Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 181 of 210
Found at i:60161418 original size:19 final size:19
Alignment explanation
Indices: 60161394--60161432 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
60161384 AAAATATTGG
60161394 AAAATA-AAGAATATAGTGA
1 AAAATATAAGAATATA-TGA
60161413 AAAATATAAGAATATATGA
1 AAAATATAAGAATATATGA
60161432 A
1 A
60161433 TATTGTAGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.64, C:0.00, G:0.13, T:0.23
Consensus pattern (19 bp):
AAAATATAAGAATATATGA
Found at i:60161957 original size:43 final size:43
Alignment explanation
Indices: 60161896--60162070 Score: 188
Period size: 43 Copynumber: 4.2 Consensus size: 43
60161886 GACATGCCAT
60161896 TGAAATATGCATTTATATATATACACATATGTATAAAAAAATA
1 TGAAATATGCATTTATATATATACACATATGTATAAAAAAATA
* *
60161939 TGAAATATGCATTTATATATATACACATGTATATAAAAAAATTA
1 TGAAATATGCATTTATATATATACACATATGTATAAAAAAA-TA
* * * *
60161983 AGAAATA---A---AAAAATGTA-A-AGTATGTATATAAAAAA-A
1 TGAAATATGCATTTATATATATACACA-TATGTATA-AAAAAATA
*
60162019 TTGAAATATGCATTTATATATATACACATATGTATAGAAAAATA
1 -TGAAATATGCATTTATATATATACACATATGTATAAAAAAATA
60162063 TGAAATAT
1 TGAAATAT
60162071 ATAAAAATAT
Statistics
Matches: 106, Mismatches: 13, Indels: 26
0.73 0.09 0.18
Matches are distributed among these distances:
36 2 0.02
37 13 0.12
38 12 0.11
40 1 0.01
41 1 0.01
43 58 0.55
44 18 0.17
45 1 0.01
ACGTcount: A:0.53, C:0.05, G:0.09, T:0.33
Consensus pattern (43 bp):
TGAAATATGCATTTATATATATACACATATGTATAAAAAAATA
Found at i:60162026 original size:81 final size:83
Alignment explanation
Indices: 60161927--60162078 Score: 238
Period size: 81 Copynumber: 1.9 Consensus size: 83
60161917 TACACATATG
*
60161927 TATAAAAAAATATGAAATATGCATTTATATATATACACATGTATATAAAAAAATTAAGAAATA-A
1 TATAAAAAAATATGAAATATGCATTTATATATATACACATATATATAAAAAAA-TAAGAAATATA
60161991 -AAAAATGTAAAGTATGTA
65 TAAAAATGTAAAGTATGTA
* * *
60162009 TATAAAAAAAT-TGAAATATGCATTTATATATATACACATATGTATAGAAAAATATGAAATATAT
1 TATAAAAAAATATGAAATATGCATTTATATATATACACATATATATAAAAAAATAAGAAATATAT
60162073 AAAAAT
66 AAAAAT
60162079 ATATGAATGT
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
80 8 0.12
81 39 0.61
82 17 0.27
ACGTcount: A:0.57, C:0.04, G:0.08, T:0.32
Consensus pattern (83 bp):
TATAAAAAAATATGAAATATGCATTTATATATATACACATATATATAAAAAAATAAGAAATATAT
AAAAATGTAAAGTATGTA
Found at i:60162907 original size:19 final size:19
Alignment explanation
Indices: 60162883--60162921 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
60162873 AAAATATTGG
60162883 AAAATA-AAGAATATAGTGA
1 AAAATATAAGAATATA-TGA
60162902 AAAATATAAGAATATATGA
1 AAAATATAAGAATATATGA
60162921 A
1 A
60162922 TATTGTAGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.64, C:0.00, G:0.13, T:0.23
Consensus pattern (19 bp):
AAAATATAAGAATATATGA
Found at i:60163462 original size:22 final size:20
Alignment explanation
Indices: 60163437--60163517 Score: 81
Period size: 22 Copynumber: 3.8 Consensus size: 20
60163427 TACTGTCTCA
60163437 CACTTCGGTGCTTATCGTTCTG
1 CACTTCGGTGCTTAT-GTT-TG
*
60163459 CACTTCGGTGCCTATTGTTTTG
1 CACTTCGGTGCTTA-TG-TTTG
*
60163481 CACTTTGGTGCTTAGTGATTTG
1 CACTTCGGTGCTTA-TG-TTTG
*
60163503 CACTTCGATGCTTAT
1 CACTTCGGTGCTTAT
60163518 TGCTCTATTA
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
21 1 0.02
22 46 0.92
23 3 0.06
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.43
Consensus pattern (20 bp):
CACTTCGGTGCTTATGTTTG
Found at i:60166248 original size:28 final size:28
Alignment explanation
Indices: 60166195--60166249 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 28
60166185 TGAAACCACC
*
60166195 TTTTGAATTTCTGCTCTTGTTTTTTTTT
1 TTTTGAATTTCTGCTCTTGTTCTTTTTT
60166223 TTTTGAATATTCT-CT-TTGATTCTTTTT
1 TTTTGAAT-TTCTGCTCTTG-TTCTTTTT
60166250 GTATTCAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 3 0.12
28 17 0.71
29 4 0.17
ACGTcount: A:0.11, C:0.11, G:0.09, T:0.69
Consensus pattern (28 bp):
TTTTGAATTTCTGCTCTTGTTCTTTTTT
Found at i:60176937 original size:47 final size:47
Alignment explanation
Indices: 60176883--60176993 Score: 213
Period size: 47 Copynumber: 2.4 Consensus size: 47
60176873 CAAATTAGAC
60176883 GACTACACTGTACACAAGTAGAACAAAGCATTTACTACATGCAAGAT
1 GACTACACTGTACACAAGTAGAACAAAGCATTTACTACATGCAAGAT
60176930 GACTACACTGTACACAAGTAGAACAAAGCATTTACTACATGCAAGAT
1 GACTACACTGTACACAAGTAGAACAAAGCATTTACTACATGCAAGAT
*
60176977 GACTACACTATACACAA
1 GACTACACTGTACACAA
60176994 TTATAACAGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 63 1.00
ACGTcount: A:0.43, C:0.23, G:0.14, T:0.21
Consensus pattern (47 bp):
GACTACACTGTACACAAGTAGAACAAAGCATTTACTACATGCAAGAT
Found at i:60192198 original size:266 final size:268
Alignment explanation
Indices: 60191723--60192262 Score: 1066
Period size: 266 Copynumber: 2.0 Consensus size: 268
60191713 ATGTGTCATC
60191723 AATTAAAAAAATATTATTAACACGTGGAATTAAAAAAGAGTTAAAAAAGGGTTAATAACAACCAA
1 AATTAAAAAAATATTATTAACACGTGGAATTAAAAAAGAGTTAAAAAAGGGTTAATAACAACCAA
60191788 ATAGAGATCAGTTTCATGTAATCAAAACACATTAAGCAAAATAACGCTTAGTAAGAAAAAACGAG
66 ATAGAGATCAGTTTCATGTAATCAAAACACATTAAGCAAAATAACGCTTAGTAAGAAAAAACGAG
60191853 AAACTAAAACGAAATTTTTTATTTAATTTATAATTAATTTTACTGTTTCGTTAATCCTTGATAAA
131 AAACTAAAACGAAATTTTTTATTTAATTTATAATTAATTTTACTGTTTCGTTAATCCTTGATAAA
60191918 GTGTGATTCGTATTTATTCCAGAAGACATTTTGATATCTGTATAATTTTAAAAAAATTACAT-AA
196 GTGTGATTCGTATTTATTCCAGAAGACATTTTGATATCTGTATAATTTTAAAAAAATTACATAAA
60191982 TTAAATAT
261 TTAAATAT
60191990 -ATTAAAAAAATATTATTAACACGTGGAATTAAAAAAGAGTTAAAAAAGGGTTAATAACAACCAA
1 AATTAAAAAAATATTATTAACACGTGGAATTAAAAAAGAGTTAAAAAAGGGTTAATAACAACCAA
60192054 ATAGAGATCAGTTTCATGTAATCAAAACACATTAAGCAAAATAACGCTTAGTAAGAAAAAACGAG
66 ATAGAGATCAGTTTCATGTAATCAAAACACATTAAGCAAAATAACGCTTAGTAAGAAAAAACGAG
60192119 AAACTAAAACGAAATTTTTTATTTAATTTATAATTAATTTTACTGTTTCGTTAATCCTTGATAAA
131 AAACTAAAACGAAATTTTTTATTTAATTTATAATTAATTTTACTGTTTCGTTAATCCTTGATAAA
60192184 GTGTGATTCGTATTTATTCCAGAAGACATTTTGATATCTGTATAATTTTAAAAAAATTACATAAA
196 GTGTGATTCGTATTTATTCCAGAAGACATTTTGATATCTGTATAATTTTAAAAAAATTACATAAA
60192249 TTAAATAT
261 TTAAATAT
60192257 AATTAA
1 AATTAA
60192263 TTATTATATT
Statistics
Matches: 271, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
266 256 0.94
267 10 0.04
268 5 0.02
ACGTcount: A:0.46, C:0.10, G:0.11, T:0.33
Consensus pattern (268 bp):
AATTAAAAAAATATTATTAACACGTGGAATTAAAAAAGAGTTAAAAAAGGGTTAATAACAACCAA
ATAGAGATCAGTTTCATGTAATCAAAACACATTAAGCAAAATAACGCTTAGTAAGAAAAAACGAG
AAACTAAAACGAAATTTTTTATTTAATTTATAATTAATTTTACTGTTTCGTTAATCCTTGATAAA
GTGTGATTCGTATTTATTCCAGAAGACATTTTGATATCTGTATAATTTTAAAAAAATTACATAAA
TTAAATAT
Found at i:60193099 original size:11 final size:11
Alignment explanation
Indices: 60193085--60193128 Score: 61
Period size: 11 Copynumber: 3.9 Consensus size: 11
60193075 TCAATTATTT
60193085 TCTCAATTTCC
1 TCTCAATTTCC
*
60193096 TCTCAATTTGC
1 TCTCAATTTCC
60193107 TCTCAATTTCC
1 TCTCAATTTCC
*
60193118 TTCTAAATTTC
1 -TCTCAATTTC
60193129 TCTGAAATCC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
11 20 0.69
12 9 0.31
ACGTcount: A:0.20, C:0.30, G:0.02, T:0.48
Consensus pattern (11 bp):
TCTCAATTTCC
Found at i:60193113 original size:22 final size:22
Alignment explanation
Indices: 60193081--60193131 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
60193071 TTTCTCAATT
*
60193081 ATTT-TCTCAATTTCC-TCTCA
1 ATTTCTCTCAATTTCCTTCTAA
60193101 ATTTGCTCTCAATTTCCTTCTAA
1 ATTT-CTCTCAATTTCCTTCTAA
60193124 ATTTCTCT
1 ATTTCTCT
60193132 GAAATCCATA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 4 0.15
22 15 0.56
23 8 0.30
ACGTcount: A:0.20, C:0.27, G:0.02, T:0.51
Consensus pattern (22 bp):
ATTTCTCTCAATTTCCTTCTAA
Found at i:60193154 original size:51 final size:51
Alignment explanation
Indices: 60193096--60193195 Score: 166
Period size: 51 Copynumber: 2.0 Consensus size: 51
60193086 CTCAATTTCC
60193096 TCTCAATTTGCTCTCAATTTCCT-TCTAAATTTCTCTGAAATCCATATTTAA
1 TCTCAATTTGCTCTCAATTTCCTCT-TAAATTTCTCTGAAATCCATATTTAA
* *
60193147 TCTCAATTTGCTCTCAATTTCCTCTTAAATTTCTCTTAAATCCCTATTT
1 TCTCAATTTGCTCTCAATTTCCTCTTAAATTTCTCTGAAATCCATATTT
60193196 TTAATTATTT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
51 45 0.98
52 1 0.02
ACGTcount: A:0.25, C:0.25, G:0.03, T:0.47
Consensus pattern (51 bp):
TCTCAATTTGCTCTCAATTTCCTCTTAAATTTCTCTGAAATCCATATTTAA
Found at i:60194578 original size:125 final size:125
Alignment explanation
Indices: 60194424--60194846 Score: 578
Period size: 125 Copynumber: 3.3 Consensus size: 125
60194414 CCCAAACATG
** * *
60194424 CTACTGTAGCAAAAACGCGTCCATATGGGAGTGATTTCAGAAATTCTTCTAATAAAGCATGCTGC
1 CTACTGTAGCAAAAACGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTAATAAAGCATCCTGC
*
60194489 TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTTCAAGAC
66 TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTTCAGGAC
* * *
60194549 CTACTGTAGCAAAAACGCGCCCACGTGGGAGCGATTTAATAAATTCTTCTGATAAAGCTCTCATA
1 CTACTGTAGCAAAAACGCGTCCACGTGGGAGCGATTTCAGAAATTCTTC---T--A------ATA
* *
60194614 AAGCATCCTGCTTGAAGCG-TTTTTATGCTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTT
55 AAGCATCCTGCTTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTT
60194678 CAGGAC
120 CAGGAC
* * * *
60194684 CTACTGTAGCAAAAGCGCGTTCACGTGGGAGCAATTTCAGAAATTCTTCTGATAAAGCATCCTGC
1 CTACTGTAGCAAAAACGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTAATAAAGCATCCTGC
60194749 TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTTCAGGAC
66 TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTTCAGGAC
* * * *
60194809 CTACTGTAGCAAAAGCGCGTCCAAGTAGGAGTGATTTC
1 CTACTGTAGCAAAAACGCGTCCACGTGGGAGCGATTTC
60194847 CTTAATAAAT
Statistics
Matches: 262, Mismatches: 24, Indels: 24
0.85 0.08 0.08
Matches are distributed among these distances:
124 22 0.08
125 125 0.48
128 1 0.00
130 1 0.00
132 1 0.00
135 91 0.35
136 21 0.08
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (125 bp):
CTACTGTAGCAAAAACGCGTCCACGTGGGAGCGATTTCAGAAATTCTTCTAATAAAGCATCCTGC
TTGAAGCGTTTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTTCAGGAC
Found at i:60195415 original size:27 final size:27
Alignment explanation
Indices: 60195365--60195483 Score: 73
Period size: 27 Copynumber: 4.1 Consensus size: 27
60195355 AAATAATAAT
* *
60195365 AATAAACAAATAAAAAACAGAAAAAGGA
1 AATAAAGAAA-AAAAAATAGAAAAAGGA
* *
60195393 AATAAAGAAAAACAAATAGAAAAACGA
1 AATAAAGAAAAAAAAATAGAAAAAGGA
* *
60195420 AA-AAATGACAAATAAATAAAAAAAGAAAAGGGA
1 AATAAA-G----A-AAA-AAAAATAGAAAAAGGA
60195453 AATAAAGAAAAAAACAA-A-AAAAAGGA
1 AATAAAGAAAAAAA-AATAGAAAAAGGA
60195479 CAATA
1 -AATA
60195484 GGCAACATAA
Statistics
Matches: 72, Mismatches: 9, Indels: 21
0.71 0.09 0.21
Matches are distributed among these distances:
26 10 0.14
27 25 0.35
28 14 0.19
29 1 0.01
31 1 0.01
32 3 0.04
33 15 0.21
34 3 0.04
ACGTcount: A:0.75, C:0.06, G:0.12, T:0.08
Consensus pattern (27 bp):
AATAAAGAAAAAAAAATAGAAAAAGGA
Found at i:60197425 original size:38 final size:38
Alignment explanation
Indices: 60197351--60197425 Score: 98
Period size: 38 Copynumber: 2.0 Consensus size: 38
60197341 CATCGTCAAC
* * *
60197351 AGAAGCTCATAAGAGTTGGTCCTCCCGAATACGCCAAT
1 AGAAGCTCATAAGAGCTGATCCTCCCGAATAAGCCAAT
*
60197389 AGAAGCTCGTAAGAGCTGATCCTCCC-AATCAAGCCAA
1 AGAAGCTCATAAGAGCTGATCCTCCCGAAT-AAGCCAA
60197426 ACAGAAAGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 3 0.09
38 29 0.91
ACGTcount: A:0.33, C:0.28, G:0.20, T:0.19
Consensus pattern (38 bp):
AGAAGCTCATAAGAGCTGATCCTCCCGAATAAGCCAAT
Found at i:60199836 original size:20 final size:20
Alignment explanation
Indices: 60199783--60199836 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 20
60199773 AAGAATTCAA
60199783 AAAAGAGTATAAAAATTATTT
1 AAAA-AGTATAAAAATTATTT
* * *
60199804 -AAAACTTTAAAAAATTGTTT
1 AAAAAGTAT-AAAAATTATTT
60199824 AAAAAGTATAAAA
1 AAAAAGTATAAAA
60199837 TGATTAAATA
Statistics
