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 296 of 356
Found at i:96394834 original size:45 final size:45
Alignment explanation
Indices: 96394666--96394834 Score: 266
Period size: 45 Copynumber: 3.8 Consensus size: 45
96394656 AACAAGATGT
* *
96394666 CATAGTGTCTTTCAGCTATGGTCTTATTCATTTTCGGTATAGTGT
1 CATAGTGTCTTTCAACTATGGTCTTATTCATTTTCGGTATAGTGC
* *
96394711 CATAGTGTCTTTCAACTATGGTCTTATTTATTTTTGGTATAGTGC
1 CATAGTGTCTTTCAACTATGGTCTTATTCATTTTCGGTATAGTGC
* * *
96394756 CATAGTGTCATTCAAATATGGTCTTATTTATTTTCGGTATAGTGC
1 CATAGTGTCTTTCAACTATGGTCTTATTCATTTTCGGTATAGTGC
*
96394801 CATAGTGTCTTTCAACTATGGTCTTAATCATTTT
1 CATAGTGTCTTTCAACTATGGTCTTATTCATTTT
96394835 TCAAGCCAAT
Statistics
Matches: 113, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 113 1.00
ACGTcount: A:0.21, C:0.15, G:0.17, T:0.47
Consensus pattern (45 bp):
CATAGTGTCTTTCAACTATGGTCTTATTCATTTTCGGTATAGTGC
Found at i:96397180 original size:21 final size:21
Alignment explanation
Indices: 96397154--96397196 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
96397144 CCTCATGAAC
96397154 CTTTTTGGGGAATTTTGACAA
1 CTTTTTGGGGAATTTTGACAA
96397175 CTTTTTGGGGAATTTTGACAA
1 CTTTTTGGGGAATTTTGACAA
96397196 C
1 C
96397197 CTTCAGCTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.12, G:0.23, T:0.42
Consensus pattern (21 bp):
CTTTTTGGGGAATTTTGACAA
Found at i:96397429 original size:20 final size:20
Alignment explanation
Indices: 96397406--96397445 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
96397396 TTAAATTCTA
*
96397406 AAAGATAAATACAAATAAAT
1 AAAGATAAATAAAAATAAAT
96397426 AAAGATAAATAAAAATAAAT
1 AAAGATAAATAAAAATAAAT
96397446 CCTAAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.72, C:0.03, G:0.05, T:0.20
Consensus pattern (20 bp):
AAAGATAAATAAAAATAAAT
Found at i:96397479 original size:13 final size:13
Alignment explanation
Indices: 96397460--96397497 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
96397450 AAATTTAAAT
96397460 CTAAATAATTATC
1 CTAAATAATTATC
*
96397473 CTCAATAATTATC
1 CTAAATAATTATC
96397486 CTAATATAATTA
1 CTAA-ATAATTA
96397498 AACATTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (13 bp):
CTAAATAATTATC
Found at i:96397665 original size:17 final size:19
Alignment explanation
Indices: 96397630--96397665 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
96397620 CAAATTCATG
96397630 CTTTTCGCCTTCAAATTTA
1 CTTTTCGCCTTCAAATTTA
96397649 CTTTT-GCCTTC-AATTTA
1 CTTTTCGCCTTCAAATTTA
96397666 GTCTCTAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 6 0.35
19 5 0.29
ACGTcount: A:0.19, C:0.25, G:0.06, T:0.50
Consensus pattern (19 bp):
CTTTTCGCCTTCAAATTTA
Found at i:96400930 original size:37 final size:37
Alignment explanation
Indices: 96400880--96400958 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
96400870 TTATTACGAA
* * *
96400880 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
96400917 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
96400954 GTCTT
1 GTCTT
96400959 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:96401155 original size:47 final size:47
Alignment explanation
Indices: 96401077--96401278 Score: 314
Period size: 47 Copynumber: 4.3 Consensus size: 47
96401067 CCCTTCGGGA
* * * * * *
96401077 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
96401124 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
96401171 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
96401220 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
96401267 CTTATCACATAT
1 CTTATCACATAT
96401279 CTATGCGATT
Statistics
Matches: 143, Mismatches: 10, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
47 96 0.67
49 47 0.33
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:96401239 original size:96 final size:95
Alignment explanation
Indices: 96401077--96401278 Score: 325
Period size: 96 Copynumber: 2.1 Consensus size: 95
96401067 CCCTTCGGGA
* * * *
96401077 CTTATCACAT-TTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACA
1 CTTATCACATATTATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACA
96401141 CTTTCACATTCATCACATCGGCCATTAGGC
66 CTTTCACATTCATCACATCGGCCATTAGGC
* * *
96401171 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATAT-TATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATAC
96401236 ACTTTCACATTCATCACATCGGCCATTAGGC
65 ACTTTCACATTCATCACATCGGCCATTAGGC
96401267 CTTATCACATAT
1 CTTATCACATAT
96401279 CTATGCGATT
Statistics
Matches: 99, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
94 10 0.10
95 1 0.01
96 88 0.89
ACGTcount: A:0.28, C:0.31, G:0.09, T:0.32
Consensus pattern (95 bp):
CTTATCACATATTATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACA
CTTTCACATTCATCACATCGGCCATTAGGC
Found at i:96408457 original size:28 final size:28
Alignment explanation
Indices: 96408391--96408518 Score: 175
Period size: 28 Copynumber: 4.5 Consensus size: 28
96408381 GTTGATTTCG
* * **
96408391 GCACTAAGTGTGCGGGTTTAAATTGCATA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
96408420 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
96408448 GCACTAAGTGTGCGAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATAT-A
96408477 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
96408505 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
96408519 GACTTACTAT
Statistics
Matches: 89, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
28 45 0.51
29 44 0.49
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:96408480 original size:57 final size:57
Alignment explanation
Indices: 96408391--96408518 Score: 186
Period size: 57 Copynumber: 2.2 Consensus size: 57
96408381 GTTGATTTCG
*
96408391 GCACTAAGTGTGCGGGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
* * * *
96408448 GCACTAAGTGTGCGAGTTTGATTATGTA-AGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAAT-TGCATAGCACTAAGTGTGCAAGTTTGATTATATA
*
96408505 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
96408519 GACTTACTAT
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
57 61 0.95
58 3 0.05
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
Found at i:96410198 original size:32 final size:32
Alignment explanation
Indices: 96410162--96410230 Score: 111
Period size: 32 Copynumber: 2.2 Consensus size: 32
96410152 TTGCTTTAAG
96410162 TAAAATTCAAAAAGTATTCCAATTAACACACA
1 TAAAATTCAAAAAGTATTCCAATTAACACACA
* *
96410194 TAAAATTGAAAAAGTGTTCCAATTAACACACA
1 TAAAATTCAAAAAGTATTCCAATTAACACACA
*
96410226 CAAAA
1 TAAAA
96410231 ATCACTAAAC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.54, C:0.17, G:0.06, T:0.23
Consensus pattern (32 bp):
TAAAATTCAAAAAGTATTCCAATTAACACACA
Found at i:96410332 original size:8 final size:7
Alignment explanation
Indices: 96410298--96410331 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
96410288 TAATATGTCT
96410298 TTTTTTC
1 TTTTTTC
96410305 TTTTTTC
1 TTTTTTC
96410312 TTTTTTC
1 TTTTTTC
96410319 TTTTTTC
1 TTTTTTC
96410326 TTTTTT
1 TTTTTT
96410332 TTTAATTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTC
Found at i:96410519 original size:96 final size:97
Alignment explanation
Indices: 96410351--96410530 Score: 263
Period size: 96 Copynumber: 1.9 Consensus size: 97
96410341 ATTTAATTTA
* * * *
96410351 TTTATTTTTACTTAGGAATATATTGAACCTTTTGACGCAAAGAGAGATGACAGCCAAGCACCCCA
1 TTTATTTTTACTTAAGAACATATCGAACCTTTTGACGCAAAGAGAGATGACAGCCAAGCAACCCA
*
96410416 CCTCGGTTACTCAGCCCAATGTACTCCTAATT
66 CCCCGGTTACTCAGCCCAATGTACTCCTAATT
* ** *
96410448 TTTATTTTT-CTTAAGAACATATCGAACCTTTTGATGTGAAGAGAGATGACAGCCAAGCAACTCA
1 TTTATTTTTACTTAAGAACATATCGAACCTTTTGACGCAAAGAGAGATGACAGCCAAGCAACCCA
*
96410512 CCCCGGTTACTTAGCCCAA
66 CCCCGGTTACTCAGCCCAA
96410531 CATATTCTTA
Statistics
Matches: 73, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
96 64 0.88
97 9 0.12
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (97 bp):
TTTATTTTTACTTAAGAACATATCGAACCTTTTGACGCAAAGAGAGATGACAGCCAAGCAACCCA
CCCCGGTTACTCAGCCCAATGTACTCCTAATT
Found at i:96412853 original size:68 final size:64
Alignment explanation
Indices: 96412743--96412995 Score: 217
Period size: 68 Copynumber: 3.9 Consensus size: 64
96412733 ATACAGATGG
** * * * *
96412743 TATGTAGCTAGGTCACATGTATAGTGCTGA-GTGCACATCATGT-GTACAAGAGAGCTACAAGAC
1 TATGTAGCTAGGTCACATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGCTACAAG--
96412806 ATTA
62 A-TA
**
96412810 TGATGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATA
1 T-ATGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACAAGATA
* * * * * *
96412875 TATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACAAGA
1 TATGTAGCTAGGTCACATGGGTGG-TACTA-TG-TGTACACCATGTAGACAAGAGAGCTACAAGA
96412940 TA
63 TA
* * * **
96412942 AACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGTTTACAAGAGAGC
1 TA-TGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGC
96412996 CGAACTATAT
Statistics
Matches: 152, Mismatches: 27, Indels: 18
0.77 0.14 0.09
Matches are distributed among these distances:
63 19 0.12
64 22 0.14
65 9 0.06
66 19 0.12
67 32 0.21
68 50 0.33
69 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.28, T:0.25
Consensus pattern (64 bp):
TATGTAGCTAGGTCACATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACAAGATA
Found at i:96416498 original size:75 final size:75
Alignment explanation
Indices: 96416358--96416500 Score: 196
Period size: 75 Copynumber: 1.9 Consensus size: 75
96416348 TTTGGGGGAT
* *
96416358 CTAGGGCAGGAATGCACTATTCTAGGCTAGAATAGAGATAGAACAGAGGCTGTTTGACTGTAGGT
1 CTAGGGCAGGAATGCACTATTCTAGGCTAGAATAGAGATAGAACAAAGGCTGTTTGACTGCAGGT
96416423 TTTAGATATG
66 TTTAGATATG
* * * * ** **
96416433 CTAGGGCAGGAATGCACTATTCTTGGCTGGAATAGGGATGGATTAAAGGCTGTTTGGTTGCAGGT
1 CTAGGGCAGGAATGCACTATTCTAGGCTAGAATAGAGATAGAACAAAGGCTGTTTGACTGCAGGT
96416498 TTT
66 TTT
96416501 TTGTGTTTTC
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
75 58 1.00
ACGTcount: A:0.27, C:0.12, G:0.31, T:0.30
Consensus pattern (75 bp):
CTAGGGCAGGAATGCACTATTCTAGGCTAGAATAGAGATAGAACAAAGGCTGTTTGACTGCAGGT
TTTAGATATG
Found at i:96422975 original size:10 final size:10
