Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 145 of 216
Found at i:45873534 original size:23 final size:21
Alignment explanation
Indices: 45873488--45873535 Score: 53
Period size: 24 Copynumber: 2.1 Consensus size: 21
45873478 AAATTATACC
45873488 ACAGTCCATAAAAATGTTGCTA
1 ACAGTCCATAAAAATGTT-CTA
45873510 ACAGTCCAATTAAAAATGATT-TA
1 ACAGTCC-A-TAAAAATG-TTCTA
45873533 ACA
1 ACA
45873536 AAATTATTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
22 7 0.30
23 6 0.26
24 8 0.35
25 2 0.09
ACGTcount: A:0.46, C:0.17, G:0.10, T:0.27
Consensus pattern (21 bp):
ACAGTCCATAAAAATGTTCTA
Found at i:45874634 original size:21 final size:21
Alignment explanation
Indices: 45874610--45874676 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
45874600 ACAGGCCTAG
45874610 GTGAAAGAA-GCACACG-CTCGT
1 GTGAAA-AAGGCACACGAC-CGT
*
45874631 GTGAAAAAGGCGCACGACCGT
1 GTGAAAAAGGCACACGACCGT
* * *
45874652 GTGAAAAAGGTATATGACCGT
1 GTGAAAAAGGCACACGACCGT
45874673 GTGA
1 GTGA
45874677 GTAGCCCGTG
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
20 2 0.05
21 36 0.92
22 1 0.03
ACGTcount: A:0.34, C:0.18, G:0.31, T:0.16
Consensus pattern (21 bp):
GTGAAAAAGGCACACGACCGT
Found at i:45886370 original size:45 final size:45
Alignment explanation
Indices: 45886306--45886395 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
45886296 AATGCCATCT
45886306 TATAAACATCAGCCTCCTTAACCCTTAATTGATGATACCGAGATC
1 TATAAACATCAGCCTCCTTAACCCTTAATTGATGATACCGAGATC
*
45886351 TATAAACATCATCCTCCTTAACCCTTAATTGATGATACCGAGATC
1 TATAAACATCAGCCTCCTTAACCCTTAATTGATGATACCGAGATC
45886396 GGAGGTCAAT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.33, C:0.27, G:0.10, T:0.30
Consensus pattern (45 bp):
TATAAACATCAGCCTCCTTAACCCTTAATTGATGATACCGAGATC
Found at i:45888624 original size:27 final size:27
Alignment explanation
Indices: 45888594--45888645 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
45888584 TCATCCCCTA
45888594 GGGGTATAACAGTTATTTTACCCTACG
1 GGGGTATAACAGTTATTTTACCCTACG
** *
45888621 GGGGTATTTCGGTTATTTTACCCTA
1 GGGGTATAACAGTTATTTTACCCTA
45888646 TAACGGTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.21, C:0.17, G:0.23, T:0.38
Consensus pattern (27 bp):
GGGGTATAACAGTTATTTTACCCTACG
Found at i:45888653 original size:27 final size:27
Alignment explanation
Indices: 45888608--45889071 Score: 353
Period size: 27 Copynumber: 17.1 Consensus size: 27
45888598 TATAACAGTT
* * *
45888608 ATTTTACCCTACGGGGGTATTTCGGTT
1 ATTTTACCCTATGAGGGTATTTCGGTC
* *
45888635 ATTTTACCCTATAACGGTATTTCGGTC
1 ATTTTACCCTATGAGGGTATTTCGGTC
*
45888662 ATTTTACCCTATGAGGGTATTTCGATC
1 ATTTTACCCTATGAGGGTATTTCGGTC
** *
45888689 ATTTTACCCTATGAGGGTATTTTAGTT
1 ATTTTACCCTATGAGGGTATTTCGGTC
* *
45888716 ATTTTACCTTATTGAGGG-ATTTCGGTT
1 ATTTTACCCTA-TGAGGGTATTTCGGTC
* *
45888743 ATTTTACCCTGT-AGAGGTAGTTCGGTC
1 ATTTTACCCTATGAG-GGTATTTCGGTC
* * *
45888770 ATCTTACCCTATGGGGGTAGTTCGGTC
1 ATTTTACCCTATGAGGGTATTTCGGTC
* * *
45888797 ATTTTACCCTGTGGGGGTAATTCGGTC
1 ATTTTACCCTATGAGGGTATTTCGGTC
* * * *
45888824 ATTTTACCCTGTGGGGGTAATTCGATC
1 ATTTTACCCTATGAGGGTATTTCGGTC
** * *
45888851 ATTTTACCCCGTGAGGGTAATTCGATC
1 ATTTTACCCTATGAGGGTATTTCGGTC
** * *
45888878 ATTTTACCCCGTGGGGGTAATTT-AGTC
1 ATTTTACCCTATGAGGGT-ATTTCGGTC
** *
45888905 ATTTTACCCCGTGGGGGTAATTT-GGTC
1 ATTTTACCCTATGAGGGT-ATTTCGGTC
* * * **
45888932 ATTTTTACCCTGTAAGGGTAATTCAATC
1 A-TTTTACCCTATGAGGGTATTTCGGTC
* * *
45888960 ATTTTACCCTGTGAGGGTAATTCGATC
1 ATTTTACCCTATGAGGGTATTTCGGTC
* * *
45888987 ATTTTACCCTGTGGGGGTAATTCGGTC
1 ATTTTACCCTATGAGGGTATTTCGGTC
* * * * ** *
45889014 ATTTTACCTTGTGGGGGTAATTCAATT
1 ATTTTACCCTATGAGGGTATTTCGGTC
* *
45889041 ATTTTACCCTGTGGGGGTAATTT-GGTC
1 ATTTTACCCTATGAGGGT-ATTTCGGTC
45889068 ATTT
1 ATTT
45889072 ATTGACCTCT
Statistics
Matches: 377, Mismatches: 52, Indels: 16
0.85 0.12 0.04
Matches are distributed among these distances:
25 2 0.01
26 3 0.01
27 342 0.91
28 30 0.08
ACGTcount: A:0.19, C:0.17, G:0.24, T:0.40
Consensus pattern (27 bp):
ATTTTACCCTATGAGGGTATTTCGGTC
Found at i:45888669 original size:54 final size:54
Alignment explanation
Indices: 45888608--45889071 Score: 441
Period size: 54 Copynumber: 8.6 Consensus size: 54
45888598 TATAACAGTT
* * * * * *
45888608 ATTTTACCCTACGGGGGTATTTCGGTTATTTTACCCTATAACGGTATTTCGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTGTGAGGGTAATTCGGTC
* * * * ** *
45888662 ATTTTACCCTATGAGGGTATTTCGATCATTTTACCCTATGAGGGTATTTTAGTT
1 ATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTGTGAGGGTAATTCGGTC
* * * *
45888716 ATTTTACCTTATTGAGGG-ATTTCGGTTATTTTACCCTGT-AGAGGTAGTTCGGTC
1 ATTTTACCCTA-TGGGGGTATTTCGGTCATTTTACCCTGTGAG-GGTAATTCGGTC
* * *
45888770 ATCTTACCCTATGGGGGTAGTTCGGTCATTTTACCCTGTGGGGGTAATTCGGTC
1 ATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTGTGAGGGTAATTCGGTC
* * * * *
45888824 ATTTTACCCTGTGGGGGTAATTCGATCATTTTACCCCGTGAGGGTAATTCGATC
1 ATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTGTGAGGGTAATTCGGTC
** * * * *
45888878 ATTTTACCCCGTGGGGGTAATTT-AGTCATTTTACCCCGTGGGGGTAATTTGGTC
1 ATTTTACCCTATGGGGGT-ATTTCGGTCATTTTACCCTGTGAGGGTAATTCGGTC
* ** * ** *
45888932 ATTTTTACCCTGTAAGGGTAATTCAATCATTTTACCCTGTGAGGGTAATTCGATC
1 A-TTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTGTGAGGGTAATTCGGTC
* * * * ** *
45888987 ATTTTACCCTGTGGGGGTAATTCGGTCATTTTACCTTGTGGGGGTAATTCAATT
1 ATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTGTGAGGGTAATTCGGTC
*
45889041 ATTTTACCCTGTGGGGGTAATTT-GGTCATTT
1 ATTTTACCCTATGGGGGT-ATTTCGGTCATTT
45889072 ATTGACCTCT
Statistics
Matches: 346, Mismatches: 56, Indels: 16
0.83 0.13 0.04
Matches are distributed among these distances:
53 7 0.02
54 285 0.82
55 54 0.16
ACGTcount: A:0.19, C:0.17, G:0.24, T:0.40
Consensus pattern (54 bp):
ATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTGTGAGGGTAATTCGGTC
Found at i:45889062 original size:81 final size:81
Alignment explanation
Indices: 45888650--45889071 Score: 468
Period size: 81 Copynumber: 5.2 Consensus size: 81
45888640 ACCCTATAAC
* * * * * * * * *
45888650 GGTATTTCGGTCATTTTACCCTATGAGGGTATTTCGATCATTTTACCCTATGAGGGTATTTTAGT
1 GGTAATTCGGTCATTTTACCCTGTGGGGGTAATTCGGTCATTTTACCCTGTGAGGGTAATTCAAT
* * * *
45888715 TATTTTACCTTATTGAG
66 CATTTTACCCT-GTGGG
* * * * * * * * * **
45888732 GG-ATTTCGGTTATTTTACCCTGTAGAGGTAGTTCGGTCATCTTACCCTATGGGGGTAGTTCGGT
1 GGTAATTCGGTCATTTTACCCTGTGGGGGTAATTCGGTCATTTTACCCTGTGAGGGTAATTCAAT
45888796 CATTTTACCCTGTGGG
66 CATTTTACCCTGTGGG
* * *
45888812 GGTAATTCGGTCATTTTACCCTGTGGGGGTAATTCGATCATTTTACCCCGTGAGGGTAATTCGAT
1 GGTAATTCGGTCATTTTACCCTGTGGGGGTAATTCGGTCATTTTACCCTGTGAGGGTAATTCAAT
*
45888877 CATTTTACCCCGTGGG
66 CATTTTACCCTGTGGG
** * * *
45888893 GGTAATTTAGTCATTTTACCCCGTGGGGGTAATTTGGTCATTTTTACCCTGTAAGGGTAATTCAA
1 GGTAATTCGGTCATTTTACCCTGTGGGGGTAATTCGGTCA-TTTTACCCTGTGAGGGTAATTCAA
*
45888958 TCATTTTACCCTGTGAG
65 TCATTTTACCCTGTGGG
* * *
45888975 GGTAATTCGATCATTTTACCCTGTGGGGGTAATTCGGTCATTTTACCTTGTGGGGGTAATTCAAT
1 GGTAATTCGGTCATTTTACCCTGTGGGGGTAATTCGGTCATTTTACCCTGTGAGGGTAATTCAAT
*
45889040 TATTTTACCCTGTGGG
66 CATTTTACCCTGTGGG
*
45889056 GGTAATTTGGTCATTT
1 GGTAATTCGGTCATTT
45889072 ATTGACCTCT
Statistics
Matches: 287, Mismatches: 51, Indels: 5
0.84 0.15 0.01
Matches are distributed among these distances:
80 5 0.02
81 209 0.73
82 73 0.25
ACGTcount: A:0.19, C:0.17, G:0.24, T:0.40
Consensus pattern (81 bp):
GGTAATTCGGTCATTTTACCCTGTGGGGGTAATTCGGTCATTTTACCCTGTGAGGGTAATTCAAT
CATTTTACCCTGTGGG
Found at i:45898404 original size:14 final size:14
Alignment explanation
Indices: 45898385--45898411 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
45898375 ATTTCATTCC
45898385 ACATATATATATAT
1 ACATATATATATAT
45898399 ACATATATATATA
1 ACATATATATATA
45898412 AACAGATAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (14 bp):
ACATATATATATAT
Found at i:45898825 original size:140 final size:139
Alignment explanation
Indices: 45898675--45899123 Score: 459
Period size: 140 Copynumber: 3.2 Consensus size: 139
45898665 TGGACAACTA
* ** *
45898675 TTATACATCAATTTGAACAGCAT-TTTATATACCAAACT-AAATGGCATTT-TCACACCAAAATT
1 TTATACATCAAATTG-ACAGCATATACATATA--AAACTGAAAT-GCATTTAT-ACACCAAAAAT
45898737 TGGACAGCATAATTACA-A-A-A-TTGGACTGCATTTATACATCAAAAAGTGACAGCATATACAT
61 T-GACAGCAT-A-TACATATATATTTGGACTGCATTTATACATCAAAAAGTGACAGCATATACAT
*
45898798 ATATATTTGGACTGCAT
123 ATATAATTGGACTGCAT
* * * * * *
45898815 TTGTACATCAAAATTGACAGCATATACATATATAATTGGACTGCATTTATACATCAAAAATTGAC
1 TTATACATC-AAATTGACAGCATATACATATAAAACTGAAATGCATTTATACACCAAAAATTGAC
* **
45898880 AGCATATACATATATATTTGGACTGCATTTGTACATCAAAATTTGACAGCATATACATATATAAT
65 AGCATATACATATATATTTGGACTGCATTTATACATCAAAAAGTGACAGCATATACATATATAAT
45898945 TGGACTGCAT
130 TGGACTGCAT
* * * * * * ** *
45898955 TTATACGTCAAAAATTGACAGCATATACATATATAATTGGACTGC-CTTATACATAAAAAATTAA
1 TTATACATC--AAATTGACAGCATATACATATAAAACTGAAATGCATTTATACACCAAAAATTGA
** *
45899019 CAGCATATACATATATAATTT-GACT-CCCTTATACATCAAAAATTGACAGCATATACATATATA
64 CAGCATATACATATAT-ATTTGGACTGCATTTATACATCAAAAAGTGACAGCATATACATATATA
45899082 ATTGGACTGCAT
128 ATTGGACTGCAT
*
45899094 TTGTACATCAAAATTTGACAGCATATACAT
1 TTATACATC-AAA-TTGACAGCATATACAT
45899124 TCATTTACTC
Statistics
Matches: 273, Mismatches: 25, Indels: 23
0.85 0.08 0.07
Matches are distributed among these distances:
136 4 0.01
137 2 0.01
138 13 0.05
139 89 0.33
140 115 0.42
141 50 0.18
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.32
Consensus pattern (139 bp):
TTATACATCAAATTGACAGCATATACATATAAAACTGAAATGCATTTATACACCAAAAATTGACA
GCATATACATATATATTTGGACTGCATTTATACATCAAAAAGTGACAGCATATACATATATAATT
GGACTGCAT
Found at i:45898827 original size:93 final size:94
Alignment explanation
Indices: 45898730--45899123 Score: 609
Period size: 93 Copynumber: 4.2 Consensus size: 94
45898720 ATTTTCACAC
* * * *
45898730 CAAAATTTGGACAGCATA-A-TTACAAAATTGGACTGCATTTATACATCAAAAAGTGACAGCATA
1 CAAAATTT-GACAGCATATACATATATAATTGGACTGCATTTATACATCAAAAATTGACAGCATA
*
45898793 TACATATATATTTGGACTGCATTTGTACAT
65 TACATATATAATTGGACTGCATTTGTACAT
45898823 CAAAA-TTGACAGCATATACATATATAATTGGACTGCATTTATACATCAAAAATTGACAGCATAT
1 CAAAATTTGACAGCATATACATATATAATTGGACTGCATTTATACATCAAAAATTGACAGCATAT
*
45898887 ACATATATATTTGGACTGCATTTGTACAT
66 ACATATATAATTGGACTGCATTTGTACAT
*
45898916 CAAAATTTGACAGCATATACATATATAATTGGACTGCATTTATACGTCAAAAATTGACAGCATAT
1 CAAAATTTGACAGCATATACATATATAATTGGACTGCATTTATACATCAAAAATTGACAGCATAT
* *
45898981 ACATATATAATTGGACTGC-CTTATACAT
66 ACATATATAATTGGACTGCATTTGTACAT
* * * * **
45899009 AAAAAATTAACAGCATATACATATATAATTTGACT-CCCTTATACATCAAAAATTGACAGCATAT
1 CAAAATTTGACAGCATATACATATATAATTGGACTGCATTTATACATCAAAAATTGACAGCATAT
45899073 ACATATATAATTGGACTGCATTTGTACAT
66 ACATATATAATTGGACTGCATTTGTACAT
45899102 CAAAATTTGACAGCATATACAT
1 CAAAATTTGACAGCATATACAT
45899124 TCATTTACTC
Statistics
Matches: 277, Mismatches: 20, Indels: 8
0.91 0.07 0.03
Matches are distributed among these distances:
91 9 0.03
92 48 0.17
93 144 0.52
94 76 0.27
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.32
Consensus pattern (94 bp):
CAAAATTTGACAGCATATACATATATAATTGGACTGCATTTATACATCAAAAATTGACAGCATAT
ACATATATAATTGGACTGCATTTGTACAT
Found at i:45898854 original size:46 final size:47
Alignment explanation
Indices: 45898755--45899123 Score: 582
Period size: 47 Copynumber: 7.9 Consensus size: 47
45898745 ATAATTACAA
*
45898755 AATTGGACTGCATTTATACATCAAAAAGTGACAGCATATACATATAT
1 AATTGGACTGCATTTATACATCAAAAATTGACAGCATATACATATAT
* *
45898802 ATTTGGACTGCATTTGTACATC-AAAATTGACAGCATATACATATAT
1 AATTGGACTGCATTTATACATCAAAAATTGACAGCATATACATATAT
45898848 AATTGGACTGCATTTATACATCAAAAATTGACAGCATATACATATAT
1 AATTGGACTGCATTTATACATCAAAAATTGACAGCATATACATATAT
* * *
45898895 ATTTGGACTGCATTTGTACATCAAAATTTGACAGCATATACATATAT
1 AATTGGACTGCATTTATACATCAAAAATTGACAGCATATACATATAT
*
45898942 AATTGGACTGCATTTATACGTCAAAAATTGACAGCATATACATATAT
1 AATTGGACTGCATTTATACATCAAAAATTGACAGCATATACATATAT
* * *
45898989 AATTGGACTGC-CTTATACATAAAAAATTAACAGCATATACATATAT
1 AATTGGACTGCATTTATACATCAAAAATTGACAGCATATACATATAT
* **
45899035 AATTTGACT-CCCTTATACATCAAAAATTGACAGCATATACATATAT
