Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 145 of 311
Found at i:49272389 original size:37 final size:36
Alignment explanation
Indices: 49272339--49272475 Score: 211
Period size: 37 Copynumber: 3.7 Consensus size: 36
49272329 ATTCCGGGTG
49272339 AGACCCGATGACTACGTGTGGAGATTATGTCCAGGTA
1 AGACCCGATGACTACGTGTGGAGATTATGTCC-GGTA
49272376 AGACCCGATGACTACGTGTGGAGATTATGTCCGAGTA
1 AGACCCGATGACTACGTGTGGAGATTATGTCCG-GTA
* *
49272413 AGACCCGATGACTACGTGTGGAGAGTATGTCCGGGTC
1 AGACCCGATGACTACGTGTGGAGATTATGTCC-GGTA
* *
49272450 AGACCCGATAACTTCGTGTGGAGATT
1 AGACCCGATGACTACGTGTGGAGATT
49272476 TCGTCTGAGC
Statistics
Matches: 93, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
36 1 0.01
37 91 0.98
38 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.31, T:0.24
Consensus pattern (36 bp):
AGACCCGATGACTACGTGTGGAGATTATGTCCGGTA
Found at i:49273800 original size:40 final size:40
Alignment explanation
Indices: 49273745--49274296 Score: 890
Period size: 40 Copynumber: 13.8 Consensus size: 40
49273735 GAGAATTGAG
* *
49273745 AGTGATATACCCGGGCTAAATCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAATCCCGAAGAGCATTCGTGCT
* *
49273785 AGTGATATATCCGGGCTAAATCCCGAAGAGCATTCGTCCT
1 AGTGATGTATCCGGGCTAAATCCCGAAGAGCATTCGTGCT
* *
49273825 AGTGATATATCCAGGCTAAATCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAATCCCGAAGAGCATTCGTGCT
*
49273865 AGTGATGTATCCGGAC-AAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAA-TCCCGAAGAGCATTCGTGCT
* *
49273905 AGTGATATATCCGGGCTAAATCCTGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAATCCCGAAGAGCATTCGTGCT
49273945 AGTGATGTATCCGGGCTAAATCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAATCCCGAAGAGCATTCGTGCT
* *
49273985 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAATCCCGAAGAGCATTCGTGCT
* *
49274025 AGTGATATATCCGGGCTAAATCCTGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAATCCCGAAGAGCATTCGTGCT
* *
49274065 AGTGATGTATCCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAATCCCGAAGAGCATTCGTGCT
*
49274105 AGTGATCTATCCGGGCTAAATCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAATCCCGAAGAGCATTCGTGCT
49274145 AGTGATGTATCCGGGCTAAATCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAATCCCGAAGAGCATTCGTGCT
* * *
49274185 AGTGATGTATCTGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAATCCCGAAGAGCATTCGTGCT
*
49274225 AGTGATATATCCGGGCTAAATCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAATCCCGAAGAGCATTCGTGCT
**
49274265 AGTGATGTATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGGCTAAATCCCGAAGAGCA
49274297 ATCATGCTGG
Statistics
Matches: 474, Mismatches: 36, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
39 3 0.01
40 468 0.99
41 3 0.01
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
AGTGATGTATCCGGGCTAAATCCCGAAGAGCATTCGTGCT
Found at i:49278127 original size:47 final size:47
Alignment explanation
Indices: 49278068--49278300 Score: 331
Period size: 47 Copynumber: 5.0 Consensus size: 47
49278058 TTAGGATTTT
* ** *
49278068 ATGTAATGAATGTGAATGTGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
49278115 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCT
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
49278162 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCAAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
49278209 ATGTGATGAACGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
49278256 ATATGGTGAATATGAATATGCATATATGTGGTAAAGCCGAATGGC
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
49278301 TAGTGTGAAA
Statistics
Matches: 166, Mismatches: 20, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 166 1.00
ACGTcount: A:0.33, C:0.12, G:0.28, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:49278215 original size:22 final size:22
Alignment explanation
Indices: 49278093--49278215 Score: 61
Period size: 22 Copynumber: 5.3 Consensus size: 22
49278083 ATGTGTATAT
*
49278093 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCAAATGGCCA
* ** *
49278115 ATGTGATGAATGTGAACAT-GCATA
1 ATGTGAT-AAGGCCAA-ATGGC-CA
* *
49278139 TATGTGATAAGGCCGAATGGCCT
1 -ATGTGATAAGGCCAAATGGCCA
* ** *
49278162 ATGTGATGAATGTGAACAT-GCATA
1 ATGTGAT-AAGGCCAA-ATGGC-CA
49278186 TATGTGATAAGGCCAAATGGCCA
1 -ATGTGATAAGGCCAAATGGCCA
49278209 ATGTGAT
1 ATGTGAT
49278216 GAACGTGAGC
Statistics
Matches: 70, Mismatches: 21, Indels: 20
0.63 0.19 0.18
Matches are distributed among these distances:
22 21 0.30
23 17 0.24
24 18 0.26
25 14 0.20
ACGTcount: A:0.33, C:0.13, G:0.28, T:0.26
Consensus pattern (22 bp):
ATGTGATAAGGCCAAATGGCCA
Found at i:49278687 original size:37 final size:37
Alignment explanation
Indices: 49278463--49278680 Score: 348
Period size: 37 Copynumber: 5.9 Consensus size: 37
49278453 GGAAATATAT
* *
49278463 TCCGGGTGAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
49278500 TCCGGGTAAGACCCGATAACTACATGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
49278537 TCCAGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
49278574 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
49278611 TCCGGGTAAGA-CCGATGACTACGTGTGGAGAGTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
49278647 TCTGGGTAAGACCCGATAACTTCGTGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
49278681 TCGTCTGAGC
Statistics
Matches: 167, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
36 34 0.20
37 133 0.80
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:49289480 original size:31 final size:31
Alignment explanation
Indices: 49289440--49289522 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
49289430 TCAGTCTCGA
49289440 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
49289470 CATATCACTGGGGCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
49289501 CATATCACT-GGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
49289523 ACTGTAAGCG
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
30 17 0.34
31 33 0.66
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:49290643 original size:27 final size:27
Alignment explanation
Indices: 49290602--49290675 Score: 89
Period size: 27 Copynumber: 2.7 Consensus size: 27
49290592 ATATTCGTCA
* *
49290602 TTTTACCATAGAGGGGTATTACGGTCG
1 TTTTACCCTATAGGGGTATTACGGTCG
*
49290629 TTTTACCCTATAGGGGCT-TTACGGTCT
1 TTTTACCCTATAGGGG-TATTACGGTCG
49290656 TTTTA-CCTATTAGGGGTATT
1 TTTTACCCTA-TAGGGGTATT
49290676 TTAGTCATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
26 5 0.12
27 35 0.85
28 1 0.02
ACGTcount: A:0.19, C:0.16, G:0.24, T:0.41
Consensus pattern (27 bp):
TTTTACCCTATAGGGGTATTACGGTCG
Found at i:49290764 original size:40 final size:40
Alignment explanation
Indices: 49290720--49290795 Score: 125
Period size: 40 Copynumber: 1.9 Consensus size: 40
49290710 ATCTACAAAC
*
49290720 CAAGGGTATTTCAGTAATTTTGTAAACCAATGGTATAAGT
1 CAAGGGTATTTCAGTAATTTTGTAAACCAAGGGTATAAGT
* *
49290760 CAAGGGTATTTCTGTAATTTTGTAAATCAAGGGTAT
1 CAAGGGTATTTCAGTAATTTTGTAAACCAAGGGTAT
49290796 TTTGGTAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.33, C:0.09, G:0.21, T:0.37
Consensus pattern (40 bp):
CAAGGGTATTTCAGTAATTTTGTAAACCAAGGGTATAAGT
Found at i:49290813 original size:27 final size:27
Alignment explanation
Indices: 49290759--49290886 Score: 136
Period size: 27 Copynumber: 4.7 Consensus size: 27
49290749 ATGGTATAAG
**
49290759 TCAAGGGTATTTCT-GTAATTTTGTAAA
1 TCAAGGGTATTT-TGGTAATTTTACAAA
49290786 TCAAGGGTATTTTGGTAATTTTACAAA
1 TCAAGGGTATTTTGGTAATTTTACAAA
** * *
49290813 TTGAGTGTATTTTGGTAATTTCACAAA
1 TCAAGGGTATTTTGGTAATTTTACAAA
* *
49290840 -CCAGTGGTATTTTGGTAATTTTACGAA
1 TCAAG-GGTATTTTGGTAATTTTACAAA
49290867 -CTAAGGGTATTTTGGTAATT
1 TC-AAGGGTATTTTGGTAATT
49290887 CTACCCTATA
Statistics
Matches: 86, Mismatches: 12, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
26 3 0.03
27 81 0.94
28 2 0.02
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.43
Consensus pattern (27 bp):
TCAAGGGTATTTTGGTAATTTTACAAA
Found at i:49290952 original size:27 final size:27
Alignment explanation
Indices: 49290918--49291009 Score: 139
Period size: 27 Copynumber: 3.4 Consensus size: 27
49290908 GTAATTTCAC
* *
49290918 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
*
49290945 AATTGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
* *
49290972 AATCAAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACAGTAATTCTGTA
49290999 AATCGAGGGTA
1 AATCGAGGGTA
49291010 CTTTGGTAAT
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.41, C:0.09, G:0.23, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACAGTAATTCTGTA
Found at i:49294272 original size:20 final size:20
Alignment explanation
Indices: 49294247--49294292 Score: 92
Period size: 20 Copynumber: 2.3 Consensus size: 20
49294237 ACGGGGTGAC
49294247 CACACGGGCTTGTCCCAATG
1 CACACGGGCTTGTCCCAATG
49294267 CACACGGGCTTGTCCCAATG
1 CACACGGGCTTGTCCCAATG
49294287 CACACG
1 CACACG
49294293 TACTTGGTCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.22, C:0.37, G:0.24, T:0.17
Consensus pattern (20 bp):
CACACGGGCTTGTCCCAATG
Found at i:49294298 original size:20 final size:20
Alignment explanation
Indices: 49294247--49294303 Score: 78
Period size: 20 Copynumber: 2.8 Consensus size: 20
49294237 ACGGGGTGAC
*
49294247 CACACGGGCTTGTCCCAATG
1 CACACGGACTTGTCCCAATG
*
49294267 CACACGGGCTTGTCCCAATG
1 CACACGGACTTGTCCCAATG
*
49294287 CACACGTACTTGGTCCC
1 CACACGGACTT-GTCCC
49294304 GAACCTTTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
20 29 0.85
21 5 0.15
ACGTcount: A:0.19, C:0.37, G:0.23, T:0.21
Consensus pattern (20 bp):
CACACGGACTTGTCCCAATG
Found at i:49299440 original size:11 final size:11
Alignment explanation
Indices: 49299424--49299449 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
49299414 AAAATAGGGC
49299424 TTTAGCGGCGT
1 TTTAGCGGCGT
49299435 TTTAGCGGCGT
1 TTTAGCGGCGT
49299446 TTTA
1 TTTA
49299450 TCAAAAAACG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.12, C:0.15, G:0.31, T:0.42
Consensus pattern (11 bp):
TTTAGCGGCGT
Found at i:49299612 original size:41 final size:41
Alignment explanation
Indices: 49299546--49299680 Score: 191
Period size: 41 Copynumber: 3.3 Consensus size: 41
49299536 TTTTTTGTTA
* * * *
49299546 AAACGCGGCTAAA-AACAGAGCATTAGCAGTGCTTTTGGTG
1 AAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTTTGGTG
*
49299586 AGACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTTTGGTG
1 AAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTTTGGTG
* *
49299627 AAACGCCGCTAAAGACTAGAGCATTAGCGGCGCTTTTGGTA
1 AAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTTTGGTG
*
49299668 AAACGCCACTAAA
1 AAACGCCGCTAAA
49299681 ATTCATGTAA
Statistics
Matches: 85, Mismatches: 9, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
40 11 0.13
41 74 0.87
ACGTcount: A:0.31, C:0.22, G:0.27, T:0.20
Consensus pattern (41 bp):
AAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTTTGGTG
Found at i:49300321 original size:24 final size:24
Alignment explanation
Indices: 49300294--49300342 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
49300284 CATATATTTA
49300294 TTAAAAGTTTATATAAAAATTAAT
1 TTAAAAGTTTATATAAAAATTAAT
49300318 TTAAAAGTTTATATAAAAATTAAT
1 TTAAAAGTTTATATAAAAATTAAT
49300342 T
1 T
49300343 GTTATTTTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (24 bp):
TTAAAAGTTTATATAAAAATTAAT
Found at i:49300920 original size:14 final size:13
Alignment explanation
Indices: 49300871--49300922 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 13
49300861 TTAATTTTTT
49300871 TATTTATAAAAACCA
1 TATTTATAAAAA--A
49300886 -ATTTATAAAAAA
1 TATTTATAAAAAA
