Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 279 of 344
Found at i:93730988 original size:25 final size:23
Alignment explanation
Indices: 93730960--93731050 Score: 78
Period size: 23 Copynumber: 3.9 Consensus size: 23
93730950 TAAGTCCTCC
* *
93730960 TGAGCTGATGAACGGTAAGCTCTGT
1 TGAGCTGA--AACAGTAAGCTCTGA
*
93730985 TGAGTTGAAACAGTAAGCTCTGA
1 TGAGCTGAAACAGTAAGCTCTGA
* *
93731008 TGAGTTG-AACAGTAAACTCAT-A
1 TGAGCTGAAACAGTAAGCTC-TGA
*
93731030 CGAGCTGAGAACAGTAAGCTC
1 TGAGCTGA-AACAGTAAGCTC
93731051 ATACAAGTTG
Statistics
Matches: 56, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
22 17 0.30
23 21 0.38
24 11 0.20
25 7 0.12
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.24
Consensus pattern (23 bp):
TGAGCTGAAACAGTAAGCTCTGA
Found at i:93731021 original size:22 final size:22
Alignment explanation
Indices: 93730968--93731022 Score: 83
Period size: 23 Copynumber: 2.5 Consensus size: 22
93730958 CCTGAGCTGA
* *
93730968 TGAACGGTAAGCTCTGTTGAGT
1 TGAACAGTAAGCTCTGATGAGT
93730990 TGAAACAGTAAGCTCTGATGAGT
1 TG-AACAGTAAGCTCTGATGAGT
93731013 TGAACAGTAA
1 TGAACAGTAA
93731023 ACTCATACGA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 10 0.33
23 20 0.67
ACGTcount: A:0.33, C:0.13, G:0.27, T:0.27
Consensus pattern (22 bp):
TGAACAGTAAGCTCTGATGAGT
Found at i:93731246 original size:17 final size:19
Alignment explanation
Indices: 93731220--93731266 Score: 55
Period size: 17 Copynumber: 2.6 Consensus size: 19
93731210 GCATCCATAT
*
93731220 TTCAAGTATATCA-ATT-A
1 TTCAAATATATCACATTCA
93731237 TTCAAATATA-CACATTCA
1 TTCAAATATATCACATTCA
93731255 TTACAAATATAT
1 TT-CAAATATAT
93731267 ACAAGTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 2 0.08
17 12 0.48
18 3 0.12
19 8 0.32
ACGTcount: A:0.45, C:0.15, G:0.02, T:0.38
Consensus pattern (19 bp):
TTCAAATATATCACATTCA
Found at i:93734469 original size:42 final size:44
Alignment explanation
Indices: 93734400--93734490 Score: 132
Period size: 42 Copynumber: 2.1 Consensus size: 44
93734390 TCTTAGATGT
* *
93734400 AATCAAATATCGATGCCACTATCCCAAACAGGGTCTTACACG-A
1 AATCAAATATCGATGCAAATATCCCAAACAGGGTCTTACACGTA
* *
93734443 AATCAAATA-CGATGCAAATGTCCCAAACATGGTCTTACACGTA
1 AATCAAATATCGATGCAAATATCCCAAACAGGGTCTTACACGTA
93734486 AATCA
1 AATCA
93734491 TAAGTCGATG
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
42 28 0.65
43 15 0.35
ACGTcount: A:0.40, C:0.25, G:0.13, T:0.22
Consensus pattern (44 bp):
AATCAAATATCGATGCAAATATCCCAAACAGGGTCTTACACGTA
Found at i:93738723 original size:29 final size:29
Alignment explanation
Indices: 93738681--93738737 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
93738671 AAAGTAAGCT
93738681 TCACACCCTTTTCTCACAATACTCAAAGA
1 TCACACCCTTTTCTCACAATACTCAAAGA
*
93738710 TCACACCCTTTTCTCATAATACTCAAAG
1 TCACACCCTTTTCTCACAATACTCAAAG
93738738 CTTTCATTGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.33, C:0.33, G:0.04, T:0.30
Consensus pattern (29 bp):
TCACACCCTTTTCTCACAATACTCAAAGA
Found at i:93747389 original size:46 final size:46
Alignment explanation
Indices: 93747339--93747514 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
93747329 TGGTTGAGCA
93747339 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
93747385 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
93747430 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
93747478 CCCGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
93747515 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.04
45 3 0.03
46 64 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:93747495 original size:93 final size:93
Alignment explanation
Indices: 93747336--93747506 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
93747326 GGATGGTTGA
* * *
93747336 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
93747401 TGAGTCCGAGTTCATGAGATGTAACTAG
66 TGAGTCCGAGTTCATGAGATGTAACTAG
* *
93747429 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
93747494 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
93747507 GCTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCATTGAGT
TGAGTCCGAGTTCATGAGATGTAACTAG
Found at i:93754914 original size:26 final size:26
Alignment explanation
Indices: 93754885--93754937 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
93754875 CACTCAATTG
* *
93754885 TCATCCATTGTTCTCATTTCCCTAGT
1 TCATCAATTGTTCTCATCTCCCTAGT
*
93754911 TCATCAATTGTTCTCCTCTCCCTAGT
1 TCATCAATTGTTCTCATCTCCCTAGT
93754937 T
1 T
93754938 TTTCTTCCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.15, C:0.32, G:0.08, T:0.45
Consensus pattern (26 bp):
TCATCAATTGTTCTCATCTCCCTAGT
Found at i:93757710 original size:25 final size:25
Alignment explanation
Indices: 93757657--93757737 Score: 72
Period size: 24 Copynumber: 3.6 Consensus size: 25
93757647 CTTTTTTTAT
*
93757657 TAAATCAAA-AAATTTAAAATATAA
1 TAAATCAAATAAATTTAAAACATAA
*
93757681 TAAATCAAATACATTTAAAAACATAA
1 TAAATCAAATAAATTT-AAAACATAA
93757707 -AAAT-AAAT--A-TTAAAACA-AA
1 TAAATCAAATAAATTTAAAACATAA
93757726 -AAAT-AAATAAAT
1 TAAATCAAATAAAT
93757738 AATGAGACTA
Statistics
Matches: 50, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
19 10 0.20
20 6 0.12
21 3 0.06
22 1 0.02
24 13 0.26
25 9 0.18
26 8 0.16
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (25 bp):
TAAATCAAATAAATTTAAAACATAA
Found at i:93759763 original size:17 final size:18
Alignment explanation
Indices: 93759732--93759770 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
93759722 ATCTCATTAG
* *
93759732 TTTTATATCTATAAATAT
1 TTTTATATATATAAACAT
93759750 TTTTATATAT-TAAACAT
1 TTTTATATATATAAACAT
93759767 TTTT
1 TTTT
93759771 TAAAAATATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTTATATATATAAACAT
Found at i:93761805 original size:43 final size:42
Alignment explanation
Indices: 93761758--93761905 Score: 138
Period size: 43 Copynumber: 3.5 Consensus size: 42
93761748 GTTTTCGTGC
* * *
93761758 AAGACAATGTTTGGGACGTTGGCATTGATATGTGGTTACATGT
1 AAGACCATGTTTGGGACGTTGGCATCGATATGTGATT-CATGT
* * *
93761801 AAGACCATGTCTGGGACATTGGCATCG-TATTTGATTCATGT
1 AAGACCATGTTTGGGACGTTGGCATCGATATGTGATTCATGT
* * **
93761842 AAGACCCTGTTTGGGACAG-TGGCATCGATATGAGATAGGATGT
1 AAGACCATGTTTGGGAC-GTTGGCATCGATATGTGAT-TCATGT
* * *
93761885 AAGATCACGTCTGGGACGTTG
1 AAGACCATGTTTGGGACGTTG
93761906 CCATTGTATG
Statistics
Matches: 84, Mismatches: 17, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
41 28 0.33
42 14 0.17
43 42 0.50
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.30
Consensus pattern (42 bp):
AAGACCATGTTTGGGACGTTGGCATCGATATGTGATTCATGT
Found at i:93761857 original size:41 final size:43
Alignment explanation
Indices: 93761758--93761873 Score: 146
Period size: 41 Copynumber: 2.7 Consensus size: 43
93761748 GTTTTCGTGC
* * * *
93761758 AAGACAATGTTTGGGACGTTGGCATTGATATGTGGTTACATGT
1 AAGACCATGTTTGGGACATTGGCATCGATATGTGATTACATGT
* *
93761801 AAGACCATGTCTGGGACATTGGCATCG-TATTTGATT-CATGT
1 AAGACCATGTTTGGGACATTGGCATCGATATGTGATTACATGT
* *
93761842 AAGACCCTGTTTGGGACAGTGGCATCGATATG
1 AAGACCATGTTTGGGACATTGGCATCGATATG
93761874 AGATAGGATG
Statistics
Matches: 62, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
41 29 0.47
42 10 0.16
43 23 0.37
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (43 bp):
AAGACCATGTTTGGGACATTGGCATCGATATGTGATTACATGT
Found at i:93762975 original size:20 final size:22
Alignment explanation
Indices: 93762946--93762993 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 22
93762936 GATGTATATA
*
93762946 TATATATTGGTTTATTA-AATG
1 TATATATTGGCTTATTACAATG
*
93762967 -ATATTTTGGCTTATTACAATG
1 TATATATTGGCTTATTACAATG
93762988 TATATA
1 TATATA
93762994 AAATTTGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 14 0.64
21 4 0.18
22 4 0.18
ACGTcount: A:0.33, C:0.04, G:0.12, T:0.50
Consensus pattern (22 bp):
TATATATTGGCTTATTACAATG
Found at i:93767371 original size:13 final size:14
Alignment explanation
Indices: 93767347--93767375 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
93767337 ATTTTCTAGT
93767347 TTACTAAATTAACC
1 TTACTAAATTAACC
93767361 TTACT-AATTAACC
1 TTACTAAATTAACC
93767374 TT
1 TT
93767376 TAAATAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.38, C:0.21, G:0.00, T:0.41
Consensus pattern (14 bp):
TTACTAAATTAACC
Found at i:93781623 original size:24 final size:24
Alignment explanation
Indices: 93781583--93781673 Score: 103
Period size: 25 Copynumber: 3.7 Consensus size: 24
93781573 CAGGAGGCCT
*
93781583 AGCCTCTTTTAAT-AACTGGGGCAA
1 AGCC-CTTTTGATAAACTGGGGCAA
*
93781607 AGCCCTTTTGATAAACTAGGGCAA
1 AGCCCTTTTGATAAACTGGGGCAA
* *
93781631 AGTCCTTTTCAGTAAACTGGGGCAA
1 AGCCCTTTTGA-TAAACTGGGGCAA
*
93781656 AGCCCTTTTCGGTAAACT
1 AGCCCTTTT-GATAAACT
93781674 TTTAGCACTT
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
23 7 0.12
24 23 0.41
25 26 0.46
ACGTcount: A:0.29, C:0.22, G:0.21, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTGATAAACTGGGGCAA
Found at i:93781653 original size:25 final size:25
Alignment explanation
Indices: 93781596--93781673 Score: 113
Period size: 25 Copynumber: 3.2 Consensus size: 25
93781586 CTCTTTTAAT
*
93781596 AACTGGGGCAAAGCCCTTTTGA-TA
1 AACTGGGGCAAAGCCCTTTTCAGTA
* *
93781620 AACTAGGGCAAAGTCCTTTTCAGTA
1 AACTGGGGCAAAGCCCTTTTCAGTA
*
93781645 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCAGTA
93781670 AACT
1 AACT
93781674 TTTAGCACTT
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
24 19 0.40
25 28 0.60
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCAGTA
Found at i:93781938 original size:27 final size:27
Alignment explanation
Indices: 93781905--93782148 Score: 271
Period size: 27 Copynumber: 9.1 Consensus size: 27
93781895 GGTATCTCAG
93781905 TAATTCTACCCTACAGGGGTATTTCGA
1 TAATTCTACCCTACAGGGGTATTTCGA
* * *
93781932 TATTTCTACCCTACAAGGGTATTTCGG
1 TAATTCTACCCTACAGGGGTATTTCGA
* *
93781959 TAATTCTATCCTACAGGGGTCTTTC-A
1 TAATTCTACCCTACAGGGGTATTTCGA
* *
93781985 GTAATTCTACCCTATA-GGGTATTT-TA
1 -TAATTCTACCCTACAGGGGTATTTCGA
* *