Matches: 26, Mismatches: 5, Indels: 5
0.72 0.14 0.14
Matches are distributed among these distances:
19 3 0.12
20 17 0.65
21 6 0.23
ACGTcount: A:0.59, C:0.02, G:0.07, T:0.31
Consensus pattern (20 bp):
AAAAAGTATAAAAATTATTT
Found at i:60199995 original size:19 final size:19
Alignment explanation
Indices: 60199971--60200009 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
60199961 ATATAAATTA
*
60199971 AAAAATTAAAAAAAAAACT
1 AAAAATCAAAAAAAAAACT
* *
60199990 AAAAATCAAATAAAAGACT
1 AAAAATCAAAAAAAAAACT
60200009 A
1 A
60200010 GAATGATTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.74, C:0.08, G:0.03, T:0.15
Consensus pattern (19 bp):
AAAAATCAAAAAAAAAACT
Found at i:60202974 original size:19 final size:19
Alignment explanation
Indices: 60202950--60202986 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
60202940 CAAATTGAAA
*
60202950 ATAAATTTTTAAAAATATC
1 ATAAATTTTAAAAAATATC
60202969 ATAAATTTTAAAAAATAT
1 ATAAATTTTAAAAAATAT
60202987 ATGTAGACTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (19 bp):
ATAAATTTTAAAAAATATC
Found at i:60203061 original size:30 final size:30
Alignment explanation
Indices: 60203027--60203091 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 30
60203017 CAACTTAACA
60203027 AACAAATGCCTCTAAAATAATAACAAAATT
1 AACAAATGCCTCTAAAATAATAACAAAATT
*
60203057 AACAAATGCCTTTAAAATAATAACAAAATT
1 AACAAATGCCTCTAAAATAATAACAAAATT
60203087 AACAA
1 AACAA
60203092 TAAAATAAGT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.58, C:0.15, G:0.03, T:0.23
Consensus pattern (30 bp):
AACAAATGCCTCTAAAATAATAACAAAATT
Found at i:60209268 original size:168 final size:168
Alignment explanation
Indices: 60208990--60209335 Score: 692
Period size: 168 Copynumber: 2.1 Consensus size: 168
60208980 AAGGAAATAT
60208990 GGAAAACAAACACATGTTAAGTGCATCCTAGCATATCATTCATCAGCCTACCAGATGCGGCATGA
1 GGAAAACAAACACATGTTAAGTGCATCCTAGCATATCATTCATCAGCCTACCAGATGCGGCATGA
60209055 ATGAAAAATTCAAAAGCGGCATATAATTCTCAAGATGCATGTACCATACAAGTTTCCAATTTGAG
66 ATGAAAAATTCAAAAGCGGCATATAATTCTCAAGATGCATGTACCATACAAGTTTCCAATTTGAG
60209120 AAGACATCACTAAGAAGGGCTTTTAACTCTTCTAAAGG
131 AAGACATCACTAAGAAGGGCTTTTAACTCTTCTAAAGG
60209158 GGAAAACAAACACATGTTAAGTGCATCCTAGCATATCATTCATCAGCCTACCAGATGCGGCATGA
1 GGAAAACAAACACATGTTAAGTGCATCCTAGCATATCATTCATCAGCCTACCAGATGCGGCATGA
60209223 ATGAAAAATTCAAAAGCGGCATATAATTCTCAAGATGCATGTACCATACAAGTTTCCAATTTGAG
66 ATGAAAAATTCAAAAGCGGCATATAATTCTCAAGATGCATGTACCATACAAGTTTCCAATTTGAG
60209288 AAGACATCACTAAGAAGGGCTTTTAACTCTTCTAAAGG
131 AAGACATCACTAAGAAGGGCTTTTAACTCTTCTAAAGG
60209326 GGAAAACAAA
1 GGAAAACAAA
60209336 TACCTTTCAA
Statistics
Matches: 178, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
168 178 1.00
ACGTcount: A:0.38, C:0.20, G:0.17, T:0.24
Consensus pattern (168 bp):
GGAAAACAAACACATGTTAAGTGCATCCTAGCATATCATTCATCAGCCTACCAGATGCGGCATGA
ATGAAAAATTCAAAAGCGGCATATAATTCTCAAGATGCATGTACCATACAAGTTTCCAATTTGAG
AAGACATCACTAAGAAGGGCTTTTAACTCTTCTAAAGG
Found at i:60213988 original size:168 final size:168
Alignment explanation
Indices: 60213710--60214047 Score: 667
Period size: 168 Copynumber: 2.0 Consensus size: 168
60213700 TAAAACTTGT
60213710 TTACCTATACTTGATGAAAGTTTGGTCCATGATCAGCTAACTTGAATGAGGTTGTGAGGGCTAGA
1 TTACCTATACTTGATGAAAGTTTGGTCCATGATCAGCTAACTTGAATGAGGTTGTGAGGGCTAGA
60213775 CAATCGAGCCTGTGATGTAAAATCTATATATTATGTGGGTTTCCATTTCCATAACATGGAAAAAA
66 CAATCGAGCCTGTGATGTAAAATCTATATATTATGTGGGTTTCCATTTCCATAACATGGAAAAAA
*
60213840 TCTCTTTTTATCTTTTAATTGACTTTGGCATTTTGTTG
131 TCTCTTTTTATCTTTTAATTGAATTTGGCATTTTGTTG
60213878 TTACCTATACTTGATGAAAGTTTGGTCCATGATCAGCTAACTTGAATGAGGTTGTGAGGGCTAGA
1 TTACCTATACTTGATGAAAGTTTGGTCCATGATCAGCTAACTTGAATGAGGTTGTGAGGGCTAGA
60213943 CAATCGAGCCTGTGATGTAAAATCTATATATTATGTGGGTTTCCATTTCCATAACATGGAAAAAA
66 CAATCGAGCCTGTGATGTAAAATCTATATATTATGTGGGTTTCCATTTCCATAACATGGAAAAAA
60214008 TCTCTTTTTATCTTTTAATTGAATTTGGCATTTTGTTG
131 TCTCTTTTTATCTTTTAATTGAATTTGGCATTTTGTTG
60214046 TT
1 TT
60214048 TTAAGCAGTA
Statistics
Matches: 169, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
168 169 1.00
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.39
Consensus pattern (168 bp):
TTACCTATACTTGATGAAAGTTTGGTCCATGATCAGCTAACTTGAATGAGGTTGTGAGGGCTAGA
CAATCGAGCCTGTGATGTAAAATCTATATATTATGTGGGTTTCCATTTCCATAACATGGAAAAAA
TCTCTTTTTATCTTTTAATTGAATTTGGCATTTTGTTG
Found at i:60214152 original size:24 final size:24
Alignment explanation
Indices: 60214121--60214178 Score: 98
Period size: 24 Copynumber: 2.4 Consensus size: 24
60214111 CACAGATGCT
* *
60214121 TTTTGTTTTTATCCTTTTTCTCTC
1 TTTTGTTTCTATCCTTTTTATCTC
60214145 TTTTGTTTCTATCCTTTTTATCTC
1 TTTTGTTTCTATCCTTTTTATCTC
60214169 TTTTGTTTCT
1 TTTTGTTTCT
60214179 CATAGTAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.05, C:0.19, G:0.05, T:0.71
Consensus pattern (24 bp):
TTTTGTTTCTATCCTTTTTATCTC
Found at i:60220908 original size:18 final size:17
Alignment explanation
Indices: 60220885--60220919 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
60220875 GAATAGATTT
60220885 TTAATTAAATAAATTTAA
1 TTAATTAAA-AAATTTAA
60220903 TTAATTAAAAAATTTAA
1 TTAATTAAAAAATTTAA
60220920 ACCCTAGATC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TTAATTAAAAAATTTAA
Found at i:60221760 original size:18 final size:17
Alignment explanation
Indices: 60221729--60221763 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
60221719 AATTTAGGGT
60221729 TTAAATTTTTTAATTAA
1 TTAAATTTTTTAATTAA
60221746 TTAAATTTATTTAATTAA
1 TTAAATTT-TTTAATTAA
60221764 AAATCGATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTAAATTTTTTAATTAA
Found at i:60227032 original size:21 final size:22
Alignment explanation
Indices: 60226992--60227032 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
60226982 AAATGCTTGA
*
60226992 ATTATGAAATGAGGATATGTGG
1 ATTATGAAATGAGCATATGTGG
*
60227014 ATTATGAAATTA-CATATGT
1 ATTATGAAATGAGCATATGT
60227033 ATTTGTCGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 6 0.35
22 11 0.65
ACGTcount: A:0.39, C:0.02, G:0.22, T:0.37
Consensus pattern (22 bp):
ATTATGAAATGAGCATATGTGG
Found at i:60227090 original size:36 final size:36
Alignment explanation
Indices: 60227050--60227253 Score: 137
Period size: 36 Copynumber: 5.6 Consensus size: 36
60227040 GGTTTTATTT
*
60227050 GACTAGCGCTGGGCACAAAACATCGTCGATTTATCC
1 GACTAGTGCTGGGCACAAAACATCGTCGATTTATCC
* * ** *
60227086 GACTAATGATGGGTGCAAAACATCGTCGGTTTATCC
1 GACTAGTGCTGGGCACAAAACATCGTCGATTTATCC
* * *
60227122 AACTAGTGCTGGGCACACAATTGATATCATCGATTTATCC
1 GACTAGTGCTGGGCACA-AA---ACATCGTCGATTTATCC
* * * *
60227162 GACTAGTGCTAGGCGCAAAACATCATCGGA-TTATCT
1 GACTAGTGCTGGGCACAAAACATCGTC-GATTTATCC
* * * *
60227198 GGCTAGTGC-GAGGCAC--ACCTATCGTCGGTTTATTC
1 GACTAGTGCTG-GGCACAAAAC-ATCGTCGATTTATCC
* * *
60227233 AACTAGCGCTGGGCGCAAAAC
1 GACTAGTGCTGGGCACAAAAC
60227254 TTTGGCACAG
Statistics
Matches: 125, Mismatches: 32, Indels: 21
0.70 0.18 0.12
Matches are distributed among these distances:
34 3 0.02
35 19 0.15
36 67 0.54
37 6 0.05
39 2 0.02
40 28 0.22
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (36 bp):
GACTAGTGCTGGGCACAAAACATCGTCGATTTATCC
Found at i:60227204 original size:76 final size:76
Alignment explanation
Indices: 60227075--60227215 Score: 185
Period size: 76 Copynumber: 1.9 Consensus size: 76
60227065 CAAAACATCG
* * * *
60227075 TCGATTTATCCGACTAATGATGGGTGCAAAACATCGTCGGTTTATCCAACTAGTGCTG-GGCACA
1 TCGATTTATCCGACTAATGATAGGCGCAAAACATCATCGGATTATCCAACTAGTGC-GAGGCACA
60227139 CAATTGATATCA
65 CAATTGATATCA
* * ***
60227151 TCGATTTATCCGACTAGTGCTAGGCGCAAAACATCATCGGATTATCTGGCTAGTGCGAGGCACAC
1 TCGATTTATCCGACTAATGATAGGCGCAAAACATCATCGGATTATCCAACTAGTGCGAGGCACAC
60227216 CTATCGTCGG
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
75 1 0.02
76 54 0.98
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.27
Consensus pattern (76 bp):
TCGATTTATCCGACTAATGATAGGCGCAAAACATCATCGGATTATCCAACTAGTGCGAGGCACAC
AATTGATATCA
Found at i:60229710 original size:106 final size:105
Alignment explanation
Indices: 60229606--60229812 Score: 382
Period size: 104 Copynumber: 2.0 Consensus size: 105
60229596 ATGAATAAAC
60229606 ACATAAAAGGTGGAATATGCGATAAAGAAAATAAGAAAGTATG-A-AATAATAATAATAGCAAAT
1 ACATAAAAGGTGGAATATGCGATAAAGAAAATAAGAAAGTATGAATAATAATAATAATAGCAAAT
60229669 GAAAATAGCAAAAAAAGAAAAATAAAAATAACAGATTATAA
66 GAAAATAGC-AAAAAAGAAAAATAAAAATAACAGATTATAA
60229710 ACATAAAAGGTGGAATATGCGATAAAGAAAATAAGAAAGTATGAAATAATAATAATAATAGCAAA
1 ACATAAAAGGTGGAATATGCGATAAAGAAAATAAGAAAGTATG-AATAATAATAATAATAGCAAA
60229775 TGAAAATAGCAAAAAAGAAAAATAAAAATAACAGATTA
65 TGAAAATAGCAAAAAAGAAAAATAAAAATAACAGATTA
60229813 ATAATAATAA
Statistics
Matches: 100, Mismatches: 0, Indels: 4
0.96 0.00 0.04
Matches are distributed among these distances:
104 43 0.43
106 29 0.29
107 28 0.28
ACGTcount: A:0.62, C:0.05, G:0.14, T:0.18
Consensus pattern (105 bp):
ACATAAAAGGTGGAATATGCGATAAAGAAAATAAGAAAGTATGAATAATAATAATAATAGCAAAT
GAAAATAGCAAAAAAGAAAAATAAAAATAACAGATTATAA
Found at i:60229815 original size:55 final size:55
Alignment explanation
Indices: 60229650--60229822 Score: 173
Period size: 55 Copynumber: 3.2 Consensus size: 55
60229640 GAAAGTATGA
60229650 AATAATAATAATAGCAAATGAAAATAGCAAAAAAAGAAAAATAAAAATAACAGATT
1 AATAATAATAATAGCAAATGAAAATAGC-AAAAAAGAAAAATAAAAATAACAGATT
** * * * ** *
60229706 -ATAA-ACATAA-A--AGGTG-GAATATGCGATAAAG-AAAATAAGAAAGTATGA-AAT
1 AATAATA-ATAATAGCAAATGAAAATA-GCAAAAAAGAAAAATAA-AAA-TAACAGATT
60229757 AATAATAATAATAGCAAATGAAAATAGCAAAAAAGAAAAATAAAAATAACAGATT
1 AATAATAATAATAGCAAATGAAAATAGCAAAAAAGAAAAATAAAAATAACAGATT
60229812 AATAATAATAA
1 AATAATAATAA
60229823 AGTAAAATAC
Statistics
Matches: 89, Mismatches: 16, Indels: 25
0.68 0.12 0.19
Matches are distributed among these distances:
50 7 0.08
51 14 0.16
52 16 0.18
53 2 0.02
54 5 0.06
55 34 0.38
56 11 0.12
ACGTcount: A:0.65, C:0.05, G:0.12, T:0.19
Consensus pattern (55 bp):
AATAATAATAATAGCAAATGAAAATAGCAAAAAAGAAAAATAAAAATAACAGATT
Found at i:60230789 original size:16 final size:16
Alignment explanation
Indices: 60230768--60230825 Score: 64
Period size: 17 Copynumber: 3.5 Consensus size: 16
60230758 TGTTGTTTCG
60230768 AAATGAAAAATAAAAA
1 AAATGAAAAATAAAAA
60230784 AAATGATAAAATAAAATA
1 AAATGA-AAAATAAAA-A
* *
60230802 AAA-CAAAAATGAAATA
1 AAATGAAAAAT-AAAAA
60230818 AAATGAAA
1 AAATGAAA
60230826 GTATCACCTT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
16 15 0.43
17 16 0.46
18 4 0.11
ACGTcount: A:0.76, C:0.02, G:0.07, T:0.16
Consensus pattern (16 bp):
AAATGAAAAATAAAAA
Found at i:60230796 original size:17 final size:17
Alignment explanation
Indices: 60230768--60230825 Score: 75
Period size: 16 Copynumber: 3.5 Consensus size: 17
60230758 TGTTGTTTCG
60230768 AAATGAAAAATAAAA-A
1 AAATGAAAAATAAAATA
60230784 AAATGATAAAATAAAATA
1 AAATGA-AAAATAAAATA
* *
60230802 AAA-CAAAAATGAAATA
1 AAATGAAAAATAAAATA
60230818 AAATGAAA
1 AAATGAAA
60230826 GTATCACCTT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
16 19 0.53
17 13 0.36
18 4 0.11
ACGTcount: A:0.76, C:0.02, G:0.07, T:0.16
Consensus pattern (17 bp):
AAATGAAAAATAAAATA
Found at i:60230816 original size:21 final size:21
Alignment explanation
Indices: 60230774--60230821 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
60230764 TTCGAAATGA
60230774 AAAATAAAAAAAATGATAAAAT
1 AAAATAAAAAAAA-GATAAAAT
*
60230796 AAAATAAAACAAAA-ATGAAAT
1 AAAATAAAA-AAAAGATAAAAT
60230817 AAAAT
1 AAAAT
60230822 GAAAGTATCA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 11 0.46
22 9 0.38
23 4 0.17
ACGTcount: A:0.77, C:0.02, G:0.04, T:0.17
Consensus pattern (21 bp):
AAAATAAAAAAAAGATAAAAT
Found at i:60231478 original size:14 final size:14
Alignment explanation
Indices: 60231459--60231488 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
60231449 TAGCTTCAAT
60231459 CTGCTCCACTGCAA
1 CTGCTCCACTGCAA
60231473 CTGCTCCACTGCAA
