Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 188 of 325
Found at i:61028887 original size:54 final size:54
Alignment explanation
Indices: 61028805--61028918 Score: 210
Period size: 54 Copynumber: 2.1 Consensus size: 54
61028795 GGCACACGCT
* *
61028805 CGTGTGCTAGGTCGTGTTCATCACACGACTGAGACACACGGCCGTGTCTCTGCC
1 CGTGTGCTAGGCCGTGTTCATCACACGACTGAGACACACGACCGTGTCTCTGCC
61028859 CGTGTGCTAGGCCGTGTTCATCACACGACTGAGACACACGACCGTGTCTCTGCC
1 CGTGTGCTAGGCCGTGTTCATCACACGACTGAGACACACGACCGTGTCTCTGCC
61028913 CGTGTG
1 CGTGTG
61028919 TTTACAAACA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
54 58 1.00
ACGTcount: A:0.17, C:0.32, G:0.28, T:0.24
Consensus pattern (54 bp):
CGTGTGCTAGGCCGTGTTCATCACACGACTGAGACACACGACCGTGTCTCTGCC
Found at i:61029847 original size:46 final size:45
Alignment explanation
Indices: 61029755--61029963 Score: 199
Period size: 46 Copynumber: 4.5 Consensus size: 45
61029745 GTGCTGATAC
* *
61029755 CATGTCCCAGACATGGTCTTACACTGAC-ACATCTCGTA-GCCGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTTCATCTCG-AGGCCGATG
* * *
61029800 CATGTCCCATACATGTCTTACATTGGCTTACGTCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTT-CATCTCGAGGCCGATG
* * * * *
61029846 CATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAATGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGC-TTCATCTCGAGGCCGATG
* * *
61029892 CCATGTCCTAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTGGCT-TCAT-CTCGAGGCCGATG
*
61029940 CATGTCCCAGACACGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
61029964 AGCTCACACA
Statistics
Matches: 135, Mismatches: 21, Indels: 15
0.79 0.12 0.09
Matches are distributed among these distances:
44 11 0.08
45 14 0.10
46 61 0.45
47 26 0.19
48 22 0.16
49 1 0.01
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTGGCTTCATCTCGAGGCCGATG
Found at i:61029936 original size:94 final size:92
Alignment explanation
Indices: 61029755--61029971 Score: 246
Period size: 94 Copynumber: 2.3 Consensus size: 92
61029745 GTGCTGATAC
* *
61029755 CATGTCCCAGACATGGTCTTACACT-G-ACACATCTCGTAGCCGATGCATGTCCCATACATGTCT
1 CATGTCCCAGACAT-GTCTTACACTAGCACACATCTCATAGCCGATGCATGTCCCAGACATGTCT
* * *
61029818 TACATTGGCTTACGTCTCGAGGCCGATG
65 TACACTGGCTTACATATCGAGGCCGATG
* * *
61029846 CATGTCCCAGACATGTCTTACACTAGCACTCGTCTCA-ATGCCGATGCCATGTCCTAGACATGGT
1 CATGTCCCAGACATGTCTTACACTAGCACACATCTCATA-GCCGATG-CATGTCCCAGACAT-GT
*
61029910 CTTACACTGGCTCT-CATAAT-GTGGCCGATG
63 CTTACACTGGCT-TACAT-ATCGAGGCCGATG
* *
61029940 CATGTCCCAGACACGTCTTACACTAGCTCACA
1 CATGTCCCAGACATGTCTTACACTAGCACACA
61029972 CAAGTGACCC
Statistics
Matches: 106, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
90 10 0.09
91 16 0.15
92 14 0.13
93 12 0.11
94 52 0.49
95 2 0.02
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (92 bp):
CATGTCCCAGACATGTCTTACACTAGCACACATCTCATAGCCGATGCATGTCCCAGACATGTCTT
ACACTGGCTTACATATCGAGGCCGATG
Found at i:61036632 original size:5 final size:5
Alignment explanation
Indices: 61036622--61036647 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
61036612 CCCAATTGAC
61036622 TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT T
61036648 GCTATCACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:61045656 original size:23 final size:22
Alignment explanation
Indices: 61045616--61045661 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
61045606 TTTATAACTA
61045616 TGTTATGTATACAATTTACATAT
1 TGTTATGTATACAATTTA-ATAT
* *
61045639 TGTTATGTATATATTTTAATAT
1 TGTTATGTATACAATTTAATAT
61045661 T
1 T
61045662 ATTAGTTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.33, C:0.04, G:0.09, T:0.54
Consensus pattern (22 bp):
TGTTATGTATACAATTTAATAT
Found at i:61045713 original size:19 final size:19
Alignment explanation
Indices: 61045689--61045729 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
61045679 TATACTATTT
*
61045689 ATTGTATATTTCTAATATC
1 ATTGTATATTTCTAACATC
61045708 ATTGTATATTTCTAACATC
1 ATTGTATATTTCTAACATC
61045727 ATT
1 ATT
61045730 ATTATTTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.32, C:0.12, G:0.05, T:0.51
Consensus pattern (19 bp):
ATTGTATATTTCTAACATC
Found at i:61045820 original size:18 final size:18
Alignment explanation
Indices: 61045775--61045825 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 18
61045765 TATGAATAGT
*
61045775 TTTTTTATATTATTATCA
1 TTTTATATATTATTATCA
61045793 TTTCTAATATATATATTAT-A
1 TTT-T-ATATAT-TATTATCA
61045813 TTTTATATATTAT
1 TTTTATATATTAT
61045826 GTATGTATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
17 3 0.10
18 9 0.31
19 2 0.07
20 9 0.31
21 6 0.21
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (18 bp):
TTTTATATATTATTATCA
Found at i:61045834 original size:20 final size:20
Alignment explanation
Indices: 61045734--61045837 Score: 60
Period size: 20 Copynumber: 5.2 Consensus size: 20
61045724 ATCATTATTA
61045734 TTTATATATATATGTATGTA-
1 TTTATATAT-TATGTATGTAT
* *
61045754 TTTATATAGCGTATGAATAGT-T
1 TTTATATA--TTATGTAT-GTAT
* *
61045776 TTTTTATATTAT-TAT-CAT
1 TTTATATATTATGTATGTAT
61045794 TTCTAATATATATAT-TA--TAT
1 TT-T-ATATAT-TATGTATGTAT
61045814 TTTATATATTATGTATGTAT
1 TTTATATATTATGTATGTAT
61045834 TTTA
1 TTTA
61045838 ATGTTATTAG
Statistics
Matches: 65, Mismatches: 8, Indels: 22
0.68 0.08 0.23
Matches are distributed among these distances:
17 3 0.05
18 11 0.17
19 4 0.06
20 27 0.42
21 11 0.17
22 9 0.14
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.57
Consensus pattern (20 bp):
TTTATATATTATGTATGTAT
Found at i:61046259 original size:22 final size:23
Alignment explanation
Indices: 61046207--61046261 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
61046197 TATATATATA
61046207 TTATGTATATATTTTAACATTAC
1 TTATGTATATATTTTAACATTAC
* *
61046230 TAAT-TATATATTTTTAC--TATC
1 TTATGTATATATTTTAACATTA-C
61046251 TTATGTATATA
1 TTATGTATATA
61046262 CTTCAAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
20 2 0.07
21 4 0.15
22 18 0.67
23 3 0.11
ACGTcount: A:0.35, C:0.07, G:0.04, T:0.55
Consensus pattern (23 bp):
TTATGTATATATTTTAACATTAC
Found at i:61058455 original size:73 final size:73
Alignment explanation
Indices: 61058256--61058560 Score: 409
Period size: 73 Copynumber: 4.2 Consensus size: 73
61058246 TGATGTTTTT
* * * ** * *
61058256 ATTTCTGTTTTC-AAAATTCAACTCATGTTGTGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 ATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
* *
61058320 TATTTTTA
66 TAATTTCA
* *
61058328 ATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGGACACGCCGA
1 ATTTCTGT-TTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
61058393 GGTAATTTCA
64 GGTAATTTCA
*
61058403 ATTTCTGTTTGTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAG
1 ATTTCTGTTT-TCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
61058467 G-AATTTTCA
65 GTAA-TTTCA
61058476 ATTTCTGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
1 ATTTCTG-TTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAG
* *
61058541 GTATTTTTA
65 GTAATTTCA
*
61058550 ATTTCTATTTT
1 ATTTCTGTTTT
61058561 TTCAATTTAT
Statistics
Matches: 207, Mismatches: 18, Indels: 15
0.86 0.08 0.06
Matches are distributed among these distances:
72 10 0.05
73 71 0.34
74 66 0.32
75 60 0.29
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.34
Consensus pattern (73 bp):
ATTTCTGTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGG
TAATTTCA
Found at i:61058536 original size:147 final size:150
Alignment explanation
Indices: 61058255--61058627 Score: 450
Period size: 148 Copynumber: 2.4 Consensus size: 150
61058245 TTGATGTTTT
* * * ** * * *
61058255 TATTTCTGTTTTCAAAATTCAACTCATGTTGTGAGAAATGAGTTGAGCCTCAAGACACGTTGAGG
1 TATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGG
* * *
61058320 TATTTTTAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCAGGA
66 AATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
61058385 CACGCCGAGG-TAATTTC-A
131 CACGCCGAGGTTAATTTCTA
61058403 -ATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAG
1 TATTTCTGTTT-TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAG
61058467 GAATTTTCAATTTCTG-CTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
65 GAATTTTCAATTTCTGTC-TTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
*
61058530 GACACGCTGAGGTATTTTTAATTTCTA
129 GACACGCCGAGG-----TTAATTTCTA
* *
61058557 TTTTTTCAATTTATATTCTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCA
1 -----T--ATTTCTGTT-TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCA
61058622 CGCTGA
58 CGCTGA
61058628 AGTATTCTCG
Statistics
Matches: 193, Mismatches: 14, Indels: 22
0.84 0.06 0.10
Matches are distributed among these distances:
147 62 0.32
148 63 0.33
153 7 0.04
154 1 0.01
162 59 0.31
163 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (150 bp):
TATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACGCTGAGG
AATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
CACGCCGAGGTTAATTTCTA
Found at i:61058624 original size:88 final size:86
Alignment explanation
Indices: 61058470--61058791 Score: 350
Period size: 88 Copynumber: 3.7 Consensus size: 86
61058460 CGCTGAGGAA
*
61058470 TTTTCAATTTCTGCTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
1 TTTTCAATTTCT-ATTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
*
61058535 GCTGAGGTATTTTTAATTTCTATT
64 GCTGAGGTATTTTCAATTTCT-TT
* *
61058559 TTTTCAATTTATATTCTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGCACG
1 TTTTCAATTTCTATT-TTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACG
* * * *
61058624 CTGAAGTATTCTCGAA-ATCTGT
65 CTGAGGTATTTTC-AATTTCTTT
* * * * *
61058646 TTTTCAAATTCTGTTTTCAAAAATCAACTCATATTGTGAGAGGTGAGTTGAGCCT-TGGCTCACG
1 TTTTCAATTTCTATTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACAC-
*
61058710 TGCTGAGCTATTTTCAATTT-TTGT
64 -GCTGAGGTATTTTCAATTTCTT-T
* * * *
61058734 TTTT-AATGTCTATTTT-AAAGAGTCAACTCATATTGTGAGAAGTGAGTTGAG-CTCAGGA
1 TTTTCAATTTCTATTTTCAAA-AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
61058792 TCACATGCCG
Statistics
Matches: 198, Mismatches: 26, Indels: 21
0.81 0.11 0.09
Matches are distributed among these distances:
85 2 0.01
86 47 0.24
87 56 0.28
88 77 0.39
89 16 0.08
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (86 bp):
TTTTCAATTTCTATTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
TGAGGTATTTTCAATTTCTTT
Found at i:61060473 original size:3 final size:3
Alignment explanation
Indices: 61060467--61060551 Score: 50
Period size: 3 Copynumber: 27.7 Consensus size: 3
61060457 TTATTTATAC
* * * *
61060467 TAT TAT TAC TAT TAT TAT TA- TAGT TTT TATT TAT TAG TAT T-T CAT
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TA-T TAT TAT TAT TAT TAT
* *
61060512 TAT TAT TAT TACT TAA TACT TAT ATAT TA- TAT CAT TAT TA
1 TAT TAT TAT TA-T TAT TA-T TAT -TAT TAT TAT TAT TAT TA
61060552 ATAGTTTTTT
Statistics
Matches: 62, Mismatches: 12, Indels: 16
0.69 0.13 0.18
Matches are distributed among these distances:
2 5 0.08
3 45 0.73
4 12 0.19
ACGTcount: A:0.33, C:0.06, G:0.02, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:61060701 original size:23 final size:22
