTGGTAATGTTTGGGCATGATTTTCATGTG
130 TGGAATGATTTGGTAATGTTTGGACATGATTTTCATGTG
6235655 GTTTGGCCAT
Statistics
Matches: 314, Mismatches: 24, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
170 3 0.01
171 72 0.23
172 167 0.53
173 72 0.23
ACGTcount: A:0.26, C:0.07, G:0.18, T:0.50
Consensus pattern (172 bp):
ACTTGTTTTGGATTATTTGTTTTTGAAATTGTTTAGCTAAAAATTTATTCCATTCTGATTTGAAT
ATGTTTATGTCATGTTTTATGCCAAATGAGTTTAAATATTTATTTTTAATGTTTTGATTCATGTT
GGAATGATTTGGTAATGTTTGGACATGATTTTCATGTGAATG
Found at i:6245327 original size:18 final size:19
Alignment explanation
Indices: 6245294--6245332 Score: 71
Period size: 18 Copynumber: 2.1 Consensus size: 19
6245284 TAAAACACTT
6245294 AAGTCAAAATTCCAAGTCA
1 AAGTCAAAATTCCAAGTCA
6245313 AAGTCAAAA-TCCAAGTCA
1 AAGTCAAAATTCCAAGTCA
6245331 AA
1 AA
6245333 ATTTCCAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.51, C:0.21, G:0.10, T:0.18
Consensus pattern (19 bp):
AAGTCAAAATTCCAAGTCA
Found at i:6246693 original size:24 final size:24
Alignment explanation
Indices: 6246659--6246707 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
6246649 TGCGTGGACT
*
6246659 TTTGGCCTAATTTAAAGAAAGAAA
1 TTTGGCCTAATCTAAAGAAAGAAA
*
6246683 TTTGGCGTAATCTAAAGAAAGAAA
1 TTTGGCCTAATCTAAAGAAAGAAA
6246707 T
1 T
6246708 ATCAGAGAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.45, C:0.08, G:0.18, T:0.29
Consensus pattern (24 bp):
TTTGGCCTAATCTAAAGAAAGAAA
Found at i:6247376 original size:17 final size:18
Alignment explanation
Indices: 6247348--6247382 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
6247338 ATGATCAAAC
6247348 ATATATTTATATTTATAA
1 ATATATTTATATTTATAA
6247366 ATATA-TTATATTTATAA
1 ATATATTTATATTTATAA
6247383 TAAGATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
ATATATTTATATTTATAA
Found at i:6259414 original size:57 final size:57
Alignment explanation
Indices: 6259351--6259466 Score: 223
Period size: 57 Copynumber: 2.0 Consensus size: 57
6259341 GTGGAAATTG
*
6259351 AAACCATATATTTCATTATTTATTGTATGTTATTTTAAAACTTATCTCTATGTTTTA
1 AAACCATATATTTCATTATTTATTGTATATTATTTTAAAACTTATCTCTATGTTTTA
6259408 AAACCATATATTTCATTATTTATTGTATATTATTTTAAAACTTATCTCTATGTTTTA
1 AAACCATATATTTCATTATTTATTGTATATTATTTTAAAACTTATCTCTATGTTTTA
6259465 AA
1 AA
6259467 TACGTAGTTT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.34, C:0.10, G:0.04, T:0.52
Consensus pattern (57 bp):
AAACCATATATTTCATTATTTATTGTATATTATTTTAAAACTTATCTCTATGTTTTA
Found at i:6260759 original size:18 final size:18
Alignment explanation
Indices: 6260736--6260770 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6260726 TTGTCCCTGC
*
6260736 TGTTGTTTGCTACTGTTT
1 TGTTGTTGGCTACTGTTT
*
6260754 TGTTGTTGGTTACTGTT
1 TGTTGTTGGCTACTGTT
6260771 GTTTTTATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.06, C:0.09, G:0.26, T:0.60
Consensus pattern (18 bp):
TGTTGTTGGCTACTGTTT
Found at i:6263901 original size:17 final size:17
Alignment explanation
Indices: 6263876--6263911 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
6263866 ATAATCTAAA
*
6263876 AATATGAAAAAAAAAAC
1 AATAAGAAAAAAAAAAC
6263893 AATAAGAAAAAAAAAAC
1 AATAAGAAAAAAAAAAC
6263910 AA
1 AA
6263912 AAAATGAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.81, C:0.06, G:0.06, T:0.08
Consensus pattern (17 bp):
AATAAGAAAAAAAAAAC
Found at i:6266608 original size:16 final size:16
Alignment explanation
Indices: 6266587--6266709 Score: 101
Period size: 16 Copynumber: 7.5 Consensus size: 16
6266577 TTTGTTAAAT
*
6266587 TGTGAGCTATAATATG
1 TGTGAGCTATACTATG
*
6266603 TGTGAGCTCTACTGAAT-
1 TGTGAGCTATACT--ATG
6266620 TGTGAGCTATACTATG
1 TGTGAGCTATACTATG
* *
6266636 TGCGAGCTCTACTGAAT-
1 TGTGAGCTATACT--ATG
6266653 TGTGAGCTATAAC-ATG
1 TGTGAGCTAT-ACTATG
* *
6266669 TGTGAGCTCTGCTGAAT-
1 TGTGAGCTATACT--ATG
6266686 TGTGAGCTATACTATG
1 TGTGAGCTATACTATG
6266702 TGTGAGCT
1 TGTGAGCT
6266710 TTGTTCACTT
Statistics
Matches: 85, Mismatches: 11, Indels: 22
0.72 0.09 0.19
Matches are distributed among these distances:
15 7 0.08
16 39 0.46
17 31 0.36
18 8 0.09
ACGTcount: A:0.24, C:0.15, G:0.26, T:0.35
Consensus pattern (16 bp):
TGTGAGCTATACTATG
Found at i:6266621 original size:33 final size:33
Alignment explanation
Indices: 6266584--6266709 Score: 207
Period size: 33 Copynumber: 3.8 Consensus size: 33
6266574 AGCTTTGTTA
6266584 AATTGTGAGCTATAATATGTGTGAGCTCTACTG
1 AATTGTGAGCTATAATATGTGTGAGCTCTACTG
* *
6266617 AATTGTGAGCTATACTATGTGCGAGCTCTACTG
1 AATTGTGAGCTATAATATGTGTGAGCTCTACTG
* *
6266650 AATTGTGAGCTATAACATGTGTGAGCTCTGCTG
1 AATTGTGAGCTATAATATGTGTGAGCTCTACTG
*
6266683 AATTGTGAGCTATACTATGTGTGAGCT
1 AATTGTGAGCTATAATATGTGTGAGCT
6266710 TTGTTCACTT
Statistics
Matches: 85, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 85 1.00
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.35
Consensus pattern (33 bp):
AATTGTGAGCTATAATATGTGTGAGCTCTACTG
