Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 57 of 433
Found at i:16147531 original size:45 final size:45
Alignment explanation
Indices: 16147393--16147607 Score: 262
Period size: 45 Copynumber: 4.9 Consensus size: 45
16147383 TTTTATCAAA
* * * **
16147393 TCACCGGCATT-CAGCCTGCTAGGTTTAAAAACCCGAAT--TCAT-
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAAT-ATC
* ** * *
16147435 TCACCGGCATT-TCGCCTGCTAGGCT-TGAGGTCCAAATAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
*
16147478 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATATTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
*
16147523 TCATCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
*
16147568 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCAAATA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
16147608 GTACTGCACA
Statistics
Matches: 149, Mismatches: 19, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
41 6 0.04
42 24 0.16
43 12 0.08
44 13 0.09
45 94 0.63
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAATATC
Found at i:16148119 original size:2 final size:2
Alignment explanation
Indices: 16148072--16148101 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
16148062 ACTTCAATAA
16148072 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16148102 TCGACTTTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16155069 original size:65 final size:65
Alignment explanation
Indices: 16154955--16155082 Score: 229
Period size: 65 Copynumber: 2.0 Consensus size: 65
16154945 CAACAACAAG
* * *
16154955 TTAGCTTTTCTTGGATGATAATCAATGATCAAATTGTAATCTTTTAATAGCTCTTACCATCGATT
1 TTAGATTTTATTGGATGATAATCAATGATCAAATTGTAATCTTTCAATAGCTCTTACCATCGATT
16155020 TTAGATTTTATTGGATGATAATCAATGATCAAATTGTAATCTTTCAATAGCTCTTACCATCGA
1 TTAGATTTTATTGGATGATAATCAATGATCAAATTGTAATCTTTCAATAGCTCTTACCATCGA
16155083 CATTGTCTCC
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
65 60 1.00
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.41
Consensus pattern (65 bp):
TTAGATTTTATTGGATGATAATCAATGATCAAATTGTAATCTTTCAATAGCTCTTACCATCGATT
Found at i:16158329 original size:52 final size:52
Alignment explanation
Indices: 16158249--16158384 Score: 208
Period size: 52 Copynumber: 2.7 Consensus size: 52
16158239 CTGGAGGCCT
* *
16158249 AGCCTCTTTT-AAT-AACTGGAGCA-AAGCCCTTTTCGGTAAATTGGGGCATA
1 AGCC-CTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATA
*
16158299 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTTGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATA
16158351 AGCCCTTTTCAATAAACTGGGGCAT-AGCCCTTTT
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTT
16158385 GCACTTCCTC
Statistics
Matches: 80, Mismatches: 3, Indels: 5
0.91 0.03 0.06
Matches are distributed among these distances:
49 5 0.06
50 7 0.09
51 18 0.22
52 50 0.62
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.30
Consensus pattern (52 bp):
AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATA
Found at i:16158379 original size:25 final size:26
Alignment explanation
Indices: 16158249--16158384 Score: 172
Period size: 26 Copynumber: 5.3 Consensus size: 26
16158239 CTGGAGGCCT
*
16158249 AGCCTCTTTT-AAT-AACTGGAGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
** *
16158273 AGCCCTTTTCGGTAAATTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
16158299 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
***
16158325 AGCCCTTTTTGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
16158351 AGCCCTTTTCAATAAACTGGGGCAT-
1 AGCCCTTTTCAATAAACTGGGGCATA
16158376 AGCCCTTTT
1 AGCCCTTTT
16158385 GCACTTCCTC
Statistics
Matches: 96, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
23 5 0.05
24 5 0.05
25 17 0.18
26 69 0.72
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.30
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:16158452 original size:9 final size:9
Alignment explanation
Indices: 16158440--16158498 Score: 55
Period size: 9 Copynumber: 6.1 Consensus size: 9
16158430 TTACATCATG
*
16158440 TACATTTCA
1 TACATATCA
16158449 TACATATCA
1 TACATATCA
*
16158458 TGTGCATATCA
1 --TACATATCA
16158469 TACATATCA
1 TACATATCA
*
16158478 TGTGCATATCA
1 --TACATATCA
16158489 TACATATCA
1 TACATATCA
16158498 T
1 T
16158499 GTGCATATCA
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
9 25 0.61
11 16 0.39
ACGTcount: A:0.36, C:0.20, G:0.07, T:0.37
Consensus pattern (9 bp):
TACATATCA
Found at i:16158459 original size:20 final size:20
Alignment explanation
Indices: 16158434--16158528 Score: 142
Period size: 20 Copynumber: 4.8 Consensus size: 20
16158424 TTATGATTAC
* *
16158434 ATCATGTACATTTCATACAT
1 ATCATGTGCATATCATACAT
16158454 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
16158474 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
16158494 ATCATGTGCATATCATATCAT
1 ATCATGTGCATATCATA-CAT
16158515 -TCATGT--ATATCATA
1 ATCATGTGCATATCATA
16158529 TCCCACGTAT
Statistics
Matches: 72, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
18 8 0.11
20 61 0.85
21 3 0.04
ACGTcount: A:0.35, C:0.19, G:0.08, T:0.38
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:16158465 original size:11 final size:11
Alignment explanation
Indices: 16158451--16158509 Score: 72
Period size: 11 Copynumber: 5.7 Consensus size: 11
16158441 ACATTTCATA
16158451 CATATCATGTG
1 CATATCATGTG
*
16158462 CATATCA--TA
1 CATATCATGTG
16158471 CATATCATGTG
1 CATATCATGTG
*
16158482 CATATCA--TA
1 CATATCATGTG
16158491 CATATCATGTG
1 CATATCATGTG
16158502 CATATCAT
1 CATATCAT
16158510 ATCATTCATG
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
9 16 0.40
11 24 0.60
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.36
Consensus pattern (11 bp):
CATATCATGTG
Found at i:16161106 original size:15 final size:13
Alignment explanation
Indices: 16161081--16161120 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
16161071 GAAATAATCG
*
16161081 CACACGGGTGTGT
1 CACACAGGTGTGT
16161094 CACACAGGTGTGT
1 CACACAGGTGTGT
16161107 CACACAGGTGTGT
1 CACACAGGTGTGT
16161120 C
1 C
16161121 CCTGCCGAGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.20, C:0.25, G:0.33, T:0.23
Consensus pattern (13 bp):
CACACAGGTGTGT
Found at i:16182940 original size:14 final size:14
Alignment explanation
Indices: 16182921--16182954 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
16182911 TTAAATCTGC
16182921 TAAAAA-AATAAAAA
1 TAAAAATAA-AAAAA
16182935 TAAAAATAAAAAAA
1 TAAAAATAAAAAAA
16182949 TAAAAA
1 TAAAAA
16182955 GTAGTTTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 17 0.89
15 2 0.11
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (14 bp):
TAAAAATAAAAAAA
Found at i:16186870 original size:13 final size:13
Alignment explanation
Indices: 16186854--16186886 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
16186844 TTTGATTAAA
*
16186854 TTAGTTAATTAGT
1 TTAGATAATTAGT
16186867 TTAGATAATTAGT
1 TTAGATAATTAGT
16186880 TTA-ATAA
1 TTAGATAA
16186887 ACAAACCCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTAGATAATTAGT
Found at i:16189275 original size:40 final size:40
Alignment explanation
Indices: 16189205--16189409 Score: 317
Period size: 40 Copynumber: 5.2 Consensus size: 40
16189195 CGGATGATAA
* *
16189205 CGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCC
16189245 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
16189285 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
*
16189325 CGAAGGCATTTGTGCGAGCTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
* * *
16189365 CGAAGGCATTTGAGCGAG-TAGCTATATCC-GGTTAAATCC
1 CGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCC
16189404 CGAAGG
1 CGAAGG
16189410 TACTTGGTTT
Statistics
Matches: 157, Mismatches: 6, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
39 16 0.10
40 140 0.89
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
Found at i:16197543 original size:40 final size:40
Alignment explanation
Indices: 16197473--16197702 Score: 383
Period size: 40 Copynumber: 5.8 Consensus size: 40
16197463 CGGATGATAA
* *
16197473 CGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCC
16197513 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
16197553 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
16197593 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
*
16197633 CGAAGGCATTTGTGCGAGCTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
* *
16197673 CGAAGGCATTTGAGTGAG-TAGCTATATCCG
1 CGAAGGCATTTGTGCGAGTTA-CTATATCCG
16197703 ATTAAATCCC
Statistics
Matches: 183, Mismatches: 5, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
39 2 0.01
40 180 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (40 bp):
CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
Found at i:16204035 original size:5 final size:5
Alignment explanation
Indices: 16204025--16204088 Score: 69
Period size: 5 Copynumber: 12.2 Consensus size: 5
16204015 TGAATCCTCC
16204025 TATTT TATTTT TATTT T-TATT TATTCT TATTTT TATTT TATTT TA-TT
1 TATTT TA-TTT TATTT TAT-TT TATT-T TA-TTT TATTT TATTT TATTT
16204072 TATTT TATTCT TATTT T
1 TATTT TATT-T TATTT T
16204089 TCTTTTTCTT
Statistics
Matches: 52, Mismatches: 0, Indels: 14
0.79 0.00 0.21
Matches are distributed among these distances:
4 5 0.10
5 28 0.54
6 17 0.33
7 2 0.04
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (5 bp):
TATTT
Found at i:16204038 original size:6 final size:6