93782011 GTAATTCTACCCTATAGGGGTATTTCGG
1 -TAATTCTACCCTACAGGGGTATTTCGA
* *
93782039 TAATTTTACCCTACAGGGTTATTTC-A
1 TAATTCTACCCTACAGGGGTATTTCGA
* * *
93782065 GTAATTCTACCCTATAAGGGTATTTCGG
1 -TAATTCTACCCTACAGGGGTATTTCGA
* * * *
93782093 TAATTCTACCCTATAAGGGTATTTTGG
1 TAATTCTACCCTACAGGGGTATTTCGA
93782120 TAATTCTACCCTACAGGGGTATTTCGA
1 TAATTCTACCCTACAGGGGTATTTCGA
93782147 TA
1 TA
93782149 TTTTACAAAT
Statistics
Matches: 184, Mismatches: 27, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
26 24 0.13
27 160 0.87
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (27 bp):
TAATTCTACCCTACAGGGGTATTTCGA
Found at i:93781962 original size:54 final size:54
Alignment explanation
Indices: 93781891--93782151 Score: 323
Period size: 54 Copynumber: 4.9 Consensus size: 54
93781881 TAATTTTACC
*
93781891 CAAGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTCGATATTTCTACCCTA
1 CAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGATATTTCTACCCTA
* * * *
93781945 CAAGGGTATTTCGGTAATTCTATCCTACAGGGGTCTTTC-AGTAATTCTACCCTA
1 CAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGA-TATTTCTACCCTA
* * * *
93781999 -TAGGGTATTTTAGTAATTCTACCCTATAGGGGTATTTCGGTAATTT-TACCCTA
1 CAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGAT-ATTTCTACCCTA
* * * *
93782052 C-AGGGTTATTTCAGTAATTCTACCCTATAAGGGTATTTCGGTAATTCTACCCTA
1 CAAGGG-TATTTCAGTAATTCTACCCTACAGGGGTATTTCGATATTTCTACCCTA
* **
93782106 TAAGGGTATTTTGGTAATTCTACCCTACAGGGGTATTTCGATATTT
1 CAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGATATTT
93782152 TACAAATTGA
Statistics
Matches: 177, Mismatches: 23, Indels: 14
0.83 0.11 0.07
Matches are distributed among these distances:
53 48 0.27
54 125 0.71
55 4 0.02
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (54 bp):
CAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGATATTTCTACCCTA
Found at i:93782030 original size:107 final size:106
Alignment explanation
Indices: 93781880--93782154 Score: 385
Period size: 107 Copynumber: 2.6 Consensus size: 106
93781870 GGGCAAAATG
* * *
93781880 GTAATTTTACCC-A-AGGGTATCTCAGTAATTCTACCCTACAGGGGTATTTCGATATTTCTACCC
1 GTAATTCTACCCTATAGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGATATTT-TACCC
* * * *
93781943 TACAAGGG-TATTTCGGTAATTCTATCCTACAGGGGTCTTTCA
65 TAC-AGGGTTATTTCAGTAATTCTACCCTACAAGGGTATTTCA
* *
93781985 GTAATTCTACCCTATAGGGTATTTTAGTAATTCTACCCTATAGGGGTATTTCGGTAATTTTACCC
1 GTAATTCTACCCTATAGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGAT-ATTTTACCC
* *
93782050 TACAGGGTTATTTCAGTAATTCTACCCTATAAGGGTATTTCG
65 TACAGGGTTATTTCAGTAATTCTACCCTACAAGGGTATTTCA
*
93782092 GTAATTCTACCCTATAAGGGTATTTTGGTAATTCTACCCTACAGGGGTATTTCGATATTTTAC
1 GTAATTCTACCCTAT-AGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGATATTTTAC
93782155 AAATTGAGAG
Statistics
Matches: 151, Mismatches: 14, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
105 11 0.07
106 5 0.03
107 94 0.62
108 41 0.27
ACGTcount: A:0.25, C:0.19, G:0.18, T:0.38
Consensus pattern (106 bp):
GTAATTCTACCCTATAGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGATATTTTACCCT
ACAGGGTTATTTCAGTAATTCTACCCTACAAGGGTATTTCA
Found at i:93782177 original size:134 final size:134
Alignment explanation
Indices: 93781905--93782178 Score: 313
Period size: 134 Copynumber: 2.0 Consensus size: 134
93781895 GGTATCTCAG
* * *
93781905 TAATTCTACCCTACAGGGGTATTTCGATATTTCTACCCTACAAGGGTATTTCGGTAATTCTATCC
1 TAATTTTACCCTACAGGGGTATTTCGATAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCC
* * * * ** *
93781970 TACAGGGGTCTTTCAGTAATTCTACCCTATAGGGTATTTTAGTAATTCTACCCTATAGGGGTATT
66 TACAAGGGTATTTCAGTAATTCTACCCTACAGGGTATTTGAGTAATTCTACCAAATAGGAGTATT
*
93782035 TCGG
131 TCGA
* *
93782039 TAATTTTACCCTACAGGGTTATTTC-AGTAATTCTACCCTATAAGGGTATTTCGGTAATTCTACC
1 TAATTTTACCCTACAGGGGTATTTCGA-TAATTCTACCCTACAAGGGTATTTCGGTAATTCTACC
* ** * *
93782103 CTATAAGGGTATTTTGGTAATTCTACCCTACAGGGGTATTTCGA-T-ATTTTA-CAAATTGAGAG
65 CTACAAGGGTATTTCAGTAATTCTACCCTACA-GGGTATTT-GAGTAATTCTACCAAATAG-GAG
*
93782165 TATTTTGA
127 TATTTCGA
93782173 TAATTT
1 TAATTT
93782179 CACAAATCAG
Statistics
Matches: 117, Mismatches: 19, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
133 5 0.04
134 102 0.87
135 9 0.08
136 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.18, T:0.39
Consensus pattern (134 bp):
TAATTTTACCCTACAGGGGTATTTCGATAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCC
TACAAGGGTATTTCAGTAATTCTACCCTACAGGGTATTTGAGTAATTCTACCAAATAGGAGTATT
TCGA
Found at i:93782346 original size:27 final size:27
Alignment explanation
Indices: 93782164--93782342 Score: 225
Period size: 27 Copynumber: 6.6 Consensus size: 27
93782154 CAAATTGAGA
* * *
93782164 GTATTTTGATAATTTCACAAATCAGGG
1 GTATTTTGGTAATTTTACAAACCAGGG
*
93782191 GTATTTTGGTAATTTTACAAGCCAGGG
1 GTATTTTGGTAATTTTACAAACCAGGG
93782218 GTATTTTGGTAATTTTACAAACCAGGG
1 GTATTTTGGTAATTTTACAAACCAGGG
*
93782245 GTATTTTAGTAATTTTACAAACCAGGG
1 GTATTTTGGTAATTTTACAAACCAGGG
** *
93782272 GTATTTTGGTAATTTTACTGATC-GAGG
1 GTATTTTGGTAATTTTACAAACCAG-GG
** * *
93782299 GTATTTTGGTAATTTTTTAAACCAAGA
1 GTATTTTGGTAATTTTACAAACCAGGG
*
93782326 GTATTTTAGTAATTTTA
1 GTATTTTGGTAATTTTA
93782343 TAAATCGAGG
Statistics
Matches: 131, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
26 1 0.01
27 130 0.99
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (27 bp):
GTATTTTGGTAATTTTACAAACCAGGG
Found at i:93782355 original size:54 final size:55
Alignment explanation
Indices: 93782134--93782353 Score: 232
Period size: 54 Copynumber: 4.1 Consensus size: 55
93782124 TCTACCCTAC
* * *** * *
93782134 AGGGGTATTTCGAT-ATTTTACAAATTGAGAGTATTTTGATAATTTCACAAATC-
1 AGGGGTATTTTGGTAATTTTACAAACCAAGAGTATTTTGGTAATTTTACAAATCG
* * * *
93782187 AGGGGTATTTTGGTAATTTTACAAGCCAGGGGTATTTTGGTAATTTTACAAA-CC
1 AGGGGTATTTTGGTAATTTTACAAACCAAGAGTATTTTGGTAATTTTACAAATCG
* * * **
93782241 AGGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACTGATCG
1 AGGGGTATTTTGGTAATTTTACAAACCAAGAGTATTTTGGTAATTTTACAAATCG
** * *
93782296 A-GGGTATTTTGGTAATTTTTTAAACCAAGAGTATTTTAGTAATTTTATAAATCG
1 AGGGGTATTTTGGTAATTTTACAAACCAAGAGTATTTTGGTAATTTTACAAATCG
93782350 AGGG
1 AGGG
93782354 TAAAACGGTA
Statistics
Matches: 139, Mismatches: 24, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
53 13 0.09
54 122 0.88
55 4 0.03
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (55 bp):
AGGGGTATTTTGGTAATTTTACAAACCAAGAGTATTTTGGTAATTTTACAAATCG
Found at i:93782355 original size:81 final size:81
Alignment explanation
Indices: 93782109--93782353 Score: 262
Period size: 81 Copynumber: 3.0 Consensus size: 81
93782099 TACCCTATAA
* **** * * ***
93782109 GGGTATTTTGGTAATTCTACCCTACAGGGGTATTTCGAT-ATTTTACAAATTGAGAGTATTTT-G
1 GGGTATTTTGGTAATTTTACAAGCCAGGGGTATTTTGGTAATTTTACAAACCAAGAGTATTTTAG
*
93782172 ATAATTTCACAAATCAG
66 -TAATTTTACAAATCAG
* *
93782189 GGGTATTTTGGTAATTTTACAAGCCAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAG
1 GGGTATTTTGGTAATTTTACAAGCCAGGGGTATTTTGGTAATTTTACAAACCAAGAGTATTTTAG
*
93782254 TAATTTTACAAACCAG
66 TAATTTTACAAATCAG
* * * **
93782270 GGGTATTTTGGTAATTTTACTGATCGA-GGGTATTTTGGTAATTTTTTAAACCAAGAGTATTTTA
1 GGGTATTTTGGTAATTTTAC-AAGCCAGGGGTATTTTGGTAATTTTACAAACCAAGAGTATTTTA
*
93782334 GTAATTTTATAAATCGAG
65 GTAATTTTACAAATC-AG
93782352 GG
1 GG
93782354 TAAAACGGTA
Statistics
Matches: 138, Mismatches: 23, Indels: 6
0.83 0.14 0.04
Matches are distributed among these distances:
80 32 0.23
81 98 0.71
82 8 0.06
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (81 bp):
GGGTATTTTGGTAATTTTACAAGCCAGGGGTATTTTGGTAATTTTACAAACCAAGAGTATTTTAG
TAATTTTACAAATCAG
Found at i:93782364 original size:27 final size:27
Alignment explanation
Indices: 93782334--93782649 Score: 445
Period size: 27 Copynumber: 11.7 Consensus size: 27
93782324 GAGTATTTTA
*
93782334 GTAATTTTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
**
93782361 GTAATTCTATAAATCGAGGGTAAAATA
1 GTAATTCTATAAATCGAGGGTAAAACG
93782388 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
93782415 GTAATTCTATAAATCGAGGGTCAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
93782442 GTAATTATATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * *
93782469 GTAATT-TTTAAATCGAGTGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
93782495 GTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
93782522 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAACG
* * *
93782549 ATAATTCTGTAGATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
*
93782576 ATAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
93782603 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTAAAACG
* *
93782630 GTAATTTTACAAATCGAGGG
1 GTAATTCTATAAATCGAGGG
93782650 CATTTCAGTA
Statistics
Matches: 261, Mismatches: 27, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
26 23 0.09
27 238 0.91
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.29
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAACG
Found at i:93782544 original size:161 final size:162
Alignment explanation
Indices: 93782334--93782647 Score: 506
Period size: 161 Copynumber: 1.9 Consensus size: 162
93782324 GAGTATTTTA
*
93782334 GTAATTTTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAAT-AGTAATTCTAT
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGA-TAATTCTAT
* * *
93782398 AAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTCAAATGGTAATTATATAAATCGAGGGT
65 AAATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGGTAATTATATAAATCGAGGGT
*
93782463 AAAACGGTAATTTT-TAAATCGAGTGTAAAATG
130 AAAACGGTAATTTTACAAATCGAGTGTAAAATG
* * *
93782495 GTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATGATAATTCTGTA
1 GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGATAATTCTATA
* * *
93782560 GATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTA
66 AATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGGTAATTATATAAATCGAGGGTA
93782625 AAACGGTAATTTTACAAATCGAG
131 AAACGGTAATTTTACAAATCGAG
93782648 GGCATTTCAG
Statistics
Matches: 140, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
