Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 131 of 276
Found at i:42379094 original size:19 final size:18
Alignment explanation
Indices: 42379058--42379098 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 18
42379048 ATTTTTTATT
42379058 TTTTATTATTTTTCTACC
1 TTTTATTATTTTTCTACC
*
42379076 TTTTATTATTTTCTTTACC
1 TTTTATTATTTT-TCTACC
42379095 TTTT
1 TTTT
42379099 TAAATGTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTATTATTTTTCTACC
Found at i:42380424 original size:32 final size:32
Alignment explanation
Indices: 42380388--42380452 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
42380378 TGTATGCATT
42380388 TTAGCATTTTAATAGTTAATAGATGATGGGCA
1 TTAGCATTTTAATAGTTAATAGATGATGGGCA
*
42380420 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATAGATGATGGGCA
42380452 T
1 T
42380453 GGTAAGCATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.32, C:0.06, G:0.23, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATAGATGATGGGCA
Found at i:42382293 original size:21 final size:21
Alignment explanation
Indices: 42382268--42382310 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
42382258 TTTGGGTTTG
*
42382268 AAAAAGAGACTGGTTTTCTTA
1 AAAAAGAGACTGATTTTCTTA
42382289 AAAAAGAGACTGATTTTCTTA
1 AAAAAGAGACTGATTTTCTTA
42382310 A
1 A
42382311 GTTATTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.42, C:0.09, G:0.16, T:0.33
Consensus pattern (21 bp):
AAAAAGAGACTGATTTTCTTA
Found at i:42385090 original size:39 final size:39
Alignment explanation
Indices: 42385047--42385133 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
42385037 ACCGCAATTT
42385047 GCCTGCTAGGTATAAACCTGAACTTAACACCGGCACGAG
1 GCCTGCTAGGTATAAACCTGAACTTAACACCGGCACGAG
* *
42385086 GCCTGCTAGGTATAAACCTGAATTTATCACCGGCACGAG
1 GCCTGCTAGGTATAAACCTGAACTTAACACCGGCACGAG
*
42385125 GCTTGCTAG
1 GCCTGCTAG
42385134 ACATTAAGTC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.22
Consensus pattern (39 bp):
GCCTGCTAGGTATAAACCTGAACTTAACACCGGCACGAG
Found at i:42393833 original size:56 final size:56
Alignment explanation
Indices: 42393744--42393851 Score: 171
Period size: 56 Copynumber: 1.9 Consensus size: 56
42393734 TTACATGTAA
* * *
42393744 TCACATATCGATGCCACTGTCCCAAACAGGGTCTTACTCGCACACATATATCGGAC
1 TCACATATCGATGCCAATGTACAAAACAGGGTCTTACTCGCACACATATATCGGAC
* *
42393800 TCACATATCGATGCCAATGTATAAAACATGGTCTTACTCGCACACATATATC
1 TCACATATCGATGCCAATGTACAAAACAGGGTCTTACTCGCACACATATATC
42393852 AATGTATTGG
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 47 1.00
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.26
Consensus pattern (56 bp):
TCACATATCGATGCCAATGTACAAAACAGGGTCTTACTCGCACACATATATCGGAC
Found at i:42399834 original size:48 final size:46
Alignment explanation
Indices: 42399722--42399840 Score: 141
Period size: 46 Copynumber: 2.5 Consensus size: 46
42399712 ATATGTGTGT
* * *
42399722 TAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGC
1 TAGTGTAAGACATATCTGGGACATGCATCGGCCACAATATGAAAGC
* * *
42399768 CAGTGTAAGACATATCTGGGATATGCATCGGCCTCAAGATAT-ACAAGC
1 TAGTGTAAGACATATCTGGGACATGCATCGGCCAC-A-ATATGA-AAGC
*
42399816 TAGTGTAAGACCTATCTGGGACATG
1 TAGTGTAAGACATATCTGGGACATG
42399841 GCATTAGCTT
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
46 31 0.51
47 2 0.03
48 28 0.46
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.24
Consensus pattern (46 bp):
TAGTGTAAGACATATCTGGGACATGCATCGGCCACAATATGAAAGC
Found at i:42399925 original size:49 final size:49
Alignment explanation
Indices: 42399860--42400032 Score: 179
Period size: 49 Copynumber: 3.6 Consensus size: 49
42399850 TGTTGTGTGT
*
42399860 CAGTGTAAGACCTGTCTGGGACATGGCATCGACATCGATAGATGAGAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACATCGATAGATGAAAGC
* *** * * * *
42399909 CGGTGTAAGACCTGTCTGGGACACATCATCGACCTCGATATATAAAAGT
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACATCGATAGATGAAAGC
* * * * * **
42399958 CAGTGCAAGACCTTTCTGGGACATCGCATCGACTTTGAT-G-TGCTAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACATCGATAGATGAAAGC
42400005 CAGTGTAAGACCATGTCTGGGACATGGC
1 CAGTGTAAGACC-TGTCTGGGACATGGC
42400033 GTCATCATCT
Statistics
Matches: 98, Mismatches: 25, Indels: 3
0.78 0.20 0.02
Matches are distributed among these distances:
47 14 0.14
48 13 0.13
49 71 0.72
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.24
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCGACATCGATAGATGAAAGC
Found at i:42406193 original size:30 final size:30
Alignment explanation
Indices: 42406135--42406193 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 30
42406125 TTTACGAGTC
* **
42406135 TAAGGGTAAAATCGTAATTTTTGTAAAGTT
1 TAAGGGCAAAATCGTAATTTTTCCAAAGTT
* *
42406165 TAAGGGCAAAATGGTCATTTTTCCAAAGT
1 TAAGGGCAAAATCGTAATTTTTCCAAAGT
42406194 ATAAATTATG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.36, C:0.08, G:0.20, T:0.36
Consensus pattern (30 bp):
TAAGGGCAAAATCGTAATTTTTCCAAAGTT
Found at i:42406898 original size:49 final size:49
Alignment explanation
Indices: 42406836--42406967 Score: 167
Period size: 49 Copynumber: 2.7 Consensus size: 49
42406826 CTTGTTGTGT
* * *
42406836 GTCAGTGTAAGACCTGTCTGGGGCATGGCATCGACATCGATAGATGAGA
1 GTCAGTGTAAGACCTGTCTGGGACATGGCATCGACATCGATAGATAAAA
* * * *
42406885 -TCCAGTGTAAGACCTGTCTGGGACACGGCATCGGCCTCGATATATAAAA
1 GT-CAGTGTAAGACCTGTCTGGGACATGGCATCGACATCGATAGATAAAA
* *
42406934 GTCAATGTAAGACCTGTTTGGGACATGGCATCGA
1 GTCAGTGTAAGACCTGTCTGGGACATGGCATCGA
42406968 ATTTGATGTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
48 1 0.01
49 68 0.97
50 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.23
Consensus pattern (49 bp):
GTCAGTGTAAGACCTGTCTGGGACATGGCATCGACATCGATAGATAAAA
Found at i:42409860 original size:19 final size:19
Alignment explanation
Indices: 42409836--42409879 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
42409826 TATGAGAGAA
42409836 TTTTGTTCTTGAGTTAGGG
1 TTTTGTTCTTGAGTTAGGG
* * *
42409855 TTTTGTTTTTGGGTTTGGG
1 TTTTGTTCTTGAGTTAGGG
42409874 TTTTGT
1 TTTTGT
42409880 ACGTTTAGTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.05, C:0.02, G:0.32, T:0.61
Consensus pattern (19 bp):
TTTTGTTCTTGAGTTAGGG
Found at i:42410907 original size:27 final size:28
Alignment explanation
Indices: 42410844--42410908 Score: 82
Period size: 27 Copynumber: 2.4 Consensus size: 28
42410834 ATTTTGATTA
*
42410844 TTTA-CGAAAAGTATTCGGTGTAATTTTT
1 TTTATCGAAAAGTATCCGGTGTAA-TTTT
42410872 TTTATCGAAAAGTATCCAGGTGT-A-TTT
1 TTTATCGAAAAGTATCC-GGTGTAATTTT
42410899 TTTATCGAAA
1 TTTATCGAAA
42410909 TAACTTGTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
27 13 0.38
28 4 0.12
29 12 0.35
30 5 0.15
ACGTcount: A:0.31, C:0.09, G:0.17, T:0.43
Consensus pattern (28 bp):
TTTATCGAAAAGTATCCGGTGTAATTTT
Found at i:42413510 original size:14 final size:14
Alignment explanation
Indices: 42413493--42413531 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
42413483 TCCTAAAAAT
42413493 AAATAATCTTTTAA
1 AAATAATCTTTTAA
*
42413507 AAATAATTATTTTAA
1 AAATAA-TCTTTTAA
42413522 AAATACATCT
1 AAATA-ATCT
42413532 AGTATGAACC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
14 6 0.29
15 14 0.67
16 1 0.05
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (14 bp):
AAATAATCTTTTAA
Found at i:42413639 original size:10 final size:9
Alignment explanation
Indices: 42413619--42413687 Score: 57
Period size: 10 Copynumber: 7.1 Consensus size: 9
42413609 TTCTTTAGAT
42413619 AATTACTAAA
1 AATTA-TAAA
42413629 AATTATAAA
1 AATTATAAA
*
42413638 AATTATGGAA
1 AATTAT-AAA
*
42413648 AATTATTAAT
1 AATTA-TAAA
*
42413658 AATTATGAGA
1 AATTAT-AAA
*
42413668 AGTTATAAA
1 AATTATAAA
42413677 AATTAATAAA
1 AATT-ATAAA
42413687 A
1 A
42413688 TGTTTAGAAA
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
9 16 0.34
10 30 0.64
11 1 0.02
ACGTcount: A:0.58, C:0.01, G:0.07, T:0.33
Consensus pattern (9 bp):
AATTATAAA
Found at i:42413661 original size:20 final size:19
Alignment explanation
Indices: 42413627--42413681 Score: 67
Period size: 19 Copynumber: 2.8 Consensus size: 19
42413617 ATAATTACTA
42413627 AAAATTATAAAAATTATGG
1 AAAATTATAAAAATTATGG
*
42413646 AAAATTATTAATAATTAT-G
1 AAAATTA-TAAAAATTATGG
*
42413665 AGAAGTTATAAAAATTA
1 A-AAATTATAAAAATTA
42413682 ATAAAATGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.35
Consensus pattern (19 bp):
AAAATTATAAAAATTATGG
Found at i:42413890 original size:16 final size:14
Alignment explanation
Indices: 42413851--42413878 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
42413841 TTAATTATTT
42413851 TAATTATTTTAAAA
1 TAATTATTTTAAAA
42413865 TAATTATTTTAAAA
1 TAATTATTTTAAAA
42413879 CTTATTTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TAATTATTTTAAAA
Found at i:42415104 original size:7 final size:7
Alignment explanation
Indices: 42415082--42415116 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
42415072 AATATTAATA
42415082 TAAATTT
1 TAAATTT
*
42415089 TAGATTTT
1 TA-AATTT
42415097 TAAATTT
1 TAAATTT
42415104 TAAATTT
1 TAAATTT
42415111 TAAATT
1 TAAATT
42415117 ATATTTTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 19 0.76
8 6 0.24
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (7 bp):
TAAATTT
Found at i:42417159 original size:24 final size:24
Alignment explanation
Indices: 42417122--42417197 Score: 68
Period size: 24 Copynumber: 3.2 Consensus size: 24
42417112 ATTTTATAAT
* * *
42417122 AAATTTAGCCTTTAATATTTTATAT
1 AAATTTAACTTTTAATATTTTA-AC
* * *
42417147 GATTTTAA-TTTTAAAATTTTAAC
1 AAATTTAACTTTTAATATTTTAAC
42417170 AAATTTAACTTTTAATA-TTT-AC
1 AAATTTAACTTTTAATATTTTAAC
42417192 AAATTT
1 AAATTT
42417198 TAATAATTTG
Statistics
Matches: 41, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
22 8 0.20
23 10 0.24
24 18 0.44
25 5 0.12
ACGTcount: A:0.39, C:0.07, G:0.03, T:0.51
Consensus pattern (24 bp):
AAATTTAACTTTTAATATTTTAAC
Found at i:42417196 original size:22 final size:23
Alignment explanation
Indices: 42417150--42417197 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
42417140 TTTATATGAT
42417150 TTTAATTTTAAAATTTTAACAAA
1 TTTAATTTTAAAATTTTAACAAA
*
42417173 TTTAACTTTTAATA-TTT-ACAAA
1 TTTAA-TTTTAAAATTTTAACAAA
42417195 TTT
1 TTT
42417198 TAATAATTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 8 0.35
23 8 0.35
24 7 0.30
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (23 bp):
TTTAATTTTAAAATTTTAACAAA
Found at i:42417199 original size:23 final size:24
Alignment explanation
Indices: 42417148--42417201 Score: 69
Period size: 23 Copynumber: 2.3 Consensus size: 24
42417138 ATTTTATATG
42417148 ATTTTAATTTTAAAATTTTAACAA
1 ATTTTAATTTTAAAATTTTAACAA
*
42417172 A-TTTAACTTTTAATA-TTT-ACAA
1 ATTTTAA-TTTTAAAATTTTAACAA
42417194 ATTTTAAT
1 ATTTTAAT
42417202 AATTTGATTC
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
22 6 0.22
23 13 0.48
24 8 0.30
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.52
Consensus pattern (24 bp):
ATTTTAATTTTAAAATTTTAACAA
Found at i:42418581 original size:49 final size:48
Alignment explanation
Indices: 42418527--42418747 Score: 161
Period size: 49 Copynumber: 4.6 Consensus size: 48
42418517 ACATCAAAGT
*
42418527 TGATGCCATGTCCCAAACAGGTTTTACACTAACTTTCATACATCGAGGC
1 TGATGCCATGTCCCAAACAGGTCTTACACTAACTTTCATACAT-GAGGC
* * * * ** * *
