Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold286
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: 1428881
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
Warning! 499 characters in sequence are not A, C, G, or T
File 4 of 9
Found at i:458753 original size:32 final size:33
Alignment explanation
Indices: 458712--458779 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
458702 ATAGCTAAAC
**
458712 TTGTATCGATACA-CATAGTATGTATCGATACA
1 TTGTATCGATACACCATAAAATGTATCGATACA
458744 TTGTATCGATACACCATAAAATGTATCGATACA
1 TTGTATCGATACACCATAAAATGTATCGATACA
458777 TTG
1 TTG
458780 GCTTGTAACG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 13 0.39
33 20 0.61
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (33 bp):
TTGTATCGATACACCATAAAATGTATCGATACA
Found at i:464662 original size:8 final size:8
Alignment explanation
Indices: 464645--464676 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
464635 ATTTGATTAA
464645 ATTTTGTG
1 ATTTTGTG
*
464653 ATTTTATG
1 ATTTTGTG
464661 ATTTTGTG
1 ATTTTGTG
464669 ATTTTGTG
1 ATTTTGTG
464677 TTGAATGATG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.16, C:0.00, G:0.22, T:0.62
Consensus pattern (8 bp):
ATTTTGTG
Found at i:464898 original size:13 final size:13
Alignment explanation
Indices: 464880--464918 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
464870 ACATAATTCT
464880 TTGTATCGATACA
1 TTGTATCGATACA
464893 TTGTATCGATACA
1 TTGTATCGATACA
*
464906 CTGTATCGATACA
1 TTGTATCGATACA
464919 GGGGGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:468533 original size:139 final size:139
Alignment explanation
Indices: 468363--468627 Score: 460
Period size: 139 Copynumber: 1.9 Consensus size: 139
468353 ATATAAAATT
468363 GGGGTTAGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCAGGGTTGGAGTATC
1 GGGGTTAGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCAGGGTTGGAGTATC
* *
468428 CCCTC-GAAAATAACGGGGTTGGAGTATCCCTGATTATGAAAAATTGATGTTTTAGAGATAACGA
66 CCCTCAG-AAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAACGA
468492 GTATCAAAAC
130 GTATCAAAAC
* * * *
468502 GGGGTTGGAGTATCCTCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTATC
1 GGGGTTAGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCAGGGTTGGAGTATC
468567 CCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAA
66 CCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAA
468628 AGCCGGGGTT
Statistics
Matches: 119, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
139 118 0.99
140 1 0.01
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (139 bp):
GGGGTTAGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCAGGGTTGGAGTATC
CCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAACGAG
TATCAAAAC
Found at i:468634 original size:79 final size:79
Alignment explanation
Indices: 468499--468850 Score: 569
Period size: 79 Copynumber: 4.5 Consensus size: 79
468489 CGAGTATCAA
* *
468499 AACGGGGTTGGAGTATCCTCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGT
1 AACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGT
*
468564 ATCCCCTCAGAAAT
66 ATCCCCTCGGAAAT
*
468578 AACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAGCCGGGGTTGGAGT
1 AACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGT
468643 ATCCCCTCGGAAAT
66 ATCCCCTCGGAAAT
* ** * * *
468657 AACGGTGTTGGAGTATCCCTAATTGTGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGT
1 AACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGT
*
468722 ATCCCCTCGAAAAT
66 ATCCCCTCGGAAAT
*
468736 AACGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGT
1 AACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGT
468801 ATCCCCTCGGAAAT
66 ATCCCCTCGGAAAT
* * *
468815 AACGGGATTGGAGTATCCTCGATTGTGAAAAATTGA
1 AACGGGGTTGGAGTATCCCCGATTATGAAAAATTGA
468851 GAAACTTAAC
Statistics
Matches: 249, Mismatches: 24, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
79 249 1.00
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (79 bp):
AACGGGGTTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGT
ATCCCCTCGGAAAT
Found at i:470127 original size:35 final size:35
Alignment explanation
Indices: 470062--470230 Score: 243
Period size: 35 Copynumber: 4.9 Consensus size: 35
470052 TCATTTTTAT
470062 CCATCATTCCATGCCTTCA-TTTTTTATTCCATGC
1 CCATCATTCCATGCCTTCATTTTTTTATTCCATGC
*
470096 CCATCATTCTATGCCTTCATTTTTTTATTCCATGC
1 CCATCATTCCATGCCTTCATTTTTTTATTCCATGC
*
470131 CCATCATTCCATGCCTTCATTTTTATATTCCATGC
1 CCATCATTCCATGCCTTCATTTTTTTATTCCATGC
* * ** * *
470166 CCATCATCCCATG-TTTTTTTTTTTTATTTCTTGC
1 CCATCATTCCATGCCTTCATTTTTTTATTCCATGC
*
470200 CCATCATTCCATGCCTTCATTTTTATATTCC
1 CCATCATTCCATGCCTTCATTTTTTTATTCC
470231 TTGATTTTCA
Statistics
Matches: 117, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
34 45 0.38
35 72 0.62
ACGTcount: A:0.17, C:0.30, G:0.05, T:0.48
Consensus pattern (35 bp):
CCATCATTCCATGCCTTCATTTTTTTATTCCATGC
Found at i:470141 original size:69 final size:69
Alignment explanation
Indices: 470062--470230 Score: 259
Period size: 69 Copynumber: 2.4 Consensus size: 69
470052 TCATTTTTAT
* *
470062 CCATCATTCCATGCCTTCATTTTT-TATTCCATGCCCATCATTCTATGCCTTCATTTTTTTATTC
1 CCATCATTCCATGCCTTCATTTTTATATTCCATGCCCATCATCCCATG-CTTCATTTTTTTATTC
470126 CATGC
65 CATGC
* ** *
470131 CCATCATTCCATGCCTTCATTTTTATATTCCATGCCCATCATCCCATGTTTTTTTTTTTTATTTC
1 CCATCATTCCATGCCTTCATTTTTATATTCCATGCCCATCATCCCATGCTTCATTTTTTTATTCC
*
470196 TTGC
66 ATGC
470200 CCATCATTCCATGCCTTCATTTTTATATTCC
1 CCATCATTCCATGCCTTCATTTTTATATTCC
470231 TTGATTTTCA
Statistics
Matches: 92, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
69 71 0.77
70 21 0.23
ACGTcount: A:0.17, C:0.30, G:0.05, T:0.48
Consensus pattern (69 bp):
CCATCATTCCATGCCTTCATTTTTATATTCCATGCCCATCATCCCATGCTTCATTTTTTTATTCC
ATGC
Found at i:470888 original size:40 final size:41
Alignment explanation
Indices: 470842--470945 Score: 122
Period size: 42 Copynumber: 2.5 Consensus size: 41
470832 CCCACTTTTT
*
470842 TTGAGGACAAAGAAAAAGAG-AATGAAATAG-GTCCTGCTCC
1 TTGAGGACAAAGAAAAAGAGAAAAGAAA-AGTGTCCTGCTCC
* * *
470882 TTGAGGACAAAGGAAAAGAAGAAAAGGAAAGTGTCCTGCTTC
1 TTGAGGACAAAGAAAAAG-AGAAAAGAAAAGTGTCCTGCTCC
470924 TTGAGGACAAAGTGAAAAAGAG
1 TTGAGGACAAA--GAAAAAGAG
470946 TACGTCTCAT
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
40 17 0.31
41 4 0.07
42 25 0.46
43 2 0.04
44 6 0.11
ACGTcount: A:0.44, C:0.12, G:0.28, T:0.16
Consensus pattern (41 bp):
TTGAGGACAAAGAAAAAGAGAAAAGAAAAGTGTCCTGCTCC
Found at i:471048 original size:36 final size:36
Alignment explanation
Indices: 470995--471088 Score: 134
Period size: 36 Copynumber: 2.6 Consensus size: 36
470985 ACGCAATACT
* * **
470995 TCCTACTCTCTAAGGACAAAAGAAAAATAAAGTTTG
1 TCCTACTCTTTGAGGACAAAAGAAAAATAAAGTGCG
*
471031 TCCTGCTCTTTGAGGACAAAAGAAAAATAAAGTGCG
1 TCCTACTCTTTGAGGACAAAAGAAAAATAAAGTGCG
*
471067 TCCTACTCTTTGAGGATAAAAG
1 TCCTACTCTTTGAGGACAAAAG
471089 GGAAAAGAAG
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 51 1.00
ACGTcount: A:0.39, C:0.17, G:0.18, T:0.26
Consensus pattern (36 bp):
TCCTACTCTTTGAGGACAAAAGAAAAATAAAGTGCG
Found at i:471207 original size:61 final size:61
Alignment explanation
Indices: 471112--471306 Score: 228
Period size: 61 Copynumber: 3.3 Consensus size: 61
471102 AAGAAGTGTT
* * *
471112 TCCTGCTCTTTGAGGATTGAAAAGTGCCACCAACTTGTGTGGTCTTTGAAAAGA-AAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAGAAA-GCA
* * * *
471173 TCCTGCTCTATGAGGACTG-GAAGATGCCACCAACTAGTGTGGGATTTGCAAAA-AGAAAGCA
1 TCCTGCTCTTTGAGGACTGAAAAG-TGCCACCAACTTGTGTGGGCTTTG-AAAAGAGAAAGCA
*
471234 TCATGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT--AAA-AG---GCA
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAGAAAGCA
471289 TCCTGCTCTTTGAGGACT
1 TCCTGCTCTTTGAGGACT
471307 AAAGGGCGAA
Statistics
Matches: 117, Mismatches: 13, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
55 20 0.17
58 5 0.04
60 3 0.03
61 79 0.68
62 10 0.09
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.27
Consensus pattern (61 bp):
TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAGAAAGCA
Found at i:471440 original size:30 final size:30
Alignment explanation
Indices: 471406--471495 Score: 84
Period size: 30 Copynumber: 3.2 Consensus size: 30
471396 CTTTGAGGAT
471406 AAAGGGTGCCACCAACTTGTGTGGACTTTA
1 AAAGGGTGCCACCAACTTGTGTGGACTTTA
** * *
471436 AAAGGAGT-CCTGC-TCTT-TGAGGAC--T-
1 AAAGG-GTGCCACCAACTTGTGTGGACTTTA
*
471461 AAAGGGTGCCACCAACTTGTGTGGGCTTTA
1 AAAGGGTGCCACCAACTTGTGTGGACTTTA
471491 AAAGG
1 AAAGG
471496 AAAAGGCGTC
Statistics
Matches: 44, Mismatches: 9, Indels: 14
0.66 0.13 0.21
Matches are distributed among these distances:
24 2 0.05
25 8 0.18
26 4 0.09
27 5 0.11
28 6 0.14
29 4 0.09
30 13 0.30
31 2 0.05
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.26
Consensus pattern (30 bp):
AAAGGGTGCCACCAACTTGTGTGGACTTTA
Found at i:471463 original size:154 final size:154
Alignment explanation
Indices: 471170--471466 Score: 417
Period size: 155 Copynumber: 1.9 Consensus size: 154
471160 AAAAGAAAAG
471170 GCGTCCTGCTCTATGAGGACTGGAAGATGCCACCAACTAGTGTGGGATTTGCAAAAAGAAAGCAT
1 GCGTCCTGCTCTATGAGGACTGGAAGATGCCACCAACTAGTGTGGGATTT-CAAAAAGAAAGCAT
*
471235 CATGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTT
65 CATGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGACTTTAAAAGGCATCCTGCTCTTT
471300 GAGGACTAAAGGGCGAAAGGAGGGA
130 GAGGACTAAAGGGCGAAAGGAGGGA
* * * * *
471325 GCGTCCTGCTCTTTGAGGACTAGGAAG-TGCCACCAACTTGTGTGGGCTTT-AAAAGGCGAAGGC
1 GCGTCCTGCTCTATGAGGACT-GGAAGATGCCACCAACTAGTGTGGGATTTCAAAA--AGAAAGC
* *
471388 GTCCA-GCTCTTTGAGGA-T-AAAGGGTGCCACCAACTTGTGTGGACTTTAAAAGG-AGTCCTGC
63 AT-CATGCTCTTTGAGGACTGAAA-AGTGCCACCAACTTGTGTGGACTTTAAAAGGCA-TCCTGC
471449 TCTTTGAGGACTAAAGGG
125 TCTTTGAGGACTAAAGGG
471467 TGCCACCAAC
Statistics
Matches: 128, Mismatches: 8, Indels: 13
0.86 0.05 0.09
Matches are distributed among these distances:
153 8 0.06
154 54 0.42
155 59 0.46
156 7 0.05
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.24
Consensus pattern (154 bp):
GCGTCCTGCTCTATGAGGACTGGAAGATGCCACCAACTAGTGTGGGATTTCAAAAAGAAAGCATC
ATGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGACTTTAAAAGGCATCCTGCTCTTTG
AGGACTAAAGGGCGAAAGGAGGGA
Found at i:471530 original size:61 final size:61
Alignment explanation
Indices: 471325--472673 Score: 2190
Period size: 61 Copynumber: 22.5 Consensus size: 61
471315 AAAGGAGGGA
**
471325 GCGTCCTGCTCTTTGAGGACT--AGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGAAG
1 GCGTCCTGCTCTTTGAGGACTAAAGG--GTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
* *
471386 GCGTCCAGCTCTTTGAGGA-TAAAGGGTGCCACCAACTTGTGTGGACTTTAAAAGG---A-
1 GCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
471442 --GTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
* *
471501 GCGTCCTGCTCTTTGAGGACTAGAGGGTGCCACCAACCTGTGTGGGCTTTAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
* *
471562 GCGTCTTGCTCTTTGAGGACTAAAGGGTGCCACTAACTTGTGTGGGCTTTAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
* * * * *
471623 GCATCCTGCTCTCTGAGGACTAGAGGGTGCCACTAACCTGTGTGGGCTTTAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
471684 GCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
471745 GCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
*
471806 GCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGACTTTAAAAGG---A-
1 GCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
471863 --GTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
* *
471922 GCGTCCTGCTCTTTGAGGACTAGAGGGTGCCACCAACCTGTGTGGGCTTTAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
*
471983 GCGTCTTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
* * * *
472044 GCATCCTGCTCTCTGAGGACTAGAGGGTGCCACTC-ACCTGTGTGGGCTTTAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAGGGTGCCAC-CAACTTGTGTGGGCTTTAAAAGGAAAAG
472105 GCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
472166 GCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
*
472227 GCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
* * *
472288 GCGTCCTGCTTTTTGAGGACTAAAGGGTGCTACCAACTTGTGTGGGCTTTAAAAAGAAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
* ** *
472349 GTGTCCTGCTCTTTGAGGACTTGAGGGTGCCACCAACCTGTGTGGGCTTTAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
*
472410 GCGTCCTGCTCTTTGAGGACTAAATGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
472471 GCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
* * *
472532 GTGTCCTGCTCTTTGAGGACTGAA-GGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
*
472592 GCGTCCTGCTCTTTGAGGACTGAA--GTGCCACCAACTTGTGTGGGCTTT-----G-AAAG
1 GCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
472645 GCGTCCTGCTCTTTGAGGACTAAAGGGTG
1 GCGTCCTGCTCTTTGAGGACTAAAGGGTG
472674 AAAGAGGTGC
Statistics
Matches: 1210, Mismatches: 59, Indels: 44
0.92 0.04 0.03
Matches are distributed among these distances:
53 27 0.02
54 17 0.01
55 91 0.08
57 1 0.00
58 3 0.00
59 24 0.02
60 89 0.07
61 954 0.79
62 4 0.00
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (61 bp):
GCGTCCTGCTCTTTGAGGACTAAAGGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAG
Found at i:471830 original size:25 final size:24
Alignment explanation
Indices: 471802--471888 Score: 66
Period size: 25 Copynumber: 3.3 Consensus size: 24
471792 TTTAAAAGGA
471802 AAAGGCGTCCTGCTCTTTGAGGACT
1 AAAGG-GTCCTGCTCTTTGAGGACT
** * *
471827 AAAGGGTGCCACCAACTTGTGTGGACTTT
1 AAAGGGT-CCTGC-TCTT-TGAGGAC--T
471856 AAAAGGAGTCCTGCTCTTTGAGGACT
1 -AAAGG-GTCCTGCTCTTTGAGGACT
471882 AAAGGGT
1 AAAGGGT
471889 GCCACCAACT
Statistics
Matches: 47, Mismatches: 8, Indels: 15
0.67 0.11 0.21
Matches are distributed among these distances:
24 4 0.09
25 13 0.28
26 4 0.09
27 6 0.13
28 6 0.13
29 4 0.09
30 8 0.17
31 2 0.04
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (24 bp):
AAAGGGTCCTGCTCTTTGAGGACT
Found at i:471853 original size:27 final size:27
Alignment explanation
Indices: 471822--471905 Score: 75
Period size: 25 Copynumber: 3.1 Consensus size: 27
471812 TGCTCTTTGA
471822 GGACTAAAGGGTGCCACCAACTTGTGT
1 GGACTAAAGGGTGCCACCAACTTGTGT
** * *
471849 GGACTTTAAAAGGAGT-CCTGC-TCTT-TGA
1 GGAC--T-AAAGG-GTGCCACCAACTTGTGT