* *
49300898 TAATAATAAAAAA
1 TATTTATAAAAAA
49300911 TATTTTATAAAA
1 TA-TTTATAAAA
49300923 TTACTTAACT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
12 1 0.03
13 12 0.39
14 18 0.58
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (13 bp):
TATTTATAAAAAA
Found at i:49304593 original size:6 final size:6
Alignment explanation
Indices: 49304553--49304606 Score: 56
Period size: 6 Copynumber: 8.7 Consensus size: 6
49304543 ATTTAATCTA
* *
49304553 ATTTTT ATTATTT A-TTTT AGTTTTG ATTCTAT ATTTTT ATTTTT ATTTTT
1 ATTTTT ATT-TTT ATTTTT A-TTTTT ATT-TTT ATTTTT ATTTTT ATTTTT
49304603 ATTT
1 ATTT
49304607 GATAATGAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
5 4 0.10
6 24 0.60
7 12 0.30
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.74
Consensus pattern (6 bp):
ATTTTT
Found at i:49304708 original size:13 final size:12
Alignment explanation
Indices: 49304686--49304715 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
49304676 TGAATTTTAA
49304686 TTTTTTTTATTT
1 TTTTTTTTATTT
49304698 TTTTATTTTATTT
1 TTTT-TTTTATTT
49304711 TTTTT
1 TTTTT
49304716 AAATTTCATG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (12 bp):
TTTTTTTTATTT
Found at i:49304870 original size:43 final size:43
Alignment explanation
Indices: 49304722--49304863 Score: 223
Period size: 43 Copynumber: 3.3 Consensus size: 43
49304712 TTTTAAATTT
* *
49304722 CATGACCTTTAGGGGCGTTT-TGGGGAAAAGCGCCGCTACAGGC
1 CATGACCTTTAGCGGCGTTTGT-GGGAAAAGCGCCGCTAAAGGC
*
49304765 CATGACCTTTAGCGGTGTTTGTGGGAAAAGCGCCGCTAAAGGC
1 CATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGC
**
49304808 CATGAATTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGC
1 CATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGC
49304851 CATGACCTTTAGC
1 CATGACCTTTAGC
49304864 AACGTTTTTT
Statistics
Matches: 90, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
43 89 0.99
44 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (43 bp):
CATGACCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGC
Found at i:49313750 original size:27 final size:26
Alignment explanation
Indices: 49313715--49313827 Score: 118
Period size: 27 Copynumber: 4.2 Consensus size: 26
49313705 AGCATGGCTG
* *
49313715 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
* *
49313741 CCAGATACAGATAATCGTGGTAGAACCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
49313769 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
49313796 CCAGATCAAATAATTTGTGGCATAGCCA
1 CCAGAACAGATAA--TGTGGCAGAGCCA
49313824 CCAG
1 CCAG
49313828 GACGCTTCCT
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
26 6 0.08
27 36 0.49
28 31 0.42
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:49313825 original size:55 final size:54
Alignment explanation
Indices: 49313715--49313827 Score: 138
Period size: 55 Copynumber: 2.1 Consensus size: 54
49313705 AGCATGGCTG
* * *
49313715 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGTAGAACCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGATACAAATAATCGTGGCAGAACCA
* * * *
49313769 CCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAAATAATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGATACAAATAA-TCGTGGCAGAACCA
49313824 CCAG
1 CCAG
49313828 GACGCTTCCT
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
54 18 0.36
55 32 0.64
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.18
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGATACAAATAATCGTGGCAGAACCA
Found at i:49313971 original size:25 final size:25
Alignment explanation
Indices: 49313929--49313976 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
49313919 GACAAAATTA
*
49313929 ACCTAGGGGCATATTGGTCATTTAC
1 ACCTAGGGGCATATTGGTAATTTAC
*
49313954 ACCTAGGGGTATCA-TGGTAATTT
1 ACCTAGGGGCAT-ATTGGTAATTT
49313977 TCCATACATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 19 0.95
26 1 0.05
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
ACCTAGGGGCATATTGGTAATTTAC
Found at i:49315270 original size:24 final size:24
Alignment explanation
Indices: 49315243--49315313 Score: 115
Period size: 24 Copynumber: 3.0 Consensus size: 24
49315233 CTAGATTTCC
** *
49315243 TCCCTTATCTGCTCCTAAATTCTA
1 TCCCTTATCAACTCCTAAATCCTA
49315267 TCCCTTATCAACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
49315291 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
49315314 CTCCTGATAG
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.25, C:0.37, G:0.01, T:0.37
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:49319146 original size:29 final size:29
Alignment explanation
Indices: 49319112--49319185 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 29
49319102 TCATCAACCA
*
49319112 CGCACACTTAGTGCCATGTACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAACT
* **
49319141 CGCACACTCAGTGCCATGCATTTCAAGTT
1 CGCACACTTAGTGCCATGCATTTCAAACT
*
49319170 CGCACACCTAGTGCCA
1 CGCACACTTAGTGCCA
49319186 ATCTCACAAC
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
28 3 0.08
29 35 0.92
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAACT
Found at i:49327239 original size:29 final size:29
Alignment explanation
Indices: 49327205--49327278 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
49327195 TCATCAACCA
*
49327205 CGCACACTTAGTGCCATGTACTTT-AAACT
1 CGCACACTTAGTGCCATGCA-TTTCAAACT
**
49327234 CGCACACTTAGTGCCATGCATTTCAAGTT
1 CGCACACTTAGTGCCATGCATTTCAAACT
*
49327263 CGCACACCTAGTGCCA
1 CGCACACTTAGTGCCA
49327279 ATCTCACAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 3 0.08
29 37 0.93
ACGTcount: A:0.26, C:0.31, G:0.16, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCATTTCAAACT
Found at i:49337322 original size:31 final size:31
Alignment explanation
Indices: 49337282--49337340 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
49337272 TTACTTTAAT
* *
49337282 TTGGTCAATTTTGGTCACTATATTTTTTGAA
1 TTGGACAATTTTAGTCACTATATTTTTTGAA
* *
49337313 TTGGACAATTTTAGTCATTGTATTTTTT
1 TTGGACAATTTTAGTCACTATATTTTTT
49337341 TTTTAAAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.22, C:0.08, G:0.15, T:0.54
Consensus pattern (31 bp):
TTGGACAATTTTAGTCACTATATTTTTTGAA
Found at i:49337709 original size:21 final size:23
Alignment explanation
Indices: 49337663--49337711 Score: 68
Period size: 20 Copynumber: 2.3 Consensus size: 23
49337653 TTAAAATTTT
49337663 AAAAATATAAAAGTTAAAATAAC
1 AAAAATATAAAAGTTAAAATAAC
49337686 AAAAAT-T-AAAG-TAAAATAAC
1 AAAAATATAAAAGTTAAAATAAC
*
49337706 CAAAAT
1 AAAAAT
49337712 TACAACTTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 14 0.56
21 4 0.16
22 1 0.04
23 6 0.24
ACGTcount: A:0.69, C:0.06, G:0.04, T:0.20
Consensus pattern (23 bp):
AAAAATATAAAAGTTAAAATAAC
Found at i:49340496 original size:6 final size:6
Alignment explanation
Indices: 49340482--49340511 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
49340472 AATTTATGGC
*
49340482 TAATCA TAATTA TAATTA TAATTA TAATTA
1 TAATTA TAATTA TAATTA TAATTA TAATTA
49340512 ATATATTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (6 bp):
TAATTA
Found at i:49340523 original size:15 final size:13
Alignment explanation
Indices: 49340487--49340530 Score: 54
Period size: 12 Copynumber: 3.3 Consensus size: 13
49340477 ATGGCTAATC
49340487 ATAATTATAATT-
1 ATAATTATAATTA
49340499 ATAATTATAATTA
1 ATAATTATAATTA
*
49340512 ATATATTAATAAATA
1 ATA-ATT-ATAATTA
49340527 ATAA
1 ATAA
49340531 ATAAGTTAGC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
12 12 0.43
13 3 0.11
14 4 0.14
15 9 0.32
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
ATAATTATAATTA
Found at i:49342792 original size:25 final size:23
Alignment explanation
Indices: 49342734--49342793 Score: 59
Period size: 25 Copynumber: 2.5 Consensus size: 23
49342724 GTGCGTGAGT
** *
49342734 GAAGAAGAAGAAAGGGGGAAGGA
1 GAAGAAGAAGAAAGGAAGAAGAA
49342757 GAAG-AGAAAGAGAAGAGAAGAAGAA
1 GAAGAAG-AAGA-AAG-GAAGAAGAA
49342782 GAAGAAGAAGAA
1 GAAGAAGAAGAA
49342794 GGAGTAGGCG
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
22 2 0.07
23 8 0.27
24 4 0.13
25 14 0.47
26 2 0.07
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (23 bp):
GAAGAAGAAGAAAGGAAGAAGAA
Found at i:49343719 original size:147 final size:142
Alignment explanation
Indices: 49343328--49344479 Score: 1402
Period size: 142 Copynumber: 8.1 Consensus size: 142
49343318 AAGAAATTTG
* * * * *
49343328 AAAAT-AAAAAA-GGTCAAAATCAGAGTTTTTTTTCTAAATTAATATAAATATACTAAAATAATA
1 AAAATAAAAAAACGGCCAAAATCAGAG-ATTTTTACTAAATTAATATAAAAAAACTAAAATAATA
*
49343391 CATATGAAACATTATGTACTAAAAT-A-ATAAAAAATAAAATACAAAAATAGTATATTTTGAAAA
65 CAT-TGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTT-AAAA
*
49343454 ATAAAATCCGAAAATA
128 AAAAAATCCGAAAA-A
*
49343470 AAATAAAAAACAAACGGCCAAAATCAGA-ATTTTTTACTAAATTAATATAAAAAAACTAAAATAA
1 AAA-ATAAAA-AAACGGCCAAAATCAGAGA-TTTTTACTAAATTAATATAAAAAAACTAAAATAA
* *
49343534 TACCTTTAAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAA
63 TA-CATTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAA
49343599 ATAAAAAATCCGAAAAA
127 A-AAAAAATCCGAAAAA
* ** *
49343616 AAAATAAAAAAA-GGCCAAAACCACTGATTTTTACTAAATTAATATAAAAAAAGTAAAATAATAC
1 AAAATAAAAAAACGGCCAAAATCAGAGATTTTTACTAAATTAATATAAAAAAACTAAAATAATAC
* *
49343680 A-TGAAACATTATGTACTAAAATAATATAAAAAAATAAAATACGAAAATAATATATCTTAAAAAA
66 ATTGAAACATTATGTACTAAAATAATAT-AAAAAATAAAATACGAAAATAGTATATTTTAAAAAA
49343744 TAAAA-CCTGAAAATA
130 -AAAATCC-GAAAA-A
* * *
49343759 AAAAT-AAAAAA-GGCCAAAATCAGAGTTTTTTTCTAAATTAATATAAAAAAACTAAAATAACAC
1 AAAATAAAAAAACGGCCAAAATCAGAGATTTTTACTAAATTAATATAAAAAAACTAAAATAATAC
*
49343822 ATTTGAAACATTATATACTAAAATAATATAAAAAAATAAAATACGAAAATAGTATATTTTAAAAA
66 A-TTGAAACATTATGTACTAAAATAATAT-AAAAAATAAAATACGAAAATAGTATATTTTAAAAA
*
49343887 ATAAAATCCGAAAAC
129 A-AAAATCCGAAAAA
*
49343902 AAAATAAATAAAACGGCCAAAATCACAGATTTTTACTAAATTAATAT-AAAAAACTAAAATAATA
1 AAAATAAA-AAAACGGCCAAAATCAGAGATTTTTACTAAATTAATATAAAAAAACTAAAATAATA
* *
49343966 -AATGAAACATTATGTACTATAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAA
65 CATTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAA
*
49344030 TAAAATTC-AAAAA
130 -AAAATCCGAAAAA
* * * * *
49344043 TAAAA-AATAAAAAGGGCCAAAATCAGAGTTTTTTTTTCTATATTCATATAAAAAAACTAAAATA
1 -AAAATAA-AAAAACGGCCAAAATCAGAG--ATTTTTACTAAATTAATATAAAAAAACTAAAATA
* *
49344107 ATACATTTTAAATATTATGTACTAAAATAATATAAAAAACATAAAATACGAAAATAGTATA-TTT
62 ATACA-TTGAAACATTATGTACTAAAATAATAT-AAAAA-ATAAAATACGAAAATAGTATATTTT
49344171 ---AAAAAAAT----AAAA
124 AAAAAAAAAATCCGAAAAA
* * *
49344183 TAAA-AAATAAACGGCCAAAATCAGAG-TTTTTATTAAATTAATATAAAAAAACTAAAATAATAC
1 AAAATAAAAAAACGGCCAAAATCAGAGATTTTTACTAAATTAATATAAAAAAACTAAAATAATAC
* * *
49344246 ATTTGGAACATTATGTACTAAAATAATATAAAAAATAAAATATGAAAATAGTTTATTTTAAAAAG
66 A-TTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAA-
*
49344311 TAAAATCCGAGAATAA
129 AAAAATCCGA-AA-AA
* * * *
49344327 AATAA-AAAACAAACGGTCAAAATCAGAGTTTTTTATTAAATTAATATAAAAAATACAAAAATAA
1 AA-AATAAAA-AAACGGCCAAAATCAGAGATTTTTACTAAATTAATATAAAAAA-ACTAAAATAA
*
49344391 TACATTTGAAACATTATGTACTAAAATAATAT-AAAAATAAAATACGAAAATAATATATTTTAAT
63 TACA-TTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAA-
* *
49344455 AAATAAAATCCGAAAAT
126 AAAAAAAATCCGAAAAA
49344472 AAAATAAA
1 AAAATAAA
49344480 TACCAAAATA
Statistics
Matches: 893, Mismatches: 71, Indels: 89
0.85 0.07 0.08
Matches are distributed among these distances:
133 19 0.02
134 8 0.01
135 59 0.07
137 2 0.00
138 23 0.03
139 5 0.01
140 4 0.00
141 52 0.06
142 145 0.16
143 103 0.12
144 105 0.12
145 95 0.11
146 95 0.11
147 114 0.13
148 64 0.07
ACGTcount: A:0.59, C:0.08, G:0.06, T:0.28