Alignment explanation
Indices: 96422956--96423005 Score: 66
Period size: 10 Copynumber: 5.0 Consensus size: 10
96422946 TTAAATTCTA
96422956 AAAGATAAAT
1 AAAGATAAAT
96422966 ACAA-ATAAAT
1 A-AAGATAAAT
*
96422976 AAAGATAATT
1 AAAGATAAAT
96422986 AAAGATAAAT
1 AAAGATAAAT
*
96422996 AAAAATAAAT
1 AAAGATAAAT
96423006 CCTAAAATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
9 2 0.06
10 31 0.89
11 2 0.06
ACGTcount: A:0.70, C:0.02, G:0.06, T:0.22
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:96435581 original size:18 final size:18
Alignment explanation
Indices: 96435520--96435585 Score: 66
Period size: 18 Copynumber: 3.7 Consensus size: 18
96435510 CAAAAACACT
96435520 TAAAACATTCAAAAATAAA
1 TAAAA-ATTCAAAAATAAA
*
96435539 -AAGAAATT-AAAAAT-GA
1 TAA-AAATTCAAAAATAAA
* *
96435555 TAAATATTCAATAATAAA
1 TAAAAATTCAAAAATAAA
96435573 TAAAAATTCAAAA
1 TAAAAATTCAAAA
96435586 TTTATTCTTC
Statistics
Matches: 37, Mismatches: 6, Indels: 9
0.71 0.12 0.17
Matches are distributed among these distances:
16 5 0.14
17 13 0.35
18 17 0.46
19 2 0.05
ACGTcount: A:0.67, C:0.06, G:0.03, T:0.24
Consensus pattern (18 bp):
TAAAAATTCAAAAATAAA
Found at i:96439331 original size:40 final size:40
Alignment explanation
Indices: 96439282--96439469 Score: 116
Period size: 40 Copynumber: 4.7 Consensus size: 40
96439272 TCATCGGCAC
* *
96439282 AAAGTCTGCTAGGCACTAAGCTCGATAAGTTCACAGGAAA
1 AAAGCCTGCTAGGCACAAAGCTCGATAAGTTCACAGGAAA
* **
96439322 AAAGCCTGCTAGGCACAAAGCTCAATAA--TCACACTAACA
1 AAAGCCTGCTAGGCACAAAGCTCGATAAGTTCACAGGAA-A
** * * * * * * *
96439361 TTTAGCCTACTAAGCACTAAGCTTGAT-AGATTCACCGGCAC
1 -AAAGCCTGCTAGGCACAAAGCTCGATAAG-TTCACAGGAAA
* * *
96439402 AAAGCCTGCTAGGCACAAAGC-CTGATAAATTCACCGGCACA
1 AAAGCCTGCTAGGCACAAAGCTC-GATAAGTTCACAGG-AAA
* * *
96439443 AAA-CCTGATAGGTACAAAGCCCGATAA
1 AAAGCCTGCTAGGCACAAAGCTCGATAA
96439470 CTACACTGGC
Statistics
Matches: 110, Mismatches: 29, Indels: 18
0.70 0.18 0.11
Matches are distributed among these distances:
38 7 0.06
39 2 0.02
40 91 0.83
41 5 0.05
42 5 0.05
ACGTcount: A:0.38, C:0.26, G:0.18, T:0.19
Consensus pattern (40 bp):
AAAGCCTGCTAGGCACAAAGCTCGATAAGTTCACAGGAAA
Found at i:96439490 original size:120 final size:120
Alignment explanation
Indices: 96439269--96439590 Score: 319
Period size: 120 Copynumber: 2.7 Consensus size: 120
96439259 TAAAAAACTT
* * * * * *
96439269 GATTCATCGGCACAAAGTCTGCTAGGCACTAAG-CTCGATAAGTTCACAGG-AAAAAAGCCTGCT
1 GATTCACCGGCACAAAGCCTGCTAGGCACTAAGCCT-GATAAATTCACCGGCACAAAA-CCTGAT
* * *** * *
96439332 AGGCACAAAGCTCAATAATCACACTAACATTTAGCCTACTAAGCACTAAGCTTGATA
64 AGGCACAAAGCCCGATAATCACACTAACACAAAACCTACTAAGCAATAAGCTTGATA
*
96439389 GATTCACCGGCACAAAGCCTGCTAGGCACAAAGCCTGATAAATTCACCGGCACAAAACCTGATAG
1 GATTCACCGGCACAAAGCCTGCTAGGCACTAAGCCTGATAAATTCACCGGCACAAAACCTGATAG
* ** * *
96439454 GTACAAAGCCCGATAA-CTACACTGGCACAAAACCTACTAAGCAATAAGTTTTATA
66 GCACAAAGCCCGATAATC-ACACTAACACAAAACCTACTAAGCAATAAGCTTGATA
* * ** * * * * * *
96439509 AATTCACTGGCATGAATCCTGTTAAGCACTAAGCTTGATAAATTCATCGGCACAAATCCT-ACTA
1 GATTCACCGGCACAAAGCCTGCTAGGCACTAAGCCTGATAAATTCACCGGCACAAAACCTGA-TA
96439573 GGCACAAAGCCCGATAAT
65 GGCACAAAGCCCGATAAT
96439591 TTCATCACAT
Statistics
Matches: 166, Mismatches: 31, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
119 2 0.01
120 157 0.95
121 7 0.04
ACGTcount: A:0.37, C:0.25, G:0.17, T:0.21
Consensus pattern (120 bp):
GATTCACCGGCACAAAGCCTGCTAGGCACTAAGCCTGATAAATTCACCGGCACAAAACCTGATAG
GCACAAAGCCCGATAATCACACTAACACAAAACCTACTAAGCAATAAGCTTGATA
Found at i:96439562 original size:80 final size:79
Alignment explanation
Indices: 96439371--96439594 Score: 198
Period size: 80 Copynumber: 2.8 Consensus size: 79
96439361 TTTAGCCTAC
* * * *
96439371 TAAGCACTAAGCTTGATAGATTCACCGGCACAAAGCCTGCTAGGCACAAAGCCTGATAAATTCAC
1 TAAGCACTAAGCTTGATAAATTCA-CGGCACAAAACCTACTAAGCACAAAGCCTGATAAATTCAC
96439436 CGGCACAAAACCTGA
65 CGGCACAAAACCTGA
* * * ** * * ** *
96439451 TAGGTACAAAGCCCGATAACTACACTGGCACAAAACCTACTAAGCA-ATAAGTTTTATAAATTCA
1 TAAGCACTAAGCTTGATAAATTCAC-GGCACAAAACCTACTAAGCACA-AAGCCTGATAAATTCA
* ** * *
96439515 CTGGCATGAATCCTGT
64 CCGGCACAAAACCTGA
* * * *
96439531 TAAGCACTAAGCTTGATAAATTCATCGGCACAAATCCTACTAGGCACAAAGCCCGATAATTTCA
1 TAAGCACTAAGCTTGATAAATTCA-CGGCACAAAACCTACTAAGCACAAAGCCTGATAAATTCA
96439595 TCACATATCA
Statistics
Matches: 107, Mismatches: 33, Indels: 8
0.72 0.22 0.05
Matches are distributed among these distances:
79 2 0.02
80 103 0.96
81 2 0.02
ACGTcount: A:0.37, C:0.25, G:0.16, T:0.22
Consensus pattern (79 bp):
TAAGCACTAAGCTTGATAAATTCACGGCACAAAACCTACTAAGCACAAAGCCTGATAAATTCACC
GGCACAAAACCTGA
Found at i:96439596 original size:40 final size:39
Alignment explanation
Indices: 96439366--96439594 Score: 156
Period size: 40 Copynumber: 5.7 Consensus size: 39
96439356 TAACATTTAG
* * * * *
96439366 CCTACTAAGCACTAAGCTTGATAGATTCACCGGCACAAAG
1 CCTACTAGGCACAAAGCCTGATAAATTCA-CGGCACAAAA
*
96439406 CCTGCTAGGCACAAAGCCTGATAAATTCACCGGCACAAAA
1 CCTACTAGGCACAAAGCCTGATAAATTCA-CGGCACAAAA
* * * *
96439446 CCTGA-TAGGTACAAAGCCCGATAACTACACTGGCACAAAA
1 CCT-ACTAGGCACAAAGCCTGATAAATTCAC-GGCACAAAA
* ** * ** *
96439486 CCTACTAAGCA-ATAAGTTTTATAAATTCACTGGCATGAAT
1 CCTACTAGGCACA-AAGCCTGATAAATTCAC-GGCACAAAA
** * * * *
96439526 CCTGTTAAGCACTAAGCTTGATAAATTCATCGGCACAAAT
1 CCTACTAGGCACAAAGCCTGATAAATTCA-CGGCACAAAA
* *
96439566 CCTACTAGGCACAAAGCCCGATAATTTCA
1 CCTACTAGGCACAAAGCCTGATAAATTCA
96439595 TCACATATCA
Statistics
Matches: 147, Mismatches: 36, Indels: 12
0.75 0.18 0.06
Matches are distributed among these distances:
39 3 0.02
40 143 0.97
41 1 0.01
ACGTcount: A:0.37, C:0.26, G:0.16, T:0.22
Consensus pattern (39 bp):
CCTACTAGGCACAAAGCCTGATAAATTCACGGCACAAAA
Found at i:96446247 original size:37 final size:37
Alignment explanation
Indices: 96446197--96446275 Score: 106
Period size: 37 Copynumber: 2.1 Consensus size: 37
96446187 TTATTACGAA
* * *
96446197 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCAG
*
96446234 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCAG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCAG
96446271 GTCTT
1 GTCTT
96446276 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 35 0.95
38 2 0.05
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCAG
Found at i:96446472 original size:47 final size:47
Alignment explanation
Indices: 96446394--96446851 Score: 700
Period size: 47 Copynumber: 9.6 Consensus size: 47
96446384 CCCTTCGGGA
* * * * * *
96446394 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
96446441 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
96446488 CTTATCACATATATACACTCTCACATTCATCATATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
96446535 CTTATCACATATATACGCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
96446582 CTTATCACATATATACACTCTCACATTCATCACGTCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
96446629 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
96446680 CTTATCACATATATACACTCTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
96446727 CTTATCACATATATACACTCTCACATTCATCACGTCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
96446774 CTTATCACATATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
96446825 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
96446852 TATTCAAATA
Statistics
Matches: 379, Mismatches: 24, Indels: 16
0.90 0.06 0.04
Matches are distributed among these distances:
47 289 0.76
51 90 0.24
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:96446708 original size:145 final size:145
Alignment explanation
Indices: 96446394--96446851 Score: 762
Period size: 145 Copynumber: 3.2 Consensus size: 145
96446384 CCCTTCGGGA
* * * * * * * *
96446394 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* * *
96446459 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC----ATATATACACTCTCACATTCATCA
66 TCTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATATATACACTTTCACATTCATCA
*
96446520 TATCGGCCATTAGGC
131 CATCGGCCATTAGGC
*
96446535 CTTATCACATATATACGCTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
96446600 TCTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATATATACACTTTCACATTCATCA
66 TCTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATATATACACTTTCACATTCATCA
96446665 CATCGGCCATTAGGC
131 CATCGGCCATTAGGC
*
96446680 CTTATCACATATATACACTCTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
96446745 TCTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATATATACACTTTCACATTCATCA
66 TCTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATATATACACTTTCACATTCATCA
96446810 CATCGGCCATTAGGC
131 CATCGGCCATTAGGC
96446825 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
96446852 TATTCAAATA
Statistics
Matches: 297, Mismatches: 16, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
141 91 0.31
145 206 0.69
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (145 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TCTCACATTCATCACGTCGGCCATTAGGCCTTATCACATATATATATACACTTTCACATTCATCA
CATCGGCCATTAGGC
Found at i:96458173 original size:21 final size:21
Alignment explanation
Indices: 96458149--96458189 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
96458139 ATTTTCTAAC
96458149 TTAATCTTA-ATTATTAATTAG
1 TTAATC-TAGATTATTAATTAG
*
96458170 TTAATCTAGATTGTTAATTA
1 TTAATCTAGATTATTAATTA
96458190 AATTTAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.37, C:0.05, G:0.07, T:0.51
Consensus pattern (21 bp):
TTAATCTAGATTATTAATTAG
Found at i:96459561 original size:30 final size:30
Alignment explanation
Indices: 96459527--96459591 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 30
96459517 ATCTTTAATC
*
96459527 ATTTTTA-AAAAATTAA-AATAAAATCTTAAA
1 ATTTTTATAAAAAATAACAA-AAAAT-TTAAA
96459557 ATTTTTATAAAAAATAATCAAAAAATTTAAA
1 ATTTTTATAAAAAATAA-CAAAAAATTTAAA
96459588 ATTT
1 ATTT
96459592 AAGAATATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
30 7 0.23
31 17 0.55
32 5 0.16
33 2 0.06
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.38
Consensus pattern (30 bp):
ATTTTTATAAAAAATAACAAAAAATTTAAA