Found at i:6266625 original size:17 final size:17
Alignment explanation
Indices: 6266603--6266698 Score: 85
Period size: 17 Copynumber: 5.8 Consensus size: 17
6266593 CTATAATATG
6266603 TGTGAGCTCTACTGAAT
1 TGTGAGCTCTACTGAAT
*
6266620 TGTGAGCTATACT--AT
1 TGTGAGCTCTACTGAAT
*
6266635 GTGCGAGCTCTACTGAAT
1 -TGTGAGCTCTACTGAAT
*
6266653 TGTGAG--CTA-TAACAT
1 TGTGAGCTCTACTGA-AT
*
6266668 GTGTGAGCTCTGCTGAAT
1 -TGTGAGCTCTACTGAAT
*
6266686 TGTGAGCTATACT
1 TGTGAGCTCTACT
6266699 ATGTGTGAGC
Statistics
Matches: 62, Mismatches: 9, Indels: 16
0.71 0.10 0.18
Matches are distributed among these distances:
14 2 0.03
15 7 0.11
16 17 0.27
17 28 0.45
18 6 0.10
19 2 0.03
ACGTcount: A:0.24, C:0.17, G:0.25, T:0.34
Consensus pattern (17 bp):
TGTGAGCTCTACTGAAT
Found at i:6266729 original size:66 final size:66
Alignment explanation
Indices: 6266574--6266714 Score: 219
Period size: 66 Copynumber: 2.1 Consensus size: 66
6266564 CTATTATGCA
*
6266574 AGCTTTGTTAAATTGTGAGCTATAATATGTGTGAGCTCTACTGAATTGTGAGCTATACTATGTGC
1 AGCTTTGTTAAATTGTGAGCTATAACATGTGTGAGCTCTACTGAATTGTGAGCTATACTATGTGC
6266639 G
66 G
* ** * * *
6266640 AGCTCTACTGAATTGTGAGCTATAACATGTGTGAGCTCTGCTGAATTGTGAGCTATACTATGTGT
1 AGCTTTGTTAAATTGTGAGCTATAACATGTGTGAGCTCTACTGAATTGTGAGCTATACTATGTGC
6266705 G
66 G
6266706 AGCTTTGTT
1 AGCTTTGTT
6266715 CACTTGCTAG
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.24, C:0.13, G:0.25, T:0.38
Consensus pattern (66 bp):
AGCTTTGTTAAATTGTGAGCTATAACATGTGTGAGCTCTACTGAATTGTGAGCTATACTATGTGC
G
Found at i:6267419 original size:6 final size:6
Alignment explanation
Indices: 6267403--6267437 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
6267393 ATTCCAAGGG
6267403 ATTAG- ATTAGA ATTAGA ATTAGA ATTAGA ATTAGA
1 ATTAGA ATTAGA ATTAGA ATTAGA ATTAGA ATTAGA
6267438 TTTTAAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 5 0.17
6 24 0.83
ACGTcount: A:0.49, C:0.00, G:0.17, T:0.34
Consensus pattern (6 bp):
ATTAGA
Found at i:6268182 original size:16 final size:16
Alignment explanation
Indices: 6268161--6268191 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
6268151 TTTTTTGCAT
6268161 TATGTATGGGTTCACG
1 TATGTATGGGTTCACG
6268177 TATGTATGGGTTCAC
1 TATGTATGGGTTCAC
6268192 TCTGCGAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.13, G:0.29, T:0.39
Consensus pattern (16 bp):
TATGTATGGGTTCACG
Found at i:6271184 original size:27 final size:27
Alignment explanation
Indices: 6271143--6271197 Score: 94
Period size: 27 Copynumber: 2.0 Consensus size: 27
6271133 TGTCAAACAA
6271143 ACAAACTTTACCTGGACCCTTATCATT
1 ACAAACTTTACCTGGACCCTTATCATT
6271170 ACAAACTTTGA-CTGGACCCTTATCATT
1 ACAAACTTT-ACCTGGACCCTTATCATT
6271197 A
1 A
6271198 TTCCAAAACT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 26 0.96
28 1 0.04
ACGTcount: A:0.31, C:0.27, G:0.09, T:0.33
Consensus pattern (27 bp):
ACAAACTTTACCTGGACCCTTATCATT
Found at i:6276251 original size:15 final size:16
Alignment explanation
Indices: 6276220--6276253 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
6276210 GGTGATCTTT
6276220 ACATATTAGCTAGAAA
1 ACATATTAGCTAGAAA
*
6276236 ACATGTTAGC-AGAAA
1 ACATATTAGCTAGAAA
6276251 ACA
1 ACA
6276254 AATTTCAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.50, C:0.15, G:0.15, T:0.21
Consensus pattern (16 bp):
ACATATTAGCTAGAAA
Found at i:6276534 original size:25 final size:24
Alignment explanation
Indices: 6276463--6276534 Score: 74
Period size: 25 Copynumber: 2.9 Consensus size: 24
6276453 AAGACTAAAC
6276463 CTAATTCTAAGTTCTTAACTTAAGT
1 CTAATTCTAAGTTC-TAACTTAAGT
* *
6276488 CTAATCCTAAGTTCCAAACTTAAG-
1 CTAATTCTAAGTT-CTAACTTAAGT
*
6276512 CTAAGTTCTACGTTCTAATCTTA
1 CTAA-TTCTAAGTTCTAA-CTTA
6276535 GTTTTATGTC
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
24 7 0.18
25 31 0.79
26 1 0.03
ACGTcount: A:0.32, C:0.21, G:0.08, T:0.39
Consensus pattern (24 bp):
CTAATTCTAAGTTCTAACTTAAGT
Found at i:6285284 original size:14 final size:14
Alignment explanation
Indices: 6285265--6285291 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6285255 GTGCAAAACT
6285265 AATAATTTAACAAA
1 AATAATTTAACAAA
6285279 AATAATTTAACAA
1 AATAATTTAACAA
6285292 TCCAACAATT
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:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (14 bp):
AATAATTTAACAAA
Found at i:6285896 original size:57 final size:57
Alignment explanation
Indices: 6285766--6285923 Score: 165
Period size: 58 Copynumber: 2.8 Consensus size: 57
6285756 CTATTTGGGG
* * * * * * *
6285766 CCTAAACTTGACAATTGTTTTCACATTGAGGCTTGAATTTCTTTTGTCCAAGTTAATT
1 CCTAAACTTAACAATTGTTCTCAAATTGGGGTTTGAATTT-TTTTATCCAAGTTAATC
* ** ** *
6285824 CCTGAACTTCGCAATTGTTCTCAAATTGGGGTTTGAATTTTTTTATTTAAGTTAGTC
1 CCTAAACTTAACAATTGTTCTCAAATTGGGGTTTGAATTTTTTTATCCAAGTTAATC
* *
6285881 CCTAAACTTAACAATTGTTCTC-AATTAGGGTTTGAACTTTTTT
