Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 132 of 325
Found at i:42224827 original size:29 final size:30
Alignment explanation
Indices: 42224788--42224866 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
42224778 CTTAATAATC
42224788 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
42224818 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
42224847 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
42224867 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:42247058 original size:39 final size:41
Alignment explanation
Indices: 42246957--42247140 Score: 206
Period size: 39 Copynumber: 4.6 Consensus size: 41
42246947 TTGAATGATG
* *
42246957 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAATA
*
42246997 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAATA
*
42247037 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
* *
42247076 TCCGGGTTAAGTCCCGAAGGCA-TTGTGCGAGTTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
* *
42247115 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
42247141 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 9, Indels: 18
0.82 0.06 0.12
Matches are distributed among these distances:
38 1 0.01
39 69 0.55
40 43 0.34
41 12 0.10
42 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAATA
Found at i:42247093 original size:79 final size:80
Alignment explanation
Indices: 42246957--42247140 Score: 225
Period size: 79 Copynumber: 2.3 Consensus size: 80
42246947 TTGAATGATG
*
42246957 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCA-T
42247021 TGTGCGAGATACTA-A
65 TGTGCGAGATACTATA
* * * **
42247036 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
42247098 TTGTGCGAGTTACTATA
64 TTGTGCGAGATACTATA
* *
42247115 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
42247141 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 9, Indels: 9
0.83 0.08 0.08
Matches are distributed among these distances:
78 24 0.26
79 49 0.54
80 18 0.20
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
GTGCGAGATACTATA
Found at i:42247163 original size:78 final size:79
Alignment explanation
Indices: 42247010--42247173 Score: 201
Period size: 78 Copynumber: 2.1 Consensus size: 79
42247000 GGACTAAGAT
* **
42247010 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
42247075 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
42247089 CCGAAGGCA-TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
42247151 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
42247167 CCGAAGG
1 CCGAAGG
42247174 TACGTGATTT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
77 2 0.03
78 38 0.51
79 34 0.46
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:42254881 original size:41 final size:41
Alignment explanation
Indices: 42254728--42254874 Score: 187
Period size: 39 Copynumber: 3.7 Consensus size: 41
42254718 AAGTGACCAT
* *
42254728 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAG-ATACTAA
1 ATCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTTACTAA
*
42254768 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAG-TTACTAA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTTACTAA
* *
42254807 ATCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTTACTATA
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTTACTA-A
*
42254849 A-CCGGGCTATGTCCCGAAGGCATTTG
1 ATCCGGGCTAAGTCCCGAAGGCATTTG
42254875 AACGAGTAGC
Statistics
Matches: 94, Mismatches: 9, Indels: 7
0.85 0.08 0.06
Matches are distributed among these distances:
39 35 0.37
40 29 0.31
41 28 0.30
42 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (41 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTTACTAA
Found at i:42254895 original size:79 final size:79
Alignment explanation
Indices: 42254742--42254906 Score: 185
Period size: 79 Copynumber: 2.1 Consensus size: 79
42254732 GGACTAAGAT
* * **
42254742 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
42254807 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
42254821 CCGAAGGCAATTGTGCGAGTTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAG
1 CCGAAGGCAATTGTGCGAG-ATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-
* *
42254884 CTATAT-C-GGTTAAATT
62 CTAAATCCGGGTTAAATC
42254900 CCGAAGG
1 CCGAAGG
42254907 TACGTGATTT
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
79 34 0.47
80 16 0.22
81 23 0.32
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:42261593 original size:17 final size:16
Alignment explanation
Indices: 42261567--42261606 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
42261557 TTAAATCAAG
42261567 AAAAAACAAAAACAAA
1 AAAAAACAAAAACAAA
*
42261583 AAAAAACCAAAAAGAAA
1 AAAAAA-CAAAAACAAA
42261600 AAGAAAA
1 AA-AAAA
42261607 AGTAAACGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 6 0.29
17 11 0.52
18 4 0.19
ACGTcount: A:0.85, C:0.10, G:0.05, T:0.00
Consensus pattern (16 bp):
AAAAAACAAAAACAAA
Found at i:42262100 original size:42 final size:42
Alignment explanation
Indices: 42262033--42262490 Score: 524
Period size: 42 Copynumber: 10.9 Consensus size: 42
42262023 AAATTAATTG
* *
42262033 CATTTAGAGGCCTAGGTGTGTAGGTCCATTTACTTTTCATTA
1 CATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTCATTA
* * *
42262075 CATTTAGAGGCCCAGATGTGGAGGTCAATTTACTTTTCATTG
1 CATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTCATTA
* * * * * *
42262117 CATTTAAAGTCCTAGGTGTGAAGGTCCATTCACTTTTCAATA
1 CATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTCATTA
* * * *
42262159 CATTTAGAGGCACAAGTGTGGAGGTCCATTTACTTTTCAATG
1 CATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTCATTA
* * * *
42262201 CATTTAGAGGCCCAGGTGTTGTGGTTCATTAACTTTTCATTA
1 CATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTCATTA
* * * *
42262243 CATTTAGAGACCCAGGTGTGGAGGTTCATTCACTTTTCATTG
1 CATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTCATTA
* * * * *
42262285 CATTTAGAGGCCCAAGTATGGGGGCCCATTTACTTTTCATTG
1 CATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTCATTA
* * *
42262327 TATTTAGAGACCCAGGTGTAGAGGTCCATTTACTTTTCATTA
1 CATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTCATTA
* * * *
42262369 CATTTAGAGGCCTAGGTATTGAGGTCAATTCT-CTTTTCATTA
1 CATTTAGAGGCCCAGGTGTGGAGGTCCATT-TACTTTTCATTA
* * *
42262411 CATTTAGAGACCCAGGTGTGGAGGTCC-TCTGACTTTTCATTG
1 CATTTAGAGGCCCAGGTGTGGAGGTCCAT-TTACTTTTCATTA
**
42262453 CATTTAGAAACCCAGGTGTGGAGGTCCATTTACTTTTC
1 CATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTC
42262491 TAGTTTACAT
Statistics
Matches: 347, Mismatches: 65, Indels: 8
0.83 0.15 0.02
Matches are distributed among these distances:
41 1 0.00
42 344 0.99
43 2 0.01
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.36
Consensus pattern (42 bp):
CATTTAGAGGCCCAGGTGTGGAGGTCCATTTACTTTTCATTA
Found at i:42263249 original size:22 final size:23
Alignment explanation
Indices: 42263221--42263276 Score: 103
Period size: 23 Copynumber: 2.4 Consensus size: 23
42263211 TAAAGGTTTC
42263221 TTTAAAAAAAGTTTGGTTTTTTT
1 TTTAAAAAAAGTTTGGTTTTTTT
*
42263244 TTAAAAAAAAGTTTGGTTTTTTT
1 TTTAAAAAAAGTTTGGTTTTTTT
42263267 TTTAAAAAAA
1 TTTAAAAAAA
42263277 AAAGAGAAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (23 bp):
TTTAAAAAAAGTTTGGTTTTTTT
Found at i:42263254 original size:23 final size:24
Alignment explanation
Indices: 42263224--42263277 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
42263214 AGGTTTCTTT
42263224 AAAAAAAGTTTGG-TTTTTTTTTA
1 AAAAAAAGTTTGGTTTTTTTTTTA
42263247 AAAAAAAGTTTGGTTTTTTTTTTA
1 AAAAAAAGTTTGGTTTTTTTTTTA
42263271 AAAAAAA
1 AAAAAAA
42263278 AAGAGAAAGT
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 13 0.43
24 17 0.57
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (24 bp):
AAAAAAAGTTTGGTTTTTTTTTTA
Found at i:42263641 original size:157 final size:153
Alignment explanation
Indices: 42263263--42263716 Score: 469
Period size: 157 Copynumber: 2.9 Consensus size: 153
42263253 AGTTTGGTTT
* * * * *
42263263 TTTTTTTAAAAAAAAA-AGA-GAAAGTTTAGATTTTAACAAATAAAGGTATGTGTTTTTTTAGTT
1 TTTTTTTAAAAAAAAAGAAAGGAAAGTTTAGATTTTGA-AAATAAA--AATATGTTTTTTTAGTC
* * ** *
42263326 ATTTTAAAGGAAAGTTT-AAATTTTAAAAAAAATTATT-TTTTTTTCAACTATTTTAAAGTAAAA
63 ATTTTAAAGGAAAGTTTAAAATTTTAAAAAAAATT-TTGATTTTTTCAACTACTCCAAAATAAAA
*
42263389 GCTTTGATCTTTAAGAAAAATAGTGTT
127 GCTTTGATCTTTAAGAAAAATAGTGTA
* * *
42263416 TTTTTTTAAATAAAATG--A-GAAAGTTTAGTTTTTGAAAATTAAAAATATGTTTTTTTTAGTCA
1 TTTTTTTAAAAAAAAAGAAAGGAAAGTTTAGATTTTGAAAA-TAAAAATATG-TTTTTTTAGTCA
* * *
42263478 TTTTAAAGGGAAGTTTAAAATTTTAAAACAAAGTTTTGATTTTTTCAACTACTCCAAAATTAAAG
64 TTTTAAAGGAAAGTTTAAAATTTTAAAA-AAAATTTTGATTTTTTCAACTACTCCAAAATAAAAG
*
42263543 CTTT-ATTTTTTAAGAAAAATAGTG-A
128 CTTTGA-TCTTTAAGAAAAATAGTGTA
* *
42263568 TTTTTTTAACAAAAAAAGAAAGCGAAAGCTTAGATTTTGGAAAATAAAAATTTGTTTTTTTAAGT
1 TTTTTTTAA-AAAAAAAGAAAG-GAAAGTTTAGATTTT-GAAAATAAAAATATGTTTTTTT-AGT
* * * * *
42263633 CATTTTAAAGGAAAGTTTAAAATTTTAAAATAAATTTTTGATTTTTTTAACTATTTCGAAAT-AA
62 CATTTTAAAGGAAAGTTTAAAATTTTAAAA-AAAATTTTGATTTTTTCAACTACTCCAAAATAAA
* * *
42263697 GGTTTTGATTTTTAAGAAAA
126 AGCTTTGATCTTTAAGAAAA
42263717 TTAATAATTT
Statistics
Matches: 255, Mismatches: 31, Indels: 27
0.81 0.10 0.09
Matches are distributed among these distances:
150 4 0.02
151 29 0.11
152 43 0.17
153 67 0.26
155 1 0.00
156 25 0.10
157 81 0.32
158 5 0.02
ACGTcount: A:0.41, C:0.04, G:0.12, T:0.43
Consensus pattern (153 bp):
TTTTTTTAAAAAAAAAGAAAGGAAAGTTTAGATTTTGAAAATAAAAATATGTTTTTTTAGTCATT
TTAAAGGAAAGTTTAAAATTTTAAAAAAAATTTTGATTTTTTCAACTACTCCAAAATAAAAGCTT
TGATCTTTAAGAAAAATAGTGTA
Found at i:42263682 original size:30 final size:31
Alignment explanation
Indices: 42263648--42263709 Score: 72
Period size: 31 Copynumber: 2.0 Consensus size: 31
42263638 TAAAGGAAAG
* *
42263648 TTTAA-AATTTTAAAATAAATTTTTGATTTT
1 TTTAACAATTTCAAAATAAAGTTTTGATTTT
* * *
42263678 TTTAACTATTTCGAAATAAGGTTTTGATTTT
1 TTTAACAATTTCAAAATAAAGTTTTGATTTT
42263709 T
1 T
42263710 AAGAAAATTA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
30 5 0.19
31 21 0.81
ACGTcount: A:0.34, C:0.03, G:0.08, T:0.55
Consensus pattern (31 bp):
TTTAACAATTTCAAAATAAAGTTTTGATTTT
Found at i:42267014 original size:31 final size:30
Alignment explanation
Indices: 42266951--42267014 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
42266941 TTTTCGAGCC
*
42266951 TAGGGGCAAAATCATAATTTTGCAAAGGTT
1 TAGGGGCAAAATCATAATTTTCCAAAGGTT
** *
42266981 TAGGGGCAAAATTGTAATTTTTCCAAAGTTT
1 TAGGGGCAAAATCATAA-TTTTCCAAAGGTT
42267012 TAG
1 TAG
42267015 TTATGGAATG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 15 0.52
31 14 0.48
ACGTcount: A:0.34, C:0.09, G:0.22, T:0.34
Consensus pattern (30 bp):
TAGGGGCAAAATCATAATTTTCCAAAGGTT
Found at i:42267715 original size:45 final size:45
Alignment explanation
Indices: 42267647--42267762 Score: 196
Period size: 45 Copynumber: 2.6 Consensus size: 45
42267637 AAGGATACCA
*
42267647 TGTAAGACCATGTCAAGACATGGCATTGGTAAGGCAAGAATCCTG
1 TGTAAGACCATGTCAAGACATGGCATTGGTAAGGCAAGAATCCCG
* *
42267692 TGTCAGACCATGTCAAGACATGGCATTGGTAAGGCAAGGATCCCG
1 TGTAAGACCATGTCAAGACATGGCATTGGTAAGGCAAGAATCCCG
*
42267737 TGTAAGACCATGTCAATACATGGCAT
