Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr12
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: 39383930
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.32
Warning! 780790 characters in sequence are not A, C, G, or T
File 59 of 126
Found at i:17169052 original size:16 final size:16
Alignment explanation
Indices: 17169033--17169075 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 16
17169023 TAAAAATAAT
*
17169033 TTAAGATATAAATTTA
1 TTAATATATAAATTTA
17169049 TTAATATATATAAATTTA
1 TT-A-ATATATAAATTTA
17169067 TTAATATAT
1 TTAATATAT
17169076 GTAAAAATAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 8 0.33
17 2 0.08
18 14 0.58
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (16 bp):
TTAATATATAAATTTA
Found at i:17169059 original size:18 final size:18
Alignment explanation
Indices: 17169038--17169080 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
17169028 ATAATTTAAG
17169038 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
17169056 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
*
17169074 ATGTAAA
1 ATATAAA
17169081 AATAGCTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
ATATAAATTTATTAATAT
Found at i:17185856 original size:162 final size:162
Alignment explanation
Indices: 17185588--17185901 Score: 583
Period size: 162 Copynumber: 1.9 Consensus size: 162
17185578 GGAGGTTGAA
17185588 TTTTGTGACTGTAAAACCATGAAAGAAGAGATGATTCGATTCTTAAGAGCCTGGAGCCTTCAAAC
1 TTTTGTGACTGTAAAACCATGAAAGAAGAGATGATTCGATTCTTAAGAGCCTGGAGCCTTCAAAC
* * * *
17185653 CCCAAACTTTACCTATGATTTCTAGTTTCCCAATTGGTGTCATCTTAGCTATAGTTCCTTGAGTT
66 CCCAAACTTTACCTATGATTTCCAGTTTCCCAATCGGTGTCATCTTAACAATAGTTCCTTGAGTT
17185718 TCATCTTGCCTCTCGTCTTATTGGGGGCTGAC
131 TCATCTTGCCTCTCGTCTTATTGGGGGCTGAC
*
17185750 TTTTGTGACTGTAAAACCATGAAAGAAGAGATGATTTGATTCTTAAGAGCCTGGAGCCTTCAAAC
1 TTTTGTGACTGTAAAACCATGAAAGAAGAGATGATTCGATTCTTAAGAGCCTGGAGCCTTCAAAC
17185815 CCCAAACTTTACCTATGATTTCCAGTTTCCCAATCGGTGTCATCTTAACAATAGTTCCTTGAGTT
66 CCCAAACTTTACCTATGATTTCCAGTTTCCCAATCGGTGTCATCTTAACAATAGTTCCTTGAGTT
17185880 TCATCTTGCCTCTCGTCTTATT
131 TCATCTTGCCTCTCGTCTTATT
17185902 AGAGGCGGGA
Statistics
Matches: 147, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
162 147 1.00
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (162 bp):
TTTTGTGACTGTAAAACCATGAAAGAAGAGATGATTCGATTCTTAAGAGCCTGGAGCCTTCAAAC
CCCAAACTTTACCTATGATTTCCAGTTTCCCAATCGGTGTCATCTTAACAATAGTTCCTTGAGTT
TCATCTTGCCTCTCGTCTTATTGGGGGCTGAC
Found at i:17191463 original size:16 final size:16
Alignment explanation
Indices: 17191442--17191511 Score: 113
Period size: 16 Copynumber: 4.4 Consensus size: 16
17191432 TTTGGTTCGC
*
17191442 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
17191458 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
17191474 TGTAATGGATTAGAGG
1 TGTAATGGATTAGAGG
*
17191490 TGTAATGGAATAGAGG
1 TGTAATGGATTAGAGG
17191506 TGTAAT
1 TGTAAT
17191512 AGCAAATCAA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 52 1.00
ACGTcount: A:0.30, C:0.00, G:0.36, T:0.34
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:17191596 original size:39 final size:40
Alignment explanation
Indices: 17191493--17191599 Score: 110
Period size: 44 Copynumber: 2.6 Consensus size: 40
17191483 TTAGAGGTGT
17191493 AATGGAATAGAGGTGTAATAGCAAATCAACTATTTGGTTG
1 AATGGAATAGAGGTGTAATAGCAAATCAACTATTTGGTTG
* * * *
17191533 AATGTAATAGAATAGAGGCGTAATAG-TAATCTTA-TGTTTGGTTG
1 AATG-----GAATAGAGGTGTAATAGCAAATC-AACTATTTGGTTG
17191577 AATGGAATAGAGGTGTAATAGCA
1 AATGGAATAGAGGTGTAATAGCA
17191600 TAATGAAAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
39 16 0.30
40 4 0.07
44 17 0.31
45 17 0.31
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.31
Consensus pattern (40 bp):
AATGGAATAGAGGTGTAATAGCAAATCAACTATTTGGTTG
Found at i:17191766 original size:18 final size:17
Alignment explanation
Indices: 17191745--17191779 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
17191735 TTATTATTAA
*
17191745 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
17191763 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
17191780 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:17192096 original size:75 final size:75
Alignment explanation
Indices: 17191973--17192348 Score: 752
Period size: 75 Copynumber: 5.0 Consensus size: 75
17191963 ATCCAATGGA
17191973 AGCAAACTAGACTAAAAGCAGATAATAGCCAAATGTTTCCATTTTTTCTTTTTCATGTTTTTAAG
1 AGCAAACTAGACTAAAAGCAGATAATAGCCAAATGTTTCCATTTTTTCTTTTTCATGTTTTTAAG
17192038 ATACAGGCAT
66 ATACAGGCAT
17192048 AGCAAACTAGACTAAAAGCAGATAATAGCCAAATGTTTCCATTTTTTCTTTTTCATGTTTTTAAG
1 AGCAAACTAGACTAAAAGCAGATAATAGCCAAATGTTTCCATTTTTTCTTTTTCATGTTTTTAAG
17192113 ATACAGGCAT
66 ATACAGGCAT
17192123 AGCAAACTAGACTAAAAGCAGATAATAGCCAAATGTTTCCATTTTTTCTTTTTCATGTTTTTAAG
1 AGCAAACTAGACTAAAAGCAGATAATAGCCAAATGTTTCCATTTTTTCTTTTTCATGTTTTTAAG
17192188 ATACAGGCAT
66 ATACAGGCAT
17192198 AGCAAACTAGACTAAAAGCAGATAATAGCCAAATGTTTCCATTTTTTCTTTTTCATGTTTTTAAG
1 AGCAAACTAGACTAAAAGCAGATAATAGCCAAATGTTTCCATTTTTTCTTTTTCATGTTTTTAAG
17192263 ATACAGGCAT
66 ATACAGGCAT
17192273 AGCAAACTAGACTAAAAGCAGATAATAGCCAAATGTTTCCATTTTTTCTTTTTCATGTTTTTAAG
1 AGCAAACTAGACTAAAAGCAGATAATAGCCAAATGTTTCCATTTTTTCTTTTTCATGTTTTTAAG
17192338 ATACAGGCAT
66 ATACAGGCAT
17192348 A
1 A
17192349 CATTGAAAGC
Statistics
Matches: 301, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
75 301 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.36
Consensus pattern (75 bp):
AGCAAACTAGACTAAAAGCAGATAATAGCCAAATGTTTCCATTTTTTCTTTTTCATGTTTTTAAG
ATACAGGCAT
Found at i:17193972 original size:15 final size:15
Alignment explanation
Indices: 17193952--17194067 Score: 53
Period size: 15 Copynumber: 7.5 Consensus size: 15
17193942 AACATGGTAC
17193952 AGAAACAGAAAATAG
1 AGAAACAGAAAATAG
*
17193967 AGAAACA-AAAA-ACC
1 AGAAACAGAAAATA-G
**
17193981 A-CTACAGAAAATAG
1 AGAAACAGAAAATAG
* *
17193995 AGGAACA-AAACATGGTAC
1 AGAAACAGAAA-A---TAG
17194013 AGAAACAGAAAATAG
1 AGAAACAGAAAATAG
*
17194028 AGAAACA-AAACATGGTAC
1 AGAAACAGAAA-A---TAG
*
17194046 AAAAACAGAAAATAG
1 AGAAACAGAAAATAG
17194061 AGAAACA
1 AGAAACA
17194068 TAAAGCAGAC
Statistics
Matches: 74, Mismatches: 13, Indels: 28
0.64 0.11 0.24
Matches are distributed among these distances:
13 4 0.05
14 16 0.22
15 30 0.41
18 18 0.24
19 6 0.08
ACGTcount: A:0.63, C:0.13, G:0.16, T:0.08
Consensus pattern (15 bp):
AGAAACAGAAAATAG
Found at i:17193974 original size:33 final size:33
Alignment explanation
Indices: 17193932--17194067 Score: 176
Period size: 33 Copynumber: 4.3 Consensus size: 33
17193922 AAAAATGGCA
*
17193932 AGAGGAACAAAACATGGTACAGAAACAGAAAAT
1 AGAGAAACAAAACATGGTACAGAAACAGAAAAT
**
17193965 AGAGAAACAAAA-A----ACCA-CTACAGAAAAT
1 AGAGAAACAAAACATGGTA-CAGAAACAGAAAAT
*
17193993 AGAGGAACAAAACATGGTACAGAAACAGAAAAT
1 AGAGAAACAAAACATGGTACAGAAACAGAAAAT
*
17194026 AGAGAAACAAAACATGGTACAAAAACAGAAAAT
1 AGAGAAACAAAACATGGTACAGAAACAGAAAAT
17194059 AGAGAAACA
1 AGAGAAACA
17194068 TAAAGCAGAC
Statistics
Matches: 88, Mismatches: 8, Indels: 14
0.80 0.07 0.13
Matches are distributed among these distances:
28 21 0.24
29 3 0.03
32 3 0.03
33 61 0.69
ACGTcount: A:0.61, C:0.13, G:0.18, T:0.08
Consensus pattern (33 bp):
AGAGAAACAAAACATGGTACAGAAACAGAAAAT
Found at i:17194461 original size:10 final size:10
Alignment explanation
Indices: 17194417--17194469 Score: 52
Period size: 10 Copynumber: 5.0 Consensus size: 10
17194407 ATCAACTATT
17194417 TTTTATTCAA
1 TTTTATTCAA
**
17194427 TTTTAAACAAA
1 TTTTATTC-AA
*
17194438 TTATTTTGTCAA
1 TT-TTAT-TCAA
17194450 TTTTATTCAA
1 TTTTATTCAA
17194460 TTTTATTCAA
1 TTTTATTCAA
17194470 AACATTTTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
10 20 0.59
11 7 0.21
12 6 0.18
13 1 0.03
ACGTcount: A:0.34, C:0.09, G:0.02, T:0.55
Consensus pattern (10 bp):
TTTTATTCAA
Found at i:17195043 original size:45 final size:45
Alignment explanation
Indices: 17194987--17195103 Score: 234
Period size: 45 Copynumber: 2.6 Consensus size: 45
17194977 CTATTTATAT
17194987 AACTTGCTGCACTTTTTGGTGAGTTTCAAAGAGTCCTACTATTTG
1 AACTTGCTGCACTTTTTGGTGAGTTTCAAAGAGTCCTACTATTTG
17195032 AACTTGCTGCACTTTTTGGTGAGTTTCAAAGAGTCCTACTATTTG
1 AACTTGCTGCACTTTTTGGTGAGTTTCAAAGAGTCCTACTATTTG
17195077 AACTTGCTGCACTTTTTGGTGAGTTTC
1 AACTTGCTGCACTTTTTGGTGAGTTTC
17195104 TTTTTACTCC
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 72 1.00
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.41
Consensus pattern (45 bp):
AACTTGCTGCACTTTTTGGTGAGTTTCAAAGAGTCCTACTATTTG
Found at i:17196361 original size:9 final size:9
Alignment explanation
Indices: 17196347--17196388 Score: 57
Period size: 9 Copynumber: 4.7 Consensus size: 9
17196337 ACAGATCAAA
17196347 AATTAACCG
1 AATTAACCG
*
17196356 AATTAACCA
1 AATTAACCG
**
17196365 AATTAATTG
1 AATTAACCG
17196374 AATTAACCG
1 AATTAACCG
17196383 AATTAA
1 AATTAA
17196389 ACAAACAATC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.50, C:0.14, G:0.07, T:0.29
Consensus pattern (9 bp):
AATTAACCG
Found at i:17196440 original size:45 final size:45
Alignment explanation
Indices: 17196389--17196476 Score: 158
Period size: 45 Copynumber: 2.0 Consensus size: 45
17196379 ACCGAATTAA
*
17196389 ACAAACAATCCTACCGTAATACCTACATTAAATGCACATAATTCT
1 ACAAACAATCCTACCATAATACCTACATTAAATGCACATAATTCT
*
17196434 ACAAACAATCCTATCATAATACCTACATTAAATGCACATAATT
1 ACAAACAATCCTACCATAATACCTACATTAAATGCACATAATT
17196477 AATTTACTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.44, C:0.25, G:0.03, T:0.27
Consensus pattern (45 bp):
ACAAACAATCCTACCATAATACCTACATTAAATGCACATAATTCT
Found at i:17205047 original size:21 final size:21