1 CCTAAACTTAACAATTGTTCTCAAATTGGGGTTTGAATTTTTTT
6285924 CTTTGTCCAA
Statistics
Matches: 83, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
56 19 0.23
57 31 0.37
58 33 0.40
ACGTcount: A:0.25, C:0.16, G:0.15, T:0.44
Consensus pattern (57 bp):
CCTAAACTTAACAATTGTTCTCAAATTGGGGTTTGAATTTTTTTATCCAAGTTAATC
Found at i:6286690 original size:26 final size:25
Alignment explanation
Indices: 6286651--6286704 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
6286641 CGTTATAATT
* *
6286651 TAAAAATTTTAAAAAATAAAATTTA
1 TAAAAATTTGAAAAAATAAAATATA
**
6286676 TAAAAATTATGAAAAGCTAAAATATA
1 TAAAAATT-TGAAAAAATAAAATATA
6286702 TAA
1 TAA
6286705 TCTATAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (25 bp):
TAAAAATTTGAAAAAATAAAATATA
Found at i:6286819 original size:2 final size:2
Alignment explanation
Indices: 6286760--6286804 Score: 65
Period size: 2 Copynumber: 22.5 Consensus size: 2
6286750 AACATAAAAC
*
6286760 AT AT AT AA AT AT A- AT AGT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT
6286802 AT A
1 AT A
6286805 CGGAATAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
1 1 0.03
2 36 0.92
3 2 0.05
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.44
Consensus pattern (2 bp):
AT
Found at i:6288995 original size:105 final size:106
Alignment explanation
Indices: 6288813--6289024 Score: 417
Period size: 105 Copynumber: 2.0 Consensus size: 106
6288803 ATTATATTAT
6288813 AATCATGAATACGTATAAGTGTTTGGGATGATTATGAAAAAAAAATTCTAAAGTTATATTATATA
1 AATCATGAATACGTATAAGTGTTTGGGATGATTATGAAAAAAAAATTCTAAAGTTATATTATATA
6288878 TACTAAAAAATTATATGCATTTTTATAAAG-TATAACAAAA
66 TACTAAAAAATTATATGCATTTTTATAAAGTTATAACAAAA
6288918 AATCATGAATACGTATAAGTGTTTGGGATGATTATGAAAAAAAAATTCTAAAGTTATATTATATA
1 AATCATGAATACGTATAAGTGTTTGGGATGATTATGAAAAAAAAATTCTAAAGTTATATTATATA
6288983 TACTAAAAAATTATATGCATTTTTATAAAGTTATAACAAAA
66 TACTAAAAAATTATATGCATTTTTATAAAGTTATAACAAAA
6289024 A
1 A
6289025 TTATATTATT
Statistics
Matches: 106, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
105 95 0.90
106 11 0.10
ACGTcount: A:0.48, C:0.06, G:0.11, T:0.35
Consensus pattern (106 bp):
AATCATGAATACGTATAAGTGTTTGGGATGATTATGAAAAAAAAATTCTAAAGTTATATTATATA
TACTAAAAAATTATATGCATTTTTATAAAGTTATAACAAAA
Found at i:6290297 original size:34 final size:34
Alignment explanation
Indices: 6290203--6290297 Score: 102
Period size: 34 Copynumber: 2.8 Consensus size: 34
6290193 CTTAAGTGTG
* * * *
6290203 CGAGCCTATATATTATGTGAACCCTAAGTTTGTA
1 CGAGCCTATATGTTATGTGAACCCTAGGTCTATA
* ** *
6290237 CGAGCCTACATGTTATGCAAACCCTAGGTCTATG
1 CGAGCCTATATGTTATGTGAACCCTAGGTCTATA
6290271 C-AGTCCTATATGTTATGTGAACCCTAG
1 CGAG-CCTATATGTTATGTGAACCCTAG
6290298 ATGCGAACCC
Statistics
Matches: 49, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
33 2 0.04
34 47 0.96
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (34 bp):
CGAGCCTATATGTTATGTGAACCCTAGGTCTATA
Found at i:6294024 original size:16 final size:16
Alignment explanation
Indices: 6294005--6294036 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
6293995 TTTAGTAAGC
6294005 GTGAATTTGGATCAAA
1 GTGAATTTGGATCAAA
6294021 GTGAATTTGGATCAAA
1 GTGAATTTGGATCAAA
6294037 AAAGTTATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.06, G:0.25, T:0.31
Consensus pattern (16 bp):
GTGAATTTGGATCAAA
Found at i:6294649 original size:18 final size:18
Alignment explanation
Indices: 6294626--6294663 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
6294616 AAAGACTATG
6294626 ATTACACAATCGAATACC
1 ATTACACAATCGAATACC
6294644 ATTACACAATCGAATACC
1 ATTACACAATCGAATACC
6294662 AT
1 AT
6294664 CTAGGGAAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.45, C:0.26, G:0.05, T:0.24
Consensus pattern (18 bp):
ATTACACAATCGAATACC
Found at i:6299560 original size:14 final size:14
Alignment explanation
Indices: 6299522--6299589 Score: 64
Period size: 14 Copynumber: 4.9 Consensus size: 14
6299512 TTGTAGATGT
*
6299522 GAGTCAATACATGC
1 GAGTCAATATATGC
* * *
6299536 AAATCATTATATGC
1 GAGTCAATATATGC
*
6299550 TAGTCAATATATGC
1 GAGTCAATATATGC
* *
6299564 GAGTCATTAAATGC
1 GAGTCAATATATGC
*
6299578 GATTCAATATAT
1 GAGTCAATATAT
6299590 ATCCAAGTCA
Statistics
Matches: 41, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
14 41 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (14 bp):
GAGTCAATATATGC
Found at i:6299563 original size:28 final size:28
Alignment explanation
Indices: 6299522--6299589 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
6299512 TTGTAGATGT
* *
6299522 GAGTCAATACATGCAAATCATTATATGC
1 GAGTCAATATATGCAAATCATTAAATGC
* * *
6299550 TAGTCAATATATGCGAGTCATTAAATGC
1 GAGTCAATATATGCAAATCATTAAATGC
*
6299578 GATTCAATATAT
1 GAGTCAATATAT
6299590 ATCCAAGTCA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (28 bp):
GAGTCAATATATGCAAATCATTAAATGC