161 131 0.94
162 9 0.06
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.29
Consensus pattern (162 bp):
GTAATTCTATAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGATAATTCTATA
AATCGAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGGTAATTATATAAATCGAGGGTA
AAACGGTAATTTTACAAATCGAGTGTAAAATG
Found at i:93784645 original size:15 final size:15
Alignment explanation
Indices: 93784596--93784647 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
93784586 TAATGAGTGC
*
93784596 TCGTGGTACGAAAGG
1 TCGTGGTACGTAAGG
* * *
93784611 TCATGGTATGTGAGG
1 TCGTGGTACGTAAGG
93784626 TCGTGGTACGTAAGG
1 TCGTGGTACGTAAGG
*
93784641 GCGTGGT
1 TCGTGGT
93784648 GGACGTCGTA
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.19, C:0.12, G:0.42, T:0.27
Consensus pattern (15 bp):
TCGTGGTACGTAAGG
Found at i:93787753 original size:29 final size:29
Alignment explanation
Indices: 93787711--93787888 Score: 248
Period size: 29 Copynumber: 6.1 Consensus size: 29
93787701 TGTGCTAAAT
*
93787711 GATGGTCGAAATCATCCCTTTTCATATTC
1 GATGGTCGAAACCATCCCTTTTCATATTC
* *
93787740 GATGGTTGAAATCATCCCTTTTCATATTC
1 GATGGTCGAAACCATCCCTTTTCATATTC
*
93787769 GATGGTCAAAACCATCCCTTTTCATATTC
1 GATGGTCGAAACCATCCCTTTTCATATTC
** *
93787798 GATGGTCGTCACCATCCCTTTTCATATCC
1 GATGGTCGAAACCATCCCTTTTCATATTC
** * *
93787827 GATGGTCGTCACCATCCCTTTTCGTATTT
1 GATGGTCGAAACCATCCCTTTTCATATTC
*
93787856 GATGGTCGAAACTATCCCTTTTCATATTC
1 GATGGTCGAAACCATCCCTTTTCATATTC
93787885 GATG
1 GATG
93787889 AGCGTTGATA
Statistics
Matches: 133, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 133 1.00
ACGTcount: A:0.22, C:0.26, G:0.15, T:0.38
Consensus pattern (29 bp):
GATGGTCGAAACCATCCCTTTTCATATTC
Found at i:93789901 original size:24 final size:24
Alignment explanation
Indices: 93789874--93789919 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
93789864 TCCTTTACTC
*
93789874 TCCTAATCAAT-TTTTACTTCTAAT
1 TCCTAAT-AATCTTTGACTTCTAAT
93789898 TCCTAATAATCTTTGACTTCTA
1 TCCTAATAATCTTTGACTTCTA
93789920 TAACCCTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.28, C:0.22, G:0.02, T:0.48
Consensus pattern (24 bp):
TCCTAATAATCTTTGACTTCTAAT
Found at i:93793089 original size:5 final size:5
Alignment explanation
Indices: 93793079--93793273 Score: 381
Period size: 5 Copynumber: 39.0 Consensus size: 5
93793069 ATTGTGAATA
93793079 GTATT GTATT GTATT GTATT GTATT GTATT GTATT GTATT GTATT GTATT
1 GTATT GTATT GTATT GTATT GTATT GTATT GTATT GTATT GTATT GTATT
*
93793129 GTATT GTATT GTATT GTATT GTATT GTATT GTATT GTATT GTATT GTACT
1 GTATT GTATT GTATT GTATT GTATT GTATT GTATT GTATT GTATT GTATT
93793179 GTATT GTATT GTATT GTATT GTATT GTATT GTATT GTATT GTATT GTATT
1 GTATT GTATT GTATT GTATT GTATT GTATT GTATT GTATT GTATT GTATT
93793229 GTATT GTATT GTATT GTATT GTATT GTATT GTATT GTATT GTATT
1 GTATT GTATT GTATT GTATT GTATT GTATT GTATT GTATT GTATT
93793274 ATGGGTATAT
Statistics
Matches: 188, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
5 188 1.00
ACGTcount: A:0.20, C:0.01, G:0.20, T:0.59
Consensus pattern (5 bp):
GTATT
Found at i:93795686 original size:36 final size:36
Alignment explanation
Indices: 93795646--93795758 Score: 90
Period size: 36 Copynumber: 3.1 Consensus size: 36
93795636 AGAAGGGTTG
93795646 TGAAACATACTTAGCTTATGTGCATTACATGAGTAT
1 TGAAACATACTTAGCTTATGTGCATTACATGAGTAT
* * * ** * *
93795682 TGAAA-GTA-TT-GCAGTTGA-GGGCATTCAAACAATTAG
1 TGAAACATACTTAGC--TT-ATGTGCATT-ACATGAGTAT
*
93795718 GGAAACATACTTAGCTTATGTGCATTACATGAGTAT
1 TGAAACATACTTAGCTTATGTGCATTACATGAGTAT
93795754 TGAAA
1 TGAAA
93795759 GTATTGTAGT
Statistics
Matches: 53, Mismatches: 16, Indels: 16
0.62 0.19 0.19
Matches are distributed among these distances:
33 2 0.04
34 2 0.04
35 10 0.19
36 25 0.47
37 10 0.19
38 2 0.04
39 2 0.04
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.32
Consensus pattern (36 bp):
TGAAACATACTTAGCTTATGTGCATTACATGAGTAT
Found at i:93795764 original size:72 final size:72
Alignment explanation
Indices: 93795647--93795788 Score: 266
Period size: 72 Copynumber: 2.0 Consensus size: 72
93795637 GAAGGGTTGT
*
93795647 GAAACATACTTAGCTTATGTGCATTACATGAGTATTGAAAGTATTGCAGTTGAGGGCATTCAAAC
1 GAAACATACTTAGCTTATGTGCATTACATGAGTATTGAAAGTATTGCAGTTGAAGGCATTCAAAC
93795712 AATTAGG
66 AATTAGG
*
93795719 GAAACATACTTAGCTTATGTGCATTACATGAGTATTGAAAGTATTGTAGTTGAAGGCATTCAAAC
1 GAAACATACTTAGCTTATGTGCATTACATGAGTATTGAAAGTATTGCAGTTGAAGGCATTCAAAC
93795784 AATTA
66 AATTA
93795789 AGGATTTTCC
Statistics
Matches: 68, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 68 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (72 bp):
GAAACATACTTAGCTTATGTGCATTACATGAGTATTGAAAGTATTGCAGTTGAAGGCATTCAAAC
AATTAGG
Found at i:93810168 original size:24 final size:24
Alignment explanation
Indices: 93810138--93810183 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
93810128 TCAATTTTAT
93810138 AAAAATAACTAAAAATA-TATAATA
1 AAAAAT-ACTAAAAATATTATAATA
*
93810162 AAAAATAGTAAAAATATTATAA
1 AAAAATACTAAAAATATTATAA
93810184 AGTATTATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (24 bp):
AAAAATACTAAAAATATTATAATA
Found at i:93814263 original size:28 final size:28
Alignment explanation
Indices: 93814210--93814263 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
93814200 AACATTTGAT
* * *
93814210 AAGTTTAGGTACCAATTTGGACAAAAAA
1 AAGTTTAGGTACCAAATTAGAAAAAAAA
*
93814238 AAGTTTAGGTACTAAATTAGAAAAAA
1 AAGTTTAGGTACCAAATTAGAAAAAA
93814264 TTCCAAGTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.50, C:0.07, G:0.17, T:0.26
Consensus pattern (28 bp):
AAGTTTAGGTACCAAATTAGAAAAAAAA
Found at i:93822671 original size:3 final size:3
Alignment explanation
Indices: 93822663--93822691 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
93822653 TCAAAATTCT
93822663 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
93822692 TATTGTCGAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:93824488 original size:17 final size:17
Alignment explanation
Indices: 93824466--93824519 Score: 64
Period size: 17 Copynumber: 3.5 Consensus size: 17
93824456 TTCAAATGGG
93824466 TTTGATTGGGTCAGGCT
1 TTTGATTGGGTCAGGCT
*
93824483 TTTGA-T-GGTC---CC
1 TTTGATTGGGTCAGGCT
93824495 TTTGATTGGGTCAGGCT
1 TTTGATTGGGTCAGGCT
93824512 TTTGATTG
1 TTTGATTG
93824520 TGGGACCATA
Statistics
Matches: 30, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
12 6 0.20
13 1 0.03
14 4 0.13
15 4 0.13
16 1 0.03
17 14 0.47
ACGTcount: A:0.11, C:0.13, G:0.31, T:0.44
Consensus pattern (17 bp):
TTTGATTGGGTCAGGCT
Found at i:93824775 original size:25 final size:25
Alignment explanation
Indices: 93824744--93824804 Score: 113
Period size: 25 Copynumber: 2.4 Consensus size: 25
93824734 TGACTCCTAT
93824744 TTTCAGTTAAATTTGAGAAATAATC
1 TTTCAGTTAAATTTGAGAAATAATC
*
93824769 TTTCAGTTCAATTTGAGAAATAATC
1 TTTCAGTTAAATTTGAGAAATAATC
93824794 TTTCAGTTAAA
1 TTTCAGTTAAA
93824805 CTGTGTTTAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.38, C:0.10, G:0.11, T:0.41
Consensus pattern (25 bp):
TTTCAGTTAAATTTGAGAAATAATC
Found at i:93832474 original size:21 final size:21
Alignment explanation
Indices: 93832448--93832489 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
93832438 CTCAATTGCA
93832448 GGTATGTATTATATCTATAAC
1 GGTATGTATTATATCTATAAC
93832469 GGTATGTATTATATCTATAAC
1 GGTATGTATTATATCTATAAC
93832490 CCAGTCTTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (21 bp):
GGTATGTATTATATCTATAAC
Found at i:93835339 original size:18 final size:19
Alignment explanation
Indices: 93835306--93835341 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
93835296 TTTTTTACTA
93835306 TAAACATTATTTATATATG
1 TAAACATTATTTATATATG
*
93835325 TAAAGATTA-TTATATAT
1 TAAACATTATTTATATAT
93835342 TATATCATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (19 bp):
TAAACATTATTTATATATG
Found at i:93835354 original size:20 final size:19
Alignment explanation
Indices: 93835331--93835369 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
93835321 TATGTAAAGA
93835331 TTATTATATATTATATCATT
1 TTATTATATATTAT-TCATT
*
93835351 TTATTATTTATTATTCATT
1 TTATTATATATTATTCATT
93835370 AATTATGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (19 bp):
TTATTATATATTATTCATT
Found at i:93841112 original size:20 final size:19
Alignment explanation
Indices: 93841089--93841148 Score: 50
Period size: 20 Copynumber: 3.1 Consensus size: 19
93841079 CATATTCATG
*
93841089 TTTTTTACTATATTATATTA
1 TTTTATACTATATTATA-TA
* *
93841109 TTTTATATTCTATTATATA
1 TTTTATACTATATTATATA
* *
93841128 -TTTATATTATTATTACATA
1 TTTTATACTA-TATTATATA
93841147 TT
1 TT
93841149 ATTTATTATG
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
18 8 0.24
19 10 0.30
20 15 0.45
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTTATACTATATTATATA
Found at i:93841134 original size:8 final size:8
Alignment explanation
Indices: 93841121--93841266 Score: 61
Period size: 8 Copynumber: 19.5 Consensus size: 8
93841111 TTATATTCTA
93841121 TTATATAT
1 TTATATAT
93841129 TTATAT-T
1 TTATATAT
*
93841136 ATTAT-TAC
1 -TTATATAT
*
93841144 ATAT-TAT
1 TTATATAT
93841151 TTAT-TAT
1 TTATATAT
*
93841158 GTAT-TAT
1 TTATATAT
93841165 TTATATA-
1 TTATATAT
93841172 -TATATA-
1 TTATATAT
93841178 TTAT-TAT
1 TTATATAT
93841185 TT-T-TA-
1 TTATATAT
93841190 TTAT-TAT
1 TTATATAT
*
93841197 TTTTATAT
1 TTATATAT
*
93841205 TTAAATA-
1 TTATATAT
*
93841212 TTAAATCGAT
1 TTATAT--AT
*
93841222 GTTATACAT
1 -TTATATAT
93841231 TT-TATTAT
1 TTATA-TAT
*
93841239 TTATTTAT
1 TTATATAT
93841247 TTATATAT
1 TTATATAT
*
93841255 TTTTATAT
1 TTATATAT
93841263 TTAT
1 TTAT
93841267 CTTTTTAAAA
Statistics
Matches: 108, Mismatches: 16, Indels: 28
0.71 0.11 0.18
Matches are distributed among these distances:
5 2 0.02
6 14 0.13
7 38 0.35
8 46 0.43
9 4 0.04
11 4 0.04
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (8 bp):
TTATATAT
Found at i:93841140 original size:3 final size:3
Alignment explanation
Indices: 93841099--93841202 Score: 58