1 AATTGGACTGCATTTATACATCAAAAATTGACAGCATATACATATAT
* *
45899081 AATTGGACTGCATTTGTACATCAAAATTTGACAGCATATACAT
1 AATTGGACTGCATTTATACATCAAAAATTGACAGCATATACAT
45899124 TCATTTACTC
Statistics
Matches: 295, Mismatches: 24, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
45 1 0.00
46 123 0.42
47 171 0.58
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.33
Consensus pattern (47 bp):
AATTGGACTGCATTTATACATCAAAAATTGACAGCATATACATATAT
Found at i:45899117 original size:24 final size:23
Alignment explanation
Indices: 45898730--45899123 Score: 185
Period size: 23 Copynumber: 17.0 Consensus size: 23
45898720 ATTTTCACAC
* *
45898730 CAAAATTTGGACAGCATAAT-TA-
1 CAAAATTT-GACAGCATTATACAT
* *
45898752 CAAAATTGGACTGCATTTATACAT
1 CAAAATTTGACAGCA-TTATACAT
**
45898776 CAAAAAGTGACAGCA-TATACAT
1 CAAAATTTGACAGCATTATACAT
* * *
45898798 -ATATATTTGGACTGCATTTGTACAT
1 CA-AAATTT-GACAGCA-TTATACAT
45898823 CAAAA-TTGACAGCA-TATACAT
1 CAAAATTTGACAGCATTATACAT
* *
45898844 -ATATAATTGGACTGCATTTATACAT
1 CA-A-AATTTGACAGCA-TTATACAT
*
45898869 CAAAAATTGACAGCA-TATACAT
1 CAAAATTTGACAGCATTATACAT
* * *
45898891 -ATATATTTGGACTGCATTTGTACAT
1 CA-AAATTT-GACAGCA-TTATACAT
45898916 CAAAATTTGACAGCA-TATACAT
1 CAAAATTTGACAGCATTATACAT
* * *
45898938 -ATATAATTGGACTGCATTTATACGT
1 CA-A-AATTTGACAGCA-TTATACAT
*
45898963 CAAAAATTGACAGCA-TATACAT
1 CAAAATTTGACAGCATTATACAT
* * *
45898985 -ATATAATTGGACTGCCTTATACAT
1 CA-A-AATTTGACAGCATTATACAT
* * *
45899009 AAAAAATTAACAGCA-TATACAT
1 CAAAATTTGACAGCATTATACAT
** *
45899031 -ATATAATTTGACTCCCTTATACAT
1 CA-A-AATTTGACAGCATTATACAT
*
45899055 CAAAAATTGACAGCA-TATACAT
1 CAAAATTTGACAGCATTATACAT
* * *
45899077 -ATATAATTGGACTGCATTTGTACAT
1 CA-A-AATTTGACAGCA-TTATACAT
45899102 CAAAATTTGACAGCA-TATACAT
1 CAAAATTTGACAGCATTATACAT
45899124 TCATTTACTC
Statistics
Matches: 275, Mismatches: 60, Indels: 74
0.67 0.15 0.18
Matches are distributed among these distances:
20 1 0.00
21 19 0.07
22 69 0.25
23 75 0.27
24 63 0.23
25 43 0.16
26 5 0.02
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.32
Consensus pattern (23 bp):
CAAAATTTGACAGCATTATACAT
Found at i:45899866 original size:43 final size:43
Alignment explanation
Indices: 45899778--45899901 Score: 137
Period size: 43 Copynumber: 2.9 Consensus size: 43
45899768 AGCTAGTACA
* *** * *
45899778 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCACATA-CCG
1 ATGCCGACGTCCCAGACGTGGTCTTACACAAAAACACA-AGTCG
*
45899821 ATGCC-ATTGTCCCAGACAG-GGTCTTACACAAAAACACAAGTCG
1 ATGCCGA-CGTCCCAGAC-GTGGTCTTACACAAAAACACAAGTCG
45899864 ATGCCGACGTCCCAGACGTGGTCTTACACAAAAACACA
1 ATGCCGACGTCCCAGACGTGGTCTTACACAAAAACACA
45899902 TATCGGAGTC
Statistics
Matches: 69, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
42 3 0.04
43 64 0.93
44 2 0.03
ACGTcount: A:0.32, C:0.30, G:0.19, T:0.19
Consensus pattern (43 bp):
ATGCCGACGTCCCAGACGTGGTCTTACACAAAAACACAAGTCG
Found at i:45906491 original size:47 final size:47
Alignment explanation
Indices: 45906438--45906667 Score: 390
Period size: 47 Copynumber: 4.9 Consensus size: 47
45906428 ATATTTACAA
*
45906438 AATTGGACTGCATTTATACATCAAAAATTGACAGCATATACATATAT
1 AATTGGACTGCATTTGTACATCAAAAATTGACAGCATATACATATAT
* *
45906485 ATTTGGACTGCATTTGTACATC-AAAATTGAAAGCATATACATATAT
1 AATTGGACTGCATTTGTACATCAAAAATTGACAGCATATACATATAT
*
45906531 AATTGGACTGCATTTATACATCAAAAATTGACAGCATATACATATAT
1 AATTGGACTGCATTTGTACATCAAAAATTGACAGCATATACATATAT
* *
45906578 ATTTGGACTGCATTTGTACATCAAAATTTGACAGCATATACATATAT
1 AATTGGACTGCATTTGTACATCAAAAATTGACAGCATATACATATAT
*
45906625 AATTGGACTGCATTTGTACATCAAAATTTGACAGCATATACAT
1 AATTGGACTGCATTTGTACATCAAAAATTGACAGCATATACAT
45906668 TCATTTACTC
Statistics
Matches: 172, Mismatches: 10, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
46 43 0.25
47 129 0.75
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (47 bp):
AATTGGACTGCATTTGTACATCAAAAATTGACAGCATATACATATAT
Found at i:45906510 original size:93 final size:93
Alignment explanation
Indices: 45906413--45906667 Score: 415
Period size: 93 Copynumber: 2.7 Consensus size: 93
45906403 ATTTTCACAC
* * *
45906413 CAAAATTTGGACAGCATAT-TTACAAAATTGGACTGCATTTATACATCAAAAATTGACAGCATAT
1 CAAAATTT-GACAGCATATAATATATAATTGGACTGCATTTATACATCAAAAATTGACAGCATAT
45906477 ACATATATATTTGGACTGCATTTGTACAT
65 ACATATATATTTGGACTGCATTTGTACAT
*
45906506 CAAAA-TTGAAAGCATATACATATATAATTGGACTGCATTTATACATCAAAAATTGACAGCATAT
1 CAAAATTTGACAGCATATA-ATATATAATTGGACTGCATTTATACATCAAAAATTGACAGCATAT
45906570 ACATATATATTTGGACTGCATTTGTACAT
65 ACATATATATTTGGACTGCATTTGTACAT
* *
45906599 CAAAATTTGACAGCATATACATATATAATTGGACTGCATTTGTACATCAAAATTTGACAGCATAT
1 CAAAATTTGACAGCATATA-ATATATAATTGGACTGCATTTATACATCAAAAATTGACAGCATAT
45906664 ACAT
65 ACAT
45906668 TCATTTACTC
Statistics
Matches: 152, Mismatches: 7, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
91 9 0.06
92 2 0.01
93 81 0.53
94 60 0.39
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (93 bp):
CAAAATTTGACAGCATATAATATATAATTGGACTGCATTTATACATCAAAAATTGACAGCATATA
CATATATATTTGGACTGCATTTGTACAT
Found at i:45906945 original size:14 final size:15
Alignment explanation
Indices: 45906921--45906955 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
45906911 TATATACATT
45906921 ACCATATAAATACTA
1 ACCATATAAATACTA
45906936 ACCATA-AAATACTA
1 ACCATATAAATACTA
45906950 ATCCAT
1 A-CCAT
45906956 GATTAAAGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (15 bp):
ACCATATAAATACTA
Found at i:45907693 original size:43 final size:43
Alignment explanation
Indices: 45907605--45907728 Score: 137
Period size: 43 Copynumber: 2.9 Consensus size: 43
45907595 AGCTAGTACA
* *** * *
45907605 ATGCCGACGTCCCAGACGTGGTCTTACATGTAATCACATA-CCG
1 ATGCCGACGTCCCAGAAGTGGTCTTACACAAAAACACA-AGTCG
45907648 ATGCC-ACTGTCCCAGATAG-GGTCTTACACAAAAACACAAGTCG
1 ATGCCGAC-GTCCCAGA-AGTGGTCTTACACAAAAACACAAGTCG
*
45907691 ATGCCGACGTCCCAGACGTGGTCTTACACAAAAACACA
1 ATGCCGACGTCCCAGAAGTGGTCTTACACAAAAACACA
45907729 TATCGGAGTC
Statistics
Matches: 69, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
42 4 0.06
43 62 0.90
44 3 0.04
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.19
Consensus pattern (43 bp):
ATGCCGACGTCCCAGAAGTGGTCTTACACAAAAACACAAGTCG
Found at i:45910544 original size:37 final size:37
Alignment explanation
Indices: 45910483--45910628 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
45910473 TACGTATGAT
* *
45910483 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
45910518 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
45910555 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
45910592 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
45910629 TAAAGCTATC
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 92 0.88
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:45910645 original size:46 final size:46
Alignment explanation
Indices: 45910592--45910958 Score: 437
Period size: 46 Copynumber: 7.6 Consensus size: 46
45910582 TAAGTGTAGC
* **
45910592 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
45910638 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
45910684 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
45910736 CACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
45910788 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGTTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
45910834 CACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* ** *
45910880 TACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
45910932 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
45910959 AGTACTCAAA
Statistics
Matches: 289, Mismatches: 19, Indels: 26
0.87 0.06 0.08
Matches are distributed among these distances:
46 153 0.53
48 1 0.00
49 1 0.00
50 2 0.01
51 3 0.01
52 129 0.45
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:45910711 original size:52 final size:52
Alignment explanation
Indices: 45910635--45910952 Score: 417
Period size: 52 Copynumber: 6.3 Consensus size: 52
45910625 TAGCTAAAGC
* *
45910635 TATCACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACT
1 TATCACTTTTCAC-TTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
45910688 TATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * *
45910740 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
45910792 TATCAC---T---TTGTCACTTGATCAGATAAGTATAGCCGAAGTTATCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
*
45910838 TATCAC-TTT-A----TCACTTGATCAGATAAGTATAGCCGAAGCTATTACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
* * ** *
45910884 TATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACT
1 TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
45910936 TATCACTTTATCACTTG
1 TATCACTTT-TCACTTG
45910953 ATCAGAAGTA
Statistics
Matches: 237, Mismatches: 18, Indels: 20
0.86 0.07 0.07
Matches are distributed among these distances:
46 82 0.35
47 2 0.01
48 2 0.01
52 133 0.56
53 18 0.08
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (52 bp):
TATCACTTTTCACTTGTCACTTGATCAGATAAGTATAGCCGAAGCTATCACT
Found at i:45910837 original size:196 final size:196
Alignment explanation
Indices: 45910592--45910944 Score: 598
Period size: 196 Copynumber: 1.8 Consensus size: 196
45910582 TAAGTGTAGC
* * * * *
45910592 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATCACT
*
45910657 TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTTCACTTGTCACTTGATCAGATAAGT
66 TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
* *
45910722 GTAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTA
131 GTAGCCAAAGCTACCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTA
45910787 T
196 T
* *
45910788 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCGAAGTTATCACTTATCACTTTATCACT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATCACT
*
45910853 TGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
66 TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
*
45910918 GTAGCTAAAGCTACCACTTATCACTTT
131 GTAGCCAAAGCTACCACTTATCACTTT
45910945 ATCACTTGAT
Statistics
Matches: 145, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
196 145 1.00
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (196 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCCAAAGCTATCACTTATCACTTTATCACT
TGATCAGATAAGTATAGCCGAAGCTATCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGT
GTAGCCAAAGCTACCACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTA
T
Found at i:45910948 original size:98 final size:97
Alignment explanation
Indices: 45910592--45910958 Score: 492
Period size: 98 Copynumber: 3.7 Consensus size: 97
45910582 TAAGTGTAGC
* * * *
45910592 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTGTCTCT
1 CACTT-TCAC-TTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTATCACT
45910657 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
64 TGATCAGATAAGTATAGCCGAAGCTATCACTTAT
*
45910691 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCCACTTG
1 CAC-TTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTT--A----
* *
45910756 TCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTAT
59 TCACTTGATCAGATAAGTATAGCCGAAGCTATCACTTAT
* * *
45910795 CAC--T---TTGTCACTTGATCAGATAAGTATAGCCGAAGTTATCACTTATCACTTTATCACTTG
1 CACTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTATCACTTG
*
45910855 ATCAGATAAGTATAGCCGAAGCTATTACTTAT
66 ATCAGATAAGTATAGCCGAAGCTATCACTTAT
* *
45910887 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTATCACTT
1 CACTTT-CACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTATCACTT
45910952 GATCAGA
65 GATCAGA
45910959 AGTACTCAAA
Statistics
Matches: 238, Mismatches: 17, Indels: 27
0.84 0.06 0.10
Matches are distributed among these distances:
92 39 0.16
94 1 0.00
96 1 0.00
98 148 0.62
99 7 0.03
100 2 0.01
101 1 0.00
104 39 0.16
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (97 bp):
CACTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTATCACTTTATCACTTG
ATCAGATAAGTATAGCCGAAGCTATCACTTAT
Found at i:45920365 original size:18 final size:18
Alignment explanation
Indices: 45920337--45920381 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
45920327 CGTTCGTTTC