Found at i:96459662 original size:26 final size:25
Alignment explanation
Indices: 96459610--96459663 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
96459600 TATAAATTAT
* *
96459610 AAAAATTAAATAAATTGAATATATA
1 AAAAATAAAATAAATTGAACATATA
* *
96459635 AAAAATAAAATAAAATTTAACATTTA
1 AAAAATAAAAT-AAATTGAACATATA
96459661 AAA
1 AAA
96459664 GCTTACTCTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 10 0.42
26 14 0.58
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (25 bp):
AAAAATAAAATAAATTGAACATATA
Found at i:96459663 original size:25 final size:25
Alignment explanation
Indices: 96459609--96459663 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 25
96459599 TTATAAATTA
* *
96459609 TAAAAATTAAATAAATTGAATATAT
1 TAAAAATAAAATAAATTGAACATAT
* *
96459634 AAAAAATAAAATAAAATTTAACAT-T
1 TAAAAATAAAAT-AAATTGAACATAT
96459659 TAAAA
1 TAAAA
96459664 GCTTACTCTA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
25 15 0.62
26 9 0.38
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (25 bp):
TAAAAATAAAATAAATTGAACATAT
Found at i:96459973 original size:27 final size:29
Alignment explanation
Indices: 96459934--96459992 Score: 70
Period size: 27 Copynumber: 2.1 Consensus size: 29
96459924 TTACTAAAAA
*
96459934 TTTAACCAAATTT-ATTTAT-TTTTT-ATT
1 TTTAAACAAATTTAATTT-TGTTTTTAATT
*
96459961 TTTAAACATATTTAATTTTGTTTTTAATT
1 TTTAAACAAATTTAATTTTGTTTTTAATT
96459990 TTT
1 TTT
96459993 TTAAATTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 12 0.44
28 9 0.33
29 6 0.22
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (29 bp):
TTTAAACAAATTTAATTTTGTTTTTAATT
Found at i:96460021 original size:6 final size:6
Alignment explanation
Indices: 96460010--96460059 Score: 55
Period size: 6 Copynumber: 7.7 Consensus size: 6
96460000 TTATCTAAAT
*
96460010 TTTTTA TTTTTA TTTTTA TTTTAAATA TATATTA TTTTTA TTTTTA TTTT
1 TTTTTA TTTTTA TTTTTA TTTT---TA T-TTTTA TTTTTA TTTTTA TTTT
96460060 AAATTTATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
6 30 0.79
7 3 0.08
9 3 0.08
10 2 0.05
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (6 bp):
TTTTTA
Found at i:96460048 original size:34 final size:32
Alignment explanation
Indices: 96460013--96460080 Score: 108
Period size: 28 Copynumber: 2.2 Consensus size: 32
96460003 TCTAAATTTT
96460013 TTATTTTTATTTTTATTTT-AA---ATATATA
1 TTATTTTTATTTTTATTTTAAATTTATATATA
96460041 TTATTTTTATTTTTATTTTAAATTTATATATA
1 TTATTTTTATTTTTATTTTAAATTTATATATA
96460073 TTATTTTT
1 TTATTTTT
96460081 TAAAGTTTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
28 19 0.53
29 2 0.06
32 15 0.42
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (32 bp):
TTATTTTTATTTTTATTTTAAATTTATATATA
Found at i:96460081 original size:28 final size:29
Alignment explanation
Indices: 96460014--96460102 Score: 101
Period size: 28 Copynumber: 3.0 Consensus size: 29
96460004 CTAAATTTTT
* *
96460014 TATTTTTATTTTTATTTTAAATATATAT-
1 TATTATTATTTTTATTTTAAATTTATATA
*
96460042 TATTTTTATTTTTATTTTAAATTTATATA
1 TATTATTATTTTTATTTTAAATTTATATA
*
96460071 TATTATT-TTTTAAAGTTTTATAATTTATATA
1 TATTATTATTTT-TA-TTTTA-AATTTATATA
96460102 T
1 T
96460103 TTCTTATATT
Statistics
Matches: 54, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
28 31 0.57
29 7 0.13
30 5 0.09
31 11 0.20
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (29 bp):
TATTATTATTTTTATTTTAAATTTATATA
Found at i:96469750 original size:410 final size:410
Alignment explanation
Indices: 96468988--96470216 Score: 2356
Period size: 410 Copynumber: 3.0 Consensus size: 410
96468978 ACTCATCCAT
96468988 AAAA-TTATAGAAAAAGATAAGGGACTAAATTGAAAATACCAAAACACTTAATTAATTAAAAGAT
1 AAAATTTATAGAAAAAGATAAGGGACTAAATTGAAAATACCAAAACACTTAATTAATTAAAAGAT
* *
96469052 GAAAAGAATTTATATCATCTTACTTTCATCATA-TCAACCTAAAAACACATGGAAACCATAGGAA
66 GAAAAGAATTTATATCATCTTATTTTCATCATATTCAACCTAAAAACACATGGAAACCATAGGAG
96469116 AGAGAAAAGAAGATTTCAAGGCCAAATTGGGTAAGTTCTCTTGTCCCGTTTTTAGTATTTTTGGT
131 AGAGAAAAGAAGATTTCAAGGCCAAATTGGGTAAGTTCTCTTGTCCCGTTTTTAGTATTTTTGGT
96469181 A-TTTTGAAATTGGGATAGCTTAATCTCTCTATTTGAGGGATTAATTTGAAAAGTTATCAAAGTA
196 ATTTTTGAAATTGGGATAGCTTAATCTCTCTATTTGAGGGATTAATTTGAAAAGTTATCAAAGTA
96469245 TGAAAATGGTTCATGGATGTATTATGCTGGAAATTAGAAATTTATGGTAGAAAATGAAAGATTAT
261 TGAAAATGGTTCATGGATGTATTATGCTGGAAATTAGAAATTTATGGTAGAAAATGAAAGATTAT
96469310 TGATAGATAAACAACTTTTACTAAGTGATTTTTGACAAAAACATGATTTAGGGACTAAAATGAAA
326 TGATAGATAAACAACTTTTACTAAGTGATTTTTGACAAAAACATGATTTAGGGACTAAAATGAAA
96469375 AGTTGTAAAATTTGATGAAA
391 AGTTGTAAAATTTGATGAAA
* * *
96469395 AGAATTTATAGAAAAAGATAATGGACTAAATTGAAAATACCAAAAAACTTAATTAATTAAAAGAT
1 AAAATTTATAGAAAAAGATAAGGGACTAAATTGAAAATACCAAAACACTTAATTAATTAAAAGAT
*
96469460 GTAAAGAATTTATATCATCTTATTTTCATCATATTCAACCTAAAAACACATGGAAACCATAGGAG
66 GAAAAGAATTTATATCATCTTATTTTCATCATATTCAACCTAAAAACACATGGAAACCATAGGAG
96469525 AGAGAAAAGAAGATTTCAAGGCCAAATTGGGTAAGTTCTCTTGTCCCGTTTTTAGTATTTTTGGT
131 AGAGAAAAGAAGATTTCAAGGCCAAATTGGGTAAGTTCTCTTGTCCCGTTTTTAGTATTTTTGGT
96469590 ATTTTTGAAATTGGGATAGCTTAATCTCTCTATTTGAGGGATTAATTTGAAAAGTTATCAAAGTA
196 ATTTTTGAAATTGGGATAGCTTAATCTCTCTATTTGAGGGATTAATTTGAAAAGTTATCAAAGTA
*
96469655 TGAAAACGGTTCATGGATGTATTATGCTGGAAATTAGAAATTTATGGTAGAAAATGAAAGATTAT
261 TGAAAATGGTTCATGGATGTATTATGCTGGAAATTAGAAATTTATGGTAGAAAATGAAAGATTAT
96469720 TGATAGATAAACAACTTTTACTAAGTGATTTTTGACAAAAACATGATTTAGGGACTAAAATGAAA
326 TGATAGATAAACAACTTTTACTAAGTGATTTTTGACAAAAACATGATTTAGGGACTAAAATGAAA
*
96469785 AGTTATAAAATTTGATGAAA
391 AGTTGTAAAATTTGATGAAA
96469805 AAAATTTATAGAAAAAGATAAGGGACTAAATTGAAAATACCAAAACACTTAATTAATTAAAAGAT
1 AAAATTTATAGAAAAAGATAAGGGACTAAATTGAAAATACCAAAACACTTAATTAATTAAAAGAT
96469870 GAAAAGAATTTATATCATCTTATTTTCATCATATTCAACCTAAAAACACATGGAAACCATAGGAG
66 GAAAAGAATTTATATCATCTTATTTTCATCATATTCAACCTAAAAACACATGGAAACCATAGGAG
96469935 AGAGAAAAGAAGATTTCAAGGCCAAATTGGGTAAGTTCTCTTGTCCCGTTTTTAGTATTTTTGGT
131 AGAGAAAAGAAGATTTCAAGGCCAAATTGGGTAAGTTCTCTTGTCCCGTTTTTAGTATTTTTGGT
96470000 ATTTTTGAAATTGGGATAGCTTAATCTCTCTATTTGAGGGATTAATTTGAAAAGTTATCAAAGTA
196 ATTTTTGAAATTGGGATAGCTTAATCTCTCTATTTGAGGGATTAATTTGAAAAGTTATCAAAGTA
96470065 TGAAAATGGTTCATGGATGTATTATGCTGGAAATTAGAAATTTATGGTAGAAAATGAAAGATTAT
261 TGAAAATGGTTCATGGATGTATTATGCTGGAAATTAGAAATTTATGGTAGAAAATGAAAGATTAT
96470130 TGATAGATAAACAACTTTTACTAAGTGATTTTTGACAAAAACATGATTTAGGGACTAAAATGAAA
326 TGATAGATAAACAACTTTTACTAAGTGATTTTTGACAAAAACATGATTTAGGGACTAAAATGAAA
*
96470195 ATTTGTAAAATTTGATGAAA
391 AGTTGTAAAATTTGATGAAA
96470215 AA
1 AA
96470217 TTCTAAAATT
Statistics
Matches: 804, Mismatches: 15, Indels: 3
0.98 0.02 0.00
Matches are distributed among these distances:
407 3 0.00
408 89 0.11
409 96 0.12
410 616 0.77
ACGTcount: A:0.41, C:0.09, G:0.17, T:0.33
Consensus pattern (410 bp):
AAAATTTATAGAAAAAGATAAGGGACTAAATTGAAAATACCAAAACACTTAATTAATTAAAAGAT
GAAAAGAATTTATATCATCTTATTTTCATCATATTCAACCTAAAAACACATGGAAACCATAGGAG
AGAGAAAAGAAGATTTCAAGGCCAAATTGGGTAAGTTCTCTTGTCCCGTTTTTAGTATTTTTGGT
ATTTTTGAAATTGGGATAGCTTAATCTCTCTATTTGAGGGATTAATTTGAAAAGTTATCAAAGTA
TGAAAATGGTTCATGGATGTATTATGCTGGAAATTAGAAATTTATGGTAGAAAATGAAAGATTAT
TGATAGATAAACAACTTTTACTAAGTGATTTTTGACAAAAACATGATTTAGGGACTAAAATGAAA
AGTTGTAAAATTTGATGAAA
Found at i:96470212 original size:20 final size:20
Alignment explanation
Indices: 96470189--96470233 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
96470179 AGGGACTAAA
* *
96470189 ATGAAAATTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
96470209 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
96470229 ATGAA
1 ATGAA
96470234 TACATGTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.11, T:0.38
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:96477881 original size:31 final size:31
Alignment explanation
Indices: 96477824--96477882 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
96477814 CACCCTTAAA
* * *
96477824 ATATTTGCACTATTAGTCCTCCAATTTTTTC
1 ATATTTACACTATTAATCCTCAAATTTTTTC
96477855 ATATTTACACT-TTAATCCCTCAAATTTT
1 ATATTTACACTATTAAT-CCTCAAATTTT
96477883 GGGTATTTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 4 0.17
31 20 0.83
ACGTcount: A:0.27, C:0.22, G:0.03, T:0.47
Consensus pattern (31 bp):
ATATTTACACTATTAATCCTCAAATTTTTTC
Found at i:96481057 original size:27 final size:27
Alignment explanation
Indices: 96481022--96481109 Score: 88
Period size: 27 Copynumber: 3.2 Consensus size: 27
96481012 TCACAAAGGC
96481022 ATTCTTTTTAGAGTTCGCCACTAAGGTT
1 ATTC-TTTTAGAGTTCGCCACTAAGGTT
* * *
96481050 ATTCTTTTAGGGCTCTCCA-TAAAGGTT
1 ATTCTTTTAGAGTTCGCCACT-AAGGTT
* * * *
96481077 ATTCTTTTGGAGTTCGCTACAAAGGCT
1 ATTCTTTTAGAGTTCGCCACTAAGGTT
96481104 ATTCTT
1 ATTCTT
96481110 AGCTATCATG
Statistics
Matches: 48, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
26 1 0.02
27 43 0.90
28 4 0.08
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.42
Consensus pattern (27 bp):
ATTCTTTTAGAGTTCGCCACTAAGGTT
Found at i:96481948 original size:7 final size:7
Alignment explanation
Indices: 96481936--96481960 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
96481926 CTTAAGGAAG
96481936 AGAAAGA
1 AGAAAGA
96481943 AGAAAGA
1 AGAAAGA
96481950 AGAAAGA
1 AGAAAGA
96481957 AGAA
1 AGAA
96481961 TAACCCATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (7 bp):
AGAAAGA
Found at i:96485790 original size:19 final size:20
Alignment explanation
Indices: 96485754--96485793 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
96485744 GGATAAGACC
**
96485754 GTTTTCACAAAATCTGCATT
1 GTTTTCACAAAAAATGCATT
96485774 GTTTT-ACAAAAAATGCATT
1 GTTTTCACAAAAAATGCATT
96485793 G
1 G
96485794 ACATGATCAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (20 bp):
GTTTTCACAAAAAATGCATT
Found at i:96493980 original size:43 final size:43
Alignment explanation
Indices: 96493917--96494058 Score: 214
Period size: 43 Copynumber: 3.3 Consensus size: 43
96493907 GAACATTATT
* *
96493917 TTTAGTGGCGTTTG-TGAAAAAAGCACCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGCT-AAAAAAGCGCCGCTAAAGGTCATGGTC
*
96493960 TTTAGCGGTGTTTGCTAAAAAAGCGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGCTAAAAAAGCGCCGCTAAAGGTCATGGTC
