Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000520.1 Hibiscus syriacus cultivar Beakdansim tig00000991_pilon, whole genome shotgun sequence
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: 1956684
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 11
Found at i:373034 original size:13 final size:13
Alignment explanation
Indices: 372995--373037 Score: 59
Period size: 13 Copynumber: 3.3 Consensus size: 13
372985 TATTGGACCC
*
372995 TAAAAAAAATAAA
1 TAAAATAAATAAA
* *
373008 CAAAATGAATAAA
1 TAAAATAAATAAA
373021 TAAAATAAATAAA
1 TAAAATAAATAAA
373034 TAAA
1 TAAA
373038 TACAATGTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (13 bp):
TAAAATAAATAAA
Found at i:373136 original size:37 final size:37
Alignment explanation
Indices: 373067--373234 Score: 241
Period size: 37 Copynumber: 4.5 Consensus size: 37
373057 TATTTTTTAA
373067 AAAACTA-ATATTATATATA-TTTCAAAAATGTTTTC
1 AAAACTATATATTATATATATTTTCAAAAATGTTTTC
373102 AAAACTATATATTATATATATTTTCAAAAATGTTTTC
1 AAAACTATATATTATATATATTTTCAAAAATGTTTTC
** *
373139 AAAACTATATATTATATATATTTTCAAAAACAATTCTC
1 AAAACTATATATTATATATATTTTCAAAAA-TGTTTTC
*
373177 AAAACTATATATTATATATATTTTCAAAAAAAATGCTTTC
1 AAAACTATATATTATATATATTTTC---AAAAATGTTTTC
*
373217 AACACTATATATTATATA
1 AAAACTATATATTATATA
373235 CGTTATATGT
Statistics
Matches: 119, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
35 7 0.06
36 12 0.10
37 46 0.39
38 29 0.24
40 20 0.17
41 5 0.04
ACGTcount: A:0.46, C:0.10, G:0.02, T:0.42
Consensus pattern (37 bp):
AAAACTATATATTATATATATTTTCAAAAATGTTTTC
Found at i:374511 original size:15 final size:15
Alignment explanation
Indices: 374491--374520 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
374481 TGGCGCCCAA
374491 AGCTGAGAAGAAGCC
1 AGCTGAGAAGAAGCC
374506 AGCTGAGAAGAAGCC
1 AGCTGAGAAGAAGCC
374521 GGCCGAGGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.20, G:0.33, T:0.07
Consensus pattern (15 bp):
AGCTGAGAAGAAGCC
Found at i:376598 original size:20 final size:20
Alignment explanation
Indices: 376559--376633 Score: 69
Period size: 20 Copynumber: 3.7 Consensus size: 20
376549 AATTACTCAA
* **
376559 CTAATTATTTTATTTTTCAC
1 CTAATTATTTTCTTAATCAC
376579 CTAATTATTTTCTTAATCAC
1 CTAATTATTTTCTTAATCAC
*** *
376599 CCGTTCTATTTTTTTAATCAC
1 CTAAT-TATTTTCTTAATCAC
*
376620 CTAACTATTTTCTT
1 CTAATTATTTTCTT
376634 TTTCAAAATC
Statistics
Matches: 42, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
20 27 0.64
21 15 0.36
ACGTcount: A:0.24, C:0.20, G:0.01, T:0.55
Consensus pattern (20 bp):
CTAATTATTTTCTTAATCAC
Found at i:394526 original size:17 final size:19
Alignment explanation
Indices: 394502--394541 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
394492 CAATTGAAAA
*
394502 TTTAAAATTATC-ATATAT
1 TTTAAATTTATCTATATAT
*
394520 TTTAAATTTTTCTATATAT
1 TTTAAATTTATCTATATAT
394539 TTT
1 TTT
394542 TTTTATTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (19 bp):
TTTAAATTTATCTATATAT
Found at i:399295 original size:3 final size:3
Alignment explanation
Indices: 399287--399331 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
399277 CCATTTTAAA
399287 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-T ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
399332 ACAAATAATT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 39 0.95
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:400752 original size:16 final size:17
Alignment explanation
Indices: 400730--400773 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
400720 ATTTCATATA
400730 AATATATTTAATTAAAT
1 AATATATTTAATTAAAT
*
400747 -ATATATATAATTAAAT
1 AATATATTTAATTAAAT
400763 AATAATATTTA
1 AAT-ATATTTA
400774 TTTATTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 15 0.65
17 2 0.09
18 6 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AATATATTTAATTAAAT
Found at i:403735 original size:7 final size:7
Alignment explanation
Indices: 403719--403758 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
403709 TTTTCATACA
403719 TGCA-TT
1 TGCATTT
403725 TGCATTT
1 TGCATTT
403732 TGCATCTT
1 TGCAT-TT
403740 TGCATTT
1 TGCATTT
403747 T-CATTT
1 TGCATTT
403753 TGCATT
1 TGCATT
403759 CGTACTTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
6 10 0.32
7 14 0.45
8 7 0.23
ACGTcount: A:0.15, C:0.17, G:0.12, T:0.55
Consensus pattern (7 bp):
TGCATTT
Found at i:409018 original size:55 final size:55
Alignment explanation
Indices: 408925--409093 Score: 223
Period size: 55 Copynumber: 3.1 Consensus size: 55
408915 TCAATGATTG
* * * * * *
408925 AGAACATCTGGGCAGAAGCCACAGAAAAGAATGAATGTGTTATCAAATTTTTTAC
1 AGAACATCTGTGCAGAAGCCAAAGGAAAGGATGAATGTGTTGTCAAATGTTTTAC
* * * *
408980 ATAACATTTGTGCATAAGCCAAAGGAAAGGATAAATGTGTTGTCAAATGTTTTAC
1 AGAACATCTGTGCAGAAGCCAAAGGAAAGGATGAATGTGTTGTCAAATGTTTTAC
* *
409035 AGAACATCTGTGCAGAAGCCATAGGAAAGGATGAATGTATTGTCAAATGTTTTAC
1 AGAACATCTGTGCAGAAGCCAAAGGAAAGGATGAATGTGTTGTCAAATGTTTTAC
409090 -GAAC
1 AGAAC
409094 CAGTGATTAT
Statistics
Matches: 98, Mismatches: 16, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
54 4 0.04
55 94 0.96
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.27
Consensus pattern (55 bp):
AGAACATCTGTGCAGAAGCCAAAGGAAAGGATGAATGTGTTGTCAAATGTTTTAC
Found at i:409483 original size:22 final size:22
Alignment explanation
Indices: 409458--409558 Score: 141
Period size: 22 Copynumber: 4.6 Consensus size: 22
409448 ACATCTACAT
409458 TCTTCAAAGATGATAGATTCAT-
1 TCTTCAAAGATGATAGATTC-TC
* *
409480 TCTTCAAAGATGATATATCCTC
1 TCTTCAAAGATGATAGATTCTC
*
409502 TCTTCAAAGATGATAGGTTCTC
1 TCTTCAAAGATGATAGATTCTC
*
409524 TCTTCAAAGATGATATATTCTC
1 TCTTCAAAGATGATAGATTCTC
*
409546 TTTTCAAAGATGA
1 TCTTCAAAGATGA
409559 AAGCTTTATT
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
21 1 0.01
22 69 0.99
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.38
Consensus pattern (22 bp):
TCTTCAAAGATGATAGATTCTC
Found at i:409528 original size:44 final size:44
Alignment explanation
Indices: 409458--409558 Score: 159
Period size: 44 Copynumber: 2.3 Consensus size: 44
409448 ACATCTACAT
409458 TCTTCAAAGATGATAGATTCATTCTTCAAAGATGATATATCCTC
1 TCTTCAAAGATGATAGATTCATTCTTCAAAGATGATATATCCTC
* *
409502 TCTTCAAAGATGATAGGTTC-TCTCTTCAAAGATGATATATTCTC
1 TCTTCAAAGATGATAGATTCAT-TCTTCAAAGATGATATATCCTC
*
409546 TTTTCAAAGATGA
1 TCTTCAAAGATGA
409559 AAGCTTTATT
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
43 1 0.02
44 52 0.98
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.38
Consensus pattern (44 bp):
TCTTCAAAGATGATAGATTCATTCTTCAAAGATGATATATCCTC
Found at i:410421 original size:116 final size:116
Alignment explanation
Indices: 410217--410901 Score: 1163
Period size: 116 Copynumber: 5.9 Consensus size: 116
410207 CTATTTCCCA
* *
410217 CATCTGTAAGACCTACAGTGTAAGATGATAAGACCTCAGGGCCATCCATAAGACCTACAATGCAG
1 CATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAG
* *
410282 GATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATGTTTAAAGCCTCCGGGT
66 GATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAGCCTCTGGGT
* *
410333 CATCTGTAAGACCTATAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGTCCTACAGTGCAG
1 CATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAG
410398 GATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAGCCTCTGGGT
66 GATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAGCCTCTGGGT
* *
410449 CATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGTCATCCATAAGACCTACAGTACAG
1 CATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAG
410514 GATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAGCCTCTGGGT
66 GATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAGCCTCTGGGT
410565 CATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAG
1 CATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAG
* *
410630 GATGTTTTCAAAAAGCATTCGGGAGCTTTTTGATATTTAAAGCCTCCGGGT
66 GATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAGCCTCTGGGT
* * *
410681 CATCTGTAAGACCTATAGTGCAAGATGATAAGACCTCAGGGTCATCCATAAGACCTACACTGCAG
1 CATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAG
* *
410746 GATGTTTTCAAAAAGCCTTCGGGAGTTTTTTGATATTTAAAGCCTTTGGGT
66 GATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAGCCTCTGGGT
* * *
410797 CATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGTGTCATCCATAAGACCTACTGTGCAG
1 CATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAG
* *
410862 GATGTTTTCAAAAAAAAGCCTTCGGAAGCTTTTTAATATT
66 GATGTTTTC---AAAAAGCCTTCGGGAGCTTTTTGATATT
410902 CAAGACCTAA
Statistics
Matches: 538, Mismatches: 28, Indels: 3
0.95 0.05 0.01
Matches are distributed among these distances:
116 513 0.95
119 25 0.05
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (116 bp):
CATCTGTAAGACCTACAGTGCAAGATGATAAGACCTCAGGGCCATCCATAAGACCTACAGTGCAG
GATGTTTTCAAAAAGCCTTCGGGAGCTTTTTGATATTTAAAGCCTCTGGGT
Found at i:410599 original size:22 final size:21
Alignment explanation
Indices: 410571--410629 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
410561 GGGTCATCTG
410571 TAAGACCTACAGTGCAAGATGA
1 TAAGACCTACAGTGC-AGATGA
* * *
410593 TAAGACCT-CAGGGC-CATCCA
1 TAAGACCTACAGTGCAGAT-GA
410613 TAAGACCTACAGTGCAG
1 TAAGACCTACAGTGCAG
410630 GATGTTTTCA
Statistics
Matches: 29, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
19 2 0.07
20 9 0.31
21 10 0.34
22 8 0.28
ACGTcount: A:0.36, C:0.25, G:0.22, T:0.17
Consensus pattern (21 bp):
TAAGACCTACAGTGCAGATGA
Found at i:410953 original size:77 final size:77
Alignment explanation
Indices: 410856--411027 Score: 272
Period size: 77 Copynumber: 2.2 Consensus size: 77
410846 AAGACCTACT
* *
410856 GTGCAGGATGTTTTCAAAAAAAAGCCTTCGGAAGCTTTTTAATATTCAAGACCTAAGGGTCATCT
1 GTGCAGGATGTTTTCAAAAAAAAGCCTTAGGAAGCTTTTTAATATTCAAGACCTAAGGGCCATCT
410921 ATAAAAACTCCA
66 ATAAAAACTCCA
** *
410933 GTGCAGGATGTTTTCAAAAAAAAGCCTTAGGGTGCTTTTTAATATTCAAGACCTCAGGGCCATCT
1 GTGCAGGATGTTTTCAAAAAAAAGCCTTAGGAAGCTTTTTAATATTCAAGACCTAAGGGCCATCT
* *
410998 GTAAGAACTCCA
66 ATAAAAACTCCA
*
411010 GTGCATGATGTTTTCAAA
1 GTGCAGGATGTTTTCAAA
411028 TGAGATTTTA
Statistics
Matches: 87, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
77 87 1.00
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (77 bp):
GTGCAGGATGTTTTCAAAAAAAAGCCTTAGGAAGCTTTTTAATATTCAAGACCTAAGGGCCATCT
ATAAAAACTCCA
Found at i:411290 original size:3 final size:3
Alignment explanation
Indices: 411282--411332 Score: 86
Period size: 3 Copynumber: 17.3 Consensus size: 3
411272 CCATTTTAAA
*
411282 ATT ATT ATT ATT ATA ATT ATT ATT ATT ATT ATT ATT ATT A-T ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
411329 ATT A
1 ATT A
411333 ACAAATAATT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
2 2 0.04
3 43 0.96
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:412721 original size:22 final size:22
Alignment explanation
Indices: 412690--412748 Score: 75
Period size: 22 Copynumber: 2.7 Consensus size: 22
412680 ATTTTATTTC
*
412690 ATATAAATATATTTAATTAAAT
1 ATATATATATATTTAATTAAAT
*
412712 ATATATATATATATAATTAAAT
1 ATATATATATATTTAATTAAAT
*
412734 A-ATAATATTTATTTA
1 ATAT-ATATATATTTA
412749 TTTTTTAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
21 2 0.06
22 30 0.94
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
ATATATATATATTTAATTAAAT
Found at i:412869 original size:126 final size:127