*
45920337 CAAAACATTATTC-ATTT
1 CAAAACGTTATTCAATTT
*
45920354 ACAAATCGTTATTCAATTT
1 -CAAAACGTTATTCAATTT
45920373 CAAAACGTT
1 CAAAACGTT
45920382 TTCTTATTGC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 19 0.83
19 4 0.17
ACGTcount: A:0.40, C:0.18, G:0.04, T:0.38
Consensus pattern (18 bp):
CAAAACGTTATTCAATTT
Found at i:45920811 original size:39 final size:38
Alignment explanation
Indices: 45920751--45920855 Score: 104
Period size: 40 Copynumber: 2.7 Consensus size: 38
45920741 TAATCACAGA
* * *
45920751 TTGGGCTTAAGCCCTTTTCAGTATCAAT-ATCAGTCCAG
1 TTGGGCTTTAGCCCATCTCAGTATCAATAATCA-TCCAG
* *
45920789 TTTGGGCTTTAGCCCATCTCAGTACATAAATAATCATGCAG
1 -TTGGGCTTTAGCCCATCTCAGT--ATCAATAATCATCCAG
* *
45920830 TAGGGCTTTAGCCCATCACAGTATCA
1 TTGGGCTTTAGCCCATCTCAGTATCA
45920856 GTAGTAGTAA
Statistics
Matches: 55, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
38 3 0.05
39 19 0.35
40 20 0.36
41 9 0.16
42 4 0.07
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (38 bp):
TTGGGCTTTAGCCCATCTCAGTATCAATAATCATCCAG
Found at i:45929184 original size:16 final size:18
Alignment explanation
Indices: 45929149--45929186 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
45929139 ATCCTTATTT
45929149 AAATAAAATACAATAGTA
1 AAATAAAATACAATAGTA
45929167 AAATAAAATA-AA-AGTA
1 AAATAAAATACAATAGTA
45929183 AAAT
1 AAAT
45929187 CGATGTAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 8 0.40
17 2 0.10
18 10 0.50
ACGTcount: A:0.71, C:0.03, G:0.05, T:0.21
Consensus pattern (18 bp):
AAATAAAATACAATAGTA
Found at i:45929382 original size:33 final size:33
Alignment explanation
Indices: 45929345--45929410 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
45929335 TAAACATAGT
45929345 CTACTCCTCTTGTAATCATTTGAATTCGACATA
1 CTACTCCTCTTGTAATCATTTGAATTCGACATA
*
45929378 CTACTCGTCTTGTAATCATTTGAATTCGACATA
1 CTACTCCTCTTGTAATCATTTGAATTCGACATA
45929411 GTGAATTTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.27, C:0.23, G:0.11, T:0.39
Consensus pattern (33 bp):
CTACTCCTCTTGTAATCATTTGAATTCGACATA
Found at i:45939663 original size:19 final size:18
Alignment explanation
Indices: 45939647--45939687 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 18
45939637 AAATAAAAGA
45939647 AAAACTACAAAACAAAAAT
1 AAAACTA-AAAACAAAAAT
*
45939666 TAAACTAAAAACAAAAAT
1 AAAACTAAAAACAAAAAT
45939684 AAAA
1 AAAA
45939688 TGCAATAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 14 0.70
19 6 0.30
ACGTcount: A:0.76, C:0.12, G:0.00, T:0.12
Consensus pattern (18 bp):
AAAACTAAAAACAAAAAT
Found at i:45939678 original size:18 final size:19
Alignment explanation
Indices: 45939648--45939683 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
45939638 AATAAAAGAA
45939648 AAACTACAAAACAAAAATT
1 AAACTACAAAACAAAAATT
45939667 AAACTA-AAAACAAAAAT
1 AAACTACAAAACAAAAAT
45939684 AAAATGCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.72, C:0.14, G:0.00, T:0.14
Consensus pattern (19 bp):
AAACTACAAAACAAAAATT
Found at i:45961596 original size:29 final size:29
Alignment explanation
Indices: 45961540--45961598 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
45961530 TATATAAGGT
* *
45961540 ATAATAATAAATTTAGCACTTAATTAAAA
1 ATAATAATAAATGTAGCACTTAAGTAAAA
*
45961569 ATAATAATCAATGTAGCA-TATAAGTAAAA
1 ATAATAATAAATGTAGCACT-TAAGTAAAA
45961598 A
1 A
45961599 AAAAAAGAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 1 0.04
29 25 0.96
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.31
Consensus pattern (29 bp):
ATAATAATAAATGTAGCACTTAAGTAAAA
Found at i:45968302 original size:39 final size:39
Alignment explanation
Indices: 45968248--45968326 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
45968238 GATATGATTA
45968248 TGTAATCTTAGAGTTCTAATTGTATACAACTTTTAATTG
1 TGTAATCTTAGAGTTCTAATTGTATACAACTTTTAATTG
*
45968287 TGTAATCTTAGAGTTCTAATTGTATACAGCTTTTAATTG
1 TGTAATCTTAGAGTTCTAATTGTATACAACTTTTAATTG
45968326 T
1 T
45968327 AGCCATTGAT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.47
Consensus pattern (39 bp):
TGTAATCTTAGAGTTCTAATTGTATACAACTTTTAATTG
Found at i:45968306 original size:22 final size:22
Alignment explanation
Indices: 45968248--45968309 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 22
45968238 GATATGATTA
45968248 TGTAATCTTAGAGTTCTAATTG
1 TGTAATCTTAGAGTTCTAATTG
* * *
45968270 TAT-A-C--A-ACTTTTAATTG
1 TGTAATCTTAGAGTTCTAATTG
45968287 TGTAATCTTAGAGTTCTAATTG
1 TGTAATCTTAGAGTTCTAATTG
45968309 T
1 T
45968310 ATACAGCTTT
Statistics
Matches: 29, Mismatches: 6, Indels: 10
0.64 0.13 0.22
Matches are distributed among these distances:
17 11 0.38
18 2 0.07
19 1 0.03
20 1 0.03
21 2 0.07
22 12 0.41
ACGTcount: A:0.29, C:0.10, G:0.15, T:0.47
Consensus pattern (22 bp):
TGTAATCTTAGAGTTCTAATTG
Found at i:45973430 original size:39 final size:39
Alignment explanation
Indices: 45973376--45973456 Score: 153
Period size: 39 Copynumber: 2.1 Consensus size: 39
45973366 AGAAGATATG
45973376 ATTATGTAATCTTAGAGTTCTAATTGTATACAACTTTTA
1 ATTATGTAATCTTAGAGTTCTAATTGTATACAACTTTTA
*
45973415 ATTATGTAATCTTAGAGTTCTAATTGTATACAGCTTTTA
1 ATTATGTAATCTTAGAGTTCTAATTGTATACAACTTTTA
45973454 ATT
1 ATT
45973457 GTAACCATTG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.32, C:0.10, G:0.11, T:0.47
Consensus pattern (39 bp):
ATTATGTAATCTTAGAGTTCTAATTGTATACAACTTTTA
Found at i:45973438 original size:22 final size:22
Alignment explanation
Indices: 45973376--45973439 Score: 59
Period size: 22 Copynumber: 3.1 Consensus size: 22
45973366 AGAAGATATG
45973376 ATTATGTAATCTTAGAGTTCTA
1 ATTATGTAATCTTAGAGTTCTA
* *
45973398 A-T-TGT-ATAC--A-ACTTTTA
1 ATTATGTAAT-CTTAGAGTTCTA
45973415 ATTATGTAATCTTAGAGTTCTA
1 ATTATGTAATCTTAGAGTTCTA
45973437 ATT
1 ATT
45973440 GTATACAGCT
Statistics
Matches: 31, Mismatches: 4, Indels: 14
0.63 0.08 0.29
Matches are distributed among these distances:
17 6 0.19
18 2 0.06
19 6 0.19
20 6 0.19
21 2 0.06
22 9 0.29
ACGTcount: A:0.33, C:0.09, G:0.11, T:0.47
Consensus pattern (22 bp):
ATTATGTAATCTTAGAGTTCTA
Found at i:45973778 original size:48 final size:48
Alignment explanation
Indices: 45973684--45973780 Score: 119
Period size: 48 Copynumber: 2.0 Consensus size: 48
45973674 TGAGGGAATT
* *
45973684 CTGTTGAATCCTTTATCGTTGCGTGATTAGGCTGACTTAGGTATTTTTA
1 CTGTTGAATCCTTTATCATT-CGTGATTAGGCTGACTTAGATATTTTTA
45973733 CTGTTGAAT-CTGTTATCATT-GTGAGTTAGGCTGACTTA-ATCATTTTTA
1 CTGTTGAATCCT-TTATCATTCGTGA-TTAGGCTGACTTAGAT-ATTTTTA
45973781 AGCAAAGAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
47 5 0.12
48 22 0.51
49 16 0.37
ACGTcount: A:0.21, C:0.13, G:0.21, T:0.45
Consensus pattern (48 bp):
CTGTTGAATCCTTTATCATTCGTGATTAGGCTGACTTAGATATTTTTA
Found at i:45978521 original size:13 final size:13
Alignment explanation
Indices: 45978503--45978528 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
45978493 ATGGTCTACA
45978503 ATTTCATGAAAAT
1 ATTTCATGAAAAT
45978516 ATTTCATGAAAAT
1 ATTTCATGAAAAT
45978529 TTCGTTTGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (13 bp):
ATTTCATGAAAAT
Found at i:45979805 original size:51 final size:50
Alignment explanation
Indices: 45979750--45979880 Score: 145
Period size: 50 Copynumber: 2.6 Consensus size: 50
45979740 TGGTCACATA
* * * * * * *
45979750 TGTAGTACCATGTGTAGGCTACTATGTGTACTGGAAGGTTTTGGCCATGTG
1 TGTAGTACTATGTGAAGGCTACTACGTGTACCGGAAAG-TTTGACCACGTG
* * * * *
45979801 TGTAGTATTATGTGCAGGCTACTGCGTGAACCGGAAAGTTTGATCACGTG
1 TGTAGTACTATGTGAAGGCTACTACGTGTACCGGAAAGTTTGACCACGTG
45979851 TGTAGTACTATGTGAAGGCTACTACGTGTA
1 TGTAGTACTATGTGAAGGCTACTACGTGTA
45979881 TCGAATGATA
Statistics
Matches: 65, Mismatches: 15, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
50 35 0.54
51 30 0.46
ACGTcount: A:0.23, C:0.15, G:0.30, T:0.33
Consensus pattern (50 bp):
TGTAGTACTATGTGAAGGCTACTACGTGTACCGGAAAGTTTGACCACGTG
Found at i:45987195 original size:18 final size:18
Alignment explanation
Indices: 45987151--45987196 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
45987141 AAGCTTTCGC
45987151 GATAAGTAACGTTTTGAAA
1 GATAA-TAACGTTTTGAAA
*
45987170 -ATTTATAACGTTTTGAAA
1 GA-TAATAACGTTTTGAAA
45987188 GATAATAAC
1 GATAATAAC
45987197 TTATGTATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
18 20 0.87
19 3 0.13
ACGTcount: A:0.43, C:0.07, G:0.15, T:0.35
Consensus pattern (18 bp):
GATAATAACGTTTTGAAA
Found at i:45988672 original size:174 final size:175
Alignment explanation
Indices: 45988372--45988724 Score: 638
Period size: 174 Copynumber: 2.0 Consensus size: 175
45988362 AATGAAGACG
*
45988372 TTTAAACGACAAATGTGGGGGTGGCATGTTATTAACTCAATCAATCATCAGCTATATGAACCTAC
1 TTTAAACGACAAATGTGGGGGTGGCATGTTATTAACTCAATCAATCATCAGCTACATGAACCTAC
45988437 CCTTCATTCTGAGATCCTCACTTATTTCACTACCAAGAAAAAAATAGCTAAAAGAAAAAAAAAGG
66 CCTTCATTCTGAGATCCTCACTTATTTCACTACCAAGAAAAAAATAGCTAAAAGAAAAAAAAAGG
45988502 CGCAATAAGTTAAGCTCTC-AAAAAAAAGAAAAGGAATCTCAATC
131 CGCAATAAGTTAAGCTCTCAAAAAAAAAGAAAAGGAATCTCAATC
*
45988546 TTTAAACGACAAATGTGGGGGTGGCATGTTATTAACTCAATCGATCATCAGCTACATGAACCTAC
1 TTTAAACGACAAATGTGGGGGTGGCATGTTATTAACTCAATCAATCATCAGCTACATGAACCTAC
45988611 CCTTCATTCTGAGATCCTCACTTATTTCACTACCAAGAAAAAAAATAGCTAAAAG-AAAAAAAAG
66 CCTTCATTCTGAGATCCTCACTTATTTCACTACCAAG-AAAAAAATAGCTAAAAGAAAAAAAAAG
*
45988675 GTGCAATAAGTTAAGCTCTCAAAAAAAAAAAGAAAAGGAATCTCAATC
130 GCGCAATAAGTTAAGCTCTC--AAAAAAAAAGAAAAGGAATCTCAATC
45988723 TT
1 TT
45988725 AGAGATCAAA
Statistics
Matches: 172, Mismatches: 3, Indels: 5
0.96 0.02 0.03
Matches are distributed among these distances:
174 128 0.74
175 17 0.10
177 27 0.16
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.24
Consensus pattern (175 bp):
TTTAAACGACAAATGTGGGGGTGGCATGTTATTAACTCAATCAATCATCAGCTACATGAACCTAC
CCTTCATTCTGAGATCCTCACTTATTTCACTACCAAGAAAAAAATAGCTAAAAGAAAAAAAAAGG
CGCAATAAGTTAAGCTCTCAAAAAAAAAGAAAAGGAATCTCAATC
Found at i:45990918 original size:21 final size:22
Alignment explanation
Indices: 45990875--45990918 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
45990865 ATTAATGACA
*
45990875 GAAACGAAGAGAAACACTTACC
1 GAAACGAAGAGAAACACTAACC
* *
45990897 GAAACTAAGAG-AGCACTAACC
1 GAAACGAAGAGAAACACTAACC
45990918 G
1 G
45990919 CTTGTGAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.48, C:0.23, G:0.20, T:0.09
Consensus pattern (22 bp):
GAAACGAAGAGAAACACTAACC
Found at i:45994700 original size:34 final size:34
Alignment explanation
Indices: 45994656--45994723 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
45994646 GCAAAGTTGA
* * *
45994656 ACAGTCTTGGGCCTAAGCCCTTTTCAGTATCAGTG
1 ACAGTCTTGGGACTAAGCCCATCTCAGTA-CAGTG
*
45994691 ACAGT-TTGGGACTTAGCCCATCTCAGTACAGTG
1 ACAGTCTTGGGACTAAGCCCATCTCAGTACAGTG
45994724 TCAAAAGTAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 5 0.17
34 19 0.66
35 5 0.17
ACGTcount: A:0.22, C:0.25, G:0.24, T:0.29
Consensus pattern (34 bp):
ACAGTCTTGGGACTAAGCCCATCTCAGTACAGTG
Found at i:46006890 original size:81 final size:81
Alignment explanation
Indices: 46006775--46007313 Score: 688
Period size: 81 Copynumber: 6.6 Consensus size: 81
46006765 GGGTATAAAA
* * *
46006775 ATCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATAAGGGTATTTCGATCATTTTACC
1 ATCATTCTACCCTATGGGGGTATTTCGGTCATTTTACCCTATAGGGGTATTTCGATCATTTTACC
**
46006840 CTACAGGGGTATTTC-
66 CTATGGGGGTATTTCG
* * * *
46006855 AGTTATTCTACCCTATGGGGGTATTTTGGTTATTTTACCCTATAGGGGTATTTCGGTCATTTTAC
1 A-TCATTCTACCCTATGGGGGTATTTCGGTCATTTTACCCTATAGGGGTATTTCGATCATTTTAC
*
46006920 CCTATGAGGGTATTTCG
65 CCTATGGGGGTATTTCG
* * * *
46006937 ATTATTCTACCCTATGGGGGTATTTTGGTTATTTTACCCTATAGGGGTATATCGATCATTTTACC
1 ATCATTCTACCCTATGGGGGTATTTCGGTCATTTTACCCTATAGGGGTATTTCGATCATTTTACC
* *
46007002 CTTTGGGGGTATTTAG
66 CTATGGGGGTATTTCG
* * * *
46007018 ATCATTTTACCCTATGGGGGTATTTCGATCATTTTACCCTATGGGGGTATTTC-AGTCATTCTAC
1 ATCATTCTACCCTATGGGGGTATTTCGGTCATTTTACCCTATAGGGGTATTTCGA-TCATTTTAC
46007082 CCTATGGGGGTATTTCG
65 CCTATGGGGGTATTTCG
46007099 ATCATTCTACCCTATGGGGGTACTTT-GGTCATTTTACCCTATAGGGGGTATTTCGATCATTTTA
1 ATCATTCTACCCTATGGGGGTA-TTTCGGTCATTTTACCCTATA-GGGGTATTTCGATCATTTTA
*
46007163 CCCTATGGGGGTATTTTG
64 CCCTATGGGGGTATTTCG
* *** * * * *