* * *
96494003 TTTAGCGGCGTTAGCTAAAAAAGCGTCTCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGCTAAAAAAGCGCCGCTAAAGGTCATGGTC
96494046 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
96494059 TTCCCGAAAA
Statistics
Matches: 90, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
43 89 0.99
44 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (43 bp):
TTTAGCGGCGTTTGCTAAAAAAGCGCCGCTAAAGGTCATGGTC
Found at i:96514329 original size:21 final size:21
Alignment explanation
Indices: 96514279--96514333 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
96514269 ACCATTGTTT
*
96514279 CTAATCTCACCGCTACAATAT
1 CTAATCTCACCGCTACAATAA
* * * *
96514300 CCAACCTCACTGCTACAGTAA
1 CTAATCTCACCGCTACAATAA
96514321 CTAATCTCACCGC
1 CTAATCTCACCGC
96514334 CACTGCTGTT
Statistics
Matches: 26, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.31, C:0.38, G:0.07, T:0.24
Consensus pattern (21 bp):
CTAATCTCACCGCTACAATAA
Found at i:96520195 original size:16 final size:16
Alignment explanation
Indices: 96520174--96520209 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
96520164 AATCCCTAAC
96520174 AATCTTCAAAT-CCTTA
1 AATCTTCAAATACC-TA
96520190 AATCTTCAAATACCTA
1 AATCTTCAAATACCTA
96520206 AATC
1 AATC
96520210 GTTAGCATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 17 0.89
17 2 0.11
ACGTcount: A:0.42, C:0.25, G:0.00, T:0.33
Consensus pattern (16 bp):
AATCTTCAAATACCTA
Found at i:96521524 original size:51 final size:51
Alignment explanation
Indices: 96521448--96521600 Score: 261
Period size: 51 Copynumber: 3.0 Consensus size: 51
96521438 GTTACTGGTA
*
96521448 ATGAATATGCTGGTGATTTTACAACATCAGATGGAGTGGATAATGTTGCTG
1 ATGAATATGCTGGTGATTTTGCAACATCAGATGGAGTGGATAATGTTGCTG
*
96521499 ATGAATATGTTGGTGATTTTGCAACATCAGATGGAGTGGATAATGTTGCTG
1 ATGAATATGCTGGTGATTTTGCAACATCAGATGGAGTGGATAATGTTGCTG
* * *
96521550 ATGAATATGCTAGTGATTTTGCAACATCAGATGAACTGGATAATGTTGCTG
1 ATGAATATGCTGGTGATTTTGCAACATCAGATGGAGTGGATAATGTTGCTG
96521601 TTGCACGTAG
Statistics
Matches: 96, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 96 1.00
ACGTcount: A:0.29, C:0.10, G:0.27, T:0.34
Consensus pattern (51 bp):
ATGAATATGCTGGTGATTTTGCAACATCAGATGGAGTGGATAATGTTGCTG
Found at i:96524932 original size:182 final size:182
Alignment explanation
Indices: 96524625--96524989 Score: 712
Period size: 182 Copynumber: 2.0 Consensus size: 182
96524615 AAGAAAATAA
96524625 TATCTTATACATTGACTTCTCTTTCTTGATAACTTTAATTTTTTGCTTCATGGTCAACATTTTCT
1 TATCTTATACATTGACTTCTCTTTCTTGATAACTTTAATTTTTTGCTTCATGGTCAACATTTTCT
96524690 TCCTTAATGCTACTTCTCTTTCAACACCACAAATTGATCTAGCTCCTTCAACCTCAATGTCAACA
66 TCCTTAATGCTACTTCTCTTTCAACACCACAAATTGATCTAGCTCCTTCAACCTCAATGTCAACA
*
96524755 ACACTACTGCCACCATTATGGTTACCATCAAATGCAACCAAATCCATAACAT
131 ACACTACTGCCACCATTATGGTTACCATCAAATGAAACCAAATCCATAACAT
96524807 TATCTTATACATTGACTTCTCTTTCTTGATAACTTTAATTTTTTGCTTCATGGTCAACATTTTCT
1 TATCTTATACATTGACTTCTCTTTCTTGATAACTTTAATTTTTTGCTTCATGGTCAACATTTTCT
96524872 TCCTTAATGCTACTTCTCTTTCAACACCACAAATTGATCTAGCTCCTTCAACCTCAATGTCAACA
66 TCCTTAATGCTACTTCTCTTTCAACACCACAAATTGATCTAGCTCCTTCAACCTCAATGTCAACA
*
96524937 ACACTATTGCCACCATTATGGTTACCATCAAATGAAACCAAATCCATAACAT
131 ACACTACTGCCACCATTATGGTTACCATCAAATGAAACCAAATCCATAACAT
96524989 T
1 T
96524990 CTTTCTAAGT
Statistics
Matches: 181, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
182 181 1.00
ACGTcount: A:0.29, C:0.26, G:0.07, T:0.37
Consensus pattern (182 bp):
TATCTTATACATTGACTTCTCTTTCTTGATAACTTTAATTTTTTGCTTCATGGTCAACATTTTCT
TCCTTAATGCTACTTCTCTTTCAACACCACAAATTGATCTAGCTCCTTCAACCTCAATGTCAACA
ACACTACTGCCACCATTATGGTTACCATCAAATGAAACCAAATCCATAACAT
Found at i:96525527 original size:22 final size:23
Alignment explanation
Indices: 96525501--96525545 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
96525491 CCGGAAAGAT
96525501 TAAA-GATTTCACGATTTGGTTC
1 TAAAGGATTTCACGATTTGGTTC
*
96525523 TAAAGGATTTCACGATTTTGTTC
1 TAAAGGATTTCACGATTTGGTTC
96525546 CTAATAGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.27, C:0.13, G:0.18, T:0.42
Consensus pattern (23 bp):
TAAAGGATTTCACGATTTGGTTC
Found at i:96525563 original size:32 final size:33
Alignment explanation
Indices: 96525527--96525594 Score: 79
Period size: 32 Copynumber: 2.1 Consensus size: 33
96525517 TGGTTCTAAA
*
96525527 GGATTTC-ACGATTTTG-TTCCTAATAGTTTTAG
1 GGATTTCAACGA-TTTGATTCCTAAAAGTTTTAG
* *
96525559 GGA-TTCAATGATTTGATTCGTAAAAGTTTTAG
1 GGATTTCAACGATTTGATTCCTAAAAGTTTTAG
96525591 GGAT
1 GGAT
96525595 ACCCAGAAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
31 7 0.23
32 23 0.77
ACGTcount: A:0.26, C:0.09, G:0.22, T:0.43
Consensus pattern (33 bp):
GGATTTCAACGATTTGATTCCTAAAAGTTTTAG
Found at i:96525642 original size:16 final size:16
Alignment explanation
Indices: 96525621--96525655 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
96525611 AATACTAACA
* *
96525621 ATTTAGGTATTTGAGG
1 ATTTAGGGATTTGAAG
96525637 ATTTAGGGATTTGAAG
1 ATTTAGGGATTTGAAG
96525653 ATT
1 ATT
96525656 GTTAGGGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.43
Consensus pattern (16 bp):
ATTTAGGGATTTGAAG
Found at i:96536174 original size:17 final size:18
Alignment explanation
Indices: 96536152--96536189 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
96536142 GTTTTAAAGG
96536152 TTTGG-AGGGAAGTAAAT
1 TTTGGAAGGGAAGTAAAT
96536169 TTTGGAAGGGAAGTAAAT
1 TTTGGAAGGGAAGTAAAT
96536187 TTT
1 TTT
96536190 CTTAAGAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.34, C:0.00, G:0.32, T:0.34
Consensus pattern (18 bp):
TTTGGAAGGGAAGTAAAT
Found at i:96537364 original size:23 final size:23
Alignment explanation
Indices: 96537338--96537384 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
96537328 TGCATTTCGT
96537338 TAATACAAGTTTTCTCAACTAAG
1 TAATACAAGTTTTCTCAACTAAG
*
96537361 TAATGCAAGTTTTCTCAACTAAG
1 TAATACAAGTTTTCTCAACTAAG
96537384 T
1 T
96537385 TCCTACCTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (23 bp):
TAATACAAGTTTTCTCAACTAAG
Found at i:96539651 original size:40 final size:40
Alignment explanation
Indices: 96539594--96539714 Score: 197
Period size: 40 Copynumber: 3.0 Consensus size: 40
96539584 CCGGTATAAT
*
96539594 ACATTCCAACACGAAGCCTGCGGGTTTTTAAGCCCGGATA
1 ACATTCCAACACGAAGCCTGCGGGTCTTTAAGCCCGGATA
* * *
96539634 ACATTCCAGCACAAAGCCTGCGGGTCTTTAAGCTCGGATA
1 ACATTCCAACACGAAGCCTGCGGGTCTTTAAGCCCGGATA
*
96539674 ACATTCCAACACGAAGCCTGCGGGTCTTTAAGCCCGAATA
1 ACATTCCAACACGAAGCCTGCGGGTCTTTAAGCCCGGATA
96539714 A
1 A
96539715 TACCTCAAGT
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 73 1.00
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (40 bp):
ACATTCCAACACGAAGCCTGCGGGTCTTTAAGCCCGGATA
Found at i:96547602 original size:96 final size:96
Alignment explanation
Indices: 96547438--96547631 Score: 352
Period size: 96 Copynumber: 2.0 Consensus size: 96
96547428 CCGTTAGCTT
* **
96547438 TTGCAACTGTGCTTTTAACTCTTTCAGCTCAGTTGGTGTCATTCTATAAGGAGCAATCGAAGTAG
1 TTGCAACTGTGCTTTTAACTCTTTCAGCTCAATTGGTGTCATTCTATAAGGAGCAATCGAAACAG
96547503 GAGCTATTCCTGGCACCAGTTCAATGCCAAA
66 GAGCTATTCCTGGCACCAGTTCAATGCCAAA
96547534 TTGCAACTGTGCTTTTAACTCTTTCAGCTCAATTGGTGTCATTCTATAAGGAGCAATCGAAACAG
1 TTGCAACTGTGCTTTTAACTCTTTCAGCTCAATTGGTGTCATTCTATAAGGAGCAATCGAAACAG
*
96547599 GAGCTGTTCCTGGCACCAGTTCAATGCCAAA
66 GAGCTATTCCTGGCACCAGTTCAATGCCAAA
96547630 TT
1 TT
96547632 CTATCTCTCT
Statistics
Matches: 94, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
96 94 1.00
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.31
Consensus pattern (96 bp):
TTGCAACTGTGCTTTTAACTCTTTCAGCTCAATTGGTGTCATTCTATAAGGAGCAATCGAAACAG
GAGCTATTCCTGGCACCAGTTCAATGCCAAA
Found at i:96554980 original size:43 final size:41
Alignment explanation
Indices: 96554880--96555047 Score: 142
Period size: 43 Copynumber: 4.0 Consensus size: 41
96554870 CATAAGCTCG
* * * *
96554880 TACAATGCC-ATATCCTAGATATGGTCTTACATGTTAA-CATA
1 TACAATGCCAATGTCCCAGACATGGTCTTACATG-AAATCA-A
* * * *
96554921 TATCGATGACACTGTCCCAGACAAGGTCTTACATGAAATCAA
1 TA-CAATGCCAATGTCCCAGACATGGTCTTACATGAAATCAA
* *
96554963 TTAACAATGCCAATGTCCCAGACATGGTCTTACACGTAATCTCAA
1 -T-ACAATGCCAATGTCCCAGACATGGTCTTACATG-AA-ATCAA
* * *
96555008 TACAATGCCAATGTCCTAGACATGATCTTACATGTAATCA
1 TACAATGCCAATGTCCCAGACATGGTCTTACATGAAATCA
96555048 CATCTCGATA
Statistics
Matches: 101, Mismatches: 19, Indels: 14
0.75 0.14 0.10
Matches are distributed among these distances:
41 5 0.05
42 9 0.09
43 79 0.78
44 4 0.04
45 4 0.04
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.29
Consensus pattern (41 bp):
TACAATGCCAATGTCCCAGACATGGTCTTACATGAAATCAA
Found at i:96556709 original size:33 final size:33
Alignment explanation
Indices: 96556666--96556747 Score: 98
Period size: 30 Copynumber: 2.6 Consensus size: 33
96556656 GCATCACAAA
*
96556666 TCACCTAATAATCAATCAAGTGGCGTACCTTAG
1 TCACCGAATAATCAATCAAGTGGCGTACCTTAG
* * * *
96556699 TCACCGAATAATCAAT---TTTGTGTACTTTAG
1 TCACCGAATAATCAATCAAGTGGCGTACCTTAG
96556729 TCACCGAATAATCAATCAA
1 TCACCGAATAATCAATCAA
96556748 TTATAGTCTC
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
30 26 0.63
33 15 0.37
ACGTcount: A:0.35, C:0.22, G:0.12, T:0.30
Consensus pattern (33 bp):
TCACCGAATAATCAATCAAGTGGCGTACCTTAG
Found at i:96560825 original size:50 final size:50
Alignment explanation
Indices: 96560770--96560870 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
96560760 AGGCCGTCTG
96560770 AACAAAAATAGGCTATTTACTAAGCCATTTTGCCACCCAAGCATGCTCAT
1 AACAAAAATAGGCTATTTACTAAGCCATTTTGCCACCCAAGCATGCTCAT
96560820 AACAAAAATAGGCTATTTACTAAGCCATTTTGCCACCCAAGCATGCTCAT
1 AACAAAAATAGGCTATTTACTAAGCCATTTTGCCACCCAAGCATGCTCAT
96560870 A
1 A
96560871 CCTACATAAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.37, C:0.26, G:0.12, T:0.26
Consensus pattern (50 bp):
AACAAAAATAGGCTATTTACTAAGCCATTTTGCCACCCAAGCATGCTCAT
Found at i:96563213 original size:13 final size:14
Alignment explanation
Indices: 96563195--96563227 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
96563185 AATAAAAAAC
*
96563195 AAACATATCAATA-
1 AAACATATAAATAT
96563208 AAACATATAAATAT