Alignment explanation
Indices: 61060661--61060706 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
61060651 TTTATAACTA
61060661 TGTTATGTATACAATTTACATAT
1 TGTTATGTATACAATTTA-ATAT
* *
61060684 TGTTATGTATATATTTTAATAT
1 TGTTATGTATACAATTTAATAT
61060706 T
1 T
61060707 ATTAGTTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 5 0.24
23 16 0.76
ACGTcount: A:0.33, C:0.04, G:0.09, T:0.54
Consensus pattern (22 bp):
TGTTATGTATACAATTTAATAT
Found at i:61060758 original size:19 final size:19
Alignment explanation
Indices: 61060734--61060774 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
61060724 TATACTATTT
*
61060734 ATTGTATATTTCTAATATC
1 ATTGTATATTTCTAACATC
61060753 ATTGTATATTTCTAACATC
1 ATTGTATATTTCTAACATC
61060772 ATT
1 ATT
61060775 ATTATTTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.32, C:0.12, G:0.05, T:0.51
Consensus pattern (19 bp):
ATTGTATATTTCTAACATC
Found at i:61060865 original size:18 final size:17
Alignment explanation
Indices: 61060772--61060880 Score: 51
Period size: 20 Copynumber: 5.7 Consensus size: 17
61060762 TTCTAACATC
61060772 ATTATTATTTATATATAT
1 ATTATTATTT-TATATAT
61060790 ATGTATGTATTTATATAGCGTAT
1 AT-TAT-TATTT-TATA---TAT
* *
61060813 GAATAGTTTTTTTATAT-T
1 -ATTA-TTATTTTATATAT
*
61060831 ATTATCATTTCTA-ATAT
1 ATTATTATTT-TATATAT
61060848 ATATATTATTTTATATATT
1 AT-TATTATTTTATATA-T
61060867 ATGTATGTATTTTA
1 AT-TAT-TATTTTA
61060881 ATGTTATTAG
Statistics
Matches: 71, Mismatches: 7, Indels: 24
0.70 0.07 0.24
Matches are distributed among these distances:
16 6 0.08
17 10 0.14
18 13 0.18
19 10 0.14
20 17 0.24
22 4 0.06
23 9 0.13
24 2 0.03
ACGTcount: A:0.33, C:0.03, G:0.07, T:0.57
Consensus pattern (17 bp):
ATTATTATTTTATATAT
Found at i:61061199 original size:22 final size:24
Alignment explanation
Indices: 61061176--61061247 Score: 74
Period size: 27 Copynumber: 2.9 Consensus size: 24
61061166 TATTATTTTA
61061176 TTTTAATAT-TATTATGTATATAT
1 TTTTAATATATATTATGTATATAT
* *
61061199 TTTTCATATATGTTATGTATATACAT
1 TTTTAATATATATTATGTATAT--AT
* *
61061225 TTTTCAATATTTATTATATATAT
1 TTTT-AATATATATTATGTATAT
61061248 TATGTATATA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
23 8 0.21
24 11 0.28
26 6 0.15
27 14 0.36
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.58
Consensus pattern (24 bp):
TTTTAATATATATTATGTATATAT
Found at i:61061214 original size:27 final size:24
Alignment explanation
Indices: 61061127--61061248 Score: 74
Period size: 26 Copynumber: 4.8 Consensus size: 24
61061117 ATACATCATT
61061127 ATATTTATTATTATACCTATTATTTTCA
1 ATATTTATTATTATA--TA-T-TTTTCA
* *
61061155 CTATTATCACTTATTAT-T-TTATTTTA
1 ATATT-T-A-TTATTATATATT-TTTCA
61061181 ATA-TTATTATGTATATATTTTTCA
1 ATATTTATTAT-TATATATTTTTCA
*
61061205 TATATGTTATGTA-TATACATTTTTCA
1 -ATAT-TTAT-TATTATATATTTTTCA
61061231 ATATTTATTA-TATATATT
1 ATATTTATTATTATATATT
61061249 ATGTATATAT
Statistics
Matches: 77, Mismatches: 6, Indels: 27
0.70 0.05 0.25
Matches are distributed among these distances:
22 4 0.05
23 13 0.17
24 10 0.13
25 11 0.14
26 19 0.25
27 4 0.05
28 7 0.09
29 1 0.01
30 1 0.01
31 7 0.09
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.58
Consensus pattern (24 bp):
ATATTTATTATTATATATTTTTCA
Found at i:61061219 original size:24 final size:22
Alignment explanation
Indices: 61061187--61061245 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 22
61061177 TTTAATATTA
61061187 TTATGTATATATTTTTCATATAT
1 TTATGTATATATTTTTCA-ATAT
61061210 GTTATGTATATACATTTTTCAATAT
1 -TTATGTATAT--ATTTTTCAATAT
61061235 TTAT-TATATAT
1 TTATGTATATAT
61061246 ATTATGTATA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
21 2 0.06
23 5 0.15
24 14 0.42
25 4 0.12
26 8 0.24
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (22 bp):
TTATGTATATATTTTTCAATAT
Found at i:61061220 original size:13 final size:12
Alignment explanation
Indices: 61061187--61061260 Score: 52
Period size: 13 Copynumber: 6.2 Consensus size: 12
61061177 TTTAATATTA
61061187 TTATGTATATAT
1 TTATGTATATAT
61061199 TT-T-TCATATAT
1 TTATGT-ATATAT
61061210 GTTATGTATATACAT
1 -TTATGTATAT--AT
61061225 TT-T-TCA-ATAT
1 TTATGT-ATATAT
61061235 TTAT-TATATAT
1 TTATGTATATAT
61061246 ATTATGTATATAT
1 -TTATGTATATAT
61061259 TT
1 TT
61061261 TAACATTACT
Statistics
Matches: 51, Mismatches: 0, Indels: 22
0.70 0.00 0.30
Matches are distributed among these distances:
10 6 0.12
11 13 0.25
12 13 0.25
13 14 0.27
14 3 0.06
15 2 0.04
ACGTcount: A:0.32, C:0.04, G:0.05, T:0.58
Consensus pattern (12 bp):
TTATGTATATAT
Found at i:61064368 original size:2 final size:2
Alignment explanation
Indices: 61064363--61064390 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
61064353 AAAAATTGTC
61064363 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
61064391 TACTTTTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:61072576 original size:100 final size:100
Alignment explanation
Indices: 61072403--61072713 Score: 532
Period size: 100 Copynumber: 3.1 Consensus size: 100
61072393 TTTGACATGA
*
61072403 GTGTCGCGACACTGAGCCTCCATGACCTCAAGGGTGCAAAACTTCAACAAGAAATCAATCTAGAG
1 GTGTCGCGACACTGAGCCTCCATGACCTCAAGGGTGCAAAACTTCAACAAGAAATCAACCTAGAG
*
61072468 TTAATTGTCGAGAGTGTCACGACACTTAGGATGTT
66 TTGATTGTCGAGAGTGTCACGACACTTAGGATGTT
* * *
61072503 GTGTCGTGACACTGAGCCTCCATGACCTCAAGGGTGCAAAACTTCAATAAGAAGTCAACCTAGAG
1 GTGTCGCGACACTGAGCCTCCATGACCTCAAGGGTGCAAAACTTCAACAAGAAATCAACCTAGAG
*
61072568 TTGATTGTCGAGAATGTCACGACACTTAGGATGTT
66 TTGATTGTCGAGAGTGTCACGACACTTAGGATGTT
* *
61072603 GTGTCACGACACTGAACCTCCATGACCTCAAGGGTGCAAAACTTCAACAAGAAATCAACCTAGAG
1 GTGTCGCGACACTGAGCCTCCATGACCTCAAGGGTGCAAAACTTCAACAAGAAATCAACCTAGAG
*
61072668 TTGATTGTCGAGAGTGTCACGACACTTAGGGTGTT
66 TTGATTGTCGAGAGTGTCACGACACTTAGGATGTT
*
61072703 GTGTCACGACA
1 GTGTCGCGACA
61072714 ATGAACCCAA
Statistics
Matches: 198, Mismatches: 13, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 198 1.00
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (100 bp):
GTGTCGCGACACTGAGCCTCCATGACCTCAAGGGTGCAAAACTTCAACAAGAAATCAACCTAGAG
TTGATTGTCGAGAGTGTCACGACACTTAGGATGTT
Found at i:61075299 original size:70 final size:72
Alignment explanation
Indices: 61075145--61075305 Score: 272
Period size: 70 Copynumber: 2.3 Consensus size: 72
61075135 TCAACTTTAC
*
61075145 CCTTCTCCCTCTTTTTCATTCTCATGTCTGAAGCATCTTCTTTTTTTCATTCTTCTTCCCATTTC
1 CCTTCTCCCTCTTTTTCATTCTCACGTCTGAAGCATCTTCTTTTTTTCATTCTTCTTCCCATTTC
61075210 CTTCCAA
66 CTTCCAA
* *
61075217 TCTTCTCTCTCTTTTTCATTCTCACGTCTGAAGCAT-TTC-TTTTTTCATTCTTCTTCCCATTTC
1 CCTTCTCCCTCTTTTTCATTCTCACGTCTGAAGCATCTTCTTTTTTTCATTCTTCTTCCCATTTC
*
61075280 CTTCCGA
66 CTTCCAA
61075287 CCTTCTCCCTCTTTTTCAT
1 CCTTCTCCCTCTTTTTCAT
61075306 GCTTTTATCT
Statistics
Matches: 83, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
70 47 0.57
71 3 0.04
72 33 0.40
ACGTcount: A:0.11, C:0.34, G:0.04, T:0.51
Consensus pattern (72 bp):
CCTTCTCCCTCTTTTTCATTCTCACGTCTGAAGCATCTTCTTTTTTTCATTCTTCTTCCCATTTC
CTTCCAA
Found at i:61078318 original size:33 final size:33
Alignment explanation
Indices: 61078279--61078345 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
61078269 AACTCTTGTT
61078279 TCCATCATGGATGTTTGAACTTGATCAAATTGG
1 TCCATCATGGATGTTTGAACTTGATCAAATTGG
* *
61078312 TCCATCATGGATGTTTGGATTTGATCAAATTGG
1 TCCATCATGGATGTTTGAACTTGATCAAATTGG
61078345 T
1 T
61078346 TGGTTTAATC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.25, C:0.13, G:0.22, T:0.39
Consensus pattern (33 bp):
TCCATCATGGATGTTTGAACTTGATCAAATTGG
Found at i:61078830 original size:17 final size:17
Alignment explanation
Indices: 61078810--61078842 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
61078800 ATTAAGAATG
61078810 TTATTAAAATATATTTT
1 TTATTAAAATATATTTT
*
61078827 TTATTAAATTATATTT
1 TTATTAAAATATATTT
61078843 AATAATAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TTATTAAAATATATTTT
Found at i:61078852 original size:55 final size:57
Alignment explanation
Indices: 61078789--61078920 Score: 155
Period size: 58 Copynumber: 2.3 Consensus size: 57
61078779 TTTAATTCAT
* *
61078789 ATAATAATTATATTAAGAATGTTATTAAA-ATAT-AT-TTTTTATTAAATTATATTTA
1 ATAATAATTATATTAA-AATATGATTAAATATATGATATTTTTATTAAATTATATTTA
* * * *
61078844 ATAATAATTATATTAAAATATGGTTAAATTATTTGTTATTTTTATTAAATTATTTTTA
1 ATAATAATTATATTAAAATATGATTAAA-TATATGATATTTTTATTAAATTATATTTA
61078902 ATAATAATCT-TATTAAAAT
1 ATAATAAT-TATATTAAAAT
61078921 TTAATAATAA
Statistics
Matches: 66, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
54 9 0.14
55 16 0.24
56 3 0.05
57 1 0.02
58 36 0.55
59 1 0.02
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.52
Consensus pattern (57 bp):
ATAATAATTATATTAAAATATGATTAAATATATGATATTTTTATTAAATTATATTTA
Found at i:61079108 original size:16 final size:16
Alignment explanation
Indices: 61079087--61079124 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
61079077 TAAATTACTG
* *
61079087 ATTACAGCTCTATTTA
1 ATTACAGCCCTATTCA
61079103 ATTACAGCCCTATTCA
1 ATTACAGCCCTATTCA
61079119 ATTACA
1 ATTACA
61079125 ATGAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.34, C:0.24, G:0.05, T:0.37
Consensus pattern (16 bp):
ATTACAGCCCTATTCA
Found at i:61085068 original size:12 final size:12
Alignment explanation
Indices: 61085053--61085078 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
61085043 TTAATTGATA
61085053 ATTTTTTAAATT
1 ATTTTTTAAATT
61085065 ATTTTTTAAATT
1 ATTTTTTAAATT
61085077 AT
1 AT
61085079 AATTTTAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
ATTTTTTAAATT
Found at i:61093552 original size:19 final size:19
Alignment explanation
Indices: 61093506--61093553 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
61093496 ATATGTATAT
61093506 TAAA-TTTATTTAGGTAGA
1 TAAATTTTATTTAGGTAGA
*
61093524 TAAATCTTATTT-GGATAGA
1 TAAATTTTATTTAGG-TAGA
*
61093543 TAAGTTTTATT
1 TAAATTTTATT
61093554 CATATTCTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 6 0.24
19 19 0.76
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.48
Consensus pattern (19 bp):
TAAATTTTATTTAGGTAGA
Found at i:61096135 original size:36 final size:36
Alignment explanation
Indices: 61096089--61096164 Score: 152
Period size: 36 Copynumber: 2.1 Consensus size: 36
61096079 GATCCTAGAG
61096089 AAAAAAAATGTGTCTTTGTTGGTTATGCTTCTAATA
1 AAAAAAAATGTGTCTTTGTTGGTTATGCTTCTAATA
61096125 AAAAAAAATGTGTCTTTGTTGGTTATGCTTCTAATA
1 AAAAAAAATGTGTCTTTGTTGGTTATGCTTCTAATA
61096161 AAAA
1 AAAA
61096165 GGGTTACAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.39
Consensus pattern (36 bp):
AAAAAAAATGTGTCTTTGTTGGTTATGCTTCTAATA
Found at i:61100584 original size:12 final size:12
Alignment explanation
Indices: 61100569--61100601 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
61100559 CCTAAACTCC
61100569 TCCATAAAAAAT
1 TCCATAAAAAAT
61100581 TCCATAAAAAAT
1 TCCATAAAAAAT
61100593 TCCA-AAAAA
1 TCCATAAAAA
61100602 GCCATATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 5 0.24
12 16 0.76
ACGTcount: A:0.61, C:0.18, G:0.00, T:0.21
Consensus pattern (12 bp):
TCCATAAAAAAT
Found at i:61102590 original size:47 final size:45
Alignment explanation
Indices: 61102464--61102646 Score: 190