1 TGTAAGACCATGTCAAGACATGGCAT
42267763 CGGCATTAAT
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 66 1.00
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.22
Consensus pattern (45 bp):
TGTAAGACCATGTCAAGACATGGCATTGGTAAGGCAAGAATCCCG
Found at i:42267874 original size:47 final size:47
Alignment explanation
Indices: 42267816--42267931 Score: 205
Period size: 47 Copynumber: 2.5 Consensus size: 47
42267806 GCATTTGCAC
*
42267816 TAAGACAAGGATACCATGTGAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
42267863 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
* *
42267910 TAAGATAAGGATATCATGTAAG
1 TAAGACAAGGATACCATGTAAG
42267932 CAAGGCTGGC
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 66 1.00
ACGTcount: A:0.35, C:0.13, G:0.26, T:0.26
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
Found at i:42268116 original size:53 final size:54
Alignment explanation
Indices: 42267938--42268115 Score: 198
Period size: 55 Copynumber: 3.3 Consensus size: 54
42267928 TAAGCAAGGC
* * *
42267938 TGGCATTGATAAGTTCTATAAGGTAAGGAAATCATGTAAGACCATGTCAAGACA
1 TGGCATTGATAAGTTCTATAAGGCAAGGATACCATGTAAGACCATGTCAAGACA
* * * *
42267992 TGGCATTGATGAGTTACTATAAGGCAAAGG-TCCCATGTAAGACCATGCCAAGGCA
1 TGGCATTGATAAGTT-CTATAAGGC-AAGGATACCATGTAAGACCATGTCAAGACA
* * * * *
42268047 TGGCATTGGTGAGTTC-ATAAGGCAAGGATACCACGTAAAACCATATCAAGACA
1 TGGCATTGATAAGTTCTATAAGGCAAGGATACCATGTAAGACCATGTCAAGACA
* *
42268100 TGGCAATGGTAAGTTC
1 TGGCATTGATAAGTTC
42268116 AAAAAGGAAA
Statistics
Matches: 105, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
52 4 0.04
53 40 0.38
54 15 0.14
55 42 0.40
56 4 0.04
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (54 bp):
TGGCATTGATAAGTTCTATAAGGCAAGGATACCATGTAAGACCATGTCAAGACA
Found at i:42270260 original size:21 final size:21
Alignment explanation
Indices: 42270234--42270278 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
42270224 CATGTTTCAA
42270234 TTGCTTTAACTTATTAATTCC
1 TTGCTTTAACTTATTAATTCC
42270255 TTGCTTTAACTTATTAATTCC
1 TTGCTTTAACTTATTAATTCC
42270276 TTG
1 TTG
42270279 AATCATAGAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.22, C:0.18, G:0.07, T:0.53
Consensus pattern (21 bp):
TTGCTTTAACTTATTAATTCC
Found at i:42272443 original size:14 final size:14
Alignment explanation
Indices: 42272424--42272450 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
42272414 TGCTTTTATT
42272424 TTTATTTTTATTCG
1 TTTATTTTTATTCG
42272438 TTTATTTTTATTC
1 TTTATTTTTATTC
42272451 CCACAACAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.07, G:0.04, T:0.74
Consensus pattern (14 bp):
TTTATTTTTATTCG
Found at i:42275458 original size:15 final size:15
Alignment explanation
Indices: 42275438--42275467 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
42275428 ATGAAAATAT
*
42275438 ATTTGAATGAGTTTA
1 ATTTGAATAAGTTTA
42275453 ATTTGAATAAGTTTA
1 ATTTGAATAAGTTTA
42275468 GATCACGAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.17, T:0.47
Consensus pattern (15 bp):
ATTTGAATAAGTTTA
Found at i:42276029 original size:56 final size:56
Alignment explanation
Indices: 42275933--42276140 Score: 326
Period size: 56 Copynumber: 3.7 Consensus size: 56
42275923 GAAGTATATG
* * *
42275933 TGGCATCGATATGTGATTCTGATATATGTGTGCGATTAAGTCCACGTTTCATACAT
1 TGGCATCGATATGTGATTCCGATATATGTGTGCGAGTAAGTCCACGTTTCATACGT
* * *
42275989 TGGCTTCGATATGTGATTCCGATATATGTGTACGAGTAAGTCCATGTTTCATACGT
1 TGGCATCGATATGTGATTCCGATATATGTGTGCGAGTAAGTCCACGTTTCATACGT
* * *
42276045 TTGCATCGATATGAGATTCCGATATATGTGTGCGAGTAAGTCCACATTTCATACGT
1 TGGCATCGATATGTGATTCCGATATATGTGTGCGAGTAAGTCCACGTTTCATACGT
*
42276101 TGGCATCGATATGTGATTCCGATATATGTGTGTGAGTAAG
1 TGGCATCGATATGTGATTCCGATATATGTGTGCGAGTAAG
42276141 ACCCTCTTTG
Statistics
Matches: 137, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
56 137 1.00
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.36
Consensus pattern (56 bp):
TGGCATCGATATGTGATTCCGATATATGTGTGCGAGTAAGTCCACGTTTCATACGT
Found at i:42276163 original size:112 final size:111
Alignment explanation
Indices: 42275932--42276174 Score: 333
Period size: 112 Copynumber: 2.2 Consensus size: 111
42275922 GGAAGTATAT
* * * *
42275932 GTGGCATCGATATGTGATTCTGATATATGTGTGCGATTAAGTCCACGTTTCATACATTGGCTTCG
1 GTGGCATCGATATGTGATTCCGATATATGTGTGCGAGTAAGTCCACATTTCATACATTGGCATCG
* * *
42275997 ATATGTGATTCCGATATATGTGTACGAGTAAGTCCATGTTTCATAC
66 ATATGTGATTCCGATATATGTGTACGAGTAAGACCATCTTTCAGAC
* * *
42276043 GTTTGCATCGATATGAGATTCCGATATATGTGTGCGAGTAAGTCCACATTTCATACGTTGGCATC
1 G-TGGCATCGATATGTGATTCCGATATATGTGTGCGAGTAAGTCCACATTTCATACATTGGCATC
** * **
42276108 GATATGTGATTCCGATATATGTGTGTGAGTAAGACCCTCTTTGGGAC
65 GATATGTGATTCCGATATATGTGTACGAGTAAGACCATCTTTCAGAC
42276155 AGTGGCATCGATATGTGATT
1 -GTGGCATCGATATGTGATT
42276175 ACATGTAAGA
Statistics
Matches: 113, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
111 1 0.01
112 111 0.98
113 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.35
Consensus pattern (111 bp):
GTGGCATCGATATGTGATTCCGATATATGTGTGCGAGTAAGTCCACATTTCATACATTGGCATCG
ATATGTGATTCCGATATATGTGTACGAGTAAGACCATCTTTCAGAC
Found at i:42282347 original size:29 final size:29
Alignment explanation
Indices: 42282280--42282337 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
42282270 AAAGTAAATT
42282280 ACAAATTGATATTGAAAATGAAAATAATC
1 ACAAATTGATATTGAAAATGAAAATAATC
42282309 ACAAATTGATATTGAAAATGAAAATAATC
1 ACAAATTGATATTGAAAATGAAAATAATC
42282338 TATGTTTGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.55, C:0.07, G:0.10, T:0.28
Consensus pattern (29 bp):
ACAAATTGATATTGAAAATGAAAATAATC
Found at i:42282694 original size:56 final size:56
Alignment explanation
Indices: 42282608--42282872 Score: 379
Period size: 56 Copynumber: 4.7 Consensus size: 56
42282598 GAAGTATATG
* * *
42282608 TGGCATTGATATGTGATTCCGATATATGTGTGCGAGTAA-TTACACGTTTCATACGT
1 TGGCATCGATATGTGATTCTGATATATGTGTGCGAGTAAGTCA-ACGTTTCATACGT
* *
42282664 TGGCATCGATATGTGATTCCGATATATGTGTGCGAGTAAGTCTACGTTTCATACGT
1 TGGCATCGATATGTGATTCTGATATATGTGTGCGAGTAAGTCAACGTTTCATACGT
* *
42282720 TGGCATCGAAATGTGATTCTGATATATGCGTGCGAGTAAGTCAACGTTTCATACGT
1 TGGCATCGATATGTGATTCTGATATATGTGTGCGAGTAAGTCAACGTTTCATACGT
* * * * *
42282776 TAGCATCGATATATGATTCTAATATATGTGTACGAGTAAGTCCACGTTTCATACGT
1 TGGCATCGATATGTGATTCTGATATATGTGTGCGAGTAAGTCAACGTTTCATACGT
* *
42282832 TGGCATCGATATGTGATTTTTGATATATGTGTGTGAGTAAG
1 TGGCATCGATATGTGA-TTCTGATATATGTGTGCGAGTAAG
42282873 ACCCTGTCTG
Statistics
Matches: 187, Mismatches: 20, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
56 166 0.89
57 21 0.11
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (56 bp):
TGGCATCGATATGTGATTCTGATATATGTGTGCGAGTAAGTCAACGTTTCATACGT
Found at i:42283270 original size:56 final size:56
Alignment explanation
Indices: 42283184--42283303 Score: 213
Period size: 56 Copynumber: 2.1 Consensus size: 56
42283174 ACAAGGGATG
*
42283184 ATGGGCAAAACATGTCCTAAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATAAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
* *
42283240 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATAAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
42283296 ATGGGCAA
1 ATGGGCAA
42283304 TAAACTAATA
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 61 1.00
ACGTcount: A:0.45, C:0.10, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATAAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:42284567 original size:79 final size:81
Alignment explanation
Indices: 42284431--42284613 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
42284421 TCGAATGATG
* *
42284431 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
42284495 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
42284510 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
42284572 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
42284590 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
42284614 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:42284629 original size:40 final size:40
Alignment explanation
Indices: 42284432--42284615 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
42284422 CGAATGATGT
* * * *
42284432 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
42284472 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
42284512 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
42284550 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
42284591 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
42284616 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:42284637 original size:79 final size:79
Alignment explanation
Indices: 42284484--42284648 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
42284474 GGACTAAGAT
* **
42284484 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
42284549 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
42284563 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
42284626 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
42284642 CCGAAGG
1 CCGAAGG
42284649 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:42291172 original size:56 final size:56
Alignment explanation
Indices: 42291086--42291205 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
42291076 ACAAGGGATG
42291086 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
42291142 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
42291198 ATGGGCAA
1 ATGGGCAA
42291206 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:42292469 original size:79 final size:81
Alignment explanation
Indices: 42292333--42292515 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
42292323 TCGAATGATG
* *
42292333 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
42292397 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
42292412 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
42292474 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
42292492 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
42292516 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:42292531 original size:40 final size:40
Alignment explanation
Indices: 42292334--42292517 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
42292324 CGAATGATGT
* * * *
42292334 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
42292374 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
42292414 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
42292452 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
42292493 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
42292518 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:42292539 original size:79 final size:79
Alignment explanation
Indices: 42292386--42292550 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
42292376 GGACTAAGAT
* **
42292386 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
42292451 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
42292465 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
42292528 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
42292544 CCGAAGG
1 CCGAAGG
42292551 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:42299095 original size:14 final size:14