Alignment explanation
Indices: 16204027--16204107 Score: 69
Period size: 6 Copynumber: 13.7 Consensus size: 6
16204017 AATCCTCCTA
* *
16204027 TTTTAT TTTTAT TTTTA- -TTTAT TCTTAT TTTTA- TTTTAT TTTATTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT-TAT
* * * *
16204073 ATTTTAT TCTTAT TTTTCT TTTTCT TTTGAT TTTT
1 -TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
16204108 CAATTTTCTT
Statistics
Matches: 60, Mismatches: 10, Indels: 10
0.75 0.12 0.12
Matches are distributed among these distances:
4 4 0.07
5 5 0.08
6 44 0.73
7 4 0.07
8 3 0.05
ACGTcount: A:0.15, C:0.05, G:0.01, T:0.79
Consensus pattern (6 bp):
TTTTAT
Found at i:16204049 original size:16 final size:16
Alignment explanation
Indices: 16204028--16204098 Score: 85
Period size: 16 Copynumber: 4.6 Consensus size: 16
16204018 ATCCTCCTAT
*
16204028 TTTATTTTTATTTTTA
1 TTTATTCTTATTTTTA
16204044 TTTATTCTTATTTTTA
1 TTTATTCTTATTTTTA
*
16204060 TTTTATT-TTATTTAT-
1 -TTTATTCTTATTTTTA
*
16204075 TTTATTCTTATTTTTC
1 TTTATTCTTATTTTTA
16204091 TTT-TTCTT
1 TTTATTCTT
16204099 TTGATTTTTC
Statistics
Matches: 49, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
14 6 0.12
15 12 0.24
16 25 0.51
17 6 0.12
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTATTCTTATTTTTA
Found at i:16207001 original size:2 final size:2
Alignment explanation
Indices: 16206994--16207028 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
16206984 ACATCAGCTA
16206994 AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
16207029 AGAATGTAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 29 0.94
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:16221971 original size:83 final size:82
Alignment explanation
Indices: 16221832--16221994 Score: 317
Period size: 83 Copynumber: 2.0 Consensus size: 82
16221822 AAATTGGGGG
16221832 GCAAAATATGTGAACTTGGCTTGTTAACCCCTCGTGTCCGACACCGGCGATGGTCTCGGGTTCGG
1 GCAAAATATGTGAACTTGGCTTGTTAACCCCTCGTGTCCGACACCGGCGATGGTCTCGGGTTC-G
16221897 GGTGTTACAATTTTATTT
65 GGTGTTACAATTTTATTT
16221915 GCAAAATATGTGAACTTGGCTTGTTAACCCCTCGTGTCCGACACCGGCGATGGTCTCGGGTTCGG
1 GCAAAATATGTGAACTTGGCTTGTTAACCCCTCGTGTCCGACACCGGCGATGGTCTCGGGTTCGG
16221980 GTGTTACAATTTTAT
66 GTGTTACAATTTTAT
16221995 GTAGAAACCC
Statistics
Matches: 80, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
82 17 0.21
83 63 0.79
ACGTcount: A:0.20, C:0.22, G:0.26, T:0.32
Consensus pattern (82 bp):
GCAAAATATGTGAACTTGGCTTGTTAACCCCTCGTGTCCGACACCGGCGATGGTCTCGGGTTCGG
GTGTTACAATTTTATTT
Found at i:16222157 original size:27 final size:27
Alignment explanation
Indices: 16222127--16222267 Score: 191
Period size: 27 Copynumber: 5.2 Consensus size: 27
16222117 GTGATGAAGT
16222127 CACCAGATACAGATATTGTGGCAGAGC
1 CACCAGATACAGATATTGTGGCAGAGC
16222154 CACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
* *
16222181 CACCAGAT-CAGATAATGGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
16222208 CACCAGA-ACAGATATATGTGGCAGAGC
1 CACCAGATACAGATAT-TGTGGCAGAGC
*
16222235 CACCAGAT-CAGATAATTGTGGCATAGC
1 CACCAGATACAGAT-ATTGTGGCAGAGC
16222262 CACCAG
1 CACCAG
16222268 GACGCTTCCT
Statistics
Matches: 102, Mismatches: 5, Indels: 14
0.84 0.04 0.12
Matches are distributed among these distances:
26 10 0.10
27 88 0.86
28 4 0.04
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.17
Consensus pattern (27 bp):
CACCAGATACAGATATTGTGGCAGAGC
Found at i:16222202 original size:54 final size:54
Alignment explanation
Indices: 16222127--16222267 Score: 248
Period size: 54 Copynumber: 2.6 Consensus size: 54
16222117 GTGATGAAGT
*
16222127 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
*
16222181 CACCAGATCAGATAATGGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
16222235 CACCAGATCAGATAATTGTGGCATAGCCACCAG
1 CACCAGATCAGATAATTGTGGCATAGCCACCAG
16222268 GACGCTTCCT
Statistics
Matches: 83, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
53 5 0.06
54 78 0.94
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.17
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGAACAGATATATGTGGCAGAGC
Found at i:16223917 original size:26 final size:26
Alignment explanation
Indices: 16223886--16223967 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
16223876 TGAAATGCCC
*
16223886 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
16223912 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
16223938 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
16223964 ATCA
1 ATCA
16223968 ATTTTTATCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.37, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:16228467 original size:21 final size:21
Alignment explanation
Indices: 16228441--16228490 Score: 82
Period size: 21 Copynumber: 2.4 Consensus size: 21
16228431 AATGTCATAT
*
16228441 GACCGTGTGTTCTAGCCTCAC
1 GACCGTGTGTTCTAGCCCCAC
16228462 GACCGTGTGTTCTAGCCCCAC
1 GACCGTGTGTTCTAGCCCCAC
*
16228483 GCCCGTGT
1 GACCGTGT
16228491 AAATTTGATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.12, C:0.36, G:0.26, T:0.26
Consensus pattern (21 bp):
GACCGTGTGTTCTAGCCCCAC
Found at i:16232909 original size:10 final size:10
Alignment explanation
Indices: 16232907--16232951 Score: 90
Period size: 10 Copynumber: 4.5 Consensus size: 10
16232897 TTTAGCTCAT
16232907 TTTTGGCTCC
1 TTTTGGCTCC
16232917 TTTTGGCTCC
1 TTTTGGCTCC
16232927 TTTTGGCTCC
1 TTTTGGCTCC
16232937 TTTTGGCTCC
1 TTTTGGCTCC
16232947 TTTTG
1 TTTTG
16232952 ACTCTTGGTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 35 1.00
ACGTcount: A:0.00, C:0.27, G:0.20, T:0.53
Consensus pattern (10 bp):
TTTTGGCTCC
Found at i:16244438 original size:27 final size:27
Alignment explanation
Indices: 16244354--16244507 Score: 173
Period size: 27 Copynumber: 5.5 Consensus size: 27
16244344 GACGAGAATG
* * *
16244354 GCACTAAGTGTGCAAGCTGGAAATATATG
1 GCACTAAGTGTGCGAGCT-G-ATTATATA
*
16244383 GCACTAAGTGTGCGAGCTCAAATTATATA
1 GCACTAAGTGTGCGAGCT--GATTATATA
* *
16244412 GCACTATGTGTGCGAGCTGATTTTATA
1 GCACTAAGTGTGCGAGCTGATTATATA
**
16244439 GCACTAAGTGTGCGAATTTGATTATATA
1 GCACTAAGTGTGCG-AGCTGATTATATA
* *
16244467 GCACTACGTGTGCGAGCTGATTTTATA
1 GCACTAAGTGTGCGAGCTGATTATATA
16244494 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
16244508 GATTCACTAT
Statistics
Matches: 106, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
27 43 0.41
28 23 0.22
29 40 0.38
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTGATTATATA
Found at i:16244478 original size:55 final size:55
Alignment explanation
Indices: 16244404--16244507 Score: 199
Period size: 55 Copynumber: 1.9 Consensus size: 55
16244394 GCGAGCTCAA
*
16244404 ATTATATAGCACTATGTGTGCGAGCTGATTTTATAGCACTAAGTGTGCGAATTTG
1 ATTATATAGCACTACGTGTGCGAGCTGATTTTATAGCACTAAGTGTGCGAATTTG
16244459 ATTATATAGCACTACGTGTGCGAGCTGATTTTATAGCACTAAGTGTGCG
1 ATTATATAGCACTACGTGTGCGAGCTGATTTTATAGCACTAAGTGTGCG
16244508 GATTCACTAT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 48 1.00
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.35
Consensus pattern (55 bp):
ATTATATAGCACTACGTGTGCGAGCTGATTTTATAGCACTAAGTGTGCGAATTTG
Found at i:16248072 original size:28 final size:28
Alignment explanation
Indices: 16248032--16248096 Score: 105
Period size: 28 Copynumber: 2.3 Consensus size: 28
16248022 GATGTACTAG
*
16248032 ATACCCCTATGTATGCAAAATTACCAT-T
1 ATACCCCTATGTATGCAAAATGACC-TCT
16248060 ATACCCCTATGTATGCAAAATGACCTCT
1 ATACCCCTATGTATGCAAAATGACCTCT
16248088 ATACCCCTA
1 ATACCCCTA
16248097 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 1 0.03
28 34 0.97
ACGTcount: A:0.34, C:0.29, G:0.08, T:0.29
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCTCT
Found at i:16248259 original size:27 final size:27
Alignment explanation
Indices: 16248212--16248290 Score: 104
Period size: 27 Copynumber: 2.8 Consensus size: 27
16248202 TTGGTGGCTA
*
16248212 TGCCACAAATTATCTGTTCTGGTAGCCC
1 TGCCACAAA-TATCTGTTCTGGTAGCAC
* *
16248240 TGCCACATATATCTGTTCTGGTGGCAC
1 TGCCACAAATATCTGTTCTGGTAGCAC
16248267 TGCCACAAAATATCTGTATCTGGT
1 TGCCAC-AAATATCTGT-TCTGGT
16248291 GACTCTGTCA
Statistics
Matches: 45, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
27 22 0.49
28 17 0.38
29 6 0.13
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (27 bp):
TGCCACAAATATCTGTTCTGGTAGCAC
Found at i:16248310 original size:55 final size:56
Alignment explanation
Indices: 16248203--16248316 Score: 137
Period size: 55 Copynumber: 2.1 Consensus size: 56
16248193 GGAAGCGTCT
*
16248203 TGGTGGCTATGCCACAAATTATCTGTTCTGGTAGCCCTGCCACATATATCTGT-TC
1 TGGTGGCTATGCCACAAAATATCTGTTCTGGTAGCCCTGCCACATATATCTGTATC
* * *
16248258 TGGTGGC-ACTGCCACAAAATATCTGTATCTGGT-GACTCTGTCACAT-TTTCTGTATC
1 TGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTAG-CCCTGCCACATATATCTGTATC
16248314 TGG
1 TGG
16248317 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
54 1 0.02
55 30 0.59
56 20 0.39
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (56 bp):
TGGTGGCTATGCCACAAAATATCTGTTCTGGTAGCCCTGCCACATATATCTGTATC
Found at i:16249386 original size:11 final size:10
Alignment explanation
Indices: 16249358--16249391 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
16249348 AGCCTGTAAG
16249358 TATTCTGAAT
1 TATTCTGAAT
*
16249368 TTTTCTGAAT
1 TATTCTGAAT
16249378 ATATTCTGAAT
1 -TATTCTGAAT
16249389 TAT
1 TAT
16249392 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:16255919 original size:28 final size:28