Alignment explanation
Indices: 17205010--17205050 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
17205000 AATGCCACTA
*
17205010 TCTATTTTGGCCTGGAATGCT
1 TCTATTTTGACCTGGAATGCT
17205031 TCTATTTTGA-CTCGGAATGC
1 TCTATTTTGACCT-GGAATGC
17205051 AAGGCATACT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.17, C:0.20, G:0.22, T:0.41
Consensus pattern (21 bp):
TCTATTTTGACCTGGAATGCT
Found at i:17205406 original size:30 final size:29
Alignment explanation
Indices: 17205360--17205438 Score: 88
Period size: 30 Copynumber: 2.7 Consensus size: 29
17205350 AATTATTTAT
* * *
17205360 ATTTAGAATTTTAATTAAAACATATAAAA
1 ATTTAAAATTTAAATTAAAACAGATAAAA
*
17205389 TTATTAAAATTTAAATTAAAAACAGATAAAA
1 AT-TTAAAATTTAAATT-AAAACAGATAAAA
*
17205420 ATTTAAAA-ATAAATTAAAA
1 ATTTAAAATTTAAATTAAAA
17205439 TTTAAACTTA
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
28 4 0.10
29 7 0.17
30 18 0.43
31 13 0.31
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.34
Consensus pattern (29 bp):
ATTTAAAATTTAAATTAAAACAGATAAAA
Found at i:17205427 original size:18 final size:18
Alignment explanation
Indices: 17205404--17205444 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
17205394 AAAATTTAAA
*
17205404 TTAAAAACAGATAAAAAT
1 TTAAAAACAAATAAAAAT
* *
17205422 TTAAAAATAAATTAAAAT
1 TTAAAAACAAATAAAAAT
17205440 TTAAA
1 TTAAA
17205445 CTTAAAAAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.29
Consensus pattern (18 bp):
TTAAAAACAAATAAAAAT
Found at i:17207094 original size:178 final size:178
Alignment explanation
Indices: 17206795--17207202 Score: 762
Period size: 178 Copynumber: 2.3 Consensus size: 178
17206785 AGCATGGTAG
* * * *
17206795 TTGGTACTGTTCTGATAGTAAACCAAAACAACAAATTTTAGGTTCCATTCAAGTGCAAATTCTAG
1 TTGGTACCGTTTTGATAGTAAACCGAAACAACAAATTTTAGGTTCCATTCAAGTGCAAATTCCAG
*
17206860 TTGGTACCTGTCGTGCCAATACATATCAGTTAATTTCACCTGTACTAGCCAAAATATGGTGTACC
66 TTGGTACCTGTCGTGCCAATACATATCAGTTAATTTCACCTGTACTAGCCAAAATATGCTGTACC
17206925 GGTACCGAAAAATAATTTTAAAATTAAAATTAAATTTTTATTATTTAT
131 GGTACCGAAAAATAATTTTAAAATTAAAATTAAATTTTTATTATTTAT
*
17206973 TTGGTACCGTTTTGATAGTAAACCGAAACAACAAATTTTAGGTTCCATTCAAGTGCAAATTCCGG
1 TTGGTACCGTTTTGATAGTAAACCGAAACAACAAATTTTAGGTTCCATTCAAGTGCAAATTCCAG
17207038 TTGGTACCTGTCGTGCCAATACATATCAGTTAATTTCACCTGTACTAGCCAAAATATGCTGTACC
66 TTGGTACCTGTCGTGCCAATACATATCAGTTAATTTCACCTGTACTAGCCAAAATATGCTGTACC
17207103 GGTACCGAAAAATAATTTTAAAATTAAAATTAAATTTTTATTATTTAT
131 GGTACCGAAAAATAATTTTAAAATTAAAATTAAATTTTTATTATTTAT
17207151 TTGGTACCGTTTTGATAGTAAACCGAAACAACAAATTTTAGGTTCCATTCAA
1 TTGGTACCGTTTTGATAGTAAACCGAAACAACAAATTTTAGGTTCCATTCAA
17207203 TTGGATTTGT
Statistics
Matches: 224, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
178 224 1.00
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (178 bp):
TTGGTACCGTTTTGATAGTAAACCGAAACAACAAATTTTAGGTTCCATTCAAGTGCAAATTCCAG
TTGGTACCTGTCGTGCCAATACATATCAGTTAATTTCACCTGTACTAGCCAAAATATGCTGTACC
GGTACCGAAAAATAATTTTAAAATTAAAATTAAATTTTTATTATTTAT
Found at i:17219253 original size:13 final size:13
Alignment explanation
Indices: 17219220--17219254 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
17219210 TATTTAAATG
* *
17219220 TTATTATCATTTA
1 TTATTATTATTAA
17219233 TTATTATTATTAA
1 TTATTATTATTAA
17219246 TTATTATTA
1 TTATTATTA
17219255 GTTTTATTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (13 bp):
TTATTATTATTAA
Found at i:17219436 original size:35 final size:33
Alignment explanation
Indices: 17219363--17219443 Score: 83
Period size: 35 Copynumber: 2.4 Consensus size: 33
17219353 TATACCCATG
* * * *
17219363 TATAT-TTTTATATATGCGTACACATATATGTT
1 TATATATTTTATTTATGCATACACATACATGTC
*
17219395 TCTATATTTTATTTATGCATACCTACATACATGTC
1 TATATATTTTATTTATGCATA-C-ACATACATGTC
*
17219430 TATATATTTCATTT
1 TATATATTTTATTT
17219444 TCATAATGTG
Statistics
Matches: 39, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
32 4 0.10
33 13 0.33
34 1 0.03
35 21 0.54
ACGTcount: A:0.30, C:0.14, G:0.06, T:0.51
Consensus pattern (33 bp):
TATATATTTTATTTATGCATACACATACATGTC
Found at i:17230292 original size:55 final size:55
Alignment explanation
Indices: 17230208--17230318 Score: 195
Period size: 55 Copynumber: 2.0 Consensus size: 55
17230198 CAAAGATTGG
* *
17230208 CATGAGAAATTAGCTTTTGCTCTCCTTGCATATCGAACATCTATTAGGACTTCTA
1 CATGAGAAATTACCTTTTACTCTCCTTGCATATCGAACATCTATTAGGACTTCTA
*
17230263 CATGAGAAATTACCTTTTACTCTTCTTGCATATCGAACATCTATTAGGACTTCTA
1 CATGAGAAATTACCTTTTACTCTCCTTGCATATCGAACATCTATTAGGACTTCTA
17230318 C
1 C
17230319 TGGGGCAACA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.37
Consensus pattern (55 bp):
CATGAGAAATTACCTTTTACTCTCCTTGCATATCGAACATCTATTAGGACTTCTA
Found at i:17232051 original size:45 final size:45
Alignment explanation
Indices: 17231987--17232264 Score: 366
Period size: 45 Copynumber: 6.2 Consensus size: 45
17231977 CTCAAAGAAC
* * *
17231987 AGATCGAAGATAGCAGATCTTGTCTGCCTGAATTGGCAGCGAAGT
1 AGATCGAAGATAGAAGATCTTGTCTTCCTGTATTGGCAGCGAAGT
17232032 AGATCGAAGATAGAAGATCTTGTCTTCCTGTATTGGCAGCGAAGT
1 AGATCGAAGATAGAAGATCTTGTCTTCCTGTATTGGCAGCGAAGT
* * *
17232077 AGATCAAAGATAGCAGATCTTGTCTTCCTGTATTGGCAACGAAGT
1 AGATCGAAGATAGAAGATCTTGTCTTCCTGTATTGGCAGCGAAGT
* *
17232122 AGATCAAAGATAGAA-AGTCTTGTCTTCCTGTATTGGCAGCGGAGT
1 AGATCGAAGATAGAAGA-TCTTGTCTTCCTGTATTGGCAGCGAAGT
* *
17232167 AGATCGAAGATAGCAAG-TCTTGTCTTCCTATATTGGTAGCGAAGT
1 AGATCGAAGATAG-AAGATCTTGTCTTCCTGTATTGGCAGCGAAGT
* * * *
17232212 AGA-CTGAAGATA-ACAGATCTTGTCTTTCTGTACTGGCAACGAAGC
1 AGATC-GAAGATAGA-AGATCTTGTCTTCCTGTATTGGCAGCGAAGT
17232257 AGATCGAA
1 AGATCGAA
17232265 AAACAAGTCT
Statistics
Matches: 207, Mismatches: 19, Indels: 14
0.86 0.08 0.06
Matches are distributed among these distances:
43 1 0.00
44 4 0.02
45 199 0.96
46 3 0.01
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (45 bp):
AGATCGAAGATAGAAGATCTTGTCTTCCTGTATTGGCAGCGAAGT
Found at i:17234646 original size:6 final size:6
Alignment explanation
Indices: 17234636--17234665 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
17234626 GGTTTTCTTG
*
17234636 AAATGG AAATGA AAATGA AAATGA AAATGA
1 AAATGA AAATGA AAATGA AAATGA AAATGA
17234666 GAAACAATTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.63, C:0.00, G:0.20, T:0.17
Consensus pattern (6 bp):
AAATGA
Found at i:17238492 original size:7 final size:7
Alignment explanation
Indices: 17238480--17238513 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
17238470 TTTATTTATA
17238480 TTTATTT
1 TTTATTT
17238487 TTTATTT
1 TTTATTT
17238494 TTTATTT
1 TTTATTT
17238501 TTTATTT
1 TTTATTT
*
17238508 ATTATT
1 TTTATT
17238514 ATTATATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTATTT
Found at i:17249637 original size:16 final size:16
Alignment explanation
Indices: 17249607--17249644 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 16
17249597 CAAAAATCTA
17249607 TAAGACAAAATAAACAG
1 TAAG-CAAAATAAACAG
17249624 -AAGCAAACATAAACAG
1 TAAGCAAA-ATAAACAG
17249640 TAAGC
1 TAAGC
17249645 CATTAATAGC
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 4 0.21
16 11 0.58
17 4 0.21
ACGTcount: A:0.61, C:0.16, G:0.13, T:0.11
Consensus pattern (16 bp):
TAAGCAAAATAAACAG
Found at i:17249840 original size:31 final size:31
Alignment explanation
Indices: 17249805--17249880 Score: 125
Period size: 31 Copynumber: 2.5 Consensus size: 31
17249795 CTCGTCGAAT
17249805 GCATATAACCGAATATTGATATACATCAAGA
1 GCATATAACCGAATATTGATATACATCAAGA
* *
17249836 GCATATAACCGAGTATTTATATACATCAAGA
1 GCATATAACCGAATATTGATATACATCAAGA
*
17249867 GCATATACCCGAAT
1 GCATATAACCGAAT
17249881 GTATGTATAT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.42, C:0.18, G:0.13, T:0.26
Consensus pattern (31 bp):
GCATATAACCGAATATTGATATACATCAAGA
Found at i:17250866 original size:62 final size:62
Alignment explanation
Indices: 17250791--17250923 Score: 257
Period size: 62 Copynumber: 2.1 Consensus size: 62
17250781 TCGGACCTTT
*
17250791 TATATATATATTTATAACTTCCATACTTCAACTAAATTCAAGAACCTATATATGTGTATACA
1 TATATATATATTTATAACTTCCATACTTCAACTAAAATCAAGAACCTATATATGTGTATACA
17250853 TATATATATATTTATAACTTCCATACTTCAACTAAAATCAAGAACCTATATATGTGTATACA
1 TATATATATATTTATAACTTCCATACTTCAACTAAAATCAAGAACCTATATATGTGTATACA
17250915 TATATATAT
1 TATATATAT
17250924 TCGGACAATA
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
62 70 1.00
ACGTcount: A:0.41, C:0.15, G:0.05, T:0.39
Consensus pattern (62 bp):
TATATATATATTTATAACTTCCATACTTCAACTAAAATCAAGAACCTATATATGTGTATACA
Found at i:17269654 original size:44 final size:44
Alignment explanation
Indices: 17269586--17269715 Score: 170
Period size: 44 Copynumber: 3.0 Consensus size: 44
17269576 CAAACCGGTG
* * *
17269586 AAGACTATAAGCCCTATCTCCCTGACCAGCAGTGGAATAGGTAA
1 AAGATTATAAGTCCTATCTCCCTGAACAGCAGTGGAATAGGTAA
* *
17269630 AAGATTATAAGTCTTATCTCCCTGAACAGCAGTGGAATAGGTGA
1 AAGATTATAAGTCCTATCTCCCTGAACAGCAGTGGAATAGGTAA
* * * * *
17269674 AATATTGTACGTCCTATTTCCCTGAACAGAAGTGGAATAGGT
1 AAGATTATAAGTCCTATCTCCCTGAACAGCAGTGGAATAGGT
17269716 TGAAGATTGT
Statistics
Matches: 75, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
44 75 1.00
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (44 bp):
AAGATTATAAGTCCTATCTCCCTGAACAGCAGTGGAATAGGTAA
Found at i:17269740 original size:44 final size:43
Alignment explanation
Indices: 17269601--17269740 Score: 133
Period size: 44 Copynumber: 3.2 Consensus size: 43
17269591 TATAAGCCCT
* ** * *
17269601 ATCTCCCTGACCAGCAGTGGAATAGGTAAAAGATTATA-AGTCTT
1 ATCTCCCTGAACAGCAGTGGAATAGGTTGAAGATTGTAGA-TC-C
*
17269645 ATCTCCCTGAACAGCAGTGGAATAGG-TGAAATATTGTACG-TCC
1 ATCTCCCTGAACAGCAGTGGAATAGGTTG-AAGATTGTA-GATCC
* *