Alignment explanation
Indices: 42299076--42299102 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
42299066 CACAATCGAT
42299076 AAAATTTTCATATC
1 AAAATTTTCATATC
42299090 AAAATTTTCATAT
1 AAAATTTTCATAT
42299103 GACCTTCCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (14 bp):
AAAATTTTCATATC
Found at i:42305910 original size:43 final size:43
Alignment explanation
Indices: 42305791--42305910 Score: 111
Period size: 43 Copynumber: 2.8 Consensus size: 43
42305781 CGTACCAACT
** *
42305791 CCATATCCCAAATATGGTCTTACTTGTGAA-CTCATATCGATG
1 CCATATCCCAAATATGGTCTTACACGTAAATCTCATATCGATG
* * ** ** *
42305833 CCAATAGCCTAGCTATCATCCTACAC--AAAGTCTCATATCGATG
1 CC-ATATCCCAAATATGGTCTTACACGTAAA-TCTCATATCGATG
42305876 CCATATCCCAAATATGGTCTTACACGTAAATCTCA
1 CCATATCCCAAATATGGTCTTACACGTAAATCTCA
42305911 ATAACCCTAA
Statistics
Matches: 56, Mismatches: 17, Indels: 9
0.68 0.21 0.11
Matches are distributed among these distances:
41 2 0.04
42 18 0.32
43 33 0.59
44 3 0.05
ACGTcount: A:0.32, C:0.28, G:0.12, T:0.29
Consensus pattern (43 bp):
CCATATCCCAAATATGGTCTTACACGTAAATCTCATATCGATG
Found at i:42312920 original size:43 final size:43
Alignment explanation
Indices: 42312873--42312987 Score: 135
Period size: 43 Copynumber: 2.7 Consensus size: 43
42312863 TGTGATTGCA
* *
42312873 TGTAAGACCATGTTTGGGACATTGGCATTG-TATTATGATTAT-G
1 TGTAAGACCATGTCTGGGACATTGGCATTGTTATT-CGATT-TCG
*
42312916 TGTAAGACCATGTCTGTGACATTGGCATTGTTATTCGATTTCG
1 TGTAAGACCATGTCTGGGACATTGGCATTGTTATTCGATTTCG
* * * *
42312959 TGTAAGACCCTATCTGGGATAGTGGCATT
1 TGTAAGACCATGTCTGGGACATTGGCATT
42312988 AATATATGAT
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
42 1 0.02
43 57 0.92
44 4 0.06
ACGTcount: A:0.23, C:0.14, G:0.25, T:0.37
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATTGTTATTCGATTTCG
Found at i:42315513 original size:47 final size:47
Alignment explanation
Indices: 42315435--42315811 Score: 628
Period size: 47 Copynumber: 7.9 Consensus size: 47
42315425 CCCTTCGAGA
* * * * * *
42315435 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
42315482 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
42315529 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
42315576 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
42315623 CTTATCACATATATATACACATTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
42315672 CTTATCGCATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
42315719 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
42315766 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTA
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTA
42315812 CGCCATACTA
Statistics
Matches: 312, Mismatches: 14, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
47 231 0.74
49 81 0.26
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:42315691 original size:143 final size:143
Alignment explanation
Indices: 42315435--42315811 Score: 650
Period size: 143 Copynumber: 2.7 Consensus size: 143
42315425 CCCTTCGAGA
* * * * * * * *
42315435 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
42315498 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
42315563 TCGGCCATTAGGC
131 TCGGCCATTAGGC
42315576 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* *
42315641 ACATTCACATTCATCACATCGGCCATTAGGCCTTATCGCATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
42315706 TCGGCCATTAGGC
131 TCGGCCATTAGGC
42315719 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
42315784 ACTTTCACATTCATCACATCGGCCATTA
66 ACTTTCACATTCATCACATCGGCCATTA
42315812 CGCCATACTA
Statistics
Matches: 223, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
141 47 0.21
143 176 0.79
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (143 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:42318703 original size:40 final size:40
Alignment explanation
Indices: 42318628--42318968 Score: 506
Period size: 40 Copynumber: 8.6 Consensus size: 40
42318618 CCAGCATGAT
* * * * *
42318628 TGCTCTTC-GGACCTAGCCCGGATATAACACCAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** * *
42318667 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
42318707 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
42318747 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
42318787 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
42318827 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
42318867 TGCTCTTC-GGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
42318906 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
42318946 TGCTCTTCGAGATTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
42318969 CATTTCACTC
Statistics
Matches: 275, Mismatches: 25, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
39 45 0.16
40 230 0.84
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:42320521 original size:49 final size:49
Alignment explanation
Indices: 42320347--42320725 Score: 626
Period size: 49 Copynumber: 7.9 Consensus size: 49
42320337 CCCTTCGGGA
* * * * *
42320347 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
42320394 CCTGTCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
42320441 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
42320488 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
42320537 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
42320586 CTTATCACATATATATACACTTTCACATTCACCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
42320635 CTTATCACACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
42320684 CTTATCACATATATATACACTTTCACATTCATCACATCGGCC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCC
42320726 GTTACGCCAT
Statistics
Matches: 313, Mismatches: 15, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
46 1 0.00
47 90 0.29
49 222 0.71
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:42323443 original size:94 final size:94
Alignment explanation
Indices: 42323282--42323751 Score: 850
Period size: 94 Copynumber: 5.0 Consensus size: 94
42323272 AATGTGACTG
* *
42323282 TATATGCTATTTGAATTAAGTAAGTTGCCATATTATAATGAGTTAACATTGGCACTATGTGTGCG
1 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
42323347 GAATTAAATGTCACTTTGTGTGCAGATTT
66 GAATTAAATGTCACTTTGTGTGCAGATTT
*
42323376 TATATGCTATTTGAATTAAGTAAATTTCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
1 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
42323441 GAATTAAATGTCACTTTGTGTGCAGATTT
66 GAATTAAATGTCACTTTGTGTGCAGATTT
42323470 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
1 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
*
42323535 GAATTAAAAGTCACTTTGTGTGCAGATTT
66 GAATTAAATGTCACTTTGTGTGCAGATTT
42323564 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
1 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
* * *
42323629 GAATTAAATGCCACTTTGTCTGTAGATTT
66 GAATTAAATGTCACTTTGTGTGCAGATTT
*
42323658 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCA
1 TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
* *
42323723 GAATTAAATGGCACTATGTGTGCAGATTT
66 GAATTAAATGTCACTTTGTGTGCAGATTT
42323752 GAATGTCGAT
Statistics
Matches: 362, Mismatches: 14, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
94 362 1.00
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.40
Consensus pattern (94 bp):
TATATGCTATTTGAATTAAGTAAATTGCCTTATTATAATGAGTTAACATTGGCACTATGTGTGCG
GAATTAAATGTCACTTTGTGTGCAGATTT
Found at i:42323832 original size:24 final size:24
Alignment explanation
Indices: 42323805--42323867 Score: 126
Period size: 24 Copynumber: 2.6 Consensus size: 24
42323795 GTTTAGTATG
42323805 GCACTATGTGTGCGAGCTTAATTA
1 GCACTATGTGTGCGAGCTTAATTA
42323829 GCACTATGTGTGCGAGCTTAATTA
1 GCACTATGTGTGCGAGCTTAATTA
42323853 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
42323868 ATTTGGTTGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (24 bp):
GCACTATGTGTGCGAGCTTAATTA
Found at i:42330751 original size:70 final size:70
Alignment explanation
Indices: 42330675--42330809 Score: 225
Period size: 70 Copynumber: 1.9 Consensus size: 70
42330665 TATTTTATTA
* * * *
42330675 CTAATTAATTTGCTGCTGTAATGCTGTAAATTATTGGCTGTCCAAATTAGGACAAATTTATGGTG
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGTG
42330740 CTTAG
66 CTTAG
*
42330745 CTAATTAATATGCTGCTGTAATACTGTAATTTATTGGCTGTCCAAATTAGGACAAAATCATGGTG
1 CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGTG
42330810 TTATGTGCTA
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
70 60 1.00
ACGTcount: A:0.30, C:0.13, G:0.19, T:0.37
Consensus pattern (70 bp):
CTAATTAATATGCTGCTGTAATACTGTAAATTATTGGCTGTCCAAATTAGGACAAAATCATGGTG
CTTAG
Found at i:42331643 original size:43 final size:42
Alignment explanation
Indices: 42331584--42331757 Score: 217
Period size: 43 Copynumber: 4.1 Consensus size: 42
42331574 TATCGAAATG
* *
42331584 TGATATACGGGCTTCGGGCCTAGCAGGCTATAATGCCGATGATA
1 TGATAT-CGGCCTTCGGGCCTAGCAGGCTATAATGCCGGTGA-A
42331628 TGATATCGGCCTTCGGGCCTAGCAGGCTATAATGCCGGTGAGA
1 TGATATCGGCCTTCGGGCCTAGCAGGCTATAATGCCGGTGA-A
* *
42331671 TAATATTGGGCC-TCGGGCCTAGCAGGCTATAATGCCGGTGAAA
1 TGATA-TCGGCCTTCGGGCCTAGCAGGCTATAATGCCGGTG-AA
* ** *
42331714 TGATATCGGGCTTCAAGCCTAGCAGGCGA-AATGCCGGTGAA
1 TGATATCGGCCTTCGGGCCTAGCAGGCTATAATGCCGGTGAA
42331755 TGA
1 TGA
42331758 ATTCAGACTT
Statistics
Matches: 116, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
41 5 0.04
42 14 0.12
43 85 0.73
44 12 0.10
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.23
Consensus pattern (42 bp):
TGATATCGGCCTTCGGGCCTAGCAGGCTATAATGCCGGTGAA
Found at i:42338390 original size:43 final size:43
Alignment explanation
Indices: 42338331--42338502 Score: 231
Period size: 43 Copynumber: 4.0 Consensus size: 43
42338321 TTATCGAAAT
* *
42338331 ATGATATACGGGCTTCGGGCCTAGCAGTCTATAATGCCGGTGAA
1 ATGATAT-CGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAA
* * *
42338375 ATGATATCGGGCTTCGGGCCTAGCAGGCTATAATGCCAGTGAG
1 ATGATATCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAA
* * *
42338418 ATAATATCGAGCCTCGAGCCTAGCAGGCTATAATGCCGGTGAA
1 ATGATATCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAA
*
42338461 ATGATATCGGGCTTCAAGCCTAGCAGG-TGA-AATGCCGGTGAA
1 ATGATATCGGGCTTCGAGCCTAGCAGGCT-ATAATGCCGGTGAA
42338503 TGAATCTAGC
Statistics
Matches: 114, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
42 13 0.11
43 94 0.82
44 7 0.06
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.23
Consensus pattern (43 bp):
ATGATATCGGGCTTCGAGCCTAGCAGGCTATAATGCCGGTGAA
Found at i:42342323 original size:43 final size:43
Alignment explanation
Indices: 42342224--42342347 Score: 146
Period size: 43 Copynumber: 2.9 Consensus size: 43
42342214 GTTATCGAGA
* *
42342224 TGCGATTACATGTAAGACTATGTCTGGGACATTGGCATTGTAT
1 TGCGATTACGTGTAAGACCATGTCTGGGACATTGGCATTGTAT
* *
42342267 TGTGATTACGTGTAAGACCATGTCTGGGACATTGGCGTTGTTAT
1 TGCGATTACGTGTAAGACCATGTCTGGGACATTGGCATTG-TAT
* *
42342311 T-CGATTTA-GTGTAAGA-CATTGTCTGGGATAGTGGCAT
1 TGCGA-TTACGTGTAAGACCA-TGTCTGGGACATTGGCAT
42342348 CGATATATGA
Statistics
Matches: 70, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
42 2 0.03
43 61 0.87
44 7 0.10
ACGTcount: A:0.23, C:0.13, G:0.28, T:0.35