Alignment explanation
Indices: 16255879--16255942 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
16255869 TGTACTAGAG
*
16255879 TACCCCTATGTATGCAAAATTACCAT-TA
1 TACCCCTATGTATGCAAAATGACC-TCTA
16255907 TACCCCTATGTATGCAAAATGACCTCTA
1 TACCCCTATGTATGCAAAATGACCTCTA
16255935 TACCCCTA
1 TACCCCTA
16255943 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 1 0.03
28 33 0.97
ACGTcount: A:0.33, C:0.30, G:0.08, T:0.30
Consensus pattern (28 bp):
TACCCCTATGTATGCAAAATGACCTCTA
Found at i:16256105 original size:27 final size:27
Alignment explanation
Indices: 16256047--16256136 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 27
16256037 AGGAAGCGTC
16256047 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
16256075 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
16256102 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
16256131 CTGGTG
1 CTGGTG
16256137 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 23 0.42
28 25 0.45
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:16256155 original size:55 final size:56
Alignment explanation
Indices: 16256047--16256161 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
16256037 AGGAAGCGTC
* *
16256047 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
16256102 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
16256158 CTGG
1 CTGG
16256162 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.58
56 21 0.40
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:16259660 original size:40 final size:40
Alignment explanation
Indices: 16259602--16259810 Score: 226
Period size: 40 Copynumber: 5.2 Consensus size: 40
16259592 TGAATGATAC
* * *
16259602 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATCATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * *
16259642 CCAGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
*
16259682 CCGGGCTAAGACCCGAAGGCATTCGTGCTAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * * ** *
16259722 CTGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * *
16259762 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGT-GATTATAT
16259803 CC-GGCTAA
1 CCGGGCTAA
16259811 ATTCCGAAGA
Statistics
Matches: 141, Mismatches: 25, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.01
40 132 0.94
41 8 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:16268574 original size:46 final size:46
Alignment explanation
Indices: 16268507--16268681 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
16268497 TGTAACCCGC
* *
16268507 CCATAAGCGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* *
16268553 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * ** *
16268603 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
16268646 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG
16268682 ATGCTCAACC
Statistics
Matches: 105, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 1 0.01
45 2 0.02
46 60 0.57
47 27 0.26
48 3 0.03
49 1 0.01
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:16268643 original size:93 final size:93
Alignment explanation
Indices: 16268514--16268685 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
16268504 CGCCCATAAG
* ** *
16268514 CGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
16268579 ACGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAGTTCGGATGCCTAGTTACATTTCA
*
16268607 CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
16268672 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
16268686 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATTTCA
Found at i:16268701 original size:46 final size:46
Alignment explanation
Indices: 16268556--16268694 Score: 126
Period size: 47 Copynumber: 3.0 Consensus size: 46
16268546 TTCGCATCCA
*
16268556 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATT
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATC
* * * * * *
16268604 TCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCATCCA--
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCG--GATGCTCAACCATC
16268649 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
16268695 CTAGTGACAT
Statistics
Matches: 73, Mismatches: 11, Indels: 16
0.73 0.11 0.16
Matches are distributed among these distances:
44 8 0.11
45 2 0.03
46 27 0.37
47 29 0.40
48 2 0.03
49 4 0.05
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
Found at i:16272751 original size:19 final size:19
Alignment explanation
Indices: 16272714--16272778 Score: 78
Period size: 20 Copynumber: 3.3 Consensus size: 19
16272704 CCTTAACAAT
**
16272714 TATAAAAATAGAAATAAATA
1 TATAAAAATTCAAA-AAATA
16272734 TATAAAAATTCAAAAAATA
1 TATAAAAATTCAAAAAATA
16272753 TATACAAAA-TCTAAAAAATA
1 TATA-AAAATTC-AAAAAATA
16272773 TATAAA
1 TATAAA
16272779 TTATAAACAT
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
19 13 0.32
20 28 0.68
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.26
Consensus pattern (19 bp):
TATAAAAATTCAAAAAATA
Found at i:16272785 original size:18 final size:18
Alignment explanation
Indices: 16272745--16272797 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
16272735 ATAAAAATTC
* *
16272745 AAAAAATATATACAAAATCT
1 AAAAAATATAT--AAATTAT
16272765 AAAAAATATATAAATTAT
1 AAAAAATATATAAATTAT
* *
16272783 AAACATTATATAAAT
1 AAAAAATATATAAAT
16272798 GGAAATATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
18 18 0.62
20 11 0.38
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (18 bp):
AAAAAATATATAAATTAT
Found at i:16274897 original size:31 final size:31
Alignment explanation
Indices: 16274825--16274897 Score: 101
Period size: 31 Copynumber: 2.4 Consensus size: 31
16274815 CAAACTGATA
*
16274825 ATTGAACTATTCGAAAGTTTTCATTTAAGTT
1 ATTGAACTATTCGAAAGTTTTCATTTAAGTC
* * *
16274856 ACTGAACTATTTGAAAGTTTTTATTTAAGTC
1 ATTGAACTATTCGAAAGTTTTCATTTAAGTC
*
16274887 ATTGAGCTATT
1 ATTGAACTATT
16274898 AAGGGTGTTT
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.32, C:0.10, G:0.14, T:0.45
Consensus pattern (31 bp):
ATTGAACTATTCGAAAGTTTTCATTTAAGTC
Found at i:16280860 original size:8 final size:8
Alignment explanation
Indices: 16280832--16280900 Score: 57
Period size: 8 Copynumber: 7.9 Consensus size: 8
16280822 GCATTTGATG
*
16280832 TATATAAT
1 TATAAAAT
16280840 TATAAAAATT
1 TAT-AAAA-T
*
16280850 TATCAAAT
1 TATAAAAT
16280858 TATAAAAT
1 TATAAAAT
16280866 TATTAAAAATT
1 TA-T-AAAA-T
*
16280877 TATAAATT
1 TATAAAAT
16280885 TATAAAAT
1 TATAAAAT
16280893 TATCAAAA
1 TAT-AAAA
16280901 ATTTATTAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 11
0.76 0.08 0.17
Matches are distributed among these distances:
8 24 0.48
9 14 0.28
10 9 0.18
11 3 0.06
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (8 bp):
TATAAAAT
Found at i:16280872 original size:27 final size:27
Alignment explanation
Indices: 16280832--16280939 Score: 109
Period size: 27 Copynumber: 4.1 Consensus size: 27
16280822 GCATTTGATG
*
16280832 TATATAATTA-TAAAAATTTATCAAA-T
1 TATAAAATTATTAAAAATTTAT-AAATT
16280858 TATAAAATTATTAAAAATTTATAAATT
1 TATAAAATTATTAAAAATTTATAAATT
* * *
16280885 TATAAAATTATCAAAAATTTATTAATA
1 TATAAAATTATTAAAAATTTATAAATT
* * *
16280912 TAT-ATATT-TTTATAATTTAT-AATT
1 TATAAAATTATTAAAAATTTATAAATT
16280936 TATA
1 TATA
16280940 TCCTTTAGAA
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
24 6 0.09
25 9 0.13
26 16 0.23
27 39 0.56
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (27 bp):
TATAAAATTATTAAAAATTTATAAATT
Found at i:16280881 original size:19 final size:18
Alignment explanation
Indices: 16280832--16280906 Score: 82
Period size: 18 Copynumber: 4.2 Consensus size: 18
16280822 GCATTTGATG
*
16280832 TATATAATTATAAAAATT
1 TATAAAATTATAAAAATT
* *
16280850 TATCAAATTATAAAATTAT
1 TATAAAATTATAAAAAT-T
*
16280869 TA-AAAATT-TATAAATT
1 TATAAAATTATAAAAATT
16280885 TATAAAATTATCAAAAATT
1 TATAAAATTAT-AAAAATT
16280904 TAT
1 TAT
16280907 TAATATATAT
Statistics
Matches: 46, Mismatches: 7, Indels: 7
0.77 0.12 0.12
Matches are distributed among these distances:
16 3 0.07
17 11 0.24
18 20 0.43
19 12 0.26
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.43
Consensus pattern (18 bp):
TATAAAATTATAAAAATT
Found at i:16281121 original size:17 final size:16
Alignment explanation
Indices: 16281101--16281142 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
16281091 TGTAGTCTTT
*
16281101 ATAAATTTATAATTTTC
1 ATAAATTTATAA-TTAC
16281118 ATAAATCTT-TAATTAC
1 ATAAAT-TTATAATTAC
16281134 ATAAATTTA
1 ATAAATTTA
16281143 GATCCTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
15 2 0.09
16 9 0.41
17 9 0.41
18 2 0.09
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (16 bp):
ATAAATTTATAATTAC
Found at i:16284652 original size:22 final size:22
Alignment explanation
Indices: 16284627--16284668 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
16284617 TGTGAGTTTT
*
16284627 ATTTAAATTTATTATGATTTAG
1 ATTTAAATATATTATGATTTAG
*
16284649 ATTTAAATATATTTTGATTT
1 ATTTAAATATATTATGATTT
16284669 TTAATTCATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (22 bp):
ATTTAAATATATTATGATTTAG
Found at i:16284879 original size:6 final size:6
Alignment explanation
Indices: 16284870--16284898 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
16284860 AACTATTAAA
16284870 AATATT AATATT AATATT AATATT AATAT
1 AATATT AATATT AATATT AATATT AATAT
16284899 AATTTTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
AATATT
