Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 206 of 325
Found at i:66702757 original size:21 final size:19
Alignment explanation
Indices: 66702732--66702770 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 19
66702722 ATAGTTTATA
66702732 TATTATTTATATAAAAAATTT
1 TATTATTT-TA-AAAAAATTT
66702753 TATTATTTTAAAAAAATT
1 TATTATTTTAAAAAAATT
66702771 GAACTAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.44
20 2 0.11
21 8 0.44
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
TATTATTTTAAAAAAATTT
Found at i:66703837 original size:23 final size:24
Alignment explanation
Indices: 66703811--66703856 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
66703801 ATTAAAAACC
*
66703811 ATAAATATT-TACAAAAATAATTT
1 ATAAAAATTATACAAAAATAATTT
* *
66703834 ATAAAAATTATTCAAAATTAATT
1 ATAAAAATTATACAAAAATAATT
66703857 AAATACCATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (24 bp):
ATAAAAATTATACAAAAATAATTT
Found at i:66705973 original size:40 final size:39
Alignment explanation
Indices: 66705893--66706074 Score: 224
Period size: 40 Copynumber: 4.6 Consensus size: 39
66705883 AAACCCGGTA
* * * *
66705893 CCTTCGGGATTTAGCCGGATATAACT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCGGTTAT-AGTAACTCGCACAAATG
66705932 CCTTCGGGACTTAGCTCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGC-CGGTTATAGTAACTCGCACAAATG
*
66705972 CCTTCGGGACTTAGCCCGTATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCGGT-TATAGTAACTCGCACAAATG
* * *
66706012 CCTTCGGGACTTAGCCCGG-AATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAG-CCGGTTA-TAGTAACTCGCACAAATG
66706052 CCTTCGGGACTTAGCCCGGTTAT
1 CCTTCGGGACTTAG-CCGGTTAT
66706075 CAACCGGATA
Statistics
Matches: 127, Mismatches: 10, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
39 20 0.16
40 103 0.81
41 4 0.03
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCGGTTATAGTAACTCGCACAAATG
Found at i:66714115 original size:40 final size:40
Alignment explanation
Indices: 66714034--66714211 Score: 254
Period size: 40 Copynumber: 4.5 Consensus size: 40
66714024 AAACCCGGTA
* * *
66714034 CCTTCGGGATTTAG-CCGGATATAACT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATAT-AGTAACTCGCACAAATG
*
66714073 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
66714113 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
66714153 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
*
66714193 CCTTCGGGGCTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
66714212 TTATCATCCG
Statistics
Matches: 128, Mismatches: 8, Indels: 5
0.91 0.06 0.04
Matches are distributed among these distances:
39 16 0.12
40 112 0.88
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:66717724 original size:131 final size:132
Alignment explanation
Indices: 66717299--66717824 Score: 458
Period size: 131 Copynumber: 4.0 Consensus size: 132
66717289 TGCCTCACCC
* * * * **
66717299 TAGAAAACACGAGTGAAATTCCGAA-GAGATATTCGATTATTTTGATCAAACGGGAAATTGCAA-
1 TAGAAAACATGAGTGAAATTCTGAAGGA-ATATTCGATTATTTTGAACAAACGAGAAATCACAAC
* * * * * *
66717362 CCAGCACGATAGGGTACTATTCCCCGAATTGCCAAACATCGAATATCGCCTTTGTTTTAAAGGGT
65 CCAGCACGATAGGGCACGATTCCCCGAATTACCAAACATCGAGTATCGCCTTCGTTTTAAAGGAT
66717427 TTT
130 TTT
* * ** * * *
66717430 TAGAAAACGTGAGTGAAATTTTGAAGGAACCTTCGATTGTCTTGAAAAAACGAGAAATCACAACC
1 TAGAAAACATGAGTGAAATTCTGAAGGAATATTCGATTATTTTGAACAAACGAGAAATCACAACC
* ** * * * * * *
66717495 CAACGTGTTAGGGCACGATT-CCCGAATTATCAAACACCGAGTATTGTCTTCGTTTTGGAAGG-T
66 CAGCACGATAGGGCACGATTCCCCGAATTACCAAACATCGAGTATCGCCTTCGTTTT-AAAGGAT
66717558 TTT
130 TTT
* ** ** ** *
66717561 TA-ATAAACACGAGTGAAAACCAAAAGGAATATTTAATTGTTTTGAACAAACGAGAAATCACAAC
1 TAGA-AAACATGAGTGAAATTCTGAAGGAATATTCGATTATTTTGAACAAACGAGAAATCACAAC
* * * *
66717625 CCAGCACGATAGGGCATGATT-CTCGAATTATCAAACATCGAGTATTGCCTTCGTTTTAAAGGAT
65 CCAGCACGATAGGGCACGATTCCCCGAATTACCAAACATCGAGTATCGCCTTCGTTTTAAAGGAT
66717689 TTT
130 TTT
* * * * * * **
66717692 TAGAAGATATGAGTGAAATTTTGAAGGGATATTTGATTATTTT-AAGCAAACGGGAAATTGCAAC
1 TAGAAAACATGAGTGAAATTCTGAAGGAATATTCGATTATTTTGAA-CAAACGAGAAATCACAAC
* * * * * *
66717756 CCAGCACGTTAGGGCACAATTCCGCGAATTACCAAATATCGCA-TATCGCATTCG-TTTAAGGGA
65 CCAGCACGATAGGGCACGATTCCCCGAATTACCAAACATCG-AGTATCGCCTTCGTTTTAAAGGA
66717819 TTTT
129 TTTT
66717823 TA
1 TA
66717825 ATAATTTTGA
Statistics
Matches: 314, Mismatches: 72, Indels: 18
0.78 0.18 0.04
Matches are distributed among these distances:
130 7 0.02
131 259 0.82
132 47 0.15
133 1 0.00
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.29
Consensus pattern (132 bp):
TAGAAAACATGAGTGAAATTCTGAAGGAATATTCGATTATTTTGAACAAACGAGAAATCACAACC
CAGCACGATAGGGCACGATTCCCCGAATTACCAAACATCGAGTATCGCCTTCGTTTTAAAGGATT
TT
Found at i:66718915 original size:3 final size:3
Alignment explanation
Indices: 66718902--66718933 Score: 55
Period size: 3 Copynumber: 10.3 Consensus size: 3
66718892 TGTATATATA
66718902 AAT ACAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT A
66718934 GAATCGAAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:66720611 original size:21 final size:22
Alignment explanation
Indices: 66720568--66720617 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
66720558 TAACTCTTGG
*
66720568 ATTTTTTCTGAAAATAAGCTAA
1 ATTTTTTCTGAAAATAAGATAA
66720590 ATTTTCTTCT-AAAATAA-ATAA
1 ATTTT-TTCTGAAAATAAGATAA
*
66720611 ATATTTT
1 ATTTTTT
66720618 AAACTGATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 2 0.08
21 7 0.28
22 12 0.48
23 4 0.16
ACGTcount: A:0.42, C:0.08, G:0.04, T:0.46
Consensus pattern (22 bp):
ATTTTTTCTGAAAATAAGATAA
Found at i:66722639 original size:21 final size:22
Alignment explanation
Indices: 66722603--66722644 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
66722593 TGAAATAAAT
66722603 CATAAAATAAATAAAGATTAATA
1 CATAAAAT-AATAAAGATTAATA
*
66722626 CATAAAAT-ATAAAGTTTAA
1 CATAAAATAATAAAGATTAA
66722645 CATATAGATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 10 0.56
23 8 0.44
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.29
Consensus pattern (22 bp):
CATAAAATAATAAAGATTAATA
Found at i:66725368 original size:25 final size:25
Alignment explanation
Indices: 66725340--66725391 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 25
66725330 AGAAGCCTTT
*
66725340 AAATAAATTTGAATAAAATAAAATC
1 AAATAAATTGGAATAAAATAAAATC
** * *
66725365 AAATTGATTGGAATCAAATCAAATC
1 AAATAAATTGGAATAAAATAAAATC
66725390 AA
1 AA
66725392 GATATTTGTC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.58, C:0.08, G:0.08, T:0.27
Consensus pattern (25 bp):
AAATAAATTGGAATAAAATAAAATC
Found at i:66726524 original size:26 final size:26
Alignment explanation
Indices: 66726487--66726570 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
66726477 TGATACAAAT
* *
66726487 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
66726513 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
*
66726539 TGATAATGGGTTAGGTTAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
66726565 TGATAA
1 TGATAA
66726571 GAATTTCATG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.32, C:0.05, G:0.25, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:66731356 original size:82 final size:82
Alignment explanation
Indices: 66731247--66731577 Score: 389
Period size: 82 Copynumber: 4.1 Consensus size: 82
66731237 ACGATAGGAT
* * * * * *
66731247 TAAATCCCTAAACAAAATTATTTAATTAAATCTTGTTTGGAAACAAAATCAAAATTGAATAAAAT
1 TAAATCCCAAAACAGAATTATTCAATTAATTCTCGTTTGGAAACAAAATCAAAATCGAATAAAAT
* *
66731312 CTTTTAAATGGCGGGAA
66 CTGTTAAACGGCGGGAA
* * * * *
66731329 TGAATCCCAAAATAGAATTATTCAATTAATTCGCATTTGGAAACAAAATCAAAATCAAAT-AAAT
1 TAAATCCCAAAACAGAATTATTCAATTAATTCTCGTTTGGAAACAAAATCAAAATCGAATAAAAT
*
66731393 -TGTTAAACGGCGAGAA
66 CTGTTAAACGGCGGGAA
** ** *
66731409 TAAATCCTGAAACAGAATTATTCAATTAATTCTCGTTTGGAAATGAAATCAAAATCGAATAAACT
1 TAAATCCCAAAACAGAATTATTCAATTAATTCTCGTTTGGAAACAAAATCAAAATCGAATAAAAT
66731474 CTGTTAAACGGCGGGAA
66 CTGTTAAACGGCGGGAA
* * * * *
66731491 CAAATCCCAAAACAAAATTATTCAATTAATTCTCGCTTGGAAAC-AAATCAAAATGGAACAAAAT
1 TAAATCCCAAAACAGAATTATTCAATTAATTCTCGTTTGGAAACAAAATCAAAATCGAATAAAAT
* * * *
66731555 ATGTTGAACGACAGGAA
66 CTGTTAAACGGCGGGAA
66731572 TAAATC
1 TAAATC
66731578 TTGAAACAGG
Statistics
Matches: 208, Mismatches: 39, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
80 64 0.31
81 42 0.20
82 102 0.49
ACGTcount: A:0.46, C:0.14, G:0.13, T:0.27
Consensus pattern (82 bp):
TAAATCCCAAAACAGAATTATTCAATTAATTCTCGTTTGGAAACAAAATCAAAATCGAATAAAAT
CTGTTAAACGGCGGGAA
Found at i:66731449 original size:162 final size:159
Alignment explanation
Indices: 66731209--66731544 Score: 417
Period size: 162 Copynumber: 2.1 Consensus size: 159
66731199 TTAAAATTCT
* * * *
66731209 GAAACAAAATCAAAATCAATTATGTTAAACGATAGGATTAAATCCCTAAACAAAATTATTTAATT
1 GAAACAAAATCAAAATCAATAATGTTAAACGAGAGGAATAAATCCCTAAACAAAATTATTCAATT
* * * * **
66731274 AAATCTTGTTTGGAAACAAAATCAAAATTGAATAAAATCTTTTAAATGGCGGGAATGAATCCCAA
66 AAATCTCGTTTGGAAACAAAATCAAAATCGAATAAAATCTGTTAAACGGCGGGAACAAATCCCAA
* * *
66731339 AATAGAATTATTCAATTAATTCGCATTTG
131 AACAAAATTATTCAATTAATTCGCACTTG
* *
66731368 GAAACAAAATCAAAATCAAATAAATTGTTAAACG-GCGAGAATAAAT-CCTGAAACAGAATTATT
1 GAAACAAAATCAAAATC-AAT-AA-TGTTAAACGAGAG-GAATAAATCCCT-AAACAAAATTATT
* ** *
66731431 CAATTAATTCTCGTTTGGAAATGAAATCAAAATCGAATAAACTCTGTTAAACGGCGGGAACAAAT
61 CAATTAAATCTCGTTTGGAAACAAAATCAAAATCGAATAAAATCTGTTAAACGGCGGGAACAAAT
* *
66731496 CCCAAAACAAAATTATTCAATTAATTCTCGCTTG
126 CCCAAAACAAAATTATTCAATTAATTCGCACTTG
66731530 GAAAC-AAATCAAAAT
1 GAAACAAAATCAAAAT
66731545 GGAACAAAAT
Statistics
Matches: 151, Mismatches: 21, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
159 17 0.11
160 3 0.02
161 15 0.10
162 116 0.77
ACGTcount: A:0.46, C:0.14, G:0.12, T:0.28
Consensus pattern (159 bp):
GAAACAAAATCAAAATCAATAATGTTAAACGAGAGGAATAAATCCCTAAACAAAATTATTCAATT
AAATCTCGTTTGGAAACAAAATCAAAATCGAATAAAATCTGTTAAACGGCGGGAACAAATCCCAA
AACAAAATTATTCAATTAATTCGCACTTG
Found at i:66732282 original size:25 final size:25
Alignment explanation
Indices: 66732254--66732305 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 25
66732244 AGGAGCCTTT
*
66732254 AAATCAATTTGAATAAAATCAAATC
1 AAATCAATTGGAATAAAATCAAATC
** * *
66732279 AAATTGATTGGAATCAAATTAAATC
1 AAATCAATTGGAATAAAATCAAATC
66732304 AA
1 AA
66732306 GATACCTGTC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.54, C:0.10, G:0.08, T:0.29
Consensus pattern (25 bp):
AAATCAATTGGAATAAAATCAAATC
Found at i:66734079 original size:68 final size:68
Alignment explanation
Indices: 66733970--66734107 Score: 276
Period size: 68 Copynumber: 2.0 Consensus size: 68
66733960 TATACATAGC
66733970 AATATTTTGTGCTATCATCAATAGAGGTAATGAAATATTTATTCCCTCCTCACGTTTGAACAAAT
1 AATATTTTGTGCTATCATCAATAGAGGTAATGAAATATTTATTCCCTCCTCACGTTTGAACAAAT
66734035 TTT
66 TTT
66734038 AATATTTTGTGCTATCATCAATAGAGGTAATGAAATATTTATTCCCTCCTCACGTTTGAACAAAT
1 AATATTTTGTGCTATCATCAATAGAGGTAATGAAATATTTATTCCCTCCTCACGTTTGAACAAAT
66734103 TTT
66 TTT
66734106 AA
1 AA
66734108 GTCACAAATA
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 70 1.00
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (68 bp):
AATATTTTGTGCTATCATCAATAGAGGTAATGAAATATTTATTCCCTCCTCACGTTTGAACAAAT
TTT
Found at i:66738531 original size:16 final size:16
Alignment explanation
Indices: 66738510--66738543 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
66738500 GACAGAGTAT
66738510 GAGCGAGAATTTATCA
1 GAGCGAGAATTTATCA
*
66738526 GAGCGAGAATTTGTCA
1 GAGCGAGAATTTATCA
66738542 GA
1 GA
66738544 CTTAGTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.35, C:0.12, G:0.29, T:0.24