Consensus pattern (43 bp):
TGCGATTACGTGTAAGACCATGTCTGGGACATTGGCATTGTAT
Found at i:42354431 original size:40 final size:40
Alignment explanation
Indices: 42354354--42354575 Score: 340
Period size: 40 Copynumber: 5.6 Consensus size: 40
42354344 AACCCAAGTA
* *
42354354 CCTTCGGGAATTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* * *
42354393 CCTTCGGGTCTTAGCTCGGATATAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
42354433 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
42354473 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAGG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
42354513 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAGG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
42354553 CCTTCGAGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
42354576 CATCCGAATA
Statistics
Matches: 169, Mismatches: 12, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
39 12 0.07
40 156 0.92
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:42357169 original size:21 final size:21
Alignment explanation
Indices: 42357140--42357179 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
42357130 CTGGAAAACA
*
42357140 ATGACCTCTAATCATCAAAGG
1 ATGAACTCTAATCATCAAAGG
42357161 ATGAACTCTAATCATCAAA
1 ATGAACTCTAATCATCAAA
42357180 CGACATATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.42, C:0.23, G:0.10, T:0.25
Consensus pattern (21 bp):
ATGAACTCTAATCATCAAAGG
Found at i:42360184 original size:47 final size:47
Alignment explanation
Indices: 42360114--42360287 Score: 205
Period size: 50 Copynumber: 3.7 Consensus size: 47
42360104 GAGTAGAATA
*
42360114 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACTCATCCATCAAG
* * *
42360161 TCGATGCCATGTCCCAAACATGGTCTTACACTGACTC-TCACATATCCATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACTCATC-C--AT-CAAG
* * *
42360211 CCGATGCCATGTCCCAGACATGGTCTTACACTGACACAT--TTTATAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACTCATCCATCA-AG
42360257 CCGATG-CATGTCCCAGACAT-GTCTTACACTG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTG
42360288 GCACACAAAT
Statistics
Matches: 111, Mismatches: 10, Indels: 15
0.82 0.07 0.11
Matches are distributed among these distances:
44 11 0.10
45 15 0.14
46 10 0.09
47 35 0.32
49 2 0.02
50 37 0.33
51 1 0.01
ACGTcount: A:0.25, C:0.32, G:0.17, T:0.26
Consensus pattern (47 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGACTCATCCATCAAG
Found at i:42360232 original size:50 final size:49
Alignment explanation
Indices: 42360114--42360287 Score: 204
Period size: 47 Copynumber: 3.7 Consensus size: 49
42360104 GAGTAGAATA
* *
42360114 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-C--ATCAAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACTC-TCACATATCATG
* *
42360161 TCGATGCCATGTCCCAAACATGGTCTTACACTGACTCTCACATATCCATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCACATAT-CATG
* *
42360211 CCGATGCCATGTCCCAGACATGGTCTTACACTGA----CACATTTTATAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCACATATCAT-G
42360257 CCGATG-CATGTCCCAGACAT-GTCTTACACTG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTG
42360288 GCACACAAAT
Statistics
Matches: 114, Mismatches: 8, Indels: 13
0.84 0.06 0.10
Matches are distributed among these distances:
44 11 0.10
45 16 0.14
46 15 0.13
47 35 0.31
49 2 0.02
50 35 0.31
ACGTcount: A:0.25, C:0.32, G:0.17, T:0.26
Consensus pattern (49 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCACATATCATG
Found at i:42365030 original size:20 final size:20
Alignment explanation
Indices: 42364987--42365032 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
42364977 ACTGTTTTGT
*
42364987 TATGGG-CCAACTGTATTGA
1 TATGGGCCCAACTGTATTAA
* *
42365006 GATGGGCCCAACTGTGTTAA
1 TATGGGCCCAACTGTATTAA
42365026 TATGGGC
1 TATGGGC
42365033 AAGGCCCAAC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.28
Consensus pattern (20 bp):
TATGGGCCCAACTGTATTAA
Found at i:42365101 original size:60 final size:59
Alignment explanation
Indices: 42365025--42365161 Score: 161
Period size: 60 Copynumber: 2.3 Consensus size: 59
42365015 AACTGTGTTA
* *
42365025 ATATGGGCAAGGCCCAACATA-TCTCGACT-TGTAATAGGGCTACGGCCCAGATTGATACTG
1 ATATGGGCTAGGCCCAACATACTCT-GA-TATGTAA-AGGGCTACGGCCCAGATTAATACTG
* * * *
42365085 ATATGGGCTAGGCCCAATATACTCTGATACTGTAAGGGGCTATGGCCCAGATTAATATTG
1 ATATGGGCTAGGCCCAACATACTCTGATA-TGTAAAGGGCTACGGCCCAGATTAATACTG
42365145 ATATGGGCTAAGGCCCA
1 ATATGGGCT-AGGCCCA
42365162 GTTAACACTG
Statistics
Matches: 67, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
59 1 0.01
60 51 0.76
61 15 0.22
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (59 bp):
ATATGGGCTAGGCCCAACATACTCTGATATGTAAAGGGCTACGGCCCAGATTAATACTG
Found at i:42365856 original size:16 final size:17
Alignment explanation
Indices: 42365824--42365856 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
42365814 CATCAAGAAG
42365824 GGTTTTCAATGAAAACAT
1 GGTTTTCAA-GAAAACAT
42365842 GGTTTTCAA-AAAACA
1 GGTTTTCAAGAAAACA
42365857 CTTCAATGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.30
Consensus pattern (17 bp):
GGTTTTCAAGAAAACAT
Found at i:42367462 original size:46 final size:46
Alignment explanation
Indices: 42367409--42367545 Score: 193
Period size: 46 Copynumber: 3.0 Consensus size: 46
42367399 TATATATACA
* * * *
42367409 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* * *
42367455 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTATCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
42367501 TATCTCATACACATTTCGCATTAGCCATTCGGCCTTACCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
42367546 ATACATGTTC
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.35
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:42367579 original size:47 final size:47
Alignment explanation
Indices: 42367519--42367710 Score: 303
Period size: 47 Copynumber: 4.1 Consensus size: 47
42367509 ACACATTTCG
* * * **
42367519 CATTAGCCATTCGGCCTTACCACATATATACATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
* * *
42367566 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
*
42367613 CATTGGCCATTCGGCCTTATCGCACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
42367660 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
42367707 CATT
1 CATT
42367711 AAAATCCTAA
Statistics
Matches: 137, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 137 1.00
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCA
Found at i:42367662 original size:23 final size:23
Alignment explanation
Indices: 42367635--42367709 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
42367625 GGCCTTATCG
42367635 CACATACGCATGTTCACATTCAT
1 CACATACGCATGTTCACATTCAT
** * *
42367658 CACATTGGCCA--TTCGGCCTT-AT
1 CACATACG-CATGTTC-ACATTCAT
42367680 CACACATACGCATGTTCACATTCAT
1 --CACATACGCATGTTCACATTCAT
42367705 CACAT
1 CACAT
42367710 TAAAATCCTA
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
22 5 0.14
23 16 0.43
24 11 0.30
25 5 0.14
ACGTcount: A:0.28, C:0.32, G:0.11, T:0.29
Consensus pattern (23 bp):
CACATACGCATGTTCACATTCAT
Found at i:42371171 original size:17 final size:17
Alignment explanation
Indices: 42371149--42371182 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
42371139 CACTTATTCA
*
42371149 CTCACAATGCTTTTATT
1 CTCACAATACTTTTATT
*
42371166 CTCACATTACTTTTATT
1 CTCACAATACTTTTATT
42371183 TACATGACAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.24, G:0.03, T:0.50
Consensus pattern (17 bp):
CTCACAATACTTTTATT
Found at i:42374057 original size:6 final size:6
Alignment explanation
Indices: 42374046--42374080 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
42374036 TCCTCCTCAA
* *
42374046 CTTCCT CTTCCT TTTCCT TTTCCT CTTCCT CTTCC
1 CTTCCT CTTCCT CTTCCT CTTCCT CTTCCT CTTCC
42374081 ACTCTTTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.46, G:0.00, T:0.54
Consensus pattern (6 bp):
CTTCCT
Found at i:42376440 original size:40 final size:41
Alignment explanation
Indices: 42376374--42376512 Score: 142
Period size: 40 Copynumber: 3.5 Consensus size: 41
42376364 ATTATGTTTG
* * *
42376374 GCACTTAGTGTGTG-TATCGAGGTAGCTTCGGCTATATAAA
1 GCACTTAGTGTGTGAGATTGAGATAGCTTCGGCTATATAAA
**
42376414 GCACTTAGTGTGTGA-ATTG-GAATAGCTTCGGCTATATATG
1 GCACTTAGTGTGTGAGATTGAG-ATAGCTTCGGCTATATAAA
* * ** *
42376454 GCATTTAGTGTGCGAGATTGAGATAGCTTTAGCTAT-TAGA
1 GCACTTAGTGTGTGAGATTGAGATAGCTTCGGCTATATAAA
*
42376494 GAACTTAGTGTGTGAGATT
1 GCACTTAGTGTGTGAGATT
42376513 ATAATAGCTT
Statistics
Matches: 82, Mismatches: 13, Indels: 8
0.80 0.13 0.08
Matches are distributed among these distances:
39 1 0.01
40 64 0.78
41 16 0.20
42 1 0.01
ACGTcount: A:0.26, C:0.12, G:0.28, T:0.35
Consensus pattern (41 bp):
GCACTTAGTGTGTGAGATTGAGATAGCTTCGGCTATATAAA
Found at i:42376464 original size:80 final size:81
Alignment explanation
Indices: 42376372--42376553 Score: 197
Period size: 81 Copynumber: 2.2 Consensus size: 81
42376362 CGATTATGTT
* * * * * *
42376372 TGGCACTTAGTGTGTG-TATCGAGGTAGCTTCGGCTATATAAAGCACTTAGTGTGTGA-ATTGGA
1 TGGCACTTAGTGTGCGAGATCGAGATAGCTTCAGCTAT-TAAAGAACTTAGTGTGTGAGATTAGA
42376435 ATAGCTTCGGCTATATA
65 ATAGCTTCGGCTATATA
* * * * *
42376452 TGGCATTTAGTGTGCGAGATTGAGATAGCTTTAGCTATTAGAGAACTTAGTGTGTGAGATTATAA
1 TGGCACTTAGTGTGCGAGATCGAGATAGCTTCAGCTATTAAAGAACTTAGTGTGTGAGATTAGAA
** * *
42376517 TAGCTTCAACTATGCTT
66 TAGCTTCGGCTAT-ATA
42376534 TGGCACTTAGTGTGCGAGAT
1 TGGCACTTAGTGTGCGAGAT
42376554 ATAGAGTATT
Statistics
Matches: 83, Mismatches: 16, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
80 31 0.37
81 32 0.39
82 20 0.24
ACGTcount: A:0.26, C:0.13, G:0.27, T:0.35
Consensus pattern (81 bp):
TGGCACTTAGTGTGCGAGATCGAGATAGCTTCAGCTATTAAAGAACTTAGTGTGTGAGATTAGAA
TAGCTTCGGCTATATA
Found at i:42378131 original size:20 final size:19
Alignment explanation
Indices: 42378090--42378142 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 19
42378080 TTCCTTAAGC
* *
42378090 AAGAAGAAAGAAAACTAGCA
1 AAGAAG-AAGAAAAATAACA
42378110 AAGAAGAAGAAACAATAACA
1 AAGAAGAAGAAA-AATAACA
* *
42378130 AAAAATAAGAAAA
1 AAGAAGAAGAAAA
42378143 TTTTGAAGGG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 7 0.25
20 21 0.75
ACGTcount: A:0.72, C:0.08, G:0.15, T:0.06
Consensus pattern (19 bp):
AAGAAGAAGAAAAATAACA
Found at i:42381316 original size:46 final size:46
Alignment explanation
Indices: 42381249--42381424 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
42381239 TATTTGGGCA
*
42381249 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * * *
42381295 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GACGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGA--T-GCGA-GCG
* *
42381342 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
42381388 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
42381425 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 2 0.02
45 3 0.03
46 68 0.62
47 32 0.29
48 3 0.03
50 2 0.02
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:42381404 original size:93 final size:93
Alignment explanation
Indices: 42381245--42381416 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
42381235 GGGATATTTG
* * *
