Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007823.1 Hibiscus syriacus cultivar Beakdansim tig00110160_pilon, whole genome shotgun sequence
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: 6287495
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 28 of 33
Found at i:5108807 original size:2 final size:2
Alignment explanation
Indices: 5108800--5108852 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
5108790 AAAATACCGA
5108800 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5108842 AT AT AT AT AT A
1 AT AT AT AT AT A
5108853 ACGGAAACAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:5111403 original size:19 final size:19
Alignment explanation
Indices: 5111379--5111492 Score: 120
Period size: 19 Copynumber: 5.8 Consensus size: 19
5111369 ATTTCAGGCA
5111379 AAGAGTATCGATACTTTCC
1 AAGAGTATCGATACTTTCC
*
5111398 AAGAGTATGGATACTTTCCCC
1 AAGAGTATCGATACTTT--CC
* ** *
5111419 AAGAATATAAATACTTTCT
1 AAGAGTATCGATACTTTCC
*
5111438 AAGAGTATCGGTACTTTACC
1 AAGAGTATCGATACTTT-CC
* *
5111458 TAAGAGTATAGATATTTTCC
1 -AAGAGTATCGATACTTTCC
5111478 AAGAGTATCGATACT
1 AAGAGTATCGATACT
5111493 CAGGGTAACA
Statistics
Matches: 76, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
19 43 0.57
20 3 0.04
21 30 0.39
ACGTcount: A:0.35, C:0.17, G:0.16, T:0.32
Consensus pattern (19 bp):
AAGAGTATCGATACTTTCC
Found at i:5111444 original size:40 final size:40
Alignment explanation
Indices: 5111389--5111492 Score: 129
Period size: 40 Copynumber: 2.6 Consensus size: 40
5111379 AAGAGTATCG
*
5111389 ATACTTTCCAAGAGTATGGATACTTTCCCCAAGAATATAA
1 ATACTTTCCAAGAGTATGGATACTTTACCCAAGAATATAA
* * * *
5111429 ATACTTTCTAAGAGTATCGG-TACTTTACCTAAGAGTATAG
1 ATACTTTCCAAGAGTAT-GGATACTTTACCCAAGAATATAA
* *
5111469 ATATTTTCCAAGAGTATCGATACT
1 ATACTTTCCAAGAGTATGGATACT
5111493 CAGGGTAACA
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
39 1 0.02
40 51 0.94
41 2 0.04
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.34
Consensus pattern (40 bp):
ATACTTTCCAAGAGTATGGATACTTTACCCAAGAATATAA
Found at i:5115241 original size:21 final size:22
Alignment explanation
Indices: 5115193--5115247 Score: 85
Period size: 23 Copynumber: 2.5 Consensus size: 22
5115183 TCCCTAGGGG
5115193 GTATCGATACACATTCAAGGAAT
1 GTATCGATACACATTCAAGG-AT
*
5115216 GTATCGGTACACATTCAAGG-T
1 GTATCGATACACATTCAAGGAT
5115237 GTATCGATACA
1 GTATCGATACA
5115248 TAGCAAGAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 11 0.37
23 19 0.63
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (22 bp):
GTATCGATACACATTCAAGGAT
Found at i:5119814 original size:104 final size:104
Alignment explanation
Indices: 5119686--5119894 Score: 418
Period size: 104 Copynumber: 2.0 Consensus size: 104
5119676 ACTATTTTTT
5119686 TATTCTTTTACCTCGTTGGTGCCTTCATGAGTGACTTGTGGTTTATCCTATATTTTCTTGGAAGT
1 TATTCTTTTACCTCGTTGGTGCCTTCATGAGTGACTTGTGGTTTATCCTATATTTTCTTGGAAGT
5119751 TGTACATGATGAAACTCTCTCGTATTCATCTGGTCCAAG
66 TGTACATGATGAAACTCTCTCGTATTCATCTGGTCCAAG
5119790 TATTCTTTTACCTCGTTGGTGCCTTCATGAGTGACTTGTGGTTTATCCTATATTTTCTTGGAAGT
1 TATTCTTTTACCTCGTTGGTGCCTTCATGAGTGACTTGTGGTTTATCCTATATTTTCTTGGAAGT
5119855 TGTACATGATGAAACTCTCTCGTATTCATCTGGTCCAAG
66 TGTACATGATGAAACTCTCTCGTATTCATCTGGTCCAAG
5119894 T
1 T
5119895 GCAGAGAAAA
Statistics
Matches: 105, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
104 105 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.43
Consensus pattern (104 bp):
TATTCTTTTACCTCGTTGGTGCCTTCATGAGTGACTTGTGGTTTATCCTATATTTTCTTGGAAGT
TGTACATGATGAAACTCTCTCGTATTCATCTGGTCCAAG
Found at i:5123255 original size:20 final size:20
Alignment explanation
Indices: 5123227--5123296 Score: 58
Period size: 21 Copynumber: 3.6 Consensus size: 20
5123217 GTGTCAAAGG
*
5123227 GTATTCATACACCCTGCAGT
1 GTATCCATACACCCTGCAGT
5123247 GTATCCATACA--CTG--GT
1 GTATCCATACACCCTGCAGT
* * * *
5123263 GTATCGATATATCCTACAGGT
1 GTATCCATACACCCTGCA-GT
5123284 GTATCCATACACC
1 GTATCCATACACC
5123297 TATGACTGCT
Statistics
Matches: 38, Mismatches: 7, Indels: 9
0.70 0.13 0.17
Matches are distributed among these distances:
16 11 0.29
18 5 0.13
20 10 0.26
21 12 0.32
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.30
Consensus pattern (20 bp):
GTATCCATACACCCTGCAGT
Found at i:5123357 original size:20 final size:18
Alignment explanation
Indices: 5123343--5123397 Score: 60
Period size: 16 Copynumber: 3.1 Consensus size: 18
5123333 GATACACCTA
*
5123343 TGAGTGTATCCATACA-C
1 TGAGTGTATCAATACACC
*
5123360 T-AGTGTATCGATACACCC
1 TGAGTGTATCAATACA-CC
5123378 TGCAGTGTATCAATACACC
1 TG-AGTGTATCAATACACC
5123397 T
1 T
5123398 TGGCTGCAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
16 13 0.41
17 1 0.03
18 2 0.06
19 3 0.09
20 13 0.41
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (18 bp):
TGAGTGTATCAATACACC
Found at i:5123371 original size:36 final size:36
Alignment explanation
Indices: 5123324--5123395 Score: 101
Period size: 36 Copynumber: 2.0 Consensus size: 36
5123314 CGAATGCAAA
* *
5123324 TAGTGTGTCGATACACCTATG-AGTGTATCCATACAC
1 TAGTGTATCGATACACC-ATGCAGTGTATCAATACAC
*
5123360 TAGTGTATCGATACACCCTGCAGTGTATCAATACAC
1 TAGTGTATCGATACACCATGCAGTGTATCAATACAC
5123396 CTTGGCTGCA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
35 2 0.06
36 30 0.94
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (36 bp):
TAGTGTATCGATACACCATGCAGTGTATCAATACAC
Found at i:5123798 original size:33 final size:34
Alignment explanation
Indices: 5123756--5123821 Score: 89
Period size: 34 Copynumber: 2.0 Consensus size: 34
5123746 TGTAAAAGGA
* *
5123756 AAGGTTCTAGCTAAG-CCTTGAAAAGCTAGGGAT
1 AAGGTTCTAGCTAAGCCCGTGAAAAACTAGGGAT
* *
5123789 AAGGTTCTAGTTTAGCCCGTGAAAAACTAGGGA
1 AAGGTTCTAGCTAAGCCCGTGAAAAACTAGGGA
5123822 GTTGTAAAGG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 13 0.46
34 15 0.54
ACGTcount: A:0.33, C:0.15, G:0.27, T:0.24
Consensus pattern (34 bp):
AAGGTTCTAGCTAAGCCCGTGAAAAACTAGGGAT
Found at i:5125880 original size:18 final size:18
Alignment explanation
Indices: 5125857--5125913 Score: 78
Period size: 18 Copynumber: 3.0 Consensus size: 18
5125847 AGCAATTGGA
5125857 AACAATTGGTATCTTTTT
1 AACAATTGGTATCTTTTT
*
5125875 AACAATTGATATCCTTTTGTT
1 AACAATTGGTAT-C-TTT-TT
5125896 AACAATTGGTATCTTTTT
1 AACAATTGGTATCTTTTT
5125914 CATTAACATT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
18 13 0.38
19 4 0.12
20 4 0.12
21 13 0.38
ACGTcount: A:0.28, C:0.12, G:0.11, T:0.49
Consensus pattern (18 bp):
AACAATTGGTATCTTTTT
Found at i:5125899 original size:21 final size:20
Alignment explanation
Indices: 5125857--5125913 Score: 75
Period size: 21 Copynumber: 3.0 Consensus size: 20
5125847 AGCAATTGGA
5125857 AACAATTGGTAT-C-TTTTT
1 AACAATTGGTATCCTTTTTT
*
5125875 AACAATTGATATCCTTTTGTT
1 AACAATTGGTATCCTTTT-TT
5125896 AACAATTGGTAT-CTTTTT
1 AACAATTGGTATCCTTTTT
5125914 CATTAACATT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 11 0.32
19 2 0.06
20 8 0.24
21 13 0.38
ACGTcount: A:0.28, C:0.12, G:0.11, T:0.49
Consensus pattern (20 bp):
AACAATTGGTATCCTTTTTT
Found at i:5126435 original size:22 final size:21
Alignment explanation
Indices: 5126405--5126445 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 21
5126395 TTTTTGTAGA
5126405 AAAATCATCCCCCAAACGGCTCC
1 AAAATCAT-CCCC-AACGGCTCC
5126428 AAAA-CATCCCCAACGGCT
1 AAAATCATCCCCAACGGCT
5126446 ATATACGGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 4 0.22
22 3 0.17
23 4 0.22
ACGTcount: A:0.37, C:0.41, G:0.10, T:0.12
Consensus pattern (21 bp):
AAAATCATCCCCAACGGCTCC
Found at i:5127429 original size:13 final size:15
Alignment explanation
Indices: 5127388--5127430 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
5127378 CTAAATAAAG
5127388 TAAAAAGATACTTTA
1 TAAAAAGATACTTTA
*
5127403 TAAAAAGTTACTTTA
1 TAAAAAGATACTTTA
*
5127418 -ATAAAG-TACTTTA
1 TAAAAAGATACTTTA
5127431 CTTTAATAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 7 0.27
14 5 0.19
15 14 0.54
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.37
Consensus pattern (15 bp):
TAAAAAGATACTTTA
Found at i:5127433 original size:18 final size:18
Alignment explanation
Indices: 5127410--5127452 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
5127400 TTATAAAAAG
5127410 TTACTTTAATAAAGTACT
1 TTACTTTAATAAAGTACT
*
5127428 TTACTTTAATAAAGTTCT
1 TTACTTTAATAAAGTACT
*
5127446 CTACTTT
1 TTACTTT
5127453 TAATCAAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.33, C:0.14, G:0.05, T:0.49
Consensus pattern (18 bp):
TTACTTTAATAAAGTACT
Found at i:5131254 original size:17 final size:17
Alignment explanation
Indices: 5131232--5131265 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
5131222 TTATTTGGTG
5131232 AGAGAATGTTAAGTAAA
1 AGAGAATGTTAAGTAAA
5131249 AGAGAATGTTAAGTAAA
1 AGAGAATGTTAAGTAAA
5131266 TTATCCTTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.24, T:0.24
Consensus pattern (17 bp):
AGAGAATGTTAAGTAAA
Found at i:5131628 original size:16 final size:16
Alignment explanation
Indices: 5131607--5131639 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
5131597 AATATCTTCT
5131607 TATTTTCTATTGTTAA
1 TATTTTCTATTGTTAA
5131623 TATTTTCTATTGTTAA
1 TATTTTCTATTGTTAA
5131639 T
1 T
5131640 CTTCACCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.06, G:0.06, T:0.64
Consensus pattern (16 bp):
TATTTTCTATTGTTAA
Found at i:5131973 original size:33 final size:37
Alignment explanation
Indices: 5131900--5131982 Score: 111
Period size: 33 Copynumber: 2.4 Consensus size: 37
5131890 ATCAAATTTT
*
5131900 AAATATTGTACATCTATTATTTAAAAAAAGAAAAAAG
1 AAATATTGTACATCTATTATGTAAAAAAAGAAAAAAG
* *
5131937 AAATATTGTACATCT-TT-TGT-AAATAA-AAAAATG
1 AAATATTGTACATCTATTATGTAAAAAAAGAAAAAAG
5131970 AAATATTGTACAT
1 AAATATTGTACAT
5131983 ATATCGCATC
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
33 19 0.44
34 5 0.12
35 2 0.05
36 2 0.05
37 15 0.35
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (37 bp):