Found at i:16285816 original size:27 final size:27
Alignment explanation
Indices: 16285774--16285864 Score: 137
Period size: 27 Copynumber: 3.4 Consensus size: 27
16285764 CCTTCTTGAT
* * *
16285774 AGGCGACACTGATTGAGGACACGCCAG
1 AGGCGGCACTGGTTGAGGTCACGCCAG
* *
16285801 CGGCGGTACTGGTTGAGGTCACGCCAG
1 AGGCGGCACTGGTTGAGGTCACGCCAG
16285828 AGGCGGCACTGGTTGAGGTCACGCCAG
1 AGGCGGCACTGGTTGAGGTCACGCCAG
16285855 AGGCGGCACT
1 AGGCGGCACT
16285865 AGTGAAGCCC
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.21, C:0.26, G:0.38, T:0.14
Consensus pattern (27 bp):
AGGCGGCACTGGTTGAGGTCACGCCAG
Found at i:16292423 original size:26 final size:25
Alignment explanation
Indices: 16292375--16292440 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 25
16292365 GACTAGCAGT
*
16292375 TTAAAAATATATAATCCAAAGCCCAA
1 TTAAAAAT-TAAAATCCAAAGCCCAA
* **
16292401 TTAAAAATTAAAATCGAATAGCCTTA
1 TTAAAAATTAAAATCCAA-AGCCCAA
16292427 TTACAAAATTAAAA
1 TTA-AAAATTAAAA
16292441 ACCCAAAAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
25 8 0.24
26 16 0.47
27 10 0.29
ACGTcount: A:0.55, C:0.14, G:0.05, T:0.27
Consensus pattern (25 bp):
TTAAAAATTAAAATCCAAAGCCCAA
Found at i:16294251 original size:68 final size:67
Alignment explanation
Indices: 16294179--16294328 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
16294169 CATCATGTGT
* * * *
16294179 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
16294241 ATGTAG
62 ATGTAG
** * *
16294247 ACAAGAGAGCTACGGTATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
16294312 AG
66 AG
16294314 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
16294329 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.28, T:0.22
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:16294284 original size:64 final size:64
Alignment explanation
Indices: 16294203--16294386 Score: 187
Period size: 67 Copynumber: 2.8 Consensus size: 64
16294193 AGACATTATG
*
16294203 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACG-GTATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAG-ATAA
* * * * * *
16294267 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
16294332 AA
63 AA
* * * *
16294334 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
16294387 CGAACTATAT
Statistics
Matches: 98, Mismatches: 16, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 30 0.31
68 3 0.03
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:16296033 original size:19 final size:19
Alignment explanation
Indices: 16296009--16296046 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
16295999 TTGGGATCCG
16296009 TAGACTCAAATAAGGGACT
1 TAGACTCAAATAAGGGACT
16296028 TAGACTCAAATAAGGGACT
1 TAGACTCAAATAAGGGACT
16296047 ATGTGTAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.16, G:0.21, T:0.21
Consensus pattern (19 bp):
TAGACTCAAATAAGGGACT
Found at i:16296448 original size:26 final size:26
Alignment explanation
Indices: 16296418--16296470 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
16296408 CCAACACACC
* *
16296418 AATAACGCAGCAAAGTTGCCAGTAAT
1 AATAACGCAGCAAAGCTGCCAGAAAT
* *
16296444 AATAATGCAGCATAGCTGCCAGAAAT
1 AATAACGCAGCAAAGCTGCCAGAAAT
16296470 A
1 A
16296471 GTAAATGAGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.19
Consensus pattern (26 bp):
AATAACGCAGCAAAGCTGCCAGAAAT
Found at i:16296790 original size:27 final size:27
Alignment explanation
Indices: 16296760--16296815 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
16296750 TACCCTACAG
*
16296760 GGGTATTTTGATAATTTTACAAACTGA
1 GGGTATTTCGATAATTTTACAAACTGA
* * *
16296787 GGGTATTTCGGTAATTTTATAATCTGA
1 GGGTATTTCGATAATTTTACAAACTGA
16296814 GG
1 GG
16296816 TCTTAATGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.29, C:0.07, G:0.23, T:0.41
Consensus pattern (27 bp):
GGGTATTTCGATAATTTTACAAACTGA
Found at i:16297047 original size:17 final size:18
Alignment explanation
Indices: 16297025--16297058 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
16297015 ATCTGTGTGA
*
16297025 GGCCCACGA-GCCCATTG
1 GGCCCACAAGGCCCATTG
16297042 GGCCCACAAGGCCCATT
1 GGCCCACAAGGCCCATT
16297059 TTGGCCCAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.21, C:0.41, G:0.26, T:0.12
Consensus pattern (18 bp):
GGCCCACAAGGCCCATTG
Found at i:16304075 original size:101 final size:101
Alignment explanation
Indices: 16303964--16304155 Score: 339
Period size: 101 Copynumber: 1.9 Consensus size: 101
16303954 CTTACATTCG
16303964 TAGTGCCATAACCCAGTTACGGTCTTATCATCAGAACGCCATAGCCCAGCTATGGTCTTACATAT
1 TAGTGCCATAACCCAGTTACGGTCTTATCATCAGAACGCCATAGCCCAGCTATGGTCTTACATAT
* *
16304029 AAACACTGCCATGGTCCAACCATGGTCTTATGTCCA
66 AAACACTACCATAGTCCAACCATGGTCTTATGTCCA
* * *
16304065 TAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGTCATAGCCCAGCTATGGTCTTACATAT
1 TAGTGCCATAACCCAGTTACGGTCTTATCATCAGAACGCCATAGCCCAGCTATGGTCTTACATAT
16304130 AAACACTACCATAGTCCAACCATGGT
66 AAACACTACCATAGTCCAACCATGGT
16304156 TTTACGTGTT
Statistics
Matches: 86, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
101 86 1.00
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (101 bp):
TAGTGCCATAACCCAGTTACGGTCTTATCATCAGAACGCCATAGCCCAGCTATGGTCTTACATAT
AAACACTACCATAGTCCAACCATGGTCTTATGTCCA
Found at i:16305741 original size:13 final size:15
Alignment explanation
Indices: 16305713--16305744 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
16305703 TTAATTTGGC
16305713 ATTAATTTAGACATT
1 ATTAATTTAGACATT
16305728 ATTAA-TTA-ACATT
1 ATTAATTTAGACATT
16305741 ATTA
1 ATTA
16305745 CAACCATTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 9 0.53
14 3 0.18
15 5 0.29
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (15 bp):
ATTAATTTAGACATT
Found at i:16310855 original size:29 final size:29
Alignment explanation
Indices: 16310823--16310881 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
16310813 TTTTAATAGT
* *
16310823 TTAATATTAGATTTTATTTAATACTTATC
1 TTAATATTAAATTTAATTTAATACTTATC
*
16310852 TTAATATTAAATTTAATTTAATATTTATC
1 TTAATATTAAATTTAATTTAATACTTATC
16310881 T
1 T
16310882 ATAAGATAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (29 bp):
TTAATATTAAATTTAATTTAATACTTATC
Found at i:16310891 original size:29 final size:29
Alignment explanation
Indices: 16310823--16310888 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
16310813 TTTTAATAGT
* * *
16310823 TTAATATTAGATTTTATTTAATACTTATC
1 TTAAGATTAAATTTAATTTAATACTTATC
* *
16310852 TTAATATTAAATTTAATTTAATATTTATC
1 TTAAGATTAAATTTAATTTAATACTTATC
16310881 TATAAGAT
1 T-TAAGAT
16310889 AAACATTCTA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 27 0.84
30 5 0.16
ACGTcount: A:0.39, C:0.05, G:0.03, T:0.53
Consensus pattern (29 bp):
TTAAGATTAAATTTAATTTAATACTTATC
Found at i:16310945 original size:12 final size:12
Alignment explanation
Indices: 16310912--16310951 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
16310902 TTTTAATAAG
*
16310912 ATATAATATTAA
1 ATATAATATTTA
*
16310924 ATTTAA-ATTTA
1 ATATAATATTTA
16310935 ATATAATATTTA
1 ATATAATATTTA
16310947 ATATA
1 ATATA
16310952 TATAAATATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
11 9 0.38
12 15 0.62
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
ATATAATATTTA
Found at i:16310976 original size:22 final size:22
Alignment explanation
Indices: 16310907--16310976 Score: 54
Period size: 22 Copynumber: 3.1 Consensus size: 22
16310897 TATTATTTTA
*
16310907 ATAAGATATAATATTAAATTTAAAT
1 ATAA-ATATAATATTTAA--TAAAT
* *
16310932 -TTAATATAATATTTAATATAT
1 ATAAATATAATATTTAATAAAT
*
16310953 ATAAATAT-ATATCTTGATAAAT
1 ATAAATATAATAT-TTAATAAAT
16310975 AT
1 AT
16310977 TACTTTAATT
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
21 8 0.22
22 15 0.41
23 12 0.32
24 2 0.05
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.44
Consensus pattern (22 bp):
ATAAATATAATATTTAATAAAT
Found at i:16316297 original size:30 final size:30
Alignment explanation
Indices: 16316261--16316420 Score: 222
Period size: 29 Copynumber: 5.5 Consensus size: 30
16316251 GACAAGATTG
* * * * *
16316261 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
16316291 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
16316319 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
16316348 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
16316378 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
16316407 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
16316421 GATTCACTAT
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.18
29 49 0.41
30 45 0.38
31 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:16316388 original size:59 final size:57
Alignment explanation
Indices: 16316261--16316420 Score: 223
Period size: 59 Copynumber: 2.8 Consensus size: 57
16316251 GACAAGATTG
* * * * * *
16316261 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCGAGTCTGATTATATA
16316319 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAG-CTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTG---ATTATATA
16316378 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
16316421 GATTCACTAT
Statistics
Matches: 93, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 20 0.22
59 51 0.55
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTGATTATATA
Found at i:16324109 original size:30 final size:30
Alignment explanation
Indices: 16324073--16324232 Score: 222
Period size: 29 Copynumber: 5.5 Consensus size: 30