Consensus pattern (16 bp):
GAGCGAGAATTTATCA
Found at i:66739915 original size:30 final size:30
Alignment explanation
Indices: 66739879--66739940 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
66739869 GTTGTAAGAG
*
66739879 TTGACAGATAAGGGTTTTGTGAGACTAATT
1 TTGACAGATAAGGGTTTTGTGAGACCAATT
66739909 TTGACAGATAAGGGTTTTGTGAGACCAATT
1 TTGACAGATAAGGGTTTTGTGAGACCAATT
66739939 TT
1 TT
66739941 TTCTCCCTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.29, C:0.08, G:0.26, T:0.37
Consensus pattern (30 bp):
TTGACAGATAAGGGTTTTGTGAGACCAATT
Found at i:66741800 original size:19 final size:19
Alignment explanation
Indices: 66741776--66741813 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
66741766 AAGTTACAAA
66741776 AGGCTTTGGGTACAAAGTT
1 AGGCTTTGGGTACAAAGTT
66741795 AGGCTTTGGGTACAAAGTT
1 AGGCTTTGGGTACAAAGTT
66741814 GAACTTTAGT
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:0.26, C:0.11, G:0.32, T:0.32
Consensus pattern (19 bp):
AGGCTTTGGGTACAAAGTT
Found at i:66748163 original size:46 final size:46
Alignment explanation
Indices: 66748113--66748288 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
66748103 TGGTTGAGCA
*
66748113 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
66748159 TCCGAACTCGTTGAGTTGAGTCCGAGTT--C-GA-GAGATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCAA--ACG
* **
66748204 AATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGGACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
66748252 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
66748289 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 1 0.01
43 7 0.06
44 1 0.01
45 2 0.02
46 63 0.57
47 27 0.25
48 2 0.02
49 1 0.01
50 5 0.05
51 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:66748271 original size:93 final size:93
Alignment explanation
Indices: 66748112--66748280 Score: 275
Period size: 93 Copynumber: 1.8 Consensus size: 93
66748102 ATGGTTGAGC
* *
66748112 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGTTG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGTTG
66748177 AGTCCGAGTTCGAGAGATGTAACTAGGA
66 AGTCCGAGTTCGAGAGATGTAACTAGGA
* ** *
66748205 ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGGACGCCCGAGCTCGTTGAGTTG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGTTG
*
66748270 AGTCTGAGTTC
66 AGTCCGAGTTC
66748281 ACTTATGGGC
Statistics
Matches: 69, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (93 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGTTG
AGTCCGAGTTCGAGAGATGTAACTAGGA
Found at i:66760397 original size:43 final size:43
Alignment explanation
Indices: 66760350--66760481 Score: 103
Period size: 40 Copynumber: 3.2 Consensus size: 43
66760340 AAATTATTTA
66760350 ATTAAATCTTGTTTGGAAACAAAATCAAAATCGAATAAAATCT
1 ATTAAATCTTGTTTGGAAACAAAATCAAAATCGAATAAAATCT
* * ** * * * * *
66760393 ATTAAA-C-AG-TGGGAATA-AATCTCGAAATAGAAT-TATTCA
1 ATTAAATCTTGTTTGGAA-ACAAAATCAAAATCGAATAAAATCT
* * *
66760432 ATTAATTCTTGTTTGAAAACAAAATCAAAATCGACTAAAATCT
1 ATTAAATCTTGTTTGGAAACAAAATCAAAATCGAATAAAATCT
*
66760475 GTTAAAT
1 ATTAAAT
66760482 GACGGGAATA
Statistics
Matches: 60, Mismatches: 23, Indels: 12
0.63 0.24 0.13
Matches are distributed among these distances:
39 8 0.13
40 18 0.30
41 4 0.07
42 16 0.27
43 14 0.23
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.31
Consensus pattern (43 bp):
ATTAAATCTTGTTTGGAAACAAAATCAAAATCGAATAAAATCT
Found at i:66760436 original size:82 final size:82
Alignment explanation
Indices: 66760341--66760665 Score: 346
Period size: 82 Copynumber: 4.0 Consensus size: 82
66760331 CCGAAAAAAA
* * * * **
66760341 AATTATTTAATTAAATCTTGTTTGGAAACAAAATCAAAATCGAATAAAATCTATTAAACAGTGGG
1 AATTATTCAATTAATTCTCGTTTGGAAACAAAATCAAAATCGAATAAAATCTGTTAAACAGCAGG
66760406 AATAAATCTCGAAATAG
66 AATAAATCTCGAAATAG
* * * * *
66760423 AATTATTCAATTAATTCTTGTTTGAAAACAAAATCAAAATCGACTAAAATCTGTTAAA-TGACGG
1 AATTATTCAATTAATTCTCGTTTGGAAACAAAATCAAAATCGAATAAAATCTGTTAAACAG-CAG
* * *
66760487 GAATAAATCTCCAAACAT
65 GAATAAATCTCGAAATAG
** * **
66760505 AATTATTCAATTAATTCTCGTTTGGAAACAAAATCAAAATAAAATAAAATATGTTAAATGGCAGG
1 AATTATTCAATTAATTCTCGTTTGGAAACAAAATCAAAATCGAATAAAATCTGTTAAACAGCAGG
* *
66760570 AATAAATCCCAAAATAG
66 AATAAATCTCGAAATAG
* ** * * * * * **
66760587 AATTATTCACTTAATTCTCACTTGGAAACGAACTCAAAATGGAATAAAATCTGCTGAACAATAGG
1 AATTATTCAATTAATTCTCGTTTGGAAACAAAATCAAAATCGAATAAAATCTGTTAAACAGCAGG
*
66760652 AATAAATCTTGAAA
66 AATAAATCTCGAAA
66760666 CAGGTTTTAT
Statistics
Matches: 202, Mismatches: 39, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
81 1 0.00
82 200 0.99
83 1 0.00
ACGTcount: A:0.47, C:0.13, G:0.11, T:0.29
Consensus pattern (82 bp):
AATTATTCAATTAATTCTCGTTTGGAAACAAAATCAAAATCGAATAAAATCTGTTAAACAGCAGG
AATAAATCTCGAAATAG
Found at i:66760626 original size:164 final size:164
Alignment explanation
Indices: 66760341--66760639 Score: 400
Period size: 164 Copynumber: 1.8 Consensus size: 164
66760331 CCGAAAAAAA
* * ** * **
66760341 AATTATTTAATTAAATCTTGTTTGGAAACAAAATCAAAATCGAATAAAATCTATTAAACAGTGGG
1 AATTATTCAATTAAATCTCGTTTGGAAACAAAATCAAAATAAAATAAAATATATTAAACAGCAGG
* * *** *
66760406 AATAAATCTCGAAATAGAATTATTCAATTAATTCTTGTTTGAAAACAAAATCAAAATCGACTAAA
66 AATAAATCCCAAAATAGAATTATTCAATTAATTCTCACTTGAAAACAAAATCAAAATCGAATAAA
66760471 ATCTGTTAAATGACGGGAATAAATCTCCAAACAT
131 ATCTGTTAAATGACGGGAATAAATCTCCAAACAT
* * **
66760505 AATTATTCAATTAATTCTCGTTTGGAAACAAAATCAAAATAAAATAAAATATGTTAAATGGCAGG
1 AATTATTCAATTAAATCTCGTTTGGAAACAAAATCAAAATAAAATAAAATATATTAAACAGCAGG
* * * * *
66760570 AATAAATCCCAAAATAGAATTATTCACTTAATTCTCACTTGGAAACGAACTCAAAATGGAATAAA
66 AATAAATCCCAAAATAGAATTATTCAATTAATTCTCACTTGAAAACAAAATCAAAATCGAATAAA
66760635 ATCTG
131 ATCTG
66760640 CTGAACAATA
Statistics
Matches: 113, Mismatches: 22, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
164 113 1.00
ACGTcount: A:0.46, C:0.13, G:0.11, T:0.30
Consensus pattern (164 bp):
AATTATTCAATTAAATCTCGTTTGGAAACAAAATCAAAATAAAATAAAATATATTAAACAGCAGG
AATAAATCCCAAAATAGAATTATTCAATTAATTCTCACTTGAAAACAAAATCAAAATCGAATAAA
ATCTGTTAAATGACGGGAATAAATCTCCAAACAT
Found at i:66762393 original size:43 final size:43
Alignment explanation
Indices: 66762346--66762449 Score: 138
Period size: 43 Copynumber: 2.4 Consensus size: 43
66762336 CCCAACTATA
* * *
66762346 GTCTTACACGAAATC-GAATAACAATGCCAATGTCCCAGACATG
1 GTCTTACACGAAATCACAAT-ACAAAGCCAATGTCACAGACATG
*
66762389 GTCTTACACGTAATCACAATACAAAGCCAATGTCACAGACATG
1 GTCTTACACGAAATCACAATACAAAGCCAATGTCACAGACATG
* *
66762432 GTCTTACATGTAATCACA
1 GTCTTACACGAAATCACA
66762450 TCTCGGTAAT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
43 52 0.95
44 3 0.05
ACGTcount: A:0.38, C:0.25, G:0.14, T:0.23
Consensus pattern (43 bp):
GTCTTACACGAAATCACAATACAAAGCCAATGTCACAGACATG
Found at i:66774834 original size:41 final size:41
Alignment explanation
Indices: 66774777--66774868 Score: 125
Period size: 41 Copynumber: 2.3 Consensus size: 41
66774767 TAAAAGCTTA
* *
66774777 TGCCCCTTTTTGTACTTCGGCACC-CATAAATTGCACATATG
1 TGCCCCTGTTTGTACTTCGGCACCTC-TAAATTGCACATACG
* *
66774818 TGCCCCTGTTTGTACTTCGGTACCTCTGAATTGCACATACG
1 TGCCCCTGTTTGTACTTCGGCACCTCTAAATTGCACATACG
66774859 TG-CCCTGTTT
1 TGCCCCTGTTT
66774869 ACACTCCGGT
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
40 8 0.17
41 37 0.80
42 1 0.02
ACGTcount: A:0.17, C:0.29, G:0.17, T:0.36
Consensus pattern (41 bp):
TGCCCCTGTTTGTACTTCGGCACCTCTAAATTGCACATACG
Found at i:66774879 original size:40 final size:41
Alignment explanation
Indices: 66774805--66774890 Score: 111
Period size: 40 Copynumber: 2.1 Consensus size: 41
66774795 GGCACCCATA
* ** * *
66774805 AATTGCACATATGTGCCCCTGTTTGTACTTCGGTACCTCTG
1 AATTGCACATACGTGCCCCTGTTTACACTCCGGTAACTCTG
*
66774846 AATTGCACATACGTG-CCCTGTTTACACTCCGGTAACTTTG
1 AATTGCACATACGTGCCCCTGTTTACACTCCGGTAACTCTG
66774886 AATTG
1 AATTG
66774891 AAAAAATATG
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
40 25 0.64
41 14 0.36
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.35
Consensus pattern (41 bp):
AATTGCACATACGTGCCCCTGTTTACACTCCGGTAACTCTG
Found at i:66782352 original size:3 final size:3
Alignment explanation
Indices: 66782344--66782375 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
66782334 GATTCAGATT
66782344 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
66782376 TTGAAAATGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:66783420 original size:21 final size:20
Alignment explanation
Indices: 66783388--66783429 Score: 50
Period size: 20 Copynumber: 2.0 Consensus size: 20
66783378 ATATATAAAG
*
66783388 AATAAAACATATGTTGTGTTA
1 AATAAAACATAT-TTATGTTA
66783409 AATATAAA-ATATTTATGTTA
1 AATA-AAACATATTTATGTTA
66783429 A
1 A
66783430 TTTTATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 8 0.42
21 8 0.42
22 3 0.16
ACGTcount: A:0.48, C:0.02, G:0.10, T:0.40
Consensus pattern (20 bp):
AATAAAACATATTTATGTTA
Found at i:66783980 original size:7 final size:7
Alignment explanation
Indices: 66783970--66783994 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
66783960 TTTTAAATTT
66783970 TTTTGAA
1 TTTTGAA
66783977 TTTTGAA
1 TTTTGAA
66783984 TTTTGAA
1 TTTTGAA
66783991 TTTT
1 TTTT
66783995 TAATATTTTA
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:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (7 bp):
TTTTGAA
Found at i:66788121 original size:15 final size:15
Alignment explanation
Indices: 66788101--66788133 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
66788091 AATAATTGGC
66788101 GAAACAAGTTTTTAT
1 GAAACAAGTTTTTAT
66788116 GAAACAAGTTTTTAT
1 GAAACAAGTTTTTAT
66788131 GAA
1 GAA
66788134 CTAATTATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.42, C:0.06, G:0.15, T:0.36
Consensus pattern (15 bp):
GAAACAAGTTTTTAT
Found at i:66800177 original size:5 final size:5
Alignment explanation
Indices: 66800167--66800198 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
66800157 TTGTGTGTTC
66800167 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
66800199 TCACAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:66800181 original size:9 final size:9
Alignment explanation
Indices: 66800167--66800197 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
66800157 TTGTGTGTTC
66800167 TTTATTTTA
1 TTTATTTTA
66800176 TTTATTTTA
1 TTTATTTTA
66800185 TTTTATTTTA
1 -TTTATTTTA
66800195 TTT
1 TTT
66800198 TTCACAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:66805142 original size:24 final size:24
Alignment explanation
Indices: 66805112--66805157 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
66805102 TTTAATTTTC
66805112 AAAATTTTAAAAAAATAAAAATAA
1 AAAATTTTAAAAAAATAAAAATAA
*
66805136 AAAATTTTCAAAAAATAAAAAT
1 AAAATTTTAAAAAAATAAAAAT
66805158 TGCATTTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (24 bp):
AAAATTTTAAAAAAATAAAAATAA
Found at i:66805194 original size:30 final size:29
Alignment explanation
Indices: 66805154--66805273 Score: 127
Period size: 30 Copynumber: 4.1 Consensus size: 29
66805144 CAAAAAATAA
*
66805154 AAATTGCATTTTGACCCCTAAACTTTTCCT
1 AAATTTCATTTTGACCCCTAAAC-TTTCCT
* *
66805184 AAATTTCATTTTGACCCTTAAACTTTCTTT
1 AAATTTCATTTTGACCCCTAAACTTTC-CT
* *
66805214 AAATTTCACTTAGACCCCTAAACTTTCCT
1 AAATTTCATTTTGACCCCTAAACTTTCCT
* * *
66805243 TAATTTGCATTTT-AACCCTAAA-TTTTCT
1 AAATTT-CATTTTGACCCCTAAACTTTCCT
66805271 AAA
1 AAA
66805274 AATTACATTT
Statistics
Matches: 75, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
28 7 0.09
29 18 0.24
30 50 0.67
ACGTcount: A:0.30, C:0.23, G:0.04, T:0.42
Consensus pattern (29 bp):
AAATTTCATTTTGACCCCTAAACTTTCCT