42381245 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
42381310 TTGAGTCCGAGTTCGTGAGACGTAACTA
66 TTGAGTCCGAGTTCGTGAGACGTAACTA
* *
42381338 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
42381403 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
42381417 ACTTATGGGC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.20, C:0.22, G:0.31, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGACGTAACTA
Found at i:42385224 original size:16 final size:16
Alignment explanation
Indices: 42385205--42385235 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
42385195 CTTCTTCACT
42385205 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
42385221 TACTTACTTACTTAA
1 TACTCACTTACTTAA
42385236 TTAAATTTAT
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:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:42385225 original size:20 final size:20
Alignment explanation
Indices: 42385202--42385241 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
42385192 AAACTTCTTC
*
42385202 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATTAAAT
*
42385222 ACTTACTTACTTAATTAAAT
1 ACTTACTCACTTAATTAAAT
42385242 TTATTAATAC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.20, G:0.00, T:0.42
Consensus pattern (20 bp):
ACTTACTCACTTAATTAAAT
Found at i:42385615 original size:55 final size:53
Alignment explanation
Indices: 42385486--42385681 Score: 189
Period size: 55 Copynumber: 3.6 Consensus size: 53
42385476 CTTACCATTT
* *
42385486 CCATGTCTCGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATG
1 CCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTCACCAATG
* * * * * *
42385539 CCATGCCTTGGCATGGTCTTACATGGGA-CCTTTTCCTTATAGTGACTTATCAATG
1 CCATGTCTTGACATGGTCTTACATGGGATCC-TTGCCTTAT-G-AACTCACCAATG
* * *
42385594 CCATGTGTTGACATGGTCTTACATGGTATCCTTGCCTTA-GAAACCTTACCAATTG
1 CCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATG-AA-CTCACCAA-TG
* * * *
42385649 TCATGCCTTGGCATGGTCTTACATGGTATCCTT
1 CCATGTCTTGACATGGTCTTACATGGGATCCTT
42385682 AAACCCTAAT
Statistics
Matches: 117, Mismatches: 20, Indels: 10
0.80 0.14 0.07
Matches are distributed among these distances:
52 2 0.02
53 34 0.29
54 8 0.07
55 71 0.61
56 2 0.02
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.35
Consensus pattern (53 bp):
CCATGTCTTGACATGGTCTTACATGGGATCCTTGCCTTATGAACTCACCAATG
Found at i:42403086 original size:40 final size:40
Alignment explanation
Indices: 42403016--42403301 Score: 387
Period size: 40 Copynumber: 7.2 Consensus size: 40
42403006 GGAATTTAGT
* * * *
42403016 CGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACC
1 CGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAACC
* * * ** *
42403056 CGGGT-ATAGCAACCCGCACAAATGCCTTCGGGTCTTAGCC
1 CGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAACC
* * *
42403096 CGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGCC
1 CGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAACC
42403136 CGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAACC
1 CGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAACC
*
42403176 CGGATAAAATCACTAGCATAAATGCCTTCGGGTCTTAACC
1 CGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAACC
*
42403216 CGGATAAAATCACTAGCATAAATGCCTTCGGGTCTTAACC
1 CGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAACC
* *
42403256 CGGATAAAATCACTAGCACAAATGCCTTCGGGACTTAGCC
1 CGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAACC
42403296 CGGATA
1 CGGATA
42403302 TCATTCAAAT
Statistics
Matches: 226, Mismatches: 18, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 2 0.01
40 220 0.97
41 4 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.23
Consensus pattern (40 bp):
CGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAACC
Found at i:42411613 original size:40 final size:40
Alignment explanation
Indices: 42411504--42411789 Score: 389
Period size: 40 Copynumber: 7.2 Consensus size: 40
42411494 CGGAATTTAG
* * * *
42411504 CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* * * * *
42411544 CCGGGT-ATAGCAAC-CGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
* * *
42411583 CCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAAC
42411623 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
*
42411663 CCGGATAAAATCACTAGCATAAATGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
*
42411703 CCGGATAAAATCACTAGCATAAATGCCTTCGGGTCTTAAC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
* *
42411743 CCGGATAAAATCACTAGCACAAATGCCTTCGGGACTTAGC
1 CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
42411783 CCGGATA
1 CCGGATA
42411790 TCATTCAAAT
Statistics
Matches: 227, Mismatches: 16, Indels: 6
0.91 0.06 0.02
Matches are distributed among these distances:
39 36 0.16
40 187 0.82
41 4 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.23
Consensus pattern (40 bp):
CCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAAC
Found at i:42418311 original size:46 final size:46
Alignment explanation
Indices: 42418258--42418382 Score: 205
Period size: 46 Copynumber: 2.7 Consensus size: 46
42418248 TGGGCATCCA
* * *
42418258 AACTCGTTGAGTTAAGTCCGAGTTCACTTATGGATGCGAATGTCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCG
42418304 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCG
* *
42418350 AGCTCGTTGGGTTGAGTCCGAGTTCACTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
42418383 TCGGGTTACA
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 74 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.30
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCG
Found at i:42426521 original size:46 final size:46
Alignment explanation
Indices: 42426468--42426640 Score: 185
Period size: 46 Copynumber: 3.7 Consensus size: 46
42426458 TATTTGGGCA
42426468 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
42426514 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* * * *
42426559 CATCCGAACTCATTGAGTTCAGTCCGAGTTCACTTATGGATACGAA-C
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
42426606 TCCCAAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAA-CTCGTTGAGTTGAGTCCGAGTTCACTTA
42426641 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 13, Indels: 20
0.76 0.09 0.15
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 8 0.08
46 55 0.53
47 27 0.26
48 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.25, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:42426623 original size:93 final size:93
Alignment explanation
Indices: 42426464--42426635 Score: 283
Period size: 93 Copynumber: 1.8 Consensus size: 93
42426454 GGGATATTTG
* * * * *
42426464 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCATTGAGTTCAGTCCGAGTTCACTTATGGATACGAATCTCCCAACTCGTTGAG
42426529 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
42426557 GGCATCCGAACTCATTGAGTTCAGTCCGAGTTCACTTATGGATACGAA-CTCCCAAGCTCGTTGA
1 GGCATCCGAACTCATTGAGTTCAGTCCGAGTTCACTTATGGATACGAATCTCCCAA-CTCGTTGA
42426621 GTTGAGTCCGAGTTC
65 GTTGAGTCCGAGTTC
42426636 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 5 0.07
93 68 0.93
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTCAGTCCGAGTTCACTTATGGATACGAATCTCCCAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:42430440 original size:40 final size:39
Alignment explanation
Indices: 42430356--42430540 Score: 187
Period size: 40 Copynumber: 4.6 Consensus size: 39
42430346 TCGAATGATG
* * * *
42430356 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
42430396 TCCGGACTAAGATTCGAAGGCATTTGTGTGAGTTACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* *
42430436 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
42430475 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
42430516 -CCGGGCTATA-TCCCGAAGGCATTTG
1 TCCGGGCTA-AGT-CCGAAGGCATTTG
42430541 AATGAGTAGC
Statistics
Matches: 122, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
39 33 0.27
40 79 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:42430562 original size:79 final size:79
Alignment explanation
Indices: 42430410--42430563 Score: 188
Period size: 79 Copynumber: 1.9 Consensus size: 79
42430400 GACTAAGATT
* * **
42430410 CGAAGGCATTTGTGTGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 CGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
42430475 TCCGGGTTAAGTCC
66 TCCGGGTTAAGTCC
* * *
42430489 CGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATATCCCGAAGGCATTTGAATGAG-TAGCT
1 CGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTA-AGCCCGAAGGCATTGGAACGAGTTA-CT
*
42430552 ATATCC-GGTTAA
63 AAATCCGGGTTAA
42430564 ATTTCGAAGG
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
78 2 0.03
79 38 0.59
80 24 0.38
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.27
Consensus pattern (79 bp):
CGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
TCCGGGTTAAGTCC
Found at i:42437458 original size:46 final size:46
Alignment explanation
Indices: 42437405--42437577 Score: 219
Period size: 46 Copynumber: 3.7 Consensus size: 46
42437395 GATTTGAGCA
42437405 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
42437451 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
42437496 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
42437544 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
42437578 GGGCGGGTTA
Statistics
Matches: 109, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 29 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:42437561 original size:93 final size:93
Alignment explanation
Indices: 42437402--42437572 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
42437392 TAGGATTTGA
* *
42437402 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
42437467 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
42437495 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
42437560 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
42437573 ACTTAGGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:42439129 original size:14 final size:15
Alignment explanation
Indices: 42439110--42439138 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
42439100 AGAGAAACCC
42439110 AGATTTAT-GGCAAA
1 AGATTTATGGGCAAA
42439124 AGATTTATGGGCAAA
1 AGATTTATGGGCAAA
42439139 TCACAATCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.41, C:0.07, G:0.24, T:0.28
Consensus pattern (15 bp):
AGATTTATGGGCAAA
Found at i:42443627 original size:27 final size:27
Alignment explanation
Indices: 42443610--42443711 Score: 118
Period size: 27 Copynumber: 3.8 Consensus size: 27
42443600 TTATTTTACC
42443610 CTACAAGGGTATTTCGGTAATCCTACA
1 CTACAAGGGTATTTCGGTAATCCTACA
**
42443637 CTACAAGGGTATTTCGAAAATCCTATC-
1 CTACAAGGGTATTTCGGTAATCCTA-CA
* *
42443664 CTACAAGAGTATTTCGGTAATCCTACC
1 CTACAAGGGTATTTCGGTAATCCTACA
* *
42443691 CCAC-AGAGGTATTTCAGTAAT
1 CTACAAG-GGTATTTCGGTAAT
42443712 TTTATAAATT
Statistics
Matches: 64, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
26 3 0.05
27 60 0.94
28 1 0.02
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (27 bp):
CTACAAGGGTATTTCGGTAATCCTACA
Found at i:42443791 original size:27 final size:27
Alignment explanation
Indices: 42443698--42443920 Score: 161