42418576 TGATGCCGTGTCCCAAACAAGTATTACAATGGCTTTCAT-CTATTAGTGT
1 TGATGCCATGTCCCAAACAGGTCTTACACTAACTTTCATAC-ATGAG-GC
* * * **
42418625 TGATACCATGTCCCAAATAGGTCTTACACTGACACTCA-ACA--A-GC
1 TGATGCCATGTCCCAAACAGGTCTTACACTAACTTTCATACATGAGGC
* *
42418669 TGATGCCATGTCCCAGACAGGTCTTACACTAGCTTGT-ATATC-TCGAGGC
1 TGATGCCATGTCCCAAACAGGTCTTACACTAACTT-TCATA-CAT-GAGGC
** *
42418718 TGATG-CATGTCCCTGACATGTCTTACACTA
1 TGATGCCATGTCCCAAACAGGTCTTACACTA
42418748 GCTCTAGTCT
Statistics
Matches: 135, Mismatches: 27, Indels: 21
0.74 0.15 0.11
Matches are distributed among these distances:
44 30 0.22
45 2 0.01
46 2 0.01
48 28 0.21
49 73 0.54
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (48 bp):
TGATGCCATGTCCCAAACAGGTCTTACACTAACTTTCATACATGAGGC
Found at i:42418782 original size:46 final size:48
Alignment explanation
Indices: 42418667--42418794 Score: 163
Period size: 46 Copynumber: 2.7 Consensus size: 48
42418657 CACTCAACAA
* * *
42418667 GCTGATGCCATGTCCCAGACAGGTCTTACACTAGCTTGTATATCTCGAG
1 GCTGATG-CATGTCCCAGACATGTCTTACACTAGCTTCTATATCTCAAG
* * *
42418716 GCTGATGCATGTCCCTGACATGTCTTACACTAGC-TCTA-GTCTCAAT
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCTTCTATATCTCAAG
42418762 G-TCGATGCATGTCCCAGACATGTCTTACACTAG
1 GCT-GATGCATGTCCCAGACATGTCTTACACTAG
42418795 AACACATATC
Statistics
Matches: 71, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
45 1 0.01
46 35 0.49
47 3 0.04
48 25 0.35
49 7 0.10
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (48 bp):
GCTGATGCATGTCCCAGACATGTCTTACACTAGCTTCTATATCTCAAG
Found at i:42422215 original size:53 final size:54
Alignment explanation
Indices: 42422147--42422449 Score: 344
Period size: 55 Copynumber: 5.6 Consensus size: 54
42422137 CTTACCATTC
* *
42422147 CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAACTCACCAATA
1 CCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCACCAATG
* * * * *
42422200 CCATGCCTTGGCATGGTCTTACATGTTA-CCGTTTCCTTATAGTAACTTATCAATG
1 CCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTATAG-AACTCACCAATG
* *
42422255 CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAACTCACCAATA
1 CCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCACCAATG
* * * * *
42422308 CCATGCATTGGCATGGTCTTACATGGGA-CCTTTTCCTTATAGTAACTCATCAATG
1 CCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTTATAG-AACTCACCAATG
* * * * *
42422363 CCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATG
1 CCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCACCAATG
* * *
42422417 CCATGCCTTGGCATGGTCTTACACGATATCCTT
1 CCATGCCTTGACATGGTCTTACATGGTATCCTT
42422450 ATCTTACCAA
Statistics
Matches: 209, Mismatches: 33, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
52 4 0.02
53 74 0.35
54 43 0.21
55 84 0.40
56 4 0.02
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (54 bp):
CCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAACTCACCAATG
Found at i:42422324 original size:108 final size:108
Alignment explanation
Indices: 42422147--42422439 Score: 487
Period size: 108 Copynumber: 2.7 Consensus size: 108
42422137 CTTACCATTC
42422147 CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATACCATGCCTTGGC
1 CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATACCATGCCTTGGC
** *
42422212 ATGGTCTTACATGTTACCGTTTCCTTATAGTAACTTATCAATG
66 ATGGTCTTACATGGGACCGTTTCCTTATAGTAACTCATCAATG
*
42422255 CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATACCATGCATTGGC
1 CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATACCATGCCTTGGC
*
42422320 ATGGTCTTACATGGGACCTTTTCCTTATAGTAACTCATCAATG
66 ATGGTCTTACATGGGACCGTTTCCTTATAGTAACTCATCAATG
* * * * *
42422363 CCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGG
1 CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAACTCACCAATACCATGCCTTGG
42422428 CATGGTCTTACA
65 CATGGTCTTACA
42422440 CGATATCCTT
Statistics
Matches: 173, Mismatches: 11, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
108 141 0.82
109 32 0.18
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.35
Consensus pattern (108 bp):
CCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATACCATGCCTTGGC
ATGGTCTTACATGGGACCGTTTCCTTATAGTAACTCATCAATG
Found at i:42422708 original size:44 final size:44
Alignment explanation
Indices: 42422639--42422725 Score: 115
Period size: 44 Copynumber: 2.0 Consensus size: 44
42422629 GTATCCTTAA
* *
42422639 CCATCAATTCCTCCTTAAATTCCATGTTATGAA-CATGGACTTTT
1 CCATCAATTCCTCCTTAAATTCCATGGTA-CAACCATGGACTTTT
*
42422683 CCATCAATTCTTCCTT-AATTGCCATGGTACAACCATGGACTTT
1 CCATCAATTCCTCCTTAAATT-CCATGGTACAACCATGGACTTT
42422726 GAGATATCAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
43 6 0.16
44 32 0.84
ACGTcount: A:0.26, C:0.26, G:0.10, T:0.37
Consensus pattern (44 bp):
CCATCAATTCCTCCTTAAATTCCATGGTACAACCATGGACTTTT
Found at i:42425598 original size:80 final size:79
Alignment explanation
Indices: 42425514--42425685 Score: 220
Period size: 79 Copynumber: 2.2 Consensus size: 79
42425504 GGACTAAGAT
*
42425514 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
42425578 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
42425594 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
42425659 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
42425673 CCGAAGGCATTTG
1 CCGAAGGCATTTG
42425686 AACGAGGAGC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 38 0.48
80 38 0.48
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:42425665 original size:39 final size:39
Alignment explanation
Indices: 42425461--42425683 Score: 209
Period size: 40 Copynumber: 5.6 Consensus size: 39
42425451 TTGAATGCTG
* * * * *
42425461 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
42425501 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
42425540 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* *
42425581 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
42425621 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
42425660 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
42425684 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 18, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
39 40 0.25
40 103 0.66
41 13 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:42425703 original size:79 final size:80
Alignment explanation
Indices: 42425541--42425718 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
42425531 AGATACAAAT
* * * *
42425541 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
42425606 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * *
42425621 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
42425685 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
42425700 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
42425719 TACGTGATTT
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 15 0.19
79 48 0.59
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:42429611 original size:24 final size:22
Alignment explanation
Indices: 42429583--42429627 Score: 54
Period size: 24 Copynumber: 2.0 Consensus size: 22
42429573 TTTATCAAGA
42429583 TAAATATTAGATTAAATATAATAT
1 TAAATATT-GATTAAA-ATAATAT
* *
42429607 TAAATCTTTATTAAAATAATA
1 TAAATATTGATTAAAATAATA
42429628 GAATGTTAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 6 0.32
23 6 0.32
24 7 0.37
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (22 bp):
TAAATATTGATTAAAATAATAT
Found at i:42429745 original size:37 final size:36
Alignment explanation
Indices: 42429642--42429758 Score: 107
Period size: 37 Copynumber: 3.2 Consensus size: 36
42429632 GTTAATCTAC
* * *
42429642 AATATAAACATTAAATTAA-ATTAAA-TATTAATAT
1 AATATTAATATTAAATTAATATTAAACTATTAAAAT
* *
42429676 AATCACTTTAATATTAAATTAATA-AAATACTATTAAGAT
1 AAT-A--TTAATATTAAATTAATATTAA-ACTATTAAAAT
42429715 AAGTATTAA-ATTAAATTTAATATTAAACTATTAAAAT
1 AA-TATTAATATTAAA-TTAATATTAAACTATTAAAAT
42429752 AATATTA
1 AATATTA
42429759 TTTTTGGAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 16
0.76 0.07 0.18
Matches are distributed among these distances:
34 3 0.04
35 1 0.01
36 11 0.16
37 37 0.54
38 4 0.06
39 11 0.16
40 1 0.01
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (36 bp):
AATATTAATATTAAATTAATATTAAACTATTAAAAT
Found at i:42439053 original size:39 final size:39
Alignment explanation
Indices: 42438999--42439075 Score: 154
Period size: 39 Copynumber: 2.0 Consensus size: 39
42438989 CCACTAAGAG
42438999 TTAACCCATTAGATGCTAAAGGACCATCCTGCCTAGTCT
1 TTAACCCATTAGATGCTAAAGGACCATCCTGCCTAGTCT
42439038 TTAACCCATTAGATGCTAAAGGACCATCCTGCCTAGTC
1 TTAACCCATTAGATGCTAAAGGACCATCCTGCCTAGTC
42439076 CTTTCCTTAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.27
Consensus pattern (39 bp):
TTAACCCATTAGATGCTAAAGGACCATCCTGCCTAGTCT
Found at i:42440899 original size:43 final size:42
Alignment explanation
Indices: 42440828--42441067 Score: 338
Period size: 43 Copynumber: 5.6 Consensus size: 42
42440818 CTGGCATTAC
*
42440828 GCCTGCTAGGCACGAAGGGCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAA-GGCCCAATACACATCACCGGCACGAA
42440871 GCCTGCTAGGCACGAAGGCCCAATTACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCAA-TACACATCACCGGCACGAA
* * *
42440914 GCCTACTAGGCACGAAGGCCCGAATACACATCACTGGAACGAA
1 GCCTGCTAGGCACGAAGGCCC-AATACACATCACCGGCACGAA
* * *
42440957 GCCTACAAGGCACGAAGGCCCGAATACACATCACCGGCACTAA
1 GCCTGCTAGGCACGAAGGCCC-AATACACATCACCGGCACGAA
*
42441000 GCCTGCTAGGCACGAAGGCCGAATACACATCACCGGCACTG-A
1 GCCTGCTAGGCACGAAGGCCCAATACACATCACCGGCAC-GAA
*
42441042 GCCTGCGAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCC-AATA
42441068 TAATACCAGC
Statistics
Matches: 179, Mismatches: 14, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
42 44 0.25
43 133 0.74
44 2 0.01
ACGTcount: A:0.31, C:0.33, G:0.25, T:0.10
Consensus pattern (42 bp):
GCCTGCTAGGCACGAAGGCCCAATACACATCACCGGCACGAA
Found at i:42441131 original size:38 final size:38
Alignment explanation
Indices: 42441060--42441143 Score: 114
Period size: 38 Copynumber: 2.2 Consensus size: 38
42441050 GGCACGAAGG
* * ** *
42441060 CCCGAATATAATACCAGCACTAGGCCTGTGGGATTTAT
1 CCCGAATATAATACCAGCACGAAGCCTACGGGATTTAA
*
42441098 CCCGGATATAATACCAGCACGAAGCCTACGGGATTTAA
1 CCCGAATATAATACCAGCACGAAGCCTACGGGATTTAA
42441136 CCCGAATA
1 CCCGAATA
42441144 CACATCAAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.21
Consensus pattern (38 bp):
CCCGAATATAATACCAGCACGAAGCCTACGGGATTTAA
Found at i:42445005 original size:23 final size:22
Alignment explanation
Indices: 42444979--42445025 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
42444969 TATTTTGGAC
* *
42444979 TTAAATTATTAATATAATGAATT
1 TTAAATAATT-ATATAATAAATT
*
42445002 TTAAATAATTTTATAATAAATT
1 TTAAATAATTATATAATAAATT
42445024 TT
1 TT
42445026 GATTAATCTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 12 0.57
23 9 0.43
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (22 bp):
TTAAATAATTATATAATAAATT
Found at i:42452802 original size:19 final size:19
Alignment explanation
Indices: 42452792--42452829 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
42452782 TCCAAGTGTT
*
42452792 GTAAAAGTTTCATAAGTTC
1 GTAAAAGTTTCACAAGTTC
*
42452811 GTAAAAGTTTCATAAGTTC
1 GTAAAAGTTTCACAAGTTC
42452830 TCAGTTTAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.37
Consensus pattern (19 bp):
GTAAAAGTTTCACAAGTTC