Found at i:66818646 original size:14 final size:14
Alignment explanation
Indices: 66818627--66818656 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
66818617 GCTGAGGTAA
*
66818627 TTTCAATTTATGTT
1 TTTCAATTTATATT
66818641 TTTCAATTTATATT
1 TTTCAATTTATATT
66818655 TT
1 TT
66818657 GCAAAAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.23, C:0.07, G:0.03, T:0.67
Consensus pattern (14 bp):
TTTCAATTTATATT
Found at i:66818781 original size:170 final size:173
Alignment explanation
Indices: 66818580--66819137 Score: 599
Period size: 172 Copynumber: 3.3 Consensus size: 173
66818570 AAAAAAGTCG
*
66818580 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTATGTTTTT-
1 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTTC
* * * *
66818644 CAATTTATATTTTGCAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGA
66 CAATCTATATTTTGCAAAAATCAACTCATATTGCGAGAGGTGAATTGAGCCTCAAGACACGCTGA
*
66818709 GGTATTTTTAATTTCTATTCTT-AA-TGACTGTTTTT-AAATCA
131 GGTATTTTCAATTTCTATTCTTCAATTGA-TGTTTTTAAAATCA
*
66818750 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTTTT
1 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG-TTTTT
* * *
66818815 CCAATCTATATTTTTCAAAAATCAACTCATATTGCGAGATGTGAATTGAGCCTCAAGACACGTTG
65 CCAATCTATATTTTGCAAAAATCAACTCATATTGCGAGAGGTGAATTGAGCCTCAAGACACGCTG
* * * *
66818880 AGGTATTTTCGATTTCTGTTTTTCAATTTATGTTTTTCAAAAATCA
130 AGGTATTTTCAATTTCTATTCTTCAATTGATGTTTTT--AAAATCA
* * * *
66818926 ATTCATATTACGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTCCTG---TT-
1 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTTC
** ** * * **
66818987 ---T-T-T-TTTTAAAAAAAGTCAACTCATATTGCGAGAAATGAGTTGAGGCTCAAGACACATTG
66 CAATCTATATTTTGCAAAAA-TCAACTCATATTGCGAGAGGTGAATTGAGCCTCAAGACACGCTG
*
66819046 AGGTATTTTCAATTTCT-GTCTTTCAA---A-------AAAATCA
130 AGGTATTTTCAATTTCTATTC-TTCAATTGATGTTTTTAAAATCA
* * *
66819080 ACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGTCACACGTTGAGGTATTTTCAATTT
1 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTAATTTCAATTT
66819138 TTTGCTATTT
Statistics
Matches: 341, Mismatches: 36, Indels: 36
0.83 0.09 0.09
Matches are distributed among these distances:
154 36 0.11
156 20 0.06
163 1 0.00
165 10 0.03
166 61 0.18
167 1 0.00
168 1 0.00
170 57 0.17
171 5 0.01
172 78 0.23
173 9 0.03
174 2 0.01
176 60 0.18
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.36
Consensus pattern (173 bp):
ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTTC
CAATCTATATTTTGCAAAAATCAACTCATATTGCGAGAGGTGAATTGAGCCTCAAGACACGCTGA
GGTATTTTCAATTTCTATTCTTCAATTGATGTTTTTAAAATCA
Found at i:66818895 original size:89 final size:87
Alignment explanation
Indices: 66818571--66819137 Score: 601
Period size: 87 Copynumber: 6.7 Consensus size: 87
66818561 TTGTCAAAAA
* *
66818571 AAAAAGTCGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
1 AAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
* *
66818636 ATGTTTTTCAATTTATATTTTGC
65 CTGTTTTTCAATTTATATTTTTC
* *
66818659 AAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
* * * *
66818724 TATTCTT-AA-TGACTGTTTTT-
66 TGTTTTTCAATTTA-TATTTTTC
66818744 --AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
*
66818807 TGTTTTTTCCAATCTATATTTTTC
66 TG-TTTTT-CAATTTATATTTTTC
* * * * *
66818831 AAAAATCAACTCATATTGCGAGATGTGAATTGAGCCTCAAGACACGTTGAGGTATTTTCGATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
*
66818896 TGTTTTTCAATTTATGTTTTTC
66 TGTTTTTCAATTTATATTTTTC
* * * * *
66818918 AAAAATCAATTCATATTACGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTCC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
*
66818983 TGTTTTT---TTT-TA-----A
66 TGTTTTTCAATTTATATTTTTC
** * * **
66818996 AAAAAGTCAACTCATATTGCGAGAAATGAGTTGAGGCTCAAGACACATTGAGGTATTTTCAATTT
1 AAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTT
*
66819061 CTGTCTTTC-----A-A------
65 CTGTTTTTCAATTTATATTTTTC
* *
66819072 AAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGTCACACGTTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--ACACGCTGAGGTATTTTCAATT
66819137 T
64 T
66819138 TTTGCTATTT
Statistics
Matches: 412, Mismatches: 54, Indels: 37
0.82 0.11 0.07
Matches are distributed among these distances:
75 31 0.08
76 5 0.01
77 23 0.06
78 5 0.01
79 55 0.13
83 63 0.15
84 7 0.02
85 2 0.00
86 15 0.04
87 136 0.33
88 10 0.02
89 60 0.15
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.36
Consensus pattern (87 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTC
TGTTTTTCAATTTATATTTTTC
Found at i:66818908 original size:14 final size:14
Alignment explanation
Indices: 66818885--66818919 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
66818875 CGTTGAGGTA
* *
66818885 TTTTCGATTTCTGT
1 TTTTCAATTTATGT
66818899 TTTTCAATTTATGT
1 TTTTCAATTTATGT
66818913 TTTTCAA
1 TTTTCAA
66818920 AAATCAATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.17, C:0.11, G:0.09, T:0.63
Consensus pattern (14 bp):
TTTTCAATTTATGT
Found at i:66818947 original size:259 final size:255
Alignment explanation
Indices: 66818571--66819064 Score: 679
Period size: 259 Copynumber: 1.9 Consensus size: 255
66818561 TTGTCAAAAA
* * *
66818571 AAAAAGTCGACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTT
1 AAAAAGTCAACTCATATTGCGAGAGGTGAATTGAGCCTCAAGACACGCTGAGGTAATTTCAATTT
*
66818636 ATGTTTTTCAATTTATATTTTGCAAAAATCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
66 ATGTTTTTCAATTTATATTTTGCAAAAATCAATTCATATTACGAGAGGTGAGTTGAGCCTCAGGA
* * * **
66818701 CACGCTGAGGTATTTTTAATTTCTATTCTTAATGACTGTTT-TTAAA-TCAACTCATATTGCGAG
131 CACGCTGAGGTAATTTCAATTCCTATT-TT--T---T-TTTAAAAAAGTCAACTCATATTGCGAG
** * *
66818764 AGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTTTTCCAATCTATATTTT
189 AAATGAGTTGAGCCTCAAGACACACTGAGGTATTTTCAATTTCTGTTTTTTCCAATCTATATTTT
66818829 TC
254 TC
* * * *
66818831 AAAAA-TCAACTCATATTGCGAGATGTGAATTGAGCCTCAAGACACGTTGAGGTATTTTCGATTT
1 AAAAAGTCAACTCATATTGCGAGAGGTGAATTGAGCCTCAAGACACGCTGAGGTAATTTCAATTT
* * * *
66818895 CTGTTTTTCAATTTATGTTTTTCAAAAATCAATTCATATTACGAGAGGTGAGTTGAGCCTCGGGA
66 ATGTTTTTCAATTTATATTTTGCAAAAATCAATTCATATTACGAGAGGTGAGTTGAGCCTCAGGA
*
66818960 CACGCTGAGGTAATTTCAATTCCTGTTTTTTTTTAAAAAAAGTCAACTCATATTGCGAGAAATGA
131 CACGCTGAGGTAATTTCAATTCCTATTTTTTTTT-AAAAAAGTCAACTCATATTGCGAGAAATGA
* *
66819025 GTTGAGGCTCAAGACACATTGAGGTATTTTCAATTTCTGT
195 GTTGAGCCTCAAGACACACTGAGGTATTTTCAATTTCTGT
66819065 CTTTCAAAAA
Statistics
Matches: 207, Mismatches: 24, Indels: 11
0.86 0.10 0.05
Matches are distributed among these distances:
252 3 0.01
253 1 0.00
254 3 0.01
255 57 0.28
256 1 0.00
258 2 0.01
259 135 0.65
260 5 0.02
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.36
Consensus pattern (255 bp):
AAAAAGTCAACTCATATTGCGAGAGGTGAATTGAGCCTCAAGACACGCTGAGGTAATTTCAATTT
ATGTTTTTCAATTTATATTTTGCAAAAATCAATTCATATTACGAGAGGTGAGTTGAGCCTCAGGA
CACGCTGAGGTAATTTCAATTCCTATTTTTTTTTAAAAAAGTCAACTCATATTGCGAGAAATGAG
TTGAGCCTCAAGACACACTGAGGTATTTTCAATTTCTGTTTTTTCCAATCTATATTTTTC
Found at i:66819174 original size:78 final size:75
Alignment explanation
Indices: 66818899--66819182 Score: 288
Period size: 79 Copynumber: 3.7 Consensus size: 75
66818889 CGATTTCTGT
* * * * *
66818899 TTTTCAA-TTTATGTTTTTC-AAAAATCAATTCATATTACGAGAGGTGAGTTGAGCCTCGGGACA
1 TTTTCAATTTTTTGTATTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
*
66818962 CGCTGAGGTA
66 CGTTGAGGTA
* * * * ** * *
66818972 ATTTCAATTCCTGTTTTTTTTTAAAAAAAGTCAACTCATATTGCGAGAAATGAGTTGAGGCTCAA
1 TTTTCAATT--T-TTTGTATTTCAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
*
66819037 GACACATTGAGGTA
62 GACACGTTGAGGTA
* * *
66819051 TTTTCAA-TTTCTGTCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGTC
1 TTTTCAATTTTTTGTATTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG--
66819115 ACACGTTGAGGTA
63 ACACGTTGAGGTA
*
66819128 TTTTCAATTTTTTGCTATTTCAAAAGATCAACTCATAATT-CGAGAGGTGAGTTGA
1 TTTTCAATTTTTTG-TATTTCAAAAAATCAACTCAT-ATTGCGAGAGGTGAGTTGA
66819183 ACTTCGGGTC
Statistics
Matches: 171, Mismatches: 28, Indels: 19
0.78 0.13 0.09
Matches are distributed among these distances:
73 6 0.04
74 1 0.01
75 37 0.22
76 8 0.05
77 26 0.15
78 39 0.23
79 54 0.32
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (75 bp):
TTTTCAATTTTTTGTATTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACA
CGTTGAGGTA
Found at i:66819208 original size:78 final size:78
Alignment explanation
Indices: 66818918--66819218 Score: 217
Period size: 78 Copynumber: 3.9 Consensus size: 78
66818908 TATGTTTTTC
* * * * * * *
66818918 AAAAATCAATTCATATTACGAGAGGTGAGTTGAGCCTC-GG-GACACGCTGAGGTAATTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGTCACACGCCGAGCTATTTTCAATT
* *
66818981 CCTGTTT-TTTTTTAA
66 --T-TTTGTATTTCAA
** * * * *** *
66818996 AAAAAGTCAACTCATATTGCGAGAAATGAGTTGAGGCTCAAG--ACACATTGAGGTATTTTCAA-
1 AAAAA-TCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGTCACACGCCGAGCTATTTTCAAT
* *
66819058 TTTCTGTCTTTCAA
65 TTTTTGTATTTCAA
** *
66819072 AAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGTCACACGTTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGTCACACGCCGAGCTATTTTCAATT
66819137 TTTTGCTATTTC-A
66 TTTTG-TATTTCAA
* * * *
66819150 AAAGATCAACTCATAATT-CGAGAGGTGAGTTGAA-CTTCGGGTCGCATC-CCGAGCTATTTTCA
1 AAAAATCAACTCAT-ATTGCGAGAGGTGAGTT-AAGCCTCAGGTCACA-CGCCGAGCTATTTTCA
66819212 ATTTTTT
63 ATTTTTT
66819219 TTTGTTTTTC
Statistics
Matches: 186, Mismatches: 27, Indels: 20
0.80 0.12 0.09
Matches are distributed among these distances:
75 33 0.18
76 12 0.06
77 19 0.10
78 65 0.35
79 56 0.30
80 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.34
Consensus pattern (78 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGTCACACGCCGAGCTATTTTCAATT
TTTTGTATTTCAA
Found at i:66819407 original size:24 final size:25
Alignment explanation
Indices: 66819370--66819416 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
66819360 TTTAATTTTT
66819370 AAAATTTTAAAAAAAATAAAAATAA
1 AAAATTTTAAAAAAAATAAAAATAA
*
66819395 AAAATTTT-CAAAAAATAAAAAT
1 AAAATTTTAAAAAAAATAAAAAT
66819417 TGCATTTTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (25 bp):
AAAATTTTAAAAAAAATAAAAATAA
Found at i:66819453 original size:30 final size:29
Alignment explanation
Indices: 66819413--66819532 Score: 118
Period size: 30 Copynumber: 4.1 Consensus size: 29
66819403 CAAAAAATAA
*
66819413 AAATTGCATTTTGACCCCTAAACTTTTCCT
1 AAATTGCATTTTAACCCCTAAA-TTTTCCT
* * * *
66819443 AAATTTCATTTTAACACTTAAATTTTCTTT
1 AAATTGCATTTTAACCCCTAAATTTTC-CT
* * * *
66819473 AAATTTCACTTAAACCCCTAAACTTTCCTT
1 AAATTGCATTTTAACCCCTAAATTTTCC-T
66819503 AAATTGCATTTTAA-CCCTAAATTTT-CT
1 AAATTGCATTTTAACCCCTAAATTTTCCT
66819530 AAA
1 AAA
66819533 AATTACATTT
Statistics
Matches: 73, Mismatches: 15, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
27 4 0.05
28 1 0.01
29 15 0.21
30 53 0.73
ACGTcount: A:0.33, C:0.22, G:0.03, T:0.42
Consensus pattern (29 bp):
AAATTGCATTTTAACCCCTAAATTTTCCT
Found at i:66819772 original size:15 final size:16
Alignment explanation
Indices: 66819754--66819792 Score: 62
Period size: 15 Copynumber: 2.5 Consensus size: 16
66819744 AAAAAAGCAA
66819754 AAAAAAAATTTC-AGC
1 AAAAAAAATTTCTAGC
*
66819769 AAAAAAATTTTCTAGC
1 AAAAAAAATTTCTAGC
66819785 AAAAAAAA
1 AAAAAAAA
66819793 AAAACAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 11 0.52
16 10 0.48
ACGTcount: A:0.64, C:0.10, G:0.05, T:0.21
Consensus pattern (16 bp):
AAAAAAAATTTCTAGC
Found at i:66821976 original size:87 final size:87
Alignment explanation
Indices: 66821855--66822015 Score: 252
Period size: 87 Copynumber: 1.9 Consensus size: 87
66821845 CCTCTCAAAT