17269688 TATTTCCCTGAACAGAAGTGGAATAGGTTGAAGATTGTAGATCC
1 -ATCTCCCTGAACAGCAGTGGAATAGGTTGAAGATTGTAGATCC
17269732 AGTCTCCCT
1 A-TCTCCCT
17269741 AAGCAATAGT
Statistics
Matches: 79, Mismatches: 10, Indels: 14
0.77 0.10 0.14
Matches are distributed among these distances:
43 2 0.03
44 75 0.95
45 2 0.03
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (43 bp):
ATCTCCCTGAACAGCAGTGGAATAGGTTGAAGATTGTAGATCC
Found at i:17270379 original size:19 final size:19
Alignment explanation
Indices: 17270334--17270380 Score: 53
Period size: 17 Copynumber: 2.6 Consensus size: 19
17270324 AAAACCAGGC
* *
17270334 CTCCTCCTCGCGCATGTTG
1 CTCCTCCGCGCGCATGTAG
*
17270353 --CGTCCGCGCGCATGTAG
1 CTCCTCCGCGCGCATGTAG
17270370 CTCCTCCGCGC
1 CTCCTCCGCGC
17270381 CAAATCCACG
Statistics
Matches: 22, Mismatches: 4, Indels: 4
0.73 0.13 0.13
Matches are distributed among these distances:
17 14 0.64
19 8 0.36
ACGTcount: A:0.06, C:0.45, G:0.26, T:0.23
Consensus pattern (19 bp):
CTCCTCCGCGCGCATGTAG
Found at i:17273826 original size:41 final size:41
Alignment explanation
Indices: 17273764--17273876 Score: 160
Period size: 41 Copynumber: 2.8 Consensus size: 41
17273754 GTGTGCCAAT
17273764 TTACTTC-AATTTAATT-GATGAGACACTGGGTGTCAATTTA
1 TTACTTCGAATTT-ATTCGATGAGACACTGGGTGTCAATTTA
* *
17273804 TTACTTCGAATTTATTCAATGAGATACTGGGTGTCAATTTA
1 TTACTTCGAATTTATTCGATGAGACACTGGGTGTCAATTTA
* *
17273845 CTACTTCGAA-TTATCCGATGAGACACTGGGTG
1 TTACTTCGAATTTATTCGATGAGACACTGGGTG
17273877 CCAAATTGGT
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
40 29 0.45
41 36 0.55
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.37
Consensus pattern (41 bp):
TTACTTCGAATTTATTCGATGAGACACTGGGTGTCAATTTA
Found at i:17277919 original size:41 final size:41
Alignment explanation
Indices: 17277853--17277959 Score: 137
Period size: 41 Copynumber: 2.7 Consensus size: 41
17277843 AATTTCTAAT
* *
17277853 TTACTTCGG-TTTAACCAATGAGACACAGGGTGTCAATTTA
1 TTACTTCGGATTTATCCGATGAGACACAGGGTGTCAATTTA
* * *
17277893 TTACTTCGGATTTATTCGATGAGACACTGGGTGTTAATTTA
1 TTACTTCGGATTTATCCGATGAGACACAGGGTGTCAATTTA
* *
17277934 CTACTTC-GAATTATCCGATGAGACAC
1 TTACTTCGGATTTATCCGATGAGACAC
17277960 TATGTGCCAA
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
40 26 0.45
41 32 0.55
ACGTcount: A:0.28, C:0.18, G:0.20, T:0.35
Consensus pattern (41 bp):
TTACTTCGGATTTATCCGATGAGACACAGGGTGTCAATTTA
Found at i:17280719 original size:262 final size:262
Alignment explanation
Indices: 17280254--17280777 Score: 1048
Period size: 262 Copynumber: 2.0 Consensus size: 262
17280244 TTTTATATTT
17280254 TCATACAAATTCTACTTTAAACTAAATTTAACTCCCTATTTTCACTTACATTCCTAAATTTTAAA
1 TCATACAAATTCTACTTTAAACTAAATTTAACTCCCTATTTTCACTTACATTCCTAAATTTTAAA
17280319 ATTTTCACTATTGAGTCCCTATTACTCAAAATTTACAATTTATTTTATAATTCAATCCTTTTTCA
66 ATTTTCACTATTGAGTCCCTATTACTCAAAATTTACAATTTATTTTATAATTCAATCCTTTTTCA
17280384 TTTCTAACTTAAAAATCTATCGATTTAATCCCTAATACTAAAATTATTCAACATAGATAACACTT
131 TTTCTAACTTAAAAATCTATCGATTTAATCCCTAATACTAAAATTATTCAACATAGATAACACTT
17280449 AAAAACTAAATAATTTCTAAAACTTCGGCATAGGTCGGGAAGTATTTAACACCAGGATTTCAAAA
196 AAAAACTAAATAATTTCTAAAACTTCGGCATAGGTCGGGAAGTATTTAACACCAGGATTTCAAAA
17280514 AC
261 AC
17280516 TCATACAAATTCTACTTTAAACTAAATTTAACTCCCTATTTTCACTTACATTCCTAAATTTTAAA
1 TCATACAAATTCTACTTTAAACTAAATTTAACTCCCTATTTTCACTTACATTCCTAAATTTTAAA
17280581 ATTTTCACTATTGAGTCCCTATTACTCAAAATTTACAATTTATTTTATAATTCAATCCTTTTTCA
66 ATTTTCACTATTGAGTCCCTATTACTCAAAATTTACAATTTATTTTATAATTCAATCCTTTTTCA
17280646 TTTCTAACTTAAAAATCTATCGATTTAATCCCTAATACTAAAATTATTCAACATAGATAACACTT
131 TTTCTAACTTAAAAATCTATCGATTTAATCCCTAATACTAAAATTATTCAACATAGATAACACTT
17280711 AAAAACTAAATAATTTCTAAAACTTCGGCATAGGTCGGGAAGTATTTAACACCAGGATTTCAAAA
196 AAAAACTAAATAATTTCTAAAACTTCGGCATAGGTCGGGAAGTATTTAACACCAGGATTTCAAAA
17280776 AC
261 AC
17280778 ATAAAAATTA
Statistics
Matches: 262, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
262 262 1.00
ACGTcount: A:0.38, C:0.19, G:0.05, T:0.38
Consensus pattern (262 bp):
TCATACAAATTCTACTTTAAACTAAATTTAACTCCCTATTTTCACTTACATTCCTAAATTTTAAA
ATTTTCACTATTGAGTCCCTATTACTCAAAATTTACAATTTATTTTATAATTCAATCCTTTTTCA
TTTCTAACTTAAAAATCTATCGATTTAATCCCTAATACTAAAATTATTCAACATAGATAACACTT
AAAAACTAAATAATTTCTAAAACTTCGGCATAGGTCGGGAAGTATTTAACACCAGGATTTCAAAA
AC
Found at i:17280867 original size:4 final size:4
Alignment explanation
Indices: 17280858--17280936 Score: 51
Period size: 4 Copynumber: 20.0 Consensus size: 4
17280848 TGTCTTTCTC
*
17280858 CTTT CTTT CTTT CCCTT -TTT C-TT -TTT CTTT CTTT CTTT C-TT CTTT
1 CTTT CTTT CTTT -CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT CTTT
* * *
17280903 CAGTTT CATTT -TAT CATT CTTT CTTT ATTT CTTT
1 C--TTT C-TTT CTTT CTTT CTTT CTTT CTTT CTTT
17280937 TTATTACTTA
Statistics
Matches: 58, Mismatches: 9, Indels: 16
0.70 0.11 0.19
Matches are distributed among these distances:
3 11 0.19
4 37 0.64
5 6 0.10
6 4 0.07
ACGTcount: A:0.06, C:0.23, G:0.01, T:0.70
Consensus pattern (4 bp):
CTTT
Found at i:17282642 original size:42 final size:42
Alignment explanation
Indices: 17282578--17282722 Score: 191
Period size: 42 Copynumber: 3.4 Consensus size: 42
17282568 GTTTACAACC
* * *
17282578 AAAAACGCCGTTAAAGATCATGTTCTTTAGCGGCGCTTATAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
* * *
17282620 AAAAACTCCGCTAGAGAACATGTTCTTCAGCGGCGCTTAGAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
* *
17282662 AAAAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTAGAT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
* *
17282704 AAAAATGCCACTAAGAGAA
1 AAAAACGCCGCTAA-AGAA
17282723 AAACGCCACT
Statistics
Matches: 88, Mismatches: 14, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
42 85 0.97
43 3 0.03
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTAGAA
Found at i:17282730 original size:17 final size:18
Alignment explanation
Indices: 17282704--17282737 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
17282694 GCGCTTAGAT
*
17282704 AAAAATGCCACT-AAGAG
1 AAAAACGCCACTGAAGAG
17282721 AAAAACGCCACTGAAGA
1 AAAAACGCCACTGAAGA
17282738 ACATGGTCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.53, C:0.21, G:0.18, T:0.09
Consensus pattern (18 bp):
AAAAACGCCACTGAAGAG
Found at i:17282802 original size:42 final size:42
Alignment explanation
Indices: 17282734--17283308 Score: 612
Period size: 42 Copynumber: 13.6 Consensus size: 42
17282724 AACGCCACTG
* * * * *
17282734 AAGAACATGGTCTTTAGTGGCATTTTTATCTAAGCGCCGCTA
1 AAGAACATGTTCTTTAGCGGCGTTTTTTTATAAGCGCCGCTA
* * *
17282776 AAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTG
1 AAGAACATGTTCTTTAGCGGCGTTTTTTTATAAGCGCCGCTA
* * *
17282818 AAGAACATGTTCTCTAGCGGAGTTTTTTTATAAGCGCCGCTG
1 AAGAACATGTTCTTTAGCGGCGTTTTTTTATAAGCGCCGCTA
*
17282860 AAGAACATGTTCTTTAGCGGAGTTTTTTTATAAGCGCCGCTA
1 AAGAACATGTTCTTTAGCGGCGTTTTTTTATAAGCGCCGCTA
* *
17282902 AAGAACATGATCTTTAGTGGCG-TTTTTTATTAAGCGCCGCTA
1 AAGAACATGTTCTTTAGCGGCGTTTTTTTA-TAAGCGCCGCTA
* * * * *
17282944 AAGAACATGTTCTTTAACGGCGTTTTGTATAAAAACACCGCTA
1 AAGAACATGTTCTTTAGCGGCGTTTT-TTTATAAGCGCCGCTA
* * ** * * *
17282987 GAGATCATAATCTTTAGCGGCTCTTTTTTTACAAACGCCGCTA
1 AAGAACATGTTCTTTAGCGGC-GTTTTTTTATAAGCGCCGCTA
* **** * * * *
17283030 AAGAACATGTTCTTTAGCGGCGCTTAGAGAAAAACGCCACTG
1 AAGAACATGTTCTTTAGCGGCGTTTTTTTATAAGCGCCGCTA
* * * * *
17283072 AAGAACATGGTCTTTAGTGGCATTTTTATCTAAGCGCCGCTA
1 AAGAACATGTTCTTTAGCGGCGTTTTTTTATAAGCGCCGCTA
* * *
17283114 AAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTG
1 AAGAACATGTTCTTTAGCGGCGTTTTTTTATAAGCGCCGCTA
* * *
17283156 AAGAACATGTTCTCTAGCGGAGTTTTTTTATAAGCGCCGCTG
1 AAGAACATGTTCTTTAGCGGCGTTTTTTTATAAGCGCCGCTA
*
17283198 AAGAACATGTTCTTTAGCGGAGTTTTTTTATAAGCGCCGCTA
1 AAGAACATGTTCTTTAGCGGCGTTTTTTTATAAGCGCCGCTA
* * * * ** * *
17283240 AAGAACATGATCTTTAGTGGCGCTTATAAAAAAACGCCGCTA
1 AAGAACATGTTCTTTAGCGGCGTTTTTTTATAAGCGCCGCTA
*
17283282 AAGAACATGTTCTTTAGCGGCGCTTTT
1 AAGAACATGTTCTTTAGCGGCGTTTTT
17283309 GTACAAAAAC
Statistics
Matches: 453, Mismatches: 76, Indels: 8
0.84 0.14 0.01
Matches are distributed among these distances:
41 7 0.02
42 381 0.84
43 58 0.13
44 7 0.02
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.32
Consensus pattern (42 bp):
AAGAACATGTTCTTTAGCGGCGTTTTTTTATAAGCGCCGCTA
Found at i:17285523 original size:44 final size:44
Alignment explanation
Indices: 17285461--17285547 Score: 138
Period size: 44 Copynumber: 2.0 Consensus size: 44
17285451 AAGAATGAAG
* * *
17285461 GAGGCGATTTAGGGATTTGGGATTTCAAGAAATTCGGCAAGAAT
1 GAGGCGATTTACGAATTTGGGAATTCAAGAAATTCGGCAAGAAT
*
17285505 GAGGCGATTTACGAATTTGGGAATTCAAGAAATTGGGCAAGAA
1 GAGGCGATTTACGAATTTGGGAATTCAAGAAATTCGGCAAGAA
17285548 GGACGCAAGA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.25
Consensus pattern (44 bp):
GAGGCGATTTACGAATTTGGGAATTCAAGAAATTCGGCAAGAAT
Found at i:17286375 original size:22 final size:23
Alignment explanation
Indices: 17286349--17286393 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
17286339 TATATTATTC
*
17286349 AATTA-ATGTACTATAATTTTAA
1 AATTATATATACTATAATTTTAA
* *
17286371 AATTATATATACTCTATTTTTAA
1 AATTATATATACTATAATTTTAA
17286394 GTGCATATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.42, C:0.07, G:0.02, T:0.49
Consensus pattern (23 bp):
AATTATATATACTATAATTTTAA
Found at i:17286733 original size:7 final size:7
Alignment explanation
Indices: 17286721--17286777 Score: 51
Period size: 7 Copynumber: 8.0 Consensus size: 7
17286711 ACTAAAGTAG
17286721 CCTAAAC
1 CCTAAAC
17286728 CCTAAAC
1 CCTAAAC
* *
17286735 CCCAAAT
1 CCTAAAC
*
17286742 CTTAAAC
1 CCTAAAC
*
17286749 CCCAAAC
1 CCTAAAC
*
17286756 TTCTAAAC
1 -CCTAAAC
