Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 160 of 175
Found at i:48086228 original size:10 final size:10
Alignment explanation
Indices: 48086198--48086258 Score: 59
Period size: 10 Copynumber: 5.8 Consensus size: 10
48086188 GAAGCAGGCC
48086198 AGAAAAAAAGA
1 AGAAAAAAA-A
*
48086209 GAGAAGAAAAA
1 -AGAAAAAAAA
48086220 AGAAAAAAAAA
1 AG-AAAAAAAA
*
48086231 AGAGAAAAAA
1 AGAAAAAAAA
**
48086241 AGGGAAAAAA
1 AGAAAAAAAA
48086251 AGAAAAAA
1 AGAAAAAA
48086259 GACAAAAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
10 24 0.57
11 10 0.24
12 8 0.19
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (10 bp):
AGAAAAAAAA
Found at i:48086446 original size:16 final size:16
Alignment explanation
Indices: 48086425--48086456 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
48086415 GTATTTATAT
48086425 TTTTAATTTAATTTAA
1 TTTTAATTTAATTTAA
*
48086441 TTTTAATTTATTTTAA
1 TTTTAATTTAATTTAA
48086457 ATAATTTTAA
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:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTTAATTTAATTTAA
Found at i:48086908 original size:20 final size:22
Alignment explanation
Indices: 48086871--48086912 Score: 70
Period size: 20 Copynumber: 2.0 Consensus size: 22
48086861 TTCGTCTTTC
48086871 AAAATTCTCATGTTTTCAAAAT
1 AAAATTCTCATGTTTTCAAAAT
48086893 AAAATTCT-AT-TTTTCAAAAT
1 AAAATTCTCATGTTTTCAAAAT
48086913 TTTTCGTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 10 0.50
21 2 0.10
22 8 0.40
ACGTcount: A:0.43, C:0.12, G:0.02, T:0.43
Consensus pattern (22 bp):
AAAATTCTCATGTTTTCAAAAT
Found at i:48086926 original size:18 final size:18
Alignment explanation
Indices: 48086903--48087449 Score: 396
Period size: 18 Copynumber: 30.7 Consensus size: 18
48086893 AAAATTCTAT
*
48086903 TTTTCAAAATTTTTCGTG
1 TTTTCAAAAATTTTCGTG
**
48086921 TTTTCAAAAAATTCCCGTG
1 TTTTC-AAAAATTTTCGTG
*
48086940 -TTTCAAAAATCTTCGTG
1 TTTTCAAAAATTTTCGTG
*
48086957 CTTTCAAAAATCTTT-GTG
1 TTTTCAAAAAT-TTTCGTG
48086975 TTTTC-AAAA-TTTCG-G
1 TTTTCAAAAATTTTCGTG
*
48086990 TGTTTCAAAAATTTTCATG
1 T-TTTCAAAAATTTTCGTG
**
48087009 TTTTCAAAAAAAATTCCCGTG
1 TTTTC---AAAAATTTTCGTG
*
48087030 TTTT-AAAAATTTAT-GCG
1 TTTTCAAAAATTT-TCGTG
*
48087047 TTTTCAAAAATTTTCGAG
1 TTTTCAAAAATTTTCGTG
** *
48087065 TTTTCAAAAATCCTCGTT
1 TTTTCAAAAATTTTCGTG
48087083 TTTTCAAAAA-TTTCG-G
1 TTTTCAAAAATTTTCGTG
**
48087099 TGTTTCAAAAATTCCCGTG
1 T-TTTCAAAAATTTTCGTG
* **
48087118 TTTTAAAAAAAATTCTGTG
1 TTTTCAAAAATTTTC-GTG
* *
48087137 TTTTCAAAAAATTTCGTA
1 TTTTCAAAAATTTTCGTG
**
48087155 TTTTCAAAAAAAAATTCGTG
1 TTTTC--AAAAATTTTCGTG
**
48087175 -TTTCAAAAATCCTCGTG
1 TTTTCAAAAATTTTCGTG
* *
