Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 283 of 356
Found at i:92280346 original size:40 final size:40
Alignment explanation
Indices: 92280189--92280332 Score: 177
Period size: 40 Copynumber: 3.6 Consensus size: 40
92280179 GAATGATGTT
* * * *
92280189 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAAC
*
92280229 CGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-AATC
1 CGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA-C
*
92280269 CGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAC
*
92280309 CGGGCTATGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTG
92280333 AACGAGTAGC
Statistics
Matches: 90, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
39 2 0.02
40 78 0.87
41 10 0.11
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAAC
Found at i:92288461 original size:62 final size:62
Alignment explanation
Indices: 92288284--92288508 Score: 216
Period size: 62 Copynumber: 3.6 Consensus size: 62
92288274 ACATACTGCC
* * * * * * * *
92288284 ACACGGCCTAGGCATACGCCCATGTCCTTGGCCGTGTGGTTTTATACCATAAACAATGAGTT
1 ACACAGCCTGGGCACACGCTCATGTCCTTAGCCGTGTGGTTTTATACAATGAACAGTGAGTT
* * * * * * * *
92288346 ACACAGCTTGGGTACACGCTCATTTCCCTAGCCATGTGATTCTATACAATGAACAGTAAGTT
1 ACACAGCCTGGGCACACGCTCATGTCCTTAGCCGTGTGGTTTTATACAATGAACAGTGAGTT
* * * * *
92288408 ACACTGCCTAGGCACATGCTCGTGTCCTTAACCGTGTGGTTTTATACAATGAACAGTGAGTT
1 ACACAGCCTGGGCACACGCTCATGTCCTTAGCCGTGTGGTTTTATACAATGAACAGTGAGTT
* * * * *
92288470 ACACGGCCTGGGCACACACCCATGTCCCTGGCCGTGTGG
1 ACACAGCCTGGGCACACGCTCATGTCCTTAGCCGTGTGG
92288509 ATCCTACACT
Statistics
Matches: 125, Mismatches: 38, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
62 125 1.00
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.27
Consensus pattern (62 bp):
ACACAGCCTGGGCACACGCTCATGTCCTTAGCCGTGTGGTTTTATACAATGAACAGTGAGTT
Found at i:92292727 original size:35 final size:37
Alignment explanation
Indices: 92292656--92292753 Score: 150
Period size: 35 Copynumber: 2.7 Consensus size: 37
92292646 ATAATCTTCA
92292656 ATGATATGCAATCTTAGATATGATATGCAATCTTAGAT
1 ATGATA-GCAATCTTAGATATGATATGCAATCTTAGAT
92292694 ATGATA-CAATCTTAGATATGAT-TGCAATCTTAGAT
1 ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
92292729 ATGATATGCAATCTTAGA-A-GATATG
1 ATGATA-GCAATCTTAGATATGATATG
92292754 ATTTTGTAAT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
35 22 0.39
36 19 0.33
37 10 0.18
38 6 0.11
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (37 bp):
ATGATAGCAATCTTAGATATGATATGCAATCTTAGAT
Found at i:92292753 original size:17 final size:19
Alignment explanation
Indices: 92292656--92292746 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
92292646 ATAATCTTCA
92292656 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
92292675 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
92292694 ATGATA--CAATCTTAGAT
1 ATGATATGCAATCTTAGAT
92292711 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
92292729 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
92292747 AGATATGATT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:92292772 original size:22 final size:22
Alignment explanation
Indices: 92292656--92292769 Score: 96
Period size: 19 Copynumber: 5.8 Consensus size: 22
92292646 ATAATCTTCA
92292656 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
92292675 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
92292694 ATGATA--CAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
92292711 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
92292729 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
92292751 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
92292770 GATTTAATTT
Statistics
Matches: 86, Mismatches: 2, Indels: 10
0.88 0.02 0.10
Matches are distributed among these distances:
17 16 0.19
18 16 0.19
19 34 0.40
22 8 0.09
23 12 0.14
ACGTcount: A:0.37, C:0.10, G:0.16, T:0.38
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:92293061 original size:18 final size:17
Alignment explanation
Indices: 92293038--92293071 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
92293028 TTTCCCGAAT
*
92293038 TTTTTTTATATATTTTAA
1 TTTTTTAATA-ATTTTAA
92293056 TTTTTTAATAATTTTA
1 TTTTTTAATAATTTTA
92293072 GTATCATATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTTTAATAATTTTAA
Found at i:92295701 original size:49 final size:49
Alignment explanation
Indices: 92295632--92296117 Score: 720
Period size: 49 Copynumber: 10.1 Consensus size: 49
92295622 GAAATGATAG
92295632 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
92295681 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
92295728 TAAGACCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
92295777 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
92295826 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
92295875 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* * * *
92295922 TAAGACCTAATGGCCGATTTGATGAATGTGGAAGTGTATATATATGTGG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* * * * * *
92295971 CAGGGCCGAGTGGCCAACGTGATGAATGTGAAAGTG--TATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
*
92296018 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
* * * * * *
92296067 CAGGGCCGAGTGGCCAACGTGAT-AGATGTGAAAGTGTATA-A-ATGTGA
1 TAAGGCCTAATGGCCGATGTGATGA-ATGTGAAAGTGTATATATATGTGA
92296114 TAAG
1 TAAG
92296118 TCCCGAAGGG
Statistics
Matches: 396, Mismatches: 34, Indels: 16
0.89 0.08 0.04
Matches are distributed among these distances:
47 136 0.34
48 2 0.01
49 258 0.65
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (49 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
Found at i:92295801 original size:96 final size:96
Alignment explanation
Indices: 92295632--92296117 Score: 758
Period size: 96 Copynumber: 5.0 Consensus size: 96
92295622 GAAATGATAG
*
92295632 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
92295697 ATGTGATGAATGTGAAAGTGTATATATGTGA
66 ATGTGATGAATGTGAAAGTGTATATATGTGA
* *
92295728 TAAGACCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
92295793 ATGTGATGAATGTGAAAGTGTATATATATGTGA
66 ATGTGATGAATGTGAAAGTG--TATATATGTGA
*
92295826 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
92295891 ATGTGATGAATGTGAAAGTGTATATATGTGA
66 ATGTGATGAATGTGAAAGTGTATATATGTGA
* * * ** * * *
92295922 TAAGACCTAATGGCCGATTTGATGAATGTGGAAGTGTATATATATGTGGCAGGGCCGAGTGGCCA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
*
92295987 ACGTGATGAATGTGAAAGTGTATATATGTGA
66 ATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * *
92296018 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGACAGGGCCGAGTGGCCA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
* *
92296083 ACGTGAT-AGATGTGAAAGTGTATAAATGTGA
66 ATGTGATGA-ATGTGAAAGTGTATATATGTGA
92296114 TAAG
1 TAAG
92296118 TCCCGAAGGG
Statistics
Matches: 369, Mismatches: 18, Indels: 6
0.94 0.05 0.02
Matches are distributed among these distances:
95 1 0.00
96 275 0.75
98 93 0.25
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (96 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
ATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:92295915 original size:145 final size:144
Alignment explanation
Indices: 92295632--92296115 Score: 724
Period size: 145 Copynumber: 3.4 Consensus size: 144
92295622 GAAATGATAG
*
92295632 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
*
92295697 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGACCTAATGGCCGATGTGATGAATGTGAAAG
66 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
92295762 TGTATATATATGTGA
131 TG-ATATATATGTGA
92295777 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
*
92295842 ATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAA
66 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
92295907 AGTG-TATATATGTGA
129 AGTGATATATATGTGA
* * * ** * * *
92295922 TAAGACCTAATGGCCGATTTGATGAATGTGGAAGTGTATATATATGTGGCAGGGCCGAGTGGCCA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
* *
92295987 ACGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGGAAG
66 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
92296052 TGTATATATATGTGA
131 TG-ATATATATGTGA
* * * * * *
92296067 CAGGGCCGAGTGGCCAACGTGAT-AGATGTGAAAGTGTATA-A-ATGTGATA
1 TAAGGCCTAATGGCCGATGTGATGA-ATGTGAAAGTGTATATATATGTGATA
92296116 AGTCCCGAAG
Statistics
Matches: 309, Mismatches: 25, Indels: 12
0.89 0.07 0.03
Matches are distributed among these distances:
143 51 0.17
144 2 0.01
145 211 0.68
147 45 0.15
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (144 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAGGGCCTAATGGCCG
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGATATATATGTGA
Found at i:92298192 original size:43 final size:43
Alignment explanation
Indices: 92298143--92298288 Score: 274
Period size: 43 Copynumber: 3.4 Consensus size: 43
92298133 TTGGTTTTCA
92298143 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
*
92298186 ACACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
*
92298229 GCACTAAGTGTGCGGACAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
92298272 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
92298289 TTGAAATGCA
Statistics
Matches: 99, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 99 1.00
ACGTcount: A:0.24, C:0.15, G:0.34, T:0.27
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:92298305 original size:29 final size:29
Alignment explanation
Indices: 92298270--92298343 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
92298260 GTTGTGAGAT
* *
92298270 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
92298299 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
92298328 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
92298344 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:92298928 original size:40 final size:40
Alignment explanation
Indices: 92298654--92298914 Score: 296
Period size: 40 Copynumber: 6.5 Consensus size: 40
92298644 TCGAATGATG
* *
92298654 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TATA
* * * * *
92298694 TCCGGACTAAGAT-CCGAAG-GCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGAGCATTCGTGCTAGTGA-TATA
*
92298734 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* *
92298774 TCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
92298814 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* ** * * *
92298854 TCCGTGCTAAACCCCAAAGAGCATTCGTGCTGGTGTTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
92298894 TCCGGGCTAGGTCCCGAAGAG
1 TCCGGGCTAAGTCCCGAAGAG
92298915 TAATCATGAT
Statistics
Matches: 187, Mismatches: 30, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
39 1 0.01
40 167 0.89
41 19 0.10