17286764 CCTAAAC
1 CCTAAAC
*
17286771 CCAAAAC
1 CCTAAAC
17286778 ACCATAACCC
Statistics
Matches: 38, Mismatches: 11, Indels: 2
0.75 0.22 0.04
Matches are distributed among these distances:
7 33 0.87
8 5 0.13
ACGTcount: A:0.44, C:0.40, G:0.00, T:0.16
Consensus pattern (7 bp):
CCTAAAC
Found at i:17287724 original size:55 final size:55
Alignment explanation
Indices: 17287637--17287744 Score: 135
Period size: 55 Copynumber: 2.0 Consensus size: 55
17287627 CAAATTGTAT
* * * *
17287637 TATACATCGAGACCAAATCGCTGTGTTTTGGTTAACATTTTTTGCGACGCTTTAA
1 TATACATCAAGACCAAAACGCTGCGTTTTGGTTAACATATTTTGCGACGCTTTAA
* * * * *
17287692 TATACATCAAGATCAAAACTCTGCGTTTTGGTTATCATATTTTGTGGCGCTTT
1 TATACATCAAGACCAAAACGCTGCGTTTTGGTTAACATATTTTGCGACGCTTT
17287745 TCGTAAGCGC
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
55 44 1.00
ACGTcount: A:0.25, C:0.18, G:0.18, T:0.40
Consensus pattern (55 bp):
TATACATCAAGACCAAAACGCTGCGTTTTGGTTAACATATTTTGCGACGCTTTAA
Found at i:17288973 original size:40 final size:39
Alignment explanation
Indices: 17288915--17289052 Score: 111
Period size: 40 Copynumber: 3.5 Consensus size: 39
17288905 ACACACCAAT
* *
17288915 TTGACACCAAGTGCCTCATTAGATAATTTGAAGTAGTAAA
1 TTGACACCTAGTGCCTCATTAGATAATCTGAAGTA-TAAA
* ** * *
17288955 TTGACACCTAGTGTCTCATCGGATAAACCGAAGTA-AAA
1 TTGACACCTAGTGCCTCATTAGATAATCTGAAGTATAAA
* *
17288993 TTGGCA-CTCAGTGCCTCA-TCGAATAAATCTGAAGTAATAAA
1 TTGACACCT-AGTGCCTCATTAG-AT-AATCTGAAGT-ATAAA
* *
17289034 TTGACACCCAGTGTCTCAT
1 TTGACACCTAGTGCCTCAT
17289053 CGACTCAAAG
Statistics
Matches: 75, Mismatches: 16, Indels: 12
0.73 0.16 0.12
Matches are distributed among these distances:
37 3 0.04
38 18 0.24
39 8 0.11
40 29 0.39
41 16 0.21
42 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.28
Consensus pattern (39 bp):
TTGACACCTAGTGCCTCATTAGATAATCTGAAGTATAAA
Found at i:17289011 original size:38 final size:41
Alignment explanation
Indices: 17288944--17289055 Score: 140
Period size: 38 Copynumber: 2.8 Consensus size: 41
17288934 TAGATAATTT
* * *
17288944 GAAGTAGTAAATTGACACCTAGTGTCTCATCGGATAAA-CC
1 GAAGTAATAAATTGACACCCAGTGTCTCATCGAATAAATCC
* * * *
17288984 GAAGT-A-AAATTGGCACTCAGTGCCTCATCGAATAAATCT
1 GAAGTAATAAATTGACACCCAGTGTCTCATCGAATAAATCC
17289023 GAAGTAATAAATTGACACCCAGTGTCTCATCGA
1 GAAGTAATAAATTGACACCCAGTGTCTCATCGA
17289056 CTCAAAGTCG
Statistics
Matches: 59, Mismatches: 10, Indels: 5
0.80 0.14 0.07
Matches are distributed among these distances:
38 25 0.42
39 6 0.10
40 6 0.10
41 22 0.37
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.25
Consensus pattern (41 bp):
GAAGTAATAAATTGACACCCAGTGTCTCATCGAATAAATCC
Found at i:17289894 original size:4 final size:4
Alignment explanation
Indices: 17289885--17289963 Score: 60
Period size: 4 Copynumber: 19.8 Consensus size: 4
17289875 GTCTTTCTCG
*
17289885 TTTC TTTC TTTCC CTT- TTTC -TT- TTTC TTTC TTTC TTTC -TTC TTTC
1 TTTC TTTC TTT-C TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC
*
17289930 TGTTTC GTTT- TTATC TTTC TTTC TTTA TTTC TTT
1 --TTTC -TTTC TT-TC TTTC TTTC TTTC TTTC TTT
17289964 TTATTACTTA
Statistics
Matches: 62, Mismatches: 4, Indels: 18
0.74 0.05 0.21
Matches are distributed among these distances:
3 11 0.18
4 38 0.61
5 9 0.15
6 4 0.06
ACGTcount: A:0.03, C:0.22, G:0.03, T:0.73
Consensus pattern (4 bp):
TTTC
Found at i:17289921 original size:30 final size:29
Alignment explanation
Indices: 17289885--17289955 Score: 79
Period size: 30 Copynumber: 2.4 Consensus size: 29
17289875 GTCTTTCTCG
* * *
17289885 TTTCTTTCTTTCCCTTTTTCTTTTTCTTTC
1 TTTCTTTCTTTCCCTGTTTCGTTTT-TATC
**
17289915 TTTCTTTCTTCTTTCTGTTTCGTTTTTATC
1 TTTCTTTCTT-TCCCTGTTTCGTTTTTATC
17289945 TTTCTTTCTTT
1 TTTCTTTCTTT
17289956 ATTTCTTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
29 1 0.03
30 23 0.66
31 11 0.31
ACGTcount: A:0.01, C:0.23, G:0.03, T:0.73
Consensus pattern (29 bp):
TTTCTTTCTTTCCCTGTTTCGTTTTTATC
Found at i:17292169 original size:21 final size:22
Alignment explanation
Indices: 17292145--17292185 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
17292135 CCACAAGGCT
*
17292145 ATGTGACC-CTCTCACACGATC
1 ATGTGACCTATCTCACACGATC
*
17292166 ATGTGGCCTATCTCACACGA
1 ATGTGACCTATCTCACACGA
17292186 GCACGACTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 7 0.41
22 10 0.59
ACGTcount: A:0.24, C:0.34, G:0.17, T:0.24
Consensus pattern (22 bp):
ATGTGACCTATCTCACACGATC
Found at i:17295251 original size:47 final size:47
Alignment explanation
Indices: 17295097--17295249 Score: 243
Period size: 47 Copynumber: 3.3 Consensus size: 47
17295087 GTCATAGTAA
*
17295097 TGCAAATAAACTACCAATAATCAAAATTGTGGACAAACCACCAAAAT
1 TGCAAATAAACTACCAATAATCAAAATTGTGGACAAGCCACCAAAAT
*
17295144 TGCAAATAAACTACCAATAATCAAAATTGTGGATAAGCCACCAAAAT
1 TGCAAATAAACTACCAATAATCAAAATTGTGGACAAGCCACCAAAAT
* * * *
17295191 TACAGATAAACTGCCAATAATCAAAATCGTGGACAAGCCACCAAAAT
1 TGCAAATAAACTACCAATAATCAAAATTGTGGACAAGCCACCAAAAT
*
17295238 TGTAAATAAACT
1 TGCAAATAAACT
17295250 GCTAAAAACT
Statistics
Matches: 96, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 96 1.00
ACGTcount: A:0.49, C:0.20, G:0.10, T:0.20
Consensus pattern (47 bp):
TGCAAATAAACTACCAATAATCAAAATTGTGGACAAGCCACCAAAAT
Found at i:17296826 original size:13 final size:13
Alignment explanation
Indices: 17296808--17296832 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17296798 CAAAAAATTA
17296808 AAAAAATATTTTC
1 AAAAAATATTTTC
17296821 AAAAAATATTTT
1 AAAAAATATTTT
17296833 TAAAGATTCT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAAAATATTTTC
Found at i:17300433 original size:76 final size:77
Alignment explanation
Indices: 17300303--17300519 Score: 310
Period size: 76 Copynumber: 2.8 Consensus size: 77
17300293 TGATTCCCCC
* * **
17300303 AAGGGGTTGCTAAGTACTGATTCCCCGACTCTTTGGTGGTTGCTAAGTGCTGATTCCACCATATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGATTCCACCATATC
*
17300368 CTTGAATGT-GA
66 CTTGAATGTAAA
*
17300379 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGTTGATTCCACCATATC
1 AAGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGATTCCACCATATC
17300444 CTTGAATGTAAAAA
66 CTTGAATGT--AAA
* * *
17300458 AAGGGGGGTTACTAAGTGTTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGAATCCACC
1 AA--GGGGTTGCTAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGATTCCACC
17300520 GATAACGGTT
Statistics
Matches: 126, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
76 69 0.55
79 3 0.02
81 54 0.43
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.30
Consensus pattern (77 bp):
AAGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGATTCCACCATATC
CTTGAATGTAAA
Found at i:17302998 original size:22 final size:24
Alignment explanation
Indices: 17302956--17302999 Score: 74
Period size: 22 Copynumber: 1.9 Consensus size: 24
17302946 TAACTAAGCT
17302956 TACTTACTTTTCTAACTTAATTCA
1 TACTTACTTTTCTAACTTAATTCA
17302980 TACTT-CTTTTCT-ACTTAATT
1 TACTTACTTTTCTAACTTAATT
17303000 TCTTGTCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 8 0.40
23 7 0.35
24 5 0.25
ACGTcount: A:0.25, C:0.20, G:0.00, T:0.55
Consensus pattern (24 bp):
TACTTACTTTTCTAACTTAATTCA
Found at i:17303389 original size:15 final size:15
Alignment explanation
Indices: 17303369--17303397 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
17303359 TTCTTTCCTG
17303369 TTTTTCTTTTGTTTC
1 TTTTTCTTTTGTTTC
17303384 TTTTTCTTTTGTTT
1 TTTTTCTTTTGTTT
17303398 TACTTACTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.10, G:0.07, T:0.83
Consensus pattern (15 bp):
TTTTTCTTTTGTTTC
Found at i:17303599 original size:17 final size:16
Alignment explanation
Indices: 17303576--17303633 Score: 64
Period size: 17 Copynumber: 3.4 Consensus size: 16
17303566 GTTTATTTAA
17303576 TATATAATAATATAAT
1 TATATAATAATATAAT
17303592 TAATATAAT-ATAATATAT
1 T-ATATAATAAT-ATA-AT
*
17303610 TATATAATAAAATAAT
1 TATATAATAATATAAT
17303626 ATATATAA
1 -TATATAA
17303634 AACATAAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
16 5 0.14
17 27 0.75
18 4 0.11
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TATATAATAATATAAT
Found at i:17303600 original size:5 final size:5
Alignment explanation
Indices: 17303573--17303633 Score: 60
Period size: 5 Copynumber: 12.6 Consensus size: 5
17303563 TTGGTTTATT
17303573 TAATA T-ATAA TAATA TAAT- TAATA TAATA TAATA TATTATA TAATA
1 TAATA TAAT-A TAATA TAATA TAATA TAATA TAATA TA--ATA TAATA
17303619 -AA-A TAATA T-ATA TAA
1 TAATA TAATA TAATA TAA
17303634 AACATAAAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 16
0.75 0.00 0.25
Matches are distributed among these distances:
3 1 0.02
4 14 0.29
5 26 0.54
6 2 0.04
7 5 0.10
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TAATA
Found at i:17311099 original size:19 final size:19
Alignment explanation
Indices: 17311075--17311113 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
17311065 GAATCTTTTC
17311075 CATTGTTGTGTAGAAGCCT
1 CATTGTTGTGTAGAAGCCT
17311094 CATTGTTGTGTAGAAGCCT
1 CATTGTTGTGTAGAAGCCT
17311113 C
1 C
17311114 TCTTATCCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.21, C:0.18, G:0.26, T:0.36
Consensus pattern (19 bp):
CATTGTTGTGTAGAAGCCT
Found at i:17314501 original size:21 final size:20
Alignment explanation
Indices: 17314475--17314517 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
17314465 TTTAAAAATT
*
17314475 AAAAACATTAAAATTAGTAAA
1 AAAAACATAAAAATTA-TAAA
17314496 AAAAACATAAAAATTATAAA
1 AAAAACATAAAAATTATAAA
17314516 AA
1 AA
17314518 TATATTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.72, C:0.05, G:0.02, T:0.21
Consensus pattern (20 bp):
AAAAACATAAAAATTATAAA