AAATATTGTACATCTATTATGTAAAAAAAGAAAAAAG
Found at i:5134361 original size:13 final size:13
Alignment explanation
Indices: 5134343--5134369 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
5134333 ATACAGACGC
5134343 GCATATGAAGACT
1 GCATATGAAGACT
5134356 GCATATGAAGACT
1 GCATATGAAGACT
5134369 G
1 G
5134370 TTCAACTATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.15, G:0.26, T:0.22
Consensus pattern (13 bp):
GCATATGAAGACT
Found at i:5134389 original size:4 final size:4
Alignment explanation
Indices: 5134380--5134414 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
5134370 TTCAACTATG
5134380 TATT TATT TATT TATT TATT TATT TATT TATT TAT
1 TATT TATT TATT TATT TATT TATT TATT TATT TAT
5134415 ACATGCATTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TATT
Found at i:5137114 original size:20 final size:20
Alignment explanation
Indices: 5137089--5137202 Score: 93
Period size: 20 Copynumber: 5.6 Consensus size: 20
5137079 TAGTTGGAAA
*
5137089 TCGCGTTGTGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* ** **
5137109 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-TTTCCATT
5137130 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* * ** **
5137150 TCTCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-TTTCCATT
5137171 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
*
5137191 TCGCATTGCGAT
1 TCGCGTTGCGAT
5137203 AGTCTACAAT
Statistics
Matches: 68, Mismatches: 24, Indels: 4
0.71 0.25 0.04
Matches are distributed among these distances:
20 39 0.57
21 29 0.43
ACGTcount: A:0.18, C:0.20, G:0.23, T:0.39
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCATT
Found at i:5137135 original size:21 final size:21
Alignment explanation
Indices: 5137068--5137182 Score: 90
Period size: 21 Copynumber: 5.6 Consensus size: 21
5137058 GCATTGCATT
* *
5137068 TCGCATTGCGATAGTTGGAAA
1 TCGCGTTGCGATAGTTGAAAA
* * ** **
5137089 TCGCGTTGTGAT-TTTCCATT
1 TCGCGTTGCGATAGTTGAAAA
5137109 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
* ** **
5137130 TCGCGTTGCGAT-TTTCCATT
1 TCGCGTTGCGATAGTTGAAAA
*
5137150 TCTCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTGAAAA
5137171 TCGCGTTGCGAT
1 TCGCGTTGCGAT
5137183 TTTCCATTTC
Statistics
Matches: 67, Mismatches: 25, Indels: 4
0.70 0.26 0.04
Matches are distributed among these distances:
20 28 0.42
21 39 0.58
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (21 bp):
TCGCGTTGCGATAGTTGAAAA
Found at i:5137229 original size:41 final size:41
Alignment explanation
Indices: 5137064--5137205 Score: 239
Period size: 41 Copynumber: 3.5 Consensus size: 41
5137054 ATTCGCATTG
* *
5137064 CATTTCGCATTGCGATAGTTGGAAATCGCGTTGTGATTTTC
1 CATTTCGCATTGCGATAGTTGAAAATCGCGTTGCGATTTTC
*
5137105 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1 CATTTCGCATTGCGATAGTTGAAAATCGCGTTGCGATTTTC
* *
5137146 CATTTCTCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
1 CATTTCGCATTGCGATAGTTGAAAATCGCGTTGCGATTTTC
5137187 CATTTCGCATTGCGATAGT
1 CATTTCGCATTGCGATAGT
5137206 CTACAATGTC
Statistics
Matches: 95, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 95 1.00
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.38
Consensus pattern (41 bp):
CATTTCGCATTGCGATAGTTGAAAATCGCGTTGCGATTTTC
Found at i:5137262 original size:22 final size:22
Alignment explanation
Indices: 5137233--5137286 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
5137223 TTTTCCAAAT
5137233 TCGTTGCGATAGTCTACAGTTG
1 TCGTTGCGATAGTCTACAGTTG
* *
5137255 TTGTTGCGAAAGTCTACAGTTG
1 TCGTTGCGATAGTCTACAGTTG
5137277 TCGTTGCGAT
1 TCGTTGCGAT
5137287 TTTCCAAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.19, C:0.17, G:0.28, T:0.37
Consensus pattern (22 bp):
TCGTTGCGATAGTCTACAGTTG
Found at i:5137263 original size:82 final size:82
Alignment explanation
Indices: 5137073--5137245 Score: 244
Period size: 82 Copynumber: 2.1 Consensus size: 82
5137063 GCATTTCGCA
* * * *
5137073 TTGCGATAGTTGGAAATCGCGTTGTGATTTTCCATTTCGCGTTGCGATAGTTGAAAATCGCGTTG
1 TTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCATTGCGATAGTTGAAAATCGCGTTA
**
5137138 CGATTTTCCATTTCTCG
66 CGATTTTCCAAATCTCG
*
5137155 TTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCATTGCGATAGTCT-ACAAT-GTCGT
1 TTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCATTGCGATAGT-TGAAAATCG-CGT
5137218 TACGATTTTCCAAAT-TCG
64 TACGATTTTCCAAATCTCG
5137236 TTGCGATAGT
1 TTGCGATAGT
5137246 CTACAGTTGT
Statistics
Matches: 82, Mismatches: 7, Indels: 5
0.87 0.07 0.05
Matches are distributed among these distances:
81 14 0.17
82 67 0.82
83 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.38
Consensus pattern (82 bp):
TTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCGCATTGCGATAGTTGAAAATCGCGTTA
CGATTTTCCAAATCTCG
Found at i:5137396 original size:6 final size:6
Alignment explanation
Indices: 5137385--5137471 Score: 174
Period size: 6 Copynumber: 14.5 Consensus size: 6
5137375 GACACGTATT
5137385 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
5137433 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC
5137472 CGAGACGGAC
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 81 1.00
ACGTcount: A:0.33, C:0.51, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:5137966 original size:5 final size:5
Alignment explanation
Indices: 5137956--5137993 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
5137946 CCGCCGCCGC
5137956 CGTCT CGTCT CGTCT CGTCT CGTCT CGTCT CGTCT CGT
1 CGTCT CGTCT CGTCT CGTCT CGTCT CGTCT CGTCT CGT
5137994 GGTCGGGTCG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.00, C:0.39, G:0.21, T:0.39
Consensus pattern (5 bp):
CGTCT
Found at i:5138010 original size:6 final size:6
Alignment explanation
Indices: 5137990--5138037 Score: 89
Period size: 6 Copynumber: 8.2 Consensus size: 6
5137980 TCGTCTCGTC
5137990 TCGTGG TCG-GG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
5138037 T
1 T
5138038 AATACGTGTC
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
5 5 0.12
6 36 0.88
ACGTcount: A:0.00, C:0.17, G:0.50, T:0.33
Consensus pattern (6 bp):
TCGTGG
Found at i:5138733 original size:22 final size:22
Alignment explanation
Indices: 5138688--5138733 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
5138678 TCATTTTTTT
* *
5138688 AAAAATAAATAAAAATGCACAA
1 AAAAAGAAATAAAAATGAACAA
* *
5138710 AAAAAGAATTAAAAATGAATAA
1 AAAAAGAAATAAAAATGAACAA
5138732 AA
1 AA
5138734 TTCAATAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.74, C:0.04, G:0.07, T:0.15
Consensus pattern (22 bp):
AAAAAGAAATAAAAATGAACAA
Found at i:5139940 original size:10 final size:11
Alignment explanation
Indices: 5139917--5139947 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
5139907 AAAATTAAAA
5139917 TTTAATATTTT
1 TTTAATATTTT
5139928 TTTAATATTTT
1 TTTAATATTTT
*
5139939 TTTTATATT
1 TTTAATATT
5139948 AATATTAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (11 bp):
TTTAATATTTT
Found at i:5140019 original size:10 final size:10
Alignment explanation
Indices: 5140004--5140030 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
5139994 TACCTTCTAT
5140004 TTTTATTGAA
1 TTTTATTGAA
5140014 TTTTATTGAA
1 TTTTATTGAA
5140024 TTTTATT
1 TTTTATT
5140031 TCTTTTCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (10 bp):
TTTTATTGAA
Found at i:5141506 original size:24 final size:24
Alignment explanation
Indices: 5141479--5141534 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
5141469 CTATTCTTTT
*
5141479 GCTTCAATTGAGTTCAAATTTTAG
1 GCTTCAATTGAGCTCAAATTTTAG
*
5141503 GCTTCGATTGAGCTCAAATTTTAG
1 GCTTCAATTGAGCTCAAATTTTAG
5141527 GCTTCAAT
1 GCTTCAAT
5141535 CGAACTTCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (24 bp):
GCTTCAATTGAGCTCAAATTTTAG
Found at i:5144015 original size:29 final size:30
Alignment explanation
Indices: 5143958--5144032 Score: 143
Period size: 30 Copynumber: 2.5 Consensus size: 30
5143948 AGAGACAAAC
5143958 AAAAGTAATAAGTAAAAATCTGTCAAAAAA
1 AAAAGTAATAAGTAAAAATCTGTCAAAAAA
5143988 AAAAGTAATAAGTAAAAATCTGTC-AAAAA
1 AAAAGTAATAAGTAAAAATCTGTCAAAAAA
5144017 AAAAGTAATAAGTAAA
1 AAAAGTAATAAGTAAA
5144033 TTATCCAAGG
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
29 21 0.47
30 24 0.53
ACGTcount: A:0.64, C:0.05, G:0.11, T:0.20
Consensus pattern (30 bp):
AAAAGTAATAAGTAAAAATCTGTCAAAAAA
Found at i:5144575 original size:66 final size:67
Alignment explanation
Indices: 5144469--5144602 Score: 261
Period size: 66 Copynumber: 2.0 Consensus size: 67
5144459 AAGGAATCGG
5144469 AGCTTCCCACCACGGACATCTACTTCCACCACCACCAGCTACCTCAATTCACGCCTTAC-TTAGA
1 AGCTTCCCACCACGGACATCTACTTCCACCACCACCAGCTACCTCAATTCACGCCTTACTTTAGA
5144533 GA
66 GA
5144535 AGCTTCCCACCACGGACATCTACTTCCACCACCACCAGCTACCTCAATTCACGCCTTACTTTAGA
1 AGCTTCCCACCACGGACATCTACTTCCACCACCACCAGCTACCTCAATTCACGCCTTACTTTAGA
5144600 GA
66 GA
5144602 A
1 A
5144603 CCAACGGGTT
Statistics
Matches: 67, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
66 59 0.88
67 8 0.12
ACGTcount: A:0.28, C:0.40, G:0.10, T:0.22
Consensus pattern (67 bp):
AGCTTCCCACCACGGACATCTACTTCCACCACCACCAGCTACCTCAATTCACGCCTTACTTTAGA
GA
Found at i:5146837 original size:30 final size:31
Alignment explanation
Indices: 5146780--5146837 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 31
5146770 GACATGTTCG
* * **
5146780 CAAATAATGAATAAATGAACATGAACACCTT
1 CAAATAATAAATAAACGAACACAAACACCTT
5146811 CAAA-AATAAATAAACGAACACAAACAC
1 CAAATAATAAATAAACGAACACAAACAC
5146838 AATGTTAAGA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
30 19 0.83
31 4 0.17
ACGTcount: A:0.59, C:0.19, G:0.07, T:0.16
Consensus pattern (31 bp):
CAAATAATAAATAAACGAACACAAACACCTT
Found at i:5147798 original size:60 final size:60
Alignment explanation
Indices: 5147690--5147803 Score: 165
Period size: 60 Copynumber: 1.9 Consensus size: 60
5147680 AGTTGTGACG
* * **
5147690 ATTTTGTAACTTTTAATAGTCAAGGGACTCAATAAAGCAACATGCTATAGTTGGGCGATC