Consensus pattern (142 bp):
AAAATAAAAAAACGGCCAAAATCAGAGATTTTTACTAAATTAATATAAAAAAACTAAAATAATAC
ATTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAAA
AAATCCGAAAAA
Found at i:49343898 original size:286 final size:287
Alignment explanation
Indices: 49343328--49344479 Score: 1555
Period size: 286 Copynumber: 4.0 Consensus size: 287
49343318 AAGAAATTTG
* * * *
49343328 AAAAT-AAAAAAGGTCAAAATCA-GAGTTTTTTTTCTAAATTAATATAAATATACTAAAATAATA
1 AAAATAAAAAAAGGCCAAAATCACGA---TTTTTACTAAATTAATATAAAAAAACTAAAATAATA
* *
49343391 CATATGAAACATTATGTACTAAAAT-A-ATAAAAAATAAAATACAAAAATAGTATATTTTGAAAA
63 C--ATGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAA
* *
49343454 ATAAAATCCGAAAATAAAATAAAAAACAAACGGCCAAAATCAGAATTTTTTACTAAATTAATATA
126 ATAAAATCCGAAAATAAAATAAAAAACAAACGGCCAAAATCAGAGTTTTTTTCTAAATTAATATA
* *
49343519 AAAAAACTAAAATAATACCTTTAAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAA
191 AAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAA
49343584 ATAGTATATTTTAAAATAA-AAAATCCGAAAAA
256 ATAGTATATTTTAAAA-AATAAAATCCGAAAAA
* *
49343616 AAAATAAAAAAAGGCCAAAACCACTGATTTTTACTAAATTAATATAAAAAAAGTAAAATAATACA
1 AAAATAAAAAAAGGCCAAAATCAC-GATTTTTACTAAATTAATATAAAAAAACTAAAATAATACA
* *
49343681 TGAAACATTATGTACTAAAATAATATAAAAAAATAAAATACGAAAATAATATATCTTAAAAAATA
65 TGAAACATTATGTACTAAAATAATAT-AAAAAATAAAATACGAAAATAGTATATTTTAAAAAATA
*
49343746 AAA-CCTGAAAAT-AAA-AATAAA-AAA-GGCCAAAATCAGAGTTTTTTTCTAAATTAATATAAA
129 AAATCC-GAAAATAAAATAAAAAACAAACGGCCAAAATCAGAGTTTTTTTCTAAATTAATATAAA
* *
49343806 AAAACTAAAATAACACATTTGAAACATTATATACTAAAATAATATAAAAAAATAAAATACGAAAA
193 AAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATAT-AAAAAATAAAATACGAAAA
*
49343871 TAGTATATTTTAAAAAATAAAATCCGAAAAC
257 TAGTATATTTTAAAAAATAAAATCCGAAAAA
49343902 AAAATAAATAAAACGGCCAAAATCACAGATTTTTACTAAATTAATAT-AAAAAACTAAAATAATA
1 AAAATAAA-AAAA-GGCCAAAATCAC-GATTTTTACTAAATTAATATAAAAAAACTAAAATAATA
* *
49343966 AATGAAACATTATGTACTATAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAAT
63 CATGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAAT
* * * * * *
49344031 AAAATTCAAAAAT-AAA-AAATAA-AAAGGGCCAAAATCAGAGTTTTTTTTTCTATATTCATATA
128 AAAATCCGAAAATAAAATAAAAAACAAACGGCCAAAATCAGAG--TTTTTTTCTAAATTAATATA
* *
49344093 AAAAAACTAAAATAATACATTTTAAATATTATGTACTAAAATAATATAAAAAACATAAAATACGA
191 AAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATAT-AAAAA-ATAAAATACGA
*
49344158 AAATAGTATATTTAAAAAAATAAAAT------AA
254 AAATAGTATATTTTAAAAAATAAAATCCGAAAAA
* *
49344186 AAAAT---AAACGGCCAAAATCA-GAGTTTTTATTAAATTAATATAAAAAAACTAAAATAATACA
1 AAAATAAAAAAAGGCCAAAATCACGA-TTTTTACTAAATTAATATAAAAAAACTAAAATAATACA
* * * *
49344247 TTTGGAACATTATGTACTAAAATAATATAAAAAATAAAATATGAAAATAGTTTATTTTAAAAAGT
65 --TGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAAT
* *
49344312 AAAATCCGAGAATAAAATAAAAAACAAACGGTCAAAATCAGAGTTTTTTAT-TAAATTAATATAA
128 AAAATCCGAAAATAAAATAAAAAACAAACGGCCAAAATCAGAGTTTTTT-TCTAAATTAATATAA
*
49344376 AAAATACAAAAATAATACATTTGAAACATTATGTACTAAAATAATAT-AAAAATAAAATACGAAA
192 AAAA-ACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAA
* * *
49344440 ATAATATATTTTAATAAATAAAATCCGAAAAT
256 ATAGTATATTTTAAAAAATAAAATCCGAAAAA
49344472 AAAATAAA
1 AAAATAAA
49344480 TACCAAAATA
Statistics
Matches: 770, Mismatches: 60, Indels: 67
0.86 0.07 0.07
Matches are distributed among these distances:
277 2 0.00
278 17 0.02
279 29 0.04
280 37 0.05
281 72 0.09
282 24 0.03
283 45 0.06
284 22 0.03
285 77 0.10
286 139 0.18
287 67 0.09
288 76 0.10
289 125 0.16
290 36 0.05
291 2 0.00
ACGTcount: A:0.59, C:0.08, G:0.06, T:0.28
Consensus pattern (287 bp):
AAAATAAAAAAAGGCCAAAATCACGATTTTTACTAAATTAATATAAAAAAACTAAAATAATACAT
GAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTATATTTTAAAAAATAAA
ATCCGAAAATAAAATAAAAAACAAACGGCCAAAATCAGAGTTTTTTTCTAAATTAATATAAAAAA
ACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGT
ATATTTTAAAAAATAAAATCCGAAAAA
Found at i:49350800 original size:25 final size:23
Alignment explanation
Indices: 49350756--49350801 Score: 56
Period size: 25 Copynumber: 1.9 Consensus size: 23
49350746 ATAAATTTTA
*
49350756 AAACAAAATATAAAAGTAACACT
1 AAACAAAATATAAAACTAACACT
*
49350779 AAACAAACTATATAATACTAACA
1 AAACAAA--ATATAAAACTAACA
49350802 AAATAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 7 0.37
25 12 0.63
ACGTcount: A:0.63, C:0.15, G:0.02, T:0.20
Consensus pattern (23 bp):
AAACAAAATATAAAACTAACACT
Found at i:49351027 original size:27 final size:27
Alignment explanation
Indices: 49350997--49351051 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
49350987 GAAAAAGGCA
*
49350997 CCACTGGTGCCGCCTGTGGGGTACCCT
1 CCACTGGTGCCGCCTGTGGAGTACCCT
49351024 CCACTGGTGCCGCCTGTGGAGTACCCT
1 CCACTGGTGCCGCCTGTGGAGTACCCT
49351051 C
1 C
49351052 TACCCATATT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.09, C:0.38, G:0.31, T:0.22
Consensus pattern (27 bp):
CCACTGGTGCCGCCTGTGGAGTACCCT
Found at i:49352059 original size:13 final size:13
Alignment explanation
Indices: 49352041--49352069 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
49352031 GATCCATTGT
49352041 ATTTTATATATAA
1 ATTTTATATATAA
49352054 ATTTTATATATAA
1 ATTTTATATATAA
49352067 ATT
1 ATT
49352070 ATCATGTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
ATTTTATATATAA
Found at i:49354998 original size:40 final size:40
Alignment explanation
Indices: 49354945--49355129 Score: 327
Period size: 40 Copynumber: 4.6 Consensus size: 40
49354935 ACTACTTGCT
*
49354945 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
49354985 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
49355025 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
49355065 CAAATGCCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
49355105 CAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
49355130 TTATCATCCG
Statistics
Matches: 141, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
39 1 0.01
40 140 0.99
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:49362998 original size:40 final size:40
Alignment explanation
Indices: 49362953--49363135 Score: 275
Period size: 40 Copynumber: 4.6 Consensus size: 40
49362943 ACTACTTGCT
* *
49362953 CAAATGCCTTTGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
49362993 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACT--CA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
49363031 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
49363071 CAAATGCCTTCGGGACTTAGCCCGGA-ATTAG-ACACTAGCG
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTA-ACTCGCA
49363111 CAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
49363136 TTATCATCCG
Statistics
Matches: 133, Mismatches: 6, Indels: 8
0.90 0.04 0.05
Matches are distributed among these distances:
38 38 0.29
39 2 0.02
40 93 0.70
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:49363051 original size:78 final size:79
Alignment explanation
Indices: 49362953--49363139 Score: 290
Period size: 78 Copynumber: 2.4 Consensus size: 79
49362943 ACTACTTGCT
*
49362953 CAAATGCCTTTGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
49363018 -ATATAGTA-ACT-CA
66 AAT-TAG-ACACTACA
* *
49363031 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGTACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
49363096 AATTAGACACTAGCG
66 AATTAGACACTA-CA
49363111 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
49363140 CATCCGAATA
Statistics
Matches: 100, Mismatches: 5, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
77 1 0.01
78 68 0.68
79 2 0.02
80 29 0.29
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
AATTAGACACTACA
Found at i:49365133 original size:54 final size:54
Alignment explanation
Indices: 49365074--49365180 Score: 196
Period size: 54 Copynumber: 2.0 Consensus size: 54
49365064 ACTAAAAATT
* *
49365074 AATTATCTTTTCATATGGGATTCGAATGATGTTCTTGTTTGTTTCTTTTGAAAG
1 AATTATCTTTTCATATGGGATTCAAATGATGTTCCTGTTTGTTTCTTTTGAAAG
49365128 AATTATCTTTTCATATGGGATTCAAATGATGTTCCTGTTTGTTTCTTTTGAAA
1 AATTATCTTTTCATATGGGATTCAAATGATGTTCCTGTTTGTTTCTTTTGAAA
49365181 ATATACTCAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.23, C:0.10, G:0.17, T:0.50
Consensus pattern (54 bp):
AATTATCTTTTCATATGGGATTCAAATGATGTTCCTGTTTGTTTCTTTTGAAAG
Found at i:49366125 original size:34 final size:34
Alignment explanation
Indices: 49365929--49366121 Score: 269
Period size: 34 Copynumber: 5.6 Consensus size: 34
49365919 GGTTTTCCTC
* * * * *
49365929 ATGGAAAATGCCATACCTATGTTTCATAACTCAGT
1 ATGG-AAATACCATACCTACGTATCATAGCTCGGT
* *
49365964 ATGGAAAATACCAGACCTACGTATCATAGCTCGAT
1 ATGG-AAATACCATACCTACGTATCATAGCTCGGT
49365999 ATGGAAATACCATACCTACGTATCATAGCTCGGT
1 ATGGAAATACCATACCTACGTATCATAGCTCGGT
*
49366033 GTGGAAATACCATACCTACGTATCATAGCTCGGT
1 ATGGAAATACCATACCTACGTATCATAGCTCGGT
* * *
49366067 ATGGAAATACCATACCTACATTTCATAGCTTGGT
1 ATGGAAATACCATACCTACGTATCATAGCTCGGT
49366101 ATGGAAATACCATACCTACGT
1 ATGGAAATACCATACCTACGT
49366122 TTCACATTTT
Statistics
Matches: 143, Mismatches: 15, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
34 111 0.78
35 32 0.22
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (34 bp):
ATGGAAATACCATACCTACGTATCATAGCTCGGT
Found at i:49366464 original size:16 final size:18
Alignment explanation
Indices: 49366443--49366475 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
49366433 CCATTCATTA
49366443 TAATTCA-TTC-CAATTC
1 TAATTCACTTCACAATTC
49366459 TAATTCACTTCACAATT
1 TAATTCACTTCACAATT
49366476 TATGCCATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 3 0.20
18 5 0.33
ACGTcount: A:0.33, C:0.24, G:0.00, T:0.42
Consensus pattern (18 bp):
TAATTCACTTCACAATTC
Found at i:49370549 original size:38 final size:38
Alignment explanation
Indices: 49370507--49370617 Score: 98
Period size: 38 Copynumber: 2.9 Consensus size: 38
49370497 TCGGATAGTT
*
49370507 CGAAGCAAAGTTGACACCCAGTGTCTCATCGACCTAGC
1 CGAAGAAAAGTTGACACCCAGTGTCTCATCGACCTAGC
* ** ** * *
49370545 CGAAGAAAAGTAG-TGCCCAGTACCTCATCGAATCTATC
1 CGAAGAAAAGTTGACACCCAGTGTCTCATCG-ACCTAGC
* *
49370583 CGAAGTAACAGTATGACACCCAGTGTCTTATCGAC
1 CGAAG-AAAAGT-TGACACCCAGTGTCTCATCGAC
49370618 TCGAGGTCGA
Statistics
Matches: 53, Mismatches: 16, Indels: 6
0.71 0.21 0.08
Matches are distributed among these distances:
37 13 0.25
38 21 0.40
39 5 0.09
40 2 0.04
41 12 0.23
ACGTcount: A:0.32, C:0.28, G:0.20, T:0.21
Consensus pattern (38 bp):
CGAAGAAAAGTTGACACCCAGTGTCTCATCGACCTAGC
Found at i:49371735 original size:17 final size:18
Alignment explanation
Indices: 49371708--49371751 Score: 63
Period size: 17 Copynumber: 2.4 Consensus size: 18
49371698 CCTTCATTTC
49371708 TTTCTTTTATTCTTTTA-G
1 TTTC-TTTATTCTTTTATG
49371726 TTTCTTTATTCTTTTATG
1 TTTCTTTATTCTTTTATG
*
49371744 TTTATTTA
1 TTTCTTTA
49371752 CTTTGTTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 12 0.50
18 12 0.50
ACGTcount: A:0.14, C:0.09, G:0.05, T:0.73
Consensus pattern (18 bp):
TTTCTTTATTCTTTTATG
Found at i:49375440 original size:19 final size:19
Alignment explanation
Indices: 49375416--49375454 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
49375406 TACTCTTTTG
49375416 ATTGTTATAATATTAATTA
1 ATTGTTATAATATTAATTA
49375435 ATTGTTATAATATTAATTA
1 ATTGTTATAATATTAATTA
49375454 A
1 A
49375455 ATTATTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (19 bp):
ATTGTTATAATATTAATTA
Found at i:49375464 original size:19 final size:19
Alignment explanation
Indices: 49375420--49375464 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
49375410 CTTTTGATTG
*
49375420 TTATAATATTAATTAATTG
1 TTATAATATTAATTAATTA
49375439 TTATAATATTAATTAAATTA