48087192 TTTTCAAAAATTCTGGTG
1 TTTTCAAAAATTTTCGTG
48087210 -TTTCAAAAATTTTCGTG
1 TTTTCAAAAATTTTCGTG
*
48087227 TTTTCAAAAA-TTCCG-G
1 TTTTCAAAAATTTTCGTG
* * *
48087243 TGATCCAAAAATTTTTGTG
1 T-TTTCAAAAATTTTCGTG
* *
48087262 TTTTCTAAATATTTCCGTG
1 TTTTC-AAAAATTTTCGTG
48087281 -TTTCAAAAATTTTCGTG
1 TTTTCAAAAATTTTCGTG
** *
48087298 TTTTCACTAATTTCCGTG
1 TTTTCAAAAATTTTCGTG
** * * *
48087316 TTTTCAACGACTCTAGTG
1 TTTTCAAAAATTTTCGTG
*
48087334 -TTTCACAAATTTTCGTG
1 TTTTCAAAAATTTTCGTG
*
48087351 TTTT-AAAAAATTT-GTG
1 TTTTCAAAAATTTTCGTG
* *
48087367 TTTTGAAAAACTTCTCGTG
1 TTTTCAAAAA-TTTTCGTG
*
48087386 -TTTCAAAAATTGTCGTG
1 TTTTCAAAAATTTTCGTG
**
48087403 TTTAAAAAAATTTTCGTG
1 TTTTCAAAAATTTTCGTG
*
48087421 -TTTCTAAAATTTTCGTG
1 TTTTCAAAAATTTTCGTG
48087438 -TTTCAAAAATTT
1 TTTTCAAAAATTT
48087450 CATTTAAAAA
Statistics
Matches: 414, Mismatches: 83, Indels: 65
0.74 0.15 0.12
Matches are distributed among these distances:
15 5 0.01
16 15 0.04
17 146 0.35
18 172 0.42
19 51 0.12
20 11 0.03
21 14 0.03
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.44
Consensus pattern (18 bp):
TTTTCAAAAATTTTCGTG
Found at i:48087120 original size:109 final size:107
Alignment explanation
Indices: 48086917--48087446 Score: 396
Period size: 109 Copynumber: 4.9 Consensus size: 107
48086907 CAAAATTTTT
* * * *
48086917 CGTGTTTTCAAAAAATTCCCG-TGTTTCAAAAATCTTCGTGCTTTCAAAAATCTTTGTGTTTTC-
1 CGTGTTTTCAAAAAATT-TCGAT-TTTCAAAAATATTCGTG-TTTCAAAAATCCTCGTGTTTTCA
*
48086980 AAAATTTCGGTGTTTCAAAAATTTTCATGTTTTCAAAAAAAATTCC
63 AAAATTTCGGTGTTTCAAAAATTTTCGTGTTTTCAAAAAAAATT-C
* * * *
48087026 CGTGTTTT-AAAAATTTATGCG-TTTTCAAAAATTTTCGAGTTTTCAAAAATCCTCGTTTTTTCA
1 CGTGTTTTCAAAAAATT-T-CGATTTTCAAAAATATTCGTG-TTTCAAAAATCCTCGTGTTTTCA
**
48087089 AAAATTTCGGTGTTTCAAAAATTCCCGTGTTTT-AAAAAAAATTC
63 AAAATTTCGGTGTTTCAAAAATTTTCGTGTTTTCAAAAAAAATTC
* *
48087133 TGTGTTTTCAAAAAATTTCGTATTTTCAAAAAAAAATTCGTGTTTCAAAAATCCTCGTGTTTTCA
1 CGTGTTTTCAAAAAATTTCG-ATTTTC--AAAAATATTCGTGTTTCAAAAATCCTCGTGTTTTCA
48087198 AAAA-TTCTGGTGTTTCAAAAATTTTCGTGTTTTC---AAAAATTC
63 AAAATTTC-GGTGTTTCAAAAATTTTCGTGTTTTCAAAAAAAATTC
* * * * * * **
48087240 CG-GTGATCCAAAAATTTTTGTGTTTTC-TAAATATTTCCGTGTTTCAAAAATTTTCGTGTTTTC
1 CGTGT-TTTCAAAAAATTTCG-ATTTTCAAAAATA-TT-CGTGTTTCAAAAATCCTCGTGTTTTC
** * ** * * * * * *
48087303 ACTAATTTCCGTGTTTTCAACGACTCTAGTG-TTTC--ACAAATTTT
62 AAAAATTTCGGTG-TTTCAAAAATTTTCGTGTTTTCAAAAAAAATTC
* * ** **
48087347 CGTGTTTT-AAAAAATTT-GTGTTTTGAAAAACT-TCTCGTGTTTCAAAAATTGTCGTGTTTAAA
1 CGTGTTTTCAAAAAATTTCG-ATTTTCAAAAA-TAT-TCGTGTTTCAAAAATCCTCGTGTTTTCA
*
48087409 AAAATTTTC-GTGTTTCTAAAATTTTCGTG-TTTCAAAAA
63 AAAA-TTTCGGTGTTTCAAAAATTTTCGTGTTTTCAAAAA