1 ATTTTATAACTTTTAATAGTCAAGGGACTCAACAAAGCAACACCCTATAGTTGGGCGATC
* * *
5147750 ATTTTATAACTTTTAATAGTTAAGGGACTCAACAAAGTAATACCCTATAGTTGG
1 ATTTTATAACTTTTAATAGTCAAGGGACTCAACAAAGCAACACCCTATAGTTGG
5147804 AGGACCATGT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
60 47 1.00
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (60 bp):
ATTTTATAACTTTTAATAGTCAAGGGACTCAACAAAGCAACACCCTATAGTTGGGCGATC
Found at i:5149339 original size:23 final size:24
Alignment explanation
Indices: 5149313--5149359 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
5149303 TGAGTTTACG
5149313 GGATAGT-GATTGCTTTTTTGGTT
1 GGATAGTGGATTGCTTTTTTGGTT
** *
5149336 GGATTTTGGATTGTTTTTTTGGTT
1 GGATAGTGGATTGCTTTTTTGGTT
5149360 TTAATGATTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 5 0.25
24 15 0.75
ACGTcount: A:0.11, C:0.02, G:0.30, T:0.57
Consensus pattern (24 bp):
GGATAGTGGATTGCTTTTTTGGTT
Found at i:5155893 original size:15 final size:15
Alignment explanation
Indices: 5155873--5155902 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
5155863 CAACATTTGG
5155873 GTAAAAAAACCACTA
1 GTAAAAAAACCACTA
5155888 GTAAAAAAACCACTA
1 GTAAAAAAACCACTA
5155903 AAATCTTAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.20, G:0.07, T:0.13
Consensus pattern (15 bp):
GTAAAAAAACCACTA
Found at i:5157630 original size:10 final size:10
Alignment explanation
Indices: 5157615--5157646 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
5157605 TTCATCACAC
5157615 CAAATTCTCT
1 CAAATTCTCT
5157625 CAAATTCTCT
1 CAAATTCTCT
*
5157635 TAAATTCTCT
1 CAAATTCTCT
5157645 CA
1 CA
5157647 TAGCTCGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.31, C:0.28, G:0.00, T:0.41
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:5158508 original size:63 final size:63
Alignment explanation
Indices: 5158409--5158534 Score: 252
Period size: 63 Copynumber: 2.0 Consensus size: 63
5158399 GACAGTTCTA
5158409 GTATTCTTGTATAGGGAGATGTGTCGAGCTACTGACTACAGGAAAATTTCTATCGGCAGATGT
1 GTATTCTTGTATAGGGAGATGTGTCGAGCTACTGACTACAGGAAAATTTCTATCGGCAGATGT
5158472 GTATTCTTGTATAGGGAGATGTGTCGAGCTACTGACTACAGGAAAATTTCTATCGGCAGATGT
1 GTATTCTTGTATAGGGAGATGTGTCGAGCTACTGACTACAGGAAAATTTCTATCGGCAGATGT
5158535 CTTCTTCTAC
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.32
Consensus pattern (63 bp):
GTATTCTTGTATAGGGAGATGTGTCGAGCTACTGACTACAGGAAAATTTCTATCGGCAGATGT
Found at i:5159462 original size:21 final size:21
Alignment explanation
Indices: 5159423--5159469 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
5159413 ACACCCCGCA
*
5159423 ACCATATCAAAGACTGCCACC
1 ACCATATCAAAGACCGCCACC
*
5159444 GCCATATCAAATG-CCGCCACC
1 ACCATATCAAA-GACCGCCACC
5159465 ACCAT
1 ACCAT
5159470 TGTCACAGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 21 0.95
22 1 0.05
ACGTcount: A:0.34, C:0.40, G:0.11, T:0.15
Consensus pattern (21 bp):
ACCATATCAAAGACCGCCACC
Found at i:5163015 original size:19 final size:19
Alignment explanation
Indices: 5162993--5163094 Score: 78
Period size: 19 Copynumber: 5.4 Consensus size: 19
5162983 AAGTCAACGA
* *
5162993 TCAAAGTTAATGGGGCAGG
1 TCAAAGTTAACGGGTCAGG
* **
5163012 TCAAAGTCAACGGGTTGGG
1 TCAAAGTTAACGGGTCAGG
* * **
5163031 TAAAAGTCAACGGGTCATA
1 TCAAAGTTAACGGGTCAGG
*
5163050 TCAAAGTTAATGGGTCAGG
1 TCAAAGTTAACGGGTCAGG
* * *
5163069 TCTAAGTTAACGAGTCGGG
1 TCAAAGTTAACGGGTCAGG
*
5163088 TTAAAGT
1 TCAAAGT
5163095 CAATGGGTCG
Statistics
Matches: 62, Mismatches: 21, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
19 62 1.00
ACGTcount: A:0.32, C:0.13, G:0.30, T:0.25
Consensus pattern (19 bp):
TCAAAGTTAACGGGTCAGG
Found at i:5163056 original size:57 final size:57
Alignment explanation
Indices: 5162992--5163103 Score: 161
Period size: 57 Copynumber: 2.0 Consensus size: 57
5162982 AAAGTCAACG
* *
5162992 ATCAAAGTTAATGGGGCAGGTCAAAGTCAACGGGTTGGGTAAAAGTCAACGGGTCAT
1 ATCAAAGTTAATGGGGCAGGTCAAAGTCAACGAGTCGGGTAAAAGTCAACGGGTCAT
* * * * *
5163049 ATCAAAGTTAATGGGTCAGGTCTAAGTTAACGAGTCGGGTTAAAGTCAATGGGTC
1 ATCAAAGTTAATGGGGCAGGTCAAAGTCAACGAGTCGGGTAAAAGTCAACGGGTC
5163104 GGGTTGGGTT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
57 48 1.00
ACGTcount: A:0.32, C:0.13, G:0.30, T:0.24
Consensus pattern (57 bp):
ATCAAAGTTAATGGGGCAGGTCAAAGTCAACGAGTCGGGTAAAAGTCAACGGGTCAT
Found at i:5163104 original size:19 final size:19
Alignment explanation
Indices: 5163008--5163108 Score: 60
Period size: 19 Copynumber: 5.3 Consensus size: 19
5162998 GTTAATGGGG
*
5163008 CAGGTCAAAGTCAACGGGT
1 CAGGTTAAAGTCAACGGGT
** *
5163027 TGGGTAAAAGTCAACGGGT
1 CAGGTTAAAGTCAACGGGT
** * * *
5163046 CATATCAAAGTTAATGGGT
1 CAGGTTAAAGTCAACGGGT
* *
5163065 CAGGTCT-AAGTTAACGAGT
1 CAGGT-TAAAGTCAACGGGT
* *
5163084 CGGGTTAAAGTCAATGGGT
1 CAGGTTAAAGTCAACGGGT
*
5163103 CGGGTT
1 CAGGTT
5163109 GGGTTGACTC
Statistics
Matches: 61, Mismatches: 19, Indels: 4
0.73 0.23 0.05
Matches are distributed among these distances:
18 1 0.02
19 60 0.98
ACGTcount: A:0.30, C:0.14, G:0.32, T:0.25
Consensus pattern (19 bp):
CAGGTTAAAGTCAACGGGT
Found at i:5163258 original size:25 final size:25
Alignment explanation
Indices: 5163217--5163269 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
5163207 AGCCACATGC
5163217 GCACCGACGACGCGTGGCAACACGT
1 GCACCGACGACGCGTGGCAACACGT
* *
5163242 GCACCGACGGCGTGTGGCAACACGT
1 GCACCGACGACGCGTGGCAACACGT
5163267 GCA
1 GCA
5163270 ACGGGCAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.23, C:0.34, G:0.34, T:0.09
Consensus pattern (25 bp):
GCACCGACGACGCGTGGCAACACGT
Found at i:5164142 original size:13 final size:13
Alignment explanation
Indices: 5164124--5164148 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5164114 GGTCCCTAAC
5164124 TTAAATTAAATTT
1 TTAAATTAAATTT
5164137 TTAAATTAAATT
1 TTAAATTAAATT
5164149 ATGGGTGTGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TTAAATTAAATTT
Found at i:5164770 original size:27 final size:27
Alignment explanation
Indices: 5164719--5164770 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
5164709 AAGCGCACAT
* **
5164719 ATAGTATTTCATCCTTTGAGATGATGC
1 ATAGTATTCCATCCTTCAAGATGATGC
*
5164746 ATAGTATTCCATCCTTCAAGGTGAT
1 ATAGTATTCCATCCTTCAAGATGAT
5164771 ACATCGTGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.27, C:0.17, G:0.17, T:0.38
Consensus pattern (27 bp):
ATAGTATTCCATCCTTCAAGATGATGC
Found at i:5169116 original size:70 final size:70
Alignment explanation
Indices: 5169000--5169139 Score: 235
Period size: 70 Copynumber: 2.0 Consensus size: 70
5168990 AATTTCTTGA
* * *
5169000 GCAATGATGATGTTATCAGTAATGGTGCGTCTAAGAACAAAGCTAGTTTGATTTTCAAACATCCA
1 GCAATGATGATGTTATCAGTAATGGCGCGTCTAAGAACAAAACTAGTTTGATTTTCAAACACCCA
5169065 ATAGG
66 ATAGG
* *
5169070 GCAATGATGATGTTATCAGTAATGGCGCGTCTAGGAACAAAACTAGTTTGATTTTCAGACACCCA
1 GCAATGATGATGTTATCAGTAATGGCGCGTCTAAGAACAAAACTAGTTTGATTTTCAAACACCCA
5169135 ATAGG
66 ATAGG
5169140 TCATAAGATG
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
70 65 1.00
ACGTcount: A:0.34, C:0.16, G:0.22, T:0.29
Consensus pattern (70 bp):
GCAATGATGATGTTATCAGTAATGGCGCGTCTAAGAACAAAACTAGTTTGATTTTCAAACACCCA
ATAGG
Found at i:5171525 original size:18 final size:18
Alignment explanation
Indices: 5171475--5171527 Score: 70
Period size: 20 Copynumber: 2.8 Consensus size: 18
5171465 ACTGAGCCTG
5171475 TTAGTATCAATACCATCC
1 TTAGTATCAATACCATCC
*
5171493 TTAGGGTATCTATACCATCC
1 TTA--GTATCAATACCATCC
*
5171513 TTAGTATCGATACCA
1 TTAGTATCAATACCA
5171528 GTTTGATCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 14 0.45
20 17 0.55
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (18 bp):
TTAGTATCAATACCATCC
Found at i:5174567 original size:3 final size:3
Alignment explanation
Indices: 5174554--5174589 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
5174544 CATTATCCTC
*
5174554 ATT AAT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
5174590 TATATCTCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:5174958 original size:23 final size:23
Alignment explanation
Indices: 5174932--5175000 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
5174922 CACCACAGCT
*
5174932 CGTATAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* * **
5174955 CGTAGAATTGCACCGTAGTGCTG
1 CGTAGAAATGCACCGAAGTGCCA
*
5174978 CGTAGAAATGCACTGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
5175001 TATAAGATTG
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:5186540 original size:21 final size:21
Alignment explanation
Indices: 5186498--5186540 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
5186488 TTTCTAGGCT
* *
5186498 AGGGGAATCGGTACCCATTCA
1 AGGGGAATCGATACCCACTCA
* *
5186519 AGGGGAATCGATTCCCCCTCA
1 AGGGGAATCGATACCCACTCA
5186540 A
1 A
5186541 ACGAATATGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.26, T:0.19
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:5187504 original size:32 final size:32
Alignment explanation
Indices: 5187463--5187559 Score: 119
Period size: 32 Copynumber: 3.1 Consensus size: 32
5187453 GAGTCGAGGG
5187463 TTTACCTATGTTCTACGGAACATATGGACAGT
1 TTTACCTATGTTCTACGGAACATATGGACAGT
*
5187495 TTTACCTATG-TCTTTC-GAGACATATGGACAG-
1 TTTACCTATGTTC-TACGGA-ACATATGGACAGT
* * *
5187526 TATACTTATGTTCTAAGGAACATATGGACAGT
1 TTTACCTATGTTCTACGGAACATATGGACAGT
5187558 TT
1 TT
5187560 ACCGAGGATC
Statistics
Matches: 54, Mismatches: 6, Indels: 10
0.77 0.09 0.14
Matches are distributed among these distances:
31 25 0.46
32 29 0.54
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (32 bp):
TTTACCTATGTTCTACGGAACATATGGACAGT
Found at i:5187549 original size:31 final size:31
Alignment explanation
Indices: 5187465--5187562 Score: 108
Period size: 31 Copynumber: 3.1 Consensus size: 31
5187455 GTCGAGGGTT
* *
5187465 TACCTATGTTCTACGGAACATATGGACAGTTT
1 TACCTATGTTCTAAGGAACATATGGACAG-TA
***
5187497 TACCTATG-TCTTTCGAGACATATGGACAGTA
1 TACCTATGTTCTAAGGA-ACATATGGACAGTA
* *
5187528 TACTTATGTTCTAAGGAACATATGGACAGTT
1 TACCTATGTTCTAAGGAACATATGGACAGTA