1 TTATAATATTAATT-AATTA
49375459 TT-TAAT
1 TTATAAT
49375465 TCGTTTTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (19 bp):
TTATAATATTAATTAATTA
Found at i:49384333 original size:28 final size:28
Alignment explanation
Indices: 49384270--49384367 Score: 128
Period size: 27 Copynumber: 3.5 Consensus size: 28
49384260 ATATTAAGTC
*
49384270 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
49384297 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * *
49384325 CGCACACTTAGTGCTGA-ACAATTTAAACC
1 CGCACACTTAGTGCT-ATATAA-TCAAACT
49384354 CGCACACTTAGTGC
1 CGCACACTTAGTGC
49384368 CAATCTCATG
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
27 22 0.34
28 22 0.34
29 20 0.31
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:49392428 original size:29 final size:28
Alignment explanation
Indices: 49392349--49392418 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 28
49392339 AAGTCTACAT
*
49392349 ACATGCATATGGCCCATTAGGCCCAATC
1 ACATTCATATGGCCCATTAGGCCCAATC
* *
49392377 TCATTCAAATGGCCCATTAGGCCCAAATC
1 ACATTCATATGGCCCATTAGGCCC-AATC
49392406 ACATTCATATGGC
1 ACATTCATATGGC
49392419 TCATCTGGCC
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
28 21 0.58
29 15 0.42
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (28 bp):
ACATTCATATGGCCCATTAGGCCCAATC
Found at i:49396292 original size:29 final size:29
Alignment explanation
Indices: 49396226--49396316 Score: 89
Period size: 29 Copynumber: 3.2 Consensus size: 29
49396216 AAGTCTACAT
* * *
49396226 ACATGCATATGGCCCATTAGACC-CAATC
1 ACATTCATATGGCCCATTAGGCCTAAATC
*
49396254 TCATTCATATGGCCCATTAGGCCTAAATC
1 ACATTCATATGGCCCATTAGGCCTAAATC
* * *
49396283 ACATTTATATGGTCCATCT-GGCCTGAATC
1 ACATTCATATGGCCCAT-TAGGCCTAAATC
49396312 A-ATTC
1 ACATTC
49396317 CCAAGCCATG
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
28 23 0.44
29 28 0.54
30 1 0.02
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (29 bp):
ACATTCATATGGCCCATTAGGCCTAAATC
Found at i:49397780 original size:46 final size:46
Alignment explanation
Indices: 49397658--49397782 Score: 214
Period size: 46 Copynumber: 2.7 Consensus size: 46
49397648 GGTTGAGCAT
* * *
49397658 CCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
49397704 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
49397750 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
49397783 GGGGCGGGTT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 75 1.00
ACGTcount: A:0.21, C:0.23, G:0.28, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:49400134 original size:27 final size:27
Alignment explanation
Indices: 49400104--49400159 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
49400094 TGCGATTGAA
49400104 GCACACACAAAAAAAATGCCCTTACTT
1 GCACACACAAAAAAAATGCCCTTACTT
49400131 GCACACACAAAAAAAATGCCCTTACTT
1 GCACACACAAAAAAAATGCCCTTACTT
49400158 GC
1 GC
49400160 CCTTATCTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.43, C:0.30, G:0.09, T:0.18
Consensus pattern (27 bp):
GCACACACAAAAAAAATGCCCTTACTT
Found at i:49405014 original size:6 final size:7
Alignment explanation
Indices: 49404996--49405025 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
49404986 TAATTAAGTT
49404996 ATTTTTA
1 ATTTTTA
49405003 ATTTTTA
1 ATTTTTA
49405010 ATTTTTA
1 ATTTTTA
49405017 A-TTTTA
1 ATTTTTA
49405023 ATT
1 ATT
49405026 CAGTTAAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (7 bp):
ATTTTTA
Found at i:49405015 original size:14 final size:13
Alignment explanation
Indices: 49404996--49405025 Score: 51
Period size: 13 Copynumber: 2.2 Consensus size: 13
49404986 TAATTAAGTT
49404996 ATTTTTAATTTTTA
1 ATTTTTAA-TTTTA
49405010 ATTTTTAATTTTA
1 ATTTTTAATTTTA
49405023 ATT
1 ATT
49405026 CAGTTAAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.50
14 8 0.50
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
ATTTTTAATTTTA
Found at i:49406615 original size:21 final size:20
Alignment explanation
Indices: 49406579--49406620 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
49406569 CGGGACTAAA
49406579 TCGAAAAAATATAAAATTTT
1 TCGAAAAAATATAAAATTTT
*
49406599 TCGAAAAAAGT-TAAAAATTT
1 TCGAAAAAA-TATAAAATTTT
49406619 TC
1 TC
49406621 AAACAGTAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 19 0.95
21 1 0.05
ACGTcount: A:0.52, C:0.07, G:0.07, T:0.33
Consensus pattern (20 bp):
TCGAAAAAATATAAAATTTT
Found at i:49408669 original size:43 final size:43
Alignment explanation
Indices: 49408515--49408671 Score: 192
Period size: 43 Copynumber: 3.7 Consensus size: 43
49408505 AATTAAGAAC
* *
49408515 TCCGAGCTCGTTGAGCGGTCCGAGTT-AGTGATATATGTGAGAA
1 TCCGAGCTCGTTGAGTGGTCCGAGTTCA-TGATATATGTGAGCA
* * * **
49408558 TCCGAACTTGTTGAGTGGTCCAAGTTTGTGATATATGTG-GCA
1 TCCGAGCTCGTTGAGTGGTCCGAGTTCATGATATATGTGAGCA
* * * *
49408600 TCCGATCTCGTTGAGTAGTCCGAGTTCATTATAGATGTGAGCA
1 TCCGAGCTCGTTGAGTGGTCCGAGTTCATGATATATGTGAGCA
49408643 TCCGAGCTCGTTGAGTGGTCCGAGTTCAT
1 TCCGAGCTCGTTGAGTGGTCCGAGTTCAT
49408672 AATGGATGCG
Statistics
Matches: 96, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
42 33 0.34
43 63 0.66
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.32
Consensus pattern (43 bp):
TCCGAGCTCGTTGAGTGGTCCGAGTTCATGATATATGTGAGCA
Found at i:49413613 original size:13 final size:13
Alignment explanation
Indices: 49413595--49413620 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
49413585 TAAGTTAAAA
49413595 GGACACTCGGGTT
1 GGACACTCGGGTT
49413608 GGACACTCGGGTT
1 GGACACTCGGGTT
49413621 AAGTTAAGGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.23, G:0.38, T:0.23
Consensus pattern (13 bp):
GGACACTCGGGTT
Found at i:49414797 original size:29 final size:28
Alignment explanation
Indices: 49414704--49414798 Score: 68
Period size: 29 Copynumber: 3.3 Consensus size: 28
49414694 GTTTAAGGAC
* * *
49414704 GCCTTTGTGGAAAAAATATGGAAATGTCA
1 GCCTTTGTGGAAAAACTCTGGAAA-GTAA
** *
49414733 GCCTTTGTGG-GGAAC-CTGTTAAAGTACA
1 GCCTTTGTGGAAAAACTCTG-GAAAGTA-A
* *
49414761 ACCATTGTGGAAAAACTCTGGAAAGGTAA
1 GCCTTTGTGGAAAAACTCTGGAAA-GTAA
49414790 GCCTTTGTG
1 GCCTTTGTG
49414799 ACGAACCTCT
Statistics
Matches: 48, Mismatches: 13, Indels: 10
0.68 0.18 0.14
Matches are distributed among these distances:
27 4 0.08
28 14 0.29
29 24 0.50
30 6 0.12
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (28 bp):
GCCTTTGTGGAAAAACTCTGGAAAGTAA
Found at i:49414850 original size:28 final size:28
Alignment explanation
Indices: 49414818--49414883 Score: 96
Period size: 28 Copynumber: 2.4 Consensus size: 28
49414808 TTAAAGAACG
*
49414818 CCTTTATGGCAAATCTATGAAAGGATAA
1 CCTTTATGGCAAATCTATGAAAGGACAA
* * *
49414846 CCTTTGTGGAAAATCTGTGAAAGGACAA
1 CCTTTATGGCAAATCTATGAAAGGACAA
49414874 CCTTTATGGC
1 CCTTTATGGC
49414884 GATCTTTGTC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (28 bp):
CCTTTATGGCAAATCTATGAAAGGACAA
Found at i:49415039 original size:109 final size:109
Alignment explanation
Indices: 49414911--49415112 Score: 332
Period size: 109 Copynumber: 1.9 Consensus size: 109
49414901 AACCTTTGTC
* * * *
49414911 GCAATCTCCATAAATGAAGCCTTCGTGGCTATATTTGAAAAGGAACGCCTTCATGGCGTAACCTA
1 GCAATCTCCATAAAGGAAGCCTTCATGGCTATATTTGAAAAGAAACGCCTTCATGGCGCAACCTA
49414976 AGGATAGGATGCCTTGGTGTCAACTCTGGATAAGAAAGTCTTTG
66 AGGATAGGATGCCTTGGTGTCAACTCTGGATAAGAAAGTCTTTG
* * * *
49415020 GCAATCTCTATAAAGGAAGCTTTCATGGCTATATTTGAAAAGAAACGCCTTCGTGGCGCAACTTA
1 GCAATCTCCATAAAGGAAGCCTTCATGGCTATATTTGAAAAGAAACGCCTTCATGGCGCAACCTA
49415085 AGGATAGGATGCCTTGGTGTCAACTCTG
66 AGGATAGGATGCCTTGGTGTCAACTCTG
49415113 TAAAGGAAAG
Statistics
Matches: 85, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
109 85 1.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (109 bp):
GCAATCTCCATAAAGGAAGCCTTCATGGCTATATTTGAAAAGAAACGCCTTCATGGCGCAACCTA
AGGATAGGATGCCTTGGTGTCAACTCTGGATAAGAAAGTCTTTG
Found at i:49418134 original size:38 final size:39
Alignment explanation
Indices: 49418092--49418177 Score: 111
Period size: 40 Copynumber: 2.2 Consensus size: 39
49418082 GACCAAGCCA
* * *
49418092 ACACACCA-TGTGGGGATAGAATCGACCCATCCAACCCT
1 ACACACCAGTATGGGGATAGAATCAACCCATACAACCCT
* *
49418130 ACACACCAAGTATGGGGATATAATCAACCCATATAACCCT
1 ACACACC-AGTATGGGGATAGAATCAACCCATACAACCCT
49418170 ACACACCA
1 ACACACCA
49418178 CAAGGTACCG
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
38 7 0.17
39 2 0.05
40 32 0.78
ACGTcount: A:0.37, C:0.33, G:0.14, T:0.16
Consensus pattern (39 bp):
ACACACCAGTATGGGGATAGAATCAACCCATACAACCCT
Found at i:49418149 original size:40 final size:40
Alignment explanation
Indices: 49418102--49418177 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
49418092 ACACACCATG
* *
49418102 TGGGGATAGAATCGACCCATCCAACCCTACACACCAAGTA
1 TGGGGATAGAATCAACCCATACAACCCTACACACCAAGTA
* *
49418142 TGGGGATATAATCAACCCATATAACCCTACACACCA
1 TGGGGATAGAATCAACCCATACAACCCTACACACCA
49418178 CAAGGTACCG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.37, C:0.32, G:0.14, T:0.17
Consensus pattern (40 bp):
TGGGGATAGAATCAACCCATACAACCCTACACACCAAGTA
Found at i:49424288 original size:21 final size:20
Alignment explanation
Indices: 49424264--49424303 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
49424254 CACTACCTAA
49424264 AGTATTTCATGACACATACAT
1 AGTATTTCA-GACACATACAT
*
49424285 AGTATTTCAGACATATACA
1 AGTATTTCAGACACATACA
49424304 GACAAAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (20 bp):
AGTATTTCAGACACATACAT
Found at i:49425141 original size:40 final size:40
Alignment explanation
Indices: 49425086--49425161 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 40
49425076 ACACACTATG
* *
49425086 TGGGGGTAGAATCAACCTACCCAACCCTACACACCAAGTA
1 TGGGGATAGAATCAACCCACCCAACCCTACACACCAAGTA
* * *
49425126 TGGGGATATAATCAACCCATCCAACCCTACATACCA
1 TGGGGATAGAATCAACCCACCCAACCCTACACACCA
49425162 CAAGGTACCG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 31 1.00
ACGTcount: A:0.36, C:0.33, G:0.14, T:0.17
Consensus pattern (40 bp):
TGGGGATAGAATCAACCCACCCAACCCTACACACCAAGTA
Found at i:49428442 original size:57 final size:57
Alignment explanation
Indices: 49428343--49428482 Score: 131
Period size: 57 Copynumber: 2.4 Consensus size: 57
49428333 TGTATACAAC
* * *** * *
49428343 AGGATTACCAGTTCAGGCTAAATCCTTTCTATGACATATGCTCTA-AGGAGCT-TGATT
1 AGGATTACCAGTCCGGGCTAAATCCAAACTATAACATATGCTCGAGAGGA-CTAT-ATT
* * *
49428400 TGGATTACCTGTCCGGGCTAAATCCAAACTATAACATGTGCTCGAGAGGACTCATATT
1 AGGATTACCAGTCCGGGCTAAATCCAAACTATAACATATGCTCGAGAGGACT-ATATT
* *
49428458 AGAATTACCCGTCCGGGCTAAATCC
1 AGGATTACCAGTCCGGGCTAAATCC
49428483 TTTTTTGTAA
Statistics
Matches: 67, Mismatches: 13, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
57 37 0.55
58 29 0.43
59 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (57 bp):
AGGATTACCAGTCCGGGCTAAATCCAAACTATAACATATGCTCGAGAGGACTATATT
Found at i:49429525 original size:44 final size:44
Alignment explanation
Indices: 49429462--49429549 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
49429452 TTGGCAATGA
49429462 AAGTTTCTTCTCTCTCTCCTAGGGTTTTCAGGTATTATTTTGGG
1 AAGTTTCTTCTCTCTCTCCTAGGGTTTTCAGGTATTATTTTGGG
49429506 AAGTTTCTTCTCTCTCTCCTAGGGTTTTCAGGTATTATTTTGGG
1 AAGTTTCTTCTCTCTCTCCTAGGGTTTTCAGGTATTATTTTGGG
49429550 GGAGAAGATG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.14, C:0.18, G:0.20, T:0.48
Consensus pattern (44 bp):
AAGTTTCTTCTCTCTCTCCTAGGGTTTTCAGGTATTATTTTGGG
Found at i:49431255 original size:6 final size:6
Alignment explanation
Indices: 49431244--49431268 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
49431234 GTCGAAACTA
49431244 TTCCTT TTCCTT TTCCTT TTCCTT T
1 TTCCTT TTCCTT TTCCTT TTCCTT T