48087447 TTTCATTTAA
Statistics
Matches: 341, Mismatches: 58, Indels: 47
0.76 0.13 0.11
Matches are distributed among these distances:
104 19 0.06
105 39 0.11
106 56 0.16
107 59 0.17
108 68 0.20
109 90 0.26
110 10 0.03
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.43
Consensus pattern (107 bp):
CGTGTTTTCAAAAAATTTCGATTTTCAAAAATATTCGTGTTTCAAAAATCCTCGTGTTTTCAAAA
ATTTCGGTGTTTCAAAAATTTTCGTGTTTTCAAAAAAAATTC
Found at i:48087238 original size:35 final size:35
Alignment explanation
Indices: 48086903--48087448 Score: 384
Period size: 35 Copynumber: 15.3 Consensus size: 35
48086893 AAAATTCTAT
* * **
48086903 TTTTCAAAATTTTTCGTGTTTTCAAAAAATTCCCGTG
1 TTTTCAAAAATTCTCGTG-TTTC-AAAAATTTTCGTG
48086940 -TTTCAAAAA-TCTTCGTGCTTTCAAAAATCTTT-GTG
1 TTTTCAAAAATTC-TCGTG-TTTCAAAAAT-TTTCGTG
*
48086975 TTTTC-AAAATT-TCGGTGTTTCAAAAATTTTCATG
1 TTTTCAAAAATTCTC-GTGTTTCAAAAATTTTCGTG
* * *
48087009 TTTTCAAAAAAAATTCCCGTGTTTTAAAAATTTAT-GCG
1 TTTTC---AAAAATTCTCGTGTTTCAAAAATTT-TCGTG
* * ** *
48087047 TTTTCAAAAATTTTCGAGTTTTCAAAAATCCTCGTT
1 TTTTCAAAAATTCTCGTG-TTTCAAAAATTTTCGTG
**
48087083 TTTTCAAAAATT-TCGGTGTTTCAAAAATTCCCGTG
1 TTTTCAAAAATTCTC-GTGTTTCAAAAATTTTCGTG
* * *
48087118 TTTTAAAAAAAATTCT-GTGTTTTCAAAAAATTTCGTA
1 TTTT--CAAAAATTCTCGTG-TTTCAAAAATTTTCGTG
* **
48087155 TTTTCAAAAAAAAAT-TCGTGTTTCAAAAATCCTCGTG
1 TTTTC---AAAAATTCTCGTGTTTCAAAAATTTTCGTG
*
48087192 TTTTCAAAAATTCTGGTGTTTCAAAAATTTTCGTG
1 TTTTCAAAAATTCTCGTGTTTCAAAAATTTTCGTG
* * *
48087227 TTTTCAAAAATTC-CGGTGATCCAAAAATTTTTGTG
1 TTTTCAAAAATTCTC-GTGTTTCAAAAATTTTCGTG
*
48087262 TTTTCTAAATATT-TCCGTGTTTCAAAAATTTTCGTG
1 TTTTC-AAAAATTCT-CGTGTTTCAAAAATTTTCGTG
** ** * * *
48087298 TTTTCACTAATT-TCCGTGTTTTCAACGACTCTAGTG
1 TTTTCAAAAATTCT-CGTG-TTTCAAAAATTTTCGTG
* * * *
48087334 -TTTCACAAATTTTCGTGTTTTAAAAAATTT-GTG
1 TTTTCAAAAATTCTCGTGTTTCAAAAATTTTCGTG
* *
48087367 TTTTGAAAAACTTCTCGTGTTTCAAAAATTGTCGTG
1 TTTTCAAAAA-TTCTCGTGTTTCAAAAATTTTCGTG
** * *
48087403 TTTAAAAAAATTTTCGTGTTTCTAAAATTTTCGTG
1 TTTTCAAAAATTCTCGTGTTTCAAAAATTTTCGTG
48087438 -TTTCAAAAATT
1 TTTTCAAAAATT
48087449 TCATTTAAAA
Statistics
Matches: 404, Mismatches: 72, Indels: 69
0.74 0.13 0.13
Matches are distributed among these distances:
33 6 0.01
34 49 0.12
35 165 0.41
36 102 0.25
37 44 0.11
38 36 0.09
39 2 0.00
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.44
Consensus pattern (35 bp):
TTTTCAAAAATTCTCGTGTTTCAAAAATTTTCGTG
Found at i:48089158 original size:45 final size:44
Alignment explanation
Indices: 48089067--48089175 Score: 107
Period size: 45 Copynumber: 2.4 Consensus size: 44
48089057 ATACGTAAAT