5187559 TACC
1 TACC
5187563 GAGGATCTTT
Statistics
Matches: 54, Mismatches: 10, Indels: 5
0.78 0.14 0.07
Matches are distributed among these distances:
31 29 0.54
32 25 0.46
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (31 bp):
TACCTATGTTCTAAGGAACATATGGACAGTA
Found at i:5187594 original size:30 final size:30
Alignment explanation
Indices: 5187550--5187643 Score: 136
Period size: 30 Copynumber: 3.1 Consensus size: 30
5187540 AAGGAACATA
5187550 TGGACAGTTTACCGAGGATCTTTATGACCTC
1 TGGACAG-TTACCGAGGATCTTTATGACCTC
5187581 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
* * * *
5187611 TGGATAGTTACC-AGGGTCTGTGTGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
5187640 TGGA
1 TGGA
5187644 TAGGTCCTTC
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
29 18 0.31
30 34 0.58
31 7 0.12
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.31
Consensus pattern (30 bp):
TGGACAGTTACCGAGGATCTTTATGACCTC
Found at i:5191389 original size:21 final size:21
Alignment explanation
Indices: 5191347--5191389 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
5191337 TTTCTAGGCT
* *
5191347 AGGGGAATCGGTACCCATTCA
1 AGGGGAATCGATACCCACTCA
* *
5191368 AGGGGAATCGATTCCCCCTCA
1 AGGGGAATCGATACCCACTCA
5191389 A
1 A
5191390 ACGAATATGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.26, T:0.19
Consensus pattern (21 bp):
AGGGGAATCGATACCCACTCA
Found at i:5192351 original size:32 final size:32
Alignment explanation
Indices: 5192310--5192406 Score: 128
Period size: 32 Copynumber: 3.1 Consensus size: 32
5192300 GAGTCGAGGG
5192310 TTTACCTATGTTCTACGGAACATATGGACAGT
1 TTTACCTATGTTCTACGGAACATATGGACAGT
*
5192342 TTTACCTATG-TCTTTC-GAGACATATGGACAG-
1 TTTACCTATGTTC-TACGGA-ACATATGGACAGT
* *
5192373 TATACCTATGTTCTAAGGAACATATGGACAGT
1 TTTACCTATGTTCTACGGAACATATGGACAGT
5192405 TT
1 TT
5192407 ACCGAGGATC
Statistics
Matches: 55, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
31 26 0.47
32 29 0.53
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.35
Consensus pattern (32 bp):
TTTACCTATGTTCTACGGAACATATGGACAGT
Found at i:5192382 original size:31 final size:31
Alignment explanation
Indices: 5192309--5192409 Score: 125
Period size: 31 Copynumber: 3.2 Consensus size: 31
5192299 AGAGTCGAGG
5192309 GTTTACCTATGTTCT-ACGGAACATATGGACA
1 GTTTACCTATGTTCTAAC-GAACATATGGACA
**
5192340 GTTTTACCTATG-TCTTTCGAGACATATGGACA
1 G-TTTACCTATGTTCTAACGA-ACATATGGACA
* *
5192372 GTATACCTATGTTCTAAGGAACATATGGACA
1 GTTTACCTATGTTCTAACGAACATATGGACA
5192403 GTTTACC
1 GTTTACC
5192410 GAGGATCTTT
Statistics
Matches: 60, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
31 32 0.53
32 28 0.47
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.34
Consensus pattern (31 bp):
GTTTACCTATGTTCTAACGAACATATGGACA
Found at i:5192441 original size:30 final size:30
Alignment explanation
Indices: 5192397--5192490 Score: 136
Period size: 30 Copynumber: 3.1 Consensus size: 30
5192387 AAGGAACATA
5192397 TGGACAGTTTACCGAGGATCTTTATGACCTC
1 TGGACAG-TTACCGAGGATCTTTATGACCTC
5192428 TGGACAGTTACCGAGGATCTTTATGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
* * * *
5192458 TGGATAGTTACCG-GGGTCTGTGTGACCTC
1 TGGACAGTTACCGAGGATCTTTATGACCTC
5192487 TGGA
1 TGGA
5192491 TAGGTCCTTC
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
29 17 0.29
30 35 0.59
31 7 0.12
ACGTcount: A:0.20, C:0.21, G:0.28, T:0.31
Consensus pattern (30 bp):
TGGACAGTTACCGAGGATCTTTATGACCTC
Found at i:5194233 original size:15 final size:15
Alignment explanation
Indices: 5194207--5194254 Score: 51
Period size: 17 Copynumber: 3.0 Consensus size: 15
5194197 TTCAAACATC
*
5194207 CAAACAAATCCAAAGT
1 CAAAC-AATCCAAAAT
*
5194223 CTAACAATCCACAAAAT
1 CAAACAAT-C-CAAAAT
5194240 CAAACAATCCAAAAT
1 CAAACAATCCAAAAT
5194255 ATTCAAAATG
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
15 9 0.33
16 6 0.22
17 12 0.44
ACGTcount: A:0.56, C:0.27, G:0.02, T:0.15
Consensus pattern (15 bp):
CAAACAATCCAAAAT
Found at i:5207041 original size:2 final size:2
Alignment explanation
Indices: 5207034--5207074 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
5207024 ACTTCAAATC
5207034 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
5207075 AACTCTTATG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:5207121 original size:26 final size:27
Alignment explanation
Indices: 5207070--5207122 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 27
5207060 ATATATATAT
*
5207070 ATATAAACTCTTATGATAAAAGATAAA
1 ATATAAAATCTTATGATAAAAGATAAA
*
5207097 ATATAAAAT-TTATTATATAAA-ATAAA
1 ATATAAAATCTTATGATA-AAAGATAAA
5207123 TTTAATATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 12 0.52
27 11 0.48
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.34
Consensus pattern (27 bp):
ATATAAAATCTTATGATAAAAGATAAA
Found at i:5209874 original size:19 final size:20
Alignment explanation
Indices: 5209785--5209896 Score: 120
Period size: 20 Copynumber: 5.7 Consensus size: 20
5209775 ATGCATTGGG
* **
5209785 CTATGAATATGAAAGATGTG
1 CTATGAATTTGAAAGATGAA
* *
5209805 CTATGAATATGAAAGATAAA
1 CTATGAATTTGAAAGATGAA
*
5209825 CTACGAATTTGAAAGATGAA
1 CTATGAATTTGAAAGATGAA
5209845 CTATGAATTTGAAAGATGAA
1 CTATGAATTTGAAAGATGAA
* *
5209865 -TATGAGTTTGAAA-ATGAG
1 CTATGAATTTGAAAGATGAA
* *
5209883 TTATGAATCTGAAA
1 CTATGAATTTGAAA
5209897 TAAGTTACGA
Statistics
Matches: 80, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
18 4 0.05
19 23 0.29
20 53 0.66
ACGTcount: A:0.45, C:0.05, G:0.21, T:0.29
Consensus pattern (20 bp):
CTATGAATTTGAAAGATGAA
Found at i:5209918 original size:19 final size:18
Alignment explanation
Indices: 5209875--5209914 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
5209865 TATGAGTTTG
* *
5209875 AAAATGAGTTATGAATCT
1 AAAATAAGTTACGAATCT
*
5209893 GAAATAAGTTACGAATCT
1 AAAATAAGTTACGAATCT
5209911 AAAA
1 AAAA
5209915 ATAAAAAAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.07, G:0.15, T:0.28
Consensus pattern (18 bp):
AAAATAAGTTACGAATCT
Found at i:5210809 original size:2 final size:2
Alignment explanation
Indices: 5210802--5210827 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
5210792 AAAATCTTAA
5210802 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
5210828 GTTTCTCCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5220603 original size:145 final size:145
Alignment explanation
Indices: 5220340--5220630 Score: 582
Period size: 145 Copynumber: 2.0 Consensus size: 145
5220330 AGCCGTTCAT
5220340 GGCAGTGATCACTACTACGCGTGAAACTCTTTCGCTGGATCAAGTTTATTCTACGCTTGTTGATG
1 GGCAGTGATCACTACTACGCGTGAAACTCTTTCGCTGGATCAAGTTTATTCTACGCTTGTTGATG
5220405 TTGAAACACAGATTGACGGGTTTGACTCTCAACTTGAGAATCTTCCAATGAGTGATCATATTGCT
66 TTGAAACACAGATTGACGGGTTTGACTCTCAACTTGAGAATCTTCCAATGAGTGATCATATTGCT
5220470 TAAGGAAGATCGATG
131 TAAGGAAGATCGATG
5220485 GGCAGTGATCACTACTACGCGTGAAACTCTTTCGCTGGATCAAGTTTATTCTACGCTTGTTGATG
1 GGCAGTGATCACTACTACGCGTGAAACTCTTTCGCTGGATCAAGTTTATTCTACGCTTGTTGATG
5220550 TTGAAACACAGATTGACGGGTTTGACTCTCAACTTGAGAATCTTCCAATGAGTGATCATATTGCT
66 TTGAAACACAGATTGACGGGTTTGACTCTCAACTTGAGAATCTTCCAATGAGTGATCATATTGCT
5220615 TAAGGAAGATCGATG
131 TAAGGAAGATCGATG
5220630 G
1 G
5220631 ATGGCTCGAC
Statistics
Matches: 146, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
145 146 1.00
ACGTcount: A:0.27, C:0.19, G:0.23, T:0.32
Consensus pattern (145 bp):
GGCAGTGATCACTACTACGCGTGAAACTCTTTCGCTGGATCAAGTTTATTCTACGCTTGTTGATG
TTGAAACACAGATTGACGGGTTTGACTCTCAACTTGAGAATCTTCCAATGAGTGATCATATTGCT
TAAGGAAGATCGATG
Found at i:5226181 original size:15 final size:14
Alignment explanation
Indices: 5226143--5226186 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
5226133 TAATTTCTAT
* *
5226143 TTATCATTTTTTAC
1 TTATTATTTTTTTC
*
5226157 TTATTCTTTTTTTC
1 TTATTATTTTTTTC
5226171 TTATTTATTTTTTTC
1 TTA-TTATTTTTTTC
5226186 T
1 T
5226187 CTTTTTCTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
14 14 0.56
15 11 0.44
ACGTcount: A:0.14, C:0.11, G:0.00, T:0.75
Consensus pattern (14 bp):
TTATTATTTTTTTC
Found at i:5226184 original size:31 final size:32
Alignment explanation
Indices: 5226136--5226207 Score: 78
Period size: 31 Copynumber: 2.3 Consensus size: 32
5226126 TTTAATCTAA
5226136 TTTCTATTTATCATTTTT-TACTTATTCTTTT-
1 TTTCTATTTATCATTTTTCT-CTTATTCTTTTG
* *
5226167 TTTCTTATTTAT-TTTTTTCTCTTTTTCTTTTG
1 TTTC-TATTTATCATTTTTCTCTTATTCTTTTG
*
5226199 TTTCCATTT
1 TTTCTATTT
5226208 TGATTTCTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
31 23 0.66
32 12 0.34
ACGTcount: A:0.11, C:0.14, G:0.01, T:0.74
Consensus pattern (32 bp):
TTTCTATTTATCATTTTTCTCTTATTCTTTTG
Found at i:5226202 original size:17 final size:15
Alignment explanation
Indices: 5226149--5226202 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
5226139 CTATTTATCA
*
5226149 TTTTTTACTTA-TTC
1 TTTTTTTCTTATTTC
*
5226163 TTTTTTTCTTATTTA
1 TTTTTTTCTTATTTC
*
5226178 TTTTTTTCTCTTTTTC
1 TTTTTTTCT-TATTTC
5226194 TTTTGTTTC
1 TTTT-TTTC
5226203 CATTTTGATT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
14 10 0.30
15 11 0.33
16 8 0.24
17 4 0.12
ACGTcount: A:0.07, C:0.13, G:0.02, T:0.78
Consensus pattern (15 bp):
TTTTTTTCTTATTTC
Found at i:5231554 original size:165 final size:164
Alignment explanation
Indices: 5231274--5232109 Score: 875
Period size: 165 Copynumber: 5.1 Consensus size: 164
5231264 TATACAAACT
* * * *
5231274 ATTTGTAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACTTTCGAGTTCTATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACGACCTTCGAGTTCGATTACACTCA
* * *
5231339 GCTTTGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAACAAAGACC
66 GCTTCGAGGACACATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTG-CAAACAAAGACC
5231404 TTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
130 TTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* *
5231439 ATTTGCATCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACGACCCTT-GAGTTTGATTACACTC
