Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 135 of 343
Found at i:45342335 original size:54 final size:53
Alignment explanation
Indices: 45342251--45342380 Score: 156
Period size: 54 Copynumber: 2.4 Consensus size: 53
45342241 ATATCCAGGG
* * *
45342251 TTGTAAAATTAAC-GACATACTCCTGATTTGTGAAATTATCGAAATACCC-TCAA
1 TTGTAAAATT-ACTGAAATAC-CCTCATTTGTAAAATTATCGAAATACCCTTCAA
**
45342304 CTTGTAAAATTACTGAAATACCCTCAGTTTGTAAAATTATCGAAATACCCTTGTA
1 -TTGTAAAATTACTGAAATACCCTCA-TTTGTAAAATTATCGAAATACCCTTCAA
*
45342359 GTGTAAAATTACTGAAATACCC
1 TTGTAAAATTACTGAAATACCC
45342381 CTATAGGGTA
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
53 6 0.09
54 59 0.88
55 2 0.03
ACGTcount: A:0.38, C:0.18, G:0.12, T:0.32
Consensus pattern (53 bp):
TTGTAAAATTACTGAAATACCCTCATTTGTAAAATTATCGAAATACCCTTCAA
Found at i:45342376 original size:81 final size:80
Alignment explanation
Indices: 45342225--45342380 Score: 185
Period size: 81 Copynumber: 1.9 Consensus size: 80
45342215 AGCCTCTGAT
* * * *
45342225 TTGTAAAATTACTGAAATATCCAGGGTTGTAAAATTAACGACATACTCCTGATTTGTGAAATTAT
1 TTGTAAAATTACTGAAATACCCAGGGTTGTAAAATTAACGAAATACTCCTGATGTGTAAAATTAT
45342290 CGAAATACCCTCAAC
66 CGAAATACCCTCAAC
* *
45342305 TTGTAAAATTACTGAAATACCCTCA-GTTTGTAAAATTATCGAAATAC-CCTTG-TAGTGTAAAA
1 TTGTAAAATTACTGAAATA-CC-CAGGGTTGTAAAATTAACGAAATACTCC-TGAT-GTGTAAAA
45342367 TTA-CTGAAATACCC
62 TTATC-GAAATACCC
45342381 CTATAGGGTA
Statistics
Matches: 65, Mismatches: 6, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
80 23 0.35
81 40 0.62
82 2 0.03
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (80 bp):
TTGTAAAATTACTGAAATACCCAGGGTTGTAAAATTAACGAAATACTCCTGATGTGTAAAATTAT
CGAAATACCCTCAAC
Found at i:45342391 original size:27 final size:27
Alignment explanation
Indices: 45342306--45342394 Score: 94
Period size: 27 Copynumber: 3.3 Consensus size: 27
45342296 ACCCTCAACT
*
45342306 TGTAAAATTACTGAAATA-CCCTCAGT-T
1 TGTAAAATTACTGAAATACCCCT-A-TAG
* *
45342333 TGTAAAATTA-TCGAAATACCCTTGTAG
1 TGTAAAATTACT-GAAATACCCCTATAG
45342360 TGTAAAATTACTGAAATACCCCTATAG
1 TGTAAAATTACTGAAATACCCCTATAG
*
45342387 GGTAAAAT
1 TGTAAAAT
45342395 GATTGTTTTA
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
26 2 0.04
27 46 0.88
28 4 0.08
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.31
Consensus pattern (27 bp):
TGTAAAATTACTGAAATACCCCTATAG
Found at i:45344369 original size:15 final size:17
Alignment explanation
Indices: 45344334--45344373 Score: 57
Period size: 15 Copynumber: 2.4 Consensus size: 17
45344324 TTTCTCACTC
45344334 TCTTTTTCTTTTTCGATT
1 TCTTTTTC-TTTTCGATT
45344352 TCTTTTTC-TTTC-ATT
1 TCTTTTTCTTTTCGATT
45344367 TCTTTTT
1 TCTTTTT
45344374 TTCATCTCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 10 0.45
16 4 0.18
18 8 0.36
ACGTcount: A:0.05, C:0.17, G:0.03, T:0.75
Consensus pattern (17 bp):
TCTTTTTCTTTTCGATT
Found at i:45358368 original size:93 final size:93
Alignment explanation
Indices: 45358255--45358426 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
45358245 CGCCCATAAG
* *
45358255 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
45358320 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
45358348 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
45358413 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
45358427 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:45358423 original size:46 final size:46
Alignment explanation
Indices: 45358248--45358423 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
45358238 TGTAACCCGC
* * *
45358248 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
45358294 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
45358344 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
45358387 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
45358424 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:45374053 original size:46 final size:46
Alignment explanation
Indices: 45373948--45374075 Score: 206
Period size: 45 Copynumber: 2.8 Consensus size: 46
45373938 TGTAACCCGC
* * *
45373948 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG-CTTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
45373993 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
45374039 CCATAAGTGAACTC-GACTCAACTCAACGAGTTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TTCGGA
45374076 TGCCTCAACC
Statistics
Matches: 78, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
45 50 0.64
46 28 0.36
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:45378364 original size:78 final size:80
Alignment explanation
Indices: 45378226--45378416 Score: 255
Period size: 78 Copynumber: 2.4 Consensus size: 80
45378216 TAACACCCTA
*
45378226 AGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAAACGGTAATTTTCTAAATCGAAGGTAAAACG
1 AGGGTAAAACAGTAATTCTGTAAATCGAGGGT-AAACGGTAATTTTCTAAATCGAAGGTAAAACA
*
45378291 GTAATTTTGTAAATCG
65 GTAATTCTGTAAATCG
* * * *
45378307 AGGGTAAAACGGT-ATTCTGTCAATCGAGGGT-AACGGTAATTTTGTAAATC-AATGGTAAAATA
1 AGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAACGGTAATTTTCTAAATCGAA-GGTAAAACA
*
45378369 GTAATTCTGTAAATTG
65 GTAATTCTGTAAATCG
* *
45378385 AGGGT-AAACAGTAATTTTGTAATTCGAGGGTA
1 AGGGTAAAACAGTAATTCTGTAAATCGAGGGTA
45378417 CTTTGATAAT
Statistics
Matches: 96, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
77 8 0.08
78 59 0.61
80 17 0.18
81 12 0.12
ACGTcount: A:0.37, C:0.09, G:0.24, T:0.30
Consensus pattern (80 bp):
AGGGTAAAACAGTAATTCTGTAAATCGAGGGTAAACGGTAATTTTCTAAATCGAAGGTAAAACAG
TAATTCTGTAAATCG
Found at i:45378405 original size:26 final size:27
Alignment explanation
Indices: 45378226--45378416 Score: 228
Period size: 27 Copynumber: 7.2 Consensus size: 27
45378216 TAACACCCTA
* *
45378226 AGGGTAAAACAGTAATTCTGTAAATCG
1 AGGGTAAAACGGTAATTTTGTAAATCG
*
45378253 AGGGTAAAACGGTAATTTTCTAAATCG
1 AGGGTAAAACGGTAATTTTGTAAATCG
*
45378280 AAGGTAAAACGGTAATTTTGTAAATCG
1 AGGGTAAAACGGTAATTTTGTAAATCG
* *
45378307 AGGGTAAAACGGT-ATTCTGTCAATCG
1 AGGGTAAAACGGTAATTTTGTAAATCG
*
45378333 AGGGT--AACGGTAATTTTGTAAATCA
1 AGGGTAAAACGGTAATTTTGTAAATCG
* ** * *
45378358 ATGGTAAAATAGTAATTCTGTAAATTG
1 AGGGTAAAACGGTAATTTTGTAAATCG
* *
45378385 AGGGT-AAACAGTAATTTTGTAATTCG
1 AGGGTAAAACGGTAATTTTGTAAATCG
45378411 AGGGTA
1 AGGGTA
45378417 CTTTGATAAT
Statistics
Matches: 138, Mismatches: 22, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
24 6 0.04
25 14 0.10
26 38 0.28
27 80 0.58
ACGTcount: A:0.37, C:0.09, G:0.24, T:0.30
Consensus pattern (27 bp):
AGGGTAAAACGGTAATTTTGTAAATCG
Found at i:45378469 original size:54 final size:54
Alignment explanation
Indices: 45378409--45378562 Score: 168
Period size: 54 Copynumber: 2.9 Consensus size: 54
45378399 TTTTGTAATT
** *
45378409 CGAGGGTACTTTGATAATTTTACATGTCGAGGGTATTTCAGCAATTTTACAAAC
1 CGAGGGTACTTTGATAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAAC
* * * * ** *
45378463 TGAGGGTA-TTTCGATAATTTTACAAATCAAAGATATTTGGGTAATTTTATAAAC
1 CGAGGGTACTTT-GATAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAAC
* * *
45378517 CGAGGGTACTTTGGTAATTTTACAACT-GGGGGTATTTCAGTAATTT
1 CGAGGGTACTTTGATAATTTTACAAATCGAGGGTATTTCAGTAATTT
45378563 GGTAAACTAA
Statistics
Matches: 79, Mismatches: 19, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
53 16 0.20
54 60 0.76
55 3 0.04
ACGTcount: A:0.31, C:0.11, G:0.21, T:0.38
Consensus pattern (54 bp):
CGAGGGTACTTTGATAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAAC
Found at i:45378559 original size:26 final size:26
Alignment explanation
Indices: 45378410--45378562 Score: 96
Period size: 27 Copynumber: 5.7 Consensus size: 26
45378400 TTTGTAATTC
* **
45378410 GAGGGTACTTTGA-TAATTTTACATGT
1 GAGGGTA-TTTCAGTAATTTTACAACT
*
45378436 CGAGGGTATTTCAGCAATTTTACAAACT
1 -GAGGGTATTTCAGTAATTTTAC-AACT
*
45378464 GAGGGTATTTC-GATAATTTTACAAAT
1 GAGGGTATTTCAG-TAATTTTACAACT
* * * ** * *
45378490 CAAAGATATTTGGGTAATTTTATAAACC
1 -GAGGGTATTTCAGTAATTTTA-CAACT
*
45378518 GAGGGTACTTT-GGTAATTTTACAACT
1 GAGGGTA-TTTCAGTAATTTTACAACT
*
45378544 GGGGGTATTTCAGTAATTT
1 GAGGGTATTTCAGTAATTT
45378563 GGTAAACTAA
Statistics
Matches: 98, Mismatches: 20, Indels: 17
0.73 0.15 0.13
Matches are distributed among these distances:
25 3 0.03
26 24 0.24
27 63 0.64
28 8 0.08
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (26 bp):
GAGGGTATTTCAGTAATTTTACAACT
Found at i:45383076 original size:27 final size:27
Alignment explanation
Indices: 45383046--45383240 Score: 264
Period size: 27 Copynumber: 7.2 Consensus size: 27
45383036 TAACACCCTA
* *
45383046 AGGGTAAAACAGTAATTCTGTAAATCG
1 AGGGTAAAACGGTAATTTTGTAAATCG
*
45383073 AGGGTAAAACGGTAATTTTCTAAATCG
1 AGGGTAAAACGGTAATTTTGTAAATCG
*
45383100 AAGGTAAAACGGTAATTTTGTAAATCG
1 AGGGTAAAACGGTAATTTTGTAAATCG
* *
45383127 AGGGTAAAACGGTAATTCTGTCAATCG
1 AGGGTAAAACGGTAATTTTGTAAATCG
*
45383154 AGGGTAAAACGGTAATTTTGTAAATCA
1 AGGGTAAAACGGTAATTTTGTAAATCG
* ** * *
45383181 ATGGTAAAATAGTAATTCTGTAAATTG
1 AGGGTAAAACGGTAATTTTGTAAATCG
* *
45383208 AGGGTAAAACAGTAATTTTGTAATTCG
1 AGGGTAAAACGGTAATTTTGTAAATCG
45383235 AGGGTA
1 AGGGTA
45383241 CTTTGATAAT
Statistics
Matches: 146, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 146 1.00
ACGTcount: A:0.38, C:0.09, G:0.23, T:0.30
Consensus pattern (27 bp):
AGGGTAAAACGGTAATTTTGTAAATCG
Found at i:45383262 original size:27 final size:25
Alignment explanation
Indices: 45383232--45383365 Score: 88
Period size: 27 Copynumber: 5.0 Consensus size: 25
45383222 ATTTTGTAAT
*
45383232 TCGAGGGTACTTTGATAATTTTACATG
1 TCGAGGGTA-TTTGATAATTTTACA-A
* *
45383259 TCGAGGGTATTTCAGCAATTTTACAA
1 TCGAGGGTATTTGA-TAATTTTACAA
*
45383285 ACTGAGGGTATTTCGATAATTTTACAAA
1 TC-GAGGGTATTT-GATAATTTTAC-AA
* * * * *
45383313 TCAAAGATATTTGGGTAATTTTATAAA
1 TCGAGGGTATTT-GATAATTTTA-CAA
* *
45383340 CCGAGGGTACTTTGGTAATTTTACAA
1 TCGAGGGTA-TTTGATAATTTTACAA
45383366 CTGGGGGTAT
Statistics
Matches: 83, Mismatches: 18, Indels: 13
0.73 0.16 0.11
Matches are distributed among these distances:
26 7 0.08
27 69 0.83
28 7 0.08
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.37
Consensus pattern (25 bp):
TCGAGGGTATTTGATAATTTTACAA
Found at i:45383279 original size:54 final size:53
Alignment explanation
Indices: 45383233--45383365 Score: 142
Period size: 54 Copynumber: 2.5 Consensus size: 53
45383223 TTTTGTAATT
** * * * *
45383233 CGAGGGTACTTTGATAATTTTACATGTCGAGGGTATTTCAGCAATTTTACAAA
1 CGAGGGTACTTTGATAATTTTACAAATCAAAGATATTTCAGCAATTTTATAAA
** *
45383286 CTGAGGGTA-TTTCGATAATTTTACAAATCAAAGATATTTGGGTAATTTTATAAA
1 C-GAGGGTACTTT-GATAATTTTACAAATCAAAGATATTTCAGCAATTTTATAAA
*
45383340 CCGAGGGTACTTTGGTAATTTTACAA
1 -CGAGGGTACTTTGATAATTTTACAA
45383366 CTGGGGGTAT
Statistics
Matches: 66, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
53 4 0.06
54 58 0.88
55 4 0.06
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.37
Consensus pattern (53 bp):
CGAGGGTACTTTGATAATTTTACAAATCAAAGATATTTCAGCAATTTTATAAA
Found at i:45388900 original size:40 final size:40
Alignment explanation
Indices: 45388845--45389068 Score: 290
Period size: 40 Copynumber: 5.6 Consensus size: 40
45388835 TATTCGGATG
45388845 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
45388885 ATATCCGGGCTAAGTCCC-AAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