1 CTGCTCCACTGCAA
60231487 CT
1 CT
60231489 TTAGGGAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.43, G:0.13, T:0.23
Consensus pattern (14 bp):
CTGCTCCACTGCAA
Found at i:60231629 original size:96 final size:96
Alignment explanation
Indices: 60231477--60231960 Score: 358
Period size: 96 Copynumber: 5.3 Consensus size: 96
60231467 CTGCAACTGC
* * *
60231477 TCCACTGCAACTTTAGGGAGATAAGA--C-TTGATCT-GA-TCTGCTCTACTGCAACTTCAGAGA
1 TCCACTGCAACTTCAGGGAAATAAGATTCGTT-ATCTCCAGTCTGCTCTACTGCAACTTCAGAGA
*
60231537 GATAAGATCTGTTATTTATAGCTTCGATCTGT
65 GATAAGATCTGTAATTTATAGCTTCGATCTGT
* * * * *
60231569 TCCACTACAACTTCAAGGAAATAAGATTCGTTATCTCCAGTCTGCTCCACTGCAACTTCAGGGAA
1 TCCACTGCAACTTCAGGGAAATAAGATTCGTTATCTCCAGTCTGCTCTACTGCAACTTCAGAGAG
*
60231634 ATAAGA-CTTGTAATTT-CAGCTT-G--C---
66 ATAAGATC-TGTAATTTATAGCTTCGATCTGT
* * * *
60231658 -CCTACTGTAACTTCAGGGAGAT--GA-T-GTTTGATAT-GA-TCTGCTCTACTGCAACTTCAGA
1 TCC-ACTGCAACTTCAGGGAAATAAGATTCG-TT-ATCTCCAGTCTGCTCTACTGCAACTTCAGA
60231716 GAGATAAGATCTGTAATTTATAGCTTCGATCTGT
63 GAGATAAGATCTGTAATTTATAGCTTCGATCTGT
* * *
60231750 TCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTCCAGTCTGCTCTACTGCAACTTTAGGGAG
1 TCCACTGCAACTTCAGGGAAATAAGATTCGTTATCTCCAGTCTGCTCTACTGCAACTTCAGAGAG
60231815 ATAAGA-CTCGTAATTTCA-A----C---CTG-
66 ATAAGATCT-GTAATTT-ATAGCTTCGATCTGT
* * * * * * * *
60231838 CCACACTGCAACTTCAGGGAGATGAGGTT--TGATAT-GA-TCTGCTCTACTGCAACTTCTA-AA
1 TC-CACTGCAACTTCAGGGAAATAAGATTCGTTATCTCCAGTCTGCTCTACTGCAACTTC-AGAG
* *
60231898 AAATAAGATCTGTAATTTATAGCTTCAATCTGT
64 AGATAAGATCTGTAATTTATAGCTTCGATCTGT
*
60231931 TCCACTACAAAGC-T-AGGGAAATAAGATTCG
1 TCCACTGC-AA-CTTCAGGGAAATAAGATTCG
60231961 CTGTCTTTGA
Statistics
Matches: 306, Mismatches: 44, Indels: 82
0.71 0.10 0.19
Matches are distributed among these distances:
84 1 0.00
85 70 0.23
86 14 0.05
87 9 0.03
88 3 0.01
89 43 0.14
92 60 0.20
93 6 0.02
94 12 0.04
95 14 0.05
96 73 0.24
97 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (96 bp):
TCCACTGCAACTTCAGGGAAATAAGATTCGTTATCTCCAGTCTGCTCTACTGCAACTTCAGAGAG
ATAAGATCTGTAATTTATAGCTTCGATCTGT
Found at i:60231634 original size:45 final size:45
Alignment explanation
Indices: 60231564--60231857 Score: 166
Period size: 45 Copynumber: 6.5 Consensus size: 45
60231554 ATAGCTTCGA
* * * *
60231564 TCTGTTCCACTACAACTTCAAGGAAATAAGATTCGTTATCTCCAG
1 TCTGCTCCACTGCAACTTCAGGGAAATAAGATTCGTTATCTTCAG
*
60231609 TCTGCTCCACTGCAACTTCAGGGAAATAAGACTT-GTAAT-TTCAG
1 TCTGCTCCACTGCAACTTCAGGGAAATAAGA-TTCGTTATCTTCAG
* * **
60231653 -CTTGC-CCTACTGTAACTTCAGGGAGAT--GA-T-GTT-TGAT-ATG
1 TC-TGCTCC-ACTGCAACTTCAGGGAAATAAGATTCGTTATCTTCA-G
* * *
60231693 ATCTGCTCTACTGCAACTTCAGAGAGATAAGA-TCTGTAATTTATAGCTTC-G
1 -TCTGCTCCACTGCAACTTCAGGGAAATAAGATTC-G----TTAT--CTTCAG
* * *
60231744 ATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTCCAG
1 -TCTGCTCCACTGCAACTTCAGGGAAATAAGATTCGTTATCTTCAG
* * * * * *
60231790 TCTGCTCTACTGCAACTTTAGGGAGATAAGACTCGTAAT-TTCAA
1 TCTGCTCCACTGCAACTTCAGGGAAATAAGATTCGTTATCTTCAG
*
60231834 CCTGC-CACACTGCAACTTCAGGGA
1 TCTGCTC-CACTGCAACTTCAGGGA
60231858 GATGAGGTTT
Statistics
Matches: 194, Mismatches: 32, Indels: 47
0.71 0.12 0.17
Matches are distributed among these distances:
39 2 0.01
40 5 0.03
41 20 0.10
42 4 0.02
43 7 0.04
44 46 0.24
45 68 0.35
46 3 0.02
47 3 0.02
49 2 0.01
50 1 0.01
51 30 0.15
52 3 0.02
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.30
Consensus pattern (45 bp):
TCTGCTCCACTGCAACTTCAGGGAAATAAGATTCGTTATCTTCAG
Found at i:60231795 original size:181 final size:181
Alignment explanation
Indices: 60231479--60231962 Score: 724
Period size: 181 Copynumber: 2.7 Consensus size: 181
60231469 GCAACTGCTC
* * ** *
60231479 CACTGCAACTTTAGGGAGATAAGACTTGATCTGATCTGCTCTACTGCAACTTCAGAGAGATAAGA
1 CACTGCAACTTCAGGGAGATGAGGTTTGATATGATCTGCTCTACTGCAACTTCAGAGAGATAAGA
* * *
60231544 TCTGTTATTTATAGCTTCGATCTGTTCCACTACAACTTCAAGGAAATAAGATTCGTTATCTCCAG
66 TCTGTAATTTATAGCTTCGATCTGTTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTCCAG
* * *
60231609 TCTGCTCCACTGCAACTTCAGGGAAATAAGACTTGTAATTTCAGCTTGCC-
131 TCTGCTCCACTGCAACTTCAGGGAAATAAGACTCGTAATTTCAACCTGCCA
* *
60231659 CTACTGTAACTTCAGGGAGATGATGTTTGATATGATCTGCTCTACTGCAACTTCAGAGAGATAAG
1 C-ACTGCAACTTCAGGGAGATGAGGTTTGATATGATCTGCTCTACTGCAACTTCAGAGAGATAAG
*
60231724 ATCTGTAATTTATAGCTTCGATCTGTTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTCCA
65 ATCTGTAATTTATAGCTTCGATCTGTTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTCCA
* * *
60231789 GTCTGCTCTACTGCAACTTTAGGGAGATAAGACTCGTAATTTCAACCTGCCA
130 GTCTGCTCCACTGCAACTTCAGGGAAATAAGACTCGTAATTTCAACCTGCCA
* *
60231841 CACTGCAACTTCAGGGAGATGAGGTTTGATATGATCTGCTCTACTGCAACTTCTA-AAAAATAAG
1 CACTGCAACTTCAGGGAGATGAGGTTTGATATGATCTGCTCTACTGCAACTTC-AGAGAGATAAG
*
60231905 ATCTGTAATTTATAGCTTCAATCTGTTCCACTACAAAGC-T-AGGGAAATAAGATTCGCT
65 ATCTGTAATTTATAGCTTCGATCTGTTCCACTAC-AA-CTTCAGGGAAATAAGATTCGCT
60231963 GTCTTTGATC
Statistics
Matches: 276, Mismatches: 23, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
180 1 0.00
181 269 0.97
182 5 0.02
183 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (181 bp):
CACTGCAACTTCAGGGAGATGAGGTTTGATATGATCTGCTCTACTGCAACTTCAGAGAGATAAGA
TCTGTAATTTATAGCTTCGATCTGTTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTCCAG
TCTGCTCCACTGCAACTTCAGGGAAATAAGACTCGTAATTTCAACCTGCCA
Found at i:60232126 original size:132 final size:133
Alignment explanation
Indices: 60231946--60232493 Score: 721
Period size: 132 Copynumber: 4.2 Consensus size: 133
60231936 TACAAAGCTA
* * * * * *
60231946 GGGAA-ATAAGATTCGCTGTCTTTGATCCGCTCCACTACTGCTCAGGGAGACAGGATCTACAATC
1 GGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTACTTAGGGAGACAGGATCTACAATC
* * * * *
60232010 TT-AATCCTACTCCACTACTGCTAAGGGATAT-TGGACTGGTGACTTAAATCTGCTTCCCTACTA
66 TTCAA-CCTACTCCACTACTGCTCAGGGAGATAAGGACTAGTGGCTTAAATCTGCTTCCCTACTA
*
60232073 CATT
130 CCTT
*** * * * **
60232077 GGGAAGATAAGATTTGTCGTCTTTGATCTACTCCACTACTACTTTGGGAGACAGGATCTGTAATC
1 GGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTACTTAGGGAGACAGGATCTACAATC
* **
60232142 TTCAACCTACTCCACTACTGCTCAGGGAGATAAGG-CTGGTGTTTTAAATCTGCTTCCCTACTAC
66 TTCAACCTACTCCACTACTGCTCAGGGAGATAAGGACTAGTGGCTTAAATCTGCTTCCCTACTAC
60232206 CTT
131 CTT
* * *
60232209 GGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAGGATCTACAATC
1 GGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTACTTAGGGAGACAGGATCTACAATC
* * * * *
60232274 TTCAACCTACTCCACTGCTGCTTAGGGAGAT-ATGATTAGTGGCTTAAATCTGTTTCCCTACTAC
66 TTCAACCTACTCCACTACTGCTCAGGGAGATAAGGACTAGTGGCTTAAATCTGCTTCCCTACTAC
60232338 CTT
131 CTT
*
60232341 GGAAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTACTTAGGGAGACAGGATCTACAATC
1 GGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTACTTAGGGAGACAGGATCTACAATC
* *
60232406 TTCAATCTACTCCACTACTGCTCAGGGAGAT-AGGATCTAGTGGCTTAAATCTGCTTCTCTACTA
66 TTCAACCTACTCCACTACTGCTCAGGGAGATAAGGA-CTAGTGGCTTAAATCTGCTTCCCTACTA
60232470 CCTT
130 CCTT
*
60232474 GGAAAGATAAGATTCACCGT
1 GGGAAGATAAGATTCACCGT
60232494 GATGACTTCA
Statistics
Matches: 366, Mismatches: 46, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
131 7 0.02
132 306 0.84
133 53 0.14
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.30
Consensus pattern (133 bp):
GGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTACTTAGGGAGACAGGATCTACAATC
TTCAACCTACTCCACTACTGCTCAGGGAGATAAGGACTAGTGGCTTAAATCTGCTTCCCTACTAC
CTT
Found at i:60232457 original size:44 final size:44
Alignment explanation
Indices: 60231975--60232444 Score: 196
Period size: 44 Copynumber: 10.7 Consensus size: 44
60231965 CTTTGATCCG
* * *
60231975 CTCCACTACTGCTCAGGGAGACAGGATCTACAATCTT-AATCCTA
1 CTCCACTACTGCTTAGGGAGATAGGATCTACAGTCTTCAAT-CTA
* * * *** * * *
60232019 CTCCACTACTGCTAAGGGATATTGGA-CTGGTGACTTAAATCTG
1 CTCCACTACTGCTTAGGGAGATAGGATCTACAGTCTTCAATCTA
* * * * **
60232062 CTTCC-CTACTACATT-GGGAAGATAAGATTTGTC-GTCTTTGATCTA
1 C-TCCACTACTGC-TTAGGG-AGATAGGATCT-ACAGTCTTCAATCTA
* * * ** * *
60232107 CTCCACTACTACTTTGGGAGACAGGATCTGTAATCTTCAACCTA
1 CTCCACTACTGCTTAGGGAGATAGGATCTACAGTCTTCAATCTA
* *** * * *
60232151 CTCCACTACTGCTCAGGGAGATAAGG--CTGGTGTTTTAAATCTG
1 CTCCACTACTGCTTAGGGAGAT-AGGATCTACAGTCTTCAATCTA
* * * *
60232194 CTTCC-CTACTACCTT-GGGAAGATAAGAT-TCACCA-TCTTCGATCTG
1 C-TCCACTACT-GCTTAGGG-AGATAGGATCT-A-CAGTCTTCAATCTA
* *
60232239 CTCCACTACTGCTTAGGGAGATAGGATCTACAATCTTCAACCTA
1 CTCCACTACTGCTTAGGGAGATAGGATCTACAGTCTTCAATCTA
* * ** * * *
60232283 CTCCACTGCTGCTTAGGGAGATATGAT-TAGTGGCTTAAATCTGT
1 CTCCACTACTGCTTAGGGAGATAGGATCTACAGTCTTCAATCT-A
* * * * * * *
60232327 TTCC-CTACTACCTT-GGAAAGATAAGAT-TCACCGTCTTCGATCTG
1 CTCCACTACT-GCTTAGG-GAGATAGGATCT-ACAGTCTTCAATCTA
* * *
60232371 CTCCACTACTACTTAGGGAGACAGGATCTACAATCTTCAATCTA
1 CTCCACTACTGCTTAGGGAGATAGGATCTACAGTCTTCAATCTA
*
60232415 CTCCACTACTGCTCAGGGAGATAGGATCTA
1 CTCCACTACTGCTTAGGGAGATAGGATCTA
60232445 GTGGCTTAAA
Statistics
Matches: 310, Mismatches: 88, Indels: 56
0.68 0.19 0.12
Matches are distributed among these distances:
43 55 0.18
44 197 0.64
45 58 0.19
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.30
Consensus pattern (44 bp):
CTCCACTACTGCTTAGGGAGATAGGATCTACAGTCTTCAATCTA
Found at i:60232458 original size:88 final size:87
Alignment explanation
Indices: 60232102--60232470 Score: 221
Period size: 88 Copynumber: 4.2 Consensus size: 87
60232092 GTCGTCTTTG
* * ** *
60232102 ATCTACTCCACTACTACTTTGGGAGACAGGATCTGTAATCTTCAACCTACTCCACTACTGCTCAG
1 ATCTGCTCCACTACTACTTAGGGAGACAGGAT-TACAATCTTCAATCTACTCCACTACTGCTCAG
** *
60232167 GGAGATAAGG--CTGGTGTTTTAA
65 GGAGAT-AGGATCTACTGTCTTAA
* * * * *
60232189 ATCTGCTTCC-CTACTACCTT-GGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCT
1 ATCTGC-TCCACTACTA-CTTAGGG-AGACAGGATT-ACAATCTTCAATCTACTCCACTACTGCT
* ** *
60232252 TAGGGAGATAGGATCTACAATCTTCA
62 CAGGGAGATAGGATCTACTGTCTTAA
* * * * * * **** * ** * *
60232278 ACCTACTCCACTGCTGCTTAGGGAGATATGATTAGTGGCTTAAATCTGTTTCC-CTACTAC-CTT
1 ATCTGCTCCACTACTACTTAGGGAGACAGGATTACAATCTTCAATCT-ACTCCACTACTGCTC-A
* * * **
60232341 GGAAAGATAAGAT-TCACCGTCTTCG
64 GG-GAGATAGGATCT-ACTGTCTTAA
60232366 ATCTGCTCCACTACTACTTAGGGAGACAGGATCTACAATCTTCAATCTACTCCACTACTGCTCAG
1 ATCTGCTCCACTACTACTTAGGGAGACAGGAT-TACAATCTTCAATCTACTCCACTACTGCTCAG
* *
60232431 GGAGATAGGATCTAGTGGCTTAA
65 GGAGATAGGATCTACTGTCTTAA
* *
60232454 ATCTGCTTCTCTACTAC
1 ATCTGCTCCACTACTAC
60232471 CTTGGAAAGA
Statistics
Matches: 205, Mismatches: 61, Indels: 31
0.69 0.21 0.10
Matches are distributed among these distances:
87 35 0.17
88 133 0.65
89 36 0.18
90 1 0.00
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.30
Consensus pattern (87 bp):
ATCTGCTCCACTACTACTTAGGGAGACAGGATTACAATCTTCAATCTACTCCACTACTGCTCAGG
GAGATAGGATCTACTGTCTTAA
Found at i:60236956 original size:5 final size:5
Alignment explanation
Indices: 60236946--60236999 Score: 58
Period size: 5 Copynumber: 11.0 Consensus size: 5
60236936 TTCGAGATGA
* * *
60236946 AAAAT AAAAT AAAAT --GAT AAAAT AAAAT AAAACA AAAAT GAAAT AAAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA-T AAAAT AAAAT AAAAT
60236995 AAAAT
1 AAAAT
60237000 GAAAGTATCA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
3 2 0.05
5 34 0.85
6 4 0.10
ACGTcount: A:0.76, C:0.02, G:0.04, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:60236969 original size:18 final size:17
Alignment explanation
Indices: 60236942--60236998 Score: 73
Period size: 16 Copynumber: 3.4 Consensus size: 17
60236932 TTGTTTCGAG
60236942 ATGAAAAATAAAATAAA
1 ATGAAAAATAAAATAAA
60236959 ATGATAAAATAAAATAAA
1 ATGA-AAAATAAAATAAA
* *
60236977 A-CAAAAATGAAATAAA
1 ATGAAAAATAAAATAAA
60236993 AT-AAAA
1 ATGAAAA
60236999 TGAAAGTATC
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
16 17 0.47
17 5 0.14
18 14 0.39
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.18
Consensus pattern (17 bp):