Found at i:17316268 original size:17 final size:16
Alignment explanation
Indices: 17316235--17316275 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
17316225 AAAATGACCC
*
17316235 AAAAATAAATAATTAT
1 AAAAATAAATAAGTAT
*
17316251 AAAAATAACTCAAGTAT
1 AAAAATAAAT-AAGTAT
17316268 AAAAATAA
1 AAAAATAA
17316276 TTATTTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 9 0.41
17 13 0.59
ACGTcount: A:0.68, C:0.05, G:0.02, T:0.24
Consensus pattern (16 bp):
AAAAATAAATAAGTAT
Found at i:17316434 original size:90 final size:91
Alignment explanation
Indices: 17316334--17316503 Score: 234
Period size: 90 Copynumber: 1.9 Consensus size: 91
17316324 GGCATGTATA
* * * *** *
17316334 ACCTTAATTTTTGACCAAATTATTACCTTATAATTGTGTCACGCTTAAAATTTTTAATTTTTTGG
1 ACCTTAATTTTTGACCAAATAATCACCTGATAATTGTGTCACGCTTAAAAAAATTAAATTTTTGG
17316399 GTT-GGGGGACTTAACGGCCGACACC
66 GTTGGGGGGACTTAACGGCCGACACC
* * * *
17316424 ACCTTGATTTTTGACCCAATAATCATCTGATAATTGTGTCAGGCTTAAAAAAATTAAATTTTTGG
1 ACCTTAATTTTTGACCAAATAATCACCTGATAATTGTGTCACGCTTAAAAAAATTAAATTTTTGG
17316489 GTTGGGGGGACTTAA
66 GTTGGGGGGACTTAA
17316504 GGCTATTTGA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
90 57 0.84
91 11 0.16
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (91 bp):
ACCTTAATTTTTGACCAAATAATCACCTGATAATTGTGTCACGCTTAAAAAAATTAAATTTTTGG
GTTGGGGGGACTTAACGGCCGACACC
Found at i:17318801 original size:42 final size:42
Alignment explanation
Indices: 17318735--17318868 Score: 155
Period size: 42 Copynumber: 3.2 Consensus size: 42
17318725 CTTTCACGAA
* * * *
17318735 CTTCTATTTAACTCATATGAGTTTCCT-TTCAGCT-TTATTGAG
1 CTTCTGTTTAACCCTTATGGGTTT-CTGTTCAGCTCTTA-TGAG
* *
17318777 CTTCTGTTTAACCCTTATGGGTTTCTGTTCAACTCTTACGAG
1 CTTCTGTTTAACCCTTATGGGTTTCTGTTCAGCTCTTATGAG
* * *
17318819 CTTCTGTTAAACCCTTATGGGTTTCTGTTTAGCTCTCATGAG
1 CTTCTGTTTAACCCTTATGGGTTTCTGTTCAGCTCTTATGAG
17318861 CTTCTGTT
1 CTTCTGTT
17318869 CAGCCTTTGA
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
41 2 0.03
42 74 0.94
43 3 0.04
ACGTcount: A:0.17, C:0.22, G:0.16, T:0.46
Consensus pattern (42 bp):
CTTCTGTTTAACCCTTATGGGTTTCTGTTCAGCTCTTATGAG
Found at i:17318865 original size:21 final size:21
Alignment explanation
Indices: 17318773--17318885 Score: 95
Period size: 21 Copynumber: 5.5 Consensus size: 21
17318763 TCAGCTTTAT
*
17318773 TGAGCTTCTGTTTAACCCTTA
1 TGAGCTTCTGTTCAACCCTTA
* * *
17318794 TGGGTTTCTGTTCAACTCTTA
1 TGAGCTTCTGTTCAACCCTTA
* *
17318815 CGAGCTTCTGTTAAACCCTTA
1 TGAGCTTCTGTTCAACCCTTA
* * * * * *
17318836 TGGGTTTCTGTTTAGCTCTCA
1 TGAGCTTCTGTTCAACCCTTA
*
17318857 TGAGCTTCTGTTC-AGCCTT-
1 TGAGCTTCTGTTCAACCCTTA
17318876 TGAGCTTCTG
1 TGAGCTTCTG
17318886 ATAATGATAT
Statistics
Matches: 69, Mismatches: 23, Indels: 2
0.73 0.24 0.02
Matches are distributed among these distances:
19 10 0.14
20 2 0.03
21 57 0.83
ACGTcount: A:0.15, C:0.23, G:0.19, T:0.42
Consensus pattern (21 bp):
TGAGCTTCTGTTCAACCCTTA
Found at i:17325657 original size:42 final size:41
Alignment explanation
Indices: 17325610--17325743 Score: 137
Period size: 42 Copynumber: 3.2 Consensus size: 41
17325600 TATCTCTCAC
* *
17325610 GAGCTTCTGTTTAACTCATATGAATTTCCGTTTAGCTCTATT
1 GAGCTTCTGTTTAAC-CTTATGAGTTTCCGTTTAGCTCTATT
* *
17325652 GAGCTTCTGTTTAACCTTTATGGGTTTCCGTTTAGCTCT-TAC
1 GAGCTTCTGTTTAACC-TTATGAGTTTCCGTTTAGCTCTAT-T
* * * *
17325694 GAGATTCCGTTCAACCCTTATGAGTTTCTGTTTAGCTCTCA-T
1 GAGCTTCTGTTTAA-CCTTATGAGTTTCCGTTTAGCTCT-ATT
17325736 GAGCTTCT
1 GAGCTTCT
17325744 ATTCAGCCTT
Statistics
Matches: 75, Mismatches: 12, Indels: 10
0.77 0.12 0.10
Matches are distributed among these distances:
41 2 0.03
42 71 0.95
43 2 0.03
ACGTcount: A:0.18, C:0.22, G:0.17, T:0.43
Consensus pattern (41 bp):
GAGCTTCTGTTTAACCTTATGAGTTTCCGTTTAGCTCTATT
Found at i:17325743 original size:21 final size:21
Alignment explanation
Indices: 17325610--17325743 Score: 83
Period size: 21 Copynumber: 6.4 Consensus size: 21
17325600 TATCTCTCAC
*
17325610 GAGCTTCTGTTTAACTCATAT
1 GAGCTTCTGTTTAACTCTTAT
** * *
17325631 GAATTTCCGTTTAGCTC-TATT
1 GAGCTTCTGTTTAACTCTTA-T
17325652 GAGCTTCTGTTTAAC-CTTTAT
1 GAGCTTCTGTTTAACTC-TTAT
* * * * *
17325673 GGGTTTCCGTTTAGCTCTTAC
1 GAGCTTCTGTTTAACTCTTAT
* * * *
17325694 GAGATTCCGTTCAACCCTTAT
1 GAGCTTCTGTTTAACTCTTAT
* * *
17325715 GAGTTTCTGTTTAGCTCTCAT
1 GAGCTTCTGTTTAACTCTTAT
17325736 GAGCTTCT
1 GAGCTTCT
17325744 ATTCAGCCTT
Statistics
Matches: 83, Mismatches: 26, Indels: 8
0.71 0.22 0.07
Matches are distributed among these distances:
20 3 0.04
21 77 0.93
22 3 0.04
ACGTcount: A:0.18, C:0.22, G:0.17, T:0.43
Consensus pattern (21 bp):
GAGCTTCTGTTTAACTCTTAT
Found at i:17328189 original size:47 final size:47
Alignment explanation
Indices: 17328136--17328282 Score: 233
Period size: 47 Copynumber: 3.1 Consensus size: 47
17328126 AAATGTTTTA
17328136 AATAAATAAATTATTAAGTTATTATATAGTGTAAAGTAAAATAATTT
1 AATAAATAAATTATTAAGTTATTATATAGTGTAAAGTAAAATAATTT
* *
17328183 AATAAATAAATTATTAAGATATTATATAGTGTAAA-AAAAATAATTT
1 AATAAATAAATTATTAAGTTATTATATAGTGTAAAGTAAAATAATTT
* * *
17328229 AATAAATAAATTGTAAAGTTATTAAATAGTGTAAAGTAAAATAATTT
1 AATAAATAAATTATTAAGTTATTATATAGTGTAAAGTAAAATAATTT
17328276 AAATAAA
1 -AATAAA
17328283 ATATTAATAC
Statistics
Matches: 91, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
46 41 0.45
47 44 0.48
48 6 0.07
ACGTcount: A:0.55, C:0.00, G:0.08, T:0.37
Consensus pattern (47 bp):
AATAAATAAATTATTAAGTTATTATATAGTGTAAAGTAAAATAATTT
Found at i:17328303 original size:93 final size:94
Alignment explanation
Indices: 17328118--17328291 Score: 244
Period size: 93 Copynumber: 1.9 Consensus size: 94
17328108 TCATGATTAT
* ** * *
17328118 TGTAAAATAAATGTTTTAAATAAATAAATTATTAAGTTATTATATAGTGTAAAGTAAAATAATTT
1 TGTAAAAAAAATAATTTAAATAAATAAATTATAAAGTTATTAAATAGTGTAAAGTAAAATAATTT
* *
17328183 AATAAATAAATTATTAAGATATTATATAG
66 AATAAATAAATTAATAACATATTATATAG
*
17328212 TGTAAAAAAAATAATTT-AATAAATAAATTGTAAAGTTATTAAATAGTGTAAAGTAAAATAATTT
1 TGTAAAAAAAATAATTTAAATAAATAAATTATAAAGTTATTAAATAGTGTAAAGTAAAATAATTT
*
17328276 AAATAAA-ATATTAATA
66 -AATAAATAAATTAATA
17328292 CATTTAAATA
Statistics
Matches: 71, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
93 51 0.72
94 20 0.28
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (94 bp):
TGTAAAAAAAATAATTTAAATAAATAAATTATAAAGTTATTAAATAGTGTAAAGTAAAATAATTT
AATAAATAAATTAATAACATATTATATAG
Found at i:17328311 original size:23 final size:21
Alignment explanation
Indices: 17328278--17328324 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
17328268 AATAATTTAA
*
17328278 ATAAAATATTAATACATTTAAAT
1 ATAAAAAATT-AT-CATTTAAAT
*
17328301 ATAAAAAATTATTATTTAAAT
1 ATAAAAAATTATCATTTAAAT
17328322 ATA
1 ATA
17328325 CATTTAAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 11 0.50
22 2 0.09
23 9 0.41
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (21 bp):
ATAAAAAATTATCATTTAAAT
Found at i:17328439 original size:24 final size:23
Alignment explanation
Indices: 17328407--17328468 Score: 88
Period size: 24 Copynumber: 2.6 Consensus size: 23
17328397 TTATATACAG
17328407 TAAAGTAAATAAATTATTCAATTA
1 TAAAGTAAATAAATTATTC-ATTA
*
17328431 TAAAGTAAATAAATTATTCATTT
1 TAAAGTAAATAAATTATTCATTA
17328454 TAAAGATTAAATAAA
1 TAAAG--TAAATAAA
17328469 AAACTAATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
23 8 0.23
24 19 0.54
25 8 0.23
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.37
Consensus pattern (23 bp):
TAAAGTAAATAAATTATTCATTA
Found at i:17330526 original size:21 final size:22
Alignment explanation
Indices: 17330485--17330526 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
17330475 AAAACTAATT
*
17330485 TACGAAAATATTTATAATTTATA
1 TACGAAAATA-TTAAAATTTATA
17330508 TACGAAAATA-TAAAATTTA
1 TACGAAAATATTAAAATTTA
17330527 ACCAACAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 8 0.44
23 10 0.56
ACGTcount: A:0.52, C:0.05, G:0.05, T:0.38
Consensus pattern (22 bp):
TACGAAAATATTAAAATTTATA
Found at i:17331497 original size:30 final size:30
Alignment explanation
Indices: 17331463--17331525 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
17331453 ACTTATTTCA
17331463 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* *
17331493 TTGTTAATTTTGTTATTATTTTATAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
17331523 TTG
1 TTG
17331526 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.25, C:0.03, G:0.13, T:0.59
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:17335665 original size:32 final size:32
Alignment explanation
Indices: 17335619--17335679 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
17335609 ATCACTAACT
* *
17335619 AATACTAATGTAATATTAATAGAATAGAATAG
1 AATACTAATCTAATACTAATAGAATAGAATAG
17335651 AATACTAATCTAATACTAATAGAATAGAA
1 AATACTAATCTAATACTAATAGAATAGAA
17335680 AAATAAAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.54, C:0.07, G:0.10, T:0.30
Consensus pattern (32 bp):
AATACTAATCTAATACTAATAGAATAGAATAG
Found at i:17335676 original size:11 final size:11
Alignment explanation
Indices: 17335619--17335676 Score: 57
Period size: 11 Copynumber: 5.4 Consensus size: 11
17335609 ATCACTAACT
17335619 AATACTAAT-G
1 AATACTAATAG
*
17335629 TAATATTAATAG
1 -AATACTAATAG
*
17335641 AATA-GAATAG
1 AATACTAATAG
**
17335651 AATACTAATCT
1 AATACTAATAG
17335662 AATACTAATAG
1 AATACTAATAG
17335673 AATA
1 AATA
17335677 GAAAAATAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
10 9 0.24
11 28 0.74
12 1 0.03
ACGTcount: A:0.53, C:0.07, G:0.09, T:0.31
Consensus pattern (11 bp):
AATACTAATAG
Found at i:17337094 original size:22 final size:23
Alignment explanation
Indices: 17337060--17337102 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