Period size: 27 Copynumber: 8.3 Consensus size: 27
42443688 ACCCCACAGA
* *
42443698 GGTATTTCAGTAATTTTATAAATTG-G
1 GGTATTTCAGTAATTTCACAAATTGAG
* * * *
42443724 GATATTTCAGTGATCTT-AC-AAGTCAGG
1 GGTATTTCAGTAAT-TTCACAAATTGA-G
* *
42443751 GGTATTTC-GATAATTACACAAATCGAG
1 GGTATTTCAG-TAATTTCACAAATTGAG
* *
42443778 GCTATTTCAGTAATTTCAAAAATT-AG
1 GGTATTTCAGTAATTTCACAAATTGAG
* * * * *
42443804 GGTTATTTTAGTAATTTTATAACTTGGG
1 GG-TATTTCAGTAATTTCACAAATTGAG
42443832 GGTATTTCAGTAATTTCACAAATTGAG
1 GGTATTTCAGTAATTTCACAAATTGAG
* *
42443859 GGTATTTCAATAATCTCACAAATT-AGG
1 GGTATTTCAGTAATTTCACAAATTGA-G
* * ** *
42443886 GGTATTTTAGTAATTTTACAACCTGGG
1 GGTATTTCAGTAATTTCACAAATTGAG
42443913 GGTATTTC
1 GGTATTTC
42443921 GAAAATTTTA
Statistics
Matches: 150, Mismatches: 36, Indels: 21
0.72 0.17 0.10
Matches are distributed among these distances:
25 3 0.02
26 19 0.13
27 121 0.81
28 7 0.05
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (27 bp):
GGTATTTCAGTAATTTCACAAATTGAG
Found at i:42443846 original size:81 final size:80
Alignment explanation
Indices: 42443696--42443938 Score: 265
Period size: 81 Copynumber: 3.0 Consensus size: 80
42443686 CTACCCCACA
* * * * * * **
42443696 GAGGTATTTCAGTAATTTTATAAATT-GGGATATTTCAGTGATCTTACAAGTCAGGGGTATTTCG
1 GAGGTATTTCAGTAATTTCAAAAATTAGGGATATTTTAGTAATTTTACAACTTGGGGGTATTTCG
42443760 ATAATTACACAAATC
66 ATAATTACACAAATC
* *
42443775 GAGGCTATTTCAGTAATTTCAAAAATTAGGGTTATTTTAGTAATTTTATAACTTGGGGGTATTTC
1 GAGG-TATTTCAGTAATTTCAAAAATTAGGGATATTTTAGTAATTTTACAACTTGGGGGTATTTC
* *
42443840 -AGTAATTTCACAAATT
65 GA-TAATTACACAAATC
* * * * *
42443856 GAGGGTATTTCAATAATCTCACAAATTAGGGGTATTTTAGTAATTTTACAACCTGGGGGTATTTC
1 GA-GGTATTTCAGTAATTTCAAAAATTAGGGATATTTTAGTAATTTTACAACTTGGGGGTATTTC
* **
42443921 GAAAATTTTACAAATC
65 GATAATTACACAAATC
42443937 GA
1 GA
42443939 AAGTCTTAAC
Statistics
Matches: 138, Mismatches: 21, Indels: 8
0.83 0.13 0.05
Matches are distributed among these distances:
79 4 0.03
80 21 0.15
81 110 0.80
82 3 0.02
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.38
Consensus pattern (80 bp):
GAGGTATTTCAGTAATTTCAAAAATTAGGGATATTTTAGTAATTTTACAACTTGGGGGTATTTCG
ATAATTACACAAATC
Found at i:42444171 original size:17 final size:18
Alignment explanation
Indices: 42444149--42444185 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
42444139 TTTTATTCGT
*
42444149 TTGGGCCCAC-GAGCCCA
1 TTGGGCCCACACAGCCCA
42444166 TTGGGCCCACACAGCCCA
1 TTGGGCCCACACAGCCCA
42444184 TT
1 TT
42444186 TTGGCCCATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.19, C:0.41, G:0.24, T:0.16
Consensus pattern (18 bp):
TTGGGCCCACACAGCCCA
Found at i:42450820 original size:12 final size:12
Alignment explanation
Indices: 42450803--42450832 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
42450793 TGCAATGTGA
42450803 TAAATTGATGAC
1 TAAATTGATGAC
42450815 TAAATTGATGAC
1 TAAATTGATGAC
42450827 TAAATT
1 TAAATT
42450833 CATTTATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.37
Consensus pattern (12 bp):
TAAATTGATGAC
Found at i:42455956 original size:43 final size:43
Alignment explanation
Indices: 42455891--42456008 Score: 139
Period size: 43 Copynumber: 2.7 Consensus size: 43
42455881 TTTATGTAAA
* *
42455891 AAAAAAACGCCGTTAAAGAACATGACCTTTAACAGCGC-TTTT
1 AAAAAAACGCCGCTAAAGAACATGACCTTTAACAGCACTTTTT
* * * *
42455933 ACCACAAACGCCGCTAAAGAACATGACATTTAACGGCACTTTTTT
1 A-AAAAAACGCCGCTAAAGAACATGACCTTTAACAGCAC-TTTTT
* *
42455978 AAAAAAACGCCACTAAAAAACATGACCTTTA
1 AAAAAAACGCCGCTAAAGAACATGACCTTTA
42456009 CTCGCACTTT
Statistics
Matches: 62, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
42 1 0.02
43 31 0.50
44 25 0.40
45 5 0.08
ACGTcount: A:0.42, C:0.24, G:0.12, T:0.22
Consensus pattern (43 bp):
AAAAAAACGCCGCTAAAGAACATGACCTTTAACAGCACTTTTT
Found at i:42464764 original size:14 final size:14
Alignment explanation
Indices: 42464745--42464772 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
42464735 TCCTATTTTG
42464745 GTTATTTTTGATTT
1 GTTATTTTTGATTT
42464759 GTTATTTTTGATTT
1 GTTATTTTTGATTT
42464773 TTTGGCATGT
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:0.14, C:0.00, G:0.14, T:0.71
Consensus pattern (14 bp):
GTTATTTTTGATTT
Found at i:42466649 original size:15 final size:15
Alignment explanation
Indices: 42466631--42466663 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
42466621 TAAGGTGAGT
*
42466631 ATCAACATATATCGC
1 ATCAACATATATCAC
42466646 ATCAACATATATCAC
1 ATCAACATATATCAC
42466661 ATC
1 ATC
42466664 TTATAATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.42, C:0.27, G:0.03, T:0.27
Consensus pattern (15 bp):
ATCAACATATATCAC
Found at i:42482449 original size:47 final size:49
Alignment explanation
Indices: 42482332--42482506 Score: 183
Period size: 46 Copynumber: 3.8 Consensus size: 49
42482322 AACCCGCCCC
* * *
42482332 TAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C-GTTCGCATCCA
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTT-ACATCCA
*
42482378 TAA-TGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-AGTTACATCCA
* * *
42482425 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTTGCATCCA
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACATCCA
*
42482470 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
42482507 TCAACCATCC
Statistics
Matches: 110, Mismatches: 8, Indels: 19
0.80 0.06 0.14
Matches are distributed among these distances:
43 6 0.05
44 2 0.02
45 30 0.27
46 32 0.29
47 32 0.29
48 2 0.02
49 3 0.03
50 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (49 bp):
TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCAGTTACATCCA
Found at i:42482506 original size:93 final size:92
Alignment explanation
Indices: 42482337--42482506 Score: 295
Period size: 92 Copynumber: 1.8 Consensus size: 92
42482327 GCCCCTAAGT
* *
42482337 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAATGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAATGAACTCGGACTCAACTCAAC
42482402 GAGTTCGGATGCCTAGTTACATCTCAC
66 GAGTTCGGATGCCTAGTTACATCTCAC
* *
42482429 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAA-TGAACTCGGACTCAACTCAA
42482494 CGAGTTCGGATGC
65 CGAGTTCGGATGC
42482507 TCAACCATCC
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
92 40 0.55
93 33 0.45
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAATGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:42485974 original size:28 final size:28
Alignment explanation
Indices: 42485942--42485997 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
42485932 ATAACTAAAC
42485942 AATAAACTACATGATTAAATCACCATTG
1 AATAAACTACATGATTAAATCACCATTG
42485970 AATAAACTACATGATTAAATCACCATTG
1 AATAAACTACATGATTAAATCACCATTG
42485998 CTGAATCACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.46, C:0.18, G:0.07, T:0.29
Consensus pattern (28 bp):
AATAAACTACATGATTAAATCACCATTG
Found at i:42486802 original size:43 final size:43
Alignment explanation
Indices: 42486718--42486846 Score: 136
Period size: 44 Copynumber: 3.0 Consensus size: 43
42486708 ATGTAATAAA
* * *
42486718 ATATCGATGCCACTATCCCAGACAAGGGTCTTACACGAAATCAT
1 ATATCGATGCCAATGTCCCAGAC-ATGGTCTTACACGAAATCAT
* *
42486762 ATA-CGATGCCAATGTCCAAGACATGGTCTTACATGTAAATC-T
1 ATATCGATGCCAATGTCCCAGACATGGTCTTACACG-AAATCAT
* * **
42486804 CAAATCGATGCCAACGTCCCAGATGTGGTCTTACACGAAATCA
1 -ATATCGATGCCAATGTCCCAGACATGGTCTTACACGAAATCA
42486847 CATACTGGAA
Statistics
Matches: 70, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
42 12 0.17
43 28 0.40
44 30 0.43
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (43 bp):
ATATCGATGCCAATGTCCCAGACATGGTCTTACACGAAATCAT
Found at i:42487957 original size:13 final size:13
Alignment explanation
Indices: 42487939--42487963 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
42487929 ACAAACGATA
42487939 AAATTTTCACACG
1 AAATTTTCACACG
42487952 AAATTTTCACAC
1 AAATTTTCACAC
42487964 ATATCACATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:42493317 original size:49 final size:49
Alignment explanation
Indices: 42493243--42493468 Score: 308
Period size: 49 Copynumber: 4.6 Consensus size: 49
42493233 TCTGGTATGG
*
42493243 ATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACAC
1 ATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACAC
** * * ** *
42493292 GCAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACAC
1 ATAGTAGCCTGCACTTAGTACTACACATGCGACC-AATTATCTGGTACAC
* * * *
42493342 ATAGTAGCCTGCACTTAGTACTACACATGTGATCGAAGTTATCAGGTACGC
1 ATAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA-TTATCTGGTACAC
42493393 ATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACAC
1 ATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACAC
*
42493442 GTAGTAGCCTGCACTTAGTACTACACA
1 ATAGTAGCCTGCACTTAGTACTACACA
42493469 CGTGACCTCA
Statistics
Matches: 152, Mismatches: 22, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
49 67 0.44
50 45 0.30
51 40 0.26
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (49 bp):
ATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACAC
Found at i:42495825 original size:46 final size:46
Alignment explanation
Indices: 42495749--42496015 Score: 367
Period size: 46 Copynumber: 5.8 Consensus size: 46
42495739 TGATGTCATA
* * * * *
42495749 GTATCTTTCAACTATGGTTTTACTCGTTTTC-TGTCATGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTC-ATTTCATATCAGGTTGCCATG
* * **
42495795 GTATCTTTCAACCATGGTCTTATTCATTTTC-TCGTCATATTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCA-TTTCAT-ATCAGGTTGCCATG
42495842 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
* *
42495888 GTATCTTTCAACCATGGTCTTATTCATTTCATATCACGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
*
42495934 GTATCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATG
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
* *
42495980 GTATCTTTCAACCATGGTCTTACACATTCCATATCA
1 GTATCTTTCAACCATGGTCTTACTCATTTCATATCA
42496016 TAGAGCACAC
Statistics
Matches: 203, Mismatches: 15, Indels: 6
0.91 0.07 0.03
Matches are distributed among these distances:
46 164 0.81
47 39 0.19
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (46 bp):
GTATCTTTCAACCATGGTCTTACTCATTTCATATCAGGTTGCCATG
Found at i:42514117 original size:34 final size:34
Alignment explanation
Indices: 42514076--42514143 Score: 88
Period size: 34 Copynumber: 2.1 Consensus size: 34
42514066 ATGTTACTTT
42514076 TATATATA-AT-TGCTTCT-AAATCTATTTATGTA
1 TATATATATATATGCTTCTAAAATCTA-TTATGTA
* *
42514108 TATATATATATATGTTTTTAAAATCTATTATGTA
1 TATATATATATATGCTTCTAAAATCTATTATGTA
42514142 TA
1 TA
42514144 CAACTCATTC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
32 8 0.26
33 2 0.06
34 14 0.45
35 7 0.23
ACGTcount: A:0.37, C:0.06, G:0.06, T:0.51
Consensus pattern (34 bp):
TATATATATATATGCTTCTAAAATCTATTATGTA
Found at i:42524219 original size:43 final size:43
Alignment explanation
Indices: 42524126--42524273 Score: 203
Period size: 43 Copynumber: 3.5 Consensus size: 43
42524116 TCGATGCCAC
* * * * *
42524126 TGTCCCAAACAAGGTCTTACACG-TATCAT-A-TACGATGCCAA
1 TGTCCCAAACATGGTCTTACACGTTTTC-TCACTTCGATTCGAA
*
42524167 TGTCCCAAACATGGTCTTACACGTTTTCTCACTTTGATTCGAA
1 TGTCCCAAACATGGTCTTACACGTTTTCTCACTTCGATTCGAA