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACGA-CCTTCGAGTTCGATTACACTC
* * * * ** *
5231503 ACCTTCGAGGACACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAGACC
65 AGCTTCGAGGACACATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCAAACAAAGACC
*
5231568 TTCGAGTTCGACTACGTTCAGCTCCAAGGCACATC
130 TTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* **
5231603 ATTTGCAGCATAGCTTAAGTCGAGAAAGGCTATCTGCCAAAAACCTTCGAGTTCGATTACACTCA
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACGACCTTCGAGTTCGATTACACTCA
* * * * * ** *
5231668 GCTTCGAGGGCATATCATTTACAGCATAACTAAAGGCTAGAAGGGTTATCTGTGACCAAAAGACC
66 GCTTCGAGGACACATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCAAAC-AAAGACC
* *
5231733 TTCGAGTTCGACTACGCTCAACTCCAAGGCATATC
130 TTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
* * * * *
5231768 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTACCAACCAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAA-C---GACCTTCGAGTTCGATTACA
* * ** * *
5231833 CTCAGCTCCAAGG-CACATCATTT-GTGACATAGCTTAAGTCGAGAAGGGCTATCTGC---CAAA
62 CTCAGCTTCGAGGACACATCATTTACAG-CATAACTTAAGTCGAGAAGGGTTATCTGCAAACAAA
* * * * *
5231893 GACCCTCGAGTTCGATTACACTCAGCTTCGAGGGCACATC
126 GACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATC
* * * * * * *
5231933 ATTTGCAGCTTAACTTAAGTCGAGAAGGGTTATCTACCAACCAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAA-C---GACCTTCGAGTTCGATTACA
* * * * *
5231998 CTCAGC-TCCAAGACACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGTTATCTGC---CAAAG
62 CTCAGCTTCGAGGACACATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCAAACAAAG
* * * ** *
5232059 A-CTCTCGAGTTCAATTACACTCAGCTTCGGAGGCATATC
127 ACCT-TCGAGTTCGACTACGCTCAGC-TCCAAGGCACATC
*
5232098 ATTCGCAGCATA
1 ATTTGCAGCATA
5232110 ACTCAAAGCT
Statistics
Matches: 588, Mismatches: 71, Indels: 24
0.86 0.10 0.04
Matches are distributed among these distances:
163 4 0.01
164 180 0.31
165 339 0.58
166 4 0.01
167 1 0.00
168 32 0.05
169 28 0.05
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.25
Consensus pattern (164 bp):
ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAACGACCTTCGAGTTCGATTACACTCA
GCTTCGAGGACACATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATCTGCAAACAAAGACCT
TCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
Found at i:5231866 original size:249 final size:245
Alignment explanation
Indices: 5231274--5232056 Score: 905
Period size: 249 Copynumber: 3.2 Consensus size: 245
5231264 TATACAAACT
* * * * * * * *
5231274 ATTTGTAGCATAGCTTAAGTCGAGAAGGGCTATCT---GCCAAAGACTTTCGAGTTCTATTACAC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTCCAACCAAAGACCTTCGAGTTCGACTACGC
** * * *
5231336 TCAGCTTTGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAACAAAG
66 TCAGC-TCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCC--A-AAA-
* * * * * *
5231401 ACCTTCGAGTTCGACTACGCTCAGC-TCCAAGGCACATCATTTGCATCATAGCTTAAGTCGAGAA
126 ACCTTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAA
* * * * * * * *
5231465 GGGCTATC-TG-CCAACGACCCTTGAGTTTGATTACACTCACCTTCGAGGACACATC
191 GGGTTATCTTGACCAAAGA-CCTTGAGTTCGACTACGCTCAACTCCAAGG-CACATC
* * * * *** *
5231520 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAGACCTTCGAGTTCGACTACGT
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTCCAACCAAAGACCTTCGAGTTCGACTACGC
*
5231585 TCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAAGGCTATCTGCCAAAAACCTT
66 TCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAAACCTT
* * * * *
5231650 CGAGTTCGATTACACTCAGCTTCGAGGGCATATCATTTACAGCATAACTAAAGGCTAGAAGGGTT
131 CGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTT
*
5231715 ATCTGTGACCAAAAGACCTTCGAGTTCGACTACGCTCAACTCCAAGGCATATC
196 ATCT-TGACC-AAAGACCTT-GAGTTCGACTACGCTCAACTCCAAGGCACATC
5231768 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTACCAACCAAAGACCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCT-CCAACCAAAGACCTTCGAGTTCGACTACG
* *
5231833 CTCAGCTCCAAGGCACATCATTTG-TGACATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACC
65 CTCAGCTCCAAGGCACATCATTTGCAG-CATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAAACC
* *
5231897 CTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCTTAACTTAAGTCGAGAAGGG
129 TTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGG
** * *
5231962 TTATCTACCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGACACATC
194 TTATCT--TGACCAAAGACC-TTGAGTTCGACTACGCTCAACTCCAAGGCACATC
* *
5232017 ATTTGCAGTATAGCTTAAGTCGAGAAGGGTTATCTGCCAA
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCT-CCAA
5232057 AGACTCTCGA
Statistics
Matches: 458, Mismatches: 66, Indels: 23
0.84 0.12 0.04
Matches are distributed among these distances:
244 23 0.05
245 40 0.09
246 29 0.06
247 2 0.00
248 88 0.19
249 271 0.59
250 5 0.01
ACGTcount: A:0.30, C:0.24, G:0.21, T:0.25
Consensus pattern (245 bp):
ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTCCAACCAAAGACCTTCGAGTTCGACTACGC
TCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAAACCTT
CGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTT
ATCTTGACCAAAGACCTTGAGTTCGACTACGCTCAACTCCAAGGCACATC
Found at i:5232132 original size:165 final size:164
Alignment explanation
Indices: 5231349--5232210 Score: 783
Period size: 165 Copynumber: 5.2 Consensus size: 164
5231339 GCTTTGAGGG
* * * *
5231349 CACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAAACAAAGACCTTCGAGTTCG
1 CACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG-C---CAAAGACCCTCGAGTTCA
* * * * * * * * *
5231414 ACTACGCTCAGCTCCAAGGCACATCATTTGCATCATAGCTTAAGTCGAGAAGGGCTATCTGCCAA
62 ATTACACTCAGCTTCGAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTACCAA
* * * * * * *
5231479 -C---GACCCTTGAGTTTGATTACACTCACCTTCGAGGA
127 CCAAAGACCTTTGAGTTCGACTACGCTCAGC-TCCAAGA
* * * * * * * *
5231514 CACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAGACCTTCGAGTTCGA
1 CACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATC--TG-CCAAAGACCCTCGAGTTCAA
* ** * * * * * * *
5231579 CTACGTTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAAGGCTATCTGCC-A-
63 TTACACTCAGCTTCGAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTACCAAC
* * * * * *
5231642 -AAA-ACCTTCGAGTTCGATTACACTCAGCTTCGAGGG
128 CAAAGACCTTTGAGTTCGACTACGCTCAGC-TCCAAGA
* * * * * * * * *
5231678 CATATCATTTACAGCATAACTAAAGGCTAGAAGGGTTATCTGTGACCAAAAGACCTTCGAGTTCG
1 CACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATC--TG-CC-AAAGACCCTCGAGTTCA
* * * * *
5231743 ACTACGCTCAACTCCAAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTACCAA
62 ATTACACTCAGCTTCGAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTACCAA
* *
5231808 CCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGG
127 CCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGA
* *
5231846 CACATCATTTG-TGACATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCGATT
1 CACATCATTTGCAG-CATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCAATT
* *
5231910 ACACTCAGCTTCGAGGGCACATCATTTGCAGCTTAACTTAAGTCGAGAAGGGTTATCTACCAACC
65 ACACTCAGCTTCGA-GGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTACCAACC
5231975 AAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGA
129 AAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGA
* * *
5232011 CACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGTTATCTGCCAAAGACTCTCGAGTTCAATTA
1 CACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCAATTA
* * * **
5232076 CACTCAGCTTCGGAGGCATATCATTCGCAGCATAACTCAAAG-CTAGAAAAGTTATCTACCAACC
66 CACTCAGCTTC-GAGGCATATCATTTGCAGCATAACT-TAAGTCGAGAAGGGTTATCTACCAACC
* * *
5232140 AAAGACCCTTGAGTTCGACTACGCTCAGCTCCAGGT
129 AAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGA
* * * *
5232176 CACATCCTTTACAGCATAGCTCAAGGC-AGAAGGGC
1 CACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGC
5232211 ACATCCTTGC
Statistics
Matches: 617, Mismatches: 65, Indels: 31
0.87 0.09 0.04
Matches are distributed among these distances:
163 1 0.00
164 186 0.30
165 356 0.58
166 9 0.01
167 4 0.01
168 38 0.06
169 23 0.04
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (164 bp):
CACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGTTCAATTA
CACTCAGCTTCGAGGCATATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTACCAACCAA
AGACCTTTGAGTTCGACTACGCTCAGCTCCAAGA
Found at i:5232319 original size:128 final size:129
Alignment explanation
Indices: 5232091--5232347 Score: 507
Period size: 128 Copynumber: 2.0 Consensus size: 129
5232081 AGCTTCGGAG
5232091 GCATATCATTCGCAGCATAACTCAAAGCTAGAAAAGTTATCTACCAACCAAAGACCCTTGAGTTC
1 GCATATCATTCGCAGCATAACTCAAAGCTAGAAAAGTTATCTACCAACCAAAGACCCTTGAGTTC
5232156 GACTACGCTCAGCTCCAGGTCACATCCTTTACAGCATAGCTCAAGGC-AGAAGGGCACATCCTT
66 GACTACGCTCAGCTCCAGGTCACATCCTTTACAGCATAGCTCAAGGCAAGAAGGGCACATCCTT
5232219 GCATATCATTCGCAGCATAACTCAAAGCTAGAAAAGTTATCTACCAACCAAAGACCCTTGAGTTC
1 GCATATCATTCGCAGCATAACTCAAAGCTAGAAAAGTTATCTACCAACCAAAGACCCTTGAGTTC
5232284 GACTACGCTCAGCTCCAGGTCACATCCTTTACAGCATAGCTCAAGGCAAGAAGGGCACATCCTT
66 GACTACGCTCAGCTCCAGGTCACATCCTTTACAGCATAGCTCAAGGCAAGAAGGGCACATCCTT
5232348 TACTGTCCGT
Statistics
Matches: 128, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
128 112 0.88
129 16 0.12
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.22
Consensus pattern (129 bp):
GCATATCATTCGCAGCATAACTCAAAGCTAGAAAAGTTATCTACCAACCAAAGACCCTTGAGTTC
GACTACGCTCAGCTCCAGGTCACATCCTTTACAGCATAGCTCAAGGCAAGAAGGGCACATCCTT
Found at i:5232883 original size:13 final size:13
Alignment explanation
Indices: 5232867--5232891 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5232857 TATAGTATAA
5232867 TTTTTGAAAAATG
1 TTTTTGAAAAATG
5232880 TTTTTGAAAAAT
1 TTTTTGAAAAAT
5232892 ATAATATATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (13 bp):
TTTTTGAAAAATG
Found at i:5232912 original size:23 final size:24
Alignment explanation
Indices: 5232886--5232931 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