49431269 ACATCGATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (6 bp):
TTCCTT
Found at i:49434114 original size:20 final size:21
Alignment explanation
Indices: 49434089--49434142 Score: 83
Period size: 20 Copynumber: 2.6 Consensus size: 21
49434079 CATCTCAAGG
49434089 AACTCTTGCAACTACGCTTT-
1 AACTCTTGCAACTACGCTTTC
49434109 AACTCTTGCAACTACGCTTTC
1 AACTCTTGCAACTACGCTTTC
* *
49434130 AACACTTTCAACT
1 AACTCTTGCAACT
49434143 TTTTCAACTC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 20 0.65
21 11 0.35
ACGTcount: A:0.28, C:0.31, G:0.07, T:0.33
Consensus pattern (21 bp):
AACTCTTGCAACTACGCTTTC
Found at i:49437659 original size:31 final size:31
Alignment explanation
Indices: 49437624--49437687 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
49437614 CCTTTTCATA
49437624 TTTCATATTTCATAACACTAGGCCGAAGCCT
1 TTTCATATTTCATAACACTAGGCCGAAGCCT
** *
49437655 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTAGGCCGAAGCCT
49437686 TT
1 TT
49437688 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (31 bp):
TTTCATATTTCATAACACTAGGCCGAAGCCT
Found at i:49437992 original size:26 final size:26
Alignment explanation
Indices: 49437907--49438003 Score: 146
Period size: 25 Copynumber: 3.8 Consensus size: 26
49437897 CCTCTTTTAA
*
49437907 AAACTGGGG-TAAAGCCCTTTTC-AT
1 AAACTGGGGCAAAAGCCCTTTTCGAT
49437931 AAACTGGGGCAAAAGCCCTTTT-GAT
1 AAACTGGGGCAAAAGCCCTTTTCGAT
* *
49437956 AAACTGAGGCAAAAGCCCTTTTCGGT
1 AAACTGGGGCAAAAGCCCTTTTCGAT
49437982 AAACTGGGGCAAAAGCCCTTTT
1 AAACTGGGGCAAAAGCCCTTTT
49438004 TCACTTCCTC
Statistics
Matches: 66, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
24 9 0.14
25 34 0.52
26 23 0.35
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.25
Consensus pattern (26 bp):
AAACTGGGGCAAAAGCCCTTTTCGAT
Found at i:49438073 original size:20 final size:20
Alignment explanation
Indices: 49438050--49438096 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
49438040 TTAAGAATAC
49438050 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
49438070 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
49438090 ATCATGT
1 ATCATGT
49438097 ATACCAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:49444522 original size:14 final size:14
Alignment explanation
Indices: 49444503--49444529 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
49444493 CGGGGATAGG
49444503 GAGCACTTACAATC
1 GAGCACTTACAATC
49444517 GAGCACTTACAAT
1 GAGCACTTACAAT
49444530 TGTCATATGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.26, G:0.15, T:0.22
Consensus pattern (14 bp):
GAGCACTTACAATC
Found at i:49449996 original size:29 final size:29
Alignment explanation
Indices: 49449964--49450021 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
49449954 AGATGAATTG
*
49449964 AAATCGAAAAAAAAG-GAGGAAAAATGGAA
1 AAATAGAAAAAAAAGAGAGG-AAAATGGAA
* *
49449993 AAATAGAAAGAAAAGAGATGAAAATGGAA
1 AAATAGAAAAAAAAGAGAGGAAAATGGAA
49450022 GATGGAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 22 0.88
30 3 0.12
ACGTcount: A:0.66, C:0.02, G:0.24, T:0.09
Consensus pattern (29 bp):
AAATAGAAAAAAAAGAGAGGAAAATGGAA
Found at i:49451867 original size:41 final size:41
Alignment explanation
Indices: 49451822--49451904 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
49451812 TACTTTTTCC
49451822 ATTTCACTAAATTTCTCACATTTTAATTTTTAGAGGTAAGA
1 ATTTCACTAAATTTCTCACATTTTAATTTTTAGAGGTAAGA
49451863 ATTTCACTAAATTTCTCACATTTTAATTTTTAGAGGTAAGA
1 ATTTCACTAAATTTCTCACATTTTAATTTTTAGAGGTAAGA
49451904 A
1 A
49451905 CTTTTCAACT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.43
Consensus pattern (41 bp):
ATTTCACTAAATTTCTCACATTTTAATTTTTAGAGGTAAGA
Found at i:49455546 original size:22 final size:22
Alignment explanation
Indices: 49455512--49455571 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 22
49455502 AAATGATAGC
** *
49455512 AAAATAGTGAAAAAACAACAAG
1 AAAATAGCAAAAAAACAAAAAG
*
49455534 AAAATAGCAAAAAAA-AAAAAT
1 AAAATAGCAAAAAAACAAAAAG
* *
49455555 AAAAAAGCAATAAAACA
1 AAAATAGCAAAAAAACA
49455572 GAACATTTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
21 17 0.55
22 14 0.45
ACGTcount: A:0.75, C:0.08, G:0.08, T:0.08
Consensus pattern (22 bp):
AAAATAGCAAAAAAACAAAAAG
Found at i:49459860 original size:19 final size:19
Alignment explanation
Indices: 49459819--49459860 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
49459809 TAAAAAAACT
*
49459819 AAAAAATATATAAAATTGT
1 AAAAAATATATAAAATTGA
**
49459838 AAAAAATATATATTATTGA
1 AAAAAATATATAAAATTGA
49459857 AAAA
1 AAAA
49459861 CTACCTAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (19 bp):
AAAAAATATATAAAATTGA
Found at i:49467383 original size:48 final size:48
Alignment explanation
Indices: 49467290--49467558 Score: 292
Period size: 48 Copynumber: 5.6 Consensus size: 48
49467280 TAAAGTACCA
* * ** *
49467290 ATGCCACGTCCCAGACATGGTCTTACATGAATCTACA-A-ATCATCGCCA
1 ATGCCATGTCCCAGACATGGTCTTACA-CAGGC-ACATATATCATCGCCG
* * * *
49467338 ATGCCATGTCCTAGATATGGTCTTATA-ATGGCACATATATAATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACA-GGCACATATATCATCGCCG
* * * * * *
49467386 ACGCTATGTCCCAAACATGGTCTTACACAGGCACATATATTATCACCA
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCCG
* * *
49467434 ATGCCATGTCCTAGACATGGTCTTACACATGTACATATATCATCGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCCG
* * * *
49467482 GTGCCATGTCCCAAACATGGTCTTACACAGGCACATATATCATTGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCCG
49467530 ATGCCATGTCCCAGACATGGTCTTACACA
1 ATGCCATGTCCCAGACATGGTCTTACACA
49467559 AAGTCTCATT
Statistics
Matches: 182, Mismatches: 35, Indels: 8
0.81 0.16 0.04
Matches are distributed among these distances:
46 4 0.02
47 2 0.01
48 175 0.96
49 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACAGGCACATATATCATCGCCG
Found at i:49467470 original size:96 final size:97
Alignment explanation
Indices: 49467328--49467558 Score: 322
Period size: 96 Copynumber: 2.4 Consensus size: 97
49467318 GAATCTACAA
* * * *
49467328 ATCATCGCCAATGCCATGTCCTAGATATGGTCTTATA-ATGGCACATATATAATCGCCGACGCTA
1 ATCATCACCAATGCCATGTCCTAGACATGGTCTTACACATGGCACATATATAATCGCCGACGCCA
49467392 TGTCCCAAACATGGTCTTACACAGGCACATAT
66 TGTCCCAAACATGGTCTTACACAGGCACATAT
* * * **
49467424 ATTATCACCAATGCCATGTCCTAGACATGGTCTTACACAT-GTACATATATCATCGCCGGTGCCA
1 ATCATCACCAATGCCATGTCCTAGACATGGTCTTACACATGGCACATATATAATCGCCGACGCCA
49467488 TGTCCCAAACATGGTCTTACACAGGCACATAT
66 TGTCCCAAACATGGTCTTACACAGGCACATAT
*** * *
49467520 ATCATTGTCGATGCCATGTCCCAGACATGGTCTTACACA
1 ATCATCACCAATGCCATGTCCTAGACATGGTCTTACACA
49467559 AAGTCTCATT
Statistics
Matches: 119, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
96 117 0.98
97 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.27
Consensus pattern (97 bp):
ATCATCACCAATGCCATGTCCTAGACATGGTCTTACACATGGCACATATATAATCGCCGACGCCA
TGTCCCAAACATGGTCTTACACAGGCACATAT
Found at i:49467548 original size:144 final size:143
Alignment explanation
Indices: 49467286--49467558 Score: 352
Period size: 144 Copynumber: 1.9 Consensus size: 143
49467276 CAAATAAAGT
*
49467286 ACCAATGCCACGTCCCAGACATGGTCTTACATGAATCTACAAATCATCGCCAATGCCATGTCCTA
1 ACCAATGCCACGTCCCAGACATGGTCTTACA-GAATCTACAAATCATCGCCAATGCCATGTCCCA
* * * *
49467351 GATATGGTCTTATAATGGCACATATATAATCGCCGACGCTATGTCCCAAACATGGTCTTACACAG
65 AACATGGTCTTACAATGGCACATATATAATCGCCGACGCCATGTCCCAAACATGGTCTTACACAG
49467416 GCACATATATTATC
130 GCACATATATTATC
* * * * **
49467430 ACCAATGCCATGTCCTAGACATGGTCTTACA-CATGTACATATATCATCGCCGGTGCCATGTCCC
1 ACCAATGCCACGTCCCAGACATGGTCTTACAGAATCTACA-A-ATCATCGCCAATGCCATGTCCC
* * * * *
49467494 AAACATGGTCTTACACA-GGCACATATATCATTGTCGATGCCATGTCCCAGACATGGTCTTACAC
64 AAACATGGTCTTACA-ATGGCACATATATAATCGCCGACGCCATGTCCCAAACATGGTCTTACAC
49467558 A
128 A
49467559 AAGTCTCATT
Statistics
Matches: 110, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
142 6 0.05
143 1 0.01
144 102 0.93
145 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (143 bp):
ACCAATGCCACGTCCCAGACATGGTCTTACAGAATCTACAAATCATCGCCAATGCCATGTCCCAA
ACATGGTCTTACAATGGCACATATATAATCGCCGACGCCATGTCCCAAACATGGTCTTACACAGG
CACATATATTATC
Found at i:49471618 original size:42 final size:42
Alignment explanation
Indices: 49471570--49471662 Score: 127
Period size: 42 Copynumber: 2.2 Consensus size: 42
49471560 CCGAGGCTAT
*
49471570 GTGTAAGACCATATCTAGGATA-TGACATC-ATTATGAGACTTC
1 GTGTAAGACCATATCTAGGATATTG-CATCGA-TATAAGACTTC
* *
49471612 GTGTAAGACCATATCTGGGATATTGCATCGATATAAGATTTC
1 GTGTAAGACCATATCTAGGATATTGCATCGATATAAGACTTC
49471654 GTGTAAGAC
1 GTGTAAGAC
49471663 TATAGATGGG
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
42 43 0.93
43 3 0.07
ACGTcount: A:0.32, C:0.15, G:0.22, T:0.31
Consensus pattern (42 bp):
GTGTAAGACCATATCTAGGATATTGCATCGATATAAGACTTC
Found at i:49477472 original size:18 final size:18
Alignment explanation
Indices: 49477449--49477484 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
49477439 AGATCGGTGA
*
49477449 TAAAGTATTTCTGAAAGT
1 TAAAGTATTTCTAAAAGT
49477467 TAAAGTATTTCTAAAAGT
1 TAAAGTATTTCTAAAAGT
49477485 ATCTCCGTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.06, G:0.14, T:0.39
Consensus pattern (18 bp):
TAAAGTATTTCTAAAAGT
Found at i:49479188 original size:43 final size:42
Alignment explanation
Indices: 49479127--49479225 Score: 144
Period size: 43 Copynumber: 2.3 Consensus size: 42
49479117 TGAGTCTTAT
* **
49479127 CTGGGATATGGTATCGATATGAGATTTCATGTAAGACCATAG
1 CTGGGATATGGCATCGATATGAGATACCATGTAAGACCATAG
* *
49479169 CTGGGCTATTGGCATCGATATGAGATACCATGTAAGACCATAT
1 CTGGGATA-TGGCATCGATATGAGATACCATGTAAGACCATAG
49479212 CTGGGATATGGCAT
1 CTGGGATATGGCAT
49479226 TGGTGTAGTA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
42 13 0.26
43 37 0.74
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.29
Consensus pattern (42 bp):
CTGGGATATGGCATCGATATGAGATACCATGTAAGACCATAG
Found at i:49480902 original size:28 final size:28
Alignment explanation
Indices: 49480870--49480932 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
49480860 TGTCCATGCT
**
49480870 CGTGTCCCTCACATTGCCATGACACGCC
1 CGTGTCCCTCACACAGCCATGACACGCC
49480898 CGTGTCCCTCACACAGCCATGACACGCC
1 CGTGTCCCTCACACAGCCATGACACGCC
*
49480926 CATGTCC
1 CGTGTCC
49480933 TAGCCCGTGT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.19, C:0.44, G:0.17, T:0.19
Consensus pattern (28 bp):
CGTGTCCCTCACACAGCCATGACACGCC
Found at i:49482030 original size:49 final size:49
Alignment explanation
Indices: 49481933--49482149 Score: 173
Period size: 49 Copynumber: 4.5 Consensus size: 49
49481923 AGATGCCGAC
*
49481933 GCCATGTCCCAGACATGGTGTTACACTGGCTTTCATATAGCGAGGTTGAT
1 GCCATGTCCCAGACA-GGTCTTACACTGGCTTTCATATAGCGAGGTTGAT
* * *
49481983 GCCATGTCCCAGATAGGTCTTACACTGGCTCTT-ATCTATC-AGTGTTGAT
1 GCCATGTCCCAGACAGGTCTTACACTGGCT-TTCATATAGCGAG-GTTGAT
* * * * ** * * *
49482032 GCCATGTCCTAGGCAGGTCTTACACTGAC--ACA-CGA-C-AAGCTGAC
1 GCCATGTCCCAGACAGGTCTTACACTGGCTTTCATATAGCGAGGTTGAT
* * **
49482076 GCCATGTCCCAGACAGGACTTACACTAGCTTGTC-TACCGCGAGGTTGAT
1 GCCATGTCCCAGACAGGTCTTACACTGGCTT-TCATATAGCGAGGTTGAT
*
49482125 G-CATGTCCCAGACAAGTCTTACACT
1 GCCATGTCCCAGACAGGTCTTACACT
49482150 AGCTCTCGTC
Statistics
Matches: 131, Mismatches: 27, Indels: 20
0.74 0.15 0.11
Matches are distributed among these distances:
44 28 0.21
45 2 0.02
46 2 0.02
47 2 0.02
48 25 0.19
49 56 0.43
50 16 0.12
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.27
Consensus pattern (49 bp):
GCCATGTCCCAGACAGGTCTTACACTGGCTTTCATATAGCGAGGTTGAT
Found at i:49482225 original size:48 final size:46
Alignment explanation
Indices: 49482116--49482290 Score: 163