Period size: 3 Copynumber: 34.0 Consensus size: 3
93841089 TTTTTTACTA
*
93841099 TAT TA- TAT TAT T-T TA- TAT T-C TAT TAT ATAT T-T ATAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT -TAT TAT TAT
* *
93841141 TACA TAT TATT TAT TAT GTAT TAT T-T ATAT ATAT ATAT TAT TAT TTT
1 TA-T TAT TA-T TAT TAT -TAT TAT TAT -TAT -TAT -TAT TAT TAT TAT
*
93841188 TAT TAT TAT TTT TAT
1 TAT TAT TAT TAT TAT
93841203 ATTTAAATAT
Statistics
Matches: 81, Mismatches: 8, Indels: 24
0.72 0.07 0.21
Matches are distributed among these distances:
2 9 0.11
3 51 0.63
4 21 0.26
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:93841156 original size:14 final size:14
Alignment explanation
Indices: 93841131--93841168 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
93841121 TTATATATTT
93841131 ATATTA-TTATTAC
1 ATATTATTTATTAC
*
93841144 ATATTATTTATTAT
1 ATATTATTTATTAC
*
93841158 GTATTATTTAT
1 ATATTATTTAT
93841169 ATATATATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 6 0.27
14 16 0.73
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (14 bp):
ATATTATTTATTAC
Found at i:93841166 original size:36 final size:34
Alignment explanation
Indices: 93841119--93841215 Score: 108
Period size: 36 Copynumber: 2.7 Consensus size: 34
93841109 TTTTATATTC
93841119 TATTATATATTTATATTAT-TATTACATATTATTTAT
1 TATTAT-TATTTATATTATATATTA-ATATT-TTTAT
*
93841155 TATGTATTATTTATATATATATATTATTATTTTTAT
1 TAT-TATTATTTATAT-TATATATTAATATTTTTAT
*
93841191 TATTATT-TTTATATTTAAATATTAA
1 TATTATTATTTATA-TTATATATTAA
93841216 ATCGATGTTA
Statistics
Matches: 54, Mismatches: 3, Indels: 10
0.81 0.04 0.15
Matches are distributed among these distances:
34 14 0.26
35 5 0.09
36 20 0.37
37 10 0.19
38 5 0.09
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (34 bp):
TATTATTATTTATATTATATATTAATATTTTTAT
Found at i:93847057 original size:86 final size:85
Alignment explanation
Indices: 93846967--93847421 Score: 259
Period size: 87 Copynumber: 5.2 Consensus size: 85
93846957 ATGTGTTTAT
*
93846967 ACTGAAACAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAACAGATACATAGCAG
1 ACTGAAACAGATCCAAGATAA-AGATCTGGCATCTCTATTTCGACGGAGAACAGATACATAGCAG
93847032 ATCTAACCTTCAGATGATTTC
65 ATCTAACCTTCAGATGATTTC
* * * * * * *
93847053 ACTGAAGCAGATCCAAGAT---GATTTGGCATCCTTGTGTTTAC-AAGGA-ACAAATCGAAGACA
1 ACTGAAACAGATCCAAGATAAAGATCTGGCAT-C-TCTATTT-CGACGGAGA-ACA--G-ATACA
* * * * * *
93847113 TAACAGATTTGACTTTCGGATG-TTCCC
59 TAGCAGATCTAACCTTCAGATGATT-TC
** * * *
93847140 ACACCAAAGCAGATCCAAGATAACAGATCTAGCATCTCCATTTCGACGTAGAACAGATACATAGC
1 AC-TGAAA-CAGATCCAAGATAA-AGATCTGGCATCTCTATTTCGACGGAGAACAGATACATAGC
93847205 AGATCTAACCTTCAGATGATTTC
63 AGATCTAACCTTCAGATGATTTC
* * * * * * * *
93847228 ACTGAAGCAGATACAAGAT---GATTTGGCATCTTTGTGTTTAC-AAGGA-ACAAATCGAAGACA
1 ACTGAAACAGATCCAAGATAAAGATCTGGCATC--TCTATTT-CGACGGAGA-ACA--G-ATACA
* * * * *
93847288 TAGCAGATTTGACTTTCGGATG-TTCCC
59 TAGCAGATCTAACCTTCAGATGATT-TC
** * * * *
93847315 ACACCAAAGTAGATCCAAGATAATAGATCTGGCATCTCTATTTCGACGAAGAGCAGATCCATAGC
1 AC-TGAAA-CAGATCCAAGATAA-AGATCTGGCATCTCTATTTCGACGGAGAACAGATACATAGC
93847380 AGATCTAACCTTCAGATGATTTC
63 AGATCTAACCTTCAGATGATTTC
* *
93847403 ACTGAAGCAAATCCAAGAT
1 ACTGAAACAGATCCAAGAT
93847422 GATTTGGCAT
Statistics
Matches: 261, Mismatches: 74, Indels: 68
0.65 0.18 0.17
Matches are distributed among these distances:
82 18 0.07
83 3 0.01
84 19 0.07
85 2 0.01
86 45 0.17
87 53 0.20
88 52 0.20
89 28 0.11
90 2 0.01
91 18 0.07
92 3 0.01
93 18 0.07
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (85 bp):
ACTGAAACAGATCCAAGATAAAGATCTGGCATCTCTATTTCGACGGAGAACAGATACATAGCAGA
TCTAACCTTCAGATGATTTC
Found at i:93847265 original size:175 final size:175
Alignment explanation
Indices: 93846974--93847479 Score: 859
Period size: 175 Copynumber: 2.9 Consensus size: 175
93846964 TATACTGAAA
*
93846974 CAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGGAGAACAGATACATAGCAGATCTAAC
1 CAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGAAGAACAGATACATAGCAGATCTAAC
93847039 CTTCAGATGATTTCACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAA
66 CTTCAGATGATTTCACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAA
*
93847104 TCGAAGACATAACAGATTTGACTTTCGGATGTTCCCACACCAAAG
131 TCGAAGACATAGCAGATTTGACTTTCGGATGTTCCCACACCAAAG
* *
93847149 CAGATCCAAGATAACAGATCTAGCATCTCCATTTCGACGTAGAACAGATACATAGCAGATCTAAC
1 CAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGAAGAACAGATACATAGCAGATCTAAC
* *
93847214 CTTCAGATGATTTCACTGAAGCAGATACAAGATGATTTGGCATCTTTGTGTTTACAAGGAACAAA
66 CTTCAGATGATTTCACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAA
93847279 TCGAAGACATAGCAGATTTGACTTTCGGATGTTCCCACACCAAAG
131 TCGAAGACATAGCAGATTTGACTTTCGGATGTTCCCACACCAAAG
* * * * *
93847324 TAGATCCAAGATAATAGATCTGGCATCTCTATTTCGACGAAGAGCAGATCCATAGCAGATCTAAC
1 CAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGAAGAACAGATACATAGCAGATCTAAC
* * * *
93847389 CTTCAGATGATTTCACTGAAGCAAATCCAAGATGATTTGGCATCCTTGTCTTCACAAGGAGCAAA
66 CTTCAGATGATTTCACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAA
* *
93847454 TCGAAGACACAGCAGATTTGGCTTTC
131 TCGAAGACATAGCAGATTTGACTTTC
93847480 ACGTGTTTAC
Statistics
Matches: 311, Mismatches: 20, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
175 311 1.00
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.25
Consensus pattern (175 bp):
CAGATCCAAGATAACAGATCTGGCATCTCCATTTCGACGAAGAACAGATACATAGCAGATCTAAC
CTTCAGATGATTTCACTGAAGCAGATCCAAGATGATTTGGCATCCTTGTGTTTACAAGGAACAAA
TCGAAGACATAGCAGATTTGACTTTCGGATGTTCCCACACCAAAG
Found at i:93849390 original size:22 final size:24
Alignment explanation
Indices: 93849362--93849462 Score: 77
Period size: 24 Copynumber: 4.1 Consensus size: 24
93849352 ATTCATGTTT
93849362 TTACTATATTATATTATTTTA-TA
1 TTACTATATTATATTATTTTATTA
*
93849385 TT-CTAT-TATATATTTATATTATTA
1 TTACTATAT-TATA-TTATTTTATTA
93849409 TTAC-ATATTAT-TTATTATGTATTA
1 TTACTATATTATATTATT-T-TATTA
**
93849433 TTTTTATATATATTATTATTTATATTA
1 TTACTATAT-TA-TATTATTT-TATTA
93849460 TTA
1 TTA
93849463 TTTTTATATT
Statistics
Matches: 61, Mismatches: 6, Indels: 18
0.72 0.07 0.21
Matches are distributed among these distances:
21 1 0.02
22 12 0.20
23 10 0.16
24 16 0.26
25 6 0.10
26 2 0.03
27 9 0.15
28 5 0.08
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (24 bp):
TTACTATATTATATTATTTTATTA
Found at i:93849393 original size:20 final size:18
Alignment explanation
Indices: 93849368--93849458 Score: 57
Period size: 16 Copynumber: 4.9 Consensus size: 18
93849358 GTTTTTACTA
93849368 TATTATATTATTTTATATTC
1 TATTATA-TA-TTTATATTC
*
93849388 TATTATATATTTATATTAT
1 TATTATATATTTATATT-C
*
93849407 TATTACATATTATTTAT-TATG
1 TATT--ATA-TATTTATAT-TC
*
93849428 TATTAT-T-TTTATA-TA
1 TATTATATATTTATATTC
93849443 TATTAT-TATTTATATT
1 TATTATATATTTATATT
93849459 ATTATTTTTA
Statistics
Matches: 60, Mismatches: 3, Indels: 19
0.73 0.04 0.23
Matches are distributed among these distances:
15 8 0.13
16 11 0.18
17 2 0.03
18 8 0.13
19 8 0.13
20 7 0.12
21 8 0.13
22 8 0.13
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (18 bp):
TATTATATATTTATATTC
Found at i:93849409 original size:3 final size:3
Alignment explanation
Indices: 93849368--93849469 Score: 56
Period size: 3 Copynumber: 34.0 Consensus size: 3
93849358 GTTTTTACTA
*
93849368 TAT TA- TAT TAT T-T TA- TAT T-C TAT TAT ATAT T-T ATAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT -TAT TAT TAT
* *
93849410 TACA TAT TATT TAT TAT GTAT TAT TTT TA- TAT ATAT TAT TAT T-T ATAT
1 TA-T TAT TA-T TAT TAT -TAT TAT TAT TAT TAT -TAT TAT TAT TAT -TAT
*
93849458 TAT TAT TTT TAT
1 TAT TAT TAT TAT
93849470 ATTTAAATAT
Statistics
Matches: 77, Mismatches: 8, Indels: 28
0.68 0.07 0.25
Matches are distributed among these distances:
2 11 0.14
3 50 0.65
4 16 0.21
ACGTcount: A:0.32, C:0.02, G:0.01, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:93849830 original size:28 final size:26
Alignment explanation
Indices: 93849766--93849829 Score: 119
Period size: 26 Copynumber: 2.4 Consensus size: 26
93849756 TAATTTGATG
93849766 ATTGTATTTTTTGTATATTGATACTAT
1 ATTGT-TTTTTTGTATATTGATACTAT
93849793 ATTGTTTTTTTGTATATTGATACTAT
1 ATTGTTTTTTTGTATATTGATACTAT
93849819 ATTGTTTTTTT
1 ATTGTTTTTTT
93849830 TTGTTGTTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 32 0.86
27 5 0.14
ACGTcount: A:0.22, C:0.03, G:0.11, T:0.64
Consensus pattern (26 bp):
ATTGTTTTTTTGTATATTGATACTAT
Found at i:93852806 original size:21 final size:18
Alignment explanation
Indices: 93852764--93852798 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
93852754 TTTAACAAAT
93852764 CACTTCTCTTTTACATAC
1 CACTTCTCTTTTACATAC
93852782 CACTTCTCTTTTACATA
1 CACTTCTCTTTTACATA
93852799 TCACCACTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.23, C:0.31, G:0.00, T:0.46
Consensus pattern (18 bp):
CACTTCTCTTTTACATAC
Found at i:93853333 original size:26 final size:26
Alignment explanation
Indices: 93853304--93853355 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
93853294 GATTAATAAG
93853304 ATTGATTGTTTTGGATTTTACTCAAC
1 ATTGATTGTTTTGGATTTTACTCAAC
93853330 ATTGATTGTTTTGGATTTTACTCAAC
1 ATTGATTGTTTTGGATTTTACTCAAC
93853356 TTTCTCATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.23, C:0.12, G:0.15, T:0.50
Consensus pattern (26 bp):
ATTGATTGTTTTGGATTTTACTCAAC
Found at i:93857166 original size:21 final size:21
Alignment explanation
Indices: 93857140--93857187 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
93857130 TTGTCGACTC
93857140 TAGTCCCAAAATTAGGAAACT
1 TAGTCCCAAAATTAGGAAACT
93857161 TAGTCCCAAAATTAGGAAACT
1 TAGTCCCAAAATTAGGAAACT
93857182 TAGTCC
1 TAGTCC
93857188 TAAACTTGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.40, C:0.21, G:0.15, T:0.25
Consensus pattern (21 bp):
TAGTCCCAAAATTAGGAAACT
Found at i:93862447 original size:33 final size:32
Alignment explanation
Indices: 93862384--93862447 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 32
93862374 AAAACCAAAC
* * *