16324063 GACAAGATTG
* * * * *
16324073 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
16324103 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
16324131 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
16324160 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
16324190 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
16324219 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
16324233 GATTCACTAT
Statistics
Matches: 120, Mismatches: 5, Indels: 11
0.88 0.04 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.18
29 49 0.41
30 45 0.38
31 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:16324200 original size:59 final size:57
Alignment explanation
Indices: 16324073--16324232 Score: 223
Period size: 59 Copynumber: 2.8 Consensus size: 57
16324063 GACAAGATTG
* * * * * *
16324073 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGCTGAAAA-TATATAGCACTAAGTGTGCGAGTCTGATTATATA
16324131 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAG-CTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTG---ATTATATA
16324190 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
1 GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCG
16324233 GATTCACTAT
Statistics
Matches: 93, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
56 2 0.02
57 20 0.22
58 20 0.22
59 51 0.55
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.28
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGCTGAAAATATATAGCACTAAGTGTGCGAGTCTGATTATATA
Found at i:16330454 original size:27 final size:26
Alignment explanation
Indices: 16330365--16330454 Score: 92
Period size: 27 Copynumber: 3.4 Consensus size: 26
16330355 CACCAAACAC
16330365 ACTGGCGAACACCGACTTGCC-AATAG
1 ACTGGCGAACACC-ACTTGCCAAATAG
* * * *
16330391 ACTAGCGAACACTAGCTTGCCAAACAT
1 ACTGGCGAACACCA-CTTGCCAAATAG
*
16330418 AGTGGCGAACACCACCTTGCCAAATAG
1 ACTGGCGAACACCA-CTTGCCAAATAG
*
16330445 ACTGGTGAAC
1 ACTGGCGAAC
16330455 CCCATTACTG
Statistics
Matches: 50, Mismatches: 12, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
25 1 0.02
26 17 0.34
27 32 0.64
ACGTcount: A:0.33, C:0.29, G:0.21, T:0.17
Consensus pattern (26 bp):
ACTGGCGAACACCACTTGCCAAATAG
Found at i:16331140 original size:2 final size:2
Alignment explanation
Indices: 16331133--16331165 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
16331123 AACCAATTCG
16331133 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
16331166 CTTCACATTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:16339800 original size:42 final size:42
Alignment explanation
Indices: 16339741--16339855 Score: 139
Period size: 42 Copynumber: 2.8 Consensus size: 42
16339731 TTTCACGTTA
*
16339741 CTTCCTTTTTTGTCTAAACCTGGA-GATTGCTTTCCCAATTTG
1 CTTCCTTTTTTGTCTAAACATGGATG-TTGCTTTCCCAATTTG
* * *
16339783 CTTCCTTTTTTGTCTAAACATGGATGTTGTTTTCCCAAGTTC
1 CTTCCTTTTTTGTCTAAACATGGATGTTGCTTTCCCAATTTG
* *
16339825 CTT--TTTTTT-TTTAGACATGGATGTTGCTTTC
1 CTTCCTTTTTTGTCTAAACATGGATGTTGCTTTC
16339856 TCACGTTACT
Statistics
Matches: 65, Mismatches: 7, Indels: 5
0.84 0.09 0.06
Matches are distributed among these distances:
39 19 0.29
40 6 0.09
42 39 0.60
43 1 0.02
ACGTcount: A:0.16, C:0.20, G:0.15, T:0.50
Consensus pattern (42 bp):
CTTCCTTTTTTGTCTAAACATGGATGTTGCTTTCCCAATTTG
Found at i:16340490 original size:22 final size:23
Alignment explanation
Indices: 16340449--16340493 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
16340439 AATAACATAG
16340449 TTTTAATAAATGCAAAAAAAATA
1 TTTTAATAAATGCAAAAAAAATA
*
16340472 TTTTAATAAATGAAAAAAAAAT
1 TTTTAATAAATGCAAAAAAAAT
16340494 TGAACTATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.31
Consensus pattern (23 bp):
TTTTAATAAATGCAAAAAAAATA
Found at i:16349923 original size:166 final size:166
Alignment explanation
Indices: 16349648--16349980 Score: 639
Period size: 166 Copynumber: 2.0 Consensus size: 166
16349638 ATTATTGCAA
*
16349648 ATTCACTCTTTCACACTTTCTTTGTATTAACCTCACTTTTAGCATACATATCACAATTCATTTTT
1 ATTCACTCTTTCACACTTTCTTTGTATTAACCTCACTTTTAGCATACATATCACAATTCATTTTC
*
16349713 ACCACATTTCATACATCACAAGTATAAGTCCATGATTACAATGCCACTGTAAAATTATCCCGTTG
66 ACCACATTTCATACATCACAAGTATAAGTCCATGATTACAATGCCACCGTAAAATTATCCCGTTG
16349778 AACAATTCGGATCAATCCTCGATACTTGATGGTTTC
131 AACAATTCGGATCAATCCTCGATACTTGATGGTTTC
16349814 ATTCACTCTTTCACACTTTCTTTGTATTAACCTCACTTTTAGCATACATATCACAATTCATTTTC
1 ATTCACTCTTTCACACTTTCTTTGTATTAACCTCACTTTTAGCATACATATCACAATTCATTTTC
*
16349879 ACCACATTTCATACATCACAAGTATAAGTCCATGATTTCAATGCCACCGTAAAATTATCCCGTTG
66 ACCACATTTCATACATCACAAGTATAAGTCCATGATTACAATGCCACCGTAAAATTATCCCGTTG
16349944 AACAATTCGGATCAATCCTCGATACTTGATGGTTTC
131 AACAATTCGGATCAATCCTCGATACTTGATGGTTTC
16349980 A
1 A
16349981 GCACACTGCC
Statistics
Matches: 164, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
166 164 1.00
ACGTcount: A:0.30, C:0.25, G:0.09, T:0.36
Consensus pattern (166 bp):
ATTCACTCTTTCACACTTTCTTTGTATTAACCTCACTTTTAGCATACATATCACAATTCATTTTC
ACCACATTTCATACATCACAAGTATAAGTCCATGATTACAATGCCACCGTAAAATTATCCCGTTG
AACAATTCGGATCAATCCTCGATACTTGATGGTTTC
Found at i:16360841 original size:68 final size:70
Alignment explanation
Indices: 16360769--16360966 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
16360759 ACACCCTGTA
* * * *
16360769 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
16360831 ATAAAT
65 ATAAAT
*
16360837 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
16360902 ATAAAT
65 ATAAAT
*
16360908 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
16360967 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:16360880 original size:41 final size:41
Alignment explanation
Indices: 16360835--16360952 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
16360825 TGAAAGATAA
16360835 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
16360876 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
16360906 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
16360947 ATGTAG
1 ATGTAG
16360953 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:16360892 original size:71 final size:71
Alignment explanation
Indices: 16360803--16360966 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
16360793 GAGATGTATC
16360803 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
16360868 AGGACA
66 AGGACA
16360874 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
16360939 AGGACA
66 AGGACA
16360945 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
16360967 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:16368409 original size:68 final size:70
Alignment explanation
Indices: 16368337--16368534 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
16368327 ACACCCTGTA
* * * *
16368337 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
16368399 ATAAAT
65 ATAAAT
*
16368405 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
16368470 ATAAAT
65 ATAAAT
*
16368476 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
16368535 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:16368448 original size:41 final size:41
Alignment explanation
Indices: 16368403--16368520 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
16368393 TGAAAGATAA
16368403 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
16368444 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
16368474 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
16368515 ATGTAG
1 ATGTAG
16368521 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:16368460 original size:71 final size:71
Alignment explanation
Indices: 16368371--16368534 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
16368361 GAGATGTATC
16368371 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
16368436 AGGACA
66 AGGACA
16368442 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
16368507 AGGACA
66 AGGACA
16368513 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
16368535 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:16377384 original size:49 final size:49
Alignment explanation
Indices: 16377280--16377454 Score: 167
Period size: 49 Copynumber: 3.6 Consensus size: 49
16377270 CTTGTTGTGT
* * * * * *
16377280 GTCAGTGTAAGACCTGTCTGGGACATGGTATCGGCAC-CGATAGATGAGA
1 GTCAGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTCAATATACGAAA
* * *
16377329 GGCAGTGTAAGACCTATCTGGGACATGGCATCAACCTCAATATACGAAA
1 GTCAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAATATACGAAA
* * * * * *
16377378 GTCAGTGTAAGACCTGTTTGGGACACGGCATCGACTTTAATGTAC--TA
1 GTCAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAATATACGAAA
*
16377425 GCCAGTGTAAGACCATGTCTGGGACATGGC
1 GTCAGTGTAAGACC-TGTCTGGGACATGGC
16377455 GTCGGCATCT
Statistics
Matches: 103, Mismatches: 21, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
47 14 0.14
48 14 0.14
49 75 0.73
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (49 bp):
GTCAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAATATACGAAA
Found at i:16383506 original size:40 final size:41
Alignment explanation
Indices: 16383451--16383571 Score: 194
Period size: 40 Copynumber: 3.0 Consensus size: 41
16383441 CGGATGATAA
* *
16383451 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAAT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATAT
*
16383491 CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATAT
16383531 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATAT
16383571 C
1 C
16383572 GTGCGAGTTA
Statistics
Matches: 76, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
39 2 0.03
40 74 0.97
ACGTcount: A:0.22, C:0.24, G:0.27, T:0.26
Consensus pattern (41 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATAT
Found at i:16383577 original size:17 final size:17
Alignment explanation
Indices: 16383555--16383588 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
16383545 GAAGGCATTT
16383555 GTGCGAGTTACTATATC
1 GTGCGAGTTACTATATC
16383572 GTGCGAGTTACTATATC
1 GTGCGAGTTACTATATC
16383589 CGGGCTAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.35
Consensus pattern (17 bp):
GTGCGAGTTACTATATC
Found at i:16383603 original size:57 final size:57
Alignment explanation
Indices: 16383515--16383626 Score: 215
Period size: 57 Copynumber: 2.0 Consensus size: 57
16383505 GAAGGCATTT
*
16383515 GTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
1 GTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGAGAGTTACTATATC
16383572 GTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGAGAGTTACTATA
1 GTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGAGAGTTACTATA
16383627 ACCGGGCTAA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 54 1.00
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (57 bp):
GTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGAGAGTTACTATATC
Found at i:16383658 original size:97 final size:97
Alignment explanation
Indices: 16383490--16383668 Score: 306
Period size: 97 Copynumber: 1.8 Consensus size: 97
16383480 AGTGACTAAT
* *
16383490 TCCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGCCCCGAAGGCATTTGTGAGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
*
16383555 GTGCGAGTTA-CTATATCGTGCGAGTTACTATA
66 GAGCGAG-TAGCTATATCGTGCGAGTTACTATA
*
16383587 TCCGGGCTAAGTCCCGAAGGCATTTGTGAGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGCCCCGAAGGCATTTGTGAGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
16383652 GAGCGAGTAGCTATATC
66 GAGCGAGTAGCTATATC
16383669 TGGCTAAATC
Statistics
Matches: 77, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
96 2 0.03
97 75 0.97
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (97 bp):
TCCGGGCTAAGCCCCGAAGGCATTTGTGAGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTT
GAGCGAGTAGCTATATCGTGCGAGTTACTATA
Found at i:16383666 original size:40 final size:40
Alignment explanation
Indices: 16383574--16383685 Score: 147
Period size: 40 Copynumber: 2.8 Consensus size: 40
16383564 ACTATATCGT
* *
16383574 GCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
1 GCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGA
*
16383614 GAGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGA
1 GCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGA
* * *
16383654 GCGAG-TAGCTAT-ATCTGGCTAAATCCCGAAGG
1 GCGAGTTA-CTATAACCGGGCTAAGTCCCGAAGG
16383686 TACTTGGTTT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
39 19 0.30
40 45 0.70
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (40 bp):
GCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGA
Found at i:16386616 original size:20 final size:18
Alignment explanation
Indices: 16386581--16386618 Score: 58
Period size: 20 Copynumber: 2.0 Consensus size: 18
16386571 TAAAATTTGG
16386581 TTTGTTATTTGTTTAATT
1 TTTGTTATTTGTTTAATT
16386599 TTTGTTAGTTTAGTTTAATT
1 TTTGTTA-TTT-GTTTAATT
16386619 AGTTGTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.39
19 3 0.17
20 8 0.44
ACGTcount: A:0.18, C:0.00, G:0.13, T:0.68
Consensus pattern (18 bp):
TTTGTTATTTGTTTAATT
Found at i:16402443 original size:6 final size:6
Alignment explanation
Indices: 16402434--16402481 Score: 96
Period size: 6 Copynumber: 8.0 Consensus size: 6
16402424 TTATTTTACC
16402434 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
16402482 AATTTCACCT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTATT
Found at i:16403169 original size:40 final size:40
Alignment explanation
Indices: 16403114--16403190 Score: 154
Period size: 40 Copynumber: 1.9 Consensus size: 40
16403104 CATCAGGGAA
16403114 TCAAGCATGATAAGTTGATTTTTGAAGAATTAAAAAATAG
1 TCAAGCATGATAAGTTGATTTTTGAAGAATTAAAAAATAG
16403154 TCAAGCATGATAAGTTGATTTTTGAAGAATTAAAAAA
1 TCAAGCATGATAAGTTGATTTTTGAAGAATTAAAAAA
16403191 CTTTTAGGTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 37 1.00
ACGTcount: A:0.45, C:0.05, G:0.17, T:0.32
Consensus pattern (40 bp):
TCAAGCATGATAAGTTGATTTTTGAAGAATTAAAAAATAG
Found at i:16413941 original size:16 final size:16
Alignment explanation
Indices: 16413920--16413951 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
16413910 ACCAACTTGG
16413920 AAATACCAATAAATCA
1 AAATACCAATAAATCA
16413936 AAATACCAATAAATCA
1 AAATACCAATAAATCA
16413952 TGCATGGGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.62, C:0.19, G:0.00, T:0.19
Consensus pattern (16 bp):
AAATACCAATAAATCA
Found at i:16416398 original size:55 final size:55
Alignment explanation
Indices: 16416254--16416376 Score: 219
Period size: 55 Copynumber: 2.2 Consensus size: 55
16416244 AGGGCGTGCA
* *
16416254 CCATGGCCGTGTTAAAAAGACAGTGTCATCCATGGGCAGGCAGCACGGGTGTGTG
1 CCATGGCCGTGTTAAAAAGACAGTGTCACCCACGGGCAGGCAGCACGGGTGTGTG
16416309 CCATGGCCGTGTTAAAAAGACAGTGTCACCCACGGGCAGGCAGCACGGGTGTGTG
1 CCATGGCCGTGTTAAAAAGACAGTGTCACCCACGGGCAGGCAGCACGGGTGTGTG
*
16416364 TCATGGCCGTGTT
1 CCATGGCCGTGTT
16416377 GATAAGTCAG
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 65 1.00
ACGTcount: A:0.22, C:0.24, G:0.34, T:0.20
Consensus pattern (55 bp):
CCATGGCCGTGTTAAAAAGACAGTGTCACCCACGGGCAGGCAGCACGGGTGTGTG
Found at i:16416410 original size:55 final size:54
Alignment explanation
Indices: 16416254--16416412 Score: 185
Period size: 55 Copynumber: 2.9 Consensus size: 54
16416244 AGGGCGTGCA
* * *
16416254 CCATGGCCGTGTTAAAAAGACAGTGTCATCCATGGGCAGGCAGCACGGGTGTGTG
1 CCATGGCCGTGTTAAAAAGACAGTGTCACCCACGGGAAGG-AGCACGGGTGTGTG
*
16416309 CCATGGCCGTGTTAAAAAGACAGTGTCACCCACGGGCAGGCAGCACGGGTGTGTG
1 CCATGGCCGTGTTAAAAAGACAGTGTCACCCACGGGAAGG-AGCACGGGTGTGTG
* * * * **
16416364 TCATGGCCGTGTTGATAAGTCAGTGTTGCCCACGGCTGAAGG-GCACGGG
1 CCATGGCCGTGTTAAAAAGACAGTGTCACCCACGG--GAAGGAGCACGGG
16416413 CATGCCCTAA
Statistics
Matches: 93, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
55 89 0.96
57 4 0.04
ACGTcount: A:0.22, C:0.23, G:0.35, T:0.19
Consensus pattern (54 bp):
CCATGGCCGTGTTAAAAAGACAGTGTCACCCACGGGAAGGAGCACGGGTGTGTG
Found at i:16420032 original size:34 final size:34
Alignment explanation
Indices: 16419994--16420062 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
16419984 CTGATGAAAG
16419994 TCTGAAATAGGCTGCTAAAGGAGTACTAACAGGC
1 TCTGAAATAGGCTGCTAAAGGAGTACTAACAGGC
16420028 TCTGAAATAGGCTGCTAAAGGAGTACTAACAGGC
1 TCTGAAATAGGCTGCTAAAGGAGTACTAACAGGC
16420062 T
1 T
16420063 TAGTACTTCG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.35, C:0.17, G:0.26, T:0.22
Consensus pattern (34 bp):
TCTGAAATAGGCTGCTAAAGGAGTACTAACAGGC
Found at i:16435476 original size:21 final size:21
Alignment explanation
Indices: 16435450--16435491 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
16435440 CGGGCCGGGA
16435450 ATAGGATATTAAAGTGACTAT
1 ATAGGATATTAAAGTGACTAT
16435471 ATAGGATATTAAAGTGACTAT
1 ATAGGATATTAAAGTGACTAT
16435492 CGCCTTTTCG
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:0.43, C:0.05, G:0.19, T:0.33
Consensus pattern (21 bp):
ATAGGATATTAAAGTGACTAT
Found at i:16437241 original size:20 final size:20
Alignment explanation
Indices: 16437218--16437259 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
16437208 TTAAACTCTG
*
16437218 AAAATGATTAAAAAATATAA
1 AAAATGATAAAAAAATATAA
* *
16437238 AAAATTATAAAAAAATTTAA
1 AAAATGATAAAAAAATATAA
16437258 AA
1 AA
16437260 TTATAAGTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.26
Consensus pattern (20 bp):
AAAATGATAAAAAAATATAA
Found at i:16437249 original size:18 final size:18
Alignment explanation
Indices: 16437226--16437265 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
16437216 TGAAAATGAT
16437226 TAAAAAATATAAAAAATTA
1 TAAAAAA-ATAAAAAATTA
**
16437245 TAAAAAAATTTAAAATTA
1 TAAAAAAATAAAAAATTA
16437263 TAA
1 TAA
16437266 GTATGCATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (18 bp):
TAAAAAAATAAAAAATTA
Found at i:16439088 original size:2 final size:2
Alignment explanation
Indices: 16439081--16439108 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
16439071 ATTAATTTTG
16439081 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16439109 TACAATTCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16441436 original size:25 final size:25
Alignment explanation
Indices: 16441408--16441548 Score: 228
Period size: 25 Copynumber: 5.6 Consensus size: 25
16441398 CATATATATT
* *
16441408 CGCACACATAGTGCCATAAAATTTC
1 CGCACACTTAGTGCCATACAATTTC
16441433 CGCACACTTAGTGCCATACAATTTC
1 CGCACACTTAGTGCCATACAATTTC
16441458 CGCACACTTAGTGCCATACAATTTC
1 CGCACACTTAGTGCCATACAATTTC
* * *
16441483 CGCACAGTTAGTGCCATATAATTTT
1 CGCACACTTAGTGCCATACAATTTC
*
16441508 CGCACACTTAGTGCCATATAATTTC
1 CGCACACTTAGTGCCATACAATTTC
16441533 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
16441549 AGTCATTTCG
Statistics
Matches: 109, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 109 1.00
ACGTcount: A:0.29, C:0.29, G:0.13, T:0.28
Consensus pattern (25 bp):
CGCACACTTAGTGCCATACAATTTC
Found at i:16450816 original size:10 final size:9