Alignment explanation
Indices: 412736--412965 Score: 342
Period size: 126 Copynumber: 1.8 Consensus size: 127
412726 AATTAAATAA
* *
412736 TAATATTTATTTATTTTTTAATAT-TAAGAAATGAGCTGTCTT-AAAGTAACTAGATGTCATTTT
1 TAATATTTATTTA-TTTTTAATATCAAAGAAATGAGCTGT-TTAAAAGCAACTAGATGTCATTTT
* *
412799 CTGATATTTTT-AATGAATAAAATATTATA-TTATATTTTATTTTATATAAATTATCATATTTTC
64 CTGATATTTTTAAATAAAT-AAATATTATATTTATAATTTATTTTATATAAATTATCATATTTTC
* *
412862 TAATATTTATTTATTTTTAATATCAAAGAAATGGGTTGTTTAAAAGCAACTAGATGTCATTTTCT
1 TAATATTTATTTATTTTTAATATCAAAGAAATGAGCTGTTTAAAAGCAACTAGATGTCATTTTCT
*
412927 GATATTTTTAAATAAATAAATATTTTATTTATAATTTAT
66 GATATTTTTAAATAAATAAATATTATATTTATAATTTAT
412966 AAAAATCATT
Statistics
Matches: 93, Mismatches: 7, Indels: 7
0.87 0.07 0.07
Matches are distributed among these distances:
125 12 0.13
126 65 0.70
127 16 0.17
ACGTcount: A:0.37, C:0.05, G:0.08, T:0.50
Consensus pattern (127 bp):
TAATATTTATTTATTTTTAATATCAAAGAAATGAGCTGTTTAAAAGCAACTAGATGTCATTTTCT
GATATTTTTAAATAAATAAATATTATATTTATAATTTATTTTATATAAATTATCATATTTTC
Found at i:414261 original size:27 final size:27
Alignment explanation
Indices: 414223--414282 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
414213 GAATGGTAGA
* * *
414223 AGAAGAATCTGGTTGTGGAACAAGA-GG
1 AGAAGAAGCTGGTTGAGAAACAA-ATGG
414250 AGAAGAAGCTGGTTGAGAAACAAATGG
1 AGAAGAAGCTGGTTGAGAAACAAATGG
414277 AGAAGA
1 AGAAGA
414283 GTCTAACTGA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 1 0.03
27 28 0.97
ACGTcount: A:0.43, C:0.07, G:0.35, T:0.15
Consensus pattern (27 bp):
AGAAGAAGCTGGTTGAGAAACAAATGG
Found at i:415915 original size:15 final size:15
Alignment explanation
Indices: 415891--415925 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
415881 TAATACATAA
415891 AAGA-GTTAATCACG
1 AAGATGTTAATCACG
415905 AAGATGTTAATCACG
1 AAGATGTTAATCACG
415920 AAGATG
1 AAGATG
415926 CTATGTCGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 4 0.20
15 16 0.80
ACGTcount: A:0.43, C:0.11, G:0.23, T:0.23
Consensus pattern (15 bp):
AAGATGTTAATCACG
Found at i:419786 original size:17 final size:17
Alignment explanation
Indices: 419764--419809 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
419754 TGAAGCTGCA
*
419764 AAGAAAGAA-AGAAGAAG
1 AAGAAA-AAGAGAAGAAC
419781 AAGAAAAAGAGAAGAAC
1 AAGAAAAAGAGAAGAAC
419798 AAGACAAAAGAG
1 AAGA-AAAAGAG
419810 GTAGGATTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 2 0.08
17 17 0.65
18 7 0.27
ACGTcount: A:0.70, C:0.04, G:0.26, T:0.00
Consensus pattern (17 bp):
AAGAAAAAGAGAAGAAC
Found at i:430303 original size:3 final size:3
Alignment explanation
Indices: 430297--430353 Score: 57
Period size: 3 Copynumber: 19.3 Consensus size: 3
430287 TATTATTACT
* *
430297 TAA TAA TAA TAA TATA TAA -AA -AA T-A TAAA TAA TAA TAA TAT TTA
1 TAA TAA TAA TAA TA-A TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA
430341 TAA TAA TAA TAA T
1 TAA TAA TAA TAA T
430354 TTAAGTAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
2 6 0.13
3 35 0.76
4 5 0.11
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:430636 original size:76 final size:76
Alignment explanation
Indices: 430511--430969 Score: 855
Period size: 76 Copynumber: 6.0 Consensus size: 76
430501 GGTCTTATGA
* *
430511 ATGACCCTGAGGGTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGC
1 ATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGC
*
430576 AGGACTTACAA
66 AGGACTTACAG
*
430587 ATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGT
1 ATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGC
430652 AGGACTTACAG
66 AGGACTTACAG
430663 ATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGC
1 ATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGC
*
430728 AGGATTTACAG
66 AGGACTTACAG
430739 ATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGC
1 ATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGC
*
430804 AAGACTTACAG
66 AGGACTTACAG
*
430815 ATGACCCTAAGGCTTTGAAACCATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGC
1 ATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGC
430880 AGGACTTACAG
66 AGGACTTACAG
430891 ATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGC
1 ATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGC
430956 AGGACTTACAG
66 AGGACTTACAG
430967 ATG
1 ATG
430970 TGGGAAATAG
Statistics
Matches: 372, Mismatches: 11, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 372 1.00
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (76 bp):
ATGACCCTAAGGCTTTGAAAACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGC
AGGACTTACAG
Found at i:431332 original size:188 final size:187
Alignment explanation
Indices: 430910--431420 Score: 936
Period size: 188 Copynumber: 2.7 Consensus size: 187
430900 AGGCTTTGAA
430910 AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGTGGGA
1 AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGTGGGA
* * *
430975 AATAGTTTACTAAGT-AAGAAACTATGAAAATCGTTTTCTTACTTTTCAACAATTTCA-TTTTAG
66 AATAGTTTACTAAGTAAAAAAACTAAGGAAATCGTTTTCTTACTTTTCAACAATTTCATTTTTAG
431038 AAAAGATAAAATGAGAAACTATGGAAATCGTTTTCTCATTATTTTTTTCAAAATAAC
131 AAAAGATAAAATGAGAAACTATGGAAATCGTTTTCTCATTATTTTTTTCAAAATAAC
*
431095 AACATCAAAAAGCTCCTGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGTGGGA
1 AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGTGGGA
431160 AATAGTTTACTAAGTAAAAAAACTAAGGAAATCGTTTTCTTACTTTTCAACAATTTCATTTTTAG
66 AATAGTTTACTAAGTAAAAAAACTAAGGAAATCGTTTTCTTACTTTTCAACAATTTCATTTTTAG
431225 AAAAGATAAAATGAGAAACTATGGAAATCGTTTTCTCATTATTTTTTTTCAAAATAAC
131 AAAAGATAAAATGAGAAACTATGGAAATCGTTTTCTCATTA-TTTTTTTCAAAATAAC
*
431283 AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACGGATGTGGGA
1 AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGTGGGA
*
431348 AATAGTTTACTAAGTAAAAAAAACTAAGGAAATCGTTTTCTTACTTTTCAACAATTTCATTTTCA
66 AATAGTTTACTAAGT-AAAAAAACTAAGGAAATCGTTTTCTTACTTTTCAACAATTTCATTTTTA
431413 GAAAAGAT
130 GAAAAGAT
431421 TGAATGCACT
Statistics
Matches: 315, Mismatches: 7, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
185 79 0.25
186 39 0.12
187 47 0.15
188 94 0.30
189 56 0.18
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (187 bp):
AACATCAAAAAGCTCCCGAAGGCTTTTTGGAAACATCATGCACTGCAGGACTTACAGATGTGGGA
AATAGTTTACTAAGTAAAAAAACTAAGGAAATCGTTTTCTTACTTTTCAACAATTTCATTTTTAG
AAAAGATAAAATGAGAAACTATGGAAATCGTTTTCTCATTATTTTTTTCAAAATAAC
Found at i:431820 original size:22 final size:22
Alignment explanation
Indices: 431792--431846 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
431782 CATAAAGCTT
431792 TCATCTTTGAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
*
431814 TCATCTTTAAAAAGAGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
431836 TCATCTTTGAA
1 TCATCTTTGAA
431847 GAGTGTAGAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:432349 original size:54 final size:53
Alignment explanation
Indices: 432213--432367 Score: 192
Period size: 54 Copynumber: 3.0 Consensus size: 53
432203 AGAATAGCAG
* *
432213 GTTCGTAAAACATTTGACAGTGCATTCAT-CTTTTCCTGTGGTTTCTG-TC-GA
1 GTTCGTAAAACATTTGACAATACATTCATCCTTTT-CTGTGGTTTCTGCTCAGA
* * * *
432264 GAT-GTAAAACACTTGATAACACATTCATCCTTTTCTGTGGTTTCTGCTCAGA
1 GTTCGTAAAACATTTGACAATACATTCATCCTTTTCTGTGGTTTCTGCTCAGA
* *
432316 TGTTCGTAAAGCATTTGACAATACATTCATCCTTTTCTGTGGCTTCTGCTCA
1 -GTTCGTAAAACATTTGACAATACATTCATCCTTTTCTGTGGTTTCTGCTCA
432368 AATTTCTCAA
Statistics
Matches: 87, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
50 32 0.37
51 9 0.10
52 2 0.02
53 2 0.02
54 42 0.48
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.39
Consensus pattern (53 bp):
GTTCGTAAAACATTTGACAATACATTCATCCTTTTCTGTGGTTTCTGCTCAGA
Found at i:434711 original size:113 final size:113
Alignment explanation
Indices: 434447--434783 Score: 548
Period size: 113 Copynumber: 3.0 Consensus size: 113
434437 GATCATGCAG
* * *
434447 TTCATCTTTCAATTACAATGATTGGTTCTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
* * * *
434512 ACACTTCCAGAAGATGCTATTGAGCCTCTTTATTTCTACTATGAGCAAA
66 ATACTTCCAGAAGATGCTATTG-GGCTCCTTATTTCTACTATGAGAAAA
*
434561 TTCATCTTTCAAATCTAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
*
434626 ATATTTCCAGAAGATGCTATTGGGCTCCTTATTTCTACTATGAGAAAA
66 ATACTTCCAGAAGATGCTATTGGGCTCCTTATTTCTACTATGAGAAAA
**
434674 TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATATTAAACCAGATCAGATAACTCAAAGA
1 TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
*
434739 ATACTTCCAGAAGATGCTATTGGGTCTTCTTATTTCTACTATGAG
66 ATACTTCCAGAAGATGCTATTGGG-CTCCTTATTTCTACTATGAG
434784 CACATGGCAC
Statistics
Matches: 208, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
113 108 0.52
114 100 0.48
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.34
Consensus pattern (113 bp):
TTCATCTTTCAAATCCAATGATTGGTTTTGGGGTTCATACCAAACCAGATCAGATAACTCAAAGA
ATACTTCCAGAAGATGCTATTGGGCTCCTTATTTCTACTATGAGAAAA
Found at i:438931 original size:36 final size:35
Alignment explanation
Indices: 438852--438937 Score: 84
Period size: 36 Copynumber: 2.4 Consensus size: 35
438842 ATGTAAATGC
* *
438852 GAAAATGCATAA-ATGAAAAAATAAGAATGCAAACT
1 GAAAATGCA-AAGATGAAAAAATAAGAATACAAAAT
** *
438887 GTGTAATGCAAAGATGTAAAAAGTAAGAATACAAAAT
1 G-AAAATGCAAAGATG-AAAAAATAAGAATACAAAAT
*
438924 GAAAATGCACAGAT
1 GAAAATGCAAAGAT
438938 ACAAAATGTA
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
35 3 0.08
36 19 0.47
37 18 0.45
ACGTcount: A:0.56, C:0.08, G:0.17, T:0.19
Consensus pattern (35 bp):
GAAAATGCAAAGATGAAAAAATAAGAATACAAAAT
Found at i:440381 original size:231 final size:231
Alignment explanation
Indices: 439978--440429 Score: 859
Period size: 231 Copynumber: 2.0 Consensus size: 231
439968 GTAATTTCTC
439978 AAGTTGGTTAGGATCAGAAGTCCCTTGCATATTTGAGATTGCAGGGTTAAGTTCATTGAGCTCTC
1 AAGTTGGTTAGGATCAGAAGTCCCTTGCATATTTGAGATTGCAGGGTTAAGTTCATTGAGCTCTC
* *
440043 TCTCTTTCTGTGCCGGAATCTCTTTTTCTTTGTCCAAAACGGATATTCTATCCATCATCTTGGTC
66 TCTCTTTCTGTGCAGGAATCTCTTTTTCTTTGTCCAAAACAGATATTCTATCCATCATCTTGGTC
440108 ATCTGCTCTCTTATCTCACGTATCTCCTTTTGATCTTTAATGGGCATACGATCTTTGGGTGCATA
131 ATCTGCTCTCTTATCTCACGTATCTCCTTTTGATCTTTAATGGGCATACGATCTTTGGGTGCATA
*
440173 GCTCTCCTCTATCATCGGAGTTCCCTTGCATATTTG
196 ACTCTCCTCTATCATCGGAGTTCCCTTGCATATTTG
440209 AAGTTGGTTAGGATCAGAAGTCCCTTGCATATTTGAGATTGCAGGGTTAAGTTCATTGAGCTCTC
1 AAGTTGGTTAGGATCAGAAGTCCCTTGCATATTTGAGATTGCAGGGTTAAGTTCATTGAGCTCTC
* *
440274 TCTCTTTCTGTGCAGGAATCTCTTTTTCTTTGTCCAAAATAGATATTCTATCTATCATCTTGGTC
66 TCTCTTTCTGTGCAGGAATCTCTTTTTCTTTGTCCAAAACAGATATTCTATCCATCATCTTGGTC
440339 ATCTGCTCTCTTATCTCACGTATCTCCTTTTGATCTTTAATGGGCATACGATCTTTGGGTGCATA
131 ATCTGCTCTCTTATCTCACGTATCTCCTTTTGATCTTTAATGGGCATACGATCTTTGGGTGCATA
440404 ACTCTCCTCTATCATCGGAGTTCCCT
196 ACTCTCCTCTATCATCGGAGTTCCCT
440430 CAGGATGCCA
Statistics
Matches: 216, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
231 216 1.00
ACGTcount: A:0.20, C:0.23, G:0.18, T:0.40
Consensus pattern (231 bp):
AAGTTGGTTAGGATCAGAAGTCCCTTGCATATTTGAGATTGCAGGGTTAAGTTCATTGAGCTCTC
TCTCTTTCTGTGCAGGAATCTCTTTTTCTTTGTCCAAAACAGATATTCTATCCATCATCTTGGTC
ATCTGCTCTCTTATCTCACGTATCTCCTTTTGATCTTTAATGGGCATACGATCTTTGGGTGCATA
ACTCTCCTCTATCATCGGAGTTCCCTTGCATATTTG
Found at i:443173 original size:3 final size:3
Alignment explanation
Indices: 443167--443227 Score: 61
Period size: 3 Copynumber: 19.3 Consensus size: 3
443157 TATTATTACT