45388927 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * * *
45388967 ATTTCCGGGCTAAGACCCGAAGGCATGTGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * * *
45389007 ATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTGCG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
45389047 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
45389069 TACTTGGTTT
Statistics
Matches: 161, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
39 27 0.17
40 98 0.61
42 23 0.14
43 13 0.08
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:45391149 original size:242 final size:242
Alignment explanation
Indices: 45390724--45391457 Score: 1425
Period size: 242 Copynumber: 3.0 Consensus size: 242
45390714 AACAAGCTGC
45390724 TAATCAAATATTAGGCTTAACAGCCGTCGATGGATCCACGGTCGTCAAGAAACTATGCGATCCAC
1 TAATCAAATATTAGGCTTAACAGCCGTCGATGGATCCACGGTCGTCAAGAAACTATGCGATCCAC
45390789 ATATACTTCCTCCATTCCATAATTCCCAACCCATGCAATATGTCGTGTATGTCATGCTCAATCAT
66 ATATACTTCCTCCATTCCATAATTCCCAACCCATGCAATATGTCGTGTATGTCATGCTCAATCAT
*
45390854 CACACGTGTATGCAGAATGGCTGTACTCAATAACAGTCTTTTAAAAAAGATATTAAGAGCATATC
131 CACACGTGTATGCAGAATGGCCGTACTCAATAACAGTCTTTTAAAAAAGATATTAAGAGCATATC
45390919 AGTCATACAACCACAGTCAAGTCAATTAAAACGCAGTCATACTTTCA
196 AGTCATACAACCACAGTCAAGTCAATTAAAACGCAGTCATACTTTCA
45390966 TAATCAAATATTAGGCTTAACAGCCGTCGATGGATCCACGGTCGTCAAGAAACTATGCGATCCAC
1 TAATCAAATATTAGGCTTAACAGCCGTCGATGGATCCACGGTCGTCAAGAAACTATGCGATCCAC
45391031 ATATACTTCCTCCATTCCATAATTCCCAACCCATGCAATATGTCGTGTATGTCATGCTCAATCAT
66 ATATACTTCCTCCATTCCATAATTCCCAACCCATGCAATATGTCGTGTATGTCATGCTCAATCAT
45391096 CACACGTGTATGCAGAATGGCCGTACTCAATAACAGTCTTTTAAAAAAGATATTAAGAGCATATC
131 CACACGTGTATGCAGAATGGCCGTACTCAATAACAGTCTTTTAAAAAAGATATTAAGAGCATATC
*
45391161 AGTCATACAACCACAGTCAAGTTAATTAAAACGCAGTCATACTTTCA
196 AGTCATACAACCACAGTCAAGTCAATTAAAACGCAGTCATACTTTCA
45391208 TAATCAAATATTAGGCTTAACAGCCGTCGATGGATCCACGGTCGTCAAGAAACTATGCGATCCAC
1 TAATCAAATATTAGGCTTAACAGCCGTCGATGGATCCACGGTCGTCAAGAAACTATGCGATCCAC
*
45391273 ATATACTTCCTCCATTCCATAATTCCCAGCCCATGCAATATGTCGTGTATGTCATGCTCAATCAT
66 ATATACTTCCTCCATTCCATAATTCCCAACCCATGCAATATGTCGTGTATGTCATGCTCAATCAT
*
45391338 CACACGTGT-TGCAGAATGGCCGTACTCAATAATAGTCTTTTAAAAAAGATATTAAGAGCATATC
131 CACACGTGTATGCAGAATGGCCGTACTCAATAACAGTCTTTTAAAAAAGATATTAAGAGCATATC
45391402 AGTCATACAACCACAGTCAAGTCAATTAAAACGCAGTCATACTTTCA
196 AGTCATACAACCACAGTCAAGTCAATTAAAACGCAGTCATACTTTCA
45391449 TAATCAAAT
1 TAATCAAAT
45391458 TAGTCAAATT
Statistics
Matches: 487, Mismatches: 5, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
241 109 0.22
242 378 0.78
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.27
Consensus pattern (242 bp):
TAATCAAATATTAGGCTTAACAGCCGTCGATGGATCCACGGTCGTCAAGAAACTATGCGATCCAC
ATATACTTCCTCCATTCCATAATTCCCAACCCATGCAATATGTCGTGTATGTCATGCTCAATCAT
CACACGTGTATGCAGAATGGCCGTACTCAATAACAGTCTTTTAAAAAAGATATTAAGAGCATATC
AGTCATACAACCACAGTCAAGTCAATTAAAACGCAGTCATACTTTCA
Found at i:45391656 original size:81 final size:81
Alignment explanation
Indices: 45391542--45392018 Score: 418
Period size: 81 Copynumber: 5.9 Consensus size: 81
45391532 ACACTACGAG
* * * * * *
45391542 GGTATTTTGGTAATTTTAC-ACTACAAAGGTA-TTTCGATGATTTTACAAATCG-GGGATGTTTC
1 GGTATTTTGGTAATTTTACAAAT-CGAGGGTATTTTAG-TAATTTTACAAATCGAGGG-TATTTC
45391604 GGTAATTTTACAAATCAAA
63 GGTAATTTTACAAATCAAA
** * * * *
45391623 GGTATTTCAGTAATTTTACAAATCAAGGGTATTTTAGTAATTTTACAAATCGATGGTGTTTCGAT
1 GGTATTTTGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAAATCGAGGGTATTTCGGT
* *
45391688 AATTCTACAAATCGAA
66 AATTTTACAAATCAAA
* *
45391704 GGTGTTTTGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTAC-AATCGATGGTATTTCGGT
1 GGTATTTTGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAAATCGAGGGTATTTCGGT
* * *
45391768 AATTTTAAAAATTAAG
66 AATTTTACAAATCAAA
*** * *
45391784 GGTATTTCAATAATTTTACAAA-CTGAGGGTATTTTAGTAATTTTACAAAT-TAGGGGTATTTCA
1 GGTATTTTGGTAATTTTACAAATC-GAGGGTATTTTAGTAATTTTACAAATCGA-GGGTATTTCG
* *
45391847 GTAATTTTACAAATTAAG
64 GTAATTTTACAAATCAAA
* * * ** * * *
45391865 GGTATTTTGGTAATTTTAAAAATTGAGGGTGTTCGA-AAATTTTTCAAATCGAGGGTATTTCAGT
1 GGTATTTTGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAAATCGAGGGTATTTCGGT
*
45391929 AATTTTA-TAATCGAGAA
66 AATTTTACAAATC-A-AA
* * * * * * * * *
45391946 --TATTTCGGTAATATTACAATTTGA-GGTATTTCAATAATTTTGCAAATCGATGGTATTTCGAT
1 GGTATTTTGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAAATCGAGGGTATTTCGGT
45392008 AATTTTACAAA
66 AATTTTACAAA
45392019 CCGGGGGTGT
Statistics
Matches: 328, Mismatches: 56, Indels: 25
0.80 0.14 0.06
Matches are distributed among these distances:
78 6 0.02
79 54 0.16
80 101 0.31
81 159 0.48
82 8 0.02
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.40
Consensus pattern (81 bp):
GGTATTTTGGTAATTTTACAAATCGAGGGTATTTTAGTAATTTTACAAATCGAGGGTATTTCGGT
AATTTTACAAATCAAA
Found at i:45392031 original size:27 final size:27
Alignment explanation
Indices: 45391538--45392039 Score: 247
Period size: 27 Copynumber: 18.7 Consensus size: 27
45391528 TTTTACACTA
* * *
45391538 CGAGGGTATTTTGGTAATTTTACACTA-
1 CGAGGGTATTTCGATAATTTTACA-AAC
* * * *
45391565 CAAAGGTATTTCGATGATTTTACAAAT
1 CGAGGGTATTTCGATAATTTTACAAAC
* * *
45391592 CG-GGGATGTTTCGGTAATTTTACAAAT
1 CGAGGG-TATTTCGATAATTTTACAAAC
* * *
45391619 CAAAGGTATTTC-AGTAATTTTACAAAT
1 CGAGGGTATTTCGA-TAATTTTACAAAC
* * *
45391646 CAAGGGTATTT-TAGTAATTTTACAAAT
1 CGAGGGTATTTCGA-TAATTTTACAAAC
* * * *
45391673 CGATGGTGTTTCGATAATTCTACAAAT
1 CGAGGGTATTTCGATAATTTTACAAAC
* * * * *
45391700 CGAAGGTGTTTTGGTAATTTTACAAAT
1 CGAGGGTATTTCGATAATTTTACAAAC
* *
45391727 CGAGGGTATTT-TAGTAATTTTAC-AAT
1 CGAGGGTATTTCGA-TAATTTTACAAAC
* * * *
45391753 CGATGGTATTTCGGTAATTTTAAAAAT
1 CGAGGGTATTTCGATAATTTTACAAAC
** *
45391780 TAAGGGTATTTCAATAATTTTACAAAC
1 CGAGGGTATTTCGATAATTTTACAAAC
* *
45391807 TGAGGGTATTT-TAGTAATTTTACAAA-
1 CGAGGGTATTTCGA-TAATTTTACAAAC
** *
45391833 TTAGGGGTATTTC-AGTAATTTTACAAAT
1 CGA-GGGTATTTCGA-TAATTTTACAAAC
** * * * *
45391861 TAAGGGTATTTTGGTAATTTTAAAAAT
1 CGAGGGTATTTCGATAATTTTACAAAC
* * * * *
45391888 TGAGGGT-GTTCGAAAATTTTTCAAAT
1 CGAGGGTATTTCGATAATTTTACAAAC
* *
45391914 CGAGGGTATTTC-AGTAATTTTA-TAAT
1 CGAGGGTATTTCGA-TAATTTTACAAAC
** * * **
45391940 CGAGAATATTTCGGTAATATTACAATT
1 CGAGGGTATTTCGATAATTTTACAAAC
* * * *
45391967 TGA-GGTATTTCAATAATTTTGCAAAT
1 CGAGGGTATTTCGATAATTTTACAAAC
*
45391993 CGATGGTATTTCGATAATTTTACAAAC
1 CGAGGGTATTTCGATAATTTTACAAAC
* *
45392020 CGGGGGTGTTTCGATAATTT
1 CGAGGGTATTTCGATAATTT
45392040 CTCTTTATTA
Statistics
Matches: 376, Mismatches: 80, Indels: 38
0.76 0.16 0.08
Matches are distributed among these distances:
26 85 0.23
27 286 0.76
28 5 0.01
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.40
Consensus pattern (27 bp):
CGAGGGTATTTCGATAATTTTACAAAC
Found at i:45392392 original size:28 final size:28
Alignment explanation
Indices: 45392356--45392419 Score: 92
Period size: 28 Copynumber: 2.3 Consensus size: 28
45392346 TGGCCCTTTT
* *
45392356 AGGCCCAATCTCGTTCATATAGCCCATC
1 AGGCCCAATCACATTCATATAGCCCATC
* *
45392384 AGGCCCAATCACATTCATATGGCCCATT
1 AGGCCCAATCACATTCATATAGCCCATC
45392412 AGGCCCAA
1 AGGCCCAA
45392420 CTACTTCCCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.28, C:0.34, G:0.16, T:0.22
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATAGCCCATC
Found at i:45393767 original size:56 final size:56
Alignment explanation
Indices: 45393659--45393792 Score: 153
Period size: 56 Copynumber: 2.4 Consensus size: 56
45393649 CATGGCATCA
**
45393659 ATATATGTGTGCGAGTAAGACCACATTTTAAACGTTGGCATCAATACATGATT-TCG
1 ATATATGTGCACGAGTAAGACCACATTTTAAACGTTGGCATCAATACATGATTCT-G
* * * * **
45393715 ATATATGTGCACGAGTAAGGCCACGTTTTATACGTTGGCATCGATATGTGATTCTG
1 ATATATGTGCACGAGTAAGACCACATTTTAAACGTTGGCATCAATACATGATTCTG
* * *
45393771 ATATATATGTATGAGTAAGACC
1 ATATATGTGCACGAGTAAGACC
45393793 CTATTTGGGA
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
56 64 0.98
57 1 0.02
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.33
Consensus pattern (56 bp):
ATATATGTGCACGAGTAAGACCACATTTTAAACGTTGGCATCAATACATGATTCTG
Found at i:45405805 original size:94 final size:94
Alignment explanation
Indices: 45405449--45405829 Score: 595
Period size: 94 Copynumber: 4.1 Consensus size: 94
45405439 ATTTAGGATT
*
45405449 TAATGTAATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
1 TAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
*
45405514 CATGCATATCTGTGATAAGGCCGAATGGC
66 CATGCATATATGTGATAAGGCCGAATGGC
* **
45405543 CAATGTGATGAATGTGAACATGCATACGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
1 TAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
45405608 CATGCATATATGTGATAAGGCCGAATGGC
66 CATGCATATATGTGATAAGGCCGAATGGC
* *
45405637 CAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
1 TAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
45405702 CATGCATATATGTGATAAGGCCGAATGGC
66 CATGCATATATGTGATAAGGCCGAATGGC
* ** *
45405731 TAATGTGATGAATGTGAGCATGCATATATGTGATAAGGTAGAATGGCCAATGTGATGAACGTGGA
1 TAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT-GA
* * **
45405796 A-GTGTATATATGTGGCGAA-GCCGAATGGC
65 ACATGCATATATGT-GATAAGGCCGAATGGC
45405825 TAATG
1 TAATG
45405830 CGAAATGTGT
Statistics
Matches: 269, Mismatches: 16, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
94 263 0.98
95 6 0.02
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (94 bp):
TAATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA
CATGCATATATGTGATAAGGCCGAATGGC
Found at i:45405824 original size:47 final size:47
Alignment explanation
Indices: 45405450--45405789 Score: 599
Period size: 47 Copynumber: 7.2 Consensus size: 47
45405440 TTTAGGATTT
*
45405450 AATGTAATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
*
45405497 AATGTGATGAATGTGAACATGCATATCTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
**
45405544 AATGTGATGAATGTGAACATGCATACGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
45405591 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
*
45405638 AATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
*
45405685 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCT
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* **
45405732 AATGTGATGAATGTGAGCATGCATATATGTGATAAGGTAGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
45405779 AATGTGATGAA
1 AATGTGATGAA
45405790 CGTGGAAGTG
Statistics
Matches: 280, Mismatches: 13, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 280 1.00
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.26
Consensus pattern (47 bp):
AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
Found at i:45405867 original size:46 final size:46
Alignment explanation
Indices: 45405817--45405985 Score: 311
Period size: 46 Copynumber: 3.7 Consensus size: 46
45405807 GTGGCGAAGC
*
45405817 CGAATGGCTAATGCGAAATGTGTATGAGATGGATATGAGGTAAAGT
1 CGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTAAAGT
*
45405863 CGAATGGCTAATGCGAAACGTGTATGAGATGCATATGAGGTAAAGT
1 CGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTAAAGT
45405909 CGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTAAAGT
1 CGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTAAAGT
*
45405955 TGAATGGCTAATGCGAAACGTGTATGAGATG
1 CGAATGGCTAATGCGAAACGTGTATGAGATG
45405986 TGTATATATA
Statistics