Period size: 47 Copynumber: 4.0 Consensus size: 45
61102454 CTATCATAAT
* * *
61102464 TTCACCCATAATGAACTCAGAACGCAACTCAACGAGCTCGGGTG-
1 TTCATCCATAATGAACTCAGAACGCAACTCAACGAGTTCGGATGC
*
61102508 TTCACATCCATAATGAACTCAGAACACAACTCAACGAGTTCGGATGC
1 TT--CATCCATAATGAACTCAGAACGCAACTCAACGAGTTCGGATGC
* *
61102555 TTGCATCCATAAGTGAACTCGGAACGCAACTCAACGAGTTCGAATGC
1 TT-CATCCATAA-TGAACTCAGAACGCAACTCAACGAGTTCGGATGC
* * * * *
61102602 CTCAT-AATTCTCACGAACTCGGAACGCAACTCAACGAGTTCGGAT
1 TTCATCCA---TAATGAACTCAGAACGCAACTCAACGAGTTCGGAT
61102647 CTCAATTTCC
Statistics
Matches: 119, Mismatches: 13, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
44 2 0.02
45 1 0.01
46 50 0.42
47 64 0.54
48 2 0.02
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.21
Consensus pattern (45 bp):
TTCATCCATAATGAACTCAGAACGCAACTCAACGAGTTCGGATGC
Found at i:61105670 original size:30 final size:30
Alignment explanation
Indices: 61105636--61105692 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
61105626 TAACTCAAAA
61105636 TTTTGAAAAATTACAATTTTGCCCCTAAAC
1 TTTTGAAAAATTACAATTTTGCCCCTAAAC
* * * *
61105666 TTTTGCATATTTACACTTTTGCCCCTA
1 TTTTGAAAAATTACAATTTTGCCCCTA
61105693 GGCTCGGGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.28, C:0.23, G:0.07, T:0.42
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCTAAAC
Found at i:61111489 original size:51 final size:51
Alignment explanation
Indices: 61111420--61111598 Score: 222
Period size: 52 Copynumber: 3.5 Consensus size: 51
61111410 ATGGATGCCT
* * *
61111420 AGTGACCTGCACATAGTACCACCCTTGT-AGTCAAAGCTACCTTCTTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGTGA-TCAAAGCTACCTTCTTCACAA
* *
61111471 AGTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTTCTTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGTGATCAAAGCTA-CCTTCTTCACAA
* * * *
61111523 AGTGGCCTTCATATAGTGCCACACTTGTGATC-AAGCTATC-TCTTCTCAA
1 AGTGGCCTTCACATAGTACCACACTTGTGATCAAAGCTACCTTCTTCACAA
61111572 AGTGG-CTTGCACATAGTACCACACTTG
1 AGTGGCCTT-CACATAGTACCACACTTG
61111599 AGTCACTAGT
Statistics
Matches: 112, Mismatches: 13, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
48 3 0.03
49 29 0.26
51 39 0.35
52 41 0.37
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.28
Consensus pattern (51 bp):
AGTGGCCTTCACATAGTACCACACTTGTGATCAAAGCTACCTTCTTCACAA
Found at i:61111539 original size:52 final size:51
Alignment explanation
Indices: 61111420--61111598 Score: 231
Period size: 51 Copynumber: 3.5 Consensus size: 51
61111410 ATGGATGCCT
* * * *
61111420 AGTGACCTGCACATAGTACCACCCTTGT-AGTCAAAGCTACCTTCTTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGTGA-TCAAAGCTATCTTCTTCACAA
*
61111471 AGTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTTCTTCACAA
1 AGTGGCCTTCACATAGTACCACACTTGTGATCAAAGCTATC-TTCTTCACAA
* * *
61111523 AGTGGCCTTCATATAGTGCCACACTTGTGATC-AAGCTATC-TCTTCTCAA
1 AGTGGCCTTCACATAGTACCACACTTGTGATCAAAGCTATCTTCTTCACAA
61111572 AGTGG-CTTGCACATAGTACCACACTTG
1 AGTGGCCTT-CACATAGTACCACACTTG
61111599 AGTCACTAGT
Statistics
Matches: 114, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
48 3 0.03
49 29 0.25
51 42 0.37
52 40 0.35
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.28
Consensus pattern (51 bp):
AGTGGCCTTCACATAGTACCACACTTGTGATCAAAGCTATCTTCTTCACAA
Found at i:61119544 original size:40 final size:40
Alignment explanation
Indices: 61119462--61119645 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
61119452 GCTACTCGTT
*
61119462 CAAATGCCTTCGGGACATAG-CCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
61119501 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
61119541 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
61119580 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
61119621 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
61119646 CATCATTCAA
Statistics
Matches: 126, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
38 2 0.02
39 51 0.40
40 60 0.48
41 13 0.10
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:61119572 original size:79 final size:82
Alignment explanation
Indices: 61119462--61119645 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
61119452 GCTACTCGTT
* *
61119462 CAAATGCCTTCGGGACATAG-CCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
61119524 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
61119541 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
61119604 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
61119621 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
61119646 CATCATTCAA
Statistics
Matches: 91, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
78 7 0.08
79 64 0.70
80 20 0.22
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:61120304 original size:17 final size:18
Alignment explanation
Indices: 61120284--61120323 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
61120274 ACTCCATAAC
61120284 TAAACCAC-CACCATATA
1 TAAACCACACACCATATA
61120301 TAAA-CACACACCATATA
1 TAAACCACACACCATATA
61120318 TAAACC
1 TAAACC
61120324 TATACCTTGG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.14
17 17 0.81
18 1 0.05
ACGTcount: A:0.50, C:0.33, G:0.00, T:0.17
Consensus pattern (18 bp):
TAAACCACACACCATATA
Found at i:61127812 original size:79 final size:82
Alignment explanation
Indices: 61127701--61127885 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
61127691 GCTACTCGTT
* *
61127701 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
61127764 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
61127781 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
61127844 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
61127861 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
61127886 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:61127885 original size:40 final size:40
Alignment explanation
Indices: 61127682--61127885 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
61127672 CGGAATTTAA
** *
61127682 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
61127722 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
61127762 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
61127801 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
61127841 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
61127881 CCGGA
1 CCGGA
61127886 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:61129927 original size:79 final size:81
Alignment explanation
Indices: 61129791--61129975 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
61129781 TTGAATGATG
* *
61129791 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
61129855 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
61129870 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
61129932 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
61129950 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
61129976 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:61129989 original size:40 final size:40
Alignment explanation
Indices: 61129792--61129975 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
61129782 TGAATGATGT
* * * *
61129792 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
61129832 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
61129872 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
61129910 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
61129951 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
61129976 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:61129997 original size:79 final size:79
Alignment explanation
Indices: 61129844--61130008 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
61129834 GGACTAAGAT
* * **
61129844 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
61129909 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
61129923 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
61129986 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
61130002 CCGAAGG
1 CCGAAGG
61130009 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:61132257 original size:16 final size:16
Alignment explanation
Indices: 61132236--61132266 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
61132226 CGAAATGTCA
61132236 GCTTTTTGGCATTTCG
1 GCTTTTTGGCATTTCG
*
61132252 GCTTTTTGGCTTTTC
1 GCTTTTTGGCATTTC
61132267 CCGATCTAGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.03, C:0.19, G:0.23, T:0.55
Consensus pattern (16 bp):
GCTTTTTGGCATTTCG
Found at i:61137760 original size:50 final size:50
Alignment explanation
Indices: 61137641--61137929 Score: 235
Period size: 50 Copynumber: 5.7 Consensus size: 50
61137631 ATTGTAAGAA
* * ** *
61137641 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATGGT-TTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTG--TACTA-GGTAGTTAGGT
*
61137693 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGGTAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGGTAGTTAGGT
** * ** ** ** * * *
61137743 TGCATGTGTAGTACTAAGTGCAGGCTACTATGCATACCCGACCACTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAG-GTAGTTAGGT
* * *
61137794 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACT-AGGTAGTTAGGT
* * * * * *
61137844 CACGTGTGTAGTACTTAGTGCAGGCTACTACATGTAC-CGG-ATTTTTGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGGTA-GTTAGGT
* *
61137893 CACATGTGTAGTAGTAAGTGCAGGCTACTATGTGTAC
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTAC
61137930 CAGATAGCTT
Statistics
Matches: 187, Mismatches: 45, Indels: 13
0.76 0.18 0.05
Matches are distributed among these distances:
49 41 0.22
50 79 0.42
51 36 0.19
52 31 0.17
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGGTAGTTAGGT
Found at i:61137934 original size:99 final size:99
Alignment explanation
Indices: 61137685--61137936 Score: 301
Period size: 101 Copynumber: 2.5 Consensus size: 99
61137675 TTTAAGATGG
* * **
61137685 TTTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGGTAGTTAGGTTGCATGT
1 TTTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGT
61137750 GTAGTACTAAGTGCAGGCTACTATGCATACCCGACC
66 GTAGTACTAAGTGCAGGCTACTATG-ATACCCGA-C
** * * * * *
61137786 ACTTCGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCACGTGT
1 TTTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGT
* *
61137851 GTAGTACTTAGTGCAGGCTACTACATG-TACCGGA-
66 GTAGTACTAAGTGCAGGCTACT--ATGATACCCGAC
* * * *
61137885 TTTTTGGTCACATGTGTAGTAGTAAGTGCAGGCTACTATGTGTACCAGATAG
1 TTTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
61137937 CTTCGGTTAC
Statistics
Matches: 127, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
99 43 0.34
101 81 0.64
103 3 0.02
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (99 bp):
TTTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGTCACATGT
GTAGTACTAAGTGCAGGCTACTATGATACCCGAC
Found at i:61137967 original size:150 final size:152
Alignment explanation
Indices: 61137648--61137968 Score: 371
Period size: 150 Copynumber: 2.1 Consensus size: 152
61137638 GAACACATGT
* * *
61137648 GTAGTACTATGTGCAGGCTACTATGTGTTTAAGATGGTTTTAGGTCACGTGTGTAGTACTAAGTG
1 GTAGTAATATGTGCAGGCTACTACGTGTATAAGATGG-TTTAGGTCACGTGTGTAGTACTAAGTG