46007181 GTCATTCTATGATATGGGGGTATTTCGGTCATTTTACCCTATAAGGGTATTTTGGTTATTTTACC
1 ATCATTCTACCCTATGGGGGTATTTCGGTCATTTTACCCTATAGGGGTATTTCGATCATTTTACC
* *
46007246 CTATGAGTGTATTTCG
66 CTATGGGGGTATTTCG
* * * * * *
46007262 ATCATTTTACCATATGGGTGTATTTCGGTCATTTTATCTTATAGGGTTATTT
1 ATCATTCTACCCTATGGGGGTATTTCGGTCATTTTACCCTATAGGGGTATTT
46007314 GGGTTATTTA
Statistics
Matches: 402, Mismatches: 50, Indels: 13
0.86 0.11 0.03
Matches are distributed among these distances:
80 2 0.00
81 326 0.81
82 73 0.18
83 1 0.00
ACGTcount: A:0.20, C:0.17, G:0.21, T:0.42
Consensus pattern (81 bp):
ATCATTCTACCCTATGGGGGTATTTCGGTCATTTTACCCTATAGGGGTATTTCGATCATTTTACC
CTATGGGGGTATTTCG
Found at i:46007313 original size:27 final size:27
Alignment explanation
Indices: 46006776--46007297 Score: 623
Period size: 27 Copynumber: 19.3 Consensus size: 27
46006766 GGTATAAAAA
*
46006776 TCATTTTACCCTATGGGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGG
** *
46006803 TCATTTTACCCTATAAGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGG
** *
46006830 TCATTTTACCCTACAGGGGTATTTCAG
1 TCATTTTACCCTATGGGGGTATTTCGG
* * *
46006857 TTATTCTACCCTATGGGGGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* *
46006884 TTATTTTACCCTATAGGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* *
46006911 TCATTTTACCCTATGAGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGG
* * *
46006938 TTATTCTACCCTATGGGGGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* * * *
46006965 TTATTTTACCCTATAGGGGTATATCGA
1 TCATTTTACCCTATGGGGGTATTTCGG
* * *
46006992 TCATTTTACCCTTTGGGGGTATTTAGA
1 TCATTTTACCCTATGGGGGTATTTCGG
*
46007019 TCATTTTACCCTATGGGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGG
*
46007046 TCATTTTACCCTATGGGGGTATTTCAG
1 TCATTTTACCCTATGGGGGTATTTCGG
* *
46007073 TCATTCTACCCTATGGGGGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGG
*
46007100 TCATTCTACCCTATGGGGGTACTTT-GG
1 TCATTTTACCCTATGGGGGTA-TTTCGG
*
46007127 TCATTTTACCCTATAGGGGGTATTTCGA
1 TCATTTTACCCTAT-GGGGGTATTTCGG
*
46007155 TCATTTTACCCTATGGGGGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* ***
46007182 TCATTCTATGATATGGGGGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGG
** *
46007209 TCATTTTACCCTATAAGGGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGG
* * * *
46007236 TTATTTTACCCTATGAGTGTATTTCGA
1 TCATTTTACCCTATGGGGGTATTTCGG
* *
46007263 TCATTTTACCATATGGGTGTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGG
46007290 TCATTTTA
1 TCATTTTA
46007298 TCTTATAGGG
Statistics
Matches: 425, Mismatches: 67, Indels: 6
0.85 0.13 0.01
Matches are distributed among these distances:
27 400 0.94
28 25 0.06
ACGTcount: A:0.20, C:0.17, G:0.21, T:0.42
Consensus pattern (27 bp):
TCATTTTACCCTATGGGGGTATTTCGG
Found at i:46007553 original size:17 final size:18
Alignment explanation
Indices: 46007531--46007564 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
46007521 TCTGTGTAGG
46007531 GCCCACA-AGCCCATTCA
1 GCCCACACAGCCCATTCA
*
46007548 GCCCACACGGCCCATTC
1 GCCCACACAGCCCATTC
46007565 TGGCCCAACG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.24, C:0.50, G:0.15, T:0.12
Consensus pattern (18 bp):
GCCCACACAGCCCATTCA
Found at i:46018980 original size:27 final size:27
Alignment explanation
Indices: 46018950--46019082 Score: 189
Period size: 27 Copynumber: 5.0 Consensus size: 27
46018940 GGGTATAACA
46018950 GTCATTTTACCCTATGAGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
* *
46018977 GTCATTTTACCCTATG-GTTGTATTTTG
1 GTCATTTTACCCTATGAG-GGTATTTCG
*
46019004 GTCATTTTACCCTATGAGGGTATTTTG
1 GTCATTTTACCCTATGAGGGTATTTCG
* *
46019031 GTCATTTTACCTTATTAGGGTATTTCG
1 GTCATTTTACCCTATGAGGGTATTTCG
*
46019058 GTCA-TTTACCCTATGGGGGTATTTC
1 GTCATTTTACCCTATGAGGGTATTTC
46019083 AATCTTTTTA
Statistics
Matches: 95, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
26 19 0.20
27 75 0.79
28 1 0.01
ACGTcount: A:0.17, C:0.17, G:0.21, T:0.45
Consensus pattern (27 bp):
GTCATTTTACCCTATGAGGGTATTTCG
Found at i:46022445 original size:27 final size:27
Alignment explanation
Indices: 46022414--46022504 Score: 128
Period size: 27 Copynumber: 3.4 Consensus size: 27
46022404 GCCATAACAA
*
46022414 TCATTTTACCCTATGGGGGTATTTCAG
1 TCATTTTACCCTATGGGGGTATTTCGG
*
46022441 TCATTTTACCCTATGGGGTTATTTCGG
1 TCATTTTACCCTATGGGGGTATTTCGG
** * *
46022468 TCATTTTACTTTATGGGTGTATTTTGG
1 TCATTTTACCCTATGGGGGTATTTCGG
46022495 TCATTTTACC
1 TCATTTTACC
46022505 TATTTTAGGG
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.16, C:0.16, G:0.20, T:0.47
Consensus pattern (27 bp):
TCATTTTACCCTATGGGGGTATTTCGG
Found at i:46026013 original size:20 final size:20
Alignment explanation
Indices: 46025927--46026015 Score: 55
Period size: 20 Copynumber: 4.7 Consensus size: 20
46025917 ACATTTTCCC
46025927 TATTTTATTTATTTATTATTT
1 TATTTTATTTATTT-TTATTT
* * *
46025948 TAATAT-TTTA-TTTTA-TC
1 TATTTTATTTATTTTTATTT
* *
46025965 T-TTTTATTAATTTCT-TTT
1 TATTTTATTTATTTTTATTT
* *
46025983 TCTTGGT-TTTATTTTTATTT
1 TATT-TTATTTATTTTTATTT
46026003 TATTTTATTTATT
1 TATTTTATTTATT
46026016 CTGTTTAGTG
Statistics
Matches: 48, Mismatches: 13, Indels: 15
0.63 0.17 0.20
Matches are distributed among these distances:
16 2 0.04
17 5 0.10
18 8 0.17
19 12 0.25
20 17 0.35
21 4 0.08
ACGTcount: A:0.20, C:0.03, G:0.02, T:0.74
Consensus pattern (20 bp):
TATTTTATTTATTTTTATTT
Found at i:46028587 original size:18 final size:18
Alignment explanation
Indices: 46028543--46028590 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
46028533 GCAATAAAAA
46028543 AATGTTTTGAAATTGAAT
1 AATGTTTTGAAATTGAAT
* *
46028561 AACGATTTGTAAA-TGAAT
1 AATGTTTTG-AAATTGAAT
46028579 AATGTTTTGAAA
1 AATGTTTTGAAA
46028591 ACGAACGACA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 3 0.12
18 19 0.76
19 3 0.12
ACGTcount: A:0.42, C:0.02, G:0.17, T:0.40
Consensus pattern (18 bp):
AATGTTTTGAAATTGAAT
Found at i:46031834 original size:26 final size:27
Alignment explanation
Indices: 46031777--46031834 Score: 66
Period size: 26 Copynumber: 2.2 Consensus size: 27
46031767 TAATTTATCC
* * * *
46031777 ATTTTTATTTTATTTTTTATATTTTCA
1 ATTTTTAGTTTAATTTTTACATTCTCA
46031804 A-TTTTAGTTTAATTTTTACATTCT-A
1 ATTTTTAGTTTAATTTTTACATTCTCA
46031829 ATTTTT
1 ATTTTT
46031835 TATTTACTTC
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
25 2 0.08
26 23 0.88
27 1 0.04
ACGTcount: A:0.24, C:0.05, G:0.02, T:0.69
Consensus pattern (27 bp):
ATTTTTAGTTTAATTTTTACATTCTCA
Found at i:46037276 original size:49 final size:47
Alignment explanation
Indices: 46037175--46037934 Score: 1279
Period size: 47 Copynumber: 15.9 Consensus size: 47
46037165 TAGTATGGCG
46037175 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
46037222 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
* *
46037271 TAATGGCCGATGAGATGAATATGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
46037318 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
*
46037367 TAATGGCCGATGTGATGAATATGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
46037414 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
46037461 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
*
46037508 TAATGGCCGATGTGATGAATATGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* *
46037555 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCT
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
46037604 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
46037653 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT-ATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
46037699 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
46037748 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
46037795 TAATGGCCGATGTGATGAATGTGAAAGTGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAA--GTGTATATATGTGATAAGGCC
* *
46037844 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* * * * * *
46037891 GAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
46037935 TCCCGAAGGG
Statistics
Matches: 680, Mismatches: 22, Indels: 22
0.94 0.03 0.03
Matches are distributed among these distances:
46 37 0.05
47 367 0.54
48 9 0.01
49 267 0.39
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
Found at i:46037339 original size:96 final size:96
Alignment explanation
Indices: 46037175--46037934 Score: 1327
Period size: 96 Copynumber: 8.0 Consensus size: 96
46037165 TAGTATGGCG
46037175 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
46037240 ATGTGAAAGTGTATATATATGTGATAAGGCC
66 ATGTGAAAGTGTATATATATGTGATAAGGCC
* *
46037271 TAATGGCCGATGAGATGAATATGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
46037336 ATGTGAAAGTGTATATATATGTGATAAGGCC
66 ATGTGAAAGTGTATATATATGTGATAAGGCC
*
46037367 TAATGGCCGATGTGATGAATATGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
46037432 ATGTGAAAGTG--TATATATGTGATAAGGCC
66 ATGTGAAAGTGTATATATATGTGATAAGGCC
46037461 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
46037526 ATATGAAAGTG--TATATATGTGATAAGGCC
66 ATGTGAAAGTGTATATATATGTGATAAGGCC
* *
46037555 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCTTAATGGCCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGAT
46037620 GAATGTGAAAGTGTATATATATGTGATAAGGCC
64 GAATGTGAAAGTGTATATATATGTGATAAGGCC
46037653 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT-ATAAGGCCTAATGGCCGATGTGATGA
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
46037717 ATGTGAAAGTGTATATATATGTGATAAGGCC
66 ATGTGAAAGTGTATATATATGTGATAAGGCC
46037748 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
*
46037813 ATGTGAAAGTGTGTATATATGTGATAAGGCC
66 ATGTGAAAGTGTATATATATGTGATAAGGCC
* * * * * * *
46037844 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
46037909 ATGTGAAAGTGTATA-A-ATGTGATAAG
66 ATGTGAAAGTGTATATATATGTGATAAG
46037935 TCCCGAAGGG
Statistics
Matches: 640, Mismatches: 19, Indels: 12
0.95 0.03 0.02
Matches are distributed among these distances:
94 149 0.23
95 94 0.15
96 350 0.55
98 47 0.07
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (96 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
ATGTGAAAGTGTATATATATGTGATAAGGCC
Found at i:46038109 original size:37 final size:37
Alignment explanation
Indices: 46038053--46038131 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
46038043 CCGAGCTCTA
* * *
46038053 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
46038090 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
46038127 AAGAC
1 AAGAC
46038132 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:46041347 original size:40 final size:40
Alignment explanation
Indices: 46041249--46041511 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
46041239 TCCTCGTTCA
* * * * *
46041249 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
46041288 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
46041328 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
46041368 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
46041408 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
46041448 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
46041488 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
46041512 CAGCATTCAA
Statistics
Matches: 198, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 37 0.19
40 153 0.77
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:46045487 original size:40 final size:40
Alignment explanation
Indices: 46045389--46045612 Score: 308
Period size: 40 Copynumber: 5.6 Consensus size: 40
46045379 TCCTCGTTCA
* * * * *
46045389 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
46045428 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
46045468 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
46045508 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
46045548 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
46045588 AAGGCCTTC-GGATCTTAATCCGGAT
1 AATGCCTTCGGGA-CTTAACCCGGAT
46045613 ATATTCACTT
Statistics
Matches: 169, Mismatches: 14, Indels: 3
0.91 0.08 0.02
Matches are distributed among these distances:
39 37 0.22
40 132 0.78
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:46045635 original size:80 final size:80