ATGAAAAATAAAATAAA
Found at i:60237669 original size:67 final size:67
Alignment explanation
Indices: 60237598--60237732 Score: 261
Period size: 67 Copynumber: 2.0 Consensus size: 67
60237588 ATAAAAAAGA
*
60237598 TTACTTGTTTGTTGATGATAAACTAATTTTTTTATTAATAATAAATATAACTGAAAAGGGTTAAA
1 TTACTGGTTTGTTGATGATAAACTAATTTTTTTATTAATAATAAATATAACTGAAAAGGGTTAAA
60237663 AT
66 AT
60237665 TTACTGGTTTGTTGATGATAAACTAATTTTTTTATTAATAATAAATATAACTGAAAAGGGTTAAA
1 TTACTGGTTTGTTGATGATAAACTAATTTTTTTATTAATAATAAATATAACTGAAAAGGGTTAAA
60237730 AT
66 AT
60237732 T
1 T
60237733 AATTAAATTT
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 67 1.00
ACGTcount: A:0.40, C:0.04, G:0.13, T:0.43
Consensus pattern (67 bp):
TTACTGGTTTGTTGATGATAAACTAATTTTTTTATTAATAATAAATATAACTGAAAAGGGTTAAA
AT
Found at i:60239084 original size:14 final size:15
Alignment explanation
Indices: 60239061--60239089 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
60239051 TTAAAGAGAC
60239061 AAGATATTTACTTTA
1 AAGATATTTACTTTA
60239076 AAGAT-TTTACTTTA
1 AAGATATTTACTTTA
60239090 TTTAAGTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.38, C:0.07, G:0.07, T:0.48
Consensus pattern (15 bp):
AAGATATTTACTTTA
Found at i:60241389 original size:6 final size:6
Alignment explanation
Indices: 60241378--60241402 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
60241368 TCATTCACTT
60241378 ACCATC ACCATC ACCATC ACCATC A
1 ACCATC ACCATC ACCATC ACCATC A
60241403 TCTAAATCTA
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:0.36, C:0.48, G:0.00, T:0.16
Consensus pattern (6 bp):
ACCATC
Found at i:60242066 original size:14 final size:14
Alignment explanation
Indices: 60242030--60242076 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
60242020 TGGGTTAAGG
*
60242030 AGAAGATGAAAAAA
1 AGAAGAAGAAAAAA
*
60242044 ATAAGGAAGAAAAAA
1 AGAA-GAAGAAAAAA
*
60242059 AGAAGAAGAAAGAA
1 AGAAGAAGAAAAAA
60242073 AGAA
1 AGAA
60242077 ATCAAAAGGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 16 0.57
15 12 0.43
ACGTcount: A:0.72, C:0.00, G:0.23, T:0.04
Consensus pattern (14 bp):
AGAAGAAGAAAAAA
Found at i:60242455 original size:20 final size:20
Alignment explanation
Indices: 60242397--60242455 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
60242387 TAAATTTCCA
* *
60242397 AATCAAGTTAAAATGATTTC
1 AATCAAGTTAAATTGTTTTC
*
60242417 AATCATGTTAGAATT-TTTTC
1 AATCAAGTTA-AATTGTTTTC
60242437 AATCAAGTTAAATTGTTTT
1 AATCAAGTTAAATTGTTTT
60242456 TTAACGAGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 4 0.12
20 26 0.79
21 3 0.09
ACGTcount: A:0.37, C:0.08, G:0.10, T:0.44
Consensus pattern (20 bp):
AATCAAGTTAAATTGTTTTC
Found at i:60264701 original size:44 final size:44
Alignment explanation
Indices: 60264630--60264715 Score: 100
Period size: 44 Copynumber: 2.0 Consensus size: 44
60264620 GAAAATGGTG
* * * * * *
60264630 AATCTTATCTCCCTGAGGTTACAGTGGAGCATATTGAAGCCAGA
1 AATCTCATCTCACTGAGATTACAGTGGAACAGATTAAAGCCAGA
* *
60264674 AATCTCATCTCACTGAGATTGCGGTGGAACAGATTAAAGCCA
1 AATCTCATCTCACTGAGATTACAGTGGAACAGATTAAAGCCA
60264716 CATCGGTGAA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
44 34 1.00
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (44 bp):
AATCTCATCTCACTGAGATTACAGTGGAACAGATTAAAGCCAGA
Found at i:60269547 original size:36 final size:37
Alignment explanation
Indices: 60269475--60269547 Score: 121
Period size: 38 Copynumber: 2.0 Consensus size: 37
60269465 GACTACCTTA
*
60269475 AATTTTTCCTATAGAATTGATTGTCTCTAGTCAAGTTG
1 AATTTTTCCTATAAAATTGATTG-CTCTAGTCAAGTTG
60269513 AATTTTTCCTATAAAATTGATTG-TCTAGTCAAGTT
1 AATTTTTCCTATAAAATTGATTGCTCTAGTCAAGTT
60269548 AAACTTAAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
36 12 0.35
38 22 0.65
ACGTcount: A:0.29, C:0.12, G:0.14, T:0.45
Consensus pattern (37 bp):
AATTTTTCCTATAAAATTGATTGCTCTAGTCAAGTTG
Found at i:60283989 original size:3 final size:3
Alignment explanation
Indices: 60283981--60284012 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
60283971 TTTTAATTAT
60283981 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
60284013 CAAATATTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:60285025 original size:17 final size:17
Alignment explanation
Indices: 60285005--60285038 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
60284995 TAGAATTGGG
*
60285005 TTGAGAAAGTAATTTAA
1 TTGAAAAAGTAATTTAA
*
60285022 TTGAAAAATTAATTTAA
1 TTGAAAAAGTAATTTAA
60285039 ATAAAATTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (17 bp):
TTGAAAAAGTAATTTAA
Found at i:60293485 original size:105 final size:101
Alignment explanation
Indices: 60293307--60293523 Score: 292
Period size: 105 Copynumber: 2.1 Consensus size: 101
60293297 AATTGATGGA
** * * *
60293307 TAAGACCATGGTTGGACCATGACAGTGCTTATATGTAAGACCATAGCTGGGCTGTGGTATTCTGA
1 TAAGACCATGGTTGGACCATGACAGTAATTATATGTAAGACCATAGCTGGGCTATGGCATCCTGA
* *
60293372 TGATAAGACCATAATTGGGTTATGGCACCT-TGAATG
66 TAATAAGACCATAACTGGGTTATGGCA-CTATGAATG
*
60293408 TAAGACCATGGTTGGACCATGGCAGTAAATGTATACGTGTAAGACCATAGCTGGGCTATGGCATC
1 TAAGACCATGGTTGGACCATGACAGT-AAT-TATA--TGTAAGACCATAGCTGGGCTATGGCATC
* *
60293473 CTGATAATAAGACCATAACTGGGTTATGGCATTATGAGTG
62 CTGATAATAAGACCATAACTGGGTTATGGCACTATGAATG
60293513 TAAGACCATGG
1 TAAGACCATGG
60293524 CAGGGCCATG
Statistics
Matches: 101, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
101 25 0.25
102 1 0.01
103 4 0.04
104 1 0.01
105 70 0.69
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (101 bp):
TAAGACCATGGTTGGACCATGACAGTAATTATATGTAAGACCATAGCTGGGCTATGGCATCCTGA
TAATAAGACCATAACTGGGTTATGGCACTATGAATG
Found at i:60293517 original size:33 final size:33
Alignment explanation
Indices: 60293444--60293521 Score: 95
Period size: 33 Copynumber: 2.4 Consensus size: 33
60293434 AAATGTATAC
* *
60293444 GTGTAAGACCATAGCTGGGCTATGGCATCCTGA
1 GTGTAAGACCATAACTGGGCTATGGCATCATGA
* * *
60293477 -TAATAAGACCATAACTGGGTTATGGCATTATGA
1 GT-GTAAGACCATAACTGGGCTATGGCATCATGA
60293510 GTGTAAGACCAT
1 GTGTAAGACCAT
60293522 GGCAGGGCCA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
32 1 0.03
33 35 0.95
34 1 0.03
ACGTcount: A:0.31, C:0.17, G:0.26, T:0.27
Consensus pattern (33 bp):
GTGTAAGACCATAACTGGGCTATGGCATCATGA
Found at i:60306521 original size:23 final size:22
Alignment explanation
Indices: 60306478--60306535 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
60306468 AAAGGGTATC
* *
60306478 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
60306499 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
60306522 TACATATCATATCT
1 TACAAATCATATCT
60306536 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:60306538 original size:19 final size:19
Alignment explanation
Indices: 60306491--60306607 Score: 126
Period size: 19 Copynumber: 5.8 Consensus size: 19
60306481 AAATTAAATC
*
60306491 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
60306511 TCTTCTAAGATTACATATCATA
1 ---TCTAAGATTACATATCATA
*
60306533 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
*
60306554 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
* *
60306573 TCTAGGATTGCATATCATA
1 TCTAAGATTACATATCATA
*
60306592 TCTAAGATTGCATATC
1 TCTAAGATTACATATC
60306608 CTCAAAAATT
Statistics
Matches: 86, Mismatches: 6, Indels: 8
0.86 0.06 0.08
Matches are distributed among these distances:
19 50 0.58
21 18 0.21
22 7 0.08
23 11 0.13
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.37
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:60306551 original size:21 final size:19
Alignment explanation
Indices: 60306514--60306607 Score: 152
Period size: 19 Copynumber: 4.8 Consensus size: 19
60306504 AATCATATCT
*
60306514 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
60306533 TCTAAGATTGCATATATCATA
1 TCTAAGATTGC--ATATCATA
60306554 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
60306573 TCTAGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
60306592 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
60306608 CTCAAAAATT
Statistics
Matches: 70, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
19 51 0.73
21 19 0.27
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:60307076 original size:132 final size:132
Alignment explanation
Indices: 60306838--60307138 Score: 439
Period size: 132 Copynumber: 2.3 Consensus size: 132
60306828 GCAACTGGAA
* *
60306838 GGAGATAAGACTT-ACAATCTTCAACCTATTCCACTGTTGACCAGGGAGATAGGATTACTGACTT
1 GGAGATAAGATTTGA-AATCTTCAACCTATTCCACTGTTGACCAGGGAGATAGAATTACTGACTT
*
60306902 CAATGTACTCCACTGTAACCACAGGGAGGTAAAATCCACCATCTTCGATCTACTCCACTACTGCT
65 CAATGTACTCCACTGTAACCACAGAGAGGTAAAATCCACCATCTTCGATCTACTCCACTACTGCT
60306967 TAG
130 TAG
* *
60306970 GGAGATAAGATTTGAAATCTTCAATCTATTCCACTGTTG-CTTAGGGA-AGTAGAATTACT-AGC
1 GGAGATAAGATTTGAAATCTTCAACCTATTCCACTGTTGAC-CAGGGAGA-TAGAATTACTGA-C
* * * *
60307032 TTCAATGTACTCCACTGTAACCACAGAGAGGTAAAATCCGCCATCTTTGATCTGCTCCACTACTT
63 TTCAATGTACTCCACTGTAACCACAGAGAGGTAAAATCCACCATCTTCGATCTACTCCACTACTG
60307097 CTTAG
128 CTTAG
* *
60307102 GGAGATAAGATCTGAGATCTTCAACCTATTCCACTGT
1 GGAGATAAGATTTGAAATCTTCAACCTATTCCACTGT
60307139 AAAGCCAAAG
Statistics
Matches: 153, Mismatches: 12, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
131 3 0.02
132 149 0.97
133 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.29
Consensus pattern (132 bp):
GGAGATAAGATTTGAAATCTTCAACCTATTCCACTGTTGACCAGGGAGATAGAATTACTGACTTC
AATGTACTCCACTGTAACCACAGAGAGGTAAAATCCACCATCTTCGATCTACTCCACTACTGCTT
AG
Found at i:60307357 original size:44 final size:44
Alignment explanation
Indices: 60307306--60307809 Score: 361
Period size: 44 Copynumber: 11.5 Consensus size: 44
60307296 CTGTCGGTGC
* * *
60307306 AGGAAGACAGGA-CTTGCTATTTTCGATCTACTTCACGCCAATAC
1 AGGAAGACAAGATC-TGCTATTTTCGATCTACTTCACACCAATAT
* * *
60307350 ATGAAGACAAGATCTGCT-TTCTTCGATCTACTTCGCTACCAGTAT
1 AGGAAGACAAGATCTGCTATT-TTCGATCTACTTCAC-ACCAATAT
* * * * * * *
60307395 GGGAAGATAAGATCT-CCATCTTCGATCCACTTC-CTTCCAATTT
1 AGGAAGACAAGATCTGCTATTTTCGATCTACTTCAC-ACCAATAT
* * * *
60307438 AGGAAGACAGGACCTGCTATCTTT-GATCTACTTCACGCCAATAC
1 AGGAAGACAAGATCTGCTAT-TTTCGATCTACTTCACACCAATAT
* * * *
60307482 ATGAAGACAAGATCTTCT-TTCTTCGATCTACTTCGCCACCAGTAT
1 AGGAAGACAAGATCTGCTATT-TTCGATCTACTTC-ACACCAATAT
* * *
60307527 AGGAAGACAAGATCTGC-ATCTTCGATCCACTTCGCTACCAATAT
1 AGGAAGACAAGATCTGCTATTTTCGATCTACTTCAC-ACCAATAT
* * * *
60307571 AGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATAC
1 AGGAAGACAAGATCTGCTATTTTCGATCTACTTCACACCAATAT
*
60307615 ATGAAGACAAGATCTGC-ATCTTT-GATGC-ACTTC-CTACCAATAT
1 AGGAAGACAAGATCTGCTAT-TTTCGAT-CTACTTCAC-ACCAATAT
* * * * * *
60307658 AGGAAGACAGGACCTACTATCTTCGATCTACTTCACGCCAATAA
1 AGGAAGACAAGATCTGCTATTTTCGATCTACTTCACACCAATAT
* * * *
60307702 ATGAAGACAAGATCTG-TTTTCTTCGATCTACTCCGCCACCAATAT
1 AGGAAGACAAGATCTGCTATT-TTCGATCTACTTC-ACACCAATAT
* * * * * *
60307747 GGGAAGACATGATCTGC-ATCTTAGATCCACTTC-CTATCAATAT
1 AGGAAGACAAGATCTGCTATTTTCGATCTACTTCAC-ACCAATAT
* *
60307790 AGGAAGACAGGACCTGCTAT
1 AGGAAGACAAGATCTGCTAT
60307810 CTTCACTAAT
Statistics
Matches: 357, Mismatches: 78, Indels: 50
0.74 0.16 0.10
Matches are distributed among these distances:
42 3 0.01
43 79 0.22
44 193 0.54
45 82 0.23
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (44 bp):
AGGAAGACAAGATCTGCTATTTTCGATCTACTTCACACCAATAT
Found at i:60307467 original size:132 final size:133
Alignment explanation
Indices: 60307306--60307691 Score: 557
Period size: 132 Copynumber: 2.9 Consensus size: 133
60307296 CTGTCGGTGC
*
60307306 AGGAAGACAGGACTTGCTAT-TTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTT
1 AGGAAGACAGGACCTGCTATCTTT-GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTT
* * *
60307370 CTTCGATCTACTTCGCTACCAGTATGGGAAGATAAGATCTCCATCTTCGATCCACTTC-CTTCCA
65 CTTCGATCTACTTCGCTACCAGTATAGGAAGACAAGATCTCCATCTTCGATCCACTTCGCTACCA
*
60307434 ATTT
130 ATAT
*