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
Found at i:92302514 original size:49 final size:47
Alignment explanation
Indices: 92302445--92302828 Score: 538
Period size: 47 Copynumber: 8.1 Consensus size: 47
92302435 GAAATGATAG
*
92302445 TAAGGCCTAATGGCCGATGTGATTAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
92302494 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
92302541 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
92302588 T-AGGCCTAATGGCCGATGTGATGAATGTG-AAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
92302633 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* * * * * *
92302682 CAGGGCCGAGTGGCCAACGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
92302729 AAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* * * * * * * *
92302778 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
92302825 TAAG
1 TAAG
92302829 TCCCGAAGGG
Statistics
Matches: 303, Mismatches: 26, Indels: 14
0.88 0.08 0.04
Matches are distributed among these distances:
45 17 0.06
46 56 0.18
47 116 0.38
49 114 0.38
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:92302745 original size:96 final size:96
Alignment explanation
Indices: 92302445--92302828 Score: 587
Period size: 96 Copynumber: 4.0 Consensus size: 96
92302435 GAAATGATAG
* * * * *
92302445 TAAGGCCTAATGGCCGATGTGATTAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGACAGGGCCGAATGGCCA
*
92302510 ATGTGATGAATGTGAAAGTGTATATATGTGA
66 ACGTGATGAATGTGAAAGTGTATATATGTGA
* * *
92302541 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATA-GGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGACAGGGCCGAATGGCCA
*
92302603 ATGTGATGAATGTG-AAGTGTATATATGTGA
66 ACGTGATGAATGTGAAAGTGTATATATGTGA
* *
92302633 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGACAGGGCCGAGTGGCCA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGACAGGGCCGAATGGCCA
92302698 ACGTGATGAATGTGAAAGTGTATATATGTGA
66 ACGTGATGAATGTGAAAGTGTATATATGTGA
* * *
92302729 AAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGACAGGGCCGAGTGGCCA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGACAGGGCCGAATGGCCA
* *
92302794 ACGTGATGGATGTGAAAGTGTATAAATGTGA
66 ACGTGATGAATGTGAAAGTGTATATATGTGA
92302825 TAAG
1 TAAG
92302829 TCCCGAAGGG
Statistics
Matches: 273, Mismatches: 11, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
92 51 0.19
93 27 0.10
94 25 0.09
95 23 0.08
96 147 0.54
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.28
Consensus pattern (96 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGACAGGGCCGAATGGCCA
ACGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:92316199 original size:45 final size:45
Alignment explanation
Indices: 92316041--92316445 Score: 338
Period size: 45 Copynumber: 8.9 Consensus size: 45
92316031 GATCCAAGAT
* *
92316041 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATC-AA-AGATAACA
* * * * * * * *
92316088 GATCTGACCT-TCATGTGTTTACATC--GAAGCAGATCCAAGATGACA
1 GATTTGGCATCTC-TGT-ATTAGA-CGGGGAGCAGATCAAAGATAACA
* * * **
92316133 GATTTAGCATCTCTGTCTTAGACGGGGAGCAAATCGGAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGATAACA
**
92316178 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGACATAGTA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAG--ATAACA
* * * * * ** * * *
92316225 GATCTGACCT-TCATGTGTTTACATC--AAAGCAGATCCAAGATGATA
1 GATTTGGCATCTC-TGT-ATTAGA-CGGGGAGCAGATCAAAGATAACA
* * *
92316270 GATTTGGCAACTCTGTATTAGACGGGGAGCAAATCAGAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGATAACA
** **
92316315 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAGA-AGTA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGATAACA
*
92316359 GATTTGGCATCTCTATATTAGACGGGGAGCAGATCAAAGATAACA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGATAACA
* *
92316404 TATTTGGCATCTCTGTATTAGACGGGAAGCAGATCAAAGATA
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGATA
92316446 GAAGATATCG
Statistics
Matches: 277, Mismatches: 66, Indels: 32
0.74 0.18 0.09
Matches are distributed among these distances:
43 2 0.01
44 47 0.17
45 165 0.60
46 9 0.03
47 44 0.16
48 8 0.03
49 2 0.01
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (45 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGATAACA
Found at i:92316291 original size:137 final size:137
Alignment explanation
Indices: 92316041--92316348 Score: 544
Period size: 137 Copynumber: 2.2 Consensus size: 137
92316031 GATCCAAGAT
*
92316041 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCGAAGACATAGCAGATCTGACCTTCATGTGT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGACATAGCAGATCTGACCTTCATGTGT
* * * *
92316106 TTACATCGAAGCAGATCCAAGATGACAGATTTAGCATCTCTGTCTTAGACGGGGAGCAAATCGGA
66 TTACATCAAAGCAGATCCAAGATGACAGATTTAGCAACTCTGTATTAGACGGGGAGCAAATCAGA
92316171 GATAACA
131 GATAACA
*
92316178 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGACATAGTAGATCTGACCTTCATGTGT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGACATAGCAGATCTGACCTTCATGTGT
* *
92316243 TTACATCAAAGCAGATCCAAGATGATAGATTTGGCAACTCTGTATTAGACGGGGAGCAAATCAGA
66 TTACATCAAAGCAGATCCAAGATGACAGATTTAGCAACTCTGTATTAGACGGGGAGCAAATCAGA
92316308 GATAACA
131 GATAACA
92316315 GATTTGGCATCTCTGTATTAGACGGGGAGCAGAT
1 GATTTGGCATCTCTGTATTAGACGGGGAGCAGAT
92316349 TGAAGAAGTA
Statistics
Matches: 163, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
137 163 1.00
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.26
Consensus pattern (137 bp):
GATTTGGCATCTCTGTATTAGACGGGGAGCAGATCAAAGACATAGCAGATCTGACCTTCATGTGT
TTACATCAAAGCAGATCCAAGATGACAGATTTAGCAACTCTGTATTAGACGGGGAGCAAATCAGA
GATAACA
Found at i:92316383 original size:89 final size:89
Alignment explanation
Indices: 92316268--92316437 Score: 286
Period size: 89 Copynumber: 1.9 Consensus size: 89
92316258 TCCAAGATGA
* *
92316268 TAGATTTGGCAACTCTGTATTAGACGGGGAGCAAATCAGAGATAACAGATTTGGCATCTCTGTAT
1 TAGATTTGGCAACTCTATATTAGACGGGGAGCAAATCAAAGATAACAGATTTGGCATCTCTGTAT
*
92316333 TAGACGGGGAGCAGATTGAAGAAG
66 TAGACGGGAAGCAGATTGAAGAAG
* * *
92316357 TAGATTTGGCATCTCTATATTAGACGGGGAGCAGATCAAAGATAACATATTTGGCATCTCTGTAT
1 TAGATTTGGCAACTCTATATTAGACGGGGAGCAAATCAAAGATAACAGATTTGGCATCTCTGTAT
92316422 TAGACGGGAAGCAGAT
66 TAGACGGGAAGCAGAT
92316438 CAAAGATAGA
Statistics
Matches: 75, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
89 75 1.00
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.26
Consensus pattern (89 bp):
TAGATTTGGCAACTCTATATTAGACGGGGAGCAAATCAAAGATAACAGATTTGGCATCTCTGTAT
TAGACGGGAAGCAGATTGAAGAAG
Found at i:92316481 original size:89 final size:89
Alignment explanation
Indices: 92316113--92316457 Score: 239
Period size: 89 Copynumber: 3.8 Consensus size: 89
92316103 TGTTTACATC
* * * * * * **
92316113 GAAGCAGATCCAAGATGACAGATTTAGCATCTCTGTCTTAGACGGGGAGCAAATCGGAGATA-AC
1 GAAGCAGATCAAAGATAACAGATTTGGCATCTCTGTATTAGACGGGAAGCAGATCAAAGA-AGA-
* * *
92316177 AGATTTGGCATCTCTGTATTAGACGG
64 AGATTCGCCATCTCTATATTAGACGG
* ** * * * * * * *
92316203 GGAGCAGATCAAAGACATAGTAGATCTGACCT-TCATGTGTTTACATC--AAAGCAGATCCAAGA
1 GAAGCAGATCAAAG--ATAACAGATTTGGCATCTC-TGT-ATTAGA-CGGGAAGCAGATCAAAGA
* * * * *
92316265 TGATAGATTTGGCAACTCTGTATTAGACGG
61 AGA-AGATTCGCCATCTCTATATTAGACGG
* * * * ** *
92316295 GGAGCAAATCAGAGATAACAGATTTGGCATCTCTGTATTAGACGGGGAGCAGATTGAAGAAGTAG
1 GAAGCAGATCAAAGATAACAGATTTGGCATCTCTGTATTAGACGGGAAGCAGATCAAAGAAGAAG
* *
92316360 ATTTGGCATCTCTATATTAGACGG
66 ATTCGCCATCTCTATATTAGACGG
* *
92316384 GGAGCAGATCAAAGATAACATATTTGGCATCTCTGTATTAGACGGGAAGCAGATCAAAGATAGAA
1 GAAGCAGATCAAAGATAACAGATTTGGCATCTCTGTATTAGACGGGAAGCAGATCAAAGA-AGAA
92316449 GATATCGCC
65 GAT-TCGCC
92316458 TTCCTGATTT
Statistics
Matches: 199, Mismatches: 45, Indels: 21
0.75 0.17 0.08
Matches are distributed among these distances:
88 1 0.01
89 82 0.41
90 44 0.22
91 7 0.04
92 60 0.30
93 4 0.02
94 1 0.01
ACGTcount: A:0.34, C:0.16, G:0.26, T:0.25
Consensus pattern (89 bp):
GAAGCAGATCAAAGATAACAGATTTGGCATCTCTGTATTAGACGGGAAGCAGATCAAAGAAGAAG
ATTCGCCATCTCTATATTAGACGG
Found at i:92316850 original size:18 final size:19
Alignment explanation
Indices: 92316802--92316893 Score: 161
Period size: 18 Copynumber: 4.9 Consensus size: 19
92316792 ATAATCTTCA
92316802 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
92316821 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
92316840 ATGAT-TGCAATCTTAGAT
1 ATGATATGCAATCTTAGAT
*
92316858 ATGAT-TGCAATCGTAGAT
1 ATGATATGCAATCTTAGAT
92316876 ATGATATGCAATCTTAGA
1 ATGATATGCAATCTTAGA
92316894 AGATATGATT
Statistics
Matches: 70, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
18 35 0.50
19 35 0.50
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36
Consensus pattern (19 bp):
ATGATATGCAATCTTAGAT
Found at i:92316919 original size:22 final size:22
Alignment explanation
Indices: 92316802--92316916 Score: 96
Period size: 18 Copynumber: 5.8 Consensus size: 22
92316792 ATAATCTTCA
92316802 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
92316821 ATGATATGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
92316840 ATGAT-TGCAATCTT---AGAT
1 ATGATATGCAATCTTAGAAGAT
*
92316858 ATGAT-TGCAATC---GTAGAT
1 ATGATATGCAATCTTAGAAGAT
92316876 ATGATATGCAATCTTAGAAGAT
1 ATGATATGCAATCTTAGAAGAT
* *
92316898 ATGATTTTGTAATCTTAGA
1 ATGA-TATGCAATCTTAGA
92316917 GATTTAATTT
Statistics
Matches: 86, Mismatches: 3, Indels: 10
0.87 0.03 0.10
Matches are distributed among these distances:
18 34 0.40
19 31 0.36
22 9 0.10
23 12 0.14
ACGTcount: A:0.36, C:0.10, G:0.17, T:0.37
Consensus pattern (22 bp):
ATGATATGCAATCTTAGAAGAT
Found at i:92317208 original size:18 final size:17
Alignment explanation
Indices: 92317185--92317218 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
92317175 TTTCCCAGAC
*
92317185 TTTTTTTATATATTTTAA
1 TTTTTTAATA-ATTTTAA
92317203 TTTTTTAATAATTTTA
1 TTTTTTAATAATTTTA
92317219 GTATCATATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTTTAATAATTTTAA
Found at i:92327470 original size:55 final size:54
Alignment explanation
Indices: 92327406--92327585 Score: 261
Period size: 55 Copynumber: 3.3 Consensus size: 54
92327396 TAAATTGTAC
*
92327406 AGCACTAAGTGTGTGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAG-TTGACTATGT
*
92327461 AGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
* * * * *
92327516 AGCACTAAGTGTGCGAGTATGATTATGTAGCACTAAGTGTGCGAGCTGATTATAT
1 AGCACTAAGTGTGCGAAT-TGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
*
92327571 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
92327586 GACTTAATAA
Statistics
Matches: 115, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
54 1 0.01
55 87 0.76
56 27 0.23
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.31
Consensus pattern (54 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTGACTATGT
Found at i:92327521 original size:83 final size:82
Alignment explanation
Indices: 92327406--92327585 Score: 279
Period size: 83 Copynumber: 2.2 Consensus size: 82
92327396 TAAATTGTAC
* *
92327406 AGCACTAAGTGTGTGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTATGACTATGTAGCACTAAGT
* *
92327471 GTGCGAGTTTGACTATGT
66 GTGCGAG-CTGACTATAT
* *
92327489 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTATGATTATGTAGCACTAAGT
1 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTATGACTATGTAGCACTAAGT
*
92327554 GTGCGAGCTGATTATAT
66 GTGCGAGCTGACTATAT
*
92327571 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
92327586 GACTTAATAA
Statistics
Matches: 89, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
82 21 0.24
83 68 0.76
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.31
Consensus pattern (82 bp):
AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTATGACTATGTAGCACTAAGT
GTGCGAGCTGACTATAT
Found at i:92327584 original size:27 final size:28
Alignment explanation
Indices: 92327406--92327585 Score: 267
Period size: 28 Copynumber: 6.5 Consensus size: 28
92327396 TAAATTGTAC
* *
92327406 AGCACTAAGTGTGTGA-ATTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
92327433 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
92327461 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
92327489 AGCACTAAGTGTGCGAG-TTGACTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
* *
92327516 AGCACTAAGTGTGCGAGTATGATTATGT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
* * *
92327544 AGCACTAAGTGTGCGAG-CTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGACTATGT
*
92327571 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
92327586 GACTTAATAA
Statistics
Matches: 144, Mismatches: 7, Indels: 4
0.93 0.05 0.03
Matches are distributed among these distances:
27 64 0.44
28 80 0.56
ACGTcount: A:0.27, C:0.14, G:0.29, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:92342159 original size:26 final size:24
Alignment explanation
Indices: 92342125--92342173 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
92342115 TGAATAAAAA
* *
92342125 ATTTGAAAATATAATAAATCAAATAC
1 ATTTAAAAACATAA-AAA-CAAATAC
92342151 ATTTAAAAACATAAAAACAAATA
1 ATTTAAAAACATAAAAACAAATA
92342174 TTAAAACAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.29
25 3 0.14
26 12 0.57
ACGTcount: A:0.63, C:0.08, G:0.02, T:0.27
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAC
Found at i:92342417 original size:11 final size:11
Alignment explanation
Indices: 92342403--92342477 Score: 64
Period size: 11 Copynumber: 6.9 Consensus size: 11
92342393 CAAAAAGTAG
92342403 CACCAAAACAA
1 CACCAAAACAA
*
92342414 CACCAAATA-AG
1 CACCAAA-ACAA
** *
92342425 CATTAAAACAG
1 CACCAAAACAA
*
92342436 CACCAAAACAG
1 CACCAAAACAA
*
92342447 CAACAAAACAA
1 CACCAAAACAA
92342458 CACC-AAACAA
1 CACCAAAACAA
*
92342468 CAACAAAACA
1 CACCAAAACA
92342478 TCACAAAAAA
Statistics
Matches: 52, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
10 10 0.19
11 41 0.79
12 1 0.02
ACGTcount: A:0.61, C:0.31, G:0.04, T:0.04
Consensus pattern (11 bp):
CACCAAAACAA
Found at i:92342432 original size:22 final size:22
Alignment explanation
Indices: 92342401--92342486 Score: 86
Period size: 22 Copynumber: 4.0 Consensus size: 22
92342391 CACAAAAAGT
*
92342401 AGCACCAAAACAACACCAAATA-
1 AGCAACAAAACAACACCAAA-AC
** *
92342423 AGCATTAAAACAGCACCAAAAC
1 AGCAACAAAACAACACCAAAAC
92342445 AGCAACAAAACAACACC-AAAC
1 AGCAACAAAACAACACCAAAAC
* * *
92342466 AACAACAAAACATCACAAAAA
1 AGCAACAAAACAACACCAAAA
92342487 ATAGCATAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
21 19 0.36
22 34 0.64
ACGTcount: A:0.62, C:0.29, G:0.05, T:0.05
Consensus pattern (22 bp):
AGCAACAAAACAACACCAAAAC
Found at i:92355825 original size:20 final size:20
Alignment explanation
Indices: 92355800--92355849 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
92355790 TTATGCTAAG
92355800 ATATTTCTAATGAAATACCA
1 ATATTTCTAATGAAATACCA
92355820 ATATTTCTAATGAAATACCA
1 ATATTTCTAATGAAATACCA
*
92355840 AAATTTCTAA
1 ATATTTCTAA
92355850 GTACATATCC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.46, C:0.14, G:0.04, T:0.36
Consensus pattern (20 bp):
ATATTTCTAATGAAATACCA
Found at i:92358131 original size:48 final size:48
Alignment explanation
Indices: 92358051--92358306 Score: 213
Period size: 48 Copynumber: 5.4 Consensus size: 48
92358041 GAGTTGATGA
* * * *
92358051 GATCCCGTATAAGACCATATCTGGGATATGGCATCGGCATCGATATGT
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGT
** * * *
92358099 GATTTCATGTAAGACCATGTTTAGGACATGGCATTGGCATC-ATTATGT
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATCGGCATCGA-TATGT
*
92358147 GATCCCATGTAAGACCATGTCTGGGACATGGCA-CTGGCATCGATATGA
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATC-GGCATCGATATGT
* * * * *
92358195 GAGCATCGTGTAAGACCATAG-CTGGG-C-T---ATTGGCTTCGATATGT
1 GATC-CCATGTAAGACCAT-GTCTGGGACATGGCATCGGCATCGATATGT
* * * *
92358239 GCGATCCCATGTAAGACCATGTCTGGGACATGACATTGACATCGATAAGT
1 --GATCCCATGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGT
* *
92358289 GGTCCCATGTAATACCAT
1 GATCCCATGTAAGACCAT
92358307 ATCCGAGATA
Statistics
Matches: 165, Mismatches: 29, Indels: 28
0.74 0.13 0.13
Matches are distributed among these distances:
44 13 0.08
45 17 0.10
46 4 0.02
47 3 0.02
48 96 0.58
49 18 0.11
50 14 0.08
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (48 bp):
GATCCCATGTAAGACCATGTCTGGGACATGGCATCGGCATCGATATGT
Found at i:92363877 original size:20 final size:18
Alignment explanation
Indices: 92363850--92363901 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 18
92363840 ATTCTTTTTT
92363850 ATAATTTTAATAAGTTTA
1 ATAATTTTAATAAGTTTA
* *
92363868 TATGAATTTTAATGATTTTA
1 -AT-AATTTTAATAAGTTTA
92363888 ATAATATTTAATAA
1 ATAAT-TTTAATAA
92363902 TTTTTGATGG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
18 3 0.11
19 11 0.39
20 14 0.50
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (18 bp):
ATAATTTTAATAAGTTTA
Found at i:92363897 original size:10 final size:9
Alignment explanation
Indices: 92363845--92363905 Score: 68
Period size: 9 Copynumber: 6.4 Consensus size: 9
92363835 TATAAATTCT
*
92363845 TTTTTATAA
1 TTTTAATAA
92363854 TTTTAATAA
1 TTTTAATAA
*
92363863 GTTTATATGAA
1 TTTTA-AT-AA
*
92363874 TTTTAATGA
1 TTTTAATAA
92363883 TTTTAATAA
1 TTTTAATAA
92363892 TATTTAATAA
1 T-TTTAATAA
92363902 TTTT
1 TTTT
92363906 TGATGGAAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
9 25 0.57
10 13 0.30
11 6 0.14
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (9 bp):
TTTTAATAA
Found at i:92363906 original size:29 final size:30
Alignment explanation
Indices: 92363844--92363906 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 30
92363834 TTATAAATTC
* *
92363844 TTTTTTATAATTTTAATAAGTTTATATGAA
1 TTTTTAATAATTTTAATAAATTTATATGAA
*
92363874 -TTTTAATGATTTTAATAATATTTA-AT-AA
1 TTTTTAATAATTTTAATAA-ATTTATATGAA
92363902 TTTTT
1 TTTTT
92363907 GATGGAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
28 2 0.07
29 22 0.79
30 4 0.14
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.59
Consensus pattern (30 bp):
TTTTTAATAATTTTAATAAATTTATATGAA
Found at i:92365793 original size:27 final size:28
Alignment explanation
Indices: 92365748--92365826 Score: 83
Period size: 28 Copynumber: 2.8 Consensus size: 28
92365738 TAATTTGAAT
*
92365748 AAAATATAAAATATGAAAAAT-AGGGGCA
1 AAAATATAAAATATGAAAAATAAAGGG-A
* *
92365776 AAACTATAAAATCT-AAAAATAAAGGGA
1 AAAATATAAAATATGAAAAATAAAGGGA
92365803 AAAATTATAAAACT-TGAAAAATAA
1 AAAA-TATAAAA-TATGAAAAATAA
92365827 GAGACATATG
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
27 10 0.23
28 24 0.56
29 9 0.21
ACGTcount: A:0.63, C:0.05, G:0.11, T:0.20
Consensus pattern (28 bp):
AAAATATAAAATATGAAAAATAAAGGGA
Found at i:92370712 original size:6 final size:6
Alignment explanation
Indices: 92370701--92370745 Score: 74
Period size: 6 Copynumber: 7.5 Consensus size: 6
92370691 ATCTTGTGGC
92370701 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAATG -AAAAG AAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAA-G AAAAAG AAA
92370746 GAGATGGTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
5 1 0.03
6 35 0.95
7 1 0.03
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (6 bp):
AAAAAG
Found at i:92372566 original size:16 final size:16
Alignment explanation
Indices: 92372540--92372579 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 16
92372530 TAACAGATCA
92372540 ACATCATACACATATAT
1 ACAT-ATACACATATAT
92372557 ACATATACACATATAT
1 ACATATACACATATAT
92372573 ATCATAT
1 A-CATAT
92372580 TAGAAATCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 13 0.59
17 9 0.41
ACGTcount: A:0.47, C:0.20, G:0.00, T:0.33
Consensus pattern (16 bp):
ACATATACACATATAT
Found at i:92375681 original size:84 final size:84
Alignment explanation
Indices: 92375565--92375718 Score: 220
Period size: 84 Copynumber: 1.8 Consensus size: 84
92375555 GATAAAAAAC
* * * *
92375565 ATTTGTAGTTCCTGCCACTTCTTGTGAGTGCACAACATGGTT-GCAGATTAAACAAATTGCCACT
1 ATTTGCAGTTACTGCCACTTCTTGTGAGTGCACAACAT-ATTCGCAGATTAAACAAACTGCCACT
92375629 AGGTTTGTGACGAGCCACAT
65 AGGTTTGTGACGAGCCACAT
* * * *
92375649 ATTTGCAGTTACTGTCACTTGTTGTGAGTGCACAACATATTCGTAGATTAAACAAACTGCTACTA
1 ATTTGCAGTTACTGCCACTTCTTGTGAGTGCACAACATATTCGCAGATTAAACAAACTGCCACTA
92375714 GGTTT
66 GGTTT
92375719 TGTGGACAAG
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
83 2 0.03
84 59 0.97
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.33
Consensus pattern (84 bp):
ATTTGCAGTTACTGCCACTTCTTGTGAGTGCACAACATATTCGCAGATTAAACAAACTGCCACTA
GGTTTGTGACGAGCCACAT
Found at i:92382824 original size:28 final size:28
Alignment explanation
Indices: 92382793--92382882 Score: 126
Period size: 28 Copynumber: 3.2 Consensus size: 28
92382783 GGAATCAATC
*
92382793 AGGGGAAAAACTGTAAAATCTAAAAAAT
1 AGGGGAAAAACTATAAAATCTAAAAAAT
* *
92382821 AGGGGCAAAACTATAAATTCTAAAAAAT
1 AGGGGAAAAACTATAAAATCTAAAAAAT
* * *
92382849 AAGAGAAAAACTATAAAATCTAGAAAAT
1 AGGGGAAAAACTATAAAATCTAAAAAAT
92382877 AGGGGA
1 AGGGGA
92382883 CACGCGACTG
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 52 1.00
ACGTcount: A:0.57, C:0.08, G:0.18, T:0.18
Consensus pattern (28 bp):
AGGGGAAAAACTATAAAATCTAAAAAAT
Found at i:92386949 original size:68 final size:64
Alignment explanation
Indices: 92386751--92386981 Score: 193
Period size: 68 Copynumber: 3.5 Consensus size: 64
92386741 ACATGGTGAA
* * * * * *
92386751 CACTCAGTACCACCCATGTGACCTAGCCA-ATTTATCTCGTAGCTCTCTTGTCTACATGGTGT-
1 CACTCAGCACCACACATGTGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGATGTG
* * *