Period size: 46 Copynumber: 3.8 Consensus size: 46
49482106 TGTCTACCGC
* * * ** * *
49482116 GAGGTTGATGCATGTCCCAGACAAGTCTTACACTAGCTCTCGTCTC
1 GAGGCTGATGCATGTCCCAGACATGTCTTACACTAACTCTAATATT
* * * * *
49482162 AATGCTGATGGATGTCCCTGACATGCCTTACACTAACT-TAAATATCTT
1 GAGGCTGATGCATGTCCCAGACATGTCTTACACTAACTCT-AATA--TT
** *
49482210 GAGGCTGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATATT
1 GAGGCTGATGCATGTCCCAGACATGTCTTACACTAACTCTAATATT
* *
49482256 GTGGCTGATGCATGTCACAGACATGTCTTACACTA
1 GAGGCTGATGCATGTCCCAGACATGTCTTACACTA
49482291 GCACACATAT
Statistics
Matches: 102, Mismatches: 23, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
45 1 0.01
46 65 0.64
48 35 0.34
49 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (46 bp):
GAGGCTGATGCATGTCCCAGACATGTCTTACACTAACTCTAATATT
Found at i:49482263 original size:94 final size:94
Alignment explanation
Indices: 49482116--49482290 Score: 235
Period size: 94 Copynumber: 1.9 Consensus size: 94
49482106 TGTCTACCGC
* * * * * *
49482116 GAGGTTGATGCATGTCCCAGACAAGTCTTACACTAGCTCTCGTCTCAATGCTGATGGATGTCCCT
1 GAGGCTGATGCATGTCCCAGACAAGTCTTACACTAGCTCTCATATCAATGCTGATGCATGTCACA
49482181 GACATGCCTTACACTAACTTAAATATCTT
66 GACATGCCTTACACTAACTTAAATATCTT
* * **
49482210 GAGGCTGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAT-TGTGGCTGATGCATGTCAC
1 GAGGCTGATGCATGTCCCAGACAAGTCTTACACTAGCTCTCATATCAAT-GCTGATGCATGTCAC
*
49482274 AGACATGTCTTACACTA
65 AGACATGCCTTACACTA
49482291 GCACACATAT
Statistics
Matches: 69, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
93 1 0.01
94 68 0.99
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (94 bp):
GAGGCTGATGCATGTCCCAGACAAGTCTTACACTAGCTCTCATATCAATGCTGATGCATGTCACA
GACATGCCTTACACTAACTTAAATATCTT
Found at i:49482300 original size:46 final size:46
Alignment explanation
Indices: 49482212--49482300 Score: 142
Period size: 46 Copynumber: 1.9 Consensus size: 46
49482202 AATATCTTGA
* * * *
49482212 GGCTGATGCATGTCCCAGACATGTCTTACACTGGCTCTCATATTGT
1 GGCTGATGCATGTCACAGACATGTCTTACACTAGCACACATATTGT
49482258 GGCTGATGCATGTCACAGACATGTCTTACACTAGCACACATAT
1 GGCTGATGCATGTCACAGACATGTCTTACACTAGCACACATAT
49482301 AACCCATTAT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (46 bp):
GGCTGATGCATGTCACAGACATGTCTTACACTAGCACACATATTGT
Found at i:49489998 original size:48 final size:46
Alignment explanation
Indices: 49489922--49490046 Score: 153
Period size: 48 Copynumber: 2.7 Consensus size: 46
49489912 TCGTCTTAAT
* * *
49489922 GCCGATGCATGTCCCAGACGTGTTTTACACTGGCT-TAAATATCTTGAG
1 GCCGATGCATGTCCCAAACATGTCTTACACTGGCTCT-AATA--TTGAG
* *
49489970 GCCGATGCATGTCCCAAACATGTCTTACACTGGCTCTCATATTGTG
1 GCCGATGCATGTCCCAAACATGTCTTACACTGGCTCTAATATTGAG
**
49490016 GTTGATGCATGTCCCAAACATGTCTTACACT
1 GCCGATGCATGTCCCAAACATGTCTTACACT
49490047 AGCACACATA
Statistics
Matches: 69, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
46 33 0.48
48 35 0.51
49 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (46 bp):
GCCGATGCATGTCCCAAACATGTCTTACACTGGCTCTAATATTGAG
Found at i:49496348 original size:47 final size:47
Alignment explanation
Indices: 49496294--49496825 Score: 706
Period size: 47 Copynumber: 11.1 Consensus size: 47
49496284 TTAGGATTTT
** * * * *
49496294 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGACAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
49496341 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
49496388 ATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATG--CATATAT--GTGATAAGGCCGAATGGCCA
* *
49496439 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
49496486 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
49496533 ATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCAAATGGCCA
1 ATGTGATGAATGTGAACATG--CATATAT--GTGATAAGGCCGAATGGCCA
*
49496584 ATGTGATGAATGTGAACATGCGTATATATGCGTGATAAGGCCAAATGGCCA
1 ATGTGATGAATGTGAACATGC--ATATAT--GTGATAAGGCCGAATGGCCA
* * *
49496635 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCAAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
49496682 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
49496729 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
49496776 ATGTGATGAATGTGAACATGTATATATGT-AGTAAGGCCGAATGGCTA
1 ATGTGATGAATGTGAACATGCATATATGTGA-TAAGGCCGAATGGCCA
49496823 ATG
1 ATG
49496826 CGAAACGTGT
Statistics
Matches: 442, Mismatches: 32, Indels: 22
0.89 0.06 0.04
Matches are distributed among these distances:
46 1 0.00
47 299 0.68
49 16 0.04
51 126 0.29
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:49496466 original size:23 final size:23
Alignment explanation
Indices: 49496439--49496513 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
49496429 CGAATGGCCA
49496439 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
* * **
49496462 ATGTG-TGATAAG-G-CCGAATGGCCA
1 ATGTGATGA-ATGTGAAC--AT-GCGT
49496486 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
49496509 ATGTG
1 ATGTG
49496514 TGATAAGGCC
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
21 1 0.03
22 4 0.11
23 16 0.43
24 11 0.30
25 4 0.11
26 1 0.03
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.28
Consensus pattern (23 bp):
ATGTGATGAATGTGAACATGCGT
Found at i:49496476 original size:145 final size:145
Alignment explanation
Indices: 49496294--49496825 Score: 804
Period size: 145 Copynumber: 3.7 Consensus size: 145
49496284 TTAGGATTTT
** * * *
49496294 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGACAAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
49496359 TGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCTGTATATATATGCGTGAT
66 TGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCTGTATATATATGCGTGAT
49496424 AAGGCCGAATGGCCA
131 AAGGCCGAATGGCCA
* * *
49496439 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
49496504 TGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCTGTATATATATGCGTGAT
66 TGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCTGTATATATATGCGTGAT
*
49496569 AAGGCCAAATGGCCA
131 AAGGCCGAATGGCCA
* *
49496584 ATGTGATGAATGTGAACATGCGTATATATGCGTGATAAGGCCAAATGGCCAATGTGATGAATGTG
1 ATGTGATGAATGTGAACATGC--ATATAT--GAGATAAGGCCGAATGGCCAATGTGATGAATGTG
* *** *
49496649 AACATGCGTATGTGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAA-C---ATGCGTATGTG
62 AACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCTGTATATATATGCG
49496710 TGATAAGGCCGAATGGCCA
127 TGATAAGGCCGAATGGCCA
49496729 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
** * *
49496794 TGTATATATGT-AGTAAGGCCGAATGGCTAATG
66 TGCGTATGTGTGA-TAAGGCCGAATGGCCAATG
49496826 CGAAACGTGT
Statistics
Matches: 357, Mismatches: 25, Indels: 14
0.90 0.06 0.04
Matches are distributed among these distances:
140 1 0.00
141 61 0.17
143 6 0.02
145 203 0.57
147 4 0.01
148 1 0.00
149 81 0.23
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (145 bp):
ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
TGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCTGTATATATATGCGTGAT
AAGGCCGAATGGCCA
Found at i:49496624 original size:196 final size:193
Alignment explanation
Indices: 49496294--49496825 Score: 774
Period size: 196 Copynumber: 2.8 Consensus size: 193
49496284 TTAGGATTTT
** ** * * * * *
49496294 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGACAAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
** * * *
49496359 TG-CGTATGT-GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCTGTATATATATGCGTG
66 TGATATATATGGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG-GTATATATGCGTG
*
49496422 ATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCA
130 ATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCAAATGGCCA
49496486 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
*
49496551 TGTATATATATGCGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAACATGCGTATATATGCG
66 TG-ATATATATG-GTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATG-GTATATATGCG
*
49496616 TGATAAGGCCAAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCAAATGGCC
128 TGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCAAATGGCC
49496681 A
193 A
*
49496682 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
* *
49496747 TG-CATATAT-GAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACAT-GTATATAT--GT-A
66 TGATATATATGGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGGTATATATGCGTGA
*
49496806 GTAAGGCCGAATGGCTAATG
131 -TAAGGCCGAATGGCCAATG
49496826 CGAAACGTGT
Statistics
Matches: 311, Mismatches: 24, Indels: 14
0.89 0.07 0.04
Matches are distributed among these distances:
187 1 0.00
188 19 0.06
190 8 0.03
192 95 0.31
194 10 0.03
196 178 0.57
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (193 bp):
ATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACC
TGATATATATGGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGGTATATATGCGTGA
TAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCAAATGGCCA
Found at i:49496662 original size:23 final size:23
Alignment explanation
Indices: 49496635--49496709 Score: 66
Period size: 23 Copynumber: 3.2 Consensus size: 23
49496625 CAAATGGCCA
49496635 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
* **
49496658 ATGTG-TGATAAG-GCCAA-ATGGCCA
1 ATGTGATGA-ATGTG--AACAT-GCGT
49496682 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
49496705 ATGTG
1 ATGTG
49496710 TGATAAGGCC
Statistics
Matches: 39, Mismatches: 6, Indels: 14
0.66 0.10 0.24
Matches are distributed among these distances:
22 4 0.10
23 18 0.46
24 13 0.33
25 4 0.10
ACGTcount: A:0.31, C:0.11, G:0.31, T:0.28
Consensus pattern (23 bp):
ATGTGATGAATGTGAACATGCGT
Found at i:49496688 original size:22 final size:22
Alignment explanation
Indices: 49496615--49496688 Score: 60
Period size: 22 Copynumber: 3.2 Consensus size: 22
49496605 GTATATATGC
49496615 GTGATAAGGCCAAATGGCCAAT
1 GTGATAAGGCCAAATGGCCAAT
* ** * *
49496637 GTGATGAATGTGAACAT-GCGTATGT
1 GTGAT-AAGGCCAA-ATGGC-CA-AT
49496662 GTGATAAGGCCAAATGGCCAAT
1 GTGATAAGGCCAAATGGCCAAT
49496684 GTGAT
1 GTGAT
49496689 GAATGTGAAC
Statistics
Matches: 37, Mismatches: 10, Indels: 10
0.65 0.18 0.18
Matches are distributed among these distances:
22 11 0.30
23 10 0.27
24 10 0.27
25 6 0.16
ACGTcount: A:0.32, C:0.14, G:0.30, T:0.24
Consensus pattern (22 bp):
GTGATAAGGCCAAATGGCCAAT
Found at i:49497129 original size:37 final size:37
Alignment explanation
Indices: 49497059--49497180 Score: 145
Period size: 37 Copynumber: 3.3 Consensus size: 37
49497049 GATGACCATA
* * * *
49497059 TGTGGTGACTATGTCTGGGTTAAGACCTGATGACTACG
1 TGTGGAGATTATGTCCGGG-TAAGACCCGATGACTACG
49497097 TGTGGAGATTATGTCCGGGTAAGACCCGATGACTACG
1 TGTGGAGATTATGTCCGGGTAAGACCCGATGACTACG
* * * * **
49497134 TGTGGAGATTTTGTTCGGGTAAGACCCAATAACTTTG
1 TGTGGAGATTATGTCCGGGTAAGACCCGATGACTACG
49497171 TGTGGAGATT
1 TGTGGAGATT
49497181 TCATCTGAGC
Statistics
Matches: 74, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
37 58 0.78
38 16 0.22
ACGTcount: A:0.23, C:0.15, G:0.31, T:0.31
Consensus pattern (37 bp):
TGTGGAGATTATGTCCGGGTAAGACCCGATGACTACG
Found at i:49498846 original size:24 final size:24
Alignment explanation
Indices: 49498819--49498894 Score: 92
Period size: 24 Copynumber: 3.4 Consensus size: 24
49498809 TGTTACATAA
49498819 TACAAATGTATATATTCATATTAT
1 TACAAATGTATATATTCATATTAT
49498843 TACAAATGTCAT-TA-TC-TA--AT
1 TACAAATGT-ATATATTCATATTAT
*
49498863 T-TAAATGTATATATTCATATTAT
1 TACAAATGTATATATTCATATTAT
49498886 TACAAATGT
1 TACAAATGT
49498895 CATTATCTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 14
0.73 0.03 0.24
Matches are distributed among these distances:
18 2 0.05
19 8 0.19
20 5 0.12