Matches: 119, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 119 1.00
ACGTcount: A:0.34, C:0.09, G:0.32, T:0.25
Consensus pattern (46 bp):
CGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTAAAGT
Found at i:45407947 original size:27 final size:27
Alignment explanation
Indices: 45407917--45408122 Score: 288
Period size: 27 Copynumber: 7.6 Consensus size: 27
45407907 TCAAAATTAT
* *
45407917 TATTTTGTCATTATGTGGTAAAATGAC
1 TATTTTGCCCTTATGTGGTAAAATGAC
* *
45407944 TATTTTTCCCTTATGTGATAAAATGAC
1 TATTTTGCCCTTATGTGGTAAAATGAC
*
45407971 TGTTTTGCCCTTATGTGGTAAAATGGA-
1 TATTTTGCCCTTATGTGGTAAAAT-GAC
* * *
45407998 TGTTTTGCCCTTTTATGGTAAAATGAC
1 TATTTTGCCCTTATGTGGTAAAATGAC
45408025 TATTTTGCCCTTATGTGGTAAAATGAC
1 TATTTTGCCCTTATGTGGTAAAATGAC
*
45408052 TATTTTGCCCTTATGTGGTAAAATGAT
1 TATTTTGCCCTTATGTGGTAAAATGAC
* * *
45408079 TGTTTTGCCCTTATATGGTAAGATGAC
1 TATTTTGCCCTTATGTGGTAAAATGAC
45408106 TATTTTGCCCTTATGTG
1 TATTTTGCCCTTATGTG
45408123 ATGTGTGTAT
Statistics
Matches: 158, Mismatches: 19, Indels: 4
0.87 0.10 0.02
Matches are distributed among these distances:
26 2 0.01
27 154 0.97
28 2 0.01
ACGTcount: A:0.24, C:0.13, G:0.19, T:0.44
Consensus pattern (27 bp):
TATTTTGCCCTTATGTGGTAAAATGAC
Found at i:45408047 original size:81 final size:81
Alignment explanation
Indices: 45407909--45408124 Score: 326
Period size: 81 Copynumber: 2.7 Consensus size: 81
45407899 CTGATTGATC
* * * * * * *
45407909 AAAATTATTATTTTGTCATTATGTGGTAAAATGACTATTTTTCCCTTATGTGATAAAATGACTGT
1 AAAATGATTGTTTTGCCCTTATATGGTAAAATGACTATTTTGCCCTTATGTGATAAAATGACTAT
45407974 TTTGCCCTTATGTGGT
66 TTTGCCCTTATGTGGT
* *
45407990 AAAATGGA-TGTTTTGCCCTTTTATGGTAAAATGACTATTTTGCCCTTATGTGGTAAAATGACTA
1 AAAAT-GATTGTTTTGCCCTTATATGGTAAAATGACTATTTTGCCCTTATGTGATAAAATGACTA
45408054 TTTTGCCCTTATGTGGT
65 TTTTGCCCTTATGTGGT
*
45408071 AAAATGATTGTTTTGCCCTTATATGGTAAGATGACTATTTTGCCCTTATGTGAT
1 AAAATGATTGTTTTGCCCTTATATGGTAAAATGACTATTTTGCCCTTATGTGAT
45408125 GTGTGTATAT
Statistics
Matches: 121, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
80 2 0.02
81 118 0.98
82 1 0.01
ACGTcount: A:0.26, C:0.12, G:0.18, T:0.44
Consensus pattern (81 bp):
AAAATGATTGTTTTGCCCTTATATGGTAAAATGACTATTTTGCCCTTATGTGATAAAATGACTAT
TTTGCCCTTATGTGGT
Found at i:45408476 original size:18 final size:18
Alignment explanation
Indices: 45408432--45408480 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
45408422 AGGACTTGTA
45408432 TATTGTTACTGCACTGAT
1 TATTGTTACTGCACTGAT
* *
45408450 TACTATTACTGCACTG-T
1 TATTGTTACTGCACTGAT
45408467 CTATTGTTACTGCA
1 -TATTGTTACTGCA
45408481 ATGGGCTAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
17 1 0.04
18 25 0.96
ACGTcount: A:0.22, C:0.20, G:0.14, T:0.43
Consensus pattern (18 bp):
TATTGTTACTGCACTGAT
Found at i:45411899 original size:30 final size:30
Alignment explanation
Indices: 45411863--45411923 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
45411853 ATTTGTGCTC
45411863 ATCTTTCTTGCTATCAACTAAAATTGAGAA
1 ATCTTTCTTGCTATCAACTAAAATTGAGAA
45411893 ATCTTTCTTGCTATCAACTAAAATTGAGAA
1 ATCTTTCTTGCTATCAACTAAAATTGAGAA
45411923 A
1 A
45411924 GAAAAAGAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.36
Consensus pattern (30 bp):
ATCTTTCTTGCTATCAACTAAAATTGAGAA
Found at i:45414941 original size:46 final size:48
Alignment explanation
Indices: 45414823--45414951 Score: 142
Period size: 46 Copynumber: 2.8 Consensus size: 48
45414813 TATTTGAGTT
* * *
45414823 CCGAGCTCGTTGAGTTGAGTCCGAGTTCA-TGA--GATGTAACTAGGCA
1 CCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAC-AGGCA
* * *
45414869 TCCGAACTCGTTGAGTTGAGTTTGAGTTCACTTATGGATGCAA-ATGC-
1 -CCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAACAGGCA
*
45414916 CCGAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 CCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
45414952 GCGGGTTACA
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
46 33 0.47
47 26 0.37
48 5 0.07
50 6 0.09
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (48 bp):
CCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAACAGGCA
Found at i:45421749 original size:11 final size:11
Alignment explanation
Indices: 45421733--45421765 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
45421723 GCCCACATCG
45421733 CAATAATATCA
1 CAATAATATCA
45421744 CAATAATATCA
1 CAATAATATCA
45421755 CAATAATATCA
1 CAATAATATCA
45421766 TACATGCAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.55, C:0.18, G:0.00, T:0.27
Consensus pattern (11 bp):
CAATAATATCA
Found at i:45422271 original size:27 final size:27
Alignment explanation
Indices: 45422241--45422314 Score: 105
Period size: 27 Copynumber: 2.7 Consensus size: 27
45422231 ACCTTATAGG
*
45422241 GGTATGTTAGTCATTTTACACTACAAA
1 GGTATGTTAGTAATTTTACACTACAAA
*
45422268 GGTATTTTAGTAATTTTACACTACAAA
1 GGTATGTTAGTAATTTTACACTACAAA
*
45422295 GGTAT-TTCGATAATTTTACA
1 GGTATGTTAG-TAATTTTACA
45422315 AATCAGGGAT
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
26 3 0.07
27 40 0.93
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.41
Consensus pattern (27 bp):
GGTATGTTAGTAATTTTACACTACAAA
Found at i:45422329 original size:27 final size:26
Alignment explanation
Indices: 45422295--45422720 Score: 348
Period size: 27 Copynumber: 15.9 Consensus size: 26
45422285 ACACTACAAA
45422295 GGTATTTCGATAATTTTACAAATCAG
1 GGTATTTCGATAATTTTACAAATCAG
*
45422321 GGATGTTTCGATAATTTTACAAATCAAG
1 GG-TATTTCGATAATTTTACAAATC-AG
*
45422349 GGTATTT-TAGTAATTTTACAAATCGAG
1 GGTATTTCGA-TAATTTTACAAATC-AG
*
45422376 GGTGTTTCGATAATTTTACAAATCGAG
1 GGTATTTCGATAATTTTACAAATC-AG
* * * *
45422403 GGTGTTTTGGTAATTTTACAAATAGAG
1 GGTATTTCGATAATTTTACAAAT-CAG
*
45422430 GGTGTTTCAGA-AATTTTACAAATCAAG
1 GGTATTTC-GATAATTTTACAAATC-AG
* *
45422457 GGTATTTCAATAATTTTAC-AATAGAG
1 GGTATTTCGATAATTTTACAAAT-CAG
*
45422483 GGTATTTCGATAATTTTACAAATTAAG
1 GGTATTTCGATAATTTTACAAA-TCAG
*
45422510 GGTATTTCAATAATTTTACAAATCGAG
1 GGTATTTCGATAATTTTACAAATC-AG
* ** * *
45422537 GGTATTT-TAGTAATTTTGTAGATCGGG
1 GGTATTTCGA-TAATTTTACAAATC-AG
* *
45422564 GGTATTTCGGTAATTTTACAAAGTAAG
1 GGTATTTCGATAATTTTACAAA-TCAG
* * *
45422591 GGTATTT-TAGTAACTTTACAAATTGAG
1 GGTATTTCGA-TAATTTTACAAA-TCAG
*
45422618 GGTGTTTCGATAATTTTACAAATCGAG
1 GGTATTTCGATAATTTTACAAATC-AG
*
45422645 GGTATTTC-AGTAATTTTA-GAATCGAG
1 GGTATTTCGA-TAATTTTACAAATC-AG
* *
45422671 GATATTTC-AGTAATATTACAAATCAAG
1 GGTATTTCGA-TAATTTTACAAATC-AG
*
45422698 GGTATTTC-AGTAATTTTGCAAAT
1 GGTATTTCGA-TAATTTTACAAAT
45422721 TGATAGTATT
Statistics
Matches: 331, Mismatches: 49, Indels: 39
0.79 0.12 0.09
Matches are distributed among these distances:
26 54 0.16
27 268 0.81
28 9 0.03
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.38
Consensus pattern (26 bp):
GGTATTTCGATAATTTTACAAATCAG
Found at i:45422361 original size:81 final size:79
Alignment explanation
Indices: 45422268--45422720 Score: 450
Period size: 81 Copynumber: 5.6 Consensus size: 79
45422258 ACACTACAAA
* * * *
45422268 GGTATTTTAGTAATTTTAC-ACTACAAAGGTATTTCGATAATTTTACAAATCAGGGATGTTTCGA
1 GGTATTTCAGTAATTTTACAAAT-CAAGGGTATTTCGATAATTTTACAAATCAGGG-TATTTCGA
45422332 TAATTTTACAAATCAAG
64 TAATTTTACAAAT-AAG
* * * * * *
45422349 GGTATTTTAGTAATTTTACAAATCGAGGGTGTTTCGATAATTTTACAAATCGAGGGTGTTTTGGT
1 GGTATTTCAGTAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAATC-AGGGTATTTCGAT
45422414 AATTTTACAAATAGAG
65 AATTTTACAAATA-AG
* * * *
45422430 GGTGTTTCAGAAATTTTACAAATCAAGGGTATTTCAATAATTTTAC-AATAGAGGGTATTTCGAT
1 GGTATTTCAGTAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAAT-CAGGGTATTTCGAT
45422494 AATTTTACAAATTAAG
65 AATTTTACAAA-TAAG
* * * ** * * *
45422510 GGTATTTCAATAATTTTACAAATCGAGGGTATTT-TAGTAATTTTGTAGATCGGGGGTATTTCGG
1 GGTATTTCAGTAATTTTACAAATCAAGGGTATTTCGA-TAATTTTACAAATC-AGGGTATTTCGA
45422574 TAATTTTACAAAGTAAG
64 TAATTTTACAAA-TAAG
* * ** *
45422591 GGTATTTTAGTAACTTTACAAATTGAGGGTGTTTCGATAATTTTACAAATCGAGGGTATTTC-AG
1 GGTATTTCAGTAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAATC-AGGGTATTTCGA-
* *
45422655 TAATTTTA-GAATCGAG
64 TAATTTTACAAAT-AAG
* * *
45422671 GATATTTCAGTAATATTACAAATCAAGGGTATTTC-AGTAATTTTGCAAAT
1 GGTATTTCAGTAATTTTACAAATCAAGGGTATTTCGA-TAATTTTACAAAT
45422721 TGATAGTATT
Statistics
Matches: 311, Mismatches: 49, Indels: 25
0.81 0.13 0.06
Matches are distributed among these distances:
79 3 0.01
80 108 0.35
81 193 0.62
82 7 0.02
ACGTcount: A:0.34, C:0.09, G:0.19, T:0.39
Consensus pattern (79 bp):
GGTATTTCAGTAATTTTACAAATCAAGGGTATTTCGATAATTTTACAAATCAGGGTATTTCGATA
ATTTTACAAATAAG
Found at i:45423412 original size:6 final size:6
Alignment explanation
Indices: 45423391--45423493 Score: 77
Period size: 6 Copynumber: 16.8 Consensus size: 6
45423381 TATTAGAACT
* * *
45423391 AGAATC AAAATG AGAATC AGAATC AGAATC AGAATC AGAATT AGGTGAA--
1 AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC AGAATC A---GAATC
* * * *
45423440 AGAATT AGAATC AGAATC AGTATC AGTATC AGGTAA-C AGAATC AAAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC
45423489 AGAAT
1 AGAAT
45423494 GTGAATGCAA
Statistics
Matches: 79, Mismatches: 10, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
4 3 0.04
5 2 0.03
6 66 0.84
7 4 0.05
8 1 0.01
9 3 0.04
ACGTcount: A:0.50, C:0.12, G:0.18, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:45423444 original size:37 final size:37
Alignment explanation
Indices: 45423403--45423493 Score: 121
Period size: 37 Copynumber: 2.5 Consensus size: 37
45423393 AATCAAAATG
*
45423403 AGAATCAGAATCAGAATCAGAATCAGAATTAGGTGAA-
1 AGAATCAGAATCAGAATCAGAATCAGAATCAGGT-AAC
* * *
45423440 AGAATTAGAATCAGAATCAGTATCAGTATCAGGTAAC
1 AGAATCAGAATCAGAATCAGAATCAGAATCAGGTAAC
*
45423477 AGAATCAAAATCAGAAT
1 AGAATCAGAATCAGAAT
45423494 GTGAATGCAA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
36 2 0.04
37 45 0.96
ACGTcount: A:0.48, C:0.12, G:0.19, T:0.21
Consensus pattern (37 bp):
AGAATCAGAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:45423660 original size:27 final size:26
Alignment explanation
Indices: 45423612--45423671 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
45423602 GCGAGGCTGC
*
45423612 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
45423639 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
45423665 CAGATAT
1 CAGATAT
45423672 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:45423758 original size:27 final size:26
Alignment explanation
Indices: 45423710--45423762 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
45423700 GCGAGGCTGC
*
45423710 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
45423736 CAGATATATGTGGCGAGGCCACCAGAA
1 CAGATAT-TGTGACGAAGCCACCAGAA
45423763 TGCAGTGAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.36, C:0.21, G:0.26, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:45424060 original size:81 final size:81
Alignment explanation
Indices: 45423968--45424140 Score: 247
Period size: 81 Copynumber: 2.1 Consensus size: 81
45423958 CACTTGCCCA
* * ** * *
45423968 CAAGGGAAAAACAATCATTTAACACCTTAAGGGTAAAATGGTAATTCTGTAAATCAATGGTAAAA
1 CAAGGGTAAAACAATAATTTAACAAATTAAGGGTAAAATGGTAATTCTATAAATCAAGGGTAAAA
45424033 TGGTAATTTTGTAAAT
66 TGGTAATTTTGTAAAT
* *** *
45424049 CAAGGGTAAAACGATAATTTTGTAAATTAAGGGTAAAATGGTAATTCTATCAATCAAGGGTAAAA
1 CAAGGGTAAAACAATAATTTAACAAATTAAGGGTAAAATGGTAATTCTATAAATCAAGGGTAAAA