* **
61137713 CAGGCTACTACGTGTACTAGGTAGTTAGGTTGCATGTGTAGTACTAAGTGCAGGCTACTATGCAT
65 CAGGCTACTACATGTACTAGGTAGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCAT
* ** *
61137778 ACCCGACCACTTCGATCACGTGT
130 ACCAGACCACTTCGATCACAAGG
* * * *
61137801 GTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGG-TTAGGTCACGTGTGTAGTACTTAGTGC
1 GTAGTAATATGTGCAGGCTACTACGTGTATAAGATGGTTTAGGTCACGTGTGTAGTACTAAGTGC
* * * * **
61137865 AGGCTACTACATGTAC-CGG-ATTTTTGGTCACATGTGTAGTAGTAAGTGCAGGCTACTATGTGT
66 AGGCTACTACATGTACTAGGTA-GTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCAT
* * *
61137928 ACCAGA-TAGCTTCGGTTACAAGG
130 ACCAGACCA-CTTCGATCACAAGG
*
61137951 GTGGTAATATGTGCAGGC
1 GTAGTAATATGTGCAGGC
61137969 AACCGTGTAT
Statistics
Matches: 142, Mismatches: 24, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
149 2 0.01
150 66 0.46
151 41 0.29
153 33 0.23
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (152 bp):
GTAGTAATATGTGCAGGCTACTACGTGTATAAGATGGTTTAGGTCACGTGTGTAGTACTAAGTGC
AGGCTACTACATGTACTAGGTAGTTAGGTCACATGTGTAGTACTAAGTGCAGGCTACTATGCATA
CCAGACCACTTCGATCACAAGG
Found at i:61149958 original size:49 final size:46
Alignment explanation
Indices: 61149715--61149984 Score: 138
Period size: 49 Copynumber: 5.7 Consensus size: 46
61149705 TGTGTGTGCT
* * * *
61149715 AGTGTAAGACCTGTCTGGGACATGGTATCGGTACTGA-TAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATC-G-CCTGAGT--ATGAAAGTC
* * * * * *
61149764 AATGTAACACCTGTCTAGGACACGGCATCGACCTCAAGATATGCAAG-C
1 AGTGTAAGACCTGTCTGGGACATGGCATCG-CCT-GAG-TATGAAAGTC
* * * *
61149812 TAGTGTAAGACCTGTCTGGGACATGGCATCGGCTTGAG-GTG--TGTT
1 -AGTGTAAGACCTGTCTGGGACATGGCATC-GCCTGAGTATGAAAGTC
* * * * * * * *
61149857 AGTGTAAGACCTATTTGGGACACGACATCAACACAGA-TAAGCAAGAGAC
1 AGTGTAAGACCTGTCTGGGACATGGCATC-GC-CTGAGTATG-AA-AGTC
61149906 AGTGTAAGACCTGTCTGGGACATGGCATCAGCCTTGATGTATGAAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATC-GCC-TGA-GTATGAAAGTC
* *
61149955 AGTGTAAGACCTATTTGGGACATGGCATCG
1 AGTGTAAGACCTGTCTGGGACATGGCATCG
61149985 ACTTAGATGT
Statistics
Matches: 164, Mismatches: 42, Indels: 31
0.69 0.18 0.13
Matches are distributed among these distances:
44 27 0.16
45 3 0.02
46 2 0.01
48 8 0.05
49 117 0.71
50 3 0.02
51 4 0.02
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGCCTGAGTATGAAAGTC
Found at i:61149994 original size:49 final size:51
Alignment explanation
Indices: 61149857--61149994 Score: 142
Period size: 49 Copynumber: 2.8 Consensus size: 51
61149847 GAGGTGTGTT
* * * **
61149857 AGTGTAAGACCTATTTGGGACACGACATCAACACAGA--TAAGCAAGAGAC
1 AGTGTAAGACCTATTTGGGACATGGCATCGACTTAGATGTAAGCAAGAGAC
* * * * *
61149906 AGTGTAAGACCTGTCTGGGACATGGCATCAGCCTT-GATGTATG-AA-AGTC
1 AGTGTAAGACCTATTTGGGACATGGCATC-GACTTAGATGTAAGCAAGAGAC
61149955 AGTGTAAGACCTATTTGGGACATGGCATCGACTTAGATGT
1 AGTGTAAGACCTATTTGGGACATGGCATCGACTTAGATGT
61149995 GAGAGCTAGT
Statistics
Matches: 72, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
48 4 0.06
49 62 0.86
50 3 0.04
51 3 0.04
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (51 bp):
AGTGTAAGACCTATTTGGGACATGGCATCGACTTAGATGTAAGCAAGAGAC
Found at i:61163776 original size:49 final size:49
Alignment explanation
Indices: 61163714--61163965 Score: 193
Period size: 49 Copynumber: 5.0 Consensus size: 49
61163704 TTTTAGGTCA
61163714 CATGTGTAGTACTAAGTGCAGGCTACTA-GTGTACCAGATAGTTAGGTTG
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT-GGTTG
* * ** * * * * *
61163763 CATGTGTAGTACTAAGTGTAGGCTACTATGCATACCCGACAACTTCGAT-
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TAGTTGGTTG
** * **
61163812 CATGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGATGGTTAGGTCA
1 CA--TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT-GGTTG
* * * * * * *
61163864 CGTGTTTAGTACTAAGTGCAAGCTACTACGCGTACCGGATTGTTGGTCG
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTGGTTG
* * * * *
61163913 CATGTGTGGTACTTAGTGCAGGCTACTATGCGTACTAGATAGCTTCGGTTG
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG-TT-GGTTG
61163964 CA
1 CA
61163966 AGGGTGGTAA
Statistics
Matches: 155, Mismatches: 40, Indels: 14
0.74 0.19 0.07
Matches are distributed among these distances:
49 66 0.43
50 48 0.31
51 40 0.26
52 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (49 bp):
CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTGGTTG
Found at i:61163920 original size:101 final size:99
Alignment explanation
Indices: 61163716--61163899 Score: 251
Period size: 101 Copynumber: 1.8 Consensus size: 99
61163706 TTAGGTCACA
**
61163716 TGTGTAGTACTAAGTGCAGGCTACTAGTGTACCAGATAGTTAGGTTGCATGTGTAGTACTAAGTG
1 TGTGTAGTACTAAGTGCAGGCTACTAGTGTACCAGATAGTTAGGTCACATGTGTAGTACTAAGTG
* * *
61163781 TAGGCTACTATGCATACCCGACAACTTCGATCATG
66 CAAGCTACTACGCATACCCGACAACTTCGA-CATG
** * * *
61163816 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATTAGATGGTTAGGTCACGTGTTTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGGCTACTA-GTGTACCAGATAGTTAGGTCACATGTGTAGTACTAAGT
*
61163881 GCAAGCTACTACGCGTACC
65 GCAAGCTACTACGCATACC
61163900 GGATTGTTGG
Statistics
Matches: 72, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
100 26 0.36
101 46 0.64
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (99 bp):
TGTGTAGTACTAAGTGCAGGCTACTAGTGTACCAGATAGTTAGGTCACATGTGTAGTACTAAGTG
CAAGCTACTACGCATACCCGACAACTTCGACATG
Found at i:61164173 original size:16 final size:15
Alignment explanation
Indices: 61164152--61164181 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
61164142 GAATGGAGTA
61164152 AGTGAAATTATGTAAG
1 AGTGAAATT-TGTAAG
61164168 AGTGAAATTTGTAA
1 AGTGAAATTTGTAA
61164182 TAAAACAGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.43, C:0.00, G:0.23, T:0.33
Consensus pattern (15 bp):
AGTGAAATTTGTAAG
Found at i:61166703 original size:40 final size:40
Alignment explanation
Indices: 61166659--61166735 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
61166649 TTAGTGCCAC
* *
61166659 ATATAGCCGAAGCTAT-TCCAATTCGCACACTAAGTGCTAT
1 ATATAGCCAAAGCTATCTCCAA-ACGCACACTAAGTGCTAT
*
61166699 ATATAGCCAAAGCTATCTCGAAACGCACACTAAGTGC
1 ATATAGCCAAAGCTATCTCCAAACGCACACTAAGTGC
61166736 CAAACGTAGT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 29 0.88
41 4 0.12
ACGTcount: A:0.35, C:0.26, G:0.16, T:0.23
Consensus pattern (40 bp):
ATATAGCCAAAGCTATCTCCAAACGCACACTAAGTGCTAT
Found at i:61172860 original size:46 final size:43
Alignment explanation
Indices: 61172790--61172897 Score: 119
Period size: 46 Copynumber: 2.4 Consensus size: 43
61172780 GCCATGTCCT
61172790 AGACATGGTCTTACACTAACACATCTCATAA-CCGATGCATATCCC
1 AGACAT-GTCTTACACTAACACATCT--TAAGCCGATGCATATCCC
* *
61172835 AGACATGTCTTACACTGACTTACATCTTAAGGCCGATGCATGTCCC
1 AGACATGTCTTACACTAAC--ACATCTTAA-GCCGATGCATATCCC
* *
61172881 AAACATGTTTTACACTA
1 AGACATGTCTTACACTA
61172898 GCTCTCGTCT
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
44 15 0.28
45 6 0.11
46 33 0.61
ACGTcount: A:0.31, C:0.28, G:0.13, T:0.28
Consensus pattern (43 bp):
AGACATGTCTTACACTAACACATCTTAAGCCGATGCATATCCC
Found at i:61172952 original size:48 final size:46
Alignment explanation
Indices: 61172628--61172990 Score: 168
Period size: 47 Copynumber: 7.7 Consensus size: 46
61172618 AGGGTGTAAT
61172628 GCCGATGCCATGTCCCAGACATAGTCTTACACTGGCTCATC--CATCAA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTC-TCGTC-TCAAG
* * * * * *** *
61172675 GTCGATGCCATGTCCCAAACATGGTTTTACACTGACTATCAAAATCGAG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTC-GTCTCAAG
* ** * * * * *
61172724 GCTGACACAATGTCCCAGACATCGTGTTACACTGGTTCTCACATCTCCAT
1 GCCGATGC-ATGTCCCAGACAT-GTCTTACACTGG--CTCTCGTCTCAAG
* * ** *
61172774 GCTGATGCCATGTCCTAGACATGGTCTTACACTAACACATC-TCAT-AA-
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTC-TCGTC-TCAAG
* * * *
61172821 -CCGATGCATATCCCAGACATGTCTTACACTGACT-TACATCTTAAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCT-CGTCTCAAG
* * * *
61172866 GCCGATGCATGTCCCAAACATGTTTTACACTAGCTCTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCGTCTCAAG
* * * *
61172912 GTCGTTGCCATGTCCCAGACATGGTCTTACACTGGCTCTCGTAAT-ATG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCGT-CTCAAG
* *
61172960 GCTGATGCATGTCCTAGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
61172991 AGCGCACAAA
Statistics
Matches: 240, Mismatches: 57, Indels: 39
0.71 0.17 0.12
Matches are distributed among these distances:
42 1 0.00
43 2 0.01
44 16 0.07
45 12 0.05
46 57 0.24
47 59 0.25
48 31 0.13
49 28 0.12
50 30 0.12
51 4 0.02
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCGTCTCAAG
Found at i:61177270 original size:41 final size:40
Alignment explanation
Indices: 61177197--61177317 Score: 109
Period size: 40 Copynumber: 2.9 Consensus size: 40
61177187 TAACGTTATT
* * *
61177197 GCACACTTAGTGCCATCACATTAAACCGAAGCTATCTCAGTACC
1 GCACACTTAGTGCCA-CATA-T-AGCCGAAGCTATCTCAAT-CC
*
61177241 GCACACTTAGTGCCACATATAGCCGAAGCTAT-TCCAATTC
1 GCACACTTAGTGCCACATATAGCCGAAGCTATCT-CAATCC
* * * * *
61177281 GCACACTAAGTGCTATATATAGCCAAAACTATCTCAA
1 GCACACTTAGTGCCACATATAGCCGAAGCTATCTCAA
61177318 AACACACTCT
Statistics
Matches: 66, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
40 32 0.48
41 15 0.23
42 1 0.02
43 3 0.05
44 15 0.23
ACGTcount: A:0.34, C:0.29, G:0.13, T:0.24
Consensus pattern (40 bp):
GCACACTTAGTGCCACATATAGCCGAAGCTATCTCAATCC
Found at i:61184608 original size:17 final size:18
Alignment explanation
Indices: 61184576--61184649 Score: 69
Period size: 19 Copynumber: 4.0 Consensus size: 18
61184566 AATTAGAAAT
*
61184576 TAAAAGATAATAATATTAA
1 TAAAA-ATATTAATATTAA
* *
61184595 TTAAAAT-TTAATATTCA
1 TAAAAATATTAATATTAA
*
61184612 TAAAAATATTAAACATTAA
1 TAAAAATATT-AATATTAA
*
61184631 TAAAAAATATTAAAATTAA
1 T-AAAAATATTAATATTAA
61184650 AACCTGACTT
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
17 14 0.31
18 4 0.09
19 18 0.40
20 9 0.20
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (18 bp):
TAAAAATATTAATATTAA
Found at i:61184635 original size:19 final size:18
Alignment explanation
Indices: 61184576--61184649 Score: 69
Period size: 17 Copynumber: 4.0 Consensus size: 18
61184566 AATTAGAAAT
* *
61184576 TAAAAGATAATAATATTAA
1 TAAAA-ATATTAAAATTAA
* * *
61184595 TTAAAAT-TTAATATTCA
1 TAAAAATATTAAAATTAA
61184612 TAAAAATATTAAACATTAA
1 TAAAAATATTAAA-ATTAA
61184631 TAAAAAATATTAAAATTAA
1 T-AAAAATATTAAAATTAA
61184650 AACCTGACTT
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
17 14 0.30
18 6 0.13
19 14 0.30
20 12 0.26
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.35
Consensus pattern (18 bp):
TAAAAATATTAAAATTAA
Found at i:61186445 original size:46 final size:47
Alignment explanation
Indices: 61186341--61186470 Score: 149
Period size: 46 Copynumber: 2.7 Consensus size: 47
61186331 ATGAGATTTG
*
61186341 TGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGA
1 TGTG-CAGTGTAAGA-CATGTCTGGGACATGGCATCGGCATGGAGACGA
* **
61186390 AG-GCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCATGGTTAC-A
1 TGTGC-AGTGTAAGACATGTCTGGGACATGGCATCGGCATGGAGACGA
* *
61186435 TGTGTCAGTGTAAGACCTGTCTGGGACACGGCATCG
1 TGTG-CAGTGTAAGACATGTCTGGGACATGGCATCG