5232876 AATGTTTTTG
5232886 AAAAATA-TAATATATAGTTTTCA
1 AAAAATATTAATATATAGTTTTCA
*
5232909 AAAAATATTTATTATATAGTTTT
1 AAAAATA-TTAATATATAGTTTT
5232932 TTAAAACGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 7 0.35
25 13 0.65
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.46
Consensus pattern (24 bp):
AAAAATATTAATATATAGTTTTCA
Found at i:5232937 original size:25 final size:23
Alignment explanation
Indices: 5232879--5232937 Score: 64
Period size: 25 Copynumber: 2.5 Consensus size: 23
5232869 TTTGAAAAAT
*
5232879 GTTTTTGAAAAATATAATATATA
1 GTTTTTAAAAAATATAATATATA
* *
5232902 GTTTTCAAAAAATATTTATTATATA
1 GTTTTTAAAAAATA--TAATATATA
*
5232927 GTTTTTTAAAA
1 GTTTTTAAAAA
5232938 CGTTTTTTGA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
23 12 0.41
25 17 0.59
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.47
Consensus pattern (23 bp):
GTTTTTAAAAAATATAATATATA
Found at i:5233017 original size:35 final size:31
Alignment explanation
Indices: 5232960--5233184 Score: 125
Period size: 35 Copynumber: 6.5 Consensus size: 31
5232950 ACTTATGTAC
5232960 AATATATAAGTTTTAAAACATTTTGAAAATTAT
1 AATATAT-AGTTTTAAAACATTTTGAAAA-TAT
*
5232993 ATAGTATATAGTTTTGAAATCATTTTGAAAATAT
1 A-A-TATATAGTTTT-AAAACATTTTGAAAATAT
* *
5233027 AATTTATAGTTTTTAAAAAAAATATTTTTTGGAAATTTATAT
1 AATATATAG-TTTT----AAAACA--TTTT-GAAA---ATAT
*
5233069 AATATATAGTTTAAAAAAACATTTTGGAAAACT-T
1 AATATATAGTTT--TAAAACATTTT-GAAAA-TAT
5233103 -ATATATA-TTTTAAAATCATTTTTGAAAACTAT
1 AATATATAGTTTTAAAA-CA-TTTTGAAAA-TAT
* *
5233135 ATGATATATAGTTTTAAAAACGTTTT-TAAATAT
1 A--ATATATAGTTTT-AAAACATTTTGAAAATAT
*
5233168 AATATATAGTTTAAAAA
1 AATATATAGTTTTAAAA
5233185 ATATTTTTTT
Statistics
Matches: 156, Mismatches: 12, Indels: 51
0.71 0.05 0.23
Matches are distributed among these distances:
30 8 0.05
31 20 0.13
32 14 0.09
33 17 0.11
34 16 0.10
35 31 0.20
36 9 0.06
37 13 0.08
38 4 0.03
39 9 0.06
41 3 0.02
42 12 0.08
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.44
Consensus pattern (31 bp):
AATATATAGTTTTAAAACATTTTGAAAATAT
Found at i:5233174 original size:31 final size:31
Alignment explanation
Indices: 5233065--5233192 Score: 107
Period size: 31 Copynumber: 3.9 Consensus size: 31
5233055 TTGGAAATTT
*
5233065 ATATAATATATAGTTTAAAAAAACATTTTGGAA
1 ATATAATATATAGTTT-AAAAAACATTTT-TAA
* * *
5233098 A-ACTTATATATA-TTTTAAAATCATTTTTGAAA
1 ATA-TAATATATAGTTTAAAAAACATTTTT--AA
* *
5233130 ACTATATGATATATAGTTTTAAAAACGTTTTTAA
1 A-TATA--ATATATAGTTTAAAAAACATTTTTAA
*
5233164 ATATAATATATAGTTTAAAAAATATTTTT
1 ATATAATATATAGTTTAAAAAACATTTTT
5233193 TTGAAACATA
Statistics
Matches: 77, Mismatches: 10, Indels: 18
0.73 0.10 0.17
Matches are distributed among these distances:
31 31 0.40
32 7 0.09
33 14 0.18
34 4 0.05
35 7 0.09
36 14 0.18
ACGTcount: A:0.46, C:0.04, G:0.06, T:0.44
Consensus pattern (31 bp):
ATATAATATATAGTTTAAAAAACATTTTTAA
Found at i:5233247 original size:10 final size:10
Alignment explanation
Indices: 5233229--5233261 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
5233219 TTATTATTAA
5233229 TATTT-ATTT
1 TATTTCATTT
5233238 TATTTCATTT
1 TATTTCATTT
*
5233248 CATTTCATTT
1 TATTTCATTT
5233258 TATT
1 TATT
5233262 AATCTAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 5 0.24
10 16 0.76
ACGTcount: A:0.21, C:0.09, G:0.00, T:0.70
Consensus pattern (10 bp):
TATTTCATTT
Found at i:5237364 original size:20 final size:20
Alignment explanation
Indices: 5237331--5237370 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
5237321 AAAATAAATT
* *
5237331 TAATATTTTTATTTAAATAA
1 TAATATTGTGATTTAAATAA
*
5237351 TAATATTGTGATTTTAATAA
1 TAATATTGTGATTTAAATAA
5237371 ATATTTATAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (20 bp):
TAATATTGTGATTTAAATAA
Found at i:5237568 original size:26 final size:27
Alignment explanation
Indices: 5237508--5237570 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 27
5237498 TATTTTTATA
* *
5237508 TAAAATATTTTATATAATTTTATTTTT
1 TAAAATAATTCATATAATTTTATTTTT
*
5237535 TAATATAATTCATAT-ATTATTA-TTTT
1 TAAAATAATTCATATAATT-TTATTTTT
5237561 TAAAATAATT
1 TAAAATAATT
5237571 ATAAAAAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
26 16 0.52
27 15 0.48
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (27 bp):
TAAAATAATTCATATAATTTTATTTTT
Found at i:5241686 original size:33 final size:33
Alignment explanation
Indices: 5241644--5241716 Score: 137
Period size: 33 Copynumber: 2.2 Consensus size: 33
5241634 AAATTACAAC
*
5241644 ATTCCCAGTAATCATATTCTCTGGTAATCTTTT
1 ATTCCCAGTAATCATATTCCCTGGTAATCTTTT
5241677 ATTCCCAGTAATCATATTCCCTGGTAATCTTTT
1 ATTCCCAGTAATCATATTCCCTGGTAATCTTTT
5241710 ATTCCCA
1 ATTCCCA
5241717 CTAGTAATCT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.25, C:0.25, G:0.08, T:0.42
Consensus pattern (33 bp):
ATTCCCAGTAATCATATTCCCTGGTAATCTTTT
Found at i:5241696 original size:15 final size:15
Alignment explanation
Indices: 5241644--5241697 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 15
5241634 AAATTACAAC
5241644 ATTCCCAGTAATCAT
1 ATTCCCAGTAATCAT
** *
5241659 ATTCTCTGGTAATCTTTT
1 ATTC-CCAGTAATC--AT
5241677 ATTCCCAGTAATCAT
1 ATTCCCAGTAATCAT
5241692 ATTCCC
1 ATTCCC
5241698 TGGTAATCTT
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
15 11 0.37
16 7 0.23
17 7 0.23
18 5 0.17
ACGTcount: A:0.26, C:0.26, G:0.07, T:0.41
Consensus pattern (15 bp):
ATTCCCAGTAATCAT
Found at i:5241714 original size:18 final size:18
Alignment explanation
Indices: 5241658--5241715 Score: 68
Period size: 18 Copynumber: 3.4 Consensus size: 18
5241648 CCAGTAATCA
*
5241658 TATTCTCTGGTAATCTTT
1 TATTCCCTGGTAATCTTT
* *
5241676 TATTCCC-AGTAATC--A
1 TATTCCCTGGTAATCTTT
5241691 TATTCCCTGGTAATCTTT
1 TATTCCCTGGTAATCTTT
5241709 TATTCCC
1 TATTCCC
5241716 ACTAGTAATC
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
15 7 0.22
16 6 0.19
17 6 0.19
18 13 0.41
ACGTcount: A:0.21, C:0.24, G:0.09, T:0.47
Consensus pattern (18 bp):
TATTCCCTGGTAATCTTT
Found at i:5244862 original size:20 final size:21
Alignment explanation
Indices: 5244823--5244873 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
5244813 GGAATCCTGG
*
5244823 TCTCGATACCAAGCCCCTCAA
1 TCTCGATACTAAGCCCCTCAA
* *
5244844 TCTCGATACTAA-TCCCTCAG
1 TCTCGATACTAAGCCCCTCAA
*
5244864 TATCGATACT
1 TCTCGATACT
5244874 CCTTTAAGAG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 15 0.58
21 11 0.42
ACGTcount: A:0.27, C:0.35, G:0.10, T:0.27
Consensus pattern (21 bp):
TCTCGATACTAAGCCCCTCAA
Found at i:5245896 original size:419 final size:419
Alignment explanation
Indices: 5244904--5246161 Score: 2200
Period size: 419 Copynumber: 3.0 Consensus size: 419
5244894 TGCTCTTTAA
* *
5244904 AAACTCTCAATTTAAGTTTACCTTAAGAACATTATCGATACTAACCCTTAAAAATGCCCTATTTG
1 AAACTCTCAATTTAAGTTTACCTTAAGAACATTATCGATACTGACCCTTAAAAATACCCTATTTG
* *
5244969 GGCACAAATTTGCCACCCAAACTCCCTAAATCTCCTACCTTAAGGTTTCCCCATTAATTATTAAG
66 GGCACAAATTTGCCACCCAAACTCCCTAAATCTCCTACCTTGAGGTTTCCCCATTAATTATTAAT
* *
5245034 TCTTTTGTGATTCGAGGGGTCATAAATAAGGCTATTGAACATGCTAATAACATCAAACACGAAAT
131 TCTTTTGTGATTAGAGGGGTCATAAATAAGGCTCTTGAACATGCTAATAACATCAAACACGAAAT
*
5245099 CTACCATGAAACTATACTCAACAAGTTTCAACCACAACTTTCAAGCTAAAACTCATTTCTAATGA
196 CTACCATGAAACTATACTCAACAAGTTTCAACCACAACTCTCAAGCTAAAACTCATTTCTAATGA
5245164 CCCACAATTTATATGAGGAAGTTGTGAGTGTGTTACCTGGCTTCTTTGGCTGCTAAAATCTCTCT
261 CCCACAATTTATATGAGGAAGTTGTGAGTGTGTTACCTGGCTTCTTTGGCTGCTAAAATCTCTCT
5245229 CAACTCAACTAGG-AA--ATCTTTCCTTTATCTTTAGCTTTTGATCTCTC-CCCACCTCCTTCTC
326 CAACTCAACTAGGAAATCATCTTTCCTTTATCTTTAGCTTTTGATCTCTCTCCCACCTCCTTCTC
5245290 TAATTAAGGCAAGAAATGAATTACCAACT
391 TAATTAAGGCAAGAAATGAATTACCAACT
* *
5245319 AAACTCTCAATTTAAGTTTACCTTAAGAACAATATCGATATTGACCCTTAAAAATACCCTATTTG
1 AAACTCTCAATTTAAGTTTACCTTAAGAACATTATCGATACTGACCCTTAAAAATACCCTATTTG
* *
5245384 GGCACGAATTTGCCACCCAAACTCCCTAAATCTCTTACCTTGAGGTTTCCCCATTAATTATTAAT
66 GGCACAAATTTGCCACCCAAACTCCCTAAATCTCCTACCTTGAGGTTTCCCCATTAATTATTAAT
*
5245449 TCTTTTATGATTAGAGGGGTCATAAATAAGGCTCTTGAACATGCTAATAACATCAAACACGAAAT
131 TCTTTTGTGATTAGAGGGGTCATAAATAAGGCTCTTGAACATGCTAATAACATCAAACACGAAAT
* *
5245514 CTACCATGAAACTATACTCAACAATTTTCAAGCACAACTCTCAAGCTAAAACTCATTTCTAATGA
196 CTACCATGAAACTATACTCAACAAGTTTCAACCACAACTCTCAAGCTAAAACTCATTTCTAATGA
* * * *
5245579 CCCATAATTTATATGAGGTAGTTGTGAGTGTGTTACCTAGCTTCTTTGGCTGCTAAAATCCCTCT
261 CCCACAATTTATATGAGGAAGTTGTGAGTGTGTTACCTGGCTTCTTTGGCTGCTAAAATCTCTCT
*
5245644 CAACTCAACTAGGAAATCATCTTTCCTTTATCTTTAGCTTTTGATCTCTCTCCTACCTCCTTCTC
326 CAACTCAACTAGGAAATCATCTTTCCTTTATCTTTAGCTTTTGATCTCTCTCCCACCTCCTTCTC
*
5245709 TAATTAAGGTAAGAAATGAATTACCAACT
391 TAATTAAGGCAAGAAATGAATTACCAACT
* *
5245738 AAACTCTCAATTTAAGCTTACCTTAAGAACATTATCGATACTGTCCCTTAAAAATACCCTATTTG
1 AAACTCTCAATTTAAGTTTACCTTAAGAACATTATCGATACTGACCCTTAAAAATACCCTATTTG
* * *
5245803 GGCACAAATTTACCACCCAAACTCCCTAAATATCCTACCTTGAGGTTTCCCCGTTAATTATTAAT
66 GGCACAAATTTGCCACCCAAACTCCCTAAATCTCCTACCTTGAGGTTTCCCCATTAATTATTAAT
5245868 TCTTTTGTGATTAGAGGGGTCATAAATAAGGCTCTTGAACATGCTAATAACATCAAACACGAAAT
131 TCTTTTGTGATTAGAGGGGTCATAAATAAGGCTCTTGAACATGCTAATAACATCAAACACGAAAT
*
5245933 CTACCATGAAACTATACTCAACAAGTTTCAACCACAACTCTTAAGCTAAAACTCATTTCTAATGA
196 CTACCATGAAACTATACTCAACAAGTTTCAACCACAACTCTCAAGCTAAAACTCATTTCTAATGA
* * *
5245998 CCTACAGTTTATATGAGGAAGTTGTGAGTGTGTTACCTGGCTTCTTTGGCTACTAAAATCTCTCT
261 CCCACAATTTATATGAGGAAGTTGTGAGTGTGTTACCTGGCTTCTTTGGCTGCTAAAATCTCTCT
*
5246063 CAACTCAACTAGGAAATCATATTTCCTTTATCTTTAGCTTTTGATCTCTCTCCCACCTCCTTCTC
326 CAACTCAACTAGGAAATCATCTTTCCTTTATCTTTAGCTTTTGATCTCTCTCCCACCTCCTTCTC
* *
5246128 TAATTGAGGCAAGAAATGAATTACCAGCT
391 TAATTAAGGCAAGAAATGAATTACCAACT
5246157 AAACT
1 AAACT
5246162 ATGTATTTGG
Statistics
Matches: 794, Mismatches: 45, Indels: 4
0.94 0.05 0.00
Matches are distributed among these distances:
415 320 0.40
416 2 0.00
418 32 0.04
419 440 0.55
ACGTcount: A:0.32, C:0.23, G:0.12, T:0.33
Consensus pattern (419 bp):