*
66821855 TTAAGTTCGGTGAATTCATAAGTCCATCTTAATAGGACCACCCAAACTCTAGGATATGAACTCAT
1 TTAAGTTCGGTGAATTCATAAGTCCATCTCAATAGGACCACCCAAACTCTAGGATATGAACTCAT
66821920 TAAGAGTAATAAACTCAACCTC
66 TAAGAGTAATAAACTCAACCTC
* * * * *
66821942 TTAAG-TCGGTGAATTTATCAAGTCCATCTCAATAGGACCACCCAAATTTTAGGCTATGAATTCA
1 TTAAGTTCGGTGAATTCAT-AAGTCCATCTCAATAGGACCACCCAAACTCTAGGATATGAACTCA
66822006 TTAAGAGTAA
65 TTAAGAGTAA
66822016 AAAATCATCT
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
86 12 0.18
87 55 0.82
ACGTcount: A:0.36, C:0.20, G:0.15, T:0.29
Consensus pattern (87 bp):
TTAAGTTCGGTGAATTCATAAGTCCATCTCAATAGGACCACCCAAACTCTAGGATATGAACTCAT
TAAGAGTAATAAACTCAACCTC
Found at i:66824801 original size:16 final size:17
Alignment explanation
Indices: 66824780--66824812 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
66824770 CACATTGAAG
66824780 TGTTTT-TTGAAAACCT
1 TGTTTTATTGAAAACCT
66824796 TGTTTTCATTGAAAACC
1 TGTTTT-ATTGAAAACC
66824813 CTTCTTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.27, C:0.15, G:0.12, T:0.45
Consensus pattern (17 bp):
TGTTTTATTGAAAACCT
Found at i:66826164 original size:28 final size:29
Alignment explanation
Indices: 66826121--66826206 Score: 115
Period size: 29 Copynumber: 3.0 Consensus size: 29
66826111 TACATACACG
* *
66826121 CATATGGCCCACTAGGCCC-AATCTCATT
1 CATATGGCCCATTAGGCCCAAATCACATT
66826149 CATATGGCCCATTAGGCCCAAATCACATT
1 CATATGGCCCATTAGGCCCAAATCACATT
*
66826178 CATATGGCCCATCT-GGCCCGAATCA-ATT
1 CATATGGCCCAT-TAGGCCCAAATCACATT
66826206 C
1 C
66826207 CAAGCCATGT
Statistics
Matches: 53, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
28 22 0.42
29 30 0.57
30 1 0.02
ACGTcount: A:0.27, C:0.34, G:0.15, T:0.24
Consensus pattern (29 bp):
CATATGGCCCATTAGGCCCAAATCACATT
Found at i:66829615 original size:16 final size:16
Alignment explanation
Indices: 66829585--66829614 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
66829575 TTATGTGTTC
66829585 TTTATTTTTATTTTTA
1 TTTATTTTTATTTTTA
66829601 TTTA-TTTTATTTTT
1 TTTATTTTTATTTTT
66829615 TCACAAATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTATTTTTATTTTTA
Found at i:66835419 original size:29 final size:29
Alignment explanation
Indices: 66835377--66835435 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
66835367 GGTAAAAGAG
66835377 TAAAAATATGCACTGAAACTACCCTACTA
1 TAAAAATATGCACTGAAACTACCCTACTA
*
66835406 TAAAAATATGCACTGAAACTACCTTACTA
1 TAAAAATATGCACTGAAACTACCCTACTA
66835435 T
1 T
66835436 TTCAGCGCCC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.44, C:0.22, G:0.07, T:0.27
Consensus pattern (29 bp):
TAAAAATATGCACTGAAACTACCCTACTA
Found at i:66836370 original size:119 final size:118
Alignment explanation
Indices: 66836230--66836477 Score: 442
Period size: 119 Copynumber: 2.1 Consensus size: 118
66836220 TCCAAAAAAT
*
66836230 TAATTAGTACATTTTCCAAATATCTTCATTTTCAACATCTTAAATTAATTAGTGTAATCAATTTA
1 TAATTAATACATTTTCCAAATATCTTCATTTTCAACATCTTAAATTAATTAGTGTAATCAATTTA
*
66836295 GTCCAAGAAATTAGAGTCAACATCTTAAAAAATGGGAAAAAATTAATTTTGTTG
66 GTCCAAAAAATTAGAGTCAACATCTTAAAAAA-GGGAAAAAATTAATTTTGTTG
66836349 TAATTAATACATTTTCCAAATATCTTCATTTTCAACATCTTAAATTAATTAGTGTAATCAATTTA
1 TAATTAATACATTTTCCAAATATCTTCATTTTCAACATCTTAAATTAATTAGTGTAATCAATTTA
* **
66836414 GTCCAAAAAATTAGAGTCAACATCTTAAAAAAGGGGAAATTTTAATTTTGTTG
66 GTCCAAAAAATTAGAGTCAACATCTTAAAAAAGGGAAAAAATTAATTTTGTTG
66836467 TAATTAATACA
1 TAATTAATACA
66836478 ATAAATAGGC
Statistics
Matches: 124, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
118 29 0.23
119 95 0.77
ACGTcount: A:0.41, C:0.12, G:0.09, T:0.38
Consensus pattern (118 bp):
TAATTAATACATTTTCCAAATATCTTCATTTTCAACATCTTAAATTAATTAGTGTAATCAATTTA
GTCCAAAAAATTAGAGTCAACATCTTAAAAAAGGGAAAAAATTAATTTTGTTG
Found at i:66839834 original size:33 final size:33
Alignment explanation
Indices: 66839747--66839850 Score: 115
Period size: 33 Copynumber: 3.2 Consensus size: 33
66839737 TATGTTGAAT
*
66839747 AATAATAATACTTAT-ATCTTTAATAA-CA-AC
1 AATAATAATACTTATAATATTTAATAATCATAC
* * * * *
66839777 AACAACAATAATAATAATAATTAATAATCATAC
1 AATAATAATACTTATAATATTTAATAATCATAC
* *
66839810 AATAATTATACTTATAATATTTAATAATAATAC
1 AATAATAATACTTATAATATTTAATAATCATAC
66839843 AATAATAA
1 AATAATAA
66839851 AAATATGTTT
Statistics
Matches: 57, Mismatches: 14, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
30 11 0.19
31 9 0.16
32 2 0.04
33 35 0.61
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.35
Consensus pattern (33 bp):
AATAATAATACTTATAATATTTAATAATCATAC
Found at i:66840908 original size:5 final size:5
Alignment explanation
Indices: 66840898--66840928 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
66840888 TCATATATCA
66840898 TAATT TAATT TAATT TAATT TAATT TAATT T
1 TAATT TAATT TAATT TAATT TAATT TAATT T
66840929 TATAATAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TAATT
Found at i:66847777 original size:13 final size:13
Alignment explanation
Indices: 66847759--66847783 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
66847749 TTACCTAGCC
66847759 TATAAAAAGTGAT
1 TATAAAAAGTGAT
66847772 TATAAAAAGTGA
1 TATAAAAAGTGA
66847784 ATTTTTTGTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.16, T:0.28
Consensus pattern (13 bp):
TATAAAAAGTGAT
Found at i:66848793 original size:54 final size:54
Alignment explanation
Indices: 66848724--66848828 Score: 174
Period size: 54 Copynumber: 1.9 Consensus size: 54
66848714 TTAATTGTTG
* *
66848724 TTATTATTTTATTGTAATTATTCGTGCAATTTAATTGATGCACCACAATTACTA
1 TTATCATTTTATTGTAATTACTCGTGCAATTTAATTGATGCACCACAATTACTA
* *
66848778 TTATCATTTTATTGTAATTACTCGTGCAATTTAATTGGTGCATCACAATTA
1 TTATCATTTTATTGTAATTACTCGTGCAATTTAATTGATGCACCACAATTA
66848829 TTGTTAATTT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.30, C:0.13, G:0.10, T:0.46
Consensus pattern (54 bp):
TTATCATTTTATTGTAATTACTCGTGCAATTTAATTGATGCACCACAATTACTA
Found at i:66848899 original size:135 final size:135
Alignment explanation
Indices: 66848657--66848962 Score: 384
Period size: 135 Copynumber: 2.3 Consensus size: 135
66848647 ATTTTTGTGA
* * *
66848657 TAATTAATCATGCAATTTAATTCATGCACCACAATTACTGTTAATTTTAAAAAACGATTAATTGT
1 TAATTACTCATGCAATTTAATTCATGCACCACAATTACTGTTAATTTTAAAAAACGATCAATTGC
* * ** * *
66848722 TGTTATTATTTTATTGTAATTATTCGTGCAATTTAATTGATGCACCACAATTACTATTATCATTT
66 TATTATCATTTTATTGTAATTACCCATACAATTTAATTGATGCACCACAATTACTATTATCATTT
66848787 TATTG
131 TATTG
* ** * * * *
66848792 TAATTACTCGTGCAATTTAATTGGTGCATCACAATTATTGTTAATTTT-AAAAACCAGTCCA-TG
1 TAATTACTCATGCAATTTAATTCATGCACCACAATTACTGTTAATTTTAAAAAACGA-TCAATTG
* * *
66848855 CCTATTATCATTTTGTTGTAATTACCCATACAATTTAATTGATGCACCACAATTATTGTTATCAT
65 -CTATTATCATTTTATTGTAATTACCCATACAATTTAATTGATGCACCACAATTACTATTATCAT
66848920 TTTATTG
129 TTTATTG
*
66848927 TAATTACTCATGCAATTTAA-TCAATACACCACAATT
1 TAATTACTCATGCAATTTAATTC-ATGCACCACAATT
66848963 TAATCAAGAG
Statistics
Matches: 144, Mismatches: 24, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
134 10 0.07
135 134 0.93
ACGTcount: A:0.34, C:0.15, G:0.09, T:0.42
Consensus pattern (135 bp):
TAATTACTCATGCAATTTAATTCATGCACCACAATTACTGTTAATTTTAAAAAACGATCAATTGC
TATTATCATTTTATTGTAATTACCCATACAATTTAATTGATGCACCACAATTACTATTATCATTT
TATTG
Found at i:66848918 original size:54 final size:54
Alignment explanation
Indices: 66848859--66848962 Score: 154
Period size: 54 Copynumber: 1.9 Consensus size: 54
66848849 TCCATGCCTA
* ** *
66848859 TTATCATTTTGTTGTAATTACCCATACAATTTAATTGATGCACCACAATTATTG
1 TTATCATTTTATTGTAATTACCCATACAATTTAATCAATACACCACAATTATTG
* *
66848913 TTATCATTTTATTGTAATTACTCATGCAATTTAATCAATACACCACAATT
1 TTATCATTTTATTGTAATTACCCATACAATTTAATCAATACACCACAATT
66848963 TAATCAAGAG
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 44 1.00
ACGTcount: A:0.34, C:0.17, G:0.07, T:0.42
Consensus pattern (54 bp):
TTATCATTTTATTGTAATTACCCATACAATTTAATCAATACACCACAATTATTG
Found at i:66849408 original size:29 final size:30
Alignment explanation
Indices: 66849370--66849431 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 30
66849360 AAGCGCCGCT
*
66849370 AAAAATAGAGCAATAGCGGCG-TTTTAGTA
1 AAAAACAGAGCAATAGCGGCGCTTTTAGTA
* *
66849399 AAAAACAGAGCATTAGCGGCGCTTTTGGTA
1 AAAAACAGAGCAATAGCGGCGCTTTTAGTA
66849429 AAA
1 AAA
66849432 CACCGCTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 19 0.66
30 10 0.34
ACGTcount: A:0.40, C:0.13, G:0.24, T:0.23
Consensus pattern (30 bp):
AAAAACAGAGCAATAGCGGCGCTTTTAGTA
Found at i:66849409 original size:69 final size:71
Alignment explanation
Indices: 66849327--66849472 Score: 181
Period size: 69 Copynumber: 2.1 Consensus size: 71
66849317 CGCAAAAATT
* * *
66849327 GTAAAACACAGAGCAATAGCGGCG-TTTTACCAAAAGCGCCGCTAAAAA-TAGAGCAATAGCGGC
1 GTAAAAAACAGAGCAATAGCGGCGCTTTTACCAAAA-CACCGCTAAAAACCAGAGCAATAGCGGC
66849390 G-TTTTA
65 GCTTTTA
* *** *
66849396 GTAAAAAACAGAGCATTAGCGGCGCTTTTGGTAAAACACCGCTAAAAACCAGAGCATTAGCGGCG
1 GTAAAAAACAGAGCAATAGCGGCGCTTTTACCAAAACACCGCTAAAAACCAGAGCAATAGCGGCG
*
66849461 CTTTTG
66 CTTTTA
66849467 GTAAAA
1 GTAAAA
66849473 CGTCGCAAAA
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
69 33 0.51
70 22 0.34
71 10 0.15
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.20
Consensus pattern (71 bp):
GTAAAAAACAGAGCAATAGCGGCGCTTTTACCAAAACACCGCTAAAAACCAGAGCAATAGCGGCG
CTTTTA
Found at i:66849454 original size:41 final size:41
Alignment explanation
Indices: 66849397--66849607 Score: 323
Period size: 41 Copynumber: 5.1 Consensus size: 41
66849387 GGCGTTTTAG
* *
66849397 TAAAAAACAGAGCATTAGCGGCGCTTTTGGTAAAACACCGC
1 TAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
*
66849438 TAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGTCGC
1 TAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
* * *
66849479 AAAAAACCAGAGCATTGGCGGCGCTGTTGGTAAAACGCCGC
1 TAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
*
66849520 TAAAAACCAGAGCACTAGCGGCGCTTTTTGGTAAAACGCCGC
1 TAAAAACCAGAGCATTAGCGGCGC-TTTTGGTAAAACGCCGC
* * *
66849562 TAAAAACCAGATCATTAGCAGCGCTTTTGGTAAAACGCCGT
1 TAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
66849603 TAAAA
1 TAAAA
66849608 GTCATATAAC
Statistics
Matches: 154, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
41 117 0.76
42 37 0.24
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (41 bp):
TAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGC
Found at i:66849473 original size:69 final size:68
Alignment explanation
Indices: 66849327--66849472 Score: 168
Period size: 70 Copynumber: 2.1 Consensus size: 68
66849317 CGCAAAAATT
* *
66849327 GTAAAACACAGAGCAATAGCGGCGTTTTACCAAAAGCGCCGCTAAAAATAGAGCAATAGCGGCGT
1 GTAAAA-ACAGAGCAATAGCGGCGTTTTACCAAAAGCACCGCTAAAAACAGAGCAATAGCGGCGT
66849392 TTTA
65 TTTA
* *** *
66849396 GTAAAAAACAGAGCATTAGCGGCGCTTTTGGTAAAA-CACCGCTAAAAACCAGAGCATTAGCGGC
1 GT-AAAAACAGAGCAATAGCGGCG-TTTTACCAAAAGCACCGCTAAAAA-CAGAGCAATAGCGGC
*
66849460 GCTTTTG
63 G-TTTTA
66849467 GTAAAA
1 GTAAAA
66849473 CGTCGCAAAA
Statistics
Matches: 65, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
69 29 0.45
70 30 0.46
71 6 0.09
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.20
Consensus pattern (68 bp):
GTAAAAACAGAGCAATAGCGGCGTTTTACCAAAAGCACCGCTAAAAACAGAGCAATAGCGGCGTT
TTA
Found at i:66849539 original size:82 final size:83
Alignment explanation
Indices: 66849398--66849607 Score: 325
Period size: 83 Copynumber: 2.6 Consensus size: 83
66849388 GCGTTTTAGT
* *
66849398 AAAAAA-CAGAGCATTAGCGGCGCTTTTGGTAAAACACCGCTAAAAACCAGAGCATTAGCGGCGC
1 AAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAGAGCACTAGCGGCGC
*
66849462 -TTTTGGTAAAACGTCGC
66 TTTTTGGTAAAACGCCGC
* *