61186471 ACACAGATGG
Statistics
Matches: 70, Mismatches: 7, Indels: 10
0.80 0.08 0.11
Matches are distributed among these distances:
45 2 0.03
46 35 0.50
47 22 0.31
48 10 0.14
49 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (47 bp):
TGTGCAGTGTAAGACATGTCTGGGACATGGCATCGGCATGGAGACGA
Found at i:61188907 original size:9 final size:9
Alignment explanation
Indices: 61188895--61188951 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
61188885 TTTGATAAAC
61188895 ATGATATGT
1 ATGATATGT
*
61188904 ATGATATGCAC
1 ATGATATG--T
*
61188915 ATGACATGT
1 ATGATATGT
*
61188924 ATGATATGCAC
1 ATGATATG--T
61188935 ATGATATGT
1 ATGATATGT
61188944 ATGATATG
1 ATGATATG
61188952 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:61188918 original size:20 final size:20
Alignment explanation
Indices: 61188893--61188963 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
61188883 ATTTTGATAA
61188893 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
61188913 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
61188933 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
61188953 ACATGAGATGT
1 ACATGATATGT
61188964 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:61188940 original size:11 final size:11
Alignment explanation
Indices: 61188904--61188958 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
61188894 CATGATATGT
61188904 ATGATATGCAC
1 ATGATATGCAC
* *
61188915 ATGACATG--T
1 ATGATATGCAC
61188924 ATGATATGCAC
1 ATGATATGCAC
*
61188935 ATGATATG--T
1 ATGATATGCAC
61188944 ATGATATGCAC
1 ATGATATGCAC
61188955 ATGA
1 ATGA
61188959 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:61189035 original size:24 final size:24
Alignment explanation
Indices: 61189008--61189133 Score: 179
Period size: 23 Copynumber: 5.4 Consensus size: 24
61188998 GGAGGAAGTG
61189008 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
61189032 CAAAAGGGCTTATGCCCCAGTTA-
1 CAAAAGGGCTTATGCCCCAGTTAT
*
61189055 -AAAAGGGCTTATGCCCCAATTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
61189078 C-AAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
61189101 TAAAAGGGCTTTTG-CCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
61189124 TAAAAAGGCT
1 CAAAAGGGCT
61189134 AGGCCTCCAG
Statistics
Matches: 94, Mismatches: 5, Indels: 7
0.89 0.05 0.07
Matches are distributed among these distances:
22 21 0.22
23 39 0.41
24 34 0.36
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:61189373 original size:31 final size:31
Alignment explanation
Indices: 61189335--61189398 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
61189325 CGTTTACAGT
61189335 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
61189366 AAAGGCTTCGGCCCAGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
61189397 AA
1 AA
61189399 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:61196530 original size:36 final size:36
Alignment explanation
Indices: 61196490--61196653 Score: 165
Period size: 36 Copynumber: 4.5 Consensus size: 36
61196480 AGTAATCGTT
* * *
61196490 CAAATGCCTTCGGAACATGCCCGTATAGT-ACTCGCA
1 CAAATGCCTTCGG-ACTTACCCGTTTAGTAACTCGCA
61196526 CAAATGCCTTCGGGACTTACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTC-GGACTTACCC-G-TTTAGTAACTCGCA
*
61196565 CAAATGCCTTCGGACTTAACCGGTTTAGTAACTCGCA
1 CAAATGCCTTCGGACTT-ACCCGTTTAGTAACTCGCA
* * * *
61196602 CAAATG-CTTCGGGCTTAGCGGAATTAGT-ACTCGCA
1 CAAATGCCTTCGGACTTACCCG-TTTAGTAACTCGCA
*
61196637 CAAATGCC-TCGGTCTTA
1 CAAATGCCTTCGGACTTA
61196654 GTCCGGATAT
Statistics
Matches: 113, Mismatches: 8, Indels: 15
0.83 0.06 0.11
Matches are distributed among these distances:
35 25 0.22
36 32 0.28
37 23 0.20
38 12 0.11
39 21 0.19
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (36 bp):
CAAATGCCTTCGGACTTACCCGTTTAGTAACTCGCA
Found at i:61196641 original size:35 final size:37
Alignment explanation
Indices: 61196515--61196698 Score: 182
Period size: 39 Copynumber: 4.9 Consensus size: 37
61196505 CATGCCCGTA
61196515 TAGT-ACTCGCACAAATGCCTTCGGGACTTACCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGG-CTTA-CCGGATT
*
61196553 TAGTAACTCGCACAAATGCCTTCGGACTTAACCGG-TT
1 TAGTAACTCGCACAAATGCCTTCGGGCTT-ACCGGATT
* *
61196590 TAGTAACTCGCACAAATG-CTTCGGGCTTAGCGGAAT
1 TAGTAACTCGCACAAATGCCTTCGGGCTTACCGGATT
* *
61196626 TAGT-ACTCGCACAAATGCC-TCGGTCTTAGTCCGGATA
1 TAGTAACTCGCACAAATGCCTTCGGGCTTA--CCGGATT
* * * *
61196663 TGGTCACTTAGCACAAA-GCCTTCGGGACTTAGCGGA
1 TAGTAAC-TCGCACAAATGCCTTCGGG-CTTACCGGA
61196699 CATCATTCAA
Statistics
Matches: 124, Mismatches: 12, Indels: 20
0.79 0.08 0.13
Matches are distributed among these distances:
35 25 0.20
36 15 0.12
37 27 0.22
38 20 0.16
39 33 0.27
40 4 0.03
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (37 bp):
TAGTAACTCGCACAAATGCCTTCGGGCTTACCGGATT
Found at i:61204491 original size:40 final size:40
Alignment explanation
Indices: 61204454--61204678 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
61204444 GCTACTCGTT
* *
61204454 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
61204494 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
61204534 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
61204574 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
61204613 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
61204654 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
61204679 CATCATTCAA
Statistics
Matches: 167, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
38 2 0.01
39 33 0.20
40 119 0.71
41 13 0.08
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:61204638 original size:119 final size:120
Alignment explanation
Indices: 61204454--61204678 Score: 305
Period size: 119 Copynumber: 1.9 Consensus size: 120
61204444 GCTACTCGTT
*
61204454 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
61204519 ATTTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
66 ATATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * **
61204574 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCC
1 CAAATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
* * *
61204636 GGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 GGATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
61204679 CATCATTCAA
Statistics
Matches: 92, Mismatches: 10, Indels: 7
0.84 0.09 0.06
Matches are distributed among these distances:
118 4 0.04
119 66 0.72
120 22 0.24
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (120 bp):
CAAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:61207426 original size:9 final size:9
Alignment explanation
Indices: 61207414--61207470 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
61207404 TTTGATAAAC
61207414 ATGATATGT
1 ATGATATGT
*
61207423 ATGATATGCAC
1 ATGATATG--T
*
61207434 ATGACATGT
1 ATGATATGT
*
61207443 ATGATATGCAC
1 ATGATATG--T
61207454 ATGATATGT
1 ATGATATGT
61207463 ATGATATG
1 ATGATATG
61207471 CACATGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:61207437 original size:20 final size:20
Alignment explanation
Indices: 61207412--61207482 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
61207402 ATTTTGATAA
61207412 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
61207432 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
61207452 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
61207472 ACATGAGATGT
1 ACATGATATGT
61207483 TCATAAATGC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:61207459 original size:11 final size:11
Alignment explanation
Indices: 61207423--61207477 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
61207413 CATGATATGT
61207423 ATGATATGCAC
1 ATGATATGCAC
* *
61207434 ATGACATG--T
1 ATGATATGCAC
61207443 ATGATATGCAC
1 ATGATATGCAC
*
61207454 ATGATATG--T
1 ATGATATGCAC
61207463 ATGATATGCAC
1 ATGATATGCAC
61207474 ATGA
1 ATGA
61207478 GATGTTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:61207554 original size:24 final size:24
Alignment explanation
Indices: 61207527--61207628 Score: 177
Period size: 24 Copynumber: 4.2 Consensus size: 24
61207517 GGAGGAAGTG
61207527 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
61207551 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
61207575 CAAAAGGGCTTATGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
* *
61207599 TAAAAGGGCTTTTGCCCCAGTTAT
1 CAAAAGGGCTTATGCCCCAGTTAT
*
61207623 TAAAAG
1 CAAAAG
61207629 AGGTTAGGCC
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 76 1.00
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (24 bp):
CAAAAGGGCTTATGCCCCAGTTAT
Found at i:61207875 original size:31 final size:31
Alignment explanation
Indices: 61207840--61207903 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
61207830 CATTTACAGT
61207840 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
61207871 AAAGGCTTCGGCCCAGTGTTATGAATTATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
61207902 AA
1 AA
61207904 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:61209538 original size:33 final size:34
Alignment explanation
Indices: 61209472--61209540 Score: 113
Period size: 34 Copynumber: 2.1 Consensus size: 34
61209462 TGAGATTTAT
61209472 GATTGCCAGTAATGGCATTTGATGGGAAAAAAAA
1 GATTGCCAGTAATGGCATTTGATGGGAAAAAAAA
* *
61209506 GATTGTCAGTGATGGCATTTGAT-GGAAAAAAAA
1 GATTGCCAGTAATGGCATTTGATGGGAAAAAAAA
61209539 GA
1 GA
61209541 GAGAAGAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
33 12 0.36
34 21 0.64
ACGTcount: A:0.41, C:0.07, G:0.28, T:0.25
Consensus pattern (34 bp):
GATTGCCAGTAATGGCATTTGATGGGAAAAAAAA
Found at i:61211009 original size:30 final size:31
Alignment explanation
Indices: 61210950--61211013 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
61210940 ACTTAACAAG
*
61210950 CAAATGCTTCTAAAATAGTAATAAAAATTAA
1 CAAATGCTTCTAAAATAATAATAAAAATTAA
*
61210981 CAAATGCCTT-TAAAATAATAA-GAAAATTAA
1 CAAATG-CTTCTAAAATAATAATAAAAATTAA
61211011 CAA
1 CAA
61211014 TAAAATAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
30 11 0.37
31 16 0.53
32 3 0.10
ACGTcount: A:0.56, C:0.11, G:0.06, T:0.27
Consensus pattern (31 bp):
CAAATGCTTCTAAAATAATAATAAAAATTAA
Found at i:61227118 original size:40 final size:40
Alignment explanation
Indices: 61227068--61227157 Score: 153
Period size: 40 Copynumber: 2.2 Consensus size: 40
61227058 CGTTTGAATG
**
61227068 AAAAACGCCGCTAAAGAACGAGCATTAGCGGTGCTTTTTA
1 AAAAACGCCGCTAAAGAACGAGCATTAGCGGCACTTTTTA
*
61227108 AAAAATGCCGCTAAAGAACGAGCATTAGCGGCACTTTTTA
1 AAAAACGCCGCTAAAGAACGAGCATTAGCGGCACTTTTTA
61227148 AAAAACGCCG
1 AAAAACGCCG
61227158 TTATAAGTTC
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.20
Consensus pattern (40 bp):
AAAAACGCCGCTAAAGAACGAGCATTAGCGGCACTTTTTA
Found at i:61227956 original size:15 final size:14
Alignment explanation
Indices: 61227936--61227970 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
61227926 ACTATTTTAA
*
61227936 GGTTTATGGATTAT
1 GGTTTAGGGATTAT
61227950 CGGTTTAGGGATTAT
1 -GGTTTAGGGATTAT
61227965 GGTTTA
1 GGTTTA
61227971 AAGGTGGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.20, C:0.03, G:0.31, T:0.46
Consensus pattern (14 bp):
GGTTTAGGGATTAT