Found at i:6299891 original size:34 final size:34
Alignment explanation
Indices: 6299847--6299927 Score: 108
Period size: 34 Copynumber: 2.4 Consensus size: 34
6299837 AACCTATATA
* *
6299847 TTATGCGAACCCTAGGTCTATATGAGCCTACATG
1 TTATGCGAACCCTAAGTCTATACGAGCCTACATG
* * *
6299881 TTATGTGAACCCTAAGTCTATGCGAGCCTATATG
1 TTATGCGAACCCTAAGTCTATACGAGCCTACATG
*
6299915 TTATGCAAACCCT
1 TTATGCGAACCCT
6299928 CACTTGTGAG
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
34 40 1.00
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (34 bp):
TTATGCGAACCCTAAGTCTATACGAGCCTACATG
Found at i:6301294 original size:20 final size:21
Alignment explanation
Indices: 6301266--6301304 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
6301256 CGAGTTCATG
6301266 ATATATA-TTATAAAAATAAT
1 ATATATATTTATAAAAATAAT
*
6301286 ATATTTATTTATAAAAATA
1 ATATATATTTATAAAAATA
6301305 TTTTATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
ATATATATTTATAAAAATAAT
Found at i:6302874 original size:6 final size:7
Alignment explanation
Indices: 6302858--6302883 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
6302848 TCATGTCAAC
6302858 AAAATTA
1 AAAATTA
6302865 AAAATTA
1 AAAATTA
6302872 AAAATTA
1 AAAATTA
6302879 AAAAT
1 AAAAT
6302884 ATTTTTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
AAAATTA
Found at i:6303142 original size:24 final size:24
Alignment explanation
Indices: 6303114--6303160 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
6303104 TTATATTTTT
6303114 AATTAATTTCTAATAAATTTTATA
1 AATTAATTTCTAATAAATTTTATA
* * *
6303138 AATTATTTTCTAATTATTTTTAT
1 AATTAATTTCTAATAAATTTTAT
6303161 TTTTTAATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.57
Consensus pattern (24 bp):
AATTAATTTCTAATAAATTTTATA
Found at i:6303154 original size:11 final size:11
Alignment explanation
Indices: 6303107--6303157 Score: 50
Period size: 11 Copynumber: 4.5 Consensus size: 11
6303097 NNNNAATTTA
6303107 TATTTT-TAAT
1 TATTTTCTAAT
*
6303117 TAATTTCTAAT
1 TATTTTCTAAT
* *
6303128 AAATTTTATAAAT
1 -TATTTTCT-AAT
6303141 TATTTTCTAAT
1 TATTTTCTAAT
6303152 TATTTT
1 TATTTT
6303158 TATTTTTTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
10 5 0.16
11 13 0.41
12 11 0.34
13 3 0.09
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (11 bp):
TATTTTCTAAT
Found at i:6303207 original size:21 final size:21
Alignment explanation
Indices: 6303182--6303221 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
6303172 TTTGACAAAA
6303182 TTTTATGATTTT-TATAATTTT
1 TTTTATG-TTTTCTATAATTTT
6303203 TTTTATGTTTTCTATAATT
1 TTTTATGTTTTCTATAATT
6303222 CTAGAATGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.70
Consensus pattern (21 bp):
TTTTATGTTTTCTATAATTTT
Found at i:6304643 original size:30 final size:29
Alignment explanation
Indices: 6304609--6304683 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 29
6304599 ATTTTGATGA
*
6304609 TATTTTATAATTATTTAATTAGATAAATAT
1 TATTTTATAATTATTTAATGAGAT-AATAT
*
6304639 TATTTTATTAA-TATTTTAATGAGATATTAT
1 TATTTTA-TAATTA-TTTAATGAGATAATAT
*
6304669 TATTTTATTATTATT
1 TATTTTATAATTATT
6304684 ATTATTATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
29 4 0.10
30 22 0.56
31 13 0.33
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (29 bp):
TATTTTATAATTATTTAATGAGATAATAT
Found at i:6304671 original size:3 final size:3
Alignment explanation
Indices: 6304663--6304691 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
6304653 TTTAATGAGA
6304663 TAT TAT TAT T-T TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
6304692 ATTTAGTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:6308625 original size:9 final size:9
Alignment explanation
Indices: 6308604--6308636 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
6308594 GGCTTATGAC
6308604 ATATTTT-A
1 ATATTTTAA
6308612 ATATTTTAA
1 ATATTTTAA
6308621 ATATTTTAA
1 ATATTTTAA
6308630 ATATTTT
1 ATATTTT
6308637 TAAAAATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 7 0.29
9 17 0.71
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (9 bp):
ATATTTTAA
Found at i:6311903 original size:18 final size:20
Alignment explanation
Indices: 6311880--6311916 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
6311870 ATATTTGATA
6311880 AATTAT-TTTTTC-TAAATC
1 AATTATATTTTTCTTAAATC
6311898 AATTATATTTTTCTTAAAT
1 AATTATATTTTTCTTAAAT
6311917 TATAAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 6 0.35
20 5 0.29
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.57
Consensus pattern (20 bp):
AATTATATTTTTCTTAAATC
Found at i:6312876 original size:27 final size:27
Alignment explanation
Indices: 6312841--6312900 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
6312831 TTTCATAATG
* **
6312841 TCAATTAAGCACAATATTGATCATTAA
1 TCAAATAAGCACAATATCAATCATTAA
6312868 TCAAATAAGCACAATATCAATCATTAA
1 TCAAATAAGCACAATATCAATCATTAA