17337050 ATATGATATG
17337060 TAATATTAGAAGATATGATTTTA
1 TAATATTAGAAGATATGATTTTA
* *
17337083 TAATCTTA-AAGATTTGATTT
1 TAATATTAGAAGATATGATTT
17337103 GTAGATAGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.40, C:0.02, G:0.12, T:0.47
Consensus pattern (23 bp):
TAATATTAGAAGATATGATTTTA
Found at i:17345422 original size:12 final size:12
Alignment explanation
Indices: 17345407--17345445 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
17345397 AAAAATAGAA
17345407 ATAATAATATAT
1 ATAATAATATAT
17345419 ATAATAATATAT
1 ATAATAATATAT
17345431 A-AA-AATGATAT
1 ATAATAAT-ATAT
17345442 ATAA
1 ATAA
17345446 ATATAAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 3 0.12
11 7 0.28
12 15 0.60
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (12 bp):
ATAATAATATAT
Found at i:17345498 original size:22 final size:22
Alignment explanation
Indices: 17345422--17345514 Score: 65
Period size: 22 Copynumber: 4.4 Consensus size: 22
17345412 AATATATATA
17345422 ATAATATAT-AA-AAAT-GATAT
1 ATAATATATAAATAAATAGA-AT
**
17345442 ATAA-ATATAAAATATTTAGAAT
1 ATAATATAT-AAATAAATAGAAT
*
17345464 AT-ATA-AAATAATAAAATAG-AT
1 ATAATATATA-AAT-AAATAGAAT
*
17345485 ATAATATATAAATAAATTGAAT
1 ATAATATATAAATAAATAGAAT
17345507 ATAATATA
1 ATAATATA
17345515 ATATTAAATA
Statistics
Matches: 56, Mismatches: 7, Indels: 18
0.69 0.09 0.22
Matches are distributed among these distances:
19 4 0.07
20 5 0.09
21 16 0.29
22 27 0.48
23 4 0.07
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.34
Consensus pattern (22 bp):
ATAATATATAAATAAATAGAAT
Found at i:17345507 original size:26 final size:28
Alignment explanation
Indices: 17345398--17345530 Score: 92
Period size: 26 Copynumber: 5.1 Consensus size: 28
17345388 ATGTATACAA
* *
17345398 AAAATAGAA-ATAATA-ATATATATAAT
1 AAAATATAATATAATATATAAATATAAT
*
17345424 AATATATAA-A-AATGATATATAA-AT-AT
1 AAAATATAATATAAT-ATATA-AATATAAT
* *
17345450 AAAATAT-TTAGAATATATAAA-ATAAT
1 AAAATATAATATAATATATAAATATAAT
*
17345476 AAAATA-GATATAATATATAAATA-AAT
1 AAAATATAATATAATATATAAATATAAT
**
17345502 TGAATATAATATAATAT-TAAATAT-AT
1 AAAATATAATATAATATATAAATATAAT
17345528 AAA
1 AAA
17345531 TAAATTAAAC
Statistics
Matches: 85, Mismatches: 12, Indels: 20
0.73 0.10 0.17
Matches are distributed among these distances:
25 7 0.08
26 59 0.69
27 18 0.21
28 1 0.01
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (28 bp):
AAAATATAATATAATATATAAATATAAT
Found at i:17345537 original size:17 final size:17
Alignment explanation
Indices: 17345412--17345539 Score: 73
Period size: 17 Copynumber: 7.1 Consensus size: 17
17345402 TAGAAATAAT
17345412 AATATATATAATAATATATA
1 AATATATA-AATAA-AT-TA
* *
17345432 AAAATGATATATAAATATAA
1 AATAT-ATAAATAAAT-T-A
* * *
17345452 AATATTTAGAATATATAA
1 AATATATA-AATAAATTA
*
17345470 AATA-ATAAAATAGA-TA
1 AATATAT-AAATAAATTA
*
17345486 TAATATATAAATAAATTG
1 -AATATATAAATAAATTA
*
17345504 AATATA-ATATAATATTA
1 AATATATAAATAA-ATTA
17345521 AATATATAAATAAATTA
1 AATATATAAATAAATTA
17345538 AA
1 AA
17345540 CCAAAAGAGT
Statistics
Matches: 84, Mismatches: 15, Indels: 21
0.70 0.12 0.17
Matches are distributed among these distances:
16 6 0.07
17 37 0.44
18 14 0.17
19 6 0.07
20 18 0.21
21 3 0.04
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (17 bp):
AATATATAAATAAATTA
Found at i:17350271 original size:13 final size:13
Alignment explanation
Indices: 17350255--17350279 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17350245 CTTTTAGCTG
17350255 TTACTTTAATTTA
1 TTACTTTAATTTA
17350268 TTACTTTAATTT
1 TTACTTTAATTT
17350280 CATTTATCCT
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:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (13 bp):
TTACTTTAATTTA
Found at i:17357009 original size:12 final size:11
Alignment explanation
Indices: 17356988--17357018 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
17356978 ATTGAGTTTA
17356988 TTTCTTTTCTT
1 TTTCTTTTCTT
17356999 TTTCGTTTTCTT
1 TTTC-TTTTCTT
17357011 TTTCTTTT
1 TTTCTTTT
17357019 AGCTTTATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.00, C:0.16, G:0.03, T:0.81
Consensus pattern (11 bp):
TTTCTTTTCTT
Found at i:17358043 original size:21 final size:21
Alignment explanation
Indices: 17358017--17358060 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
17358007 TGCTGAATTA
*
17358017 TTTAAATTCATGTTTCTATAC
1 TTTAAAATCATGTTTCTATAC
17358038 TTTAAAATCATGTTTCTATAC
1 TTTAAAATCATGTTTCTATAC
17358059 TT
1 TT
17358061 AGGAGAGCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.14, G:0.05, T:0.52
Consensus pattern (21 bp):
TTTAAAATCATGTTTCTATAC
Found at i:17360484 original size:51 final size:51
Alignment explanation
Indices: 17360412--17360516 Score: 147
Period size: 51 Copynumber: 2.1 Consensus size: 51
17360402 TAATTAAAAT
* * * *
17360412 AAAATAATTAATTAAAGGATAAATTATATTTAAAGCAAAAAATTTAAATTA
1 AAAATAATCAACTAAAGGATAAATCATATTTAAAACAAAAAATTTAAATTA
* * *
17360463 AAAATAATCAACTAAATGATAAATCATATTTAAAACAATAAATTTCAATTA
1 AAAATAATCAACTAAAGGATAAATCATATTTAAAACAAAAAATTTAAATTA
17360514 AAA
1 AAA
17360517 TAAAATAATT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.59, C:0.06, G:0.04, T:0.31
Consensus pattern (51 bp):
AAAATAATCAACTAAAGGATAAATCATATTTAAAACAAAAAATTTAAATTA
Found at i:17360526 original size:14 final size:15
Alignment explanation
Indices: 17360509--17360543 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
17360499 AATAAATTTC
17360509 AATTAAAAT-AAAAT
1 AATTAAAATAAAAAT
*
17360523 AATTTAAATAAAAAT
1 AATTAAAATAAAAAT
17360538 AATTAA
1 AATTAA
17360544 GTATAGGATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AATTAAAATAAAAAT
Found at i:17360596 original size:70 final size:71
Alignment explanation
Indices: 17360448--17360590 Score: 209
Period size: 70 Copynumber: 2.0 Consensus size: 71
17360438 TATTTAAAGC
* *
17360448 AAAA-AATTTAAATTAAAAATAATCAACTAAATGATAAATCATATTTAAAACAATAAATTTCAAT
1 AAAATAATTTAAATTAAAAATAATCAACTAAAGGATAAATCATATTTAAAACAATAAATTTAAAT
17360512 TAAAAT
66 TAAAAT
* * * *
17360518 AAAATAATTTAAA-TAAAAATAATTAAGTATAGGATAAATCATATTTAAAGCAATAAATTTAAAT
1 AAAATAATTTAAATTAAAAATAATCAACTAAAGGATAAATCATATTTAAAACAATAAATTTAAAT
17360582 TAGAAAT
66 TA-AAAT
17360589 AA
1 AA
17360591 TTAATTGAAT
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
70 51 0.78
71 14 0.22
ACGTcount: A:0.59, C:0.05, G:0.04, T:0.31
Consensus pattern (71 bp):
AAAATAATTTAAATTAAAAATAATCAACTAAAGGATAAATCATATTTAAAACAATAAATTTAAAT
TAAAAT
Found at i:17360657 original size:17 final size:17
Alignment explanation
Indices: 17360632--17360665 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
17360622 AATTATATTA
*
17360632 TAATTAAAGGATAAATT
1 TAATGAAAGGATAAATT
*
17360649 TAATGAAAGGCTAAATT
1 TAATGAAAGGATAAATT
17360666 AGATTTTAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.50, C:0.03, G:0.15, T:0.32
Consensus pattern (17 bp):
TAATGAAAGGATAAATT
Found at i:17361558 original size:12 final size:14
Alignment explanation
Indices: 17361528--17361562 Score: 56
Period size: 12 Copynumber: 2.6 Consensus size: 14
17361518 ACAACCATGA
17361528 TTTTAATTACTTGT
1 TTTTAATTACTTGT
17361542 TTTTAATTA-TT-T
1 TTTTAATTACTTGT
17361554 TTTTAATTA
1 TTTTAATTA
17361563 GAATTATGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 10 0.48
13 2 0.10
14 9 0.43
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.69
Consensus pattern (14 bp):
TTTTAATTACTTGT
Found at i:17362078 original size:24 final size:24
Alignment explanation
Indices: 17362051--17362098 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
17362041 AAATACATCA
* *
17362051 TGTGAAAAAAAAGAAGGAAAAAAT
1 TGTGAAAAAAAAAAAGAAAAAAAT
17362075 TGTGAAAAAAAAAAAGAAAAAAAT
1 TGTGAAAAAAAAAAAGAAAAAAAT
17362099 GGACCATGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.71, C:0.00, G:0.17, T:0.12
Consensus pattern (24 bp):
TGTGAAAAAAAAAAAGAAAAAAAT
Found at i:17370781 original size:3 final size:3
Alignment explanation
Indices: 17370773--17370798 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
17370763 GAAAGATGTA
17370773 CAT CAT CAT CAT CAT CAT CAT CAT CA
1 CAT CAT CAT CAT CAT CAT CAT CAT CA
17370799 ACATGTGCTT
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:0.35, G:0.00, T:0.31
Consensus pattern (3 bp):
CAT
Found at i:17380305 original size:16 final size:16
Alignment explanation
Indices: 17380286--17380317 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
17380276 AAAATAACCC
17380286 AAATTTAAAACGATTT
1 AAATTTAAAACGATTT
*
17380302 AAATTTAAAATGATTT
1 AAATTTAAAACGATTT
17380318 GGATAATTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.03, G:0.06, T:0.41
Consensus pattern (16 bp):
AAATTTAAAACGATTT
Found at i:17389624 original size:18 final size:18
Alignment explanation
Indices: 17389583--17389624 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
17389573 GATAAGATAG
*
17389583 AATTTTGAAATTTTTTGT
1 AATTTTAAAATTTTTTGT
*
17389601 ATTTTTAAAATATTTTT-T
1 AATTTTAAAAT-TTTTTGT
17389619 AATTTT
1 AATTTT
17389625 TTAATTTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (18 bp):
AATTTTAAAATTTTTTGT
Found at i:17406372 original size:14 final size:15
Alignment explanation
Indices: 17406353--17406382 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
17406343 GTGATTCAGC
17406353 ATTCAA-TCAACAAT
1 ATTCAACTCAACAAT
17406367 ATTCAACTCAACAAT
1 ATTCAACTCAACAAT
17406382 A
1 A
17406383 CTTATATAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (15 bp):
ATTCAACTCAACAAT
Found at i:17406930 original size:47 final size:47
Alignment explanation
Indices: 17406877--17406974 Score: 178
