Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 181 of 253
Found at i:59158232 original size:55 final size:54
Alignment explanation
Indices: 59158120--59158297 Score: 150
Period size: 54 Copynumber: 3.3 Consensus size: 54
59158110 ATATTGAGCC
* * *
59158120 CGCACACTCAGTGCTATATAATCAACTCGCACATTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACGTAATCAAAT
* * * *
59158174 CGCACACTTAGTGCTACATAGTTAGACTCGCACACTTAGTG-C-CGTATGGTCAATT
1 CGCACACTTAGTGCTACATAATCA-ACTCGCACACTTAGTGCCACGTA--ATCAAAT
* * ** * *
59158229 CGCACTCTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAAC-AAAGT-AGAAT
1 CGCACACTTAGTGCTA-CATAATCAACTCGCACACTTAGTGCCACGTAA-TCA-AAT
59158283 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
59158298 GTACAATTTA
Statistics
Matches: 98, Mismatches: 17, Indels: 17
0.74 0.13 0.13
Matches are distributed among these distances:
53 5 0.05
54 52 0.53
55 40 0.41
56 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.28
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAATCAACTCGCACACTTAGTGCCACGTAATCAAAT
Found at i:59164836 original size:69 final size:70
Alignment explanation
Indices: 59164661--59164836 Score: 219
Period size: 71 Copynumber: 2.5 Consensus size: 70
59164651 CTTTCCAAGG
* ** *
59164661 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTTAATTTTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTAT
*
59164726 TTTTT
66 GTTTT
* ** * *
59164731 CAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCGGGGCACGCCGAGGTATTTTTAGTTTA
1 -AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTA
59164796 TGTTTT
65 TGTTTT
** *
59164802 -AAATTGACTCATATTGCGAGAGGTGAGTTAAGCCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
59164837 TTTAATTTTT
Statistics
Matches: 91, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
69 31 0.34
71 60 0.66
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.34
Consensus pattern (70 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCCGAGGTATTTTTAATTTAT
GTTTT
Found at i:59164968 original size:75 final size:74
Alignment explanation
Indices: 59164854--59165192 Score: 459
Period size: 72 Copynumber: 4.5 Consensus size: 74
59164844 TTTGTTTTTC
*
59164854 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
59164919 GTTGTTAAAA
66 GTT-TTAAAA
**
59164929 AAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
*
59164994 GTTTT--CA
66 GTTTTAAAA
* * ** * * *
59165001 AAATTCAACTTATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTATTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
59165066 GTTTTCAAAAA
66 GTTTT--AAAA
* * *
59165077 AAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGCTGAGGTATTTTCAATT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGCTGAGGTAATTTCAATT
59165141 TCTGTTTTTAAAA
63 TCTG-TTTTAAAA
*
59165154 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTCAG
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
59165193 ATTACACACT
Statistics
Matches: 237, Mismatches: 18, Indels: 15
0.88 0.07 0.06
Matches are distributed among these distances:
72 66 0.28
74 2 0.01
75 66 0.28
76 35 0.15
77 39 0.16
78 25 0.11
79 4 0.02
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (74 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
GTTTTAAAA
Found at i:59165383 original size:125 final size:125
Alignment explanation
Indices: 59165077--59165435 Score: 356
Period size: 125 Copynumber: 2.8 Consensus size: 125
59165067 TTTTCAAAAA
* *
59165077 AAAATCAACTTATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGCTGAGGTATTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG---ACACGCTGAGGTATTTTCAATTT
*
59165142 CTGTTTTTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTG-AGCTTCAGATTACACACTGTG
63 CTG-TTTT----AAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTCAGATTACACACTGT-
59165206 GTTT
122 GTTT
*** * * *
59165210 -TTTTCAATTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC-ATGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTGAGGTATTTTCAATTTCT
* * *
59165273 GTTTGTCAAGAATCAACTCATATTGCGAGAGGTG-GTTGAACCTTTTA-ATTTC-TACT-T-TTT
65 GTTT-T-AA-AATCAACTCATATTGCGAGAGGTGAGTTGAACC-TTCAGATTACACACTGTGTTT
* * * *
59165333 CAAAATCAGCTCATATTGCAAGAGGTGAGTTGAGCCTCGGGCACGCTGAGGTATTTTCAATTTTT
1 -AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCTGAGGTATTTTCAATTTCT
**
59165398 GTGTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGA
65 GT-TTTAAAATCAACTCATATTGCGAGAGGTGAGTTGA
59165436 GCCTCAGGAC
Statistics
Matches: 191, Mismatches: 25, Indels: 29
0.78 0.10 0.12
Matches are distributed among these distances:
123 25 0.13
124 12 0.06
125 51 0.27
126 11 0.06
127 30 0.16
128 6 0.03
129 20 0.10
130 3 0.02
132 31 0.16
133 2 0.01
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.35
Consensus pattern (125 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCTGAGGTATTTTCAATTTCTG
TTTTAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTTCAGATTACACACTGTGTTT
Found at i:59165639 original size:73 final size:71
Alignment explanation
Indices: 59165473--59165669 Score: 247
Period size: 73 Copynumber: 2.8 Consensus size: 71
59165463 ATTTTCGTTT
* * *
59165473 TTTTAATTTATGTTTCA-AAAAAATCAACTCATATTGCGAGA-ATGAGTTGAGCCTCAAGACGCT
1 TTTTAATTTATG-TTCATCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAACACGCT
59165536 GAGGTAA
65 GAGGTAA
* * **
59165543 TTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
1 TTTTAATTTATGTTCATCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA--ACACGC
**
59165608 TGAGGTGG
64 TGAGGTAA
* *
59165616 TTTTAATTTATGTTCATCAAAAATTAGCTCATATTGC-AGAGGTGAGTTGAGCCT
1 TTTTAATTTATGTTCATCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
59165670 TGGCTCACAC
Statistics
Matches: 108, Mismatches: 15, Indels: 6
0.84 0.12 0.05
Matches are distributed among these distances:
69 2 0.02
70 33 0.31
71 14 0.13
72 17 0.16
73 42 0.39
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (71 bp):
TTTTAATTTATGTTCATCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAACACGCTG
AGGTAA
Found at i:59165708 original size:14 final size:14
Alignment explanation
Indices: 59165689--59165723 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
59165679 CGCTGAGGTA
59165689 TTTTCAATTTCTGG
1 TTTTCAATTTCTGG
*
59165703 TTTTCAATTTCTGT
1 TTTTCAATTTCTGG
59165717 TTTTCAA
1 TTTTCAA
59165724 AAATCGACTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.17, C:0.14, G:0.09, T:0.60
Consensus pattern (14 bp):
TTTTCAATTTCTGG
Found at i:59165785 original size:86 final size:85
Alignment explanation
Indices: 59165613--59165787 Score: 237
Period size: 88 Copynumber: 2.0 Consensus size: 85
59165603 CACGCTGAGG
* *
59165613 TGGTTTTAATTTATGTTCATCAAAAATTAGCTCATATTGCAGAGGTGAGTTGAGCCTTGGCTCAC
1 TGGTTTTAATTTATGTTCATCAAAAATGAGCTCATATTGCAGAGGTGAGTTGAGCCTCGG--CAC
*
59165678 ACGCTGAGGTATTTTCAATTTC
64 ACGCTGAGGTAATTTCAATTTC
* **
59165700 TGGTTTTCAATTTCTGTTTTTCAAAAATCGA-CTCATATTGCGAGAGGTGAGTTGAGCCTCGG-A
1 TGGTTTT-AATTTATGTTCATCAAAAAT-GAGCTCATATTGC-AGAGGTGAGTTGAGCCTCGGCA
59165763 CACGCTGAGGTAATTTCAATTTC
63 CACGCTGAGGTAATTTCAATTTC
59165786 TG
1 TG
59165788 TTGTCAAAAT
Statistics
Matches: 79, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
86 25 0.32
87 7 0.09
88 27 0.34
89 20 0.25
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.37
Consensus pattern (85 bp):
TGGTTTTAATTTATGTTCATCAAAAATGAGCTCATATTGCAGAGGTGAGTTGAGCCTCGGCACAC
GCTGAGGTAATTTCAATTTC
Found at i:59165811 original size:231 final size:225
Alignment explanation
Indices: 59165334--59166063 Score: 733
Period size: 231 Copynumber: 3.2 Consensus size: 225
59165324 CTACTTTTTC
* * * *
59165334 AAAATCAGCTCATATTGCAAGAGGTGAGTTGAGCCTCGGGCACGCTGAGGTATTTTCAATTTTTG
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCTGAGGTATTTTCAATTTATG
* *
59165399 TGT--T--TAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTT
66 T-TCATCAAAAATT-AACTCATATTGCGAGAGGTGAGTTGAGCCT-AGGACACGCTGAGGTATTT
** *
59165460 TCAATTTTCGTTTTTTTAATTTATGTTTCAAAAAAATCAACTCATATTGCGAGA-ATGAGTTGAG
128 TCAA-TTTC-TGGTTTTAATTT-TGTTT---AAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
* * *
59165524 CCTC-AAGACGCTGAGGTAATTTCAATTTTTGTTTGTCA
187 CCTCGGACACGCTGAGGTAATTTCAATTTATGTTTGTCA
*
59165562 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTGGTTTT-AATTTA
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTGAGGT-ATTTTCAATTTA
* *
59165626 TGTTCATCAAAAATTAGCTCATATTGC-AGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGGTAT
64 TGTTCATCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTAGG---ACACGCTGAGGTAT
*
59165690 TTTCAATTTCTGGTTTTCAATTTCTGTTTTTCAAAAATCGACTCATATTGCGAGAGGTGAGTTGA
126 TTTCAATTTCTGGTTTT-AATTT-TG--TTT-AAAAATCAACTCATATTGCGAGAGGTGAGTTGA
*
59165755 GCCTCGGACACGCTGAGGTAATTTCAATTTCTG-TTGTC-
186 GCCTCGGACACGCTGAGGTAATTTCAATTTATGTTTGTCA
* * *
59165793 AAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTCTTTTCAATTT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG---ACACGCTGAGGTATTTTCAATTT
* * *
59165858 CTGTTCTTCAATTTCTGTTCAAAAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTAGGACA
63 ATG---TTC-A-------TC--AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTAGGACA
*
59165923 CGCTGAGGTAATTTCAATTTCT-GTTGTTAA--------AAAAATCAACTCATATTGCGAGAGGT
115 CGCTGAGGTATTTTCAATTTCTGGTT-TTAATTTTGTTTAAAAATCAACTCATATTGCGAGAGGT
* * *
59165979 GAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTATGTTTTTCA
179 GAGTTGAGCCTC-GGACACGCTGAGGTA-ATTTCAATTTATGTTTGTCA
*
59166028 AAAATCAACTCATATTGCGAGATGTGAGTTGAGCCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
59166064 TGGGTTCACA
Statistics
Matches: 432, Mismatches: 33, Indels: 67
0.81 0.06 0.13
Matches are distributed among these distances:
228 36 0.08
229 23 0.05
230 29 0.07
231 117 0.27
232 61 0.14
233 55 0.13
234 4 0.01
235 34 0.08
236 3 0.01
237 1 0.00
243 5 0.01
244 28 0.06
246 17 0.04
247 19 0.04
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.34
Consensus pattern (225 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCTGAGGTATTTTCAATTTATG
TTCATCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTAGGACACGCTGAGGTATTTTCA
ATTTCTGGTTTTAATTTTGTTTAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACA
CGCTGAGGTAATTTCAATTTATGTTTGTCA
Found at i:59165819 original size:70 final size:72
Alignment explanation
Indices: 59165704--59166063 Score: 234
Period size: 74 Copynumber: 4.8 Consensus size: 72
59165694 AATTTCTGGT
* *
59165704 TTTCAATTTCTGTTTTTCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCGG-ACACGC
1 TTTCAATTTCTG-TTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCACACGC
59165768 TGAGGTAA
65 TGAGGTAA
* *
59165776 TTTCAATTTCTGTTGTC-AAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATG
1 TTTCAATTTCTGTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--CACACG
**
59165840 CTGAGGTCT
64 CTGAGGTAA
* * * * * * *
59165849 TTTCAATTTCTGTTCTTCAATTTCTGTTCAAA-AAAATCA-ACT-C-ATATTGCTAGAGGTGAG-
1 TTTCAATTTCTGTT-GTCAA---------AAATCAACTCATATTGCGAGA--GGT-GAGTTGAGC
*
59165909 -TTGAGCCTAGGACACGCTGAGGTAA
53 CTCG-G-C----ACACGCTGAGGTAA
*
59165934 TTTCAATTTCTGTTGTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACAC
1 TTTCAATTTCTGTTG-T-CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCACAC
*
59165998 GCTGAGGTATT
63 GCTGAGGTA-A
* * * *
59166009 TTTAAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGATGTGAGTTGAGCCT
1 TTTCAATTTCTG-TTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
59166064 TGGGTTCACA
Statistics
Matches: 222, Mismatches: 33, Indels: 64
0.70 0.10 0.20
Matches are distributed among these distances:
70 37 0.17
71 4 0.02
72 12 0.05
73 25 0.11
74 51 0.23
75 12 0.05
76 2 0.01
77 3 0.01
78 12 0.05
79 4 0.02
80 5 0.02
81 7 0.03
82 5 0.02
83 12 0.05
84 3 0.01
85 26 0.12
86 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (72 bp):
TTTCAATTTCTGTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCACACGCT
GAGGTAA
Found at i:59165823 original size:389 final size:391
Alignment explanation
Indices: 59165315--59166090 Score: 1092
Period size: 389 Copynumber: 2.0 Consensus size: 391
59165305 TGGTTGAACC
*
59165315 TTTTAATTTCTACTTTTTCAAAATCAGCTCATATTGCAAGAGGTGAGTTGAGCCTCGGGCACGCT