Alignment explanation
Indices: 16450772--16450820 Score: 53
Period size: 9 Copynumber: 5.3 Consensus size: 9
16450762 TATACATGAT
16450772 TTTTAATAA
1 TTTTAATAA
* * *
16450781 ATATATTAA
1 TTTTAATAA
*
16450790 GTTTAATAA
1 TTTTAATAA
16450799 TTTTAATAA
1 TTTTAATAA
16450808 TTCTTAATAA
1 TT-TTAATAA
16450818 TTT
1 TTT
16450821 ATAAATAGTT
Statistics
Matches: 32, Mismatches: 7, Indels: 2
0.78 0.17 0.05
Matches are distributed among these distances:
9 23 0.72
10 9 0.28
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (9 bp):
TTTTAATAA
Found at i:16453262 original size:41 final size:41
Alignment explanation
Indices: 16453215--16453298 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
16453205 TGAGAAAGAA
16453215 AACTTTCAATTGGTGTAAGTGGTATGAAAAAAGAAAGCTAT
1 AACTTTCAATTGGTGTAAGTGGTATGAAAAAAGAAAGCTAT
16453256 AACTTTCAATTGGTGTAAGTGGTATGAAAAAAGAAAGCTAT
1 AACTTTCAATTGGTGTAAGTGGTATGAAAAAAGAAAGCTAT
16453297 AA
1 AA
16453299 AATAATAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.43, C:0.07, G:0.21, T:0.29
Consensus pattern (41 bp):
AACTTTCAATTGGTGTAAGTGGTATGAAAAAAGAAAGCTAT
Found at i:16457921 original size:37 final size:37
Alignment explanation
Indices: 16457879--16457966 Score: 131
Period size: 37 Copynumber: 2.4 Consensus size: 37
16457869 TAGAGAATTG
* *
16457879 TTTTCTTGATATTATTTGAGATTGATCCAAAATGTTA
1 TTTTCTTGATATTATTTAAGATTGATCCAAAAGGTTA
* * *
16457916 TTTTCTTAATATTATTTAAGATTGATTCAAAGGGTTA
1 TTTTCTTGATATTATTTAAGATTGATCCAAAAGGTTA
16457953 TTTTCTTGATATTA
1 TTTTCTTGATATTA
16457967 ATCTTGTTTG
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.30, C:0.07, G:0.12, T:0.51
Consensus pattern (37 bp):
TTTTCTTGATATTATTTAAGATTGATCCAAAAGGTTA
Found at i:16467959 original size:116 final size:116
Alignment explanation
Indices: 16467755--16467985 Score: 408
Period size: 116 Copynumber: 2.0 Consensus size: 116
16467745 CCTTTCTTGA
16467755 TCCGAATTAAGCTTCCAAATAGCCGAAACTTAAAACTCTTTATCTTTTCTTTTTGTTCTTCAATT
1 TCCGAATTAAGCTTCCAAATAGCCGAAACTTAAAACTCTTTATCTTTTCTTTTTGTTCTTCAATT
* * *
16467820 TTTGGCACAAACAAAGCATAAAATGCCTATTTTCAAGTTTTGTTATATCAG
66 TTCGGCACAAACAAAACATAAAATGACTATTTTCAAGTTTTGTTATATCAG
* * *
16467871 TCCGAATTAAGCTTTCAAATAGCCGAACCTTAGAACTCTTTATCTTTTCTTTTTGTTCTTCAATT
1 TCCGAATTAAGCTTCCAAATAGCCGAAACTTAAAACTCTTTATCTTTTCTTTTTGTTCTTCAATT
16467936 TTCGGCACAAACAAAACATAAAATGACTATTTTCAAGTTTTGTTATATCA
66 TTCGGCACAAACAAAACATAAAATGACTATTTTCAAGTTTTGTTATATCA
16467986 TTTATTAATT
Statistics
Matches: 109, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
116 109 1.00
ACGTcount: A:0.31, C:0.19, G:0.10, T:0.40
Consensus pattern (116 bp):
TCCGAATTAAGCTTCCAAATAGCCGAAACTTAAAACTCTTTATCTTTTCTTTTTGTTCTTCAATT
TTCGGCACAAACAAAACATAAAATGACTATTTTCAAGTTTTGTTATATCAG
Found at i:16469585 original size:2 final size:2
Alignment explanation
Indices: 16469578--16469602 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
16469568 ATCTATATTA
16469578 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
16469603 ATAGTTAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:16474414 original size:24 final size:24
Alignment explanation
Indices: 16474387--16474434 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
16474377 GTTCAGGAAC
*
16474387 AAGCTCGTATATTGGCTAGTTTAT
1 AAGCTCGTATATTGACTAGTTTAT
* * *
16474411 AAGCTTGTTTATTGACTCGTTTAT
1 AAGCTCGTATATTGACTAGTTTAT
16474435 TTATTAATGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.23, C:0.12, G:0.19, T:0.46
Consensus pattern (24 bp):
AAGCTCGTATATTGACTAGTTTAT
Found at i:16477392 original size:27 final size:25
Alignment explanation
Indices: 16477342--16477502 Score: 91
Period size: 25 Copynumber: 6.4 Consensus size: 25
16477332 AAGTCAATAA
16477342 CGGGAAGCTCCGAAGAGCCATTAAT
1 CGGGAAGCTCCGAAGAGCCATTAAT
* *
16477367 CGGGAAGCTCATGAAAGAGCCTTTAAT
1 CGGGAAGCTC-CG-AAGAGCCATTAAT
* * * *
16477394 TGGGAAGCTTCGGATAGCCA-TATAT
1 CGGGAAGCTCCGAAGAGCCATTA-AT
* *
16477419 CGGGAAG-TTC-AAGCAAGCCAAT-AT
1 CGGGAAGCTCCGAAG--AGCCATTAAT
* * * *
16477443 CAGGAAGCT-CTAGAGAGCCTTTAAA
1 CGGGAAGCTCCGA-AGAGCCATTAAT
* *
16477468 CAGGAAGCTCCAAAGAGCCA-TATAT
1 CGGGAAGCTCCGAAGAGCCATTA-AT
16477493 CGGGAAGCTC
1 CGGGAAGCTC
16477503 ATAGGAGCTG
Statistics
Matches: 105, Mismatches: 19, Indels: 24
0.71 0.13 0.16
Matches are distributed among these distances:
23 1 0.01
24 21 0.20
25 56 0.53
26 7 0.07
27 20 0.19
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.19
Consensus pattern (25 bp):
CGGGAAGCTCCGAAGAGCCATTAAT
Found at i:16481287 original size:13 final size:13
Alignment explanation
Indices: 16481269--16481294 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
16481259 TAATATTAGT
16481269 TTAATAATAATAA
1 TTAATAATAATAA
16481282 TTAATAATAATAA
1 TTAATAATAATAA
16481295 ACAAAACAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TTAATAATAATAA
Found at i:16482727 original size:42 final size:42
Alignment explanation
Indices: 16482678--16482827 Score: 192
Period size: 42 Copynumber: 3.5 Consensus size: 42
16482668 TGAGATTACG
* ****
16482678 TGTAAGACCATATCTGGGATATGTCATCGATATGAGATTTTG
1 TGTAAGACCATATCTGGGATATGACATCGATATGAGATCCCA
* * * *
16482720 TGTAAGACCATAGCTAGGCTATTGGCATCGATATGAGATCCCA
1 TGTAAGACCATATCTGGGATA-TGACATCGATATGAGATCCCA
*
16482763 TGTAAGACCATATTTGGGATATGACATCGATATGAGATCCCA
1 TGTAAGACCATATCTGGGATATGACATCGATATGAGATCCCA
*
16482805 TATAAGACCATATCTGGGATATG
1 TGTAAGACCATATCTGGGATATG
16482828 GCATTGGTAT
Statistics
Matches: 92, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
42 59 0.64
43 33 0.36
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGACATCGATATGAGATCCCA
Found at i:16490220 original size:43 final size:42
Alignment explanation
Indices: 16490129--16490240 Score: 152
Period size: 43 Copynumber: 2.6 Consensus size: 42
16490119 TGAGATTACG
* **
16490129 TGTAAGACCATATCTGGGATATGGCATCGATATGAGGTTTCA
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGATCCCA
* * *
16490171 TTTAAGACCATAGCTGGGCTATTGGCATCGATATGAGATCCCA
1 TGTAAGACCATATCTGGGATA-TGGCATCGATATGAGATCCCA
*
16490214 TGTAAGACCAAATCTGGGATATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
16490241 TGGTTTGGTA
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 24 0.41
43 35 0.59
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCGATATGAGATCCCA
Found at i:16492583 original size:37 final size:37
Alignment explanation
Indices: 16492501--16492604 Score: 93
Period size: 37 Copynumber: 2.8 Consensus size: 37
16492491 TTCTTCTTGT
* * * *
16492501 TTTGGCATGTTTACGAATGGATTAGCTTTTCGAAGTA
1 TTTGGCGTGTTTACGAACGGATTAGCTCTTCGAAGCA
* * *
16492538 TCTAGCGTGTTTAC-AGACGGATTAGCTCTTCGGAGCA
1 TTTGGCGTGTTTACGA-ACGGATTAGCTCTTCGAAGCA
** **
16492575 TTTGGCGTGTTTTTGATTGGATTAGCTCTT
1 TTTGGCGTGTTTACGAACGGATTAGCTCTT
16492605 ATGAGCGTTG
Statistics
Matches: 52, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
36 1 0.02
37 50 0.96
38 1 0.02
ACGTcount: A:0.19, C:0.14, G:0.26, T:0.40
Consensus pattern (37 bp):
TTTGGCGTGTTTACGAACGGATTAGCTCTTCGAAGCA
Found at i:16494998 original size:46 final size:46
Alignment explanation
Indices: 16494860--16495081 Score: 188
Period size: 46 Copynumber: 4.8 Consensus size: 46
16494850 TCACTTGTAT
* * * * *
16494860 GAGCTAGTGTAAGACATGTTTGGGGCATGCATCAGCCAT--ATTATGA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCC-TCGA-GACGA
* * * *
16494906 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATTGAGACGA
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGA
*
16494954 GTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTA
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACG-A
* * *
16495001 -AGCTAGTGTAAGACATGTCTGGGACATGCAT-TGACTACGATA--A
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGACGA
*
16495044 GTG-TCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 GAGCT-AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
16495082 ACATATATAC
Statistics
Matches: 145, Mismatches: 20, Indels: 21
0.78 0.11 0.11
Matches are distributed among these distances:
43 2 0.01
44 10 0.07
45 17 0.12
46 66 0.46
47 27 0.19
48 22 0.15
49 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (46 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGA
Found at i:16496313 original size:21 final size:21
Alignment explanation
Indices: 16496287--16496361 Score: 123
Period size: 21 Copynumber: 3.6 Consensus size: 21
16496277 TGAAATGGCC
* *
16496287 ACACGGGCATGTTGCCCTTCT
1 ACACGGGCGTGTTGCCCCTCT
16496308 ACACGGGCGTGTTGCCCCTCT
1 ACACGGGCGTGTTGCCCCTCT
16496329 ACACGGGCGTGTTGCCCCTCT
1 ACACGGGCGTGTTGCCCCTCT
*
16496350 AAACGGGCGTGT
1 ACACGGGCGTGT
16496362 GACCTGTTTC
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 51 1.00
ACGTcount: A:0.13, C:0.33, G:0.29, T:0.24
Consensus pattern (21 bp):
ACACGGGCGTGTTGCCCCTCT
Found at i:16501965 original size:35 final size:35
Alignment explanation
Indices: 16501788--16501967 Score: 243
Period size: 35 Copynumber: 5.1 Consensus size: 35
16501778 AGTGTTTTGT
* **
16501788 TTGGATTAGCTCTTATGAGCATTGGCGTATTACAA
1 TTGGATTAGCTCTTATGAGCATTGGCGTGTTACGG
* *
16501823 TTGGATTAGCTCTTATGAGCATTGGCATGTTACGA
1 TTGGATTAGCTCTTATGAGCATTGGCGTGTTACGG
16501858 TTGGATTAGCTCTTATGAGCATTGGCGTGTTACGG
1 TTGGATTAGCTCTTATGAGCATTGGCGTGTTACGG
* * * *
16501893 TTGGACTAGCTCTTATGAGCACTGGCGTATTTCGG
1 TTGGATTAGCTCTTATGAGCATTGGCGTGTTACGG
* * * *
16501928 TTGGATTAGCTTTTATGAGTATCGGCGTGTTATGG