471877 GGACTAAAGGGTGCCACCAACTTGTGT
1 GGACTAAAGGGTGCCACCAACTTGTGT
471904 GG
1 GG
471906 GCTTTAAAAG
Statistics
Matches: 42, Mismatches: 8, Indels: 14
0.66 0.12 0.22
Matches are distributed among these distances:
24 2 0.05
25 8 0.19
26 4 0.10
27 8 0.19
28 6 0.14
29 4 0.10
30 8 0.19
31 2 0.05
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (27 bp):
GGACTAAAGGGTGCCACCAACTTGTGT
Found at i:471861 original size:30 final size:30
Alignment explanation
Indices: 471827--471916 Score: 84
Period size: 30 Copynumber: 3.2 Consensus size: 30
471817 TTTGAGGACT
471827 AAAGGGTGCCACCAACTTGTGTGGACTTTA
1 AAAGGGTGCCACCAACTTGTGTGGACTTTA
** * *
471857 AAAGGAGT-CCTGC-TCTT-TGAGGAC--T-
1 AAAGG-GTGCCACCAACTTGTGTGGACTTTA
*
471882 AAAGGGTGCCACCAACTTGTGTGGGCTTTA
1 AAAGGGTGCCACCAACTTGTGTGGACTTTA
471912 AAAGG
1 AAAGG
471917 AAAAGGCGTC
Statistics
Matches: 44, Mismatches: 9, Indels: 14
0.66 0.13 0.21
Matches are distributed among these distances:
24 2 0.05
25 8 0.18
26 4 0.09
27 5 0.11
28 6 0.14
29 4 0.09
30 13 0.30
31 2 0.05
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.26
Consensus pattern (30 bp):
AAAGGGTGCCACCAACTTGTGTGGACTTTA
Found at i:478851 original size:51 final size:50
Alignment explanation
Indices: 478728--478863 Score: 139
Period size: 51 Copynumber: 2.6 Consensus size: 50
478718 AAAATTAGTA
* * * *
478728 TTTTAGAGATAACAACGGGGCTAGAGTATCCCTGATTATGGAAAAACGGTG
1 TTTTAGAAATAA-AACGGGGTTAGAGTATCCCCGATTATGGAAAAACGATG
* * * *
478779 TTCTAAAAAATAAAATTGGGGTTAGAGTATCCCCGATTAT-GAAAAATTGATG
1 TT-TTAGAAATAAAA-CGGGGTTAGAGTATCCCCGATTATGGAAAAA-CGATG
*
478831 TTTTAGAAATAAAACCGGGGTTGGAGTATCCCC
1 TTTTAGAAATAAAA-CGGGGTTAGAGTATCCCC
478864 TCGAAAATAA
Statistics
Matches: 69, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
51 36 0.52
52 33 0.48
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (50 bp):
TTTTAGAAATAAAACGGGGTTAGAGTATCCCCGATTATGGAAAAACGATG
Found at i:478934 original size:78 final size:78
Alignment explanation
Indices: 478796--479019 Score: 351
Period size: 78 Copynumber: 2.9 Consensus size: 78
478786 AAATAAAATT
*
478796 GGGGTTAGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATC
1 GGGGTT-GGGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATC
*
478861 CCCTCGAAAATAAC
65 CCCTCAAAAATAAC
* * *
478875 GGGGTTGGGTATCCTCGATTATGAAAAATTGATGTTTTAGAGATAAAACCAGGGTTGGAGTAT-C
1 GGGGTTGGGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCC
*
478939 CCTCAAAAATAAT
66 CCTCAAAAATAAC
* *
478952 GGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAATATC
1 GGGGTTGG-GTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATC
479017 CCC
65 CCC
479020 GATTATGAAA
Statistics
Matches: 132, Mismatches: 11, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
77 20 0.15
78 103 0.78
79 9 0.07
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (78 bp):
GGGGTTGGGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCC
CCTCAAAAATAAC
Found at i:479018 original size:51 final size:51
Alignment explanation
Indices: 478952--479121 Score: 277
Period size: 51 Copynumber: 3.3 Consensus size: 51
478942 CAAAAATAAT
* *
478952 GGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACC
1 GGGGTTGGAGTATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAACC
* **
479003 GGGGTTGGAATATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAGTC
1 GGGGTTGGAGTATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAACC
* *
479054 GGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAACC
1 GGGGTTGGAGTATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAACC
479105 GGGGTTGGAGTATCCCC
1 GGGGTTGGAGTATCCCC
479122 TTGAAAATAA
Statistics
Matches: 109, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 109 1.00
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (51 bp):
GGGGTTGGAGTATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAACC
Found at i:479184 original size:79 final size:79
Alignment explanation
Indices: 479053--479244 Score: 321
Period size: 79 Copynumber: 2.4 Consensus size: 79
479043 GAAATAAAGT
*
479053 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATATTTTAGAAATAAAACCGGGGTTGGAGTAT
*
479118 CCCCTTGAAAATAA
66 CCCCTCGAAAATAA
* * *
479132 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATATTTTAGAAATAAAACCGGGGTTGGAGTAT
*
479197 CCCCTCGGAAATAA
66 CCCCTCGAAAATAA
*
479211 CGGGATTGGAGTATCCCCGATTGTGAAAAATTGA
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGA
479245 GAAACTTAAC
Statistics
Matches: 104, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
79 104 1.00
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.27
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATATTTTAGAAATAAAACCGGGGTTGGAGTAT
CCCCTCGAAAATAA
Found at i:479200 original size:181 final size:179
Alignment explanation
Indices: 478874--479200 Score: 546
Period size: 181 Copynumber: 1.8 Consensus size: 179
478864 TCGAAAATAA
* * * *
478874 CGGGGTTGGGTATCCTCGATTATGAAAAATTGATGTTTTAGAGATAAAACCAGGGTTGGAGTATC
1 CGGGGTTGGGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACCAGGGTTGGAGTATC
*
478939 CCTCAAAAATAATGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCG
66 CCTCAAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCG
479004 GGGTTGGAATATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAGT
131 GGGTTGGAATATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAGT
* *
479053 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGG-GTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACCAGGGTTGGAGTAT
**
479118 CCCCTTGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAAC
65 -CCCTCAAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAAC
*
479183 CGGGGTTGGAGTATCCCC
129 CGGGGTTGGAATATCCCC
479201 TCGGAAATAA
Statistics
Matches: 136, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
179 9 0.07
180 49 0.36
181 78 0.57
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (179 bp):
CGGGGTTGGGTATCCCCGATTATGAAAAATTAATATTTTAGAAATAAAACCAGGGTTGGAGTATC
CCTCAAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTAGAAATAAAACCG
GGGTTGGAATATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAGT
Found at i:480521 original size:35 final size:35
Alignment explanation
Indices: 480456--480623 Score: 243
Period size: 35 Copynumber: 4.9 Consensus size: 35
480446 TCATTTTTAT
480456 CCATCATTCCATGCCTTCA-TTTTTTATTCCATGC
1 CCATCATTCCATGCCTTCATTTTTTTATTCCATGC
*
480490 CCATCATTCTATGCCTTCATTTTTTTATTCCATGC
1 CCATCATTCCATGCCTTCATTTTTTTATTCCATGC
* *
480525 CAATCATTCCATGCCTTCATTTTTATATTCCATGC
1 CCATCATTCCATGCCTTCATTTTTTTATTCCATGC
* ** *
480560 CCATCATCCCATG--TTTTTTTTTTTATTTCATGC
1 CCATCATTCCATGCCTTCATTTTTTTATTCCATGC
*
480593 CCATCATTCCATGCCTTCATTTTTATATTCC
1 CCATCATTCCATGCCTTCATTTTTTTATTCC
480624 TTGATTTTCA
Statistics
Matches: 116, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
33 28 0.24
34 18 0.16
35 70 0.60
ACGTcount: A:0.18, C:0.29, G:0.05, T:0.47
Consensus pattern (35 bp):
CCATCATTCCATGCCTTCATTTTTTTATTCCATGC
Found at i:480593 original size:68 final size:69
Alignment explanation
Indices: 480458--480623 Score: 255
Period size: 68 Copynumber: 2.4 Consensus size: 69
480448 ATTTTTATCC
* *
480458 ATCATTCCATGCCTTCATTTTT-TATTCCATGCCCATCATTCTATGCCTTCATTTTTTTATTCCA
1 ATCATTCCATGCCTTCATTTTTATATTCCATGCCCATCATCCCATG-CTTCATTTTTTTATTCCA
480522 TGCCA
65 TGCCA
** *
480527 ATCATTCCATGCCTTCATTTTTATATTCCATGCCCATCATCCCATG-TTTTTTTTTTTATTTCAT
1 ATCATTCCATGCCTTCATTTTTATATTCCATGCCCATCATCCCATGCTTCATTTTTTTATTCCAT
*
480591 GCCC
66 GCCA
480595 ATCATTCCATGCCTTCATTTTTATATTCC
1 ATCATTCCATGCCTTCATTTTTATATTCC
480624 TTGATTTTCA
Statistics
Matches: 90, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
68 47 0.52
69 22 0.24
70 21 0.23
ACGTcount: A:0.19, C:0.28, G:0.05, T:0.48
Consensus pattern (69 bp):
ATCATTCCATGCCTTCATTTTTATATTCCATGCCCATCATCCCATGCTTCATTTTTTTATTCCAT
GCCA
Found at i:480992 original size:13 final size:13
Alignment explanation
Indices: 480974--480998 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
480964 ACACATAGTA
480974 TGTATCGATACAT
1 TGTATCGATACAT
480987 TGTATCGATACA
1 TGTATCGATACA
480999 CCAAAAAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:481016 original size:33 final size:32
Alignment explanation
Indices: 480954--481021 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 32
480944 GTAGCTAAAC
* ** *
480954 TTGTATCGATACACATAGTATGTATCGATACA
1 TTGTATCGATACACAAAAAATGTACCGATACA
480986 TTGTATCGATACACCAAAAAATGTACCGATACA
1 TTGTATCGATACA-CAAAAAATGTACCGATACA
481019 TTG
1 TTG
481022 GCTTGTAACG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 13 0.42
33 18 0.58
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.31
Consensus pattern (32 bp):
TTGTATCGATACACAAAAAATGTACCGATACA
Found at i:482055 original size:157 final size:156
Alignment explanation
Indices: 481767--482119 Score: 458
Period size: 157 Copynumber: 2.2 Consensus size: 156
481757 GCTTTCAATA
* * * * *
481767 TTGATTTCTTTGATGCTTAATTGTGTGTTTTAATTATGTAAGCACTAATTTACAAATTTAGAAAG
1 TTGA-TTCTTTGATGTTTAATTTTGTGTTTTAATTAGGTAAGAACTAATTTACAAAATTAGAAAG
* * * *
481832 TTTATGGTGTTTATTTGAAAATTTTGTTCTAAGGCTAAAAGTACTTGGCCAAATCTTCCTTGTAA
65 TTTACGGTGTTTATTCGAAAATTTTGTTCTAAGACTAAAAGTACTTGGCCAAATCTTCCTTATAA
** * * *
481897 CTTTTGGATGTGTTTTGGATGCTTATT
130 CTTTTAAATATGTTTTAGATGCTGATT
* * *
481924 TTGATT-TATTGAATGTTTAATTTTGTGTTTTAATTAGGTAAGAATTAATTTGCAAAATTATAAA
1 TTGATTCT-TTG-ATGTTTAATTTTGTGTTTTAATTAGGTAAGAACTAATTTACAAAATTAGAAA
* *
481988 GTTTAACGG-GTTTATTCGAAAATTTTGTTCTAAGACTAAAAGTACTTGGCTAAATCTTGCTTAT
64 GTTT-ACGGTGTTTATTCGAAAATTTTGTTCTAAGACTAAAAGTACTTGGCCAAATCTTCCTTAT
*
482052 AACTTTTAAATATGTTTTATATGCTGATT
128 AACTTTTAAATATGTTTTAGATGCTGATT
*
482081 TTGATTCCTTTGATGTTTAATTTTGTGTTTTGATTAGGT
1 TTGATT-CTTTGATGTTTAATTTTGTGTTTTAATTAGGT
482120 TTGGGAGCTT
Statistics
Matches: 170, Mismatches: 21, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
155 1 0.01
156 5 0.03
157 157 0.92
158 6 0.04
159 1 0.01
ACGTcount: A:0.28, C:0.08, G:0.17, T:0.48
Consensus pattern (156 bp):
TTGATTCTTTGATGTTTAATTTTGTGTTTTAATTAGGTAAGAACTAATTTACAAAATTAGAAAGT
TTACGGTGTTTATTCGAAAATTTTGTTCTAAGACTAAAAGTACTTGGCCAAATCTTCCTTATAAC
TTTTAAATATGTTTTAGATGCTGATT
Found at i:496367 original size:19 final size:19
Alignment explanation
Indices: 496343--496397 Score: 92
Period size: 19 Copynumber: 2.9 Consensus size: 19
496333 AATTCAACAA
*
496343 TTTGTATTGATACATAAGT
1 TTTGTATCGATACATAAGT
496362 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
496381 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
496398 TTAGCTATTG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.35, C:0.09, G:0.15, T:0.42
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:498944 original size:53 final size:49
Alignment explanation
Indices: 498826--498950 Score: 142
Period size: 51 Copynumber: 2.4 Consensus size: 49
498816 CTCAATTCTC
* * * *
498826 CACAATCAGGGATATTCCAACTCCGGTTTTATTTTCAAAACACTAATTTT
1 CACAATC-GGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTT
*
498876 CTATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTTT
1 C-ACAATC-GGGATACTCCAACTCCGATTTTATTTCC--AAAACACCAA-TTTT
498930 CACAATCGGCGATACTCCAAC
1 CACAATCGG-GATACTCCAAC
498951 CCCGTTAATC
Statistics
Matches: 63, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
50 1 0.02
51 30 0.48
52 2 0.03
53 25 0.40
54 5 0.08
ACGTcount: A:0.33, C:0.26, G:0.10, T:0.31
Consensus pattern (49 bp):
CACAATCGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTT
Found at i:498970 original size:27 final size:28
Alignment explanation
Indices: 498940--499008 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
498930 CACAATCGGC
*
498940 GATACTCCAACCCCGTTA-ATCAT-TGGG
1 GATACTCCAACCCCGTTATATC-TGAGGG
*
498967 GATACTCCAACCCCGTTATTTCTGAGGG
1 GATACTCCAACCCCGTTATATCTGAGGG
498995 GATACTCCAACCCC
1 GATACTCCAACCCC
499009 TTCTTTATTC
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
27 19 0.50
28 19 0.50
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (28 bp):
GATACTCCAACCCCGTTATATCTGAGGG
Found at i:499117 original size:52 final size:51
Alignment explanation
Indices: 498824--499213 Score: 183
Period size: 52 Copynumber: 7.5 Consensus size: 51
498814 TTCTCAATTC
* * *
498824 TCCACAATCAGGGATATTCCAACTCCGGTTTTATTT-TCAAAACACTAA-TTT
1 TCCACAATCGGGGATACTCCAAC-CCGGTTTTATTTCT-AAAACACCAATTTT
* * * *
498875 TCTATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTT
1 TCCACAATCGGGGATACTCCAAC-CCGGTTTTATTT-C-TAAAACACCAATTTT
* * * ** **
498929 T-CACAATCGGCGATACTCCAACCCCGTTAATCATTGGGGATACTCCAAC-CCCGTTATT
1 TCCACAATCGGGGATACTCCAACCCGGTT--TTATT-----T-CTAAAACACCAATT-TT
** ** * *** *
498987 T-C-TGA--GGGGATACTCCAACCCCTTCTTTA-TTCTTAAAATATTGATTTC
1 TCCACAATCGGGGATACTCCAACCCGGT-TTTATTTC-TAAAACACCAATTTT
* * *
499035 T-CATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTTT
1 TCCACAATCGGGGATACTCCAA-CCCGGTTTTATTTCTAAAACACCAATTTT
* *
499086 TCCACAATCGGGGATACTCCAACCCTGGTTTTATTTTTAAAATACCAA-TTT
1 TCCACAATCGGGGATACTCCAACCC-GGTTTTATTTCTAAAACACCAATTTT
** * * *
499137 TCCTTTAATCGGGGATACTCCAGCTCC-GATTTATTTCCAAAAGCACCAATTTT
1 TCC-ACAATCGGGGATACTCCAAC-CCGGTTTTATTTCTAAAA-CACCAATTTT
* * *
499190 TTCACAATTGAGGATACTCCAACC
1 TCCACAATCGGGGATACTCCAACC
499214 TTGTTATTTC
Statistics
Matches: 255, Mismatches: 58, Indels: 52
0.70 0.16 0.14
Matches are distributed among these distances:
47 1 0.00
48 7 0.03
49 4 0.02
51 82 0.32
52 84 0.33
53 35 0.14
54 10 0.04
55 17 0.07
56 1 0.00
57 5 0.02
58 7 0.03
59 2 0.01
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (51 bp):
TCCACAATCGGGGATACTCCAACCCGGTTTTATTTCTAAAACACCAATTTT
Found at i:499310 original size:262 final size:261
Alignment explanation
Indices: 498824--499322 Score: 645
Period size: 262 Copynumber: 1.9 Consensus size: 261
498814 TTCTCAATTC
* *
498824 TCCACAATCAGGGATATTCCAACTCCGGTTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
1 TCCACAATCAGGGATACTCCAACTCCGGTTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
498889 TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTTTCACAATCGGCGATACTCCAACCCC
66 TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTTTCACAATCGGCGATACTCCAACCCC
* * *