92386813 C-CTTCACCTGGAGCCACGCATGTGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGG
1 CAC-TCA---GCA-CCACACATGTGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGA
92386877 TGTG
61 TGTG
* * * **
92386881 CACAT-AGTATCACCCATGTGACCTAGCTACATCATAATGTCTTGTAGCTCTCTTGTAC-ACATG
1 CAC-TCAGCACCACACATGTGACCTAGCTACAT-AT-A--TCCCGTAGCTCTCTTGT-CTACATG
92386944 ATGTG
60 ATGTG
*
92386949 CACTCAGCACCATACATGTGACCTAGCTACATA
1 CACTCAGCACCACACATGTGACCTAGCTACATA
92386982 CTATTTGTAT
Statistics
Matches: 139, Mismatches: 16, Indels: 23
0.78 0.09 0.13
Matches are distributed among these distances:
61 1 0.01
62 4 0.03
64 21 0.15
65 6 0.04
66 19 0.14
67 33 0.24
68 52 0.37
69 3 0.02
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.30
Consensus pattern (64 bp):
CACTCAGCACCACACATGTGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGATGTG
Found at i:92387683 original size:30 final size:30
Alignment explanation
Indices: 92387647--92387707 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
92387637 TCCTTAACTC
92387647 AAACTTTGGAAAATTTACAATTTTGCCCCT
1 AAACTTTGGAAAATTTACAATTTTGCCCCT
* * * *
92387677 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAATTTACAATTTTGCCCCT
92387707 A
1 A
92387708 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (30 bp):
AAACTTTGGAAAATTTACAATTTTGCCCCT
Found at i:92392215 original size:22 final size:22
Alignment explanation
Indices: 92392171--92392211 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
92392161 ATATTTGATA
*
92392171 TTTATATTTATTTTTGAATTGT
1 TTTATATTTATTATTGAATTGT
92392193 TTTATA-TTATTATTGAATT
1 TTTATATTTATTATTGAATT
92392212 TGTTAACGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.66
Consensus pattern (22 bp):
TTTATATTTATTATTGAATTGT
Found at i:92394230 original size:28 final size:28
Alignment explanation
Indices: 92394173--92394230 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 28
92394163 TACAGGGGTT
*
92394173 TTCACACGGCCAAGCACATGCCCGTGTCC
1 TTCACACGGCCAA-CACACGCCCGTGTCC
92394202 TTCACACGGCCTAA-ACACGCCCGTGTCC
1 TTCACACGGCC-AACACACGCCCGTGTCC
92394230 T
1 T
92394231 CGCCTATGTC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 14 0.52
29 11 0.41
30 2 0.07
ACGTcount: A:0.21, C:0.41, G:0.19, T:0.19
Consensus pattern (28 bp):
TTCACACGGCCAACACACGCCCGTGTCC
Found at i:92395674 original size:51 final size:51
Alignment explanation
Indices: 92395533--92395675 Score: 205
Period size: 51 Copynumber: 2.8 Consensus size: 51
92395523 ACATGTAATA
* * ** *
92395533 CATCCATAATGAACTCGGACCTCTCAACGAGCTCAGATATTACGTGAATCG
1 CATCCATCATGAACTCGGACCACTCAACGAGCTCAGATGCTACATGAATCG
* * *
92395584 CATCCATCATGAACTCGGACCACTCAATGAGCTCGGATGCTACATGAATCT
1 CATCCATCATGAACTCGGACCACTCAACGAGCTCAGATGCTACATGAATCG
*
92395635 CATCCATCATGAACTCGAACCACTCAACGAGCTCAGATGCT
1 CATCCATCATGAACTCGGACCACTCAACGAGCTCAGATGCT
92395676 CGCATCTATA
Statistics
Matches: 81, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 81 1.00
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22
Consensus pattern (51 bp):
CATCCATCATGAACTCGGACCACTCAACGAGCTCAGATGCTACATGAATCG
Found at i:92400158 original size:41 final size:40
Alignment explanation
Indices: 92400113--92400190 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 40
92400103 ATAGTAGCAC
92400113 AATAGAATAGAACAAAAC-CAAAGCAGAACAAAACAGAATAG
1 AATAGAATAGAAC-AAACTCAAA-CAGAACAAAACAGAATAG
* * *
92400154 AATAGAGTAGAACAAACTTAAACAGAACAAAGCAGAA
1 AATAGAATAGAACAAACTCAAACAGAACAAAACAGAA
92400191 CCGAACAGAA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
40 18 0.55
41 15 0.45
ACGTcount: A:0.62, C:0.14, G:0.15, T:0.09
Consensus pattern (40 bp):
AATAGAATAGAACAAACTCAAACAGAACAAAACAGAATAG
Found at i:92400991 original size:29 final size:29
Alignment explanation
Indices: 92400949--92401009 Score: 104
Period size: 29 Copynumber: 2.1 Consensus size: 29
92400939 ATAGCTTAAA
* *
92400949 ACAGATTATACAGACCCTGCGGAAGGCCT
1 ACAGATCATACAGACCCTACGGAAGGCCT
92400978 ACAGATCATACAGACCCTACGGAAGGCCT
1 ACAGATCATACAGACCCTACGGAAGGCCT
92401007 ACA
1 ACA
92401010 TTCGAACCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.34, C:0.30, G:0.21, T:0.15
Consensus pattern (29 bp):
ACAGATCATACAGACCCTACGGAAGGCCT
Found at i:92405079 original size:18 final size:18
Alignment explanation
Indices: 92405053--92405096 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
92405043 TTAATAAATA
*
92405053 AAAACAAAAGAAAGTATT
1 AAAACAAAAGAAAATATT
* *
92405071 AAAATAAAATAAAATATT
1 AAAACAAAAGAAAATATT
*
92405089 AAATCAAA
1 AAAACAAA
92405097 CATTTTTTCT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.20
Consensus pattern (18 bp):
AAAACAAAAGAAAATATT
Found at i:92408071 original size:20 final size:20
Alignment explanation
Indices: 92408043--92408082 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
92408033 CATGTTTACC
* *
92408043 AAATATTATTCTTTTTATCA
1 AAATATTATACTTCTTATCA
*
92408063 AAATCTTATACTTCTTATCA
1 AAATATTATACTTCTTATCA
92408083 TATCACATAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.35, C:0.15, G:0.00, T:0.50
Consensus pattern (20 bp):
AAATATTATACTTCTTATCA
Found at i:92412560 original size:12 final size:12
Alignment explanation
Indices: 92412543--92412573 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
92412533 GGAATTGTTT
92412543 TTTTTTTCTTTC
1 TTTTTTTCTTTC
92412555 TTTTTTTCTTTC
1 TTTTTTTCTTTC
92412567 TTTTTTT
1 TTTTTTT
92412574 TTTAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (12 bp):
TTTTTTTCTTTC
Found at i:92412561 original size:16 final size:15
Alignment explanation
Indices: 92412540--92412576 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
92412530 AGTGGAATTG
92412540 TTTTTTTTTTCTTTC
1 TTTTTTTTTTCTTTC
92412555 TTTTTTTCTTTCTTT-
1 TTTTTTT-TTTCTTTC
92412570 TTTTTTT
1 TTTTTTT
92412577 AAATAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (15 bp):
TTTTTTTTTTCTTTC
Found at i:92412880 original size:18 final size:18
Alignment explanation
Indices: 92412831--92412880 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
92412821 ATATATAACT
*
92412831 ATAATAATAATAATAGTA
1 ATAATAATAATAAAAGTA
* * *
92412849 GTAGTTATAATAAAAGTA
1 ATAATAATAATAAAAGTA
*
92412867 ATAATAATACTAAA
1 ATAATAATAATAAA
92412881 TATAACAATA
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.58, C:0.02, G:0.08, T:0.32
Consensus pattern (18 bp):
ATAATAATAATAAAAGTA
Found at i:92413053 original size:18 final size:18
Alignment explanation
Indices: 92413010--92413054 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
92413000 ATTAAATTAC
92413010 AATAGTAA-AGTAATAAT
1 AATAGTAATAGTAATAAT
*
92413027 AATATTAATAGTAATAAT
1 AATAGTAATAGTAATAAT
92413045 ACA-AGTAATA
1 A-ATAGTAATA
92413055 AATATTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 7 0.29
18 16 0.67
19 1 0.04
ACGTcount: A:0.58, C:0.02, G:0.09, T:0.31
Consensus pattern (18 bp):
AATAGTAATAGTAATAAT
Found at i:92413473 original size:3 final size:3
Alignment explanation
Indices: 92413467--92413509 Score: 63
Period size: 3 Copynumber: 15.0 Consensus size: 3
92413457 AAATAAGATG
*
92413467 ATA ATA A-A A-A ATA ATA ATA ATA ATA ACA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
92413510 TATTATGAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 4 0.11
3 33 0.89
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:92415208 original size:44 final size:44
Alignment explanation
Indices: 92415160--92415305 Score: 125
Period size: 44 Copynumber: 3.3 Consensus size: 44
92415150 ACCTGTTACT
*
92415160 CTACTGCTTAGGGGGTTAAGGCCCTTCGTCTTCGATTTGCTCCA
1 CTACTACTTAGGGGGTTAAGGCCCTTCGTCTTCGATTTGCTCCA
* ** *** ** * * * *
92415204 CTACTACTTAGGGAGACAA-AATCTGTAAATTTTCAACTTGTTACC-
1 CTACTACTTAGGGGGTTAAGGCCCT-T-CGTCTTCGATTTGCT-CCA
92415249 CTACTACTTAGGGGGTTAAGGCCCTTCGTCTTCGATTTGCTCCA
1 CTACTACTTAGGGGGTTAAGGCCCTTCGTCTTCGATTTGCTCCA
*
92415293 CTACTGCTTAGGG
1 CTACTACTTAGGG
92415306 AGACAAGATC
Statistics
Matches: 71, Mismatches: 26, Indels: 10
0.66 0.24 0.09
Matches are distributed among these distances:
43 4 0.06
44 37 0.52
45 26 0.37
46 4 0.06
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.34
Consensus pattern (44 bp):
CTACTACTTAGGGGGTTAAGGCCCTTCGTCTTCGATTTGCTCCA
Found at i:92415385 original size:44 final size:43
Alignment explanation
Indices: 92415328--92415660 Score: 167
Period size: 44 Copynumber: 7.6 Consensus size: 43
92415318 TAAATTTAGC
* *
92415328 CTGTTACCCTACTGCTTAAGGGTTTAAGGCCCATTGCCTTCGAT
1 CTGTTTCCCTACTGCTT-AGGGTTTAAGGCCCATAGCCTTCGAT
* * ** ** *** * *
92415372 CTGTTTCCGTACTGCTTAGGGTGATAAGATCTGTAAATTTAG-C
1 CTGTTTCCCTACTGCTTAGGGT-TTAAGGCCCATAGCCTTCGAT
*
92415415 CTGTTAT-CCTACTGCTTAGGGGTTTAAGGCCCATCGCCTTCGAT
1 CTGTT-TCCCTACTGCTTA-GGGTTTAAGGCCCATAGCCTTCGAT
* ** ** *** * *
92415459 CTGTTTCCCTACTGCTTAGGGTGATAAGATCTGTAAATTTAG-C
1 CTGTTTCCCTACTGCTTAGGGT-TTAAGGCCCATAGCCTTCGAT
* *
92415502 CTGTTACCCTACTGCTTAGGCGTTTAAGGCCCATCA-CCTTCAAT
1 CTGTTTCCCTACTGCTTAGG-GTTTAAGGCCCAT-AGCCTTCGAT
* * ** ** ** *
92415546 CTATTTCCCTACTGCTTAGGGGGTTAAGATCTGTA-AATTC-AGC
1 CTGTTTCCCTACTGCTTA-GGGTTTAAGGCCCATAGCCTTCGA-T
* *
92415589 CTGTTACCCTACTGCTTAGGGGTTTAAGGTCCATCA-CCTTCGAT
1 CTGTTTCCCTACTGCTTA-GGGTTTAAGGCCCAT-AGCCTTCGAT
*
92415633 CTGTTTCCCTACTGCTTAAGGGGTTAAG
1 CTGTTTCCCTACTGCTT-AGGGTTTAAG
92415661 ATCTGTAAAT
Statistics
Matches: 207, Mismatches: 68, Indels: 28
0.68 0.22 0.09
Matches are distributed among these distances:
42 1 0.00
43 93 0.45
44 109 0.53
45 4 0.02
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (43 bp):
CTGTTTCCCTACTGCTTAGGGTTTAAGGCCCATAGCCTTCGAT
Found at i:92415386 original size:87 final size:87
Alignment explanation
Indices: 92415019--92415705 Score: 828
Period size: 87 Copynumber: 7.8 Consensus size: 87
92415009 AATTTCCAGC
* * * * * *
92415019 CTGTTACCCTACTGCTTAGGGTGATAAGATATGTAATTTTCAGCCTGTTTCCCTACTACTTAGGG
1 CTGTTTCCCTACTGCTTAGGGAGATAAGATCTGTAAATTT-AGCCTGTTACCCTACTGCTTAGGG
92415084 GTTTAAGGCCCATTGCCTTCGAT
65 GTTTAAGGCCCATTGCCTTCGAT
* * * * *
92415107 CTGTTTCCACTACTGCTTAGGGAGACAAGATTTGTAATTTTCAACCTGTTACTCTACTGCTTAGG
1 CTGTTTCC-CTACTGCTTAGGGAGATAAGATCTGTAAATTT-AGCCTGTTACCCTACTGCTTAGG
* *
92415172 GGGTTAAGGCCC-TTCGTCTTCGAT
64 GGTTTAAGGCCCATT-GCCTTCGAT
* * * * * * * *
92415196 TTG-CTCCACTACTACTTAGGGAGACAAAATCTGTAAATTTTCAACTTGTTACCCTACTACTTAG
1 CTGTTTCC-CTACTGCTTAGGGAGATAAGATCTGTAAA-TTT-AGCCTGTTACCCTACTGCTTAG
* *
92415260 GGGGTTAAGGCCC-TTCGTCTTCGAT
63 GGGTTTAAGGCCCATT-GCCTTCGAT
* * * *
92415285 TTG-CTCCACTACTGCTTAGGGAGACAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAAGG
1 CTGTTTCC-CTACTGCTTAGGGAGATAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGG
92415349 GTTTAAGGCCCATTGCCTTCGAT
65 GTTTAAGGCCCATTGCCTTCGAT
* * *
92415372 CTGTTTCCGTACTGCTTAGGGTGATAAGATCTGTAAATTTAGCCTGTTATCCTACTGCTTAGGGG