66849479 AAAAAACCAGAGCATTGGCGGCGCTGTTGGTAAAACGCCGCTAAAAACCAGAGCACTAGCGGCGC
1 AAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAGAGCACTAGCGGCGC
66849544 TTTTTGGTAAAACGCCGC
66 TTTTTGGTAAAACGCCGC
* * * *
66849562 TAAAAACCAGATCATTAGCAGCGCTTTTGGTAAAACGCCGTTAAAA
1 AAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAA
66849608 GTCATATAAC
Statistics
Matches: 116, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
81 6 0.05
82 54 0.47
83 56 0.48
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (83 bp):
AAAAAACCAGAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAAACCAGAGCACTAGCGGCGC
TTTTTGGTAAAACGCCGC
Found at i:66849787 original size:14 final size:14
Alignment explanation
Indices: 66849765--66849869 Score: 57
Period size: 14 Copynumber: 7.2 Consensus size: 14
66849755 TTAATTATCA
*
66849765 TTATAGTTTAAGGT
1 TTATGGTTTAAGGT
*
66849779 TTATGGTTTAAGAT
1 TTATGGTTTAAGGT
* * *
66849793 ATATGATTTAGGGT
1 TTATGGTTTAAGGT
* *
66849807 TTAAGGTTTAGGAGTT
1 TTATGGTTTA--AGGT
* *
66849823 AATTGTGGTTTAAGAT
1 --TTATGGTTTAAGGT
* * *
66849839 ATATGATTTAGGGT
1 TTATGGTTTAAGGT
*
66849853 TTAAGGTTTAAGGT
1 TTATGGTTTAAGGT
66849867 TTA
1 TTA
66849870 GGAGTTAACT
Statistics
Matches: 64, Mismatches: 23, Indels: 8
0.67 0.24 0.08
Matches are distributed among these distances:
14 51 0.80
16 5 0.08
18 8 0.12
ACGTcount: A:0.29, C:0.00, G:0.26, T:0.46
Consensus pattern (14 bp):
TTATGGTTTAAGGT
Found at i:66849807 original size:21 final size:21
Alignment explanation
Indices: 66849778--66849857 Score: 79
Period size: 21 Copynumber: 3.6 Consensus size: 21
66849768 TAGTTTAAGG
*
66849778 TTTATGGTTTAAGATATATGA
1 TTTAGGGTTTAAGATATATGA
* * *
66849799 TTTAGGGTTTAAGGTTTAGGA
1 TTTAGGGTTTAAGATATATGA
*
66849820 GTTAATTGTGGTTTAAGATATATGA
1 -TT--TAG-GGTTTAAGATATATGA
66849845 TTTAGGGTTTAAG
1 TTTAGGGTTTAAG
66849858 GTTTAAGGTT
Statistics
Matches: 46, Mismatches: 9, Indels: 8
0.73 0.14 0.13
Matches are distributed among these distances:
21 25 0.54
22 4 0.09
24 4 0.09
25 13 0.28
ACGTcount: A:0.29, C:0.00, G:0.26, T:0.45
Consensus pattern (21 bp):
TTTAGGGTTTAAGATATATGA
Found at i:66849979 original size:14 final size:14
Alignment explanation
Indices: 66849950--66849997 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
66849940 CAGTGTTAGA
*
66849950 GTTTAAGGTGTAAGG
1 GTTTAGGGT-TAAGG
*
66849965 GTTTGGGGTTAAGG
1 GTTTAGGGTTAAGG
* *
66849979 GTTAAGGGTTCAGG
1 GTTTAGGGTTAAGG
66849993 GTTTA
1 GTTTA
66849998 TGGGACAGGG
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
14 20 0.74
15 7 0.26
ACGTcount: A:0.21, C:0.02, G:0.42, T:0.35
Consensus pattern (14 bp):
GTTTAGGGTTAAGG
Found at i:66849994 original size:21 final size:21
Alignment explanation
Indices: 66849952--66849995 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
66849942 GTGTTAGAGT
**
66849952 TTAAGGTGTAAGGGTTTGGGG
1 TTAAGGTGTAAGGGTTCAGGG
66849973 TTAAGG-GTTAAGGGTTCAGGG
1 TTAAGGTG-TAAGGGTTCAGGG
66849994 TT
1 TT
66849996 TATGGGACAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 19 0.95
ACGTcount: A:0.20, C:0.02, G:0.43, T:0.34
Consensus pattern (21 bp):
TTAAGGTGTAAGGGTTCAGGG
Found at i:66851022 original size:83 final size:85
Alignment explanation
Indices: 66850898--66851058 Score: 222
Period size: 83 Copynumber: 1.9 Consensus size: 85
66850888 TTAAGTAAAA
* * * *
66850898 TTTAATTGGAGATTTAAGGGATTAGCGGCGTTTTTTCAAAAAACGCCGCAAAAAACAAA-AT-A-
1 TTTAATTAGAGATTTAAGGGATTAACGGCGTCTTTTAAAAAAACGCCGCAAAAAA-AAACATAAT
66850960 GTTTAACTTAAACGGTATAGT
65 GTTTAACTTAAACGGTATAGT
*
66850981 TTTAATTAGAGATTT-AGGAGATTAACGGGGTCTTTTAAAAAAACGCCGCAAAAAAAAACATAAT
1 TTTAATTAGAGATTTAAGG-GATTAACGGCGTCTTTTAAAAAAACGCCGCAAAAAAAAACATAA-
66851045 TGTTTAACTTAAAC
64 TGTTTAACTTAAAC
66851059 TTCCTTTCTG
Statistics
Matches: 68, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
82 6 0.09
83 48 0.71
84 1 0.01
86 13 0.19
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (85 bp):
TTTAATTAGAGATTTAAGGGATTAACGGCGTCTTTTAAAAAAACGCCGCAAAAAAAAACATAATG
TTTAACTTAAACGGTATAGT
Found at i:66851508 original size:6 final size:6
Alignment explanation
Indices: 66851497--66851524 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
66851487 TACTTCGTTT
66851497 CCACTC CCACTC CCACTC CCACTC CCAC
1 CCACTC CCACTC CCACTC CCACTC CCAC
66851525 ATACTCATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.68, G:0.00, T:0.14
Consensus pattern (6 bp):
CCACTC
Found at i:66855728 original size:19 final size:19
Alignment explanation
Indices: 66855706--66855746 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
66855696 TTTATTGATA
66855706 TTTTTA-TATTTAATCTAG
1 TTTTTATTATTTAATCTAG
* *
66855724 TTTTTATTATTTATTTTAG
1 TTTTTATTATTTAATCTAG
66855743 TTTT
1 TTTT
66855747 AACTCTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.22, C:0.02, G:0.05, T:0.71
Consensus pattern (19 bp):
TTTTTATTATTTAATCTAG
Found at i:66856057 original size:43 final size:43
Alignment explanation
Indices: 66855996--66856145 Score: 210
Period size: 43 Copynumber: 3.5 Consensus size: 43
66855986 TTTTTGAATT
* * * *
66855996 TCATGACCTTTAGTGGCGTTTTTGGGAAAAGTGCCGCTAAAGG
1 TCATGACCTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGG
* *
66856039 TCATGGCCTTTAGCGGCGTTCGTGAGAAAAGCGCCGCTAAAGG
1 TCATGACCTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGG
* *
66856082 TCATGGCCTTTAGCGGCGTTTGTGCGAAAAGCGCCGCTAAAGG
1 TCATGACCTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGG
* *
66856125 TCATGATCTTTAGCGGTGTTT
1 TCATGACCTTTAGCGGCGTTT
66856146 TTTTCAAATA
Statistics
Matches: 96, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 96 1.00
ACGTcount: A:0.21, C:0.20, G:0.31, T:0.28
Consensus pattern (43 bp):
TCATGACCTTTAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGG
Found at i:66858616 original size:911 final size:911
Alignment explanation
Indices: 66856856--66858679 Score: 3630
Period size: 911 Copynumber: 2.0 Consensus size: 911
66856846 AAAACTTAGC
66856856 TATGTTTGAAGCAATGTTAAACCGGTGTCAAAACATTCAGAAATAAAATCCACAGTTTTTAAAGT
1 TATGTTTGAAGCAATGTTAAACCGGTGTCAAAACATTCAGAAATAAAATCCACAGTTTTTAAAGT
66856921 TCAATCCAAATAACACTTTACAAAAGTCCAACATAAAAATTTGTACCACAGTTTATATAATTGTT
66 TCAATCCAAATAACACTTTACAAAAGTCCAACATAAAAATTTGTACCACAGTTTATATAATTGTT
66856986 TTACAACCGACTTAAAACCAACTGTATAAAAACTTATGAATTTTAAATAATCGAAATCAAACCAA
131 TTACAACCGACTTAAAACCAACTGTATAAAAACTTATGAATTTTAAATAATCGAAATCAAACCAA
66857051 ACTTTATAAGACCTCTGATGTGCCTAGTCCGTAGCTTAGTCTCTCGAAATACCTGAAAGAAAGAA
196 ACTTTATAAGACCTCTGATGTGCCTAGTCCGTAGCTTAGTCTCTCGAAATACCTGAAAGAAAGAA
66857116 ACACTAAAGGGGTGAGCTACGCGAGCTCAGTGTGAGTCCGAAATCAAAACAAAAGGTAAATAATG
261 ACACTAAAGGGGTGAGCTACGCGAGCTCAGTGTGAGTCCGAAATCAAAACAAAAGGTAAATAATG
66857181 AAGTAGAGAAGCGAGAAACTTTGATATGTGCACACAGACAGAGTAAAAAGAACTTATATCAAATA
326 AAGTAGAGAAGCGAGAAACTTTGATATGTGCACACAGACAGAGTAAAAAGAACTTATATCAAATA
66857246 GTCACTCATACGAATGATCCGGTAAAAAATGAAATCTAGAGTTATTATTCCAATCACACCAGTGC
391 GTCACTCATACGAATGATCCGGTAAAAAATGAAATCTAGAGTTATTATTCCAATCACACCAGTGC
66857311 AAAAACACGTTGAACTATTCAAATTATTGTAATTATTTCCACAATCATACTGTCAGGCTTATAAC
456 AAAAACACGTTGAACTATTCAAATTATTGTAATTATTTCCACAATCATACTGTCAGGCTTATAAC
66857376 TGAATGTGAAATGAATACAATAGATTAAAATCCTGCCCAACCAACTAAACACCACTTCGACCACC
521 TGAATGTGAAATGAATACAATAGATTAAAATCCTGCCCAACCAACTAAACACCACTTCGACCACC
66857441 CTACACACCACATATGAGCTATATCAAGCCTATCTAGCCTGCACACCACATAGGACCATGTTAGG
586 CTACACACCACATATGAGCTATATCAAGCCTATCTAGCCTGCACACCACATAGGACCATGTTAGG
66857506 TCTATCCACCCTACACACTACGTATGGTGGAATTAAGCCACCAGTAATAATATGCAGCTAACTTG
651 TCTATCCACCCTACACACTACGTATGGTGGAATTAAGCCACCAGTAATAATATGCAGCTAACTTG
66857571 ACATATGTATCTTGCAGACATACCACTATCAGATTATTGTGCAATTTAACTGCTTAGAATAGTCT
716 ACATATGTATCTTGCAGACATACCACTATCAGATTATTGTGCAATTTAACTGCTTAGAATAGTCT
66857636 TCCTTCCCTTCACAACCAAAATCCCAAATTTTGATGCAAATGCTAGAGTGCATTCAATATGCTAA
781 TCCTTCCCTTCACAACCAAAATCCCAAATTTTGATGCAAATGCTAGAGTGCATTCAATATGCTAA
66857701 TAGACTCACAGAATAGACTACATAATTAGTAGGCCAATTTCAGAGTCAATATCACTTGTATGCAA
846 TAGACTCACAGAATAGACTACATAATTAGTAGGCCAATTTCAGAGTCAATATCACTTGTATGCAA
66857766 T
911 T
66857767 TATGTTTGAAGCAATGTTAAACCGGTGTCAAAACATTCAGAAATAAAATCCACAGTTTTTAAAGT
1 TATGTTTGAAGCAATGTTAAACCGGTGTCAAAACATTCAGAAATAAAATCCACAGTTTTTAAAGT
66857832 TCAATCCAAATAACACTTTACAAAAGTCCAACATAAAAATTTGTACCACAGTTTATATAATTGTT
66 TCAATCCAAATAACACTTTACAAAAGTCCAACATAAAAATTTGTACCACAGTTTATATAATTGTT
66857897 TTACAACCGACTTAAAACCAACTGTATAAAAACTTATGAATTTTAAATAATCGAAATCAAACCAA
131 TTACAACCGACTTAAAACCAACTGTATAAAAACTTATGAATTTTAAATAATCGAAATCAAACCAA
*
66857962 ACTTTATAAGACCTCTGATGTGCCTAGTCCGTAGCTTAGTCTCTTGAAATACCTGAAAGAAAGAA
196 ACTTTATAAGACCTCTGATGTGCCTAGTCCGTAGCTTAGTCTCTCGAAATACCTGAAAGAAAGAA
66858027 ACACTAAAGGGGTGAGCTACGCGAGCTCAGTGTGAGTCCGAAATCAAAACAAAAGGTAAATAATG
261 ACACTAAAGGGGTGAGCTACGCGAGCTCAGTGTGAGTCCGAAATCAAAACAAAAGGTAAATAATG
*
66858092 AAGTAGAGAAGTGAGAAACTTTGATATGTGCACACAGACAGAGTAAAAAGAACTTATATCAAATA
326 AAGTAGAGAAGCGAGAAACTTTGATATGTGCACACAGACAGAGTAAAAAGAACTTATATCAAATA
66858157 GTCACTCATACGAATGATCCGGTAAAAAATGAAATCTAGAGTTATTATTCCAATCACACCAGTGC
391 GTCACTCATACGAATGATCCGGTAAAAAATGAAATCTAGAGTTATTATTCCAATCACACCAGTGC
66858222 AAAAACACGTTGAACTATTCAAATTATTGTAATTATTTCCACAATCATACTGTCAGGCTTATAAC
456 AAAAACACGTTGAACTATTCAAATTATTGTAATTATTTCCACAATCATACTGTCAGGCTTATAAC
66858287 TGAATGTGAAATGAATACAATAGATTAAAATCCTGCCCAACCAACTAAACACCACTTCGACCACC
521 TGAATGTGAAATGAATACAATAGATTAAAATCCTGCCCAACCAACTAAACACCACTTCGACCACC
66858352 CTACACACCACATATGAGCTATATCAAGCCTATCTAGCCTGCACACCACATAGGACCATGTTAGG
586 CTACACACCACATATGAGCTATATCAAGCCTATCTAGCCTGCACACCACATAGGACCATGTTAGG
66858417 TCTATCCACCCTACACACTACGTATGGTGGAATTAAGCCACCAGTAATAATATGCAGCTAACTTG
651 TCTATCCACCCTACACACTACGTATGGTGGAATTAAGCCACCAGTAATAATATGCAGCTAACTTG
66858482 ACATATGTATCTTGCAGACATACCACTATCAGATTATTGTGCAATTTAACTGCTTAGAATAGTCT
716 ACATATGTATCTTGCAGACATACCACTATCAGATTATTGTGCAATTTAACTGCTTAGAATAGTCT
66858547 TCCTTCCCTTCACAACCAAAATCCCAAATTTTGATGCAAATGCTAGAGTGCATTCAATATGCTAA
781 TCCTTCCCTTCACAACCAAAATCCCAAATTTTGATGCAAATGCTAGAGTGCATTCAATATGCTAA
66858612 TAGACTCACAGAATAGACTACATAATTAGTAGGCCAATTTCAGAGTCAATATCACTTGTATGCAA
846 TAGACTCACAGAATAGACTACATAATTAGTAGGCCAATTTCAGAGTCAATATCACTTGTATGCAA
66858677 T
911 T
66858678 TA
1 TA
66858680 ATAAATAATG
Statistics
Matches: 911, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
911 911 1.00
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.27
Consensus pattern (911 bp):
TATGTTTGAAGCAATGTTAAACCGGTGTCAAAACATTCAGAAATAAAATCCACAGTTTTTAAAGT
TCAATCCAAATAACACTTTACAAAAGTCCAACATAAAAATTTGTACCACAGTTTATATAATTGTT
TTACAACCGACTTAAAACCAACTGTATAAAAACTTATGAATTTTAAATAATCGAAATCAAACCAA
ACTTTATAAGACCTCTGATGTGCCTAGTCCGTAGCTTAGTCTCTCGAAATACCTGAAAGAAAGAA
ACACTAAAGGGGTGAGCTACGCGAGCTCAGTGTGAGTCCGAAATCAAAACAAAAGGTAAATAATG
AAGTAGAGAAGCGAGAAACTTTGATATGTGCACACAGACAGAGTAAAAAGAACTTATATCAAATA
GTCACTCATACGAATGATCCGGTAAAAAATGAAATCTAGAGTTATTATTCCAATCACACCAGTGC
AAAAACACGTTGAACTATTCAAATTATTGTAATTATTTCCACAATCATACTGTCAGGCTTATAAC
TGAATGTGAAATGAATACAATAGATTAAAATCCTGCCCAACCAACTAAACACCACTTCGACCACC
CTACACACCACATATGAGCTATATCAAGCCTATCTAGCCTGCACACCACATAGGACCATGTTAGG
TCTATCCACCCTACACACTACGTATGGTGGAATTAAGCCACCAGTAATAATATGCAGCTAACTTG
ACATATGTATCTTGCAGACATACCACTATCAGATTATTGTGCAATTTAACTGCTTAGAATAGTCT
TCCTTCCCTTCACAACCAAAATCCCAAATTTTGATGCAAATGCTAGAGTGCATTCAATATGCTAA
TAGACTCACAGAATAGACTACATAATTAGTAGGCCAATTTCAGAGTCAATATCACTTGTATGCAA
T
Found at i:66859116 original size:21 final size:21
Alignment explanation
Indices: 66859061--66859117 Score: 53
Period size: 21 Copynumber: 2.7 Consensus size: 21
66859051 ATGGAAACCT
*
66859061 CACATGCCCATGTGCGTAAGG