498954 GTTAATCATTGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCTTCTTTATTC
131 GTTAATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCATTCTTTATTC
* * *
499019 TTAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATT
196 -TAAAATATCGATTTCTCACAACCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATT
499084 TT
260 TT
* * * *
499086 TCCACAATCGGGGATACTCCAAC-CCTGGTTTTATTTTTAAAATACCAATTTTCCTTTAATCGGG
1 TCCACAATCAGGGATACTCCAACTCC-GGTTTTATTTTCAAAACACCAATTTT-CTATAATCGGG
* * *
499150 GATACTCCAGCTCCGA-TTTATTTCC-AAAAGCACCAATTTTTTCACAATTGAG-GATACTCCAA
64 GATACTCCAACTCCGATTTTATTTCCAAAAAACACCAA-TTTTTCACAATCG-GCGATACTCCAA
** * * *
499212 CCTTGTTATTTCATCGGGGATACGT-CAACCCCGTTATTTCCGAGGGGATACTTCAATCTCGATT
127 CCCCGTTA-ATCATCGGGGATAC-TCCAACCCCGTTATTTCCGAGGGGATACTCCAA-C-CCATT
* * *
499276 -TTT-TTC-CAAATCATCGATTTTTCACAACCGGGGATACTCCAGCCCCG
188 CTTTATTCTAAAAT-ATCGATTTCTCACAACCGGGGATACTCCAACCCCG
499323 TCATTTTCAA
Statistics
Matches: 205, Mismatches: 23, Indels: 18
0.83 0.09 0.07
Matches are distributed among these distances:
261 16 0.08
262 111 0.54
263 70 0.34
264 5 0.02
265 3 0.01
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (261 bp):
TCCACAATCAGGGATACTCCAACTCCGGTTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTTTCACAATCGGCGATACTCCAACCCC
GTTAATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCATTCTTTATTC
TAAAATATCGATTTCTCACAACCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTT
T
Found at i:506156 original size:51 final size:52
Alignment explanation
Indices: 506086--506209 Score: 171
Period size: 51 Copynumber: 2.4 Consensus size: 52
506076 CTCAATTCTC
* * * * *
506086 CACAATCAGGGATATTCCAACTCCGGTTTTATTTTC-AAAACACTAA-TTTT
1 CACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTT
*
506136 CTATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTT
1 C-ACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTT
506189 CACAATCGGGGATACTCCAAC
1 CACAATCGGGGATACTCCAAC
506210 CACGTTAATC
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
50 1 0.02
51 30 0.47
52 28 0.44
53 5 0.08
ACGTcount: A:0.32, C:0.25, G:0.11, T:0.31
Consensus pattern (52 bp):
CACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTT
Found at i:506223 original size:27 final size:28
Alignment explanation
Indices: 506193--506265 Score: 96
Period size: 27 Copynumber: 2.6 Consensus size: 28
506183 ATTTTTCACA
506193 ATCGGGGATACTCCAACCACGTTA-ATC
1 ATCGGGGATACTCCAACCACGTTATATC
* *
506220 ATCGGGGATACTCCAACCCCGTTATTTC
1 ATCGGGGATACTCCAACCACGTTATATC
*
506248 -TGAGGGGATACTCCAACC
1 AT-CGGGGATACTCCAACC
506266 CCTTCTTTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCACGTTATATC
Found at i:506316 original size:51 final size:52
Alignment explanation
Indices: 506251--506417 Score: 162
Period size: 52 Copynumber: 3.2 Consensus size: 52
506241 TTATTTCTGA
* * * * *
506251 GGGGATACTCCAACCCC-TTCTTTATT-CTTAAAATATTGATTTCT-CATAATC
1 GGGGATACTCCAACCCCGGT-TTTATTGC-TAAAACACTAATTTCTCCACAATC
*
506302 GGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTTCTCCACAATC
* ** * * **
506354 GGGGATACTCCAACCCTGGTTTTATTTTTAAAATACCAATTT-TCCTTTAATC
1 GGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTTCTCC-ACAATC
506406 GGGGATACTCCA
1 GGGGATACTCCA
506418 GCTCCGAAAT
Statistics
Matches: 99, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
51 38 0.38
52 61 0.62
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.35
Consensus pattern (52 bp):
GGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTTCTCCACAATC
Found at i:506369 original size:52 final size:52
Alignment explanation
Indices: 506298--506473 Score: 183
Period size: 52 Copynumber: 3.4 Consensus size: 52
506288 GATTTCTCAT
* *
506298 AATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTTTTCCAC
1 AATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCCAC
* * * **
506350 AATCGGGGATACTCCAACCCTGGTTTTATTTTTAAAATACCAA-TTTTCCTTT
1 AATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCC-AC
* * *** * *
506402 AATCGGGGATACTCCAGCTCCGAAATTATTTCCAAAAGCACCAATTTTTTCAC
1 AATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAA-CACCAATTTTTCCAC
* *
506455 AATTGAGGATACTCCAACC
1 AATCGGGGATACTCCAACC
506474 TCGTTATTTC
Statistics
Matches: 98, Mismatches: 23, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
51 6 0.06
52 67 0.68
53 20 0.20
54 5 0.05
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.32
Consensus pattern (52 bp):
AATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCCAC
Found at i:506493 original size:28 final size:28
Alignment explanation
Indices: 506461--506527 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 28
506451 TCACAATTGA
**
506461 GGATACTCCAACCTCGTTATTTCATCGG
1 GGATACTCCAACCTCGTTATTTCAGAGG
*
506489 GGATACTCCAACCTCGTTATTTCCGAGG
1 GGATACTCCAACCTCGTTATTTCAGAGG
506517 GGATACTCCAA
1 GGATACTCCAA
506528 TCCCGATTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (28 bp):
GGATACTCCAACCTCGTTATTTCAGAGG
Found at i:506571 original size:264 final size:261
Alignment explanation
Indices: 506084--506583 Score: 693
Period size: 264 Copynumber: 1.9 Consensus size: 261
506074 TTCTCAATTC
* *
506084 TCCACAATCAGGGATATTCCAACTCCGGTTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
1 TCCACAATCAGGGATACTCCAACTCCGGTTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
** *
506149 TACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGGGGATACTCCAACCACG
66 TACTCCAACTCCGAAATTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCACG
* *
506214 TTAATCATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCTTCTTTATTCT
131 TTAATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCATTCTTTATTCT
* * * *
506279 TAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTT
196 CAAAATATCGATTTCTCACAACCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTT
506344 T
261 T
* * * *
506345 TCCACAATCGGGGATACTCCAAC-CCTGGTTTTATTTTTAAAATACCAATTTTCCTTTAATCGGG
1 TCCACAATCAGGGATACTCCAACTCC-GGTTTTATTTTCAAAACACCAATTTT-CTATAATCGGG
* * *
506409 GATACTCCAGCTCCGAAATTATTTCCAAAAGCACCAATTTTTTCACAATTGAGGATACTCCAACC
64 GATACTCCAACTCCGAAATTATTTCCAAAAACACCAA-TTTTTCACAATCGAGGATACTCCAACC
* * *
506474 TCGTTATTTCATCGGGGATACTCCAACCTCGTTATTTCCGAGGGGATACTCCAATCCCGATT-TT
128 ACGTTA-ATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAA-CCC-ATTCTT
* * *
506538 T-TT-TCCAAATCATCGATTTTTCACAACCGGGGATACTCCAGCCCCG
190 TATTCTCAAAAT-ATCGATTTCTCACAACCGGGGATACTCCAACCCCG
506584 TCATTTTCAA
Statistics
Matches: 208, Mismatches: 24, Indels: 11
0.86 0.10 0.05
Matches are distributed among these distances:
260 2 0.01
261 44 0.21
262 43 0.21
263 35 0.17
264 76 0.37
265 6 0.03
266 2 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (261 bp):
TCCACAATCAGGGATACTCCAACTCCGGTTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
TACTCCAACTCCGAAATTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCACG
TTAATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCATTCTTTATTCT
CAAAATATCGATTTCTCACAACCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTT
T
Found at i:518828 original size:33 final size:33
Alignment explanation
Indices: 518791--518857 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
518781 TTCAACGATC
518791 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
518824 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
518857 T
1 T
518858 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:518829 original size:13 final size:13
Alignment explanation
Indices: 518811--518835 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
518801 CATAAAATGT
518811 TGTATCGATACAA
1 TGTATCGATACAA
518824 TGTATCGATACA
1 TGTATCGATACA
518836 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:518919 original size:13 final size:13
Alignment explanation
Indices: 518901--518925 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
518891 ATTACTCACA
518901 TGTATCGATACAT
1 TGTATCGATACAT
518914 TGTATCGATACA
1 TGTATCGATACA
518926 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:518990 original size:52 final size:52
Alignment explanation
Indices: 518934--519054 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
518924 CACTGATCTT
*
518934 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
518986 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
519038 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
519055 TAACTCTTCA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:523001 original size:1 final size:1
Alignment explanation
Indices: 522995--523022 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
522985 AGGCGGTCAC
522995 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
523023 CTCTCTGCCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:525979 original size:14 final size:15
Alignment explanation
Indices: 525962--526015 Score: 65
Period size: 17 Copynumber: 3.5 Consensus size: 15
525952 AAAAGTGATG
525962 AAAAAAAAAC-ACAA
1 AAAAAAAAACAACAA
525976 AAAAAAAAACAACAAA
1 AAAAAAAAACAAC-AA
*
525992 AAAACAAAAAAAACACA
1 AAAA-AAAAACAACA-A
526009 AAAAAAA
1 AAAAAAA
526016 TGCAAAGGCA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
14 10 0.29
15 2 0.06
16 10 0.29
17 13 0.37
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (15 bp):
AAAAAAAAACAACAA
Found at i:526015 original size:20 final size:20
Alignment explanation
Indices: 525977--526014 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
525967 AAAACACAAA
525977 AAAAAAAACAACAAAAAAAC
1 AAAAAAAACAACAAAAAAAC
525997 AAAAAAAAC-ACAAAAAAA
1 AAAAAAAACAACAAAAAAA
526015 ATGCAAAGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (20 bp):
AAAAAAAACAACAAAAAAAC
Found at i:526021 original size:11 final size:11
Alignment explanation
Indices: 525963--526015 Score: 72
Period size: 11 Copynumber: 4.7 Consensus size: 11
525953 AAAGTGATGA
525963 AAAAAAAACAC
1 AAAAAAAACAC
*
525974 AAAAAAAAAAAC
1 -AAAAAAAACAC
525986 AACAAAAAA-AC
1 AA-AAAAAACAC
525997 AAAAAAAACAC
1 AAAAAAAACAC
526008 AAAAAAAA
1 AAAAAAAA
526016 TGCAAAGGCA
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
10 6 0.16
11 16 0.42
12 16 0.42
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAACAC
Found at i:526273 original size:17 final size:16
Alignment explanation
Indices: 526251--526303 Score: 81
Period size: 15 Copynumber: 3.3 Consensus size: 16
526241 TGTTCTTTTC
526251 CAAAAAAAGAAACAAAA
1 CAAAAAAAGAAA-AAAA
526268 CAAAAAAAGAAAAAAA
1 CAAAAAAAGAAAAAAA
*
526284 -AAGAAAAGAAAAAAA
1 CAAAAAAAGAAAAAAA
526299 CAAAA
1 CAAAA
526304 CAGAAAAGCT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
15 14 0.42
16 7 0.21
17 12 0.36
ACGTcount: A:0.85, C:0.08, G:0.08, T:0.00
Consensus pattern (16 bp):
CAAAAAAAGAAAAAAA
Found at i:526290 original size:23 final size:24
Alignment explanation
Indices: 526253--526309 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 24
526243 TTCTTTTCCA
*
526253 AAAAAAGAAACAAAACAAAAAAAG
1 AAAAAAGAAACAAAACAAAAAAAC
* *
526277 AAAAAA-AAAGAAAAGAAAAAAAC
1 AAAAAAGAAACAAAACAAAAAAAC
*
526300 AAAACAGAAA
1 AAAAAAGAAA
526310 AGCTCGATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 19 0.68
24 9 0.32
ACGTcount: A:0.84, C:0.07, G:0.09, T:0.00
Consensus pattern (24 bp):
AAAAAAGAAACAAAACAAAAAAAC
Found at i:526308 original size:15 final size:15
Alignment explanation
Indices: 526253--526310 Score: 73
Period size: 15 Copynumber: 3.7 Consensus size: 15
526243 TTCTTTTCCA
526253 AAAAAAGAAACAAAAC
1 AAAAAAGAAA-AAAAC
526269 AAAAAAAGAAAAAAA-
1 -AAAAAAGAAAAAAAC
526284 AAGAAAAGAAAAAAAC
1 AA-AAAAGAAAAAAAC
*
526300 AAAACAGAAAA
1 AAAAAAGAAAA
526311 GCTCGATAAG
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
14 2 0.05
15 20 0.53
16 6 0.16
17 10 0.26
ACGTcount: A:0.84, C:0.07, G:0.09, T:0.00
Consensus pattern (15 bp):
AAAAAAGAAAAAAAC
Found at i:526389 original size:10 final size:9
Alignment explanation
Indices: 526364--526388 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
526354 AAAAAGATGC
526364 AAAAAAACA
1 AAAAAAACA
526373 AAAAAAACA
1 AAAAAAACA
526382 AAAAAAA
1 AAAAAAA
526389 AAAGGGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAAAACA
Found at i:527370 original size:31 final size:30
Alignment explanation
Indices: 527332--527481 Score: 151
Period size: 31 Copynumber: 4.9 Consensus size: 30
527322 ATACCTTTTT
*
527332 AAAGTCCACGACTCAGTGGCAATCTCTGCTC
1 AAAGTCCACGACTCAGTGGC-ATCTTTGCTC
* *
527363 AAAGTCCACGACTCAGTGGCATCTTTTCCTTT
1 AAAGTCCACGACTCAGTGGCATC-TTTGC-TC
*
527395 AAAGTCCATGACTCAGTGGCAT-TTTGTCTC
1 AAAGTCCACGACTCAGTGGCATCTTTG-CTC
* *
527425 AAAGTCCACGACTCAGTGGCATTTTTTCTTC
1 AAAGTCCACGACTCAGTGGCATCTTTGC-TC
* * *
527456 AAAGCCCACAACTTC-GTGGCACCTTT
1 AAAGTCCACGAC-TCAGTGGCATCTTT
527482 TCCTTTAAAG
Statistics
Matches: 101, Mismatches: 12, Indels: 12
0.81 0.10 0.10
Matches are distributed among these distances:
30 29 0.29
31 48 0.48
32 24 0.24
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.30
Consensus pattern (30 bp):
AAAGTCCACGACTCAGTGGCATCTTTGCTC
Found at i:527431 original size:30 final size:32
Alignment explanation
Indices: 527332--527508 Score: 163
Period size: 32 Copynumber: 5.7 Consensus size: 32
527322 ATACCTTTTT
*
527332 AAAGTCCACGACTCAGTGGCAATCTCTG-C-TC
1 AAAGTCCACGACTCAGTGGC-ATCTTTGTCTTC
*
527363 AAAGTCCACGACTCAGTGGCATCTTT-TCCTTT
1 AAAGTCCACGACTCAGTGGCATCTTTGT-CTTC
*
527395 AAAGTCCATGACTCAGTGGCAT-TTTGTC-TC
1 AAAGTCCACGACTCAGTGGCATCTTTGTCTTC
*
527425 AAAGTCCACGACTCAGTGGCAT-TTTTTCTTC
1 AAAGTCCACGACTCAGTGGCATCTTTGTCTTC
* * * *
527456 AAAGCCCACAACTTC-GTGGCACCTTT-TCCTTT
1 AAAGTCCACGAC-TCAGTGGCATCTTTGT-CTTC
* * *
527488 AAAGCCCACAACTCCGTGGCA
1 AAAGTCCACGACTCAGTGGCA
527509 CCTTCTTCTT
Statistics
Matches: 127, Mismatches: 10, Indels: 17
0.82 0.06 0.11
Matches are distributed among these distances:
30 32 0.25
31 46 0.36
32 49 0.39
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (32 bp):
AAAGTCCACGACTCAGTGGCATCTTTGTCTTC
Found at i:527444 original size:62 final size:63
Alignment explanation
Indices: 527329--527452 Score: 198
Period size: 62 Copynumber: 2.0 Consensus size: 63
527319 CAAATACCTT
527329 TTTAAAGTCCACGACTCAGTGGCAATCTCTGCTCAAAGTCCACGACTCAGTGGCATCTTTTCC
1 TTTAAAGTCCACGACTCAGTGGCAATCTCTGCTCAAAGTCCACGACTCAGTGGCATCTTTTCC