1 CTGTTTCCCTACTGCTTAGGGAGATAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGG
*
92415437 TTTAAGGCCCATCGCCTTCGAT
66 TTTAAGGCCCATTGCCTTCGAT
* *
92415459 CTGTTTCCCTACTGCTTAGGGTGATAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGCG
1 CTGTTTCCCTACTGCTTAGGGAGATAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGG
** *
92415524 TTTAAGGCCCATCACCTTCAAT
66 TTTAAGGCCCATTGCCTTCGAT
* * * *
92415546 CTATTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACCCTACTGCTTAGGGG
1 CTGTTTCCCTACTGCTTAGGGAGATAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGG
* **
92415611 TTTAAGGTCCATCACCTTCGAT
66 TTTAAGGCCCATTGCCTTCGAT
* *
92415633 CTGTTTCCCTACTGCTTAAGGG-GTTAAGATCTGTAAATTTGGCCTGTTACCCTACTGCTTAAGG
1 CTGTTTCCCTACTGCTT-AGGGAGATAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTT-AGG
92415697 GG-TTAAGGC
64 GGTTTAAGGC
92415706 TTGTGAATTT
Statistics
Matches: 541, Mismatches: 51, Indels: 15
0.89 0.08 0.02
Matches are distributed among these distances:
87 333 0.62
88 55 0.10
89 153 0.28
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (87 bp):
CTGTTTCCCTACTGCTTAGGGAGATAAGATCTGTAAATTTAGCCTGTTACCCTACTGCTTAGGGG
TTTAAGGCCCATTGCCTTCGAT
Found at i:92415715 original size:43 final size:43
Alignment explanation
Indices: 92415293--92415703 Score: 179
Period size: 43 Copynumber: 9.5 Consensus size: 43
92415283 ATTTGCTCCA
** *
92415293 CTACTGCTT-AGGGAGACAAGATCTGTAAATTTAGCCTGTTACC
1 CTACTGCTTAAGGG-GTTAAGATCTGTAAATTTGGCCTGTTACC
* ** *** * ** *
92415336 CTACTGCTTAAGGGTTTAAGGCCCAT-TGCCTTCGATCTGTTTCC
1 CTACTGCTTAAGGGGTTAA-GATC-TGTAAATTTGGCCTGTTACC
* * * *
92415380 GTACTGCTT-AGGGTGATAAGATCTGTAAATTTAGCCTGTTATC
1 CTACTGCTTAAGGG-GTTAAGATCTGTAAATTTGGCCTGTTACC
** ** *** * ** *
92415423 CTACTGCTT-AGGGGTTTAAGGCCCATCGCCTTCGATCTGTTTCC
1 CTACTGCTTAAGGGG-TTAAGATCTGT-AAATTTGGCCTGTTACC
* *
92415467 CTACTGCTT-AGGGTGATAAGATCTGTAAATTTAGCCTGTTACC
1 CTACTGCTTAAGGG-GTTAAGATCTGTAAATTTGGCCTGTTACC
* ** ** ** **** * *
92415510 CTACTGCTT-AGGCGTTTAAGGCCCATCACCTTCAATCTATTTCC
1 CTACTGCTTAAGG-GGTTAAGATCTGT-AAATTTGGCCTGTTACC
* **
92415554 CTACTGCTTAGGGGGTTAAGATCTGTAAATTCAGCCTGTTACC
1 CTACTGCTTAAGGGGTTAAGATCTGTAAATTTGGCCTGTTACC
* ** ** * ** *
92415597 CTACTGCTT-AGGGGTTTAAGGTCCATCACCTTCGATCTGTTTCC
1 CTACTGCTTAAGGGG-TTAAGATCTGT-AAATTTGGCCTGTTACC
92415641 CTACTGCTTAAGGGGTTAAGATCTGTAAATTTGGCCTGTTACC
1 CTACTGCTTAAGGGGTTAAGATCTGTAAATTTGGCCTGTTACC
92415684 CTACTGCTTAAGGGGTTAAG
1 CTACTGCTTAAGGGGTTAAG
92415704 GCTTGTGAAT
Statistics
Matches: 255, Mismatches: 99, Indels: 28
0.67 0.26 0.07
Matches are distributed among these distances:
42 6 0.02
43 130 0.51
44 110 0.43
45 9 0.04
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.34
Consensus pattern (43 bp):
CTACTGCTTAAGGGGTTAAGATCTGTAAATTTGGCCTGTTACC
Found at i:92420040 original size:18 final size:19
Alignment explanation
Indices: 92420019--92420282 Score: 108
Period size: 18 Copynumber: 14.3 Consensus size: 19
92420009 GAACAATTAT
* *
92420019 TTATTCAG-TAACAGTCAC
1 TTATTCAGATAACAATCAA
92420037 TTATTC-GATAACAATCAA
1 TTATTCAGATAACAATCAA
* * *
92420055 TTATTCA-ATAATAACCAG
1 TTATTCAGATAACAATCAA
* *
92420073 TTATTCAGTATCGACCAATTGATCGA
1 TTATTCAG-AT--AAC-A---ATCAA
* *
92420099 TTATCCAG-TAACAGTCAA
1 TTATTCAGATAACAATCAA
*
92420117 TTATTTAG-TAA-AATCAGA
1 TTATTCAGATAACAATCA-A
** *
92420135 -TATTCAG-TAGTAATTAA
1 TTATTCAGATAACAATCAA
* * *
92420152 GTATTCAG-TAACAGTCAT
1 TTATTCAGATAACAATCAA
*
92420170 TTATTCAG-TGACAATCAA
1 TTATTCAGATAACAATCAA
* **
92420188 TGATTCAG-TAATGATCAA
1 TTATTCAGATAACAATCAA
* *
92420206 TTATTCAG-TAATATTCAA
1 TTATTCAGATAACAATCAA
*
92420224 TTATTCAG-TAACAGTCAA
1 TTATTCAGATAACAATCAA
* *
92420242 TTATTC-GGTAACAGTCAA
1 TTATTCAGATAACAATCAA
* *
92420260 TTATTCAG-TAATAATCAG
1 TTATTCAGATAACAATCAA
92420278 TTATT
1 TTATT
92420283 TTATACCTTT
Statistics
Matches: 190, Mismatches: 41, Indels: 30
0.73 0.16 0.11
Matches are distributed among these distances:
17 15 0.08
18 157 0.83
19 1 0.01
20 2 0.01
21 1 0.01
22 3 0.02
23 1 0.01
24 1 0.01
26 9 0.05
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (19 bp):
TTATTCAGATAACAATCAA
Found at i:92420211 original size:54 final size:52
Alignment explanation
Indices: 92420092--92420270 Score: 171
Period size: 54 Copynumber: 3.3 Consensus size: 52
92420082 ATCGACCAAT
* * * * *
92420092 TGATCGATTATCCAGTAACAGTCAATTATTTAGTAAAATCAGATATTCAGTAG
1 TGATCAATTATTCAGTAACAGTCAATTATTCAGTACAATCA-ATATTCAGTAA
* * * *
92420145 TAATTAAGTATTCAGTAACAGTCATTTATTCAGTGACAATCAATGATTCAGTAA
1 TGATCAATTATTCAGTAACAGTCAATTATTCAGT-ACAATCAAT-ATTCAGTAA
* * * *
92420199 TGATCAATTATTCAGTAATATTCAATTATTCAGTAACAGTCAATTATTCGGTAA
1 TGATCAATTATTCAGTAACAGTCAATTATTCAGT-ACAATCAA-TATTCAGTAA
*
92420253 -CAGTCAATTATTCAGTAA
1 TGA-TCAATTATTCAGTAA
92420271 TAATCAGTTA
Statistics
Matches: 103, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
53 30 0.29
54 72 0.70
55 1 0.01
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (52 bp):
TGATCAATTATTCAGTAACAGTCAATTATTCAGTACAATCAATATTCAGTAA
Found at i:92420282 original size:36 final size:36
Alignment explanation
Indices: 92420098--92420282 Score: 167
Period size: 36 Copynumber: 5.2 Consensus size: 36
92420088 CAATTGATCG
* * *
92420098 ATTATCCAGTAACAGTCAATTATTTAGTAA-AATCA
1 ATTATTCAGTAACAATCAATTATTCAGTAACAATCA
** * * *
92420133 GA-TATTCAGTAGTAATTAAGTATTCAGTAACAGTCA
1 -ATTATTCAGTAACAATCAATTATTCAGTAACAATCA
* * * **
92420169 TTTATTCAGTGACAATCAATGATTCAGTAATGATCA
1 ATTATTCAGTAACAATCAATTATTCAGTAACAATCA
* * *
92420205 ATTATTCAGTAATATTCAATTATTCAGTAACAGTCA
1 ATTATTCAGTAACAATCAATTATTCAGTAACAATCA
* * *
92420241 ATTATTCGGTAACAGTCAATTATTCAGTAATAATCA
1 ATTATTCAGTAACAATCAATTATTCAGTAACAATCA
*
92420277 GTTATT
1 ATTATT
92420283 TTATACCTTT
Statistics
Matches: 115, Mismatches: 32, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
35 21 0.18
36 94 0.82
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.37
Consensus pattern (36 bp):
ATTATTCAGTAACAATCAATTATTCAGTAACAATCA
Found at i:92420682 original size:21 final size:21
Alignment explanation
Indices: 92420648--92420698 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 21
92420638 TTCAGTTTTC
*
92420648 AATTAATTTATATTTT-AATT
1 AATTAATGTATATTTTCAATT
92420668 AATTAACTGTATATTTTCAATT
1 AATTAA-TGTATATTTTCAATT
92420690 CAATATAAT
1 -AAT-TAAT
92420699 TCCATTCACT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 6 0.23
21 9 0.35
22 4 0.15
23 4 0.15
24 3 0.12
ACGTcount: A:0.41, C:0.06, G:0.02, T:0.51
Consensus pattern (21 bp):
AATTAATGTATATTTTCAATT
Found at i:92427717 original size:22 final size:22
Alignment explanation
Indices: 92427673--92427717 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
92427663 TGCAGCACTA
* *
92427673 TTTTAAGTTCTTCTATCTTCTC
1 TTTTAAGTTCTTCGATCTGCTC
92427695 TTTTAA-TTCTTCGATTCTGCTC
1 TTTTAAGTTCTTCGA-TCTGCTC
92427717 T
1 T
92427718 GACTAGCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.13, C:0.22, G:0.07, T:0.58
Consensus pattern (22 bp):
TTTTAAGTTCTTCGATCTGCTC
Found at i:92431507 original size:18 final size:17
Alignment explanation
Indices: 92431480--92431517 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
92431470 TAGAATCAAC
92431480 ATATTATATA-AAAACGT
1 ATATTATATATAAAAC-T
92431497 ATATATATATATAAAACT
1 ATAT-TATATATAAAACT
92431515 ATA
1 ATA
92431518 ATAATAATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 4 0.21
18 10 0.53
19 5 0.26
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.37
Consensus pattern (17 bp):
ATATTATATATAAAACT
Found at i:92431523 original size:3 final size:3
Alignment explanation
Indices: 92431515--92431729 Score: 50
Period size: 3 Copynumber: 72.0 Consensus size: 3
92431505 ATATAAAACT
* * * * *
92431515 ATA ATA ATA ATA GTA GTA GTT ATA ATA A-A AGTA ATA ATA ATA CTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA
* * * * *** *
92431560 A-A TATA ATA ATA ATA GTA TTA GTG ATA A-A ATA ATA GCG ATA AAA
1 ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
92431604 ATA GA-A ATA ATG ACA ATA ACA ATA A-A GAGTA ATG GTA ATA ATA ATA
1 ATA -ATA ATA ATA ATA ATA ATA ATA ATA -A-TA ATA ATA ATA ATA ATA
* * * * * * *
92431650 ATA ATGA A-A ATA AGA GTA ATA TTA GTA ATA CATT A-A ATT ACA ATA
1 ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA
* * * *
92431695 GTA A-A GTA ATA ATA ATA ATA TTA ATA GTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
92431730 CAAGTAATAA
Statistics
Matches: 146, Mismatches: 51, Indels: 30
0.64 0.22 0.13
Matches are distributed among these distances:
2 11 0.08
3 125 0.86
4 9 0.06
5 1 0.01
ACGTcount: A:0.57, C:0.03, G:0.10, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:92436604 original size:7 final size:7
Alignment explanation
Indices: 92436594--92436687 Score: 64
Period size: 7 Copynumber: 13.4 Consensus size: 7
92436584 AGTTTAAGAT
92436594 TTAGGGG
1 TTAGGGG
*
92436601 TTAGAGG
1 TTAGGGG
* **
92436608 TTAAGAA
1 TTAGGGG
92436615 TTAGGGG
1 TTAGGGG
*
92436622 TTAGGAGA
1 TTAGG-GG
* *
92436630 TAAGGAG
1 TTAGGGG
92436637 -TAGGGG
1 TTAGGGG
*
92436643 TTATGGG
1 TTAGGGG
* * *
92436650 ATAAGGA
1 TTAGGGG
92436657 TTAGGGG
1 TTAGGGG
92436664 TTAGGGG
1 TTAGGGG
92436671 TTAGGGG
1 TTAGGGG
*
92436678 TTAAGGG
1 TTAGGGG
92436685 TTA
1 TTA
92436688 AGAGTTTATG
Statistics
Matches: 63, Mismatches: 22, Indels: 4
0.71 0.25 0.04
Matches are distributed among these distances:
6 4 0.06
7 54 0.86
8 5 0.08
ACGTcount: A:0.28, C:0.00, G:0.45, T:0.28
Consensus pattern (7 bp):
TTAGGGG
Found at i:92436633 original size:21 final size:21
Alignment explanation
Indices: 92436588--92436668 Score: 85
Period size: 21 Copynumber: 3.9 Consensus size: 21
92436578 AGTTGGAGTT
* *
92436588 TAAGATTTAGGGGTTA-GAGGT
1 TAAGAATTAGGGGTTAGGA-GA
92436609 TAAGAATTAGGGGTTAGGAGA
1 TAAGAATTAGGGGTTAGGAGA
* *
92436630 TAAGGAGTAGGGGTTATGG-GA
1 TAAGAATTAGGGGTTA-GGAGA
*
92436651 TAAGGATTAGGGGTTAGG
1 TAAGAATTAGGGGTTAGG
92436669 GGTTAGGGGT
Statistics
Matches: 53, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
20 2 0.04
21 47 0.89
22 4 0.08
ACGTcount: A:0.31, C:0.00, G:0.42, T:0.27
Consensus pattern (21 bp):
TAAGAATTAGGGGTTAGGAGA
Found at i:92436710 original size:14 final size:14
Alignment explanation
Indices: 92436657--92436709 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
92436647 GGGATAAGGA
*
92436657 TTAGGGGTTAGGGG
1 TTAGGGGTTAGGGT
92436671 TTAGGGGTTAAGGGT
1 TTAGGGGTT-AGGGT
* * * *
92436686 TAAGAGTTTATGGT
1 TTAGGGGTTAGGGT
92436700 TTAGGGGTTA
1 TTAGGGGTTA
92436710 TAGTCTAAGG
Statistics
Matches: 30, Mismatches: 8, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
14 20 0.67
15 10 0.33
ACGTcount: A:0.21, C:0.00, G:0.43, T:0.36
Consensus pattern (14 bp):
TTAGGGGTTAGGGT