1 CACATGCCCATGTGCGTAAGA
* * * *
66859082 GACACGACCGTGTGC-TCAAGA
1 CACATGCCCATGTGCGT-AAGA
66859103 CACATGCCCATGTGC
1 CACATGCCCATGTGC
66859118 AAATCGAAAA
Statistics
Matches: 26, Mismatches: 9, Indels: 2
0.70 0.24 0.05
Matches are distributed among these distances:
20 1 0.04
21 25 0.96
ACGTcount: A:0.25, C:0.32, G:0.26, T:0.18
Consensus pattern (21 bp):
CACATGCCCATGTGCGTAAGA
Found at i:66862511 original size:28 final size:28
Alignment explanation
Indices: 66862468--66862524 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
66862458 CACACGGTTG
* *
66862468 AGCCATAGTAGGAGCAACTGGTACCCCA
1 AGCCACAGTAGAAGCAACTGGTACCCCA
66862496 AGCCACAGTAGAAGCAACTGGTACCCCA
1 AGCCACAGTAGAAGCAACTGGTACCCCA
66862524 A
1 A
66862525 CTCTCGAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.35, C:0.30, G:0.23, T:0.12
Consensus pattern (28 bp):
AGCCACAGTAGAAGCAACTGGTACCCCA
Found at i:66867454 original size:24 final size:21
Alignment explanation
Indices: 66867405--66867455 Score: 57
Period size: 24 Copynumber: 2.3 Consensus size: 21
66867395 AAAAAATATT
66867405 TCATGCTTAATTAATTAAAAA
1 TCATGCTTAATTAATTAAAAA
* *
66867426 CCATGTCTTAAATTAAGTTAAATA
1 TCATG-CTT-AATTAA-TTAAAAA
66867450 TCATGC
1 TCATGC
66867456 ATGCTAAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
21 4 0.17
22 3 0.12
23 7 0.29
24 10 0.42
ACGTcount: A:0.41, C:0.14, G:0.08, T:0.37
Consensus pattern (21 bp):
TCATGCTTAATTAATTAAAAA
Found at i:66869167 original size:43 final size:43
Alignment explanation
Indices: 66869104--66869319 Score: 267
Period size: 43 Copynumber: 5.0 Consensus size: 43
66869094 TATATGTGAT
66869104 ATCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGC
1 ATCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGC
* * *
66869147 ATCGATGTTTGATTATGTGTAAGACC-CGTCTGGGACGTTGGC
1 ATCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGC
* *
66869189 ATCGATACGTGATTACGTGTAAGACCACGTCTGGGACATTGGC
1 ATCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGC
* * * * *
66869232 ATCAATATGTGTTTGCGAGTAAGACC-CTGTCTGGGATAG-TGGC
1 ATCGATATGTGATTACGTGTAAGACCAC-GTCTGGGA-CGTTGGC
* ** *
66869275 ATCGATATGAGGCTACATGTAAGACCACGTCTGGGACGTTGGC
1 ATCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGC
66869318 AT
1 AT
66869320 TGTACGATAT
Statistics
Matches: 145, Mismatches: 23, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
42 40 0.28
43 104 0.72
44 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.28
Consensus pattern (43 bp):
ATCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGC
Found at i:66869254 original size:85 final size:86
Alignment explanation
Indices: 66869104--66869319 Score: 283
Period size: 85 Copynumber: 2.5 Consensus size: 86
66869094 TATATGTGAT
* * * * *
66869104 ATCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCGATGTTTGATTATGTGTAA
1 ATCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCAATATGTGATTACGAGTAA
*
66869169 GACCC-GTCTGGGA-CGTTGGC
66 GACCCTGTCTGGGATAG-TGGC
* * * *
66869189 ATCGATACGTGATTACGTGTAAGACCACGTCTGGGACATTGGCATCAATATGTGTTTGCGAGTAA
1 ATCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCAATATGTGATTACGAGTAA
66869254 GACCCTGTCTGGGATAGTGGC
66 GACCCTGTCTGGGATAGTGGC
* ** *
66869275 ATCGATATGAGGCTACATGTAAGACCACGTCTGGGACGTTGGCAT
1 ATCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
66869320 TGTACGATAT
Statistics
Matches: 113, Mismatches: 16, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
85 61 0.54
86 51 0.45
87 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.28
Consensus pattern (86 bp):
ATCGATATGTGATTACGTGTAAGACCACGTCTGGGACGTTGGCATCAATATGTGATTACGAGTAA
GACCCTGTCTGGGATAGTGGC
Found at i:66870609 original size:26 final size:26
Alignment explanation
Indices: 66870580--66870687 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
66870570 TGGTACAAAT
66870580 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
66870606 TGATAATGGATTAGGTAAATATTACA
1 TGATAATGGGTTAGGTAAATGTTCCA
66870632 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
66870658 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
66870684 TGAT
1 TGAT
66870688 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:66872325 original size:27 final size:27
Alignment explanation
Indices: 66872285--66872397 Score: 120
Period size: 27 Copynumber: 4.2 Consensus size: 27
66872275 AGGAAGCGTC
*
66872285 CTGGTGGCTATGCCACAAATATCTGAT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* *
66872312 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
* *
66872339 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAAATATCTG-AT
* * * * *
66872367 CTAGTGACTCTGTCAC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAAATATCTGAT
66872393 CTGGT
1 CTGGT
66872398 AGCCATGCTG
Statistics
Matches: 73, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
26 5 0.07
27 54 0.74
28 14 0.19
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAAATATCTGAT
Found at i:66872389 original size:54 final size:54
Alignment explanation
Indices: 66872285--66872397 Score: 156
Period size: 54 Copynumber: 2.1 Consensus size: 54
66872275 AGGAAGCGTC
* *
66872285 CTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTATGCCACAAATATCTGATCTAGTGACTCTGCCACATATATCTGTT
* * * *
66872339 CTGGTGGCTCTGCCACGATTATCTGTATCTAGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACAAATATCTG-ATCTAGTGACTCTGCCACATATATCTGTT
66872393 CTGGT
1 CTGGT
66872398 AGCCATGCTG
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
54 35 0.67
55 17 0.33
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAAATATCTGATCTAGTGACTCTGCCACATATATCTGTT
Found at i:66875069 original size:86 final size:87
Alignment explanation
Indices: 66874935--66875109 Score: 217
Period size: 86 Copynumber: 2.0 Consensus size: 87
66874925 TCTTTTTAGC
* * * ** *
66874935 TACTACCACTTGTTGTAAGTGTAGAAAATATTTACAGATTAAATAAACTGTCACTTGGTTCATAA
1 TACTACCACTTGTTGTAAGTGCAGAAAATATTTACAAATTAAACAAACTACCACTTGGTTAATAA
*
66875000 TCTAACCACATTGTTTGCA-AT
66 TCGAACCACATTGTTTGCAGAT
* * * ** *
66875021 TACTGCCACTTGTTGTGAGTGCATAAAATATTTGTAAATTAGACAAACTACCACTTGGTTAATAA
1 TACTACCACTTGTTGTAAGTGCAGAAAATATTTACAAATTAAACAAACTACCACTTGGTTAATAA
*
66875086 TCGAATCACATTGTTTGCAGAT
66 TCGAACCACATTGTTTGCAGAT
66875108 TA
1 TA
66875110 AACTGCCATT
Statistics
Matches: 74, Mismatches: 14, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
86 70 0.95
87 4 0.05
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.35
Consensus pattern (87 bp):
TACTACCACTTGTTGTAAGTGCAGAAAATATTTACAAATTAAACAAACTACCACTTGGTTAATAA
TCGAACCACATTGTTTGCAGAT
Found at i:66878987 original size:26 final size:26
Alignment explanation
Indices: 66878951--66879060 Score: 166
Period size: 26 Copynumber: 4.2 Consensus size: 26
66878941 CATGAAATTC
66878951 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
66878977 TTATCATGAAACATTTACCTAATCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
66879003 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
* * *
66879029 TTATCATGGAATATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
66879055 TTATCA
1 TTATCA
66879061 ATTTGTATCA
Statistics
Matches: 79, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 79 1.00
ACGTcount: A:0.36, C:0.23, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:66884805 original size:26 final size:26
Alignment explanation
Indices: 66884767--66884850 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
66884757 AATGAAATCC
* *
66884767 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
66884793 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
66884819 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
66884845 TTATCA
1 TTATCA
66884851 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.35
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:66887797 original size:43 final size:43
Alignment explanation
Indices: 66887734--66887827 Score: 124
Period size: 43 Copynumber: 2.2 Consensus size: 43
66887724 ACTATTTAGG
66887734 GAGATAAGACCTTCAATCTTCAA-TCTGCT-TCCTTGCTACCTCA
1 GAGATAAGACCTTCAATCTTCAACT-TGCTCT-CTTGCTACCTCA
66887777 GGAAGATAAGA-C-TCAATCTTCAACTTGCTCTCTTGCTACCTCA
1 -G-AGATAAGACCTTCAATCTTCAACTTGCTCTCTTGCTACCTCA
66887820 GAGATAAG
1 GAGATAAG
66887828 GCTTGGGGCT
Statistics
Matches: 47, Mismatches: 0, Indels: 9
0.84 0.00 0.16
Matches are distributed among these distances:
41 7 0.15
42 1 0.02
43 27 0.57
44 4 0.09
45 8 0.17
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.30
Consensus pattern (43 bp):
GAGATAAGACCTTCAATCTTCAACTTGCTCTCTTGCTACCTCA
Found at i:66887980 original size:43 final size:45
Alignment explanation
Indices: 66887909--66888004 Score: 110
Period size: 43 Copynumber: 2.2 Consensus size: 45
66887899 ATTGTTTAGG
* **
66887909 GAGATAAGATCTTCAATTTTCAGTCTGCT-TCCTTACTACCTCAG-
1 GAGATAAGATCTTCAATCTTCAACCTGCTCT-CTTACTACCTCAGA
*
66887953 GAAGATAAGA-C-TCAATCTTCAACCTGCTCTCTTGCTACCTCAGA
1 G-AGATAAGATCTTCAATCTTCAACCTGCTCTCTTACTACCTCAGA
66887997 GAGATAAG
1 GAGATAAG
66888005 GCTTAGGGCT
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
43 33 0.73
44 4 0.09
45 8 0.18
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (45 bp):
GAGATAAGATCTTCAATCTTCAACCTGCTCTCTTACTACCTCAGA
Found at i:66888094 original size:176 final size:177
Alignment explanation
Indices: 66887660--66888413 Score: 1117
Period size: 176 Copynumber: 4.3 Consensus size: 177
66887650 CAGGGCTAGT
* * * *
66887660 GGCTTAAATCTGCTCCATTGCCAATACATGGAGATAAGATTCGCCATCCTCGATCTGTTCCACTA
1 GGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTCGATCTGCTCCGCTA
* *
66887725 CTATTTAGGGAGATAAGACCTTCAATC-TTCAATCTGCTTCCTTGCTACCTCAGGAAGATAAGAC
66 CTATTTAGGGAGATAAGATCTTCAATCTTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGAC
*
66887789 TCAATCTTCAACTTGCTCTCTTGCTACCTC--AGAGATAAGGCTTGG
131 TCAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTGG
* * *
66887834 GGCTTTAAATCTACTCCATTGCCGATACATGGAGATAAGATTCACCATCTTCGATCTACTCCGCT
1 GGC-TTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTCGATCTGCTCCGCT
* * *
66887899 ATTGTTTAGGGAGATAAGATCTTCAAT-TTTCAGTCTGCTTCCTTACTACCTCAGGAAGATAAGA
65 ACTATTTAGGGAGATAAGATCTTCAATCTTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGA
*
66887963 CTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTAG
130 CTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTGG
66888011 GGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTCGATCTGCTCCGCTA
1 GGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTCGATCTGCTCCGCTA
* * *
66888076 CTATTTAGGGATATAAGATCTTCAATCTTT-AGTCCGCTTCCTTGCTACCTCAAGAAGATAAGAC
66 CTATTTAGGGAGATAAGATCTTCAATCTTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGAC
* *
66888140 TCTATTTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTGG
131 TCAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTGG
* * ** * *
66888187 GGCTTAAATCTACTCCATTGTCGATACATGGAGATAAGATTTTCCATCTTCGATCTGCTCTGCTG
1 GGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTCGATCTGCTCCGCTA
* * * * * *
66888252 CAACTTCAGGGAGATAAGATCTTCCATCTTCCA-TCTGCTTTCTTGCTACCTCAGAAAGATAAGA
66 CTA-TTTAGGGAGATAAGATCTTCAATCTTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGA
* *
66888316 CTCATTCTTCAACCTGCTCTCTTGCTACCTTAGAGAGATAAGGC-TGG
130 CTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTGG
* *
66888363 TGGCTTAAATCTGCTCCATTGCCAATATATGGAGATAAGATTCGCCATCTT
1 -GGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTT
66888414 TAATCTCCAT
Statistics
Matches: 521, Mismatches: 51, Indels: 13
0.89 0.09 0.02
Matches are distributed among these distances:
174 3 0.01