**
48089067 TTATGAGGGTATACCAAAAAAAAAAGTATGAGAGAGTATTAAAAA
1 TTATGAGGG-ATACCAAAAAAAAAAGTATGAGAGAGTACCAAAAA
*
48089112 TTATGAGGGAATACCAAACTAAAAAAA-T-TGATGA-AGTACCAGAAA
1 TTATGAGGG-ATACCAAA--AAAAAAAGTATGA-GAGAGTACCAAAAA
* *
48089157 TTACGAGGGGTACCAAAAA
1 TTATGAGGGATACCAAAAA
48089176 TATACGAGGG
Statistics
Matches: 55, Mismatches: 6, Indels: 9
0.79 0.09 0.13
Matches are distributed among these distances:
42 2 0.04
44 7 0.13
45 36 0.65
46 3 0.05
47 7 0.13
ACGTcount: A:0.50, C:0.09, G:0.20, T:0.20
Consensus pattern (44 bp):
TTATGAGGGATACCAAAAAAAAAAGTATGAGAGAGTACCAAAAA
Found at i:48089171 original size:19 final size:20
Alignment explanation
Indices: 48089147--48089185 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
48089137 AATTGATGAA
*
48089147 GTACCAGAAAT-TACGAGGG
1 GTACCAAAAATATACGAGGG
48089166 GTACCAAAAATATACGAGGG
1 GTACCAAAAATATACGAGGG
48089186 AGAGGGAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.41, C:0.15, G:0.28, T:0.15
Consensus pattern (20 bp):
GTACCAAAAATATACGAGGG
Found at i:48089359 original size:19 final size:19
Alignment explanation
Indices: 48089303--48089359 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 19
48089293 AAACAGGTAG
* *
48089303 AGTACCAAAAATCAGGAGGA
1 AGTA-CAAAAATTATGAGGA
*
48089323 AATACTACAAAA-TATGAGGA
1 AGTAC-A-AAAATTATGAGGA
48089343 AGTACAAAAATTATGAG
1 AGTACAAAAATTATGAG
48089360 AGGATATAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 7
0.73 0.10 0.17
Matches are distributed among these distances:
18 4 0.13
19 8 0.27
20 14 0.47
21 4 0.13
ACGTcount: A:0.53, C:0.11, G:0.19, T:0.18
Consensus pattern (19 bp):
AGTACAAAAATTATGAGGA
Found at i:48090189 original size:20 final size:21
Alignment explanation
Indices: 48090132--48090190 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 21
48090122 GCCGGGAATA
* * *
48090132 CAAAAAATTATGAGAAGATGC
1 CAAAAAATTATCAGGAGATAC
*
48090153 CAAAAAATT-TTAGG-GAGTAC
1 CAAAAAATTATCAGGAGA-TAC
48090173 CAAAAAATTATCAGGAGA
1 CAAAAAATTATCAGGAGA
48090191 AAAAATAATG
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
19 2 0.06
20 14 0.45
21 13 0.42
22 2 0.06
ACGTcount: A:0.51, C:0.10, G:0.19, T:0.20
Consensus pattern (21 bp):
CAAAAAATTATCAGGAGATAC
Found at i:48090993 original size:31 final size:31
Alignment explanation
Indices: 48090949--48091013 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
48090939 CATACCAATA
48090949 ATTATGAAGTAATACTAAAAATTATGAGAAT
1 ATTATGAAGTAATACTAAAAATTATGAGAAT
* *
48090980 ATTATG-AGATAATACTAAAATTTATGAGATT
1 ATTATGAAG-TAATACTAAAAATTATGAGAAT
48091011 ATT
1 ATT
48091014 TTATTTTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 2 0.06
31 29 0.94