AAACTCTCAATTTAAGTTTACCTTAAGAACATTATCGATACTGACCCTTAAAAATACCCTATTTG
GGCACAAATTTGCCACCCAAACTCCCTAAATCTCCTACCTTGAGGTTTCCCCATTAATTATTAAT
TCTTTTGTGATTAGAGGGGTCATAAATAAGGCTCTTGAACATGCTAATAACATCAAACACGAAAT
CTACCATGAAACTATACTCAACAAGTTTCAACCACAACTCTCAAGCTAAAACTCATTTCTAATGA
CCCACAATTTATATGAGGAAGTTGTGAGTGTGTTACCTGGCTTCTTTGGCTGCTAAAATCTCTCT
CAACTCAACTAGGAAATCATCTTTCCTTTATCTTTAGCTTTTGATCTCTCTCCCACCTCCTTCTC
TAATTAAGGCAAGAAATGAATTACCAACT
Found at i:5247635 original size:19 final size:20
Alignment explanation
Indices: 5247595--5247639 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
5247585 AACTGAGTTA
* *
5247595 CGAATTTGGAGTTCGTGTTG
1 CGAATTTGGAGATCGCGTTG
5247615 CGAATTTGGA-ATCGCGTTG
1 CGAATTTGGAGATCGCGTTG
5247634 CGAATT
1 CGAATT
5247640 CGTTGGTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.20, C:0.13, G:0.31, T:0.36
Consensus pattern (20 bp):
CGAATTTGGAGATCGCGTTG
Found at i:5258613 original size:38 final size:38
Alignment explanation
Indices: 5258569--5258643 Score: 132
Period size: 38 Copynumber: 2.0 Consensus size: 38
5258559 CACCCGATCT
5258569 AAACCCGTGTTTGACCCGTATGCCCGAACCCAATTCCC
1 AAACCCGTGTTTGACCCGTATGCCCGAACCCAATTCCC
* *
5258607 AAACCCGTGTTTGACCTGTCTGCCCGAACCCAATTCC
1 AAACCCGTGTTTGACCCGTATGCCCGAACCCAATTCC
5258644 TGAACCGGCC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.23, C:0.39, G:0.16, T:0.23
Consensus pattern (38 bp):
AAACCCGTGTTTGACCCGTATGCCCGAACCCAATTCCC
Found at i:5267980 original size:13 final size:13
Alignment explanation
Indices: 5267960--5267999 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
5267950 TCCTAATGGG
5267960 CAATTTTTGAAAA
1 CAATTTTTGAAAA
*
5267973 CTATTTTTGAAAAA
1 CAATTTTTG-AAAA
*
5267987 CAATGTTTGAAAA
1 CAATTTTTGAAAA
5268000 ATTATAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.45, C:0.07, G:0.10, T:0.38
Consensus pattern (13 bp):
CAATTTTTGAAAA
Found at i:5267986 original size:14 final size:14
Alignment explanation
Indices: 5267960--5268000 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
5267950 TCCTAATGGG
5267960 CAATTTTTG-AAAA
1 CAATTTTTGAAAAA
*
5267973 CTATTTTTGAAAAA
1 CAATTTTTGAAAAA
*
5267987 CAATGTTTGAAAAA
1 CAATTTTTGAAAAA
5268001 TTATAATATG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
13 8 0.33
14 16 0.67
ACGTcount: A:0.46, C:0.07, G:0.10, T:0.37
Consensus pattern (14 bp):
CAATTTTTGAAAAA
Found at i:5268557 original size:44 final size:44
Alignment explanation
Indices: 5268493--5268595 Score: 129
Period size: 44 Copynumber: 2.3 Consensus size: 44
5268483 TACACTCTTG
* *
5268493 AGTGTATCGATA-CACATTCAAGGAATG-ACTCAGTGCACTTTCAT
1 AGTGTATCGA-AGCACATTCAAGGAATGCA-TCAGTACACTTTCAC
* *
5268537 AGTGTATCGAAGCACGTTCAAGGAATGCATCGGTACACTTTCAC
1 AGTGTATCGAAGCACATTCAAGGAATGCATCAGTACACTTTCAC
*
5268581 AGTGTATCGATGCAC
1 AGTGTATCGAAGCAC
5268596 TTTGCACAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
43 1 0.02
44 50 0.96
45 1 0.02
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.27
Consensus pattern (44 bp):
AGTGTATCGAAGCACATTCAAGGAATGCATCAGTACACTTTCAC
Found at i:5268596 original size:21 final size:21
Alignment explanation
Indices: 5268526--5268603 Score: 59
Period size: 21 Copynumber: 3.6 Consensus size: 21
5268516 AATGACTCAG
*
5268526 TGCACTTTCATAGTGTATCGA
1 TGCACTTTCACAGTGTATCGA
* * * *
5268547 AGCACGTTCA-AGGAATGCATCGG
1 TGCACTTTCACA-G--TGTATCGA
*
5268570 TACACTTTCACAGTGTATCGA
1 TGCACTTTCACAGTGTATCGA
5268591 TGCACTTTGCACA
1 TGCACTTT-CACA
5268604 AAAATGTCAA
Statistics
Matches: 42, Mismatches: 10, Indels: 9
0.69 0.16 0.15
Matches are distributed among these distances:
20 1 0.02
21 22 0.52
22 4 0.10
23 14 0.33
24 1 0.02
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (21 bp):
TGCACTTTCACAGTGTATCGA
Found at i:5269011 original size:15 final size:15
Alignment explanation
Indices: 5268991--5269021 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
5268981 TCTCCTTTTG
5268991 TGAAATGATCTCTAA
1 TGAAATGATCTCTAA
*
5269006 TGAAATGATGTCTAA
1 TGAAATGATCTCTAA
5269021 T
1 T
5269022 TTCATTATGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (15 bp):
TGAAATGATCTCTAA
Found at i:5274948 original size:65 final size:63
Alignment explanation
Indices: 5274831--5275038 Score: 208
Period size: 65 Copynumber: 3.2 Consensus size: 63
5274821 TTTCAGAGTG
* * **
5274831 ATGCACCGATGCACCAATCCATGCATCGATGCAC-CATGGAATAAATTG-AACATCGAATGCATT
1 ATGCATCGATGCA-CAA-CCATGCATCGATGCACTCA-GG-CTATTTTGAAACATCGAATGCATT
5274894 TC
62 TC
* *
5274896 ATGCACCGATGCACATACTATGCATCGATGCACTCAGAG-T-TTTATGAAAACATCGAATGCATT
1 ATGCATCGATGCACA-ACCATGCATCGATGCACTCAG-GCTATTT-TG-AAACATCGAATGCATT
*
5274959 TG
62 TC
* * * *
5274961 ATGCATCGATGCACCAGCCATGCATCGATGCATTCAGGCTATTTTGTAACATCGAATGAATTTC
1 ATGCATCGATGCA-CAACCATGCATCGATGCACTCAGGCTATTTTGAAACATCGAATGCATTTC
5275025 ATGCATCGATGCAC
1 ATGCATCGATGCAC
5275039 TCTTAGTGCA
Statistics
Matches: 123, Mismatches: 11, Indels: 20
0.80 0.07 0.13
Matches are distributed among these distances:
62 1 0.01
63 4 0.03
64 47 0.38
65 66 0.54
66 5 0.04
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.26
Consensus pattern (63 bp):
ATGCATCGATGCACAACCATGCATCGATGCACTCAGGCTATTTTGAAACATCGAATGCATTTC
Found at i:5279473 original size:17 final size:16
Alignment explanation
Indices: 5279451--5279486 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
5279441 TGATAGGAGT
5279451 ATATGTGTTGTATATTG
1 ATATGTGTTGTATA-TG
*
5279468 ATATGTTTTGTATATG
1 ATATGTGTTGTATATG
5279484 ATA
1 ATA
5279487 CAGGATGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.28, C:0.00, G:0.19, T:0.53
Consensus pattern (16 bp):
ATATGTGTTGTATATG
Found at i:5285153 original size:15 final size:15
Alignment explanation
Indices: 5285133--5285162 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
5285123 CTTTCCGTTT
5285133 TGGGTTAGATAATGA
1 TGGGTTAGATAATGA
*
5285148 TGGGTTATATAATGA
1 TGGGTTAGATAATGA
5285163 GATGAAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.00, G:0.30, T:0.37
Consensus pattern (15 bp):
TGGGTTAGATAATGA
Found at i:5286787 original size:65 final size:63
Alignment explanation
Indices: 5286718--5286877 Score: 198
Period size: 65 Copynumber: 2.5 Consensus size: 63
5286708 GAATAAATTG
* *
5286718 AACATCAAATGCATTTCATGCACCGATGCACATACTACGCATCGATGCACTCAAAGT-T-TTATG
1 AACATCAAATGCATTTCATGCATCGATGCACA-ACCACGCATCGATGCACTC--AGTCTATTATG
5286781 AA
63 -A
* * * * *
5286783 AACATCGAATGCATTTGATGCATCGATGCACCAGCCATGCATCGATGCACTCAGTCTATTTTGA
1 AACATCAAATGCATTTCATGCATCGATGCA-CAACCACGCATCGATGCACTCAGTCTATTATGA
5286847 AACATCAAATGCATTTCATGCATCGATGCAC
1 AACATCAAATGCATTTCATGCATCGATGCAC
5286878 TCTTAGCGCA
Statistics
Matches: 83, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
63 4 0.05
64 30 0.36
65 47 0.57
66 2 0.02
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.27
Consensus pattern (63 bp):
AACATCAAATGCATTTCATGCATCGATGCACAACCACGCATCGATGCACTCAGTCTATTATGA
Found at i:5287752 original size:23 final size:23
Alignment explanation
Indices: 5287688--5287790 Score: 131
Period size: 23 Copynumber: 4.6 Consensus size: 23
5287678 ACACCTAACA
*
5287688 GTGCATCGATGTA-TCCTTGAAT
1 GTGCATCGATGCACTCCTTGAAT
* * *
5287710 GTGCATTGAT--ACTCCATGAAG
1 GTGCATCGATGCACTCCTTGAAT
* *
5287731 GTGCACCGATTCACTCCTTGAAT
1 GTGCATCGATGCACTCCTTGAAT
5287754 GTGCATCGATGCACTCCTTGAAT
1 GTGCATCGATGCACTCCTTGAAT
5287777 GTGCATCGATGCAC
1 GTGCATCGATGCAC
5287791 AAGGTCATGC
Statistics
Matches: 69, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
20 1 0.01
21 15 0.22
22 9 0.13
23 44 0.64
ACGTcount: A:0.23, C:0.24, G:0.22, T:0.30
Consensus pattern (23 bp):
GTGCATCGATGCACTCCTTGAAT
Found at i:5287754 original size:44 final size:45
Alignment explanation
Indices: 5287701--5287786 Score: 120
Period size: 44 Copynumber: 1.9 Consensus size: 45
5287691 CATCGATGTA
*
5287701 TCCTTGAATGTGCATTGAT-ACTCCATGAAGGTGCACCGATTCAC
1 TCCTTGAATGTGCATCGATCACTCCATGAAGGTGCACCGATTCAC
* * *
5287745 TCCTTGAATGTGCATCGATGCACTCCTTGAATGTGCATCGAT
1 TCCTTGAATGTGCATCGAT-CACTCCATGAAGGTGCACCGAT
5287787 GCACAAGGTC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
44 18 0.50
46 18 0.50
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.31
Consensus pattern (45 bp):
TCCTTGAATGTGCATCGATCACTCCATGAAGGTGCACCGATTCAC
Found at i:5289768 original size:28 final size:28
Alignment explanation
Indices: 5289736--5289792 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
5289726 GGATGTTTAA
5289736 ATTTGATGGTTGT-TGGATGTTTGAACTT
1 ATTTG-TGGTTGTATGGATGTTTGAACTT
* * *
5289764 ATTTGTTGTTTTATGGATTTTTGAACTT
1 ATTTGTGGTTGTATGGATGTTTGAACTT
5289792 A
1 A
5289793 ATATATATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 5 0.20
28 20 0.80
ACGTcount: A:0.19, C:0.04, G:0.23, T:0.54
Consensus pattern (28 bp):
ATTTGTGGTTGTATGGATGTTTGAACTT
Found at i:5290540 original size:65 final size:63
Alignment explanation
Indices: 5290471--5290630 Score: 189
Period size: 65 Copynumber: 2.5 Consensus size: 63
5290461 GAATAAATTG
* *
5290471 AACATCGAATGCATTTCATGCACCGATGCACATACTATGCATCGATGCACTCAGAG-T-TTTATG
1 AACATCGAATGCATTTCATGCATCGATGCACA-ACCATGCATCGATGCACTCA-AGCTATTT-TG
5290534 AA
63 -A
* * * * *
5290536 AACATCAAATGCATATGATGCATCGATGCACCAGCCATGCATCGATGCACTTAAGCTATTTTGA
1 AACATCGAATGCATTTCATGCATCGATGCA-CAACCATGCATCGATGCACTCAAGCTATTTTGA
*
5290600 AACATCGAATGTATTTCATGCATCGATGCAC
1 AACATCGAATGCATTTCATGCATCGATGCAC
5290631 TCTTAGCGCA
Statistics
Matches: 81, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
63 1 0.01
64 29 0.36
65 46 0.57
66 5 0.06
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.28
Consensus pattern (63 bp):
AACATCGAATGCATTTCATGCATCGATGCACAACCATGCATCGATGCACTCAAGCTATTTTGA
Found at i:5293909 original size:17 final size:17
Alignment explanation
Indices: 5293883--5293921 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
5293873 TCTGGCCAAA
* *
5293883 CCCAACTCCTGAACTGG
1 CCCAACTCCTAAACCGG
*
5293900 CCCAATTCCTAAACCGG
1 CCCAACTCCTAAACCGG