1 TTTTAATTTCTACTTTTTCAAAATCAGCTCATATTGCAAGAGGTGAGTTGAGCCTCGGACACGCT
* * ** *
59165380 GAGGTATTTTCAATTTTTGTGTTTAATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-
66 GAGGTAATTTCAATTTCTGTGTCAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGC
* *
59165444 ACACGCTGAGGTATTTTCAATTT-TCGTTTTTTTAATTTATGTTTCAAAAAAATCAACTCATATT
130 ACACGCTGAGGTATTTTCAATTTCT-G-TTCTTCAATTTATG-TTCAAAAAAATCAACTCATATT
* * *
59165508 GCGAGA-ATGAGTTGAGCCTCA-AGACGCTGAGGTAATTTCAATTTTTGTT-TGT-CAAAAATCA
192 GCGAGAGATGAGTTGAGCCT-AGACACGCTGAGGTAATTTCAATTTCTGTTGT-TAAAAAAATCA
*
59165569 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTGGTTTT-AATTTATGTTCAT
255 ACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAGTTTTAAATTTATGTTCAT
* *
59165633 CAAAAATTAGCTCATATTGC-AGAGGTGAGTTGAGCCTT-GGCTCACACG-CTGAGGTATTTTCA
320 CAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGCTCACACGTC-GAGGTATTTTCA
59165695 ATTTCTGG
384 ATTTCTGG
* *
59165703 TTTTCAATTTCT-GTTTTTCAAAAATC-GACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACAC
1 TTTT-AATTTCTACTTTTTC-AAAATCAG-CTCATATTGCAAGAGGTGAGTTGAGCCTCGGACAC
59165766 GCTGAGGTAATTTCAATTTCTGTTGTCAAAATT-AACTCATATTGCGAGAGGTGAGTTGAGCCTC
63 GCTGAGGTAATTTCAATTTCTG-TGTCAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
* * *
59165830 GGCTCACATGCTGAGGTCTTTTCAATTTCTGTTCTTCAATTTCTGTTCAAAAAAATCAACTCATA
127 GG--CACACGCTGAGGTATTTTCAATTTCTGTTCTTCAATTTATGTTCAAAAAAATCAACTCATA
* *
59165895 TTGCTAGAGGTGAGTTGAGCCTAGGACACGCTGAGGTAATTTCAATTTCTGTTGTTAAAAAAATC
190 TTGCGAGAGATGAGTTGAGCCTA-GACACGCTGAGGTAATTTCAATTTCTGTTGTTAAAAAAATC
* **
59165960 AACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTATGTTTT
254 AACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAGTTTTAAATTTATGTTCA
* * *
59166025 TCAAAAATCAACTCATATTGCGAGATGTGAGTTGAGCCTTGGGTTCACATGTCGAGGTATTTTCA
319 TCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGCTCACACGTCGAGGTATTTTCA
59166090 A
384 A
59166091 AATCTACTTT
Statistics
Matches: 344, Mismatches: 27, Indels: 27
0.86 0.07 0.07
Matches are distributed among these distances:
388 13 0.04
389 125 0.36
390 30 0.09
391 49 0.14
392 59 0.17
393 29 0.08
394 17 0.05
395 21 0.06
396 1 0.00
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (391 bp):
TTTTAATTTCTACTTTTTCAAAATCAGCTCATATTGCAAGAGGTGAGTTGAGCCTCGGACACGCT
GAGGTAATTTCAATTTCTGTGTCAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCA
CACGCTGAGGTATTTTCAATTTCTGTTCTTCAATTTATGTTCAAAAAAATCAACTCATATTGCGA
GAGATGAGTTGAGCCTAGACACGCTGAGGTAATTTCAATTTCTGTTGTTAAAAAAATCAACTCAT
ATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAGTTTTAAATTTATGTTCATCAAAAA
TCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGCTCACACGTCGAGGTATTTTCAATTTCTG
G
Found at i:59165869 original size:14 final size:14
Alignment explanation
Indices: 59165850--59165877 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
59165840 CTGAGGTCTT
59165850 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
59165864 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
59165878 AAAAAAATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.07, T:0.57
Consensus pattern (14 bp):
TTCAATTTCTGTTC
Found at i:59165930 original size:158 final size:159
Alignment explanation
Indices: 59165543--59166028 Score: 633
Period size: 161 Copynumber: 3.0 Consensus size: 159
59165533 GCTGAGGTAA
* ***
59165543 TTTCAATTTTTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
1 TTTCAATTTCTGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-AGGACACGC
** * * * * *
59165608 TGAGGTGGTTTTAATTTATGTTCATCAAAAATTAGCTCATATTGC-AGAGGTGAGTTGAGCCTTG
65 TGAGGTAATTTCAATTTCTGTT-GTC-AAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
59165672 GCTCACACGCTGAGGTATTTTCAATTTCTGGT
128 GCTCACACGCTGAGGTATTTTCAATTTCTGGT
*** * *
59165704 TTTCAATTTCTGTTTTTCAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCT
1 TTTCAATTTCTGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGGACACGCT
59165769 GAGGTAATTTCAATTTCTGTTGTCAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCT
66 GAGGTAATTTCAATTTCTGTTGTCAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCT
* *
59165834 CACATGCTGAGGTCTTTTCAATTTCT-GT
131 CACACGCTGAGGTATTTTCAATTTCTGGT
*
59165862 TCTTCAATTTCTG-TTCAAAAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTAGGACACGC
1 T-TTCAATTTCTGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGGACACGC
* *
59165926 TGAGGTAATTTCAATTTCTGTTGTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
65 TGAGGTAATTTCAATTTCTGTTG-T--CAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTC
* * *
59165991 AGG---ACACGCTGAGGTATTTTTAAATTTATGTT
127 -GGCTCACACGCTGAGGTA-TTTTCAATTTCTGGT
59166023 TTTCAA
1 TTTCAA
59166029 AAATCAACTC
Statistics
Matches: 291, Mismatches: 26, Indels: 17
0.87 0.08 0.05
Matches are distributed among these distances:
158 88 0.30
159 70 0.24
160 41 0.14
161 90 0.31
162 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.35
Consensus pattern (159 bp):
TTTCAATTTCTGTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTAGGACACGCT
GAGGTAATTTCAATTTCTGTTGTCAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCT
CACACGCTGAGGTATTTTCAATTTCTGGT
Found at i:59165981 original size:73 final size:74
Alignment explanation
Indices: 59165864--59166063 Score: 298
Period size: 74 Copynumber: 2.7 Consensus size: 74
59165854 ATTTCTGTTC
* *
59165864 TTCAATTTCTG-TTCAAAAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCT-AGGACACGCT
1 TTCAATTTCTGTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
59165927 GAGGTA-AT
66 GAGGTATAT
59165935 TTCAATTTCTGTTGTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
1 TTCAATTTCTGTT-TTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGC
*
59166000 TGAGGTATTT
65 TGAGGTATAT
* * ** *
59166010 TTAAATTTATGTTTTTCAAAAATCAACTCATATTGCGAGATGTGAGTTGAGCCT
1 TTCAATTTCTGTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
59166064 TGGGTTCACA
Statistics
Matches: 117, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
71 11 0.09
72 1 0.01
73 39 0.33
74 54 0.46
75 12 0.10
ACGTcount: A:0.31, C:0.15, G:0.20, T:0.33
Consensus pattern (74 bp):
TTCAATTTCTGTTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCT
GAGGTATAT
Found at i:59166812 original size:30 final size:30
Alignment explanation
Indices: 59166776--59166948 Score: 287
Period size: 30 Copynumber: 5.8 Consensus size: 30
59166766 ACTTTTCTCA
*
59166776 ACTAGCCACTCCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
59166806 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
*
59166836 ACTAG-C-CACTTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
59166864 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
* *
59166894 ACTAGCCACTCTTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
*
59166924 ACTAGCCACACCTTCTCCACCACCA
1 ACTAGCCACACCTTTTCCACCACCA
59166949 CTTGTACCTA
Statistics
Matches: 133, Mismatches: 8, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
28 26 0.20
29 2 0.02
30 105 0.79
ACGTcount: A:0.25, C:0.49, G:0.03, T:0.22
Consensus pattern (30 bp):
ACTAGCCACACCTTTTCCACCACCAACTCC
Found at i:59166856 original size:58 final size:58
Alignment explanation
Indices: 59166776--59166948 Score: 301
Period size: 58 Copynumber: 2.9 Consensus size: 58
59166766 ACTTTTCTCA
59166776 ACTAGCCACTCCTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACT--TTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCC
59166836 ACTAGCCACTTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACTTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCC
*
59166894 ACTAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACCTTCTCCACCACCA
1 ACTAGCCA--CTTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCA
59166949 CTTGTACCTA
Statistics
Matches: 110, Mismatches: 1, Indels: 4
0.96 0.01 0.03
Matches are distributed among these distances:
58 56 0.51
60 54 0.49
ACGTcount: A:0.25, C:0.49, G:0.03, T:0.22
Consensus pattern (58 bp):
ACTAGCCACTTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCC
Found at i:59167509 original size:25 final size:25
Alignment explanation
Indices: 59167443--59167645 Score: 134
Period size: 25 Copynumber: 8.4 Consensus size: 25
59167433 ATTATATTTC
* *
59167443 TTAATATTATATTATATATAT-TCT
1 TTAATATTATATTATGTATATATAT
* *
59167467 TT--TAATATATTAGGTATAT-T-T
1 TTAATATTATATTATGTATATATAT
* * *
59167488 TAAATTTTATATTACGTATATATAT
1 TTAATATTATATTATGTATATATAT
* * * *
59167513 TTTATACTATTTTATGTATATATCT
1 TTAATATTATATTATGTATATATAT
* *
59167538 TTAATATTATATTATTTATATATTTT
1 TTAATATTATATTATGTATATA-TAT
* * * *
59167564 TTTATGTTATCTTATGTATATAT-C
1 TTAATATTATATTATGTATATATAT
* *
59167588 TT-A-ATTATATTATGTATGTATTT
1 TTAATATTATATTATGTATATATAT
* * * *
59167611 TTAACACTATATTATGTACATATTT
1 TTAATATTATATTATGTATATATAT
59167636 TTAATATTAT
1 TTAATATTAT
59167646 TACGTATTTT
Statistics
Matches: 138, Mismatches: 33, Indels: 15
0.74 0.18 0.08
Matches are distributed among these distances:
21 2 0.01
22 30 0.22
23 17 0.12
24 6 0.04
25 63 0.46
26 20 0.14
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.58
Consensus pattern (25 bp):
TTAATATTATATTATGTATATATAT
Found at i:59167628 original size:98 final size:94
Alignment explanation
Indices: 59167429--59167645 Score: 228
Period size: 98 Copynumber: 2.3 Consensus size: 94
59167419 TTTTTTTTGT
*
59167429 TATTAT-TATATTTC-TTAATATTATATTATATATATTCTTTTAATATATTAGGTATATTTTAAA
1 TATTATGTATATATCTTTAATATTATATTATATATATTCTTTTAATATATTAGGTATATTTTAAA
*
59167492 TTTTATATTACGTATATATATTTTATACTA
66 -TTTATATTACGTATATATATTTTACACTA
* * * * *
59167522 TTTTATGTATATATCTTTAATATTATATTATTTATATATTTTTTTATGTTATCTTATGTATATAT
1 TATTATGTATATATCTTTAATATTATATTA--TATATATTCTTTTA--ATATATTAGGTATAT-T
* *
59167587 CTT-AA-TTATATTATGTATGTAT-TTTTAACACTA
61 -TTAAATTTATATTACGTATATATATTTT-ACACTA
* *
59167620 TATTATGTACATATTTTTAATATTAT
1 TATTATGTATATATCTTTAATATTAT
59167646 TACGTATTTT
Statistics
Matches: 103, Mismatches: 12, Indels: 13
0.80 0.09 0.10
Matches are distributed among these distances:
93 5 0.05
94 7 0.07
95 14 0.14
97 17 0.17
98 43 0.42
99 12 0.12
100 3 0.03
101 2 0.02
ACGTcount: A:0.33, C:0.05, G:0.04, T:0.58
Consensus pattern (94 bp):
TATTATGTATATATCTTTAATATTATATTATATATATTCTTTTAATATATTAGGTATATTTTAAA
TTTATATTACGTATATATATTTTACACTA
Found at i:59167655 original size:19 final size:20
Alignment explanation
Indices: 59167619--59167674 Score: 69
Period size: 19 Copynumber: 2.8 Consensus size: 20
59167609 TTTTAACACT
59167619 ATATTATGTACATATTTTTA
1 ATATTATGTACATATTTTTA
* *
59167639 ATATTAT-TACGTATTTTTT
1 ATATTATGTACATATTTTTA
*
59167658 TTATATATGTACATATT
1 ATAT-TATGTACATATT
59167675 GATGTAGTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
19 13 0.43
20 10 0.33
21 7 0.23
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.57
Consensus pattern (20 bp):
ATATTATGTACATATTTTTA
Found at i:59167824 original size:7 final size:8
Alignment explanation
Indices: 59167796--59167829 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
59167786 TATTATTCTA
59167796 ATATTTTG
1 ATATTTTG
59167804 ATATTTTG
1 ATATTTTG
59167812 ATATTTT-
1 ATATTTTG
59167819 ATATTTT-
1 ATATTTTG
59167826 ATAT
1 ATAT
59167830 CTTTTATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 11 0.42
8 15 0.58
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (8 bp):
ATATTTTG
Found at i:59167837 original size:14 final size:15
Alignment explanation
Indices: 59167796--59167829 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
59167786 TATTATTCTA
59167796 ATATTTTGATATTTTG
1 ATATTTT-ATATTTTG
59167812 ATATTTTATATTTT-
1 ATATTTTATATTTTG
59167826 ATAT
1 ATAT
59167830 CTTTTATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.22
15 7 0.39
16 7 0.39
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (15 bp):
ATATTTTATATTTTG
Found at i:59176430 original size:11 final size:11
Alignment explanation
Indices: 59176416--59176463 Score: 60
Period size: 11 Copynumber: 4.4 Consensus size: 11
59176406 ATATTCAAAC
*
59176416 AATAATAATAA
1 AATAATAGTAA
*
59176427 AATAGTAGTAA
1 AATAATAGTAA
*
59176438 AATAATAGTGA
1 AATAATAGTAA
*
59176449 AATGATAGTAA
1 AATAATAGTAA