93862384 ATTTAATCTAATTAACAGAAACTATGCAAAAT
1 ATTTAAACTAATTAACAAAAACTATACAAAAT
93862416 ATTTAAACTAATTAACTAAAAACTCA-ACAAAA
1 ATTTAAACTAATTAAC-AAAAACT-ATACAAAA
93862448 CCCAAAACCA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
32 15 0.56
33 11 0.41
34 1 0.04
ACGTcount: A:0.55, C:0.14, G:0.03, T:0.28
Consensus pattern (32 bp):
ATTTAAACTAATTAACAAAAACTATACAAAAT
Found at i:93867061 original size:5 final size:5
Alignment explanation
Indices: 93867051--93867082 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
93867041 TTGTGTGTTC
93867051 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
93867083 TAGTAAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:93867065 original size:9 final size:9
Alignment explanation
Indices: 93867051--93867081 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
93867041 TTGTGTGTTC
93867051 TTTATTTTA
1 TTTATTTTA
93867060 TTTATTTTA
1 TTTATTTTA
93867069 TTTTATTTTA
1 -TTTATTTTA
93867079 TTT
1 TTT
93867082 TTAGTAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:93874198 original size:12 final size:12
Alignment explanation
Indices: 93874181--93874205 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
93874171 TTGGTTAACT
93874181 TTCTAGAAATTC
1 TTCTAGAAATTC
93874193 TTCTAGAAATTC
1 TTCTAGAAATTC
93874205 T
1 T
93874206 ATCACGTATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.16, G:0.08, T:0.44
Consensus pattern (12 bp):
TTCTAGAAATTC
Found at i:93876463 original size:13 final size:12
Alignment explanation
Indices: 93876433--93876461 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
93876423 TCCCCTACCA
93876433 TTTTTTCCTTCT
1 TTTTTTCCTTCT
93876445 TTTTTTCCTT-T
1 TTTTTTCCTTCT
93876456 TTTTTT
1 TTTTTT
93876462 TTTTGTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 7 0.41
12 10 0.59
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (12 bp):
TTTTTTCCTTCT
Found at i:93880613 original size:18 final size:19
Alignment explanation
Indices: 93880583--93880618 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
93880573 TACAAAATAA
*
93880583 TTCAAAATAATTTTTAAAT
1 TTCAAAATAATTTATAAAT
93880602 TTCAAAAT-ATTTATAAA
1 TTCAAAATAATTTATAAA
93880619 AATTCTAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (19 bp):
TTCAAAATAATTTATAAAT
Found at i:93880914 original size:26 final size:25
Alignment explanation
Indices: 93880885--93880936 Score: 59
Period size: 26 Copynumber: 2.0 Consensus size: 25
93880875 ATTTCACTCG
* * *
93880885 ATTTTATTTGATTCGACTCGACTTAA
1 ATTTCATTTGACTCAACTCGA-TTAA
*
93880911 ATTTCATTTTACTCAACTCGATTAA
1 ATTTCATTTGACTCAACTCGATTAA
93880936 A
1 A
93880937 AAAATTTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
25 5 0.23
26 17 0.77
ACGTcount: A:0.31, C:0.17, G:0.08, T:0.44
Consensus pattern (25 bp):
ATTTCATTTGACTCAACTCGATTAA
Found at i:93889923 original size:6 final size:6
Alignment explanation
Indices: 93889902--93889935 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
93889892 AGGTTTCAAA
* *
93889902 AAATGG AAACGG AAATGA AAATGG AAATGG AAAT
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAAT
93889936 AATCCATTTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.56, C:0.03, G:0.26, T:0.15
Consensus pattern (6 bp):
AAATGG
Found at i:93889924 original size:18 final size:18
Alignment explanation
Indices: 93889901--93889935 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
93889891 TAGGTTTCAA
93889901 AAAATGGAAACGGAAATG
1 AAAATGGAAACGGAAATG
*
93889919 AAAATGGAAATGGAAAT
1 AAAATGGAAACGGAAAT
93889936 AATCCATTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.57, C:0.03, G:0.26, T:0.14
Consensus pattern (18 bp):
AAAATGGAAACGGAAATG
Found at i:93890128 original size:26 final size:25
Alignment explanation
Indices: 93890084--93890155 Score: 81
Period size: 26 Copynumber: 2.8 Consensus size: 25
93890074 TATTTTCTCG
*
93890084 AAATTTTCTAGGGGAAAAATCATCA
1 AAATTTTCTAGGGGTAAAATCATCA
* **
93890109 AAATTTTACTAGAGGTAAAATTGTCA
1 AAATTTT-CTAGGGGTAAAATCATCA
*
93890135 AATTTTTGCTAGGGGTAAAAT
1 AAATTTT-CTAGGGGTAAAAT
93890156 AGGGATGAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
25 7 0.18
26 32 0.82
ACGTcount: A:0.40, C:0.08, G:0.18, T:0.33
Consensus pattern (25 bp):
AAATTTTCTAGGGGTAAAATCATCA
Found at i:93891765 original size:27 final size:27
Alignment explanation
Indices: 93891714--93891766 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
93891704 TACTAGTTTC
* *
93891714 TTTTATAGTAAAATTGTCGTCACTTTA
1 TTTTATAGTAAAATCGTCATCACTTTA
*
93891741 TTTTATAGTAAAATCGTCATTACTTT
1 TTTTATAGTAAAATCGTCATCACTTT
93891767 GATGGAATTA
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:0.30, C:0.11, G:0.09, T:0.49
Consensus pattern (27 bp):
TTTTATAGTAAAATCGTCATCACTTTA
Found at i:93892205 original size:22 final size:21
Alignment explanation
Indices: 93892155--93892206 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
93892145 GTCAAAAAGT
*
93892155 ATAAAATTTTATTTTCTTAGA
1 ATAAAATTTTATTTTCTTAAA
*
93892176 ATTAAATTTTATTTT-TTGAAA
1 ATAAAATTTTATTTTCTT-AAA
93892197 ATAATAATTT
1 ATAA-AATTT
93892207 CTACCTGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 2 0.08
21 19 0.73
22 5 0.19
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (21 bp):
ATAAAATTTTATTTTCTTAAA
Found at i:93901602 original size:46 final size:46
Alignment explanation
Indices: 93901535--93901626 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
93901525 GGAGAGTATG
93901535 TATCTCCATAATTAGTTTTGAGCTTTGTGAAAATTCTTTTGCTACA
1 TATCTCCATAATTAGTTTTGAGCTTTGTGAAAATTCTTTTGCTACA
93901581 TATCTCCATAATTAGTTTTGAGCTTTGTGAAAATTCTTTTGCTACA
1 TATCTCCATAATTAGTTTTGAGCTTTGTGAAAATTCTTTTGCTACA
93901627 AGTCGTGCTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.26, C:0.15, G:0.13, T:0.46
Consensus pattern (46 bp):
TATCTCCATAATTAGTTTTGAGCTTTGTGAAAATTCTTTTGCTACA
Found at i:93902889 original size:20 final size:20
Alignment explanation
Indices: 93902847--93902887 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
93902837 TACAACATAA
*
93902847 TTCAATTTCATATTGAATAT
1 TTCAATTTCATATTCAATAT
*
93902867 TTCAATTT-TTATTCAATAT
1 TTCAATTTCATATTCAATAT
93902886 TT
1 TT
93902888 TCCTAAATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.32, C:0.10, G:0.02, T:0.56
Consensus pattern (20 bp):
TTCAATTTCATATTCAATAT
Found at i:93903679 original size:13 final size:13
Alignment explanation
Indices: 93903661--93903685 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
93903651 AACTAGCTTC
93903661 ATAAATATTTTTA
1 ATAAATATTTTTA
93903674 ATAAATATTTTT
1 ATAAATATTTTT
93903686 GAGTCCGATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
ATAAATATTTTTA
Found at i:93906880 original size:17 final size:17
Alignment explanation
Indices: 93906858--93906890 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
93906848 TCTCACTTTA
93906858 TAAGTGAATTTAGGGAG
1 TAAGTGAATTTAGGGAG
93906875 TAAGTGAATTTAGGGA
1 TAAGTGAATTTAGGGA
93906891 TGGTTTTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.00, G:0.33, T:0.30
Consensus pattern (17 bp):
TAAGTGAATTTAGGGAG
Found at i:93912614 original size:57 final size:57
Alignment explanation
Indices: 93912536--93912651 Score: 187
Period size: 57 Copynumber: 2.0 Consensus size: 57
93912526 TCTAAACAAC
* *
93912536 ATAAATTTAACTTTAAAAAAAATTTAATTTCATTGTTTGAGACCTTTCTTAGAAGAG
1 ATAAATTTAACTTTAAAAAAAAATCAATTTCATTGTTTGAGACCTTTCTTAGAAGAG
* * *
93912593 ATAAGTTTAACTTTGAAAAAAAATCAATTTCATTGTTTGAGACTTTTCTTAGAAGAG
1 ATAAATTTAACTTTAAAAAAAAATCAATTTCATTGTTTGAGACCTTTCTTAGAAGAG
93912650 AT
1 AT
93912652 TTGAAAAGTA
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
57 54 1.00
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.40
Consensus pattern (57 bp):
ATAAATTTAACTTTAAAAAAAAATCAATTTCATTGTTTGAGACCTTTCTTAGAAGAG
Found at i:93915603 original size:24 final size:24
Alignment explanation
Indices: 93915575--93915626 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
93915565 TTTCTAGAAG
* *
93915575 ATTTAGTATTTATGAATATAATAT
1 ATTTAGCATTTATGAACATAATAT
* *
93915599 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATGAACATAATAT
93915623 ATTT
1 ATTT
93915627 GACTTTGATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.04, G:0.08, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATGAACATAATAT
Found at i:93916128 original size:26 final size:26
Alignment explanation
Indices: 93916099--93916206 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
93916089 TGGTACAAAT
93916099 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
93916125 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
93916151 TGATAACGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
93916177 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
93916203 TGAT
1 TGAT
93916207 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:93917846 original size:27 final size:27
Alignment explanation
Indices: 93917806--93917946 Score: 148
Period size: 27 Copynumber: 5.2 Consensus size: 27
93917796 AGGAAGCGTC
*
93917806 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
93917833 CTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
* *
93917859 CCTAGTGGCTAC-GCCACGATTATCTGAT
1 -CTGGTGGCT-CTGCCACAATTATCTGAT
* *
93917887 CTGGTGGCTCTGCCA-TATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
93917914 CTGGTGGCTCTGCCACAA-TATCTATAT
1 CTGGTGGCTCTGCCACAATTATCT-GAT
93917941 CTGGTG
1 CTGGTG
93917947 ACTTCGTCAC
Statistics
Matches: 97, Mismatches: 8, Indels: 18
0.79 0.07 0.15
Matches are distributed among these distances:
26 11 0.11
27 81 0.84
28 5 0.05
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:93917885 original size:54 final size:54
Alignment explanation
Indices: 93917803--93917946 Score: 202
Period size: 54 Copynumber: 2.7 Consensus size: 54
93917793 TGGAGGAAGC
*
93917803 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTACGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* * *
93917857 GTCCTAGTGGCTACGCCACGATTATCTGATCTGGTGGCTCTGCCATATATATCT
1 GTCCTGGTGGCTACGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* *
93917911 GTTCTGGTGGCT-CTGCCACAA-TATCTATATCTGGTG
1 GTCCTGGTGGCTAC-GCCACAATTATCT-GATCTGGTG
93917947 ACTTCGTCAC
Statistics
Matches: 80, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
53 6 0.08
54 74 0.93
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.34
Consensus pattern (54 bp):
GTCCTGGTGGCTACGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:93924460 original size:19 final size:19
Alignment explanation
Indices: 93924438--93924474 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
93924428 TTTGATAATT
93924438 TAATTTAATTTTTTATTTG
1 TAATTTAATTTTTTATTTG
93924457 TAATTTAATTTTTTATTT
1 TAATTTAATTTTTTATTT
93924475 AATAAAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (19 bp):
TAATTTAATTTTTTATTTG
Found at i:93933579 original size:17 final size:18
Alignment explanation
Indices: 93933557--93933590 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
93933547 AAACATGTCA
93933557 AATTATC-TCTAAAAATG
1 AATTATCATCTAAAAATG
*
93933574 AATTATCATCTATAAAT
1 AATTATCATCTAAAAAT
93933591 ACTAAAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.47, C:0.12, G:0.03, T:0.38
Consensus pattern (18 bp):
AATTATCATCTAAAAATG
Found at i:93937685 original size:41 final size:41
Alignment explanation
Indices: 93937639--93937720 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
93937629 TTGTTGACTT
* *
93937639 CATTTTATTAGGTTAAAGAATAAACAAATAAATTTAAATTA
1 CATTTTATTAGGTTAAAAAATAAACAAACAAATTTAAATTA
93937680 CATTTTATTAGGTTAAAAAATAAACAAACAAATTTAAATTA
1 CATTTTATTAGGTTAAAAAATAAACAAACAAATTTAAATTA
93937721 TTTCCATCTA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.35
Consensus pattern (41 bp):
CATTTTATTAGGTTAAAAAATAAACAAACAAATTTAAATTA
Found at i:93937737 original size:41 final size:40
Alignment explanation
Indices: 93937640--93937747 Score: 119
Period size: 41 Copynumber: 2.6 Consensus size: 40
93937630 TGTTGACTTC
* * * *
93937640 ATTTTATTAGGTTAAAGAATAAACAAATAAATTTAAATTA
1 ATTTCATTAGATTAAAAAATAAACAAACAAATTTAAATTA
* *
93937680 CATTTTATTAGGTTAAAAAATAAACAAACAAATTTAAATT-
1 -ATTTCATTAGATTAAAAAATAAACAAACAAATTTAAATTA
93937720 ATTTCCATCTAGATTAAAAAAATAAACA
1 ATTT-CAT-TAGATT-AAAAAATAAACA
93937748 TACTTGGGAA
Statistics
Matches: 60, Mismatches: 4, Indels: 5
0.87 0.06 0.07
Matches are distributed among these distances:
39 4 0.07
40 2 0.03
41 42 0.70
42 12 0.20
ACGTcount: A:0.53, C:0.07, G:0.06, T:0.34
Consensus pattern (40 bp):
ATTTCATTAGATTAAAAAATAAACAAACAAATTTAAATTA
Found at i:93939233 original size:25 final size:25
Alignment explanation
Indices: 93939204--93939254 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
93939194 ATTCTACCAC
93939204 AGTGTTAGTAAAAACCTTACTTTCA
1 AGTGTTAGTAAAAACCTTACTTTCA
*
93939229 AGTGTTAGTAAAAATCTTACTTTCA
1 AGTGTTAGTAAAAACCTTACTTTCA
93939254 A
1 A
93939255 AACTGAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (25 bp):
AGTGTTAGTAAAAACCTTACTTTCA
Found at i:93944530 original size:14 final size:16
Alignment explanation
Indices: 93944505--93944536 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
93944495 AAAAGACAAC
93944505 AATTTCACACA-TATA
1 AATTTCACACATTATA
93944520 AATTT-ACACATTATA
1 AATTTCACACATTATA
93944535 AA
1 AA
93944537 CATAGAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (16 bp):
AATTTCACACATTATA
Found at i:93953990 original size:26 final size:26
Alignment explanation
Indices: 93953961--93954017 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
93953951 ATCCTCTCTC
* *
93953961 GAGCCATTGAA-CACGAAACTCGCAAA
1 GAGCCATT-AATCAAGAAACTCACAAA
*
93953987 GAGCCATTAATCAAGAAGCTCACAAA
1 GAGCCATTAATCAAGAAACTCACAAA
93954013 GAGCC
1 GAGCC
93954018 TTTCAGAAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 2 0.07
26 25 0.93
ACGTcount: A:0.42, C:0.26, G:0.19, T:0.12
Consensus pattern (26 bp):
GAGCCATTAATCAAGAAACTCACAAA
Found at i:93964031 original size:13 final size:13
Alignment explanation
Indices: 93964010--93964043 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
93964000 CCAAACGTTA
93964010 AAATTTTCGAACG
1 AAATTTTCGAACG
*
93964023 AATTTTTCGAACG
1 AAATTTTCGAACG
93964036 AAATTTTC
1 AAATTTTC
93964044 AATAAACCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (13 bp):
AAATTTTCGAACG
Found at i:93966232 original size:22 final size:22
Alignment explanation
Indices: 93966207--93966255 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
93966197 TTTTAATATT
*
93966207 ATTTT-CTCCCTATTTTGCTACC
1 ATTTTACT-CCTATGTTGCTACC
* *
93966229 ATTTTACTCTTATGTTGCTACT
1 ATTTTACTCCTATGTTGCTACC
93966251 ATTTT
1 ATTTT
93966256 GTTGTTATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 21 0.91
23 2 0.09
ACGTcount: A:0.16, C:0.22, G:0.06, T:0.55
Consensus pattern (22 bp):
ATTTTACTCCTATGTTGCTACC
Found at i:93966326 original size:30 final size:30
Alignment explanation
Indices: 93966292--93966354 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
93966282 ACTTATTTTA
*
93966292 TTGTTAATTTTGTTATTATTTTAAAGATAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
*
93966322 TTGTTAATTTTGTTATTATTTTAGAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
93966352 TTG
1 TTG
93966355 CTTGTTAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.27, C:0.02, G:0.13, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:93966761 original size:26 final size:25
Alignment explanation
Indices: 93966693--93966768 Score: 80
Period size: 26 Copynumber: 2.9 Consensus size: 25
93966683 ATATATTTTC
*
93966693 TCAAAATTTTAGTAGGGGCAAAATCG
1 TCAAAATTTT-GTAGGGGTAAAATCG
*** *
93966719 TCAAAATCTTACCAGGGGTAAATTCG
1 TCAAAAT-TTTGTAGGGGTAAAATCG
93966745 TCAAAATTTTGTTAGGGGTAAAAT
1 TCAAAATTTTG-TAGGGGTAAAAT
93966769 AGACATGAGA
Statistics
Matches: 39, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
25 2 0.05
26 35 0.90
27 2 0.05
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.30
Consensus pattern (25 bp):
TCAAAATTTTGTAGGGGTAAAATCG
Found at i:93971573 original size:25 final size:26
Alignment explanation
Indices: 93971532--93971580 Score: 91
Period size: 25 Copynumber: 1.9 Consensus size: 26
93971522 CCTCATCCCT
93971532 ATTTTACCTCTAGTAAAATTTTGACG
1 ATTTTACCTCTAGTAAAATTTTGACG
93971558 ATTTTACC-CTAGTAAAATTTTGA
1 ATTTTACCTCTAGTAAAATTTTGA
93971581 GAAAGTATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 15 0.65
26 8 0.35
ACGTcount: A:0.33, C:0.14, G:0.10, T:0.43
Consensus pattern (26 bp):
ATTTTACCTCTAGTAAAATTTTGACG
Found at i:93971989 original size:28 final size:28
Alignment explanation
Indices: 93971957--93972010 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
93971947 TTGGATTTTT
93971957 GCATATTAATTATAAACTCATTTAGTGA
1 GCATATTAATTATAAACTCATTTAGTGA
93971985 GCATATTAATTATAAACTCATTTAGT
1 GCATATTAATTATAAACTCATTTAGT
93972011 CACGAAGTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.39, C:0.11, G:0.09, T:0.41
Consensus pattern (28 bp):
GCATATTAATTATAAACTCATTTAGTGA
Found at i:93974323 original size:18 final size:18
Alignment explanation
Indices: 93974302--93974364 Score: 56
Period size: 18 Copynumber: 3.3 Consensus size: 18
93974292 CTATTTTGTC
93974302 TTTCATTTATTATTTTCT
1 TTTCATTTATTATTTTCT
* *
93974320 TTTCACATTT-TTGGCTTTTTCC
1 TTT--CATTTATT---ATTTTCT
93974342 TTTCATTTATTATTTTCT
1 TTTCATTTATTATTTTCT
93974360 TTTCA
1 TTTCA
93974365 CATTTTTGGC
Statistics
Matches: 35, Mismatches: 4, Indels: 12
0.69 0.08 0.24
Matches are distributed among these distances:
18 13 0.37
19 2 0.06
20 10 0.29
21 2 0.06
22 8 0.23
ACGTcount: A:0.14, C:0.16, G:0.03, T:0.67
Consensus pattern (18 bp):
TTTCATTTATTATTTTCT
Found at i:93974340 original size:22 final size:22
Alignment explanation
Indices: 93974314--93974379 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 22
93974304 TCATTTATTA
93974314 TTTTCTTTTCACATTTTTGGCT
1 TTTTCTTTTCACATTTTTGGCT
* *
93974336 TTTTCCTTT--CATTTATT---A
1 TTTTCTTTTCACATTT-TTGGCT
93974354 TTTTCTTTTCACATTTTTGGCT
1 TTTTCTTTTCACATTTTTGGCT
93974376 TTTT
1 TTTT
93974380 TACTCCAATA
Statistics
Matches: 34, Mismatches: 4, Indels: 12
0.68 0.08 0.24
Matches are distributed among these distances:
18 8 0.24
19 2 0.06
20 10 0.29
21 2 0.06
22 12 0.35
ACGTcount: A:0.11, C:0.17, G:0.06, T:0.67
Consensus pattern (22 bp):
TTTTCTTTTCACATTTTTGGCT
Found at i:93974345 original size:40 final size:40
Alignment explanation
Indices: 93974301--93974379 Score: 158
Period size: 40 Copynumber: 2.0 Consensus size: 40
93974291 TCTATTTTGT
93974301 CTTTCATTTATTATTTTCTTTTCACATTTTTGGCTTTTTC
1 CTTTCATTTATTATTTTCTTTTCACATTTTTGGCTTTTTC
93974341 CTTTCATTTATTATTTTCTTTTCACATTTTTGGCTTTTT
1 CTTTCATTTATTATTTTCTTTTCACATTTTTGGCTTTTT
93974380 TACTCCAATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.13, C:0.16, G:0.05, T:0.66
Consensus pattern (40 bp):
CTTTCATTTATTATTTTCTTTTCACATTTTTGGCTTTTTC
Found at i:93974368 original size:20 final size:20
Alignment explanation
Indices: 93974305--93974369 Score: 64
Period size: 20 Copynumber: 3.2 Consensus size: 20
93974295 TTTTGTCTTT
93974305 CATTTATTATTTTCTTTTCA
1 CATTTATTATTTTCTTTTCA
* *
93974325 CATTT-TTGGCTTTTTCCTTT--
1 CATTTATT---ATTTTCTTTTCA
93974345 CATTTATTATTTTCTTTTCA
1 CATTTATTATTTTCTTTTCA
93974365 CATTT
1 CATTT
93974370 TTGGCTTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 12
0.69 0.08 0.24
Matches are distributed among these distances:
18 8 0.23
19 2 0.06
20 15 0.43
21 2 0.06
22 8 0.23
ACGTcount: A:0.15, C:0.17, G:0.03, T:0.65
Consensus pattern (20 bp):
CATTTATTATTTTCTTTTCA
Found at i:93980130 original size:57 final size:58
Alignment explanation
Indices: 93980030--93980147 Score: 175
Period size: 57 Copynumber: 2.1 Consensus size: 58
93980020 ATACAAATGG
* *
93980030 TGAAAATGGAGAAATGAGAAACATTTGAAAATGAGTATAGTTTTCTCTAAAATGAAAA
1 TGAAAATGGAGAAATGAGAAACATTTGAAAATGAATATAGTTTTCTCCAAAATGAAAA
* * * *
93980088 TGAAAATGGAGAAATG-GAATCATTTGGAAATGAATGTGGTTTTCTCCAAAATGAAAA
1 TGAAAATGGAGAAATGAGAAACATTTGAAAATGAATATAGTTTTCTCCAAAATGAAAA
93980145 TGA
1 TGA