45424114 TGGTAATTTTGTAAAT
66 TGGTAATTTTGTAAAT
45424130 CAAGGGTAAAA
1 CAAGGGTAAAA
45424141 TAGTAATTCT
Statistics
Matches: 81, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 81 1.00
ACGTcount: A:0.43, C:0.08, G:0.19, T:0.29
Consensus pattern (81 bp):
CAAGGGTAAAACAATAATTTAACAAATTAAGGGTAAAATGGTAATTCTATAAATCAAGGGTAAAA
TGGTAATTTTGTAAAT
Found at i:45424191 original size:27 final size:27
Alignment explanation
Indices: 45423996--45424177 Score: 247
Period size: 27 Copynumber: 6.7 Consensus size: 27
45423986 TTAACACCTT
*
45423996 AAGGGTAAAATGGTAATTCTGTAAATC
1 AAGGGTAAAATGGTAATTTTGTAAATC
*
45424023 AATGGTAAAATGGTAATTTTGTAAATC
1 AAGGGTAAAATGGTAATTTTGTAAATC
* * *
45424050 AAGGGTAAAACGATAATTTTGTAAATT
1 AAGGGTAAAATGGTAATTTTGTAAATC
* * *
45424077 AAGGGTAAAATGGTAATTCTATCAATC
1 AAGGGTAAAATGGTAATTTTGTAAATC
45424104 AAGGGTAAAATGGTAATTTTGTAAATC
1 AAGGGTAAAATGGTAATTTTGTAAATC
* *
45424131 AAGGGTAAAATAGTAATTCTGTAAATC
1 AAGGGTAAAATGGTAATTTTGTAAATC
* * *
45424158 GATGGTAAAATAGTAATTTT
1 AAGGGTAAAATGGTAATTTT
45424178 ATAATTTGAG
Statistics
Matches: 135, Mismatches: 20, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 135 1.00
ACGTcount: A:0.42, C:0.05, G:0.20, T:0.33
Consensus pattern (27 bp):
AAGGGTAAAATGGTAATTTTGTAAATC
Found at i:45424227 original size:54 final size:53
Alignment explanation
Indices: 45424169--45424337 Score: 187
Period size: 54 Copynumber: 3.2 Consensus size: 53
45424159 ATGGTAAAAT
** * *
45424169 AGTAATTTTATAATTTGAGGGTACTTTGATAATTTTACATGTTGAGGGTATTTC
1 AGTAATTTTATAAACTGAGGGTACTTTGGTAATTTTACA-ATTGAGGGTATTTC
** * * *
45424223 AGTAATTTTGCAAACTGAGGGTA-TTTCGGTAATTTTACAAATCGAGGATATTTG
1 AGTAATTTTATAAACTGAGGGTACTTT-GGTAATTTTAC-AATTGAGGGTATTTC
* * * *
45424277 GGTAATTTTATAAACCGAGGGTACTTTGGTAATTTTACAACTGGGGGTATTTC
1 AGTAATTTTATAAACTGAGGGTACTTTGGTAATTTTACAATTGAGGGTATTTC
45424330 AGTAATTT
1 AGTAATTT
45424338 GGTAAACTAA
Statistics
Matches: 93, Mismatches: 19, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
53 20 0.22
54 69 0.74
55 4 0.04
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (53 bp):
AGTAATTTTATAAACTGAGGGTACTTTGGTAATTTTACAATTGAGGGTATTTC
Found at i:45424334 original size:26 final size:26
Alignment explanation
Indices: 45424170--45424337 Score: 133
Period size: 27 Copynumber: 6.3 Consensus size: 26
45424160 TGGTAAAATA
* *
45424170 GTAATTTTATAATTTGAGGGTACTTT-G
1 GTAATTTTACAA-CTGAGGGTA-TTTCG
* ** *
45424197 ATAATTTTACATGTTGAGGGTATTTCA
1 GTAATTTTACA-ACTGAGGGTATTTCG
*
45424224 GTAATTTTGCAAACTGAGGGTATTTCG
1 GTAATTTTAC-AACTGAGGGTATTTCG
* * *
45424251 GTAATTTTACAAATCGAGGATATTTGG
1 GTAATTTTACAACT-GAGGGTATTTCG
* *
45424278 GTAATTTTATAAACCGAGGGTACTTT-G
1 GTAATTTTA-CAACTGAGGGTA-TTTCG
* *
45424305 GTAATTTTACAACTGGGGGTATTTCA
1 GTAATTTTACAACTGAGGGTATTTCG
45424331 GTAATTT
1 GTAATTT
45424338 GGTAAACTAA
Statistics
Matches: 113, Mismatches: 21, Indels: 15
0.76 0.14 0.10
Matches are distributed among these distances:
25 3 0.03
26 22 0.19
27 82 0.73
28 6 0.05
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.41
Consensus pattern (26 bp):
GTAATTTTACAACTGAGGGTATTTCG
Found at i:45428559 original size:188 final size:188
Alignment explanation
Indices: 45428259--45428648 Score: 498
Period size: 188 Copynumber: 2.1 Consensus size: 188
45428249 TATGTTTCGG
* * *
45428259 TAATTTTACAAATCAAAGGTATTTCGGTAATTTTACAAATCAAGGGTATTTTAGTAATTTTACAA
1 TAATTTTACAAATCAAAGGTATTTCAGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTAAAA
* * * * * *
45428324 ATCGATGGTGTTTCGGTAATTCTACAAATCGAAGGTGTTTTGGTAATTTTACAAATTAAGGGTAT
66 ATCAAGGGTATTTCGGTAATTCTAAAAATCGAAGGTGTTTCGGTAATTTTACAAATCAAGGGTAT
*
45428389 TTCAGTAATTTTACAATCGATGG-TATTTCGGTAATTTTAAAAATTAAGGGTATTTCAA
131 TTCAGTAATTTTACAATCGA-GGATATTTCGGTAATATTAAAAATTAAGGGTATTTCAA
* * * * * *
45428447 TAATTTTACAAA-CTGAGGGTATTTTAGTAATTTTACAAATTAGGGGTATTTCGGTAATTTTAAA
1 TAATTTTACAAATC-AAAGGTATTTCAGTAATTTTACAAATCAAGGGTATTTCAGTAATTTT-AA
* * * * *
45428511 AAATTAAGGGTATTTTGGTAATTTTAAAAATTGAGGGTG-TTCGGTAATTTTACAAATCAAGGGT
64 AAATCAAGGGTATTTCGGTAATTCTAAAAATCGAAGGTGTTTCGGTAATTTTACAAATCAAGGGT
* * * *
45428575 ATTTCAGTAATTTTAGAATCGAGGATATTTCGGTAATATTACAAATTGATGGTATTTCAA
129 ATTTCAGTAATTTTACAATCGAGGATATTTCGGTAATATTAAAAATTAAGGGTATTTCAA
*
45428635 TAATTTTGCAAATC
1 TAATTTTACAAATC
45428649 GACGATATTT
Statistics
Matches: 172, Mismatches: 26, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
187 3 0.02
188 137 0.80
189 32 0.19
ACGTcount: A:0.34, C:0.08, G:0.18, T:0.40
Consensus pattern (188 bp):
TAATTTTACAAATCAAAGGTATTTCAGTAATTTTACAAATCAAGGGTATTTCAGTAATTTTAAAA
ATCAAGGGTATTTCGGTAATTCTAAAAATCGAAGGTGTTTCGGTAATTTTACAAATCAAGGGTAT
TTCAGTAATTTTACAATCGAGGATATTTCGGTAATATTAAAAATTAAGGGTATTTCAA
Found at i:45428631 original size:27 final size:27
Alignment explanation
Indices: 45428222--45428669 Score: 386
Period size: 27 Copynumber: 16.7 Consensus size: 27
45428212 ACACTACAAA
* *
45428222 GGTATTTCGATGATTTTACAAATT--G
1 GGTATTTCGGTAATTTTACAAATTGAG
** *
45428247 GGTATGTTTCGGTAATTTTACAAATCAAA
1 GGTA--TTTCGGTAATTTTACAAATTGAG
**
45428276 GGTATTTCGGTAATTTTACAAATCAAG
1 GGTATTTCGGTAATTTTACAAATTGAG
** * *
45428303 GGTATTTTAGTAATTTTACAAATCGAT
1 GGTATTTCGGTAATTTTACAAATTGAG
* * * *
45428330 GGTGTTTCGGTAATTCTACAAATCGAA
1 GGTATTTCGGTAATTTTACAAATTGAG
* * *
45428357 GGTGTTTTGGTAATTTTACAAATTAAG
1 GGTATTTCGGTAATTTTACAAATTGAG
* * *
45428384 GGTATTTCAGTAATTTTAC-AATCGAT
1 GGTATTTCGGTAATTTTACAAATTGAG
* *
45428410 GGTATTTCGGTAATTTTAAAAATTAAG
1 GGTATTTCGGTAATTTTACAAATTGAG
** *
45428437 GGTATTTCAATAATTTTACAAACTGAG
1 GGTATTTCGGTAATTTTACAAATTGAG
**
45428464 GGTATTTTAGTAATTTTACAAATT-AGG
1 GGTATTTCGGTAATTTTACAAATTGA-G
* *
45428491 GGTATTTCGGTAATTTTAAAAAATTAAG
1 GGTATTTCGGTAATTTT-ACAAATTGAG
* *
45428519 GGTATTTTGGTAATTTTAAAAATTGAG
1 GGTATTTCGGTAATTTTACAAATTGAG
* **
45428546 GGT-GTTCGGTAATTTTACAAATCAAG
1 GGTATTTCGGTAATTTTACAAATTGAG
* * *
45428572 GGTATTTCAGTAATTTTA-GAATCGAG
1 GGTATTTCGGTAATTTTACAAATTGAG
* * *
45428598 GATATTTCGGTAATATTACAAATTGAT
1 GGTATTTCGGTAATTTTACAAATTGAG
** * * *
45428625 GGTATTTCAATAATTTTGCAAATCGAC
1 GGTATTTCGGTAATTTTACAAATTGAG
* *
45428652 GATATTTCGATAATTTTA
1 GGTATTTCGGTAATTTTA
45428670 GAAACCGGGG
Statistics
Matches: 345, Mismatches: 68, Indels: 18
0.80 0.16 0.04
Matches are distributed among these distances:
25 4 0.01
26 64 0.19
27 249 0.72
28 23 0.07
29 5 0.01
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.40
Consensus pattern (27 bp):
GGTATTTCGGTAATTTTACAAATTGAG
Found at i:45428660 original size:161 final size:162
Alignment explanation
Indices: 45428253--45428669 Score: 459
Period size: 161 Copynumber: 2.6 Consensus size: 162
45428243 ATTGGGTATG
* * **
45428253 TTTCGGTAATTTTACAAATCAAAGG-TATTTCGGTAATTTTACAAATCAAGGGTATTTTAGTAAT
1 TTTCAGTAATTTTAAAAATC-AAGGATATTTCGGTAATTTTACAAATTGAGGGTATTTTAGTAAT
* * * * * *
45428317 TTTACAAATCGATGGTGTTTCGGTAATTCT-ACAAATCGAAGGTGTTTTGGTAATTTTACAAATT
65 TTTACAAATCGACGGTATTTCGGTAATTTTAAAAAATCGAAGGTATTTTGGTAATTTTAAAAATT
* * *
45428381 AAGGGTATTTCAGTAATTTTACAATCGATGGTA
130 AAGGGTAGTTCAGTAATTTTACAATCAAGGGTA
* * * ** *
45428414 TTTCGGTAATTTTAAAAATTAAGGGTATTTCAATAATTTTACAAACTGAGGGTATTTTAGTAATT
1 TTTCAGTAATTTTAAAAATCAAGGATATTTCGGTAATTTTACAAATTGAGGGTATTTTAGTAATT
* * *
45428479 TTACAAAT-TAGGGGTATTTCGGTAATTTTAAAAAAT-TAAGGGTATTTTGGTAATTTTAAAAAT
66 TTACAAATCGA-CGGTATTTCGGTAATTTTAAAAAATCGAA-GGTATTTTGGTAATTTTAAAAAT
* *
45428542 TGAGGGT-GTTCGGTAATTTTACAAATCAAGGGTA
129 TAAGGGTAGTTCAGTAATTTTAC-AATCAAGGGTA
* * * * * *
45428576 TTTCAGTAATTTT-AGAATCGAGGATATTTCGGTAATATTACAAATTGATGGTATTTCAATAATT
1 TTTCAGTAATTTTAAAAATCAAGGATATTTCGGTAATTTTACAAATTGAGGGTATTTTAGTAATT
* * *
45428640 TTGCAAATCGACGATATTTCGATAATTTTA
66 TTACAAATCGACGGTATTTCGGTAATTTTA
45428670 GAAACCGGGG
Statistics
Matches: 213, Mismatches: 37, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
160 5 0.02
161 154 0.72
162 54 0.25
ACGTcount: A:0.34, C:0.08, G:0.18, T:0.40
Consensus pattern (162 bp):
TTTCAGTAATTTTAAAAATCAAGGATATTTCGGTAATTTTACAAATTGAGGGTATTTTAGTAATT
TTACAAATCGACGGTATTTCGGTAATTTTAAAAAATCGAAGGTATTTTGGTAATTTTAAAAATTA
AGGGTAGTTCAGTAATTTTACAATCAAGGGTA
Found at i:45431953 original size:46 final size:46
Alignment explanation
Indices: 45431901--45432070 Score: 184
Period size: 46 Copynumber: 3.7 Consensus size: 46
45431891 TGTAACCCGC
45431901 CCATAAGTGAACTCGGACTCAACTCAACAAGCTC-GAGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGAGC-TTCGCAT
* * * *
45431947 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGA-GCTTCGCAT
* *** * * *
45431993 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCTGA-CATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACAAGCTCGGAGC-TTCGCAT
45432040 CCATAAGTGAACTCGGACTCAACTCAACAAG
1 CCATAAGTGAACTCGGACTCAACTCAACAAG
45432071 TTTGGATGCC
Statistics
Matches: 101, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
45 1 0.01
46 62 0.61
47 36 0.36
48 2 0.02
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACAAGCTCGGAGCTTCGCAT
Found at i:45432078 original size:93 final size:93
Alignment explanation
Indices: 45431909--45432080 Score: 274
Period size: 93 Copynumber: 1.8 Consensus size: 93
45431899 GCCCATAAGT
*
45431909 GAACTCGGACTCAACTCAACAAGCTCGAGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGCTCGAGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
45431974 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CAAGCTCGGATGCCTAGTTACATCTCTC
* *
45432002 GAACTCGGACTCAACTCAACGAGTTCTGA-CATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACAAGCTC-GAGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
* *
45432066 ACAAGTTTGGATGCC
65 ACAAGCTCGGATGCC
45432081 CAAACATCCT
Statistics
Matches: 72, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
93 70 0.97
94 2 0.03
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACAAGCTCGAGCATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CAAGCTCGGATGCCTAGTTACATCTCTC
Found at i:45438074 original size:27 final size:27
Alignment explanation
Indices: 45438055--45438536 Score: 384
Period size: 27 Copynumber: 18.0 Consensus size: 27
45438045 TTTTACACTA
*
45438055 CGAGGGTATTTTGGTAATTTTAC-ACT
1 CGAGGGTATTTTGGTAATTTTACAAAT
* * * * *
45438081 ACAAAGGTATTTCGATGATTTTACAAAT
1 -CGAGGGTATTTTGGTAATTTTACAAAT
*
45438109 TG-GGG-ATGTTTCGGTAATTTTACAAAT
1 CGAGGGTAT-TTT-GGTAATTTTACAAAT
* *
45438136 CAAAGGTATTTTGGTAATTTTACAAAT
1 CGAGGGTATTTTGGTAATTTTACAAAT
* *
45438163 CAAGGGTATTTTAGTAATTTTACAAAT
1 CGAGGGTATTTTGGTAATTTTACAAAT
* * * *
45438190 CGATGGTGTTTCGGTAATTCTACAAAT
1 CGAGGGTATTTTGGTAATTTTACAAAT
* *
45438217 CGAAGGTGTTTTGGTAATTTTACAAAT
1 CGAGGGTATTTTGGTAATTTTACAAAT
* **
45438244 TGAGGGTATTTCAGTAATTTTAC-AAT
1 CGAGGGTATTTTGGTAATTTTACAAAT
* * * *
45438270 CGATGGTATTTCGTTAATTTTAAAAAT
1 CGAGGGTATTTTGGTAATTTTACAAAT
** *** *
45438297 TAAGGGTATTTCAATAATTTTACAAAC
1 CGAGGGTATTTTGGTAATTTTACAAAT
* *
45438324 CGAGGGTATTTTAGTACTTTTACAAAT
1 CGAGGGTATTTTGGTAATTTTACAAAT
* * *
45438351 -TAGGGGTATTTCGGTAATTTTATAAAT
1 CGA-GGGTATTTTGGTAATTTTACAAAT
** *
45438378 TAAGGGTATTTTGGTAATTTTAAAAAT
1 CGAGGGTATTTTGGTAATTTTACAAAT
* * *
45438405 TGAGGGT-GTTCGGTAATTTTACAAAT
1 CGAGGGTATTTTGGTAATTTTACAAAT
*** *
45438431 CGAGGGTATTTCAATAATTTTA-GAAT
1 CGAGGGTATTTTGGTAATTTTACAAAT
* * *