* *
443167 TAA TAA TAA TAA TATA TAAA TAA -ATA TAAA TAA TAA TAA TAA TAT TTA
1 TAA TAA TAA TAA TA-A T-AA TAA TA-A T-AA TAA TAA TAA TAA TAA TAA
443215 TAA TAA TAA TAA T
1 TAA TAA TAA TAA T
443228 TTAAGTAAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
2 1 0.02
3 40 0.82
4 6 0.12
5 2 0.04
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:443193 original size:10 final size:11
Alignment explanation
Indices: 443174--443226 Score: 60
Period size: 10 Copynumber: 5.1 Consensus size: 11
443164 ACTTAATAAT
443174 AATAATATATA
1 AATAATATATA
443185 AATAA-ATATA
1 AATAATATATA
443195 AATAATA-AT-
1 AATAATATATA
*
443204 AATAATATTTA
1 AATAATATATA
443215 TAATAATA-ATA
1 -AATAATATATA
443226 A
1 A
443227 TTTAAGTAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
9 7 0.19
10 14 0.39
11 8 0.22
12 7 0.19
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (11 bp):
AATAATATATA
Found at i:448156 original size:2 final size:2
Alignment explanation
Indices: 448149--448183 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
448139 AAGATCGTGT
448149 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
448184 CTAACGGGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:454630 original size:2 final size:2
Alignment explanation
Indices: 454623--454650 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
454613 GATGACCTTC
454623 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
454651 CAAAATTTCG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:469041 original size:476 final size:476
Alignment explanation
Indices: 468145--469103 Score: 1902
Period size: 476 Copynumber: 2.0 Consensus size: 476
468135 AAGAAATTTG
468145 AAAT-CTATGGCATTATGAATATGAATGTTTTTAGCACATGAACAGGCACGAACAAAAGAAAATT
1 AAATACTATGGCATTATGAATATGAATGTTTTTAGCACATGAACAGGCACGAACAAAAGAAAATT
*
468209 AAAAAATATATGGCATGTCATAAACATACCGTATGGATTGGCATCCAACGCTCACTTGAAAGCTC
66 AAAAAATATATGGCATGTCATAAACATACCGTATGGACTGGCATCCAACGCTCACTTGAAAGCTC
468274 ATAGCCATTTGGATCATCACCAGGAGGATGAAGAATTGATATGCAAACACGCCCATCAGGATAAA
131 ATAGCCATTTGGATCATCACCAGGAGGATGAAGAATTGATATGCAAACACGCCCATCAGGATAAA
468339 CTGCAATACACATAAAGATGGAATTAGTTCATGTATAATATAAAGGCAAGTAAGAAACTGAGAAA
196 CTGCAATACACATAAAGATGGAATTAGTTCATGTATAATATAAAGGCAAGTAAGAAACTGAGAAA
468404 ACAAAAGGTATACAGTTAGGATGCCAAATCTCTGATGTAAATTTCACTGTTGGAGGGCTGTTTGG
261 ACAAAAGGTATACAGTTAGGATGCCAAATCTCTGATGTAAATTTCACTGTTGGAGGGCTGTTTGG
468469 ATAATTATGTGGAAAACTCATGATGGCATTGAAAAAACCCCCCTCACTGAAAAAAAATAGAATAT
326 ATAATTATGTGGAAAACTCATGATGGCATTGAAAAAACCCCCCTCACTGAAAAAAAATAGAATAT
468534 TTATGTTCAACAAGATTGAAAATAAAAATAATAAAATGTCAAGATTACTAAAACCAAATACCAAA
391 TTATGTTCAACAAGATTGAAAATAAAAATAATAAAATGTCAAGATTACTAAAACCAAATACCAAA
468599 AACAATTATTCTCACAGCAAC
456 AACAATTATTCTCACAGCAAC
468620 AAATACTATGGCATTATGAATATGAATGTTTTTAGCACATGAACAGGCACGAACAAAAGAAAATT
1 AAATACTATGGCATTATGAATATGAATGTTTTTAGCACATGAACAGGCACGAACAAAAGAAAATT
468685 AAAAAATATATGGCATGTCATAAACATACCGTATGGACTGGCATCCAACGCTCACTTGAAAGCTC
66 AAAAAATATATGGCATGTCATAAACATACCGTATGGACTGGCATCCAACGCTCACTTGAAAGCTC
468750 ATAGCCATTTGGATCATCACCAGGAGGATGAAGAATTGATATGCAAACACGCCCATCAGGATAAA
131 ATAGCCATTTGGATCATCACCAGGAGGATGAAGAATTGATATGCAAACACGCCCATCAGGATAAA
468815 CTGCAATACACATAAAGATGGAATTAGTTCATGTATAATATAAAGGCAAGTAAGAAACTGAGAAA
196 CTGCAATACACATAAAGATGGAATTAGTTCATGTATAATATAAAGGCAAGTAAGAAACTGAGAAA
468880 ACAAAAGGTATACAGTTAGGATGCCAAATCTCTGATGTAAATTTCACTGTTGGAGGGCTGTTTGG
261 ACAAAAGGTATACAGTTAGGATGCCAAATCTCTGATGTAAATTTCACTGTTGGAGGGCTGTTTGG
468945 ATAATTATGTGGAAAACTCATGATGGCATTGAAAAAACCCCCCTCACTGAAAAAAAATAGAATAT
326 ATAATTATGTGGAAAACTCATGATGGCATTGAAAAAACCCCCCTCACTGAAAAAAAATAGAATAT
469010 TTATGTTCAACAAGATTGAAAATAAAAATAATAAAATGTCAAGATTACTAAAACCAAATACCAAA
391 TTATGTTCAACAAGATTGAAAATAAAAATAATAAAATGTCAAGATTACTAAAACCAAATACCAAA
469075 AACAATTATTCTCACAGCAAC
456 AACAATTATTCTCACAGCAAC
469096 AAATACTA
1 AAATACTA
469104 AATACAACTT
Statistics
Matches: 482, Mismatches: 1, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
475 4 0.01
476 478 0.99
ACGTcount: A:0.43, C:0.16, G:0.17, T:0.25
Consensus pattern (476 bp):
AAATACTATGGCATTATGAATATGAATGTTTTTAGCACATGAACAGGCACGAACAAAAGAAAATT
AAAAAATATATGGCATGTCATAAACATACCGTATGGACTGGCATCCAACGCTCACTTGAAAGCTC
ATAGCCATTTGGATCATCACCAGGAGGATGAAGAATTGATATGCAAACACGCCCATCAGGATAAA
CTGCAATACACATAAAGATGGAATTAGTTCATGTATAATATAAAGGCAAGTAAGAAACTGAGAAA
ACAAAAGGTATACAGTTAGGATGCCAAATCTCTGATGTAAATTTCACTGTTGGAGGGCTGTTTGG
ATAATTATGTGGAAAACTCATGATGGCATTGAAAAAACCCCCCTCACTGAAAAAAAATAGAATAT
TTATGTTCAACAAGATTGAAAATAAAAATAATAAAATGTCAAGATTACTAAAACCAAATACCAAA
AACAATTATTCTCACAGCAAC
Found at i:470179 original size:20 final size:21
Alignment explanation
Indices: 470154--470246 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
470144 TTTTCCCAAT
*
470154 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
470174 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
470195 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
470215 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
470236 TCGCAATGCGA
1 TCGCAATGCGA
470247 TACTGACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:470199 original size:41 final size:41
Alignment explanation
Indices: 470154--470246 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
470144 TTTTCCCAAT
470154 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
470195 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
470236 TCGCAATGCGA
1 TCGCAATGCGA
470247 TACTGACTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:470259 original size:41 final size:41
Alignment explanation
Indices: 470173--470307 Score: 132
Period size: 41 Copynumber: 3.3 Consensus size: 41
470163 GAATAAGTAA
* *
470173 ATCGCAACGCGAATTGGGAAAATCGCAATGCGAATA-AGTA-A
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCG-ATACTG-ACT
470214 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
* * ** * * *
470255 ATCGCAATGCGATAAT-ACAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGGGAAAATCGCAATGCGATACTGACT
*
470296 TTCGCAACGCGA
1 ATCGCAACGCGA
470308 TACTGACTTT
Statistics
Matches: 80, Mismatches: 11, Indels: 6
0.82 0.11 0.06
Matches are distributed among these distances:
40 4 0.05
41 74 0.93
42 2 0.03
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.19
Consensus pattern (41 bp):
ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
Found at i:470260 original size:20 final size:20
Alignment explanation
Indices: 470235--470349 Score: 115
Period size: 20 Copynumber: 5.7 Consensus size: 20
470225 AATTGGGAAA
*
470235 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * *
470255 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
* *
470276 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
470296 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
470316 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
470336 TTCGCAACGCGATA
1 ATCGCAACGCGATA
470350 ATACATAATC
Statistics
Matches: 81, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
19 2 0.02
20 64 0.79
21 13 0.16
22 2 0.02
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:470308 original size:41 final size:41
Alignment explanation
Indices: 470232--470369 Score: 154
Period size: 41 Copynumber: 3.4 Consensus size: 41
470222 GCGAATTGGG
* * *
470232 AAAATCGCAATGCGATACTGACTATCGCAATGCGATAATAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
* * *
470273 AAAATCGCAACGAGATACTTACTTTCGCAACGCGATACTGAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAAT-AC
** *
470315 --TTTCGCAACGCGATTCTGACTTTCGCAACGCGATAATAC
1 AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
* *
470354 ATAATCGCAATGCGAT
1 AAAATCGCAACGCGAT
470370 TTTCAAAGCG
Statistics
Matches: 79, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
39 2 0.03
40 31 0.39
41 44 0.56
42 2 0.03
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (41 bp):
AAAATCGCAACGCGATACTGACTTTCGCAACGCGATAATAC
Found at i:472300 original size:66 final size:66
Alignment explanation
Indices: 472194--472324 Score: 237
Period size: 66 Copynumber: 2.0 Consensus size: 66
472184 AATTACTATC
*
472194 GCAATGCGAAATGAAAATCGCAACAAGAGAATCGCAATGCGAAATGAAAATCGCAACGCTAATTT
1 GCAATGCGAAATGAAAATCGCAACAAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAATTT
472259 T
66 T
472260 GCAATGCGAAATGAAAATCGCAACGAA-AGAATCGCAATGCGAAATGAAAATCGCAACGCGAATT
1 GCAATGCGAAATGAAAATCGCAAC-AAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAATT
472324 T
65 T
472325 AATTTCGCGT
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
66 61 0.97
67 2 0.03
ACGTcount: A:0.44, C:0.18, G:0.21, T:0.17
Consensus pattern (66 bp):
GCAATGCGAAATGAAAATCGCAACAAGAGAATCGCAATGCGAAATGAAAATCGCAACGCGAATTT
T
Found at i:472317 original size:33 final size:33
Alignment explanation
Indices: 472191--472317 Score: 186
Period size: 33 Copynumber: 3.8 Consensus size: 33
472181 GGAAATTACT
472191 ATCGCAATGCGAAATGAAAATCGCAAC-AAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAA-AGA
* *
472224 ATCGCAATGCGAAATGAAAATCGCAACGCTAA-T
1 ATCGCAATGCGAAATGAAAATCGCAACG-AAAGA
* *
472257 TTTGCAATGCGAAATGAAAATCGCAACGAAAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAAAGA
472290 ATCGCAATGCGAAATGAAAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
472318 CGAATTTAAT
Statistics
Matches: 83, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
32 2 0.02
33 79 0.95
34 1 0.01
35 1 0.01
ACGTcount: A:0.45, C:0.19, G:0.20, T:0.16
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAAAGA
Found at i:472368 original size:33 final size:33
Alignment explanation
Indices: 472326--472406 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
472316 CGCGAATTTA
*
472326 ATTTCGCGTTGCGTTTCTCTCGTTACGATTTTC
1 ATTTCGCGTTGCGATTCTCTCGTTACGATTTTC
472359 ATTTCGCGTTGCGATTCTCTCGTTACGATTTTC
1 ATTTCGCGTTGCGATTCTCTCGTTACGATTTTC
*
472392 ATTTCGCATTGCGAT
1 ATTTCGCGTTGCGAT
472407 AGTACTTTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.12, C:0.23, G:0.19, T:0.46
Consensus pattern (33 bp):
ATTTCGCGTTGCGATTCTCTCGTTACGATTTTC
Found at i:472373 original size:19 final size:19
Alignment explanation
Indices: 472346--472398 Score: 53
Period size: 19 Copynumber: 3.1 Consensus size: 19
472336 GCGTTTCTCT
472346 CGTTACGATTTTCATTTCG
1 CGTTACGATTTTCATTTCG
* *
472365 CGTTGCGA--TTC---TCT
1 CGTTACGATTTTCATTTCG
472379 CGTTACGATTTTCATTTCG
1 CGTTACGATTTTCATTTCG
472398 C
1 C
472399 ATTGCGATAG
Statistics
Matches: 25, Mismatches: 4, Indels: 10
0.64 0.10 0.26
Matches are distributed among these distances:
14 9 0.36
16 3 0.12
17 3 0.12
19 10 0.40
ACGTcount: A:0.13, C:0.25, G:0.17, T:0.45
Consensus pattern (19 bp):
CGTTACGATTTTCATTTCG
Found at i:472530 original size:14 final size:14
Alignment explanation
Indices: 472511--472547 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
472501 CATCAATTAA
472511 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
472525 ACAAATCACCTTTT
1 ACAAATCAACTTTT
472539 ACAAATCAA
1 ACAAATCAA
472548 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:473964 original size:21 final size:21
Alignment explanation
Indices: 473898--473964 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
473888 GTGAATTGGG
*
473898 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
473918 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