Alignment explanation
Indices: 46045392--46045650 Score: 265
Period size: 80 Copynumber: 3.3 Consensus size: 80
46045382 TCGTTCAAAT
* * * * * * * *
46045392 GCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-AATGCCTTCGGGACATAACCCGGATTTA
1 GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATA
* * **
46045456 ACAACTCGCACGACT
66 ATAACTAGCACGAAA
* * *
46045471 GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTA
1 GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATA
* *
46045536 ATAACTCGCACGAAT
66 ATAACTAGCACGAAA
* * *
46045551 GCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAATCCGGATAT
1 GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAAGGCCTTCGGGA-CTTAACCCGGATAT
* *
46045615 ATTCACTTAGCAC-AAA
65 AATAAC-TAGCACGAAA
*
46045631 GCCTT-GGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
46045651 CAGCATTCAA
Statistics
Matches: 158, Mismatches: 19, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
79 48 0.30
80 105 0.66
81 5 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATTTAATAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATA
ATAACTAGCACGAAA
Found at i:46045635 original size:120 final size:118
Alignment explanation
Indices: 46045387--46045650 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 118
46045377 GCTCCTCGTT
* * *
46045387 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGA
1 CAAA-GCCTTCGGGACTTAGCCCGGATTTAATAACTCACACAATGCCTTCGGGACATAACCCGGA
* ** * *
46045452 TTTAACAACTCGCACGACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
65 TTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATAATAACTAGCA
* * * *
46045506 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGG
1 C-AAAGCCTTCGGGACTTAGCCCGGATTTAATAACTCACAC-AATGCCTTCGGGACATAACCCGG
** * * * *
46045571 ATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCA
64 ATTTAACAACTCGCACAAAGGCCTTCGGGA-CTTAACCCGGATATAATAAC-TAGCA
46045627 CAAAGCCTT-GGGACTTAGCCCGGA
1 CAAAGCCTTCGGGACTTAGCCCGGA
46045651 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 20, Indels: 8
0.81 0.13 0.05
Matches are distributed among these distances:
119 49 0.40
120 67 0.55
121 5 0.04
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (118 bp):
CAAAGCCTTCGGGACTTAGCCCGGATTTAATAACTCACACAATGCCTTCGGGACATAACCCGGAT
TTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGATATAATAACTAGCA
Found at i:46049533 original size:16 final size:16
Alignment explanation
Indices: 46049511--46049547 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
46049501 ATATATTTAA
46049511 ATAATTATTATCAAAAT
1 ATAATTATTA-CAAAAT
46049528 -TAATTATTACAAAAT
1 ATAATTATTACAAAAT
46049543 ATAAT
1 ATAAT
46049548 AAAATTGATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (16 bp):
ATAATTATTACAAAAT
Found at i:46051010 original size:19 final size:19
Alignment explanation
Indices: 46050986--46051046 Score: 56
Period size: 19 Copynumber: 3.3 Consensus size: 19
46050976 AAAAGAGATT
46050986 TCAATTAATCAACCTAGAG
1 TCAATTAATCAACCTAGAG
* * *
46051005 TCAATT-GT-AA-ATAGATT
1 TCAATTAATCAACCTAGA-G
*
46051022 TCTATTAATCAACCTAGAG
1 TCAATTAATCAACCTAGAG
46051041 TCAATT
1 TCAATT
46051047 GTTCTTACTC
Statistics
Matches: 30, Mismatches: 8, Indels: 8
0.65 0.17 0.17
Matches are distributed among these distances:
16 4 0.13
17 7 0.23
18 2 0.07
19 13 0.43
20 4 0.13
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.34
Consensus pattern (19 bp):
TCAATTAATCAACCTAGAG
Found at i:46052869 original size:12 final size:12
Alignment explanation
Indices: 46052852--46052887 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
46052842 CCTTTTCATT
46052852 TTTTATTATTTA
1 TTTTATTATTTA
46052864 TTTTATTATTTA
1 TTTTATTATTTA
46052876 -TTTATT-TTTA
1 TTTTATTATTTA
46052886 TT
1 TT
46052888 ATATATTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 4 0.17
11 7 0.30
12 12 0.52
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (12 bp):
TTTTATTATTTA
Found at i:46052886 original size:17 final size:16
Alignment explanation
Indices: 46052849--46052894 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 16
46052839 TGCCCTTTTC
46052849 ATTTT-TTA-TTATTT
1 ATTTTATTATTTATTT
46052863 ATTTTATTATTTATTT
1 ATTTTATTATTTATTT
*
46052879 ATTTTTATTATATATT
1 A-TTTTATTATTTATT
46052895 CTTCTTATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 5 0.18
15 3 0.11
16 7 0.25
17 13 0.46
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
ATTTTATTATTTATTT
Found at i:46052912 original size:29 final size:28
Alignment explanation
Indices: 46052844--46052913 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 28
46052834 ACCCTTGCCC
*
46052844 TTTTCATTTTTTATTATTTATTTTATTAT
1 TTTTC-TTTTTTATTATATATTTTATTAT
*
46052873 TTATT-TATTTTTATTATATATTCTTCTTAT
1 TT-TTCT-TTTTTATTATATATT-TTATTAT
46052903 TTTTCTTTTTT
1 TTTTCTTTTTT
46052914 TCTTTTTAGT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
28 1 0.03
29 23 0.66
30 11 0.31
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.76
Consensus pattern (28 bp):
TTTTCTTTTTTATTATATATTTTATTAT
Found at i:46053296 original size:22 final size:22
Alignment explanation
Indices: 46053271--46053318 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
46053261 TATTGATTAT
46053271 TTTTACTATTAATTTTTATTTA
1 TTTTACTATTAATTTTTATTTA
** **
46053293 TTTTGGTATTGTTTTTTATTTA
1 TTTTACTATTAATTTTTATTTA
46053315 TTTT
1 TTTT
46053319 TGTTTATTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.19, C:0.02, G:0.06, T:0.73
Consensus pattern (22 bp):
TTTTACTATTAATTTTTATTTA
Found at i:46053302 original size:12 final size:10
Alignment explanation
Indices: 46053267--46053335 Score: 59
Period size: 10 Copynumber: 6.3 Consensus size: 10
46053257 TCTTTATTGA
46053267 TTATTTTTACT
1 TTATTTTTA-T
46053278 ATTAATTTTTAT
1 -TT-ATTTTTAT
46053290 TTATTTTGGTAT
1 TTATTTT--TAT
46053302 TGT-TTTTTAT
1 T-TATTTTTAT
*
46053312 TTATTTTTGT
1 TTATTTTTAT
46053322 TTATTTTATAT
1 TTATTTT-TAT
46053333 TTA
1 TTA
46053336 ATGTCGATTT
Statistics
Matches: 49, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
9 1 0.02
10 22 0.45
11 7 0.14
12 11 0.22
13 8 0.16
ACGTcount: A:0.20, C:0.01, G:0.06, T:0.72
Consensus pattern (10 bp):
TTATTTTTAT
Found at i:46053328 original size:21 final size:22
Alignment explanation
Indices: 46053277--46053335 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
46053267 TTATTTTTAC
*
46053277 TATTAATTTTTATTTATTTTGG
1 TATTATTTTTTATTTATTTTGG
* *
46053299 TATTGTTTTTTATTTATTTTTG
1 TATTATTTTTTATTTATTTTGG
*
46053321 T-TTATTTTATATTTA
1 TATTATTTTTTATTTA
46053336 ATGTCGATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
21 12 0.38
22 20 0.62
ACGTcount: A:0.20, C:0.00, G:0.07, T:0.73
Consensus pattern (22 bp):
TATTATTTTTTATTTATTTTGG
Found at i:46058579 original size:70 final size:70
Alignment explanation
Indices: 46058497--46058636 Score: 280
Period size: 70 Copynumber: 2.0 Consensus size: 70
46058487 AGTAGACAGC
46058497 TTTGAAGGAACACATATAAGTAAATAGTGAAAACATATATGAATATTTAGCTAGCACGGGTTACA
1 TTTGAAGGAACACATATAAGTAAATAGTGAAAACATATATGAATATTTAGCTAGCACGGGTTACA
46058562 TTAAA
66 TTAAA
46058567 TTTGAAGGAACACATATAAGTAAATAGTGAAAACATATATGAATATTTAGCTAGCACGGGTTACA
1 TTTGAAGGAACACATATAAGTAAATAGTGAAAACATATATGAATATTTAGCTAGCACGGGTTACA
46058632 TTAAA
66 TTAAA
46058637 AATGTTCCAC
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 70 1.00
ACGTcount: A:0.44, C:0.10, G:0.17, T:0.29
Consensus pattern (70 bp):
TTTGAAGGAACACATATAAGTAAATAGTGAAAACATATATGAATATTTAGCTAGCACGGGTTACA
TTAAA
Found at i:46059914 original size:30 final size:30
Alignment explanation
Indices: 46059878--46060098 Score: 325
Period size: 30 Copynumber: 7.4 Consensus size: 30
46059868 GCGCATGGGA
* *
46059878 GTGTGGCCAGCTCGTATGGCTCACACGGAC
1 GTGTGGCCAGCCCGTGTGGCTCACACGGAC
46059908 GTGTGGCCAGCCCGTGTGGCTCACACGGAC
1 GTGTGGCCAGCCCGTGTGGCTCACACGGAC
*
46059938 GTGTGGCCAGCCCGTGTTGCTCACACGGAC
1 GTGTGGCCAGCCCGTGTGGCTCACACGGAC
46059968 GTGTGGCCAGCCCGTGTGGCTCACACGGAC
1 GTGTGGCCAGCCCGTGTGGCTCACACGGAC
* *
46059998 GTATGGCCAGCCCGTGTGGCTCACACAGAC
1 GTGTGGCCAGCCCGTGTGGCTCACACGGAC
* * * **
46060028 ATATGGCCAGCCCGTGTGGCTTACATAGAC
1 GTGTGGCCAGCCCGTGTGGCTCACACGGAC
* *
46060058 GTGTGGCCAGCCTGTGTAGCTCACACGGAC
1 GTGTGGCCAGCCCGTGTGGCTCACACGGAC
*
46060088 GTGTGTCCAGC
1 GTGTGGCCAGC
46060099 TTGTATGGAA
Statistics
Matches: 174, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 174 1.00
ACGTcount: A:0.16, C:0.31, G:0.33, T:0.19
Consensus pattern (30 bp):
GTGTGGCCAGCCCGTGTGGCTCACACGGAC
Found at i:46073951 original size:28 final size:28
Alignment explanation
Indices: 46073912--46073976 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
46073902 ACATTCTAAT
* *
46073912 TTTTCGTTTGTTTGATTCTGATAAGTTA
1 TTTTAGTTTGTTTGATTCTAATAAGTTA
* *
46073940 TTTTAGTTTGTTTGATTCTAATAGGTTC
1 TTTTAGTTTGTTTGATTCTAATAAGTTA
46073968 TTTTAGTTT
1 TTTTAGTTT
46073977 ATGAGTAGAG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.17, C:0.06, G:0.17, T:0.60
Consensus pattern (28 bp):
TTTTAGTTTGTTTGATTCTAATAAGTTA
Found at i:46077155 original size:5 final size:5
Alignment explanation
Indices: 46077128--46077176 Score: 64
Period size: 5 Copynumber: 10.0 Consensus size: 5
46077118 TATTTTTAGT
* **
46077128 TTTTA -TTTA TTTTA GTTCC TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
46077177 ATATGCATTT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
4 4 0.11
5 33 0.89
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:46079329 original size:27 final size:27
Alignment explanation
Indices: 46079312--46079489 Score: 133
Period size: 27 Copynumber: 6.6 Consensus size: 27
46079302 ATATTAAGTC
46079312 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* *
46079339 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
* * *
46079367 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTCAGTGCTATATAATCAACT
* *** ** *
46079394 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTCAGTGCTATATAATCAACT
* * **
46079421 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTCAGTGCTAT-ATAATCAACT
* * * * *
46079448 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTCAGTGCTATATAATCAACT
*
46079475 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
46079490 GTACAATTTA
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 104 0.79
28 27 0.21
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:46079451 original size:54 final size:54
Alignment explanation
Indices: 46079312--46079488 Score: 214
Period size: 54 Copynumber: 3.3 Consensus size: 54
46079302 ATATTAAGTC
* * *
46079312 CGCACACTCAGTGCTAT-ATAATCAACTCGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGC-ATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAA-T
* ** * *
46079367 CGCACACTTAGTGC-TACATAGTCAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCAT-CATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
* **
46079421 CGCACACTTAGTGCATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
46079475 CGCACACTTAGTGC
1 CGCACACTTAGTGC
46079489 TGTACAATTT
Statistics
Matches: 105, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
53 1 0.01
54 60 0.57
55 44 0.42
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.27
Consensus pattern (54 bp):
CGCACACTTAGTGCATCATAATCAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:46079478 original size:81 final size:82
Alignment explanation
Indices: 46079333--46079488 Score: 235
Period size: 81 Copynumber: 1.9 Consensus size: 82
46079323 TGCTATATAA
* *
46079333 TCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTACATAGTCAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGCA
46079398 CACTTAGTGCCGCATGG
66 CACTTAGTGCCGCATGG
* * **
46079415 TCAATTCGCACACTTAGTGC-ATCATATTC-ATTTCGCACACTTAGTGCAACATAGTCAAATCGC
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGC
46079478 ACACTTAGTGC
65 ACACTTAGTGC
46079489 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 42 0.63
82 25 0.37
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (82 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCAACATAGTCAAATCGCA
CACTTAGTGCCGCATGG
Found at i:46083758 original size:23 final size:22
Alignment explanation
Indices: 46083682--46083809 Score: 112
Period size: 23 Copynumber: 5.5 Consensus size: 22
46083672 ATAAGATATA
46083682 ATTTGTGATGCCTTTTGTGGCAT
1 ATTTGTGATGCC-TTTGTGGCAT
* *
46083705 ATTCTATGATGCATTTGTGGCAT
1 ATT-TGTGATGCCTTTGTGGCAT
**
46083728 ATGTTGTGATGCCTTTGTGGTGT
1 AT-TTGTGATGCCTTTGTGGCAT
* **
46083751 ATTATGTGATGCCTTCGTGGTGT
1 ATT-TGTGATGCCTTTGTGGCAT
* *
46083774 ATTTTGTGAAGCCCTTGTGGCAT
1 A-TTTGTGATGCCTTTGTGGCAT
*
46083797 ATTTTGTAATGCC
1 A-TTTGTGATGCC
46083810 CTTGAGGTAA
Statistics
Matches: 87, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
22 1 0.01
23 76 0.87
24 10 0.11
ACGTcount: A:0.16, C:0.13, G:0.27, T:0.45
Consensus pattern (22 bp):
ATTTGTGATGCCTTTGTGGCAT
Found at i:46083781 original size:46 final size:46
Alignment explanation
Indices: 46083683--46083799 Score: 126
Period size: 46 Copynumber: 2.5 Consensus size: 46
46083673 TAAGATATAA
* *
46083683 TTTGTGATGCCTTTTGTGGCATATTCTATGATGCATTTGTGGCATAT
1 TTTGTGATGCC-TTTGTGGCATATTATATGATGCATTCGTGGCATAT
* ** * * **
46083730 GTTGTGATGCCTTTGTGGTGTATTATGTGATGCCTTCGTGGTGTAT
1 TTTGTGATGCCTTTGTGGCATATTATATGATGCATTCGTGGCATAT
* *
46083776 TTTGTGAAGCCCTTGTGGCATATT
1 TTTGTGATGCCTTTGTGGCATATT
46083800 TTGTAATGCC
Statistics
Matches: 56, Mismatches: 14, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
46 46 0.82
47 10 0.18
ACGTcount: A:0.15, C:0.13, G:0.27, T:0.45
Consensus pattern (46 bp):
TTTGTGATGCCTTTGTGGCATATTATATGATGCATTCGTGGCATAT
Found at i:46089697 original size:3 final size:3
Alignment explanation
Indices: 46089689--46089725 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
46089679 CAGGAAATGC
46089689 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
46089726 TGAGATTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:46089898 original size:19 final size:20
Alignment explanation
Indices: 46089876--46089935 Score: 63
Period size: 19 Copynumber: 3.1 Consensus size: 20
46089866 TTAAATTTTT
46089876 AAAATTTAAAAATT-TTAAA
1 AAAATTTAAAAATTATTAAA
* **
46089895 AAAATATAAAAATTATTATT
1 AAAATTTAAAAATTATTAAA
46089915 AAAA-TTAAAAA-TAGTTAAA
1 AAAATTTAAAAATTA-TTAAA
46089934 AA
1 AA
46089936 TATCCACGTG
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
18 2 0.06
19 24 0.73
20 7 0.21
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (20 bp):
AAAATTTAAAAATTATTAAA
Found at i:46090362 original size:16 final size:16
Alignment explanation
Indices: 46090341--46090392 Score: 70
Period size: 16 Copynumber: 3.2 Consensus size: 16
46090331 TTTGGTTCGC
46090341 TGTATTGAATTAGAGG
1 TGTATTGAATTAGAGG
*
46090357 TGTATTGGATTAGAGG
1 TGTATTGAATTAGAGG
*
46090373 TGTAATGGAA-TAGAGG
1 TGT-ATTGAATTAGAGG
46090389 TGTA
1 TGTA
46090393 ATAGCAAATC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
15 1 0.03
16 27 0.84
17 4 0.12
ACGTcount: A:0.31, C:0.00, G:0.35, T:0.35
Consensus pattern (16 bp):
TGTATTGAATTAGAGG
Found at i:46090766 original size:16 final size:16
Alignment explanation
Indices: 46090722--46090768 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
46090712 TACTATAAAA
*
46090722 TATAATTTAACATA-AT
1 TATAA-TTAAAATATAT
*
46090738 TATTATT-AAATATAT
1 TATAATTAAAATATAT
46090753 TATAATTAAAATATAT
1 TATAATTAAAATATAT
46090769 AATTTAGTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 4 0.15
15 10 0.38
16 12 0.46
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TATAATTAAAATATAT
Found at i:46090841 original size:120 final size:121
Alignment explanation
Indices: 46090606--46091140 Score: 834
Period size: 120 Copynumber: 4.5 Consensus size: 121
46090596 ATTTAATTAT
* * *
46090606 ATTTAAACATAATAATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
*
46090671 ATCAATA-TCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATA
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
* * *
46090726 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAGTAAAATTCTTAAAA
1 ATTTGAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
* * * *
46090790 ATTAATATTCTTATATGAATTTACTCAAATCACAATATATGATACTATAAAAGATA
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
46090846 ATTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
*
46090910 ATCAAAATT-TTATATGAATTTACTAAAATCATAATATATG-TACTATAAAATATA
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
* * *
46090964 ATTTGAA-TTAATTAATATTAAAAATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
*
46091028 ATCAACATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
* * *
46091084 ATTTGAA-GTAATTAATATTCAAA-ATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTTGAACATAATTATTATT-AAATATATTTTAATTAAAATATATAATTTAATAAAATT
46091141 TAAAATAATT
Statistics
Matches: 390, Mismatches: 20, Indels: 10
0.93 0.05 0.02
Matches are distributed among these distances:
118 79 0.20
119 125 0.32
120 183 0.47
121 3 0.01
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.42
Consensus pattern (121 bp):
ATTTGAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
Found at i:46090888 original size:18 final size:17
Alignment explanation
Indices: 46090867--46090901 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
46090857 TTATTATTAA
*
46090867 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
46090885 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
46090902 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:46091077 original size:238 final size:240
Alignment explanation
Indices: 46090606--46091140 Score: 837
Period size: 238 Copynumber: 2.2 Consensus size: 240
46090596 ATTTAATTAT
* *
46090606 ATTTAAACATAATAATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
* *
46090671 ATCAATATCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAATATAATTTAACATA
66 ATCAAAATCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTAACATA
* * * * *
46090736 ATTATTATTAAATATATTATAATTAAAATATATAATTTAGTAAAATTCTTAAAAATTAATATTCT
131 ATTAATATTAAAAATATTATAATTAAAATATATAATTTAATAAAATTCTTAAAAATCAACATTCT
*
46090801 TATATGAATTTACTCAAATCACAATATATGATACTATAAAAGATA
196 TATATGAATTTACTAAAATCACAATATATGATACTATAAAAGATA
46090846 ATTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
* *
46090910 ATCAAAATTTTATATGAATTTACTAAAATCATAATATATG-TACTATAAAATATAATTTGAA-TT
66 ATCAAAATCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTT-AACAT
* *
46090973 AATTAATATTAAAAATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATCAACATTC
130 AATTAATATTAAAAATATTATAATTAAAATATATAATTTAATAAAATTCTTAAAAATCAACATTC
* *
46091038 TTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATA
195 TTATATGAATTTACTAAAATCACAATATATGATACTATAAAAGATA
* * * *
46091084 ATTTGAA-GTAATTAATATTCAAA-ATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTTAAACATAATTATTATT-AAATATATTTTAATTAAAATATATAATTTAATAAAATT
46091141 TAAAATAATT
Statistics
Matches: 273, Mismatches: 19, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
238 167 0.61
239 102 0.37
240 4 0.01
ACGTcount: A:0.50, C:0.06, G:0.03, T:0.42
Consensus pattern (240 bp):
ATTTAAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATA
ATCAAAATCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTAACATA
ATTAATATTAAAAATATTATAATTAAAATATATAATTTAATAAAATTCTTAAAAATCAACATTCT
TATATGAATTTACTAAAATCACAATATATGATACTATAAAAGATA
Found at i:46091137 original size:59 final size:58
Alignment explanation
Indices: 46090954--46091139 Score: 157
Period size: 59 Copynumber: 3.1 Consensus size: 58
46090944 TATATGTACT
* *
46090954 ATAAAATATAATTTGAATTAATTAATATTAAAAATATTTTAATTAAAATATATAATTTA
1 ATAAAATATAATTTGAA-TAATTAATATTCAAAATATTTTAATTAAAATATATGATTTA
* * * * * * * *
46091013 ATAAAAT-T--CTT-AATAATCAACATTCTTATATGAATTTACTAAAATCATAATATATGATACT
1 ATAAAATATAATTTGAATAATTAATATTC-AAAAT--ATTT--T--AATTAAAATATATGAT-TT
46091074 -
58 A
46091074 ATAAAATATAATTTGAAGTAATTAATATTCAAAATATTTTAATTAAAATATATGATTTA
1 ATAAAATATAATTTGAA-TAATTAATATTCAAAATATTTTAATTAAAATATATGATTTA
46091133 ATAAAAT
1 ATAAAAT
46091140 TTAAAATAAT
Statistics
Matches: 95, Mismatches: 18, Indels: 28
0.67 0.13 0.20
Matches are distributed among these distances:
54 9 0.09
55 5 0.05
56 2 0.02
57 4 0.04
58 2 0.02
59 29 0.31
61 21 0.22
62 2 0.02
63 4 0.04
64 2 0.02
65 5 0.05
66 10 0.11
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.41
Consensus pattern (58 bp):
ATAAAATATAATTTGAATAATTAATATTCAAAATATTTTAATTAAAATATATGATTTA
Found at i:46091191 original size:47 final size:46
Alignment explanation
Indices: 46091122--46091289 Score: 143
Period size: 47 Copynumber: 3.7 Consensus size: 46
46091112 TTAATTAAAA
*
46091122 TATATG-ATTTAATAAAATTTAAAATAATTATAACTAATAAATTTTCT
1 TATATGAATTT-ATATAATTTAAAATAATTATAA-TAATAAATTTTCT
* * *
46091169 TATATGAATTTGTATAATTTAAAATAATTAT--TATTAAATATAAT-T
1 TATATGAATTTATATAATTTAAAATAATTATAATAATAAAT-T-TTCT
* * * *
46091214 TA-AT-AATAATATATAATTTCATAA-AATTCGTGATAATAAATTTTCT
1 TATATGAAT-TTATATAATTT-AAAATAATT-ATAATAATAAATTTTCT
*
46091260 TATATGAATTTATACAATTTAAAATAATTA
1 TATATGAATTTATATAATTTAAAATAATTA
46091290 ATATTAAATA
Statistics
Matches: 95, Mismatches: 14, Indels: 25
0.71 0.10 0.19
Matches are distributed among these distances:
43 3 0.03
44 22 0.23
45 9 0.09
46 8 0.08
47 46 0.48
48 7 0.07
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.45
Consensus pattern (46 bp):
TATATGAATTTATATAATTTAAAATAATTATAATAATAAATTTTCT
Found at i:46091309 original size:17 final size:15
Alignment explanation
Indices: 46091278--46091316 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
46091268 TTTATACAAT
46091278 TTAAAATAATTAATA
1 TTAAAATAATTAATA
46091293 TTAAATATAATTTAATA
1 TTAAA-ATAA-TTAATA
*
46091310 ATAAAAT
1 TTAAAAT
46091317 GTTCTTATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 5 0.24
16 6 0.29
17 10 0.48
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TTAAAATAATTAATA
Found at i:46097512 original size:12 final size:13
Alignment explanation
Indices: 46097495--46097527 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
46097485 AAGGCCACAC
46097495 GCCCATGTCCT-T
1 GCCCATGTCCTAT
46097507 GCCCATGTCCTAT
1 GCCCATGTCCTAT
46097520 -CCCATGTC
1 GCCCATGTC
46097528 TAAACTAGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 19 0.95
13 1 0.05
ACGTcount: A:0.12, C:0.42, G:0.15, T:0.30
Consensus pattern (13 bp):
GCCCATGTCCTAT
Found at i:46105336 original size:19 final size:18
Alignment explanation
Indices: 46105287--46105336 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 18
46105277 ATTCGGGACC
46105287 AATTTGAAACAAATTGAAA
1 AATTTGAAA-AAATTGAAA
* *
46105306 AATTTAGGAAAAATATGCAA
1 AATTT-GAAAAAAT-TGAAA
46105326 AATTTGAAAAA
1 AATTTGAAAAA
46105337 TAGGGGTCAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 14 0.54
20 12 0.46
ACGTcount: A:0.58, C:0.04, G:0.12, T:0.26
Consensus pattern (18 bp):
AATTTGAAAAAATTGAAA
Found at i:46112683 original size:37 final size:37
Alignment explanation
Indices: 46112633--46112706 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
46112623 ACATTCCCAT
46112633 TGCCTATGGTTGTAGGTAAACTTGTCTGGTAATTGTA
1 TGCCTATGGTTGTAGGTAAACTTGTCTGGTAATTGTA
*
46112670 TGCCTGTGGTTGTAGGTAAACTTGTCTGGTAATTGTA
1 TGCCTATGGTTGTAGGTAAACTTGTCTGGTAATTGTA
46112707 GTGCTAAGTA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.20, C:0.11, G:0.28, T:0.41
Consensus pattern (37 bp):
TGCCTATGGTTGTAGGTAAACTTGTCTGGTAATTGTA
Found at i:46113717 original size:27 final size:28
Alignment explanation
Indices: 46113687--46113746 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
46113677 AATTTATAAA
46113687 ATTTTAA-AT-TAATAATAATAAAATTAC
1 ATTTTAATATCTAA-AATAATAAAATTAC
* *
46113714 ATTTTAATCTCTAAAATAATAAAATTAT
1 ATTTTAATATCTAAAATAATAAAATTAC
46113742 ATTTT
1 ATTTT
46113747 TACAATAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 7 0.24
28 19 0.66
29 3 0.10
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (28 bp):
ATTTTAATATCTAAAATAATAAAATTAC
Found at i:46114047 original size:18 final size:18
Alignment explanation
Indices: 46114017--46114054 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
46114007 AAGCAATTTC
*