59176460 AATA
1 AATA
59176464 GTGAGAAAAC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.60, C:0.00, G:0.12, T:0.27
Consensus pattern (11 bp):
AATAATAGTAA
Found at i:59176934 original size:26 final size:25
Alignment explanation
Indices: 59176905--59176970 Score: 66
Period size: 26 Copynumber: 2.6 Consensus size: 25
59176895 CAATAAATTT
59176905 TATTGTTAATAAGTATTTGAATTAAA
1 TATTGTTAATAAGTATTTGAATT-AA
* *
59176931 TATTGAATAATAA-TATTTTAATTAA
1 TATTG-TTAATAAGTATTTGAATTAA
59176956 TAATT-TTAA-AAGTAT
1 T-ATTGTTAATAAGTAT
59176971 CATTTTTATT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
23 2 0.06
24 6 0.18
25 3 0.09
26 17 0.50
27 6 0.18
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (25 bp):
TATTGTTAATAAGTATTTGAATTAA
Found at i:59177158 original size:3 final size:3
Alignment explanation
Indices: 59177146--59177182 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
59177136 AAGTTACCTT
59177146 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
59177183 CTTTCAGTAC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:59177569 original size:23 final size:21
Alignment explanation
Indices: 59177527--59177569 Score: 50
Period size: 23 Copynumber: 2.0 Consensus size: 21
59177517 ACAATAATTA
**
59177527 TTATTTTCTTTAACTTTTTTT
1 TTATTTTCTTTAACAATTTTT
59177548 TTATTTTACATTTAACAATTTT
1 TTATTTT-C-TTTAACAATTTT
59177570 AGTTATCAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 7 0.39
22 1 0.06
23 10 0.56
ACGTcount: A:0.23, C:0.09, G:0.00, T:0.67
Consensus pattern (21 bp):
TTATTTTCTTTAACAATTTTT
Found at i:59177687 original size:15 final size:15
Alignment explanation
Indices: 59177667--59177696 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
59177657 ATAATTGATG
59177667 CAATTAACTCAAAAA
1 CAATTAACTCAAAAA
59177682 CAATTAACTCAAAAA
1 CAATTAACTCAAAAA
59177697 AAGCTTACTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.20, G:0.00, T:0.20
Consensus pattern (15 bp):
CAATTAACTCAAAAA
Found at i:59178583 original size:26 final size:26
Alignment explanation
Indices: 59178547--59178630 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
59178537 TGATACAAAT
*
59178547 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
59178573 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
59178599 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
59178625 TGATAA
1 TGATAA
59178631 GAATTTTATG
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:0.35, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:59180285 original size:27 final size:27
Alignment explanation
Indices: 59180246--59180348 Score: 107
Period size: 27 Copynumber: 3.8 Consensus size: 27
59180236 AAGCGTTCTG
*
59180246 GTGGCTATGCCACAAATATCTGACCTA
1 GTGGCTCTGCCACAAATATCTGACCTA
* * *
59180273 GTGGCTCTACCACAAATATCTGATCTG
1 GTGGCTCTGCCACAAATATCTGACCTA
* * ** *
59180300 GTGGCTCTGCCACATATATTTGTTCTG
1 GTGGCTCTGCCACAAATATCTGACCTA
* *
59180327 GTGGCTCTGCCACGATTATCTG
1 GTGGCTCTGCCACAAATATCTG
59180349 TATCTGGTGA
Statistics
Matches: 64, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 64 1.00
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.32
Consensus pattern (27 bp):
GTGGCTCTGCCACAAATATCTGACCTA
Found at i:59180331 original size:54 final size:55
Alignment explanation
Indices: 59180242--59180381 Score: 167
Period size: 54 Copynumber: 2.6 Consensus size: 55
59180232 GAGGAAGCGT
* * ** *
59180242 TCTGGTGGCTATGCCACAAATATCTGACCTAGTGGCTCTACCACAAATATCTG-A
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTACCACAAATATCTGTA
* * * *
59180296 TCTGGTGGCTCTGCCACATATATTTGTTCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTACCACAAATATCTGTA
* *
59180351 TCTGGTGACTCTGTCACAT-TATCTGTTCTGG
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGG
59180382 CAGCCATGCT
Statistics
Matches: 73, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
54 55 0.75
55 18 0.25
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.35
Consensus pattern (55 bp):
TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTACCACAAATATCTGTA
Found at i:59180467 original size:19 final size:22
Alignment explanation
Indices: 59180443--59180482 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
59180433 CTCCCCACAC
59180443 GGTGTA-A-GGTTGG-TATGGG
1 GGTGTATACGGTTGGATATGGG
59180462 GGTGTATACGGTTGGATATGG
1 GGTGTATACGGTTGGATATGG
59180483 TTGGGTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.17, C:0.03, G:0.47, T:0.33
Consensus pattern (22 bp):
GGTGTATACGGTTGGATATGGG
Found at i:59182197 original size:40 final size:40
Alignment explanation
Indices: 59182153--59182233 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
59182143 TGGGAACTGT
59182153 TTAAGATGGCCTTTAAAGGGAAGTATGTTGGGGCGAGTTA
1 TTAAGATGGCCTTTAAAGGGAAGTATGTTGGGGCGAGTTA
59182193 TTAAGATGGCCTTTAAAGGGAAGTATGTTGGGGCGAGTTA
1 TTAAGATGGCCTTTAAAGGGAAGTATGTTGGGGCGAGTTA
59182233 T
1 T
59182234 GTAGACGCCC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.27, C:0.07, G:0.35, T:0.31
Consensus pattern (40 bp):
TTAAGATGGCCTTTAAAGGGAAGTATGTTGGGGCGAGTTA
Found at i:59185473 original size:46 final size:46
Alignment explanation
Indices: 59185421--59185595 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
59185411 TGTAACCCGC
*
59185421 CCATAAGTGAACTCGGACTCAAATCAACGAGCTCGGGTGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCACAT
59185467 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G--T-GTTCACAT
* * * ** *
59185517 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCACAT
*
59185560 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
59185596 ATGCTCAACC
Statistics
Matches: 111, Mismatches: 9, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 1 0.01
45 3 0.03
46 63 0.57
47 27 0.24
48 3 0.03
49 1 0.01
50 5 0.05
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCACAT
Found at i:59185544 original size:93 final size:93
Alignment explanation
Indices: 59185429--59185599 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
59185419 GCCCATAAGT
**
59185429 GAACTCGGACTCAAATCAACGAGCTCGGGTGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAAATCAACGAGCTCGGGCATTCACATCCATAAGTGAACTCGGACTCAACTCAA
59185494 CGAGCTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
* * *
59185522 GAACTCGGACTCAACTCAACGAGTTCGGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAAATCAACGAGCTCGGGCATTCACATCCATAAGTGAACTCGGACTCAACTCAA
*
59185587 CGAGTTCGGATGC
66 CGAGCTCGGATGC
59185600 TCAACCATCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAAATCAACGAGCTCGGGCATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:59188178 original size:26 final size:26
Alignment explanation
Indices: 59188142--59188277 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
59188132 TGATACAAAT
59188142 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
59188168 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
59188194 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
59188220 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
59188246 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
59188272 TGATAA
1 TGATAA
59188278 GAATTTCATG
Statistics
Matches: 108, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 108 1.00
ACGTcount: A:0.34, C:0.06, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:59189940 original size:27 final size:27
Alignment explanation
Indices: 59189897--59190036 Score: 158
Period size: 27 Copynumber: 5.2 Consensus size: 27
59189887 GAGGAAGCGT
*
59189897 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
*
59189924 -CTTGGTGGCTCTACCACAAATATCTGA
1 TC-TGGTGGCTCTGCCACAAATATCTGA
* *
59189951 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
59189978 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
59190006 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
59190032 TCTGG
1 TCTGG
59190037 CAGCCATGCT
Statistics
Matches: 98, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
26 6 0.06
27 76 0.78
28 16 0.16
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:59189984 original size:54 final size:55
Alignment explanation
Indices: 59189897--59190036 Score: 178
Period size: 54 Copynumber: 2.6 Consensus size: 55
59189887 GAGGAAGCGT
* * *
59189897 TCTGGTGGCTATGCCACAAATATCTG-ACTTGGTGGCTCTACCACAAATATCTG-A
1 TCTGGTGGCTCTGCCACATATATCTGTTC-TGGTGGCTCTACCACAAATATCTGTA
* * *
59189951 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTACCACAAATATCTGTA
* *
59190006 TCTGGTGACTCTGTCACAT-TATCTGTTCTGG
1 TCTGGTGGCTCTGCCACATATATCTGTTCTGG
59190037 CAGCCATGCT
Statistics
Matches: 76, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
54 57 0.75
55 19 0.25
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (55 bp):
TCTGGTGGCTCTGCCACATATATCTGTTCTGGTGGCTCTACCACAAATATCTGTA
Found at i:59190122 original size:19 final size:22
Alignment explanation
Indices: 59190098--59190137 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
59190088 CTCCCCACAC
59190098 GGTGTA-A-GGTTGG-TATGGG
1 GGTGTATACGGTTGGATATGGG
59190117 GGTGTATACGGTTGGATATGG
1 GGTGTATACGGTTGGATATGG
59190138 TTGGGTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.17, C:0.03, G:0.47, T:0.33
Consensus pattern (22 bp):
GGTGTATACGGTTGGATATGGG
Found at i:59191767 original size:28 final size:28
Alignment explanation
Indices: 59191725--59191813 Score: 90
Period size: 30 Copynumber: 3.0 Consensus size: 28
59191715 AATGATAAAA
59191725 AATAAAAATCAATAAAAATTATTAAATTTT
1 AATAAAAAT--ATAAAAATTATTAAATTTT
*
59191755 AATAAAAATATAAAAAATATTAAAATTTT
1 AATAAAAATATAAAAATTATT-AAATTTT
* * *
59191784 ATTTAAAAACTTTAAAAATTA-TAATTTTT
1 A-ATAAAAA-TATAAAAATTATTAAATTTT
59191813 A
1 A
59191814 TAACTTTTAT
Statistics
Matches: 51, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
28 11 0.22
29 15 0.29
30 16 0.31
31 9 0.18
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.39
Consensus pattern (28 bp):
AATAAAAATATAAAAATTATTAAATTTT
Found at i:59191792 original size:30 final size:28
Alignment explanation
Indices: 59191725--59191784 Score: 84
Period size: 28 Copynumber: 2.0 Consensus size: 28
59191715 AATGATAAAA
*
59191725 AATAAAAATCAATAAAAATTATTAAATTTT
1 AATAAAAAT--ATAAAAAATATTAAATTTT
59191755 AATAAAAATATAAAAAATATTAAAATTTT
1 AATAAAAATATAAAAAATATT-AAATTTT
59191784 A
1 A
59191785 TTTAAAAACT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 11 0.39
29 8 0.29
30 9 0.32
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (28 bp):
AATAAAAATATAAAAAATATTAAATTTT
Found at i:59191812 original size:29 final size:29
Alignment explanation
Indices: 59191726--59191815 Score: 94
Period size: 29 Copynumber: 3.0 Consensus size: 29
59191716 ATGATAAAAA
59191726 ATAAAAATCAATAAAAATTATTAAATTTTA-
1 ATAAAAAT--ATAAAAATTATTAAATTTTAT
*
59191756 ATAAAAATATAAAAAATATTAAAATTTTAT
1 ATAAAAATATAAAAATTATT-AAATTTTAT
* * *
59191786 TTAAAAACTTTAAAAATTA-TAATTTTTAT
1 ATAAAAA-TATAAAAATTATTAAATTTTAT
59191815 A
1 A
59191816 ACTTTTATTG
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
28 11 0.22
29 16 0.31
30 15 0.29
31 9 0.18
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (29 bp):
ATAAAAATATAAAAATTATTAAATTTTAT
Found at i:59193366 original size:10 final size:10
Alignment explanation
Indices: 59193344--59193413 Score: 56
Period size: 10 Copynumber: 6.9 Consensus size: 10
59193334 CAAAATTTAT
59193344 ATTTTATAAAA
1 ATTTTA-AAAA
59193355 ATTTTAAAAA
1 ATTTTAAAAA
*
59193365 ATTTCAAAAAAA
1 ATTT--TAAAAA
*
59193377 ATTATAAAAA
1 ATTTTAAAAA
*
59193387 A--GT-AAAA
1 ATTTTAAAAA
59193394 ATTTTAAAAA
1 ATTTTAAAAA
59193404 ATTTCTAAAA
1 ATTT-TAAAA
59193414 TAATAACTTT
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
7 5 0.10
8 1 0.02
9 1 0.02
10 22 0.46
11 11 0.23
12 8 0.17
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.34
Consensus pattern (10 bp):
ATTTTAAAAA
Found at i:59194655 original size:17 final size:18
Alignment explanation
Indices: 59194623--59194667 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 18
59194613 TATAAAATTT
*
59194623 TTATTATATTTTTTAAAA
1 TTATTATATATTTTAAAA
59194641 TTATT-TATATTTTAAAA
1 TTATTATATATTTTAAAA
59194658 -T-TTATATATT
1 TTATTATATATT
59194668 ATTATTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 2 0.08