6312895 TCAAAT
1 TCAAAT
6312901 TATCTTTGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.48, C:0.17, G:0.05, T:0.30
Consensus pattern (27 bp):
TCAAATAAGCACAATATCAATCATTAA
Found at i:6327257 original size:67 final size:67
Alignment explanation
Indices: 6327176--6327307 Score: 221
Period size: 67 Copynumber: 2.0 Consensus size: 67
6327166 AAAGGATTGG
* *
6327176 TGGCGACTCTATTTTCGTTTTTAAATAAAAAAGTCAACC-CTTTTACAAAAAAATGGTTTCGACA
1 TGGCGACTCCATTTTCGTTTTTAAATAAAAAAGTCAACCTCTTTTAC-AAAAAATGGTTTCAACA
6327240 GCA
65 GCA
*
6327243 TGGCGACTCCATTTTCGTTTTTAAATAAAAAAGTCGACCTCTTTTACAAAAAATGGTTTCAACAG
1 TGGCGACTCCATTTTCGTTTTTAAATAAAAAAGTCAACCTCTTTTACAAAAAATGGTTTCAACAG
6327308 TTCTGAAACA
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
67 54 0.89
68 7 0.11
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (67 bp):
TGGCGACTCCATTTTCGTTTTTAAATAAAAAAGTCAACCTCTTTTACAAAAAATGGTTTCAACAG
CA
Found at i:6328333 original size:20 final size:19
Alignment explanation
Indices: 6328310--6328348 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
6328300 GAAAAAGAAA
6328310 AAAAAGAGAATAAATATATG
1 AAAAAGAGAAT-AATATATG
* *
6328330 AAAATGTGAATAATATATG
1 AAAAAGAGAATAATATATG
6328349 GGCTTAAAGC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.59, C:0.00, G:0.15, T:0.26
Consensus pattern (19 bp):
AAAAAGAGAATAATATATG
Found at i:6328752 original size:149 final size:149
Alignment explanation
Indices: 6328482--6328778 Score: 594
Period size: 149 Copynumber: 2.0 Consensus size: 149
6328472 TTGCACTGCC
6328482 TTTGTTGAACAAACCTTTTAAATTTGAACTAGTTTTAGGAAAAGAGAATATTGCTCAGAACGAAG
1 TTTGTTGAACAAACCTTTTAAATTTGAACTAGTTTTAGGAAAAGAGAATATTGCTCAGAACGAAG
6328547 GTATAAATTATTTTTTGAATAGCTAGGCAATACAAGAAAGAGTTTTTGCTAAGGCAAAATGGGTG
66 GTATAAATTATTTTTTGAATAGCTAGGCAATACAAGAAAGAGTTTTTGCTAAGGCAAAATGGGTG
6328612 CATTCATACATTTAAGTGG
131 CATTCATACATTTAAGTGG
6328631 TTTGTTGAACAAACCTTTTAAATTTGAACTAGTTTTAGGAAAAGAGAATATTGCTCAGAACGAAG
1 TTTGTTGAACAAACCTTTTAAATTTGAACTAGTTTTAGGAAAAGAGAATATTGCTCAGAACGAAG
6328696 GTATAAATTATTTTTTGAATAGCTAGGCAATACAAGAAAGAGTTTTTGCTAAGGCAAAATGGGTG
66 GTATAAATTATTTTTTGAATAGCTAGGCAATACAAGAAAGAGTTTTTGCTAAGGCAAAATGGGTG
6328761 CATTCATACATTTAAGTG
131 CATTCATACATTTAAGTG
6328779 TATTTTGCTT
Statistics
Matches: 148, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
149 148 1.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.33
Consensus pattern (149 bp):
TTTGTTGAACAAACCTTTTAAATTTGAACTAGTTTTAGGAAAAGAGAATATTGCTCAGAACGAAG
GTATAAATTATTTTTTGAATAGCTAGGCAATACAAGAAAGAGTTTTTGCTAAGGCAAAATGGGTG
CATTCATACATTTAAGTGG
Found at i:6333525 original size:20 final size:21
Alignment explanation
Indices: 6333483--6333522 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
6333473 ATTAATTATT
6333483 AATTTTTTTATATATTCTTTA
1 AATTTTTTTATATATTCTTTA
*
6333504 AATTTTTTTATATTTTCTT
1 AATTTTTTTATATATTCTT
6333523 AAAAATATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (21 bp):
AATTTTTTTATATATTCTTTA
Found at i:6351294 original size:105 final size:104
Alignment explanation
Indices: 6351028--6351308 Score: 370
Period size: 104 Copynumber: 2.7 Consensus size: 104
6351018 AAAAGTACAT
* * * * *
6351028 TAAAAAAACACAAAACACTAAACTAAACACAAATAATTTATATAACCTAATCATAAATTACTAAT
1 TAAAAAATCACAAAACACTATACTAAACACTAACAATTTATATAACCTAATCATAAATTACTAAC
* **
6351093 AGAATAACTATAAAATTAATTTTTTAAAAAATACATTGC
66 AAAATAACTATAAAATTAATTTTTTAAAAAATACATCAC
*
6351132 TAAAAAATCATAAAACAC-ATAACTAAACACTAACAATTTATATAACCTAATCATAAATTACTAA
1 TAAAAAATCACAAAACACTAT-ACTAAACACTAACAATTTATATAACCTAATCATAAATTACTAA
* *
6351196 CAAAATAACTATAAAATTATTTTTTTAAAAACTTACATCAC
65 CAAAATAACTATAAAATTAATTTTTTAAAAA-ATACATCAC
* * * *
6351237 TAAAAAATCACAAAACTCTATACTAAACACTAACAA-TT-TGTAACCTAACCCCATAAATTATTA
1 TAAAAAATCACAAAACACTATACTAAACACTAACAATTTATATAACCTAA--TCATAAATTACTA
6351300 ACAAAATAA
64 ACAAAATAA
6351309 ATAACTATAA
Statistics
Matches: 156, Mismatches: 16, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
103 10 0.06
104 87 0.56
105 57 0.37
106 2 0.01
ACGTcount: A:0.54, C:0.16, G:0.01, T:0.28
Consensus pattern (104 bp):
TAAAAAATCACAAAACACTATACTAAACACTAACAATTTATATAACCTAATCATAAATTACTAAC
AAAATAACTATAAAATTAATTTTTTAAAAAATACATCAC
Found at i:6351697 original size:60 final size:60
Alignment explanation
Indices: 6351604--6351722 Score: 204
Period size: 60 Copynumber: 2.0 Consensus size: 60
6351594 ATACTAAACT
* *
6351604 AAACACAACAATTTATAACTTAATCCTAAATTACTAATAAATTAATTTTAA-AATAATTAC
1 AAACACAACAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAATAA-AATTAC
6351664 AAACACAACAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAATAAAATTA
1 AAACACAACAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAATAAAATTA
6351723 TAAAAAAATT
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
60 54 0.96
61 2 0.04