ACGTcount: A:0.48, C:0.03, G:0.12, T:0.37
Consensus pattern (31 bp):
ATTATGAAGTAATACTAAAAATTATGAGAAT
Found at i:48098232 original size:16 final size:17
Alignment explanation
Indices: 48098213--48098245 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
48098203 GATTTTATTC
48098213 CAATTAGA-TTGATTTT
1 CAATTAGATTTGATTTT
*
48098229 CAATTTGATTTGATTTT
1 CAATTAGATTTGATTTT
48098246 ATTCAAATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.27, C:0.06, G:0.12, T:0.55
Consensus pattern (17 bp):
CAATTAGATTTGATTTT
Found at i:48098732 original size:6 final size:6
Alignment explanation
Indices: 48098721--48098773 Score: 88
Period size: 6 Copynumber: 8.8 Consensus size: 6
48098711 CTAGTGTTTT
* *
48098721 AATATA AATATA AATATA AATATA AATATT AATATT AATATA AATATA
1 AATATA AATATA AATATA AATATA AATATA AATATA AATATA AATATA
48098769 AATAT
1 AATAT
48098774 TTGTTTATAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 45 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (6 bp):
AATATA
Found at i:48098816 original size:12 final size:13
Alignment explanation
Indices: 48098777--48098817 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
48098767 TAAATATTTG
48098777 TTTATATTATATTA
1 TTTATATT-TATTA
*
48098791 TTTATA-TAATTA
1 TTTATATTTATTA
48098803 TTTATATTTA-TA
1 TTTATATTTATTA
48098815 TTT
1 TTT
48098818 GTTCGTATTG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
12 15 0.62
13 3 0.12
14 6 0.25
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (13 bp):
TTTATATTTATTA
Found at i:48101893 original size:3 final size:3
Alignment explanation
Indices: 48101885--48101927 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
48101875 TAACACACAA
48101885 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT C
48101928 CAACTTTAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.35, G:0.00, T:0.33
Consensus pattern (3 bp):
CAT
Found at i:48105256 original size:26 final size:26
Alignment explanation
Indices: 48105196--48105269 Score: 64
Period size: 26 Copynumber: 2.8 Consensus size: 26
48105186 AAACCATAGT
*
48105196 AATAAAA-ATAATATAATAATATAAA
1 AATAAAATAAAATATAATAATATAAA
** *
48105221 AAGT-GGATAAAATATAATGATATAAA
1 AA-TAAAATAAAATATAATAATATAAA
48105247 AATAAAATAAGAATA-AAGTAATA
1 AATAAAATAA-AATATAA-TAATA
48105270 GGTAATTATA
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
25 4 0.11
26 25 0.68
27 8 0.22
ACGTcount: A:0.66, C:0.00, G:0.08, T:0.26
Consensus pattern (26 bp):
AATAAAATAAAATATAATAATATAAA
Found at i:48106450 original size:21 final size:23
Alignment explanation
Indices: 48106411--48106467 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