46114017 TTTTCTTTTCTTTT-CTT
1 TTTTCTTTCCTTTTGCTT
46114034 TTTTACTTTCCTTTTGCTT
1 TTTT-CTTTCCTTTTGCTT
46114053 TT
1 TT
46114055 ATGGAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 9 0.50
19 5 0.28
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.76
Consensus pattern (18 bp):
TTTTCTTTCCTTTTGCTT
Found at i:46118294 original size:9 final size:9
Alignment explanation
Indices: 46118280--46118348 Score: 93
Period size: 9 Copynumber: 7.7 Consensus size: 9
46118270 TTTGGTTAAA
46118280 AATTAACCG
1 AATTAACCG
*
46118289 AATTAACCA
1 AATTAACCG
46118298 AATTAACCG
1 AATTAACCG
*
46118307 AATTACCCG
1 AATTAACCG
*
46118316 AATTACCCG
1 AATTAACCG
*
46118325 AATTACCCG
1 AATTAACCG
*
46118334 AATTAACCT
1 AATTAACCG
46118343 AATTAA
1 AATTAA
46118349 ATCATACATA
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 55 1.00
ACGTcount: A:0.43, C:0.25, G:0.07, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:46118419 original size:20 final size:20
Alignment explanation
Indices: 46118390--46118433 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
46118380 TATATTTTAG
46118390 TTTTAGTTTTAGTT-TTAGAA
1 TTTTAGTTTTAGTTATTA-AA
* *
46118410 TTTTATTTTTATTTATTAAA
1 TTTTAGTTTTAGTTATTAAA
46118430 TTTT
1 TTTT
46118434 TTGTAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.25, C:0.00, G:0.07, T:0.68
Consensus pattern (20 bp):
TTTTAGTTTTAGTTATTAAA
Found at i:46120579 original size:13 final size:14
Alignment explanation
Indices: 46120544--46120581 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
46120534 CCAGAAAAGT
46120544 AAGTCATTTTCTAG
1 AAGTCATTTTCTAG
* *
46120558 AAATCATTTTC-CG
1 AAGTCATTTTCTAG
46120571 AAGTCATTTTC
1 AAGTCATTTTC
46120582 AGTAAAACAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.29, C:0.18, G:0.11, T:0.42
Consensus pattern (14 bp):
AAGTCATTTTCTAG
Found at i:46126861 original size:30 final size:30
Alignment explanation
Indices: 46126815--46126908 Score: 152
Period size: 30 Copynumber: 3.1 Consensus size: 30
46126805 TTTTATTATG
*
46126815 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
46126846 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* *
46126876 CTAATATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
46126906 CCA
1 CCA
46126909 TAAATATGGA
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
30 52 0.88
31 7 0.12
ACGTcount: A:0.27, C:0.24, G:0.06, T:0.43
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:46126870 original size:15 final size:15
Alignment explanation
Indices: 46126825--46126902 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
46126815 CCAATATCTC
46126825 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
46126840 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
46126855 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
46126870 GACTTTCTA-ATATTT
1 GA-TACCCATATCTTT
46126885 GATACCCATATCTTT
1 GATACCCATATCTTT
46126900 GAT
1 GAT
46126903 TTTCCATAAA
Statistics
Matches: 45, Mismatches: 14, Indels: 8
0.67 0.21 0.12
Matches are distributed among these distances:
14 7 0.16
15 31 0.69
16 7 0.16
ACGTcount: A:0.27, C:0.22, G:0.08, T:0.44
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:46131523 original size:15 final size:15
Alignment explanation
Indices: 46131478--46131525 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
46131468 CTAATATCTC
46131478 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
46131493 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
46131508 GATACCCATATCTTT
1 GATACCCATATCTTT
46131523 GAT
1 GAT
46131526 TTTCCATAAA
Statistics
Matches: 25, Mismatches: 6, Indels: 4
0.71 0.17 0.11
Matches are distributed among these distances:
14 4 0.16
15 17 0.68
16 4 0.16
ACGTcount: A:0.27, C:0.23, G:0.08, T:0.42
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:46131828 original size:7 final size:7
Alignment explanation
Indices: 46131816--46131846 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
46131806 CCGTTGAACT
46131816 ATATACG
1 ATATACG
46131823 ATATACG
1 ATATACG
46131830 ATATACG
1 ATATACG
46131837 ATATAC-
1 ATATACG
46131843 ATAT
1 ATAT
46131847 CATTGTTGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.17
7 20 0.83
ACGTcount: A:0.45, C:0.13, G:0.10, T:0.32
Consensus pattern (7 bp):
ATATACG
Found at i:46146253 original size:15 final size:14
Alignment explanation
Indices: 46146226--46146256 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
46146216 GGGCTCATAA
46146226 AAAAATAATAAACC
1 AAAAATAATAAACC
*
46146240 AAAAATAATAAAAC
1 AAAAATAATAAACC
46146254 AAA
1 AAA
46146257 GTCCAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.77, C:0.10, G:0.00, T:0.13
Consensus pattern (14 bp):
AAAAATAATAAACC
Found at i:46146410 original size:19 final size:19
Alignment explanation
Indices: 46146358--46146411 Score: 81
Period size: 19 Copynumber: 2.8 Consensus size: 19
46146348 AATTTTCAAG
* *
46146358 GATATACAATCTTAAATAT
1 GATATGCAATCTTAGATAT
*
46146377 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
46146396 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
46146412 AGATATGATT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.41, C:0.09, G:0.13, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:46146437 original size:22 final size:22
Alignment explanation
Indices: 46146390--46146434 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
46146380 ATGTAATCTT
*
46146390 AGATATGATATGCAATCTTAGA
1 AGATATGATATGCAATATTAGA
* *
46146412 AGATATGATTTTGTAATATTAGA
1 AGATATGA-TATGCAATATTAGA
46146435 GATTTAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.40, C:0.04, G:0.18, T:0.38
Consensus pattern (22 bp):
AGATATGATATGCAATATTAGA
Found at i:46146661 original size:23 final size:23
Alignment explanation
Indices: 46146612--46146661 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
46146602 TTGCGTTCTT
* * *
46146612 ATTTGTTGATTTGTGTATAATTT
1 ATTTATTGATTTGTATATAATTG
**
46146635 ATTTATTGATTTGTATATTGTTG
1 ATTTATTGATTTGTATATAATTG
46146658 ATTT
1 ATTT
46146662 CAAATCTCTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
ATTTATTGATTTGTATATAATTG
Found at i:46146707 original size:15 final size:16
Alignment explanation
Indices: 46146681--46146713 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
46146671 TTTTTCCTTA
46146681 TTATTCATTTTCAAAT
1 TTATTCATTTTCAAAT
46146697 TTATT-ATTTTCAAAT
1 TTATTCATTTTCAAAT
46146712 TT
1 TT
46146714 GTTTACATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.30, C:0.09, G:0.00, T:0.61
Consensus pattern (16 bp):
TTATTCATTTTCAAAT
Found at i:46154009 original size:88 final size:88
Alignment explanation
Indices: 46153402--46153968 Score: 821
Period size: 88 Copynumber: 6.4 Consensus size: 88
46153392 GTGAAGATAA
* * * *
46153402 CAGATCTTGCCTTCCTGCATCGATAGCGAAGCAGATCGAAGACACCAACCTTGCTTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
* *
46153467 GTAGCAGG-CCAGGTTAAAAATAG
66 GCAGC-GGAGCAGGTTAAAAATAG
* * * *
46153490 CAGATCTTACATTCCTGCACCGACAGCGAAACAGATCGAAGACACTAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
46153555 GCAGCGGAGCAGGTTAAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
* * *
46153578 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGTCTTGCCACCCTAGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
46153643 GCAGCGGAGCAGGTTAAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
* * * * * * * *
46153666 GAGATCTTGCCTTCCTGCACCGACAGCAAAGCAGATCAAAGACACTAGACTTGCCTTCCTAGTTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
*
46153731 GTAGCGGAGCAGGTTAAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
* * * *
46153754 CAAATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAACCTTTCCTCCCTGGATT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
*
46153819 GTAGCGGAGCAGGTTAAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
* * *
46153842 CAAATCTTGCCTTCCTGCACCGACAGCAAAGCAGATCGAAAACACCAGCCTTGCCTCCCTGGGTT
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
*
46153907 GCAGCAGAGCAGGTTAAAAATAG
66 GCAGCGGAGCAGGTTAAAAATAG
* *
46153930 CAGATCTTGCCTTCTTTCACCGACAGCGAAGCAGATCGA
1 CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGA
46153969 TGACTCCATC
Statistics
Matches: 430, Mismatches: 48, Indels: 2
0.90 0.10 0.00
Matches are distributed among these distances:
87 2 0.00
88 428 1.00
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.20
Consensus pattern (88 bp):
CAGATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTT
GCAGCGGAGCAGGTTAAAAATAG
Found at i:46154045 original size:44 final size:44
Alignment explanation
Indices: 46153979--46154144 Score: 237
Period size: 44 Copynumber: 3.8 Consensus size: 44
46153969 TGACTCCATC
*
46153979 CCTATCTCCCTGGTCAGTAGTGGAATAGGTTGAAGATTGT-AAGT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAA-T
* *
46154023 TCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAAATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
*
46154067 CCTATATCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
* * *
46154111 CCCATCTCCCTGAG-CAACAGTGGAGTAGGTTGAA
1 CCTATCTCCCTG-GTCAGCAGTGGAATAGGTTGAA
46154145 AATAGCAGAT
Statistics
Matches: 110, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
44 107 0.97
45 3 0.03
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (44 bp):
CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
Found at i:46154311 original size:50 final size:50
Alignment explanation
Indices: 46154198--46154311 Score: 147
Period size: 50 Copynumber: 2.3 Consensus size: 50
46154188 AAGACATTAG
* * * *
46154198 TCTTATCGCCTTGACGTTGCAATGGAAAAGATTGAAGCCACAATGGTGAA
1 TCTTATCTCCTTGGCGTTGCAACGGAAAAGATTGAAGCCACAACGGTGAA
* * ** *
46154248 TCTTATTTCCTTGGCGTTGTAACGGAGCAGATTGAAGCCACGACGGTGAA
1 TCTTATCTCCTTGGCGTTGCAACGGAAAAGATTGAAGCCACAACGGTGAA
46154298 TCTTATCTCCTTGG
1 TCTTATCTCCTTGG
46154312 TGTTAAGGCT
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 54 1.00
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (50 bp):
TCTTATCTCCTTGGCGTTGCAACGGAAAAGATTGAAGCCACAACGGTGAA
Found at i:46154563 original size:44 final size:43
Alignment explanation
Indices: 46154508--46154980 Score: 215
Period size: 44 Copynumber: 10.9 Consensus size: 43
46154498 GAAGATGGCG
*
46154508 AATCTTATCTCCCTGAAGTTGCAGTGGGGCAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-CAAT
* * * * *
46154552 AATCCTATCTCCCTGAAGTCGCAGTGAAGCGGATTAAAATCACA-
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGCA-AT
* * * * * *
46154596 GATCTTATCTCTCTGAAGTTGCAG-AGAGTAGA-T--CGCATCT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCA-AT
* * * *
46154636 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGTAAGC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAA-T
* * * * * * *
46154679 AAGCCTTATC-CTCCTAAAATTGTAGT-GAGGCAAACTGAAGATGGC--G
1 AA-TCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAA-A--GCAAT
*
46154725 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-CAAT
* ** *
46154769 AATCCTATCTCCCTGAAGTTGCAGTGGAGTGGATTAAAATC-AT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGCAAT
* * *
46154812 AGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T--CGC-AT
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAAT
** * * *
46154851 CGGGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCT-AAGAAAGCG
1 --AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAAAGCAA--T
* * * *
46154898 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAAT
* * * * * *
46154941 CAAGTATTATCCCCCTGAAATTGTAGTGGGGCAGACTAAA
1 -AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
46154981 TAAACAAATC
Statistics
Matches: 324, Mismatches: 71, Indels: 67
0.70 0.15 0.15
Matches are distributed among these distances:
39 5 0.02
40 42 0.13
41 14 0.04
42 4 0.01
43 20 0.06
44 133 0.41
45 98 0.30
46 6 0.02
47 1 0.00
49 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (43 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCAAT
Found at i:46154870 original size:217 final size:218
Alignment explanation
Indices: 46154495--46154906 Score: 709
Period size: 217 Copynumber: 1.9 Consensus size: 218