* * *
527392 TTTAAAGTCCATGACTCAGTGGC-AT-TTTGTCTCAAAGTCCACGACTCAGTGGCATTTTTTC
1 TTTAAAGTCCACGACTCAGTGGCAATCTCTG-CTCAAAGTCCACGACTCAGTGGCATCTTTTC
527453 TTCAAAGCCC
Statistics
Matches: 57, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
61 3 0.05
62 32 0.56
63 22 0.39
ACGTcount: A:0.23, C:0.27, G:0.18, T:0.32
Consensus pattern (63 bp):
TTTAAAGTCCACGACTCAGTGGCAATCTCTGCTCAAAGTCCACGACTCAGTGGCATCTTTTCC
Found at i:527491 original size:93 final size:96
Alignment explanation
Indices: 527332--527717 Score: 296
Period size: 93 Copynumber: 3.9 Consensus size: 96
527322 ATACCTTTTT
* * * * *
527332 AAAGTCCACGACTCAGTGGCAATCTCTGC-TCAAAGTCCACGAC-TCAGTGGCATCTTTTCCTTT
1 AAAGTCCACGACTCAGTGGC-ATTTTTTCTTCAAAGTCCACAACTTC-GTGGCACCTTTTCCTTT
* **
527395 AAAGTCCATGACTCAGTGGCA-TT-TT-GTCTC
64 AAAGCCCACAACTCAGTGGCACTTCTTCGTCTC
*
527425 AAAGTCCACGACTCAGTGGCATTTTTTCTTCAAAGCCCACAACTTCGTGGCACCTTTTCCTTTAA
1 AAAGTCCACGACTCAGTGGCATTTTTTCTTCAAAGTCCACAACTTCGTGGCACCTTTTCCTTTAA
* * *
527490 AGCCCACAACTCCGTGGCACCTTCTTCTTTTC
66 AGCCCACAACTCAGTGGCA-CTTCTTCGTCTC
* * * ** * *
527522 AAAGCCCACAACTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCTTTTTCTT
1 AAAGTCCACGACTCAGTGGCA-TTTTTTC-T-TCAAAGTCCACAACTTCGTGGCACC-TTTTCCT
* * * * * *
527587 TTGAAGCCCACAACTCTGTGGCACACTTTTTCTTTTT
62 TTAAAGCCCACAACTCAGTGG--CACTTCTTCGTCTC
* * * * *
527624 AAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTT
1 AAAGTCCACGACTCAGTGGCA-T-TTTTT--C--TTCAAAGTCCACAACTTCGTGGCACC-TTTT
* *
527689 CTTTTTAAAGCCCACAACTCCGTGGCACT
59 C-CTTTAAAGCCCACAACTCAGTGGCACT
527718 CTTTTTCCCT
Statistics
Matches: 245, Mismatches: 31, Indels: 23
0.82 0.10 0.08
Matches are distributed among these distances:
92 5 0.02
93 65 0.27
94 2 0.01
95 2 0.01
96 2 0.01
97 21 0.09
98 7 0.03
99 1 0.00
100 21 0.09
101 25 0.10
102 32 0.13
103 7 0.03
104 4 0.02
105 29 0.12
106 22 0.09
ACGTcount: A:0.22, C:0.32, G:0.14, T:0.32
Consensus pattern (96 bp):
AAAGTCCACGACTCAGTGGCATTTTTTCTTCAAAGTCCACAACTTCGTGGCACCTTTTCCTTTAA
AGCCCACAACTCAGTGGCACTTCTTCGTCTC
Found at i:527608 original size:33 final size:32
Alignment explanation
Indices: 527430--528185 Score: 724
Period size: 34 Copynumber: 22.7 Consensus size: 32
527420 GTCTCAAAGT
* * * **
527430 CCACGACTCAGTGGCA-TTTTTTCTTCAAAGC
1 CCACAACTCCGTGGCACCTTTTTCTTTTAAGC
* * *
527461 CCACAACTTCGTGGCACCTTTTCCTTTAAAGC
1 CCACAACTCCGTGGCACCTTTTTCTTTTAAGC
*
527493 CCACAACTCCGTGGCACCTTCTTCTTTTCAAAGC
1 CCACAACTCCGTGGCACCTTTTTCTTTT--AAGC
* *
527527 CCACAACTCCGTGGCACTTTTTTCATCTTTAAGT
1 CCACAACTCCGTGGCACCTTTTTC-T-TTTAAGC
527561 CCACAACTCCGTGGCACCTTTTTCTTTTGAAGC
1 CCACAACTCCGTGGCACCTTTTTCTTTT-AAGC
*
527594 CCACAACTCTGTGGCACACTTTTTCTTTTTAAAGC
1 CCACAACTCCGTGGCAC-CTTTTTC-TTTT-AAGC
*
527629 CCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGC
1 CCACAACTCCGTGGCAC-CTTTTT--CTTTT--AAGC
527666 CCACAACTCCGTGGCACCTTTTTCTTTTTAAAGC
1 CCACAACTCCGTGGCACCTTTTTC-TTTT-AAGC
527700 CCACAACTCCGTGGCACTCTTTTTCCCTTTTTAAAGC
1 CCACAACTCCGTGGCAC-CTTTTT--C-TTTT-AAGC
*
527737 CCACAACTCCGTGGCACCTTCTTTTCCTTCTAAGC
1 CCACAACTCCGTGGCACC-T-TTTT-CTTTTAAGC
* * *
527772 CCATAACTTCGTGGCACC-----CTTTTAAGT
1 CCACAACTCCGTGGCACCTTTTTCTTTTAAGC
* * *
527799 CCACGACTCCGTGGCACTCTTTTCCTTTTAAGT
1 CCACAACTCCGTGGCAC-CTTTTTCTTTTAAGC
527832 CCACAACTCCGTGGCACCTTTTTCTTTTGAAGC
1 CCACAACTCCGTGGCACCTTTTTCTTTT-AAGC
*
527865 CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGC
1 CCACAACTCCGTGGCAC-CTTTTT-CTTTTAAGC
*
527899 CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGC
1 CCACAACTCCGTGGCAC-CTTTTT-CTTTTAAGC
*
527933 CCACAACTCCGTGGCACC-----CTTTTAAGT
1 CCACAACTCCGTGGCACCTTTTTCTTTTAAGC
* * *
527960 CCACGACTCCGTGGCACTCTTTTCCTTTTAAGT
1 CCACAACTCCGTGGCAC-CTTTTTCTTTTAAGC
* *
527993 CCACGACTCCGTGGCACTCTTTTCCTTTTAAGC
1 CCACAACTCCGTGGCAC-CTTTTTCTTTTAAGC
*
528026 CCACAACTCCGTGGCACTCTTTTTCCTTCTAAGC
1 CCACAACTCCGTGGCAC-CTTTTT-CTTTTAAGC
* * *
528060 CCATAACTCCGTGGCATTCTTTTTCCTTCTAAGC
1 CCACAACTCCGTGGCA-CCTTTTT-CTTTTAAGC
528094 CCACAACTCCGTGGCACTCTTTTTTTCCTTTTTAAAGC
1 CCACAACTCCGTGGCAC-C--TTTTT-C-TTTT-AAGC
* * *
528132 CCACAACTCTGTGGCACCTTGTTCTTTTTAAGT
1 CCACAACTCCGTGGCACCTTTTTC-TTTTAAGC
* *
528165 CCACAACTTCGTGGCATCTTT
1 CCACAACTCCGTGGCACCTTT
528186 CACCCTTTCT
Statistics
Matches: 636, Mismatches: 50, Indels: 76
0.83 0.07 0.10
Matches are distributed among these distances:
27 44 0.07
28 2 0.00
31 13 0.02
32 49 0.08
33 149 0.23
34 204 0.32
35 70 0.11
36 24 0.04
37 57 0.09
38 24 0.04
ACGTcount: A:0.19, C:0.34, G:0.13, T:0.34
Consensus pattern (32 bp):
CCACAACTCCGTGGCACCTTTTTCTTTTAAGC
Found at i:527954 original size:161 final size:160
Alignment explanation
Indices: 527461--528116 Score: 863
Period size: 161 Copynumber: 4.0 Consensus size: 160
527451 TCTTCAAAGC
* * *
527461 CCACAACTTCGTGGCAC-CTTTTCCTTTAAAGCCCACAACTCCGTGGCACCTTCTTCTTTTCAAA
1 CCACAACTCCGTGGCACTCTTTTCCTTTTAAGCCCACAACTCCGTGGCACCTTTTTCTTTT-AAA
*
527525 GCCCACAACTCCGTGGCACT-TTTTTCATCTT-TAAGTCCACAACTCCGTGGCACCTTTTT-CTT
65 GCCCACAACTCCGTGGCACTCTTTTTC--CTTCTAAGCCCACAACTCCGTGGCACCTTTTTCCTT
* * *
527587 TTGAAGCCCACAACTCTGTGGCACACTTTTTCTTTTTAAAGC
128 CT-AAGCCCACAACTCCGTGGCAC-C-----C-TTTT-AAGT
*
527629 CCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
1 CCACAACTCCGTGGCACTC-TTTT-CCTTTT--AAGCCCACAACTCCGTGGCACCTTTTTC-TTT
*
527694 TAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTTAAAGCCCACAACTCCGTGGCACCTTCT
61 TAAAGCCCACAACTCCGTGGCACTCTTTTT-CC-TTCT-AAGCCCACAACTCCGTGGCACC-T-T
* *
527759 TTTCCTTCTAAGCCCATAACTTCGTGGCACCCTTTTAAGT
121 TTTCCTTCTAAGCCCACAACTCCGTGGCACCCTTTTAAGT
* * *
527799 CCACGACTCCGTGGCACTCTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTCTTTTGAAG
1 CCACAACTCCGTGGCACTCTTTTCCTTTTAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAG
527864 CCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCT
66 CCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGCCCACAACTCCGTGGCAC-CTTTTTCCTTCT
527929 AAGCCCACAACTCCGTGGCACCCTTTTAAGT
130 AAGCCCACAACTCCGTGGCACCCTTTTAAGT
* * * *
527960 CCACGACTCCGTGGCACTCTTTTCCTTTTAAGTCCACGACTCCGTGGCACTCTTTTCCTTTT-AA
1 CCACAACTCCGTGGCACTCTTTTCCTTTTAAGCCCACAACTCCGTGGCAC-CTTTTTCTTTTAAA
* *
528024 GCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGCCCATAACTCCGTGGCATTCTTTTTCCTTC
65 GCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGCCCACAACTCCGTGGCA-CCTTTTTCCTTC
*
528089 TAAGCCCACAACTCCGTGGCACTCTTTT
129 TAAGCCCACAACTCCGTGGCACCCTTTT
528117 TTTCCTTTTT
Statistics
Matches: 449, Mismatches: 22, Indels: 41
0.88 0.04 0.08
Matches are distributed among these distances:
161 179 0.40
162 32 0.07
163 4 0.01
164 2 0.00
165 32 0.07
166 27 0.06
168 21 0.05
169 5 0.01
170 24 0.05
171 9 0.02
172 1 0.00
173 51 0.11
174 11 0.02
175 2 0.00
176 21 0.05
177 2 0.00
178 22 0.05
179 4 0.01
ACGTcount: A:0.19, C:0.35, G:0.13, T:0.34
Consensus pattern (160 bp):
CCACAACTCCGTGGCACTCTTTTCCTTTTAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAG
CCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGCCCACAACTCCGTGGCACCTTTTTCCTTCTA
AGCCCACAACTCCGTGGCACCCTTTTAAGT
Found at i:527981 original size:27 final size:27
Alignment explanation
Indices: 527928--528015 Score: 95
Period size: 33 Copynumber: 3.0 Consensus size: 27
527918 TTTTTCCTTC
* * *
527928 TAAGCCCACAACTCCGTGGCACCCTTT
1 TAAGTCCACGACTCCGTGGCACTCTTT
527955 TAAGTCCACGACTCCGTGGCACTCTTTTCCTTT
1 TAAGTCCACGACTCCGTGGCA--C---T-CTTT
527988 TAAGTCCACGACTCCGTGGCACTCTTT
1 TAAGTCCACGACTCCGTGGCACTCTTT
528015 T
1 T
528016 CCTTTTAAGC
Statistics
Matches: 52, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
27 24 0.46
28 1 0.02
29 1 0.02
31 1 0.02
33 25 0.48
ACGTcount: A:0.18, C:0.35, G:0.16, T:0.31
Consensus pattern (27 bp):
TAAGTCCACGACTCCGTGGCACTCTTT
Found at i:528279 original size:67 final size:66
Alignment explanation
Indices: 528187--528324 Score: 224
Period size: 67 Copynumber: 2.1 Consensus size: 66
528177 GGCATCTTTC
*
528187 ACCCTTTCTAAAGCCCACACAAGTCGATGGCAAACCTTC-TCTAAAGCCCACACAAGTCGGTGGC
1 ACCCTTTCTAAAGCCCACACAAGTCGATGGC-AACCTTCTTCCAAAGCCCACACAAGTCGGTGGC
528251 AA
65 AA
*
528253 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAACCTTCTTCCAAAGCCCACACAAGTCGGTGGC
1 ACCCTT-TCTAAAGCCCACACAAGTCGATGGCAACCTTCTTCCAAAGCCCACACAAGTCGGTGGC
528318 AA
65 AA
*
528320 CCCCT
1 ACCCT
528325 CTAAGCCCAA
Statistics
Matches: 67, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
66 13 0.19
67 54 0.81
ACGTcount: A:0.29, C:0.36, G:0.17, T:0.18
Consensus pattern (66 bp):
ACCCTTTCTAAAGCCCACACAAGTCGATGGCAACCTTCTTCCAAAGCCCACACAAGTCGGTGGCA
A
Found at i:528321 original size:33 final size:33
Alignment explanation
Indices: 528189--528319 Score: 212
Period size: 33 Copynumber: 4.0 Consensus size: 33
528179 CATCTTTCAC
*
528189 CCTT-TCTAAAGCCCACACAAGTCGATGGCAAA
1 CCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
528221 CCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
1 CCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
528254 CCCTTCTCTAAAGCCCACACAAGTCGGTGGC-AA
1 -CCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
*
528287 CCTTCTTCCAAAGCCCACACAAGTCGGTGGCAA
1 CCTTC-TCTAAAGCCCACACAAGTCGGTGGCAA
528320 CCCCTCTAAG
Statistics
Matches: 93, Mismatches: 2, Indels: 6
0.92 0.02 0.06
Matches are distributed among these distances:
32 9 0.10
33 53 0.57
34 31 0.33
ACGTcount: A:0.30, C:0.34, G:0.18, T:0.18
Consensus pattern (33 bp):
CCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
Found at i:528449 original size:49 final size:49
Alignment explanation
Indices: 528326--528709 Score: 484
Period size: 49 Copynumber: 7.7 Consensus size: 49
528316 GCAACCCCTC
* *
528326 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
* * * * *
528378 TAAGTCCAATGTGGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
528427 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACTTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
528476 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA-CTTGCACCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTT-CATCTT
* *
528525 TAAGTCC-ATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
528573 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
528622 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
* *
528674 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTG
528710 ACATCCTTTT
Statistics
Matches: 284, Mismatches: 42, Indels: 12
0.84 0.12 0.04
Matches are distributed among these distances:
48 40 0.14
49 166 0.58
50 2 0.01
51 2 0.01
52 74 0.26
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (49 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:528504 original size:98 final size:100
Alignment explanation
Indices: 528326--528781 Score: 629
Period size: 97 Copynumber: 4.5 Consensus size: 100
528316 GCAACCCCTC
*
528326 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTG
1 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTT-CATCTTTAAGTCCAATGTA
528391 GCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
65 GCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
528427 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CTTTT-ATCTTTAAGTCCAATGTAG
1 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCATCTTTAAGTCCAATGTAG
528490 CTGGCCTTGACTCAGCACATTGGCA-CTTGCACCAT
66 CTGGCCTTGACTCAGCACATTGGCACCTT-CACCAT
*
528525 TAAGTCC-ATATAGCTGGCCTTGAATCAGCATATTGGCACC-TTT-ATCTTTAAGTCCAATGTAG
1 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCATCTTTAAGTCCAATGTAG
* *
528587 CTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
66 CTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
* * *
528622 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTTTAAGTTCAATGTA
1 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTT-CATCTTTAAGTCCAATGTA
* * *
528687 GCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCATCTT
65 GCTGGCCTTGACTCAGCACATTGGCA-CC---TTCA-C--CAT
* * * * *
528730 TAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTTATCA-CTTT
1 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT-TCATCTTT
528782 TCTCATCTTC
Statistics
Matches: 324, Mismatches: 16, Indels: 24
0.89 0.04 0.07
Matches are distributed among these distances:
97 92 0.28
98 91 0.28
99 3 0.01
100 5 0.02
101 80 0.25
102 2 0.01
105 4 0.01
107 4 0.01
108 42 0.13
109 1 0.00
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (100 bp):
TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCATCTTTAAGTCCAATGTAG
CTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
Found at i:528582 original size:146 final size:148
Alignment explanation
Indices: 528326--528773 Score: 531
Period size: 146 Copynumber: 3.0 Consensus size: 148
528316 GCAACCCCTC
* *
528326 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTCCAATGTG
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TTTCCATCTTTAAGTCC-ATGTA
* * * *
528391 GCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGCCCAATATAGCTGGCCTTGAATCAG
64 GCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGCCCAATATAGCTGGCCTTGAATCAG
*
528456 CATATTGGCACTTTTATCTT
129 CATATTGGCACTTTCATCTT
* * * * * * *
528476 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA-C-TTGCACCATTAAGTCCATATAGC
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTCCATCTTTAAGTCCATGTAGC
* * * *
528539 TGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCA
66 TGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGCCCAATATAGCTGGCCTTGAATCAGCA
* *
528604 CATTGGCACCTTCATCTT
131 TATTGGCACTTTCATCTT
* *
528622 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTTTAAGTTCAATGTA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TTTCCATCTTTAAG-TCCATGTA
* * * *
528687 GCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCATCTTTAAGCCCAATATCGTTGGCCAT
64 GCTGGCCTTGAATCAGCACATTGGCA-CC---TT--T-ATCTTTAAGCCCAATATAGCTGGCCTT
*
528752 GAATCAACATATTGGCATCTTT
122 GAATCAGCATATTGGCA-CTTT
528774 ATCACTTTTC
Statistics
Matches: 246, Mismatches: 40, Indels: 16
0.81 0.13 0.05
Matches are distributed among these distances:
146 112 0.46
147 14 0.06
149 11 0.04
150 65 0.26
151 2 0.01
154 2 0.01
156 1 0.00
157 36 0.15
158 3 0.01