45438457 CGAGGATATTTTGGTAATATTACAATT
1 CGAGGGTATTTTGGTAATTTTACAAAT
* ** *
45438484 TGAGGGTATTTCAGTAATTTTGCAAAT
1 CGAGGGTATTTTGGTAATTTTACAAAT
* * *
45438511 CGATGGTATTTCGATAATTTTACAAA
1 CGAGGGTATTTTGGTAATTTTACAAA
45438537 CCGGGGGTGT
Statistics
Matches: 360, Mismatches: 85, Indels: 20
0.77 0.18 0.04
Matches are distributed among these distances:
25 2 0.01
26 68 0.19
27 280 0.78
28 8 0.02
29 2 0.01
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.40
Consensus pattern (27 bp):
CGAGGGTATTTTGGTAATTTTACAAAT
Found at i:45438910 original size:28 final size:28
Alignment explanation
Indices: 45438874--45438937 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
45438864 TGGCCCTTTT
* *
45438874 AGGCCCAATCTCGTTCATAT-AGCCCATC
1 AGGCCCAATCACATTCATATGA-CCCATC
*
45438902 AGGCCCAATCACATTCATATGACCCATT
1 AGGCCCAATCACATTCATATGACCCATC
45438930 AGGCCCAA
1 AGGCCCAA
45438938 CTACTTCCCA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
28 31 0.97
29 1 0.03
ACGTcount: A:0.30, C:0.34, G:0.14, T:0.22
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATGACCCATC
Found at i:45441083 original size:56 final size:56
Alignment explanation
Indices: 45440992--45441123 Score: 169
Period size: 56 Copynumber: 2.4 Consensus size: 56
45440982 CATGGCATCA
* * *
45440992 ATATATGTGTGCGAGTAAGATCACATTTTAAACGTTGGCATCAATACGTGATTTCG
1 ATATATGTGTACGAGTAAGACCACATTTTAAACGTTGGCATCAATACGTGATTCCG
* * * * * *
45441048 ATATATGTGTACGAGTAAGGCCACGTTTTATACGTTTGCATCGATATGTGATTCCG
1 ATATATGTGTACGAGTAAGACCACATTTTAAACGTTGGCATCAATACGTGATTCCG
45441104 ATATA--TGTACGAGTAAGACC
1 ATATATGTGTACGAGTAAGACC
45441124 CTATCTGGGA
Statistics
Matches: 66, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
54 14 0.21
56 52 0.79
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (56 bp):
ATATATGTGTACGAGTAAGACCACATTTTAAACGTTGGCATCAATACGTGATTCCG
Found at i:45444774 original size:14 final size:14
Alignment explanation
Indices: 45444755--45444783 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
45444745 TCAGCTAAAT
45444755 GCTTTGAAAATTTG
1 GCTTTGAAAATTTG
45444769 GCTTTGAAAATTTG
1 GCTTTGAAAATTTG
45444783 G
1 G
45444784 AGGCATTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.07, G:0.24, T:0.41
Consensus pattern (14 bp):
GCTTTGAAAATTTG
Found at i:45449715 original size:12 final size:12
Alignment explanation
Indices: 45449679--45449715 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
45449669 ACAGATCATT
45449679 TTGTACAAAATA
1 TTGTACAAAATA
**
45449691 CCGTACAAAATA
1 TTGTACAAAATA
45449703 TTGTACAAAATA
1 TTGTACAAAATA
45449715 T
1 T
45449716 GAGATCGAGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (12 bp):
TTGTACAAAATA
Found at i:45457404 original size:19 final size:20
Alignment explanation
Indices: 45457380--45457417 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
45457370 GGTACCACCA
45457380 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
45457399 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
45457418 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:45457713 original size:46 final size:46
Alignment explanation
Indices: 45457646--45457767 Score: 199
Period size: 46 Copynumber: 2.7 Consensus size: 46
45457636 CGCCCCTAAG
* * *
45457646 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAA
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAA
* *
45457692 TGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAG
1 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAA
45457738 TGAACTCGGACTCAACTCAACGAGTTCGGA
1 TGAACTCGGACTCAACTCAACGAGTTCGGA
45457768 TGCTCAACCA
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 71 1.00
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAA
Found at i:45457786 original size:46 final size:45
Alignment explanation
Indices: 45457644--45457786 Score: 137
Period size: 46 Copynumber: 3.1 Consensus size: 45
45457634 CCCGCCCCTA
* ** *
45457644 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTC-GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCACCATCC-T
* ** **
45457689 AAATGAACTCGGACTCAACTCAACGAGTTCGGACATT-TGCATCCAT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCACCATCC-T
*
45457735 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTC-ACCATCCT
45457782 AGTGA
1 AGTGA
45457787 TATGTCACTT
Statistics
Matches: 84, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
46 78 0.93
47 1 0.01
48 5 0.06
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCACCATCCT
Found at i:45463798 original size:28 final size:28
Alignment explanation
Indices: 45463735--45463830 Score: 142
Period size: 27 Copynumber: 3.5 Consensus size: 28
45463725 ATATTAAGTC
*
45463735 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
45463762 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * *
45463790 CGCACACTTAGTGCTGTACAAT-AAACC
1 CGCACACTTAGTGCTATATAATCAAACT
45463817 CGCACACTTAGTGC
1 CGCACACTTAGTGC
45463831 CATCTCATGA
Statistics
Matches: 64, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
27 40 0.62
28 24 0.38
ACGTcount: A:0.32, C:0.29, G:0.14, T:0.25
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:45471839 original size:29 final size:28
Alignment explanation
Indices: 45471746--45471844 Score: 110
Period size: 27 Copynumber: 3.5 Consensus size: 28
45471736 TATATTAAGT
* *
45471746 CCGCACACTCAGTGCTATATAATC-AAC
1 CCGCACACTTAGTGCTATACAATCAAAC
* *
45471773 TCGCACACTTAGTGCTATATAATCAAAC
1 CCGCACACTTAGTGCTATACAATCAAAC
* * * *
45471801 TCGCACACTTAGTGTTGTACAATTTAAAC
1 CCGCACACTTAGTGCTATACAA-TCAAAC
45471830 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
45471845 CAATCTCATG
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
27 22 0.35
28 22 0.35
29 18 0.29
ACGTcount: A:0.31, C:0.28, G:0.13, T:0.27
Consensus pattern (28 bp):
CCGCACACTTAGTGCTATACAATCAAAC
Found at i:45477398 original size:40 final size:40
Alignment explanation
Indices: 45477304--45477528 Score: 240
Period size: 40 Copynumber: 5.6 Consensus size: 40
45477294 TATTCGAACG
*
45477304 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTA-GTGACT
* * * *
45477345 ATAACCGGACTAAGATCCGAAGGCATTCGTGCAAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-TGACT
* * * *
45477385 ATATCCGGGCTAAGACCCAAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* * *
45477425 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
* *
45477465 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGTGACT
* * *
45477505 ACATCCGGGCTAAGACCCAAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
45477529 CTTGCGCAAG
Statistics
Matches: 155, Mismatches: 24, Indels: 11
0.82 0.13 0.06
Matches are distributed among these distances:
39 1 0.01
40 124 0.80
41 29 0.19
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGTGACT
Found at i:45477488 original size:80 final size:80
Alignment explanation
Indices: 45477304--45477564 Score: 285
Period size: 80 Copynumber: 3.3 Consensus size: 80
45477294 TATTCGAACG
* * * *
45477304 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-GTGACTATATCCGGGCTAAGACCCGAAGGC
*
45477369 ATTCGTGCAAGTTGCT
65 ATTCGTGCAAGTCGCT
* * * * *
45477385 ATATCCGGGCTAAGACCCAAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAAACCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* *
45477450 TTTGTGCTAG-CGACT
66 TTCGTGCAAGTCG-CT
* * * * *
45477465 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCACATCCGGGCTAAGACCCAAAGGCC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
* * *
45477530 TT-GCGCAAGTAGTT
66 TTCGTGCAAGTCGCT
* *
45477544 ATATCC-GGCTAAATCCTGAAG
1 ATATCCGGGCTAAGTCCCGAAG
45477565 CTTTCTTGAG
Statistics
Matches: 150, Mismatches: 28, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
78 13 0.09
79 13 0.09
80 93 0.62
81 31 0.21
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.24
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGACCCGAAGGCA
TTCGTGCAAGTCGCT
Found at i:45477518 original size:120 final size:121
Alignment explanation
Indices: 45477304--45477528 Score: 312
Period size: 120 Copynumber: 1.9 Consensus size: 121
45477294 TATTCGAACG
** * *
45477304 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGATCCGAAGGC
1 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
* * *
45477369 ATTCGTGCAAGTTGCTATATCCGGGCTAAGACCCAAAGGCATTTGTGCTAGCGATT
66 ATTCATGCAAGTTGCCACATCCGGGCTAAGACCCAAAGGCATTTGTGCTAGCGATT
* *
45477425 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTAAG-TCCCGAAGG
1 ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGAT-CCGAAGG
* *
45477488 CATTTATGCTAG-TGACCACATCCGGGCTAAGACCCAAAGGC
65 CATTCATGCAAGTTG-CCACATCCGGGCTAAGACCCAAAGGC
45477529 CTTGCGCAAG
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
119 3 0.03
120 57 0.63
121 31 0.34
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (121 bp):
ATATCCGGGCTAAAACCCGAAGGCATTTGTGCTAGGCGACTATAACCGGACTAAGATCCGAAGGC
ATTCATGCAAGTTGCCACATCCGGGCTAAGACCCAAAGGCATTTGTGCTAGCGATT
Found at i:45485768 original size:42 final size:43
Alignment explanation
Indices: 45485721--45485825 Score: 142
Period size: 42 Copynumber: 2.5 Consensus size: 43
45485711 GATGTGCGAA
*
45485721 TAAGACAATGGCATCGATATATGTGTGCGAGTAAGACCA-TGT
1 TAAGACAATGGCATCGATATATGTGTACGAGTAAGACCACTGT
* * *
45485763 TAAGACAATGGCATCGATATATGTGTACGATTTAGACCACGTTT
1 TAAGACAATGGCATCGATATATGTGTACGAGTAAGACCAC-TGT
*
45485807 TAA-ACATTGGCATCGATAT
1 TAAGACAATGGCATCGATAT
45485826 GTGATTCCGA
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
42 36 0.64
43 15 0.27
44 5 0.09
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (43 bp):
TAAGACAATGGCATCGATATATGTGTACGAGTAAGACCACTGT
Found at i:45485865 original size:57 final size:56
Alignment explanation
Indices: 45485777--45485913 Score: 150
Period size: 57 Copynumber: 2.4 Consensus size: 56
45485767 ACAATGGCAT
* * * * *
45485777 CGATATATGTGT-ACGATTTAGACCACGTTTTAAACATTGGCATCGATATGTGATTC
1 CGATATATGTGTGA-GAGTAAGACCACATTTTAAACATTAGCATCGATATGTAATTC
* * *
45485833 CGATATATTGTGTGAGAGTAAGACCACATTTTATACGTTAGCATTGATATGTAATTC
1 CGATATA-TGTGTGAGAGTAAGACCACATTTTAAACATTAGCATCGATATGTAATTC
* * *
45485890 TGATATATGTGTGCGTGTAAGACC
1 CGATATATGTGTGAGAGTAAGACC
45485914 CTGTCTAGGA
Statistics
Matches: 68, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
56 22 0.32
57 45 0.66
58 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (56 bp):
CGATATATGTGTGAGAGTAAGACCACATTTTAAACATTAGCATCGATATGTAATTC
Found at i:45494378 original size:45 final size:45
Alignment explanation
Indices: 45494257--45494378 Score: 201
Period size: 45 Copynumber: 2.7 Consensus size: 45
45494247 TGATATCATT
*
45494257 TCACTGGCATTATAGCCTGCTAGGCTCGAAA-GCCCAAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTC-AAAGGCCCAAATAGTATC
*
45494302 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCAAATAGTATC
*
45494347 TCACCGGCATTATAGCTTGCTAGGCTCAAAGG
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGG
45494379 ACAGAATAAT
Statistics
Matches: 73, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
44 3 0.04
45 70 0.96
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCAAATAGTATC
Found at i:45495244 original size:47 final size:47
Alignment explanation
Indices: 45495192--45495287 Score: 158
Period size: 47 Copynumber: 2.0 Consensus size: 47
45495182 AAATTTTTCT
*