Found at i:42455120 original size:40 final size:40
Alignment explanation
Indices: 42455083--42455268 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
42455073 GCTACTCGTT
* *
42455083 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
42455123 CAAATGCCTTCGGGACTTAACCTGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
42455163 GAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
42455203 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
42455244 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
42455269 CATCATTCAA
Statistics
Matches: 129, Mismatches: 13, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.02
40 113 0.88
41 13 0.10
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:42476886 original size:40 final size:39
Alignment explanation
Indices: 42476724--42476875 Score: 216
Period size: 40 Copynumber: 3.8 Consensus size: 39
42476714 CGGATGATAA
*
42476724 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATT
1 CCGGGCTAAGTCCCGAAGGCA-TTGTGCGAGTGACTAATT
* *
42476764 CCGGGCTAAGTCCCGAAGGCATTGTTGTGAGTTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTG-TGCGAGTGACTAATT
*
42476804 CCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTGTGCGAGTGACTAAT-T
*
42476843 CCGGGCTAAGTCCCGAAGGCATTCGAGCGAGTG
1 CCGGGCTAAGTCCCGAAGGCATT-GTGCGAGTG
42476876 GCTATATCCG
Statistics
Matches: 103, Mismatches: 6, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
38 2 0.02
39 37 0.36
40 64 0.62
ACGTcount: A:0.22, C:0.23, G:0.30, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTGTGCGAGTGACTAATT
Found at i:42476886 original size:79 final size:80
Alignment explanation
Indices: 42476724--42476875 Score: 220
Period size: 79 Copynumber: 1.9 Consensus size: 80
42476714 CGGATGATAA
*
42476724 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTGT
* * *
42476789 TGTGAGTTACTAATT
66 AGCGAGTGACTAATT
*
42476804 CCGGGCTAAGTCCCGAAGGCA-TTGTGCGAGTTACT-ATATCCGGGCTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-TCCGGGCTAAGTCCCGAAGGCATT-
42476867 G-AGCGAGTG
64 GTAGCGAGTG
42476876 GCTATATCCG
Statistics
Matches: 65, Mismatches: 5, Indels: 5
0.87 0.07 0.07
Matches are distributed among these distances:
78 2 0.03
79 41 0.63
80 22 0.34
ACGTcount: A:0.22, C:0.23, G:0.30, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTGT
AGCGAGTGACTAATT
Found at i:42481191 original size:47 final size:47
Alignment explanation
Indices: 42481138--42481322 Score: 262
Period size: 47 Copynumber: 3.9 Consensus size: 47
42481128 GATAATTGTG
** * *
42481138 ATGTGAATGTGCAGATATGTGATAAGGCCGAATGGGCAATGTGATGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
*
42481185 ATGTGAACATGCATATATGTGATAAGGCCAAATGGCCAATGTGATGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
* *
42481232 ATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
* * * * *
42481279 ATATGAACATGCATATATGTGGTAAAGCAGAATGGCTAATGTGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGA
42481323 AATATTTGTA
Statistics
Matches: 123, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 123 1.00
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
Found at i:42481571 original size:37 final size:37
Alignment explanation
Indices: 42481527--42481639 Score: 199
Period size: 37 Copynumber: 3.1 Consensus size: 37
42481517 GGAATTATAT
*
42481527 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
42481564 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
42481601 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
42481638 TC
1 TC
42481640 TGAGCTAAAG
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 73 1.00
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:42488805 original size:40 final size:39
Alignment explanation
Indices: 42488746--42488936 Score: 244
Period size: 40 Copynumber: 4.8 Consensus size: 39
42488736 CGGATGATAA
* * *
42488746 CCGGGCTAAGTCCCGAAGGCGTTTGTGCTAGTGACTAATT
1 CCGGGCTAAGTCCCGAAGGC-ATTGTGCGAGTTACTAATT
*
42488786 CCGGGCTAAGTCCCAAAGGCATTGTTGCGAGTTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTG-TGCGAGTTACTAATT
42488826 CCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTAAT-T
*
42488865 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAACTT-CT-ATAT
1 CCGGGCTAAGTCCCGAAGGCA-TTGTGCG-AGTTACTAAT-T
*
42488905 CCGGGCTAAGTCCCGAAGGCATTCGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATT-GTGCGAGT
42488937 GGCTATATCC
Statistics
Matches: 138, Mismatches: 8, Indels: 11
0.88 0.05 0.07
Matches are distributed among these distances:
38 2 0.01
39 40 0.29
40 93 0.67
41 3 0.02
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTAATT
Found at i:42488878 original size:79 final size:79
Alignment explanation
Indices: 42488746--42488948 Score: 261
Period size: 79 Copynumber: 2.5 Consensus size: 79
42488736 CGGATGATAA
* *
42488746 CCGGGCTAAGTCCCGAAGGCGTTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCCCAAAGGCA-TT
1 CCGGGCTAAGTCCCGAAGGC-ATTGTGCGAGTGACTATA-TCCGGGCTAAGTCCCAAAGGCATTT
*
42488809 GTTGCG-AGTTACTA-ATT
64 G-TGCGAACTT-CTATA-T
* *
42488826 CCGGGCTAAGTCCCGAAGGCATTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
1 CCGGGCTAAGTCCCGAAGGCATTGTGCGAGTGACTATATCCGGGCTAAGTCCCAAAGGCATTTGT
42488891 GCGAACTTCTATAT
66 GCGAACTTCTATAT
* *
42488905 CCGGGCTAAGTCCCGAAGGCATTCGAGCGAGTGGCTATATCCGG
1 CCGGGCTAAGTCCCGAAGGCATT-GTGCGAGTGACTATATCCGG
42488949 TGAAATCCCG
Statistics
Matches: 110, Mismatches: 8, Indels: 10
0.86 0.06 0.08
Matches are distributed among these distances:
79 65 0.59
80 45 0.41
ACGTcount: A:0.22, C:0.24, G:0.29, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTGTGCGAGTGACTATATCCGGGCTAAGTCCCAAAGGCATTTGT
GCGAACTTCTATAT
Found at i:42494548 original size:65 final size:65
Alignment explanation
Indices: 42494441--42494571 Score: 244
Period size: 65 Copynumber: 2.0 Consensus size: 65
42494431 AGTCCCATGC
* *
42494441 ATCAGATAATAATAACATGGCATGCAGTAAATAGTGATAGTCAAACATGCATTCAGGTCAACCTT
1 ATCAGATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTT
42494506 ATCAGATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTT
1 ATCAGATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTT
42494571 A
1 A
42494572 ACCCTAGGGG
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.25
Consensus pattern (65 bp):
ATCAGATAATAATAACATGGCATGCAGTAAATAGTAACAGTCAAACATGCATTCAGGTCAACCTT
Found at i:42494630 original size:27 final size:26
Alignment explanation
Indices: 42494574--42494630 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
42494564 CAACCTTAAC
* * *
42494574 CCTAGGGGTATATCAGTAATTTTGCT
1 CCTAGGGGTAAATCAGTAATTTTCCA
42494600 CCTAGGGGTAAATCTA-TAAATTTTCCA
1 CCTAGGGGTAAATC-AGT-AATTTTCCA
42494627 CCTA
1 CCTA
42494631 TAAAGGTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 14 0.54
27 12 0.46
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTTTCCA
Found at i:42494892 original size:10 final size:10
Alignment explanation
Indices: 42494877--42494917 Score: 59
Period size: 10 Copynumber: 4.2 Consensus size: 10
42494867 ACTTATTGCC
42494877 TATTTATTAT
1 TATTTATTAT
42494887 TATTTATTAT
1 TATTTATTAT
42494897 TA-TTATTAT
1 TATTTATTAT
42494906 T-TTTATTTAT
1 TATTTA-TTAT
42494916 TA
1 TA
42494918 ACCCGTATGG
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
9 11 0.39
10 17 0.61
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (10 bp):
TATTTATTAT
Found at i:42494901 original size:16 final size:16
Alignment explanation
Indices: 42494877--42494917 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
42494867 ACTTATTGCC
42494877 TATTTATTATTATTTAT
1 TATTTATTATTATTT-T
42494894 TA-TTATTATTATTTT
1 TATTTATTATTATTTT
42494909 TATTTATTA
1 TATTTATTA
42494918 ACCCGTATGG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 3 0.13
16 18 0.78
17 2 0.09
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TATTTATTATTATTTT
Found at i:42495935 original size:42 final size:42
Alignment explanation
Indices: 42495888--42495973 Score: 154
Period size: 42 Copynumber: 2.0 Consensus size: 42
42495878 AAAAAGGAAG
*
42495888 AAAGAAAATGAAGGAAAATGAGAGGAAGAAGAAATCGGCACC
1 AAAGAAAATGAAGGAAAAAGAGAGGAAGAAGAAATCGGCACC
*
42495930 AAAGAAAATGAAGTAAAAAGAGAGGAAGAAGAAATCGGCACC
1 AAAGAAAATGAAGGAAAAAGAGAGGAAGAAGAAATCGGCACC
42495972 AA
1 AA
42495974 GGAGAAGGAA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.57, C:0.09, G:0.27, T:0.07
Consensus pattern (42 bp):
AAAGAAAATGAAGGAAAAAGAGAGGAAGAAGAAATCGGCACC
Found at i:42496600 original size:19 final size:18
Alignment explanation
Indices: 42496563--42496606 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
42496553 ATACATACAG
42496563 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
42496580 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
42496599 TACTAATT
1 TAATAATT
42496607 AAAATTTCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:42500437 original size:45 final size:45
Alignment explanation
Indices: 42499365--42500433 Score: 1970
Period size: 45 Copynumber: 23.9 Consensus size: 45
42499355 TTTTATCAAA
* ** * ** *
42499365 TCACCGGCATT-CAGCCTGCTAGATTTAAAAACCCGAAT-TCAT-
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATATTATC
* *
42499407 TCACCGGCATT-TCGCCTGCTAGGCTCAAAGGCCTGAATATTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATATTATC
* * *
42499451 TCACTGGCATT-TCGCCTGCTAGGCTCAAAGGCCCAAATATTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATATTATC
*
42499495 TCACCGGCATT-TCGCCTGCTAGGCTCAAAGGCCCGAATATTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATATTATC
42499539 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATATTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATATTATC
42499584 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATATTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATATTATC
42499629 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATATTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATATTATC
42499674 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATATTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATATTATC
42499719 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATATTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATATTATC
42499764 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATATTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATATTATC
42499809 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATATTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATATTATC
42499854 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATATTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATATTATC
42499899 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATATTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATATTATC
42499944 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATATTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATATTATC
42499989 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATATTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATATTATC
42500034 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATATTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATATTATC
42500079 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATATTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATATTATC
42500124 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATATTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATATTATC
42500169 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATATTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATATTATC
42500214 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATATTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATATTATC
42500259 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATATTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATATTATC
42500304 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATATTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATATTATC
*
42500349 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATATTATC
42500394 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
42500434 GTATTGTACA
Statistics
Matches: 1008, Mismatches: 16, Indels: 3
0.98 0.02 0.00
Matches are distributed among these distances:
42 30 0.03
43 3 0.00
44 94 0.09
45 881 0.87
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATATTATC
Found at i:42505184 original size:53 final size:54
Alignment explanation
Indices: 42505109--42505294 Score: 207
Period size: 55 Copynumber: 3.4 Consensus size: 54
42505099 TTTTGAACTT
* * *
42505109 ACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GAAATC
1 ACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAAATC
* *
42505162 ACCAATGCCATGCCTTGGCATGGTCTTACATAGG-A-CCTTTGCCTTATAGTAACTC
1 ACCAATGCCATGCCTTGACATGGTCTTACAT-GGTATCC-TTGCCTTATAG-AAATC
* * * * * *
42505217 ATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTACCTTATAGAAATT
1 ACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAAATC
* *
42505271 ATCAATGCCATGCCTTGGCATGGT
1 ACCAATGCCATGCCTTGACATGGT
42505295 TTTTGTAACA
Statistics
Matches: 112, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
52 2 0.02
53 37 0.33
54 29 0.26
55 42 0.38
56 2 0.02
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (54 bp):
ACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAGAAATC
Found at i:42506778 original size:94 final size:91
Alignment explanation
Indices: 42506537--42506801 Score: 288
Period size: 94 Copynumber: 2.8 Consensus size: 91
42506527 TATATTGCTA
* * * *
42506537 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATGTGTGCTGATGCATGCCCCAGAC
1 ATGCCGTGTCCCAGACATGGTCTTACACTGGCTCTCATA-AT-TG-ACCGATGCATGTCCCAGAC
*
42506602 ATGTCTTACACTAGCACAACTCTTAGCCG
63 ATGTCTTACACTGGCACAACTCTTAGCCG
* * * *
42506631 ATG-CGTGTCCCAGACA-CGTCTTACACAGGCTATCTC-T-GTTGAGGCCGATGCATGTCCCATA
1 ATGCCGTGTCCCAGACATGGTCTTACACTGGC--TCTCATAATTGA--CCGATGCATGTCCCAGA
* *
42506692 CATGTCTTACTCTGGCACTCATCTCTGT-GCCG
62 CATGTCTTACACTGGCA--CAACTCT-TAGCCG
*
42506724 ATGCCGTGTCCCAGACATGGTCTTACACTGGCTCTCATAATATGACCGAAGCATGTCCCAGACAT
1 ATGCCGTGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-TGACCGATGCATGTCCCAGACAT
42506789 GTCTTACACTGGC
65 GTCTTACACTGGC
42506802 GCACAAATCA
Statistics
Matches: 142, Mismatches: 17, Indels: 24
0.78 0.09 0.13
Matches are distributed among these distances:
90 2 0.01
91 30 0.21
92 12 0.08
93 30 0.21
94 52 0.37
95 13 0.09
96 3 0.02
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (91 bp):
ATGCCGTGTCCCAGACATGGTCTTACACTGGCTCTCATAATTGACCGATGCATGTCCCAGACATG
TCTTACACTGGCACAACTCTTAGCCG
Found at i:42506781 original size:47 final size:46
Alignment explanation
Indices: 42506541--42506801 Score: 194
Period size: 47 Copynumber: 5.6 Consensus size: 46
42506531 TTGCTAATGC
* * *
42506541 CATGTCCCAGACATGGTCTTACACTGGCTCTCATATATGTGTGCTGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTCTCATA-ATCTG-ACCGATG
* * * * *
42506590 CATGCCCCAGACATGTCTTACACTAG--CACA-ACTCTTAGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCTCATAATCTGA-CCGATG
* * * *
42506634 CGTGTCCCAGACACGTCTTACACAGGCTATCTC-T-GT-TGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGC--TCTCATAATCTGA--CCGATG
* * * * *
42506681 CATGTCCCATACATGTCTTACTCTGGCACTCAT-CTCTGTGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCTCATAATCTG-ACCGATG
* * *
42506727 CCGTGTCCCAGACATGGTCTTACACTGGCTCTCATAATATGACCGAAG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTCTCATAATCTGACCGATG
42506775 CATGTCCCAGACATGTCTTACACTGGC
1 CATGTCCCAGACATGTCTTACACTGGC
42506802 GCACAAATCA
Statistics
Matches: 166, Mismatches: 33, Indels: 29
0.73 0.14 0.13
Matches are distributed among these distances:
44 28 0.17
45 4 0.02
46 26 0.16
47 57 0.34
48 35 0.21
49 16 0.10
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCTCTCATAATCTGACCGATG
Found at i:42511308 original size:34 final size:34
Alignment explanation
Indices: 42511260--42511337 Score: 113
Period size: 34 Copynumber: 2.3 Consensus size: 34
42511250 CTGTTGCATT
*
42511260 ATTGATACTATTACTA-TAATGGGCTAAGGCCCAC
1 ATTGATACTGTTACTACT-ATGGGCTAAGGCCCAC
42511294 ATTGATACTGTTACTACTATGGGCTAAGGCCCAC
1 ATTGATACTGTTACTACTATGGGCTAAGGCCCAC
* *
42511328 ACTAATACTG
1 ATTGATACTG
42511338 GACTGCCACT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
34 39 0.98
35 1 0.03
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (34 bp):
ATTGATACTGTTACTACTATGGGCTAAGGCCCAC
Found at i:42516491 original size:28 final size:28
Alignment explanation
Indices: 42516460--42516518 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
42516450 ATGTAGACAC
42516460 ATAGATACAAATTCATACATTTAGATTT
1 ATAGATACAAATTCATACATTTAGATTT
* * * *
42516488 ATAGATGCAGATTTATAGATTTAGATTT
1 ATAGATACAAATTCATACATTTAGATTT
42516516 ATA
1 ATA
42516519 AATGTGGATT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.41, C:0.07, G:0.12, T:0.41
Consensus pattern (28 bp):
ATAGATACAAATTCATACATTTAGATTT
Found at i:42516501 original size:14 final size:14
Alignment explanation
Indices: 42516482--42516619 Score: 89
Period size: 14 Copynumber: 9.9 Consensus size: 14
42516472 TCATACATTT
42516482 AGATTTATAGATGC
1 AGATTTATAGATGC
**
42516496 AGATTTATAGATTT
1 AGATTTATAGATGC
* *
42516510 AGATTTATAAATGT
1 AGATTTATAGATGC
*
42516524 GGATTTATAGATGC
1 AGATTTATAGATGC
* *
42516538 -GAATTAATAGATAC
1 AG-ATTTATAGATGC
*
42516552 AGATTCATAGATGC
1 AGATTTATAGATGC
* * * *
42516566 AAATTTACAAATAC
1 AGATTTATAGATGC
* * *
42516580 AGATTCATACATGT
1 AGATTTATAGATGC
* **
42516594 GGATTCGTAGATGC
1 AGATTTATAGATGC
*
42516608 AGATTCATAGAT
1 AGATTTATAGAT
42516620 ATCCCGTAAA
Statistics
Matches: 94, Mismatches: 28, Indels: 4
0.75 0.22 0.03
Matches are distributed among these distances:
13 1 0.01
14 92 0.98
15 1 0.01
ACGTcount: A:0.38, C:0.09, G:0.18, T:0.35
Consensus pattern (14 bp):
AGATTTATAGATGC
Found at i:42516556 original size:42 final size:42
Alignment explanation
Indices: 42516460--42516560 Score: 114
Period size: 42 Copynumber: 2.4 Consensus size: 42
42516450 ATGTAGACAC
* * * *
42516460 ATAGATACAAATTCATACATTTAGATTTATAGATGCAGATTT
1 ATAGATACAGATTCATAAATGTAGATTTATAGATGCAGATTA
** * *
42516502 ATAGATTTAGATTTATAAATGTGGATTTATAGATGC-GAATTA
1 ATAGATACAGATTCATAAATGTAGATTTATAGATGCAG-ATTA
42516544 ATAGATACAGATTCATA
1 ATAGATACAGATTCATA
42516561 GATGCAAATT
Statistics
Matches: 47, Mismatches: 11, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
41 1 0.02
42 46 0.98
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.38
Consensus pattern (42 bp):
ATAGATACAGATTCATAAATGTAGATTTATAGATGCAGATTA
Found at i:42518040 original size:31 final size:31
Alignment explanation
Indices: 42518004--42518065 Score: 106
Period size: 31 Copynumber: 2.0 Consensus size: 31
42517994 AAATATGGAT
* *
42518004 ATTAAGCATAGAGAAAGGGAGAGTTTTTTTC
1 ATTAAGCATAGAGAAAAGGAGAATTTTTTTC
42518035 ATTAAGCATAGAGAAAAGGAGAATTTTTTTC
1 ATTAAGCATAGAGAAAAGGAGAATTTTTTTC
42518066 TTTCTTTTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.39, C:0.06, G:0.23, T:0.32
Consensus pattern (31 bp):
ATTAAGCATAGAGAAAAGGAGAATTTTTTTC
Found at i:42518913 original size:27 final size:27
Alignment explanation
Indices: 42518880--42518935 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
42518870 TCATGAAAAG
* *
42518880 AAGCCTTTGTGGCGAATCACAAAAGAA
1 AAGCCTTTCTGGCAAATCACAAAAGAA
**
42518907 AAGCCTTTCTGGCAAATCATGAAAGAA
1 AAGCCTTTCTGGCAAATCACAAAAGAA
42518934 AA
1 AA
42518936 ACTTTTACGG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.43, C:0.18, G:0.20, T:0.20
Consensus pattern (27 bp):
AAGCCTTTCTGGCAAATCACAAAAGAA
Found at i:42520161 original size:28 final size:28
Alignment explanation
Indices: 42520129--42520227 Score: 81
Period size: 28 Copynumber: 3.4 Consensus size: 28
42520119 ATGGTGCATG
* *
42520129 CAGTAACAGTCTGGGCCTGAGCCCTATT
1 CAGTAACAGTCTGGGCCTAAGCCCTATA
* *
42520157 CAGTATCAGTACAGTCTGGGCCTTAGCTCTATA
1 CAG--T-A--ACAGTCTGGGCCTAAGCCCTATA
* * *
42520190 CAGCAACAGTGTGGGCCTAAGCCCAATA
1 CAGTAACAGTCTGGGCCTAAGCCCTATA
*
42520218 CAGTATCAGT
1 CAGTAACAGT
42520228 ATAGTGTAAT
Statistics
Matches: 56, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
28 30 0.54
30 2 0.04
31 1 0.02
33 23 0.41
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.24
Consensus pattern (28 bp):
CAGTAACAGTCTGGGCCTAAGCCCTATA
Found at i:42526597 original size:40 final size:40
Alignment explanation
Indices: 42526537--42526720 Score: 212
Period size: 40 Copynumber: 4.6 Consensus size: 40
42526527 TATTCGAATG
*
42526537 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
** * *
42526577 ATATCCGAACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* * **
42526617 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAACGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
*
42526657 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* *
42526697 ATATCCGGGCTAAGACCCAAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
42526721 CTTGTACGAG
Statistics
Matches: 121, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
39 1 0.01
40 117 0.97
41 3 0.02
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:42526670 original size:80 final size:80
Alignment explanation
Indices: 42526537--42526720 Score: 237
Period size: 80 Copynumber: 2.3 Consensus size: 80
42526527 TATTCGAATG
* * **
42526537 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGAACTAAGAT-CCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAACGACTATATCCGAACTAAG-TCCCGAAGGC
* *
42526601 ATTTGTGCGAGTTG-CT
65 ATTTATGCGAG-TGACC
* **
42526617 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAACGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAACGACTATATCCGAACTAAGTCCCGAAGGCA
*
42526682 TTTATGCTAGTGACC
66 TTTATGCGAGTGACC
*
42526697 ATATCCGGGCTAAGACCCAAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
42526721 CTTGTACGAG
Statistics
Matches: 91, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
79 3 0.03
80 88 0.97
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAACGACTATATCCGAACTAAGTCCCGAAGGCA
TTTATGCGAGTGACC
Found at i:42528447 original size:27 final size:27
Alignment explanation
Indices: 42528428--42528780 Score: 332
Period size: 27 Copynumber: 13.4 Consensus size: 27
42528418 GGGCATAATC
* * *
42528428 GTCATTTTACCATACAAGGGTATTACT
1 GTCATTTTACCCTACAAGGGCATTACG
* *
42528455 ATCATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAAGGGCATTACG
* * **
42528482 GTCATTCTACCCTACAAGGGTATTGTG
1 GTCATTTTACCCTACAAGGGCATTACG
*
42528509 GTCATTTTACCCTA-TA-GG------G
1 GTCATTTTACCCTACAAGGGCATTACG
* * * **