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (148 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTCCATCTTTAAGTCCATGTAGC
TGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGCCCAATATAGCTGGCCTTGAATCAGCA
TATTGGCACTTTCATCTT
Found at i:528831 original size:67 final size:68
Alignment explanation
Indices: 528723--528849 Score: 184
Period size: 67 Copynumber: 1.9 Consensus size: 68
528713 TCCTTTTTCA
* * *
528723 TCATCTTTAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTTATCA-CTTTTCTCA
1 TCATCTTTAAGCCCAATATCGCTGGCCATGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
528787 TCT
66 TCT
* * * *
528790 TCATCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATCATCTTT
1 TCATCTTTAAGCCCAATATCGCTGGCCATGAATCAACATATTGGCACCTTCATCATCTTT
528850 AAAACCCAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
67 48 0.92
68 4 0.08
ACGTcount: A:0.24, C:0.25, G:0.12, T:0.39
Consensus pattern (68 bp):
TCATCTTTAAGCCCAATATCGCTGGCCATGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
TCT
Found at i:529677 original size:33 final size:33
Alignment explanation
Indices: 529640--529706 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
529630 TTCAACGATC
529640 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
529673 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
529706 T
1 T
529707 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:529678 original size:13 final size:13
Alignment explanation
Indices: 529660--529684 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
529650 CATAAAATGT
529660 TGTATCGATACAA
1 TGTATCGATACAA
529673 TGTATCGATACA
1 TGTATCGATACA
529685 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:529768 original size:13 final size:13
Alignment explanation
Indices: 529750--529774 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
529740 ATTACTCACA
529750 TGTATCGATACAT
1 TGTATCGATACAT
529763 TGTATCGATACA
1 TGTATCGATACA
529775 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:529839 original size:52 final size:52
Alignment explanation
Indices: 529783--529903 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
529773 CACTGATCTT
*
529783 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
529835 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
529887 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
529904 TAACTCTTCA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:533473 original size:13 final size:13
Alignment explanation
Indices: 533455--533502 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
533445 CCTTCTCTTC
533455 AAAAAAAAAC--A
1 AAAAAAAAACAAA
533466 AAAAAAAAACAAA
1 AAAAAAAAACAAA
*
533479 ACAAAAAAACAAA
1 AAAAAAAAACAAA
533492 ACAAAGAAAAA
1 A-AAA-AAAAA
533503 GAGAGAAAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
11 10 0.32
13 14 0.45
14 2 0.06
15 5 0.16
ACGTcount: A:0.88, C:0.10, G:0.02, T:0.00
Consensus pattern (13 bp):
AAAAAAAAACAAA
Found at i:533479 original size:16 final size:15
Alignment explanation
Indices: 533455--533502 Score: 60
Period size: 16 Copynumber: 3.0 Consensus size: 15
533445 CCTTCTCTTC
533455 AAAAAAAAACAAAAA
1 AAAAAAAAACAAAAA
533470 AAAAACAAAACAAAAA
1 AAAAA-AAAACAAAAA
*
533486 AACAAAACAAAGAAAAA
1 AA-AAAA-AAACAAAAA
533503 GAGAGAAAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 5 0.17
16 13 0.45
17 11 0.38
ACGTcount: A:0.88, C:0.10, G:0.02, T:0.00
Consensus pattern (15 bp):
AAAAAAAAACAAAAA
Found at i:534527 original size:59 final size:59
Alignment explanation
Indices: 534435--535204 Score: 1013
Period size: 59 Copynumber: 13.2 Consensus size: 59
534425 TCCGCTTTTT
* * *
534435 AGTCCTAAAAGAGCAGGACACCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
*
534494 AGTCCTCAAAGAGCGGGACACCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
*
534553 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCAAACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* *
534612 AGTCCTCAAAGAGCGAGACGCCTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* * * **
534671 AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCACCTT-C
*
534732 AGTCCTCAAAGAGCGGGACACCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
* **
534791 AGTCCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-C
534851 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
** *
534910 AGTCCTCAAAGAGCGGGACGTATTTTCTTTTCAAAGTCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCACC-TTC
* * *
534971 AGTCCCCAAAGAGCAGGAC-CC----CTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTC
* * * **
535026 AGTCCCCAAAGAGCAGGACACC-TTTC----AAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-C
* *
535081 AGTCCTCAAAGAGCAGGACACC---TC--TTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTC
* * * *
535136 AGTCCTCAAAGAGCAGGACGCC-TTTC----AAAGCCCACACGAGTTGGTGGCACTTTTT
1 AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCAC-CTTC
*
535191 AGTCCTTAAAGAGC
1 AGTCCTCAAAGAGC
535205 AGGATACACT
Statistics
Matches: 649, Mismatches: 46, Indels: 36
0.89 0.06 0.05
Matches are distributed among these distances:
53 2 0.00
54 2 0.00
55 175 0.27
56 8 0.01
57 2 0.00
59 283 0.44
60 129 0.20
61 48 0.07
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (59 bp):
AGTCCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTC
Found at i:534800 original size:179 final size:178
Alignment explanation
Indices: 534435--535208 Score: 1036
Period size: 179 Copynumber: 4.4 Consensus size: 178
534425 TCCGCTTTTT
* *
534435 AGTCCTAAAAGAGCAGGACACCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCT
* *
534500 CAAAGAGCGGGACACCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGA
66 CAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGA
* *
534565 GCGGGACGCCTTTTCTTTTAAAGCCCAAACAAGTTGGTGGCACC-TTC
131 GCGGGACACCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
*
534612 AGTCCTCAAAGAGC-GAGACGCCTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACCTTCAGTCC
1 AGTCCTCAAAGAGCAG-GACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCC
* * **
534676 TCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAA
65 TCAAAGAGCAGGACGCCTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAA
534741 AGAGCGGGACACCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTC
128 AGAGCGGGACACCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * **
534791 AGTCCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCC
*
534856 TCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAG
65 TCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAG
*** *
534921 AGCGGGACGTATTTTCTTTTCAAAGTCCACACAAGTTGGTGGCACCTTTC
130 AGCGGGACACCTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
* *
534971 AGTCCCCAAAGAGCAGGAC-CC----CTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTCAGTCC
* * **
535031 CCAAAGAGCAGGACACC-TTTC----AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAA
65 TCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAA
*
535091 GAGCAGGACACC---TC--TTAAAGCCCACACAAGTTGGTGGCACCTTTC
129 GAGCGGGACACCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * *
535136 AGTCCTCAAAGAGCAGGACGCC-TTTC----AAAGCCCACACGAGTTGGTGGCACTTTTTAGTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCAC-CTTCAGTCC
*
535196 TTAAAGAGCAGGA
65 TCAAAGAGCAGGA
535209 TACACTTTAT
Statistics
Matches: 537, Mismatches: 46, Indels: 40
0.86 0.07 0.06
Matches are distributed among these distances:
165 87 0.16
166 4 0.01
168 2 0.00
169 1 0.00
170 25 0.05
171 19 0.04
174 4 0.01
175 47 0.09
176 3 0.01
177 81 0.15
178 54 0.10
179 161 0.30
180 49 0.09
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (178 bp):
AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCT
CAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGA
GCGGGACACCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
Found at i:534995 original size:26 final size:26
Alignment explanation
Indices: 534963--535052 Score: 85
Period size: 26 Copynumber: 3.3 Consensus size: 26
534953 AAGTTGGTGG
534963 CACCTTTCAGTCCCCAAAGAGCAGGA
1 CACCTTTCAGTCCCCAAAGAGCAGGA
* * **
534989 CCCCTTTCAAAG-CCCACACAAGTTGGTGG-
1 CACCTTTC--AGTCCC-CA-AAG-AGCAGGA
535018 CACCTTTCAGTCCCCAAAGAGCAGGA
1 CACCTTTCAGTCCCCAAAGAGCAGGA
535044 CACCTTTCA
1 CACCTTTCA
535053 AAGCCCACAC
Statistics
Matches: 49, Mismatches: 8, Indels: 14
0.69 0.11 0.20
Matches are distributed among these distances:
25 3 0.06
26 19 0.39
27 7 0.14
28 7 0.14
29 10 0.20
30 3 0.06
ACGTcount: A:0.28, C:0.36, G:0.18, T:0.19
Consensus pattern (26 bp):
CACCTTTCAGTCCCCAAAGAGCAGGA
Found at i:536005 original size:13 final size:13
Alignment explanation
Indices: 535987--536011 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
535977 TTATAAGTTT
535987 TGTATCGATACAA
1 TGTATCGATACAA
536000 TGTATCGATACA
1 TGTATCGATACA
536012 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:536091 original size:13 final size:13
Alignment explanation
Indices: 536073--536099 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
536063 CATTTTTCTG
536073 TGTATCGATACAT
1 TGTATCGATACAT
536086 TGTATCGATACAT
1 TGTATCGATACAT
536099 T
1 T
536100 TGAAAATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:538412 original size:53 final size:50
Alignment explanation
Indices: 538295--538419 Score: 160
Period size: 51 Copynumber: 2.4 Consensus size: 50
538285 CTCAATTCTC
* * * *
538295 CACAATCGAGGATATTCCAACTCCGGTTTTATTTTCAAAACACTAATTTT
1 CACAATCGAGGATACTCCAACTCCGATTTTATTTCCAAAACACAAATTTT
*
538345 CTATAATCGAGGATACTCCAACTCCGATTTTATTTCCAAAAAACACAAATTTTT
1 C-ACAATCGAGGATACTCCAACTCCGATTTTATTTCC--AAAACACAAA-TTTT
*
538399 CACAATCGGGGATACTCCAAC
1 CACAATCGAGGATACTCCAAC
538420 CCCGTTAATC
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
50 1 0.02
51 31 0.48
53 27 0.42
54 5 0.08
ACGTcount: A:0.34, C:0.24, G:0.10, T:0.31
Consensus pattern (50 bp):
CACAATCGAGGATACTCCAACTCCGATTTTATTTCCAAAACACAAATTTT
Found at i:538437 original size:27 final size:28
Alignment explanation
Indices: 538403--538477 Score: 107
Period size: 27 Copynumber: 2.7 Consensus size: 28
538393 ATTTTTCACA
538403 ATCGGGGATACTCCAACCCCGTTA-ATC
1 ATCGGGGATACTCCAACCCCGTTATATC
*
538430 ATCGGGGATACTCCAACCCCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTATATC
***
538458 CGAGGGGATACTCCAACCCC
1 ATCGGGGATACTCCAACCCC
538478 TTCTTTATTC
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
27 24 0.56
28 19 0.44
ACGTcount: A:0.24, C:0.35, G:0.20, T:0.21
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTATATC
Found at i:538579 original size:52 final size:52
Alignment explanation
Indices: 538508--538683 Score: 228
Period size: 52 Copynumber: 3.4 Consensus size: 52
538498 GATTTCTCAT
* *
538508 AATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTTTTCCAC
1 AATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCCAC
* **
538560 AATCGGGGATACTCCAACCCCGGTTTTATTTTTAAAACACCAA-TTTTCCTTT
1 AATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCC-AC
* * * * *
538612 AATCGGGGATACTCCAGCTCCGATTTTATTTCCAAAAGCACCAATTTTTTCAC
1 AATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAA-CACCAATTTTTCCAC
*
538665 AATCGAGGATACTCCAACC
1 AATCGGGGATACTCCAACC
538684 TCGTTATTTC
Statistics
Matches: 105, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
51 6 0.06
52 72 0.69
53 22 0.21
54 5 0.05
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (52 bp):
AATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCCAC
Found at i:538677 original size:53 final size:52
Alignment explanation
Indices: 538295--538683 Score: 226
Period size: 52 Copynumber: 7.4 Consensus size: 52
538285 CTCAATTCTC
* * * * *
538295 CACAATCGAGGATATTCCAACTCCGGTTTTATTT-TCAAAACACTAATTTTCT
1 CACAATCGGGGATACTCCAACCCCGGTTTTATTTCT-AAAACACCAATTTTTT
* * * * * * *
538347 -ATAATCGAGGATACTCCAACTCCGATTTTATTTCCAAAAAACACAAATTTTT
1 CACAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACAC-CAATTTTTT
* * ** ** *
538399 CACAATCGGGGATACTCCAACCCC-GTTAATCATCGGGGATACTCCAAC-CCCGTTATTT
1 CACAATCGGGGATACTCCAACCCCGGTT--TTAT------TTCTAAAACACCAATTTTTT
* * * *** *
538457 C-CGA--GGGGATACTCCAACCCC-TTCTTTA-TTCTTAAAATATTGA-TTTCT
1 CACAATCGGGGATACTCCAACCCCGGT-TTTATTTC-TAAAACACCAATTTTTT
* * * *
538505 CATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTTTTC
1 CACAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTT
*
538557 CACAATCGGGGATACTCCAACCCCGGTTTTATTTTTAAAACACCAATTTTCCTT
1 CACAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTT--TT
* * * * *
538611 --TAATCGGGGATACTCCAGCTCCGATTTTATTTCCAAAAGCACCAATTTTTT
1 CACAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAA-CACCAATTTTTT
*
538662 CACAATCGAGGATACTCCAACC
1 CACAATCGGGGATACTCCAACC
538684 TCGTTATTTC
Statistics
Matches: 253, Mismatches: 59, Indels: 49
0.70 0.16 0.14
Matches are distributed among these distances:
47 2 0.01
48 7 0.03
49 1 0.00
51 67 0.26
52 92 0.36
53 46 0.18
54 6 0.02
55 18 0.07
56 1 0.00
57 2 0.01
58 6 0.02
59 1 0.00
60 4 0.02
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (52 bp):
CACAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTT
Found at i:538780 original size:263 final size:261
Alignment explanation
Indices: 538293--538785 Score: 688
Period size: 263 Copynumber: 1.9 Consensus size: 261
538283 TTCTCAATTC
* * *
538293 TCCACAATCGAGGATATTCCAACTCCGGTTTTATTTTCAAAACACTAATTTTCTATAATCGAGGA
1 TCCACAATCGAGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCTATAATCGAGGA
*
538358 TACTCCAACTCCGATTTTATTTCCAAAAAACACAAATTTTTCACAATCGGGGATACTCCAACCCC
66 TACTCCAACTCCGATTTTATTTCCAAAAAACACAAATTTTTCACAATCGAGGATACTCCAACCCC
* *
538423 GTTAATCATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCTTCTTTATTC
131 GTTAATCATCAGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCATTCTTTATTC
* * * *
538488 TTAAAATATTGATTTCTCATAATCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATT
196 CT-AAATATCGATTTCTCACAACCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATT
538553 TT
260 TT
* * * *
538555 TCCACAATCGGGGATACTCCAACCCCGGTTTTATTTTTAAAACACCAATTTTCCTTTAATCGGGG
1 TCCACAATCGAGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTT-CTATAATCGAGG
* * *
538620 ATACTCCAGCTCCGATTTTATTTCC-AAAAGCACCAATTTTTTCACAATCGAGGATACTCCAACC
65 ATACTCCAACTCCGATTTTATTTCCAAAAAACA-CAAATTTTTCACAATCGAGGATACTCCAACC