45495192 TTAACTAAGTAACTTATCTGGAAATATTAA-AGGAAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCGGAAATATTAAGA-GAAAATTTAACAAGC
*
45495239 TTAACTAAGTAACTTATCCGGAAATATTAAGAGCAAATTTAACAAGC
1 TTAACTAAGTAACTTATCCGGAAATATTAAGAGAAAATTTAACAAGC
45495286 TT
1 TT
45495288 TAAATTCAAC
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
47 45 0.98
48 1 0.02
ACGTcount: A:0.45, C:0.12, G:0.12, T:0.30
Consensus pattern (47 bp):
TTAACTAAGTAACTTATCCGGAAATATTAAGAGAAAATTTAACAAGC
Found at i:45501827 original size:45 final size:45
Alignment explanation
Indices: 45501741--45501899 Score: 198
Period size: 45 Copynumber: 3.6 Consensus size: 45
45501731 CTGACATTTC
* *
45501741 GCCTACTAGGCTC-AAAGCCCG-ATA-TAATTTCACCGGCATTATA
1 GCCTGCTAGGCTCAAAAGCCCGAATAGT-ATCTCACCGGCATTATA
* * *
45501784 GCTTGCTAGGCTCAAAAGCCTGAATAGTATCTCACCGGTATTATA
1 GCCTGCTAGGCTCAAAAGCCCGAATAGTATCTCACCGGCATTATA
* * *
45501829 GCCTGTTAGGCTCCAAGGCCCGAATAGTATCTCACCGGCATTATA
1 GCCTGCTAGGCTCAAAAGCCCGAATAGTATCTCACCGGCATTATA
* *
45501874 GCCTGCTAGGCTCAAAGGCCCAAATA
1 GCCTGCTAGGCTCAAAAGCCCGAATA
45501900 ATACTGTGCG
Statistics
Matches: 99, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
43 11 0.11
44 7 0.07
45 80 0.81
46 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (45 bp):
GCCTGCTAGGCTCAAAAGCCCGAATAGTATCTCACCGGCATTATA
Found at i:45502757 original size:47 final size:47
Alignment explanation
Indices: 45502705--45502796 Score: 141
Period size: 47 Copynumber: 2.0 Consensus size: 47
45502695 AAAATTTTCT
* * *
45502705 TTAACTGAGTAACTTGT-TCGGAAATATTAAGGGCAAATTTAACAAAC
1 TTAACTAAGTAACTTATCT-GGAAATATTAAGAGCAAATTTAACAAAC
45502752 TTAACTAAGTAACTTATCTGGAAATATTAAGAGCAAATTTAACAA
1 TTAACTAAGTAACTTATCTGGAAATATTAAGAGCAAATTTAACAA
45502797 GCTTTAAATT
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
47 40 0.98
48 1 0.02
ACGTcount: A:0.43, C:0.12, G:0.14, T:0.30
Consensus pattern (47 bp):
TTAACTAAGTAACTTATCTGGAAATATTAAGAGCAAATTTAACAAAC
Found at i:45515328 original size:93 final size:91
Alignment explanation
Indices: 45515216--45515383 Score: 275
Period size: 93 Copynumber: 1.8 Consensus size: 91
45515206 CCCATAAGCG
*
45515216 AACTCGGCTCAACTCAACGAGCTCGG-CGTTCGCAATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGCTCAACTCAACGAGCTCGGACATTCGC-ATCCATAAGTGAACTCGGACTCAACTCAAC
45515280 GAGTTCGGATGCCTAGTTACATCTCACA
65 GAGTT-GGATGCCTAGTTACATCTCACA
* *
45515308 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAATTGAACTCGGACTCAACTCAAC
1 AACTCGG-CTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
45515373 GAGTTGGATGC
65 GAGTTGGATGC
45515384 TCAACCATCT
Statistics
Matches: 71, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
92 13 0.18
93 52 0.73
94 6 0.08
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (91 bp):
AACTCGGCTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAACG
AGTTGGATGCCTAGTTACATCTCACA
Found at i:45515375 original size:46 final size:45
Alignment explanation
Indices: 45515215--45515377 Score: 167
Period size: 46 Copynumber: 3.6 Consensus size: 45
45515205 GCCCATAAGC
* *
45515215 GAACTCGG-CTCAACTCAACGAGCTCGG-CGTTCGCAATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-ATCCATAA-T
* *
45515260 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACATCTCA-CA-
1 GAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATC-CATAAT
45515308 -AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAATT
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAA-T
45515353 GAACTCGGACTCAACTCAACGAGTT
1 GAACTCGGACTCAACTCAACGAGTT
45515378 GGATGCTCAA
Statistics
Matches: 99, Mismatches: 6, Indels: 25
0.76 0.05 0.19
Matches are distributed among these distances:
42 4 0.04
43 6 0.06
44 1 0.01
45 8 0.08
46 42 0.42
47 28 0.28
50 5 0.05
51 3 0.03
52 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAT
Found at i:45522123 original size:12 final size:12
Alignment explanation
Indices: 45522106--45522131 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
45522096 TTGGAAAGTT
45522106 TAATAGTAAGGG
1 TAATAGTAAGGG
45522118 TAATAGTAAGGG
1 TAATAGTAAGGG
45522130 TA
1 TA
45522132 TTTTGGTCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.31, T:0.27
Consensus pattern (12 bp):
TAATAGTAAGGG
Found at i:45536071 original size:14 final size:14
Alignment explanation
Indices: 45536048--45536087 Score: 50
Period size: 12 Copynumber: 3.1 Consensus size: 14
45536038 AGAGAAGAGG
45536048 AAATTCGAAAAAAA
1 AAATTCGAAAAAAA
*
45536062 AAATTTG--AAAAA
1 AAATTCGAAAAAAA
45536074 AAA-TCGAAAAAAA
1 AAATTCGAAAAAAA
45536087 A
1 A
45536088 TTAAAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
11 2 0.09
12 8 0.36
13 6 0.27
14 6 0.27
ACGTcount: A:0.72, C:0.05, G:0.07, T:0.15
Consensus pattern (14 bp):
AAATTCGAAAAAAA
Found at i:45536074 original size:12 final size:11
Alignment explanation
Indices: 45536057--45536098 Score: 59
Period size: 11 Copynumber: 3.8 Consensus size: 11
45536047 GAAATTCGAA
45536057 AAAAAAAATTTG
1 AAAAAAAA-TTG
*
45536069 AAAAAAAATCG
1 AAAAAAAATTG
45536080 AAAAAAAATT-
1 AAAAAAAATTG
45536090 AAAAAAAAT
1 AAAAAAAAT
45536099 CGAAGTATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
10 9 0.32
11 11 0.39
12 8 0.29
ACGTcount: A:0.76, C:0.02, G:0.05, T:0.17
Consensus pattern (11 bp):
AAAAAAAATTG
Found at i:45536083 original size:21 final size:21
Alignment explanation
Indices: 45536057--45536102 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 21
45536047 GAAATTCGAA
45536057 AAAAAAAATTTGAAAAAAAATCG
1 AAAAAAAA-TT-AAAAAAAATCG
45536080 AAAAAAAATTAAAAAAAATCG
1 AAAAAAAATTAAAAAAAATCG
45536101 AA
1 AA
45536103 GTATAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 13 0.57
22 2 0.09
23 8 0.35
ACGTcount: A:0.74, C:0.04, G:0.07, T:0.15
Consensus pattern (21 bp):
AAAAAAAATTAAAAAAAATCG
Found at i:45543589 original size:29 final size:29
Alignment explanation
Indices: 45543556--45543615 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
45543546 ATAACCAAAC
* *
45543556 CTACAAAAACTTTATATCCATAAATCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
*
45543585 CTACATAAACTTCATATCCATAAACCCAT
1 CTACAAAAACTTCATATCCATAAACCCAT
45543614 CT
1 CT
45543616 TTGAATCCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.42, C:0.28, G:0.00, T:0.30
Consensus pattern (29 bp):
CTACAAAAACTTCATATCCATAAACCCAT
Found at i:45543608 original size:15 final size:15
Alignment explanation
Indices: 45543562--45543609 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
45543552 AAACCTACAA
*
45543562 AAACTTTATATCCAT
1 AAACTTCATATCCAT
* * *
45543577 AAA-TCCATCTACAT
1 AAACTTCATATCCAT
45543591 AAACTTCATATCCAT
1 AAACTTCATATCCAT
45543606 AAAC
1 AAAC
45543610 CCATCTTTGA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
14 10 0.40
15 15 0.60
ACGTcount: A:0.44, C:0.25, G:0.00, T:0.31
Consensus pattern (15 bp):
AAACTTCATATCCAT
Found at i:45545818 original size:30 final size:28
Alignment explanation
Indices: 45545765--45545820 Score: 76
Period size: 30 Copynumber: 1.9 Consensus size: 28
45545755 TTCTTCCACG
* *
45545765 CTTTCTTTTTGCTCACTCTCTTTTTCAA
1 CTTTCTTTTTGCACACACTCTTTTTCAA
45545793 CTTTACTTTCTTGCACACACTCTTTTTC
1 CTTT-CTTT-TTGCACACACTCTTTTTC
45545821 TTTTTCGCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 4 0.17
29 4 0.17
30 16 0.67
ACGTcount: A:0.12, C:0.30, G:0.04, T:0.54
Consensus pattern (28 bp):
CTTTCTTTTTGCACACACTCTTTTTCAA
Found at i:45547429 original size:4 final size:4
Alignment explanation
Indices: 45547420--45547453 Score: 54
Period size: 4 Copynumber: 9.0 Consensus size: 4
45547410 TTAAACTAAG
45547420 TAAA TAAA TAAA TAAA TAAA TAAA -AAA -AAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
45547454 ACTTTACAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 6 0.21
4 23 0.79
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (4 bp):
TAAA
Found at i:45548844 original size:23 final size:22
Alignment explanation
Indices: 45548793--45548844 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
45548783 CCTCGTCTTT
*
45548793 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
45548815 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
45548838 TTCTTTT
1 TTCTTTT
45548845 TCAATTTCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:45548853 original size:12 final size:12
Alignment explanation
Indices: 45548802--45548856 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
45548792 TTTCTTTTGT
45548802 TTCTTTTTCTAAC
1 TTCTTTTTC-AAC
* *
45548815 -TCATTTTC-TC
1 TTCTTTTTCAAC
45548825 TTCTTTCTTCAAC
1 TTCTTT-TTCAAC
*
45548838 TTCTTTTTCAAT
1 TTCTTTTTCAAC
45548850 TTCTTTT
1 TTCTTTT
45548857 CTGTTTCACA
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
10 1 0.03
11 4 0.12
12 22 0.65
13 7 0.21
ACGTcount: A:0.13, C:0.24, G:0.00, T:0.64
Consensus pattern (12 bp):
TTCTTTTTCAAC
Found at i:45548863 original size:17 final size:18
Alignment explanation
Indices: 45548838--45548875 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
45548828 TTTCTTCAAC
* *
45548838 TTCTTTTTCA-ATTTCTT
1 TTCTGTTTCACATTCCTT
45548855 TTCTGTTTCACATTCCTT
1 TTCTGTTTCACATTCCTT
45548873 TTC
1 TTC
45548876 ACTCTCAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.11, C:0.24, G:0.03, T:0.63
Consensus pattern (18 bp):
TTCTGTTTCACATTCCTT
Found at i:45551643 original size:17 final size:19
Alignment explanation
Indices: 45551621--45551655 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
45551611 TATGTTAAAA
45551621 TTTTCAG-A-TTTTGTTTT
1 TTTTCAGAATTTTTGTTTT
45551638 TTTTCAGAATTTTTGTTT
1 TTTTCAGAATTTTTGTTT
45551656 GAATTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 1 0.06
19 8 0.50
ACGTcount: A:0.14, C:0.06, G:0.11, T:0.69
Consensus pattern (19 bp):
TTTTCAGAATTTTTGTTTT
Found at i:45551674 original size:9 final size:9
Alignment explanation
Indices: 45551660--45551694 Score: 70
Period size: 9 Copynumber: 3.9 Consensus size: 9
45551650 TTGTTTGAAT
45551660 TTTTTTTCG
1 TTTTTTTCG
45551669 TTTTTTTCG
1 TTTTTTTCG
45551678 TTTTTTTCG
1 TTTTTTTCG
45551687 TTTTTTTC
1 TTTTTTTC
45551695 AAACTTACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.00, C:0.11, G:0.09, T:0.80
Consensus pattern (9 bp):
TTTTTTTCG
Found at i:45559805 original size:19 final size:19
Alignment explanation
Indices: 45559781--45559817 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
45559771 CCATGCATTA
45559781 AACTAAGACAAATTAAATG
1 AACTAAGACAAATTAAATG
*
45559800 AACTAAGACAACTTAAAT
1 AACTAAGACAAATTAAAT
45559818 TGTTGTAGTA
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:0.14, G:0.08, T:0.22
Consensus pattern (19 bp):
AACTAAGACAAATTAAATG
Found at i:45559986 original size:20 final size:21
Alignment explanation
Indices: 45559961--45560002 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
45559951 CTCATGGAAT
45559961 TAGAAACGAGCT-AATTAAGC
1 TAGAAACGAGCTGAATTAAGC
*
45559981 TAGAAACGAGCTGAATTGAGC
1 TAGAAACGAGCTGAATTAAGC
45560002 T
1 T
45560003 CAACAAGCAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.21
Consensus pattern (21 bp):
TAGAAACGAGCTGAATTAAGC
Found at i:45562782 original size:12 final size:11
Alignment explanation
Indices: 45562763--45562805 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 11
45562753 TATACAAGTT
45562763 AAAAAAAATCG
1 AAAAAAAATCG
45562774 AATAAAAAATTCG