Found at i:92440018 original size:3 final size:3
Alignment explanation
Indices: 92439996--92440065 Score: 81
Period size: 3 Copynumber: 24.0 Consensus size: 3
92439986 GTTTAAAAAG
* * *
92439996 AGA AAA AGA AGA A-A AAA AGA AGA AGA AGA AGA AGA AAA AGA AGA AG-
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
* *
92440042 AGG AGA AGA AAA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA
92440066 GAAAAAATAG
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
2 4 0.07
3 53 0.93
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:92440019 original size:20 final size:21
Alignment explanation
Indices: 92439990--92440072 Score: 95
Period size: 20 Copynumber: 4.2 Consensus size: 21
92439980 TTTAGGGTTT
92439990 AAAAAG-AGAAAAAGAAGAA-
1 AAAAAGAAGAAAAAGAAGAAG
*
92440009 AAAAAGAAGAAGAAGAAGAAG
1 AAAAAGAAGAAAAAGAAGAAG
* *
92440030 AAAAAGAAG-AAGAGGAGAAG
1 AAAAAGAAGAAAAAGAAGAAG
*
92440050 AAAAAGAAGAAGAAG-AGAA-
1 AAAAAGAAGAAAAAGAAGAAG
92440069 AAAA
1 AAAA
92440073 TAGAGATGTA
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
19 10 0.18
20 33 0.60
21 12 0.22
ACGTcount: A:0.73, C:0.00, G:0.27, T:0.00
Consensus pattern (21 bp):
AAAAAGAAGAAAAAGAAGAAG
Found at i:92440032 original size:32 final size:32
Alignment explanation
Indices: 92439996--92440063 Score: 100
Period size: 32 Copynumber: 2.1 Consensus size: 32
92439986 GTTTAAAAAG
*
92439996 AGAAAAAGAAGAAAAAAAGAAGAAGAAGAAGA
1 AGAAAAAGAAGAAAAAAAGAAGAAAAAGAAGA
* **
92440028 AGAAAAAGAAGAAGAGGAGAAGAAAAAGAAGA
1 AGAAAAAGAAGAAAAAAAGAAGAAAAAGAAGA
92440060 AGAA
1 AGAA
92440064 GAGAAAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (32 bp):
AGAAAAAGAAGAAAAAAAGAAGAAAAAGAAGA
Found at i:92441357 original size:3 final size:3
Alignment explanation
Indices: 92441351--92441404 Score: 99
Period size: 3 Copynumber: 18.0 Consensus size: 3
92441341 TTTTACAATC
*
92441351 TCT TCT TTT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
92441399 TCT TCT
1 TCT TCT
92441405 CTGTTATTAA
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TCT
Found at i:92441507 original size:21 final size:21
Alignment explanation
Indices: 92441481--92441520 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
92441471 AACGTGGCAA
92441481 GTTAACTTGCCACATCAGCTG
1 GTTAACTTGCCACATCAGCTG
92441502 GTTAACTTGCCACATCAGC
1 GTTAACTTGCCACATCAGC
92441521 AGTCCCGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (21 bp):
GTTAACTTGCCACATCAGCTG
Found at i:92441608 original size:30 final size:31
Alignment explanation
Indices: 92441556--92441623 Score: 95
Period size: 30 Copynumber: 2.2 Consensus size: 31
92441546 CTGTTAATCG
*
92441556 GTGACTGTTTTGTCACTTTTTTATAACGTT-A
1 GTGACTGTTTTGTCACTTTTTTA-AAAGTTGA
*
92441587 GTGACTGTTTTGTTA-TTTTTTAAAAGTTGA
1 GTGACTGTTTTGTCACTTTTTTAAAAGTTGA
92441617 GTGACTG
1 GTGACTG
92441624 ATATGAAACC
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
29 5 0.15
30 15 0.44
31 14 0.41
ACGTcount: A:0.21, C:0.09, G:0.21, T:0.50
Consensus pattern (31 bp):
GTGACTGTTTTGTCACTTTTTTAAAAGTTGA
Found at i:92442775 original size:23 final size:22
Alignment explanation
Indices: 92442749--92442795 Score: 67
Period size: 23 Copynumber: 2.1 Consensus size: 22
92442739 TGGATTAATA
*
92442749 AAAGTAAAAGACATGTCTATATT
1 AAAGCAAAAGACATGT-TATATT
*
92442772 AAAGCAAAAGACATGTTATTTT
1 AAAGCAAAAGACATGTTATATT
92442794 AA
1 AA
92442796 TTATTATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.49, C:0.09, G:0.13, T:0.30
Consensus pattern (22 bp):
AAAGCAAAAGACATGTTATATT
Found at i:92442816 original size:19 final size:19
Alignment explanation
Indices: 92442792--92442894 Score: 65
Period size: 19 Copynumber: 5.3 Consensus size: 19
92442782 ACATGTTATT
92442792 TTAATTATTATAATTTGGA
1 TTAATTATTATAATTTGGA
92442811 TTAATTTATGTA-AATATT--A
1 TTAA-TTAT-TATAAT-TTGGA
* *
92442830 TTTATTTAATATAATTTGGA
1 -TTAATTATTATAATTTGGA
92442850 TTAATTTATT-TAAATATT--A
1 TTAA-TTATTAT-AAT-TTGGA
*
92442869 TTTAATTAATATAATTTGGA
1 -TTAATTATTATAATTTGGA
92442889 TTAATT
1 TTAATT
92442895 TATTTAAATA
Statistics
Matches: 65, Mismatches: 5, Indels: 28
0.66 0.05 0.29
Matches are distributed among these distances:
18 6 0.09
19 29 0.45
20 24 0.37
21 6 0.09
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (19 bp):
TTAATTATTATAATTTGGA
Found at i:92442844 original size:39 final size:39
Alignment explanation
Indices: 92442791--92442905 Score: 203
Period size: 39 Copynumber: 2.9 Consensus size: 39
92442781 GACATGTTAT
* *
92442791 TTTAATTATTATAATTTGGATTAATTTATGTAAATATTA
1 TTTAATTAATATAATTTGGATTAATTTATTTAAATATTA
*
92442830 TTTATTTAATATAATTTGGATTAATTTATTTAAATATTA
1 TTTAATTAATATAATTTGGATTAATTTATTTAAATATTA
92442869 TTTAATTAATATAATTTGGATTAATTTATTTAAATAT
1 TTTAATTAATATAATTTGGATTAATTTATTTAAATAT
92442906 ATAAGAATTT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 72 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (39 bp):
TTTAATTAATATAATTTGGATTAATTTATTTAAATATTA
Found at i:92442876 original size:24 final size:24
Alignment explanation
Indices: 92442829--92442878 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
92442819 TGTAAATATT
*
92442829 ATTTATTTAATATAATTTGGATTA
1 ATTTATTTAATATAATTTGAATTA
*
92442853 ATTTATTTAAATATTATTT-AATTA
1 ATTTATTT-AATATAATTTGAATTA
92442877 AT
1 AT
92442879 ATAATTTGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 14 0.61
25 9 0.39
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (24 bp):
ATTTATTTAATATAATTTGAATTA
Found at i:92443044 original size:27 final size:27
Alignment explanation
Indices: 92443006--92443171 Score: 205
Period size: 27 Copynumber: 6.2 Consensus size: 27
92442996 TATATAATTG
92443006 AACTTACATAACTCACATAACTTACAT
1 AACTTACATAACTCACATAACTTACAT
*
92443033 AACTTATATAACTCACATAACTTACAT
1 AACTTACATAACTCACATAACTTACAT
* *
92443060 AACTTATATAACTCACATAACTCACAT
1 AACTTACATAACTCACATAACTTACAT
*
92443087 AACTTACATAACTCACATAACTCACAT
1 AACTTACATAACTCACATAACTTACAT
* *
92443114 AACTCACATAACTTACATAA--TACAT
1 AACTTACATAACTCACATAACTTACAT
* * *
92443139 AA-GTAGATAGCAT-ATCATAACTTACAT
1 AACTTACATAAC-TCA-CATAACTTACAT
92443166 AACTTA
1 AACTTA
92443172 ATTATACTTA
Statistics
Matches: 123, Mismatches: 11, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
24 6 0.05
25 12 0.10
27 103 0.84
28 2 0.02
ACGTcount: A:0.45, C:0.23, G:0.02, T:0.30
Consensus pattern (27 bp):
AACTTACATAACTCACATAACTTACAT
Found at i:92443168 original size:9 final size:9
Alignment explanation
Indices: 92443006--92443171 Score: 185
Period size: 9 Copynumber: 18.7 Consensus size: 9
92442996 TATATAATTG
92443006 AACTTACAT
1 AACTTACAT
*
92443015 AACTCACAT
1 AACTTACAT
92443024 AACTTACAT
1 AACTTACAT
*
92443033 AACTTATAT
1 AACTTACAT
*
92443042 AACTCACAT
1 AACTTACAT
92443051 AACTTACAT
1 AACTTACAT
*
92443060 AACTTATAT
1 AACTTACAT
*
92443069 AACTCACAT
1 AACTTACAT
*
92443078 AACTCACAT
1 AACTTACAT
92443087 AACTTACAT
1 AACTTACAT
*
92443096 AACTCACAT
1 AACTTACAT
*
92443105 AACTCACAT
1 AACTTACAT
*
92443114 AACTCACAT
1 AACTTACAT
92443123 AACTTACAT
1 AACTTACAT
92443132 AA--TACAT
1 AACTTACAT
* *
92443139 AA-GTAGAT
1 AACTTACAT
* *
92443147 AGCATATCAT
1 AACTTA-CAT
92443157 AACTTACAT
1 AACTTACAT
92443166 AACTTA
1 AACTTA
92443172 ATTATACTTA
Statistics
Matches: 136, Mismatches: 18, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
7 7 0.05
8 5 0.04
9 118 0.87
10 6 0.04
ACGTcount: A:0.45, C:0.23, G:0.02, T:0.30
Consensus pattern (9 bp):
AACTTACAT
Found at i:92448245 original size:13 final size:14
Alignment explanation
Indices: 92448229--92448257 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
92448219 TTATAAATAT
92448229 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
92448242 TTATAATGGTTTAA
1 TTATAATGGTTTAA
92448256 TT
1 TT
92448258 CCTCATTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:92448720 original size:21 final size:21
Alignment explanation
Indices: 92448676--92448728 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
92448666 AGGCAGTAGA
* *
92448676 GAGGGAGGGAGCGACAGCAAC
1 GAGGGAGGCAGCGACAACAAC
*
92448697 GAGGGAGGCAGCGACAACAGC
1 GAGGGAGGCAGCGACAACAAC
*
92448718 GAGAGAGGCAG
1 GAGGGAGGCAG
92448729 AAGCAGTAGC
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.34, C:0.19, G:0.47, T:0.00
Consensus pattern (21 bp):
GAGGGAGGCAGCGACAACAAC
Found at i:92449161 original size:29 final size:29
Alignment explanation
Indices: 92449118--92449173 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
92449108 AAGCCATGAT
*
92449118 TTTTAGCGGCACTTTTCCCACAAACACAC
1 TTTTAGCAGCACTTTTCCCACAAACACAC
*
92449147 TTTTAGCAGCGCTTTTCCCACAAACAC
1 TTTTAGCAGCACTTTTCCCACAAACAC
92449174 GCCGCTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.27, C:0.34, G:0.11, T:0.29
Consensus pattern (29 bp):
TTTTAGCAGCACTTTTCCCACAAACACAC
Found at i:92452499 original size:46 final size:47
Alignment explanation
Indices: 92452401--92452571 Score: 185
Period size: 46 Copynumber: 3.7 Consensus size: 47
92452391 CACTCGTGTG
**
92452401 AGCTAGTGTAAGACATGTCTGGGACATGGCATCCATATT-GAGACG-A
1 AGCTAGTGTAAGACATGTCTGGGACATGGCAT-CAGCTTCGAGACGTA
* *
92452447 GTGCTAGTGTAAGACATGTTTGGGACAT-GCATCAGCTTCGAGACGTA
1 -AGCTAGTGTAAGACATGTCTGGGACATGGCATCAGCTTCGAGACGTA
* * * *
92452494 AGCTAGTGTAAGACATGTCTGGAACAT-GCATCGGCTACGAGATGT-
1 AGCTAGTGTAAGACATGTCTGGGACATGGCATCAGCTTCGAGACGTA
92452539 -G-TCAGTGTAAGACCATGTCTGGGACATGGCATC
1 AGCT-AGTGTAAGA-CATGTCTGGGACATGGCATC
92452572 GGCACAGATA
Statistics
Matches: 108, Mismatches: 11, Indels: 11
0.83 0.08 0.08
Matches are distributed among these distances:
43 1 0.01
44 10 0.09
45 17 0.16
46 54 0.50
47 26 0.24
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.25
Consensus pattern (47 bp):
AGCTAGTGTAAGACATGTCTGGGACATGGCATCAGCTTCGAGACGTA
Found at i:92455124 original size:19 final size:17
Alignment explanation
Indices: 92455085--92455126 Score: 68
Period size: 16 Copynumber: 2.5 Consensus size: 17
92455075 GGTGCGACCC
92455085 ATTTTTTTAATAATATA
1 ATTTTTTTAATAATATA
92455102 ATTTTTTTAA-AATATA
1 ATTTTTTTAATAATATA
*
92455118 ATTATTTTA
1 ATTTTTTTA
92455127 TTATATTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 14 0.58
17 10 0.42
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTTTTTTAATAATATA
Found at i:92455376 original size:3 final size:3
Alignment explanation
Indices: 92455357--92455417 Score: 63
Period size: 3 Copynumber: 20.3 Consensus size: 3
92455347 TGAATGCAGC
*
92455357 AGA A-A AGA GAGA A-A AGA AGA AGA AGA AGA AGA AGA AGA AGG AGA
1 AGA AGA AGA -AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
* *
92455401 AGG AGG AGAA AGA AGA A
1 AGA AGA AG-A AGA AGA A
92455418 AAAAATGTTA
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
2 4 0.08
3 41 0.82
4 5 0.10