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (60 bp):
AAACACAACAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAATAAAATTAC
Found at i:6351903 original size:3 final size:3
Alignment explanation
Indices: 6351895--6351936 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
6351885 CTTTCTTTCT
6351895 TTC TTC TTC TTC TTC TTC -TC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
6351937 CCTTTCTCTC
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:6351918 original size:20 final size:19
Alignment explanation
Indices: 6351891--6351934 Score: 79
Period size: 20 Copynumber: 2.3 Consensus size: 19
6351881 TTTTCTTTCT
6351891 TTCTTTCTTCTTCTTCTTC
1 TTCTTTCTTCTTCTTCTTC
6351910 TTCTCTTCTTCTTCTTCTTC
1 TTCT-TTCTTCTTCTTCTTC
6351930 TTCTT
1 TTCTT
6351935 CTCCTTTCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 5 0.21
20 19 0.79
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (19 bp):
TTCTTTCTTCTTCTTCTTC
Found at i:6352106 original size:26 final size:28
Alignment explanation
Indices: 6352077--6352137 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
6352067 CAGTGGGGTG
*
6352077 CAGGGGGG-T-TGTGAGGCAGAGGCGCA
1 CAGGGGGGCTATGCGAGGCAGAGGCGCA
* *
6352103 CAGGGGGGCTATGCGGGGCAGAGGGGCA
1 CAGGGGGGCTATGCGAGGCAGAGGCGCA
6352131 CAGGGGG
1 CAGGGGG
6352138 CAGGTAGTGG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 8 0.27
27 1 0.03
28 21 0.70
ACGTcount: A:0.18, C:0.16, G:0.57, T:0.08
Consensus pattern (28 bp):
CAGGGGGGCTATGCGAGGCAGAGGCGCA
Found at i:6352786 original size:38 final size:38
Alignment explanation
Indices: 6352743--6352817 Score: 132
Period size: 38 Copynumber: 2.0 Consensus size: 38
6352733 TCTAATATCA
6352743 CATCTTTAGAAAAGATAAAGTCATTTTCTTTGAATTAC
1 CATCTTTAGAAAAGATAAAGTCATTTTCTTTGAATTAC
* *
6352781 CATCTTTAGAAAAGATAGAGTCATTTTTTTTGAATTA
1 CATCTTTAGAAAAGATAAAGTCATTTTCTTTGAATTA
6352818 GTTGTGTACC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.36, C:0.11, G:0.12, T:0.41
Consensus pattern (38 bp):
CATCTTTAGAAAAGATAAAGTCATTTTCTTTGAATTAC
Found at i:6353627 original size:14 final size:14
Alignment explanation
Indices: 6353610--6353637 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
6353600 TATAATAATA
6353610 GTTATATATGTATT
1 GTTATATATGTATT
6353624 GTTATATATGTATT
1 GTTATATATGTATT
6353638 AAAGTTTTAG
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:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (14 bp):
GTTATATATGTATT
Found at i:6356906 original size:27 final size:28
Alignment explanation
Indices: 6356874--6356941 Score: 102
Period size: 28 Copynumber: 2.5 Consensus size: 28
6356864 ATAAAAAAAA
*
6356874 ACCAAAATGT-TATAACTTTTTTTATTT
1 ACCAAAATATATATAACTTTTTTTATTT
* *
6356901 ACCAAAAAATATATAATTTTTTTTATTT
1 ACCAAAATATATATAACTTTTTTTATTT
6356929 ACCAAAATATATA
1 ACCAAAATATATA
6356942 AAAAAAACAA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
27 8 0.22
28 28 0.78
ACGTcount: A:0.43, C:0.10, G:0.01, T:0.46
Consensus pattern (28 bp):
ACCAAAATATATATAACTTTTTTTATTT
Found at i:6356955 original size:11 final size:11
Alignment explanation
Indices: 6356941--6356971 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
6356931 CAAAATATAT
6356941 AAAAAAAACAA
1 AAAAAAAACAA
*
6356952 AAAACAAACAA
1 AAAAAAAACAA
6356963 AAAAAAAAC
1 AAAAAAAAC
6356972 CTGCAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAACAA
Found at i:6357090 original size:27 final size:27
Alignment explanation
Indices: 6357022--6357091 Score: 115
Period size: 27 Copynumber: 2.6 Consensus size: 27
6357012 CGCCAATGGG
*
6357022 ATTGGCGGCACCAAAGGTGCCAAAGCC
1 ATTGGCGGCACCAATGGTGCCAAAGCC
6357049 ATTGGCGGCACCAATGGTGCCAATA-CC
1 ATTGGCGGCACCAATGGTGCCAA-AGCC
6357076 ATTGGCGGCACCAATG
1 ATTGGCGGCACCAATG
6357092 TATATTAGGG
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
27 40 0.98
28 1 0.02
ACGTcount: A:0.27, C:0.29, G:0.29, T:0.16
Consensus pattern (27 bp):
ATTGGCGGCACCAATGGTGCCAAAGCC
Found at i:6357916 original size:22 final size:22
Alignment explanation
Indices: 6357888--6357932 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
6357878 GTTATAAGTT
6357888 TTTTTTTATTTACCAAAATATA
1 TTTTTTTATTTACCAAAATATA
6357910 TTTTTTTATTTACCAAAATATA
1 TTTTTTTATTTACCAAAATATA
6357932 T
1 T
6357933 AAAAAAAACC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.56
Consensus pattern (22 bp):
TTTTTTTATTTACCAAAATATA
Found at i:6358354 original size:15 final size:15
Alignment explanation
Indices: 6358334--6358365 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
6358324 AATGCGGCTA
6358334 ATAAATTTAGAAATT
1 ATAAATTTAGAAATT
6358349 ATAAATTTAGAAATT
1 ATAAATTTAGAAATT
6358364 AT
1 AT
6358366 GATATTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (15 bp):
ATAAATTTAGAAATT
Found at i:6359685 original size:18 final size:18
Alignment explanation