42524210 TGTCCCAAACATGGTCTTACACGTTTTCTCACTTCGATTCGAA
1 TGTCCCAAACATGGTCTTACACGTTTTCTCACTTCGATTCGAA
*
42524253 TGTCCCAGACATGGTCTTACA
1 TGTCCCAAACATGGTCTTACA
42524274 TGAATCACAC
Statistics
Matches: 96, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
41 23 0.24
42 4 0.04
43 69 0.72
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.32
Consensus pattern (43 bp):
TGTCCCAAACATGGTCTTACACGTTTTCTCACTTCGATTCGAA
Found at i:42527305 original size:21 final size:21
Alignment explanation
Indices: 42527266--42527305 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
42527256 GGACTAAACC
*
42527266 GAAAACTTTGGAAATTTTTGG
1 GAAAACTTTAGAAATTTTTGG
42527287 GAAAAC-TTAGAAATATTTT
1 GAAAACTTTAGAAAT-TTTT
42527306 CATGAAACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.40, C:0.05, G:0.17, T:0.38
Consensus pattern (21 bp):
GAAAACTTTAGAAATTTTTGG
Found at i:42529746 original size:85 final size:84
Alignment explanation
Indices: 42529586--42529748 Score: 193
Period size: 85 Copynumber: 1.9 Consensus size: 84
42529576 ATCTAAGACA
* * * ** *
42529586 TCGTGTAAGACCGTGTCTGGGACACAGGCCTCGATTGAGATTTACGTATAAGACCATGTCTGGGA
1 TCGTGTAAGACCCTGTCTGGGACACAGGCATCGATTGAGA-TTACATATAAGACCACATCTAGGA
42529651 CATCGACATTGTATCTAATT
65 CATCGACATTGTATCTAATT
* * *
42529671 TCGTGTAAGACCCTGTCTGGGATAGAGGCATCGATATTGAG-TTACATGTAAGACCACATCTAGG
1 TCGTGTAAGACCCTGTCTGGGACACAGGCATCG--ATTGAGATTACATATAAGACCACATCTAGG
* *
42529735 ACGTCGGCATTGTA
64 ACATCGACATTGTA
42529749 CTTGCTTATG
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
85 59 0.91
87 6 0.09
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (84 bp):
TCGTGTAAGACCCTGTCTGGGACACAGGCATCGATTGAGATTACATATAAGACCACATCTAGGAC
ATCGACATTGTATCTAATT
Found at i:42535212 original size:53 final size:53
Alignment explanation
Indices: 42535125--42535227 Score: 170
Period size: 53 Copynumber: 1.9 Consensus size: 53
42535115 AGAATTTGTA
*
42535125 ATTTATAGTGACATGTCATTGAATGATTTAGGTTGCGTATTAATGCAAGAGTG
1 ATTTATAGCGACATGTCATTGAATGATTTAGGTTGCGTATTAATGCAAGAGTG
* * *
42535178 ATTTATAGCGACATGTCATTGAATTATTTGGGTTGCGTATTGATGCAAGA
1 ATTTATAGCGACATGTCATTGAATGATTTAGGTTGCGTATTAATGCAAGA
42535228 AGGAAAAGTT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 46 1.00
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.38
Consensus pattern (53 bp):
ATTTATAGCGACATGTCATTGAATGATTTAGGTTGCGTATTAATGCAAGAGTG
Found at i:42538672 original size:12 final size:12
Alignment explanation
Indices: 42538655--42538679 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
42538645 TAAGCTTTAT
42538655 AGCTTAATTGCG
1 AGCTTAATTGCG
42538667 AGCTTAATTGCG
1 AGCTTAATTGCG
42538679 A
1 A
42538680 AATAGGACTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (12 bp):
AGCTTAATTGCG
Found at i:42539829 original size:48 final size:48
Alignment explanation
Indices: 42539719--42539887 Score: 173
Period size: 48 Copynumber: 3.6 Consensus size: 48
42539709 TGATATGTGT
* * * *
42539719 GCTAGTGTAAGACATGTCTAGGACATGCATCAGCCAC-A-ATA-TGAGA
1 GCTAATGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATATTCA-A
* * *
42539765 GCTAATGTAAGACATGTCTGGGACATGCTTCGGCCTCGAGATATTTAA
1 GCTAATGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATATTCAA
* * * *
42539813 GCCAATGTAAGACATGTTTAGGACATGCATCGGCCTCGCGATATACAA
1 GCTAATGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATATTCAA
* * * *
42539861 GCTAGTGTAAGACTTATCTGGGACATG
1 GCTAATGTAAGACATGTCTAGGACATG
42539888 GCGTCAGCTT
Statistics
Matches: 101, Mismatches: 19, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
46 32 0.32
47 1 0.01
48 66 0.65
49 2 0.02
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (48 bp):
GCTAATGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATATTCAA
Found at i:42553489 original size:30 final size:30
Alignment explanation
Indices: 42553455--42553522 Score: 127
Period size: 30 Copynumber: 2.3 Consensus size: 30
42553445 GCCTGTGTGT
42553455 GCTGCTGCTTGCTCCCAACTCCTGCTACGC
1 GCTGCTGCTTGCTCCCAACTCCTGCTACGC
*
42553485 GCTGCTGCTTGCTCCCAACTCCTGCTACGT
1 GCTGCTGCTTGCTCCCAACTCCTGCTACGC
42553515 GCTGCTGC
1 GCTGCTGC
42553523 CTCACGCACA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.09, C:0.41, G:0.22, T:0.28
Consensus pattern (30 bp):
GCTGCTGCTTGCTCCCAACTCCTGCTACGC
Found at i:42558001 original size:48 final size:48
Alignment explanation
Indices: 42557837--42558005 Score: 166
Period size: 48 Copynumber: 3.6 Consensus size: 48
42557827 TGATATGTGT
* * * **
42557837 GCTAGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATATTTAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACCTCGTGATATACAA
* * * ** *
42557885 GCCAGTGTAAGACATGTTTGGGACATGCATTGA--TATTG--AGACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACCTCGTGATATAC-A-A
*
42557931 GCTAGTGTAAGACATGTTTGGGACATGCATCGACCTCGTGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACCTCGTGATATACAA
* *
42557979 GCTAGTGTAAGACCTATCTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
42558006 GCGTCAGCTT
Statistics
Matches: 96, Mismatches: 19, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 34 0.35
48 56 0.58
49 1 0.01
50 3 0.03
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.27
Consensus pattern (48 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGACCTCGTGATATACAA
Found at i:42563631 original size:22 final size:22
Alignment explanation
Indices: 42563603--42563682 Score: 61
Period size: 22 Copynumber: 3.3 Consensus size: 22
42563593 TCAAAGCACC
42563603 ACCAATAGTTTAAGCTAAGCAA
1 ACCAATAGTTTAAGCTAAGCAA
*** *
42563625 ACCAATATGAAACCATAGCTCAAAGCACC
1 ACCAATA-G--TTTA-AGCT--AAGCA-A
42563654 ACCAATAGTTTAAGCTAAGCAA
1 ACCAATAGTTTAAGCTAAGCAA
42563676 ACCAATA
1 ACCAATA
42563683 AAATAACGCC
Statistics
Matches: 43, Mismatches: 8, Indels: 14
0.66 0.12 0.22
Matches are distributed among these distances:
22 14 0.33
23 6 0.14
25 5 0.12
26 5 0.12
28 6 0.14
29 7 0.16
ACGTcount: A:0.46, C:0.24, G:0.11, T:0.19
Consensus pattern (22 bp):
ACCAATAGTTTAAGCTAAGCAA
Found at i:42563653 original size:51 final size:51
Alignment explanation
Indices: 42563578--42563682 Score: 210
Period size: 51 Copynumber: 2.1 Consensus size: 51
42563568 CATAAATATT
42563578 ATATGAAACCATAGCTCAAAGCACCACCAATAGTTTAAGCTAAGCAAACCA
1 ATATGAAACCATAGCTCAAAGCACCACCAATAGTTTAAGCTAAGCAAACCA
42563629 ATATGAAACCATAGCTCAAAGCACCACCAATAGTTTAAGCTAAGCAAACCA
1 ATATGAAACCATAGCTCAAAGCACCACCAATAGTTTAAGCTAAGCAAACCA
42563680 ATA
1 ATA
42563683 AAATAACGCC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.46, C:0.25, G:0.11, T:0.18
Consensus pattern (51 bp):
ATATGAAACCATAGCTCAAAGCACCACCAATAGTTTAAGCTAAGCAAACCA
Found at i:42565607 original size:40 final size:40
Alignment explanation
Indices: 42565519--42565735 Score: 282
Period size: 40 Copynumber: 5.5 Consensus size: 40
42565509 CGGATGATAA
* *
42565519 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGCTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
42565558 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
42565598 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* **
42565638 CCGGGTTAAGTCCCGAAGGCATTTGTGCGACCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
42565678 CCGGGCTAAATCCCGAAGGCAGTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
42565718 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
42565736 TACTTGGTTT
Statistics
Matches: 164, Mismatches: 11, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
39 47 0.29
40 116 0.71
41 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:42568904 original size:12 final size:12
Alignment explanation
Indices: 42568883--42568915 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
42568873 CCCGTATGCC
42568883 AGGCCATGTGCT
1 AGGCCATGTGCT
*
42568895 AGGCCGTGTGCT
1 AGGCCATGTGCT
42568907 AGGCCATGT
1 AGGCCATGT
42568916 AACTTCTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.15, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
AGGCCATGTGCT
Found at i:42574442 original size:40 final size:40
Alignment explanation
Indices: 42574398--42574506 Score: 164
Period size: 40 Copynumber: 2.7 Consensus size: 40
42574388 TCTAGTGTAA
* *
42574398 TTCAGTCGGATTAGCTCTTATGAGCTTTTGTATGGTGTGT
1 TTCAGTTGGATTAGCTCTTATGAGCTTTTGTATAGTGTGT
* *
42574438 TTCAGTTGGATTAGCTCTTCTGAGCTTTTGTCTAGTGTGT
1 TTCAGTTGGATTAGCTCTTATGAGCTTTTGTATAGTGTGT
* *
42574478 TTCGGTTGGATTAGCTCATATGAGCTTTT
1 TTCAGTTGGATTAGCTCTTATGAGCTTTT
42574507 ATCTGGTATG
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 62 1.00
ACGTcount: A:0.15, C:0.14, G:0.26, T:0.46
Consensus pattern (40 bp):
TTCAGTTGGATTAGCTCTTATGAGCTTTTGTATAGTGTGT
Found at i:42578954 original size:19 final size:19
Alignment explanation
Indices: 42578930--42578967 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
42578920 CCTTTATAAG
42578930 AGACTCTATATTGATGGTT
1 AGACTCTATATTGATGGTT
42578949 AGACTCTATATTGATGGTT
1 AGACTCTATATTGATGGTT
42578968 GATCTTTAAT
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:0.26, C:0.11, G:0.21, T:0.42
Consensus pattern (19 bp):
AGACTCTATATTGATGGTT
Found at i:42585867 original size:18 final size:18
Alignment explanation
Indices: 42585826--42585867 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
42585816 ATAGTTAAGT
*
42585826 AAAGAAACAAAAGAAATA
1 AAAGAAACAAAAGAAAGA
*
42585844 AAAGAAA-AAAAGAAGGA
1 AAAGAAACAAAAGAAAGA
42585861 AACAGAA
1 AA-AGAA
42585868 TAAGGAACGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.76, C:0.05, G:0.17, T:0.02
Consensus pattern (18 bp):
AAAGAAACAAAAGAAAGA
Found at i:42594769 original size:63 final size:64
Alignment explanation
Indices: 42594696--42594839 Score: 218
Period size: 65 Copynumber: 2.2 Consensus size: 64
42594686 AAGACTCAAA
*
42594696 AATTAAAATTTTTTATTTC-TTTTTTTTGTTTTACTTGAAAAGATATATTCTCAGTATCGTTCT
1 AATTAAAATTTTTTATTTCTTTTTTTTTGTTTTACTTGAAAAGATATATTCTCACTATCGTTCT
** *
42594759 AATTAAAATTTTAGATTTCTTTTTTTTTTGTTTTACTTGAAAAGATTTATTCTCACTATCGTTCT
1 AATTAAAATTTTTTATTTC-TTTTTTTTTGTTTTACTTGAAAAGATATATTCTCACTATCGTTCT
42594824 AACTTAAAAGTTTTTT
1 AA-TTAAAA-TTTTTT
42594840 TAAAAGGAAA
Statistics
Matches: 71, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
63 17 0.24
65 44 0.62
66 6 0.08
67 4 0.06
ACGTcount: A:0.28, C:0.10, G:0.08, T:0.55
Consensus pattern (64 bp):
AATTAAAATTTTTTATTTCTTTTTTTTTGTTTTACTTGAAAAGATATATTCTCACTATCGTTCT
Found at i:42601057 original size:11 final size:10
Alignment explanation
Indices: 42601031--42601096 Score: 51
Period size: 11 Copynumber: 5.9 Consensus size: 10
42601021 GATATTAGAG
*
42601031 ATATTTTGATG
1 ATATTTT-ATA
42601042 ATATTTTATA
1 ATATTTTATA
42601052 ATTATTTTATTA
1 A-TATTTTA-TA
42601064 ATATTTTAATGA
1 ATATTTT-AT-A
42601076 GATATTTTATTA
1 -ATATTTTA-TA
*
42601088 TTATTTTAT
1 ATATTTTAT
42601097 TTAGTATATA
Statistics
Matches: 47, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
10 4 0.09
11 28 0.60
12 7 0.15
13 8 0.17
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (10 bp):
ATATTTTATA
Found at i:42601097 original size:11 final size:11
Alignment explanation
Indices: 42601042--42601097 Score: 60
Period size: 11 Copynumber: 4.9 Consensus size: 11