21 2 0.05
22 2 0.05
23 5 0.12
24 17 0.40
25 2 0.05
ACGTcount: A:0.41, C:0.09, G:0.05, T:0.45
Consensus pattern (24 bp):
TACAAATGTATATATTCATATTAT
Found at i:49498870 original size:19 final size:19
Alignment explanation
Indices: 49498846--49498907 Score: 54
Period size: 19 Copynumber: 3.0 Consensus size: 19
49498836 ATATTATTAC
49498846 AAATGTCATTATCTAATTT
1 AAATGTCATTATCTAATTT
*
49498865 AAATGT-ATATATTCATATTATTAC
1 AAATGTCAT-TA-TC-TA--ATT-T
49498889 AAATGTCATTATCTAATTT
1 AAATGTCATTATCTAATTT
49498908 TTTTACATAC
Statistics
Matches: 34, Mismatches: 2, Indels: 14
0.68 0.04 0.28
Matches are distributed among these distances:
18 2 0.06
19 8 0.24
20 5 0.15
21 2 0.06
22 2 0.06
23 5 0.15
24 8 0.24
25 2 0.06
ACGTcount: A:0.39, C:0.10, G:0.05, T:0.47
Consensus pattern (19 bp):
AAATGTCATTATCTAATTT
Found at i:49498883 original size:43 final size:43
Alignment explanation
Indices: 49498822--49498907 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
49498812 TACATAATAC
49498822 AAATGTATATATTCATATTATTACAAATGTCATTATCTAATTT
1 AAATGTATATATTCATATTATTACAAATGTCATTATCTAATTT
49498865 AAATGTATATATTCATATTATTACAAATGTCATTATCTAATTT
1 AAATGTATATATTCATATTATTACAAATGTCATTATCTAATTT
49498908 TTTTACATAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.40, C:0.09, G:0.05, T:0.47
Consensus pattern (43 bp):
AAATGTATATATTCATATTATTACAAATGTCATTATCTAATTT
Found at i:49501603 original size:26 final size:26
Alignment explanation
Indices: 49501574--49501650 Score: 154
Period size: 26 Copynumber: 3.0 Consensus size: 26
49501564 AAATTTGAAG
49501574 TAGAAATATTTATTTTATTATTTCTA
1 TAGAAATATTTATTTTATTATTTCTA
49501600 TAGAAATATTTATTTTATTATTTCTA
1 TAGAAATATTTATTTTATTATTTCTA
49501626 TAGAAATATTTATTTTATTATTTCT
1 TAGAAATATTTATTTTATTATTTCT
49501651 TTAAGGTCTA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 51 1.00
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.58
Consensus pattern (26 bp):
TAGAAATATTTATTTTATTATTTCTA
Found at i:49506729 original size:47 final size:47
Alignment explanation
Indices: 49506660--49506930 Score: 168
Period size: 47 Copynumber: 5.7 Consensus size: 47
49506650 TTATTTGTGT
*
49506660 GCTAGTGTAAGACATGTTTGGGACAT-GCATCGGCCACATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCCACATTATGAGA
* *** * * *
49506706 GCTAGTGTAAAACCATGTCTGGGACATGGCATC-AATATATACACGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACATGGCATCGGCCACAT-TATGAGA
* * * * * * *
49506754 GCCAGTGTAAGACATGCCTGAGACAT-GCATTGGCTACGA-GATGTG-
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCCAC-ATTATGAGA
* * *
49506799 TC-AGTGTAAGACCATGTTTGGGACATGGCATCGG-CACGGATATGTGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACATGGCATCGGCCAC--AT-TATGAGA
* * *
49506848 GCTAGTGTAAGAAAATGTTTGGGGCATGGCATC-G--AC-TTGATGGATGA
1 GCTAGTGTAAG-ACATGTCTGGGACATGGCATCGGCCACATT-AT-GA-GA
49506895 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 GCTAGTGTAAGA-CATGTCTGGGACATGGCATCGGC
49506931 ATTATACCCT
Statistics
Matches: 171, Mismatches: 35, Indels: 35
0.71 0.15 0.15
Matches are distributed among these distances:
44 10 0.06
45 16 0.09
46 29 0.17
47 60 0.35
48 27 0.16
49 2 0.01
50 26 0.15
51 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.24
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCCACATTATGAGA
Found at i:49514475 original size:46 final size:46
Alignment explanation
Indices: 49514331--49514504 Score: 206
Period size: 46 Copynumber: 3.7 Consensus size: 46
49514321 TTACTTATGT
* **
49514331 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGAGA
* ** ** *
49514377 GCTAGTGTAAGACCATGTCTGGGACATGGCATCGGTGTTGAGACGAGA
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCAAGATGAGA
49514425 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGTA-A
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATG-AGA
* **
49514471 GCCAGTTTGCGACATGTCTGGGACATGCATCGGC
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGC
49514505 ACGTATAGAG
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
46 55 0.51
47 29 0.27
48 23 0.21
ACGTcount: A:0.25, C:0.21, G:0.31, T:0.22
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGAGA
Found at i:49515662 original size:13 final size:13
Alignment explanation
Indices: 49515644--49515670 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
49515634 GCTTGACAGG
49515644 GACACGCCCGTGT
1 GACACGCCCGTGT
49515657 GACACGCCCGTGT
1 GACACGCCCGTGT
49515670 G
1 G
49515671 CGATTACTTC
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:0.15, C:0.37, G:0.33, T:0.15
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:49517144 original size:21 final size:21
Alignment explanation
Indices: 49517118--49517176 Score: 93
Period size: 21 Copynumber: 2.9 Consensus size: 21
49517108 TTCAAGTTCC
49517118 ACACGGGCGTGTAGCCCTCTT
1 ACACGGGCGTGTAGCCCTCTT
49517139 ACACGGGCGTGTAGCCCTCTT
1 ACACGGGCGTGTAGCCCTCTT
* *
49517160 ACATGGGCATGT-GCCCT
1 ACACGGGCGTGTAGCCCT
49517177 GTTTCAAAGG
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
20 5 0.14
21 31 0.86
ACGTcount: A:0.15, C:0.32, G:0.29, T:0.24
Consensus pattern (21 bp):
ACACGGGCGTGTAGCCCTCTT
Found at i:49520905 original size:46 final size:46
Alignment explanation
Indices: 49520761--49520931 Score: 175
Period size: 46 Copynumber: 3.7 Consensus size: 46
49520751 TGTGTGAGTT
** *
49520761 AGTGTAAGACATGTCTGGGACATGCATCGGCCA-CATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CATCAAGACGAGAGCC
* * ** * *
49520807 AGTGTAAGACCATGTCTGGGACATGGTATTGGCATTGAGACGAGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCATCAAGACGAGAGCC
*
49520855 AGTGTAAGACATTTCTGGGACATGCATCGGCATCAAGACGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCATCAAGACG-AGAGCC
* * *
49520901 AGTGTAAGATATGCCTAGGACATGCATCGGC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC
49520932 TACAAGATGT
Statistics
Matches: 101, Mismatches: 20, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
46 51 0.50
47 30 0.30
48 20 0.20
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCATCAAGACGAGAGCC
Found at i:49523192 original size:51 final size:48
Alignment explanation
Indices: 49523115--49523297 Score: 204
Period size: 49 Copynumber: 3.6 Consensus size: 48
49523105 CAGATACCCG
* *
49523115 GTGGCCTGCACATAGTACCACCCTTGTAGTCAAAGCTACCTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGT-GTCAAAGCTA--TTCTTCACAAA
*
49523166 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATATTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTG-TCAAAGC--TA-TTCTTCACAAA
* * * * *
49523218 GTGGCCTTCACATAGTACAACACTTATGACCAAGCTATGTCTTCTCAAA
1 GTGGCCTTCACATAGTACCACACTTGTGTCAAAGCTAT-TCTTCACAAA
* *
49523267 GTGGCCTTCACATAGTACTACACTTGAGTCA
1 GTGGCCTTCACATAGTACCACACTTGTGTCA
49523298 CTAGTTACAT
Statistics
Matches: 114, Mismatches: 14, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
48 1 0.01
49 37 0.32
50 1 0.01
51 36 0.32
52 37 0.32
53 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (48 bp):
GTGGCCTTCACATAGTACCACACTTGTGTCAAAGCTATTCTTCACAAA
Found at i:49523232 original size:52 final size:52
Alignment explanation
Indices: 49523115--49523292 Score: 222
Period size: 52 Copynumber: 3.5 Consensus size: 52
49523105 CAGATACCCG
* * * **
49523115 GTGGCCTGCACATAGTACCACCCTTGT-AGTCAAAGCTA-CCTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGA-CCAAAGCTATATTTCTTCACAAA
49523166 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATATTTCTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATATTTCTTCACAAA
* * * *
49523218 GTGGCCTTCACATAGTACAACACTTATGACC-AAGC--TATGTCTTCTCAAA
1 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATATTTCTTCACAAA
*
49523267 GTGGCCTTCACATAGTACTACACTTG
1 GTGGCCTTCACATAGTACCACACTTG
49523293 AGTCACTAGT
Statistics
Matches: 114, Mismatches: 11, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
49 36 0.32
51 37 0.32
52 41 0.36
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (52 bp):
GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATATTTCTTCACAAA
Found at i:49526770 original size:43 final size:42
Alignment explanation
Indices: 49526723--49526860 Score: 109
Period size: 44 Copynumber: 3.2 Consensus size: 42
49526713 TCCTAGACGT
* * *
49526723 GGTCTTACATGTAACCAAATATTGATGCC-ACTGTCCCAGATAG
1 GGTCTTACACGAAACCAAATA-CGATGCCGA-TGTCCCAGATAG
* * *
49526766 GGTCTTACACGAAATCAAATACGATGCCGATGTCCCAGACAT
1 GGTCTTACACGAAACCAAATACGATGCCGATGTCCCAGATAG
* * * * * *
49526808 GGTATTACACGTAAATCATAAGT-CGATGCCAACGTCCCAGACAT
1 GGTCTTACACG-AAACCA-AA-TACGATGCCGATGTCCCAGATAG
49526852 GGTCTTACA
1 GGTCTTACA
49526861 TGATAACACA
Statistics
Matches: 81, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
42 26 0.32
43 25 0.31
44 29 0.36
45 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (42 bp):
GGTCTTACACGAAACCAAATACGATGCCGATGTCCCAGATAG
Found at i:49526846 original size:44 final size:41
Alignment explanation
Indices: 49526699--49526860 Score: 146
Period size: 43 Copynumber: 3.8 Consensus size: 41
49526689 CAAAAAGCTC
* * * * * *
49526699 ATACAATGCCAACGTCCTAGACGTGGTCTTACATGTAACCAA
1 ATACGATGCC-ACGTCCCAGACATGGTCTTACACGAAATCAA
* * *
49526741 ATATTGATGCCACTGTCCCAGATAGGGTCTTACACGAAATCAA
1 ATA-CGATGCCAC-GTCCCAGACATGGTCTTACACGAAATCAA
* *
49526784 ATACGATGCCGATGTCCCAGACATGGTATTACACGTAAATCATA
1 ATACGATGCC-ACGTCCCAGACATGGTCTTACACG-AAATCA-A
49526828 AGT-CGATGCCAACGTCCCAGACATGGTCTTACA
1 A-TACGATGCC-ACGTCCCAGACATGGTCTTACA
49526861 TGATAACACA
Statistics
Matches: 97, Mismatches: 17, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
42 30 0.31
43 37 0.38
44 29 0.30
45 1 0.01
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (41 bp):
ATACGATGCCACGTCCCAGACATGGTCTTACACGAAATCAA
Found at i:49528458 original size:39 final size:39
Alignment explanation
Indices: 49528394--49528635 Score: 228
Period size: 39 Copynumber: 6.1 Consensus size: 39
49528384 CGGAATTTAA
*
49528394 CCGGATATAGCT-ACTCGTTCA-AATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCG--CACAATGCCTTCGGGACTTAGC
* *
49528434 CCGGTTATAGTAACTCGCACAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAATGCCTTCGGGACTTAGC
*
49528473 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCAC-AATGCCTTCGGGACTTAGC
* * *
49528512 CCGGA-ATTAGTATCTCGCATAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCA-CAATGCCTTCGGGA-CTTAGC
* *
49528552 CCGGATAT-GTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAACTCGCAC-AATGCCTTCGGGA-CTTAGC
* * * *
49528591 CCGGATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAATGCCTTCGGGACTTAGC
49528631 CCGGA
1 CCGGA
49528636 CATCATTCAA
Statistics
Matches: 174, Mismatches: 16, Indels: 24
0.81 0.07 0.11
Matches are distributed among these distances:
38 4 0.02
39 103 0.59
40 58 0.33
41 9 0.05
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAGTAACTCGCACAATGCCTTCGGGACTTAGC
Found at i:49528595 original size:118 final size:119
Alignment explanation
Indices: 49528414--49528635 Score: 283
Period size: 118 Copynumber: 1.9 Consensus size: 119
49528404 CTACTCGTTC
*
49528414 AAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAATGCCTTCGGGACTTAACCCGGAT
1 AAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAATGCCTTCGGGACTTAACCCGGAT
* *
49528479 TTAGTAAC-TCGCACAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCAT
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCAT
* * * **
49528532 AAATGCCTTC-GGATCTTAGTCCGGATAT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 AAATGCCTTCGGGA-CATAGCCCGGATATAGTAACTCGCAC-AATGCCTTCGGGA-CTTAACCCG
* *
49528594 GATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