60307438 AGGAAGACAGGACCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTTCTTTC
1 AGGAAGACAGGACCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTC
* *
60307503 TTCGATCTACTTCGCCACCAGTATAGGAAGACAAGATCTGCATCTTCGATCCACTTCGCTACCAA
66 TTCGATCTACTTCGCTACCAGTATAGGAAGACAAGATCTCCATCTTCGATCCACTTCGCTACCAA
60307568 TAT
131 TAT
* * *
60307571 AGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGC-ATC
1 AGGAAGACAGGACCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTC
* * * * * *
60307635 TTTGATGC-ACTTC-CTACCAATATAGGAAGACAGGACCTACTATCTTCGATCTACTTC
66 TTCGAT-CTACTTCGCTACCAGTATAGGAAGACAAGATCT-CCATCTTCGATCCACTTC
60307692 ACGCCAATAA
Statistics
Matches: 230, Mismatches: 20, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
131 21 0.09
132 139 0.60
133 70 0.30
ACGTcount: A:0.29, C:0.26, G:0.16, T:0.29
Consensus pattern (133 bp):
AGGAAGACAGGACCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTC
TTCGATCTACTTCGCTACCAGTATAGGAAGACAAGATCTCCATCTTCGATCCACTTCGCTACCAA
TAT
Found at i:60307688 original size:220 final size:220
Alignment explanation
Indices: 60307343--60307813 Score: 676
Period size: 220 Copynumber: 2.1 Consensus size: 220
60307333 CTACTTCACG
* * * * * * ** *
60307343 CCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCTACCAGTATGGGAAGATAAGAT
1 CCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACTACCAATACAGGAAGACAAGAT
* * * *
60307408 CTCCATCTTCGATCCACTTCCTTCCAATTTAGGAAGACAGGACCTGCTATCTTTGATCTACTTCA
66 CTCCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTACTATCTTCGATCTACTTCA
* * *
60307473 CGCCAATACATGAAGACAAGATCT-TCTTTCTTCGATCTACTTCGCCACCAGTATAGGAAGACAA
131 CGCCAATAAATGAAGACAAGATCTGT-TTTCTTCGATCTACTCCGCCACCAATATAGGAAGACAA
*
60307537 GATCTGCATCTTCGATCCACTTCGCTA
195 GATCTGCATCTTAGATCCACTTC-CTA
* *
60307564 CCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCAC-GCCAATACATGAAGACAAGAT
1 CCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACTACCAATACAGGAAGACAAGAT
* * *
60307628 CTGCATCTTTGATGCACTTCCTACCAATATAGGAAGACAGGACCTACTATCTTCGATCTACTTCA
66 CTCCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTACTATCTTCGATCTACTTCA
* *
60307693 CGCCAATAAATGAAGACAAGATCTGTTTTCTTCGATCTACTCCGCCACCAATATGGGAAGACATG
131 CGCCAATAAATGAAGACAAGATCTGTTTTCTTCGATCTACTCCGCCACCAATATAGGAAGACAAG
60307758 ATCTGCATCTTAGATCCACTTCCTA
196 ATCTGCATCTTAGATCCACTTCCTA
* *
60307783 TCAATATAGGAAGACAGGACCTGCTATCTTC
1 CCAATATAGGAAGACAGGATCTGCTATCTTC
60307814 ACTAATCTGC
Statistics
Matches: 223, Mismatches: 26, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
219 32 0.14
220 152 0.68
221 39 0.17
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (220 bp):
CCAATATAGGAAGACAGGATCTGCTATCTTCGATCTACTTCACTACCAATACAGGAAGACAAGAT
CTCCATCTTCGATCCACTTCCTACCAATATAGGAAGACAGGACCTACTATCTTCGATCTACTTCA
CGCCAATAAATGAAGACAAGATCTGTTTTCTTCGATCTACTCCGCCACCAATATAGGAAGACAAG
ATCTGCATCTTAGATCCACTTCCTA
Found at i:60307767 original size:132 final size:132
Alignment explanation
Indices: 60307306--60307813 Score: 477
Period size: 132 Copynumber: 3.8 Consensus size: 132
60307296 CTGTCGGTGC
* * * * * *
60307306 AGGAAGACAGGA-CTTGCTATTTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTT
1 AGGAAGACAAGATC-TGCTATCTTCGATCTACTCCACACCAATACAGGAAGACAAGATCTGC-AT
* * * * * * * * *
60307370 CTTCGATCTACTTCGCTACCAGTATGGGAAGATAAGATCT-CCATCTTCGATCCACTTC-CTTCC
64 CTTAGATCCACTTC-CTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCCACTTCACTACC
**
60307433 AATTT
128 AATAA
* * * * * * * *
60307438 AGGAAGACAGGACCTGCTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTTCTTTC
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTCCACACCAATACAGGAAGACAAGATCTGC-ATC
* * * * * * *
60307503 TTCGATCTACTTCGCCACCAGTATAGGAAGACAAGATCTGC-ATCTTCGATCCACTTCGCTACCA
65 TTAGATCCACTTC-CTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCCACTTCACTACCA
*
60307567 ATAT
129 ATAA
* * * *
60307571 AGGAAGACAGGATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCATCT
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTCCACACCAATACAGGAAGACAAGATCTGCATCT
* * * * *
60307636 TTGATGCACTTCCTACCAATATAGGAAGACAGGACCTACTATCTTCGATCTACTTCAC-GCCAAT
66 TAGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCCACTTCACTACCAAT
60307700 AA
131 AA
* * * * ** *
60307702 ATGAAGACAAGATCTGTTTTCTTCGATCTACTCCGCCACCAATATGGGAAGACATGATCTGCATC
1 AGGAAGACAAGATCTGCTATCTTCGATCTACTCC-ACACCAATACAGGAAGACAAGATCTGCATC
*
60307767 TTAGATCCACTTCCTATCAATATAGGAAGACAGGACCTGCTATCTTC
65 TTAGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATCTTC
60307814 ACTAATCTGC
Statistics
Matches: 332, Mismatches: 39, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
131 57 0.17
132 207 0.62
133 68 0.20
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (132 bp):
AGGAAGACAAGATCTGCTATCTTCGATCTACTCCACACCAATACAGGAAGACAAGATCTGCATCT
TAGATCCACTTCCTACCAATATAGGAAGACAGGACCTGCTATCTTCGATCCACTTCACTACCAAT
AA
Found at i:60308182 original size:45 final size:46
Alignment explanation
Indices: 60308127--60308219 Score: 179
Period size: 45 Copynumber: 2.0 Consensus size: 46
60308117 TCTCCCACTG
60308127 CAACCAGAGGGTAGAAATATATGGCTTCTTCTCAATCCACTCCTAT
1 CAACCAGAGGGTAGAAATATATGGCTTCTTCTCAATCCACTCCTAT
60308173 CAACC-GAGGGTAGAAATATATGGCTTCTTCTCAATCCACTCCTAT
1 CAACCAGAGGGTAGAAATATATGGCTTCTTCTCAATCCACTCCTAT
60308218 CA
1 CA
60308220 CAATTCAAGG
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
45 42 0.89
46 5 0.11
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (46 bp):
CAACCAGAGGGTAGAAATATATGGCTTCTTCTCAATCCACTCCTAT
Found at i:60310256 original size:27 final size:27
Alignment explanation
Indices: 60310214--60310268 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
60310204 TTACTCTAAA
* *
60310214 TAAGCTCTAAAAACTATAGGGATTTCT
1 TAAGCTCTAAAAACTACAGAGATTTCT
*
60310241 TAAGCTCTAAAGACTACAGAGATTTCT
1 TAAGCTCTAAAAACTACAGAGATTTCT
60310268 T
1 T
60310269 CCGCAATCCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (27 bp):
TAAGCTCTAAAAACTACAGAGATTTCT
Found at i:60314785 original size:42 final size:43
Alignment explanation
Indices: 60314732--60314832 Score: 143
Period size: 43 Copynumber: 2.4 Consensus size: 43
60314722 AAGATATGTT
* *
60314732 TTTAGCGGCGTTTGTGGGAAAA-CGTCGCTAAAAGTGATGAT-
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATC
* *
60314773 TTATAGTGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGGTC
1 TT-TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATC
60314817 TTTAGCGGCGTTTGTG
1 TTTAGCGGCGTTTGTG
60314833 TGGTTGTGTT
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
41 2 0.04
42 19 0.37
43 29 0.56
44 2 0.04
ACGTcount: A:0.23, C:0.14, G:0.33, T:0.31
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGATC
Found at i:60321916 original size:12 final size:12
Alignment explanation
Indices: 60321899--60321923 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
60321889 AATGATTAGG
60321899 TTAATTAAGGTC
1 TTAATTAAGGTC
60321911 TTAATTAAGGTC
1 TTAATTAAGGTC
60321923 T
1 T
60321924 CTTGCAACCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (12 bp):
TTAATTAAGGTC
Found at i:60323171 original size:24 final size:22
Alignment explanation
Indices: 60323132--60323179 Score: 69
Period size: 24 Copynumber: 2.1 Consensus size: 22
60323122 TTATTTATAT
*
60323132 AATTTTAAAAATACACATTAAA
1 AATTTTAAAAAAACACATTAAA
60323154 AATTATTAAAAAGAACACATTAAA
1 AATT-TTAAAAA-AACACATTAAA
60323178 AA
1 AA
60323180 ACTATTTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 4 0.17
23 7 0.30
24 12 0.52
ACGTcount: A:0.62, C:0.08, G:0.02, T:0.27
Consensus pattern (22 bp):
AATTTTAAAAAAACACATTAAA
Found at i:60323185 original size:25 final size:23
Alignment explanation
Indices: 60323136--60323190 Score: 65
Period size: 25 Copynumber: 2.3 Consensus size: 23
60323126 TTATATAATT
* *
60323136 TTAAAAATACACATTAAAAATTA
1 TTAAAAAAACACATTAAAAACTA
60323159 TTAAAAAGAACACATTAAAAAACTA
1 TTAAAAA-AACACATT-AAAAACTA
*
60323184 TTTAAAA
1 TTAAAAA
60323191 TTTTTAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 7 0.26
24 7 0.26
25 13 0.48
ACGTcount: A:0.62, C:0.09, G:0.02, T:0.27
Consensus pattern (23 bp):
TTAAAAAAACACATTAAAAACTA
Found at i:60323188 original size:26 final size:24
Alignment explanation
Indices: 60323135--60323190 Score: 69
Period size: 23 Copynumber: 2.3 Consensus size: 24
60323125 TTTATATAAT
* *
60323135 TTTAAAAATACACATTAAAAATTA
1 TTTAAAAAAACACATTAAAAACTA
60323159 -TTAAAAAGAACACATTAAAAAACTA
1 TTTAAAAA-AACACATT-AAAAACTA
60323184 TTTAAAA
1 TTTAAAA
60323191 TTTTTAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 7 0.26
24 7 0.26
25 7 0.26
26 6 0.22
ACGTcount: A:0.61, C:0.09, G:0.02, T:0.29
Consensus pattern (24 bp):
TTTAAAAAAACACATTAAAAACTA
Found at i:60323319 original size:85 final size:85
Alignment explanation
Indices: 60323224--60324117 Score: 1788
Period size: 85 Copynumber: 10.5 Consensus size: 85
60323214 TTAAGCAGCA
60323224 TACATGAATTTAAATTTCAAAATATGTACATGATATACTTTAAACATAGATTAATAAAAGTTTCT
1 TACATGAATTTAAATTTCAAAATATGTACATGATATACTTTAAACATAGATTAATAAAAGTTTCT
60323289 AAAAAAGTTTTAGAAATATG
66 AAAAAAGTTTTAGAAATATG
60323309 TACATGAATTTAAATTTCAAAATATGTACATGATATACTTTAAACATAGATTAATAAAAGTTTCT
1 TACATGAATTTAAATTTCAAAATATGTACATGATATACTTTAAACATAGATTAATAAAAGTTTCT
60323374 AAAAAAGTTTTAGAAATATG
66 AAAAAAGTTTTAGAAATATG
60323394 TACATGAATTTAAATTTCAAAATATGTACATGATATACTTTAAACATAGATTAATAAAAGTTTCT
1 TACATGAATTTAAATTTCAAAATATGTACATGATATACTTTAAACATAGATTAATAAAAGTTTCT
60323459 AAAAAAGTTTTAGAAATATG
66 AAAAAAGTTTTAGAAATATG
60323479 TACATGAATTTAAATTTCAAAATATGTACATGATATACTTTAAACATAGATTAATAAAAGTTTCT
1 TACATGAATTTAAATTTCAAAATATGTACATGATATACTTTAAACATAGATTAATAAAAGTTTCT
60323544 AAAAAAGTTTTAGAAATATG
66 AAAAAAGTTTTAGAAATATG
60323564 TACATGAATTTAAATTTCAAAATATGTACATGATATACTTTAAACATAGATTAATAAAAGTTTCT
1 TACATGAATTTAAATTTCAAAATATGTACATGATATACTTTAAACATAGATTAATAAAAGTTTCT
60323629 AAAAAAGTTTTAGAAATATG
66 AAAAAAGTTTTAGAAATATG
60323649 TACATGAATTTAAATTTCAAAATATGTACATGATATACTTTAAACATAGATTAATAAAAGTTTCT
1 TACATGAATTTAAATTTCAAAATATGTACATGATATACTTTAAACATAGATTAATAAAAGTTTCT
60323714 AAAAAAGTTTTAGAAATATG
66 AAAAAAGTTTTAGAAATATG
60323734 TACATGAATTTAAATTTCAAAATATGTACATGATATACTTTAAACATAGATTAATAAAAGTTTCT
1 TACATGAATTTAAATTTCAAAATATGTACATGATATACTTTAAACATAGATTAATAAAAGTTTCT
60323799 AAAAAAGTTTTAGAAATATG
66 AAAAAAGTTTTAGAAATATG
60323819 TACATGAATTTAAATTTCAAAATATGTACATGATATACTTTAAACATAGATTAATAAAAGTTTCT
1 TACATGAATTTAAATTTCAAAATATGTACATGATATACTTTAAACATAGATTAATAAAAGTTTCT
60323884 AAAAAAGTTTTAGAAATATG
66 AAAAAAGTTTTAGAAATATG
60323904 TACATGAATTTAAATTTCAAAATATGTACATGATATACTTTAAACATAGATTAATAAAAGTTTCT
1 TACATGAATTTAAATTTCAAAATATGTACATGATATACTTTAAACATAGATTAATAAAAGTTTCT
60323969 AAAAAAGTTTTAGAAATATG
66 AAAAAAGTTTTAGAAATATG
60323989 TACATGAATTTAAATTTCAAAATATGTACATGATATACTTTAAACATAGATTAATAAAAGTTTCT
1 TACATGAATTTAAATTTCAAAATATGTACATGATATACTTTAAACATAGATTAATAAAAGTTTCT
60324054 AAAAAAGTTTTAGAAATATG
66 AAAAAAGTTTTAGAAATATG
60324074 TACATGAATTTAAATTTCAAAATATGTACATGATATACTTTAAA
1 TACATGAATTTAAATTTCAAAATATGTACATGATATACTTTAAA
60324118 AAGTTTCTAA
Statistics
Matches: 809, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
85 809 1.00
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.37
Consensus pattern (85 bp):
TACATGAATTTAAATTTCAAAATATGTACATGATATACTTTAAACATAGATTAATAAAAGTTTCT
AAAAAAGTTTTAGAAATATG
Found at i:60333279 original size:64 final size:64
Alignment explanation
Indices: 60333201--60333328 Score: 247
Period size: 64 Copynumber: 2.0 Consensus size: 64
60333191 ATTAATGGAC
*
60333201 TCTTCCTCTGAGTTGCATAAAAAGTAGATATTACTTACTTGGAGATTTTTCCTTTGTAAATTAT
1 TCTTCCTCTAAGTTGCATAAAAAGTAGATATTACTTACTTGGAGATTTTTCCTTTGTAAATTAT
60333265 TCTTCCTCTAAGTTGCATAAAAAGTAGATATTACTTACTTGGAGATTTTTCCTTTGTAAATTAT
1 TCTTCCTCTAAGTTGCATAAAAAGTAGATATTACTTACTTGGAGATTTTTCCTTTGTAAATTAT
60333329 CAAAAGCTCG