42528528 G-CATTTTATCCTACAGGGGTATTGTG
1 GTCATTTTACCCTACAAGGGCATTACG
* *
42528554 GTCATTTTACCCTATAGGGGCATTACG
1 GTCATTTTACCCTACAAGGGCATTACG
* * * *
42528581 GTCATTTTACCTTACAGGGGTATCACG
1 GTCATTTTACCCTACAAGGGCATTACG
* ***
42528608 GTCATTTTACCCCATTGGGGCATTACG
1 GTCATTTTACCCTACAAGGGCATTACG
* *
42528635 ATCATTTTACCCTAC-AGGGTATTACG
1 GTCATTTTACCCTACAAGGGCATTACG
*
42528661 GTCATTTTACCCTACAGGGGCATTA-G
1 GTCATTTTACCCTACAAGGGCATTACG
42528687 GATCATTTTACCCTACAAGGGCATTACG
1 G-TCATTTTACCCTACAAGGGCATTACG
* * *
42528715 GTCATTTTACCCTACAGGGGGATTACA
1 GTCATTTTACCCTACAAGGGCATTACG
*
42528742 GTCATTTTACTCTACAAGGGCATTACG
1 GTCATTTTACCCTACAAGGGCATTACG
42528769 GTCATTTTACCC
1 GTCATTTTACCC
42528781 ATTCTGGGGT
Statistics
Matches: 266, Mismatches: 48, Indels: 24
0.79 0.14 0.07
Matches are distributed among these distances:
18 11 0.04
19 2 0.01
20 2 0.01
25 2 0.01
26 28 0.11
27 219 0.82
28 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (27 bp):
GTCATTTTACCCTACAAGGGCATTACG
Found at i:42528500 original size:54 final size:54
Alignment explanation
Indices: 42528428--42528780 Score: 404
Period size: 54 Copynumber: 6.7 Consensus size: 54
42528418 GGGCATAATC
* **
42528428 GTCATTTTACCATACAAGGGTATTACTATCATTTTACCCTACAGGGGCATTACG
1 GTCATTTTACCCTACAAGGGTATTACGGTCATTTTACCCTACAGGGGCATTACG
* ** *
42528482 GTCATTCTACCCTACAAGGGTATTGTGGTCATTTTACCCTATA--GG------G
1 GTCATTTTACCCTACAAGGGTATTACGGTCATTTTACCCTACAGGGGCATTACG
* * ** *
42528528 G-CATTTTATCCTACAGGGGTATTGTGGTCATTTTACCCTATAGGGGCATTACG
1 GTCATTTTACCCTACAAGGGTATTACGGTCATTTTACCCTACAGGGGCATTACG
* * * * **
42528581 GTCATTTTACCTTACAGGGGTATCACGGTCATTTTACCCCATTGGGGCATTACG
1 GTCATTTTACCCTACAAGGGTATTACGGTCATTTTACCCTACAGGGGCATTACG
*
42528635 ATCATTTTACCCTAC-AGGGTATTACGGTCATTTTACCCTACAGGGGCATTA-G
1 GTCATTTTACCCTACAAGGGTATTACGGTCATTTTACCCTACAGGGGCATTACG
* * *
42528687 GATCATTTTACCCTACAAGGGCATTACGGTCATTTTACCCTACAGGGGGATTACA
1 G-TCATTTTACCCTACAAGGGTATTACGGTCATTTTACCCTACAGGGGCATTACG
* *
42528742 GTCATTTTACTCTACAAGGGCATTACGGTCATTTTACCC
1 GTCATTTTACCCTACAAGGGTATTACGGTCATTTTACCC
42528781 ATTCTGGGGT
Statistics
Matches: 258, Mismatches: 29, Indels: 24
0.83 0.09 0.08
Matches are distributed among these distances:
45 38 0.15
46 2 0.01
47 2 0.01
52 3 0.01
53 47 0.18
54 165 0.64
55 1 0.00
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (54 bp):
GTCATTTTACCCTACAAGGGTATTACGGTCATTTTACCCTACAGGGGCATTACG
Found at i:42528534 original size:18 final size:18
Alignment explanation
Indices: 42528511--42528546 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
42528501 GTATTGTGGT
*
42528511 CATTTTACCCTATAGGGG
1 CATTTTACCCTACAGGGG
*
42528529 CATTTTATCCTACAGGGG
1 CATTTTACCCTACAGGGG
42528547 TATTGTGGTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.33
Consensus pattern (18 bp):
CATTTTACCCTACAGGGG
Found at i:42528556 original size:45 final size:45
Alignment explanation
Indices: 42528492--42528577 Score: 163
Period size: 45 Copynumber: 1.9 Consensus size: 45
42528482 GTCATTCTAC
42528492 CCTACAAGGGTATTGTGGTCATTTTACCCTATAGGGGCATTTTAT
1 CCTACAAGGGTATTGTGGTCATTTTACCCTATAGGGGCATTTTAT
*
42528537 CCTACAGGGGTATTGTGGTCATTTTACCCTATAGGGGCATT
1 CCTACAAGGGTATTGTGGTCATTTTACCCTATAGGGGCATT
42528578 ACGGTCATTT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.21, C:0.19, G:0.24, T:0.36
Consensus pattern (45 bp):
CCTACAAGGGTATTGTGGTCATTTTACCCTATAGGGGCATTTTAT
Found at i:42528584 original size:72 final size:72
Alignment explanation
Indices: 42528457--42528765 Score: 224
Period size: 80 Copynumber: 4.1 Consensus size: 72
42528447 GTATTACTAT
* **
42528457 CATTTTACCCTACAGGGGCATTACGGTCATTCTACCCTACAAGGGTATTGTGGTCATTTTACCCT
1 CATTTTACCCTACAGGGGCATTACGGTCATTCTACCCTACAAGGGCATTACGGTCATTTTACCCT
*
42528522 ATAGGGG
66 ACAGGGG
* * ** * * * *
42528529 CATTTTATCCTACAGGGGTATTGTGGTCATTTTACCCTATAGGGGCATTACGGTCATTTTACCTT
1 CATTTTACCCTACAGGGGCATTACGGTCATTCTACCCTACAAGGGCATTACGGTCATTTTACCCT
42528594 ACAGGGGTATCACGG
66 ACA--GG------GG
* ** * * *
42528609 TCATTTTACCCCATTGGGGCATTACGATCATTTTACCCTAC-AGGGTATTACGGTCATTTTACCC
1 -CATTTTACCCTACAGGGGCATTACGGTCATTCTACCCTACAAGGGCATTACGGTCATTTTACCC
42528673 TACAGGGGCATTAGG
65 TACA--GG-----GG
* * * * * *
42528688 ATCATTTTACCCTACAAGGGCATTACGGTCATTTTACCCTACAGGGGGATTACAGTCATTTTACT
1 --CATTTTACCCTACAGGGGCATTACGGTCATTCTACCCTACAAGGGCATTACGGTCATTTTACC
*
42528753 CTACAAGGG
64 CTACAGGGG
42528762 CATT
1 CATT
42528766 ACGGTCATTT
Statistics
Matches: 187, Mismatches: 39, Indels: 22
0.75 0.16 0.09
Matches are distributed among these distances:
72 60 0.32
74 4 0.02
79 3 0.02
80 66 0.35
81 54 0.29
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.33
Consensus pattern (72 bp):
CATTTTACCCTACAGGGGCATTACGGTCATTCTACCCTACAAGGGCATTACGGTCATTTTACCCT
ACAGGGG
Found at i:42528717 original size:134 final size:134
Alignment explanation
Indices: 42528429--42528780 Score: 371
Period size: 134 Copynumber: 2.7 Consensus size: 134
42528419 GGCATAATCG
* * ** * * * *
42528429 TCATTTTACCATACAAGGGTATTACTATCATTTTACCCTACAGGGGCATTACGGTCATTCTACCC
1 TCATTTTACCCTACAAGGGCATTACGGTCATTTTACCCTACAGGGGGATCACAGTCATTTTACCC
* * ** * * * *
42528494 TACAAGGGTATTGTGGTCATTTTACCCTATA-GG------GG-CATTTTATCCTACAGGGGTATT
66 CACAAGGGCATTACGATCATTTTACCCTACAGGGTATTACGGTCATTTTACCCTACAGGGGCATT
*
42528551 GTGG
131 GTGA
* * * * *
42528555 TCATTTTACCCTATAGGGGCATTACGGTCATTTTACCTTACAGGGGTATCACGGTCATTTTACCC
1 TCATTTTACCCTACAAGGGCATTACGGTCATTTTACCCTACAGGGGGATCACAGTCATTTTACCC
***
42528620 CATTGGGGCATTACGATCATTTTACCCTACAGGGTATTACGGTCATTTTACCCTACAGGGGCATT
66 CACAAGGGCATTACGATCATTTTACCCTACAGGGTATTACGGTCATTTTACCCTACAGGGGCATT
42528685 AG-GA
131 -GTGA
* *
42528689 TCATTTTACCCTACAAGGGCATTACGGTCATTTTACCCTACAGGGGGATTACAGTCATTTTACTC
1 TCATTTTACCCTACAAGGGCATTACGGTCATTTTACCCTACAGGGGGATCACAGTCATTTTACCC
* *
42528754 TACAAGGGCATTACGGTCATTTTACCC
66 CACAAGGGCATTACGATCATTTTACCC
42528781 ATTCTGGGGT
Statistics
Matches: 183, Mismatches: 34, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
126 77 0.42
127 2 0.01
133 2 0.01
134 101 0.55
135 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.34
Consensus pattern (134 bp):
TCATTTTACCCTACAAGGGCATTACGGTCATTTTACCCTACAGGGGGATCACAGTCATTTTACCC
CACAAGGGCATTACGATCATTTTACCCTACAGGGTATTACGGTCATTTTACCCTACAGGGGCATT
GTGA
Found at i:42552245 original size:61 final size:62
Alignment explanation
Indices: 42552097--42552262 Score: 175
Period size: 60 Copynumber: 2.7 Consensus size: 62
42552087 GCCAACTGTG
* * * *
42552097 TTGATATGGGC-AAGGCCCAATATATCTC-GA-CTTGTAATAGGGCTACGGCCCAGATTGATA
1 TTGATATGGGCTAAGGCCCAGT-TAACTCTGATATTGTAATAGGGCTACGGCCCAGATTAATA
* * * *
42552157 CTGATATAGGCT-AGGCCCAG-TATACTCTGATATTGTAA-GGGGCTATGGCCCAGATTAATA
1 TTGATATGGGCTAAGGCCCAGTTA-ACTCTGATATTGTAATAGGGCTACGGCCCAGATTAATA
*
42552217 TTGATATGGGCTAAGGCCCAGTTAACTCTGAT-TTTTGAATAGGGCT
1 TTGATATGGGCTAAGGCCCAGTTAACTCTGATATTGT-AATAGGGCT
42552263 TAAGCCCAGT
Statistics
Matches: 86, Mismatches: 12, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
58 2 0.02
59 3 0.03
60 50 0.58
61 24 0.28
62 7 0.08
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (62 bp):
TTGATATGGGCTAAGGCCCAGTTAACTCTGATATTGTAATAGGGCTACGGCCCAGATTAATA
Found at i:42566379 original size:26 final size:26
Alignment explanation
Indices: 42566340--42566391 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
42566330 CGGTCATAAC
*
42566340 GTCTAGGCCGGGTTTGGGGTGTTACA
1 GTCTAGGCCAGGTTTGGGGTGTTACA
* *
42566366 GTCTGGGCCAGGTTTGGGTTGTTACA
1 GTCTAGGCCAGGTTTGGGGTGTTACA
42566392 TATTCCCAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.12, C:0.15, G:0.40, T:0.33
Consensus pattern (26 bp):
GTCTAGGCCAGGTTTGGGGTGTTACA
Found at i:42578934 original size:40 final size:40
Alignment explanation
Indices: 42578874--42578956 Score: 114
Period size: 40 Copynumber: 2.1 Consensus size: 40
42578864 TCCAACCCAG
* * *
42578874 CACCCCATATGGGGATAAAATCG-ACCCACCCATCCCTACA
1 CACCACATATAGGGATAAAATCGTA-CCACCCAACCCTACA
*
42578914 CACCACATATAGGGATAAAATCGTACCATCCAACCCTACA
1 CACCACATATAGGGATAAAATCGTACCACCCAACCCTACA
42578954 CAC
1 CAC
42578957 GATAAAGTAC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
40 37 0.97
41 1 0.03
ACGTcount: A:0.36, C:0.37, G:0.11, T:0.16
Consensus pattern (40 bp):
CACCACATATAGGGATAAAATCGTACCACCCAACCCTACA
Found at i:42580182 original size:27 final size:26
Alignment explanation
Indices: 42580152--42580205 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
42580142 TAAAATTATC
*
42580152 ATTTTTCCCCTAGGGTGGTAAATGACT
1 ATTTTGCCCCTAGGGT-GTAAATGACT
* *
42580179 ATTTTGCCCCTCGTGTGTAAATGACT
1 ATTTTGCCCCTAGGGTGTAAATGACT
42580205 A
1 A
42580206 ACTTGTGCGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 11 0.46
27 13 0.54
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.37
Consensus pattern (26 bp):
ATTTTGCCCCTAGGGTGTAAATGACT
Found at i:42589596 original size:40 final size:40
Alignment explanation
Indices: 42589548--42589775 Score: 411
Period size: 40 Copynumber: 5.7 Consensus size: 40
42589538 GCAAACACAT
* * *
42589548 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
42589588 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
42589628 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
42589668 TTGCCTTTGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
42589708 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
42589748 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
42589776 TCCAATGCTC
Statistics
Matches: 181, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 181 1.00
ACGTcount: A:0.21, C:0.27, G:0.20, T:0.32
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:42597204 original size:27 final size:26
Alignment explanation
Indices: 42597160--42597211 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
42597150 CTCGCTGCAA
42597160 TCTGGTGACCTCGCCATATATATCTGT
1 TCTGGTGACCTCGCCATA-ATATCTGT
* *
42597187 TCTGGTGACTTCGTCATAATATCTG
1 TCTGGTGACCTCGCCATAATATCTG
42597212 GCAGCCTCGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.38
Consensus pattern (26 bp):
TCTGGTGACCTCGCCATAATATCTGT
Found at i:42599414 original size:40 final size:40
Alignment explanation
Indices: 42599360--42599633 Score: 458
Period size: 40 Copynumber: 6.8 Consensus size: 40
42599350 ATTACCACAA
* ** *
42599360 GCACAATTGCCTTCGGGTCTTAGCCCGGGCATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
42599400 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
42599440 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
42599480 GCACAAATGCCTGCTGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
42599520 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
42599560 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
42599600 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAT
42599634 ATACAAATGC
Statistics
Matches: 218, Mismatches: 16, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 218 1.00
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:42607930 original size:40 final size:40
Alignment explanation
Indices: 42607840--42608112 Score: 440
Period size: 40 Copynumber: 6.8 Consensus size: 40
42607830 ATTACCACAA
* ** *
42607840 GCACAATTGCCTTCGGGTCTTAG-CCGGGCATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
42607879 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