93980148 CCTAAAAAGA
Statistics
Matches: 54, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
57 38 0.70
58 16 0.30
ACGTcount: A:0.45, C:0.06, G:0.21, T:0.28
Consensus pattern (58 bp):
TGAAAATGGAGAAATGAGAAACATTTGAAAATGAATATAGTTTTCTCCAAAATGAAAA
Found at i:93981883 original size:20 final size:20
Alignment explanation
Indices: 93981858--93981897 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
93981848 GAATAATGTC
93981858 ACATGTACTTGTCATGCATA
1 ACATGTACTTGTCATGCATA
93981878 ACATGTACTTGTCATGCATA
1 ACATGTACTTGTCATGCATA
93981898 TATTGATCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.20, G:0.15, T:0.35
Consensus pattern (20 bp):
ACATGTACTTGTCATGCATA
Found at i:93988480 original size:20 final size:20
Alignment explanation
Indices: 93988451--93988524 Score: 69
Period size: 20 Copynumber: 3.7 Consensus size: 20
93988441 TATAAACATT
*
93988451 AAATATATATATAAAAATAG
1 AAATAAATATATAAAAATAG
**
93988471 AAATAAATATATAAAAATTC
1 AAATAAATATATAAAAATAG
* **
93988491 AAGAAAAATATATAAATCTAG
1 AA-ATAAATATATAAAAATAG
*
93988512 AAA-AAAAATATAA
1 AAATAAATATATAA
93988525 TTTATAAAAA
Statistics
Matches: 44, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
19 9 0.20
20 20 0.45
21 15 0.34
ACGTcount: A:0.68, C:0.03, G:0.04, T:0.26
Consensus pattern (20 bp):
AAATAAATATATAAAAATAG
Found at i:93988517 original size:19 final size:19
Alignment explanation
Indices: 93988457--93988524 Score: 57
Period size: 19 Copynumber: 3.4 Consensus size: 19
93988447 CATTAAATAT
**
93988457 ATATATAAAAATAGAAATAA
1 ATATATAAATCTAGAAA-AA
*
93988477 ATATATAAAAATTCAAG-AAAA
1 ATATAT--AAA-TCTAGAAAAA
93988498 ATATATAAATCTAGAAAAA
1 ATATATAAATCTAGAAAAA
*
93988517 AAATATAA
1 ATATATAA
93988525 TTTATAAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
18 4 0.10
19 14 0.36
20 6 0.15
21 8 0.21
22 5 0.13
23 2 0.05
ACGTcount: A:0.68, C:0.03, G:0.04, T:0.25
Consensus pattern (19 bp):
ATATATAAATCTAGAAAAA
Found at i:93988548 original size:14 final size:15
Alignment explanation
Indices: 93988515--93988549 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
93988505 AATCTAGAAA
*
93988515 AAAAATATAATTTAT
1 AAAAATAAAATTTAT
*
93988530 AAAAATAAAATTTAC
1 AAAAATAAAATTTAT
93988545 AAAAA
1 AAAAA
93988550 AATACGACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (15 bp):
AAAAATAAAATTTAT
Found at i:93990124 original size:38 final size:39
Alignment explanation
Indices: 93990052--93990134 Score: 123
Period size: 38 Copynumber: 2.2 Consensus size: 39
93990042 CATATAACTC
*
93990052 GAGAATATGCAAACAAGGGTAGATCTCATTATATTACCT
1 GAGAATATGCAAACAAGGGTAGACCTCATTATATTACCT
* * *
93990091 GAGAATTTGC-AACCAGGTTAGACCTCATTATATTACCT
1 GAGAATATGCAAACAAGGGTAGACCTCATTATATTACCT
93990129 GAGAAT
1 GAGAAT
93990135 CTACAACAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
38 31 0.77
39 9 0.22
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.29
Consensus pattern (39 bp):
GAGAATATGCAAACAAGGGTAGACCTCATTATATTACCT
Found at i:93990610 original size:18 final size:18
Alignment explanation
Indices: 93990577--93990678 Score: 75
Period size: 17 Copynumber: 5.8 Consensus size: 18
93990567 CGTGATCCGA
*
93990577 TTGAAAA-ACGAGAATTT
1 TTGAAAACACGAAAATTT
*
93990594 TTTAAAACACGAAAA-TT
1 TTGAAAACACGAAAATTT
*
93990611 TTGAAAACACGAAACTTT
1 TTGAAAACACGAAAATTT
** * **
93990629 TTGGGATC-CGAATTTTT
1 TTGAAAACACGAAAATTT
* *
93990646 TTTAAAACACGAAAAATT
1 TTGAAAACACGAAAATTT
* *
93990664 TTGGAAACGCGAAAA
1 TTGAAAACACGAAAA
93990679 GTTTACAGCA
Statistics
Matches: 63, Mismatches: 19, Indels: 5
0.72 0.22 0.06
Matches are distributed among these distances:
17 32 0.51
18 31 0.49
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.29
Consensus pattern (18 bp):
TTGAAAACACGAAAATTT
Found at i:93991202 original size:26 final size:27
Alignment explanation
Indices: 93991159--93991212 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 27
93991149 TATGTATACC
*
93991159 AAATAATACATAATAATACT-AAAATA
1 AAATAATACATAACAATACTGAAAATA
*
93991185 AAATAATA-AGTAACAATAGTGAAAATA
1 AAATAATACA-TAACAATACTGAAAATA
93991212 A
1 A
93991213 TAAGCATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 1 0.04
26 16 0.67
27 7 0.29
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.24
Consensus pattern (27 bp):
AAATAATACATAACAATACTGAAAATA
Found at i:93991473 original size:26 final size:26
Alignment explanation
Indices: 93991444--93991505 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 26
93991434 ATAAAGGGAT
*
93991444 ATAAATAAATGGTAAAACAAAGTAA-A-
1 ATAAATAAAT-GTAAAA-AAAGGAATAG
**
93991470 ATAAATGTATGTAAAAAAAGGAATAG
1 ATAAATAAATGTAAAAAAAGGAATAG
93991496 ATAAATAAAT
1 ATAAATAAAT
93991506 AGAAAAGAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
24 6 0.21
25 7 0.24
26 16 0.55
ACGTcount: A:0.63, C:0.02, G:0.13, T:0.23
Consensus pattern (26 bp):
ATAAATAAATGTAAAAAAAGGAATAG
Found at i:93993131 original size:21 final size:21
Alignment explanation
Indices: 93993102--93993155 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 21
93993092 AGGATAGGAT
* **
93993102 CTGCGACTTCAATGTGCTCCA
1 CTGCAACTTCAATCAGCTCCA
*
93993123 CTGCAACTTCGATCAGCTCCA
1 CTGCAACTTCAATCAGCTCCA
* *
93993144 TTGTAACTTCAA
1 CTGCAACTTCAA
93993156 GGCTCTGCTA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.24, C:0.31, G:0.15, T:0.30
Consensus pattern (21 bp):
CTGCAACTTCAATCAGCTCCA
Found at i:93993426 original size:13 final size:13
Alignment explanation
Indices: 93993398--93993432 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
93993388 TGAGTTGATT
93993398 TTTGAAAACAGAA
1 TTTGAAAACAGAA
*
93993411 TTTGCAAAACAGAT
1 TTTG-AAAACAGAA
93993425 TTTGAAAA
1 TTTGAAAA
93993433 TACCTCGGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.49, C:0.09, G:0.14, T:0.29
Consensus pattern (13 bp):
TTTGAAAACAGAA
Found at i:93993430 original size:88 final size:88
Alignment explanation
Indices: 93993276--93993493 Score: 235
Period size: 88 Copynumber: 2.5 Consensus size: 88
93993266 ATGTGACCGG
* * *
93993276 AGGCTCAACTCATTTCTCGCAATATGAATTGACTCTTT-AAAACTAGACATTAAAAACAGAAATT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGA-TTTTTGAAAACTAGACATTAAAAACAGAAATT
* * * *
93993340 GAAAATAGCTCAGCACGTGAGCTA
65 GAAAATACCTCAGCACGTAACCCA
* * * **
93993364 AGGCTCAACTCGCTTCTTGCAATATGAGTTGATTTTTGAAAAC-AGA-ATTTGCAAAACAGATTT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAACTAGACA-TT-AAAAACAGAAAT
* * *
93993427 TGAAAATACCTCGGCATGTAACCCG
64 TGAAAATACCTCAGCACGTAACCCA
* *
93993452 AGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAA
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAA
93993494 GCATAATTGA
Statistics
Matches: 108, Mismatches: 19, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
86 1 0.01
87 9 0.08
88 98 0.91
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (88 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAACTAGACATTAAAAACAGAAATTG
AAAATACCTCAGCACGTAACCCA
Found at i:93993672 original size:75 final size:72
Alignment explanation
Indices: 93993411--93993864 Score: 597
Period size: 73 Copynumber: 6.1 Consensus size: 72
93993401 GAAAACAGAA
** * * *
93993411 TTTGCAAAACAGATTTTGAAAATACCTCGGCATGTAACCC-GAGGCTCAACTCACCTCTCGTAAT
1 TTTG-AAAACAGAAATTGAAAATACCTCAGC--GT-GCCCTGAGGCTCAACTCACCTCTCGCAAT
93993475 ATGAGTTGATT
62 ATGAGTTGATT
* *
93993486 TTTGAAAAGCA-TAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATA
1 TTTGAAAA-CAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATG
93993550 AGTTGATT
65 AGTTGATT
* * * ** * *
93993558 TTTGACAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCCCAACTCACCTCTCATAATGTA
1 TTTGA-AAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATG
93993623 AGTTGATTTT
65 AGTTGA--TT
93993633 TTTGAAAACCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTTGAAAA-CAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATG
93993698 AGTTGATTTTT
65 AGTTGA---TT
* * *
93993709 TTTTAAAATCAGAAATTGAAAATACCTCAGCGTGCCTTGGGGCTCAACTCACCTCTCGCAATATG
1 TTTGAAAA-CAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATG
93993774 AGTTGATT
65 AGTTGATT
*
93993782 TTTGACAAACAGAAATTGAAATTACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATG
1 TTTGA-AAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATG
*
93993847 AGTTAATT
65 AGTTGATT
93993855 TTTGAAAACA
1 TTTGAAAACA
93993865 TCAAAATACC
Statistics
Matches: 340, Mismatches: 30, Indels: 21
0.87 0.08 0.05
Matches are distributed among these distances:
71 3 0.01
72 47 0.14
73 126 0.37
74 25 0.07
75 68 0.20
76 71 0.21
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (72 bp):
TTTGAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATT
Found at i:93993841 original size:149 final size:149
Alignment explanation
Indices: 93993417--93993857 Score: 608
Period size: 149 Copynumber: 3.0 Consensus size: 149
93993407 AGAATTTGCA
** * * *
93993417 AAACAGATTTTGAAAATACCTCGGCATGTAACCCGAGGCTCAACTCACCTCTCGTAATATGAGTT
1 AAACAGAAATTGAAAATACCTCAGCGTGT--CCTGAGGCTCAACTCACCTCTCGTAATATGAGTT
* *
93993482 GATTTTTGAAAAGCA-TAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAA
64 GATTTTTGAAAACCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAA
*
93993546 TATAAGTTGA---TTTTTGAC
129 TATGAGTTGATTTTTTTTGAC
* * * * *
93993564 AAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCCCAACTCACCTCTCATAATGTAAGTTGA
1 AAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGTAATATGAGTTGA
93993629 TTTTTTTGAAAACCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAA
66 --TTTTTGAAAACCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAA
*
93993694 TATGAGTTGATTTTTTTTTA-
129 TATGAGTTGATTTTTTTTGAC
* *
93993714 AAATCAGAAATTGAAAATACCTCAGCGTG-CCTTGGGGCTCAACTCACCTCTCGCAATATGAGTT
1 AAA-CAGAAATTGAAAATACCTCAGCGTGTCC-TGAGGCTCAACTCACCTCTCGTAATATGAGTT
*
93993778 GATTTTTGACAAA-CAGAAATTGAAATTACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCA
64 GATTTTTGA-AAACCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCA
*
93993842 ATATGAGTTAATTTTT