Indices: 6359662--6359706 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
6359652 ATCCCAATGA
6359662 TCGCCACCACCTTCTTCT
1 TCGCCACCACCTTCTTCT
*
6359680 TCGCCACCCCCTTCTTCT
1 TCGCCACCACCTTCTTCT
*
6359698 TCACCACCA
1 TCGCCACCA
6359707 ACCATGTCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.53, G:0.04, T:0.29
Consensus pattern (18 bp):
TCGCCACCACCTTCTTCT
Found at i:6360396 original size:3 final size:3
Alignment explanation
Indices: 6360390--6360548 Score: 318
Period size: 3 Copynumber: 53.0 Consensus size: 3
6360380 TATTAATTTT
6360390 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA
1 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA
6360438 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA
1 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA
6360486 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA
1 CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA CAA
6360534 CAA CAA CAA CAA CAA
1 CAA CAA CAA CAA CAA
6360549 TAATAATAAT
Statistics
Matches: 156, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 156 1.00
ACGTcount: A:0.67, C:0.33, G:0.00, T:0.00
Consensus pattern (3 bp):
CAA
Found at i:6360553 original size:3 final size:3
Alignment explanation
Indices: 6360547--6360574 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
6360537 CAACAACAAC
6360547 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
6360575 CTAACTATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:6360732 original size:10 final size:11
Alignment explanation
Indices: 6360692--6360731 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
6360682 TAAAAAATAC
6360692 CTTCTTTTTCT
1 CTTCTTTTTCT
*
6360703 CTTATTTTTCT
1 CTTCTTTTTCT
6360714 C-TCTTTTTCT
1 CTTCTTTTTCT
6360724 CTTCTTTT
1 CTTCTTTT
6360732 CCGCAGCACA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 9 0.35
11 17 0.65
ACGTcount: A:0.03, C:0.25, G:0.00, T:0.72
Consensus pattern (11 bp):
CTTCTTTTTCT
Found at i:6360864 original size:27 final size:27
Alignment explanation
Indices: 6360826--6360883 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
6360816 TGCCTCAGTA
*
6360826 TGGCACCATTGGTGCCGCCAATGGTTT
1 TGGCACCATTGGTGCCGCCAATGGCTT
*
6360853 TGGCACCTTTGGTGCCGCCAATGGCTT
1 TGGCACCATTGGTGCCGCCAATGGCTT
6360880 TGGC
1 TGGC
6360884 GTGACCAAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.12, C:0.28, G:0.31, T:0.29
Consensus pattern (27 bp):
TGGCACCATTGGTGCCGCCAATGGCTT
Found at i:6360963 original size:25 final size:26
Alignment explanation
Indices: 6360935--6360984 Score: 84
Period size: 27 Copynumber: 1.9 Consensus size: 26
6360925 CAGGTTTTTT
6360935 TTATATA-TTTTGGTAAATAAAAATA
1 TTATATATTTTTGGTAAATAAAAATA
6360960 TTATATATTTTTTGGTAAATAAAAA
1 TTATATA-TTTTTGGTAAATAAAAA
6360985 AAAAGTTATA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 7 0.30
27 16 0.70
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (26 bp):
TTATATATTTTTGGTAAATAAAAATA
Found at i:6363220 original size:18 final size:17
Alignment explanation
Indices: 6363162--6363220 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 17
6363152 CATCACCCTT
6363162 TTTTATATTAAAATATTA
1 TTTT-TATTAAAATATTA
* **
6363180 TTATTTTTTAATTTATTAA
1 TT-TTTATTAAAATATT-A
*
6363199 TTTTCATTAAAATATTA
1 TTTTTATTAAAATATTA
6363216 TTTTT
1 TTTTT
6363221 TATAGTTGGC
Statistics
Matches: 31, Mismatches: 8, Indels: 5
0.70 0.18 0.11
Matches are distributed among these distances:
17 5 0.16
18 21 0.68
19 5 0.16
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTTTATTAAAATATTA
Found at i:6384283 original size:25 final size:25
Alignment explanation
Indices: 6384218--6384287 Score: 86
Period size: 26 Copynumber: 2.7 Consensus size: 25
6384208 GAGTATCCCA
*
6384218 TCCTGTTATATGGCTCTTCGTGAGCT
1 TCCTATTA-ATGGCTCTTCGTGAGCT
* * *
6384244 TCCCGATTAAAGGCTCTTTGTGAGCT
1 T-CCTATTAATGGCTCTTCGTGAGCT
6384270 TCCTATTAATGGCTCTTC
1 TCCTATTAATGGCTCTTC
6384288 AGAGCTACCC
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
25 14 0.39
26 17 0.47
27 5 0.14
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (25 bp):
TCCTATTAATGGCTCTTCGTGAGCT
Found at i:6384438 original size:25 final size:25
Alignment explanation
Indices: 6384410--6384480 Score: 81
Period size: 25 Copynumber: 2.8 Consensus size: 25
6384400 GGCTCTTATG
6384410 AGCTTCCCGTTACATAGCTCGA-ATA
1 AGCTTCCCGTTACATAGCTC-ACATA
* * *
6384435 AGCTTCCCATTACATGGCTCACATG
1 AGCTTCCCGTTACATAGCTCACATA
* *
6384460 AGCTTCCCGCTATATAGCTCA
1 AGCTTCCCGTTACATAGCTCA
6384481 AGAGGAGGCT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
24 1 0.03
25 37 0.97
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.28
Consensus pattern (25 bp):
AGCTTCCCGTTACATAGCTCACATA
Found at i:6391269 original size:30 final size:30
Alignment explanation
Indices: 6391233--6391292 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