Period size: 47 Copynumber: 2.1 Consensus size: 47
17406867 GCATACAAAA
*
17406877 ACATTGAATGATTTATAGGATGGGATGGTGAAATATGAGGAAAGGGT
1 ACATTGAATGATTTATAGGATGGGATGGTGAAATATGAGGAAAGGGC
*
17406924 ACATTGAATGATTTATGGGATGGGATGGTGAAATATGAGGAAAGGGC
1 ACATTGAATGATTTATAGGATGGGATGGTGAAATATGAGGAAAGGGC
17406971 ACAT
1 ACAT
17406975 CACATTAGGG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 49 1.00
ACGTcount: A:0.36, C:0.04, G:0.34, T:0.27
Consensus pattern (47 bp):
ACATTGAATGATTTATAGGATGGGATGGTGAAATATGAGGAAAGGGC
Found at i:17407290 original size:16 final size:16
Alignment explanation
Indices: 17407269--17407299 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17407259 GACTTAAAAG
17407269 TTAAAACTAATTGTTT
1 TTAAAACTAATTGTTT
*
17407285 TTAAAATTAATTGTT
1 TTAAAACTAATTGTT
17407300 ATTGAATTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.52
Consensus pattern (16 bp):
TTAAAACTAATTGTTT
Found at i:17407404 original size:25 final size:25
Alignment explanation
Indices: 17407374--17407421 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
17407364 AAGATTACTT
17407374 ATTTGAATTTAATTACAAACAATTA
1 ATTTGAATTTAATTACAAACAATTA
17407399 ATTTGAATTTAATTACAAACAAT
1 ATTTGAATTTAATTACAAACAAT
17407422 CAAATCTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.48, C:0.08, G:0.04, T:0.40
Consensus pattern (25 bp):
ATTTGAATTTAATTACAAACAATTA
Found at i:17407505 original size:7 final size:8
Alignment explanation
Indices: 17407487--17407511 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
17407477 ATTTAATTCC
17407487 TTTTAACT
1 TTTTAACT
17407495 TTTTAACT
1 TTTTAACT
17407503 TTTTAACT
1 TTTTAACT
17407511 T
1 T
17407512 AAATATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.64
Consensus pattern (8 bp):
TTTTAACT
Found at i:17410695 original size:13 final size:13
Alignment explanation
Indices: 17410677--17410810 Score: 103
Period size: 13 Copynumber: 10.2 Consensus size: 13
17410667 AATTTAAAAG
*
17410677 TTAAAACATTATA
1 TTAAAACAGTATA
*
17410690 TTAAAACAATATAA
1 TTAAAACAGTAT-A
*
17410704 TTATAACAGTATA
1 TTAAAACAGTATA
*
17410717 TTAAAACAATATA
1 TTAAAACAGTATA
*
17410730 TTAAAAAAGTATA
1 TTAAAACAGTATA
* *
17410743 TTTATAATAGTATA
1 -TTAAAACAGTATA
*
17410757 TTAAAATAGTATA
1 TTAAAACAGTATA
* * *
17410770 TTATAA-ATTTTA
1 TTAAAACAGTATA
*
17410782 -TAACAATA-TATTA
1 TTAA-AACAGTA-TA
17410795 TTAAAACAGTATA
1 TTAAAACAGTATA
17410808 TTA
1 TTA
17410811 CATTTAAAAT
Statistics
Matches: 98, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
11 2 0.02
12 7 0.07
13 62 0.63
14 27 0.28
ACGTcount: A:0.53, C:0.04, G:0.04, T:0.39
Consensus pattern (13 bp):
TTAAAACAGTATA
Found at i:17410711 original size:27 final size:27
Alignment explanation
Indices: 17410645--17410744 Score: 105
Period size: 27 Copynumber: 3.7 Consensus size: 27
17410635 AAATTAAATG
* **
17410645 TATATTTATAACAGTATATTAAAA-TT
1 TATAATTATAACAGTATATTAAAACAA
* * *
17410671 TAAAAGTTAAAACATTATATTAAAACAA
1 TATAA-TTATAACAGTATATTAAAACAA
17410699 TATAATTATAACAGTATATTAAAACAA
1 TATAATTATAACAGTATATTAAAACAA
* *
17410726 TAT-ATTAAAAAAGTATATT
1 TATAATTATAACAGTATATT
17410745 TATAATAGTA
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
26 17 0.28
27 40 0.66
28 4 0.07
ACGTcount: A:0.54, C:0.05, G:0.04, T:0.37
Consensus pattern (27 bp):
TATAATTATAACAGTATATTAAAACAA
Found at i:17410722 original size:40 final size:40
Alignment explanation
Indices: 17410677--17410772 Score: 131
Period size: 40 Copynumber: 2.4 Consensus size: 40
17410667 AATTTAAAAG
*
17410677 TTAAAACATTATATTAAAACAA-TATAATTATAACAGTATA
1 TTAAAACAATATATTAAAA-AAGTATAATTATAACAGTATA
* *
17410717 TTAAAACAATATATTAAAAAAGTATATTTATAATAGTATA
1 TTAAAACAATATATTAAAAAAGTATAATTATAACAGTATA
* *
17410757 TTAAAATAGTATATTA
1 TTAAAACAATATATTA
17410773 TAAATTTTAT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
39 2 0.04
40 48 0.96
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.38
Consensus pattern (40 bp):
TTAAAACAATATATTAAAAAAGTATAATTATAACAGTATA
Found at i:17412471 original size:28 final size:28
Alignment explanation
Indices: 17412440--17412528 Score: 126
Period size: 28 Copynumber: 3.1 Consensus size: 28
17412430 TTAACAGAAC
* *
17412440 ACCATTAACAGCAAAAATAAAAAACACA
1 ACCATTAACAGCAAAAATCAAAATCACA
*
17412468 ACCATTAACAGC-AAAATCAAAATCAGAA
1 ACCATTAACAGCAAAAATCAAAATCA-CA
17412496 CACCATTAACAGCAAAAATCAAAATCACA
1 -ACCATTAACAGCAAAAATCAAAATCACA
17412525 ACCA
1 ACCA
17412529 ACATCAAAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 6
0.84 0.06 0.09
Matches are distributed among these distances:
27 11 0.20
28 17 0.31
29 13 0.24
30 13 0.24
ACGTcount: A:0.58, C:0.25, G:0.04, T:0.12
Consensus pattern (28 bp):
ACCATTAACAGCAAAAATCAAAATCACA
Found at i:17412510 original size:29 final size:30
Alignment explanation
Indices: 17412434--17412522 Score: 130
Period size: 30 Copynumber: 3.1 Consensus size: 30
17412424 GCAACATTAA
* *
17412434 CAGAACACCATTAACAGCAAAAATAAAAAA
1 CAGAACACCATTAACAGCAAAAATCAAAAT
*
17412464 CA-CA-ACCATTAACAGC-AAAATCAAAAT
1 CAGAACACCATTAACAGCAAAAATCAAAAT
17412491 CAGAACACCATTAACAGCAAAAATCAAAAT
1 CAGAACACCATTAACAGCAAAAATCAAAAT
17412521 CA
1 CA
17412523 CAACCAACAT
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
27 11 0.21
28 13 0.25
29 13 0.25
30 15 0.29
ACGTcount: A:0.58, C:0.24, G:0.06, T:0.12
Consensus pattern (30 bp):
CAGAACACCATTAACAGCAAAAATCAAAAT
Found at i:17447241 original size:37 final size:37
Alignment explanation
Indices: 17447178--17447267 Score: 103
Period size: 37 Copynumber: 2.4 Consensus size: 37
17447168 ATTCCAAAAA
*
17447178 TAATATTATTTTAATAGTTTTATATTAAATTAA-ATT
1 TAATATTATCTTAATAGTTTTATATTAAATTAATATT
*
17447214 TAATACTTATCTTAATAGTATTT-TATTAATTTAATATT
1 TAATA-TTATCTTAATAGT-TTTATATTAAATTAATATT
*
17447252 AAAGTAATTATCTTAA
1 TAA-T-ATTATCTTAA
17447268 ATATTTATAA
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
36 5 0.11
37 22 0.48
38 8 0.17
39 10 0.22
40 1 0.02
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.52
Consensus pattern (37 bp):
TAATATTATCTTAATAGTTTTATATTAAATTAATATT
Found at i:17449226 original size:40 final size:41
Alignment explanation
Indices: 17449146--17449245 Score: 166
Period size: 40 Copynumber: 2.4 Consensus size: 41
17449136 TGATTCTGTA
*
17449146 CACCGGCATTAAGCCTGCTATAGATGTATAGTATGAATATTT
1 CACCGGCATTAAGCCTGC-ATAGACGTATAGTATGAATATTT
*
17449188 CACCGGCATTAAGCCTGC-TAGACGTATAGTCTGAATATTT
1 CACCGGCATTAAGCCTGCATAGACGTATAGTATGAATATTT
17449228 CACCGGCATTAAGCCTGC
1 CACCGGCATTAAGCCTGC
17449246 CAGGCACAAG
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
40 38 0.68
42 18 0.32
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCATAGACGTATAGTATGAATATTT
Found at i:17452330 original size:21 final size:22
Alignment explanation
Indices: 17452306--17452352 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
17452296 AGTAGAGGAG
*
17452306 ACACGGT-CGTGTGGTTGAGAT
1 ACACGGTCCGTGTGGCTGAGAT
17452327 ACAC-GTCCGTGTGGCTGAGAT
1 ACACGGTCCGTGTGGCTGAGAT
17452348 ACACG
1 ACACG
17452353 ACCATGTGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.21, C:0.21, G:0.34, T:0.23
Consensus pattern (22 bp):
ACACGGTCCGTGTGGCTGAGAT
Found at i:17452360 original size:21 final size:21
Alignment explanation
Indices: 17452315--17452360 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
17452305 GACACGGTCG
* * *
17452315 TGTGGTTGAGATACACGTCCG
1 TGTGGCTGAGATACACGACCA
17452336 TGTGGCTGAGATACACGACCA
1 TGTGGCTGAGATACACGACCA
17452357 TGTG
1 TGTG
17452361 TACAGGCCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.22, C:0.20, G:0.33, T:0.26
Consensus pattern (21 bp):
TGTGGCTGAGATACACGACCA
Found at i:17453813 original size:23 final size:23
Alignment explanation
Indices: 17453787--17453836 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
17453777 CAATTAGAGG
17453787 GGGATCCATAGCCATGGGCATAA
1 GGGATCCATAGCCATGGGCATAA
17453810 GGGATCCATAGCCATGGGCATAA
1 GGGATCCATAGCCATGGGCATAA
17453833 GGGA
1 GGGA
17453837 CTCTGTAAGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.30, C:0.20, G:0.34, T:0.16
Consensus pattern (23 bp):
GGGATCCATAGCCATGGGCATAA
Found at i:17455012 original size:29 final size:29
Alignment explanation
Indices: 17454970--17455038 Score: 138
Period size: 29 Copynumber: 2.4 Consensus size: 29
17454960 CATGTGATTC
17454970 CACACGGCCTAGTACATGCCCGTGTGCCT
1 CACACGGCCTAGTACATGCCCGTGTGCCT
17454999 CACACGGCCTAGTACATGCCCGTGTGCCT
1 CACACGGCCTAGTACATGCCCGTGTGCCT
17455028 CACACGGCCTA
1 CACACGGCCTA
17455039 ACACCCACCC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.19, C:0.39, G:0.23, T:0.19
Consensus pattern (29 bp):
CACACGGCCTAGTACATGCCCGTGTGCCT
Found at i:17456582 original size:50 final size:50
Alignment explanation
Indices: 17456467--17456609 Score: 205
Period size: 50 Copynumber: 2.8 Consensus size: 50
17456457 GATAAGAACA
**
17456467 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCATATCGG
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATATCGG
* * * *
17456518 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* *
17456568 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCT
1 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
17456610 TTACCCAAAT
Statistics
Matches: 82, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
50 48 0.59
51 34 0.41
ACGTcount: A:0.22, C:0.31, G:0.22, T:0.25
Consensus pattern (50 bp):
TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:17456981 original size:30 final size:30
Alignment explanation
Indices: 17456947--17457004 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
17456937 CATCGACTTT
17456947 AACTTTGGA-AAAATTATGATTTTGCCCCTA