42601032 TATTTTGATG
42601042 ATATTTTA-TA
1 ATATTTTATTA
42601052 ATTATTTTATTA
1 A-TATTTTATTA
*
42601064 ATATTTTAATGA
1 ATATTTT-ATTA
42601076 GATATTTTATTA
1 -ATATTTTATTA
*
42601088 TTATTTTATT
1 ATATTTTATT
42601098 TAGTATATAA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
10 1 0.03
11 22 0.56
12 9 0.23
13 7 0.18
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (11 bp):
ATATTTTATTA
Found at i:42618178 original size:39 final size:40
Alignment explanation
Indices: 42618043--42618266 Score: 242
Period size: 40 Copynumber: 5.7 Consensus size: 40
42618033 TTGAATGCTG
* * * * *
42618043 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
** *
42618083 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
42618122 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAG-TACTAAA
1 -TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
42618162 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
42618202 TCCGGGTTAAGTCCCGAAGGCA-TTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
42618241 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTG
42618267 AACGAGGAGC
Statistics
Matches: 157, Mismatches: 20, Indels: 14
0.82 0.10 0.07
Matches are distributed among these distances:
39 67 0.43
40 82 0.52
41 8 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:42618183 original size:79 final size:78
Alignment explanation
Indices: 42618043--42618266 Score: 254
Period size: 79 Copynumber: 2.8 Consensus size: 78
42618033 TTGAATGCTG
* * * * *
42618043 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGC-GAGT-ACTAAATCCGGGCTAAG-TCCCGAAGGCATT
42618107 TGTGCGAGATA-CAAA
63 TGTGCGAGATATCAAA
* * *
42618122 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGTACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 -TCCGGGTTAAGTCCCGAAGG-CTTTGTGCGAGTACTAAATCCGGGCTAAGTCCCGAAGGCATTT
* *
42618187 GTGCGAGTTATTAAA
64 GTGCGAGATATCAAA
* * * *
42618202 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAG-TACTAAATCCGGGCTAAGTCCCGAAGGCATTTG
42618267 AACGAGGAGC
Statistics
Matches: 123, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
78 10 0.08
79 81 0.66
80 24 0.20
81 8 0.07
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (78 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCGAGTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGT
GCGAGATATCAAA
Found at i:42618284 original size:79 final size:79
Alignment explanation
Indices: 42618123--42618299 Score: 198
Period size: 79 Copynumber: 2.3 Consensus size: 79
42618113 AGATACAAAT
* * * *
42618123 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGTACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGTACTAAAACCGGGCTAAGTCCCGAAGGCATTCG
** * *
42618188 TGCGAGTTATTAAA
66 AACGAGTGACTAAA
* * *
42618202 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAG-TACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
42618266 GAACGAG-GAGCTATA
65 GAACGAGTGA-CTAAA
*
42618281 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
42618300 TACGTGATTT
Statistics
Matches: 83, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
78 25 0.30
79 58 0.70
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGTACTAAAACCGGGCTAAGTCCCGAAGGCATTCG
AACGAGTGACTAAA
Found at i:42620525 original size:27 final size:27
Alignment explanation
Indices: 42620495--42620673 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
42620485 ATATTGAGTC
* *
42620495 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
42620522 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
42620549 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
42620577 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
42620604 CGCAACACTTAGTGC-ATCATATTCATTT
1 CGC-ACACTTAGTGCTA-CATAATCAACT
* * *
42620632 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
42620659 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
42620674 GTACAATTTA
Statistics
Matches: 129, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 83 0.64
28 46 0.36
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:42620587 original size:55 final size:54
Alignment explanation
Indices: 42620495--42620673 Score: 207
Period size: 55 Copynumber: 3.3 Consensus size: 54
42620485 ATATTGAGTC
* * * * *
42620495 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
* ** * *
42620549 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATC-AACTCGCACACTTAGTGCAACATAGTCAAAT
* **
42620604 CGCAACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGC-ACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
42620659 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
42620674 GTACAATTTA
Statistics
Matches: 105, Mismatches: 16, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
54 31 0.30
55 57 0.54
56 17 0.16
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:42626846 original size:22 final size:22
Alignment explanation
Indices: 42626821--42626863 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
42626811 GACTATGCGA
42626821 TCTGAGCTCATGAGT-TATGTGG
1 TCTGAGCTCATGA-TATATGTGG
42626843 TCTGAGCTCATGATATATGTG
1 TCTGAGCTCATGATATATGTG
42626864 ACACATGTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 1 0.05
22 19 0.95
ACGTcount: A:0.21, C:0.14, G:0.28, T:0.37
Consensus pattern (22 bp):
TCTGAGCTCATGATATATGTGG
Found at i:42629203 original size:49 final size:49
Alignment explanation
Indices: 42629149--42629279 Score: 149
Period size: 49 Copynumber: 2.7 Consensus size: 49
42629139 TGACATGTGT
* * *
42629149 CAGTGTAAGACTTGTCTGGGGCATGACATCGACAC-CGAT-TGATGAGAGC
1 CAGTGTAAGACCTGTCTGGGACATGACATCGAC-CTCGATAT-ATGAAAGC
* * * *
42629198 CAGTGTAAGACCTGTTTGGGACATGCCATCGGCCTCGATATATGAAAGT
1 CAGTGTAAGACCTGTCTGGGACATGACATCGACCTCGATATATGAAAGC
* *
42629247 CAATGTAAGACCTGTCTGGGACATGGCATCGAC
1 CAGTGTAAGACCTGTCTGGGACATGACATCGAC
42629280 TTAGATGTGT
Statistics
Matches: 69, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
48 1 0.01
49 67 0.97
50 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACATGACATCGACCTCGATATATGAAAGC
Found at i:42629205 original size:93 final size:93
Alignment explanation
Indices: 42628961--42629329 Score: 290
Period size: 93 Copynumber: 3.9 Consensus size: 93
42628951 ATGGATATGT
* *
42628961 GCTAGTGTAAGACATGTCTGGGTCATGCATCAGCCA-C-ATTATGAGAGCCAGTGTAAGACCATG
1 GCTAGTGTAAGACATGTCTGGGACATGCATC-GACACCGATTATGAGAGCCAGTGTAAGACC-TG
*
42629024 TTTGGGACATGGCATCAGCATTAAGACGAGA
64 TTTGGGACATGGCATCGGCATT-AGACGAGA
* * *
42629055 GCTAGTGTAAGACATGTATGGGACATGCATCGAC-CTCGAGATATGCA-AGCTAGTGTAAGACCT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGACAC-CGA-TTATG-AGAGCCAGTGTAAGACCT
* * *
42629118 ATCTGGGACATGGCATCGGC-TT-GAC-ATGT
63 GTTTGGGACATGGCATCGGCATTAGACGA-GA
* *
42629147 G-TCAGTGTAAGACTTGTCTGGGGCATGACATCGACACCGATTGATGAGAGCCAGTGTAAGACCT
1 GCT-AGTGTAAGACATGTCTGGGACATG-CATCGACACCGATT-ATGAGAGCCAGTGTAAGACCT
* * * * *
42629211 GTTTGGGACATGCCATCGGCCTCGATATATGAAA
63 GTTTGGGACATGGCATCGGCAT---TAGACGAGA
* * *** * * *
42629245 G-TCAATGTAAGACCTGTCTGGGACATGGCATCGACTTAGA-TGTGTGAGCCAATGTAAGACCAT
1 GCT-AGTGTAAGACATGTCTGGGACAT-GCATCGACACCGATTATGAGAGCCAGTGTAAGACC-T
* *
42629308 GTTTGGAACATGGCATTGGCAT
63 GTTTGGGACATGGCATCGGCAT
42629330 CGTACCCTAT
Statistics
Matches: 222, Mismatches: 34, Indels: 35
0.76 0.12 0.12
Matches are distributed among these distances:
91 2 0.01
92 28 0.13
93 47 0.21
94 34 0.15
95 19 0.09
96 35 0.16
97 22 0.10
98 33 0.15
99 2 0.01
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (93 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGACACCGATTATGAGAGCCAGTGTAAGACCTGTT
TGGGACATGGCATCGGCATTAGACGAGA
Found at i:42641859 original size:191 final size:191
Alignment explanation
Indices: 42641516--42641872 Score: 579
Period size: 191 Copynumber: 1.9 Consensus size: 191
42641506 TCCAATAAGT
* *
42641516 GAGTTATAATAATGTCATATTAAGATTTGGTTAGAAAATTTTAACGTTAAATAGTTAATTAATTA
1 GAGTCATAAAAATGTCATATTAAGATTTGGTTAGAAAATTTTAACGTTAAATAGTTAATTAATTA
* * * * *
42641581 AAAAGGACTAAATATTAAAAGTTGTAAATATTAGTTTTTACTATTTAAAGGAGTTAAATAGCTAT
66 AAAAGGACAAAATAGTAAAAGTTGTAAACATTAGTTTCTACTATTTAAAGGAGTTAAATAACTAT
* *
42641646 AGAATAAGGAAGTGGTGGATTATTATGGAAATTAAATATTAGTATTTAATTATTATTTATA
131 AGAATAAGGAAATAGTGGATTATTATGGAAATTAAATATTAGTATTTAATTATTATTTATA
* * *
42641707 GAGTCATAAAAATGTCGTGTTAAGATTTGGTTAGAAAATTTTAACGTTAAATATTTAATTAATTA
1 GAGTCATAAAAATGTCATATTAAGATTTGGTTAGAAAATTTTAACGTTAAATAGTTAATTAATTA
* *
42641772 AAAAGGACAAAATCGTAAAAGTTGTAAACATTAGTTTCTATTATTTAAAGGAGTTAAATAACTAT
66 AAAAGGACAAAATAGTAAAAGTTGTAAACATTAGTTTCTACTATTTAAAGGAGTTAAATAACTAT
*
42641837 AGAATAAGGAAATAGTGGATTATTATGGAGATTAAA
131 AGAATAAGGAAATAGTGGATTATTATGGAAATTAAA
42641873 CAATCATTTA
Statistics
Matches: 151, Mismatches: 15, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
191 151 1.00
ACGTcount: A:0.43, C:0.04, G:0.16, T:0.37
Consensus pattern (191 bp):
GAGTCATAAAAATGTCATATTAAGATTTGGTTAGAAAATTTTAACGTTAAATAGTTAATTAATTA
AAAAGGACAAAATAGTAAAAGTTGTAAACATTAGTTTCTACTATTTAAAGGAGTTAAATAACTAT
AGAATAAGGAAATAGTGGATTATTATGGAAATTAAATATTAGTATTTAATTATTATTTATA
Found at i:42645745 original size:37 final size:37
Alignment explanation
Indices: 42645691--42645772 Score: 128
Period size: 37 Copynumber: 2.2 Consensus size: 37
42645681 ATCCAACCAA
* * * *
42645691 AACACGCAAAATTCTCATGAGATCTAATCCAATTGAT
1 AACACGCCAAATGCTCATGAGAGCTAATCCAACTGAT
42645728 AACACGCCAAATGCTCATGAGAGCTAATCCAACTGAT
1 AACACGCCAAATGCTCATGAGAGCTAATCCAACTGAT
42645765 AACACGCC
1 AACACGCC
42645773 TCCGCACTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 41 1.00
ACGTcount: A:0.39, C:0.27, G:0.13, T:0.21
Consensus pattern (37 bp):
AACACGCCAAATGCTCATGAGAGCTAATCCAACTGAT
Found at i:42657974 original size:51 final size:52
Alignment explanation
Indices: 42657769--42657982 Score: 310
Period size: 51 Copynumber: 4.2 Consensus size: 52
42657759 ATTTTAAGAG
* * *
42657769 TCACACGCCTATGTGGCTTGGGACATGCCTGTGTGGGCAGGCCGTGTGGTCA
1 TCACACGCCCATGTGGCTTGAGACATGCCCGTGTGGGCAGGCCGTGTGGTCA
*
42657821 TC-CACTCCCATGTGGCTTGAGACATGCCCGTGTGGGCAGGCCGTGTGGTCA
1 TCACACGCCCATGTGGCTTGAGACATGCCCGTGTGGGCAGGCCGTGTGGTCA
*
42657872 TC-CACTCCCATGTGGCTTGAGACATGCCCGTGTGGGCAGGCCGTGTGGTCA
1 TCACACGCCCATGTGGCTTGAGACATGCCCGTGTGGGCAGGCCGTGTGGTCA
* * * * *
42657923 -CACACGCCCATGTAGCTTGGGACATGCCTGTGTGGGCAGGCTGTATGGTCA
1 TCACACGCCCATGTGGCTTGAGACATGCCCGTGTGGGCAGGCCGTGTGGTCA
42657974 -CACACGCCC
1 TCACACGCCC
42657983 GTGTCTTTAA
Statistics
Matches: 151, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
50 1 0.01
51 148 0.98
52 2 0.01
ACGTcount: A:0.15, C:0.29, G:0.33, T:0.23
Consensus pattern (52 bp):
TCACACGCCCATGTGGCTTGAGACATGCCCGTGTGGGCAGGCCGTGTGGTCA
Found at i:42660124 original size:12 final size:14
Alignment explanation
Indices: 42660093--42660129 Score: 51
Period size: 12 Copynumber: 2.7 Consensus size: 14
42660083 TATTTTATTT
42660093 ATATTAAGATAATTA
1 ATATTAAGATAA-TA
42660108 ATATTAAGAT-A-A
1 ATATTAAGATAATA
42660120 ATATTAAGAT
1 ATATTAAGAT
42660130 TATTTAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 11 0.50
14 1 0.05
15 10 0.45
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (14 bp):
ATATTAAGATAATA
Done.