6391223 ATTTGTAAAG
6391233 TTATCAAAGTACTAAGGTTTTTCCATGGAT
1 TTATCAAAGTACTAAGGTTTTTCCATGGAT
6391263 TTATCAAAGTACTAAGGTTTTTCCATGGAT
1 TTATCAAAGTACTAAGGTTTTTCCATGGAT
6391293 GAATATAGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.30, C:0.13, G:0.17, T:0.40
Consensus pattern (30 bp):
TTATCAAAGTACTAAGGTTTTTCCATGGAT
Found at i:6392116 original size:26 final size:25
Alignment explanation
Indices: 6392087--6392136 Score: 82
Period size: 26 Copynumber: 2.0 Consensus size: 25
6392077 CCCGTTATAT
6392087 GGCTCTTCGTGAGCTTCCTGATTAAA
1 GGCTCTTCGTGAGCTTCCTG-TTAAA
*
6392113 GGCTCTTTGTGAGCTTCCTGTTAA
1 GGCTCTTCGTGAGCTTCCTGTTAA
6392137 TGGTTCTCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 4 0.17
26 19 0.83
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.38
Consensus pattern (25 bp):
GGCTCTTCGTGAGCTTCCTGTTAAA
Found at i:6395376 original size:171 final size:171
Alignment explanation
Indices: 6395091--6395406 Score: 499
Period size: 171 Copynumber: 1.8 Consensus size: 171
6395081 TTCTGGGAGA
* *
6395091 CCTATTGAATGTTAATTCAACTAAGCCATCTTGGTGTGAAGAAATTTCACTTAAAGAAGTGTTTC
1 CCTATTGAATATTAATTCAACTAAGCCAACTTGGTGTGAAGAAATTTCACTTAAAGAAGTGTTTC
*
6395156 TAATTGGGGTTAGTGCAACAGGGTCTAAGCACCTTCTAATTTTCATTTGGTAAGGAGATTGATTT
66 TAATTGGGGTTAGTGCAACAGGGTCTAAGCACATTCTAATTTTCATTTGGTAAGGAGATTGATTT
*
6395221 CATGTTATTGTATTGTTTTTGGGATGTCATGTTTTGGGTGG
131 CATGTCATTGTATTGTTTTTGGGATGTCATGTTTTGGGTGG
* * * *
6395262 CCTATTGAATATTAATTCAATTGAGCTAACTTGGTGTGGAGAAATTTCACTTAAAGAAGTGTTTC
1 CCTATTGAATATTAATTCAACTAAGCCAACTTGGTGTGAAGAAATTTCACTTAAAGAAGTGTTTC
* * * * *
6395327 TAATTGGGG-TAGTGTAACATGGTCTATATCACATTCTAGTTTTCATTTGGTAGGGAGATTGATT
66 TAATTGGGGTTAGTGCAACAGGGTCTA-AGCACATTCTAATTTTCATTTGGTAAGGAGATTGATT
6395391 TCATGTCATTGTATTG
130 TCATGTCATTGTATTG
6395407 CTCTTGGAAT
Statistics
Matches: 131, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
170 15 0.11
171 116 0.89
ACGTcount: A:0.26, C:0.11, G:0.22, T:0.40
Consensus pattern (171 bp):
CCTATTGAATATTAATTCAACTAAGCCAACTTGGTGTGAAGAAATTTCACTTAAAGAAGTGTTTC
TAATTGGGGTTAGTGCAACAGGGTCTAAGCACATTCTAATTTTCATTTGGTAAGGAGATTGATTT
CATGTCATTGTATTGTTTTTGGGATGTCATGTTTTGGGTGG
Found at i:6397896 original size:20 final size:18
Alignment explanation
Indices: 6397851--6397900 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
6397841 TAAATTTATG
*
6397851 ATAATTTTATAAATAAATA
1 ATAATTTTA-AATTAAATA
6397870 A-AATTTTAAATTAACATCA
1 ATAATTTTAAATTAA-AT-A
6397889 ATAATTTTAAAT
1 ATAATTTTAAAT
6397901 GCATCTATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 5 0.19
18 9 0.33
19 3 0.11
20 10 0.37
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (18 bp):
ATAATTTTAAATTAAATA
Found at i:6397932 original size:111 final size:113
Alignment explanation
Indices: 6397793--6398023 Score: 439
Period size: 111 Copynumber: 2.1 Consensus size: 113
6397783 TTATATCTTT
6397793 TATTAAAATTATTTCTTTAAAAATTCCACCTTTATTCATTATAAAAATTAAATTTATGATAATTT
1 TATTAAAATTATTTCTTTAAAAATTCCACCTTTATTCATTATAAAAATTAAATTTATGATAATTT
*
6397858 TATAAATAAATAAAATTTTAAATTAACATCAATAATTTTAAATGCATC
66 TATAAATAAATAAAATTTTAAATTAACACCAATAATTTTAAATGCATC
6397906 TATTAAAA-T-TTTCTTTAAAAATTCCACCTTTATTCATTATAAAAATTAAATTTATGATAATTT
1 TATTAAAATTATTTCTTTAAAAATTCCACCTTTATTCATTATAAAAATTAAATTTATGATAATTT
6397969 TATAAATAAATAAAATTTTAAATTAACACCAATAATTTTAAATGCATC
66 TATAAATAAATAAAATTTTAAATTAACACCAATAATTTTAAATGCATC
6398017 TATTAAA
1 TATTAAA
6398024 TAATAAAATT
Statistics
Matches: 117, Mismatches: 1, Indels: 2
0.98 0.01 0.02
Matches are distributed among these distances:
111 108 0.92
112 1 0.01
113 8 0.07
ACGTcount: A:0.46, C:0.09, G:0.02, T:0.43
Consensus pattern (113 bp):
TATTAAAATTATTTCTTTAAAAATTCCACCTTTATTCATTATAAAAATTAAATTTATGATAATTT
TATAAATAAATAAAATTTTAAATTAACACCAATAATTTTAAATGCATC
Found at i:6398479 original size:25 final size:24
Alignment explanation
Indices: 6398451--6398506 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
6398441 ATTTTCTTCT
* *
6398451 CTTTCCTTCTATTCCATTTATTTCC
1 CTTTCCTT-TATTCCAGTCATTTCC
* *
6398476 CTTTCTCTTTTTTCCAGTCATTTTC
1 CTTTC-CTTTATTCCAGTCATTTCC
6398501 CTTTCC
1 CTTTCC
6398507 CTTTCCCTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 1 0.04
25 22 0.85
26 3 0.12
ACGTcount: A:0.09, C:0.32, G:0.02, T:0.57
Consensus pattern (24 bp):
CTTTCCTTTATTCCAGTCATTTCC
Found at i:6402888 original size:18 final size:19
Alignment explanation
Indices: 6402865--6402913 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
6402855 GTTGTAAAGT
*
6402865 TTTATTTTTATTTATTTA-
1 TTTATTTTTATTTACTTAG
6402883 TTTATTTATT-TTTACTTAG
1 TTTATTT-TTATTTACTTAG
6402902 TTTAATTTTTAT
1 TTT-ATTTTTAT
6402914 GTAAACATTC
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 14 0.54
19 7 0.27
20 5 0.19
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (19 bp):
TTTATTTTTATTTACTTAG
Done.