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 63 1.00
ACGTcount: A:0.29, C:0.14, G:0.13, T:0.44
Consensus pattern (64 bp):
TCTTCCTCTAAGTTGCATAAAAAGTAGATATTACTTACTTGGAGATTTTTCCTTTGTAAATTAT
Found at i:60344571 original size:17 final size:17
Alignment explanation
Indices: 60344549--60344609 Score: 63
Period size: 16 Copynumber: 3.5 Consensus size: 17
60344539 TTCATGTAAT
60344549 TTTTTTAAAAATTTTTA
1 TTTTTTAAAAATTTTTA
60344566 TTTTTT-AAAATATTTTA
1 TTTTTTAAAAAT-TTTTA
* *
60344583 -TTTTTGAATATTTTTA
1 TTTTTTAAAAATTTTTA
60344599 TAATTTTTAAA
1 T--TTTTTAAA
60344610 TTATTTGTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
16 15 0.41
17 15 0.41
19 7 0.19
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (17 bp):
TTTTTTAAAAATTTTTA
Found at i:60344575 original size:16 final size:16
Alignment explanation
Indices: 60344549--60344609 Score: 68
Period size: 17 Copynumber: 3.6 Consensus size: 16
60344539 TTCATGTAAT
60344549 TTTTTTAAAAATTTTTA
1 TTTTTT-AAAATTTTTA
60344566 TTTTTTAAAATATTTTA
1 TTTTTTAAAAT-TTTTA
* *
60344583 TTTTTGAATATTTTTA
1 TTTTTTAAAATTTTTA
60344599 TAATTTTTAAA
1 T--TTTTTAAA
60344610 TTATTTGTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
16 11 0.30
17 20 0.54
18 6 0.16
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (16 bp):
TTTTTTAAAATTTTTA
Found at i:60346686 original size:44 final size:44
Alignment explanation
Indices: 60346638--60346730 Score: 132
Period size: 44 Copynumber: 2.1 Consensus size: 44
60346628 GAACATAAAA
* *
60346638 GAATGAAAATGATGAAGTTACAGATATGAGTTGTACTAACAAAT
1 GAATGAAAATGATGAAGTTACAGAAATGAGTCGTACTAACAAAT
* * * *
60346682 GAATGGAAATGATGAAGTTAGAGAAATGAGTCGTATTCACAAAT
1 GAATGAAAATGATGAAGTTACAGAAATGAGTCGTACTAACAAAT
60346726 GAATG
1 GAATG
60346731 CATTTTCTCA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.44, C:0.06, G:0.24, T:0.26
Consensus pattern (44 bp):
GAATGAAAATGATGAAGTTACAGAAATGAGTCGTACTAACAAAT
Found at i:60364464 original size:9 final size:9
Alignment explanation
Indices: 60364450--60364481 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
60364440 GTATGAATAA
60364450 AATAATTAT
1 AATAATTAT
60364459 AATAATTAT
1 AATAATTAT
*
60364468 AATAATAAT
1 AATAATTAT
60364477 AATAA
1 AATAA
60364482 AACCATAGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (9 bp):
AATAATTAT
Found at i:60365398 original size:27 final size:27
Alignment explanation
Indices: 60365340--60365404 Score: 94
Period size: 27 Copynumber: 2.4 Consensus size: 27
60365330 CCTGTCTAGT
* * *
60365340 AGGCACCAATGGAGGAGCCTCATGGAG
1 AGGCGCCAATGAAGGAACCTCATGGAG
60365367 AGGCGCCAATGAAGGAACCTCATGGAG
1 AGGCGCCAATGAAGGAACCTCATGGAG
*
60365394 AGGCGCTAATG
1 AGGCGCCAATG
60365405 GTGCCCTCTG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.31, C:0.22, G:0.35, T:0.12
Consensus pattern (27 bp):
AGGCGCCAATGAAGGAACCTCATGGAG
Found at i:60365548 original size:14 final size:13
Alignment explanation
Indices: 60365531--60365580 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 13
60365521 GAGAAAAAAA
60365531 AAGAGAGAAAGGAG
1 AAGA-AGAAAGGAG
60365545 AAGAAGAGAAGGAG
1 AAGAAGA-AAGGAG
* *
60365559 AAGAAGAAGAAGAT
1 AAGAAGAA-AGGAG
60365573 AAGAAGAA
1 AAGAAGAA
60365581 GAAGAAAGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
13 4 0.12
14 28 0.88
ACGTcount: A:0.62, C:0.00, G:0.36, T:0.02
Consensus pattern (13 bp):
AAGAAGAAAGGAG
Found at i:60365549 original size:3 final size:3
Alignment explanation
Indices: 60365543--60365586 Score: 56
Period size: 3 Copynumber: 15.3 Consensus size: 3
60365533 GAGAGAAAGG
* *
60365543 AGA AGA AG- AGA AGG AGA AGA AGA AGA AG- ATA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
60365587 AGAAAAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
2 3 0.09
3 32 0.91
ACGTcount: A:0.64, C:0.00, G:0.34, T:0.02
Consensus pattern (3 bp):
AGA
Found at i:60365553 original size:17 final size:17
Alignment explanation
Indices: 60365531--60365591 Score: 56
Period size: 20 Copynumber: 3.6 Consensus size: 17
60365521 GAGAAAAAAA
60365531 AAGAGAGAAAGGAGAAG
1 AAGAGAGAAAGGAGAAG
60365548 -A-AGAG-AAGGAGAAG
1 AAGAGAGAAAGGAGAAG
*
60365562 AAGAAGAAGATAAGAAGAAG
1 AAG-AG-AGA-AAGGAGAAG
*
60365582 AAGAAAGAAA
1 AAGAGAGAAA
60365592 AAAAAGGTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
14 9 0.25
15 5 0.14
16 1 0.03
17 4 0.11
18 5 0.14
19 1 0.03
20 11 0.31
ACGTcount: A:0.64, C:0.00, G:0.34, T:0.02
Consensus pattern (17 bp):
AAGAGAGAAAGGAGAAG
Found at i:60365581 original size:14 final size:13
Alignment explanation
Indices: 60365545--60365590 Score: 58
Period size: 14 Copynumber: 3.4 Consensus size: 13
60365535 GAGAAAGGAG
60365545 AAGAAG-AGAAGGA
1 AAGAAGAAGAA-GA
60365558 GAAGAAGAAGAAGA
1 -AAGAAGAAGAAGA
60365572 TAAGAAGAAGAAGA
1 -AAGAAGAAGAAGA
60365586 AAGAA
1 AAGAA
60365591 AAAAAAGGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
13 5 0.17
14 21 0.70
15 4 0.13
ACGTcount: A:0.65, C:0.00, G:0.33, T:0.02
Consensus pattern (13 bp):
AAGAAGAAGAAGA
Found at i:60365804 original size:20 final size:20
Alignment explanation
Indices: 60365754--60366093 Score: 123
Period size: 22 Copynumber: 15.0 Consensus size: 20
60365744 TAGATTAGAA
* *
60365754 TTTTGTATGAATATTTTAACT
1 TTTTTTATGAATATTGTAA-T
*
60365775 TTTTTGTATGAATATTATAAT
1 TTTTT-TATGAATATTGTAAT
60365796 TTTTTTATGAATATTGTAA-
1 TTTTTTATGAATATTGTAAT
* *
60365815 TGTTGTATGAATATTGTAAT
1 TTTTTTATGAATATTGTAAT
*
60365835 TATTTTAT-AATTAAATTTGT-AT
1 TTTTTTATGAA-T--A-TTGTAAT
* *
60365857 TTATAGTTT-TGGAT-TAGTAAT
1 TT-T--TTTATGAATATTGTAAT
60365878 TTTTTGTATGAATATTGTAATTTT
1 TTTTT-TATGAATATTGTAA---T
*
60365902 GTAATTTTGTATGAATATTATAATT
1 -T--TTTT-TATGAATATTGTAA-T
60365927 TTTTTGTATGAATATTGTAATATT
1 TTTTT-TATGAATATTGT-A-A-T
*
60365951 ATAGTTTTGTATGAATATTGCAAAT
1 -T--TTTT-TATGAATATTG-TAAT
60365976 TTTTTGTATGAATATTGTAATTTT
1 TTTTT-TATGAATATTGTAA---T
* *
60366000 GTAATTTTGTATGAATATTATATT
1 -T--TTTT-TATGAATATTGTAAT
60366024 TTTTTGTATGAATATTGTAATATT
1 TTTTT-TATGAATATTGT-A-A-T
*
60366048 ATAATTTTGTATGAATATTGCAATT
1 -T--TTTT-TATGAATATTGTAA-T
60366073 TTTTTGTATGAATATTGTAAT
1 TTTTT-TATGAATATTGTAAT
60366094 ATTGTAATTT
Statistics
Matches: 259, Mismatches: 22, Indels: 76
0.73 0.06 0.21
Matches are distributed among these distances:
18 2 0.01
19 20 0.08
20 28 0.11
21 38 0.15
22 68 0.26
23 7 0.03
24 12 0.05
25 14 0.05
26 2 0.01
27 68 0.26
ACGTcount: A:0.31, C:0.01, G:0.13, T:0.55
Consensus pattern (20 bp):
TTTTTTATGAATATTGTAAT
Found at i:60365825 original size:19 final size:19
Alignment explanation
Indices: 60365778--60365834 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
60365768 TTTAACTTTT
* *
60365778 TTGTATGAATATTATAATTT
1 TTGTATGAATATTGTAA-TG
*
60365798 TTTTATGAATATTGTAATG
1 TTGTATGAATATTGTAATG
60365817 TTGTATGAATATTGTAAT
1 TTGTATGAATATTGTAAT
60365835 TATTTTATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (19 bp):
TTGTATGAATATTGTAATG
Found at i:60365913 original size:27 final size:25
Alignment explanation
Indices: 60365879--60366113 Score: 244
Period size: 27 Copynumber: 9.5 Consensus size: 25
60365869 ATTAGTAATT
*
60365879 TTTTGTATGAATATTGTAATTTTGTAA
1 TTTTGTATGAATATTGTAATATT-T-A
*
60365906 TTTTGTATGAATATTAT-A-ATTT-
1 TTTTGTATGAATATTGTAATATTTA
60365928 TTTTGTATGAATATTGTAATATTATA
1 TTTTGTATGAATATTGTAATATT-TA
*
60365954 GTTTTGTATGAATATTGCAA-A-TT-
1 -TTTTGTATGAATATTGTAATATTTA
*
60365977 TTTTGTATGAATATTGTAATTTTGTAA
1 TTTTGTATGAATATTGTAATATT-T-A
60366004 TTTTGTATGAATA-T-T-ATATTT-
1 TTTTGTATGAATATTGTAATATTTA
60366025 TTTTGTATGAATATTGTAATATTATAA
1 TTTTGTATGAATATTGTAATATT-T-A
*
60366052 TTTTGTATGAATATTG-CA-ATTT-
1 TTTTGTATGAATATTGTAATATTTA
60366074 TTTTGTATGAATATTGTAATATTGTAA
1 TTTTGTATGAATATTGTAATATT-T-A
60366101 TTTTGTATGAATA
1 TTTTGTATGAATA
60366114 NNNNNNNNNN
Statistics
Matches: 178, Mismatches: 9, Indels: 42
0.78 0.04 0.18
Matches are distributed among these distances:
21 13 0.07
22 51 0.29
23 4 0.02
24 19 0.11
25 11 0.06
26 4 0.02
27 76 0.43
ACGTcount: A:0.31, C:0.01, G:0.13, T:0.54
Consensus pattern (25 bp):
TTTTGTATGAATATTGTAATATTTA
Found at i:60365933 original size:49 final size:49
Alignment explanation
Indices: 60365869--60366113 Score: 377
Period size: 49 Copynumber: 5.0 Consensus size: 49
60365859 ATAGTTTTGG
*
60365869 ATTAGTAA-TTTTTTGTATGAATATTGTAATTTTGTAATTTTGTATGAAT
1 ATTA-TAATTTTTTTGTATGAATATTGTAATATTGTAATTTTGTATGAAT
* *
60365918 ATTATAATTTTTTTGTATGAATATTGTAATATTATAGTTTTGTATGAAT
1 ATTATAATTTTTTTGTATGAATATTGTAATATTGTAATTTTGTATGAAT
** * *
60365967 ATTGCAAATTTTTTGTATGAATATTGTAATTTTGTAATTTTGTATGAAT
1 ATTATAATTTTTTTGTATGAATATTGTAATATTGTAATTTTGTATGAAT
*
60366016 ATTAT-ATTTTTTTGTATGAATATTGTAATATTATAATTTTGTATGAAT
1 ATTATAATTTTTTTGTATGAATATTGTAATATTGTAATTTTGTATGAAT
**
60366064 ATTGCAATTTTTTTGTATGAATATTGTAATATTGTAATTTTGTATGAAT
1 ATTATAATTTTTTTGTATGAATATTGTAATATTGTAATTTTGTATGAAT
60366113 A
1 A
60366114 NNNNNNNNNN
Statistics
Matches: 177, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
48 46 0.26
49 131 0.74
ACGTcount: A:0.32, C:0.01, G:0.13, T:0.54
Consensus pattern (49 bp):
ATTATAATTTTTTTGTATGAATATTGTAATATTGTAATTTTGTATGAAT
Found at i:60366056 original size:97 final size:98
Alignment explanation
Indices: 60365875--60366113 Score: 444
Period size: 97 Copynumber: 2.4 Consensus size: 98
60365865 TTGGATTAGT
60365875 AATTTTTTGTATGAATATTGTAATTTTGTAATTTTGTATGAATATTATAATTTTTTTGTATGAAT
1 AATTTTTTGTATGAATATTGTAATTTTGTAATTTTGTATGAATATTATAATTTTTTTGTATGAAT
*
60365940 ATTGTAATATTATAGTTTTGTATGAATATTGCA
66 ATTGTAATATTATAATTTTGTATGAATATTGCA
60365973 AATTTTTTGTATGAATATTGTAATTTTGTAATTTTGTATGAATATTAT-ATTTTTTTGTATGAAT
1 AATTTTTTGTATGAATATTGTAATTTTGTAATTTTGTATGAATATTATAATTTTTTTGTATGAAT
60366037 ATTGTAATATTATAATTTTGTATGAATATTGCA
66 ATTGTAATATTATAATTTTGTATGAATATTGCA
* *
60366070 ATTTTTTTGTATGAATATTGTAATATTGTAATTTTGTATGAATA
1 AATTTTTTGTATGAATATTGTAATTTTGTAATTTTGTATGAATA
60366114 NNNNNNNNNN
Statistics
Matches: 138, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
97 90 0.65
98 48 0.35
ACGTcount: A:0.32, C:0.01, G:0.13, T:0.54
Consensus pattern (98 bp):
AATTTTTTGTATGAATATTGTAATTTTGTAATTTTGTATGAATATTATAATTTTTTTGTATGAAT
ATTGTAATATTATAATTTTGTATGAATATTGCA
Found at i:60366113 original size:19 final size:19
Alignment explanation
Indices: 60366042--60366099 Score: 62
Period size: 22 Copynumber: 2.9 Consensus size: 19
60366032 TGAATATTGT
*
60366042 AATATTATAATTTTGTATG
1 AATATTGTAATTTTGTATG
*
60366061 AATATTGCAATTTTTTTGTATG
1 AATATTGTAA---TTTTGTATG
*
60366083 AATATTGTAATATTGTA
1 AATATTGTAATTTTGTA
60366100 ATTTTGTATG
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
19 14 0.44
22 18 0.56
ACGTcount: A:0.34, C:0.02, G:0.12, T:0.52
Consensus pattern (19 bp):
AATATTGTAATTTTGTATG
Found at i:60369167 original size:21 final size:22
Alignment explanation
Indices: 60369141--60369185 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
60369131 TACCTAATTT
* *
60369141 TTTTCTTCT-TTTTCTTCCTTC
1 TTTTCTTCTACTTCCTTCCTTC
60369162 TTTTCTTCTACTTCCTTCCTTC
1 TTTTCTTCTACTTCCTTCCTTC
60369184 TT
1 TT
60369186 CTTTCTTCCG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.02, C:0.31, G:0.00, T:0.67
Consensus pattern (22 bp):
TTTTCTTCTACTTCCTTCCTTC
Found at i:60369193 original size:18 final size:17
Alignment explanation
Indices: 60369143--60369194 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 17
60369133 CCTAATTTTT
60369143 TTCTTCTT-TTTCTTCC
1 TTCTTCTTCTTTCTTCC
60369159 TTCTT-TTCTTCTACTTCC
1 TTCTTCTTCTT-T-CTTCC
60369177 TTCCTTCTTCTTTCTTCC
1 TT-CTTCTTCTTTCTTCC
60369195 GTTTCTGTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
15 2 0.06
16 7 0.23
17 1 0.03
18 12 0.39
19 4 0.13
20 5 0.16
ACGTcount: A:0.02, C:0.35, G:0.00, T:0.63
Consensus pattern (17 bp):
TTCTTCTTCTTTCTTCC
Found at i:60369302 original size:27 final size:27
Alignment explanation