1 AA-AAAAAA-TCG
*
45562787 AAAAAAAAATAG
1 -AAAAAAAATCG
45562799 AAAAAAA
1 AAAAAAA
45562806 TAAAAAAAGT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
11 9 0.32
12 8 0.29
13 9 0.32
14 2 0.07
ACGTcount: A:0.77, C:0.05, G:0.07, T:0.12
Consensus pattern (11 bp):
AAAAAAAATCG
Found at i:45562782 original size:13 final size:12
Alignment explanation
Indices: 45562763--45562805 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
45562753 TATACAAGTT
45562763 AAAAAAAATCGA
1 AAAAAAAATCGA
*
45562775 ATAAAAAATTCGA
1 A-AAAAAAATCGA
*
45562788 AAAAAAAATAGA
1 AAAAAAAATCGA
45562800 AAAAAA
1 AAAAAA
45562806 TAAAAAAAGT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
12 16 0.59
13 11 0.41
ACGTcount: A:0.77, C:0.05, G:0.07, T:0.12
Consensus pattern (12 bp):
AAAAAAAATCGA
Found at i:45564215 original size:20 final size:20
Alignment explanation
Indices: 45564192--45564237 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
45564182 CCAGCTCGAA
*
45564192 TTAGCTCACATGAGCTTAAT
1 TTAGCTCACATGAGCTCAAT
***
45564212 TTAGCTCGTTTGAGCTCAAT
1 TTAGCTCACATGAGCTCAAT
45564232 TTAGCT
1 TTAGCT
45564238 TACTTTAGCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (20 bp):
TTAGCTCACATGAGCTCAAT
Found at i:45564219 original size:30 final size:30
Alignment explanation
Indices: 45564184--45564257 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 30
45564174 AGTTTTTCCC
45564184 AGCTCGAATT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-ATTGAGCTCA-ATTGAGCTTAATTT
* * *
45564214 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGATTGAGCTCAATTGAGCTTAATTT
*
45564244 AGCTCGTTTGAGCT
1 AGCTCGATTGAGCT
45564258 TGGCTTAAGT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
29 3 0.08
30 36 0.92
ACGTcount: A:0.23, C:0.20, G:0.19, T:0.38
Consensus pattern (30 bp):
AGCTCGATTGAGCTCAATTGAGCTTAATTT
Found at i:45565863 original size:12 final size:12
Alignment explanation
Indices: 45565848--45565872 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45565838 ACAAAAAAAT
45565848 AAAAAAAATTTG
1 AAAAAAAATTTG
45565860 AAAAAAAATTTG
1 AAAAAAAATTTG
45565872 A
1 A
45565873 TTGAAAAAAA
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:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (12 bp):
AAAAAAAATTTG
Found at i:45565919 original size:27 final size:26
Alignment explanation
Indices: 45565889--45565948 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
45565879 AAAAAAATTC
**
45565889 AAAAAAAAGTGAAAAAAAA-TCGAGCA
1 AAAAAAAAAAGAAAAAAAAGT-GAGCA
45565915 AAAAAAAAAAGAAAAAAAAGGTGAGCA
1 AAAAAAAAAAGAAAAAAAA-GTGAGCA
45565942 AAAAAAA
1 AAAAAAA
45565949 TCAAGTTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
26 17 0.57
27 12 0.40
28 1 0.03
ACGTcount: A:0.75, C:0.05, G:0.15, T:0.05
Consensus pattern (26 bp):
AAAAAAAAAAGAAAAAAAAGTGAGCA
Found at i:45567011 original size:18 final size:18
Alignment explanation
Indices: 45566985--45567043 Score: 82
Period size: 18 Copynumber: 3.3 Consensus size: 18
45566975 AAATTGAAAG
* *
45566985 AAAACAAAAAGAAAACGA
1 AAAAGAAAAAGAAATCGA
* *
45567003 AAAAGAAAAAGAAATTGC
1 AAAAGAAAAAGAAATCGA
45567021 AAAAGAAAAAGAAATCGA
1 AAAAGAAAAAGAAATCGA
45567039 AAAAG
1 AAAAG
45567044 TGAGAGAAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.73, C:0.07, G:0.15, T:0.05
Consensus pattern (18 bp):
AAAAGAAAAAGAAATCGA
Found at i:45567013 original size:6 final size:6
Alignment explanation
Indices: 45566981--45567073 Score: 62
Period size: 6 Copynumber: 15.3 Consensus size: 6
45566971 AAAGAAATTG
* * ** *
45566981 AAAG-A AAACAA AAAGAA AACGAA AAAGAA AAAGAA ATTGCA AAAGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA
** ** * *
45567028 AAAGAA ATCGAA AAAGTG AGAGAA AAAGAA AATGAAGA AAAGAA AA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAGAA AAAG-A-A AAAGAA AA
45567074 TTGAAAGAGA
Statistics
Matches: 63, Mismatches: 22, Indels: 5
0.70 0.24 0.06
Matches are distributed among these distances:
5 3 0.05
6 54 0.86
7 2 0.03
8 4 0.06
ACGTcount: A:0.72, C:0.04, G:0.18, T:0.05
Consensus pattern (6 bp):
AAAGAA
Found at i:45567113 original size:33 final size:33
Alignment explanation
Indices: 45567076--45567138 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
45567066 AAAGAAAATT
45567076 GAAAGAGAG-CT-TGAAAAGAAATCAAGTGAAAAA
1 GAAAGAGAGTCTAT-AAAAGAAA-CAAGTGAAAAA
*
45567109 GAAAGAGAGTCTATAAAAGAAACGAGTGAA
1 GAAAGAGAGTCTATAAAAGAAACAAGTGAA
45567139 GTGAGTAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 16 0.59
34 10 0.37
35 1 0.04
ACGTcount: A:0.56, C:0.06, G:0.25, T:0.13
Consensus pattern (33 bp):
GAAAGAGAGTCTATAAAAGAAACAAGTGAAAAA
Found at i:45568947 original size:20 final size:20
Alignment explanation
Indices: 45568922--45568967 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
45568912 CCCAGCTCGA
*
45568922 TTAGCTCACATGAGCTTAAT
1 TTAGCTCACATGAGCTCAAT
***
45568942 TTAGCTCGTTTGAGCTCAAT
1 TTAGCTCACATGAGCTCAAT
45568962 TTAGCT
1 TTAGCT
45568968 TACTTTAGCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (20 bp):
TTAGCTCACATGAGCTCAAT
Found at i:45568958 original size:30 final size:30
Alignment explanation
Indices: 45568915--45568987 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 30
45568905 AGTTTTTCCC
*
45568915 AGCTCGATT-AGCTCACA-TGAGCTTAATTT
1 AGCTCGTTTGAGCTCA-ATTGAGCTTAATTT
* *
45568944 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
45568974 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
45568988 TGGCTTAAGT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
29 9 0.23
30 30 0.77
ACGTcount: A:0.22, C:0.21, G:0.19, T:0.38
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:45572198 original size:20 final size:20
Alignment explanation
Indices: 45572152--45572198 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
45572142 AGGTCGTTTC
*
45572152 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
45572172 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
45572192 CAGCTCA
1 CAGCTCA
45572199 ATCTTAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:45573870 original size:30 final size:30
Alignment explanation
Indices: 45573843--45573930 Score: 104
Period size: 30 Copynumber: 2.9 Consensus size: 30
45573833 CTGGCTCATA
*
45573843 TTCAGCTCACGAGCTAAACCTTAGCTCAAC
1 TTCAGCTTACGAGCTAAACCTTAGCTCAAC
* * * * *
45573873 TTCAGCTTAGGAGTTTAATCTCAGCTCAAC
1 TTCAGCTTACGAGCTAAACCTTAGCTCAAC
* *
45573903 TTTAGCTTACGAGCTAAAGCTTAGCTCA
1 TTCAGCTTACGAGCTAAACCTTAGCTCA
45573931 TTTTAGTTTA
Statistics
Matches: 46, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (30 bp):
TTCAGCTTACGAGCTAAACCTTAGCTCAAC
Found at i:45574805 original size:22 final size:22
Alignment explanation
Indices: 45574775--45574818 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
45574765 TTTGGTATTT
45574775 GGGAATTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
*
45574797 GGGATTTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
45574819 TGGTTCAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.05, G:0.36, T:0.25
Consensus pattern (22 bp):
GGGAATTGGTACGAAATGGTAA
Found at i:45578907 original size:19 final size:20
Alignment explanation
Indices: 45578881--45578925 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
45578871 CTTTTCATTC
*
45578881 TCTTTTTTTGAATTTTCTTT
1 TCTTTTTTTCAATTTTCTTT
*
45578901 T-TTTTTTTCATTTTTCTTT
1 TCTTTTTTTCAATTTTCTTT
45578920 TCTTTT
1 TCTTTT
45578926 GTATTTTCGC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 17 0.77
20 5 0.23
ACGTcount: A:0.07, C:0.11, G:0.02, T:0.80
Consensus pattern (20 bp):
TCTTTTTTTCAATTTTCTTT
Found at i:45581419 original size:22 final size:22
Alignment explanation
Indices: 45581389--45581432 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
45581379 TTTGGTATTT
45581389 GGGAATTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
*
45581411 GGGATTTGGTACGAAATGGTAA
1 GGGAATTGGTACGAAATGGTAA
45581433 TGGTTCAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.05, G:0.36, T:0.25
Consensus pattern (22 bp):
GGGAATTGGTACGAAATGGTAA
Found at i:45590045 original size:27 final size:27
Alignment explanation
Indices: 45589878--45590055 Score: 119
Period size: 27 Copynumber: 6.6 Consensus size: 27
45589868 TAAATTGTAC
*
45589878 AGCACTAAGTGTGCGA-TTCTACTT-TGT
1 AGCACTAAGTGTGCGAGTT-GA-TTATGT
* ** *
45589905 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAGTTGATTATGT
* * ** **
45589931 ATGCACTAAGAGTGCGAATTGACCATAC
1 A-GCACTAAGTGTGCGAGTTGATTATGT
* * *
45589959 GGCACTAAGTGTGCGAGTCTAACTATGT
1 AGCACTAAGTGTGCGAGT-TGATTATGT
* *
45589987 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGAGTTGATTATGT
* * *
45590014 GGCACTAAATGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGATTATGT
*
45590041 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
45590056 GGCTCAATAT
Statistics
Matches: 116, Mismatches: 30, Indels: 10
0.74 0.19 0.06
Matches are distributed among these distances:
26 1 0.01
27 93 0.80
28 22 0.19
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGATTATGT
Found at i:45590046 original size:82 final size:81
Alignment explanation
Indices: 45589875--45590055 Score: 204
Period size: 82 Copynumber: 2.2 Consensus size: 81
45589865 GATTAAATTG
* * * *
45589875 TACAGCACTAAGTGTGCGATTCTACTTTGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGAGTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
45589940 GAGTGCGAATTGACCA
66 GAGTGCGAATTGACCA
* ** *
45589956 TACGGCACTAAGTGTGCGAGTCTAACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGAGTCT-ACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
45590020 AA-ATGTGCGAGTTGATTA
64 AAGA-GTGCGAATTGACCA
* *
45590038 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
45590056 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
81 23 0.28
82 60 0.72
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGAGTCTACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GAGTGCGAATTGACCA
Found at i:45596471 original size:20 final size:18
Alignment explanation
Indices: 45596414--45596471 Score: 53
Period size: 20 Copynumber: 3.1 Consensus size: 18
45596404 ATAAAATAAA
45596414 AAAAAAATTAATATTTAAT
1 AAAAAAATTAATA-TTAAT
* * **
45596433 AATAAAAGTAATAAAAAT
1 AAAAAAATTAATATTAAT
45596451 ATTAAAAAATTAATATTAAT
1 A--AAAAAATTAATATTAAT
45596471 A
1 A
45596472 GCCCCTATTA
Statistics
Matches: 29, Mismatches: 8, Indels: 3
0.73 0.20 0.08
Matches are distributed among these distances:
18 4 0.14
19 11 0.38
20 14 0.48
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (18 bp):
AAAAAAATTAATATTAAT
Found at i:45596734 original size:24 final size:24
Alignment explanation
Indices: 45596707--45596796 Score: 67
Period size: 24 Copynumber: 3.5 Consensus size: 24
45596697 TATATAACAC
45596707 TATAATATAAAATTTATAATTAAA
1 TATAATATAAAATTTATAATTAAA
*
45596731 TATAATA-AATAAATTATAATTACTAA
1 TATAATATAA-AATTTATAATTA--AA
* *
45596757 TA-AATTTAAAATTACTTATAAATAAA
1 TATAATATAAAA-T--TTATAATTAAA
*
45596783 TAATTATATAAAAT
1 T-ATAATATAAAAT
45596797 AAGTCTTTAT
Statistics
Matches: 51, Mismatches: 6, Indels: 15
0.71 0.08 0.21
Matches are distributed among these distances:
23 2 0.04
24 18 0.35
25 5 0.10
26 9 0.18
27 2 0.04
28 15 0.29
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (24 bp):
TATAATATAAAATTTATAATTAAA