46154485 AATTTAAAAG
*
46154495 ACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGGGCAGATTAAAGCCAATAATCCTAT
1 ACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTAT
*
46154560 CTCCCTGAAGTCGCAGTGAAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGT
66 CTCCCTGAAGTCGCAGTGAAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGC
* *
46154625 AGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CTAAGTAAGCAAGCCTTATC
131 AGATCGCATCGAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCTAAGAAAGCAAGCCTTATC
46154689 CTCCTAAAATTGTAGTGAGGCAA
196 CTCCTAAAATTGTAGTGAGGCAA
*
46154712 ACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCAATAATCCTAT
1 ACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTAT
* * * *
46154777 CTCCCTGAAGTTGCAGTGGAGTGGATTAAAATCATAGATCTTATCTCTCTGAAGTTGCAGAGAGC
66 CTCCCTGAAGTCGCAGTGAAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGC
* * *
46154842 AGATCGCATCGGGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCTAAGAAAGCGAGTCTTATC
131 AGATCGCATCGAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCTAAGAAAGCAAGCCTTATC
46154907 TCCCTGAAGT
Statistics
Matches: 182, Mismatches: 12, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
217 165 0.91
218 17 0.09
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (218 bp):
ACTGAAGATGGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTAT
CTCCCTGAAGTCGCAGTGAAGCGGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAGAGC
AGATCGCATCGAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCTAAGAAAGCAAGCCTTATC
CTCCTAAAATTGTAGTGAGGCAA
Found at i:46154905 original size:45 final size:44
Alignment explanation
Indices: 46154636--46154979 Score: 231
Period size: 45 Copynumber: 7.8 Consensus size: 44
46154626 GATCGCATCT
* *
46154636 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAAGCG
* * * * * **
46154680 AGCCTTATC-CTCCTAAAATTGTAGT-GAGGCAAACTGAAGATGGCG
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGAAAGCG
* * * * *
46154725 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTAAAGCCAA--T
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAG-AAAGCG
* * ** * * *
46154769 AATCCTATCTCCCTGAAGTTGCAGTGGAGTGGA-TTA-AAATCAT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAAGC-G
* * * * *
46154812 AGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGA-T-CG-CATCG
1 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAAGCG
*
46154853 GGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACCTAAGAAAGCG
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CTAAGAAAGCG
* *
46154898 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAATCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGAAAGCG
* * * * *
46154943 AGTATTATCCCCCTGAAATTGTAGTGGGGCAGACTAA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAA
46154980 ATAAACAAAT
Statistics
Matches: 234, Mismatches: 49, Indels: 34
0.74 0.15 0.11
Matches are distributed among these distances:
40 23 0.10
41 8 0.03
42 4 0.02
43 13 0.06
44 79 0.34
45 104 0.44
46 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (44 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAAGCG
Found at i:46155551 original size:19 final size:19
Alignment explanation
Indices: 46155527--46155580 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
46155517 AATTTTCAAG
46155527 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
46155546 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
46155565 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
46155581 AGATATGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:46155569 original size:38 final size:40
Alignment explanation
Indices: 46155527--46155603 Score: 113
Period size: 38 Copynumber: 1.9 Consensus size: 40
46155517 AATTTTCAAG
46155527 GATATGCAATCTT-AGATATGA-TATGTAATCTTAGATAT
1 GATATGCAATCTTAAGATATGATTATGTAATCTTAGATAT
*
46155565 GATATGCAATCTTAGAAGATATGATTTTGTAATCTTAGA
1 GATATGCAATCTT--AAGATATGATTATGTAATCTTAGA
46155604 GATTTAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
38 13 0.38
41 8 0.24
42 13 0.38
ACGTcount: A:0.36, C:0.08, G:0.17, T:0.39
Consensus pattern (40 bp):
GATATGCAATCTTAAGATATGATTATGTAATCTTAGATAT
Found at i:46155831 original size:23 final size:23
Alignment explanation
Indices: 46155787--46155831 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
46155777 TCTTATTTTG
* *
46155787 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
46155810 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
46155832 CAAATCTCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:46157689 original size:20 final size:21
Alignment explanation
Indices: 46157664--46157713 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
46157654 TAAAAGTAAC
*
46157664 ATACAAATGAA-AGTATAGAT
1 ATACAAATGAATAATATAGAT
46157684 ATACAAAT-AATAATATAGAT
1 ATACAAATGAATAATATAGAT
*
46157704 ATATAAATGA
1 ATACAAATGA
46157714 TGAAAGTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 2 0.08
20 23 0.88
21 1 0.04
ACGTcount: A:0.58, C:0.04, G:0.10, T:0.28
Consensus pattern (21 bp):
ATACAAATGAATAATATAGAT
Found at i:46164252 original size:21 final size:21
Alignment explanation
Indices: 46164207--46164254 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
46164197 TTGCTTCCCA
*
46164207 TTTTCTTCTTTCTTTCATTTT
1 TTTTCTTCTTTCTTTCATTTG
46164228 TTTTCTT-TTTCTTTCATTTGG
1 TTTTCTTCTTTCTTTCATTT-G
46164249 TTTTCT
1 TTTTCT
46164255 ACTCAAATTG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.04, C:0.17, G:0.04, T:0.75
Consensus pattern (21 bp):
TTTTCTTCTTTCTTTCATTTG
Found at i:46168830 original size:17 final size:18
Alignment explanation
Indices: 46168801--46168835 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
46168791 TTTTTACTCG
*
46168801 GTTTTTGATAATTTTTAC
1 GTTTTTGATAATTGTTAC
46168819 GTTTTTGA-AATTGTTAC
1 GTTTTTGATAATTGTTAC
46168836 TTCAAATACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.23, C:0.06, G:0.14, T:0.57
Consensus pattern (18 bp):
GTTTTTGATAATTGTTAC
Found at i:46169618 original size:44 final size:43
Alignment explanation
Indices: 46169554--46169684 Score: 151
Period size: 43 Copynumber: 3.0 Consensus size: 43
46169544 ACATAGAATT
*
46169554 TCGATATGAGATTTCGTGTAAGACCACGTCTGGGACGATGGCA
1 TCGATTTGAGATTTCGTGTAAGACCACGTCTGGGACGATGGCA
46169597 TCGATTTGAGACTTTCGTGTAAGACC-CTGTCTGGGAC-AGTGGCA
1 TCGATTTGAGA-TTTCGTGTAAGACCAC-GTCTGGGACGA-TGGCA
* * * * *
46169641 TCGATATT-TGATTACATGTAAGACCACGTCTAGGACGTTGGCA
1 TCGAT-TTGAGATTTCGTGTAAGACCACGTCTGGGACGATGGCA
46169684 T
1 T
46169685 TGTACGAGCT
Statistics
Matches: 76, Mismatches: 6, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
43 38 0.50
44 36 0.47
45 2 0.03
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.29
Consensus pattern (43 bp):
TCGATTTGAGATTTCGTGTAAGACCACGTCTGGGACGATGGCA
Found at i:46169683 original size:43 final size:43
Alignment explanation
Indices: 46169570--46169684 Score: 128
Period size: 44 Copynumber: 2.6 Consensus size: 43
46169560 TGAGATTTCG
* *
46169570 TGTAAGACCACGTCTGGGACGATGGCATCGATTTGAGACTTTCG
1 TGTAAGACCACGTCTGGGACG-TGGCATCGATTTGAGACTTACA
*
46169614 TGTAAGACC-CTGTCTGGGACAGTGGCATCGATATT-TGA-TTACA
1 TGTAAGACCAC-GTCTGGGAC-GTGGCATCGAT-TTGAGACTTACA
*
46169657 TGTAAGACCACGTCTAGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACG-TGGCAT
46169685 TGTACGAGCT
Statistics
Matches: 62, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
42 1 0.02
43 27 0.44
44 31 0.50
45 3 0.05
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTGGCATCGATTTGAGACTTACA
Found at i:46171675 original size:38 final size:41
Alignment explanation
Indices: 46171631--46171718 Score: 101
Period size: 43 Copynumber: 2.2 Consensus size: 41
46171621 TAATATTAAT
*
46171631 TTAATAT-AATACTTA-T-CAAGATAAATATTAGATTAAAC
1 TTAATATAAATACTTACTACAAGATAAATATTAAATTAAAC
* * *
46171669 TTAATATTAAATATTTATCTACAAGATAAATATTAAATTTAAT
1 TTAATA-TAAATACTTA-CTACAAGATAAATATTAAATTAAAC
46171712 TTAATAT
1 TTAATAT
46171719 TAAGATAATC
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
38 6 0.15
39 1 0.02
40 7 0.17
42 2 0.05
43 25 0.61
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.42
Consensus pattern (41 bp):
TTAATATAAATACTTACTACAAGATAAATATTAAATTAAAC
Found at i:46193666 original size:17 final size:20
Alignment explanation
Indices: 46193626--46193666 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
46193616 ACTTAAGAAG
*
46193626 TCTTCATGACTCACCTCTCT
1 TCTTTATGACTCACCTCTCT
46193646 TCTTTATGACTCACCTCTCT
1 TCTTTATGACTCACCTCTCT
46193666 T
1 T
46193667 TCCTAGTATC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.15, C:0.37, G:0.05, T:0.44
Consensus pattern (20 bp):
TCTTTATGACTCACCTCTCT
Found at i:46201017 original size:48 final size:49
Alignment explanation
Indices: 46200944--46201037 Score: 129
Period size: 48 Copynumber: 1.9 Consensus size: 49
46200934 AATATACCAA
* *
46200944 TATTTGAAAAAAAAATTGGTTCTGGCCATGTA-ATGGCCGGCACCAGAGC
1 TATTTGAAAAAAAAATTGGTGCTGGCCA-GTAGATGGCCAGCACCAGAGC
* *
46200993 TATTT-AAAAAAAATTTGGTGCTGGCCAGTAGATGGCTAGCACCAG
1 TATTTGAAAAAAAAATTGGTGCTGGCCAGTAGATGGCCAGCACCAG
46201038 GTACATATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
47 3 0.08
48 32 0.80
49 5 0.12
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (49 bp):
TATTTGAAAAAAAAATTGGTGCTGGCCAGTAGATGGCCAGCACCAGAGC
Found at i:46203065 original size:89 final size:90
Alignment explanation
Indices: 46202970--46203230 Score: 353
Period size: 90 Copynumber: 2.9 Consensus size: 90
46202960 ATTCTAGAAT
* * * * * * *
46202970 ATTAATACACAAAAATATAAAATTCAAAC-AAAAATAATACACACTAAATTAAATTTAGACACCC
1 ATTAATACACGAAAATTTTAAATTCAAACTATATATAATACAGACTAAATTAAATTTAAACACCC
*
46203034 AACAAACTACAAACAGATGGGTAAA
66 AACAAACTACAAACAGATGGATAAA
* * ** *
46203059 ATTAATACATGAAAATTTTAAATTCTAACTATATATAATATGGGCTAAATTAAATTTAAACACCC
1 ATTAATACACGAAAATTTTAAATTCAAACTATATATAATACAGACTAAATTAAATTTAAACACCC
*
46203124 AACAAACTAAAAACAGATGGATAAA
66 AACAAACTACAAACAGATGGATAAA
* * * *
46203149 ATTAGTGCACGAAATTTTTAAATTCAAACTATATATAACACAGACTAAATTAAATTTAAACACCC
1 ATTAATACACGAAAATTTTAAATTCAAACTATATATAATACAGACTAAATTAAATTTAAACACCC
46203214 AACAAACTACAAACAGA
66 AACAAACTACAAACAGA
46203231 AATAATACAT
Statistics
Matches: 147, Mismatches: 24, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
89 24 0.16
90 123 0.84
ACGTcount: A:0.53, C:0.16, G:0.07, T:0.25
Consensus pattern (90 bp):
ATTAATACACGAAAATTTTAAATTCAAACTATATATAATACAGACTAAATTAAATTTAAACACCC
AACAAACTACAAACAGATGGATAAA
Found at i:46205843 original size:23 final size:24
Alignment explanation
Indices: 46205796--46205841 Score: 76
Period size: 24 Copynumber: 1.9 Consensus size: 24
46205786 AAAAAATATT
46205796 AAATATATATATTTTTTATTTTTA
1 AAATATATATATTTTTTATTTTTA
46205820 AAATATA-ATAGTTTTTTATTTT
1 AAATATATATA-TTTTTTATTTT
46205842 AAGTTTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 3 0.14
24 18 0.86
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
AAATATATATATTTTTTATTTTTA
Found at i:46205971 original size:59 final size:59
Alignment explanation
Indices: 46205908--46206077 Score: 322
Period size: 59 Copynumber: 2.9 Consensus size: 59
46205898 TCAAGTTTGT
*
46205908 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATAATTTGATAAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
46205967 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
*
46206026 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATT
46206078 AATAATTTGA
Statistics
Matches: 109, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 109 1.00
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (59 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
Found at i:46206109 original size:16 final size:16
Alignment explanation
Indices: 46206088--46206129 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
46206078 AATAATTTGA
*
46206088 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
46206104 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
46206120 TAGTTTTAAT
1 TAATTTTAAT
46206130 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Done.