473940 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
473961 CTCT
1 CTCT
473965 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:473983 original size:42 final size:41
Alignment explanation
Indices: 473898--474020 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
473888 GTGAATTGGG
* * * *
473898 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGACAGGGGC
*
473940 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGACAGGGGC
* * * * *
473982 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGACAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGACAGG
474021 CGAGTCGGGC
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
41 4 0.06
42 57 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.19, G:0.37, T:0.22
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGACAGGGGC
Found at i:474418 original size:91 final size:90
Alignment explanation
Indices: 474236--474422 Score: 277
Period size: 91 Copynumber: 2.0 Consensus size: 90
474226 ATATTTCAAA
*
474236 ACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAAGAATACACAATTTA
1 ACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTT--A-AATAAACAATTTA
*
474301 GCAGAATTGGCAGCAACCGAATAAATTT
63 GCAGAATTGGAAGCAACCGAATAAATTT
* *
474329 ACTTCAATCAAAAGACAAAACAAAAAGACAAATACTAACTTCACAGTGTT-AATAAACAGTTTAG
1 ACTTCAACCAAAAGACAAAAC--AAAGACAAATACTAACTTCACAGTGTTAAATAAACAATTTAG
*
474393 CAGTATTGGAAGCAACCGAATAAATTT
64 CAGAATTGGAAGCAACCGAATAAATTT
474420 ACT
1 ACT
474423 AAGCAATCTA
Statistics
Matches: 87, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
91 40 0.46
93 20 0.23
95 27 0.31
ACGTcount: A:0.48, C:0.18, G:0.12, T:0.22
Consensus pattern (90 bp):
ACTTCAACCAAAAGACAAAACAAAGACAAATACTAACTTCACAGTGTTAAATAAACAATTTAGCA
GAATTGGAAGCAACCGAATAAATTT
Found at i:474625 original size:63 final size:63
Alignment explanation
Indices: 474553--474707 Score: 141
Period size: 63 Copynumber: 2.5 Consensus size: 63
474543 TACTACCATC
* * * *
474553 TCACTTAGAGCGGCAACCTCAC-CACGTAAAGTAGACACCTCCACACGCCATGCACCATCGTTA
1 TCACGTAGAGCAGCAACCTC-CTCACGCAAAGCAGACACCTCCACACGCCATGCACCATCGTTA
* * * * * * ***
474616 TCGCGTAGAGTATCGATCTCCTCACGCAAGGCATTGACCTCCACACGCCATGCACCATCGTTA
1 TCACGTAGAGCAGCAACCTCCTCACGCAAAGCAGACACCTCCACACGCCATGCACCATCGTTA
* * * *
474679 TCACGTAGAGTACCGATCTCCTCACGCAA
1 TCACGTAGAGCAGCAACCTCCTCACGCAA
474708 GGCATTGACC
Statistics
Matches: 76, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
62 1 0.01
63 75 0.99
ACGTcount: A:0.27, C:0.35, G:0.17, T:0.20
Consensus pattern (63 bp):
TCACGTAGAGCAGCAACCTCCTCACGCAAAGCAGACACCTCCACACGCCATGCACCATCGTTA
Found at i:474708 original size:63 final size:63
Alignment explanation
Indices: 474589--474719 Score: 244
Period size: 63 Copynumber: 2.1 Consensus size: 63
474579 TAAAGTAGAC
* *
474589 ACCTCCACACGCCATGCACCATCGTTATCGCGTAGAGTATCGATCTCCTCACGCAAGGCATTG
1 ACCTCCACACGCCATGCACCATCGTTATCACGTAGAGTACCGATCTCCTCACGCAAGGCATTG
474652 ACCTCCACACGCCATGCACCATCGTTATCACGTAGAGTACCGATCTCCTCACGCAAGGCATTG
1 ACCTCCACACGCCATGCACCATCGTTATCACGTAGAGTACCGATCTCCTCACGCAAGGCATTG
474715 ACCTC
1 ACCTC
474720 ATCACATAAC
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 66 1.00
ACGTcount: A:0.24, C:0.37, G:0.18, T:0.21
Consensus pattern (63 bp):
ACCTCCACACGCCATGCACCATCGTTATCACGTAGAGTACCGATCTCCTCACGCAAGGCATTG
Found at i:476225 original size:19 final size:19
Alignment explanation
Indices: 476172--476316 Score: 112
Period size: 19 Copynumber: 8.1 Consensus size: 19
476162 TCTTTTGGTT
* *
476172 GAAATGAAAATTGCAACGA
1 GAAATGAAAATCGCAACGC
* *
476191 GATAAAGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
476211 GAAATGACTATCGCAA--C
1 GAAATGAAAATCGCAACGC
* *
476228 G--A-GAGAATCGCAATGC
1 GAAATGAAAATCGCAACGC
476244 GAAATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
476263 GAAATGAAAATCGCAA--C
1 GAAATGAAAATCGCAACGC
*
476280 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
* *
476296 GAAAAGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
476315 GA
1 GA
476317 TTTTGGTTTC
Statistics
Matches: 101, Mismatches: 14, Indels: 22
0.74 0.10 0.16
Matches are distributed among these distances:
14 19 0.19
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 55 0.54
20 15 0.15
ACGTcount: A:0.46, C:0.19, G:0.23, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:476238 original size:33 final size:33
Alignment explanation
Indices: 476196--476261 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
476186 AACGAGATAA
**
476196 AGAGAATCGCAACGCGAAATGACTATCGCAACG
1 AGAGAATCGCAACGCGAAATGAAAATCGCAACG
*
476229 AGAGAATCGCAATGCGAAATGAAAATCGCAACG
1 AGAGAATCGCAACGCGAAATGAAAATCGCAACG
476262 CGAAATGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.42, C:0.21, G:0.24, T:0.12
Consensus pattern (33 bp):
AGAGAATCGCAACGCGAAATGAAAATCGCAACG
Found at i:476262 original size:52 final size:52
Alignment explanation
Indices: 476184--476316 Score: 194
Period size: 52 Copynumber: 2.5 Consensus size: 52
476174 AATGAAAATT
* * **
476184 GCAACGAGATAAAGAGAATCGCAACGCGAAATGACTATCGCAACGAGAGAATC
1 GCAACGCGA-AAAGAAAATCGCAACGCGAAATGAAAATCGCAACGAGAGAATC
* *
476237 GCAATGCGAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGAGAGAATC
1 GCAACGCGAAAAGAAAATCGCAACGCGAAATGAAAATCGCAACGAGAGAATC
*
476289 GCAACGCGAAAAGAAAATCGCAATGCGA
1 GCAACGCGAAAAGAAAATCGCAACGCGA
476317 TTTTGGTTTC
Statistics
Matches: 71, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
52 64 0.90
53 7 0.10
ACGTcount: A:0.45, C:0.20, G:0.24, T:0.11
Consensus pattern (52 bp):
GCAACGCGAAAAGAAAATCGCAACGCGAAATGAAAATCGCAACGAGAGAATC
Found at i:476894 original size:20 final size:20
Alignment explanation
Indices: 476869--476941 Score: 128
Period size: 20 Copynumber: 3.6 Consensus size: 20
476859 GCGCTATGTA
476869 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
476889 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
476909 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
* *
476929 TATCTCGTTGCGA
1 AATCGCGTTGCGA
476942 TTTTGTATTA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (20 bp):
AATCGCGTTGCGAAAGTCAG
Found at i:476975 original size:20 final size:20
Alignment explanation
Indices: 476950--477003 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
476940 GATTTTGTAT
476950 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
*
476970 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
476990 TATCGCATTGCGAT
1 TATCGCATTGCGAT
477004 TTTTCCAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:476975 original size:61 final size:61
Alignment explanation
Indices: 476890--477006 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 61
476880 GAAAGTCAGA
* * * * *
476890 ATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTGTATT
* * *
476951 ATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTT
1 ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT
477007 TCCAATACGC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (61 bp):
ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTGTATT
Found at i:477003 original size:40 final size:40
Alignment explanation
Indices: 476870--477002 Score: 142
Period size: 40 Copynumber: 3.3 Consensus size: 40
476860 CGCTATGTAA
* * * *
476870 ATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGA
1 ATCGCATTGCGAAAGTCAGTATCGCGTTGCGATAGTCAGT
* * * *
476910 ATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGT-ATT
1 ATCGCATTGCGAAAGTCAGTATCGCGTTGCGA--TAGTCAGT
* * *
476951 ATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGAAAGTCAGTATCGCGTTGCGATAGTCAGT
476991 ATCGCATTGCGA
1 ATCGCATTGCGA
477003 TTTTTCCAAT
Statistics
Matches: 77, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
39 3 0.04
40 44 0.57
41 28 0.36
42 2 0.03
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (40 bp):
ATCGCATTGCGAAAGTCAGTATCGCGTTGCGATAGTCAGT
Found at i:477529 original size:30 final size:30
Alignment explanation
Indices: 477458--477517 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
477448 ACAATTTAAG
477458 GCAAAATGTTTTTGGACTTGAATTGAATTT
1 GCAAAATGTTTTTGGACTTGAATTGAATTT
*
477488 GCAAAATGTTTTTGGATTTGAATTGAATTT
1 GCAAAATGTTTTTGGACTTGAATTGAATTT
477518 ATTCAAAGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.30, C:0.05, G:0.20, T:0.45
Consensus pattern (30 bp):
GCAAAATGTTTTTGGACTTGAATTGAATTT
Found at i:477723 original size:20 final size:20
Alignment explanation
Indices: 477698--477764 Score: 89
Period size: 20 Copynumber: 3.3 Consensus size: 20
477688 ATGCAATTAG
*
477698 TGCATCGATGCATCTTGCTA
1 TGCATCGATGCATCTTGCCA
477718 TGCATCGATGCATCCTTGCCA
1 TGCATCGATGCAT-CTTGCCA
* * *
477739 TGCATGGATGCATCCTGCGA
1 TGCATCGATGCATCTTGCCA
477759 TGCATC
1 TGCATC
477765 CATGAATCAA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
20 23 0.56
21 18 0.44
ACGTcount: A:0.19, C:0.28, G:0.22, T:0.30
Consensus pattern (20 bp):
TGCATCGATGCATCTTGCCA
Found at i:479021 original size:18 final size:18
Alignment explanation
Indices: 478998--479054 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 18
478988 AATTTAAAAG
478998 AAATAAAAGAAAAATAAA
1 AAATAAAAGAAAAATAAA
* *
479016 AAAT-AACGAAAAATTAA
1 AAATAAAAGAAAAATAAA
** *
479033 AAGGAGAAGAAGAAATAAA
1 AAATAAAAGAA-AAATAAA
479052 AAA
1 AAA
479055 AGATGAAAAA
Statistics
Matches: 29, Mismatches: 8, Indels: 3
0.73 0.20 0.08
Matches are distributed among these distances:
17 13 0.45
18 8 0.28
19 8 0.28
ACGTcount: A:0.75, C:0.02, G:0.12, T:0.11
Consensus pattern (18 bp):
AAATAAAAGAAAAATAAA
Found at i:479190 original size:36 final size:36
Alignment explanation
Indices: 479119--479205 Score: 95
Period size: 36 Copynumber: 2.4 Consensus size: 36
479109 GAAACTAATA
* *
479119 AAAATTAAATAAAAAACAATTCAAAGAAAATTAAAT
1 AAAATTAAATAAAAAACAATTCAAAAAAAAATAAAT
* * *
479155 TAAATTAAAT-TAAAACAATTTAAGAAAAAAATAAAT
1 AAAATTAAATAAAAAACAATTCAA-AAAAAAATAAAT
*
479191 AAAATACAAATAAAA
1 AAAAT-TAAATAAAA
479206 TAATTAAATC
Statistics
Matches: 40, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
35 11 0.28
36 23 0.57
37 4 0.10
38 2 0.05
ACGTcount: A:0.70, C:0.05, G:0.02, T:0.23
Consensus pattern (36 bp):
AAAATTAAATAAAAAACAATTCAAAAAAAAATAAAT
Found at i:481515 original size:151 final size:151
Alignment explanation
Indices: 481211--481592 Score: 464
Period size: 151 Copynumber: 2.5 Consensus size: 151
481201 ATCTGTTTGG
* * *
481211 TTTAAGTCTCTTTGTCGTTAATTCCCGTTAACCCTTAATGGAAGTGCTACATGACAGTTAATTTA
1 TTTAAGTCTCTTTGTCGTTAATTCCCATTAACCCTTAAAGGAAGTGCTACATGACAGTT-ACTT-
* * * * * *
481276 AAAAAAGATCCACATTGACTTTTCTTCATCTTTATCGTCCACGTTTTTAATTAAGTATTCATGAT
64 AAAAAA-ATCCACGTTGACTTTTCTTCATCTTTATCATCCACATTTTTAACTAAATACTCATGAT
* *
481341 CCCTTACGTTATCAATCCGTTCGA
128 ACCTTACGTTATCAATCCATTCGA
* * * *
481365 TTTAAATCTCTCTGTTGTTAATTCCCATTAACCCTTAAAGGAACTGCTACATGACAGTTACTTAA
1 TTTAAGTCTCTTTGTCGTTAATTCCCATTAACCCTTAAAGGAAGTGCTACATGACAGTTACTTAA
* *
481430 AAAAATCCACGTTGACTTTTCTTCATCTTTATCATCCACATTTTTAACTAAATACTCTTGATACT
66 AAAAATCCACGTTGACTTTTCTTCATCTTTATCATCCACATTTTTAACTAAATACTCATGATACC
* **
481495 TTACGTTATCGATTTATTCGA
131 TTACGTTATCAATCCATTCGA
* * ** * *
481516 TTTAAGTATCTTTGTCGTTAA-TCCCAGTTAACCCTTAACA-TAAGTATTGCATGATAGTTACTT
1 TTTAAGTCTCTTTGTCGTTAATTCCCA-TTAACCCTTAA-AGGAAGTGCTACATGACAGTTACTT
481579 -AAAAAATCCACGTT
64 AAAAAAATCCACGTT
481593 TACAGTTACT
Statistics