Found at i:61228028 original size:14 final size:14
Alignment explanation
Indices: 61227979--61228052 Score: 51
Period size: 14 Copynumber: 5.2 Consensus size: 14
61227969 TAAAGGTGGT
*
61227979 TTAAAGGTT-GGGG
1 TTAAGGGTTAGGGG
* **
61227992 TTTAAGGTTTAGGTA
1 -TTAAGGGTTAGGGG
*
61228007 TTACGGGTTAGGGG
1 TTAAGGGTTAGGGG
*
61228021 TTAAGGGTTAGGTG
1 TTAAGGGTTAGGGG
* *
61228035 TTCATGGTTCAGGGG
1 TTAAGGGTT-AGGGG
61228050 TTA
1 TTA
61228053 TATTTTAGGA
Statistics
Matches: 44, Mismatches: 14, Indels: 3
0.72 0.23 0.05
Matches are distributed among these distances:
14 36 0.82
15 8 0.18
ACGTcount: A:0.20, C:0.04, G:0.39, T:0.36
Consensus pattern (14 bp):
TTAAGGGTTAGGGG
Found at i:61228217 original size:7 final size:7
Alignment explanation
Indices: 61228196--61228299 Score: 59
Period size: 7 Copynumber: 14.4 Consensus size: 7
61228186 TTAATTATCA
*
61228196 TTATAGT
1 TTATGGT
*
61228203 TTAGGGT
1 TTATGGT
61228210 TTATGGT
1 TTATGGT
*
61228217 TTAGGGT
1 TTATGGT
* *
61228224 TTAAGCT
1 TTATGGT
*
61228231 TTAAGAGT
1 TTATG-GT
61228239 TACTAT--T
1 T--TATGGT
*
61228246 TTAAGGT
1 TTATGGT
*
61228253 TTATGGA
1 TTATGGT
61228260 TTATGGGT
1 TTAT-GGT
* *
61228268 TTAGGGA
1 TTATGGT
61228275 TTATGGTT
1 TTATGG-T
61228283 TTATGGT
1 TTATGGT
61228290 TTATGGT
1 TTATGGT
61228297 TTA
1 TTA
61228300 AAGGTTGGGG
Statistics
Matches: 74, Mismatches: 16, Indels: 14
0.71 0.15 0.13
Matches are distributed among these distances:
5 2 0.03
7 57 0.77
8 13 0.18
10 2 0.03
ACGTcount: A:0.22, C:0.02, G:0.27, T:0.49
Consensus pattern (7 bp):
TTATGGT
Found at i:61228268 original size:15 final size:15
Alignment explanation
Indices: 61228250--61228299 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
61228240 ACTATTTTAA
61228250 GGTTTATGGATTATG
1 GGTTTATGGATTATG
*
61228265 GGTTTAGGGATTATG
1 GGTTTATGGATTATG
* *
61228280 GTTTTATGGTTTAT-
1 GGTTTATGGATTATG
61228294 GGTTTA
1 GGTTTA
61228300 AAGGTTGGGG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 5 0.17
15 25 0.83
ACGTcount: A:0.18, C:0.00, G:0.32, T:0.50
Consensus pattern (15 bp):
GGTTTATGGATTATG
Found at i:61228270 original size:22 final size:22
Alignment explanation
Indices: 61228195--61228299 Score: 65
Period size: 22 Copynumber: 4.8 Consensus size: 22
61228185 ATTAATTATC
* *
61228195 ATTATAGTTTAGGGTTTATGGT
1 ATTATGGTTTAAGGTTTATGGT
* * *
61228217 -TTAGGGTTTAAGCTTTAAGAGTT
1 ATTATGGTTTAAGGTTTATG-G-T
*
61228240 ACTAT--TTTAAGGTTTATGG-
1 ATTATGGTTTAAGGTTTATGGT
* *
61228259 ATTATGGGTTTAGGGATTATGGT
1 ATTAT-GGTTTAAGGTTTATGGT
* *
61228282 TTTATGGTTTATGGTTTA
1 ATTATGGTTTAAGGTTTA
61228300 AAGGTTGGGG
Statistics
Matches: 61, Mismatches: 15, Indels: 14
0.68 0.17 0.16
Matches are distributed among these distances:
19 4 0.07
21 15 0.25
22 35 0.57
23 5 0.08
24 2 0.03
ACGTcount: A:0.23, C:0.02, G:0.27, T:0.49
Consensus pattern (22 bp):
ATTATGGTTTAAGGTTTATGGT
Found at i:61229232 original size:41 final size:42
Alignment explanation
Indices: 61229170--61229278 Score: 134
Period size: 41 Copynumber: 2.7 Consensus size: 42
61229160 AAAGAAAATT
* * * **
61229170 AAAA-TTGAGCAATAGTGGCGTTTTTGGGT-AAAACGCTGCA
1 AAAAGTTGAGCTATAGTAGCGTTTTTGGATAAAAACGCCACA
*
61229210 AAAAGTTGAGCTATAGTAGCGTTTTT-GATAAAAACGCCATA
1 AAAAGTTGAGCTATAGTAGCGTTTTTGGATAAAAACGCCACA
*
61229251 AAAAGTTGAGCTATAGTAGTGTTTTTGG
1 AAAAGTTGAGCTATAGTAGCGTTTTTGG
61229279 TGGAGACGCC
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
40 6 0.10
41 52 0.88
42 1 0.02
ACGTcount: A:0.34, C:0.10, G:0.25, T:0.31
Consensus pattern (42 bp):
AAAAGTTGAGCTATAGTAGCGTTTTTGGATAAAAACGCCACA
Found at i:61229590 original size:3 final size:3
Alignment explanation
Indices: 61229578--61229623 Score: 76
Period size: 3 Copynumber: 15.7 Consensus size: 3
61229568 AATGGAAGTT
*
61229578 GAA G-A GAA GAA GAA GAA GAA GAA AAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
61229624 GGAGGAGGAG
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
2 2 0.05
3 38 0.95
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:61229637 original size:18 final size:16
Alignment explanation
Indices: 61229616--61229659 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 16
61229606 AGAAGAAGAA
61229616 GAAGAAGAGGAGGAGGAG
1 GAAGAAGAGG-GG-GGAG
61229634 GAAGAGAAGAGGGGGGAG
1 G-A-AGAAGAGGGGGGAG
61229652 GAAGAAGA
1 GAAGAAGA
61229660 AGAAGAGAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
16 6 0.25
17 1 0.04
18 6 0.25
19 3 0.12
20 8 0.33
ACGTcount: A:0.45, C:0.00, G:0.55, T:0.00
Consensus pattern (16 bp):
GAAGAAGAGGGGGGAG
Found at i:61233424 original size:8 final size:8
Alignment explanation
Indices: 61233411--61233440 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
61233401 CCATTTTTGA
*
61233411 TAATCTTG
1 TAATCTCG
61233419 TAATCTCG
1 TAATCTCG
61233427 TAATCTCG
1 TAATCTCG
61233435 TAATCT
1 TAATCT
61233441 TCTTCTACAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.27, C:0.20, G:0.10, T:0.43
Consensus pattern (8 bp):
TAATCTCG
Found at i:61234457 original size:43 final size:43
Alignment explanation
Indices: 61234410--61234526 Score: 146
Period size: 43 Copynumber: 2.7 Consensus size: 43
61234400 TCTCTAGCAA
*
61234410 CGTTTGTGAGAAAAGCGCCGCTAAAAGTCATGGTATTTAGCGT
1 CGTTTGTGAGAAAAGCGCCGCTAAAAGTCATGGTATTTAGCGG
* * * * *
61234453 CGTTTTTGAGAAAAGCGCTGTTAAAAGTCATAGTCTTTAGCGG
1 CGTTTGTGAGAAAAGCGCCGCTAAAAGTCATGGTATTTAGCGG
* * *
61234496 CATTTG-CAAAAAAGCGCCGCTAAAAGTCATG
1 CGTTTGTGAGAAAAGCGCCGCTAAAAGTCATG
61234527 ATCTTTAGTG
Statistics
Matches: 61, Mismatches: 13, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
42 20 0.33
43 41 0.67
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (43 bp):
CGTTTGTGAGAAAAGCGCCGCTAAAAGTCATGGTATTTAGCGG
Found at i:61241843 original size:6 final size:6
Alignment explanation
Indices: 61241832--61241865 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
61241822 AATGTTAGCA
61241832 CAAACC CAAACC CAAACC CAAACC CAAACC CAAA
1 CAAACC CAAACC CAAACC CAAACC CAAACC CAAA
61241866 GCCGGCTCCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.53, C:0.47, G:0.00, T:0.00
Consensus pattern (6 bp):
CAAACC
Found at i:61242257 original size:9 final size:9
Alignment explanation
Indices: 61242216--61242302 Score: 50
Period size: 9 Copynumber: 8.9 Consensus size: 9
61242206 TTTTATTTTT
61242216 ATTTTTATA
1 ATTTTTATA
61242225 ATAATTTTATA
1 AT--TTTTATA
*
61242236 A-TTTTATTC
1 ATTTTTA-TA
61242245 ATTTTTATA
1 ATTTTTATA
*
61242254 ATTTATAATA
1 ATTT-TTATA
*
61242264 ATTATGTTTATTT
1 A-T-T-TTTA-TA
61242277 ATTTTTATA
1 ATTTTTATA
* *
61242286 TTTTTTATG
1 ATTTTTATA
61242295 ATTTTTAT
1 ATTTTTAT
61242303 TACTTTTCTA
Statistics
Matches: 60, Mismatches: 9, Indels: 18
0.69 0.10 0.21
Matches are distributed among these distances:
8 5 0.08
9 24 0.40
10 14 0.23
11 10 0.17
12 4 0.07
13 3 0.05
ACGTcount: A:0.31, C:0.01, G:0.02, T:0.66
Consensus pattern (9 bp):
ATTTTTATA
Found at i:61246122 original size:46 final size:45
Alignment explanation
Indices: 61246062--61246186 Score: 151
Period size: 46 Copynumber: 2.7 Consensus size: 45
61246052 CATCGGCAGG
* **
61246062 AAGCCTACTAGGCACAAGGCTCGATACAATACAGTACACCGGCATA
1 AAGCCTGCTAGGCACAAGGC-CGATACAATACAGTACACCAACATA
* *
61246108 AAGCCTGCTAGGCACAAGGACCGATACATTATAGTACACCAACATA
1 AAGCCTGCTAGGCACAAGG-CCGATACAATACAGTACACCAACATA
* * *
61246154 AAGCTTGCTAGGCTCAAGGCCCGATTCAATACA
1 AAGCCTGCTAGGCACAAGG-CCGATACAATACA
61246187 CTCAATACAT
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
46 66 0.99
47 1 0.01
ACGTcount: A:0.36, C:0.27, G:0.19, T:0.18
Consensus pattern (45 bp):
AAGCCTGCTAGGCACAAGGCCGATACAATACAGTACACCAACATA
Found at i:61255682 original size:25 final size:25
Alignment explanation
Indices: 61255654--61255732 Score: 74
Period size: 25 Copynumber: 3.3 Consensus size: 25
61255644 ACTCGGCCCT
61255654 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
*** *** *
61255679 ATCACAT-TGGCCA-TTAGGCCTT-
1 ATCACATATATACACTTTCACATTC
61255701 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
61255726 ATCACAT
1 ATCACAT
61255733 CGGCCATTAG
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 7 0.19
23 8 0.22
24 8 0.22
25 14 0.38
ACGTcount: A:0.33, C:0.28, G:0.05, T:0.34
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:61255778 original size:49 final size:49
Alignment explanation
Indices: 61255604--61256178 Score: 954
Period size: 49 Copynumber: 11.9 Consensus size: 49
61255594 CCCTTCGGGA
* * * * *
61255604 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
61255651 CCTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
61255698 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
61255745 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
61255794 CTTATCACATCTATATACACTTTCACATTCATCACATCGGCCATTAGAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
61255843 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
61255890 CTTATCAAATATATATACACTTTCACATTCATCACATCGGCCGTTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
61255939 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
61255988 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
61256035 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
61256084 CTTATCACATATATATACACTTTCACATTCATCACATCGACTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
61256133 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
61256179 CGCCATACTA
Statistics
Matches: 499, Mismatches: 21, Indels: 14
0.93 0.04 0.03
Matches are distributed among these distances:
46 1 0.00
47 182 0.36
49 316 0.63
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:61255801 original size:96 final size:96
Alignment explanation
Indices: 61255604--61256178 Score: 942
Period size: 96 Copynumber: 6.0 Consensus size: 96
61255594 CCCTTCGGGA
* * * * * * *
61255604 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
61255667 ACTTTCACATTCATCACATTGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
61255698 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
61255763 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
61255794 CTTATCACATCTATATACACTTTCACATTCATCACATCGGCCATTAGACCTTATCAC--ATATAT
1 CTTATCACA--TATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
61255857 ACACTTTCACATTCATCACATCGGCCATTAGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
* *
61255890 CTTATCAAATATATATACACTTTCACATTCATCACATCGGCCGTTAGGCCTTATCACATATATAT
1 CTTATC--ACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
*
61255955 ACACTTTCACATTCATCACATCGGCTATTAGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
61255988 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
61256053 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
61256084 CTTATCACATATATATACACTTTCACATTCATCACATCGACTATTAGGCCTTATCACATATATAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
61256149 ACACTTTCACATTCATCACATCGGCCATTA
64 ACACTTTCACATTCATCACATCGGCCATTA
61256179 CGCCATACTA
Statistics
Matches: 453, Mismatches: 18, Indels: 16
0.93 0.04 0.03
Matches are distributed among these distances:
94 48 0.11
96 231 0.51
98 174 0.38