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:92456506 original size:11 final size:11
Alignment explanation
Indices: 92456471--92456498 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
92456461 GAGAGTAAGA
92456471 AATTTTAATGT
1 AATTTTAATGT
92456482 AATTTTAATGT
1 AATTTTAATGT
92456493 AATTTT
1 AATTTT
92456499 GATATAATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (11 bp):
AATTTTAATGT
Found at i:92462374 original size:16 final size:16
Alignment explanation
Indices: 92462355--92462390 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
92462345 AAAATATAAT
92462355 AAAATAATAATATTAA
1 AAAATAATAATATTAA
* *
92462371 AAAATTATATTATTAA
1 AAAATAATAATATTAA
92462387 AAAA
1 AAAA
92462391 ATAAGTCGCG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AAAATAATAATATTAA
Found at i:92463904 original size:24 final size:25
Alignment explanation
Indices: 92463858--92463904 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
92463848 ATATTTATTT
92463858 TTATATCATAAAAGATTAAAATTAA
1 TTATATCATAAAAGATTAAAATTAA
*
92463883 TTATAT-ATTAAAA-ATTAGAATT
1 TTATATCA-TAAAAGATTAAAATT
92463905 TGATTCAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 9 0.45
25 11 0.55
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.40
Consensus pattern (25 bp):
TTATATCATAAAAGATTAAAATTAA
Found at i:92466474 original size:49 final size:49
Alignment explanation
Indices: 92466417--92466518 Score: 177
Period size: 49 Copynumber: 2.1 Consensus size: 49
92466407 CCAGAGGAAT
*
92466417 CCATAACACGAAGGGAAAGTTGGAGTATATTCATTATGATCTGTGGGGG
1 CCATAACACGAAGGGAAAGTTGGAGTATATTCATTATGATCTGTGGCGG
* *
92466466 CCATAACACGAAGGGAACGTTGGAGTATATTCATTCTGATCTGTGGCGG
1 CCATAACACGAAGGGAAAGTTGGAGTATATTCATTATGATCTGTGGCGG
92466515 CCAT
1 CCAT
92466519 CTAGAGTGCC
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.26
Consensus pattern (49 bp):
CCATAACACGAAGGGAAAGTTGGAGTATATTCATTATGATCTGTGGCGG
Found at i:92470277 original size:30 final size:30
Alignment explanation
Indices: 92470230--92470308 Score: 103
Period size: 30 Copynumber: 2.8 Consensus size: 30
92470220 TTTAAATAAC
* *
92470230 TTTTAAA-T-AAT-TAAATTATTTGTTAAA
1 TTTTAAATTAAATATAAATTACTTGTGAAA
92470257 TTTTAAATTAAATATAAATTACTTGTGAAA
1 TTTTAAATTAAATATAAATTACTTGTGAAA
*
92470287 TTTTAAATTAAA-ATAATTTACT
1 TTTTAAATTAAATATAAATTACT
92470309 AATTAAATTT
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
27 7 0.15
28 1 0.02
29 12 0.26
30 26 0.57
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.48
Consensus pattern (30 bp):
TTTTAAATTAAATATAAATTACTTGTGAAA
Found at i:92470316 original size:29 final size:30
Alignment explanation
Indices: 92470252--92470318 Score: 91
Period size: 29 Copynumber: 2.3 Consensus size: 30
92470242 AAATTATTTG
**
92470252 TTAAATTTTAAATTAAATATAAATTACTTG
1 TTAAATTTTAAATTAAATATAAATTACTAA
* *
92470282 TGAAATTTTAAATTAAA-ATAATTTACTAA
1 TTAAATTTTAAATTAAATATAAATTACTAA
92470311 TTAAATTT
1 TTAAATTT
92470319 AATAATTTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 16 0.50
30 16 0.50
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.46
Consensus pattern (30 bp):
TTAAATTTTAAATTAAATATAAATTACTAA
Found at i:92470829 original size:32 final size:31
Alignment explanation
Indices: 92470768--92470829 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
92470758 ATAATTTACA
*
92470768 TATTATAATATTAAATTATTTAAATATTATT
1 TATTATAATATTAAATTATTTAAAAATTATT
*
92470799 TATTATTATATTTAAA-TATTTAAAAAATTAT
1 TATTATAATA-TTAAATTATTT-AAAAATTAT
92470830 ATATAAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 14 0.52
32 13 0.48
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (31 bp):
TATTATAATATTAAATTATTTAAAAATTATT
Found at i:92470831 original size:22 final size:23
Alignment explanation
Indices: 92470803--92470856 Score: 67
Period size: 22 Copynumber: 2.3 Consensus size: 23
92470793 ATTATTTATT
92470803 ATTATATTTAAATATTTA-AAA-A
1 ATTATATTTAAAT-TTTACAAATA
*
92470825 ATTATATATAAATTTTACAAATA
1 ATTATATTTAAATTTTACAAATA
92470848 ATTTATATT
1 A-TTATATT
92470857 AATTACTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 4 0.15
22 15 0.56
23 2 0.07
24 6 0.22
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
ATTATATTTAAATTTTACAAATA
Found at i:92471586 original size:11 final size:13
Alignment explanation
Indices: 92471560--92471591 Score: 50
Period size: 11 Copynumber: 2.6 Consensus size: 13
92471550 CTTGAAATTG
92471560 TTAAATATATGAA
1 TTAAATATATGAA
92471573 TTAAAT-TA-GAA
1 TTAAATATATGAA
92471584 TTAAATAT
1 TTAAATAT
92471592 TATCAGTTGG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 9 0.50
12 3 0.17
13 6 0.33
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (13 bp):
TTAAATATATGAA
Found at i:92482606 original size:8 final size:8
Alignment explanation
Indices: 92482595--92482619 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
92482585 TTTAATAAGA
92482595 TATTTTAT
1 TATTTTAT
92482603 TATTTTAT
1 TATTTTAT
92482611 TATTTTAT
1 TATTTTAT
92482619 T
1 T
92482620 TAGTATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATTTTAT
Found at i:92485395 original size:28 final size:26
Alignment explanation
Indices: 92485322--92485434 Score: 136
Period size: 27 Copynumber: 4.2 Consensus size: 26
92485312 TGGAGGAAGC
*
92485322 GTTCTGGTGGCTCTGCCACAAATATCT
1 GTTCTAGTGGCTCTGCCAC-AATATCT
*
92485349 GATCTAGTGGCTCTGCCACAAATATCT
1 GTTCTAGTGGCTCTGCCAC-AATATCT
*
92485376 GTTCCTGGTGGCTCTGCCACAATATCT
1 GTT-CTAGTGGCTCTGCCACAATATCT
* *
92485403 GTATCTAGTGACTCTGTCACAATATCT
1 GT-TCTAGTGGCTCTGCCACAATATCT
*
92485430 ATTCT
1 GTTCT
92485435 GGCAGCCATG
Statistics
Matches: 76, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
26 3 0.04
27 57 0.75
28 16 0.21
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.35
Consensus pattern (26 bp):
GTTCTAGTGGCTCTGCCACAATATCT
Found at i:92485409 original size:55 final size:54
Alignment explanation
Indices: 92485325--92485429 Score: 167
Period size: 55 Copynumber: 1.9 Consensus size: 54
92485315 AGGAAGCGTT
*
92485325 CTGGTGGCTCTGCCACAAATATCTGATCTAGTGGCTCTGCCACAAATATCTGTTC
1 CTGGTGGCTCTGCCACAAATATCTGATCTAGTGACTCTGCCAC-AATATCTGTTC
*
92485380 CTGGTGGCTCTGCCAC-AATATCTGTATCTAGTGACTCTGTCACAATATCT
1 CTGGTGGCTCTGCCACAAATATCTG-ATCTAGTGACTCTGCCACAATATCT
92485430 ATTCTGGCAG
Statistics
Matches: 47, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
54 15 0.32
55 32 0.68
ACGTcount: A:0.22, C:0.27, G:0.19, T:0.32
Consensus pattern (54 bp):
CTGGTGGCTCTGCCACAAATATCTGATCTAGTGACTCTGCCACAATATCTGTTC
Found at i:92488239 original size:46 final size:46
Alignment explanation
Indices: 92488161--92488253 Score: 125
Period size: 46 Copynumber: 2.0 Consensus size: 46
92488151 GAGTTCGCCC
*
92488161 AGGTTCCGAGCTCTTGAATATATAGCGAACTCGAGAATACATGAAT
1 AGGTTCCGAGCTCTTGAATATATAGCGAACTCGAGAATACAGGAAT
* * * *
92488207 AGGTTCCGAGCT-TCTGCATATGTTGCGGACTCGAGAATACAGGAAT
1 AGGTTCCGAGCTCT-TGAATATATAGCGAACTCGAGAATACAGGAAT
92488253 A
1 A
92488254 TTAAGCCTTG
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
45 1 0.02
46 40 0.98
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (46 bp):
AGGTTCCGAGCTCTTGAATATATAGCGAACTCGAGAATACAGGAAT
Found at i:92489767 original size:5 final size:5
Alignment explanation
Indices: 92489753--92489793 Score: 75
Period size: 5 Copynumber: 8.4 Consensus size: 5
92489743 TTTTATTTAG
92489753 ATTAT A-TAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
92489794 AATTGATTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
4 4 0.11
5 31 0.89
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:92489802 original size:12 final size:12
Alignment explanation
Indices: 92489753--92489814 Score: 53
Period size: 12 Copynumber: 5.3 Consensus size: 12
92489743 TTTTATTTAG
92489753 ATTA-TATATATT
1 ATTATTATA-ATT
92489765 A-TATTAT-ATT
1 ATTATTATAATT
*
92489775 A-TATTATATTAT
1 ATTATTATAAT-T
92489787 ATTA-TATAATT
1 ATTATTATAATT
92489798 GATTATTATAATT
1 -ATTATTATAATT
92489811 ATTA
1 ATTA
92489815 ATTGTTATGG
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
10 10 0.24
11 4 0.10
12 19 0.45
13 9 0.21
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (12 bp):
ATTATTATAATT
Found at i:92489804 original size:20 final size:20
Alignment explanation
Indices: 92489761--92489822 Score: 69
Period size: 20 Copynumber: 3.1 Consensus size: 20
92489751 AGATTATATA
92489761 TATTATATTATATTATATT-A-
1 TATTATATTATA-TA-ATTGAT
92489781 TATTATATTATATAATTGAT
1 TATTATATTATATAATTGAT
92489801 TATTATAATTAT-TAATTG-T
1 TATTAT-ATTATATAATTGAT
92489820 TAT
1 TAT
92489823 GGTTTTATAT
Statistics
Matches: 39, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
18 3 0.08
19 7 0.18
20 24 0.62
21 5 0.13
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (20 bp):
TATTATATTATATAATTGAT
Found at i:92491426 original size:12 final size:12
Alignment explanation
Indices: 92491409--92491433 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
92491399 GTCGACTACT
92491409 GTTACTGTTACC
1 GTTACTGTTACC
92491421 GTTACTGTTACC
1 GTTACTGTTACC
92491433 G
1 G
92491434 ATTCGACACT
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:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:92491461 original size:45 final size:45
Alignment explanation
Indices: 92491411--92491504 Score: 154
Period size: 45 Copynumber: 2.1 Consensus size: 45
92491401 CGACTACTGT
*
92491411 TACTGTTACCGTTACTGTTACCGATTC-GACACTTTGTGTGTAGAA
1 TACTGTTACCGTTACTGTTACAGATTCAG-CACTTTGTGTGTAGAA
*
92491456 TACTGTTACCGTTACTGTTACAGATTCAGCACTTTGTGTGTTGAA
1 TACTGTTACCGTTACTGTTACAGATTCAGCACTTTGTGTGTAGAA
92491501 TACT
1 TACT
92491505 ATTAATGTTA
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
45 45 0.98
46 1 0.02
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.39
Consensus pattern (45 bp):
TACTGTTACCGTTACTGTTACAGATTCAGCACTTTGTGTGTAGAA
Found at i:92491514 original size:51 final size:49
Alignment explanation
Indices: 92491396--92491515 Score: 124
Period size: 45 Copynumber: 2.4 Consensus size: 49
92491386 CAGGCACTTA
* * *
92491396 TGTGTCGACTACTGTTACTGTTACCGTTACTGTTACCGATTCGACACTTTG
1 TGTGTAGAATACT-TTA-TGTTACCGTTACTGTTACAGATTCGACACTTTG
92491447 TGTGTAGAATAC----TGTTACCGTTACTGTTACAGATTC-AGCACTTTG
1 TGTGTAGAATACTTTATGTTACCGTTACTGTTACAGATTCGA-CACTTTG
*
92491492 TGTGTTGAATACTATTAATGTTAC
1 TGTGTAGAATACT-TT-ATGTTAC
92491516 TGCTACTGCT
Statistics
Matches: 58, Mismatches: 4, Indels: 14
0.76 0.05 0.18
Matches are distributed among these distances:
44 1 0.02
45 41 0.71
51 16 0.28
ACGTcount: A:0.23, C:0.18, G:0.19, T:0.40
Consensus pattern (49 bp):
TGTGTAGAATACTTTATGTTACCGTTACTGTTACAGATTCGACACTTTG
Found at i:92491515 original size:45 final size:45
Alignment explanation
Indices: 92491411--92491517 Score: 135
Period size: 45 Copynumber: 2.4 Consensus size: 45