16 7 0.28
17 11 0.44
18 5 0.20
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TTATTATATATTTTAAAA
Found at i:59198837 original size:21 final size:21
Alignment explanation
Indices: 59198806--59198853 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
59198796 AATATAACAT
* *
59198806 CAATAATTTTAAGATATAATTA
1 CAAT-ATTTTAAAATATAAGTA
*
59198828 CAATATTTTAAAATTTAAGTA
1 CAATATTTTAAAATATAAGTA
59198849 CAATA
1 CAATA
59198854 CTAAAAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 19 0.83
22 4 0.17
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (21 bp):
CAATATTTTAAAATATAAGTA
Found at i:59200026 original size:39 final size:39
Alignment explanation
Indices: 59199979--59200069 Score: 128
Period size: 39 Copynumber: 2.3 Consensus size: 39
59199969 AAAAGGTTGC
* * *
59199979 GATCGTAAATCAGCGGACCATGAGAAAGCCAAAGGTCGT
1 GATCGTAAATCAGCGAACCATAAGAAAGCCAAAGGTCAT
* * *
59200018 GATTGTAAATCAGCGAACCATAATAAAGCCAAATGTCAT
1 GATCGTAAATCAGCGAACCATAAGAAAGCCAAAGGTCAT
59200057 GATCGTAAATCAG
1 GATCGTAAATCAG
59200070 TGACCCGCGA
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.40, C:0.19, G:0.22, T:0.20
Consensus pattern (39 bp):
GATCGTAAATCAGCGAACCATAAGAAAGCCAAAGGTCAT
Found at i:59200176 original size:93 final size:92
Alignment explanation
Indices: 59200009--59200294 Score: 394
Period size: 93 Copynumber: 3.1 Consensus size: 92
59199999 TGAGAAAGCC
* * * * * **
59200009 AAAGGTCGTGATTGTAAATCAGCGAACCATAATAAAGCCAAATGTCATGATCGTAAATCAGTGAC
1 AAAGGTCGTGATTGTAAATCAACGGACCATAAGAAAGCCAAAGGTCGTGATCGTAAATCAAAGA-
* *
59200074 CCGCGAGATTTATAAAATCCCGTAAGTA
65 CCGCAAGATTTGTAAAATCCCGTAAGTA
*
59200102 AAAGGTCGTGATTGTAAATCAACGGATCATAAGAAAGCCAAAGGTCGTGATCGTAAATCAACAGA
1 AAAGGTCGTGATTGTAAATCAACGGACCATAAGAAAGCCAAAGGTCGTGATCGTAAATCAA-AGA
*
59200167 CCGCAAGATTCGTAAAATCCCGTAAGTA
65 CCGCAAGATTTGTAAAATCCCGTAAGTA
* *
59200195 AAAGGTCGTAATTGTAAATCAACGGACCGTAAGAAAGCCAAAGGTCGTGATCGTAAATCGGAAA-
1 AAAGGTCGTGATTGTAAATCAACGGACCATAAGAAAGCCAAAGGTCGTGATCGTAAATC--AAAG
* *
59200259 ACTGCAAGATTTGTAAAATCCTGTAAGTA
64 ACCGCAAGATTTGTAAAATCCCGTAAGTA
59200288 AAAGGTC
1 AAAGGTC
59200295 ATAATCATAA
Statistics
Matches: 173, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
93 168 0.97
94 3 0.02
95 2 0.01
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.22
Consensus pattern (92 bp):
AAAGGTCGTGATTGTAAATCAACGGACCATAAGAAAGCCAAAGGTCGTGATCGTAAATCAAAGAC
CGCAAGATTTGTAAAATCCCGTAAGTA
Found at i:59200409 original size:54 final size:53
Alignment explanation
Indices: 59200265--59200475 Score: 237
Period size: 54 Copynumber: 4.0 Consensus size: 53
59200255 GAAAACTGCA
* * * * *
59200265 AGATTTGTAAAATCCTGTAAGTAAAAGGTCATAATCATAAATCAGCGGA-CACG
1 AGATTCGTAAAATCC-ATAAGTAAAAGGTCATGATCATAAATTAGCGGACCGCG
* *
59200318 AGATTCGTAAAATCAATAAATAAAAGGTCATGATCATAAATTAGCGGACCGCG
1 AGATTCGTAAAATCCATAAGTAAAAGGTCATGATCATAAATTAGCGGACCGCG
* ** * * *
59200371 AGATTCATAAAATCTCATAAGTAAAAGGTTGTGATCATAATTTAACGGACTGCG
1 AGATTCGTAAAATC-CATAAGTAAAAGGTCATGATCATAAATTAGCGGACCGCG
* * *
59200425 AGATTCGTAAAATCCCATAAGTAAAAGATCGTGATC-TAAATTAGTGGACCG
1 AGATTCGTAAAAT-CCATAAGTAAAAGGTCATGATCATAAATTAGCGGACCG
59200476 TAAGAAAGCC
Statistics
Matches: 133, Mismatches: 22, Indels: 6
0.83 0.14 0.04
Matches are distributed among these distances:
52 29 0.22
53 40 0.30
54 63 0.47
55 1 0.01
ACGTcount: A:0.41, C:0.15, G:0.19, T:0.26
Consensus pattern (53 bp):
AGATTCGTAAAATCCATAAGTAAAAGGTCATGATCATAAATTAGCGGACCGCG
Found at i:59200583 original size:78 final size:78
Alignment explanation
Indices: 59200485--59200635 Score: 221
Period size: 78 Copynumber: 1.9 Consensus size: 78
59200475 GTAAGAAAGC
* * *
59200485 CAAAAGTCATGATTGTAAATCAGCAGACCCCGAGATTCATAAAATCCTGTAAGTAAAAGGTCATG
1 CAAAAGTCATGACTATAAATCAGCAGACCCCGAGATTCATAAAATCCCGTAAGTAAAAGGTCATG
59200550 ATCGTAAAAAACT
66 ATCGTAAAAAACT
* ** * * *
59200563 CAAAGGTCATGACTATAAATCAGTGGACCGCGAGATTCGTAAAATCCCGTAAGTAAAAGGTTATG
1 CAAAAGTCATGACTATAAATCAGCAGACCCCGAGATTCATAAAATCCCGTAAGTAAAAGGTCATG
59200628 ATCGTAAA
66 ATCGTAAA
59200636 CTAGCAGACC
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
78 64 1.00
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.23
Consensus pattern (78 bp):
CAAAAGTCATGACTATAAATCAGCAGACCCCGAGATTCATAAAATCCCGTAAGTAAAAGGTCATG
ATCGTAAAAAACT
Found at i:59200880 original size:42 final size:41
Alignment explanation
Indices: 59200777--59200897 Score: 120
Period size: 42 Copynumber: 3.0 Consensus size: 41
59200767 TAAAAGGTCG
** *
59200777 TGATCGTAAATCAACAGACCGTAAGAAAGTCAAA--GGTTA
1 TGATCGTAAATCAGTAGACCATAAGAAAGTCAAAGTGGTTA
* * * *
59200816 TGATCGTAAATTAGTGGTCCATAAGAAAGTCAAATGTGGTTG
1 TGATCGTAAATCAGTAGACCATAAGAAAGTCAAA-GTGGTTA
* * *
59200858 TGGTCGTAAATCAGTAGACCATAAAAAAGTCGAAGGTGGT
1 TGATCGTAAATCAGTAGACCATAAGAAAGTC-AAAGTGGT
59200898 CGTGAACATA
Statistics
Matches: 65, Mismatches: 13, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
39 28 0.43
42 35 0.54
43 2 0.03
ACGTcount: A:0.38, C:0.12, G:0.25, T:0.25
Consensus pattern (41 bp):
TGATCGTAAATCAGTAGACCATAAGAAAGTCAAAGTGGTTA
Found at i:59201950 original size:43 final size:43
Alignment explanation
Indices: 59201855--59201977 Score: 131
Period size: 43 Copynumber: 2.9 Consensus size: 43
59201845 ATCGAGATGT
* * * *
59201855 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
1 GATTACGTGTAAGACCATGTCTAGGACATTGGCATCGTAATGA
** *
59201898 GATTACGTGTAAGATAATGTCTAGGACATTGGCATCGTTAAT-C
1 GATTACGTGTAAGACCATGTCTAGGACATTGGCATCG-TAATGA
* * * *
59201941 GATTTCGTGTAAGACCCTGTCTAGGACAATGCCATCG
1 GATTACGTGTAAGACCATGTCTAGGACATTGGCATCG
59201978 ATATGCGTTA
Statistics
Matches: 66, Mismatches: 13, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
43 63 0.95
44 3 0.05
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (43 bp):
GATTACGTGTAAGACCATGTCTAGGACATTGGCATCGTAATGA
Found at i:59203892 original size:42 final size:42
Alignment explanation
Indices: 59203795--59204006 Score: 191
Period size: 42 Copynumber: 5.1 Consensus size: 42
59203785 GGTCATGGTT
* * * *
59203795 GTAAATTAGCAGACCATAAGAAAGTCGAA---GGTCGTAATC
1 GTAAATCAACAGACCATAAGAAAGCCGAAGGTGGTCGTGATC
* *
59203834 GTAAATCAGCAGACCATAAAAAAGCCGAAGGTGGTCGTGATC
1 GTAAATCAACAGACCATAAGAAAGCCGAAGGTGGTCGTGATC
* * *
59203876 GTAAATTAACAAACCATAAGAAAGCCGAAGGTGGTCATGATC
1 GTAAATCAACAGACCATAAGAAAGCCGAAGGTGGTCGTGATC
* * *
59203918 GTAAATCAACAGACTC-TATGAAAGTCAAAGGTGGTCGT-AGTC
1 GTAAATCAACAGAC-CATAAGAAAGCCGAAGGTGGTCGTGA-TC
* * ** ** * *
59203960 GTAAATCAGCAAATTATAAGAAAGAAGAAGGTGATCATGATC
1 GTAAATCAACAGACCATAAGAAAGCCGAAGGTGGTCGTGATC
59204002 GTAAA
1 GTAAA
59204007 CTAGTGGACC
Statistics
Matches: 141, Mismatches: 25, Indels: 11
0.80 0.14 0.06
Matches are distributed among these distances:
39 26 0.18
41 1 0.01
42 112 0.79
43 2 0.01
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (42 bp):
GTAAATCAACAGACCATAAGAAAGCCGAAGGTGGTCGTGATC
Found at i:59203955 original size:84 final size:84
Alignment explanation
Indices: 59203795--59204006 Score: 236
Period size: 84 Copynumber: 2.6 Consensus size: 84
59203785 GGTCATGGTT
* * * *
59203795 GTAAATTAGCAGACCATAAGAAAGTCGAAGGTCGT-A--ATCGTAAATCAGCAGACCATAAAAAA
1 GTAAATTAGCAAACCATAAGAAAGACGAAGGTGGTCATGATCGTAAATCAACAGACCATAAAAAA
*
59203857 GCCGAAGGTGGTCGT-GATC
66 GCCAAAGGTGGTCGTAG-TC
* * **
59203876 GTAAATTAACAAACCATAAGAAAGCCGAAGGTGGTCATGATCGTAAATCAACAGACTC-TATGAA
1 GTAAATTAGCAAACCATAAGAAAGACGAAGGTGGTCATGATCGTAAATCAACAGAC-CATAAAAA
*
59203940 AGTCAAAGGTGGTCGTAGTC
65 AGCCAAAGGTGGTCGTAGTC
* ** * *
59203960 GTAAATCAGCAAATTATAAGAAAGAAGAAGGTGATCATGATCGTAAA
1 GTAAATTAGCAAACCATAAGAAAGACGAAGGTGGTCATGATCGTAAA
59204007 CTAGTGGACC
Statistics
Matches: 110, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
81 31 0.28
82 1 0.01
84 76 0.69
85 2 0.02
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (84 bp):
GTAAATTAGCAAACCATAAGAAAGACGAAGGTGGTCATGATCGTAAATCAACAGACCATAAAAAA
GCCAAAGGTGGTCGTAGTC
Found at i:59204026 original size:84 final size:84
Alignment explanation
Indices: 59203831--59204052 Score: 234
Period size: 84 Copynumber: 2.6 Consensus size: 84
59203821 GAAGGTCGTA
* * * * *
59203831 ATCGTAAATCAGCAGACCATAAAAAAGCCGAAGGTGGTCGTGATCGTAAATTAACAAACCATAAG
1 ATCGTAAATCAACAGACCATAAAAAAGTCAAAGGTGGTCGTGATCGTAAATCAGCAAACCATAAG
** *
59203896 AAAGCCGAAGGTGGTCATG
66 AAAGAAGAAGGTGATCATG
** **
59203915 ATCGTAAATCAACAGACTC-TATGAAAGTCAAAGGTGGTCGT-AGTCGTAAATCAGCAAATTATA
1 ATCGTAAATCAACAGAC-CATAAAAAAGTCAAAGGTGGTCGTGA-TCGTAAATCAGCAAACCATA
59203978 AGAAAGAAGAAGGTGATCATG
64 AGAAAGAAGAAGGTGATCATG
*** * * *
59203999 ATCGTAAA-CTAGTGGACCATAAAAAAGTTAAAAGTAGTCGTGATCGTAAATCAG
1 ATCGTAAATC-AACAGACCATAAAAAAGTCAAAGGTGGTCGTGATCGTAAATCAG
59204053 TAGACCACGA
Statistics
Matches: 113, Mismatches: 20, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
83 3 0.03
84 108 0.96
85 2 0.02
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (84 bp):
ATCGTAAATCAACAGACCATAAAAAAGTCAAAGGTGGTCGTGATCGTAAATCAGCAAACCATAAG
AAAGAAGAAGGTGATCATG
Found at i:59204099 original size:54 final size:54
Alignment explanation
Indices: 59204039--59204218 Score: 207
Period size: 54 Copynumber: 3.3 Consensus size: 54
59204029 AAAGTAGTCG
* ** *
59204039 TGATCGTAAATCAGTAGACCACGAGATTTATAAAATCCCGTCTGTAAAAGGTCG
1 TGATCGTAAATCAATAGACCACGAGATTTATAAAATCCCGTAAGTAAAAGGTCA
* * *
59204093 TTATCGTAAATCAATAGACCACGAGATTTATAAAATCCCATAAGTAAAAGGACA
1 TGATCGTAAATCAATAGACCACGAGATTTATAAAATCCCGTAAGTAAAAGGTCA
* *** ** * **
59204147 TGATCGTAAATTAGCGGACTGCAAGATTCGTAAAATCCCGTAAGTAAAAGGTCA
1 TGATCGTAAATCAATAGACCACGAGATTTATAAAATCCCGTAAGTAAAAGGTCA
*
59204201 TAATCGTAAATCAATAGA
1 TGATCGTAAATCAATAGA
59204219 TCGTAAGAAA
Statistics
Matches: 102, Mismatches: 24, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
54 102 1.00
ACGTcount: A:0.41, C:0.17, G:0.18, T:0.25
Consensus pattern (54 bp):
TGATCGTAAATCAATAGACCACGAGATTTATAAAATCCCGTAAGTAAAAGGTCA
Found at i:59204373 original size:147 final size:147
Alignment explanation
Indices: 59204099--59204376 Score: 340
Period size: 147 Copynumber: 1.9 Consensus size: 147
59204089 GTCGTTATCG
* * * * *
59204099 TAAATCAATAGACCACGAGATTTATAAAATCCCATAAGTAAAAGGACATGATCGTAAATTAGCGG
1 TAAATCAACAGACCACGAGATTCATAAAATCCCATAAGTAAAAGGACATGATCATAAATCAACGG
* * * *
59204164 ACTGCAAGATTCGTAAAATCCCGTAAGTAAAAGGTCATAATCGTAAATCAATAGATCGTAAGAAA
66 ACTGCAAGATCCATAAAATCCCGTAAGTAAAAGGTCATAATCGTAAATCAATAGACCATAAGAAA
59204229 GCCAATGATTGTGACCA
131 GCCAATGATTGTGACCA
* * ** * * * *
59204246 TAAATCAGCAGACTACGAGATTCATAAAATCCTGTAAGTAAAATGTCGTGATCATAAATCAATGG
1 TAAATCAACAGACCACGAGATTCATAAAATCCCATAAGTAAAAGGACATGATCATAAATCAACGG
** ** * * *
59204311 ACTGTGAGATCCATAAAATCCCGTAAGTAAAAGGTTGTGATCGTTAATCAGTAGACCATAAGAAA
66 ACTGCAAGATCCATAAAATCCCGTAAGTAAAAGGTCATAATCGTAAATCAATAGACCATAAGAAA
59204376 G
131 G
59204377 TTGAAAGTAG
Statistics
Matches: 107, Mismatches: 24, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
147 107 1.00
ACGTcount: A:0.42, C:0.16, G:0.18, T:0.24
Consensus pattern (147 bp):
TAAATCAACAGACCACGAGATTCATAAAATCCCATAAGTAAAAGGACATGATCATAAATCAACGG
ACTGCAAGATCCATAAAATCCCGTAAGTAAAAGGTCATAATCGTAAATCAATAGACCATAAGAAA
GCCAATGATTGTGACCA
Found at i:59204590 original size:42 final size:42
Alignment explanation
Indices: 59204503--59204711 Score: 152
Period size: 42 Copynumber: 5.0 Consensus size: 42
59204493 TCAATAGACC
* * * * * **
59204503 ATAAAAAAGTCGAAGATAGCCGTGATCGTAAATTAACGGGTT
1 ATAAGAAAGTCGAAGGTAGTCGTGATCGTAAATCAGCGGACT
* * * *
59204545 ATAAGAAAGTCGAAGGTGGTCGTGATTGTAAATTAGTGGACT
1 ATAAGAAAGTCGAAGGTAGTCGTGATCGTAAATCAGCGGACT
* ** * * * * *
59204587 ATAAAAAAGTTAAAAGTGGTCGTGGTCATAAATCAGCAGACT
1 ATAAGAAAGTCGAAGGTAGTCGTGATCGTAAATCAGCGGACT
* * * *
59204629 ATAAGAAAGCCGAAGGTAGTCGTAATCGTAAACCA-CTGGACC
1 ATAAGAAAGTCGAAGGTAGTCGTGATCGTAAATCAGC-GGACT
* * *
59204671 ATAAGAAAG-CAGAAAGTAGTAGTGATCATAAATCAGCGGAC
1 ATAAGAAAGTC-GAAGGTAGTCGTGATCGTAAATCAGCGGAC
59204712 CGCGAGATTT
Statistics
Matches: 128, Mismatches: 36, Indels: 6
0.75 0.21 0.04
Matches are distributed among these distances:
41 2 0.02
42 125 0.98
43 1 0.01
ACGTcount: A:0.40, C:0.13, G:0.25, T:0.22
Consensus pattern (42 bp):
ATAAGAAAGTCGAAGGTAGTCGTGATCGTAAATCAGCGGACT