* * * *
538684 TCGTTATTTCATCAGGGATACTCCAACCCCGTTATTTTCGAGGGG-TACTTCAATCCCGATT-TT
129 CCGTTA-ATCATCAGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAA-CCC-ATTCTT
* *
538747 TTTTCCT-AATCATCGATTTTTCACAACCGGGGATACTCC
191 TATTCCTAAAT-ATCGATTTCTCACAACCGGGGATACTCC
538786 CGCCCTGTCA
Statistics
Matches: 202, Mismatches: 23, Indels: 11
0.86 0.10 0.05
Matches are distributed among these distances:
262 56 0.28
263 99 0.49
264 45 0.22
265 2 0.01
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (261 bp):
TCCACAATCGAGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCTATAATCGAGGA
TACTCCAACTCCGATTTTATTTCCAAAAAACACAAATTTTTCACAATCGAGGATACTCCAACCCC
GTTAATCATCAGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCATTCTTTATTC
CTAAATATCGATTTCTCACAACCGGGGATACTCCAACCCCGGTTTTATTGCTAAAACACTAATTT
T
Found at i:541362 original size:1 final size:1
Alignment explanation
Indices: 541356--541437 Score: 56
Period size: 1 Copynumber: 82.0 Consensus size: 1
541346 TTTTCGACCC
* * * * ** ** * *
541356 AAAAAAAAAACAAAAAAAAAGAAAAAAACAAAAACAAAAAAAACCAAAAAACCAAAAAAAACAAT
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
541421 AAAAACAAAAGAAAAAA
1 AAAAAAAAAAAAAAAAA
541438 GAACCAATGG
Statistics
Matches: 61, Mismatches: 20, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 61 1.00
ACGTcount: A:0.85, C:0.11, G:0.02, T:0.01
Consensus pattern (1 bp):
A
Found at i:541372 original size:9 final size:9
Alignment explanation
Indices: 541358--541435 Score: 83
Period size: 9 Copynumber: 8.9 Consensus size: 9
541348 TTCGACCCAA
541358 AAAAAAAAC
1 AAAAAAAAC
541367 AAAAAAAA-
1 AAAAAAAAC
541375 AGAAAAAAAC
1 A-AAAAAAAC
541385 ---AAAAAC
1 AAAAAAAAC
541391 AAAAAAAAC
1 AAAAAAAAC
* *
541400 CAAAAAACC
1 AAAAAAAAC
541409 AAAAAAAAC
1 AAAAAAAAC
*
541418 AATAAAAAC
1 AAAAAAAAC
541427 AAAAGAAAA
1 AAAA-AAAA
541436 AAGAACCAAT
Statistics
Matches: 57, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
6 6 0.11
8 1 0.02
9 46 0.81
10 4 0.07
ACGTcount: A:0.85, C:0.12, G:0.03, T:0.01
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:541382 original size:18 final size:17
Alignment explanation
Indices: 541356--541436 Score: 83
Period size: 17 Copynumber: 4.6 Consensus size: 17
541346 TTTTCGACCC
541356 AAAAAAAAAACAAAAAA
1 AAAAAAAAAACAAAAAA
541373 AAAGAAAAAAAC-AAAAA
1 AAA-AAAAAAACAAAAAA
* *
541390 CAAAAAAAACCAAAAAA
1 AAAAAAAAAACAAAAAA
**
541407 CCAAAAAAAACAATAAAA
1 AAAAAAAAAACAA-AAAA
541425 ACAAAAGAAAAA
1 A-AAAA-AAAAA
541437 AGAACCAATG
Statistics
Matches: 53, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
16 7 0.13
17 26 0.49
18 12 0.23
19 3 0.06
20 5 0.09
ACGTcount: A:0.85, C:0.11, G:0.02, T:0.01
Consensus pattern (17 bp):
AAAAAAAAAACAAAAAA
Found at i:541388 original size:24 final size:24
Alignment explanation
Indices: 541356--541430 Score: 89
Period size: 24 Copynumber: 3.1 Consensus size: 24
541346 TTTTCGACCC
*
541356 AAAAA-AAAAACAAAAAAAAAGAA
1 AAAAACAAAAACAAAAAAAAACAA
*
541379 AAAAACAAAAACAAAAAAAACCAA
1 AAAAACAAAAACAAAAAAAAACAA
* *
541403 AAAACCAAAAAAAACAATAAAAACAA
1 AAAAACAAAAACAA-AA-AAAAACAA
541429 AA
1 AA
541431 GAAAAAAGAA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
23 5 0.11
24 28 0.64
25 2 0.05
26 9 0.20
ACGTcount: A:0.85, C:0.12, G:0.01, T:0.01
Consensus pattern (24 bp):
AAAAACAAAAACAAAAAAAAACAA
Found at i:541414 original size:42 final size:42
Alignment explanation
Indices: 541359--541444 Score: 113
Period size: 42 Copynumber: 2.0 Consensus size: 42
541349 TCGACCCAAA
541359 AAAAAAACAAAAAAAA-AGAAAAAAACAAAA-ACAAAAAAAACC
1 AAAAAAACAAAAAAAACA-AAAAAAACAAAAGA-AAAAAAAACC
* * *
541401 AAAAAACCAAAAAAAACAATAAAAACAAAAGAAAAAAGAACC
1 AAAAAAACAAAAAAAACAAAAAAAACAAAAGAAAAAAAAACC
541443 AA
1 AA
541445 TGGGCAGATT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
42 37 0.95
43 2 0.05
ACGTcount: A:0.83, C:0.13, G:0.03, T:0.01
Consensus pattern (42 bp):
AAAAAAACAAAAAAAACAAAAAAAACAAAAGAAAAAAAAACC
Found at i:542493 original size:65 final size:64
Alignment explanation
Indices: 542414--542572 Score: 210
Period size: 64 Copynumber: 2.5 Consensus size: 64
542404 GAATGCCTTT
** * *
542414 TTTTTCTTTTTAAAGCCCACGTAAGCTGGTGGCACCGTTTAGTCTTTAAAGAGTAGAACACTTTT
1 TTTTTC-TTTTAAAGCCCACACAAGCTGGTGGCACC-TTTAGTCCTCAAAGAGTAGAACACTTTT
542479 C
64 C
** * * *
542480 TTTTTCTTTTAAAGCCCACACAAGCAAGTTGCACCTTTAGTCCTCAAAGAGTAGGATACTTTTC
1 TTTTTCTTTTAAAGCCCACACAAGCTGGTGGCACCTTTAGTCCTCAAAGAGTAGAACACTTTTC
*
542544 TTTATCTTTTAAAGCCCACACAAGCTGGT
1 TTTTTCTTTTAAAGCCCACACAAGCTGGT
542573 TTTTTTATCT
Statistics
Matches: 81, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
64 51 0.63
65 24 0.30
66 6 0.07
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (64 bp):
TTTTTCTTTTAAAGCCCACACAAGCTGGTGGCACCTTTAGTCCTCAAAGAGTAGAACACTTTTC
Found at i:542749 original size:71 final size:71
Alignment explanation
Indices: 542650--542946 Score: 259
Period size: 68 Copynumber: 4.2 Consensus size: 71
542640 AGACACCTTT
* * *
542650 CTTTTTCTTTTTAAAGCCTAAACAAGCTGGTGGCACCCTTTTTATCCTTTTTA-TCCTCAAAGAG
1 CTTTTCCTTTTTAAAGCCCACACAAGCTGGTGGCACCCTTTTTATCC-TTTTAGTCCTCAAAGAG
542714 CAAGATG
65 CAAGATG
* * * *
542721 CTTTTCCTTTTTAAAGCCCACACAAGCTGGTAGCA-GCTTTTT-T-CTTTTAGTCCACAAAGAGA
1 CTTTTCCTTTTTAAAGCCCACACAAGCTGGTGGCACCCTTTTTATCCTTTTAGTCCTCAAAGAGC
*
542783 AAAATG
66 AAGATG
*
542789 CTTTTTCTTTTTCTCTTTTAAAGCTCACACAAGCTGGTGGCACTCC-TTTTATCCTTTTAGTCCT
1 C-TTTTC-----CT-TTTTAAAGCCCACACAAGCTGGTGGCAC-CCTTTTTATCCTTTTAGTCCT
* * *
542853 TAAAGAGCATGACG
58 CAAAGAGCAAGATG
* * * * * * * *
542867 CTTTTTCTTTTTAAAGCTCACACAA-CTGGTGGCA-CATTTTT-TCCTCTTAGTCTTTAAAAAGT
1 CTTTTCCTTTTTAAAGCCCACACAAGCTGGTGGCACCCTTTTTATCCTTTTAGTCCTCAAAGAGC
*
542929 AAGACG
66 AAGATG
*
542935 CTTTTTCTTTTT
1 CTTTTCCTTTTT
542947 CTCTTTTAAT
Statistics
Matches: 189, Mismatches: 24, Indels: 29
0.78 0.10 0.12
Matches are distributed among these distances:
67 5 0.03
68 52 0.28
69 10 0.05
70 15 0.08
71 48 0.25
72 2 0.01
74 2 0.01
75 25 0.13
76 4 0.02
77 6 0.03
78 20 0.11
ACGTcount: A:0.24, C:0.22, G:0.13, T:0.40
Consensus pattern (71 bp):
CTTTTCCTTTTTAAAGCCCACACAAGCTGGTGGCACCCTTTTTATCCTTTTAGTCCTCAAAGAGC
AAGATG
Found at i:542827 original size:146 final size:146
Alignment explanation
Indices: 542647--542955 Score: 396
Period size: 146 Copynumber: 2.1 Consensus size: 146
542637 GCAAGACACC
542647 TTTCTTTTTCT-TTTTAAAGCCTAAACAAGCTGGTGGCAC-CCTTTTTATCCTTTTTA-TCCTCA
1 TTTCTTTTTCTCTTTTAAAGCCTAAACAAGCTGGTGGCACTCC-TTTTATCC-TTTTAGTCCTCA
* *
542709 AAGAGCAAGATGCTTTTCCTTTTTAAAGCCCACACAAGCTGGTAGCAGC-TTTTTT-CTTTTAGT
64 AAGAGCAAGACGCTTTTCCTTTTTAAAGCCCACACAA-CTGGTAGCA-CATTTTTTCCTCTTAGT
* *
542772 CCACAAAGAGAAAAATGCTT
127 CCACAAAAAGAAAAACGCTT
* *
542792 TTTCTTTTTCTCTTTTAAAG-CTCACACAAGCTGGTGGCACTCCTTTTATCCTTTTAGTCCTTAA
1 TTTCTTTTTCTCTTTTAAAGCCT-AAACAAGCTGGTGGCACTCCTTTTATCCTTTTAGTCCTCAA
* * * * **
542856 AGAGCATGACGCTTTTTCTTTTTAAAGCTCACACAACTGGTGGCACATTTTTTCCTCTTAGTCTT
65 AGAGCAAGACGCTTTTCCTTTTTAAAGCCCACACAACTGGTAGCACATTTTTTCCTCTTAGTCCA
* * *
542921 TAAAAAGTAAGACGCTT
130 CAAAAAGAAAAACGCTT
542938 TTTCTTTTTCTCTTTTAA
1 TTTCTTTTTCTCTTTTAA
542956 TACAAGTTAA
Statistics
Matches: 143, Mismatches: 15, Indels: 11
0.85 0.09 0.07
Matches are distributed among these distances:
144 1 0.01
145 32 0.22
146 108 0.76
147 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.13, T:0.41
Consensus pattern (146 bp):
TTTCTTTTTCTCTTTTAAAGCCTAAACAAGCTGGTGGCACTCCTTTTATCCTTTTAGTCCTCAAA
GAGCAAGACGCTTTTCCTTTTTAAAGCCCACACAACTGGTAGCACATTTTTTCCTCTTAGTCCAC
AAAAAGAAAAACGCTT
Found at i:545242 original size:53 final size:50
Alignment explanation
Indices: 545119--545243 Score: 160
Period size: 51 Copynumber: 2.4 Consensus size: 50
545109 CTCAATTCTC
* * * *
545119 CACAATCGGGGATATTCCAACTCCGGTTTTATTTTCAAAACACTAATTTT
1 CACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTT
* *
545169 CTATAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAATACCAATTTTT
1 C-ACAATCGGGGATACTCCAACTCCGATTTTATTTCC--AAAACACCAA-TTTT
545223 CACAATCGGGGATACTCCAAC
1 CACAATCGGGGATACTCCAAC
545244 CCCGTTATTT
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
50 1 0.02
51 31 0.48
53 27 0.42
54 5 0.08
ACGTcount: A:0.32, C:0.24, G:0.12, T:0.32
Consensus pattern (50 bp):
CACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTT
Found at i:545416 original size:52 final size:51
Alignment explanation
Indices: 545258--545479 Score: 207
Period size: 51 Copynumber: 4.3 Consensus size: 51
545248 TTATTTTCGA
** * ***
545258 GGGGATACTCCAACCCCTTTTTTA-TTCTTAAAATATTGA-TTTCTCATAATC
1 GGGGATACTCCAACCCCGGTTTTATTTC-TAAAACACCAATTTTC-CATAATC
* * *
545309 GGGGATACTCCAACCCCGGTTTTATTGCT-AAACACTAATTTTTCCACAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAA-TTTTCCATAATC
* *
545360 GGGGATACTCCAACCCCGGTTTTATTTTTAAAACACCAATTTTCCTTTAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTCC-ATAATC
* * * * * *
545412 GGGGATACTCCAACTCTGATTTTATTTCCAAAAGCACCAATTTTTTCACAATC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAA-CACCAA-TTTTCCATAATC
*
545465 GAGGATACTCCAACC
1 GGGGATACTCCAACC
545480 TCGTTATTTC
Statistics
Matches: 142, Mismatches: 22, Indels: 12
0.81 0.12 0.07
Matches are distributed among these distances:
50 6 0.04
51 62 0.44
52 46 0.32
53 23 0.16
54 5 0.04
ACGTcount: A:0.28, C:0.25, G:0.12, T:0.34
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTCCATAATC
Found at i:545473 original size:53 final size:52
Alignment explanation
Indices: 545305--545479 Score: 203
Period size: 52 Copynumber: 3.4 Consensus size: 52
545295 GATTTCTCAT
* * * *
545305 AATCGGGGATACTCCAACCCCGGTTTTA-TTGCTAAACACTAATTTTTCCAC
1 AATCGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTTTCAC
** *
545356 AATCGGGGATACTCCAACCCCGGTTTTATTTTTAAAACACCAATTTTCCTT--T
1 AATCGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTT--TTCAC
* * *
545408 AATCGGGGATACTCCAACTCTGATTTTATTTCCAAAAGCACCAATTTTTTCAC
1 AATCGGGGATACTCCAACCCCGGTTTTATTTCCAAAA-CACCAATTTTTTCAC
*
545461 AATCGAGGATACTCCAACC
1 AATCGGGGATACTCCAACC
545480 TCGTTATTTC
Statistics
Matches: 104, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
51 30 0.29
52 46 0.44
53 27 0.26
54 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (52 bp):
AATCGGGGATACTCCAACCCCGGTTTTATTTCCAAAACACCAATTTTTTCAC
Found at i:545498 original size:28 final size:28
Alignment explanation
Indices: 545462--545517 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
545452 TTTTTTCACA
*
545462 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGAGGATACTCCAACCCCGTTATTTC
*
545490 ATCGGGGATACTCCAACCCCGTTATTTC
1 ATCGAGGATACTCCAACCCCGTTATTTC
545518 CGAGGGGATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.23, C:0.30, G:0.16, T:0.30
Consensus pattern (28 bp):
ATCGAGGATACTCCAACCCCGTTATTTC
Found at i:545524 original size:28 final size:28
Alignment explanation
Indices: 545467--545528 Score: 88
Period size: 28 Copynumber: 2.2 Consensus size: 28
545457 TCACAATCGA
* **
545467 GGATACTCCAACCTCGTTATTTCATCGG
1 GGATACTCCAACCCCGTTATTTCAGAGG
*
545495 GGATACTCCAACCCCGTTATTTCCGAGG
1 GGATACTCCAACCCCGTTATTTCAGAGG
545523 GGATAC
1 GGATAC
545529 CTAAATCCCG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (28 bp):
GGATACTCCAACCCCGTTATTTCAGAGG
Found at i:547894 original size:66 final size:66
Alignment explanation
Indices: 547658--547897 Score: 306
Period size: 65 Copynumber: 3.7 Consensus size: 66
547648 ATAGAATGCC
* ** * * * *
547658 TTTTTTTTCT-TTTTAAAGCCCACGTAAGCTGGTGGCACCGTTTAGTCCTCAAAGAGTAGAACAC
1 TTTTTTTTATCTTTTAAAGCCCACACAAGCTAGTGGCACCTTTTAGTCCTCAAAGAGTAGGATAC
547722 T
66 T
* * * *
547723 TTTCTTTT-TCTTTTAAAGCCCACACAAGCAAGTTGCACCTTTTAGTCCTCAAAGAGTAAGATAC
1 TTTTTTTTATCTTTTAAAGCCCACACAAGCTAGTGGCACCTTTTAGTCCTCAAAGAGTAGGATAC
547787 -
66 T
* * *
547787 TTTTCTTTATCTTTTAAAGCCCACACAAGCTGGTGGCACCTTTTAGTCCTCAAAGAGCAGGATAC
1 TTTTTTTTATCTTTTAAAGCCCACACAAGCTAGTGGCACCTTTTAGTCCTCAAAGAGTAGGATAC
547852 T
66 T
* * *
547853 TTTTTTTTATCTTTTAAAGCTCGCACAAGTTAGTGGCACCTTTTA
1 TTTTTTTTATCTTTTAAAGCCCACACAAGCTAGTGGCACCTTTTA
547898 CCCTTTCTTA
Statistics
Matches: 150, Mismatches: 22, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
64 7 0.05
65 103 0.69
66 40 0.27
ACGTcount: A:0.26, C:0.22, G:0.15, T:0.37
Consensus pattern (66 bp):
TTTTTTTTATCTTTTAAAGCCCACACAAGCTAGTGGCACCTTTTAGTCCTCAAAGAGTAGGATAC
T
Found at i:548104 original size:75 final size:75
Alignment explanation
Indices: 547825--548513 Score: 340
Period size: 76 Copynumber: 9.3 Consensus size: 75
547815 GCTGGTGGCA
* * * * * * * *
547825 CCTTTTAGTCCTCAAAGAGCAGGATACTTTTT-TTTTATC-TTTTAAAGCTCGCACAAGTTAGTG
1 CCTTTTAGTCCACAAAGAGAAAGATGCTTTTTCTTTT-TCTTTTTAAAGCCCACACAAGCTGGTG
* **
547888 GCACCTTTTAC
65 GCACATTTTTT
* * * ** * * *
547899 CCTTTCTTAGTCCTCAAAAAGCAAGACAC-CTTTCTTTTTCTTTTTAAAGCCTAAACAAGCTGGT
1 CC-TT-TTAGTCCACAAAGAGAAAGATGCTTTTTCTTTTTCTTTTTAAAGCCCACACAAGCTGGT
* *
547963 GGCGCCCTTTTTAT
64 GGC-ACATTTTT-T
* * *
547977 CCTTTTTGTCCTCAAAGAGCAAGATG------CTTTTTCTTTTTAAAGCCCACACAAGCTGGTGG
1 CCTTTTAGTCCACAAAGAGAAAGATGCTTTTTCTTTTTCTTTTTAAAGCCCACACAAGCTGGTGG
548036 CAGC-TTTTTT
66 CA-CATTTTTT
* *
548046 -CTTTTAGTCCACAAAGAGAAAAATGCTTTTTCTTTTTCTCTTTTAAAGCTCACACAAGCTGGTG
1 CCTTTTAGTCCACAAAGAGAAAGATGCTTTTTCTTTTTCT-TTTTAAAGCCCACACAAGCTGGTG
548110 GCAC-TCCTTTTAT
65 GCACAT--TTTT-T
* * * * * *
548123 CCTTTTAGTCCTCAAAAAGCATGA--C----GCTTTTTCTTTTTAAAGCTCACACAA-CTGGTGG
1 CCTTTTAGTCCACAAAGAGAAAGATGCTTTTTCTTTTTCTTTTTAAAGCCCACACAAGCTGGTGG
548181 CACATTTTTT
66 CACATTTTTT
*** * * * *
548191 CCTTTTAGTCTTTAAAAAGTAAGACGCTTTTTCTTTTTCTCTTTTAAAGCCCACACAAGATGGTG
1 CCTTTTAGTCCACAAAGAGAAAGATGCTTTTTCTTTTTCT-TTTTAAAGCCCACACAAGCTGGTG
548256 GCACATTTTTT
65 GCACATTTTTT
* *** * * *
548267 CTTTTTAGTCCTA-AAAGAGTGTGATGCTTTTTCTTTTTC-TTCTACAAGCCTACACAAGTTGGT
1 CCTTTTAGTCC-ACAAAGAGAAAGATGCTTTTTCTTTTTCTTTTTA-AAGCCCACACAAGCTGGT
* *
548330 AGCGCTCCTTTTTAT
64 -G-GCACATTTTT-T
* * * * * * * * *
548345 CATTTTAGTCCTCAAAGA-ATAG--GAC---GTCTTTTTCTTTCTAAAGCCTATACAAGTTGGTA
1 CCTTTTAGTCCACAAAGAGAAAGATG-CTTTTTCTTTTTCTTTTTAAAGCCCACACAAGCTGGTG
548404 GCACACCTTTTTATT
65 GCACA---TTTT-TT
* * * * * * * *
548419 CTTTTTAGTCCTCAAAGAG-CAGAACGCTTTTCCTTTTTCTTTTTCAAAGCCCATAGAAGTTGGT