Matches: 196, Mismatches: 30, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
150 19 0.10
151 114 0.58
152 7 0.04
153 3 0.02
154 53 0.27
ACGTcount: A:0.29, C:0.20, G:0.11, T:0.40
Consensus pattern (151 bp):
TTTAAGTCTCTTTGTCGTTAATTCCCATTAACCCTTAAAGGAAGTGCTACATGACAGTTACTTAA
AAAAATCCACGTTGACTTTTCTTCATCTTTATCATCCACATTTTTAACTAAATACTCATGATACC
TTACGTTATCAATCCATTCGA
Found at i:482469 original size:36 final size:36
Alignment explanation
Indices: 482421--482494 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
482411 CCATTGTCGA
482421 AGTTAGTCCATAACTAAAAGGATCATAGTGGAAAGT
1 AGTTAGTCCATAACTAAAAGGATCATAGTGGAAAGT
*
482457 AGTTAGTGCATAACTAAAAGGATCATAGTGGAAAGT
1 AGTTAGTCCATAACTAAAAGGATCATAGTGGAAAGT
482493 AG
1 AG
482495 ACCTCTATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.42, C:0.09, G:0.24, T:0.24
Consensus pattern (36 bp):
AGTTAGTCCATAACTAAAAGGATCATAGTGGAAAGT
Found at i:487275 original size:12 final size:12
Alignment explanation
Indices: 487246--487294 Score: 55
Period size: 12 Copynumber: 4.1 Consensus size: 12
487236 AATTATTAAC
487246 ATATTTAA-AAT
1 ATATTTAATAAT
*
487257 ATATTTATTAAT
1 ATATTTAATAAT
*
487269 ATTTTTAATAAT
1 ATATTTAATAAT
*
487281 ATAATATAATAAT
1 AT-ATTTAATAAT
487294 A
1 A
487295 ATACAATAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
11 7 0.23
12 15 0.48
13 9 0.29
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (12 bp):
ATATTTAATAAT
Found at i:487275 original size:23 final size:23
Alignment explanation
Indices: 487228--487285 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 23
487218 CATTTTAATA
487228 AAAATATTAATTATTAACATATTT
1 AAAATA-TAATTATTAACATATTT
* * *
487252 AAAATATATTTATTAATATTTTT
1 AAAATATAATTATTAACATATTT
487275 AATAATATAAT
1 AA-AATATAAT
487286 ATAATAATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 16 0.55
24 13 0.45
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
AAAATATAATTATTAACATATTT
Found at i:499045 original size:23 final size:24
Alignment explanation
Indices: 499007--499051 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
498997 CTATGGGCAC
*
499007 GTAGAAATTGTCCCGAATGACCGT
1 GTAGAAATTGTCCCGAAGGACCGT
499031 GTAGAAA-TGTCCCGAAGGACC
1 GTAGAAATTGTCCCGAAGGACC
499052 ACATATAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.31, C:0.22, G:0.27, T:0.20
Consensus pattern (24 bp):
GTAGAAATTGTCCCGAAGGACCGT
Found at i:500768 original size:24 final size:24
Alignment explanation
Indices: 500741--500787 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
500731 TTTTTTCATA
*
500741 TAATAATATTATATATTTAATTAT
1 TAATAATATTATATATTAAATTAT
* *
500765 TAATAGTTTTATATATTAAATTA
1 TAATAATATTATATATTAAATTA
500788 AACTAATAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (24 bp):
TAATAATATTATATATTAAATTAT
Found at i:501896 original size:260 final size:265
Alignment explanation
Indices: 501558--502226 Score: 718
Period size: 260 Copynumber: 2.5 Consensus size: 265
501548 GTAGTAAAAT
* * * * *
501558 TAAATAAAATATAAATAATTA-CGGCCAATTTCATATAAAAATATAATTTTAAGGACTAAATTGA
1 TAAA-AAAATAGAAATAATTATAGGCCAATTCCAAAT-AAAATATAACTTTAAGGACTAAATTGA
*
501622 ACAAACATGAAATTACAAAATGAAATTTAAATAAATTAAACAACATGCAAGGATCAAATTGAAAC
64 ACAAACATGAAATTACAAAGTGAAATTTAAATAAATTAAACAACAT-CAAGGATCAAATTGAAAC
* *
501687 AACAATAAAATGTAAAGCTAAAATTAATATCAAATTGGACTAAATTGAATTCATTTT-AAA-TT-
128 AACAATAAAATATAAAGCT--AATTAATATCAAATTAGACTAAATTGAATTCATTTTAAAAGTTG
*
501749 TG-T-G-T-GATTATGATATAATTTATA-GGATTTGAAATTAAGTTTATGATATGATTTAT-AGG
191 TGATAGTTGGATTATGATATAATTTATATGG-TTTGAAATGAAGTTTATGATATGATTTATAAGG
*
501808 TTTGGAGTAAA
255 TTTGAAGTAAA
* ****
501819 -ATAAAAATAGAAATAATTATAGTTTGATTCCAAATAGAAATATAACTTTAAGGACTAAATTGAA
1 TAAAAAAATAGAAATAATTATAGGCCAATTCCAAATA-AAATATAACTTTAAGGACTAAATTGAA
*
501883 CAAACATGAAATTACAAAGTGAAATTTAAATAAATTAAACAACAT-ATAGGGATCAAATTGAAAT
65 CAAACATGAAATTACAAAGTGAAATTTAAATAAATTAAACAACATCA-A-GGATCAAATTGAAAC
*** * * *
501947 AATTTTAAAATATAAAGCTAATTAATATCAAATTAGACTATATTGCATTTATTTTAAAAGTTGGT
128 AACAATAAAATATAAAGCTAATTAATATCAAATTAGACTAAATTGAATTCATTTTAAAAGTT-GT
* *
502012 GACCAATATTTAGGTTTGGATTATGATATGATTTATATGGTTTGAAATGAAGTTTATGATGTGAT
192 G------A--TA-G-TTGGATTATGATATAATTTATATGGTTTGAAATGAAGTTTATGATATGAT
502077 TTATAAGGTTTGAAGTAAA
247 TTATAAGGTTTGAAGTAAA
* **** *
502096 TTAAAAAAATAGAAATAGTTATAGGCCAATTTTGGATAAAACAT-ACTTTTAAGGACTAAATTGA
1 -TAAAAAAATAGAAATAATTATAGGCCAATTCCAAATAAAATATAAC-TTTAAGGACTAAATTGA
* ** *
502160 ATAAACAAAAAATTACAAAGTGAAATTTAAATAAATTAAACAATTCA-CATGGATCAAATTGAAA
64 ACAAACATGAAATTACAAAGTGAAATTTAAATAAATTAAACAA--CATCAAGGATCAAATTGAAA
502224 CAA
127 CAA
502227 TTTTAAAATG
Statistics
Matches: 338, Mismatches: 40, Indels: 43
0.80 0.10 0.10
Matches are distributed among these distances:
258 33 0.10
259 20 0.06
260 111 0.33
262 2 0.01
271 1 0.00
273 1 0.00
275 1 0.00
276 45 0.13
277 17 0.05
278 78 0.23
279 26 0.08
280 3 0.01
ACGTcount: A:0.48, C:0.07, G:0.13, T:0.33
Consensus pattern (265 bp):
TAAAAAAATAGAAATAATTATAGGCCAATTCCAAATAAAATATAACTTTAAGGACTAAATTGAAC
AAACATGAAATTACAAAGTGAAATTTAAATAAATTAAACAACATCAAGGATCAAATTGAAACAAC
AATAAAATATAAAGCTAATTAATATCAAATTAGACTAAATTGAATTCATTTTAAAAGTTGTGATA
GTTGGATTATGATATAATTTATATGGTTTGAAATGAAGTTTATGATATGATTTATAAGGTTTGAA
GTAAA
Found at i:502322 original size:4 final size:4
Alignment explanation
Indices: 502313--503228 Score: 1397
Period size: 4 Copynumber: 231.8 Consensus size: 4
502303 TATAATGGCT
502313 CATA CATA CAT- -ATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
502359 CATA CATA CATA CATA CATA C-TA CATA CATA CATA AATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
502406 CATA -ATA CATA CATA CATA CATA C-TA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
502452 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
502500 CATA CATA CATA CATA CATA CATA CATA CATA C-TA CATA CATA C-TA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
502546 CATA CATA CATA CATA CATA CATA CCTA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* *
502594 CATA CATA CATA CATA CATA CACAA CAATA CATA CATA C-TA CCTA CATA
1 CATA CATA CATA CATA CATA CA-TA C-ATA CATA CATA CATA CATA CATA
502643 CATA CATA CATA CATA CATA CATA CAT- CATA CAATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA C-ATA CATA CATA CATA
*
502691 CCTA CATA CATA CATA -ATA CATA CATA CAT- -ATA CATA CATA CA-A
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
502735 CATA CATA CATA CATA CATA CATA CCA-C CATA CATA CAT- C-TA CATA
1 CATA CATA CATA CATA CATA CATA -CATA CATA CATA CATA CATA CATA
* * *
502781 CATA CATA CATA CATA CAT- -ATA CATG CATG CATG CATGCA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CAT--A CATA CATA
502829 TCCATA CATA CATA CATA CCATA CATCA CATA CATA CATA CATA CATA
1 --CATA CATA CATA CATA -CATA CAT-A CATA CATA CATA CATA CATA
502877 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
502925 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
502973 CATA CATA CATA CATA CATA CATA CAT- -ATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
503019 C-TA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
503066 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CACA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * ** * *
503114 CACA CATA CACA CAGG CACA CACA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * ** *
503162 CATA CATA CATA CATA CATA TATA CATA CATA CATA CACA CAGG CACA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
503210 CACA CATA CATA CATA CAT
1 CATA CATA CATA CATA CAT
503229 GTATGCATAC
Statistics
Matches: 852, Mismatches: 29, Indels: 62
0.90 0.03 0.07
Matches are distributed among these distances:
2 9 0.01
3 34 0.04
4 783 0.92
5 18 0.02
6 8 0.01
ACGTcount: A:0.49, C:0.26, G:0.01, T:0.24
Consensus pattern (4 bp):
CATA
Found at i:503896 original size:25 final size:26
Alignment explanation
Indices: 503858--503909 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
503848 CTCCCTCCAC
*
503858 TATTTATTATTTATTTTA-ATTCTTG
1 TATTTATTAGTTATTTTAGATTCTTG
* *
503883 TATTTATTGGTTATTTTAGATTTTTG
1 TATTTATTAGTTATTTTAGATTCTTG
503909 T
1 T
503910 TTATTTCAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.21, C:0.02, G:0.10, T:0.67
Consensus pattern (26 bp):
TATTTATTAGTTATTTTAGATTCTTG
Found at i:508131 original size:15 final size:15
Alignment explanation
Indices: 508111--508144 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
508101 TACAAAATTT
508111 CAAATCATGCTATTA
1 CAAATCATGCTATTA
508126 CAAATCATGCTATTA
1 CAAATCATGCTATTA
508141 CAAA
1 CAAA
508145 AGCACCCTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.44, C:0.21, G:0.06, T:0.29
Consensus pattern (15 bp):
CAAATCATGCTATTA
Found at i:508977 original size:175 final size:178
Alignment explanation
Indices: 508674--509326 Score: 873
Period size: 175 Copynumber: 3.7 Consensus size: 178
508664 TGATATTTTA
* * *
508674 TTATAAGTATCGACACTTTAGAATTTAAAAGACAAGCAGTAATATCGCC--TAAAGTGTCGATTC
1 TTATAAGTATCGACACTTTTGAATTTAAAAGACAAGCAGTAATAGCGCCTATAAAGTGTCGATAC
** * * * *
508737 -AAATAAAAATGTATCGATCCATATCAATATAACAGAT-AAAATATGACAAAACCGATCTC-AAA
66 TTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGA-TAAACCGGTCTCAAAA
* *
508799 TGACCAAACCGGTAAAGCACTTCCGGATATGTTGAAAGTGTCGATAC-T
130 TGACAAAACCGGTAAAGCACTACCGGATATGTTGAAAGTGTCGATACTT
* *
508847 TTATAAGTATCGACACTTTTGAAATTTAAAAGATAAGCAGTAATAGTGCCTATAAAGTGTCGATA
1 TTATAAGTATCGACACTTTTG-AATTTAAAAGACAAGCAGTAATAGCGCCTATAAAGTGTCGATA
*
508912 -TTTAT-AAAATGTATCGATCCATAACAATATAACA-GTAAAAATATGATAAATCGGTCTCAAAA
65 CTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAACCGGTCTCAAAA
*
508974 TGACAAAACCGGTAAAG-AGCTACCGGATATATTGAAAGTGTCGATACTT
130 TGACAAAACCGGTAAAGCA-CTACCGGATATGTTGAAAGTGTCGATACTT
*
509023 TTATAAGTATCAACACTTTTGGAATTTAAAAGACAAGCA-TAATAGCGCCTATAAAGTGTCGATA
1 TTATAAGTATCGACACTTTT-GAATTTAAAAGACAAGCAGTAATAGCGCCTATAAAGTGTCGATA
* *
509087 CTTTAT-AAAATGTATCGATCAATAACAATATAACAGGTAAAAATATGATAAAACCAGTCTCAAA
65 CTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGAT-AAACCGGTCTCAAA
* * *
509151 ATGACAAAATCGGTAAAGCGCTACCAGATATGTTGAAAGTGTCGATACTTT
129 ATGACAAAACCGGTAAAGCACTACCGGATATGTTGAAAGTGTCGATAC-TT
*
509202 ATTATAAGTATCGACACTTTTTTAATTTAAAAGACAAGCAGTAATAGCGCCTATAAAGTGTCGAT
1 -TTATAAGTATCGACAC-TTTTGAATTTAAAAGACAAGCAGTAATAGCGCCTATAAAGTGTCGAT
* * * * * *
509267 ACCTTATAAAAATGTATTGA-CACTTAACAATATAATAGGTAAAAAAATGACAAAACCGGT
64 ACTTTATAAAAATGTATCGATC-CATAACAATATAACAGGTAAAAATATGA-TAAACCGGT
509327 AAAGCGCTAT
Statistics
Matches: 425, Mismatches: 35, Indels: 31
0.87 0.07 0.06
Matches are distributed among these distances:
173 20 0.05
174 36 0.08
175 106 0.25
176 83 0.20
177 14 0.03
178 55 0.13
179 2 0.00
180 32 0.08
181 35 0.08
182 42 0.10
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (178 bp):
TTATAAGTATCGACACTTTTGAATTTAAAAGACAAGCAGTAATAGCGCCTATAAAGTGTCGATAC
TTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAACCGGTCTCAAAAT
GACAAAACCGGTAAAGCACTACCGGATATGTTGAAAGTGTCGATACTT
Found at i:513036 original size:198 final size:199
Alignment explanation
Indices: 512117--513179 Score: 1355
Period size: 198 Copynumber: 5.4 Consensus size: 199
512107 AATAGATGTA
*
512117 TCGATACAGTTATAGAAAGTATCGATCCCAAAAACATCAAAACCCATAATTATAATGTTAA-AGG
1 TCGATACATTTATA-AAAGTATCGATCCCAAAAACATCAAAACCCATAATTATAATG-TAATAGG
* * * *