Found at i:59204669 original size:84 final size:84
Alignment explanation
Indices: 59204544--59204707 Score: 195
Period size: 84 Copynumber: 2.0 Consensus size: 84
59204534 ATTAACGGGT
* * * * ** * * * * *
59204544 TATAAGAAAGTCGAAGGTGGTCGTGATTGTAAATTAGTGGACTATAAAAAAGTTA-AAAGTGGTC
1 TATAAGAAAGCCGAAGGTAGTCGTAATCGTAAACCACTGGACCATAAAAAAG-CAGAAAGTAGTA
*
59204608 GTGGTCATAAATCAGCAGAC
65 GTGATCATAAATCAGCAGAC
*
59204628 TATAAGAAAGCCGAAGGTAGTCGTAATCGTAAACCACTGGACCATAAGAAAGCAGAAAGTAGTAG
1 TATAAGAAAGCCGAAGGTAGTCGTAATCGTAAACCACTGGACCATAAAAAAGCAGAAAGTAGTAG
59204693 TGATCATAAATCAGC
66 TGATCATAAATCAGC
59204708 GGACCGCGAG
Statistics
Matches: 66, Mismatches: 13, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
83 1 0.02
84 65 0.98
ACGTcount: A:0.40, C:0.13, G:0.24, T:0.23
Consensus pattern (84 bp):
TATAAGAAAGCCGAAGGTAGTCGTAATCGTAAACCACTGGACCATAAAAAAGCAGAAAGTAGTAG
TGATCATAAATCAGCAGAC
Found at i:59204774 original size:54 final size:54
Alignment explanation
Indices: 59204692--59204863 Score: 218
Period size: 54 Copynumber: 3.2 Consensus size: 54
59204682 GAAAGTAGTA
* * * * *
59204692 GTGATCATAAATCAGCGGACCGCGAGATTTGTAAAATCCCGTATGTAAAAGGTC
1 GTGATCGTAAATTAACGGACCGCGAGATTTGTAAAATCCCGTAAGTAAAAAGTC
* *
59204746 GTGATCGTAAATTAATGGACCGCGAGATTTGTAAAATCCCATAAGTAAAAAGTC
1 GTGATCGTAAATTAACGGACCGCGAGATTTGTAAAATCCCGTAAGTAAAAAGTC
* * * * * *
59204800 GTGATCGTAAATTAGCAGATCGCGAGATTCGTAAAATCCTGTAAGTAAAATGTC
1 GTGATCGTAAATTAACGGACCGCGAGATTTGTAAAATCCCGTAAGTAAAAAGTC
*
59204854 GTAATCGTAA
1 GTGATCGTAA
59204864 GAAAGCCAAT
Statistics
Matches: 102, Mismatches: 16, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 102 1.00
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (54 bp):
GTGATCGTAAATTAACGGACCGCGAGATTTGTAAAATCCCGTAAGTAAAAAGTC
Found at i:59204948 original size:54 final size:54
Alignment explanation
Indices: 59204885--59204999 Score: 149
Period size: 54 Copynumber: 2.1 Consensus size: 54
59204875 GTTGTGACCA
* * * * * *
59204885 TAAATCAACAGACCGCGAGATTTATAAAATCACGTAAGTAAAGGGTCGTGATTG
1 TAAATCAACAGACCGCAAGATCTATAAAATCACATAAGTAAAAGGTCATGATCG
* * *
59204939 TAAATCAACAGACCGTAAGATCTATAAAATCTCATAAGTAAAATGTCATGATCG
1 TAAATCAACAGACCGCAAGATCTATAAAATCACATAAGTAAAAGGTCATGATCG
59204993 TAAATCA
1 TAAATCA
59205000 GTAGACTATA
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.43, C:0.16, G:0.17, T:0.25
Consensus pattern (54 bp):
TAAATCAACAGACCGCAAGATCTATAAAATCACATAAGTAAAAGGTCATGATCG
Found at i:59210660 original size:5 final size:5
Alignment explanation
Indices: 59210650--59210677 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
59210640 GCAATTTGTG
59210650 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
59210678 GAATACACAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:59213954 original size:20 final size:21
Alignment explanation
Indices: 59213916--59213957 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
59213906 ATACATGGAA
*
59213916 TTAAAAAAAATAACTCTTAAT
1 TTAAAAAAAATAACACTTAAT
*
59213937 TTAAAGAAAATAA-ACTTAAT
1 TTAAAAAAAATAACACTTAAT
59213957 T
1 T
59213958 ATCTAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.57, C:0.07, G:0.02, T:0.33
Consensus pattern (21 bp):
TTAAAAAAAATAACACTTAAT
Found at i:59217470 original size:19 final size:18
Alignment explanation
Indices: 59217424--59217470 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 18
59217414 CATCCAAACA
59217424 CCAGAAAAGTAAATCATTT
1 CCAG-AAAGTAAATCATTT
*
59217443 CCATAAAAGTAAATCATTTT
1 CCA-GAAAGTAAATCA-TTT
59217463 CCAGAAAG
1 CCAGAAAG
59217471 CATTTAATTG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 18 0.75
20 6 0.25
ACGTcount: A:0.47, C:0.17, G:0.11, T:0.26
Consensus pattern (18 bp):
CCAGAAAGTAAATCATTT
Found at i:59240297 original size:20 final size:21
Alignment explanation
Indices: 59240265--59240322 Score: 82
Period size: 20 Copynumber: 2.7 Consensus size: 21
59240255 CTTCAATCTT
59240265 TCAATATTCTCTCAAATTTCTC
1 TCAA-ATTCTCTCAAATTTCTC
59240287 TCAAA-TCTCTCAAATTTCTC
1 TCAAATTCTCTCAAATTTCTC
*
59240307 TTAAATTTCTCTCAAA
1 TCAAA-TTCTCTCAAA
59240323 ACTCTCGTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 19 0.58
21 1 0.03
22 13 0.39
ACGTcount: A:0.31, C:0.26, G:0.00, T:0.43
Consensus pattern (21 bp):
TCAAATTCTCTCAAATTTCTC
Found at i:59240328 original size:11 final size:11
Alignment explanation
Indices: 59240271--59240322 Score: 81
Period size: 11 Copynumber: 4.9 Consensus size: 11
59240261 TCTTTCAATA
59240271 TTCTCTCAAAT
1 TTCTCTCAAAT
59240282 TTCTCTCAAA-
1 TTCTCTCAAAT
59240292 -TCTCTCAAAT
1 TTCTCTCAAAT
*
59240302 TTCTCTTAAAT
1 TTCTCTCAAAT
59240313 TTCTCTCAAA
1 TTCTCTCAAA
59240323 ACTCTCGTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
9 9 0.24
11 28 0.76
ACGTcount: A:0.29, C:0.27, G:0.00, T:0.44
Consensus pattern (11 bp):
TTCTCTCAAAT
Found at i:59240336 original size:22 final size:22
Alignment explanation
Indices: 59240271--59240333 Score: 58
Period size: 20 Copynumber: 2.9 Consensus size: 22
59240261 TCTTTCAATA
** *
59240271 TTCTCTCAAATTTCTCTCAAA-
1 TTCTCTCAAAACTCTCTTAAAT
**
59240292 -TCTCTCAAATTTCTCTTAAAT
1 TTCTCTCAAAACTCTCTTAAAT
59240313 TTCTCTCAAAACTCTCGTTAA
1 TTCTCTCAAAACTCTC-TTAA
59240334 TTTTTTCAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
20 19 0.53
22 13 0.36
23 4 0.11
ACGTcount: A:0.29, C:0.27, G:0.02, T:0.43
Consensus pattern (22 bp):
TTCTCTCAAAACTCTCTTAAAT
Found at i:59240378 original size:16 final size:15
Alignment explanation
Indices: 59240349--59240379 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
59240339 TCAAAAAAAC
*
59240349 TCTAATTTTATTTTT
1 TCTAAATTTATTTTT
59240364 TCTAAATTTATTTTT
1 TCTAAATTTATTTTT
59240379 T
1 T
59240380 AAAATAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (15 bp):
TCTAAATTTATTTTT
Found at i:59241467 original size:7 final size:7
Alignment explanation
Indices: 59241455--59241481 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
59241445 TAGTGGATTC
59241455 GTATTTA
1 GTATTTA
59241462 GTATTTA
1 GTATTTA
59241469 GTATTTA
1 GTATTTA
59241476 GTATTT
1 GTATTT
59241482 TTTATTTAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.26, C:0.00, G:0.15, T:0.59
Consensus pattern (7 bp):
GTATTTA
Found at i:59242112 original size:18 final size:18
Alignment explanation
Indices: 59242089--59242131 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
59242079 TGCCAGGTAC
*
59242089 GTATCCTAGCCCTTTTAT
1 GTATCCTAGCCCTTATAT
59242107 GTATCCTAGCCCTTATAT
1 GTATCCTAGCCCTTATAT
*
59242125 GTTTCCT
1 GTATCCT
59242132 TTTTCTAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.16, C:0.28, G:0.12, T:0.44
Consensus pattern (18 bp):
GTATCCTAGCCCTTATAT
Found at i:59242733 original size:116 final size:116
Alignment explanation
Indices: 59242519--59243129 Score: 1116
Period size: 116 Copynumber: 5.3 Consensus size: 116
59242509 TTGTACAAAT
*
59242519 ATTTTGAATA-TTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAATGTAATTGT
1 ATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAATTGT
59242583 AATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGCAAC
66 AATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGCAAC
*
59242634 ATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAATTAT
1 ATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAATTGT
59242699 AATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGCAAC
66 AATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGCAAC
59242750 ATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAATTGT
1 ATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAATTGT
*
59242815 AATTTACTTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAGGCAAC
66 AATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGCAAC
*
59242866 ATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAATGTTGTTTTAAATAAAGTAATTGT
1 ATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAATTGT
59242931 AATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGCAAC
66 AATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGCAAC
* * * *
59242982 ATTTTGAATATTTTTATATTATTTCATGTGATAATATAAAAGGTTGTTTTAAATAAAGTAATTAT
1 ATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAATTGT
* * *
59243047 AATTTACTTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAAGCAAT
66 AATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGCAAC
59243098 ATTTTGAATATTTTTATATTATTTCATGTAAT
1 ATTTTGAATATTTTTATATTATTTCATGTAAT
59243130 AAACTATAAA
Statistics
Matches: 480, Mismatches: 15, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
115 10 0.02
116 470 0.98
ACGTcount: A:0.40, C:0.03, G:0.09, T:0.48
Consensus pattern (116 bp):
ATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAATTGT
AATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGCAAC
Found at i:59243001 original size:55 final size:54
Alignment explanation
Indices: 59242590--59243117 Score: 324
Period size: 55 Copynumber: 9.2 Consensus size: 54
59242580 TGTAATTTAC
* *
59242590 TTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGCAACATTTTGAATAT
1 TTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAAGCAA-ATTTTGAATAT
* * * * *
59242645 TTTTATATTATTTCATGTAATTAGAT-AAAAGGTTGTTTTAAATAAAG-TAATTAT-AATTTAC
1 TTTTATATT-TTT-A-ATAA--A-ATGAAAA--TTATTTTAAATAAAGCAAATTTTGAA--TAT
* *
59242706 TTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGCAACATTTTGAATAT
1 TTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAAGCAA-ATTTTGAATAT
* * * * *
59242761 TTTTATATTATTTCATGTAATTAGAT-AAAAGGTTGTTTTAAATAAAG-TAATTGT-AATTTAC
1 TTTTATATT-TTT-A-ATAA--A-ATGAAAA--TTATTTTAAATAAAGCAAATTTTGAA--TAT
*
59242822 TTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAGGCAACATTTTGAATAT
1 TTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAAGCAA-ATTTTGAATAT
* * * * *
59242877 TTTTATATTATTTCATGTAATTAGAT-AAAATGTTGTTTTAAATAAAG-TAATTGT-AATTTAC
1 TTTTATATT-TTT-A-ATAA--A-ATGAAAA--TTATTTTAAATAAAGCAAATTTTGAA--TAT
* *
59242938 TTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGCAACATTTTGAATAT
1 TTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAAGCAA-ATTTTGAATAT
* * * * *
59242993 TTTTATATTATTTCATGTGATAATAT-AAAAGGTTGTTTTAAATAAAG-TAATTAT-AATTTAC
1 TTTTATATT-TTT-A----ATAAAATGAAAA--TTATTTTAAATAAAGCAAATTTTGAA--TAT
59243054 TTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAAGCAATATTTTGAATAT
1 TTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAAGCAA-ATTTTGAATAT
59243109 TTTTATATT
1 TTTTATATT
59243118 ATTTCATGTA
Statistics
Matches: 365, Mismatches: 52, Indels: 112
0.69 0.10 0.21
Matches are distributed among these distances:
54 53 0.15
55 69 0.19
56 45 0.12
57 12 0.03
58 18 0.05
59 12 0.03
60 44 0.12
61 60 0.16
62 52 0.14
ACGTcount: A:0.41, C:0.03, G:0.09, T:0.47
Consensus pattern (54 bp):
TTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAAGCAAATTTTGAATAT
Found at i:59246685 original size:126 final size:126
Alignment explanation
Indices: 59246139--59246677 Score: 774
Period size: 126 Copynumber: 4.3 Consensus size: 126
59246129 GCCCAAGTTA
* * * *
59246139 TTTCAGAAACCACTGTAGCAAAAAAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTACTGAAAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
* * **
59246204 TGCATCTTGTTTGAAGCGTTTTTGACACTATTTATGCAGACACGTCTTCTCAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
* * * *
59246265 TTTCAGAGACCACTGTAGCAAAAGAGCATCCACGTGGGAGCTTCTTCCAGTAATTTTGCTGAAAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
* *
59246330 TGCATCCTGCTTGAAGCGTTTTT-ACCACTATTTGCTCAAACACGTCTTCTCAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGA-CACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
* * * * * *
59246391 TTTCAGATACTATTGTAGCAAAAGAGCGTCTACGTGGAAGCTTCTTTCAATACTTTTGCTGACAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
* * * * *
59246456 TGCATCCTGCTTGAAGCGTTTTTTATACTATTTGCACAGACACGTTTTCTTAAAATTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
* * * * *
59246517 TTTCAGATACTACTGTAGCAAAAGAACGTCTACGTGGGAGCTTCTTTTAGTACTTTTGCTGACAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
*
59246582 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAATTTATTT
66 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
*
59246643 TTTCAGAGACTACTGTAGCAAAAGAGCATCCACGT
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGT
59246678 AGAAGCTTTT
Statistics
Matches: 369, Mismatches: 42, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
125 1 0.00
126 367 0.99
127 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.35
Consensus pattern (126 bp):
TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGAAAA
TGCATCCTGCTTGAAGCGTTTTTGACACTATTTGCGCAGACACGTCTTCTCAAAATTATTT
Found at i:59246936 original size:95 final size:98
Alignment explanation
Indices: 59246765--59246960 Score: 256
Period size: 95 Copynumber: 2.0 Consensus size: 98
59246755 TAAATACCCT
* * * * * **
59246765 AAAACCCTAAACTCTAAAATCCTAATATAATTTTTTCTAAATTTATAATTAATTTACTCAAGTAA
1 AAAACCATAAACACTAAAATCCTAATATAATTTTTTCTAAAATTATAATTAATGTAATCAACAAA
* *
59246830 CCCTAAACCCTAATTTATTTGATTTTTTCCTTA
66 CACTAAACCCTAATTTATTTAATTTTTTCCTTA
* *
59246863 AAAACCATAAACACT-AAA-CCATAATCTAA-TTTTT-TAAAATTATAATTAATGTAATTAACAA
1 AAAACCATAAACACTAAAATCC-TAATATAATTTTTTCTAAAATTATAATTAATGTAATCAACAA
59246924 ACACTAAACCCTAATTTATTTAATTTTTTCCTTA
65 ACACTAAACCCTAATTTATTTAATTTTTTCCTTA
59246958 AAA
1 AAA
59246961 CCCTAAAATT
Statistics
Matches: 86, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
95 56 0.65
96 7 0.08
97 10 0.12
98 13 0.15
ACGTcount: A:0.42, C:0.17, G:0.02, T:0.39
Consensus pattern (98 bp):
AAAACCATAAACACTAAAATCCTAATATAATTTTTTCTAAAATTATAATTAATGTAATCAACAAA
CACTAAACCCTAATTTATTTAATTTTTTCCTTA
Found at i:59248662 original size:31 final size:31
Alignment explanation
Indices: 59248624--59248685 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
59248614 CCGACAATGG
*
59248624 TTCAGGCACACCGATTGCATAGGGTACTTGA
1 TTCAGGCACACCGATTGCATAGGGCACTTGA
59248655 TTCAGGCACACCGATTGCATAGGGCACTTGA
1 TTCAGGCACACCGATTGCATAGGGCACTTGA
59248686 ATAATACAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (31 bp):
TTCAGGCACACCGATTGCATAGGGCACTTGA
Found at i:59255623 original size:14 final size:14
Alignment explanation
Indices: 59255600--59255629 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
59255590 TTGAAAATAT
59255600 GTTGAATTGGATTG
1 GTTGAATTGGATTG
*
59255614 GTTGATTTGGATTG
1 GTTGAATTGGATTG
59255628 GT
1 GT
59255630 CTCGATATAA
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:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (14 bp):
GTTGAATTGGATTG
Found at i:59255710 original size:6 final size:7
Alignment explanation
Indices: 59255690--59255719 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
59255680 GAGTTTTCCT
59255690 AATAAAA
1 AATAAAA
59255697 AATAAAA
1 AATAAAA
59255704 AATAAAA
1 AATAAAA
59255711 AATAAAA
1 AATAAAA
59255718 AA
1 AA
59255720 AATAAATTCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (7 bp):
AATAAAA
Found at i:59259792 original size:23 final size:24
Alignment explanation
Indices: 59259750--59259811 Score: 65
Period size: 23 Copynumber: 2.6 Consensus size: 24
59259740 ATACAGGTAT
*
59259750 ATACATGAAATATATGGAAAT-GATG
1 ATACATG--ATATATTGAAATGGATG
*
59259775 GTACATGATATATTGAAATGGATG
1 ATACATGATATATTGAAATGGATG
*
59259799 ATATATG-TATATT
1 ATACATGATATATT
59259812 ATGAAACTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
23 17 0.53
24 9 0.28
25 6 0.19
ACGTcount: A:0.42, C:0.03, G:0.19, T:0.35
Consensus pattern (24 bp):
ATACATGATATATTGAAATGGATG
Found at i:59262277 original size:17 final size:17
Alignment explanation
Indices: 59262255--59262307 Score: 70
Period size: 17 Copynumber: 3.1 Consensus size: 17
59262245 ACCCCTAACC
*
59262255 CATATCTATCGTTAGAA
1 CATATCTATCGTCAGAA
*
59262272 CATATCTGTCGTCAGAA
1 CATATCTATCGTCAGAA
* *
59262289 CATATCTGTCATCAGAA
1 CATATCTATCGTCAGAA
59262306 CA
1 CA
59262308 GGGTTTTAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 33 1.00
ACGTcount: A:0.34, C:0.23, G:0.13, T:0.30
Consensus pattern (17 bp):
CATATCTATCGTCAGAA
Found at i:59264770 original size:32 final size:32
Alignment explanation
Indices: 59264733--59264802 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
59264723 TATTATAAAA
59264733 TATCATAATACAAGTAATATTGATGTATTACT
1 TATCATAATACAAGTAATATTGATGTATTACT
59264765 TATCATAATACAAGTAATATTGATGTATTACT
1 TATCATAATACAAGTAATATTGATGTATTACT
59264797 TA-CATA
1 TATCATA
59264803 TAAACTTACA
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 4 0.11
32 34 0.89
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.40
Consensus pattern (32 bp):
TATCATAATACAAGTAATATTGATGTATTACT
Found at i:59265352 original size:30 final size:30
Alignment explanation
Indices: 59265317--59265377 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
59265307 TCCTTAACTC
*
59265317 AAACTTTTGCAAAATTAAAATTTTGCCCCT
1 AAACTTTTACAAAATTAAAATTTTGCCCCT
* * * *
59265347 AAACTTTTACATATTTACACTTTTGCCCCT
1 AAACTTTTACAAAATTAAAATTTTGCCCCT
59265377 A
1 A
59265378 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.23, G:0.05, T:0.39
Consensus pattern (30 bp):
AAACTTTTACAAAATTAAAATTTTGCCCCT
Found at i:59267724 original size:58 final size:57
Alignment explanation
Indices: 59267591--59267727 Score: 145
Period size: 58 Copynumber: 2.4 Consensus size: 57
59267581 TGTATACAAC
* * * *
59267591 AGGATTACTAGTCCAGGCTAAATCCCTTTATAACATATGCCCTAAGGAGCTTGATCT
1 AGGATTACCAGTCCAGGCTAAATCCATCTATAACATATGCCCGAAGGAGCTTGATCT
* * * *
59267648 -GGATTACCTGTCCTGGCTAAATCCAATCTATAACATATGCTCGAGAGGA-CTTTTAT-T
1 AGGATTACCAGTCCAGGCTAAATCC-ATCTATAACATATGCCCGA-AGGAGC-TTGATCT
*
59267705 AGGATTACCAGTCCGGGCTAAAT
1 AGGATTACCAGTCCAGGCTAAAT
59267728 TTTTTCATAA
Statistics
Matches: 66, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
56 21 0.32
57 17 0.26
58 28 0.42
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (57 bp):
AGGATTACCAGTCCAGGCTAAATCCATCTATAACATATGCCCGAAGGAGCTTGATCT
Found at i:59269249 original size:5 final size:6
Alignment explanation
Indices: 59269235--59269259 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
59269225 TGAAGGTAGG
59269235 AAAAGA AAAAGA AAAAGA AAAAGA A
1 AAAAGA AAAAGA AAAAGA AAAAGA A
59269260 TTAGTTATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:59269477 original size:44 final size:44
Alignment explanation
Indices: 59269416--59269505 Score: 162
Period size: 44 Copynumber: 2.0 Consensus size: 44
59269406 CCTGATCTAC
*
59269416 ACACATACCATGCAATAAGAAGACATCTCTTGGATTTTATTGCT
1 ACACATACCATGCAATAAGAAGACATCTCTTGGATTTTATTACT
*
59269460 ACACATAGCATGCAATAAGAAGACATCTCTTGGATTTTATTACT
1 ACACATACCATGCAATAAGAAGACATCTCTTGGATTTTATTACT
59269504 AC
1 AC
59269506 TAAGAACAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.31
Consensus pattern (44 bp):
ACACATACCATGCAATAAGAAGACATCTCTTGGATTTTATTACT
Found at i:59271912 original size:46 final size:46
Alignment explanation
Indices: 59271859--59272032 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 46
59271849 TATTTGGGCA
*
59271859 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATAGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAGCG
* * * *
59271905 TCCGAACTCGTTGAGTTGAGTCCGAGTT--C-GAGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATG---CGA-GCG
* * * *
59271952 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAGCG
*
59271998 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTAT
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTAT
59272033 GGGCGGGTTA
Statistics
Matches: 107, Mismatches: 13, Indels: 16
0.79 0.10 0.12
Matches are distributed among these distances:
43 6 0.06
44 1 0.01
45 2 0.02
46 62 0.58
47 30 0.28
49 1 0.01
50 5 0.05
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGCGAGCG
Found at i:59272014 original size:93 final size:93
Alignment explanation
Indices: 59271855--59272026 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
59271845 GGGATATTTG
*
59271855 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATAGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGTCCGAACTCGTTGAG
59271920 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * * * *
59271948 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG-CCTGAGCTCGTTGA
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGTCC-GAACTCGTTGA
59272012 GTTGAGTCCGAGTTC
65 GTTGAGTCCGAGTTC
59272027 ACTTATGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATAGATGCGAACGTCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:59274017 original size:6 final size:6
Alignment explanation
Indices: 59274006--59274045 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
59273996 AATAAAGATT
59274006 AATAAA AAT-AA AATAAA TGAATAAA AATAAA AATAAA AAT
1 AATAAA AATAAA AATAAA --AATAAA AATAAA AATAAA AAT
59274046 GAAACATAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
5 5 0.16
6 20 0.65
8 6 0.19
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.20
Consensus pattern (6 bp):
AATAAA
Found at i:59276906 original size:17 final size:17
Alignment explanation
Indices: 59276886--59276918 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
59276876 AACTTTCATT
59276886 TCATTTCTCAT-TTCTTC
1 TCATTT-TCATATTCTTC
59276903 TCATTTTCATATTCTT
1 TCATTTTCATATTCTT
59276919 TTAGCAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.15, C:0.24, G:0.00, T:0.61
Consensus pattern (17 bp):
TCATTTTCATATTCTTC
Found at i:59278494 original size:46 final size:46
Alignment explanation
Indices: 59278408--59278622 Score: 167
Period size: 46 Copynumber: 4.6 Consensus size: 46
59278398 GTCAAGTGCT
* * *
59278408 GATGCCATGTCCCAGACATGGTCTTACACT-G-ATACATCTCGTAGCT
1 GATG-CATGTCCTAGACAT-GTCTTACACTGGCTTACATCTCGTAGCC
*
59278454 GATGCATGTCCTAGACATGTCTTACACTGGCTTACGTCTCG-AGGCC
1 GATGCATGTCCTAGACATGTCTTACACTGGCTTACATCTCGTA-GCC
* * * * *
59278500 GATGCACGTCCTAGACATGTTTTACACTAGC--ACTTGTCTCAATA-CC
1 GATGCATGTCCTAGACATGTCTTACACTGGCTTAC--ATCTC-GTAGCC
* * *
59278546 GATGCCATGTCCTAGACATGGTCTTAGCACTGGCTCT-CATAAT-TTGGCC
1 GATG-CATGTCCTAGACAT-GTCTTA-CACTGGCT-TACAT-CTCGTAGCC
59278595 GATGCATGTCCTAGACATGTCTTACACT
1 GATGCATGTCCTAGACATGTCTTACACT
59278623 AGCTCACACA
Statistics
Matches: 139, Mismatches: 15, Indels: 30
0.76 0.08 0.16
Matches are distributed among these distances:
44 12 0.09
45 15 0.11
46 57 0.41
47 19 0.14
48 21 0.15
49 13 0.09
50 1 0.01
51 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (46 bp):
GATGCATGTCCTAGACATGTCTTACACTGGCTTACATCTCGTAGCC
Found at i:59281057 original size:13 final size:13
Alignment explanation
Indices: 59281039--59281090 Score: 52
Period size: 13 Copynumber: 3.8 Consensus size: 13
59281029 TACTTTAAAC
59281039 ATTATTATAACTA
1 ATTATTATAACTA
*
59281052 ATTATTCA-AACAAAA
1 ATTATT-ATAAC--TA
59281067 CATTATTATAACTA
1 -ATTATTATAACTA
59281081 ATTATTATAA
1 ATTATTATAA
59281091 TATAATATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
13 19 0.59
14 2 0.06
15 2 0.06
16 9 0.28
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (13 bp):
ATTATTATAACTA
Found at i:59285425 original size:73 final size:73
Alignment explanation
Indices: 59285288--59285426 Score: 197
Period size: 73 Copynumber: 1.9 Consensus size: 73
59285278 TCATTAAAAA
* * * * * *
59285288 AAACTTTATTCTTTTGTGACTAGTGACTTTGTCACAAACACTCAATATTTTTTGTGATATTTTTT
1 AAACTTTATTCTTTTGTGACTAGTAACTTTGTCACAAAAACTCAAAAATTTCTATGATATTTTTT
59285353 TTTCATAG
66 TTTCATAG
* *
59285361 AAACTTTATTCTTTTGTGACTATTAAGTTTGTCACAAAAACTCAAAAATTTCTATGATCATTTTT
1 AAACTTTATTCTTTTGTGACTAGTAACTTTGTCACAAAAACTCAAAAATTTCTATGAT-ATTTTT
59285426 T
65 T
59285427 GTCACAATAA
Statistics
Matches: 57, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
73 50 0.88
74 7 0.12
ACGTcount: A:0.29, C:0.14, G:0.09, T:0.47
Consensus pattern (73 bp):
AAACTTTATTCTTTTGTGACTAGTAACTTTGTCACAAAAACTCAAAAATTTCTATGATATTTTTT
TTTCATAG
Found at i:59289692 original size:37 final size:37
Alignment explanation
Indices: 59289642--59289720 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
59289632 TTATTACGAA
* * *
59289642 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
59289679 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
59289716 GTCTT
1 GTCTT
59289721 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:59289917 original size:47 final size:47
Alignment explanation
Indices: 59289839--59290275 Score: 759