*
42607919 GCACAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
42607959 GCACAAATGCCTGCGGGTCTTAGCCCAGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
42607999 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
42608039 GCACAAATGCCTGCGGGTCTTAGCCCGGATATATCGACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
42608079 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAT
42608113 ATACAAATGC
Statistics
Matches: 216, Mismatches: 17, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
39 21 0.10
40 195 0.90
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:42609472 original size:40 final size:40
Alignment explanation
Indices: 42609424--42609613 Score: 254
Period size: 40 Copynumber: 4.7 Consensus size: 40
42609414 GCAAACACAT
* * *
42609424 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * *
42609464 TTGCCTTCGGGTCATAGCCCGGACATATTAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
42609504 TTGCCTTCGGGTCTTAGCCCGGATATATATCGACTCGCACAA
1 TTGCCTTCGGGTCTTAGCCCGG--ATATATCAACTCGCATAA
* * *
42609546 ATGCCTGCGGGTCTTAGCCCGGATATATCAACTCGTATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
42609586 TTGCCTTCTGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
42609614 TCCAATGCTC
Statistics
Matches: 131, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
40 97 0.74
42 34 0.26
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:42609565 original size:82 final size:82
Alignment explanation
Indices: 42609424--42609613 Score: 258
Period size: 82 Copynumber: 2.3 Consensus size: 82
42609414 GCAAACACAT
* * * * * *
42609424 TTGCCTTCGGGTCTTAACCCGG--ACATATCAACTTGCATAATTGCCTTCGGGTCATAGCCCGGA
1 TTGCCTTCGGGTCTTAGCCCGGATATATATCAACTCGCACAAATGCCTGCGGGTCATAGCCCGGA
*
42609487 CATATTAACTCGCATAA
66 CATATCAACTCGCATAA
* *
42609504 TTGCCTTCGGGTCTTAGCCCGGATATATATCGACTCGCACAAATGCCTGCGGGTCTTAGCCCGGA
1 TTGCCTTCGGGTCTTAGCCCGGATATATATCAACTCGCACAAATGCCTGCGGGTCATAGCCCGGA
* *
42609569 TATATCAACTCGTATAA
66 CATATCAACTCGCATAA
*
42609586 TTGCCTTCTGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
42609614 TCCAATGCTC
Statistics
Matches: 96, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
80 21 0.22
82 75 0.78
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.30
Consensus pattern (82 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATATCAACTCGCACAAATGCCTGCGGGTCATAGCCCGGA
CATATCAACTCGCATAA
Found at i:42621688 original size:46 final size:46
Alignment explanation
Indices: 42621621--42621792 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
42621611 AACCCGCCCC
* *
42621621 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
* *
42621667 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGG--G-C--GTTCGCATCCA
* * ** *
42621715 TCA-CGAACTCAGACTCAACTCAACGAGTTCGTACATTCGCATCCA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
*
42621760 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGG
42621793 ATGCTCAATC
Statistics
Matches: 102, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 1 0.01
45 2 0.02
46 57 0.56
47 27 0.26
48 3 0.03
49 1 0.01
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCAGACTCAACTCAACGAGTTCGGGCGTTCGCATCCA
Found at i:42621734 original size:93 final size:93
Alignment explanation
Indices: 42621626--42621796 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
42621616 GCCCCTAAGT
* * *
42621626 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
42621691 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* * *
42621719 GAACTCAGACTCAACTCAACGAGTTCGTACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
42621784 CGAGTTCGGATGC
66 CGAGTTCGGATGC
42621797 TCAATCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:42623561 original size:16 final size:16
Alignment explanation
Indices: 42623540--42623571 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
42623530 CCTGTAACTC
42623540 CCCAAAAATCTCGAAA
1 CCCAAAAATCTCGAAA
42623556 CCCAAAAATCTCGAAA
1 CCCAAAAATCTCGAAA
42623572 TCTAGAACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.31, G:0.06, T:0.12
Consensus pattern (16 bp):
CCCAAAAATCTCGAAA
Found at i:42630426 original size:40 final size:40
Alignment explanation
Indices: 42630371--42630595 Score: 299
Period size: 40 Copynumber: 5.6 Consensus size: 40
42630361 TATTCGGATG
42630371 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
42630411 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
42630454 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * * *
42630494 ATTTCCGGGCTAAGACCCGAAGGCATGTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * * *
42630534 ATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGCG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
42630574 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
42630596 TACTTGGTTT
Statistics
Matches: 163, Mismatches: 19, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
39 14 0.09
40 111 0.68
41 1 0.01
43 37 0.23
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:42630514 original size:83 final size:80
Alignment explanation
Indices: 42630375--42630595 Score: 286
Period size: 83 Copynumber: 2.7 Consensus size: 80
42630365 CGGATGATAT
* * *
42630375 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCATGTG
*
42630440 TGCGAGTAGTTGCTATAC
66 TGC--G-AGTTACTATAC
* *
42630458 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATTTCCGGGCTAAGACCCGAAGGCATGTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCATGTG
*
42630523 TGCGAGTTACTATAT
66 TGCGAGTTACTATAC
* * *
42630538 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTG-CGATATCC-GGCTAA-ATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGA-CCCGAAGG
42630596 TACTTGGTTT
Statistics
Matches: 125, Mismatches: 11, Indels: 8
0.87 0.08 0.06
Matches are distributed among these distances:
78 1 0.01
79 14 0.11
80 44 0.35
81 3 0.02
83 63 0.50
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGACCCGAAGGCATGTG
TGCGAGTTACTATAC
Found at i:42643463 original size:21 final size:19
Alignment explanation
Indices: 42643421--42643463 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
42643411 TTTTAATTTC
* *
42643421 TTTCTTTTCTTCCTACCAA
1 TTTCTATTCTTCCCACCAA
42643440 TTTCTATTCTTCTCCACACAA
1 TTTCTATTCTTC-CCAC-CAA
42643461 TTT
1 TTT
42643464 TCTTTGCTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 11 0.55
20 3 0.15
21 6 0.30
ACGTcount: A:0.19, C:0.30, G:0.00, T:0.51
Consensus pattern (19 bp):
TTTCTATTCTTCCCACCAA
Found at i:42644221 original size:28 final size:29
Alignment explanation
Indices: 42644111--42644225 Score: 119
Period size: 29 Copynumber: 4.0 Consensus size: 29
42644101 GTGAGCATGA
* **
42644111 ATATGAATGTGA-CTGGGCCTAACCGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
42644139 ATATAAATGTGATTTGGGCCTAATGGGAC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
42644168 ATAT-ACAGGTGATTTGGGTCTAATGGGCC
1 ATATGA-ATGTGATTTGGGCCTAATGGGCC
* *
42644197 ATATGAATATGA-TTGGGCTTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
42644225 A
1 A
42644226 GATACAAGTA
Statistics
Matches: 72, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
28 27 0.38
29 44 0.61
30 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.29
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:42646645 original size:14 final size:14
Alignment explanation
Indices: 42646626--42646661 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
42646616 CCTAGGGCTA
42646626 GGGCCAGAGTTAAT
1 GGGCCAGAGTTAAT
42646640 GGGCCAGAGTTAAT
1 GGGCCAGAGTTAAT
*
42646654 GGACCAGA
1 GGGCCAGA
42646662 TAGAGCAGGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.17, G:0.36, T:0.17
Consensus pattern (14 bp):
GGGCCAGAGTTAAT
Found at i:42647175 original size:16 final size:16
Alignment explanation
Indices: 42647154--42647184 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
42647144 TTGTAACGCT
*
42647154 CCAAAAATCTCGAAAC
1 CCAAAAATCCCGAAAC
42647170 CCAAAAATCCCGAAA
1 CCAAAAATCCCGAAA
42647185 TCCTAAACTT
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:0.52, C:0.32, G:0.06, T:0.10
Consensus pattern (16 bp):
CCAAAAATCCCGAAAC
Found at i:42647849 original size:21 final size:19
Alignment explanation
Indices: 42647807--42647849 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
42647797 TTTGTTTTTC
* *
42647807 TTTCTTTTCTTCCTGCCAA
1 TTTCTATTCTTCCTACCAA
42647826 TTTCTATTCTTCTCTACACAA
1 TTTCTATTCTTC-CTAC-CAA
42647847 TTT
1 TTT
42647850 TCTTTGTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 11 0.55
20 3 0.15
21 6 0.30
ACGTcount: A:0.16, C:0.28, G:0.02, T:0.53
Consensus pattern (19 bp):
TTTCTATTCTTCCTACCAA
Found at i:42648562 original size:29 final size:29
Alignment explanation
Indices: 42648505--42648604 Score: 112
Period size: 29 Copynumber: 3.5 Consensus size: 29
42648495 GTGAGCATGA
* * * *
42648505 ATATGAATGTGA-CTGGGCCTAACGAGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
42648533 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
* * *
42648562 ATATATAGGCGATTTGGGCCTAATGGGCC
1 ATATAAATGTGATTTGGGCCTAATGGGCC
* *
42648591 ATATGAATATGATT
1 ATATAAATGTGATT
42648605 AGCTTTAATG
Statistics
Matches: 59, Mismatches: 12, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
28 11 0.19
29 48 0.81
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (29 bp):
ATATAAATGTGATTTGGGCCTAATGGGCC
Found at i:42651185 original size:38 final size:38
Alignment explanation
Indices: 42651135--42651230 Score: 120
Period size: 40 Copynumber: 2.5 Consensus size: 38
42651125 CCAACTCTGT
* *
42651135 CCAACCCAACACACCATGTAGGGATAAAATCAACCCAC
1 CCAACCCTACACACCATATAGGGATAAAATCAACCCAC
* * * *
42651173 CCATCCCTACACACCACATATGGGGATAAAATCGACCCAT
1 CCAACCCTACACA-C-CATATAGGGATAAAATCAACCCAC
42651213 CCAACCCTACACACCATA
1 CCAACCCTACACACCATA
42651231 AAGTACCGTA
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
38 15 0.31
39 2 0.04
40 32 0.65
ACGTcount: A:0.39, C:0.39, G:0.09, T:0.14
Consensus pattern (38 bp):
CCAACCCTACACACCATATAGGGATAAAATCAACCCAC
Found at i:42658608 original size:43 final size:43
Alignment explanation
Indices: 42658547--42658633 Score: 156
Period size: 43 Copynumber: 2.0 Consensus size: 43
42658537 TTAGAGTATG
*
42658547 TCCAAAGACCAATCATGAGATGATTATAATTACATACTCATTT
1 TCCAAAGACCAAGCATGAGATGATTATAATTACATACTCATTT
*
42658590 TCCAAAGACCAAGCATGAGATGATTATAATTACATACTCGTTT
1 TCCAAAGACCAAGCATGAGATGATTATAATTACATACTCATTT
42658633 T
1 T
42658634 ACCTTGTCTG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.32
Consensus pattern (43 bp):
TCCAAAGACCAAGCATGAGATGATTATAATTACATACTCATTT
Found at i:42671222 original size:26 final size:25
Alignment explanation
Indices: 42671173--42671222 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
42671163 TAAACAAATC
* * *
42671173 AATTATTAATATGAATAGTCGATTT
1 AATTATTAACATCAATAGCCGATTT
42671198 AATTATTAACATCACATAGCCGATT
1 AATTATTAACATCA-ATAGCCGATT
42671223 GTAACTTGGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 12 0.57
26 9 0.43
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (25 bp):
AATTATTAACATCAATAGCCGATTT
Found at i:42676531 original size:22 final size:22
Alignment explanation
Indices: 42676480--42676531 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