5293917 CCCAA
1 CCCAA
5293922 GCCGAGTTGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.28, C:0.44, G:0.13, T:0.15
Consensus pattern (17 bp):
CCCAACTCCTAAACCGG
Found at i:5294463 original size:13 final size:13
Alignment explanation
Indices: 5294445--5294469 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5294435 GTTCCTATTG
5294445 GTTTTAAACTATC
1 GTTTTAAACTATC
5294458 GTTTTAAACTAT
1 GTTTTAAACTAT
5294470 TTACCTGAAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.12, G:0.08, T:0.48
Consensus pattern (13 bp):
GTTTTAAACTATC
Found at i:5297929 original size:15 final size:15
Alignment explanation
Indices: 5297911--5297942 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
5297901 ATAAGTATTT
*
5297911 TTTATATTTTTGAAA
1 TTTATATTTTTAAAA
5297926 TTTATATTTTTAAAA
1 TTTATATTTTTAAAA
5297941 TT
1 TT
5297943 AATAAAATGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (15 bp):
TTTATATTTTTAAAA
Found at i:5299300 original size:2 final size:2
Alignment explanation
Indices: 5299293--5299319 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
5299283 GAATTATGCC
5299293 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
5299320 ACTCATAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5299344 original size:23 final size:24
Alignment explanation
Indices: 5299303--5299355 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 24
5299293 ATATATATAT
*
5299303 ATATATATATATATATAACTCATA
1 ATATAAATATATATATAACTCATA
* *
5299327 A-ATAAATATTTATTTAACTCATA
1 ATATAAATATATATATAACTCATA
5299350 ATATAA
1 ATATAA
5299356 TAATATTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 20 0.80
24 5 0.20
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.42
Consensus pattern (24 bp):
ATATAAATATATATATAACTCATA
Found at i:5299357 original size:23 final size:23
Alignment explanation
Indices: 5299303--5299361 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
5299293 ATATATATAT
5299303 ATATATATATATATATAACTCATA
1 ATATA-ATATATATATAACTCATA
* *
5299327 A-ATAAATATTTATTTAACTCATA
1 ATAT-AATATATATATAACTCATA
5299350 ATATAATA-ATAT
1 ATATAATATATAT
5299362 TTTTCTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
22 3 0.10
23 23 0.77
24 4 0.13
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (23 bp):
ATATAATATATATATAACTCATA
Found at i:5302746 original size:64 final size:63
Alignment explanation
Indices: 5302602--5302756 Score: 170
Period size: 64 Copynumber: 2.4 Consensus size: 63
5302592 TATTATTTTT
5302602 ATATTTTATCTTTGTTTTAGGTATTTTAGTTGAAATAAGTTTTAGTGCTTTAATTAGGATTTAGA
1 ATATTTTA-CTTT-TTTTAGGTATTTTAGTTGAAATAAGTTTTAGTGCTTTAATTAGGATTTAGA
* * * * *
5302667 ATATTATATTATTTTTTAGGTATTTTAGTTTAGAT-AGTTTTAAGTGTTTTAATTAGGATTTA-A
1 ATATTTTACT-TTTTTTAGGTATTTTAGTTGAAATAAGTTTT-AGTGCTTTAATTAGGATTTAGA
* *
5302730 GATGTTTTAGCTTTTTTTTAGGAATTT
1 -ATATTTTA-C-TTTTTTTAGGTATTT
5302757 GAAGGCTATA
Statistics
Matches: 76, Mismatches: 9, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
63 7 0.09
64 46 0.61
65 22 0.29
66 1 0.01
ACGTcount: A:0.27, C:0.02, G:0.16, T:0.55
Consensus pattern (63 bp):
ATATTTTACTTTTTTTAGGTATTTTAGTTGAAATAAGTTTTAGTGCTTTAATTAGGATTTAGA
Found at i:5303361 original size:18 final size:19
Alignment explanation
Indices: 5303315--5303363 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
5303305 AATCTCTTTA
5303315 ATTTGTTTATTTAATTAATT
1 ATTT-TTTATTTAATTAATT
*
5303335 -TTCTTTTATTTAATT-CTT
1 ATT-TTTTATTTAATTAATT
5303353 ATTTTTTATTT
1 ATTTTTTATTT
5303364 TAAAAACAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 10 0.38
19 15 0.58
20 1 0.04
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.71
Consensus pattern (19 bp):
ATTTTTTATTTAATTAATT
Found at i:5306323 original size:5 final size:5
Alignment explanation
Indices: 5306310--5306390 Score: 58
Period size: 5 Copynumber: 16.0 Consensus size: 5
5306300 GAGGCAACCC
* * **
5306310 ATTTC ATTTT ATTTT CATTTT A-TTT ATTTC ATTCC A-TTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT -ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT
* * *
5306359 ATTTT ATCATAT ACTTA ATTTT ATTTT ATTTT
1 ATTTT AT--TTT ATTTT ATTTT ATTTT ATTTT
5306391 TCTCTGAACA
Statistics
Matches: 60, Mismatches: 11, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
4 6 0.10
5 46 0.77
6 5 0.08
7 3 0.05
ACGTcount: A:0.23, C:0.09, G:0.00, T:0.68
Consensus pattern (5 bp):
ATTTT
Found at i:5306341 original size:14 final size:14
Alignment explanation
Indices: 5306310--5306362 Score: 58
Period size: 14 Copynumber: 4.0 Consensus size: 14
5306300 GAGGCAACCC
5306310 ATTTCATTTTA--T
1 ATTTCATTTTATTT
5306322 -TTTCATTTTATTT
1 ATTTCATTTTATTT
**
5306335 ATTTCATTCCATTT
1 ATTTCATTTTATTT
*
5306349 ATTTTATTTTATTT
1 ATTTCATTTTATTT
5306363 TATCATATAC
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
11 10 0.30
13 1 0.03
14 22 0.67
ACGTcount: A:0.21, C:0.09, G:0.00, T:0.70
Consensus pattern (14 bp):
ATTTCATTTTATTT
Found at i:5308014 original size:16 final size:16
Alignment explanation
Indices: 5307993--5308041 Score: 80
Period size: 16 Copynumber: 3.1 Consensus size: 16
5307983 TAATAAATAA
5307993 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
5308009 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
*
5308025 ACGAAAATAAACGAAC
1 ACGAACATAAACGAAC
5308041 A
1 A
5308042 TAAATATTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.59, C:0.20, G:0.12, T:0.08
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:5309144 original size:10 final size:10
Alignment explanation
Indices: 5309129--5309176 Score: 51
Period size: 10 Copynumber: 4.4 Consensus size: 10
5309119 ATAAATGAAT
5309129 GAACATAAAC
1 GAACATAAAC
5309139 GAACATAACCGAAC
1 GAACAT-A---AAC
5309153 GAACATAAAC
1 GAACATAAAC
*
5309163 GAACATAACC
1 GAACATAAAC
5309173 GAAC
1 GAAC
5309177 GTTCACGAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
10 22 0.67
11 1 0.03
13 1 0.03
14 9 0.27
ACGTcount: A:0.54, C:0.25, G:0.12, T:0.08
Consensus pattern (10 bp):
GAACATAAAC
Found at i:5309153 original size:14 final size:14
Alignment explanation
Indices: 5309136--5309177 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
5309126 AATGAACATA
5309136 AACGAACATAACCG
1 AACGAACATAACCG
5309150 AACGAACAT-A---
1 AACGAACATAACCG
5309160 AACGAACATAACCG
1 AACGAACATAACCG
5309174 AACG
1 AACG
5309178 TTCACGAACG
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
10 9 0.38
11 1 0.04
13 1 0.04
14 13 0.54
ACGTcount: A:0.52, C:0.26, G:0.14, T:0.07
Consensus pattern (14 bp):
AACGAACATAACCG
Found at i:5309156 original size:24 final size:24
Alignment explanation
Indices: 5309129--5309177 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
5309119 ATAAATGAAT
5309129 GAACATAAACGAACATAACCGAAC
1 GAACATAAACGAACATAACCGAAC
5309153 GAACATAAACGAACATAACCGAAC
1 GAACATAAACGAACATAACCGAAC
5309177 G
1 G
5309178 TTCACGAACG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.53, C:0.24, G:0.14, T:0.08
Consensus pattern (24 bp):
GAACATAAACGAACATAACCGAAC
Found at i:5309780 original size:65 final size:64
Alignment explanation
Indices: 5309638--5309761 Score: 180
Period size: 65 Copynumber: 1.9 Consensus size: 64
5309628 TTATATTTTC
*
5309638 TATTTTTTTAGGTATTTTTAGTTGAAATAGGTTTTAGTGTTTTAATTAGGATTTGGAATATTATA
1 TATTTTTTTAGGTA-TTTTAGTTGAAATAGGTTTTAGTGTTTTAATTAGGATTT-GAAGATTATA
5309703 T
64 T
* *
5309704 TATTTTTTTAGGTATTTTAGTTTAGATA-GTTTTAAGTGTTTTAATTAGGATTT-AAGAT
1 TATTTTTTTAGGTATTTTAGTTGAAATAGGTTTT-AGTGTTTTAATTAGGATTTGAAGAT
5309762 GTTTTAGCTT
Statistics
Matches: 54, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
63 4 0.07
64 5 0.09
65 31 0.57
66 14 0.26
ACGTcount: A:0.27, C:0.00, G:0.18, T:0.55
Consensus pattern (64 bp):
TATTTTTTTAGGTATTTTAGTTGAAATAGGTTTTAGTGTTTTAATTAGGATTTGAAGATTATAT
Found at i:5310543 original size:18 final size:19
Alignment explanation
Indices: 5310504--5310545 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
5310494 CTTTAATTTG
*
5310504 TTTATTTAATTATTTTTCT
1 TTTATGTAATTATTTTTCT
*
5310523 TTTATGTAATTCTTTTT-T
1 TTTATGTAATTATTTTTCT
5310541 TTTAT
1 TTTAT
5310546 TTTAAAAACA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.74
Consensus pattern (19 bp):
TTTATGTAATTATTTTTCT
Found at i:5314361 original size:3 final size:3
Alignment explanation
Indices: 5314355--5314380 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
5314345 AGTAATAATA
5314355 ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG AT
5314381 AATAATAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.31, T:0.35
Consensus pattern (3 bp):
ATG
Found at i:5327646 original size:29 final size:30
Alignment explanation
Indices: 5327604--5327661 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
5327594 CTAACAATTT
*
5327604 TTGTTCATGTTCGTTTA-TTAAAAAATAAC
1 TTGTTCATGTTCGTTCATTTAAAAAATAAC
*
5327633 TTGTTCATGTTCGTTCATTTAATAAATAA
1 TTGTTCATGTTCGTTCATTTAAAAAATAA
5327662 ACGAACATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 16 0.62
30 10 0.38
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.47
Consensus pattern (30 bp):
TTGTTCATGTTCGTTCATTTAAAAAATAAC
Found at i:5327687 original size:16 final size:16
Alignment explanation
Indices: 5327662--5327710 Score: 71
Period size: 16 Copynumber: 3.1 Consensus size: 16
5327652 TAATAAATAA
5327662 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
* *
5327678 GCGAATATAAACGAAC
1 ACGAACATAAACGAAC
*
5327694 ACGAACATAAACAAAC
1 ACGAACATAAACGAAC
5327710 A
1 A
5327711 TAAACGTTGG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.57, C:0.22, G:0.12, T:0.08
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:5333418 original size:2 final size:2
Alignment explanation
Indices: 5333413--5333443 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
5333403 TTAGATATCT
5333413 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5333444 CAAATTAATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Done.