175 142 0.27
176 221 0.42
177 154 0.30
178 1 0.00
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.32
Consensus pattern (177 bp):
GGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTCGATCTGCTCCGCTA
CTATTTAGGGAGATAAGATCTTCAATCTTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGAC
TCAATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTGG
Found at i:66888312 original size:45 final size:45
Alignment explanation
Indices: 66888217--66888357 Score: 137
Period size: 45 Copynumber: 3.2 Consensus size: 45
66888207 TCGATACATG
* * * * * *
66888217 GAGATAAGATTTTCCATCTTCGATCTGCTCTGC-TGCAACTTCAGG
1 GAGATAAGATCTTCCATCTTCAATCTGCT-TTCTTGCTACCTCAGA
*
66888262 GAGATAAGATCTTCCATCTTCCATCTGCTTTCTTGCTACCTCAGA
1 GAGATAAGATCTTCCATCTTCAATCTGCTTTCTTGCTACCTCAGA
* * * *
66888307 AAGATAAGA-C-T-CATTCTTCAACCTGCTCTCTTGCTACCTTAGA
1 GAGATAAGATCTTCCA-TCTTCAATCTGCTTTCTTGCTACCTCAGA
66888350 GAGATAAG
1 GAGATAAG
66888358 GCTGGTGGCT
Statistics
Matches: 82, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
42 2 0.02
43 33 0.40
44 3 0.04
45 44 0.54
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.33
Consensus pattern (45 bp):
GAGATAAGATCTTCCATCTTCAATCTGCTTTCTTGCTACCTCAGA
Found at i:66888383 original size:353 final size:351
Alignment explanation
Indices: 66887653--66888413 Score: 1170
Period size: 353 Copynumber: 2.2 Consensus size: 351
66887643 AGGGAAACAG
* *
66887653 GGCTAGTGGCTTAAATCTGCTCCATTGCCAATACATGGAGATAAGATTCGCCATCCTCGATCTGT
1 GGCTAGTGGCTTAAATCTGCTCCATTGCCAATACATGGAGATAAGATTCGCCATCTTCGATCTGC
* *
66887718 TCCACTACTATTTAGGGAGATAAGACCTTCAATCTTCAATCTGCTTCCTTGCTACCTCAGGAAGA
66 TCCACTACTATTTAGGGAGATAAGACCTTCAATCTTCAATCCGCTTCCTTGCTACCTCAAGAAGA
*
66887783 TAAGACTCAATCTTCAACTTGCTCTCTTGCTACCTCAGAGATAAGGCTTGGGGCTTTAAATCTAC
131 TAAGACTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAGATAAGGCTTGGGGCTTTAAATCTAC
** *
66887848 TCCATTGCCGATACATGGAGATAAGATTCACCATCTTCGATCTACTCCGCTATTGTTTAGGGAGA
196 TCCATTGCCGATACATGGAGATAAGATTCACCATCTTCGATCTACTCCGCTATACTTCAGGGAGA
* *
66887913 TAAGATCTTCAATTTTCAGTCTGCTTCCTTACTACCTCAGGAAGATAAGACTCAATCTTCAACCT
261 TAAGATCTTCAATTTCCAGTCTGCTTCCTTACTACCTCAGAAAGATAAGACTCAATCTTCAACCT
66887978 GCTCTCTTGCTACCTCAGAGAGATAA
326 GCTCTCTTGCTACCTCAGAGAGATAA
*
66888004 GGCTTAG-GGCTTAAATCTGCTCCATTGCCGATACATGGAGATAAGATTCGCCATCTTCGATCTG
1 GGC-TAGTGGCTTAAATCTGCTCCATTGCCAATACATGGAGATAAGATTCGCCATCTTCGATCTG
* * * * *
66888068 CTCCGCTACTATTTAGGGATATAAGATCTTCAATCTTTAGTCCGCTTCCTTGCTACCTCAAGAAG
65 CTCCACTACTATTTAGGGAGATAAGACCTTCAATCTTCAATCCGCTTCCTTGCTACCTCAAGAAG
* *
66888133 ATAAGACTCTATTTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTGGGGC-TTAAATC
130 ATAAGACTCAATCTTCAACCTGCTCTCTTGCTACCTC--AGAGATAAGGCTTGGGGCTTTAAATC
* ** * *
66888197 TACTCCATTGTCGATACATGGAGATAAGATTTTCCATCTTCGATCTGCTCTGCTGCA-ACTTCAG
193 TACTCCATTGCCGATACATGGAGATAAGATTCACCATCTTCGATCTACTCCGCT--ATACTTCAG
* * * *
66888261 GGAGATAAGATCTTCCATCTTCCA-TCTGCTTTCTTGCTACCTCAGAAAGATAAGACTCATTCTT
256 GGAGATAAGATCTTCAAT-TTCCAGTCTGCTTCCTTACTACCTCAGAAAGATAAGACTCAATCTT
*
66888325 CAACCTGCTCTCTTGCTACCTTAGAGAGATAA
320 CAACCTGCTCTCTTGCTACCTCAGAGAGATAA
* *
66888357 GGCTGGTGGCTTAAATCTGCTCCATTGCCAATATATGGAGATAAGATTCGCCATCTT
1 GGCTAGTGGCTTAAATCTGCTCCATTGCCAATACATGGAGATAAGATTCGCCATCTT
66888414 TAATCTCCAT
Statistics
Matches: 372, Mismatches: 31, Indels: 12
0.90 0.07 0.03
Matches are distributed among these distances:
351 149 0.40
352 61 0.16
353 157 0.42
354 5 0.01
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.32
Consensus pattern (351 bp):
GGCTAGTGGCTTAAATCTGCTCCATTGCCAATACATGGAGATAAGATTCGCCATCTTCGATCTGC
TCCACTACTATTTAGGGAGATAAGACCTTCAATCTTCAATCCGCTTCCTTGCTACCTCAAGAAGA
TAAGACTCAATCTTCAACCTGCTCTCTTGCTACCTCAGAGATAAGGCTTGGGGCTTTAAATCTAC
TCCATTGCCGATACATGGAGATAAGATTCACCATCTTCGATCTACTCCGCTATACTTCAGGGAGA
TAAGATCTTCAATTTCCAGTCTGCTTCCTTACTACCTCAGAAAGATAAGACTCAATCTTCAACCT
GCTCTCTTGCTACCTCAGAGAGATAA
Found at i:66889526 original size:20 final size:21
Alignment explanation
Indices: 66889503--66889543 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
66889493 CCTTGGTCTC
66889503 TCCTTTTT-CCTTTTTTATTT
1 TCCTTTTTACCTTTTTTATTT
66889523 TCCTTTTTACCCTTTTTTATT
1 TCCTTTTTA-CCTTTTTTATT
66889544 GAGTCTCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.42
22 11 0.58
ACGTcount: A:0.07, C:0.22, G:0.00, T:0.71
Consensus pattern (21 bp):
TCCTTTTTACCTTTTTTATTT
Found at i:66909806 original size:20 final size:21
Alignment explanation
Indices: 66909763--66909806 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
66909753 TATATTTGTT
**
66909763 TTAAATAATAAATAAATATTA
1 TTAAATAATAAATAAATAAAA
*
66909784 TTAAA-AATAAATAGATAAAA
1 TTAAATAATAAATAAATAAAA
66909804 TTA
1 TTA
66909807 TTTTCTTGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (21 bp):
TTAAATAATAAATAAATAAAA
Found at i:66909806 original size:23 final size:23
Alignment explanation
Indices: 66909765--66909808 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
66909755 TATTTGTTTT
66909765 AAATAATAAATAAATATTATTAA
1 AAATAATAAATAAATATTATTAA
*
66909788 AAATAAATAGATAAA-ATTATT
1 AAAT-AATAAATAAATATTATT
66909809 TTCTTGTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (23 bp):
AAATAATAAATAAATATTATTAA
Found at i:66911090 original size:37 final size:39
Alignment explanation
Indices: 66911017--66911090 Score: 91
Period size: 37 Copynumber: 1.9 Consensus size: 39
66911007 TAATTAATAT
*
66911017 ATAATTTGTAATAGAAAGTAAGAACTGAAATAATTTATC
1 ATAATTTGTAATAGAAAGTAAGAACTGAAAAAATTTATC
* *
66911056 ATAATTT-T-ATAGAAATTAAG-ATTGAAAAATATTTA
1 ATAATTTGTAATAGAAAGTAAGAACTGAAAAA-ATTTA
66911091 AGGAACTAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
36 7 0.23
37 16 0.52
38 1 0.03
39 7 0.23
ACGTcount: A:0.50, C:0.03, G:0.11, T:0.36
Consensus pattern (39 bp):
ATAATTTGTAATAGAAAGTAAGAACTGAAAAAATTTATC
Found at i:66911579 original size:30 final size:30
Alignment explanation
Indices: 66911543--66911607 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
66911533 ACTTATTTTA
66911543 TTGTTAATTTTGCTATTATTTTAAAGACAT
1 TTGTTAATTTTGCTATTATTTTAAAGACAT
* * *
66911573 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGCTATTATTTTAAAGACAT
66911603 TTGTT
1 TTGTT
66911608 TGTTAAGTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.25, C:0.05, G:0.14, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGCTATTATTTTAAAGACAT
Found at i:66913398 original size:2 final size:2
Alignment explanation
Indices: 66913391--66913419 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
66913381 TTTATTTAAA
66913391 AT AT 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 AT AT A
66913420 AGAATATCCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:66915287 original size:13 final size:16
Alignment explanation
Indices: 66915254--66915285 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
66915244 AAATGGACTC
66915254 TTTGGACTTATTTATT
1 TTTGGACTTATTTATT
66915270 TTTGGA-TT-TTTATT
1 TTTGGACTTATTTATT
66915284 TT
1 TT
66915286 GGGTCTATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 2 0.12
16 6 0.38
ACGTcount: A:0.16, C:0.03, G:0.12, T:0.69
Consensus pattern (16 bp):
TTTGGACTTATTTATT
Found at i:66916409 original size:23 final size:22
Alignment explanation
Indices: 66916383--66916427 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
66916373 ATTCACCTTA
66916383 AATTACATGTATTT-AGATCAGTG
1 AATTACATG-ATTTGA-ATCAGTG
*
66916406 AATTAGATGATTTGAATCAGTG
1 AATTACATGATTTGAATCAGTG
66916428 GATTTGAGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.36, C:0.07, G:0.20, T:0.38
Consensus pattern (22 bp):
AATTACATGATTTGAATCAGTG
Found at i:66929843 original size:6 final size:6
Alignment explanation
Indices: 66929834--66929889 Score: 51
Period size: 6 Copynumber: 8.5 Consensus size: 6
66929824 TTCATATCAC
66929834 AAAATA AAAACTTAA AAAAATA AAAATA AGCAAA-A AAAATA AAAATA
1 AAAATA AAAA--T-A AAA-ATA AAAATA A--AAATA AAAATA AAAATA
66929881 AAAATA AAA
1 AAAATA AAA
66929890 CCTAACCTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
5 3 0.07
6 24 0.56
7 6 0.14
8 5 0.12
9 4 0.09
10 1 0.02
ACGTcount: A:0.80, C:0.04, G:0.02, T:0.14
Consensus pattern (6 bp):
AAAATA
Found at i:66929884 original size:16 final size:16
Alignment explanation
Indices: 66929834--66929889 Score: 51
Period size: 16 Copynumber: 3.2 Consensus size: 16
66929824 TTCATATCAC
*
66929834 AAAATAAAAACT-TAAA
1 AAAATAAAAA-TAAAAA
66929850 AAAATAAAAATAAGCAAAA
1 AAAATAAAAAT-A--AAAA
66929869 AAAATAAAAATAAAAA
1 AAAATAAAAATAAAAA
66929885 TAAAA
1 -AAAA
66929890 CCTAACCTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
15 1 0.03
16 14 0.41
17 4 0.12
18 1 0.03
19 14 0.41
ACGTcount: A:0.80, C:0.04, G:0.02, T:0.14
Consensus pattern (16 bp):
AAAATAAAAATAAAAA
Found at i:66929889 original size:19 final size:19
Alignment explanation
Indices: 66929834--66929889 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 19
66929824 TTCATATCAC
66929834 AAAATAAAAACTTAAAAAAATA
1 AAAATAAAAA--T-AAAAAATA
*
66929856 AAAATAAGCAA-AAAAAATA
1 AAAATAA-AAATAAAAAATA
66929875 AAAATAAAAATAAAA
1 AAAATAAAAATAAAA
66929890 CCTAACCTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
18 2 0.07
19 19 0.63
22 7 0.23
23 2 0.07
ACGTcount: A:0.80, C:0.04, G:0.02, T:0.14
Consensus pattern (19 bp):
AAAATAAAAATAAAAAATA
Found at i:66930211 original size:45 final size:45
Alignment explanation
Indices: 66930141--66930230 Score: 117
Period size: 45 Copynumber: 2.0 Consensus size: 45
66930131 TGTGGTAGGT
* * * *
66930141 CATGTGCGAGGCCGTCTGTGACACACGGTCTAGGCTATTTTGGGC
1 CATGTGCGAGGCCGTCTGGGACACACGGGCAAGGATATTTTGGGC
* * *
66930186 CATGTGCTAGGCCGTGTGGGCCACACGGGCAAGGATATTTTGGGC
1 CATGTGCGAGGCCGTCTGGGACACACGGGCAAGGATATTTTGGGC
66930231 GTATGGGCCC
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.17, C:0.23, G:0.36, T:0.24
Consensus pattern (45 bp):
CATGTGCGAGGCCGTCTGGGACACACGGGCAAGGATATTTTGGGC
Found at i:66931100 original size:19 final size:20
Alignment explanation
Indices: 66931059--66931100 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
66931049 GATGGAACGA
66931059 TTTTTATGAAAACAACTATT
1 TTTTTATGAAAACAACTATT
* *
66931079 TTTTTCTGAAATCAACTATT
1 TTTTTATGAAAACAACTATT
66931099 TT
1 TT
66931101 ATAGAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.33, C:0.12, G:0.05, T:0.50
Consensus pattern (20 bp):
TTTTTATGAAAACAACTATT
Found at i:66932616 original size:5 final size:5
Alignment explanation
Indices: 66932597--66932631 Score: 54
Period size: 5 Copynumber: 7.0 Consensus size: 5
66932587 ACTTACATGC
66932597 AAATA AAGA-A AAATA AAATA AAATA AAATA AAATA
1 AAATA AA-ATA AAATA AAATA AAATA AAATA AAATA
66932632 GGAAACAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 1 0.04
5 26 0.93
6 1 0.04
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (5 bp):
AAATA
Found at i:66955684 original size:6 final size:6
Alignment explanation
Indices: 66955648--66955697 Score: 50
Period size: 6 Copynumber: 8.7 Consensus size: 6
66955638 CTTTGAGTAC
* ** *
66955648 TTTTA- TTTTAT TATTAT TACTAT TTTTAT TTTTAT TTTT-T ATTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT
66955694 TTTT
1 TTTT
66955698 GAAGACTTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
5 9 0.24
6 28 0.76
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTTAT
Found at i:66955955 original size:16 final size:16
Alignment explanation
Indices: 66955907--66955947 Score: 73
Period size: 16 Copynumber: 2.5 Consensus size: 16
66955897 TTTCTTATGA
66955907 TATTATGCTTCTATTGT
1 TATTAT-CTTCTATTGT
66955924 TATTATCTTCTATTGT
1 TATTATCTTCTATTGT