128 ATATGAGTTGATTTTT
93993858 GAAAACATCA
Statistics
Matches: 262, Mismatches: 23, Indels: 16
0.87 0.08 0.05
Matches are distributed among these distances:
145 31 0.12
147 36 0.14
148 57 0.22
149 72 0.27
150 8 0.03
151 58 0.22
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (149 bp):
AAACAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGTAATATGAGTTGA
TTTTTGAAAACCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATA
TGAGTTGATTTTTTTTGAC
Found at i:93997827 original size:93 final size:93
Alignment explanation
Indices: 93997668--93997838 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
93997658 CCCATAAGTA
*
93997668 AACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
93997733 GAGCTCGGATGCCTAGTTACATCTCTCG
66 GAGCTCGGATGCCTAGTTACATCTCTCG
* * *
93997761 AACTCGGACTTAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTTAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
*
93997826 GAGTTCGGATGCC
66 GAGCTCGGATGCC
93997839 CAAACATCCT
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATCTCTCG
Found at i:93997834 original size:46 final size:46
Alignment explanation
Indices: 93997659--93997834 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
93997649 TGTAACCCGC
* *
93997659 CCATAAGTAAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
93997705 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** * *
93997751 ACATCTCTCGAACTCGGACTTAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
93997798 CCATAAGTGAACTCGGACTCAACTTAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
93997835 TGCCCAAACA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
46 67 0.62
47 31 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:93997853 original size:46 final size:46
Alignment explanation
Indices: 93997668--93997853 Score: 132
Period size: 46 Copynumber: 4.0 Consensus size: 46
93997658 CCCATAAGTA
* * * * *
93997668 AACTCGGACTCAACTCAACGAGCTCGGGCATTCGCATCCAT--AAGTG
1 AACTCGGACTCAACTCAACGAGTTC-GG-ATGCCCATACATCCTAGTG
* * *
93997714 AACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT--CG
1 AACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TACATC-CTAGTG
* * * * *
93997761 AACTCGGACTTAACTCAACGAGTTCGGACATTCGCATCCAT--AAGTG
1 AACTCGGACTCAACTCAACGAGTTCGG--ATGCCCATACATCCTAGTG
* *
93997807 AACTCGGACTCAACTTAACGAGTTCGGATGCCCAAACATCCTAGTG
1 AACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCTAGTG
93997853 A
1 A
93997854 CATGTCACTT
Statistics
Matches: 108, Mismatches: 21, Indels: 22
0.72 0.14 0.15
Matches are distributed among these distances:
44 12 0.11
45 2 0.02
46 60 0.56
47 30 0.28
49 4 0.04
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
AACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCTAGTG
Found at i:94008340 original size:161 final size:164
Alignment explanation
Indices: 94008169--94008507 Score: 522
Period size: 178 Copynumber: 2.0 Consensus size: 164
94008159 TATGACAAGT
94008169 TTTACATTTGTTCAATTTGGTCCTAATGTAG-CAA-AA-TTAACTTTACAATTTAGTCCTTTTCA
1 TTTACATTTGTTCAATTTGGTCCTAATGTAGACAACAAGTTAACTTTACAATTTAGTCCTTTTCA
94008231 TAATCTAAGCTTAATACCTATCAATTTCAAGTTTAATTCTTCAATAAATTAACAATGACAACTTT
66 TAATCTAAGCTTAATACCTATCAATTTCAAGTTTAATTCTTCAATAAATTAACAATGACAACTTT
94008296 CTAAAACTTTAACAATTTCACAAATTAGTAAATG
131 CTAAAACTTTAACAATTTCACAAATTAGTAAATG
94008330 TTTACATTTGTTCAATTTGGTCCTAATGTAGCAAAATTAACAAACAAGCTAAGTTAACTTTACAA
1 TTTACATTTGTTCAATTTGGTCCTAATGTAG------------ACAA-C-AAGTTAACTTTACAA
94008395 TTTAGTCCTTTTCATAATCTAAGCTTAATACCTATCAATTTCAAGTTTAATTCTTCAATAAATTA
52 TTTAGTCCTTTTCATAATCTAAGCTTAATACCTATCAATTTCAAGTTTAATTCTTCAATAAATTA
*
94008460 ACAATGACAACTTTCTAAAACTTTAACAGTTTCACAAATTAGTAAATG
117 ACAATGACAACTTTCTAAAACTTTAACAATTTCACAAATTAGTAAATG
94008508 AGCTAGCTAA
Statistics
Matches: 160, Mismatches: 1, Indels: 17
0.90 0.01 0.10
Matches are distributed among these distances:
161 31 0.19
174 3 0.02
177 2 0.01
178 124 0.77
ACGTcount: A:0.38, C:0.16, G:0.07, T:0.39
Consensus pattern (164 bp):
TTTACATTTGTTCAATTTGGTCCTAATGTAGACAACAAGTTAACTTTACAATTTAGTCCTTTTCA
TAATCTAAGCTTAATACCTATCAATTTCAAGTTTAATTCTTCAATAAATTAACAATGACAACTTT
CTAAAACTTTAACAATTTCACAAATTAGTAAATG
Found at i:94014746 original size:6 final size:6
Alignment explanation
Indices: 94014722--94014758 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
94014712 GAGATTTGGA
*
94014722 GTTT-T GTTAAT GTTT-T GTTTAT GTTTAT GTTTAT GTT
1 GTTTAT GTTTAT GTTTAT GTTTAT GTTTAT GTTTAT GTT
94014759 CTTCAGAACA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
5 8 0.29
6 20 0.71
ACGTcount: A:0.14, C:0.00, G:0.19, T:0.68
Consensus pattern (6 bp):
GTTTAT
Found at i:94014754 original size:12 final size:11
Alignment explanation
Indices: 94014722--94014758 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
94014712 GAGATTTGGA
*
94014722 GTTTTGTTAAT
1 GTTTTGTTTAT
94014733 GTTTTGTTTAT
1 GTTTTGTTTAT
94014744 GTTTATGTTTAT
1 GTTT-TGTTTAT
94014756 GTT
1 GTT
94014759 CTTCAGAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 14 0.58
12 10 0.42
ACGTcount: A:0.14, C:0.00, G:0.19, T:0.68
Consensus pattern (11 bp):
GTTTTGTTTAT
Found at i:94020163 original size:27 final size:27
Alignment explanation
Indices: 94020133--94020184 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
94020123 ATCACATAGG
94020133 GGCAAAATAGTCATCTTACCATATAAA
1 GGCAAAATAGTCATCTTACCATATAAA
* * *
94020160 GGCAAAATAGTTATTTTATCATATA
1 GGCAAAATAGTCATCTTACCATATA
94020185 TAGGGGATCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.42, C:0.13, G:0.12, T:0.33
Consensus pattern (27 bp):
GGCAAAATAGTCATCTTACCATATAAA
Found at i:94022848 original size:17 final size:18
Alignment explanation
Indices: 94022826--94022859 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
94022816 AGTTGAATTG
94022826 AAATTGCG-AAATTAAAT
1 AAATTGCGAAAATTAAAT
*
94022843 AAATTGTGAAAATTAAA
1 AAATTGCGAAAATTAAA
94022860 ATGAAGAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.56, C:0.03, G:0.12, T:0.29
Consensus pattern (18 bp):
AAATTGCGAAAATTAAAT
Found at i:94023600 original size:10 final size:9
Alignment explanation
Indices: 94023585--94023650 Score: 69
Period size: 10 Copynumber: 6.7 Consensus size: 9
94023575 ATTCTAAAAG
94023585 ATAAATACAA
1 ATAAATA-AA
94023595 ATAAATACAA
1 ATAAATA-AA
*
94023605 ATAATTAAA
1 ATAAATAAA
94023614 GATAAATAAA
1 -ATAAATAAA
94023624 GATAAATAAAA
1 -ATAAAT-AAA
94023635 ATAAATGAAA
1 ATAAAT-AAA
94023645 ATAAAT
1 ATAAAT
94023651 CCTAAATTTA
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
9 2 0.04
10 46 0.90
11 3 0.06
ACGTcount: A:0.70, C:0.03, G:0.05, T:0.23
Consensus pattern (9 bp):
ATAAATAAA
Found at i:94023613 original size:24 final size:24
Alignment explanation
Indices: 94023586--94023632 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
94023576 TTCTAAAAGA
* *
94023586 TAAATACAAATAAATACAAATAAT
1 TAAAGACAAATAAAGACAAATAAT
* *
94023610 TAAAGATAAATAAAGATAAATAA
1 TAAAGACAAATAAAGACAAATAA
94023633 AAATAAATGA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.23
Consensus pattern (24 bp):
TAAAGACAAATAAAGACAAATAAT
Found at i:94023617 original size:30 final size:30
Alignment explanation
Indices: 94023581--94023638 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
94023571 TTAAATTCTA
*
94023581 AAAGATAAATACAA-ATAAATACAAATAATT
1 AAAGATAAATA-AAGATAAATAAAAATAATT
94023611 AAAGATAAATAAAGATAAATAAAAATAA
1 AAAGATAAATAAAGATAAATAAAAATAA
94023639 ATGAAAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 2 0.08
30 24 0.92
ACGTcount: A:0.71, C:0.03, G:0.05, T:0.21
Consensus pattern (30 bp):
AAAGATAAATAAAGATAAATAAAAATAATT
Found at i:94023636 original size:16 final size:16
Alignment explanation
Indices: 94023617--94023649 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
94023607 AATTAAAGAT
94023617 AAATAAA-GATAAATAA
1 AAATAAATGA-AAATAA
94023633 AAATAAATGAAAATAA
1 AAATAAATGAAAATAA
94023649 A
1 A
94023650 TCCTAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.88
17 2 0.12
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (16 bp):
AAATAAATGAAAATAA
Found at i:94023649 original size:30 final size:30
Alignment explanation
Indices: 94023581--94023650 Score: 90
Period size: 30 Copynumber: 2.3 Consensus size: 30
94023571 TTAAATTCTA
* *
94023581 AAAGATAAATACAAATAAATACAAATAATT
1 AAAGATAAATACAAATAAATAAAAATAATG
94023611 AAAGATAAATA-AAGATAAATAAAAATAAATG
1 AAAGATAAATACAA-ATAAATAAAAAT-AATG
94023642 AAA-ATAAAT
1 AAAGATAAAT
94023651 CCTAAATTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
29 2 0.06
30 28 0.78
31 6 0.17
ACGTcount: A:0.70, C:0.03, G:0.06, T:0.21
Consensus pattern (30 bp):
AAAGATAAATACAAATAAATAAAAATAATG
Found at i:94023683 original size:13 final size:13
Alignment explanation
Indices: 94023667--94023691 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
94023657 TTTAAATCTA
94023667 AATAATTATCCTT
1 AATAATTATCCTT
94023680 AATAATTATCCT
1 AATAATTATCCT
94023692 ATTATAATAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.00, T:0.44
Consensus pattern (13 bp):
AATAATTATCCTT
Found at i:94024468 original size:96 final size:97
Alignment explanation
Indices: 94024287--94024472 Score: 286
Period size: 96 Copynumber: 1.9 Consensus size: 97
94024277 ATTTTATTTA
* * * *
94024287 TTTATTTTTACTTAGGAATATATTGAACATTTTGACGCGAAGAGAGATGACAGCCAAGCATCCCA
1 TTTATTTTTACTGAAGAATATATCGAACATTTTGACGCGAAGAGAGATGACAGCCAAACATCCCA
94024352 CCCCGGTTACTCAGCCCAACACATTCCTAATT
66 CCCCGGTTACTCAGCCCAACACATTCCTAATT
* *
94024384 TTTATTTTT-CTGAAGAATATATCGAACCTTTTGACGTGAAGAGAGATGACAGCCAAACA-CCTC
1 TTTATTTTTACTGAAGAATATATCGAACATTTTGACGCGAAGAGAGATGACAGCCAAACATCC-C
*
94024447 ACCCCGGTTACTCAGCGCAACACATT
65 ACCCCGGTTACTCAGCCCAACACATT
94024473 TTTAAAAATT
Statistics
Matches: 81, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
95 2 0.02
96 70 0.86
97 9 0.11
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (97 bp):
TTTATTTTTACTGAAGAATATATCGAACATTTTGACGCGAAGAGAGATGACAGCCAAACATCCCA
CCCCGGTTACTCAGCCCAACACATTCCTAATT
Done.