Period size: 47 Copynumber: 9.3 Consensus size: 47
59289829 CCCTTCGGGA
* * * * * *
59289839 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
59289886 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59289933 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59289980 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59290027 C-TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59290073 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
59290122 CTTTTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59290169 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59290216 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59290263 CTTATCACATATA
1 CTTATCACATATA
59290276 CTTTCACGTA
Statistics
Matches: 373, Mismatches: 14, Indels: 6
0.95 0.04 0.02
Matches are distributed among these distances:
46 46 0.12
47 281 0.75
49 46 0.12
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:59290263 original size:236 final size:235
Alignment explanation
Indices: 59289839--59290275 Score: 777
Period size: 236 Copynumber: 1.9 Consensus size: 235
59289829 CCCTTCGGGA
* * *
59289839 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATTTATACACTTTCACATCCATCACATCGGCCACTAGGCCCTGTCACATATATACAC
*
59289904 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATACACTTTCACATTCATCACATC
59289969 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCC-TATCA
131 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
59290033 CATATATACACTTTCACATTCATCACATCGGCCATTAGGC
196 CATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
59290073 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTTTCACATATATAC
1 CTTATCACAT-T-TATACACTTTCACATCCATCACATCGGCCACTAGGCCCTGTCACATATATAC
59290138 ACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATACACTTTCACATTCATCACA
59290203 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
129 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
59290268 CACATATA
194 CACATATA
59290276 CTTTCACGTA
Statistics
Matches: 192, Mismatches: 8, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
234 10 0.05
235 1 0.01
236 170 0.89
237 11 0.06
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (235 bp):
CTTATCACATTTATACACTTTCACATCCATCACATCGGCCACTAGGCCCTGTCACATATATACAC
TTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
CATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:59293224 original size:40 final size:40
Alignment explanation
Indices: 59293180--59293611 Score: 675
Period size: 40 Copynumber: 10.8 Consensus size: 40
59293170 CCAGCATGAT
* * * *
59293180 TGCTCTTCGGGACCTAACCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
** *
59293220 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
59293260 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
59293300 TGCTCTTCGGGATTTAACCTGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
59293340 TGCTCTTCGGAACTTAGTCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
59293380 TGCTCTTCGGGACTTAGCCCCGATATATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
59293420 TGCTCTTCGGGACTTAGCCTGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
59293460 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
59293500 TGCTTTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
59293540 TGCTCTTTGGGACTTAGCCCAGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
59293580 TGCTCTTCGGGACTTAGCCCGGATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
59293612 CTCAATTCTC
Statistics
Matches: 354, Mismatches: 38, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 354 1.00
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.27
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:59294875 original size:37 final size:37
Alignment explanation
Indices: 59294825--59294903 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
59294815 TTATTACGAA
* * *
59294825 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
59294862 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
59294899 GTCTT
1 GTCTT
59294904 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:59295100 original size:47 final size:47
Alignment explanation
Indices: 59295022--59295459 Score: 768
Period size: 47 Copynumber: 9.3 Consensus size: 47
59295012 CCCTTCAGGA
* * * * * *
59295022 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
59295069 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59295116 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
59295163 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59295210 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59295257 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
59295304 CTTTTCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59295353 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59295400 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
59295447 CTTATCACATATA
1 CTTATCACATATA
59295460 CTTTCACGTA
Statistics
Matches: 375, Mismatches: 14, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
47 329 0.88
49 46 0.12
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:59295364 original size:143 final size:143
Alignment explanation
Indices: 59295022--59295459 Score: 767
Period size: 143 Copynumber: 3.1 Consensus size: 143
59295012 CCCTTCAGGA
* * * * * * *
59295022 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
59295085 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
59295150 TCGGCCATTAGGC
131 TCGGCCATTAGGC
*
59295163 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
59295226 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
59295291 TCGGCCATTAGGC
131 TCGGCCATTAGGC
*
59295304 CTTTTCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
59295369 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
59295434 TCGGCCATTAGGC
131 TCGGCCATTAGGC
59295447 CTTATCACATATA
1 CTTATCACATATA
59295460 CTTTCACGTA
Statistics
Matches: 282, Mismatches: 11, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
140 1 0.00
141 137 0.49
143 144 0.51
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (143 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:59297749 original size:44 final size:44
Alignment explanation
Indices: 59297697--59297981 Score: 381
Period size: 44 Copynumber: 6.5 Consensus size: 44
59297687 TTTCTTATTC
* *
59297697 TTAATTTAAAACACGTTAAATTATAATACAATATTCATGCATAT
1 TTAATTTAAAACACATTAAATTATAATACAATATACATGCATAT
* *
59297741 TAAATTTAAAACACATTAAATTATAATATAATATACATGCATAT
1 TTAATTTAAAACACATTAAATTATAATACAATATACATGCATAT
* * * * *
59297785 TTATTTTGAAACACATTAAATTATATTAGAATAGACATGCATAT
1 TTAATTTAAAACACATTAAATTATAATACAATATACATGCATAT
* * *
59297829 TTAATTTAAAACACATTAAATTCTAATAGAATATACATGCAAAT
1 TTAATTTAAAACACATTAAATTATAATACAATATACATGCATAT
* ** * *
59297873 TTAATTTAAAATATGTTAAATTATAATACAATAGACATACATAT
1 TTAATTTAAAACACATTAAATTATAATACAATATACATGCATAT
* *
59297917 TTATTTTAAAACACATTAAATTATAATACAATATACATACATAT
1 TTAATTTAAAACACATTAAATTATAATACAATATACATGCATAT
* *
59297961 TTATTTTGAAACACATTAAAT
1 TTAATTTAAAACACATTAAAT
59297982 ATATTAATTT
Statistics
Matches: 211, Mismatches: 30, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 211 1.00
ACGTcount: A:0.48, C:0.10, G:0.04, T:0.38
Consensus pattern (44 bp):
TTAATTTAAAACACATTAAATTATAATACAATATACATGCATAT
Found at i:59298481 original size:6 final size:6
Alignment explanation
Indices: 59298466--59298498 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
59298456 AATATAATTT
59298466 AAAT-G AAATGG AAATGG AAATGG AAATGG AAAT
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAAT
59298499 CAAAAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.15
6 23 0.85
ACGTcount: A:0.55, C:0.00, G:0.27, T:0.18
Consensus pattern (6 bp):
AAATGG
Found at i:59298709 original size:25 final size:26
Alignment explanation
Indices: 59298665--59298718 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
59298655 ATAAAATGAG
*
59298665 AAAATTTTTGAATTTAAATGGA-ATTT
1 AAAATTTTTGAAATTAAAT-GATATTT
*
59298691 AAAA-TTTTGAAATTGAATGATATTT
1 AAAATTTTTGAAATTAAATGATATTT
59298716 AAA
1 AAA
59298719 TTGAGAAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 2 0.08
25 19 0.76
26 4 0.16
ACGTcount: A:0.46, C:0.00, G:0.11, T:0.43
Consensus pattern (26 bp):
AAAATTTTTGAAATTAAATGATATTT
Found at i:59298905 original size:5 final size:5
Alignment explanation
Indices: 59298895--59298933 Score: 51
Period size: 5 Copynumber: 7.2 Consensus size: 5
59298885 AAAAAAAATT
59298895 AATGA AATGA AATGTTA AATGA ATATGA AATGA AATGA A
1 AATGA AATGA AATG--A AATGA A-ATGA AATGA AATGA A
59298934 TTTGTAATGA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
5 21 0.68
6 5 0.16
7 5 0.16
ACGTcount: A:0.56, C:0.00, G:0.18, T:0.26
Consensus pattern (5 bp):
AATGA
Found at i:59298926 original size:28 final size:29
Alignment explanation
Indices: 59298895--59298972 Score: 83
Period size: 27 Copynumber: 2.8 Consensus size: 29
59298885 AAAAAAAATT
59298895 AATGAAATGAAATGTT-AAATGAATATGA
1 AATGAAATGAAATGTTCAAATGAATATGA
** * *
59298923 AATGAAATG-AAT-TTGTAATGATTATGG
1 AATGAAATGAAATGTTCAAATGAATATGA
*
59298950 AATGGAATGAAA-GTTCAAATGAA
1 AATGAAATGAAATGTTCAAATGAA
59298973 AATAAATTAT
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
26 2 0.05
27 20 0.50
28 18 0.45
ACGTcount: A:0.49, C:0.01, G:0.21, T:0.29
Consensus pattern (29 bp):
AATGAAATGAAATGTTCAAATGAATATGA
Found at i:59298943 original size:16 final size:16
Alignment explanation
Indices: 59298895--59298934 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 16
59298885 AAAAAAAATT
59298895 AATGAA-ATGAAATGTTA
1 AATGAATATGAAATG--A
59298912 AATGAATATGAAATGA
1 AATGAATATGAAATGA
59298928 AATGAAT
1 AATGAAT
59298935 TTGTAATGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 8 0.36
17 6 0.27
18 8 0.36
ACGTcount: A:0.55, C:0.00, G:0.17, T:0.28
Consensus pattern (16 bp):
AATGAATATGAAATGA
Found at i:59299021 original size:18 final size:18
Alignment explanation
Indices: 59298987--59299021 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
59298977 AATTATAAAT
* *
59298987 TGAAGTGAAAACAAAAAC
1 TGAAATGAAAAAAAAAAC
59299005 TGAAATGAAAAAAAAAA
1 TGAAATGAAAAAAAAAA
59299022 TTGAGCTACT
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:0.06, G:0.14, T:0.11
Consensus pattern (18 bp):
TGAAATGAAAAAAAAAAC
Found at i:59299093 original size:21 final size:19
Alignment explanation
Indices: 59299045--59299102 Score: 71
Period size: 19 Copynumber: 2.9 Consensus size: 19
59299035 CATTAATATG
* * *
59299045 AAAAATATTGAAATGAGAA
1 AAAAAAATTTAAATGAAAA
59299064 AAAAAAATTTAAATGAAAA
1 AAAAAAATTTAAATGAAAA
59299083 AAAAACTAATTTAAATGAAA
1 AAAAA--AATTTAAATGAAA
59299103 TGGAAATAGA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 21 0.62
21 13 0.38
ACGTcount: A:0.67, C:0.02, G:0.09, T:0.22
Consensus pattern (19 bp):
AAAAAAATTTAAATGAAAA
Found at i:59299103 original size:5 final size:6
Alignment explanation
Indices: 59299095--59299142 Score: 59
Period size: 6 Copynumber: 8.7 Consensus size: 6
59299085 AAACTAATTT
*
59299095 AAAT-G AAATGG AAATAG AAATGG -AAT-G AAATGG AAATGG AAAT-G
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG AAATGG
59299139 AAAT
1 AAAT
59299143 AAAAAAAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
4 1 0.03
5 15 0.39
6 22 0.58
ACGTcount: A:0.56, C:0.00, G:0.25, T:0.19
Consensus pattern (6 bp):
AAATGG
Found at i:59299124 original size:22 final size:22
Alignment explanation
Indices: 59299096--59299138 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
59299086 AACTAATTTA
59299096 AATGAAATGGAAATAGAAATGG
1 AATGAAATGGAAATAGAAATGG
*
59299118 AATGAAATGGAAATGGAAATG
1 AATGAAATGGAAATAGAAATG
59299139 AAATAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.53, C:0.00, G:0.28, T:0.19
Consensus pattern (22 bp):
AATGAAATGGAAATAGAAATGG
Found at i:59301936 original size:89 final size:87
Alignment explanation
Indices: 59301713--59301955 Score: 254
Period size: 89 Copynumber: 2.7 Consensus size: 87
59301703 AGTACACAAC
* *
59301713 AAATTAAATTTATACATACAATAAAATACAAACATTCTAGAATATTAATACACAAAAATATAAAA
1 AAATTAAATTTAAACATACAAAAAAATACAAACATTCTAGAA-ATTAATACACAAAAATATAAAA