92491401 CGACTACTGT
* * *
92491411 TACTGTTACCGTTACTGTTACCGATTCGACACTTTGTGTGTAGAA
1 TACTATTAACGTTACTGTTACAGATTCGACACTTTGTGTGTAGAA
* * *
92491456 TACTGTTACCGTTACTGTTACAGATTC-AGCACTTTGTGTGTTGAA
1 TACTATTAACGTTACTGTTACAGATTCGA-CACTTTGTGTGTAGAA
*
92491501 TACTATTAATGTTACTG
1 TACTATTAACGTTACTG
92491518 CTACTGCTAC
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
44 1 0.02
45 55 0.98
ACGTcount: A:0.23, C:0.18, G:0.19, T:0.40
Consensus pattern (45 bp):
TACTATTAACGTTACTGTTACAGATTCGACACTTTGTGTGTAGAA
Found at i:92499139 original size:13 final size:13
Alignment explanation
Indices: 92499113--92499176 Score: 65
Period size: 13 Copynumber: 4.9 Consensus size: 13
92499103 AGTTTGGCAA
*
92499113 TGCTTTTAAAAAG
1 TGCTTTTGAAAAG
*
92499126 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
* ***
92499139 TGATGGGGAAAAG
1 TGCTTTTGAAAAG
*
92499152 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
92499165 TGCTTTTGAAAA
1 TGCTTTTGAAAA
92499177 ATTTAGTTTA
Statistics
Matches: 38, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
13 38 1.00
ACGTcount: A:0.31, C:0.06, G:0.28, T:0.34
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:92499175 original size:26 final size:26
Alignment explanation
Indices: 92499113--92499176 Score: 83
Period size: 26 Copynumber: 2.5 Consensus size: 26
92499103 AGTTTGGCAA
*
92499113 TGCTTTTAAAAAGTGCTTTTGAGAAG
1 TGCTTTTGAAAAGTGCTTTTGAGAAG
* ***
92499139 TGATGGGGAAAAGTGCTTTTGAGAAG
1 TGCTTTTGAAAAGTGCTTTTGAGAAG
92499165 TGCTTTTGAAAA
1 TGCTTTTGAAAA
92499177 ATTTAGTTTA
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.31, C:0.06, G:0.28, T:0.34
Consensus pattern (26 bp):
TGCTTTTGAAAAGTGCTTTTGAGAAG
Found at i:92500678 original size:37 final size:37
Alignment explanation
Indices: 92500617--92500695 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
92500607 TTATTACGAA
* *
92500617 GTCTTACCCAGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCAGACAAAATCTCCACACGAAGTCATCGG
* *
92500654 GTCTTACCCGGACAAAAT-TCCCACACGTAGTCATCGG
1 GTCTTACCCAGACAAAATCT-CCACACGAAGTCATCGG
92500691 GTCTT
1 GTCTT
92500696 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
36 1 0.03
37 36 0.97
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (37 bp):
GTCTTACCCAGACAAAATCTCCACACGAAGTCATCGG
Found at i:92500892 original size:47 final size:47
Alignment explanation
Indices: 92500815--92501291 Score: 756
Period size: 47 Copynumber: 10.1 Consensus size: 47
92500805 CCTTCGGGAT
* * * * * *
92500815 TTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
* * *
92500862 CTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
*
92500909 TTATCTCATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
*
92500956 TTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
*
92501003 TTATCTCATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
*
92501050 TTATCTCATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
* * *
92501097 TTATCTCATATATACATTTTCACCTTCATCACATCGGCCATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
*
92501144 TTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
*
92501191 TTATCTCATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
92501238 TTATCACCTATATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
1 TTATCA-C---ATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
92501289 TTA
1 TTA
92501292 CTATCATTTC
Statistics
Matches: 400, Mismatches: 26, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
47 356 0.89
48 1 0.00
51 43 0.11
ACGTcount: A:0.27, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
TTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC
Found at i:92506764 original size:20 final size:20
Alignment explanation
Indices: 92506739--92506809 Score: 97
Period size: 20 Copynumber: 3.5 Consensus size: 20
92506729 GGTTCATTGG
92506739 ATGGAAAATGGATGTATGAA
1 ATGGAAAATGGATGTATGAA
* *
92506759 ATGGAAAATAGATGTATGGA
1 ATGGAAAATGGATGTATGAA
* * *
92506779 ATGAAAAATGGTTATATGAA
1 ATGGAAAATGGATGTATGAA
92506799 ATGGAAAATGG
1 ATGGAAAATGG
92506810 TTATTTGAAT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.46, C:0.00, G:0.28, T:0.25
Consensus pattern (20 bp):
ATGGAAAATGGATGTATGAA
Found at i:92506810 original size:20 final size:20
Alignment explanation
Indices: 92506739--92506823 Score: 89
Period size: 20 Copynumber: 4.2 Consensus size: 20
92506729 GGTTCATTGG
*
92506739 ATGGAAAATGGATGTATGAA
1 ATGGAAAATGGATATATGAA
* * *
92506759 ATGGAAAATAGATGTATGGA
1 ATGGAAAATGGATATATGAA
* *
92506779 ATGAAAAATGGTTATATGAA
1 ATGGAAAATGGATATATGAA
* *
92506799 ATGGAAAATGGTTATTTGAA
1 ATGGAAAATGGATATATGAA
*
92506819 TTGGA
1 ATGGA
92506824 GATGATTGTA
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 55 1.00
ACGTcount: A:0.44, C:0.00, G:0.27, T:0.29
Consensus pattern (20 bp):
ATGGAAAATGGATATATGAA
Found at i:92510952 original size:49 final size:49
Alignment explanation
Indices: 92510880--92510977 Score: 178
Period size: 49 Copynumber: 2.0 Consensus size: 49
92510870 AAGTTTTGGG
* *
92510880 CTGCTAGAGGTCCTTATGATATTCGACCATATATGGGTTTGTTGAAATT
1 CTGCTAGAGGTCCCTATGATATTCGACCATAAATGGGTTTGTTGAAATT
92510929 CTGCTAGAGGTCCCTATGATATTCGACCATAAATGGGTTTGTTGAAATT
1 CTGCTAGAGGTCCCTATGATATTCGACCATAAATGGGTTTGTTGAAATT
92510978 ATGTGTATTT
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (49 bp):
CTGCTAGAGGTCCCTATGATATTCGACCATAAATGGGTTTGTTGAAATT
Found at i:92515850 original size:50 final size:50
Alignment explanation
Indices: 92515788--92515891 Score: 208
Period size: 50 Copynumber: 2.1 Consensus size: 50
92515778 ATTTTGAGAG
92515788 TTGTACATATGGTATATGGCATGTATAGGCTAGAGTTATTTTGATAGGCT
1 TTGTACATATGGTATATGGCATGTATAGGCTAGAGTTATTTTGATAGGCT
92515838 TTGTACATATGGTATATGGCATGTATAGGCTAGAGTTATTTTGATAGGCT
1 TTGTACATATGGTATATGGCATGTATAGGCTAGAGTTATTTTGATAGGCT
92515888 TTGT
1 TTGT
92515892 GATATGAATA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 54 1.00
ACGTcount: A:0.25, C:0.08, G:0.26, T:0.41
Consensus pattern (50 bp):
TTGTACATATGGTATATGGCATGTATAGGCTAGAGTTATTTTGATAGGCT
Found at i:92517471 original size:30 final size:29
Alignment explanation
Indices: 92517437--92517498 Score: 88
Period size: 29 Copynumber: 2.1 Consensus size: 29
92517427 AATTCTGGGT
*
92517437 AAAACTATAAAAATCTAAAAAATAGGGGCA
1 AAAACTAT-AAAACCTAAAAAATAGGGGCA
* *
92517467 AAAACTGTAAAACCTAAAAAATATGGGCA
1 AAAACTATAAAACCTAAAAAATAGGGGCA
92517496 AAA
1 AAA
92517499 TTGTAAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 22 0.76
30 7 0.24
ACGTcount: A:0.60, C:0.11, G:0.13, T:0.16
Consensus pattern (29 bp):
AAAACTATAAAACCTAAAAAATAGGGGCA
Found at i:92517498 original size:28 final size:28
Alignment explanation
Indices: 92517432--92517506 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 28
92517422 CGTAAAATTC
* * *
92517432 TGGGTAAAACTATAAAAATCTAAAAAATA
1 TGGGCAAAACTGT-AAAACCTAAAAAATA
*
92517461 GGGGCAAAAACTGTAAAACCTAAAAAATA
1 TGGGC-AAAACTGTAAAACCTAAAAAATA
*
92517490 TGGGCAAAATTGTAAAA
1 TGGGCAAAACTGTAAAA
92517507 TACAAAAAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
28 11 0.28
29 21 0.54
30 7 0.18
ACGTcount: A:0.55, C:0.09, G:0.16, T:0.20
Consensus pattern (28 bp):
TGGGCAAAACTGTAAAACCTAAAAAATA
Found at i:92517513 original size:28 final size:29
Alignment explanation
Indices: 92517437--92517517 Score: 94
Period size: 28 Copynumber: 2.8 Consensus size: 29
92517427 AATTCTGGGT
*
92517437 AAAACTATAAAAATCTAAAAAATAGGGGCA
1 AAAACTGTAAAAA-CTAAAAAATAGGGGCA
* *
92517467 AAAACTGTAAAACCTAAAAAATATGGGC-
1 AAAACTGTAAAAACTAAAAAATAGGGGCA
*
92517495 AAAATTGTAAAATAC-AAAAAATA
1 AAAACTGTAAAA-ACTAAAAAATA
92517518 AGGGACACAC
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
28 19 0.42
29 15 0.33
30 11 0.24
ACGTcount: A:0.60, C:0.10, G:0.11, T:0.19
Consensus pattern (29 bp):
AAAACTGTAAAAACTAAAAAATAGGGGCA
Found at i:92517514 original size:29 final size:29
Alignment explanation
Indices: 92517437--92517515 Score: 79
Period size: 29 Copynumber: 2.7 Consensus size: 29
92517427 AATTCTGGGT
* *
92517437 AAAACTATAAAAATCTAAAAAATAGGGGCA
1 AAAACTGTAAAAA-CAAAAAAATAGGGGCA
* * *
92517467 AAAACTGTAAAACCTAAAAAATATGGGC-
1 AAAACTGTAAAAACAAAAAAATAGGGGCA
*
92517495 AAAATTGTAAAATACAAAAAA
1 AAAACTGTAAAA-ACAAAAAA
92517516 TAAGGGACAC
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
28 11 0.26
29 20 0.48
30 11 0.26
ACGTcount: A:0.61, C:0.10, G:0.11, T:0.18
Consensus pattern (29 bp):
AAAACTGTAAAAACAAAAAAATAGGGGCA
Found at i:92521190 original size:16 final size:16
Alignment explanation
Indices: 92521169--92521199 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
92521159 AATCTATTTT
*
92521169 ATTATTTATTTTTAAA
1 ATTATTAATTTTTAAA
92521185 ATTATTAATTTTTAA
1 ATTATTAATTTTTAA
92521200 TGTCAGTTAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
ATTATTAATTTTTAAA
Found at i:92522819 original size:21 final size:20
Alignment explanation
Indices: 92522793--92522832 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
92522783 AAATGTATTC
*
92522793 ATGTTTATATTGTGTTGATTT
1 ATGTTTAAATTGTG-TGATTT
92522814 ATGTTTAAATTGTGTGATT
1 ATGTTTAAATTGTGTGATT
92522833 AATAAGTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.23, C:0.00, G:0.20, T:0.57
Consensus pattern (20 bp):
ATGTTTAAATTGTGTGATTT
Found at i:92524795 original size:21 final size:20
Alignment explanation
Indices: 92524766--92524805 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
92524756 TATGAGATTT
92524766 AATGATTGATGATAGATTATG
1 AATGATTGATGATAG-TTATG
*
92524787 AATGTTTGATGATAGTTAT
1 AATGATTGATGATAGTTAT
92524806 ACAAGTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.35, C:0.00, G:0.23, T:0.42
Consensus pattern (20 bp):
AATGATTGATGATAGTTATG
Found at i:92524813 original size:20 final size:21
Alignment explanation
Indices: 92524771--92524813 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
92524761 GATTTAATGA
*
92524771 TTGATGATAGATTATGAATGT
1 TTGATGATAGATTATGAAAGT
92524792 TTGATGATAG-TTAT-ACAAGT
1 TTGATGATAGATTATGA-AAGT
92524812 TT
1 TT
92524814 TGTTAGGTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 1 0.05
20 9 0.45
21 10 0.50
ACGTcount: A:0.33, C:0.02, G:0.21, T:0.44
Consensus pattern (21 bp):
TTGATGATAGATTATGAAAGT
Found at i:92526398 original size:21 final size:20
Alignment explanation
Indices: 92526355--92526398 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
92526345 CTAAACCAAT
*
92526355 AACTTGAGAAATTTTTACGA
1 AACTTGAGAAATTTTTACAA
92526375 AACTT-AGAAAATTTTTCACAA
1 AACTTGAG-AAATTTTT-ACAA
92526396 AAC
1 AAC
92526399 AGGGGACACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 2 0.10
20 13 0.62
21 6 0.29
ACGTcount: A:0.45, C:0.14, G:0.09, T:0.32
Consensus pattern (20 bp):
AACTTGAGAAATTTTTACAA
Done.