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:61255876 original size:145 final size:145
Alignment explanation
Indices: 61255604--61256178 Score: 978
Period size: 145 Copynumber: 4.0 Consensus size: 145
61255594 CCCTTCGGGA
* * * * * *
61255604 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTATCAC--ATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
*
61255665 ACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
66 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
61255730 CATCGGCCATTAGGC
131 CATCGGCCATTAGGC
*
61255745 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATCTATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
*
61255810 ACACTTTCACATTCATCACATCGGCCATTAGACCTTATCACATATATACACTTTCACATTCATCA
66 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
61255875 CATCGGCCATTAGGC
131 CATCGGCCATTAGGC
* *
61255890 CTTATCAAATATATATACACTTTCACATTCATCACATCGGCCGTTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
*
61255955 ACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCA
66 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
61256020 CATCGGCCATTAGGC
131 CATCGGCCATTAGGC
61256035 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
* *
61256100 ACACTTTCACATTCATCACATCGACTATTAGGCCTTATCACATATATATACACTTTCACATTCAT
66 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCAT
61256165 CACATCGGCCATTA
129 CACATCGGCCATTA
61256179 CGCCATACTA
Statistics
Matches: 411, Mismatches: 17, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
141 10 0.02
142 1 0.00
143 38 0.09
145 326 0.79
147 36 0.09
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (145 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAT
ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
CATCGGCCATTAGGC
Found at i:61264736 original size:41 final size:41
Alignment explanation
Indices: 61264691--61264770 Score: 160
Period size: 41 Copynumber: 2.0 Consensus size: 41
61264681 TGGTCAGGTA
61264691 ATCCTCCTAATTATTCCAATCTTAGAATTTTCAGTTGTCTT
1 ATCCTCCTAATTATTCCAATCTTAGAATTTTCAGTTGTCTT
61264732 ATCCTCCTAATTATTCCAATCTTAGAATTTTCAGTTGTC
1 ATCCTCCTAATTATTCCAATCTTAGAATTTTCAGTTGTC
61264771 CTACTTATGC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.25, C:0.23, G:0.07, T:0.45
Consensus pattern (41 bp):
ATCCTCCTAATTATTCCAATCTTAGAATTTTCAGTTGTCTT
Found at i:61267107 original size:7 final size:7
Alignment explanation
Indices: 61267097--61267132 Score: 72
Period size: 7 Copynumber: 5.1 Consensus size: 7
61267087 GTTAAAAAAT
61267097 ATTTAAA
1 ATTTAAA
61267104 ATTTAAA
1 ATTTAAA
61267111 ATTTAAA
1 ATTTAAA
61267118 ATTTAAA
1 ATTTAAA
61267125 ATTTAAA
1 ATTTAAA
61267132 A
1 A
61267133 AGAAACATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
ATTTAAA
Found at i:61272239 original size:17 final size:17
Alignment explanation
Indices: 61272217--61272265 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
61272207 GGAGGCAACC
*
61272217 TAATTTTTATTTTTATT
1 TAATTTTTATTATTATT
* *
61272234 TAATTTATCTTATTATT
1 TAATTTTTATTATTATT
*
61272251 TTATTATTTATTATT
1 TAATT-TTTATTATT
61272266 TTCAGATATT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
17 18 0.72
18 7 0.28
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (17 bp):
TAATTTTTATTATTATT
Found at i:61272263 original size:15 final size:16
Alignment explanation
Indices: 61272222--61272267 Score: 60
Period size: 15 Copynumber: 2.9 Consensus size: 16
61272212 CAACCTAATT
*
61272222 TTTATTT-TTATTTAA
1 TTTATTTATTATTTTA
61272237 TTTATCTTATTATTTTA
1 TTTAT-TTATTATTTTA
61272254 -TTATTTATTATTTT
1 TTTATTTATTATTTT
61272268 CAGATATTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 15 0.54
16 6 0.21
17 7 0.25
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTATTTATTATTTTA
Found at i:61273228 original size:97 final size:97
Alignment explanation
Indices: 61273057--61273232 Score: 257
Period size: 97 Copynumber: 1.8 Consensus size: 97
61273047 ATGTGTTGGA
** * *
61273057 CTGAGTAACCGGAGTGAGGTGCTTGGCTGTCATCTCTCTTCACGTCAAAAGGTTTGATATGTTTT
1 CTGAGTAACCGGAGTGAGGTGCTTGGCTGTCATCTCTCTTCACGTCAAAAGGTTCAATATGATTC
*
61273122 TAGAAAAAAATAAAAATTAGGAGTATGTTAGG
66 CAGAAAAAAATAAAAATTAGGAGTATGTTAGG
* *
61273154 CTGAGTAACCGGGGTGGGGTGCTTGGCTGTCATCTCTCTTCACGTCAAAAGGTTCAATAT-ATTC
1 CTGAGTAACCGGAGTGAGGTGCTTGGCTGTCATCTCTCTTCACGTCAAAAGGTTCAATATGATTC
61273218 CA-AAGTAAAAATAAA
66 CAGAA--AAAAATAAA
61273233 TAAATTAAAT
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
95 2 0.03
96 3 0.04
97 65 0.93
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (97 bp):
CTGAGTAACCGGAGTGAGGTGCTTGGCTGTCATCTCTCTTCACGTCAAAAGGTTCAATATGATTC
CAGAAAAAAATAAAAATTAGGAGTATGTTAGG
Found at i:61273896 original size:27 final size:26
Alignment explanation
Indices: 61273836--61273897 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
61273826 ATAAGACTCC
61273836 ATTTTATTAGGATAATTAATATTAAG
1 ATTTTATTAGGATAATTAATATTAAG
* * * *
61273862 ATAATTATTAGGATTATTTAATTTTAGG
1 AT-TTTATTAGGA-TAATTAATATTAAG
61273890 ATTTTATT
1 ATTTTATT
61273898 TTAATTATCT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 2 0.07
27 14 0.48
28 13 0.45
ACGTcount: A:0.37, C:0.00, G:0.11, T:0.52
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:61273912 original size:10 final size:10
Alignment explanation
Indices: 61273893--61273924 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
61273883 TTTTAGGATT
61273893 TTAT-TTTAA
1 TTATCTTTAA
61273902 TTATCTTTAA
1 TTATCTTTAA
61273912 TTATCTTTAA
1 TTATCTTTAA
61273922 TTA
1 TTA
61273925 ATTGTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:61275609 original size:11 final size:11
Alignment explanation
Indices: 61275572--61275621 Score: 59
Period size: 11 Copynumber: 4.7 Consensus size: 11
61275562 AAAATGGTAA
*
61275572 TTAAA-CAATT
1 TTAAATCAAGT
*
61275582 TTAAATCATG-
1 TTAAATCAAGT
*
61275592 GTAAATCAAGT
1 TTAAATCAAGT
61275603 TTAAATCAAGT
1 TTAAATCAAGT
61275614 TTAAATCA
1 TTAAATCA
61275622 TGGTATAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
10 13 0.39
11 20 0.61
ACGTcount: A:0.46, C:0.10, G:0.08, T:0.36
Consensus pattern (11 bp):
TTAAATCAAGT
Found at i:61279882 original size:25 final size:25
Alignment explanation
Indices: 61279854--61279940 Score: 147
Period size: 25 Copynumber: 3.5 Consensus size: 25
61279844 ACCTTAGCGC
*
61279854 GCTCTCTGATTATTAGCACATCAGT
1 GCTCTCTGATTATTAGCACGTCAGT
*
61279879 GCTCTCTGATTATTAGCATGTCAGT
1 GCTCTCTGATTATTAGCACGTCAGT
*
61279904 GCTCTCTGATTATTAGCACGTTAGT
1 GCTCTCTGATTATTAGCACGTCAGT
61279929 GCTCTCTGATTA
1 GCTCTCTGATTA
61279941 GCACATCTGT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 58 1.00
ACGTcount: A:0.21, C:0.22, G:0.18, T:0.39
Consensus pattern (25 bp):
GCTCTCTGATTATTAGCACGTCAGT
Found at i:61280645 original size:18 final size:19
Alignment explanation
Indices: 61280607--61280645 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
61280597 GATGATATGA
*
61280607 TTAAATTATGATGTGAATG
1 TTAAATAATGATGTGAATG
*
61280626 TTAAATAATTATGT-AATG
1 TTAAATAATGATGTGAATG
61280644 TT
1 TT
61280646 TGTATTTGTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.46
Consensus pattern (19 bp):
TTAAATAATGATGTGAATG
Found at i:61282982 original size:19 final size:19
Alignment explanation
Indices: 61282958--61283003 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
61282948 TATATTATCG
*
61282958 CTATGTATTCCTATAATCA
1 CTATGTATTCCTACAATCA
61282977 CTATGTATTCCTACAATCA
1 CTATGTATTCCTACAATCA
*
61282996 CCATGTAT
1 CTATGTAT
61283004 GCAAATGATC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.30, C:0.24, G:0.07, T:0.39
Consensus pattern (19 bp):
CTATGTATTCCTACAATCA
Found at i:61283033 original size:3 final size:3
Alignment explanation
Indices: 61283025--61283129 Score: 201
Period size: 3 Copynumber: 35.0 Consensus size: 3
61283015 CTAGTTAGAT
*
61283025 GAA GAA GAA GAA GAA AAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
61283073 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
61283121 GAA GAA GAA
1 GAA GAA GAA
61283130 AATAGTAATA
Statistics
Matches: 100, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
3 100 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:61286751 original size:46 final size:47
Alignment explanation
Indices: 61286694--61286912 Score: 180
Period size: 46 Copynumber: 4.6 Consensus size: 47
61286684 TATATGTGCT
* * *
61286694 AGTGTAGGACATGTTTGGGACATGCATCGGCTACA-ATATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGACTACAGATATGAGAGCC
** * *
61286740 AGTGTAAGACATGTCTGGGACATGCATCGACGTTGAGACA--AGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGAC-TACAGATATGAGAGCC
* * * * * *
61286786 AGTGTATGACATGTTTGGGACATGCATCAACCT-CGCGAT-GGACGAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGA-CTAC-AGATATGA-GAGCC
* *
61286834 AGTGTAAGACCTGTCTGGGACATGGCATCGAC-ACCGATAGATGAGAGCC
1 AGTGTAAGACATGTCTGGGACAT-GCATCGACTACAGAT--ATGAGAGCC
61286883 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
61286913 AGTATCTTAG
Statistics
Matches: 140, Mismatches: 20, Indels: 22
0.77 0.11 0.12
Matches are distributed among these distances:
46 63 0.45
47 8 0.06
48 29 0.21
49 19 0.14
50 21 0.15
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.22
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACTACAGATATGAGAGCC
Found at i:61292852 original size:48 final size:48
Alignment explanation
Indices: 61292732--61293210 Score: 359
Period size: 48 Copynumber: 9.9 Consensus size: 48
61292722 AGGCTAAGAT
* * * * *
61292732 GCCGATGCCATGTCCCAGACATGGTCTTGCATTGGCTCTCATATATCG-G
1 GCCGATGCCATGT-CCAAACATGGTCTTACACTAG-TCTCACATATCGAG
* *
61292781 TGCTGATGCCATGTTCCAAACATGCTCTTACACTAGTCT-ACATATCGAG
1 -GCCGATGCCATG-TCCAAACATGGTCTTACACTAGTCTCACATATCGAG
* * ** *
61292830 GCCGATGCCATGTCCAAGACATGGTCTTACAGTAG-CTCTA-GTATAAAT
1 GCCGATGCCATGTCCAA-ACATGGTCTTACACTAGTCTC-ACATATCGAG
* * * *
61292878 GCCAATGCCATACTCCAAACATGGTCTTACACT-GGCTCACATATTGAG
1 GCCGATGCCAT-GTCCAAACATGGTCTTACACTAGTCTCACATATCGAG
* * * * *
61292926 GCTGATGCCATGTCCCAGATATGGTCTTACACTAG-CCCACATATCAAG
1 GCCGATGCCATGT-CCAAACATGGTCTTACACTAGTCTCACATATCGAG
** * ** *
61292974 GCCGATGCCATGTCCCAAACATGGTCTTACACTAG-CTTTCGTATAAAT
1 GCCGATGCCATGT-CCAAACATGGTCTTACACTAGTCTCACATATCGAG
* * *
61293022 GCTGATGCGATGCTCCAAACATGGTCTTACACT-GGCTCACATATCGAG
1 GCCGATGCCATG-TCCAAACATGGTCTTACACTAGTCTCACATATCGAG
* * * * * ** *
61293070 GCTGATGCCATGTCCCAGACATGGTCTTACACTA-ACTCTCGTATAAAT
1 GCCGATGCCATGT-CCAAACATGGTCTTACACTAGTCTCACATATCGAG
*** * * *
61293118 GTTTATGCCATACTCTAAACATGGTCTTACACT-GGCTCACATATCGAG
1 GCCGATGCCAT-GTCCAAACATGGTCTTACACTAGTCTCACATATCGAG
*
61293166 GCCGATGCCATGTCCCAGACATGGTCTTACACTAG-CTCACATATC
1 GCCGATGCCATGT-CCAAACATGGTCTTACACTAGTCTCACATATC
61293211 CCTAGTATCA
Statistics
Matches: 340, Mismatches: 71, Indels: 38
0.76 0.16 0.08
Matches are distributed among these distances:
47 13 0.04
48 285 0.84
49 14 0.04
50 27 0.08
51 1 0.00
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.28
Consensus pattern (48 bp):
GCCGATGCCATGTCCAAACATGGTCTTACACTAGTCTCACATATCGAG
Found at i:61293026 original size:96 final size:96
Alignment explanation
Indices: 61292730--61293209 Score: 423