59301778 TTCAAACAAAAATAACACGCACT
65 TTCAAACAAAAATAACACGCACT
* * * * * ** * * *
59301801 AGATTAAATTTAAACACACAAGAAACTACAAATAGATGGGTA-AAATTAATAAACAAAAATTTTA
1 AAATTAAATTTAAACATACAAAAAAATAC-AA-ACAT-TCTAGAAATTAATACACAAAAATATAA
* * * *
59301865 AATTCAAACTACATATAATACGGACT
63 AATTCAAAC-AAAAATAACACGCACT
* * *
59301891 AAATTAAATTTACAGATACAAAAAAATACAAACATTCTAAGAAATTAATACACGAAAATATAAAA
1 AAATTAAATTTAAACATACAAAAAAATACAAACATTCT-AGAAATTAATACACAAAAATATAAAA
59301956 ATGAAACATT
Statistics
Matches: 121, Mismatches: 28, Indels: 11
0.76 0.17 0.07
Matches are distributed among these distances:
87 1 0.01
88 28 0.23
89 50 0.41
90 40 0.33
91 2 0.02
ACGTcount: A:0.57, C:0.13, G:0.05, T:0.25
Consensus pattern (87 bp):
AAATTAAATTTAAACATACAAAAAAATACAAACATTCTAGAAATTAATACACAAAAATATAAAAT
TCAAACAAAAATAACACGCACT
Found at i:59305856 original size:6 final size:7
Alignment explanation
Indices: 59305818--59305853 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
59305808 TTTTATTGTG
59305818 AAGGAAA
1 AAGGAAA
59305825 AAGGAAA
1 AAGGAAA
59305832 AAGGAAA
1 AAGGAAA
* *
59305839 AAAGAGA
1 AAGGAAA
59305846 AAGGAAA
1 AAGGAAA
59305853 A
1 A
59305854 GGAGCAGTAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (7 bp):
AAGGAAA
Found at i:59306480 original size:30 final size:30
Alignment explanation
Indices: 59306444--59306515 Score: 103
Period size: 30 Copynumber: 2.4 Consensus size: 30
59306434 AATTAATTAA
59306444 ATTTTAAAAT-ATTTTTTTATAATTTTAAAT
1 ATTTTAAAATAATTTTTTTA-AATTTTAAAT
* *
59306474 GTTTTAAAATAATTTTTTTAATTTTTAAAT
1 ATTTTAAAATAATTTTTTTAAATTTTAAAT
59306504 ATTTT-AAATAAT
1 ATTTTAAAATAAT
59306516 CAATTGTTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
29 7 0.18
30 22 0.58
31 9 0.24
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.58
Consensus pattern (30 bp):
ATTTTAAAATAATTTTTTTAAATTTTAAAT
Found at i:59309219 original size:40 final size:40
Alignment explanation
Indices: 59309154--59309298 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
59309144 GGTGTCAAAC
* * *
59309154 GCCACTATAAATAGAG-GTTAGCGGCGCTTTTTGAAAAAT
1 GCCACTATAGATCGAGCATTAGCGGCGCTTTTTGAAAAAT
59309193 GCCACTATAGATCGAGCATTAGCGGCGCTTTTTGAAAAAT
1 GCCACTATAGATCGAGCATTAGCGGCGCTTTTTGAAAAAT
* * * * *
59309233 GCCGCTATAGATCAAGCATTAGCGGCGTTTTTTAAAAAAC
1 GCCACTATAGATCGAGCATTAGCGGCGCTTTTTGAAAAAT
* * * *
59309273 ACCGCTATAGGTCGACCATTAGCGGC
1 GCCACTATAGATCGAGCATTAGCGGC
59309299 TGAAAAACGC
Statistics
Matches: 93, Mismatches: 12, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 14 0.15
40 79 0.85
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (40 bp):
GCCACTATAGATCGAGCATTAGCGGCGCTTTTTGAAAAAT
Found at i:59310781 original size:8 final size:8
Alignment explanation
Indices: 59310745--59310815 Score: 97
Period size: 8 Copynumber: 8.4 Consensus size: 8
59310735 TTTATATGTT
59310745 AATTTAAA
1 AATTTAAA
59310753 AATTATAAA
1 AATT-TAAA
59310762 AATCTTCAAAA
1 AAT-TT--AAA
*
59310773 AAATTAAA
1 AATTTAAA
59310781 AATTTAAA
1 AATTTAAA
59310789 AATTTAAA
1 AATTTAAA
59310797 AATTTAAA
1 AATTTAAA
59310805 AATTTAAA
1 AATTTAAA
59310813 AAT
1 AAT
59310816 AAAAAACTGA
Statistics
Matches: 57, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
8 41 0.72
9 8 0.14
10 3 0.05
11 5 0.09
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (8 bp):
AATTTAAA
Found at i:59310821 original size:16 final size:16
Alignment explanation
Indices: 59310769--59310821 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 16
59310759 AAAAATCTTC
59310769 AAAAAAA-TTAAAAAT
1 AAAAAAATTTAAAAAT
**
59310784 TTAAAAATTTAAAAAT
1 AAAAAAATTTAAAAAT
**
59310800 TTAAAAATTTAAAAAT
1 AAAAAAATTTAAAAAT
59310816 AAAAAA
1 AAAAAA
59310822 CTGAAAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
15 5 0.15
16 28 0.85
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
AAAAAAATTTAAAAAT
Found at i:59325159 original size:42 final size:43
Alignment explanation
Indices: 59325073--59325223 Score: 128
Period size: 42 Copynumber: 3.6 Consensus size: 43
59325063 ATAATTTTTT
* * *
59325073 TAAAGGTCATGTTCTTTAGTGGCGTTTGTGGCAAAAGCGTCGC
1 TAAAGGTCATGTTCTATAGCGGCGTTTGTGGCAAAAGCGCCGC
* * *
59325116 TAAAGGT-TTGTTCTATAGCGGCGTTTGTGAG-AACAGTGCCGC
1 TAAAGGTCATGTTCTATAGCGGCGTTTGTG-GCAAAAGCGCCGC
* * ** * * * * *
59325158 TAAAGGTCATGGTCTTTAGTTGCATTTTTGG-GAAAGCACCGT
1 TAAAGGTCATGTTCTATAGCGGCGTTTGTGGCAAAAGCGCCGC
*
59325200 TAAAGGTCATGTTCTTTAGCGGCG
1 TAAAGGTCATGTTCTATAGCGGCG
59325224 ATTTTTTTCA
Statistics
Matches: 84, Mismatches: 22, Indels: 5
0.76 0.20 0.05
Matches are distributed among these distances:
42 61 0.73
43 23 0.27
ACGTcount: A:0.22, C:0.16, G:0.29, T:0.33
Consensus pattern (43 bp):
TAAAGGTCATGTTCTATAGCGGCGTTTGTGGCAAAAGCGCCGC
Found at i:59327525 original size:101 final size:101
Alignment explanation
Indices: 59327415--59327602 Score: 250
Period size: 101 Copynumber: 1.9 Consensus size: 101
59327405 TACATTCGTA
* * * * *
59327415 GTGCCATAACTCAATTATCGTCTTATCATTAGAATGCCATAGCCTAGCTATGGTCTTACATATAA
1 GTGCCATAACCCAACTATCGTCTTATCATTAAAATGCCATAACCCAGCTATGGTCTTACATATAA
* *
59327480 ATACTGCCATAGTCCATCCATGATCTCACATTCAAG
66 ACACTGCCATAGTCCAACCATGATCTCACATTCAAG
** * * *
59327516 GTGCCATAACCCGGCTATGGTCTTTTCATTAAAATTCCATAACCCAGCTATGGTCTTACATATAA
1 GTGCCATAACCCAACTATCGTCTTATCATTAAAATGCCATAACCCAGCTATGGTCTTACATATAA
* *
59327581 ACACTGGCATGGTCCAACCATG
66 ACACTGCCATAGTCCAACCATG
59327603 GTCTTATCCT
Statistics
Matches: 73, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
101 73 1.00
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (101 bp):
GTGCCATAACCCAACTATCGTCTTATCATTAAAATGCCATAACCCAGCTATGGTCTTACATATAA
ACACTGCCATAGTCCAACCATGATCTCACATTCAAG
Found at i:59332498 original size:15 final size:15
Alignment explanation
Indices: 59332478--59332507 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
59332468 TTTCACTATC
*
59332478 ATGTCTTTTGTATTT
1 ATGTCTTTTATATTT
59332493 ATGTCTTTTATATTT
1 ATGTCTTTTATATTT
59332508 TGCATGCATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.07, G:0.10, T:0.67
Consensus pattern (15 bp):
ATGTCTTTTATATTT
Found at i:59333606 original size:13 final size:13
Alignment explanation
Indices: 59333588--59333612 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
59333578 GAATTGTTCA
59333588 ATTAAAGAATTTG
1 ATTAAAGAATTTG
59333601 ATTAAAGAATTT
1 ATTAAAGAATTT
59333613 TCTTGAAAAA
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:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (13 bp):
ATTAAAGAATTTG
Found at i:59334169 original size:18 final size:17
Alignment explanation
Indices: 59334134--59334226 Score: 68
Period size: 17 Copynumber: 5.5 Consensus size: 17
59334124 TTATTTTAAT
59334134 AATTTAATATTAAATTA
1 AATTTAATATTAAATTA
**
59334151 AATTTAATAATTATCTT-
1 AATTTAAT-ATTAAATTA
* *
59334168 AA--TAGTATTATATT-
1 AATTTAATATTAAATTA
* *
59334182 AGTTTAATATTAAAGTA
1 AATTTAATATTAAATTA
59334199 ATTATTTTAATATTAAATTA
1 A--A-TTTAATATTAAATTA
59334219 AATTTAAT
1 AATTTAAT
59334227 GTTTATCTTG
Statistics
Matches: 59, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
14 8 0.14
15 3 0.05
16 9 0.15
17 17 0.29
18 7 0.12
20 15 0.25
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.49
Consensus pattern (17 bp):
AATTTAATATTAAATTA
Found at i:59363107 original size:50 final size:50
Alignment explanation
Indices: 59362937--59363206 Score: 231
Period size: 48 Copynumber: 5.6 Consensus size: 50
59362927 GTAGGATGCC
* * * * * *
59362937 GATGCCAT-TCCCCCGACATGGTCTTACACTGAC-C-CATACATCAAGTC-
1 GATGCCATGT-CCCAGACATGGTCTTACACTGGCTCTCACATATCGAGGCT
* * * *
59362984 GATGCCATGTCCCAAACATGGTCTTACACTGACTATCACA-ATCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACATATCGAGGCT
* *
59363033 GACGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACATATCCG-TGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACATAT-CGAGGCT
* * *
59363083 GATGCCATGTCCTAGACATGGTCTTACACT-G-ACTCACATCTCGAGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACATATCGAGGCT
* * * * * *
59363131 TATGCCATGTCCTAGACACGGTCTTACACTGGCTCTCATA-AT-GTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACATATCGAGGCT
* *
59363179 GATG-CATGGCCCAGACAT-GTTTTACACT
1 GATGCCATGTCCCAGACATGGTCTTACACT
59363207 AGCACGCATA
Statistics
Matches: 185, Mismatches: 29, Indels: 19
0.79 0.12 0.08
Matches are distributed among these distances:
46 9 0.05
47 42 0.23
48 53 0.29
49 42 0.23
50 37 0.20
51 2 0.01
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (50 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACATATCGAGGCT
Found at i:59363159 original size:98 final size:98
Alignment explanation
Indices: 59362984--59363168 Score: 273
Period size: 98 Copynumber: 1.9 Consensus size: 98
59362974 ACATCAAGTC
59362984 GATGCCATGTCCCAAACATGGTCTTACACTGACTATCACAATCGAGGCCGACGCCATGTCCCAGA
1 GATGCCATGTCCCAAACATGGTCTTACACTGAC-ATCACAATCGAGGCCGACGCCATGTCCCAGA
*
59363049 CATGGTCTTACACTGGCTCTCACATATCCGTGCT
65 CACGGTCTTACACTGGCTCTCACATATCCGTGCT
* * * ** * *
59363083 GATGCCATGTCCTAGACATGGTCTTACACTGAC-TCACATCTCGAGGCTTATGCCATGTCCTAGA
1 GATGCCATGTCCCAAACATGGTCTTACACTGACATCACA-ATCGAGGCCGACGCCATGTCCCAGA
59363147 CACGGTCTTACACTGGCTCTCA
65 CACGGTCTTACACTGGCTCTCA
59363169 TAATGTGGCC
Statistics
Matches: 77, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
97 5 0.06
98 41 0.53
99 31 0.40
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.26
Consensus pattern (98 bp):
GATGCCATGTCCCAAACATGGTCTTACACTGACATCACAATCGAGGCCGACGCCATGTCCCAGAC
ACGGTCTTACACTGGCTCTCACATATCCGTGCT
Found at i:59366816 original size:17 final size:17
Alignment explanation
Indices: 59366794--59366828 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
59366784 AATATAGAGC
*
59366794 GTAATCTTCGAAGATAT
1 GTAATCTTAGAAGATAT
59366811 GTAATCTTAGAAGATAT
1 GTAATCTTAGAAGATAT
59366828 G
1 G
59366829 ATTCTGTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.37, C:0.09, G:0.20, T:0.34
Consensus pattern (17 bp):
GTAATCTTAGAAGATAT
Found at i:59371816 original size:232 final size:230
Alignment explanation
Indices: 59371383--59371825 Score: 543
Period size: 232 Copynumber: 1.9 Consensus size: 230
59371373 AAGAATGCCC
* *
59371383 TTTCATAATTAAAATAAGTAATATTATTTGAGGATAGTTTAGTCTTATCACTTTAAGAAAAACAA
1 TTTCATAATTAAAATAAGTAATACTATTTAAGGATAGTTTAGTCTTATCACTTTAAGAAAAACAA
* * **
59371448 AAAAAAAATGCATAAGGTGGGATTTAAACCCACACCAATTGCAATAATAAAACATTTATTTTACC
66 AAAAAAAATGCATAAGATGGGATTTAAACCCACACCAATTACAATAATAAAACATTTATAATACC
* * * * * * **
59371513 ATTGAGTTAAAACTTTATTTTTATATTTTTGCACATTTTAATTTTATTATACACATTTTATTACC
131 ATTGACTAAAAACTTTATTTTTAAATTTTTACACATTTTAATCTTACTATACACACCTTATTACC
59371578 TCCATCACTTGTATATTTATCTATACTTTCCTTTT
196 TCCATCACTTGTATATTTATCTATACTTTCCTTTT
* * *
59371613 TTTCATAATTCAAATAAGTAATACTGTTTAAGGGTA-TCTTAGTCTCT-TCACTTTAAGAAAAAC
1 TTTCATAATTAAAATAAGTAATACTATTTAAGGATAGT-TTAGTCT-TATCACTTTAAGAAAAAC
* * * * ** * * *
59371676 TAATAAAAATATGCAATATA-ATGGGATTTGAACCTACACTGATTACATTGATAAAACTTTTATA
64 -AAAAAAAAAATGC-ATA-AGATGGGATTTAAACCCACACCAATTACAATAATAAAACATTTATA
*
59371740 ATACCATTGAACTAAAAACTTTA-TTTTAAATTTTTACACATTTTAATCTTACTATATACACCTT
126 ATACCATTG-ACTAAAAACTTTATTTTTAAATTTTTACACATTTTAATCTTACTATACACACCTT
* *
59371804 ATTACTTCCATCAGTTGTATAT
190 ATTACCTCCATCACTTGTATAT
59371826 CTATATTATT
Statistics
Matches: 178, Mismatches: 29, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
229 1 0.01
230 54 0.30
231 12 0.07
232 99 0.56
233 12 0.07
ACGTcount: A:0.37, C:0.14, G:0.08, T:0.41
Consensus pattern (230 bp):
TTTCATAATTAAAATAAGTAATACTATTTAAGGATAGTTTAGTCTTATCACTTTAAGAAAAACAA
AAAAAAAATGCATAAGATGGGATTTAAACCCACACCAATTACAATAATAAAACATTTATAATACC
ATTGACTAAAAACTTTATTTTTAAATTTTTACACATTTTAATCTTACTATACACACCTTATTACC
TCCATCACTTGTATATTTATCTATACTTTCCTTTT
Found at i:59380430 original size:14 final size:14
Alignment explanation
Indices: 59380413--59380445 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
59380403 TTTTGTTGTT
59380413 TTATTGTTGTTTT-C
1 TTATTGTT-TTTTCC
59380427 TTATTGTTTTTTCC
1 TTATTGTTTTTTCC
59380441 TTATT
1 TTATT
59380446 TTGCTACCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.09, C:0.09, G:0.09, T:0.73
Consensus pattern (14 bp):
TTATTGTTTTTTCC
Done.