42676470 AAGGTCATAC
42676480 GCCCGTGTGGACACAGGGACAT
1 GCCCGTGTGGACACAGGGACAT
*
42676502 GCCAGTGTGGACACAGGGACACT
1 GCCCGTGTGGACACAGGGACA-T
42676525 -CCCGTGT
1 GCCCGTGT
42676532 CCTCAAGCTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 26 0.96
23 1 0.04
ACGTcount: A:0.21, C:0.29, G:0.35, T:0.15
Consensus pattern (22 bp):
GCCCGTGTGGACACAGGGACAT
Found at i:42677639 original size:25 final size:26
Alignment explanation
Indices: 42677598--42677650 Score: 99
Period size: 25 Copynumber: 2.1 Consensus size: 26
42677588 TACATCTCAA
42677598 AAGTATAAAAATAACAAAACATGAAG
1 AAGTATAAAAATAACAAAACATGAAG
42677624 AAGTAT-AAAATAACAAAACATGAAG
1 AAGTATAAAAATAACAAAACATGAAG
42677649 AA
1 AA
42677651 AACTCTAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 21 0.78
26 6 0.22
ACGTcount: A:0.66, C:0.08, G:0.11, T:0.15
Consensus pattern (26 bp):
AAGTATAAAAATAACAAAACATGAAG
Found at i:42679993 original size:6 final size:6
Alignment explanation
Indices: 42679965--42680033 Score: 79
Period size: 6 Copynumber: 11.7 Consensus size: 6
42679955 TATGTCTTTC
* * *
42679965 AAAAT- AAAATA ATAAATT GAAATG AAAATA AAAATA AAAATA AAAAT-
1 AAAATA AAAATA A-AAATA AAAATA AAAATA AAAATA AAAATA AAAATA
*
42680012 AAAATA AAAATA AGAATA AAAA
1 AAAATA AAAATA AAAATA AAAA
42680034 AAAGATAGGA
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
5 10 0.19
6 40 0.74
7 4 0.07
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (6 bp):
AAAATA
Found at i:42680019 original size:23 final size:24
Alignment explanation
Indices: 42679965--42680033 Score: 88
Period size: 23 Copynumber: 2.9 Consensus size: 24
42679955 TATGTCTTTC
**
42679965 AAAAT-AAAATAATAAATTGAAATG
1 AAAATAAAAATAA-AAATAAAAATG
42679989 AAAATAAAAATAAAAATAAAAAT-
1 AAAATAAAAATAAAAATAAAAATG
*
42680012 AAAATAAAAATAAGAATAAAAA
1 AAAATAAAAATAAAAATAAAAA
42680034 AAAGATAGGA
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
23 21 0.51
24 13 0.32
25 7 0.17
ACGTcount: A:0.77, C:0.00, G:0.04, T:0.19
Consensus pattern (24 bp):
AAAATAAAAATAAAAATAAAAATG
Found at i:42683252 original size:40 final size:40
Alignment explanation
Indices: 42683208--42683469 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
42683198 GCTCCTCGTT
* *
42683208 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
42683248 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
42683288 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
42683327 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
42683366 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
42683405 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
42683446 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
42683470 CATCATTCAA
Statistics
Matches: 205, Mismatches: 9, Indels: 17
0.89 0.04 0.07
Matches are distributed among these distances:
38 2 0.01
39 128 0.62
40 64 0.31
41 11 0.05
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:42691339 original size:79 final size:78
Alignment explanation
Indices: 42691237--42691459 Score: 272
Period size: 79 Copynumber: 2.8 Consensus size: 78
42691227 GCTCCTCGTT
* *
42691237 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
42691302 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
* *
42691317 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
*
42691381 ATTAGTATCTCGCA
65 ATTAGTAACTCGCA
* * * * *
42691395 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
42691458 GA
63 GA
42691460 CATCATTCAA
Statistics
Matches: 125, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
78 45 0.36
79 60 0.48
80 20 0.16
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:42691354 original size:39 final size:40
Alignment explanation
Indices: 42691237--42691459 Score: 280
Period size: 39 Copynumber: 5.7 Consensus size: 40
42691227 GCTCCTCGTT
* *
42691237 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
42691277 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
42691317 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
42691356 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * *
42691395 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAAC-TCGCA
42691436 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
42691460 CATCATTCAA
Statistics
Matches: 167, Mismatches: 10, Indels: 13
0.88 0.05 0.07
Matches are distributed among these distances:
38 2 0.01
39 88 0.53
40 67 0.40
41 10 0.06
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:42695415 original size:47 final size:47
Alignment explanation
Indices: 42695293--42695415 Score: 219
Period size: 47 Copynumber: 2.6 Consensus size: 47
42695283 GCCCATAAGT
*
42695293 GAACTCGGACTCAACTCAACGAGCTCGAATGCCTAGTTACATCTCTC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
*
42695340 GAACTCGGACTCAACTCAATGAGCTCGGATGCCTAGTTACATCTCTC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
*
42695387 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGCTCGGA
42695416 CATTCGTATC
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.23
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:42697892 original size:30 final size:29
Alignment explanation
Indices: 42697857--42697935 Score: 88
Period size: 29 Copynumber: 2.7 Consensus size: 29
42697847 CAAGAAAAAC
*
42697857 GAATAAAGAAATCCAAGATAGAGAAACCCA
1 GAATAAAGAAATCCAAGATAAAG-AACCCA
* *
42697887 GAATAAAGAGATCC-AGAATAAAGAATCCA
1 GAATAAAGAAATCCAAG-ATAAAGAACCCA
* *
42697916 GGATAAAGAAACCCAAGATA
1 GAATAAAGAAATCCAAGATA
42697936 CGATACTATG
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
29 21 0.51
30 20 0.49
ACGTcount: A:0.56, C:0.15, G:0.18, T:0.11
Consensus pattern (29 bp):
GAATAAAGAAATCCAAGATAAAGAACCCA
Found at i:42697904 original size:15 final size:15
Alignment explanation
Indices: 42697857--42697926 Score: 81
Period size: 15 Copynumber: 4.7 Consensus size: 15
42697847 CAAGAAAAAC
42697857 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
* *
42697872 -AGATAGAGAAACCCA
1 GA-ATAAAGAAATCCA
*
42697887 GAATAAAGAGATCCA
1 GAATAAAGAAATCCA
42697902 GAATAAAG-AATCCA
1 GAATAAAGAAATCCA
*
42697916 GGATAAAGAAA
1 GAATAAAGAAA
42697927 CCCAAGATAC
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
14 13 0.29
15 31 0.69
16 1 0.02
ACGTcount: A:0.57, C:0.13, G:0.19, T:0.11
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:42712640 original size:44 final size:44
Alignment explanation
Indices: 42712563--42712650 Score: 106
Period size: 44 Copynumber: 2.0 Consensus size: 44
42712553 ATTACATGTA
* * *
42712563 TCGCATCCATTATGAACTCGGACCAATTCAACGAGTTCAGATGC
1 TCGCATCCATTATGAACTCGGACCAACTCAACGAGCTCAAATGC
* * *
42712607 TCGCATCCA-TAGTGAACTTGGACTAACTGAACGAGCTCAAATGC
1 TCGCATCCATTA-TGAACTCGGACCAACTCAACGAGCTCAAATGC
42712651 CTCGTATATA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
43 2 0.05
44 35 0.95
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (44 bp):
TCGCATCCATTATGAACTCGGACCAACTCAACGAGCTCAAATGC
Found at i:42714237 original size:27 final size:27
Alignment explanation
Indices: 42714207--42714298 Score: 112
Period size: 27 Copynumber: 3.4 Consensus size: 27
42714197 ATTACCAAAG
* * *
42714207 TACCCTCAATTTATAAAATCACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * *
42714234 TACCCTTGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTGTTT
* *
42714261 TACCATCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
42714288 TACCCTCGATT
1 TACCCTCGATT
42714299 GTGAAATTAC
Statistics
Matches: 53, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTGTTT
Found at i:42714400 original size:27 final size:26
Alignment explanation
Indices: 42714288--42714525 Score: 113
Period size: 27 Copynumber: 8.8 Consensus size: 26
42714278 ATTACCGTTT
* *
42714288 TACCCTCGATTGTGAAATTACTGAAA
1 TACCCTCGATTGTAAAATTACTAAAA
* * * *
42714314 TACCC-CTATAGGGTAGAATTACCAAAA
1 TACCCTCGAT--TGTAAAATTACTAAAA
* *
42714341 TACCC-CTGATTTGTGAAATTACTGAAA
1 TACCCTC-GA-TTGTAAAATTACTAAAA
42714368 TACCCTCGACTTGTAAAATTACTAAAA
1 TACCCTCGA-TTGTAAAATTACTAAAA
* * ** *
42714395 TACCCTTAGTTTACAAAATTACCAAAA
1 TACCC-TCGATTGTAAAATTACTAAAA
* * * *
42714422 CACACCTGGTTTGTAAAATTACCAAAA
1 TAC-CCTCGATTGTAAAATTACTAAAA
* * **
42714449 GACACCT-GATTTGTGAAATTACCGAAA
1 TAC-CCTCGA-TTGTAAAATTACTAAAA
* * * * *
42714476 TACCCTTAGTTTGCAAAATTAATGAAA
1 TACCC-TCGATTGTAAAATTACTAAAA
42714503 TACCCTCGATTTGTAAAAATTAC
1 TACCCTCGA-TTGT-AAAATTAC
42714526 CAAAGTATCC
Statistics
Matches: 162, Mismatches: 38, Indels: 22
0.73 0.17 0.10
Matches are distributed among these distances:
25 3 0.02
26 10 0.06
27 134 0.83
28 14 0.09
29 1 0.01
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (26 bp):
TACCCTCGATTGTAAAATTACTAAAA
Found at i:42714415 original size:81 final size:79
Alignment explanation
Indices: 42714288--42714529 Score: 229
Period size: 81 Copynumber: 3.0 Consensus size: 79
42714278 ATTACCGTTT
** * * *
42714288 TACCCTCGATTGTGAAATTACTGAAATACCCCTATAGGGT-AGAATTACCAAAATACCCCTGATT
1 TACCCTCGATTGTGAAATTACTGAAATA-CCCT-TAGTTTCAAAATTACCAAAACACACCTGATT
* **
42714352 TGTGAAATTACTGAAA
64 TGTAAAATTACCAAAA
* * *
42714368 TACCCTCGACTTGTAAAATTACTAAAATACCCTTAGTTTACAAAATTACCAAAACACACCTGGTT
1 TACCCTCGA-TTGTGAAATTACTGAAATACCCTTAGTTT-CAAAATTACCAAAACACACCTGATT
42714433 TGTAAAATTACCAAAA
64 TGTAAAATTACCAAAA
* * *** *
42714449 GACACCT-GATTTGTGAAATTACCGAAATACCCTTAGTTTGCAAAATTAATGAAATAC-CCTCGA
1 TAC-CCTCGA-TTGTGAAATTACTGAAATACCCTTAGTTT-CAAAATTACCAAAACACACCT-GA
42714512 TTTGTAAAAATTACCAAA
62 TTTGT-AAAATTACCAAA
42714530 GTATCCTGAA
Statistics
Matches: 134, Mismatches: 22, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
79 4 0.03
80 16 0.12
81 99 0.74
82 15 0.11
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (79 bp):
TACCCTCGATTGTGAAATTACTGAAATACCCTTAGTTTCAAAATTACCAAAACACACCTGATTTG
TAAAATTACCAAAA
Found at i:42714488 original size:54 final size:52
Alignment explanation
Indices: 42714288--42714526 Score: 176
Period size: 54 Copynumber: 4.4 Consensus size: 52
42714278 ATTACCGTTT
* ** *
42714288 TACCCTCGA-TTGTGAAATTACTGAAATACCCCTA-TAGGGTAGAATTACCAAAA
1 TACCCT-GATTTGTGAAATTACCGAAATA-CCCTAGT-TTGTAAAATTACCAAAA
* * * *
42714341 TACCCCTGATTTGTGAAATTACTGAAATACCCTCGACTTGTAAAATTACTAAAA
1 TA-CCCTGATTTGTGAAATTACCGAAATACCCTAG-TTTGTAAAATTACCAAAA
* *** * * *
42714395 TACCCTTAGTTTACAAAATTACCAAAACACACCTGGTTTGTAAAATTACCAAAA
1 TACCCTGA-TTTGTGAAATTACCGAAATAC-CCTAGTTTGTAAAATTACCAAAA
* * ***
42714449 GACACCTGATTTGTGAAATTACCGAAATACCCTTAGTTTGCAAAATTAATGAAA
1 TAC-CCTGATTTGTGAAATTACCGAAATACCC-TAGTTTGTAAAATTACCAAAA
*
42714503 TACCCTCGATTTGTAAAAATTACC
1 TACCCT-GATTTGT-GAAATTACC
42714527 AAAGTATCCT
Statistics
Matches: 146, Mismatches: 30, Indels: 18
0.75 0.15 0.09
Matches are distributed among these distances:
53 18 0.12
54 112 0.77
55 16 0.11
ACGTcount: A:0.38, C:0.21, G:0.12, T:0.29
Consensus pattern (52 bp):
TACCCTGATTTGTGAAATTACCGAAATACCCTAGTTTGTAAAATTACCAAAA
Found at i:42714604 original size:27 final size:27
Alignment explanation
Indices: 42714581--42714661 Score: 117
Period size: 27 Copynumber: 3.0 Consensus size: 27
42714571 CAAAATTATT
42714581 GAAATACCCTTGTAGGGTAGAATTACC
1 GAAATACCCTTGTAGGGTAGAATTACC
* *
42714608 GAAATACCCCTATAGGGTAGAATTACC
1 GAAATACCCTTGTAGGGTAGAATTACC
* * *
42714635 GAGATACCCTTGTGGGGTAAAATTACC
1 GAAATACCCTTGTAGGGTAGAATTACC