1 AAACATATAAATAT
96563222 AAACAT
1 AAACAT
96563228 GGTCGAAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.64, C:0.12, G:0.00, T:0.24
Consensus pattern (14 bp):
AAACATATAAATAT
Found at i:96564341 original size:56 final size:56
Alignment explanation
Indices: 96564274--96564511 Score: 352
Period size: 56 Copynumber: 4.2 Consensus size: 56
96564264 TCTTACATGT
* * *
96564274 AATCACATATCGATGCCAACGTACTAAACG-GGATTTTACTCACACATATATATCAG
1 AATCACATATCGATGCCAACGTATTAAACGTGG-TCTTACTCACACACATATATCAG
*
96564330 AATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTTACACACATATATCAG
1 AATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCACACACATATATCAG
* * * *
96564386 AATCACGTATCAATGCCAACGTATTAAACGTGGTCTTACTCGCACACATATATCGG
1 AATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCACACACATATATCAG
* * * *
96564442 AATCACATATCCATGCCAACGTATTAAATGTGGTCTTACTCGCACATATATATCAG
1 AATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCACACACATATATCAG
96564498 AATCACATATCGAT
1 AATCACATATCGAT
96564512 ATCCTATCTA
Statistics
Matches: 166, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
56 164 0.99
57 2 0.01
ACGTcount: A:0.35, C:0.24, G:0.13, T:0.28
Consensus pattern (56 bp):
AATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCACACACATATATCAG
Found at i:96570055 original size:43 final size:43
Alignment explanation
Indices: 96569994--96570090 Score: 151
Period size: 43 Copynumber: 2.3 Consensus size: 43
96569984 TCGGGCTTCG
96569994 AGCCTAGCAGGCTATAATGCCA-GTGAAATAATATCAGGCCTCA
1 AGCCTAGCAGGCTATAATG-CAGGTGAAATAATATCAGGCCTCA
* * *
96570037 AGCCTAGCAGGCTATAATGCAGGTGAAATAATATCGGGCTTCG
1 AGCCTAGCAGGCTATAATGCAGGTGAAATAATATCAGGCCTCA
96570080 AGCCTAGCAGG
1 AGCCTAGCAGG
96570091 TGAAATATCG
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
42 2 0.04
43 48 0.96
ACGTcount: A:0.32, C:0.22, G:0.26, T:0.21
Consensus pattern (43 bp):
AGCCTAGCAGGCTATAATGCAGGTGAAATAATATCAGGCCTCA
Found at i:96573723 original size:26 final size:26
Alignment explanation
Indices: 96573694--96573743 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
96573684 AAAAATGTCG
96573694 CAGCAAAGCTGCCAGTAACAGTAAGA
1 CAGCAAAGCTGCCAGTAACAGTAAGA
*
96573720 CAGCAAAGCTGCCATTAACAGTAA
1 CAGCAAAGCTGCCAGTAACAGTAA
96573744 CAGAACAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.42, C:0.24, G:0.20, T:0.14
Consensus pattern (26 bp):
CAGCAAAGCTGCCAGTAACAGTAAGA
Found at i:96573752 original size:26 final size:26
Alignment explanation
Indices: 96573697--96573753 Score: 78
Period size: 26 Copynumber: 2.2 Consensus size: 26
96573687 AATGTCGCAG
* *
96573697 CAAAGCTGCCAGTAACAGTAAGACAG
1 CAAAGCTGCCAGTAACAGTAACACAA
* *
96573723 CAAAGCTGCCATTAACAGTAACAGAA
1 CAAAGCTGCCAGTAACAGTAACACAA
96573749 CAAAG
1 CAAAG
96573754 TTACAAGTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.46, C:0.23, G:0.19, T:0.12
Consensus pattern (26 bp):
CAAAGCTGCCAGTAACAGTAACACAA
Found at i:96573797 original size:27 final size:27
Alignment explanation
Indices: 96573767--96573843 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 27
96573757 CAAGTAACAT
96573767 TATATGTGGCAAAGCCATCGA-T-ATCAG
1 TATATGTGGCAAAGCCA-CGAGTAAT-AG
* * *
96573794 TATATATGGCAAAGGCACTAGTAATAG
1 TATATGTGGCAAAGCCACGAGTAATAG
*
96573821 TATATGTGGCAAAGCCACCAGTA
1 TATATGTGGCAAAGCCACGAGTA
96573844 CAGTACACTT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
26 2 0.05
27 38 0.90
28 2 0.05
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.25
Consensus pattern (27 bp):
TATATGTGGCAAAGCCACGAGTAATAG
Found at i:96579627 original size:13 final size:13
Alignment explanation
Indices: 96579609--96579636 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
96579599 GAATTTCCTG
96579609 ATATGCTCATAGA
1 ATATGCTCATAGA
96579622 ATATGCTCATAGA
1 ATATGCTCATAGA
96579635 AT
1 AT
96579637 CAATCATACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.32
Consensus pattern (13 bp):
ATATGCTCATAGA
Found at i:96584861 original size:21 final size:21
Alignment explanation
Indices: 96584835--96584917 Score: 67
Period size: 21 Copynumber: 3.9 Consensus size: 21
96584825 TGATCAGTAT
*
96584835 ACGACACATAAAGTGCCTAAA
1 ACGACACACAAAGTGCCTAAA
* * * *
96584856 ACGACACACGAGGTGCCTGAT
1 ACGACACACAAAGTGCCTAAA
* * *
96584877 ACGACACGCGAGGTGCCTGAAA
1 ACGACACACAAAGTGCCT-AAA
*
96584899 TACGACACATAAAGTGCCT
1 -ACGACACACAAAGTGCCT
96584918 GATCGGTAAA
Statistics
Matches: 48, Mismatches: 12, Indels: 2
0.77 0.19 0.03
Matches are distributed among these distances:
21 33 0.69
22 1 0.02
23 14 0.29
ACGTcount: A:0.36, C:0.27, G:0.23, T:0.14
Consensus pattern (21 bp):
ACGACACACAAAGTGCCTAAA
Found at i:96584905 original size:23 final size:23
Alignment explanation
Indices: 96584833--96584907 Score: 86
Period size: 21 Copynumber: 3.4 Consensus size: 23
96584823 CCTGATCAGT
** *
96584833 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACGAGGTGCCTGAA
96584855 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACGAGGTGCCTGAA
*
96584875 ATACGACACGCGAGGTGCCTGAA
1 ATACGACACACGAGGTGCCTGAA
96584898 ATACGACACA
1 ATACGACACA
96584908 TAAAGTGCCT
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
20 1 0.02
21 33 0.75
22 1 0.02
23 9 0.20
ACGTcount: A:0.37, C:0.27, G:0.23, T:0.13
Consensus pattern (23 bp):
ATACGACACACGAGGTGCCTGAA
Found at i:96585313 original size:15 final size:15
Alignment explanation
Indices: 96585284--96585340 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
96585274 CAGATATATT
96585284 ATATAATTT-AATCA
1 ATATAATTTCAATCA
96585298 ATATAATTTCAATCA
1 ATATAATTTCAATCA
*
96585313 AAATAATTTCAATCA
1 ATATAATTTCAATCA
*
96585328 ATATAAATTCAAT
1 ATATAATTTCAAT
96585341 AAATTCATCG
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
14 9 0.23
15 30 0.77
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.39
Consensus pattern (15 bp):
ATATAATTTCAATCA
Found at i:96586620 original size:5 final size:5
Alignment explanation
Indices: 96586612--96586648 Score: 74
Period size: 5 Copynumber: 7.4 Consensus size: 5
96586602 TCTTTAGTTT
96586612 ATATA ATATA ATATA ATATA ATATA ATATA ATATA AT
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA AT
96586649 TAAAACATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:96586684 original size:8 final size:8
Alignment explanation
Indices: 96586671--96586699 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
96586661 TATCTTTATT
96586671 ATATAATA
1 ATATAATA
96586679 ATATAATA
1 ATATAATA
96586687 ATATAATA
1 ATATAATA
96586695 ATATA
1 ATATA
96586700 CTAAACATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:96589234 original size:19 final size:19
Alignment explanation
Indices: 96589210--96589249 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
96589200 AAATGTATGT
96589210 TTGTTTCATTGAAAACAAC
1 TTGTTTCATTGAAAACAAC
96589229 TTGTTTCATTGAAAACAAC
1 TTGTTTCATTGAAAACAAC
96589248 TT
1 TT
96589250 TTAAGAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (19 bp):
TTGTTTCATTGAAAACAAC
Found at i:96595296 original size:19 final size:18
Alignment explanation
Indices: 96595260--96595394 Score: 78
Period size: 20 Copynumber: 7.2 Consensus size: 18
96595250 GACATATGGT
96595260 AAAAATATAAAAA-T-TA
1 AAAAATATAAAAATTATA
96595276 AAAAATAATAAAAATTATA
1 AAAAAT-ATAAAAATTATA
**
96595295 AAAAATATTAAATTTTAATTA
1 AAAAATA-TAAAAATT-A-TA
**
96595316 AAAAATATAAAAATCGTA
1 AAAAATATAAAAATTATA
*
96595334 AAAAATGTATAAAATATT-TT
1 AAAAA--TATAAAA-ATTATA
*** *
96595354 AATTTTATAAAAATCATA
1 AAAAATATAAAAATTATA
*
96595372 AAAAGTCATGAAAAATTATA
1 AAAAAT-AT-AAAAATTATA
96595392 AAA
1 AAA
96595395 TACATCAGAA
Statistics
Matches: 90, Mismatches: 17, Indels: 20
0.71 0.13 0.16
Matches are distributed among these distances:
16 6 0.07
17 9 0.10
18 20 0.22
19 16 0.18
20 28 0.31
21 11 0.12
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (18 bp):
AAAAATATAAAAATTATA
Found at i:96595328 original size:9 final size:9
Alignment explanation
Indices: 96595260--96595350 Score: 55
Period size: 8 Copynumber: 9.9 Consensus size: 9
96595250 GACATATGGT
96595260 AAAAATAT-
1 AAAAATATA
96595268 AAAAAT-TA
1 AAAAATATA
96595276 AAAAATAATA
1 AAAAAT-ATA
*
96595286 AAAATTATA
1 AAAAATATA
96595295 AAAAATATTA
1 AAAAATA-TA
*
96595305 AATTTTAAT-TA
1 AA---AAATATA
96595316 AAAAATAT-
1 AAAAATATA
*
96595324 AAAAATCGTA
1 AAAAAT-ATA
*
96595334 AAAAATGTA
1 AAAAATATA
*
96595343 TAAAATAT
1 AAAAATAT
96595351 TTTAATTTTA
Statistics
Matches: 66, Mismatches: 7, Indels: 19
0.72 0.08 0.21
Matches are distributed among these distances:
7 1 0.02
8 21 0.32
9 20 0.30
10 17 0.26
11 4 0.06
13 3 0.05
ACGTcount: A:0.67, C:0.01, G:0.02, T:0.30
Consensus pattern (9 bp):
AAAAATATA
Found at i:96595329 original size:48 final size:46
Alignment explanation
Indices: 96595265--96595394 Score: 131
Period size: 47 Copynumber: 2.8 Consensus size: 46
96595255 ATGGTAAAAA
* *
96595265 TATAAAAATTA-AAAAATAAT-AAAAATTATAAAAAATATTAAATTT
1 TATAAAAAATATAAAAATCATAAAAAATTATAAAAAAT-TTAAATTT
* * *
96595310 TAATTAAAAAATATAAAAATCGTAAAAAATGTATAAAATATTTTAATTT
1 T-A-TAAAAAATATAAAAATCATAAAAAAT-TATAAAAAATTTAAATTT
*
96595359 TAT-AAAAATCATAAAAAGTCATGAAAAATTATAAAA
1 TATAAAAAAT-ATAAAAA-TCATAAAAAATTATAAAA
96595395 TACATCAGAA
Statistics
Matches: 71, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
45 1 0.01
46 7 0.10
47 23 0.32
48 17 0.24
49 14 0.20
50 9 0.13
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.32
Consensus pattern (46 bp):
TATAAAAAATATAAAAATCATAAAAAATTATAAAAAATTTAAATTT
Found at i:96602828 original size:19 final size:21
Alignment explanation
Indices: 96602787--96602828 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
96602777 ATTCACAAAT
* *
96602787 AACATCCACACATCATAGTCA
1 AACATCCACACATAATAGACA
96602808 AACATCCACACA-AATA-ACA
1 AACATCCACACATAATAGACA
96602827 AA
1 AA
96602829 TTTTCAAAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 4 0.21
20 3 0.16
21 12 0.63
ACGTcount: A:0.52, C:0.31, G:0.02, T:0.14
Consensus pattern (21 bp):
AACATCCACACATAATAGACA
Found at i:96604212 original size:43 final size:42
Alignment explanation