1 TTGGATTAGCTCTTATGAGCATTGGCGTGTTACGG
16501963 TTGGA
1 TTGGA
16501968 CTGACGATAT
Statistics
Matches: 128, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 128 1.00
ACGTcount: A:0.20, C:0.14, G:0.28, T:0.38
Consensus pattern (35 bp):
TTGGATTAGCTCTTATGAGCATTGGCGTGTTACGG
Found at i:16503216 original size:11 final size:10
Alignment explanation
Indices: 16503190--16503240 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
16503180 GGAGAGCACC
*
16503190 AAGAGTCAAA
1 AAGAGCCAAA
*
16503200 AGGAGCCAAA
1 AAGAGCCAAA
16503210 AACGAGCCAAA
1 AA-GAGCCAAA
*
16503221 AAGAGACAAA
1 AAGAGCCAAA
16503231 ACAGA-CCAAA
1 A-AGAGCCAAA
16503241 TCGAGAAGAT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
10 21 0.62
11 13 0.38
ACGTcount: A:0.59, C:0.20, G:0.20, T:0.02
Consensus pattern (10 bp):
AAGAGCCAAA
Found at i:16504281 original size:13 final size:13
Alignment explanation
Indices: 16504259--16504291 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
16504249 TTGCTTTAGT
16504259 TTAG-TTAGTTAA
1 TTAGTTTAGTTAA
16504271 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
16504284 TTAGTTTA
1 TTAGTTTA
16504292 ATAAACAACC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.20
13 16 0.80
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.55
Consensus pattern (13 bp):
TTAGTTTAGTTAA
Found at i:16504419 original size:24 final size:24
Alignment explanation
Indices: 16504387--16504432 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
16504377 TGTAACACCC
16504387 CGTACCCGAGAATGTTGCCAGAGT
1 CGTACCCGAGAATGTTGCCAGAGT
16504411 CGTACCCGAGAATGTTGCCAGA
1 CGTACCCGAGAATGTTGCCAGA
16504433 CTTAATTCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.26, C:0.26, G:0.28, T:0.20
Consensus pattern (24 bp):
CGTACCCGAGAATGTTGCCAGAGT
Found at i:16505793 original size:40 final size:40
Alignment explanation
Indices: 16505731--16505948 Score: 298
Period size: 40 Copynumber: 5.5 Consensus size: 40
16505721 AAGCCAAGTA
* * * *
16505731 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* **
16505770 CCTTCGGGACATAGCCCGGATATAGTAACTCATACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
16505810 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
16505850 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
16505890 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
16505930 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
16505949 TTATCATCCA
Statistics
Matches: 161, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
39 13 0.08
40 148 0.92
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:16507768 original size:28 final size:29
Alignment explanation
Indices: 16507703--16507780 Score: 79
Period size: 28 Copynumber: 2.7 Consensus size: 29
16507693 AACTTTCACA
* *
16507703 CATTCATAATCACATACTTTAGACAATAAAT
1 CATT-ATATTCACATA-TTTTGACAATAAAT
*
16507734 -ATCATATTCACATATTTTGACAAT-AAT
1 CATTATATTCACATATTTTGACAATAAAT
* *
16507761 CATTATATTCAAATAATTTG
1 CATTATATTCACATATTTTG
16507781 GTGACTCGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
27 3 0.08
28 25 0.62
29 10 0.25
30 2 0.05
ACGTcount: A:0.42, C:0.15, G:0.04, T:0.38
Consensus pattern (29 bp):
CATTATATTCACATATTTTGACAATAAAT
Found at i:16513137 original size:6 final size:6
Alignment explanation
Indices: 16513126--16513171 Score: 65
Period size: 6 Copynumber: 7.5 Consensus size: 6
16513116 TCCTCTTATC
* *
16513126 TTTTTA TTTTTA TTTTTTA TTTTTA TTTTTC TTTTTA TTTTCA TTT
1 TTTTTA TTTTTA -TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
16513172 CAATTTTATT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
6 30 0.83
7 6 0.17
ACGTcount: A:0.13, C:0.04, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:16513148 original size:12 final size:13
Alignment explanation
Indices: 16513121--16513166 Score: 67
Period size: 13 Copynumber: 3.5 Consensus size: 13
16513111 TTGAATCCTC
16513121 TTATCTTTTTATTT
1 TTAT-TTTTTATTT
16513135 TTATTTTTTATTT
1 TTATTTTTTATTT
*
16513148 TTA-TTTTTCTTT
1 TTATTTTTTATTT
16513160 TTATTTT
1 TTATTTT
16513167 CATTTCAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
12 11 0.37
13 15 0.50
14 4 0.13
ACGTcount: A:0.13, C:0.04, G:0.00, T:0.83
Consensus pattern (13 bp):
TTATTTTTTATTT
Found at i:16516068 original size:13 final size:13
Alignment explanation
Indices: 16516050--16516078 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
16516040 TTTAGTTTAA
16516050 TTAGTTAATTAGT
1 TTAGTTAATTAGT
16516063 TTAGTTAATTAGT
1 TTAGTTAATTAGT
16516076 TTA
1 TTA
16516079 ATAAACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:16517006 original size:17 final size:19
Alignment explanation
Indices: 16516977--16517015 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
16516967 ATGTAGTCTA
16516977 CCATGTGGGCCCACAC-GC
1 CCATGTGGGCCCACACGGC
16516995 CCATGT-GGCCCACACGGC
1 CCATGTGGGCCCACACGGC
16517013 CCA
1 CCA
16517016 AATTGGTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.18, C:0.46, G:0.26, T:0.10
Consensus pattern (19 bp):
CCATGTGGGCCCACACGGC
Found at i:16541610 original size:42 final size:43
Alignment explanation
Indices: 16541510--16541623 Score: 133
Period size: 42 Copynumber: 2.7 Consensus size: 43
16541500 GTTTCAATGT
* * * * **
16541510 CATATCCCCGATATGGTCTTACATGAAAT-ATCATATCGATTC
1 CATATCCCAGATATGGTCTTATACGAAATCATCATACCGAGGC
* * *
16541552 CATGTCCCTGACATGGTCTTATACGAAATCA-CATACCGAGGC
1 CATATCCCAGATATGGTCTTATACGAAATCATCATACCGAGGC
16541594 CATATCCCAGATATGGTCTTATACGAAATC
1 CATATCCCAGATATGGTCTTATACGAAATC
16541624 TTAATAACCT
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 59 0.98
43 1 0.02
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (43 bp):
CATATCCCAGATATGGTCTTATACGAAATCATCATACCGAGGC
Found at i:16547911 original size:23 final size:23
Alignment explanation
Indices: 16547881--16547925 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
16547871 TACAAGGTCG
16547881 TCACAAAGTCATTCTCATGACTC
1 TCACAAAGTCATTCTCATGACTC
16547904 TCACAAAGTCATTCTCATGACT
1 TCACAAAGTCATTCTCATGACT
16547926 TACTCATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.31, C:0.29, G:0.09, T:0.31
Consensus pattern (23 bp):
TCACAAAGTCATTCTCATGACTC
Found at i:16548401 original size:95 final size:95
Alignment explanation
Indices: 16548234--16548503 Score: 267
Period size: 95 Copynumber: 2.8 Consensus size: 95
16548224 CCATGACCTG
* * *
16548234 GACATGGTCTTACACTGGCTCACACATCAAAG-TCGATGCCATGTCCCAGACATGGTCTTACATT
1 GACATGGTCTTACACTGG--CACATATC-AAGCT-GATGCCATGTCCTAGACATGGTCTTACACT
* * *
16548298 GGCTCTCATCTATCG-GTGCCGATGCCATCTCCCA
62 AGCTCTCATATATCGAG-GCCGATGCCATCGCCCA
*
16548332 GACATGGTCTTACACTGGCACATATCAAGCTGATGCCATGTCCTAGACATGGTCTTGCACTAGCT
1 GACATGGTCTTACACTGGCACATATCAAGCTGATGCCATGTCCTAGACATGGTCTTACACTAGCT
* * * *
16548397 CTCATATCTTGAGGCCGATGTCATGGCCCA
66 CTCATATATCGAGGCCGATGCCATCGCCCA
* * * * *
16548427 AACATGGTCTTACACTAGCTCTCATATCTCAAGGCCGATGCCATGT-CTCAGACATGATCTTACA
1 GACATGGTCTTACACT-G-GCACATA--TCAA-GCTGATGCCATGTCCT-AGACATGGTCTTACA
*
16548491 CTAGCTTTCATAT
60 CTAGCTCTCATAT
16548504 CTCCCTAGCA
Statistics
Matches: 146, Mismatches: 18, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
95 70 0.48
96 10 0.07
97 5 0.03
98 18 0.12
99 6 0.04
100 37 0.25
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (95 bp):
GACATGGTCTTACACTGGCACATATCAAGCTGATGCCATGTCCTAGACATGGTCTTACACTAGCT
CTCATATATCGAGGCCGATGCCATCGCCCA
Found at i:16548433 original size:50 final size:50
Alignment explanation
Indices: 16548235--16548506 Score: 209
Period size: 50 Copynumber: 5.6 Consensus size: 50
16548225 CATGACCTGG
* * * * * * *
16548235 ACATGGTCTTACACTGGCTCACACA--TCAAAGTCGATGCCATGTCCCAG
1 ACATGGTCTTACACTAGCTCTCATATCTCAAGGCCGATGCCATGGCCCAA
* * * * * ** *
16548283 ACATGGTCTTACATTGGCTCTCATCTATC-GGTGCCGATGCCATCTCCCAG
1 ACATGGTCTTACACTAGCTCTCATATCTCAAG-GCCGATGCCATGGCCCAA
* * * * * *
16548333 ACATGGTCTTACACT-G-GCACATA--TCAA-GCTGATGCCATGTCCTAG
1 ACATGGTCTTACACTAGCTCTCATATCTCAAGGCCGATGCCATGGCCCAA
* ** *
16548378 ACATGGTCTTGCACTAGCTCTCATATCTTGAGGCCGATGTCATGGCCCAA
1 ACATGGTCTTACACTAGCTCTCATATCTCAAGGCCGATGCCATGGCCCAA
* * *
16548428 ACATGGTCTTACACTAGCTCTCATATCTCAAGGCCGATGCCATGTCTCAG
1 ACATGGTCTTACACTAGCTCTCATATCTCAAGGCCGATGCCATGGCCCAA
* *
16548478 ACATGATCTTACACTAGCTTTCATATCTC
1 ACATGGTCTTACACTAGCTCTCATATCTC
16548507 CCTAGCATCA
Statistics
Matches: 180, Mismatches: 35, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
45 29 0.16
46 3 0.02
47 5 0.03
48 25 0.14
49 3 0.02
50 115 0.64
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.28
Consensus pattern (50 bp):
ACATGGTCTTACACTAGCTCTCATATCTCAAGGCCGATGCCATGGCCCAA
Found at i:16550022 original size:77 final size:77
Alignment explanation
Indices: 16549895--16550045 Score: 302
Period size: 77 Copynumber: 2.0 Consensus size: 77
16549885 TTACAAACAC
16549895 GACAATCGAGTCAAGCATGGGGTGTTACACAACTGTTTAACATTGCTTTAAAAAATATGGTGAAA
1 GACAATCGAGTCAAGCATGGGGTGTTACACAACTGTTTAACATTGCTTTAAAAAATATGGTGAAA
16549960 AGTTAAAATCAT
66 AGTTAAAATCAT
16549972 GACAATCGAGTCAAGCATGGGGTGTTACACAACTGTTTAACATTGCTTTAAAAAATATGGTGAAA
1 GACAATCGAGTCAAGCATGGGGTGTTACACAACTGTTTAACATTGCTTTAAAAAATATGGTGAAA
16550037 AGTTAAAAT
66 AGTTAAAAT
16550046 GCCCATCTTA
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 74 1.00
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (77 bp):
GACAATCGAGTCAAGCATGGGGTGTTACACAACTGTTTAACATTGCTTTAAAAAATATGGTGAAA
AGTTAAAATCAT
Done.