42714662 ATTTTGCCCC
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 47 1.00
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (27 bp):
GAAATACCCTTGTAGGGTAGAATTACC
Found at i:42715308 original size:45 final size:46
Alignment explanation
Indices: 42715244--42715333 Score: 137
Period size: 45 Copynumber: 2.0 Consensus size: 46
42715234 CCCAGTATAT
* *
42715244 GTCGAGACAGAATAGGGCTTTGGCCCAGA-TGTACTGATATTGTGG
1 GTCGAGACAGAATAGGGCTTTGGCCCAGATTGTACTAATACTGTGG
**
42715289 GTCGAGATTGAATAGGGCTTTGGCCCAGATTGTACTAATACTGTG
1 GTCGAGACAGAATAGGGCTTTGGCCCAGATTGTACTAATACTGTG
42715334 TTATTCACTG
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
45 27 0.68
46 13 0.32
ACGTcount: A:0.24, C:0.16, G:0.31, T:0.29
Consensus pattern (46 bp):
GTCGAGACAGAATAGGGCTTTGGCCCAGATTGTACTAATACTGTGG
Found at i:42717425 original size:27 final size:27
Alignment explanation
Indices: 42717395--42717486 Score: 130
Period size: 27 Copynumber: 3.4 Consensus size: 27
42717385 ATTACCAAAG
* * * * *
42717395 TACCCTCAATTTATAGAATCACTATTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
42717422 TACCCTCGATTTACAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
42717449 TACCCTCGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
42717476 TACCCTCGATT
1 TACCCTCGATT
42717487 GTGAAATTAC
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.29, C:0.25, G:0.07, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTGTTT
Found at i:42717548 original size:27 final size:27
Alignment explanation
Indices: 42717518--42717744 Score: 237
Period size: 27 Copynumber: 8.4 Consensus size: 27
42717508 TTTAGGGTAG
* *
42717518 AATTACCAAAATACCCCTAATTTGTGA
1 AATTACCAAAATACCCCTGATTTGTAA
42717545 AATTACCAAAATACCCCTGATTTG-AGA
1 AATTACCAAAATACCCCTGATTTGTA-A
** * *
42717572 AATTACTGAAATACCCTTGACTTGTAA
1 AATTACCAAAATACCCCTGATTTGTAA
** * **
42717599 AATTACCAAAATACCATTGGTTTACAA
1 AATTACCAAAATACCCCTGATTTGTAA
*
42717626 AATTACCAAAATA-CCCTTATTTTGTAA
1 AATTACCAAAATACCCCTGA-TTTGTAA
*
42717653 AATTACCAAAATACCCCTGATTTGTGA
1 AATTACCAAAATACCCCTGATTTGTAA
*
42717680 AATTACCAAAATA-CCCTCAGTTTGTAA
1 AATTACCAAAATACCCCTGA-TTTGTAA
**
42717707 AATTACTGAAATA-CCCTCGATTTGTAAA
1 AATTACCAAAATACCCCT-GATTTGT-AA
42717735 AATTACCAAA
1 AATTACCAAA
42717745 GTATCCTGGA
Statistics
Matches: 165, Mismatches: 28, Indels: 13
0.80 0.14 0.06
Matches are distributed among these distances:
26 7 0.04
27 141 0.85
28 17 0.10
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCCTGATTTGTAA
Found at i:42717557 original size:54 final size:51
Alignment explanation
Indices: 42717485--42717723 Score: 160
Period size: 54 Copynumber: 4.5 Consensus size: 51
42717475 TTACCCTCGA
* ** *
42717485 TTGTGAAATTACTGAAATACTCCTTTAGGGTAGAATTACCAAAATACCCCTAAT
1 TTGTAAAATTACCAAAATAC-CCTTT-GGGTA-AATTACCAAAATACCCTTAAT
* * ** * *
42717539 TTGTGAAATTACCAAAATACCCCTGATTTGAG-AAATTACTGAAATACCCTTGAC
1 TTGTAAAATTACCAAAATA-CCC---TTTGGGTAAATTACCAAAATACCCTTAAT
* * *
42717593 TTGTAAAATTACCAAAATA-CCATTGGTTTACAAAATTACCAAAATACCCTTATT
1 TTGTAAAATTACCAAAATACCCTTTGG-GT---AAATTACCAAAATACCCTTAAT
* * *
42717647 TTGTAAAATTACCAAAATACCCCTGATT-TGTGAAATTACCAAAATACCCTCAGT
1 TTGTAAAATTACCAAAATA-CCCT--TTGGGT-AAATTACCAAAATACCCTTAAT
**
42717701 TTGTAAAATTACTGAAATACCCT
1 TTGTAAAATTACCAAAATACCCT
42717724 CGATTTGTAA
Statistics
Matches: 147, Mismatches: 25, Indels: 27
0.74 0.13 0.14
Matches are distributed among these distances:
49 3 0.02
52 2 0.01
53 4 0.03
54 126 0.86
55 2 0.01
56 5 0.03
57 3 0.02
58 2 0.01
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (51 bp):
TTGTAAAATTACCAAAATACCCTTTGGGTAAATTACCAAAATACCCTTAAT
Found at i:42717604 original size:81 final size:80
Alignment explanation
Indices: 42717476--42717740 Score: 252
Period size: 81 Copynumber: 3.3 Consensus size: 80
42717466 ATTACTGTTT
* ** * *
42717476 TACCCTCGA-TTGT-GAAATTACTGAAATACTCCTTTAGGGTAGAATTACCAAAATACCCCTAAT
1 TACCCT-GATTTGTAGAAATTACTGAAATAC-CCTTGATTGTAAAATTACCAAAATACCCCTAGT
*
42717539 TTGTGAAATTACCAAAA
64 TTGTAAAATTACCAAAA
** *
42717556 TACCCCTGATTTG-AGAAATTACTGAAATACCCTTGACTTGTAAAATTACCAAAATACCATTGGT
1 TA-CCCTGATTTGTAGAAATTACTGAAATACCCTTGA-TTGTAAAATTACCAAAATACCCCTAGT
**
42717620 TTACAAAATTACCAAAA
64 TTGTAAAATTACCAAAA
* ** * *
42717637 TACCCTTATTTTGTA-AAATTACCAAAATACCCCTGATTTGTGAAATTACCAAAATA-CCCTCAG
1 TACCCTGA-TTTGTAGAAATTACTGAAATACCCTTGA-TTGTAAAATTACCAAAATACCCCT-AG
**
42717700 TTTGTAAAATTACTGAAA
63 TTTGTAAAATTACCAAAA
*
42717718 TACCCTCGATTTGTAAAAATTAC
1 TACCCT-GATTTGTAGAAATTAC
42717741 CAAAGTATCC
Statistics
Matches: 151, Mismatches: 25, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
80 16 0.11
81 126 0.83
82 9 0.06
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.31
Consensus pattern (80 bp):
TACCCTGATTTGTAGAAATTACTGAAATACCCTTGATTGTAAAATTACCAAAATACCCCTAGTTT
GTAAAATTACCAAAA
Found at i:42717819 original size:27 final size:27
Alignment explanation
Indices: 42717796--42717956 Score: 198
Period size: 27 Copynumber: 6.0 Consensus size: 27
42717786 CAAAATTATT
42717796 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
42717823 AAAATACCCCTATAGGCTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
*
42717850 GAAATACCCCTGTAGGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
42717877 GAAATACCCTTATAGGATAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
42717904 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
42717931 GAGATA-CCCTAGTGGGGTAAAATTAC
1 GAAATACCCCT-GTAGGGTAGAATTAC
42717957 TATTTTGCCC
Statistics
Matches: 112, Mismatches: 21, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
26 4 0.04
27 108 0.96
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.24
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACC
Found at i:42719146 original size:10 final size:10
Alignment explanation
Indices: 42719131--42719165 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
42719121 ATTATTCTTA
*
42719131 TTTTTTTTAT
1 TTTTTTTTCT
*
42719141 TTTTTTCTCT
1 TTTTTTTTCT
42719151 TTTTTTTTCT
1 TTTTTTTTCT
42719161 TTTTT
1 TTTTT
42719166 CTAAATTGGG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.03, C:0.09, G:0.00, T:0.89
Consensus pattern (10 bp):
TTTTTTTTCT
Found at i:42719155 original size:19 final size:19
Alignment explanation
Indices: 42719131--42719167 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
42719121 ATTATTCTTA
42719131 TTTTTTTTAT-TTTTTTCTC
1 TTTTTTTT-TCTTTTTTCTC
42719150 TTTTTTTTTCTTTTTTCT
1 TTTTTTTTTCTTTTTTCT
42719168 AAATTGGGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 1 0.06
19 16 0.94
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.86
Consensus pattern (19 bp):
TTTTTTTTTCTTTTTTCTC
Found at i:42721166 original size:55 final size:54
Alignment explanation
Indices: 42721071--42721220 Score: 149
Period size: 55 Copynumber: 2.8 Consensus size: 54
42721061 CTACTTTGTT
* ** * *
42721071 GCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAATGTGCGAGTTGACTAT-ATAGCACTAAGTGTGCGAATTGACCACGCG
* * * * ** *
42721125 GCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAATGTGCGAG-TTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
* *
42721180 GCACTAAATGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCG
42721221 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 37 0.47
55 42 0.53
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
Found at i:42721183 original size:27 final size:27
Alignment explanation
Indices: 42721043--42721220 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
42721033 TAAATTGTAC
42721043 AGCACTAAGTGTGCGATTCT-ACTT-TGT
1 AGCACTAAGTGTGCGATT-TGA-TTATGT
* ** *
42721070 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
42721096 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* * *
42721124 GGCACTAAGTGTGCGGGTTTGACTATGT
1 AGCACTAAGTGTGC-GATTTGATTATGT
*
42721152 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* * * *
42721179 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
42721206 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
42721221 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 97 0.80
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:42721184 original size:82 final size:81
Alignment explanation
Indices: 42721044--42721199 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 81
42721034 AAATTGTACA
* * * *
42721044 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
42721109 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
42721125 GCACTAAGTGTGCGGGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAA
1 GCACTAAGTGTGC-GATTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAA
*
42721188 TGTGCGAGTTGA
63 TGTGCGAATTGA
42721200 TTATATAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Found at i:42729178 original size:55 final size:54
Alignment explanation
Indices: 42729083--42729232 Score: 149
Period size: 55 Copynumber: 2.8 Consensus size: 54
42729073 CTACTTTGTT
* ** * *
42729083 GCACTAAGTGTGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAATGTGCGAGTTGACTAT-ATAGCACTAAGTGTGCGAATTGACCACGCG
* * * * ** *
42729137 GCACTAAGTGTGCGGGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAATGTGCGAG-TTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
* *
42729192 GCACTAAATGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCG
42729233 GGCTCAATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
54 37 0.47
55 42 0.53
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.29
Consensus pattern (54 bp):
GCACTAAATGTGCGAGTTGACTATATAGCACTAAGTGTGCGAATTGACCACGCG
Found at i:42729195 original size:27 final size:27
Alignment explanation
Indices: 42729055--42729232 Score: 146
Period size: 27 Copynumber: 6.6 Consensus size: 27
42729045 TAAATTGTAC
42729055 AGCACTAAGTGTGCGATTCT-ACTT-TGT
1 AGCACTAAGTGTGCGATT-TGA-TTATGT
* ** *
42729082 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGATTATGT
* ** *
42729108 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGATTATGT
* * *
42729136 GGCACTAAGTGTGCGGGTTTGACTATGT
1 AGCACTAAGTGTGC-GATTTGATTATGT
*
42729164 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGATTATGT
* * * *
42729191 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGATTATGT
*
42729218 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
42729233 GGCTCAATAT
Statistics
Matches: 121, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
26 2 0.02
27 97 0.80
28 22 0.18
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGATTATGT
Found at i:42729196 original size:82 final size:81
Alignment explanation
Indices: 42729056--42729211 Score: 190
Period size: 82 Copynumber: 1.9 Consensus size: 81
42729046 AAATTGTACA
* * * *
42729056 GCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAAGTGT
1 GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
42729121 GCGAATTGACCATGCG
66 GCGAATTGACCATGCG
* ** *
42729137 GCACTAAGTGTGCGGGTT-TGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACTAAA
1 GCACTAAGTGTGC-GATTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACTAAA
*
42729200 TGTGCGAGTTGA
63 TGTGCGAATTGA
42729212 TTATATAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
81 15 0.24
82 48 0.76
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAAATGT
GCGAATTGACCATGCG
Done.