66955940 TATTATCT
1 TATTATCT
66955948 ATCTTTGTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 18 0.75
17 6 0.25
ACGTcount: A:0.20, C:0.12, G:0.07, T:0.61
Consensus pattern (16 bp):
TATTATCTTCTATTGT
Found at i:66957576 original size:30 final size:30
Alignment explanation
Indices: 66957541--66957628 Score: 86
Period size: 30 Copynumber: 2.9 Consensus size: 30
66957531 TAAGCATTTT
* *
66957541 CACACGGGTAAACCACATGCCCGTGTGTGA
1 CACACGGGCAAACCACACGCCCGTGTGTGA
* ** *
66957571 CACACGAGCAGGCCACGCGCCCGTGTGTGA
1 CACACGGGCAAACCACACGCCCGTGTGTGA
** * *
66957601 CACACGGGCAGGCCACGCGCCCATGTGT
1 CACACGGGCAAACCACACGCCCGTGTGT
66957629 CATGGCCGTA
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.22, C:0.35, G:0.31, T:0.12
Consensus pattern (30 bp):
CACACGGGCAAACCACACGCCCGTGTGTGA
Found at i:66957597 original size:28 final size:29
Alignment explanation
Indices: 66957559--66957622 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 29
66957549 TAAACCACAT
66957559 GCCCGTGTGTGACACACGAGCAGGCCACGC
1 GCCCG-GTGTGACACACGAGCAGGCCACGC
*
66957589 GCCCGTGTGTGACACACGGGCAGGCCACGC
1 GCCCG-GTGTGACACACGAGCAGGCCACGC
66957619 GCCC
1 GCCC
66957623 ATGTGTCATG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.17, C:0.39, G:0.34, T:0.09
Consensus pattern (29 bp):
GCCCGGTGTGACACACGAGCAGGCCACGC
Found at i:66960847 original size:29 final size:29
Alignment explanation
Indices: 66960763--66960871 Score: 96
Period size: 29 Copynumber: 3.8 Consensus size: 29
66960753 TTCACATACT
* * *
66960763 TGTATCTGGCCCATTATGCCC-AATCATA
1 TGTATATGGCCCATTAGGCCCAAATCAAA
* * **
66960791 T-TCATATGGCCCCTTTAGGCCTAAATCACC
1 TGT-ATATGG-CCCATTAGGCCCAAATCAAA
*
66960821 TGTATATGGCCCATTAGTCCCAAATCAAA
1 TGTATATGGCCCATTAGGCCCAAATCAAA
* *
66960850 TTTATATGGGCCATTAGGCCCA
1 TGTATATGGCCCATTAGGCCCA
66960872 GTCACATTCT
Statistics
Matches: 63, Mismatches: 14, Indels: 7
0.75 0.17 0.08
Matches are distributed among these distances:
27 1 0.02
28 6 0.10
29 43 0.68
30 12 0.19
31 1 0.02
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.30
Consensus pattern (29 bp):
TGTATATGGCCCATTAGGCCCAAATCAAA
Found at i:66967334 original size:19 final size:19
Alignment explanation
Indices: 66967310--66967346 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
66967300 TAGATAAAAC
66967310 TTCTAAGTCACAATGAGCA
1 TTCTAAGTCACAATGAGCA
*
66967329 TTCTAAGTCATAATGAGC
1 TTCTAAGTCACAATGAGC
66967347 GCACAAGGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (19 bp):
TTCTAAGTCACAATGAGCA
Found at i:66974453 original size:13 final size:13
Alignment explanation
Indices: 66974435--66974459 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
66974425 TTGTCATGTT
66974435 ATTTAGTTAATTA
1 ATTTAGTTAATTA
66974448 ATTTAGTTAATT
1 ATTTAGTTAATT
66974460 TTAGTTTTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (13 bp):
ATTTAGTTAATTA
Found at i:66975973 original size:41 final size:41
Alignment explanation
Indices: 66975916--66976004 Score: 144
Period size: 41 Copynumber: 2.2 Consensus size: 41
66975906 TTCAGATAAA
* *
66975916 AAACATACACCCATGTGAGGGGGAGACATGCTCA-TGTGAGG
1 AAACACACACCCATGTGAGGGGGAGACACGCT-AGTGTGAGG
66975957 AAACACACACCCATGTGAGGGGGAGACACGCTAGTGTGAGG
1 AAACACACACCCATGTGAGGGGGAGACACGCTAGTGTGAGG
66975998 AAACACA
1 AAACACA
66976005 TGTCCCTATG
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
40 1 0.02
41 44 0.98
ACGTcount: A:0.35, C:0.21, G:0.30, T:0.13
Consensus pattern (41 bp):
AAACACACACCCATGTGAGGGGGAGACACGCTAGTGTGAGG
Found at i:66976478 original size:43 final size:43
Alignment explanation
Indices: 66976415--66976538 Score: 167
Period size: 43 Copynumber: 2.9 Consensus size: 43
66976405 CACGGCTGTT
* * * * *
66976415 TGAACCGCCCATGTGTGGGCACACGCCCTTGTGGTCACCTGTG
1 TGAACCACCCGTGTGCGGGCACACGCCCGTGTGGTCACCTATG
* * *
66976458 TGAACCATCCGTGTGCGGGCACATGCCCGTGTGGTCACTTATG
1 TGAACCACCCGTGTGCGGGCACACGCCCGTGTGGTCACCTATG
*
66976501 TGAACCACCCGTGTGCGAGCACACGCCCGTGTGGTCAC
1 TGAACCACCCGTGTGCGGGCACACGCCCGTGTGGTCAC
66976539 AAAACCACCT
Statistics
Matches: 70, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 70 1.00
ACGTcount: A:0.16, C:0.32, G:0.30, T:0.22
Consensus pattern (43 bp):
TGAACCACCCGTGTGCGGGCACACGCCCGTGTGGTCACCTATG
Found at i:66977292 original size:20 final size:20
Alignment explanation
Indices: 66977269--66977315 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
66977259 CTATTTTTCA
66977269 ATAAATATACATACAAAATT
1 ATAAATATACATACAAAATT
* *
66977289 ATAAAAATACATATAAAATT
1 ATAAATATACATACAAAATT
66977309 ATAAATA
1 ATAAATA
66977316 AATGAATACT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (20 bp):
ATAAATATACATACAAAATT
Found at i:66980424 original size:18 final size:18
Alignment explanation
Indices: 66980401--66980435 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
66980391 CAATATGAGA
66980401 AATAATATAAAATAAAAT
1 AATAATATAAAATAAAAT
* *
66980419 AATAATTTTAAATAAAA
1 AATAATATAAAATAAAA
66980436 AGTTATTCAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
AATAATATAAAATAAAAT
Found at i:66982093 original size:11 final size:11
Alignment explanation
Indices: 66982071--66982113 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
66982061 AGGTTATGTT
66982071 TTTCTGTTTTTC
1 TTTCT-TTTTTC
66982083 TTTCTTTTTTC
1 TTTCTTTTTTC
*
66982094 TTT-TTCATTTC
1 TTTCTT-TTTTC
66982105 TTTCTTTTT
1 TTTCTTTTT
66982114 ACTCTTTTCC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
10 2 0.07
11 18 0.67
12 7 0.26
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.79
Consensus pattern (11 bp):
TTTCTTTTTTC
Found at i:66982098 original size:18 final size:19
Alignment explanation
Indices: 66982069--66982107 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
66982059 TTAGGTTATG
66982069 TTTTTCTGTTTTTC-TTTCT
1 TTTTTC-GTTTTTCATTTCT
66982088 TTTTTC-TTTTTCATTTCT
1 TTTTTCGTTTTTCATTTCT
66982106 TT
1 TT
66982108 CTTTTTACTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.32
18 7 0.37
19 6 0.32
ACGTcount: A:0.03, C:0.15, G:0.03, T:0.79
Consensus pattern (19 bp):
TTTTTCGTTTTTCATTTCT
Found at i:66982107 original size:22 final size:23
Alignment explanation
Indices: 66982079--66982122 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
66982069 TTTTTCTGTT
*
66982079 TTTCTTTCTTTTTTCT-TTTTCA
1 TTTCTTTCTTTTTACTCTTTTCA
66982101 TTTCTTTCTTTTTACTCTTTTC
1 TTTCTTTCTTTTTACTCTTTTC
66982123 CTTCTTTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.05, C:0.20, G:0.00, T:0.75
Consensus pattern (23 bp):
TTTCTTTCTTTTTACTCTTTTCA
Found at i:66982127 original size:22 final size:22
Alignment explanation
Indices: 66982080--66982129 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
66982070 TTTTCTGTTT
* *
66982080 TTCTTTCTTTTTTCTTTTTCAT
1 TTCTTTCTTTTTACTTTTTCAC
66982102 TTCTTTCTTTTTACTCTTTTC-C
1 TTCTTTCTTTTTACT-TTTTCAC
66982124 TTCTTT
1 TTCTTT
66982130 ATTGTCCAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 20 0.80
23 5 0.20
ACGTcount: A:0.04, C:0.22, G:0.00, T:0.74
Consensus pattern (22 bp):
TTCTTTCTTTTTACTTTTTCAC
Found at i:66982736 original size:10 final size:10
Alignment explanation
Indices: 66982721--66982750 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
66982711 ATTAGTGAAT
*
66982721 GAAATCTTAA
1 GAAATCTCAA
66982731 GAAATCTCAA
1 GAAATCTCAA
66982741 GAAATCTCAA
1 GAAATCTCAA
66982751 TGAATAAGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.50, C:0.17, G:0.10, T:0.23
Consensus pattern (10 bp):
GAAATCTCAA
Found at i:66989145 original size:26 final size:26
Alignment explanation
Indices: 66989116--66989223 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
66989106 TGATACAAAT
66989116 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
66989142 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
66989168 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
66989194 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
66989220 TGAT
1 TGAT
66989224 GGGAATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:66996835 original size:10 final size:9
Alignment explanation
Indices: 66996821--66997062 Score: 68
Period size: 10 Copynumber: 25.4 Consensus size: 9
66996811 AAAATAACTT
66996821 TAAAAATTA
1 TAAAAATTA
* *
66996830 TTAAAAGTA
1 TAAAAATTA
66996839 -AAAAA-TA
1 TAAAAATTA
*
66996846 TAAAGAAATA
1 TAAA-AATTA
66996856 T-AAAATTA
1 TAAAAATTA
66996864 TTAAAAATTA
1 -TAAAAATTA
66996874 TAAAAAAACTTA
1 T--AAAAA-TTA
*
66996886 TAAATA-T-
1 TAAAAATTA
66996893 TAAAAATTA
1 TAAAAATTA
66996902 TAAAAATACTTA
1 T-AAAA-A-TTA
*
66996914 TAAAAAATTC
1 T-AAAAATTA
*
66996924 TAATTAATTA
1 TAA-AAATTA
*
66996934 TAAAAATAA
1 TAAAAATTA
*
66996943 CAAAAA-TA
1 TAAAAATTA
*
66996951 -AAACATATA
1 TAAAAAT-TA
66996960 TAAAATATT-
1 TAAAA-ATTA
* *
66996969 TAAAACCTTT
1 TAAAA-ATTA
*
66996979 TATAAACTTA
1 TA-AAAATTA
* *
66996989 AAAAAATCA
1 TAAAAATTA
66996998 TAAAAACTTA
1 TAAAAA-TTA
* *
66997008 TAAATACTA
1 TAAAAATTA
*
66997017 AAAGAAATTTCTA
1 TAA-AAA--T-TA
* *
66997030 AAAAAAATA
1 TAAAAATTA
66997039 TAATAAATTA
1 TAA-AAATTA
66997049 TAAAAACTTA
1 TAAAAA-TTA
66997059 TAAA
1 TAAA
66997063 GTTTCCTAAA
Statistics
Matches: 175, Mismatches: 31, Indels: 53
0.68 0.12 0.20
Matches are distributed among these distances:
7 11 0.06
8 14 0.08
9 55 0.31
10 62 0.35
11 12 0.07
12 16 0.09
13 5 0.03
ACGTcount: A:0.63, C:0.05, G:0.01, T:0.31
Consensus pattern (9 bp):
TAAAAATTA
Found at i:66996860 original size:18 final size:18
Alignment explanation
Indices: 66996821--66996909 Score: 53
Period size: 18 Copynumber: 5.0 Consensus size: 18
66996811 AAAATAACTT
*
66996821 TAAAAATTATT-AAAAGTA
1 TAAAAA-TATTAAAAAATA
66996839 -AAAAATA-TAAAGAAATA
1 TAAAAATATTAAA-AAATA
* *
66996856 TAAAATTATTAAAAATTA
1 TAAAAATATTAAAAAATA
* *
66996874 TAAAAAAACTT-ATAAATA
1 TAAAAATA-TTAAAAAATA
*
66996892 TTAAAA-ATTATAAAAATA
1 TAAAAATATTA-AAAAATA
66996910 CTTATAAAAA
Statistics
Matches: 55, Mismatches: 9, Indels: 14
0.71 0.12 0.18
Matches are distributed among these distances:
15 1 0.02
16 6 0.11
17 10 0.18
18 32 0.58
19 6 0.11
ACGTcount: A:0.66, C:0.01, G:0.02, T:0.30
Consensus pattern (18 bp):
TAAAAATATTAAAAAATA
Found at i:66996929 original size:28 final size:28
Alignment explanation
Indices: 66996822--66996919 Score: 103
Period size: 28 Copynumber: 3.5 Consensus size: 28
66996812 AAATAACTTT
* * *
66996822 AAAAA-TTATTAAAAGTAAAAAATATAA
1 AAAAACTTATAAAAATTAAAAATTATAA
*
66996849 AGAAA--TATAAAATTATTAAAAATTATAA
1 AAAAACTTATAAAA--ATTAAAAATTATAA
*
66996877 AAAAACTTATAAATATTAAAAATTATAA
1 AAAAACTTATAAAAATTAAAAATTATAA
*
66996905 AAATACTTATAAAAA
1 AAAAACTTATAAAAA
66996920 ATTCTAATTA
Statistics
Matches: 59, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
26 6 0.10
27 4 0.07
28 43 0.73
30 6 0.10
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (28 bp):
AAAAACTTATAAAAATTAAAAATTATAA
Found at i:66997614 original size:7 final size:8
Alignment explanation
Indices: 66997572--66997656 Score: 57
Period size: 8 Copynumber: 10.0 Consensus size: 8
66997562 TTAAATGATT
66997572 TTTTATAA
1 TTTTATAA
66997580 TTTCTAT--
1 TTT-TATAA
* *
66997587 TTTTTTAG
1 TTTTATAA
66997595 TTTTATAA
1 TTTTATAA
66997603 TTTTATAA
1 TTTTATAA
*
66997611 TTTATTTAGA
1 TTT-TATA-A
66997621 TTTTATAA
1 TTTTATAA
*
66997629 TTTTTTATAT
1 --TTTTATAA
66997639 TATTTATAA
1 T-TTTATAA
66997648 TTTTTATAA
1 -TTTTATAA
66997657 AATTTAATCA
Statistics
Matches: 61, Mismatches: 7, Indels: 17
0.72 0.08 0.20
Matches are distributed among these distances:
6 2 0.03
7 3 0.05
8 22 0.36
9 22 0.36
10 12 0.20
ACGTcount: A:0.31, C:0.01, G:0.02, T:0.66
Consensus pattern (8 bp):
TTTTATAA
Done.