512181 TAATTTTTCAATGTAACC--TATAAA-ATACTGGTTTTATGAGAGAATATGTCTACAT-ATATAT
64 TAATTTTTCAATGTAACCGGTATAAATATACTGGTTTTATGAGAAAAGAGGTCTACATAATGTAT
* * * *
512242 CGACACTTGTGGAATTTGTGTCGAAACTTTTTGTCTAGAATGAATGCCCAAAAGGGTTCACACAT
129 CGACACTTGTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGTGCACACAT
512307 AAAGTG
194 AAAGTG
* * * *
512313 TCGATACAATTATAAAAATATCGAT-CCTAAAACATCGAAACCCATAATTATAATGTAATAGGT-
1 TCGATACATTTATAAAAGTATCGATCCCAAAAACATCAAAACCCATAATTATAATGTAATAGGTA
* *
512376 ATTTTTCAATGTAACCGGTA-CAATATACTGGTTTTATGAG-AGAGTAGGTCTACATAATGTATC
66 ATTTTTCAATGTAACCGGTATAAATATACTGGTTTTATGAGAAAAG-AGGTCTACATAATGTATC
* * *
512439 GACACTTGT-AGAATTTGTGTCGAAACTTTTTGTCCAGAATGAATGCCCAAAAGGGTGTACGCAT
130 GACACTTGTGA-AATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGTGCACACAT
512503 AAAGTG
194 AAAGTG
* * *
512509 TCGATATA-TTATAAAA--ATCGATCCCAAAAATATCGAAACCCATAATTATAATGTTTAA-AGG
1 TCGATACATTTATAAAAGTATCGATCCCAAAAACATCAAAACCCATAATTATAATG--TAATAGG
* * *
512570 TAATTTTTCAATGTAACC--TAT-AATATACCGG-TTT-TGAG--AATAGGTCTACATATTGTAT
64 TAATTTTTCAATGTAACCGGTATAAATATACTGGTTTTATGAGAAAAGAGGTCTACATAATGTAT
*
512628 CGACACTTGTGGAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGGTGCACACA
129 CGACACTTGTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAA-GGGTGCACACA
*
512693 TAAAATG
193 TAAAGTG
*
512700 TCGATACATTTATAAAAAGTATCGATCCCAAAAACATCAAAACCCATAATTATAATGTAATAGGC
1 TCGATACATTTAT-AAAAGTATCGATCCCAAAAACATCAAAACCCATAATTATAATGTAATAGGT
* *
512765 AATTTTTCAATGTAACCGGTATAAATATAGC-GGTTTTATGAGAGAATAGGTCTACATAATGTAT
65 AATTTTTCAATGTAACCGGTATAAATATA-CTGGTTTTATGAGAAAAGAGGTCTACATAATGTAT
** * * *
512829 AAACACTTTTGAAATTTGTGTCGATACTTTTTGTCCGGAATGAATGCCTAAAAGGGTGCACACAT
129 CGACACTTGTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGTGCACACAT
*
512894 AACGTG
194 AAAGTG
* * * *
512900 TCGATACATTTATAAAAGTGTCGATCCTAAAAACATCAAAATCGATAATTATAATGT-ATAGGTA
1 TCGATACATTTATAAAAGTATCGATCCCAAAAACATCAAAACCCATAATTATAATGTAATAGGTA
* * * * * * * *
512964 AATTTCCAATGTAACCGGTATAAATATATTGGTTTAATTAGAAAAGCGGTCAACATAATGTATCA
66 ATTTTTCAATGTAACCGGTATAAATATACTGGTTTTATGAGAAAAGAGGTCTACATAATGTATCG
* * * * *
513029 ACACTTTTTAAATTTGTGTCAATACTTTTTGTCCAGAATCAATGCCC-AACGAGGTGCACACATA
131 ACACTTGTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAG-GGTGCACACATA
513093 AAGTG
195 AAGTG
* *
513098 TCGATACATTTATAAAAAGTATCGATCCCAAAAACATCGAAACCGATAATTATAATGTAATAGGT
1 TCGATACATTTAT-AAAAGTATCGATCCCAAAAACATCAAAACCCATAATTATAATGTAATAGGT
* *
513163 AAATTTACAATGTAACC
65 AATTTTTCAATGTAACC
513180 AGGAGGAAAT
Statistics
Matches: 769, Mismatches: 67, Indels: 58
0.86 0.07 0.06
Matches are distributed among these distances:
190 66 0.09
191 23 0.03
192 8 0.01
193 35 0.05
194 94 0.12
195 84 0.11
196 112 0.15
197 11 0.01
198 135 0.18
199 84 0.11
200 51 0.07
201 66 0.09
ACGTcount: A:0.38, C:0.15, G:0.16, T:0.31
Consensus pattern (199 bp):
TCGATACATTTATAAAAGTATCGATCCCAAAAACATCAAAACCCATAATTATAATGTAATAGGTA
ATTTTTCAATGTAACCGGTATAAATATACTGGTTTTATGAGAAAAGAGGTCTACATAATGTATCG
ACACTTGTGAAATTTGTGTCGATACTTTTTGTCCAGAATGAATGCCCAAAAGGGTGCACACATAA
AGTG
Found at i:514954 original size:199 final size:199
Alignment explanation
Indices: 514611--515323 Score: 1015
Period size: 199 Copynumber: 3.6 Consensus size: 199
514601 CAGGTAAACA
*
514611 AAAGTGTCGATACATTTATTAAAAGTATCGATCCCAAAAACATCGAAACAAATAATTATAATGTA
1 AAAGTGTCGATACATTTATTAAAATTATCGATCCCAAAAACATCGAAACAAATAATTATAATGTA
* *
514676 ATAGGTAAATTTCCAATGTAACCGGTAGAAATATACCTGTTAATTAGAAAACAAGTCTACATAAT
66 ATAGGTAAATTTCCAATGTAACCGGTAGAAATATACCGGTTAATTAGAAAACAGGTCTACATAAT
* *
514741 GTATTGACATTTTTTAAATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCAAACATGGTGTAC
131 GTATCGACATTTTTTAAATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCAAACATGGTGCAC
*
514806 ACAT
196 GCAT
514810 AAAGTGTCGATACATTTATTAAAATTATCGATCCCAAAAACATCGAAACAGAA-AATTATAATGT
1 AAAGTGTCGATACATTTATTAAAATTATCGATCCCAAAAACATCGAAACA-AATAATTATAATGT
* *
514874 AATAGGTAAATTTCTAATGTAACCAGTAGAAATATACCGGTTAATTAGAAAACAGGTCTACATAA
65 AATAGGTAAATTTCCAATGTAACCGGTAGAAATATACCGGTTAATTAGAAAACAGGTCTACATAA
* * * * * * **
514939 TGTAACGATATTTTTTAAATTTGTATCGATATTTTTTGTCCAGAATGAATGACAAACGGGGTGCA
130 TGTATCGACATTTTTTAAATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCAAACATGGTGCA
*
515004 CGCGT
195 CGCAT
515009 AAAGTGTCGATACATTTATTAAAATTATCGATCCCAAAAACATCGAAACAAATAATTATAATGTA
1 AAAGTGTCGATACATTTATTAAAATTATCGATCCCAAAAACATCGAAACAAATAATTATAATGTA
* * * **
515074 ATAGGTAAATGTT-CAATGTAATCGGTAGATATATACCGGTTTAATTAGAAAATAGGTAAACATA
66 ATAGGTAAAT-TTCCAATGTAACCGGTAGAAATATACCGG-TTAATTAGAAAACAGGTCTACATA
** * * * *
515138 ATGTATCGACACATTTTAAA-TTATGTCGATAC-TTTTGTCCATAATGAATGCCCAACCTGGGTG
129 ATGTATCGACATTTTTTAAATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCAAACAT-GGTG
515201 CACGCAT
193 CACGCAT
* * * *
515208 AAAGTGTCGATACATTAATT-AAATGTAGT-GATCCTAAAAACATCGAAACAGATAATTATAATA
1 AAAGTGTCGATACATTTATTAAAAT-TA-TCGATCCCAAAAACATCGAAACAAATAATTATAATG
* **
515271 TAATAGGTAAATTTCCAATGTAACTGGTAGAAATATATTGGTTAATTAGAAAA
64 TAATAGGTAAATTTCCAATGTAACCGGTAGAAATATACCGGTTAATTAGAAAA
515324 TGAGAAAATA
Statistics
Matches: 460, Mismatches: 46, Indels: 17
0.88 0.09 0.03
Matches are distributed among these distances:
198 41 0.09
199 377 0.82
200 42 0.09
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (199 bp):
AAAGTGTCGATACATTTATTAAAATTATCGATCCCAAAAACATCGAAACAAATAATTATAATGTA
ATAGGTAAATTTCCAATGTAACCGGTAGAAATATACCGGTTAATTAGAAAACAGGTCTACATAAT
GTATCGACATTTTTTAAATTTGTGTCGATACTTTTTGTCCAAAATGAATGCCAAACATGGTGCAC
GCAT
Found at i:515493 original size:20 final size:20
Alignment explanation
Indices: 515470--515604 Score: 164
Period size: 20 Copynumber: 6.7 Consensus size: 20
515460 GTTTCCAGAT
515470 TCGCAACGCGATTA-TGACTA
1 TCGCAACGCGA-TACTGACTA
515490 TCGCAACGCGATACTGACTA
1 TCGCAACGCGATACTGACTA
* **
515510 TCGCAACGCGATAATGCAAAA
1 TCGCAACGCGATACTG-ACTA
* *
515531 TCGCAACGCGATAATGACTT
1 TCGCAACGCGATACTGACTA
* *
515551 TCGCAACGCGATACTTACTT
1 TCGCAACGCGATACTGACTA
*
515571 TCGCAACGCGATACTGACTT
1 TCGCAACGCGATACTGACTA
*
515591 TCGCAACGAGATAC
1 TCGCAACGCGATAC
515605 ATAATCGCAA
Statistics
Matches: 103, Mismatches: 10, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
19 2 0.02
20 83 0.81
21 18 0.17
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.22
Consensus pattern (20 bp):
TCGCAACGCGATACTGACTA
Found at i:515815 original size:22 final size:22
Alignment explanation
Indices: 515787--515830 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
515777 CACTCTCTCA
*
515787 CCCATCTCCGTCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
515809 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
515831 TATCTCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.14, T:0.20
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:516122 original size:20 final size:20
Alignment explanation
Indices: 516099--516136 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
516089 TCAAATTTGC
516099 GTTGCGATTGTCATTTTCGT
1 GTTGCGATTGTCATTTTCGT
*
516119 GTTGCGATTTTCATTTTC
1 GTTGCGATTGTCATTTTC
516137 AGAAACTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.11, C:0.16, G:0.21, T:0.53
Consensus pattern (20 bp):
GTTGCGATTGTCATTTTCGT
Found at i:517450 original size:18 final size:18
Alignment explanation
Indices: 517429--517476 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
517419 TCCACTTCGG
517429 GAGCCATCACCTCACCCA
1 GAGCCATCACCTCACCCA
*
517447 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
517465 GAGCCATCACCT
1 GAGCCATCACCT
517477 GATCGACCCG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.27, C:0.46, G:0.12, T:0.15
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:518041 original size:20 final size:20
Alignment explanation
Indices: 518016--518061 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
518006 TAGTTTACTT
518016 TCGCAACACGAAAATGACTA
1 TCGCAACACGAAAATGACTA
** * *
518036 TCGCAATGCGGAAATGGCTA
1 TCGCAACACGAAAATGACTA
518056 TCGCAA
1 TCGCAA
518062 TGCGAAATGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.17
Consensus pattern (20 bp):
TCGCAACACGAAAATGACTA
Found at i:518070 original size:19 final size:20
Alignment explanation
Indices: 518027--518071 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
518017 CGCAACACGA
518027 AAATGACTATCGCAATGCGG
1 AAATGACTATCGCAATGCGG
*
518047 AAATGGCTATCGCAATGC-G
1 AAATGACTATCGCAATGCGG
518066 AAATGA
1 AAATGA
518072 AAATCGCAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.20
Consensus pattern (20 bp):
AAATGACTATCGCAATGCGG
Found at i:518077 original size:19 final size:19
Alignment explanation
Indices: 518035--518118 Score: 79
Period size: 19 Copynumber: 4.6 Consensus size: 19
518025 GAAAATGACT
***
518035 ATCGCAATGCGGAAATGGCT
1 ATCGCAATGC-GAAATGAAA
518055 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
518074 ATCGCAA--CG--A-CAAA
1 ATCGCAATGCGAAATGAAA
*
518088 ATCGCAACGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
518107 ATCGCAATGCGA
1 ATCGCAATGCGA
518119 TTTGTGTTTC
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
14 10 0.19
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 27 0.51
20 10 0.19
ACGTcount: A:0.42, C:0.21, G:0.23, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:518180 original size:33 final size:33
Alignment explanation
Indices: 518135--518204 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
518125 TTTCGCGTTA
* *
518135 CGATTTTTTCGTTGCGGTTTTCATTTCACATTG
1 CGATTTTGTCGTTGCGATTTTCATTTCACATTG
*
518168 CGATTTTGTCGTTGCGATTTTCATTTCGCATTG
1 CGATTTTGTCGTTGCGATTTTCATTTCACATTG
518201 CGAT
1 CGAT
518205 AGCCATTTCC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.13, C:0.19, G:0.20, T:0.49
Consensus pattern (33 bp):
CGATTTTGTCGTTGCGATTTTCATTTCACATTG
Found at i:518203 original size:19 final size:19
Alignment explanation
Indices: 518146--518204 Score: 56
Period size: 19 Copynumber: 3.4 Consensus size: 19
518136 GATTTTTTCG
* *
518146 TTGCGGTTTTCATTTCACA
1 TTGCGATTTTCATTTCGCA
*
518165 TTGCGA-TTT--TGTCG--
1 TTGCGATTTTCATTTCGCA
518179 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
518198 TTGCGAT
1 TTGCGAT
518205 AGCCATTTCC
Statistics
Matches: 31, Mismatches: 4, Indels: 10
0.69 0.09 0.22
Matches are distributed among these distances:
14 6 0.19
15 3 0.10
16 3 0.10
17 4 0.13
18 3 0.10
19 12 0.39
ACGTcount: A:0.14, C:0.19, G:0.20, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:518223 original size:20 final size:20
Alignment explanation
Indices: 518198--518252 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
518188 TCATTTCGCA
518198 TTGCGATAGCCATTTCCACG
1 TTGCGATAGCCATTTCCACG
*
518218 TTGCGATAGCCATTTCCGCG
1 TTGCGATAGCCATTTCCACG
*
518238 TTGCGATAGTCATTT
1 TTGCGATAGCCATTT
518253 TTCGCATTGC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.35
Consensus pattern (20 bp):
TTGCGATAGCCATTTCCACG
Found at i:518664 original size:21 final size:20
Alignment explanation
Indices: 518638--518706 Score: 66
Period size: 21 Copynumber: 3.4 Consensus size: 20
518628 CTGTTATCCC
518638 TCAAGAGTCCCCTCCAATCGT
1 TCAAGAGTCCCCTCC-ATCGT
* * **
518659 TCAAGAGGCCCCTATCATCCC
1 TCAAGAGTCCCCT-CCATCGT
* *
518680 TCAAGAGTCCCCCCCACCGT
1 TCAAGAGTCCCCTCCATCGT
518700 TCAAGAG
1 TCAAGAG
518707 GCCACTGTCA
Statistics