Found at i:45596771 original size:18 final size:18
Alignment explanation
Indices: 45596738--45596779 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
45596728 AAATATAATA
*
45596738 AATAAA-TTATAATTACT
1 AATAAATTTAAAATTACT
45596755 AATAAATTTAAAATTACT
1 AATAAATTTAAAATTACT
*
45596773 TATAAAT
1 AATAAAT
45596780 AAATAATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (18 bp):
AATAAATTTAAAATTACT
Found at i:45596787 original size:18 final size:19
Alignment explanation
Indices: 45596738--45596788 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 19
45596728 AAATATAATA
45596738 AATAAATT--ATAATTACT
1 AATAAATTAAATAATTACT
*
45596755 AATAAATTTAA-AATTACT
1 AATAAATTAAATAATTACT
*
45596773 TATAAA-TAAATAATTA
1 AATAAATTAAATAATTA
45596789 TATAAAATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
17 11 0.38
18 17 0.59
19 1 0.03
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (19 bp):
AATAAATTAAATAATTACT
Found at i:45597025 original size:12 final size:12
Alignment explanation
Indices: 45597008--45597061 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
45596998 AAAAAAATAT
*
45597008 AATAAATTAAAC
1 AATAAATTAAAA
45597020 AATAAATTATAATA
1 AATAAATTA-AA-A
*
45597034 AATAAATTAAAT
1 AATAAATTAAAA
45597046 AAT-AA-TAAAA
1 AATAAATTAAAA
45597056 AA-AAAT
1 AATAAAT
45597062 CTCCTAAATA
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
10 8 0.23
11 2 0.06
12 12 0.34
13 4 0.11
14 9 0.26
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (12 bp):
AATAAATTAAAA
Found at i:45597053 original size:22 final size:22
Alignment explanation
Indices: 45596972--45597061 Score: 57
Period size: 22 Copynumber: 4.2 Consensus size: 22
45596962 AAAATAATTG
*
45596972 TAAATATAAATAA-AATAATAGA
1 TAAAT-TAAATAATAATAATAAA
* *
45596994 TAAA-AAAAAAAT-ATAATAAA
1 TAAATTAAATAATAATAATAAA
* *
45597014 TTAAA--CAATAAATTATAATAAA
1 -TAAATTAAAT-AATAATAATAAA
45597036 TAAATTAAATAATAATAA-AAA
1 TAAATTAAATAATAATAATAAA
*
45597057 AAAAT
1 TAAAT
45597062 CTCCTAAATA
Statistics
Matches: 54, Mismatches: 8, Indels: 13
0.72 0.11 0.17
Matches are distributed among these distances:
20 14 0.26
21 18 0.33
22 19 0.35
23 3 0.06
ACGTcount: A:0.71, C:0.01, G:0.01, T:0.27
Consensus pattern (22 bp):
TAAATTAAATAATAATAATAAA
Found at i:45597206 original size:27 final size:28
Alignment explanation
Indices: 45597174--45597228 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 28
45597164 TAAAAATTAT
*
45597174 TTAAATTTATATT-TATAT-TTAATAAAA
1 TTAAATTTAT-TTATAAATATTAATAAAA
45597201 TTAAATTTATTTATAAATATTAATAAAA
1 TTAAATTTATTTATAAATATTAATAAAA
45597229 AATATATTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 2 0.08
27 14 0.56
28 9 0.36
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (28 bp):
TTAAATTTATTTATAAATATTAATAAAA
Found at i:45597407 original size:20 final size:20
Alignment explanation
Indices: 45597371--45597420 Score: 50
Period size: 20 Copynumber: 2.5 Consensus size: 20
45597361 TAATAAATTT
*
45597371 AAAAATTATATTAAAT-ACAA
1 AAAAATAATATTAAATAAC-A
*
45597391 AAAAATAATA-TATAATAACT
1 AAAAATAATATTA-AATAACA
45597411 AAAAATAATA
1 AAAAATAATA
45597421 CTTCTAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 2 0.08
20 22 0.85
21 2 0.08
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (20 bp):
AAAAATAATATTAAATAACA
Found at i:45597657 original size:25 final size:26
Alignment explanation
Indices: 45597599--45597658 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 26
45597589 ATAACACATT
* * *
45597599 AAAATTTATACTAATTTTGTCAGAAA
1 AAAATTAATAATAATTTTATCAGAAA
*
45597625 AAATATTAATAATAATTTTATC-TAAA
1 AAA-ATTAATAATAATTTTATCAGAAA
45597651 AAAATTAA
1 AAAATTAA
45597659 ATATTATTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
25 5 0.17
26 9 0.31
27 15 0.52
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.38
Consensus pattern (26 bp):
AAAATTAATAATAATTTTATCAGAAA
Found at i:45597683 original size:22 final size:22
Alignment explanation
Indices: 45597654--45597709 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
45597644 ATCTAAAAAA
*
45597654 ATTAAATATTATT-TAATATTAT
1 ATTAAATATT-TTATAAAATTAT
*
45597676 TTTAAATATTTTATAAAATTAT
1 ATTAAATATTTTATAAAATTAT
45597698 ATTAATATATTT
1 ATTAA-ATATTT
45597710 ATCCTACAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
21 2 0.07
22 21 0.72
23 6 0.21
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
ATTAAATATTTTATAAAATTAT
Found at i:45597768 original size:11 final size:11
Alignment explanation
Indices: 45597754--45597913 Score: 59
Period size: 12 Copynumber: 14.2 Consensus size: 11
45597744 CATGTATTCT
45597754 AATAATATTAA
1 AATAATATTAA
*
45597765 AATAATA-TAT
1 AATAATATTAA
45597775 AATAAATATCT--
1 AAT-AATAT-TAA
45597786 AATAATATTTAA
1 AATAATA-TTAA
**
45597798 AATATATAGAAA
1 AATA-ATATTAA
*
45597810 AATCAATTTTAA
1 AAT-AATATTAA
45597822 ATATAATAAATTAA
1 A-ATAAT--ATTAA
45597836 TAA-AA-ATT-A
1 -AATAATATTAA
*
45597845 AATATACATTAA
1 AATA-ATATTAA
*
45597857 TAATAATATAAA
1 -AATAATATTAA
*
45597869 AAAAAT-TTAA
1 AATAATATTAA
*
45597879 AA-AATAAT-A
1 AATAATATTAA
45597888 AATAATCATTAA
1 AATAAT-ATTAA
*
45597900 AACAATATTTAA
1 AATAATA-TTAA
45597912 AA
1 AA
45597914 AAAAATATCT
Statistics
Matches: 113, Mismatches: 14, Indels: 43
0.66 0.08 0.25
Matches are distributed among these distances:
8 2 0.02
9 8 0.07
10 23 0.20
11 26 0.23
12 35 0.31
13 13 0.12
14 5 0.04
15 1 0.01
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.34
Consensus pattern (11 bp):
AATAATATTAA
Found at i:45597892 original size:33 final size:33
Alignment explanation
Indices: 45597855--45597920 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
45597845 AATATACATT
*
45597855 AATAATAATATAAAA-AAAATTTAAAAAATAATA
1 AATAATAAT-TAAAACAAAATTTAAAAAAAAATA
* *
45597888 AATAATCATTAAAACAATATTTAAAAAAAAATA
1 AATAATAATTAAAACAAAATTTAAAAAAAAATA
45597921 TCTACTCATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 5 0.17
33 24 0.83
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (33 bp):
AATAATAATTAAAACAAAATTTAAAAAAAAATA
Found at i:45598609 original size:20 final size:20
Alignment explanation
Indices: 45598549--45598625 Score: 73
Period size: 20 Copynumber: 3.6 Consensus size: 20
45598539 ATATGTATTG
* *
45598549 AAAAAAATCAAAAAAAAAGA
1 AAAAAAATCGAAAAAAAATA
* *
45598569 AGAGGAAATTCGAAAAAAAAATTTA
1 A-A-AAAAATCG-AAAAAAAA--TA
45598594 AAAAAAATCGAAAAAAAATA
1 AAAAAAATCGAAAAAAAATA
45598614 AAAAAAATCGAA
1 AAAAAAATCGAA
45598626 GTATATAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
20 15 0.33
21 1 0.02
22 13 0.28
23 14 0.30
24 1 0.02
25 2 0.04
ACGTcount: A:0.74, C:0.05, G:0.09, T:0.12
Consensus pattern (20 bp):
AAAAAAATCGAAAAAAAATA
Found at i:45599575 original size:37 final size:37
Alignment explanation
Indices: 45599524--45599594 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
45599514 CATTCTTGTA
45599524 AAGAGAAAATAAAGAAAA-GAAAAGAAAAAGAAAAAGC
1 AAGAGAAAATAAAGAAAATG-AAAGAAAAAGAAAAAGC
*
45599561 AAGAGAAGAA-AAAGAAAATGAAATAAAAAGAAAA
1 AAGAGAA-AATAAAGAAAATGAAAGAAAAAGAAAA
45599595 GAGAGGCAAG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 28 0.90
38 3 0.10
ACGTcount: A:0.76, C:0.01, G:0.18, T:0.04
Consensus pattern (37 bp):
AAGAGAAAATAAAGAAAATGAAAGAAAAAGAAAAAGC
Found at i:45599594 original size:6 final size:6
Alignment explanation
Indices: 45599534--45599583 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
45599524 AAGAGAAAAT
*
45599534 AAAG-A AAAG-A AAAGAA AAAGAA AAAGCAA GAGAAGAA AAAGAA AATGAA
1 AAAGAA AAAGAA AAAGAA AAAGAA AAAG-AA -A-AAGAA AAAGAA AAAGAA
45599583 A
1 A
45599584 TAAAAAGAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
5 9 0.22
6 22 0.55
7 3 0.08
8 3 0.08
9 3 0.08
ACGTcount: A:0.76, C:0.02, G:0.20, T:0.02
Consensus pattern (6 bp):
AAAGAA
Found at i:45599674 original size:11 final size:12
Alignment explanation
Indices: 45599644--45599674 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
45599634 TTGAGAGAAC
45599644 TTGAAAAAGCCT
1 TTGAAAAAGCCT
*
45599656 TTGAAAAATCCT
1 TTGAAAAAGCCT
45599668 TTGAAAA
1 TTGAAAA
45599675 GAAAAAAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.45, C:0.13, G:0.13, T:0.29
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:45599685 original size:12 final size:13
Alignment explanation
Indices: 45599670--45599704 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
45599660 AAAATCCTTT
45599670 GAAAA-GAAAAAA
1 GAAAATGAAAAAA
45599682 GAAAATG-AAAAA
1 GAAAATGAAAAAA
45599694 GAAAATGAAAA
1 GAAAATGAAAA
45599705 GAAATTTGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 17 0.81
13 4 0.19
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.06
Consensus pattern (13 bp):
GAAAATGAAAAAA
Found at i:45599692 original size:11 final size:12
Alignment explanation
Indices: 45599677--45599708 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
45599667 TTTGAAAAGA
45599677 AAAAAGAAAATG
1 AAAAAGAAAATG
45599689 AAAAAGAAAATG
1 AAAAAGAAAATG
45599701 -AAAAGAAA
1 AAAAAGAAA
45599709 TTTGAGAGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 8 0.40
12 12 0.60
ACGTcount: A:0.78, C:0.00, G:0.16, T:0.06
Consensus pattern (12 bp):
AAAAAGAAAATG
Found at i:45601861 original size:30 final size:30
Alignment explanation
Indices: 45601827--45601923 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
45601817 AGCTCACTCC
45601827 TAGCTCATA-TTTAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTTAGCTCACGAGCTAAACCT
* * * * * *
45601857 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* * *
45601887 CAGCTCAACTTTAGCTCACGGGCTAAAGCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
45601917 TAGCTCA
1 TAGCTCA
45601924 TTTTAGTTTA
Statistics
Matches: 50, Mismatches: 16, Indels: 2
0.74 0.24 0.03
Matches are distributed among these distances:
29 1 0.02
30 49 0.98
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:45603801 original size:77 final size:77
Alignment explanation
Indices: 45603693--45603901 Score: 310
Period size: 77 Copynumber: 2.7 Consensus size: 77
45603683 AGAACTATTT
** ** * * **
45603693 TCATGGCCTAAAGCCAAAACATCCTATATGCATGGCCCAAAGCCAAATTTGTATAACTCACACCC
1 TCATGGCCCGAAGCCAACTCATCCGATATGCATGGCCCGAAGCCAAATCGGTATAACTCACACCC
45603758 GAAGTGCTAATA
66 GAAGTGCTAATA
* * *
45603770 TCATGGCCCGAAGCTAGCTCATTCGATATGCATGGCCCGAAGCCAAATCGGTATAACTCACACCC
1 TCATGGCCCGAAGCCAACTCATCCGATATGCATGGCCCGAAGCCAAATCGGTATAACTCACACCC
45603835 GAAGTGCTAATA
66 GAAGTGCTAATA
*
45603847 TCATGGCCCGAAGCCAACTCATCCGATATGCATGGTCCGAAGCCAAATCGGTATA
1 TCATGGCCCGAAGCCAACTCATCCGATATGCATGGCCCGAAGCCAAATCGGTATA
45603902 TCATCTTATA
Statistics
Matches: 117, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
77 117 1.00
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.21
Consensus pattern (77 bp):
TCATGGCCCGAAGCCAACTCATCCGATATGCATGGCCCGAAGCCAAATCGGTATAACTCACACCC
GAAGTGCTAATA
Found at i:45604316 original size:19 final size:18
Alignment explanation
Indices: 45604281--45604316 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
45604271 AAAGTGTTGT
*
45604281 ATTGAAAACCTTGTTTTC
1 ATTGAAAACCTTCTTTTC
45604299 ATTGAAAACCCTTCTTTT
1 ATTGAAAA-CCTTCTTTT
45604317 AAGTAAAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.28, C:0.19, G:0.08, T:0.44
Consensus pattern (18 bp):
ATTGAAAACCTTCTTTTC
Done.