1 AACTTT-GACAAAATTATGATTTTGCCCCTA
* * *
17456977 AACTTTTACATAATTATGCTTTTGCCCC
1 AACTTTGACAAAATTATGATTTTGCCCC
17457005 AAAGTTCGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (30 bp):
AACTTTGACAAAATTATGATTTTGCCCCTA
Found at i:17461145 original size:15 final size:16
Alignment explanation
Indices: 17461115--17461147 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
17461105 TTTTCCCTTA
17461115 TTATTCATTTTCAAAT
1 TTATTCATTTTCAAAT
*
17461131 TTATT-ATTTTTAAAT
1 TTATTCATTTTCAAAT
17461146 TT
1 TT
17461148 GTTTACATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (16 bp):
TTATTCATTTTCAAAT
Found at i:17473207 original size:22 final size:24
Alignment explanation
Indices: 17473157--17473207 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 24
17473147 TTGCAATGCT
17473157 TTTATATTTTAATAATTGAATATTA
1 TTTATATTTTAAT-ATTGAATATTA
17473182 -TTATATATTTAAT-TTG-AT-TTA
1 TTTATAT-TTTAATATTGAATATTA
17473203 TTTAT
1 TTTAT
17473208 TTATAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
21 3 0.12
22 6 0.25
23 3 0.12
24 6 0.25
25 6 0.25
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (24 bp):
TTTATATTTTAATATTGAATATTA
Found at i:17473383 original size:14 final size:15
Alignment explanation
Indices: 17473361--17473437 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
17473351 CAATCAAACA
17473361 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
17473375 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
17473390 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
17473410 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
17473424 ACGGAAAAT-ATTTT
1 CCAGAAAATCATTTT
17473438 ACTGGCAATT
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 21 0.42
15 15 0.30
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:17473402 original size:20 final size:20
Alignment explanation
Indices: 17473377--17473416 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
17473367 AATATTTTCC
*
17473377 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
17473397 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
17473417 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:17473422 original size:34 final size:35
Alignment explanation
Indices: 17473365--17473431 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
17473355 CAAACACCAG
*
17473365 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
17473400 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
17473432 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:17475471 original size:11 final size:11
Alignment explanation
Indices: 17475455--17475497 Score: 61
Period size: 11 Copynumber: 4.0 Consensus size: 11
17475445 TAGAATATAT
17475455 CCCATACCTTG
1 CCCATACCTTG
*
17475466 CCCATACCTTT
1 CCCATACCTTG
*
17475477 CCCATACC-TA
1 CCCATACCTTG
17475487 CCCATACCTTG
1 CCCATACCTTG
17475498 GAAAGGTCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
10 9 0.32
11 19 0.68
ACGTcount: A:0.21, C:0.47, G:0.05, T:0.28
Consensus pattern (11 bp):
CCCATACCTTG
Found at i:17475479 original size:22 final size:21
Alignment explanation
Indices: 17475454--17475496 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
17475444 TTAGAATATA
*
17475454 TCCCATACCTTGCCCATACCTT
1 TCCCATACC-TACCCATACCTT
17475476 TCCCATACCTACCCATACCTT
1 TCCCATACCTACCCATACCTT
17475497 GGAAAGGTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.21, C:0.47, G:0.02, T:0.30
Consensus pattern (21 bp):
TCCCATACCTACCCATACCTT
Found at i:17480826 original size:23 final size:23
Alignment explanation
Indices: 17480796--17480844 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
17480786 CTAAATCAGG
17480796 CTCAATTAATGACGTTGAATTTA
1 CTCAATTAATGACGTTGAATTTA
*
17480819 CTCAATTAATTACGTTGAATTTA
1 CTCAATTAATGACGTTGAATTTA
17480842 CTC
1 CTC
17480845 TTTTTTTAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.33, C:0.16, G:0.10, T:0.41
Consensus pattern (23 bp):
CTCAATTAATGACGTTGAATTTA
Found at i:17481584 original size:12 final size:12
Alignment explanation
Indices: 17481567--17481620 Score: 62
Period size: 11 Copynumber: 4.8 Consensus size: 12
17481557 AACTAATCCT
17481567 CTCTCAAATTTC
1 CTCTCAAATTTC
*
17481579 CTCTC-AATTTG
1 CTCTCAAATTTC
17481590 CTCTC-AATTTC
1 CTCTCAAATTTC
17481601 CT-TCCAAATTT-
1 CTCT-CAAATTTC
17481612 CTCTCAAAT
1 CTCTCAAAT
17481621 CCATATTTAA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
10 1 0.03
11 25 0.68
12 11 0.30
ACGTcount: A:0.24, C:0.31, G:0.02, T:0.43
Consensus pattern (12 bp):
CTCTCAAATTTC
Found at i:17481593 original size:11 final size:11
Alignment explanation
Indices: 17481567--17481655 Score: 55
Period size: 11 Copynumber: 8.4 Consensus size: 11
17481557 AACTAATCCT
17481567 CTCTCAAATTTC
1 CTCTC-AATTTC
*
17481579 CTCTCAATTTG
1 CTCTCAATTTC
17481590 CTCTCAATTTC
1 CTCTCAATTTC
17481601 CT-TCCAAATTT-
1 CTCT-C-AATTTC
*
17481612 CTCTCAA-ATC
1 CTCTCAATTTC
* *
17481622 C-AT--ATTTA
1 CTCTCAATTTC
* *
17481630 ATCTCAATTTG
1 CTCTCAATTTC
17481641 CTCTCAATTTC
1 CTCTCAATTTC
17481652 CTCT
1 CTCT
17481656 TAAATTTCTC
Statistics
Matches: 58, Mismatches: 11, Indels: 17
0.67 0.13 0.20
Matches are distributed among these distances:
7 1 0.02
8 1 0.02
9 3 0.05
10 4 0.07
11 38 0.66
12 11 0.19
ACGTcount: A:0.24, C:0.30, G:0.02, T:0.44
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:17481635 original size:51 final size:51
Alignment explanation
Indices: 17481580--17481679 Score: 157
Period size: 51 Copynumber: 2.0 Consensus size: 51
17481570 TCAAATTTCC
17481580 TCTCAATTTGCTCTCAATTTCCT-TCCAAATTTCTCTCAAATCCATATTTAA
1 TCTCAATTTGCTCTCAATTTCCTCT-CAAATTTCTCTCAAATCCATATTTAA
* * *
17481631 TCTCAATTTGCTCTCAATTTCCTCTTAAATTTCTCTTAAATCCCTATTT
1 TCTCAATTTGCTCTCAATTTCCTCTCAAATTTCTCTCAAATCCATATTT
17481680 TAAAATAATT
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
51 44 0.98
52 1 0.02
ACGTcount: A:0.25, C:0.27, G:0.02, T:0.46
Consensus pattern (51 bp):
TCTCAATTTGCTCTCAATTTCCTCTCAAATTTCTCTCAAATCCATATTTAA
Found at i:17481690 original size:51 final size:51
Alignment explanation
Indices: 17481582--17481690 Score: 141
Period size: 51 Copynumber: 2.1 Consensus size: 51
17481572 AAATTTCCTC
**
17481582 TCAATTTGCTCTCAATTTCCTTCCAAATTTCTCTCAAATCCATATTTAATC
1 TCAATTTGCTCTCAATTTCCTTCCAAATTTCTCTCAAATCCATATTTAAAA
* * *
17481633 TCAATTTGCTCTCAATTTCC-TCTTAAATTTCTCTTAAATCCCTATTTTAAAA
1 TCAATTTGCTCTCAATTTCCTTC-CAAATTTCTCTCAAATCCATA-TTTAAAA
17481685 T-AATTT
1 TCAATTT
17481691 TTTTTTAAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
50 2 0.04
51 43 0.84
52 6 0.12
ACGTcount: A:0.28, C:0.24, G:0.02, T:0.46
Consensus pattern (51 bp):
TCAATTTGCTCTCAATTTCCTTCCAAATTTCTCTCAAATCCATATTTAAAA
Found at i:17481698 original size:16 final size:16
Alignment explanation
Indices: 17481677--17481716 Score: 64
Period size: 15 Copynumber: 2.6 Consensus size: 16
17481667 TAAATCCCTA
*
17481677 TTTTAAAATAATTTTT
1 TTTTAAAATAATATTT
17481693 TTTTAAAA-AATATTT
1 TTTTAAAATAATATTT
17481708 TTTTAAAAT
1 TTTTAAAAT
17481717 TTTTTTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 14 0.64
16 8 0.36
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TTTTAAAATAATATTT
Found at i:17481708 original size:15 final size:14
Alignment explanation
Indices: 17481677--17481726 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 14
17481667 TAAATCCCTA
17481677 TTTTAAAATAATTTTT
1 TTTTAAAA-AA-TTTT
17481693 TTTTAAAAAATATTT
1 TTTTAAAAAAT-TTT
17481708 TTTT--AAAATTTT
1 TTTTAAAAAATTTT
17481720 TTTTAAA
1 TTTTAAA
17481727 TCGTAAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
12 7 0.23
13 5 0.16
14 2 0.06
15 9 0.29
16 8 0.26
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TTTTAAAAAATTTT
Found at i:17484123 original size:22 final size:22
Alignment explanation
Indices: 17484097--17484148 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
17484087 CCTAAACCCT
* *
17484097 AACCCTTAACTTCAAAACCTTA
1 AACCCTTAACTTAAAAACCATA
17484119 AACCCTTAACTTAAAAACCATA
1 AACCCTTAACTTAAAAACCATA
17484141 AA-CCTTAA
1 AACCCTTAA
17484149 ACCCTAACCC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
21 6 0.21
22 22 0.79
ACGTcount: A:0.46, C:0.29, G:0.00, T:0.25
Consensus pattern (22 bp):
AACCCTTAACTTAAAAACCATA
Found at i:17484152 original size:57 final size:57
Alignment explanation
Indices: 17484082--17484206 Score: 196
Period size: 57 Copynumber: 2.2 Consensus size: 57
17484072 TGACAAATTC
* * *
17484082 TAAACCCTAAACCCTAACCCTTAACTTCAAAACCTTAAACCCTTAACTTAAAAACCA
1 TAAACCTTAAACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCA
* *
17484139 TAAACCTTAAACCCTAACCCTTAACTTAAAAACCCTAAACCCTTGACTTAAAAACCT
1 TAAACCTTAAACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCA
17484196 TAAACCCTTAA
1 TAAA-CCTTAA
17484207 CTTAACTTAA
Statistics
Matches: 62, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
57 56 0.90
58 6 0.10
ACGTcount: A:0.43, C:0.32, G:0.01, T:0.24
Consensus pattern (57 bp):
TAAACCTTAAACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCA
Found at i:17484182 original size:22 final size:22
Alignment explanation
Indices: 17484147--17484211 Score: 105
Period size: 22 Copynumber: 3.0 Consensus size: 22
17484137 CATAAACCTT
17484147 AAACCCT-AACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
17484168 AAACCCTAAACCCTTGACTTAA
1 AAACCCTAAACCCTTAACTTAA
*
17484190 AAACCTTAAACCCTTAACTTAA
1 AAACCCTAAACCCTTAACTTAA
17484212 CTTAAAAACC
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
21 7 0.17
22 33 0.82
ACGTcount: A:0.43, C:0.31, G:0.02, T:0.25
Consensus pattern (22 bp):
AAACCCTAAACCCTTAACTTAA
Done.