Matches: 37, Mismatches: 10, Indels: 3
0.74 0.20 0.06
Matches are distributed among these distances:
20 10 0.27
21 26 0.70
22 1 0.03
ACGTcount: A:0.25, C:0.41, G:0.16, T:0.19
Consensus pattern (20 bp):
TCAAGAGTCCCCTCCATCGT
Found at i:518718 original size:41 final size:42
Alignment explanation
Indices: 518628--518718 Score: 130
Period size: 41 Copynumber: 2.2 Consensus size: 42
518618 CCTGACTCAC
* * *
518628 CTGTTATCCCTCAAGAGTCCCCTCCAATCGTTCAAGAGGCCC
1 CTGTCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCA
* *
518670 CTATCATCCCTCAAGAGTCCCC-CCCACCGTTCAAGAGGCCA
1 CTGTCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCA
518711 CTGTCATC
1 CTGTCATC
518719 GTTGAAGAGG
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 23 0.53
42 20 0.47
ACGTcount: A:0.22, C:0.41, G:0.15, T:0.22
Consensus pattern (42 bp):
CTGTCATCCCTCAAGAGTCCCCTCCAACCGTTCAAGAGGCCA
Found at i:520145 original size:14 final size:14
Alignment explanation
Indices: 520111--520149 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
520101 TTGATTGTTT
520111 AATTGATTTGTAAA
1 AATTGATTTGTAAA
*
520125 AAATGATTTGTAAA
1 AATTGATTTGTAAA
**
520139 TGTTGATTTGT
1 AATTGATTTGT
520150 TTAATTGTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:520303 original size:19 final size:19
Alignment explanation
Indices: 520281--520326 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
520271 GCAACGAGAG
*
520281 AATCGCAATGCAAAATGAA
1 AATCGCAATGCAAAATAAA
*
520300 AATCGCAATGCGAAATAAA
1 AATCGCAATGCAAAATAAA
520319 AATCGCAA
1 AATCGCAA
520327 CGAGAAAATC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.52, C:0.17, G:0.15, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCAAAATAAA
Found at i:520333 original size:19 final size:19
Alignment explanation
Indices: 520293--520333 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
520283 TCGCAATGCA
* * *
520293 AAATGAAAATCGCAATGCG
1 AAATAAAAATCGCAACGAG
520312 AAATAAAAATCGCAACGAG
1 AAATAAAAATCGCAACGAG
520331 AAA
1 AAA
520334 ATCGCAATGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (19 bp):
AAATAAAAATCGCAACGAG
Found at i:520389 original size:20 final size:20
Alignment explanation
Indices: 520364--520439 Score: 107
Period size: 20 Copynumber: 3.8 Consensus size: 20
520354 TCGCATTGCG
*
520364 ATTTTCTCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
*
520384 ATTTTCGCGTTGTGATAGCC
1 ATTTTCGCGTTGCGATAGCC
* *
520404 ATTTTCGCGTTGTGATAGTC
1 ATTTTCGCGTTGCGATAGCC
*
520424 ATTTTAGCGTTGCGAT
1 ATTTTCGCGTTGCGAT
520440 TTCCCCGTTG
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 51 1.00
ACGTcount: A:0.16, C:0.18, G:0.24, T:0.42
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:520687 original size:20 final size:20
Alignment explanation
Indices: 520664--520758 Score: 163
Period size: 20 Copynumber: 4.8 Consensus size: 20
520654 TGCGATTTTT
*
520664 AGAATCTCGTTGCGAAAGTC
1 AGAATCGCGTTGCGAAAGTC
520684 AGAATCGCGTTGCGAAAGTC
1 AGAATCGCGTTGCGAAAGTC
520704 AGAATCGCGTTGCGAAAGTC
1 AGAATCGCGTTGCGAAAGTC
*
520724 AGTATCGCGTTGCGAAAGTC
1 AGAATCGCGTTGCGAAAGTC
*
520744 AGTATCGCGTTGCGA
1 AGAATCGCGTTGCGA
520759 TTTTGTATTA
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 73 1.00
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.23
Consensus pattern (20 bp):
AGAATCGCGTTGCGAAAGTC
Found at i:520785 original size:41 final size:42
Alignment explanation
Indices: 520681--520803 Score: 144
Period size: 40 Copynumber: 3.0 Consensus size: 42
520671 CGTTGCGAAA
* * **
520681 GTCAGAATCGCGTTGCGAAAGTCAGAATCGCGTTGCGA--AA
1 GTCAGTATCGCGTTGCGAAAGTCAGTATCGCGTTGCGATTTT
520721 GTCAGTATCGCGTTGCGAAAGTCAGTATCGCGTTGCGATTTT
1 GTCAGTATCGCGTTGCGAAAGTCAGTATCGCGTTGCGATTTT
* * * * *
520763 GT-ATTATCGTGTTGCGATAGTCAGTATCGCATTGCAATTTT
1 GTCAGTATCGCGTTGCGAAAGTCAGTATCGCGTTGCGATTTT
520804 CCAAATTCGC
Statistics
Matches: 72, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
40 36 0.50
41 34 0.47
42 2 0.03
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.32
Consensus pattern (42 bp):
GTCAGTATCGCGTTGCGAAAGTCAGTATCGCGTTGCGATTTT
Found at i:520882 original size:21 final size:22
Alignment explanation
Indices: 520830--520882 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
520820 ATTTACTTAT
520830 TCGCATTGCG-AATTGGGAAAA
1 TCGCATTGCGAAATTGGGAAAA
** *
520851 TCGCAACGCGAAATT-GTAAAA
1 TCGCATTGCGAAATTGGGAAAA
520872 TCGCATTGCGA
1 TCGCATTGCGA
520883 TAGTCATAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.34, C:0.19, G:0.25, T:0.23
Consensus pattern (22 bp):
TCGCATTGCGAAATTGGGAAAA
Found at i:521229 original size:20 final size:19
Alignment explanation
Indices: 521191--521229 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
521181 CGAAACCGAT
*
521191 AATTACAATGTAATAGGTA
1 AATTACAATGTAACAGGTA
*
521210 AATTAACAATGTAACCGGTA
1 AATT-ACAATGTAACAGGTA
521230 CAAAATTACC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.46, C:0.10, G:0.15, T:0.28
Consensus pattern (19 bp):
AATTACAATGTAACAGGTA
Found at i:525831 original size:64 final size:64
Alignment explanation
Indices: 525738--525857 Score: 195
Period size: 64 Copynumber: 1.9 Consensus size: 64
525728 TACCTATTAC
* * * *
525738 ATTATATAAGCGTTACCTACTATGTTATTGCACTTGATAATATTTTCGGTTAAATGCCTATTTT
1 ATTATATAAGCGCTACCTAATATGTTATTGCACTTCATAATATTTCCGGTTAAATGCCTATTTT
*
525802 ATTATATAAGCGCTACCTAATATGTTATTGTACTTCATAATATTTCCGGTTAAATG
1 ATTATATAAGCGCTACCTAATATGTTATTGCACTTCATAATATTTCCGGTTAAATG
525858 AAATAACATA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 51 1.00
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.43
Consensus pattern (64 bp):
ATTATATAAGCGCTACCTAATATGTTATTGCACTTCATAATATTTCCGGTTAAATGCCTATTTT
Found at i:527224 original size:28 final size:27
Alignment explanation
Indices: 527174--527241 Score: 86
Period size: 27 Copynumber: 2.5 Consensus size: 27
527164 AGGGATTTGG
* *
527174 AAGTTTTTTAAA-ATTAAGAAAAA-TT
1 AAGTTTTTTAAATATAAAAAAAAATTT
527199 AGAGTTATTTTAAATATAAAAAAAAATTT
1 A-AGTT-TTTTAAATATAAAAAAAAATTT
527228 AAGTTTTTTAAATA
1 AAGTTTTTTAAATA
527242 AAATTAGTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
25 1 0.03
26 4 0.11
27 16 0.43
28 13 0.35
29 3 0.08
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.41
Consensus pattern (27 bp):
AAGTTTTTTAAATATAAAAAAAAATTT
Found at i:527703 original size:19 final size:17
Alignment explanation
Indices: 527662--527700 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
527652 TCTTTTGAAA
527662 ATTTTAGATTTTCTTAT
1 ATTTTAGATTTTCTTAT
527679 ATTTTAGATTTT-TTAAT
1 ATTTTAGATTTTCTT-AT
527696 ATTTT
1 ATTTT
527701 TTATCAATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 2 0.10
17 19 0.90
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.67
Consensus pattern (17 bp):
ATTTTAGATTTTCTTAT
Found at i:528242 original size:21 final size:20
Alignment explanation
Indices: 528218--528278 Score: 52
Period size: 21 Copynumber: 3.0 Consensus size: 20
528208 TTGTTATTTT
528218 TTTATGTAATATTTTTTTAC
1 TTTATGTAATATTTTTTTAC
* * *
528238 ATTTATGCATTTTCTTTTTTAC
1 -TTTATGTAATAT-TTTTTTAC
*
528260 TTTA-GTATATATATTTTTA
1 TTTATGTA-ATATTTTTTTA
528279 GATTACATAT
Statistics
Matches: 31, Mismatches: 7, Indels: 5
0.72 0.16 0.12
Matches are distributed among these distances:
20 8 0.26
21 15 0.48
22 8 0.26
ACGTcount: A:0.25, C:0.07, G:0.05, T:0.64
Consensus pattern (20 bp):
TTTATGTAATATTTTTTTAC
Found at i:528552 original size:20 final size:19
Alignment explanation
Indices: 528527--528576 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
528517 GACTTTATTA
* *
528527 TTTATTTTTATGTCTTTTAT
1 TTTATTTTTATGTCGTTT-C
*
528547 TTTATTATTTATTTCGTTTC
1 TTTATT-TTTATGTCGTTTC
528567 TTTATTTTTA
1 TTTATTTTTA
528577 ATTTACTTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
19 4 0.15
20 12 0.46
21 10 0.38
ACGTcount: A:0.16, C:0.06, G:0.04, T:0.74
Consensus pattern (19 bp):
TTTATTTTTATGTCGTTTC
Found at i:529100 original size:158 final size:159
Alignment explanation
Indices: 528823--529140 Score: 629
Period size: 158 Copynumber: 2.0 Consensus size: 159
528813 ACCGAAAGGG
528823 CGGTTCAAGAGTGCTAATCTTTCCTTGACCGTAACCGACTCTCGAACCCGACATATTTTTGGTAA
1 CGGTTCAAGAGTGCTAATCTTTCCTTGACCGTAACCGACTCTCGAACCCGACATATTTTTGGTAA
528888 AAACACAGATCAGTTAAGATGGTGTCCGACCCACCTAAATTCGTTTTAAAGTGGTCGGTGGCGAC
66 AAACACAGATCAGTTAAGATGGTGTCCGACCCACCTAAATTCGTTTTAAAGTGGTCGGTGGCGAC
528953 TCCCAACCCAATCATTTCAAGTCGAAGCC
131 TCCCAACCCAATCATTTCAAGTCGAAGCC
528982 CGGTTCAAGAGTGCTAATCTTTCCTTGACCGTAACCGACTCTCGAACCCGACATA-TTTTGGTAA
1 CGGTTCAAGAGTGCTAATCTTTCCTTGACCGTAACCGACTCTCGAACCCGACATATTTTTGGTAA
529046 AAACACAGATCAGTTAAGATGGTGTCCGACCCACCTAAATTCGTTTTAAAGTGGTCGGTGGCGAC
66 AAACACAGATCAGTTAAGATGGTGTCCGACCCACCTAAATTCGTTTTAAAGTGGTCGGTGGCGAC
529111 TCCCAACCCAATCATTTCAAGTCGAAGCC
131 TCCCAACCCAATCATTTCAAGTCGAAGCC
529140 C
1 C
529141 AATTCGGGGC
Statistics
Matches: 159, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
158 104 0.65
159 55 0.35
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (159 bp):
CGGTTCAAGAGTGCTAATCTTTCCTTGACCGTAACCGACTCTCGAACCCGACATATTTTTGGTAA
AAACACAGATCAGTTAAGATGGTGTCCGACCCACCTAAATTCGTTTTAAAGTGGTCGGTGGCGAC
TCCCAACCCAATCATTTCAAGTCGAAGCC
Found at i:532050 original size:30 final size:31
Alignment explanation
Indices: 531997--532054 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
531987 GGAACAATGA
531997 GGGCATTTTGAATATTCAACATCAAATGCTG
1 GGGCATTTTGAATATTCAACATCAAATGCTG
*
532028 GGGCATTTTTAGAT-TT-AACATCAAATG
1 GGGCATTTTGA-ATATTCAACATCAAATG
532055 TTGATTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
30 11 0.44
31 12 0.48
32 2 0.08
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.34
Consensus pattern (31 bp):
GGGCATTTTGAATATTCAACATCAAATGCTG
Found at i:532074 original size:27 final size:27
Alignment explanation
Indices: 532033--532085 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
532023 TGCTGGGGCA
* *
532033 TTTTTAGATTTAACATCAAATGTTGAT
1 TTTTTAGATTCAACATCAAATATTGAT
*
532060 TTTTTAGATTCAACATCGAATATTGA
1 TTTTTAGATTCAACATCAAATATTGA
532086 GGCATCTTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.34, C:0.09, G:0.11, T:0.45
Consensus pattern (27 bp):
TTTTTAGATTCAACATCAAATATTGAT
Found at i:532840 original size:106 final size:106
Alignment explanation
Indices: 532653--532895 Score: 389
Period size: 106 Copynumber: 2.3 Consensus size: 106
532643 ACGAAGGGGC
* **
532653 TTCCCAATTTCAGAGCCAATTTCAACTTCACAGTGAAGAATATTGGACTCGAGACAACACAAGTT
1 TTCCCAGTTTCAGAGCCAATTTCAACTTCACAACGAAGAATATTGGACTCGAGACAACACAAGTT
*
532718 CAACTTCACAGTGAAGGGACGGCTGGTTGTAAACAAACAAT
66 CAACTTCACAGTGAAGGGACGACTGGTTGTAAACAAACAAT
* * *
532759 TTCCCAGTTTCAAAACCAATTTCAACTTCACAACGAAGGATATTGGACTCGAGACAACACAAGTT
1 TTCCCAGTTTCAGAGCCAATTTCAACTTCACAACGAAGAATATTGGACTCGAGACAACACAAGTT
*
532824 CAACTTCACA-TCGAAGGGACGACTGGTTGTCAACAAACAAT
66 CAACTTCACAGT-GAAGGGACGACTGGTTGTAAACAAACAAT
*
532865 TTCCCAGTTCCAGAGCCAATTTCAACTTCAC
1 TTCCCAGTTTCAGAGCCAATTTCAACTTCAC
532896 GGTTGAGGAT
Statistics
Matches: 125, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
105 1 0.01
106 124 0.99
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (106 bp):
TTCCCAGTTTCAGAGCCAATTTCAACTTCACAACGAAGAATATTGGACTCGAGACAACACAAGTT
CAACTTCACAGTGAAGGGACGACTGGTTGTAAACAAACAAT
Found at i:533240 original size:102 final size:102