63 GATATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
49528636 CATCATTCAA
Statistics
Matches: 89, Mismatches: 10, Indels: 9
0.82 0.09 0.08
Matches are distributed among these distances:
117 16 0.18
118 54 0.61
119 19 0.21
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (119 bp):
AAATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCAT
Found at i:49528619 original size:79 final size:78
Alignment explanation
Indices: 49528394--49528635 Score: 217
Period size: 79 Copynumber: 3.1 Consensus size: 78
49528384 CGGAATTTAA
** * * * * *
49528394 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAT
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTAGCACAAA
*
49528457 GCCTTCGGGACTTAAC
63 GCCTTCGGGACTTAGC
* * *
49528473 CCGGATTTAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCATAAATGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTAGCACAAA-GC
*
49528538 CTTC-GGATCTTAGT
65 CTTCGGGA-CTTAGC
* * * *
49528552 CCGGATAT-GTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG-ATATGGTCA-CTTAGCACAA
1 CCGGATATAGTAACTCGCACAAATGCCTTCGG-GCTTAGCCCGGAAT-TAGT-ATC-TAGCACAA
49528614 AGCCTTCGGGACTTAGC
62 AGCCTTCGGGACTTAGC
49528631 CCGGA
1 CCGGA
49528636 CATCATTCAA
Statistics
Matches: 136, Mismatches: 18, Indels: 18
0.79 0.10 0.10
Matches are distributed among these distances:
78 50 0.37
79 75 0.55
80 11 0.08
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.26
Consensus pattern (78 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTAGCACAAAGCC
TTCGGGACTTAGC
Found at i:49536384 original size:38 final size:37
Alignment explanation
Indices: 49536349--49536474 Score: 107
Period size: 38 Copynumber: 3.3 Consensus size: 37
49536339 GCTACTCGTT
*
49536349 CAAAT-CTTCGGGACATAGCCCGG-TTATAGTAACTCGA
1 CAAATCCTTC-GGACATAACCCGGATT-TAGTAACTCGA
*
49536386 CAAATGCCTTCGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAAT-CCTTCGGACATAACCCGGATTTAGTAACTCG-A
* * * *
49536425 CAAATGCCTTCGG-CTTAGCCCGGAATTAGTATCTCG-
1 CAAAT-CCTTCGGACATAACCCGGATTTAGTAACTCGA
49536461 CAAAATGCCTTCGG
1 C-AAAT-CCTTCGG
49536475 CTTAGTCCGG
Statistics
Matches: 79, Mismatches: 5, Indels: 10
0.84 0.05 0.11
Matches are distributed among these distances:
36 1 0.01
37 17 0.22
38 41 0.52
39 20 0.25
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (37 bp):
CAAATCCTTCGGACATAACCCGGATTTAGTAACTCGA
Found at i:49536524 original size:38 final size:36
Alignment explanation
Indices: 49536364--49536563 Score: 190
Period size: 38 Copynumber: 5.2 Consensus size: 36
49536354 CTTCGGGACA
49536364 TAGCCCGGTTATAGTAACTCG-ACAAATGCCTTCGGACT
1 TAGCCCGG--ATAGTAACTCGCACAAATGCCTTCGG-CT
*
49536402 TAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGCT
1 TAGCCCGGA--TAGTAACTCGCACAAATGCCTTCGGCT
*
49536440 TAGCCCGGAATTAGTATCTCGCA-AAATGCCTTCGGCT
1 TAGCCCGG-A-TAGTAACTCGCACAAATGCCTTCGGCT
* *
49536477 TAGTCCGGATAGTATCTCGCACAAATGCCTTCGGATCT
1 TAGCCCGGATAGTAACTCGCACAAATGCCTTCGG--CT
* * *
49536515 TAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACT
1 TAGCCCGGATA--GTAAC-TCGCACAAATGCCTTC-GG-CT
49536555 TAGCCCGGA
1 TAGCCCGGA
49536564 CATCATTCAA
Statistics
Matches: 142, Mismatches: 9, Indels: 20
0.83 0.05 0.12
Matches are distributed among these distances:
35 12 0.08
36 14 0.10
37 21 0.15
38 51 0.36
39 15 0.11
40 19 0.13
41 10 0.07
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (36 bp):
TAGCCCGGATAGTAACTCGCACAAATGCCTTCGGCT
Found at i:49547167 original size:27 final size:27
Alignment explanation
Indices: 49547130--49547334 Score: 243
Period size: 27 Copynumber: 7.6 Consensus size: 27
49547120 TAAATTGTAC
49547130 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
49547157 AGCACTAAGTGT-CGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
49547183 TGCACTAAGTGGTGCGAAATGAATATG-
1 AGCACTAAGT-GTGCGATTTGACTATGT
* * *
49547210 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
49547238 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
49547266 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
49547293 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
49547320 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
49547335 GACTCAATAT
Statistics
Matches: 154, Mismatches: 19, Indels: 10
0.84 0.10 0.05
Matches are distributed among these distances:
26 23 0.15
27 89 0.58
28 42 0.27
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:49547269 original size:109 final size:108
Alignment explanation
Indices: 49547131--49547334 Score: 304
Period size: 109 Copynumber: 1.9 Consensus size: 108
49547121 AAATTGTACA
* *
49547131 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGT-CGATTTGACTATGTTGCACTAAGTGG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGT-G
49547195 TGCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
65 TGCGAAATGAATAT-ATAGCACTAAGTGTGCGAATTGACCATGCG
*
49547239 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTG
** * *
49547304 TGCGAGTTGATTATATAGCACTGAGTGTGCG
65 TGCGAAATGAATATATAGCACTAAGTGTGCG
49547335 GACTCAATAT
Statistics
Matches: 86, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
108 17 0.20
109 48 0.56
110 21 0.24
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (108 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTGT
GCGAAATGAATATATAGCACTAAGTGTGCGAATTGACCATGCG
Found at i:49547271 original size:55 final size:54
Alignment explanation
Indices: 49547130--49547334 Score: 243
Period size: 55 Copynumber: 3.8 Consensus size: 54
49547120 TAAATTGTAC
49547130 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGT-CGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTATGT
* ** * * * *
49547183 TGCACTAAGTGGTGCGAAATGAATATG-ATGCACTAAGTGTGCGAATTGACCATGC
1 AGCACTAAGT-GTGCGATTTGACTATGTA-GCACTAAGTGTGCGATTTGACTATGT
* * *
49547238 GGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGATTTGACTATGT
* * * *
49547293 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCG
49547335 GACTCAATAT
Statistics
Matches: 126, Mismatches: 21, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
53 10 0.08
54 52 0.41
55 63 0.50
56 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (54 bp):
AGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTATGT
Found at i:49554946 original size:27 final size:27
Alignment explanation
Indices: 49554913--49555117 Score: 243
Period size: 27 Copynumber: 7.6 Consensus size: 27
49554903 GTAAATTTAC
49554913 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
49554940 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * ** *
49554967 TGCGCTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
49554993 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
49555021 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
49555049 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
49555076 AGCACTAAGTGTGCGAGTTGA-TGATAT
1 AGCACTAAGTGTGCGATTTGACT-ATGT
*
49555103 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
49555118 GACTCAATAT
Statistics
Matches: 153, Mismatches: 21, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
26 1 0.01
27 129 0.84
28 23 0.15
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:49561292 original size:40 final size:40
Alignment explanation
Indices: 49561246--49561550 Score: 289
Period size: 40 Copynumber: 7.6 Consensus size: 40
49561236 AATTATTGAA
* *
49561246 TGAATGCACATATGTGCCCCTGTTTGTACTTCAGTACCCT
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCAGTACCCC
* * *
49561286 TAAATGCACATACGTGCCCTTGATTGTACTTC-GATACCCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCAG-TACCCC
* * *
49561326 TGAATGCACATACGCGCCCCTATTTGCACTTCAGTACCCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCAGTACCCC
* * * * *
49561366 TAAATACATATCCGTGCCCCTAATTT-TACTTC-GATACCCC
1 TGAATGCACATACGTGCCCCT-GTTTGTACTTCAG-TACCCC
* * *
49561406 TGAGTACACATACATGCCCCTGTTTGTACTTCAGTACCCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCAGTACCCC
* * **
49561446 TGAATACACATCCGTGCCCCTAATTGTACTTC-GATACCCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCAG-TACCCC
* * *
49561486 TGAGTACACATACATGCCCCTGTTTGTACTT-ATGTACCCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTCA-GTACCCC
* *
49561526 TAAATGCACTTACGTGGCCCC-GTTT
1 TGAATGCACATACGT-GCCCCTGTTT
49561551 ATCGTCCGGT
Statistics
Matches: 217, Mismatches: 38, Indels: 20
0.79 0.14 0.07
Matches are distributed among these distances:
39 6 0.03
40 199 0.92
41 12 0.06
ACGTcount: A:0.23, C:0.32, G:0.14, T:0.30
Consensus pattern (40 bp):
TGAATGCACATACGTGCCCCTGTTTGTACTTCAGTACCCC
Found at i:49561382 original size:80 final size:80
Alignment explanation
Indices: 49561246--49561530 Score: 392
Period size: 80 Copynumber: 3.6 Consensus size: 80
49561236 AATTATTGAA
* ** * * * * *
49561246 TGAATGCACATATGTGCCCCTGTTTGTACTTCAGTACCCTTAAATGCACATACGTGCCCTTGATT
1 TGAATACACATACATGCCCCTGTTTGTACTTCAGTACCCCTAAATACACATCCGTGCCCCTAATT
49561311 GTACTTCGATACCCC
66 GTACTTCGATACCCC
* ** * * *
49561326 TGAATGCACATACGCGCCCCTATTTGCACTTCAGTACCCCTAAATACATATCCGTGCCCCTAATT
1 TGAATACACATACATGCCCCTGTTTGTACTTCAGTACCCCTAAATACACATCCGTGCCCCTAATT
*
49561391 TTACTTCGATACCCC
66 GTACTTCGATACCCC
* *
49561406 TGAGTACACATACATGCCCCTGTTTGTACTTCAGTACCCCTGAATACACATCCGTGCCCCTAATT
1 TGAATACACATACATGCCCCTGTTTGTACTTCAGTACCCCTAAATACACATCCGTGCCCCTAATT
49561471 GTACTTCGATACCCC
66 GTACTTCGATACCCC
*
49561486 TGAGTACACATACATGCCCCTGTTTGTACTT-ATGTACCCCTAAAT
1 TGAATACACATACATGCCCCTGTTTGTACTTCA-GTACCCCTAAAT
49561531 GCACTTACGT
Statistics
Matches: 183, Mismatches: 21, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
79 1 0.01
80 182 0.99
ACGTcount: A:0.24, C:0.32, G:0.14, T:0.31
Consensus pattern (80 bp):
TGAATACACATACATGCCCCTGTTTGTACTTCAGTACCCCTAAATACACATCCGTGCCCCTAATT
GTACTTCGATACCCC
Found at i:49564193 original size:46 final size:46
Alignment explanation
Indices: 49564126--49564254 Score: 195
Period size: 46 Copynumber: 2.8 Consensus size: 46
49564116 TGTAACCCGC
* * * * *
49564126 CCATAGGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
49564172 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
49564218 CCATAAGTGAACTCGGGCTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
49564255 TACCCAAATA
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 75 1.00
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:49568750 original size:27 final size:26
Alignment explanation
Indices: 49568714--49568798 Score: 80
Period size: 27 Copynumber: 3.2 Consensus size: 26
49568704 CAGCGACGGT
*
49568714 AATATAATCGGCACATAGCCATGGGTA
1 AATATGATCGGCACATAGCCAT-GGTA
* * * **
49568741 AATATGATCGACACAGAGTCATCGACA
1 AATATGATCGGCACATAGCCAT-GGTA
*
49568768 AATATGATAGGCACATAGCCACTGGTA
1 AATATGATCGGCACATAGCCA-TGGTA
49568795 AATA
1 AATA
49568799 CAATTTGCAC
Statistics
Matches: 44, Mismatches: 13, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
27 43 0.98
28 1 0.02
ACGTcount: A:0.40, C:0.19, G:0.20, T:0.21
Consensus pattern (26 bp):
AATATGATCGGCACATAGCCATGGTA
Found at i:49569061 original size:27 final size:27
Alignment explanation
Indices: 49569031--49569118 Score: 97
Period size: 27 Copynumber: 3.3 Consensus size: 27
49569021 AAAAACAATC
49569031 ATTTTACCCTACAAGGGTATTTTGGTA
1 ATTTTACCCTACAAGGGTATTTTGGTA
* **
49569058 ATTTTACACTACAAGGGTATTTCAGTA
1 ATTTTACCCTACAAGGGTATTTTGGTA
** **
49569085 ATTTTA-CAAACTGGGAGTATTTTGGTA
1 ATTTTACCCTACAAGG-GTATTTTGGTA
49569112 ATTTTAC
1 ATTTTAC
49569119 AAATTGAGGG
Statistics
Matches: 49, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
26 4 0.08
27 45 0.92
ACGTcount: A:0.30, C:0.12, G:0.17, T:0.41
Consensus pattern (27 bp):
ATTTTACCCTACAAGGGTATTTTGGTA
Done.