Indices: 60369272--60369324 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
60369262 TTCAGTATGA
60369272 CACCACCATTGGCGCCTCCCAGATAGG
1 CACCACCATTGGCGCCTCCCAGATAGG
60369299 CACCACCATTGGCGCCTCCCAGATAG
1 CACCACCATTGGCGCCTCCCAGATAG
60369325 TCGCCAATAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.23, C:0.42, G:0.21, T:0.15
Consensus pattern (27 bp):
CACCACCATTGGCGCCTCCCAGATAGG
Found at i:60379793 original size:19 final size:19
Alignment explanation
Indices: 60379757--60379793 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
60379747 AAAGTTAATA
*
60379757 GCAAATTTGAATATGGTGG
1 GCAAATTTGAATACGGTGG
*
60379776 GCAAATTTGATTACGGTG
1 GCAAATTTGAATACGGTG
60379794 AGTGACAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.30, C:0.08, G:0.30, T:0.32
Consensus pattern (19 bp):
GCAAATTTGAATACGGTGG
Found at i:60380678 original size:188 final size:189
Alignment explanation
Indices: 60380350--60380726 Score: 747
Period size: 188 Copynumber: 2.0 Consensus size: 189
60380340 ACACACACAC
60380350 ACACACACATATATATATATATATATATATATTAAAATGTTCTTGCCAAAAGGTGATAAGAAACA
1 ACACACACATATATATATATATATATATATATTAAAATGTTCTTGCCAAAAGGTGATAAGAAACA
60380415 CCTTGTCCTTATCTGAAACTATAATCCGGGGTAACCTATGCGGCTTAAAGATGTGGTGCACAAAC
66 CCTTGTCCTTATCTGAAACTATAATCCGGGGTAACCTATGCGGCTTAAAGATGTGGTGCACAAAC
60380480 ATTTGGGTGATTGATAGAGTTATAAAAGAAATGTGCATACTTTGGCTGTCTATCCATAA
131 ATTTGGGTGATTGATAGAGTTATAAAAGAAATGTGCATACTTTGGCTGTCTATCCATAA
60380539 ACACACACAT-TATATATATATATATATATATTAAAATGTTCTTGCCAAAAGGTGATAAGAAACA
1 ACACACACATATATATATATATATATATATATTAAAATGTTCTTGCCAAAAGGTGATAAGAAACA
60380603 CCTTGTCCTTATCTGAAACTATAATCCGGGGTAACCTATGCGGCTTAAAGATGTGGTGCACAAAC
66 CCTTGTCCTTATCTGAAACTATAATCCGGGGTAACCTATGCGGCTTAAAGATGTGGTGCACAAAC
60380668 ATTTGGGTGATTGATAGAGTTATAAAAGAAATGTGCATACTTTGGCTGTCTATCCATAA
131 ATTTGGGTGATTGATAGAGTTATAAAAGAAATGTGCATACTTTGGCTGTCTATCCATAA
60380727 CTACTAAAAT
Statistics
Matches: 188, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
188 178 0.95
189 10 0.05
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (189 bp):
ACACACACATATATATATATATATATATATATTAAAATGTTCTTGCCAAAAGGTGATAAGAAACA
CCTTGTCCTTATCTGAAACTATAATCCGGGGTAACCTATGCGGCTTAAAGATGTGGTGCACAAAC
ATTTGGGTGATTGATAGAGTTATAAAAGAAATGTGCATACTTTGGCTGTCTATCCATAA
Found at i:60382529 original size:16 final size:16
Alignment explanation
Indices: 60382508--60382538 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
60382498 GACAGCATGA
*
60382508 TTGGATATGATTAGTT
1 TTGGATATGAATAGTT
60382524 TTGGATATGAATAGT
1 TTGGATATGAATAGT
60382539 AAATAACATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.26, T:0.45
Consensus pattern (16 bp):
TTGGATATGAATAGTT
Found at i:60383099 original size:35 final size:35
Alignment explanation
Indices: 60383053--60383128 Score: 100
Period size: 35 Copynumber: 2.1 Consensus size: 35
60383043 TACACTCTGT
*
60383053 TTGGTGTGTTTCGG-GTGGACTAGCTCTTATGAGCA
1 TTGGTGTGTTTCGGAG-GGACTAGCTCATATGAGCA
* *
60383088 TTGGTGTGTTTCGGAGGGATTAGCTCATGTGAGCA
1 TTGGTGTGTTTCGGAGGGACTAGCTCATATGAGCA
60383123 TCTGGT
1 T-TGGT
60383129 ATTTTTTGGA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
35 31 0.86
36 5 0.14
ACGTcount: A:0.14, C:0.13, G:0.36, T:0.37
Consensus pattern (35 bp):
TTGGTGTGTTTCGGAGGGACTAGCTCATATGAGCA
Found at i:60392113 original size:80 final size:80
Alignment explanation
Indices: 60392010--60392157 Score: 237
Period size: 80 Copynumber: 1.9 Consensus size: 80
60392000 CTCAACATGA
* *
60392010 TTTTTTTACTAATTTTTCTCTTTTGAAATATAATATACATTATAAAAAAAAA-ATTAACACATAA
1 TTTTTTTACTAATTTTTCTCTTTTAAAACATAATATACATTATAAAAAAAAATATTAACACATAA
60392074 AATTCAACATTGTTT
66 AATTCAACATTGTTT
*
60392089 TTTTTATTACT-ATTTTTACTCTTTTAAAACATAATATACATTGTAAAAAAAAATATTAACACAT
1 TTTTT-TTACTAATTTTT-CTCTTTTAAAACATAATATACATTATAAAAAAAAATATTAACACAT
60392153 AAAAT
64 AAAAT
60392158 AAAGACAACT
Statistics
Matches: 63, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
79 11 0.17
80 37 0.59
81 15 0.24
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43
Consensus pattern (80 bp):
TTTTTTTACTAATTTTTCTCTTTTAAAACATAATATACATTATAAAAAAAAATATTAACACATAA
AATTCAACATTGTTT
Found at i:60392709 original size:31 final size:31
Alignment explanation
Indices: 60392674--60392739 Score: 132
Period size: 31 Copynumber: 2.1 Consensus size: 31
60392664 TAATGGAAAG
60392674 TTAATTTCTTGTTATACGAACTTACTAAGTT
1 TTAATTTCTTGTTATACGAACTTACTAAGTT
60392705 TTAATTTCTTGTTATACGAACTTACTAAGTT
1 TTAATTTCTTGTTATACGAACTTACTAAGTT
60392736 TTAA
1 TTAA
60392740 AGCTTACTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.30, C:0.12, G:0.09, T:0.48
Consensus pattern (31 bp):
TTAATTTCTTGTTATACGAACTTACTAAGTT
Found at i:60394888 original size:5 final size:5
Alignment explanation
Indices: 60394878--60394908 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
60394868 TGAGCATTCG
60394878 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA A
1 ATCGA ATCGA ATCGA ATCGA ATCGA ATCGA A
60394909 AATTTTCGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (5 bp):
ATCGA
Found at i:60395611 original size:9 final size:9
Alignment explanation
Indices: 60395597--60395633 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
60395587 TATAGTTTGA
60395597 TATTCGAAT
1 TATTCGAAT
60395606 TATTCGAAT
1 TATTCGAAT
*
60395615 TATTCGAGT
1 TATTCGAAT
60395624 TATTCGAAT
1 TATTCGAAT
60395633 T
1 T
60395634 TAAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:60400598 original size:20 final size:20
Alignment explanation
Indices: 60400564--60400605 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
60400554 AACTATTTAA
** *
60400564 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
60400584 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
60400604 AT
1 AT
60400606 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:60402684 original size:9 final size:9
Alignment explanation
Indices: 60402670--60402706 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
60402660 TATAGTTTGA
60402670 TATTCGAAT
1 TATTCGAAT
60402679 TATTCGAAT
1 TATTCGAAT
*
60402688 TATTCGAGT
1 TATTCGAAT
60402697 TATTCGAAT
1 TATTCGAAT
60402706 T
1 T
60402707 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:60409572 original size:103 final size:104
Alignment explanation
Indices: 60409442--60409651 Score: 413
Period size: 103 Copynumber: 2.0 Consensus size: 104
60409432 TTTCAAGTTC
60409442 TTTTCTTATAAATTTTATGTTTTTGAGGTCATGGGAGCTTGATTTAGCTAGCCCATGTATTAATT
1 TTTTCTTATAAATTTTATGTTTTTGAGGTCATGGGAGCTTGATTTAGCTAGCCCATGTATTAATT
60409507 TTCAAAATTGTTAAAGCTTTTGAAAGTTTCCAAGGTTGA
66 TTCAAAATTGTTAAAGCTTTTGAAAGTTTCCAAGGTTGA
60409546 TTTTCTTATAAA-TTTATGTTTTTGAGGTCATGGGAGCTTGATTTAGCTAGCCCATGTATTAATT
1 TTTTCTTATAAATTTTATGTTTTTGAGGTCATGGGAGCTTGATTTAGCTAGCCCATGTATTAATT
60409610 TTCAAAATTGTTAAAGCTTTTGAAAGTTTCCAAGGTTGA
66 TTCAAAATTGTTAAAGCTTTTGAAAGTTTCCAAGGTTGA
60409649 TTT
1 TTT
60409652 CTTGAAGAAA
Statistics
Matches: 106, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
103 94 0.89
104 12 0.11
ACGTcount: A:0.27, C:0.10, G:0.18, T:0.45
Consensus pattern (104 bp):
TTTTCTTATAAATTTTATGTTTTTGAGGTCATGGGAGCTTGATTTAGCTAGCCCATGTATTAATT
TTCAAAATTGTTAAAGCTTTTGAAAGTTTCCAAGGTTGA
Found at i:60413235 original size:18 final size:18
Alignment explanation
Indices: 60413180--60413236 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
60413170 ATGCAAGCTT
*
60413180 ATATAGATGTGCAAACCC
1 ATATACATGTGCAAACCC
* * * * *
60413198 CTGTAC-TATGCGAGCCC
1 ATATACATGTGCAAACCC
60413215 ATATACATGTGCAAACCC
1 ATATACATGTGCAAACCC
60413233 ATAT
1 ATAT
60413237 GTTATTGTGA
Statistics
Matches: 27, Mismatches: 11, Indels: 2
0.68 0.28 0.05
Matches are distributed among these distances:
17 12 0.44
18 15 0.56
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.25
Consensus pattern (18 bp):
ATATACATGTGCAAACCC
Found at i:60415833 original size:84 final size:84
Alignment explanation
Indices: 60415692--60415860 Score: 302
Period size: 84 Copynumber: 2.0 Consensus size: 84
60415682 ATGATAAGAG
* * * *
60415692 AATGATTAAGTCTTATAATTGTATGAGATGTTGAGGGTGTTGGAACATTATTAAAATAAGTTGAT
1 AATGATTAAGTCTTATAATTGCATGAGATGTTGAAGATGTTGGAACACTATTAAAATAAGTTGAT
60415757 AATATAAAAGAAGATAAGT
66 AATATAAAAGAAGATAAGT
60415776 AATGATTAAGTCTTATAATTGCATGAGATGTTGAAGATGTTGGAACACTATTAAAATAAGTTGAT
1 AATGATTAAGTCTTATAATTGCATGAGATGTTGAAGATGTTGGAACACTATTAAAATAAGTTGAT
60415841 AATATAAAAGAAGATAAGT
66 AATATAAAAGAAGATAAGT
60415860 A
1 A
60415861 GATTTAATCC
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
84 81 1.00
ACGTcount: A:0.43, C:0.04, G:0.20, T:0.33
Consensus pattern (84 bp):
AATGATTAAGTCTTATAATTGCATGAGATGTTGAAGATGTTGGAACACTATTAAAATAAGTTGAT
AATATAAAAGAAGATAAGT
Found at i:60416819 original size:29 final size:29
Alignment explanation
Indices: 60416786--60416851 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 29
60416776 AGTGCAAATA
**
60416786 CAGAACAGGATGGCACTGAAATGCGTATT
1 CAGAACAGGACAGCACTGAAATGCGTATT
* * *
60416815 CAGAATAGGACAGCATTGATATGCGTATT
1 CAGAACAGGACAGCACTGAAATGCGTATT
60416844 CAGAACAG
1 CAGAACAG
60416852 AGAGCACGCT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.21
Consensus pattern (29 bp):
CAGAACAGGACAGCACTGAAATGCGTATT
Found at i:60416822 original size:163 final size:165
Alignment explanation
Indices: 60416546--60416870 Score: 440
Period size: 163 Copynumber: 2.0 Consensus size: 165
60416536 TTTATTATTC
* * * ** *
60416546 AATAGAGGCCCAACGTAAACTTAATAAAACATATTGGGTATATGAAAACAGTACAGCAATGCACC
1 AATAGAGGCCCAACGTAAACTTAACAAAACATATTAGGAATACAAAAACAGTACAGCAATACACC
* *
60416611 GAAATACAAATACAGAATAAGATGGCACCGAAGTGCGTATCCAGAATAGGACAACATTAAAATGC
66 GAAATACAAATACAGAACAAGATGGCACCGAAATGCGTATCCAGAATAGGACAACATTAAAATGC
*
60416676 GTATTCAGAACAGAGAGCGCGCT-AAATTTTCCTT
131 GTATTCAGAACAGAGAGCACGCTAAAATTTTCCTT
* * * *
60416710 AATATAGGCCCAACGTAGACTTAACAAAACATA-TAGGAATACAAAAATAGTACAGTAATACACC
1 AATAGAGGCCCAACGTAAACTTAACAAAACATATTAGGAATACAAAAACAGTACAGCAATACACC
* * * * * * *
60416774 -AAAGTGCAAATACAGAACAGGATGGCACTGAAATGCGTATTCAGAATAGGACAGCATTGATATG
66 GAAA-TACAAATACAGAACAAGATGGCACCGAAATGCGTATCCAGAATAGGACAACATTAAAATG
60416838 CGTATTCAGAACAGAGAGCACGCTAAAATTTTC
130 CGTATTCAGAACAGAGAGCACGCTAAAATTTTC
60416871 TTGATGGCAT
Statistics
Matches: 139, Mismatches: 20, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
162 3 0.02
163 98 0.71
164 38 0.27
ACGTcount: A:0.43, C:0.18, G:0.19, T:0.21
Consensus pattern (165 bp):
AATAGAGGCCCAACGTAAACTTAACAAAACATATTAGGAATACAAAAACAGTACAGCAATACACC
GAAATACAAATACAGAACAAGATGGCACCGAAATGCGTATCCAGAATAGGACAACATTAAAATGC
GTATTCAGAACAGAGAGCACGCTAAAATTTTCCTT
Found at i:60424546 original size:17 final size:17
Alignment explanation
Indices: 60424498--60424562 Score: 62
Period size: 17 Copynumber: 3.9 Consensus size: 17
60424488 GGTAACACGA
*
60424498 AATTTTAATTTTTTTTT
1 AATTTCAATTTTTTTTT
* * *
60424515 ATTTTC-AGTTATTTTT
1 AATTTCAATTTTTTTTT
60424531 AATTT-AATTATTTTTTT
1 AATTTCAATT-TTTTTTT
*
60424548 AATTTGAATTTTTTT
1 AATTTCAATTTTTTT
60424563 GTGTAAATAG
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
16 14 0.37
17 20 0.53
18 4 0.11
ACGTcount: A:0.25, C:0.02, G:0.03, T:0.71
Consensus pattern (17 bp):
AATTTCAATTTTTTTTT
Found at i:60424562 original size:32 final size:32
Alignment explanation
Indices: 60424501--60424562 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 32
60424491 AACACGAAAT
* *
60424501 TTTAATTTTTTTTTATTTTCAGTTATTTTTAA
1 TTTAATTTTTTTTTAATTTCAATTATTTTTAA
*
60424533 TTTAATTATTTTTTTAATTTGAATT-TTTTT
1 TTTAATT-TTTTTTTAATTTCAATTATTTTT
60424563 GTGTAAATAG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
32 12 0.46
33 14 0.54
ACGTcount: A:0.23, C:0.02, G:0.03, T:0.73
Consensus pattern (32 bp):
TTTAATTTTTTTTTAATTTCAATTATTTTTAA
Found at i:60427104 original size:21 final size:21
Alignment explanation