Indices: 96604165--96604259 Score: 120
Period size: 42 Copynumber: 2.2 Consensus size: 42
96604155 TCCCAGACAT
* *
96604165 GGTCTTACATGTAATCAAATATCGATG-CCATTGTCTCAAACAG
1 GGTCTTACACGAAATCAAATA-CGATGTCCA-TGTCTCAAACAG
* * *
96604208 GGTCTTATACGAAATCAAATACGATGTCGATGTCTCAAACAT
1 GGTCTTACACGAAATCAAATACGATGTCCATGTCTCAAACAG
96604250 GGTCTTACAC
1 GGTCTTACAC
96604260 ATAAATCTCA
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
42 25 0.56
43 20 0.44
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (42 bp):
GGTCTTACACGAAATCAAATACGATGTCCATGTCTCAAACAG
Found at i:96604266 original size:43 final size:43
Alignment explanation
Indices: 96604161--96604266 Score: 119
Period size: 43 Copynumber: 2.5 Consensus size: 43
96604151 AACGTCCCAG
*
96604161 ACATGGTCTTACA-TGTAATCAAATATCGATGCCATTGTCTCAA
1 ACATGGTCTTACACT-AAATCAAATATCGATGCCATTGTCTCAA
* * * *
96604204 ACAGGGTCTTATACGAAATCAAATA-CGATGTCGA-TGTCTCAA
1 ACATGGTCTTACACTAAATCAAATATCGATG-CCATTGTCTCAA
96604246 ACATGGTCTTACACATAAATC
1 ACATGGTCTTACAC-TAAATC
96604267 TCAAACCGAT
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
42 25 0.48
43 27 0.52
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (43 bp):
ACATGGTCTTACACTAAATCAAATATCGATGCCATTGTCTCAA
Found at i:96606525 original size:28 final size:28
Alignment explanation
Indices: 96606494--96606551 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
96606484 GTACAGGGAT
* *
96606494 TAAAT-TGTAAAAATTGTAAATTTTAGGG
1 TAAATGTGT-AAAATTGAAAATTTAAGGG
*
96606522 TAAATGTGTAAATTTGAAAATTTAAGGG
1 TAAATGTGTAAAATTGAAAATTTAAGGG
96606550 TA
1 TA
96606552 TAAAGTGTGA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 23 0.88
29 3 0.12
ACGTcount: A:0.43, C:0.00, G:0.19, T:0.38
Consensus pattern (28 bp):
TAAATGTGTAAAATTGAAAATTTAAGGG
Found at i:96606763 original size:15 final size:15
Alignment explanation
Indices: 96606743--96606795 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
96606733 TAATTTATAA
96606743 ATTTCATAATGAATT
1 ATTTCATAATGAATT
* *
96606758 ATTTCAT-ATGTATAA
1 ATTTCATAATGAAT-T
*
96606773 ATGTCATAATGAATT
1 ATTTCATAATGAATT
*
96606788 ATTGCATA
1 ATTTCATA
96606796 TGTATGCTAT
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
14 5 0.17
15 19 0.66
16 5 0.17
ACGTcount: A:0.40, C:0.08, G:0.09, T:0.43
Consensus pattern (15 bp):
ATTTCATAATGAATT
Found at i:96606774 original size:30 final size:30
Alignment explanation
Indices: 96606738--96606800 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
96606728 TTTGTTAATT
* *
96606738 TATAAATTTCATAATGAATTATTTCATATG
1 TATAAATGTCATAATGAATTATTGCATATG
96606768 TATAAATGTCATAATGAATTATTGCATATG
1 TATAAATGTCATAATGAATTATTGCATATG
96606798 TAT
1 TAT
96606801 GCTATGGTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.40, C:0.06, G:0.10, T:0.44
Consensus pattern (30 bp):
TATAAATGTCATAATGAATTATTGCATATG
Found at i:96607386 original size:23 final size:23
Alignment explanation
Indices: 96607360--96607405 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
96607350 CGATAAGATT
96607360 TACATTTTAAGTCAATAAACTTA
1 TACATTTTAAGTCAATAAACTTA
*
96607383 TACATTTTAAGTCAATGAACTTA
1 TACATTTTAAGTCAATAAACTTA
96607406 CTAGGCTTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.41, C:0.13, G:0.07, T:0.39
Consensus pattern (23 bp):
TACATTTTAAGTCAATAAACTTA
Found at i:96610114 original size:13 final size:13
Alignment explanation
Indices: 96610096--96610172 Score: 66
Period size: 13 Copynumber: 5.9 Consensus size: 13
96610086 AGTTCTTCAT
96610096 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
96610109 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* ** *
96610122 TGCTGTAAAAAAA
1 TGCTTTTGAAAAG
*
96610135 TACTTTT-AAGAAG
1 TGCTTTTGAA-AAG
* *
96610148 TACTTTTGAGAAG
1 TGCTTTTGAAAAG
*
96610161 TGCTTTAGAAAA
1 TGCTTTTGAAAA
96610173 ATTTAAGTGT
Statistics
Matches: 50, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
12 2 0.04
13 47 0.94
14 1 0.02
ACGTcount: A:0.38, C:0.08, G:0.19, T:0.35
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:96610141 original size:39 final size:39
Alignment explanation
Indices: 96610098--96610174 Score: 102
Period size: 39 Copynumber: 2.0 Consensus size: 39
96610088 TTCTTCATTG
*
96610098 CTTTTGAA-AAGTGCTTTTGAAAAGTGCTGTAAAAAAATA
1 CTTTT-AAGAAGTACTTTTGAAAAGTGCTGTAAAAAAATA
* * *
96610137 CTTTTAAGAAGTACTTTTGAGAAGTGCTTTAGAAAAAT
1 CTTTTAAGAAGTACTTTTGAAAAGTGCTGTAAAAAAAT
96610175 TTAAGTGTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
38 2 0.06
39 31 0.94
ACGTcount: A:0.39, C:0.08, G:0.18, T:0.35
Consensus pattern (39 bp):
CTTTTAAGAAGTACTTTTGAAAAGTGCTGTAAAAAAATA
Found at i:96619825 original size:23 final size:21
Alignment explanation
Indices: 96619787--96619835 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 21
96619777 ATAGTTAGAT
**
96619787 AATAAAATAAATATAATTATA
1 AATAAAATAAATATAAAAATA
96619808 AATAAAATCAAAATATAAAAATA
1 AATAAAAT--AAATATAAAAATA
96619831 AATAA
1 AATAA
96619836 TCATGAATGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 8 0.33
23 16 0.67
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (21 bp):
AATAAAATAAATATAAAAATA
Found at i:96621344 original size:23 final size:23
Alignment explanation
Indices: 96621314--96621361 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
96621304 TTGCCAATTC
96621314 TATACATACTCTTGGCATTTAGT
1 TATACATACTCTTGGCATTTAGT
96621337 TATACATACTCTTGGCATTTAGT
1 TATACATACTCTTGGCATTTAGT
96621360 TA
1 TA
96621362 AAAAAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.27, C:0.17, G:0.12, T:0.44
Consensus pattern (23 bp):
TATACATACTCTTGGCATTTAGT
Found at i:96621798 original size:31 final size:31
Alignment explanation
Indices: 96621739--96621799 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
96621729 TGCTTTTATA
* *
96621739 ACTGAGCTATTCAAAAGTTTTCATTTAAGTT
1 ACTGAACTATTCAAAAGTTTTCAGTTAAGTT
96621770 ACTGAACTATTCAAAAGTTCTT-AGTTAAGT
1 ACTGAACTATTCAAAAGTT-TTCAGTTAAGT
96621800 CATTGAGTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 25 0.93
32 2 0.07
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.39
Consensus pattern (31 bp):
ACTGAACTATTCAAAAGTTTTCAGTTAAGTT
Found at i:96623019 original size:92 final size:95
Alignment explanation
Indices: 96622848--96623019 Score: 224
Period size: 92 Copynumber: 1.8 Consensus size: 95
96622838 ATCTCTACCC
*
96622848 GTCTCTATGAAAATTCTAGGATTTCAACAAATTAGACAAATAAGACATTTTTTTTACAGTCTCTT
1 GTCTCTATGAAAATTCTAGGA-TGCAACAAATTAGACAAATAAGACATTTTTTTTACAGTCTCTT
* *
96622913 CTTCTTCTATTGCTACTACTTCTTTTTTACA
65 CTTATTCTACTGCTACTACTTCTTTTTTACA
* * * * * *
96622944 GTCTCTATGAAAATTCTA-G-TGCACCAACTTAGGCAAATAATAC-TTTTTTTTAGAGTCTTTTC
1 GTCTCTATGAAAATTCTAGGATGCAACAAATTAGACAAATAAGACATTTTTTTTACAGTCTCTTC
*
96623006 TTATTTTACTGCTA
66 TTATTCTACTGCTA
96623020 TTGCTGCTGC
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
92 28 0.42
93 19 0.29
95 1 0.02
96 18 0.27
ACGTcount: A:0.28, C:0.18, G:0.10, T:0.44
Consensus pattern (95 bp):
GTCTCTATGAAAATTCTAGGATGCAACAAATTAGACAAATAAGACATTTTTTTTACAGTCTCTTC
TTATTCTACTGCTACTACTTCTTTTTTACA
Found at i:96623124 original size:21 final size:21
Alignment explanation
Indices: 96623100--96623140 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
96623090 CAACGTGGCA
*
96623100 AGTTAACTGGCCACGTCAGCT
1 AGTTAACTGGCCACATCAGCT
*
96623121 AGTTAACTTGCCACATCAGC
1 AGTTAACTGGCCACATCAGC
96623141 AGACTGTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (21 bp):
AGTTAACTGGCCACATCAGCT
Found at i:96623240 original size:30 final size:31
Alignment explanation
Indices: 96623174--96623242 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
96623164 ACTGTTAGTC
* *
96623174 AGTGACTGTTTTGTCATTTTTTTATAACGTT
1 AGTGACTGTTTTGTCATTTTTTCATAAAGTT
*
96623205 AGTGACTGTTTTGTTA-TTTTTCA-AAAGTT
1 AGTGACTGTTTTGTCATTTTTTCATAAAGTT
96623234 AGGTGACTG
1 A-GTGACTG
96623243 AAATGAAACC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 6 0.18
30 13 0.38
31 15 0.44
ACGTcount: A:0.22, C:0.09, G:0.20, T:0.49
Consensus pattern (31 bp):
AGTGACTGTTTTGTCATTTTTTCATAAAGTT
Found at i:96624366 original size:23 final size:22
Alignment explanation
Indices: 96624340--96624418 Score: 61
Period size: 23 Copynumber: 3.3 Consensus size: 22
96624330 CACTGAACTT
96624340 TGTGAACATACATACACATGATA
1 TGTGAA-ATACATACACATGATA
* * *
96624363 TGTGAAACT-CCTACAATCTATAACTT
1 TGTGAAA-TACATAC-A-C-ATGA-TA
96624389 TGTGAATATACATACACATGATA
1 TGTGAA-ATACATACACATGATA
96624412 TGTGAAA
1 TGTGAAA
96624419 CTCCTACAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 15
0.67 0.09 0.23
Matches are distributed among these distances:
22 6 0.14
23 15 0.35
24 4 0.09
25 4 0.09
26 9 0.21
27 5 0.12
ACGTcount: A:0.41, C:0.16, G:0.13, T:0.30
Consensus pattern (22 bp):
TGTGAAATACATACACATGATA
Found at i:96624407 original size:49 final size:49
Alignment explanation
Indices: 96624335--96624432 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
96624325 GTTGACACTG
96624335 AACTTTGTGAACATACATACACATGATATGTGAAACTCCTACAATCTAT
1 AACTTTGTGAACATACATACACATGATATGTGAAACTCCTACAATCTAT
*
96624384 AACTTTGTGAATATACATACACATGATATGTGAAACTCCTACAATCTAT
1 AACTTTGTGAACATACATACACATGATATGTGAAACTCCTACAATCTAT
96624433 CTCGTCAAAG
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (49 bp):
AACTTTGTGAACATACATACACATGATATGTGAAACTCCTACAATCTAT
Found at i:96624782 original size:23 final size:21
Alignment explanation
Indices: 96624736--96624787 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 21
96624726 ATTCATCTTT
96624736 AATAAAAATAAATAAATAGTTG
1 AATAAAAATAAATAAATAG-TG
96624758 AATAATAAATAAATATAATTA-TG
1 AATAA-AAATAAATA-AA-TAGTG
96624781 AATAAAA
1 AATAAAA
96624788 TCAAAATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
22 7 0.26
23 16 0.59
24 2 0.07
25 2 0.07
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (21 bp):
AATAAAAATAAATAAATAGTG
Found at i:96624821 original size:19 final size:18
Alignment explanation
Indices: 96624742--96624824 Score: 59
Period size: 19 Copynumber: 4.6 Consensus size: 18
96624732 CTTTAATAAA
*
96624742 AATAAATAAATAGTTGAAT-