1 CCTTTTAGTCCACAAAGAGAAAG-ATGCTTTTTCTTTTTCTTTTT-AAAGCCCACACAAGCTGGT
*
548483 GGCA-GTTTTTAT
64 GGCACATTTTT-T
*
548495 CCCTTTT-GTCCTCAAAGAG
1 -CCTTTTAGTCCACAAAGAG
548514 TCGCACTCCT
Statistics
Matches: 496, Mismatches: 70, Indels: 96
0.75 0.11 0.15
Matches are distributed among these distances:
68 42 0.08
69 5 0.01
70 16 0.03
71 54 0.11
72 8 0.02
73 25 0.05
74 53 0.11
75 68 0.14
76 134 0.27
77 24 0.05
78 36 0.07
79 11 0.02
80 20 0.04
ACGTcount: A:0.24, C:0.22, G:0.15, T:0.39
Consensus pattern (75 bp):
CCTTTTAGTCCACAAAGAGAAAGATGCTTTTTCTTTTTCTTTTTAAAGCCCACACAAGCTGGTGG
CACATTTTTT
Found at i:548126 original size:146 final size:145
Alignment explanation
Indices: 547929--548304 Score: 462
Period size: 146 Copynumber: 2.6 Consensus size: 145
547919 GCAAGACACC
* *
547929 TTTCTTTTTCT-TTTTAAAGCCTAAACAAGCTGGTGGCGC-CCTTTTTATCCTTTTTGTCCTCAA
1 TTTCTTTTTCTCTTTTAAAGCC-ACACAAGCTGGTGGCACTCC-TTTTATCCTTTTTGTCCTCAA
*
547992 AGAGCAAGATGCTTTTTCTTTTTAAAGCCCACACAAGCTGGTGGCAGC-TTTTTT-CTTTTAGTC
64 AGAGCATGATGCTTTTTCTTTTTAAAGCCCACACAA-CTGGTGGCA-CATTTTTTCCTTTTAGTC
* *
548055 CACAAAGAGAAAAATGCTT
127 CACAAAAAGAAAAACGCTT
*
548074 TTTCTTTTTCTCTTTTAAAGCTCACACAAGCTGGTGGCACTCCTTTTATCCTTTTAGTCCTCAAA
1 TTTCTTTTTCTCTTTTAAAGC-CACACAAGCTGGTGGCACTCCTTTTATCCTTTTTGTCCTCAAA
* * * ***
548139 AAGCATGACGCTTTTTCTTTTTAAAGCTCACACAACTGGTGGCACATTTTTTCCTTTTAGTCTTT
65 GAGCATGATGCTTTTTCTTTTTAAAGCCCACACAACTGGTGGCACATTTTTTCCTTTTAGTCCAC
* *
548204 AAAAAGTAAGACGCTT
130 AAAAAGAAAAACGCTT
* *
548220 TTTCTTTTTCTCTTTTAAAGCCCACACAAGATGGTGGCACAT--TTTT-T-CTTTTTAGTCCTAA
1 TTTCTTTTTCTCTTTTAAAG-CCACACAAGCTGGTGGCAC-TCCTTTTATCCTTTTT-GTCCTCA
**
548281 AAGAGTGTGATGCTTTTTCTTTTT
63 AAGAGCATGATGCTTTTTCTTTTT
548305 CTTCTACAAG
Statistics
Matches: 202, Mismatches: 21, Indels: 17
0.84 0.09 0.07
Matches are distributed among these distances:
143 5 0.02
144 28 0.14
145 30 0.15
146 134 0.66
147 5 0.02
ACGTcount: A:0.23, C:0.21, G:0.14, T:0.41
Consensus pattern (145 bp):
TTTCTTTTTCTCTTTTAAAGCCACACAAGCTGGTGGCACTCCTTTTATCCTTTTTGTCCTCAAAG
AGCATGATGCTTTTTCTTTTTAAAGCCCACACAACTGGTGGCACATTTTTTCCTTTTAGTCCACA
AAAAGAAAAACGCTT
Found at i:548133 original size:222 final size:216
Alignment explanation
Indices: 547760--548439 Score: 606
Period size: 222 Copynumber: 3.1 Consensus size: 216
547750 GCAAGTTGCA
* * *
547760 CCTTTTAGTCCTCAAAGAGTAAGATACTTTTCTTTATCTTTTAAAGCCCACACAAGCTGGTGGCA
1 CCTTTTAGTCCTCAAAGAGCAAGATGC--TT-TTTCTCTTTTAAAGCCCACACAAGCTGGTGGCA
* * * * * *
547825 C------CTTTTAGTCCTCAAAGAGCAGGATACTTTTT-TTTTATCTTTTAAAGCTCGCACAAGT
63 CTTTTTTCTTTTAGTCCACAAAGAGAAAGATGCTTTTTCTTTTTTCTTTTAAAGCTCACACAAGT
* *
547883 TAGTGGCA--CCTTTTACCCTTTCTTAGTCCTCAAAAAGCAAGACACCTTTCTTTTTCTTTTTAA
128 TGGTGGCACTCCTTTTATCC-TT-TTAGTCCTCAAAAAGCAAGA-A-C--TCTTTTTCTTTTTAA
547946 AGCCTAAACAAGCTGGTGGCGCCCTTTTTAT
187 AGCCTAAACAAGCTGGTGGC-CCCTTTTTAT
*
547977 CCTTTTTGTCCTCAAAGAGCAAGATGCTTTTTCT-TTTTAAAGCCCACACAAGCTGGTGGCAGCT
1 CCTTTTAGTCCTCAAAGAGCAAGATGCTTTTTCTCTTTTAAAGCCCACACAAGCTGGTGGCA-CT
* *
548041 TTTTTCTTTTAGTCCACAAAGAGAAAAATGCTTTTTCTTTTTCTCTTTTAAAGCTCACACAAGCT
65 TTTTTCTTTTAGTCCACAAAGAGAAAGATGCTTTTTCTTTTT-TCTTTTAAAGCTCACACAAGTT
* *
548106 GGTGGCACTCCTTTTATCCTTTTAGTCCTCAAAAAGCATG-ACGCTTTTTCTTTTTAAAG-CTCA
129 GGTGGCACTCCTTTTATCCTTTTAGTCCTCAAAAAGCAAGAACTCTTTTTCTTTTTAAAGCCT-A
* * *
548169 CACAA-CTGGTGGCACATTTTT-T
193 AACAAGCTGGTGGCCCCTTTTTAT
* * * * * *
548191 CCTTTTAGTCTTTAAAAAGTAAGACGCTTTTTCTTTTTCTCTTTTAAAGCCCACACAAGATGGTG
1 CCTTTTAGTCCTCAAAGAGCAAGA------TGCTTTTTCTCTTTTAAAGCCCACACAAGCTGGTG
*** *
548256 GCACATTTTTTCTTTTTAGTCCTA-AAAGAGTGTGATGCTTTTTC-TTTTTCTTCTACAAGC-CT
60 GCAC-TTTTTTC-TTTTAGTCC-ACAAAGAGAAAGATGCTTTTTCTTTTTTCTTTTA-AAGCTC-
* * * * *
548318 ACACAAGTTGGTAGCGCTCCTTTTTATCATTTTAGTCCTCAAAGAA--TAGGACGTCTTTTTCTT
120 ACACAAGTTGGTGGCACTCC-TTTTATCCTTTTAGTCCTCAAA-AAGCAAGAAC-TCTTTTTCTT
* * * *
548381 TCTAAAGCCTATACAAGTTGGTAGCACACCTTTTTATT
182 TTTAAAGCCTAAACAAGCTGGTGGC-C-CCTTTTTA-T
*
548419 CTTTTTAGTCCTCAAAGAGCA
1 CCTTTTAGTCCTCAAAGAGCA
548440 GAACGCTTTT
Statistics
Matches: 380, Mismatches: 49, Indels: 57
0.78 0.10 0.12
Matches are distributed among these distances:
213 27 0.07
214 25 0.07
215 8 0.02
216 10 0.03
217 45 0.12
219 1 0.00
220 44 0.12
221 63 0.17
222 92 0.24
223 25 0.07
224 17 0.04
226 6 0.02
228 17 0.04
ACGTcount: A:0.25, C:0.22, G:0.14, T:0.39
Consensus pattern (216 bp):
CCTTTTAGTCCTCAAAGAGCAAGATGCTTTTTCTCTTTTAAAGCCCACACAAGCTGGTGGCACTT
TTTTCTTTTAGTCCACAAAGAGAAAGATGCTTTTTCTTTTTTCTTTTAAAGCTCACACAAGTTGG
TGGCACTCCTTTTATCCTTTTAGTCCTCAAAAAGCAAGAACTCTTTTTCTTTTTAAAGCCTAAAC
AAGCTGGTGGCCCCTTTTTAT
Found at i:548389 original size:73 final size:74
Alignment explanation
Indices: 548298--548436 Score: 219
Period size: 73 Copynumber: 1.9 Consensus size: 74
548288 TGATGCTTTT
* *
548298 TCTTTTTCTTCTACAAGCCTACACAAGTTGGTAGCGCTCCTTTTTA-TCATTTTAGTCCTCAAAG
1 TCTTTTTCTTCTACAAGCCTACACAAGTTGGTAGCACACCTTTTTATTCATTTTAGTCCTCAAAG
548362 AATAGGACG
66 AATAGGACG
* *
548371 TCTTTTTCTTTCTA-AAGCCTATACAAGTTGGTAGCACACCTTTTTATTCTTTTTAGTCCTCAAA
1 TCTTTTTC-TTCTACAAGCCTACACAAGTTGGTAGCACACCTTTTTATTCATTTTAGTCCTCAAA
548435 GA
65 GA
548437 GCAGAACGCT
Statistics
Matches: 60, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
73 37 0.62
74 23 0.38
ACGTcount: A:0.24, C:0.22, G:0.13, T:0.40
Consensus pattern (74 bp):
TCTTTTTCTTCTACAAGCCTACACAAGTTGGTAGCACACCTTTTTATTCATTTTAGTCCTCAAAG
AATAGGACG
Found at i:548449 original size:73 final size:74
Alignment explanation
Indices: 548298--548454 Score: 212
Period size: 73 Copynumber: 2.1 Consensus size: 74
548288 TGATGCTTTT
* *
548298 TCTTTTTC-TTCTACAAGCCTACACAAGTTGGTAGCGCTCCTTTTTATCATTTTAGTCCTCAAAG
1 TCTTTTTCTTTCTACAAGCCTACACAAGTTGGTAGCACACCTTTTTATCATTTTAGTCCTCAAAG
* *
548362 AATAGGACG
66 AACAGAACG
* *
548371 TCTTTTTCTTTCTA-AAGCCTATACAAGTTGGTAGCACACCTTTTTATTCTTTTTAGTCCTCAAA
1 TCTTTTTCTTTCTACAAGCCTACACAAGTTGGTAGCACACCTTTTTA-TCATTTTAGTCCTCAAA
*
548435 GAGCAGAACG
65 GAACAGAACG
*
548445 -CTTTTCCTTT
1 TCTTTTTCTTT
548455 TTCTTTTTCA
Statistics
Matches: 74, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
73 46 0.62
74 28 0.38
ACGTcount: A:0.24, C:0.23, G:0.13, T:0.40
Consensus pattern (74 bp):
TCTTTTTCTTTCTACAAGCCTACACAAGTTGGTAGCACACCTTTTTATCATTTTAGTCCTCAAAG
AACAGAACG
Found at i:551551 original size:44 final size:45
Alignment explanation
Indices: 551501--551590 Score: 155
Period size: 45 Copynumber: 2.0 Consensus size: 45
551491 CGACACGATA
*
551501 CTCCAACC-CGTTTTTACTTCCAAAAGTATCAACTTTTTCACCAT
1 CTCCAACCTCGTTTTTACTTCCAAAAGTATCAAATTTTTCACCAT
*
551545 CTCCAACCTCGTTTTTACTTCCAAAATTATCAAATTTTTCACCAT
1 CTCCAACCTCGTTTTTACTTCCAAAAGTATCAAATTTTTCACCAT
551590 C
1 C
551591 AGGGATACTC
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
44 8 0.19
45 35 0.81
ACGTcount: A:0.28, C:0.31, G:0.03, T:0.38
Consensus pattern (45 bp):
CTCCAACCTCGTTTTTACTTCCAAAAGTATCAAATTTTTCACCAT
Found at i:551644 original size:125 final size:123
Alignment explanation
Indices: 551433--551657 Score: 281
Period size: 125 Copynumber: 1.8 Consensus size: 123
551423 CCAACCGCAT
* * * * * **
551433 TTTTTACTTTCGAAATATGAAATTTTTCATCATTAGGATACTCCAACCCTATCTGTACCGACACG
1 TTTTTACTTCCAAAATATCAAATTTTTCACCATCAGGATACTCCAACCCTATCAATACCGACACG
* *
551498 ATACTCCAACCCGTTTTTACTTCCAAAAGTATCAACTTTTTCACCATCTCCAACCTCG
66 ATACTACAACCCATTTTTACTTCCAAAAGTATCAACTTTTTCACCATCTCCAACCTCG
**
551556 TTTTTACTTCCAAAATTATCAAATTTTTCACCATCAGGGATACTCCAACCCTATCAATACCG-GG
1 TTTTTACTTCCAAAA-TATCAAATTTTTCACCATCA-GGATACTCCAACCCTATCAATACCGACA
* * * *
551620 GGATACTATAACCCTATTTTTACTTGCAAACGTATCAA
64 CGATACTACAACCC-ATTTTTACTTCCAAAAGTATCAA
551658 AGTTAATTTT
Statistics
Matches: 84, Mismatches: 15, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
123 13 0.15
124 28 0.33
125 43 0.51
ACGTcount: A:0.30, C:0.27, G:0.09, T:0.34
Consensus pattern (123 bp):
TTTTTACTTCCAAAATATCAAATTTTTCACCATCAGGATACTCCAACCCTATCAATACCGACACG
ATACTACAACCCATTTTTACTTCCAAAAGTATCAACTTTTTCACCATCTCCAACCTCG
Found at i:551845 original size:80 final size:79
Alignment explanation
Indices: 551556--551849 Score: 297
Period size: 80 Copynumber: 3.6 Consensus size: 79
551546 TCCAACCTCG
* * * * * *
551556 TTTTTACTTCCAAAATTATCAAATTTTTCACCATCAGGGATACTCCAACCCTATCAATACCGGGG
1 TTTTTACTTCCAAAAGTATCGAATTTTTCACCATCGGGGATACTCCAACCCTATCATTTCCAGGG
551621 GATACTATAACCCTA
66 GATACT-TAACCCTA
* * *
551636 TTTTTACTTGCAAACGTATCAAAGTTAATTTTTCACCCTCGGGGATACTCCAACCCTATCATTTT
1 TTTTTACTTCCAAAAGTATC---G--AATTTTTCACCATCGGGGATACTCCAACCCTATCA-TTT
*
551701 CGAGGGGATACTTCAA-CCTCA
60 CCAGGGGATACTT-AACCCT-A
* * *** * *
551722 TTTTTACTTGCAAAA-TATTGAATTTTTCATTGTCGGGGATACTCTAACCCTATCATTTCCAAGA
1 TTTTTACTTCCAAAAGTATCGAATTTTTCACCATCGGGGATACTCCAACCCTATCATTTCC-AGG
551786 GGATACTCTAACCCTA
65 GGATACT-TAACCCTA
* *
551802 TTTTTACTTCCAAAAGCATCGAATTTTTCACCATTGGGG-TACTCCAAC
1 TTTTTACTTCCAAAAGTATCGAATTTTTCACCATCGGGGATACTCCAAC
551850 TCCATTTTTA
Statistics
Matches: 176, Mismatches: 26, Indels: 24
0.78 0.12 0.11
Matches are distributed among these distances:
79 4 0.02
80 82 0.47
81 21 0.12
82 1 0.01
85 40 0.23
86 28 0.16
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.34
Consensus pattern (79 bp):
TTTTTACTTCCAAAAGTATCGAATTTTTCACCATCGGGGATACTCCAACCCTATCATTTCCAGGG
GATACTTAACCCTA
Found at i:551884 original size:50 final size:53
Alignment explanation
Indices: 551801--551900 Score: 145
Period size: 51 Copynumber: 1.9 Consensus size: 53
551791 CTCTAACCCT
*
551801 ATTTTTACTTCCAAAAGCATCGAATTTTTCACCATTGGG-GTACTCCAACTCC
1 ATTTTTACTTCCAAAAGCATCGAATTTTTCACCATCGGGTGTACTCCAACTCC
*
551853 ATTTTTA-TTCCTAAAA-TATC-AATTTTTCACCATCGGGTGTACTCCAAC
1 ATTTTTACTTCC-AAAAGCATCGAATTTTTCACCATCGGGTGTACTCCAAC
551901 CTCATCATTT
Statistics
Matches: 44, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
50 16 0.36
51 17 0.39
52 11 0.25
ACGTcount: A:0.28, C:0.25, G:0.10, T:0.37
Consensus pattern (53 bp):
ATTTTTACTTCCAAAAGCATCGAATTTTTCACCATCGGGTGTACTCCAACTCC
Found at i:554401 original size:53 final size:53
Alignment explanation
Indices: 554336--554453 Score: 200
Period size: 53 Copynumber: 2.2 Consensus size: 53
554326 TACTATAGCT
*
554336 ACCCTATTCAGCTCCTAAGCACTAGCAAGCCACCATAACATTTATTTTCAGCC
1 ACCCTATTCAGCTCCTAAGCACTAGCAAGCAACCATAACATTTATTTTCAGCC
* *
554389 ACCCTATTCAGCTCCTAAGCACTGGTAAGCAACCATAACATTTATTTTCAGCC
1 ACCCTATTCAGCTCCTAAGCACTAGCAAGCAACCATAACATTTATTTTCAGCC
*
554442 ACCCTACTCAGC
1 ACCCTATTCAGC
554454 CATTTTTATC
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 61 1.00
ACGTcount: A:0.30, C:0.34, G:0.10, T:0.26
Consensus pattern (53 bp):
ACCCTATTCAGCTCCTAAGCACTAGCAAGCAACCATAACATTTATTTTCAGCC
Found at i:557673 original size:79 final size:79
Alignment explanation
Indices: 557542--557696 Score: 229
Period size: 79 Copynumber: 2.0 Consensus size: 79
557532 TTTAGGCCAA
* *
557542 AGTGATACACAATAAAGATCGATCTTTTGACTAAGATCAAGGTATGCCTACTAGCATGAGTGAAT
1 AGTGATACACAATAAAGATCGATCTTTTAACTAAGATCAAGGTATGCCTACTAGCACGAGTGAAT
557607 CACCATGCCTTAAG
66 CACCATGCCTTAAG
* * * ** *
557621 AGTGATATACAATAAAGATTGATCTTTTAATTAAGATTGAGGTCTGCCTACTAGCACGAGTGAAT
1 AGTGATACACAATAAAGATCGATCTTTTAACTAAGATCAAGGTATGCCTACTAGCACGAGTGAAT
*
557686 CCCCATGCCTT
66 CACCATGCCTT
557697 GAGCCCAACT
Statistics
Matches: 67, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
79 67 1.00
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.29
Consensus pattern (79 bp):
AGTGATACACAATAAAGATCGATCTTTTAACTAAGATCAAGGTATGCCTACTAGCACGAGTGAAT
CACCATGCCTTAAG
Found at i:562533 original size:79 final size:78
Alignment explanation
Indices: 562450--562810 Score: 248
Period size: 79 Copynumber: 4.6 Consensus size: 78
562440 AAAATTAAGG
*
562450 TAGAGCATCCCCTT-AAAGATAGTGGGGTTGGAGTATCGC-CG-GGATGAAAAATTTAATATTTT
1 TAGAGCATCCCCTTGAAA-ATAATGGGGTTGGAGTATC-CTCGAGG-TGAAAAA-TTAATATTTT
**
562512 GAAGGTAAAAATGAGGT
62 GAAAATAAAAATGAGGT
*
562529 TAGAGCATCCCCTTGAAAATAATGGGGTTGGAGTATCCTCGATGGTGAAAAATTGATATTTTGAA
1 TAGAGCATCCCCTTGAAAATAATGGGGTTGGAGTATCCTCGA-GGTGAAAAATTAATATTTTGAA
*
562594 AATAAAAATGGGGT
65 AATAAAAATGAGGT
* ** * * * * * *
562608 TGGAGTGTCCCCTAGAAAATGATAGGGTTGGAGTATCC-CTAATGGTGAATAATTAAGATTTTGA
1 TAGAGCATCCCCTTGAAAATAATGGGGTTGGAGTATCCTC-GA-GGTGAAAAATTAATATTTTGA
* *
562672 AAGTAAAAA-CAGAGT
64 AAATAAAAATGAG-GT
* ** * * * * * * * * *
562687 TGGATTATCCCCTTGGAGATGATTGGGTTGGAGTATCCTTGATGGTAAAAAATTGATGCTTTTGG
1 TAGAGCATCCCCTTGAAAATAATGGGGTTGGAGTATCCTCGA-GGTGAAAAATTAAT-ATTTTGA
*
562752 AAGTAAAAACT-AGGGT
64 AAATAAAAA-TGA-GGT
* * * * * * *
562768 TGGAGTATCCTCTTGGAAATGATGGGGTTAGAGTATCCCCGAG
1 TAGAGCATCCCCTTGAAAATAATGGGGTTGGAGTATCCTCGAG
562811 ATGAGAATTT
Statistics
Matches: 232, Mismatches: 39, Indels: 21
0.79 0.13 0.07
Matches are distributed among these distances:
78 3 0.01
79 163 0.70
80 25 0.11
81 40 0.17
82 1 0.00
ACGTcount: A:0.32, C:0.11, G:0.27, T:0.29
Consensus pattern (78 bp):
TAGAGCATCCCCTTGAAAATAATGGGGTTGGAGTATCCTCGAGGTGAAAAATTAATATTTTGAAA
ATAAAAATGAGGT
Found at i:562790 original size:81 final size:81
Alignment explanation
Indices: 562494--562877 Score: 326
Period size: 79 Copynumber: 4.8 Consensus size: 81
562484 ATCGCCGGGA
* * * * *
562494 TGAAAAATTTAAT-ATTTTGAAGGTAAAAA-T-GAGGTTAGAGCATCCCCTTGAAAATAATGGGG
1 TGAAAAA-TTGATGATTTTGAAAGTAAAAACTAG-GGTTGGAGTATCCCCTTGAAAATGATGGGG
*
562556 TTGGAGTATCCTCGATGG
64 TTGGAGTATCCTTGATGG
* * * * *
562574 TGAAAAATTGAT-ATTTTGAAAATAAAAA-TGGGGTTGGAGTGTCCCCTAGAAAATGATAGGGTT
1 TGAAAAATTGATGATTTTGAAAGTAAAAACTAGGGTTGGAGTATCCCCTTGAAAATGATGGGGTT
* *
562637 GGAGTATCCCTAATGG
66 GGAGTATCCTTGATGG
* * * * * * *
562653 TGAATAATT-AAGATTTTGAAAGTAAAAAC-AGAGTTGGATTATCCCCTTGGAGATGATTGGGTT
1 TGAAAAATTGATGATTTTGAAAGTAAAAACTAGGGTTGGAGTATCCCCTTGAAAATGATGGGGTT
562716 GGAGTATCCTTGATGG
66 GGAGTATCCTTGATGG
* * * * *
562732 TAAAAAATTGATGCTTTTGGAAGTAAAAACTAGGGTTGGAGTATCCTCTTGGAAATGATGGGGTT
1 TGAAAAATTGATGATTTTGAAAGTAAAAACTAGGGTTGGAGTATCCCCTTGAAAATGATGGGGTT
* ** *
562797 AGAGTATCCCCGA-GA
66 GGAGTATCCTTGATGG
** * * *
562812 TGAGAATTTTTG-TG-TTTGGGAAA-TAAAAA-TAGGGTTGGAGTATCCCCTCGAAAATGAT-TG
1 TGA-AA-AATTGATGATTT-TGAAAGTAAAAACTAGGGTTGGAGTATCCCCTTGAAAATGATGGG
562872 GTTGGA
63 GTTGGA
562878 TCCTCAACGA
Statistics
Matches: 247, Mismatches: 49, Indels: 18
0.79 0.16 0.06
Matches are distributed among these distances:
78 7 0.03
79 154 0.62
80 37 0.15
81 46 0.19
82 3 0.01
ACGTcount: A:0.33, C:0.09, G:0.27, T:0.31
Consensus pattern (81 bp):
TGAAAAATTGATGATTTTGAAAGTAAAAACTAGGGTTGGAGTATCCCCTTGAAAATGATGGGGTT
GGAGTATCCTTGATGG
Found at i:562859 original size:160 final size:158
Alignment explanation
Indices: 562502--562929 Score: 379
Period size: 158 Copynumber: 2.7 Consensus size: 158
562492 GATGAAAAAT
* * * * * * *
562502 TTAATATTTTGAAGGTAAAAAT-GAGGTTAGAGCATCCCCTTGAAAATAATGGGGTTGGAGTATC
1 TTAAGATTTGGAAAGTAAAAATAG-GGTTGGAGTATCCCCTTGAAAATGATTGGGTTGGAGTATC
* * *
562566 CTCGATGGTGAAAAATTGATATTTTGAAAATAAAAATGGGGTTGGAGTGTCCCCTAGAAAATGAT
65 CTCGATGGTAAAAAATTGATATTTTGAAAATAAAAATAGGGTTGGAGTATCCCCTAGAAAATGAT
* * *
562631 AGGGTTGGAGTATCCCTAATGGTGAATAA
130 AGGGTTAGAGTATCCCGAATGGAGAATAA
* * * * * *
562660 TTAAGATTTTGAAAGTAAAAACAGAGTTGGATTATCCCCTTGGAGATGATTGGGTTGGAGTATCC
1 TTAAGATTTGGAAAGTAAAAATAGGGTTGGAGTATCCCCTTGAAAATGATTGGGTTGGAGTATCC
* * * * * * *
562725 TTGATGGTAAAAAATTGATGCTTTTGGAAGTAAAAACTAGGGTTGGAGTATCCTCTTGGAAATGA
66 TCGATGGTAAAAAATTGAT-ATTTTGAAAATAAAAA-TAGGGTTGGAGTATCCCCTAGAAAATGA
* **
562790 TGGGGTTAGAGTATCCCCGAGAT-GAGAATTT
129 TAGGGTTAGAGTAT-CCCGA-ATGGAGAATAA
** *
562821 TTGTG-TTTGGGAAA-TAAAAATAGGGTTGGAGTATCCCCTCGAAAATGATT-GGTT-G-G-ATC
1 TTAAGATTT-GGAAAGTAAAAATAGGGTTGGAGTATCCCCTTGAAAATGATTGGGTTGGAGTATC
* * * * * * *
562880 CTCAACGATGAAAATTTAATATTTT-AGAAGTAAAAATAGGGTTGGAGTAT
65 CTCGATGGTAAAAAATTGATATTTTGA-AAATAAAAATAGGGTTGGAGTAT
562930 TCCTGATGGT
Statistics
Matches: 218, Mismatches: 45, Indels: 18
0.78 0.16 0.06
Matches are distributed among these distances:
154 14 0.06
155 13 0.06
156 16 0.07
157 1 0.00
158 70 0.32
159 18 0.08
160 68 0.31
161 16 0.07
162 2 0.01
ACGTcount: A:0.33, C:0.09, G:0.26, T:0.31
Consensus pattern (158 bp):
TTAAGATTTGGAAAGTAAAAATAGGGTTGGAGTATCCCCTTGAAAATGATTGGGTTGGAGTATCC
TCGATGGTAAAAAATTGATATTTTGAAAATAAAAATAGGGTTGGAGTATCCCCTAGAAAATGATA
GGGTTAGAGTATCCCGAATGGAGAATAA
Found at i:564013 original size:52 final size:51
Alignment explanation
Indices: 563934--564123 Score: 204
Period size: 51 Copynumber: 3.7 Consensus size: 51
563924 AATGGTTTGC
* * * * * * *
563934 ATGTATTGATATATTGAAAAATATATCAATACATTTAGGGTCAAAACCCAAA
1 ATGTATCGATACAATGAATAATGTATCAATACATTT-GGGTAAAAACCCAGA
* ** * *
563986 ATGTATCAATACAATGAATAATGTATCAATATGTTGGGGTTAAAACCCAGA
1 ATGTATCGATACAATGAATAATGTATCAATACATTTGGGTAAAAACCCAGA
* *
564037 ATGTATCGATACAATGAATAATGTATCGATACATTTGGGTAAAAAACCTAGA
1 ATGTATCGATACAATGAATAATGTATCAATACATTTGGGT-AAAAACCCAGA
*
564089 ATGTATCGATACAAT-AGA-AACGTATCAATACATTT
1 ATGTATCGATACAATGA-ATAATGTATCAATACATTT
564124 TCCTTCCATG
Statistics
Matches: 116, Mismatches: 20, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
51 64 0.55
52 52 0.45
ACGTcount: A:0.43, C:0.12, G:0.15, T:0.30
Consensus pattern (51 bp):
ATGTATCGATACAATGAATAATGTATCAATACATTTGGGTAAAAACCCAGA
Found at i:564211 original size:20 final size:21
Alignment explanation
Indices: 564188--564234 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
564178 TCATATGTCA
*
564188 ATACATTCACTCA-TGTATCG
1 ATACATTCACTAATTGTATCG
564208 ATACATTCACTAATTGTATCG
1 ATACATTCACTAATTGTATCG
564229 ATACAT
1 ATACAT
564235 ATTATAGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 12 0.48
21 13 0.52
ACGTcount: A:0.34, C:0.21, G:0.09, T:0.36
Consensus pattern (21 bp):
ATACATTCACTAATTGTATCG
Found at i:564790 original size:70 final size:70
Alignment explanation
Indices: 564674--564875 Score: 225
Period size: 70 Copynumber: 2.9 Consensus size: 70
564664 TGAAGTAGAT
* * * * *
564674 AGGTGCTACCAACTTGTGTGGGCTTTGAGAAAGAAAATGAGC--CTTGCTCTTTGAGGA-TAAAA
1 AGGTGCCACCAGCTTGTGTGGGGTTT-AGAAAGAAAAAG-GCATCTTGCTTTTTGAGGACTAAAA
564736 GGGATAAA
64 -GGATAAA
* * **
564744 AGGTGCCACCAGCTTATGTGGGGTTTAGAAAGAAAAAGGCATCTTGCTTTTTGAGGATTGGAAGG
1 AGGTGCCACCAGCTTGTGTGGGGTTTAGAAAGAAAAAGGCATCTTGCTTTTTGAGGACTAAAAGG
564809 ATAAA
66 ATAAA
* * *
564814 AGGTGCCA-CAGCTTGTGTAGGCGTTTA-AAAGAAAAAGGCATCCTACTTTTTGAGGACTAAAA
1 AGGTGCCACCAGCTTGTGT-GGGGTTTAGAAAGAAAAAGGCATCTTGCTTTTTGAGGACTAAAA
564876 AGTGCCACCA
Statistics
Matches: 113, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
68 2 0.02
69 50 0.44
70 58 0.51
71 3 0.03
ACGTcount: A:0.33, C:0.13, G:0.28, T:0.26
Consensus pattern (70 bp):
AGGTGCCACCAGCTTGTGTGGGGTTTAGAAAGAAAAAGGCATCTTGCTTTTTGAGGACTAAAAGG
ATAAA
Found at i:564864 original size:69 final size:70
Alignment explanation
Indices: 564737--564869 Score: 207
Period size: 69 Copynumber: 1.9 Consensus size: 70
564727 AGGATAAAAG
* * *
564737 GGATAAAAGGTGCCACCAGCTTATGTGGGGTTTAGAAAGAAAAAGGCATCTTGCTTTTTGAGGAT
1 GGATAAAAGGTGCCACCAGCTTATGTGGCGTTTAGAAAGAAAAAGGCATCCTACTTTTTGAGGAT
564802 TGGAA
66 TGGAA
*
564807 GGATAAAAGGTGCCA-CAGCTTGTGTAGGCGTTTA-AAAGAAAAAGGCATCCTACTTTTTGAGGA
1 GGATAAAAGGTGCCACCAGCTTATGT-GGCGTTTAGAAAGAAAAAGGCATCCTACTTTTTGAGGA
564870 CTAAAAAGTG
Statistics
Matches: 58, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
69 36 0.62
70 22 0.38
ACGTcount: A:0.32, C:0.13, G:0.29, T:0.26
Consensus pattern (70 bp):
GGATAAAAGGTGCCACCAGCTTATGTGGCGTTTAGAAAGAAAAAGGCATCCTACTTTTTGAGGAT
TGGAA
Found at i:564881 original size:61 final size:63
Alignment explanation
Indices: 564806--564947 Score: 166
Period size: 64 Copynumber: 2.3 Consensus size: 63
564796 GAGGATTGGA
* * * * *
564806 AGGA-TAAAAGGTGCCACAGCTTGTGTAGGCGTTT-AAAAGA-A-AAAGGCATCCTACTTTTTG
1 AGGACTAAAAGGTGCCACAGCTTGTGTA-ACCTTTAAAAAAATAGAAAAGCATCCTACTCTTTG
* **
564866 AGGACTAAAAAGTGCCACCAGCTTGTGTAACCTTTAAAAAAATAGAAAAGTGTCCTACTCTTTG
1 AGGACTAAAAGGTGCCA-CAGCTTGTGTAACCTTTAAAAAAATAGAAAAGCATCCTACTCTTTG
564930 AGGACTAAAAGGTGCCAC
1 AGGACTAAAAGGTGCCAC
564948 TAACGTGTGG
Statistics
Matches: 68, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
60 4 0.06
61 15 0.22
62 16 0.24
63 2 0.03
64 31 0.46
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.25
Consensus pattern (63 bp):
AGGACTAAAAGGTGCCACAGCTTGTGTAACCTTTAAAAAAATAGAAAAGCATCCTACTCTTTG
Found at i:565758 original size:74 final size:71
Alignment explanation
Indices: 565658--565881 Score: 204
Period size: 73 Copynumber: 3.1 Consensus size: 71
565648 AAAAAAGAGG
* *
565658 AAAAGCATCATGCTCTTTGAGCACTAAAAATGATAAAAGGGTGTGCCACCAACTTGTATGGCCTT
1 AAAAGCATCCTGCTCTTTGAGAACTAAAAATGATAAAA-GGTGTGCCACCAACTTGTATGG-CTT
565723 TAGAAAGA
64 TAGAAAGA
** * * * * *
565731 AAAATGTGTCCTGCTCTTTGAGGACT-AAAATGATAAAATGGTCTGCCATCAACTTGTGTAGGTT
1 AAAA-GCATCCTGCTCTTTGAGAACTAAAAATGATAAAA-GGTGTGCCACCAACTTGTAT-GGCT
*
565795 TTA-AAACCCA
63 TTAGAAA--GA
* * * *
565805 AAAAGCATCCTACTCTTTGAGAACTAAAAAAAGGTAAAA--TGTGCCACCAACGTGTATGGGCTT
1 AAAAGCATCCTGCTCTTTGAGAACT-AAAAATGATAAAAGGTGTGCCACCAACTTGTAT-GGCTT
565868 TAGAAGAGA
64 TAGAA-AGA
565877 AAAAG
1 AAAAG
565882 AAAAAGCATC
Statistics
Matches: 120, Mismatches: 23, Indels: 17
0.75 0.14 0.11
Matches are distributed among these distances:
72 29 0.24
73 56 0.47
74 25 0.21
75 10 0.08
ACGTcount: A:0.38, C:0.17, G:0.20, T:0.25
Consensus pattern (71 bp):
AAAAGCATCCTGCTCTTTGAGAACTAAAAATGATAAAAGGTGTGCCACCAACTTGTATGGCTTTA
GAAAGA
Found at i:566007 original size:71 final size:71
Alignment explanation
Indices: 565876--566058 Score: 219
Period size: 70 Copynumber: 2.5 Consensus size: 71
565866 TTTAGAAGAG
* * *
565876 AAAAAGAAAAAGCATCTAGCTT-TTTGAGGACTAAAAGGAAAAAAATGTGCCACTAGCTTGTGTG
1 AAAAAGGAAAAGCATCTTG-TTCTTTGAGGACTAAAAGGAAAAAAATGTGCCACCAGCTTGTGTG
565940 GGCTTT-
65 GGCTTTA
*
565946 AAAAAGGAAAAGCGTCTTGTTCTTTGAGGACTAAAAGGATAAAAAGA-GTGCCACCAGCTTGTGT
1 AAAAAGGAAAAGCATCTTGTTCTTTGAGGACTAAAAGGA-AAAAA-ATGTGCCACCAGCTTGTGT
566010 GGGCTTTACA
64 GGGCTTT--A
* * * *
566020 AGAAAAAGAAAAGCATCATGCTCTTTAAGGACTAAAAGG
1 A-AAAAGGAAAAGCATCTTGTTCTTTGAGGACTAAAAGG
566059 TGCCACCAAC
Statistics
Matches: 97, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
69 2 0.02
70 33 0.34
71 28 0.29
72 1 0.01
74 1 0.01
75 32 0.33
ACGTcount: A:0.39, C:0.14, G:0.23, T:0.23
Consensus pattern (71 bp):
AAAAAGGAAAAGCATCTTGTTCTTTGAGGACTAAAAGGAAAAAAATGTGCCACCAGCTTGTGTGG
GCTTTA
Found at i:567179 original size:18 final size:18
Alignment explanation
Indices: 567156--567190 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
567146 GCTAGCTCTT
567156 TTTTTTTTTGGTTTTTTG
1 TTTTTTTTTGGTTTTTTG
*
567174 TTTTTTTTTTGTTTTTT
1 TTTTTTTTTGGTTTTTT
567191 TAGTTTATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.00, C:0.00, G:0.11, T:0.89
Consensus pattern (18 bp):
TTTTTTTTTGGTTTTTTG
Found at i:567179 original size:19 final size:20
Alignment explanation
Indices: 567155--567196 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
567145 AGCTAGCTCT
567155 TTTTTTTTTTGGTTTTTT-G
1 TTTTTTTTTTGGTTTTTTAG
*
567174 TTTTTTTTTTGTTTTTTTAG
1 TTTTTTTTTTGGTTTTTTAG
567194 TTT
1 TTT
567197 ATGTTTTTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.02, C:0.00, G:0.12, T:0.86
Consensus pattern (20 bp):
TTTTTTTTTTGGTTTTTTAG
Found at i:567179 original size:20 final size:21
Alignment explanation
Indices: 567154--567205 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 21
567144 AAGCTAGCTC
567154 TTTTTTTTTTTGGTTTTTT-G
1 TTTTTTTTTTTGGTTTTTTAG
*
567174 -TTTTTTTTTTGTTTTTTTAG
1 TTTTTTTTTTTGGTTTTTTAG
* *
567194 TTTATGTTTTTG
1 TTTTTTTTTTTG
567206 TTGGGTCATA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 17 0.63
20 1 0.04
21 9 0.33
ACGTcount: A:0.04, C:0.00, G:0.13, T:0.83
Consensus pattern (21 bp):
TTTTTTTTTTTGGTTTTTTAG
Found at i:567183 original size:26 final size:26
Alignment explanation
Indices: 567154--567204 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
567144 AAGCTAGCTC
* *
567154 TTTT-TTTTTTTGGTTTTTTGTTTTTT
1 TTTTGTTTTTTTAG-TTTATGTTTTTT
567180 TTTTGTTTTTTTAGTTTATGTTTTT
1 TTTTGTTTTTTTAGTTTATGTTTTT
567205 GTTGGGTCAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 14 0.64
27 8 0.36
ACGTcount: A:0.04, C:0.00, G:0.12, T:0.84
Consensus pattern (26 bp):
TTTTGTTTTTTTAGTTTATGTTTTTT
Found at i:579635 original size:159 final size:162
Alignment explanation
Indices: 579463--579766 Score: 379
Period size: 159 Copynumber: 1.9 Consensus size: 162
579453 TATTTTAAAG
* * * * *
579463 GTAAAAACGGGGTTAGACTATCCCCTA-AGAAATTATGGGGTTGGAGAATCCTCGATGGTG--AA
1 GTAAAAACGGGGTTAGACTATCCCCTAGA-AAATGATGGGGTTAGAGAATCCCCAACGGTGAAAA
* * * * *
579525 ATTTTGATATTTTAGAAATAAAAATAGGTTTGGAGTAT-CCTCTC-AAAAATGAT-GGGTTGGAG
65 ATTTAG-TATTTTAGAAATAAAAATAGGGTTGAAGTATGCCT-TCAAAAAATGATGGGGCTGGAA
579587 TATCC-CTGATGGTGAAAATTTTGATGCTTTTGGAA
128 TATCCAC-GATGGTGAAAATTTTGATGCTTTTGGAA
* * *
579622 GTAAAAACGGGGTTAGAGTATCCCCTTGAAAATGATGGGGTTAGAGTATCCCCAACGGTGAAAAA
1 GTAAAAACGGGGTTAGACTATCCCCTAGAAAATGATGGGGTTAGAGAATCCCCAACGGTGAAAAA
* * *
579687 TTTAGTATTTTGGAAGTAAAAATGGGGTTGAAGTATGCCTTCAAAAAATGATGGGGCTGGAATAT
66 TTTAGTATTTTAGAAATAAAAATAGGGTTGAAGTATGCCTTCAAAAAATGATGGGGCTGGAATAT
579752 CCACGATGGTGAAAA
131 CCACGATGGTGAAAA
579767 ATTCAATATT
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
159 50 0.41
160 29 0.24
161 19 0.16
162 23 0.19
163 1 0.01
ACGTcount: A:0.34, C:0.11, G:0.26, T:0.29
Consensus pattern (162 bp):
GTAAAAACGGGGTTAGACTATCCCCTAGAAAATGATGGGGTTAGAGAATCCCCAACGGTGAAAAA
TTTAGTATTTTAGAAATAAAAATAGGGTTGAAGTATGCCTTCAAAAAATGATGGGGCTGGAATAT
CCACGATGGTGAAAATTTTGATGCTTTTGGAA
Found at i:579654 original size:80 final size:81
Alignment explanation
Indices: 579420--579785 Score: 285
Period size: 79 Copynumber: 4.6 Consensus size: 81
579410 CGAAGATGGA
* * * * *
579420 GGGGTTGGAGTAT-CCTCGA-GATAAAAATTTTAAT-ATTTT-AAAGGTAAAAACGGGGTTAGAC
1 GGGGTTGGAGTATCCCT-GATGGTGAAAATTTTGATGATTTTGGAA-GTAAAAACGGGGTTAGAG
*
579481 TATCCCC-TAAGAAATTAT
64 TATCCCCTTAA-AAATGAT
* * * ** * *
579499 GGGGTTGGAGAAT-CCTCGATGGTG-AAATTTTGAT-ATTTTAGAAATAAAAATAGGTTTGGAGT
1 GGGGTTGGAGTATCCCT-GATGGTGAAAATTTTGATGATTTTGGAAGTAAAAACGGGGTTAGAGT
* *
579561 ATCCTCTCAAAAATGAT
65 ATCCCCTTAAAAATGAT
*
579578 -GGGTTGGAGTATCCCTGATGGTGAAAATTTTGATGCTTTTGGAAGTAAAAACGGGGTTAGAGTA
1 GGGGTTGGAGTATCCCTGATGGTGAAAATTTTGATGATTTTGGAAGTAAAAACGGGGTTAGAGTA
*
579642 TCCCCTTGAAAATGAT
66 TCCCCTTAAAAATGAT
* ** * * *
579658 GGGGTTAGAGTATCCCCAACGGTGAAAAATTT-A-GTATTTTGGAAGTAAAAATGGGGTT-GAAG
1 GGGGTTGGAGTATCCCTGATGGTGAAAATTTTGATG-ATTTTGGAAGTAAAAACGGGGTTAG-AG
*
579720 TAT-GCCTTCAAAAAATGAT
64 TATCCCCTT--AAAAATGAT
* * * **
579739 GGGGCTGGAATATCCAC-GATGGTGAAAAATTCAAT-ATTTTGGAAGTA
1 GGGGTTGGAGTATCC-CTGATGGTGAAAATTTTGATGATTTTGGAAGTA
579786 GAAATTTAAA
Statistics
Matches: 233, Mismatches: 40, Indels: 26
0.78 0.13 0.09
Matches are distributed among these distances:
78 18 0.08
79 75 0.32
80 68 0.29
81 70 0.30
82 2 0.01
ACGTcount: A:0.34, C:0.10, G:0.25, T:0.30
Consensus pattern (81 bp):
GGGGTTGGAGTATCCCTGATGGTGAAAATTTTGATGATTTTGGAAGTAAAAACGGGGTTAGAGTA
TCCCCTTAAAAATGAT
Found at i:579737 original size:81 final size:80
Alignment explanation
Indices: 579420--579790 Score: 284
Period size: 81 Copynumber: 4.7 Consensus size: 80
579410 CGAAGATGGA
* * * *
579420 GGGGTTGGAGTATCCTCGA-GAT-AAAAATTTTA-ATATTTT-AAAGGTAAAAACGGGGTT-AGA
1 GGGGTTGGAGTATCCCCGATGGTGAAAAA-TTTAGATATTTTGGAA-GTAAAAATGGGGTTGA-A
* * *
579480 CTATCC-CCTAAGAAATTAT
63 GTATCCTTC-AA-AAATGAT
* * * * * * * *
579499 GGGGTTGGAGAATCCTCGATGGTG--AAATTTTGATATTTTAGAAATAAAAATAGGTTTGGAGTA
1 GGGGTTGGAGTATCCCCGATGGTGAAAAATTTAGATATTTTGGAAGTAAAAATGGGGTTGAAGTA
579562 TCCTCTCAAAAATGAT
66 TCCT-TCAAAAATGAT
* * * *
579578 -GGGTTGGAGTATCCCTGATGGTG-AAAATTTTGATGCTTTTGGAAGTAAAAACGGGGTT-AGAG
1 GGGGTTGGAGTATCCCCGATGGTGAAAAATTTAGAT-ATTTTGGAAGTAAAAATGGGGTTGA-AG
*
579640 TATCCCCTT-GAAAATGAT
64 TAT--CCTTCAAAAATGAT
* * *
579658 GGGGTTAGAGTATCCCCAACGGTGAAAAATTTAG-TATTTTGGAAGTAAAAATGGGGTTGAAGTA
1 GGGGTTGGAGTATCCCCGATGGTGAAAAATTTAGATATTTTGGAAGTAAAAATGGGGTTGAAGTA
579722 TGCCTTCAAAAAATGAT
66 T-CCTTC-AAAAATGAT
* * * * *
579739 GGGGCTGGAATATCCACGATGGTGAAAAATTCA-ATATTTTGGAAGTAGAAAT
1 GGGGTTGGAGTATCCCCGATGGTGAAAAATTTAGATATTTTGGAAGTAAAAAT
579791 TTAAAAATTT
Statistics
Matches: 234, Mismatches: 40, Indels: 34
0.76 0.13 0.11
Matches are distributed among these distances:
78 23 0.10
79 64 0.27
80 62 0.26
81 74 0.32
82 11 0.05
ACGTcount: A:0.34, C:0.10, G:0.25, T:0.30
Consensus pattern (80 bp):
GGGGTTGGAGTATCCCCGATGGTGAAAAATTTAGATATTTTGGAAGTAAAAATGGGGTTGAAGTA
TCCTTCAAAAATGAT
Done.