Period size: 96 Copynumber: 5.0 Consensus size: 96
61292720 AAAGGCTAAG
* * * * * *
61292730 ATGCCGATGCCATGTCCCAGACATGGTCTTGCATTGGCTCTCATATATC-GGTGCTGATGCCATG
1 ATGCTGATGCCATGTCCCAGACATGGTCTTACACTGGC-C-CACATATCAAG-GCCGATGCCATG
* * **
61292794 TTCCAAACATGCTCTTACACTAG-TCTACATATCG
63 TCCCAAACATGGTCTTACACTAGCTC-ACATATAA
* * * * * * * * * * *
61292828 AGGCCGATGCCATGTCCAAGACATGGTCTTACAGTAGCTCTA-GTATAAATGCCAATGCCAT-AC
1 ATGCTGATGCCATGTCCCAGACATGGTCTTACACTGGC-CCACATATCAAGGCCGATGCCATGTC
* **
61292891 TCCAAACATGGTCTTACACTGGCTCACATATTG
65 -CCAAACATGGTCTTACACTAGCTCACATATAA
* * *
61292924 AGGCTGATGCCATGTCCCAGATATGGTCTTACACTAGCCCACATATCAAGGCCGATGCCATGTCC
1 ATGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCCCACATATCAAGGCCGATGCCATGTCC
** *
61292989 CAAACATGGTCTTACACTAGCTTTCGTATAA
66 CAAACATGGTCTTACACTAGCTCACATATAA
* * * * *
61293020 ATGCTGATGCGATG-CTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCTGATGCCATGTC
1 ATGCTGATGCCATGTC-CCAGACATGGTCTTACACTGGCCCACATATCAAGGCCGATGCCATGTC
* * * *
61293084 CCAGACATGGTCTTACACTAACTCTCGTATAA
65 CCAAACATGGTCTTACACTAGCTCACATATAA
* * * * * * *
61293116 ATGTTTATGCCAT-ACTCTAAACATGGTCTTACACTGGCTCACATATCGAGGCCGATGCCATGTC
1 ATGCTGATGCCATGTC-CCAGACATGGTCTTACACTGGCCCACATATCAAGGCCGATGCCATGTC
*
61293180 CCAGACATGGTCTTACACTAGCTCACATAT
65 CCAAACATGGTCTTACACTAGCTCACATAT
61293210 CCCTAGTATC
Statistics
Matches: 323, Mismatches: 52, Indels: 16
0.83 0.13 0.04
Matches are distributed among these distances:
95 3 0.01
96 281 0.87
97 4 0.01
98 35 0.11
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (96 bp):
ATGCTGATGCCATGTCCCAGACATGGTCTTACACTGGCCCACATATCAAGGCCGATGCCATGTCC
CAAACATGGTCTTACACTAGCTCACATATAA
Found at i:61293126 original size:144 final size:144
Alignment explanation
Indices: 61292730--61293210 Score: 504
Period size: 144 Copynumber: 3.3 Consensus size: 144
61292720 AAAGGCTAAG
* * * *
61292730 ATGCCGATGCCATG-TCCCAGACATGGTCTTGCATTGGCTCTCATATATCG-GTGCTGATGCCAT
1 ATGCCGATGCCATGCT-CCAAACATGGTCTTACACTGG--CTCACATATCGAG-GCTGATGCCAT
* * * ** * **
61292793 GTTCCAAACATGCTCTTACACTAGTCTACATATCGAGGCCGATGCCATGT-CCAAGACATGGTCT
62 GTCCCAGACATGGTCTTACACTAACCCACATATAAAGGCCGATGCCATGTCCCAA-ACATGGTCT
* *
61292857 TACAGTAGCTCTAGTATAA
126 TACACTAGCTCTCGTATAA
* * *
61292876 ATGCCAATGCCATACTCCAAACATGGTCTTACACTGGCTCACATATTGAGGCTGATGCCATGTCC
1 ATGCCGATGCCATGCTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCTGATGCCATGTCC
* * *
61292941 CAGATATGGTCTTACACTAGCCCACATATCAAGGCCGATGCCATGTCCCAAACATGGTCTTACAC
66 CAGACATGGTCTTACACTAACCCACATATAAAGGCCGATGCCATGTCCCAAACATGGTCTTACAC
*
61293006 TAGCTTTCGTATAA
131 TAGCTCTCGTATAA
* *
61293020 ATGCTGATGCGATGCTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCTGATGCCATGTCC
1 ATGCCGATGCCATGCTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCTGATGCCATGTCC
* * * * *** * *
61293085 CAGACATGGTCTTACACTAACTCTCGTATAAATGTTTATGCCAT-ACTCTAAACATGGTCTTACA
66 CAGACATGGTCTTACACTAACCCACATATAAAGGCCGATGCCATGTC-CCAAACATGGTCTTACA
* * * **
61293149 CTGGCTCACATATCG
130 CTAGCTCTCGTATAA
* * *
61293164 AGGCCGATGCCATG-TCCCAGACATGGTCTTACACTAGCTCACATATC
1 ATGCCGATGCCATGCT-CCAAACATGGTCTTACACTGGCTCACATATC
61293211 CCTAGTATCA
Statistics
Matches: 285, Mismatches: 45, Indels: 12
0.83 0.13 0.04
Matches are distributed among these distances:
143 2 0.01
144 247 0.87
145 5 0.02
146 30 0.11
147 1 0.00
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (144 bp):
ATGCCGATGCCATGCTCCAAACATGGTCTTACACTGGCTCACATATCGAGGCTGATGCCATGTCC
CAGACATGGTCTTACACTAACCCACATATAAAGGCCGATGCCATGTCCCAAACATGGTCTTACAC
TAGCTCTCGTATAA
Found at i:61305952 original size:27 final size:27
Alignment explanation
Indices: 61305922--61306007 Score: 93
Period size: 27 Copynumber: 3.2 Consensus size: 27
61305912 AGTTTGCCAA
61305922 AAAGGCATTCCTTTCATATTCTACCAT
1 AAAGGCATTCCTTTCATATTCTACCAT
* * * *
61305949 AAAGACGTTCCTTCCATATTGC-GCCAT
1 AAAGGCATTCCTTTCATATT-CTACCAT
* * *
61305976 AAAGGCATTCATTTTATATTATACCAT
1 AAAGGCATTCCTTTCATATTCTACCAT
61306003 AAAGG
1 AAAGG
61306008 TTTTTCTTTC
Statistics
Matches: 46, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
27 45 0.98
28 1 0.02
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.34
Consensus pattern (27 bp):
AAAGGCATTCCTTTCATATTCTACCAT
Found at i:61311527 original size:42 final size:43
Alignment explanation
Indices: 61311470--61311599 Score: 113
Period size: 42 Copynumber: 3.0 Consensus size: 43
61311460 ACTTTAAAAC
*
61311470 AAATTTTATATAAAACTCAGTCATGCAAATTTTCATAGCAT-A
1 AAATGTTATATAAAACTCAGTCATGCAAATTTTCATAGCATAA
* * *** *
61311512 AAATGTTATATAAAACT-ATTTA-GCAAAATTGAAAATAGAATTACA
1 AAATGTTATATAAAACTCAGTCATGC-AAATT-TTCATAGCA-TA-A
*
61311557 AAATTAGTTATATAAAACTCAGTCATGTAAATTTTCATAGCAT
1 AAA-T-GTTATATAAAACTCAGTCATGCAAATTTTCATAGCAT
61311600 TTCATAGCAT
Statistics
Matches: 65, Mismatches: 14, Indels: 14
0.70 0.15 0.15
Matches are distributed among these distances:
40 2 0.03
41 8 0.12
42 21 0.32
43 1 0.02
45 4 0.06
46 2 0.03
47 18 0.28
48 8 0.12
49 1 0.02
ACGTcount: A:0.46, C:0.11, G:0.08, T:0.35
Consensus pattern (43 bp):
AAATGTTATATAAAACTCAGTCATGCAAATTTTCATAGCATAA
Found at i:61312534 original size:15 final size:15
Alignment explanation
Indices: 61312514--61312544 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
61312504 CTCTATATTC
61312514 AACATAATTATGCAA
1 AACATAATTATGCAA
*
61312529 AACATAATTATTCAA
1 AACATAATTATGCAA
61312544 A
1 A
61312545 TTGATTGTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.13, G:0.03, T:0.29
Consensus pattern (15 bp):
AACATAATTATGCAA
Found at i:61318393 original size:50 final size:49
Alignment explanation
Indices: 61318273--61318406 Score: 153
Period size: 50 Copynumber: 2.7 Consensus size: 49
61318263 ATATTGATGT
* *
61318273 CAATGCCATGTCCCAGACATGGTCTTACATGGGAT-CACATAACGATAC
1 CAATGCCATATCCCAGACATGGTCTTACATGGGATCCACATAACAATAC
* * *
61318321 CAATGCCATGTCCCAGACATGGTCTTACATGGGATCACACATATCAATGC
1 CAATGCCATATCCCAGACATGGTCTTACATGGGATC-CACATAACAATAC
** * * * *
61318371 TGATGCTATATCCCATATATGGTCTTATATGGGATC
1 CAATGCCATATCCCAGACATGGTCTTACATGGGATC
61318407 TCATCAACCT
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
48 35 0.47
50 39 0.53
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.28
Consensus pattern (49 bp):
CAATGCCATATCCCAGACATGGTCTTACATGGGATCCACATAACAATAC
Found at i:61329976 original size:36 final size:37
Alignment explanation
Indices: 61329904--61329981 Score: 122
Period size: 36 Copynumber: 2.1 Consensus size: 37
61329894 TTATTACGAA
* *
61329904 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCTCCACACGAAGTCATCGG
*
61329941 GTCTTACCCGGACAAAATC-CCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCTCCACACGAAGTCATCGG
61329977 GTCTT
1 GTCTT
61329982 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
36 20 0.53
37 18 0.47
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCTCCACACGAAGTCATCGG
Found at i:61330174 original size:49 final size:49
Alignment explanation
Indices: 61330100--61330684 Score: 995
Period size: 49 Copynumber: 12.1 Consensus size: 49
61330090 CCCTTCGGGA
* * * * *
61330100 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
61330147 CCTGTCACATATATATACACTTCCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
61330196 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
61330243 CCTATCACATCTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
61330292 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
61330341 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
61330390 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
61330439 CCTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
61330488 CTTATCACATATATATACAC-TTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
61330536 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
61330583 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
61330632 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
61330681 CTTA
1 CTTA
61330685 CTATCATTTC
Statistics
Matches: 508, Mismatches: 23, Indels: 12
0.94 0.04 0.02
Matches are distributed among these distances:
46 10 0.02
47 88 0.17
48 36 0.07
49 374 0.74
ACGTcount: A:0.30, C:0.30, G:0.09, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:61334003 original size:37 final size:37
Alignment explanation
Indices: 61333953--61334045 Score: 150
Period size: 37 Copynumber: 2.5 Consensus size: 37
61333943 ACACCAATCA
* *
61333953 CTCATAAGAGCTAATCTAAACGATAACACGCTAGATG
1 CTCATAAGAGCTAATCCAAACAATAACACGCTAGATG
**
61333990 CTCATAAGAGCTAATCCATCCAATAACACGCTAGATG
1 CTCATAAGAGCTAATCCAAACAATAACACGCTAGATG
61334027 CTCATAAGAGCTAATCCAA
1 CTCATAAGAGCTAATCCAA
61334046 CCGAAAACAA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 51 1.00
ACGTcount: A:0.40, C:0.25, G:0.14, T:0.22
Consensus pattern (37 bp):
CTCATAAGAGCTAATCCAAACAATAACACGCTAGATG
Found at i:61342342 original size:41 final size:40
Alignment explanation
Indices: 61342280--61342382 Score: 127
Period size: 41 Copynumber: 2.6 Consensus size: 40
61342270 AAGTGTAAGT
* * **
61342280 AGGGCACCAGAGTGCATAACAGGGATATGAATGTGAAATC
1 AGGGCACCAGAGTGCAAAACAGGGACACAAATGTGAAATC
* *
61342320 AGGGGCACCAGAGTGCAAAACAGGGCCACAAATGTGCAATC
1 A-GGGCACCAGAGTGCAAAACAGGGACACAAATGTGAAATC
*
61342361 AAGGCACCAGAGTGC-AAACAGG
1 AGGGCACCAGAGTGCAAAACAGG
61342383 ATAAGCGTGC
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
39 7 0.13
40 14 0.25
41 34 0.62
ACGTcount: A:0.38, C:0.20, G:0.30, T:0.12
Consensus pattern (40 bp):
AGGGCACCAGAGTGCAAAACAGGGACACAAATGTGAAATC
Found at i:61343419 original size:14 final size:14
Alignment explanation
Indices: 61343381--61343420 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 14
61343371 TCTGTTTTTC
61343381 TTTT-ACTT-TAATA
1 TTTTAACTTATAA-A
61343394 TTTTAA-TTATAAA
1 TTTTAACTTATAAA
61343407 TTTTAACTTATAAA
1 TTTTAACTTATAAA
61343421 ATCACATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (14 bp):
TTTTAACTTATAAA
Found at i:61346467 original size:49 final size:49
Alignment explanation
Indices: 61346395--61346495 Score: 193
Period size: 49 Copynumber: 2.1 Consensus size: 49
61346385 TATGGGAACA
*
61346395 CATATAGTGGTTGTCAATACATCAAATCTTTTATCACTCGTTAAACATT
1 CATATAGTGATTGTCAATACATCAAATCTTTTATCACTCGTTAAACATT
61346444 CATATAGTGATTGTCAATACATCAAATCTTTTATCACTCGTTAAACATT
1 CATATAGTGATTGTCAATACATCAAATCTTTTATCACTCGTTAAACATT
61346493 CAT
1 CAT
61346496 TTAGATTTCC
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.34, C:0.19, G:0.09, T:0.39
Consensus pattern (49 bp):
CATATAGTGATTGTCAATACATCAAATCTTTTATCACTCGTTAAACATT
Found at i:61349165 original size:18 final size:17
Alignment explanation
Indices: 61349142--61349202 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 17
61349132 TTTCAATATC
* *
61349142 TTTTTATTATTTTTTATA
1 TTTTTAATATTATTTA-A
61349160 TTTTTAATATTATTTAA
1 TTTTTAATATTATTTAA
61349177 TTTTTAAATAATATTATTTAA
1 -TTTT---TAATATTATTTAA
61349198 TTTTT
1 TTTTT
61349203 TATAAACTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
17 2 0.05
18 18 0.49
20 4 0.11
21 13 0.35
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTTTAATATTATTTAA
Done.