1 AATAAATAAATAATT--ATG
96624761 AATAAATAAATATAATTATG
1 AATAAAT-AA-ATAATTATG
*
96624781 AATAAAATCAA-AA-TAT-
1 AAT-AAATAAATAATTATG
96624797 AA-AAATAAATAATTATG
1 AATAAATAAATAATTATG
96624814 AATGAAATAAA
1 AAT-AAATAAA
96624825 CAAATAAATA
Statistics
Matches: 52, Mismatches: 3, Indels: 18
0.71 0.04 0.25
Matches are distributed among these distances:
14 6 0.12
15 2 0.04
16 5 0.10
17 5 0.10
18 2 0.04
19 17 0.33
20 6 0.12
21 9 0.17
ACGTcount: A:0.64, C:0.01, G:0.06, T:0.29
Consensus pattern (18 bp):
AATAAATAAATAATTATG
Found at i:96624821 original size:27 final size:25
Alignment explanation
Indices: 96624791--96624848 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 25
96624781 AATAAAATCA
96624791 AAATATAA-AAATAAATAATTATGAATG
1 AAATA-AACAAATAAATAA--ATGAATG
96624818 AAATAAACAAATAAATAAATGAATG
1 AAATAAACAAATAAATAAATGAATG
*
96624843 CAATAA
1 AAATAA
96624849 TTAAAAGTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 12 0.41
26 2 0.07
27 15 0.52
ACGTcount: A:0.66, C:0.03, G:0.07, T:0.24
Consensus pattern (25 bp):
AAATAAACAAATAAATAAATGAATG
Found at i:96624824 original size:25 final size:24
Alignment explanation
Indices: 96624795--96624848 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 24
96624785 AAATCAAAAT
96624795 ATAA-AAATAAATAATTATGAATGAA
1 ATAACAAATAAATAA--ATGAATGAA
*
96624820 ATAAACAAATAAATAAATGAATGCA
1 AT-AACAAATAAATAAATGAATGAA
96624845 ATAA
1 ATAA
96624849 TTAAAAGTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
24 2 0.08
25 12 0.46
26 2 0.08
27 10 0.38
ACGTcount: A:0.65, C:0.04, G:0.07, T:0.24
Consensus pattern (24 bp):
ATAACAAATAAATAAATGAATGAA
Found at i:96624832 original size:33 final size:35
Alignment explanation
Indices: 96624758--96624832 Score: 93
Period size: 33 Copynumber: 2.2 Consensus size: 35
96624748 TAAATAGTTG
96624758 AATAATAAATAAATATAATTATGAATAAAATCAAAA
1 AATAA-AAATAAATATAATTATGAATAAAATCAAAA
* *
96624794 TATAAAAAT-AA-ATAATTATGAATGAAAT-AAACA
1 AATAAAAATAAATATAATTATGAATAAAATCAAA-A
96624827 AATAAA
1 AATAAA
96624833 TAAATGAATG
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
32 3 0.09
33 22 0.63
34 2 0.06
35 4 0.11
36 4 0.11
ACGTcount: A:0.67, C:0.03, G:0.04, T:0.27
Consensus pattern (35 bp):
AATAAAAATAAATATAATTATGAATAAAATCAAAA
Found at i:96671101 original size:18 final size:19
Alignment explanation
Indices: 96671078--96671138 Score: 65
Period size: 18 Copynumber: 3.3 Consensus size: 19
96671068 TCTTTAGAAT
96671078 TTTTTAAAACTAT-TATAA
1 TTTTTAAAACTATATATAA
96671096 TTTTTAAATA-TATATATAA
1 TTTTTAAA-ACTATATATAA
* *
96671115 ATTTTGAAACT-TATATATA
1 TTTTTAAAACTATATATA-A
96671134 TTTTT
1 TTTTT
96671139 CATTTCTGAA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
18 18 0.50
19 18 0.50
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.54
Consensus pattern (19 bp):
TTTTTAAAACTATATATAA
Found at i:96671117 original size:20 final size:20
Alignment explanation
Indices: 96671078--96671133 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 20
96671068 TCTTTAGAAT
96671078 TTTTTAAA-ACTAT-TAT-AA
1 TTTTTAAATA-TATATATAAA
96671096 TTTTTAAATATATATATAAA
1 TTTTTAAATATATATATAAA
*
96671116 TTTTGAAACT-TATATATA
1 TTTTTAAA-TATATATATA
96671134 TTTTTCATTT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
18 11 0.33
19 4 0.12
20 17 0.52
21 1 0.03
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.50
Consensus pattern (20 bp):
TTTTTAAATATATATATAAA
Found at i:96675661 original size:14 final size:14
Alignment explanation
Indices: 96675631--96675659 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
96675621 TTAAACATTG
96675631 AATCTCAAACTCTA
1 AATCTCAAACTCTA
96675645 AATCTCAAA-TCTA
1 AATCTCAAACTCTA
96675658 AA
1 AA
96675660 ATTTATAACC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.28
Consensus pattern (14 bp):
AATCTCAAACTCTA
Found at i:96676642 original size:20 final size:21
Alignment explanation
Indices: 96676612--96676652 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
96676602 ATACTTCTAT
96676612 TTTTCTTATAAATTTATATGA
1 TTTTCTTATAAATTTATATGA
* *
96676633 TTTT-TTATAATTTTGTATGA
1 TTTTCTTATAAATTTATATGA
96676653 ATTCTAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.29, C:0.02, G:0.07, T:0.61
Consensus pattern (21 bp):
TTTTCTTATAAATTTATATGA
Found at i:96686028 original size:10 final size:11
Alignment explanation
Indices: 96686000--96686027 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
96685990 TATTCTATTG
96686000 AAAAAAATTAC
1 AAAAAAATTAC
96686011 AAAAAAATTAC
1 AAAAAAATTAC
96686022 AAAAAA
1 AAAAAA
96686028 TGTTCAATTA
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:0.79, C:0.07, G:0.00, T:0.14
Consensus pattern (11 bp):
AAAAAAATTAC
Found at i:96691526 original size:22 final size:22
Alignment explanation
Indices: 96691499--96691546 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
96691489 AAATAGTTGT
96691499 ATCTTTTGAAAAAAAATGTATC
1 ATCTTTTGAAAAAAAATGTATC
96691521 ATCTTTTGAAAAAAAATGTATC
1 ATCTTTTGAAAAAAAATGTATC
96691543 -TCTT
1 ATCTT
96691547 GGTTTAATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
21 4 0.15
22 22 0.85
ACGTcount: A:0.42, C:0.10, G:0.08, T:0.40
Consensus pattern (22 bp):
ATCTTTTGAAAAAAAATGTATC
Found at i:96692929 original size:17 final size:18
Alignment explanation
Indices: 96692907--96692954 Score: 64
Period size: 17 Copynumber: 2.7 Consensus size: 18
96692897 GTAATTTACC
96692907 CTAAATTTTTTTAATT-T
1 CTAAATTTTTTTAATTCT
96692924 CTAAATTTTTTATAATTCT
1 CTAAATTTTTT-TAATTCT
*
96692943 CT-CATTTTTTTA
1 CTAAATTTTTTTA
96692955 TAATATATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 13 0.46
18 12 0.43
19 3 0.11
ACGTcount: A:0.27, C:0.10, G:0.00, T:0.62
Consensus pattern (18 bp):
CTAAATTTTTTTAATTCT
Found at i:96692951 original size:19 final size:18
Alignment explanation
Indices: 96692907--96693021 Score: 76
Period size: 19 Copynumber: 6.0 Consensus size: 18
96692897 GTAATTTACC
96692907 CTAAATTTTTT-TAATTT
1 CTAAATTTTTTATAATTT
96692924 CTAAATTTTTTATAATTCT
1 CTAAATTTTTTATAATT-T
* *
96692943 CTCATTTTTTTATAATATAT
1 CTAAATTTTTTATAAT-T-T
*
96692963 -TAACAATATTTTATAATATT
1 CT-A-AATTTTTTATAAT-TT
96692983 -TAATACTTTTTTTATAA-TT
1 CTAA-A--TTTTTTATAATTT
96693002 CTAAGATTTCTTTATAATTT
1 CTAA-ATTT-TTTATAATTT
96693022 TTTATAATTT
Statistics
Matches: 79, Mismatches: 8, Indels: 19
0.75 0.08 0.18
Matches are distributed among these distances:
17 11 0.14
18 9 0.11
19 27 0.34
20 10 0.13
21 22 0.28
ACGTcount: A:0.33, C:0.08, G:0.01, T:0.58
Consensus pattern (18 bp):
CTAAATTTTTTATAATTT
Found at i:96692995 original size:21 final size:21
Alignment explanation
Indices: 96692945--96693000 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
96692935 ATAATTCTCT
96692945 CATTTTTTTATAATATATTAA
1 CATTTTTTTATAATATATTAA
* *
96692966 CAATATTTTATAATAT-TTAA
1 CATTTTTTTATAATATATTAA
*
96692986 TACTTTTTTTATAAT
1 CA-TTTTTTTATAAT
96693001 TCTAAGATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 5 0.17
21 24 0.83
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (21 bp):
CATTTTTTTATAATATATTAA
Found at i:96693051 original size:29 final size:29
Alignment explanation
Indices: 96692990--96693052 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
96692980 ATTTAATACT
*
96692990 TTTTTTATAATTCTAAGATTTCTTTATAA
1 TTTTTTATAATTCTAAGATATCTTTATAA
96693019 TTTTTTATAATTTCTAA-A-AT-TTTATAA
1 TTTTTTATAA-TTCTAAGATATCTTTATAA
96693046 TGTTTTT
1 T-TTTTT
96693053 CGTAATATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
27 8 0.26
28 6 0.19
29 11 0.35
30 6 0.19
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (29 bp):
TTTTTTATAATTCTAAGATATCTTTATAA
Found at i:96695870 original size:26 final size:25
Alignment explanation
Indices: 96695822--96695875 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 25
96695812 ATATTTTATA
* *
96695822 AATTATATTTTGAATGTAATAAT-T
1 AATTATATTTTAAATATAATAATAT
96695846 AATTATACTTTTAAAATATAATAATAT
1 AATTATA-TTTT-AAATATAATAATAT
96695873 AAT
1 AAT
96695876 ATAAATTTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 7 0.28
25 4 0.16
26 10 0.40
27 4 0.16
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (25 bp):
AATTATATTTTAAATATAATAATAT
Found at i:96696184 original size:23 final size:23
Alignment explanation
Indices: 96696157--96696207 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 23
96696147 ATTTATAAAA
96696157 AAATT-ATTATTTATTAT-ATTACT
1 AAATTGATT-TTTATT-TCATTACT
*
96696180 AAATTGATTTTTATTTCATTATT
1 AAATTGATTTTTATTTCATTACT
96696203 AAATT
1 AAATT
96696208 TTGAATATTG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
22 1 0.04
23 21 0.84
24 3 0.12
ACGTcount: A:0.37, C:0.04, G:0.02, T:0.57
Consensus pattern (23 bp):
AAATTGATTTTTATTTCATTACT
Found at i:96697707 original size:27 final size:27
Alignment explanation
Indices: 96697645--96697707 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 27
96697635 CTTTTAATTG
*
96697645 TAATAATTATAGTAAAATATAATTTAT
1 TAATAATTATAGTAAAATATAATTTAA
* *
96697672 TATTTATTATAGTAAAA-A-AATTTCAAA
1 TAATAATTATAGTAAAATATAATTT--AA
96697699 TAATAATTA
1 TAATAATTA
96697708 GAATATTTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
25 5 0.17
26 1 0.03
27 23 0.79
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (27 bp):
TAATAATTATAGTAAAATATAATTTAA
Found at i:96699658 original size:30 final size:30
Alignment explanation
Indices: 96699615--96699673 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
96699605 AGAGGTGGGA
96699615 TGGGAAGGAAGTAAATATTT-TAGGGGGAAAG
1 TGGGAAGGAAGTAAA-ATTTAT-GGGGGAAAG
*
96699646 TGGG-AGGGAGTAAAATTTATGGGGGAAA
1 TGGGAAGGAAGTAAAATTTATGGGGGAAA
96699674 ATAAAAAGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 12 0.46
30 10 0.38
31 4 0.15
ACGTcount: A:0.37, C:0.00, G:0.41, T:0.22
Consensus pattern (30 bp):
TGGGAAGGAAGTAAAATTTATGGGGGAAAG
Found at i:96699849 original size:21 final size:21
Alignment explanation
Indices: 96699810--96699849 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
96699800 GGGGAAAGTG
*
96699810 GGAAGAAGTAAAAGTTTTGAA
1 GGAAGAAGTAAAAATTTTGAA