Alignment explanation
Indices: 533062--533248 Score: 243
Period size: 102 Copynumber: 1.8 Consensus size: 102
533052 GACAGTTTCC
* * *
533062 AAGTTTTGTCTCTCTTGAGACAATTTCCCTTGAAACAAAATCTTTGAATATCTTTTCCTTGAAAC
1 AAGTTTTGTCTCTCTTGAGACAATTTCCCTTGAAACAAAATCATTGAATAACTTTCCCTTGAAAC
533127 AAATTTCGTCTCCCTTGAGACATTTTCTTTTGGAACT
66 AAATTTCGTCTCCCTTGAGACATTTTCTTTTGGAACT
* * * *
533164 AAGTTTTGTCTCTCTTGAGATAGTTTCTCTTGAAAC-ATATACATTGAA-AACATTTCCCTTGAA
1 AAGTTTTGTCTCTCTTGAGACAATTTCCCTTGAAACAAAAT-CATTGAATAAC-TTTCCCTTGAA
** * *
533227 ATGAATTTTGTCTCTCTTGAGA
64 ACAAATTTCGTCTCCCTTGAGA
533249 TAGTTTCCCT
Statistics
Matches: 72, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
101 5 0.07
102 67 0.93
ACGTcount: A:0.27, C:0.19, G:0.13, T:0.41
Consensus pattern (102 bp):
AAGTTTTGTCTCTCTTGAGACAATTTCCCTTGAAACAAAATCATTGAATAACTTTCCCTTGAAAC
AAATTTCGTCTCCCTTGAGACATTTTCTTTTGGAACT
Found at i:533485 original size:34 final size:35
Alignment explanation
Indices: 533421--533504 Score: 127
Period size: 34 Copynumber: 2.4 Consensus size: 35
533411 TTGAATACAA
* *
533421 TTTCTCTTGAAAAACAAAAAAAACCTTTGAA-ATTG
1 TTTCTCTTGAAACACAAAAAAAACCATTGAAGA-TG
533456 TTTCTCTTGAAACAC-AAAAAAACCATTGAAGATG
1 TTTCTCTTGAAACACAAAAAAAACCATTGAAGATG
533490 TTTCTCTTGAAACAC
1 TTTCTCTTGAAACAC
533505 CAAACCCTCA
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
34 31 0.67
35 15 0.33
ACGTcount: A:0.42, C:0.18, G:0.10, T:0.31
Consensus pattern (35 bp):
TTTCTCTTGAAACACAAAAAAAACCATTGAAGATG
Found at i:534651 original size:2 final size:2
Alignment explanation
Indices: 534646--534689 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
534636 TTTAGATTAC
* *
534646 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT GT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
534688 AT
1 AT
534690 GTTAATTTTC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (2 bp):
AT
Found at i:537514 original size:26 final size:24
Alignment explanation
Indices: 537452--537514 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 24
537442 CATTTTAATC
537452 AAAATAT-TAATTATTAAAATATTT
1 AAAATATAT-ATTATTAAAATATTT
*
537476 AAAATATAT-TTATTAATAT-TTCT
1 AAAATATATATTATTAAAATATT-T
537499 AATAATATAATATTAT
1 AA-AATAT-ATATTAT
537515 ATTTATAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
22 2 0.06
23 12 0.36
24 12 0.36
25 3 0.09
26 4 0.12
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (24 bp):
AAAATATATATTATTAAAATATTT
Found at i:537516 original size:22 final size:23
Alignment explanation
Indices: 537469--537532 Score: 71
Period size: 22 Copynumber: 2.9 Consensus size: 23
537459 TAATTATTAA
* *
537469 AATATTTAAAAT-ATAT-TTATT
1 AATATTTATAATAATATAATATT
*
537490 AATATTTCTAATAATATAATATT
1 AATATTTATAATAATATAATATT
*
537513 -ATATTTATAATATTATAATA
1 AATATTTATAATAATATAATA
537533 AAATAATCAA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
21 10 0.28
22 22 0.61
23 4 0.11
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (23 bp):
AATATTTATAATAATATAATATT
Found at i:537670 original size:19 final size:19
Alignment explanation
Indices: 537646--537714 Score: 70
Period size: 19 Copynumber: 3.6 Consensus size: 19
537636 ATATTATTAA
537646 ATTATTAATAATAAATAAT
1 ATTATTAATAATAAATAAT
* *
537665 ATTATTTAT-ATAATTAAT
1 ATTATTAATAATAAATAAT
*
537683 ATTAATATAATAATCTAATAAT
1 ATT-AT-TAATAAT-AAATAAT
537705 ATT-TTAATAA
1 ATTATTAATAA
537715 AGATATTTAA
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
18 11 0.27
19 16 0.39
20 4 0.10
21 2 0.05
22 8 0.20
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.46
Consensus pattern (19 bp):
ATTATTAATAATAAATAAT
Found at i:537688 original size:24 final size:21
Alignment explanation
Indices: 537632--537707 Score: 61
Period size: 22 Copynumber: 3.6 Consensus size: 21
537622 ATTTCATAGA
*
537632 AATAATATTATTAA-ATTATT
1 AATAATAATATTAATATTATT
537652 AATAATAA-A-TAATATTATTT
1 AATAATAATATTAATATTA-TT
*
537672 ATATAATTAATATTAATA-TAAT
1 A-ATAA-TAATATTAATATTATT
537694 AATCTAATAATATT
1 AA--TAATAATATT
537708 TTAATAAAGA
Statistics
Matches: 46, Mismatches: 2, Indels: 14
0.74 0.03 0.23
Matches are distributed among these distances:
18 3 0.07
19 5 0.11
20 10 0.22
21 5 0.11
22 12 0.26
23 6 0.13
24 5 0.11
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (21 bp):
AATAATAATATTAATATTATT
Found at i:537689 original size:27 final size:27
Alignment explanation
Indices: 537596--537694 Score: 87
Period size: 27 Copynumber: 3.6 Consensus size: 27
537586 TATATAAGTT
*
537596 ATTAATA-AAATTTATATTATTTAT-TA
1 ATTAATATAAA-TAATATTATTTATATA
* * * *
537622 ATTTCATAGAAATAATATTA-TTAAATT
1 A-TTAATATAAATAATATTATTTATATA
537649 ATTAATAATAAATAATATTATTTATATA
1 ATTAAT-ATAAATAATATTATTTATATA
537677 ATTAATATTAATATAATA
1 ATTAATA-TAA-ATAATA
537695 ATCTAATAAT
Statistics
Matches: 58, Mismatches: 8, Indels: 11
0.75 0.10 0.14
Matches are distributed among these distances:
26 8 0.14
27 27 0.47
28 17 0.29
29 6 0.10
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (27 bp):
ATTAATATAAATAATATTATTTATATA
Found at i:537822 original size:29 final size:31
Alignment explanation
Indices: 537770--537870 Score: 79
Period size: 32 Copynumber: 3.3 Consensus size: 31
537760 CACTATTACT
*
537770 TTAATAAATAATTAATATAAAATAATATTTTAT-
1 TTAAT-AA-AATT-ATAAAAAATAATATTTTATA
* *
537803 TTCAATAAAA-TATACCAATATTAATATTTT-TA
1 TT-AATAAAATTATA--AAAAATAATATTTTATA
537835 TTAATAAAATTAT-AAAAATAATATTTTA-A
1 TTAATAAAATTATAAAAAATAATATTTTATA
537864 -TAATAAA
1 TTAATAAA
537871 TAAATTATTT
Statistics
Matches: 57, Mismatches: 5, Indels: 17
0.72 0.06 0.22
Matches are distributed among these distances:
28 7 0.12
29 13 0.23
30 3 0.05
31 9 0.16
32 18 0.32
33 4 0.07
34 3 0.05
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (31 bp):
TTAATAAAATTATAAAAAATAATATTTTATA
Found at i:539415 original size:30 final size:31
Alignment explanation
Indices: 539381--539441 Score: 83
Period size: 30 Copynumber: 2.0 Consensus size: 31
539371 AATAAAAAGC
539381 TTTTAAAAT-TAGATTTTGT-TTT-TATTTTAA
1 TTTTAAAATGTA-ATTTT-TATTTATATTTTAA
539411 TTTTAAAATGTAATTTTTATTTATATTTTAA
1 TTTTAAAATGTAATTTTTATTTATATTTTAA
539442 AATACGTTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
29 1 0.04
30 17 0.61
31 10 0.36
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (31 bp):
TTTTAAAATGTAATTTTTATTTATATTTTAA
Found at i:541071 original size:32 final size:33
Alignment explanation
Indices: 541030--541103 Score: 96
Period size: 32 Copynumber: 2.3 Consensus size: 33
541020 AAAAAATTTA
* * *
541030 GGGTCGGGTCGGGTTTTTAAAAGTTTGATATTC
1 GGGTCGGGTCCGCTTTTTAAAAGTGTGATATTC
**
541063 -GGTCGGGTCCGCTTTTTGTAAGTGTGATATTC
1 GGGTCGGGTCCGCTTTTTAAAAGTGTGATATTC
541095 GGGTCGGGT
1 GGGTCGGGT
541104 TTTTTTTCAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
32 27 0.77
33 8 0.23
ACGTcount: A:0.14, C:0.12, G:0.36, T:0.38
Consensus pattern (33 bp):
GGGTCGGGTCCGCTTTTTAAAAGTGTGATATTC
Found at i:541193 original size:28 final size:28
Alignment explanation
Indices: 541161--541226 Score: 116
Period size: 27 Copynumber: 2.4 Consensus size: 28
541151 CGGGTTCAGG
541161 TCGGGTTGGGTTTTTTTAAGTGTGATAT
1 TCGGGTTGGGTTTTTTTAAGTGTGATAT
*
541189 TCGGG-TCGGTTTTTTTAAGTGTGATAT
1 TCGGGTTGGGTTTTTTTAAGTGTGATAT
541216 TCGGGTTGGGT
1 TCGGGTTGGGT
541227 CGGGTCGGGT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
27 26 0.74
28 9 0.26
ACGTcount: A:0.12, C:0.06, G:0.35, T:0.47
Consensus pattern (28 bp):
TCGGGTTGGGTTTTTTTAAGTGTGATAT
Found at i:541232 original size:37 final size:39
Alignment explanation
Indices: 541189--541270 Score: 132
Period size: 39 Copynumber: 2.2 Consensus size: 39
541179 AGTGTGATAT
*
541189 TCGGGTC-GG-TTTTTTTAAGTGTGATATTCGGGTTGGG
1 TCGGGTCGGGTTTTTTTTAAGTGTGATATTCGGGTCGGG
*
541226 TCGGGTCGGGTTTTTTTTAAGTGTGATATTCGGGTCGGT
1 TCGGGTCGGGTTTTTTTTAAGTGTGATATTCGGGTCGGG
541265 TCGGGT
1 TCGGGT
541271 TTAGGGTGAA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
37 7 0.17
38 2 0.05
39 32 0.78
ACGTcount: A:0.10, C:0.10, G:0.38, T:0.43
Consensus pattern (39 bp):
TCGGGTCGGGTTTTTTTTAAGTGTGATATTCGGGTCGGG
Found at i:541269 original size:34 final size:35
Alignment explanation
Indices: 541159--541272 Score: 104
Period size: 39 Copynumber: 3.4 Consensus size: 35
541149 TTCGGGTTCA
*
541159 GGTCGGGTTGGG-TTTTTTTAAGTGTGATA-T---
1 GGTCGGGTCGGGTTTTTTTTAAGTGTGATATTCGG
541189 --TCGGGTC-GG-TTTTTTTAAGTGTGATATTCGGGTTG
1 GGTCGGGTCGGGTTTTTTTTAAGTGTGATATTC--G--G
541224 GGTCGGGTCGGGTTTTTTTTAAGTGTGATATTC-G
1 GGTCGGGTCGGGTTTTTTTTAAGTGTGATATTCGG
*
541258 GGTCGGTTCGGGTTT
1 GGTCGGGTCGGGTTT
541273 AGGGTGAAAA
Statistics
Matches: 70, Mismatches: 2, Indels: 20
0.76 0.02 0.22
Matches are distributed among these distances:
27 19 0.27
28 7 0.10
34 15 0.21
37 7 0.10
38 2 0.03
39 20 0.29
ACGTcount: A:0.11, C:0.08, G:0.37, T:0.45
Consensus pattern (35 bp):
GGTCGGGTCGGGTTTTTTTTAAGTGTGATATTCGG
Found at i:543919 original size:20 final size:20
Alignment explanation
Indices: 543871--543911 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
543861 TTTACTATGC
*
543871 TTGAATTTAATGTTATAATG
1 TTGAATTTGATGTTATAATG
543891 TTGAATTTGATGTTATAATG
1 TTGAATTTGATGTTATAATG
543911 T
1 T
543912 GAAATTTGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.17, T:0.51
Consensus pattern (20 bp):
TTGAATTTGATGTTATAATG
Found at i:545626 original size:19 final size:19
Alignment explanation
Indices: 545566--545648 Score: 103
Period size: 19 Copynumber: 4.4 Consensus size: 19
545556 TGCATTGGGA
*
545566 TATGAATGTGAAATTAAGT
1 TATGAATATGAAATTAAGT
* *
545585 TATAAATATGAAATTAAGC
1 TATGAATATGAAATTAAGT
545604 TATGAATATGAAATTAAGT
1 TATGAATATGAAATTAAGT
* * *
545623 TATGAATCTAAAAGTAAGT
1 TATGAATATGAAATTAAGT
*
545642 TTTGAAT
1 TATGAAT
545649 CTGGAAATCG
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 55 1.00
ACGTcount: A:0.46, C:0.02, G:0.16, T:0.36
Consensus pattern (19 bp):
TATGAATATGAAATTAAGT
Found at i:549500 original size:34 final size:34
Alignment explanation
Indices: 549456--549529 Score: 130
Period size: 34 Copynumber: 2.1 Consensus size: 34
549446 TTGCCTACTC
549456 ACAACTATCAGTATTAATAAATAAATACTCAGATG
1 ACAA-TATCAGTATTAATAAATAAATACTCAGATG
*
549491 ACAATATCAGTATTAATAAATAAATACTCGGATG
1 ACAATATCAGTATTAATAAATAAATACTCAGATG
549525 ACAAT
1 ACAAT
549530 TTAATTGTAT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
34 34 0.89
35 4 0.11
ACGTcount: A:0.49, C:0.14, G:0.09, T:0.28
Consensus pattern (34 bp):
ACAATATCAGTATTAATAAATAAATACTCAGATG
Found at i:551117 original size:25 final size:26
Alignment explanation
Indices: 551083--551133 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
551073 ATAATGACTC
551083 GAACATAATA-TTTACTCAAGCGATA
1 GAACATAATACTTTACTCAAGCGATA
551108 GAACATAATACTTTACTCAAGCGATA
1 GAACATAATACTTTACTCAAGCGATA
551134 TCAAACTGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 10 0.40
26 15 0.60
ACGTcount: A:0.43, C:0.18, G:0.12, T:0.27
Consensus pattern (26 bp):
GAACATAATACTTTACTCAAGCGATA
Found at i:557692 original size:2 final size:2
Alignment explanation
Indices: 557685--557732 Score: 80
Period size: 2 Copynumber: 24.5 Consensus size: 2
557675 TTTTTACTTT
*
557685 TA TA TA TA TA CA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
557727 TA -A TA T
1 TA TA TA T
557733 TAGCTAATTT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Done.