Indices: 60427078--60427118 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
60427068 TAACAAGACC
60427078 GCTGATGTGGCAAGTTAACTG
1 GCTGATGTGGCAAGTTAACTG
*
60427099 GCTGATGTGGCCAGTTAACT
1 GCTGATGTGGCAAGTTAACT
60427119 TGCTACGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (21 bp):
GCTGATGTGGCAAGTTAACTG
Found at i:60427881 original size:81 final size:82
Alignment explanation
Indices: 60427774--60427927 Score: 274
Period size: 81 Copynumber: 1.9 Consensus size: 82
60427764 AATTAGTGAC
* *
60427774 TGTTTTGTCACTTTTTGATAACGTTAGTGATTGTTTTGTTATTTTTT-AAAATTTGAGTGACTAA
1 TGTTTTGTCACTTTTTGATAACGTTAGTGACTGTTTTGTTATTTTTTAAAAAGTTGAGTGACTAA
60427838 AATGAAACTTATGTAAT
66 AATGAAACTTATGTAAT
*
60427855 TGTTTTGTCACTTTTTGATAATGTTAGTGACTGTTTTGTTATTTTTTAAAAAGTTGAGTGACTAA
1 TGTTTTGTCACTTTTTGATAACGTTAGTGACTGTTTTGTTATTTTTTAAAAAGTTGAGTGACTAA
60427920 AATGAAAC
66 AATGAAAC
60427928 CTAGGTGACT
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
81 45 0.65
82 24 0.35
ACGTcount: A:0.29, C:0.06, G:0.17, T:0.48
Consensus pattern (82 bp):
TGTTTTGTCACTTTTTGATAACGTTAGTGACTGTTTTGTTATTTTTTAAAAAGTTGAGTGACTAA
AATGAAACTTATGTAAT
Found at i:60432492 original size:3 final size:3
Alignment explanation
Indices: 60432450--60432509 Score: 61
Period size: 3 Copynumber: 20.0 Consensus size: 3
60432440 TTTAGCAATT
* * *
60432450 TTA TTA TT- TTA TTCA TTA TT- TTA ATG TTA TTA TCA TTTA TTA TTA
1 TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA
60432495 TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA
60432510 GTTTTATTTC
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
2 4 0.09
3 38 0.81
4 5 0.11
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:60433467 original size:18 final size:18
Alignment explanation
Indices: 60433439--60433482 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
60433429 GTAACATTAA
*
60433439 TAATTTATTTTATAATTTT
1 TAATTTTTTTTAT-ATTTT
*
60433458 T-ATTTTTTTTATTTTTT
1 TAATTTTTTTTATATTTT
60433475 TAATTTTT
1 TAATTTTT
60433483 AAATATTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 5 0.23
18 16 0.73
19 1 0.05
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (18 bp):
TAATTTTTTTTATATTTT
Found at i:60434486 original size:8 final size:8
Alignment explanation
Indices: 60434473--60434500 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
60434463 TGAAGTATAT
60434473 TATTATTA
1 TATTATTA
60434481 TATTATTA
1 TATTATTA
60434489 TATTATTA
1 TATTATTA
60434497 TATT
1 TATT
60434501 TTAAATAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
TATTATTA
Found at i:60435183 original size:18 final size:18
Alignment explanation
Indices: 60435160--60435195 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
60435150 TTGAAATGGT
60435160 TTGAATT-GAATCATTGAA
1 TTGAATTGGAAT-ATTGAA
60435178 TTGAATTGGAATATTGAA
1 TTGAATTGGAATATTGAA
60435196 ATTGGTGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.39, C:0.03, G:0.19, T:0.39
Consensus pattern (18 bp):
TTGAATTGGAATATTGAA
Found at i:60435303 original size:37 final size:35
Alignment explanation
Indices: 60435258--60435365 Score: 92
Period size: 37 Copynumber: 2.9 Consensus size: 35
60435248 ATATGTGAGA
*
60435258 TTGATACTGAACTGAATTAGTG-AATACTGGATATTG
1 TTGATACTG-ACTGAATTA-TGAAATACTGAATATTG
*
60435294 TTGAGTACTGAGTGAATTATGAAAATACTGAATATTG
1 TTGA-TACTGACTGAATTATG-AAATACTGAATATTG
* *
60435331 TTATGTATAATGCATTGAATTATGAAATTACTGAA
1 -T-TG-ATACTG-ACTGAATTATGAAA-TACTGAA
60435366 GTAATAAATT
Statistics
Matches: 60, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
35 2 0.03
36 12 0.20
37 18 0.30
38 1 0.02
39 9 0.15
40 18 0.30
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.37
Consensus pattern (35 bp):
TTGATACTGACTGAATTATGAAATACTGAATATTG
Found at i:60435606 original size:51 final size:51
Alignment explanation
Indices: 60435530--60435649 Score: 179
Period size: 51 Copynumber: 2.3 Consensus size: 51
60435520 GTACGCCGAC
* * *
60435530 TACTGTTACTGTTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACTGT
1 TACTGTTACTGTTACTGATTCGGCACCTTGTGTGTCGAACACTGTTACCGT
*
60435581 TACTGTTACCGTTA-TCGATTCGGCACCTTGTGTGTCGAACACTGTTACCGT
1 TACTGTTACTGTTACT-GATTCGGCACCTTGTGTGTCGAACACTGTTACCGT
60435632 TACTGATTACTGTTACTG
1 TACTG-TTACTGTTACTG
60435650 GTGTGTTTGG
Statistics
Matches: 61, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
50 1 0.02
51 50 0.82
52 9 0.15
53 1 0.02
ACGTcount: A:0.18, C:0.21, G:0.21, T:0.40
Consensus pattern (51 bp):
TACTGTTACTGTTACTGATTCGGCACCTTGTGTGTCGAACACTGTTACCGT
Found at i:60437700 original size:420 final size:417
Alignment explanation
Indices: 60436924--60437755 Score: 1486
Period size: 420 Copynumber: 2.0 Consensus size: 417
60436914 TGAGTTGTAT
* *
60436924 TTTATATGCTTAGATTCCTTATTAAGTCTATTTTCTGTAGAAATAATTAATAACTTCATATGAAA
1 TTTATATGCTTAGATTCCTTATTAAGTCTATTTTCTGTAGAAACAAGTAATAACTTCATATGAAA
*
60436989 ATTCTACAATGAGAAAATTTATTTTTAGTCGCAAGAGGTCAGGACAGTCAAGTGGTGAAACAGGA
66 ATCCTACAATGAGAAAATTTATTTTTAGTCGCAAGAGGTCAGGACAGTCAAGTGGTGAAACAGGA
60437054 GAGACTTTAACTAATAAACTGTAATTGGCTGAACCAAAAATTCTAAAAATTTTATAGTAGGAAGA
131 GAGACTTTAACTAATAAACTGTAATTGGCTGAACCAAAAATTCTAAAAATTTTATAGTAGGAAGA
60437119 TATATGAATCTAGTTTCAGGGAAAATTTACAGAATTAAATTTTGAGTCTCATAGCTCGAGTTATA
196 TATATGAATCTAGTTTCAGGGAAAATTTACAGAATTAAATTTTGAGTCTCATAGCTCGAGTTATA
60437184 ATTAATTTAGTAACTGTTGCACGATTGGACAAATTTACTGTAATTAGTGAAATTAATTTTCAAAA
261 ATTAATTTAGTAACTGTTGCACGATTGGACAAATTTACTGTAATTAGTGAAATTAATTTTCAAAA
60437249 CAAGTTTTTATGCTTCGAATTAGTGTGATAAGCTAAGTAATGCCTCGTGCTCGACTCCGGCAACG
326 CAAGTTTTTATGCTTCGAATTAGTGTGATAAGCTAAGTAATGCCTCGTGCTCGACTCCGGCAACG
*
60437314 ATCTCGGGTAAGGGGTGTTACAAGTAA
391 ATCTCGGGTAAGGGGTGCTACAAGTAA
*
60437341 TTTATATGCTTAGATTCCTTATTGAGTCTATTTTCTGTAGAAACAAGTAATAACTTCATATGAAA
1 TTTATATGCTTAGATTCCTTATTAAGTCTATTTTCTGTAGAAACAAGTAATAACTTCATATGAAA
* *
60437406 ATCCTACAATGAGAAAATTTATTTTTAGTGGCAAGAGGTCAGGACAGTCAAGTGGTGAAACAGGG
66 ATCCTACAATGAGAAAATTTATTTTTAGTCGCAAGAGGTCAGGACAGTCAAGTGGTGAAACAGGA
60437471 GAGACTTTAACTAATAAACTGTACTAATTGGCTGAACCAAAAATTCTAAAAATTTTATAGTAGGA
131 GAGACTTTAACTAATAAACTG---TAATTGGCTGAACCAAAAATTCTAAAAATTTTATAGTAGGA
* *
60437536 AGATATATGAATCTAGTTTCAGGGAAAATTTACGGAATTAAATTTTGAGTCTCGTAGGCTCGAGT
193 AGATATATGAATCTAGTTTCAGGGAAAATTTACAGAATTAAATTTTGAGTCTCATA-GCTCGAGT
* *
60437601 TA-AATTAATTTAGTAATTGTTGCACGATTGGACAAATTTGCTGTAATTAGTGAAATTAATTTTC
257 TATAATTAATTTAGTAACTGTTGCACGATTGGACAAATTTACTGTAATTAGTGAAATTAATTTTC
* *
60437665 AAAACAAGTTTTTATGCTTCGAATTAGTGTGATAAGCTAAGTAATGTCTCGTGCTTGACTCCGGC
322 AAAACAAGTTTTTATGCTTCGAATTAGTGTGATAAGCTAAGTAATGCCTCGTGCTCGACTCCGGC
* *
60437730 AATGGTCTCGGGTAAGGGGTGCTACA
387 AACGATCTCGGGTAAGGGGTGCTACA
60437756 CTTAGCCTTC
Statistics
Matches: 396, Mismatches: 15, Indels: 5
0.95 0.04 0.01
Matches are distributed among these distances:
417 145 0.37
420 241 0.61
421 10 0.03
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.34
Consensus pattern (417 bp):
TTTATATGCTTAGATTCCTTATTAAGTCTATTTTCTGTAGAAACAAGTAATAACTTCATATGAAA
ATCCTACAATGAGAAAATTTATTTTTAGTCGCAAGAGGTCAGGACAGTCAAGTGGTGAAACAGGA
GAGACTTTAACTAATAAACTGTAATTGGCTGAACCAAAAATTCTAAAAATTTTATAGTAGGAAGA
TATATGAATCTAGTTTCAGGGAAAATTTACAGAATTAAATTTTGAGTCTCATAGCTCGAGTTATA
ATTAATTTAGTAACTGTTGCACGATTGGACAAATTTACTGTAATTAGTGAAATTAATTTTCAAAA
CAAGTTTTTATGCTTCGAATTAGTGTGATAAGCTAAGTAATGCCTCGTGCTCGACTCCGGCAACG
ATCTCGGGTAAGGGGTGCTACAAGTAA
Found at i:60442777 original size:42 final size:42
Alignment explanation
Indices: 60442705--60442852 Score: 140
Period size: 42 Copynumber: 3.5 Consensus size: 42
60442695 TCTCATGAGC
* * *
60442705 TTCAG-TTAACTCATATGAGTTTTCGTTTAACCCTAATGGGT
1 TTCAGTTTAGCTCTTATGAGCTTTCGTTTAACCCTAATGGGT
* *
60442746 TTCAGTTTAGCTCTTTTGAGCTTTAGTTTAACCCTTAA-GGGT
1 TTCAGTTTAGCTCTTATGAGCTTTCGTTTAACCC-TAATGGGT
** * * * *
60442788 TTTTGTTCAGCTCTTATGAGCTTCCGTTCAACCCTTATGGGT
1 TTCAGTTTAGCTCTTATGAGCTTTCGTTTAACCCTAATGGGT
* *
60442830 TTCTA-TTTAGCACTTATGTGCTT
1 TTC-AGTTTAGCTCTTATGAGCTT
60442853 CTGTGCAGCC
Statistics
Matches: 85, Mismatches: 18, Indels: 7
0.77 0.16 0.06
Matches are distributed among these distances:
41 7 0.08
42 75 0.88
43 3 0.04
ACGTcount: A:0.19, C:0.19, G:0.18, T:0.45
Consensus pattern (42 bp):
TTCAGTTTAGCTCTTATGAGCTTTCGTTTAACCCTAATGGGT
Found at i:60444897 original size:46 final size:45
Alignment explanation
Indices: 60444799--60444898 Score: 121
Period size: 45 Copynumber: 2.2 Consensus size: 45
60444789 TCTATGAATC
* * * * *
60444799 CGCATGTCTAAGTTTGCCATATCTATGAATCTTCTTTTATGAAGT
1 CGCATGTATAAGTCTACCATATCTATGAATCTTCTTCTACGAAGT
*
60444844 CACATGTATAAGTCTACCATATCTATGAATTCTTCTTCTACG-AGTT
1 CGCATGTATAAGTCTACCATATCTATGAA-TCTTCTTCTACGAAG-T
60444890 CGCATGTAT
1 CGCATGTAT
60444899 GAGTTTGCTT
Statistics
Matches: 46, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
45 27 0.59
46 19 0.41
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.40
Consensus pattern (45 bp):
CGCATGTATAAGTCTACCATATCTATGAATCTTCTTCTACGAAGT
Found at i:60450316 original size:21 final size:21
Alignment explanation
Indices: 60450290--60450331 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
60450280 CTTTGCTCTA
60450290 TTACAATTTTGCCTTCAAGGT
1 TTACAATTTTGCCTTCAAGGT
60450311 TTACAATTTTGCCTTCAAGGT
1 TTACAATTTTGCCTTCAAGGT
60450332 GAGCTTCGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.19, G:0.14, T:0.43
Consensus pattern (21 bp):
TTACAATTTTGCCTTCAAGGT
Found at i:60451080 original size:29 final size:29
Alignment explanation
Indices: 60451047--60451111 Score: 89
Period size: 28 Copynumber: 2.3 Consensus size: 29
60451037 AGACTCCACC
*
60451047 TCCACCAAATAAG-CAACCTTTGCCAAGAT
1 TCCACCAAATAAGAAAACC-TTGCCAAGAT
*
60451076 TCCACC-TATAAGAAAACCTTGCCAAGAT
1 TCCACCAAATAAGAAAACCTTGCCAAGAT
60451104 TCCACCAA
1 TCCACCAA
60451112 TCTTCATGCC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
28 21 0.68
29 10 0.32
ACGTcount: A:0.38, C:0.32, G:0.09, T:0.20
Consensus pattern (29 bp):
TCCACCAAATAAGAAAACCTTGCCAAGAT
Found at i:60454638 original size:12 final size:13
Alignment explanation
Indices: 60454613--60454641 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
60454603 AGTATATTTT
60454613 ATATTTTTTAACA
1 ATATTTTTTAACA
60454626 ATATTTTTT-ACA
1 ATATTTTTTAACA
60454638 ATAT
1 ATAT
60454642 ATTAAAAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (13 bp):
ATATTTTTTAACA
Found at i:60457990 original size:15 final size:15
Alignment explanation
Indices: 60457966--60458008 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
60457956 CATTTCAAAG
* *
60457966 ATAAATCCTAATTCC
1 ATAAACCCTAATTAC
*
60457981 CTAAACCCTAATTAC
1 ATAAACCCTAATTAC
60457996 ATAAACCCATAAT
1 ATAAACCC-TAAT
60458009 CTTATGCGCC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
15 19 0.83
16 4 0.17
ACGTcount: A:0.44, C:0.28, G:0.00, T:0.28
Consensus pattern (15 bp):
ATAAACCCTAATTAC
Found at i:60460839 original size:22 final size:21
Alignment explanation
Indices: 60460795--60460840 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
60460785 TTTTGACTCT
*
60460795 AATTTTTTTTAAATTTCTCTC
1 AATTTTTTTTAAATTTATCTC
*
60460816 AATTTTTTTTAACTTTATCGTC
1 AATTTTTTTTAAATTTATC-TC
60460838 AAT
1 AAT
60460841 ATGCTTTAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.26, C:0.13, G:0.02, T:0.59
Consensus pattern (21 bp):
AATTTTTTTTAAATTTATCTC
Found at i:60460935 original size:11 final size:11
Alignment explanation
Indices: 60460915--60460958 Score: 70
Period size: 11 Copynumber: 3.9 Consensus size: 11
60460905 CTCAACACCA
60460915 AAATTGAGAGG
1 AAATTGAGAGG
*
60460926 AAATTTAGAGG
1 AAATTGAGAGG
60460937 AAATTGAGAGG
1 AAATTGAGAGG
60460948 AAATTTGAGAG
1 AAA-TTGAGAG
60460959 AGGATTAGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
11 23 0.77
12 7 0.23
ACGTcount: A:0.45, C:0.00, G:0.32, T:0.23
Consensus pattern (11 bp):
AAATTGAGAGG
Done.