96699831 GGAA-AAGTAAAAATGTTTG
1 GGAAGAAGTAAAAAT-TTTG
96699850 GAAATTTGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.47, C:0.00, G:0.28, T:0.25
Consensus pattern (21 bp):
GGAAGAAGTAAAAATTTTGAA
Found at i:96699901 original size:9 final size:9
Alignment explanation
Indices: 96699887--96699914 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
96699877 TATAGTTTGA
96699887 TATTCGAAT
1 TATTCGAAT
96699896 TATTCGAAT
1 TATTCGAAT
96699905 TATTCGAAT
1 TATTCGAAT
96699914 T
1 T
96699915 CGAAACTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:96700593 original size:11 final size:11
Alignment explanation
Indices: 96700577--96700602 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
96700567 CTATGTAGGG
96700577 TAAACTATGGA
1 TAAACTATGGA
96700588 TAAACTATGGA
1 TAAACTATGGA
96700599 TAAA
1 TAAA
96700603 GCCCACATCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.50, C:0.08, G:0.15, T:0.27
Consensus pattern (11 bp):
TAAACTATGGA
Found at i:96704912 original size:69 final size:76
Alignment explanation
Indices: 96704825--96705020 Score: 300
Period size: 69 Copynumber: 2.6 Consensus size: 76
96704815 CGGATGATAA
96704825 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATGTGC-AG-TACTAT-C
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATGTGCGAGTTACTATAC
96704887 -GGCTAAGT-C
66 GGGCTAAGTCC
96704896 C-AA-GCATTTGTGCGAGTTACTATATCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTAT
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA--TGTGCGAGTTACTAT
96704958 ACCGGGCTAAGTCC
64 A-CGGGCTAAGTCC
*
96704972 CGAAGGCATTTGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCAT
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCAT
96705021 TTGAGCGAGT
Statistics
Matches: 113, Mismatches: 1, Indels: 16
0.87 0.01 0.12
Matches are distributed among these distances:
68 9 0.08
69 33 0.29
70 7 0.06
71 3 0.03
72 6 0.05
74 1 0.01
75 8 0.07
76 2 0.02
77 3 0.03
78 32 0.28
79 9 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (76 bp):
CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATGTGCGAGTTACTATAC
GGGCTAAGTCC
Found at i:96705014 original size:40 final size:40
Alignment explanation
Indices: 96704825--96705056 Score: 314
Period size: 39 Copynumber: 6.2 Consensus size: 40
96704815 CGGATGATAA
96704825 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
96704865 CGAAGGCA--TGTGC-AG-TAC--TAT-C-GGCTAAGT-C
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
96704896 C-AA-GCATTTGTGCGAGTTACTATATCCGGGCTAAGT-C
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
96704933 CGAAGGCATTTGTGCGAGTTACTATA-CCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
*
96704972 CGAAGGCATTTGTGCGAGCTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
* * *
96705012 CGAAGGCATTTGAGCGAG-TAGCTATATCC-GGTTAAATCC
1 CGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCC
96705051 CGAAGG
1 CGAAGG
96705057 TACTTGGTTT
Statistics
Matches: 175, Mismatches: 4, Indels: 27
0.85 0.02 0.13
Matches are distributed among these distances:
29 3 0.02
30 2 0.01
31 7 0.04
32 10 0.06
33 4 0.02
34 3 0.02
35 3 0.02
36 4 0.02
37 12 0.07
38 18 0.10
39 63 0.36
40 46 0.26
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
Found at i:96712954 original size:40 final size:40
Alignment explanation
Indices: 96712873--96713153 Score: 421
Period size: 40 Copynumber: 7.1 Consensus size: 40
96712863 GGATGATAAT
96712873 GAAGGCATTTGTGCGAG-TACTATAT-C-GGCTAAGTCCC
1 GAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCC
*
96712910 GAAGGCATTTGTGCGAGTTACTATACCCGGGCTAAGTCCC
1 GAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCC
* *
96712950 GAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCCC
1 GAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCCC
96712990 GAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCC
1 GAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCC
*
96713030 GAAGGCATTTGTGCGAGTTACTATACCCGGGCTAAGTCCC
1 GAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCC
* *
96713070 GAAGGCATTTGTGCGAGCTACTATATTCGGGCTAAGTCCC
1 GAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCC
* * *
96713110 GAAGGCATTTGAGCGAG-TAGCTATATCC-GGTTAAATCCC
1 GAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCCC
96713149 GAAGG
1 GAAGG
96713154 TACTTGGTTT
Statistics
Matches: 224, Mismatches: 14, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
37 17 0.08
38 7 0.03
39 18 0.08
40 181 0.81
41 1 0.00
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
GAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCC
Found at i:96721953 original size:19 final size:17
Alignment explanation
Indices: 96721932--96721965 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
96721922 TGATATTTCT
96721932 TTTTAATTATTTATCATC
1 TTTTAATTATTT-TCATC
96721950 TTTTAATTATTTTCAT
1 TTTTAATTATTTTCAT
96721966 TTCCAATTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTAATTATTTTCATC
Found at i:96723457 original size:27 final size:26
Alignment explanation
Indices: 96723399--96723462 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 26
96723389 ATGGTTTAAA
* *
96723399 ACCACATATATCTGTTCTGGTGGCTC
1 ACCACATATTTATGTTCTGGTGGCTC
* *
96723425 AGCCACATATTTATGTTTCTGGTGGGTT
1 A-CCACATATTTATG-TTCTGGTGGCTC
96723453 ACCACATATT
1 ACCACATATT
96723463 ATTATCTAGC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
26 1 0.03
27 20 0.62
28 11 0.34
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.38
Consensus pattern (26 bp):
ACCACATATTTATGTTCTGGTGGCTC
Found at i:96725536 original size:31 final size:31
Alignment explanation
Indices: 96725501--96725560 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
96725491 TTTACAGTTT
*
96725501 CAGTTACAGTCACGCTTTGTGTGAGTATTTA
1 CAGTTACAGTCACACTTTGTGTGAGTATTTA
96725532 CAGTTACAGTCACACTTTGTGTGAGTATT
1 CAGTTACAGTCACACTTTGTGTGAGTATT
96725561 ATTCCTATGT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.23, C:0.17, G:0.22, T:0.38
Consensus pattern (31 bp):
CAGTTACAGTCACACTTTGTGTGAGTATTTA
Found at i:96725701 original size:13 final size:13
Alignment explanation
Indices: 96725683--96725716 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
96725673 AAAGGGAGAA
*
96725683 TTGAAATGAATAT
1 TTGAAATGAAAAT
96725696 TTGAAATGAAAAT
1 TTGAAATGAAAAT
*
96725709 GTGAAATG
1 TTGAAATG
96725717 TTAAACGAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.21, T:0.32
Consensus pattern (13 bp):
TTGAAATGAAAAT
Found at i:96728003 original size:42 final size:42
Alignment explanation
Indices: 96727905--96728011 Score: 101
Period size: 42 Copynumber: 2.5 Consensus size: 42
96727895 TGTTACCATG
* * * *
96727905 TAAGGCCATATCTGGGATATGGCGTTGATATGAGATTTCGTC
1 TAAGACCATATCTGGGACATGGCGTTGATATAAGATTTCGTA
* ** *
96727947 TAAGATCACGTCTGGGACATGTC-TTCGA-ATAAGATTTTCGTA
1 TAAGACCATATCTGGGACATGGCGTT-GATATAAGA-TTTCGTA
*
96727989 TAAGACCATATCTGGGATATGGC
1 TAAGACCATATCTGGGACATGGC
96728012 ATCGATGTGA
Statistics
Matches: 50, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
41 7 0.14
42 43 0.86
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (42 bp):
TAAGACCATATCTGGGACATGGCGTTGATATAAGATTTCGTA
Found at i:96730922 original size:21 final size:22
Alignment explanation
Indices: 96730896--96730938 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
96730886 GAATTGAATT
96730896 TAAAGTTATGAAT-TAT-ATATA
1 TAAAGTT-TGAATGTATGATATA
96730917 TAAAGTTTGAATGTATGATATA
1 TAAAGTTTGAATGTATGATATA
96730939 AGTTCTTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 5 0.25
21 10 0.50
22 5 0.25
ACGTcount: A:0.44, C:0.00, G:0.14, T:0.42
Consensus pattern (22 bp):
TAAAGTTTGAATGTATGATATA
Found at i:96730937 original size:20 final size:21
Alignment explanation
Indices: 96730896--96730939 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
96730886 GAATTGAATT
*
96730896 TAAAGTTATGAATTATATATA
1 TAAAGTTATGAATTATAGATA
96730917 TAAAGTT-TGAATGTAT-GATA
1 TAAAGTTATGAAT-TATAGATA
96730937 TAA
1 TAA
96730940 GTTCTTTGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.45, C:0.00, G:0.14, T:0.41
Consensus pattern (21 bp):
TAAAGTTATGAATTATAGATA
Found at i:96731072 original size:63 final size:62
Alignment explanation
Indices: 96730933--96731089 Score: 194
Period size: 63 Copynumber: 2.5 Consensus size: 62
96730923 TTGAATGTAT
* *
96730933 GATAT-AAGTTCTTTGAGCTGAATTTAATGTATGAATTTTACATACATATGGTTCGAATATA
1 GATATCAAATTCTTTGAGCTGAATTTAATGTATGAATTTCACATACATATGGTTCGAATATA
* *
96730994 TATATTTCAAGTTC-TTGAGCTGAATTTAATGTATGAATTTCACATACATATGTGGTTCGAATAT
1 GATA--TCAAATTCTTTGAGCTGAATTTAATGTATGAATTTCACATACATA--TGGTTCGAATAT
96731058 A
62 A
* *
96731059 GGCTA-CAAATTCTTTGAGCTGAATTTTATGT
1 -GATATCAAATTCTTTGAGCTGAATTTAATGT
96731090 TGTAAATTAT
Statistics
Matches: 83, Mismatches: 6, Indels: 11
0.83 0.06 0.11
Matches are distributed among these distances:
61 3 0.04
63 42 0.51
64 23 0.28
65 13 0.16
66 2 0.02
ACGTcount: A:0.32, C:0.10, G:0.17, T:0.41
Consensus pattern (62 bp):
GATATCAAATTCTTTGAGCTGAATTTAATGTATGAATTTCACATACATATGGTTCGAATATA
Found at i:96731289 original size:41 final size:41
Alignment explanation
Indices: 96731272--96731473 Score: 332
Period size: 41 Copynumber: 4.9 Consensus size: 41
96731262 GGTGAATTAT
*
96731272 ATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTAA
1 ATCAGGCTATAAACCTAGCAGGCTAAGTGCCGGTGATCTAA
*
96731313 ATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATCTAA
1 ATCAGGCTATAAACCTAGCAGGCTAAGTGCCGGTGATCTAA
* * *
96731354 ATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATATGA
1 ATCAGGCTATAAACCTAGCAGGCTAAGTGCCGGTGATCTAA
* *
96731395 ATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATCTGA
1 ATCAGGCTATAAACCTAGCAGGCTAAGTGCCGGTGATCTAA
*
96731436 ATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGGTGATC
1 ATCAGGCTATAAACCTAGCAGGCTAAGTGCCGGTGATC
96731474 CGAATATGAT
Statistics
Matches: 152, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 152 1.00
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (41 bp):
ATCAGGCTATAAACCTAGCAGGCTAAGTGCCGGTGATCTAA
Done.