48106401 GTTTTAAAAT
* *
48106411 TTGGGCTCAGGTAGTTTTA-GG-A
1 TTGGGCT-AGGTTGGTTTAGGGTA
48106433 TTGGGCTAGGTTGGTTTAGGGTA
1 TTGGGCTAGGTTGGTTTAGGGTA
48106456 TTGGGCTAGGTT
1 TTGGGCTAGGTT
48106468 AGTTGGGTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 9 0.29
22 9 0.29
23 13 0.42
ACGTcount: A:0.14, C:0.07, G:0.40, T:0.39
Consensus pattern (23 bp):
TTGGGCTAGGTTGGTTTAGGGTA
Found at i:48115543 original size:27 final size:28
Alignment explanation
Indices: 48115505--48115559 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
48115495 CATTTCTCTC
*
48115505 GTCCCAACGGGCTTGCCCT-TGTTTACT
1 GTCCCAACGGGCTTACCCTGTGTTTACT
* *
48115532 GTCCCAGCGGGCTTACCTTGTGTTTACT
1 GTCCCAACGGGCTTACCCTGTGTTTACT
48115560 ATCTTGATTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
27 16 0.67
28 8 0.33
ACGTcount: A:0.11, C:0.31, G:0.24, T:0.35
Consensus pattern (28 bp):
GTCCCAACGGGCTTACCCTGTGTTTACT
Found at i:48124063 original size:51 final size:51
Alignment explanation
Indices: 48123949--48124056 Score: 153
Period size: 51 Copynumber: 2.1 Consensus size: 51
48123939 TCTGTCTAAG
* * * * *
48123949 GTGTCACAACACCACAAGTTAGTGTCGTGACATTGAAGTATTTTGCCCTCA
1 GTGTCACAACACCAAAAGTTAGTATCATGACATTGAAGTATTCTACCCTCA
* *
48124000 GTGTCGCAACACCAAAAGTTAGTATCATGACATTGGAGTATTCTACCCTCA
1 GTGTCACAACACCAAAAGTTAGTATCATGACATTGAAGTATTCTACCCTCA
48124051 GTGTCA
1 GTGTCA
48124057 TGACACCTAT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (51 bp):
GTGTCACAACACCAAAAGTTAGTATCATGACATTGAAGTATTCTACCCTCA
Found at i:48124769 original size:114 final size:114
Alignment explanation
Indices: 48124566--48125237 Score: 1014
Period size: 114 Copynumber: 5.9 Consensus size: 114
48124556 AAAATAAGCA
* * ** * * *
48124566 TTAGCGGCATTTTTGAGAAAGCGCCGC-AAAAAATCTAAGCGAAACGACGTCGTTTCCCGAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
* * * *
48124630 TCGGGGATTTAGAGGCATTTCTAAGAAAGCGCCGTTAATGCTCAGGGCT
66 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
* * *
48124679 TTAGCGGCGTTTTTCG-GAAAGCGCCGCAAAAAAACCTAAGACCAACGACAG-TGTTTTTTGAGC
1 TTAGCGGCGTTTTT-GAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGAC-GCCGTTTTCTGAGC
*
48124742 TTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGTTAATGCTCAGGGCT
64 TTTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
* *
48124793 TTAGCGGCATTTTTG-GAAAAGCGCTGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
1 TTAGCGGCGTTTTTGAG-AAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCT
48124857 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
65 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
* *
48124907 TTAGCGGCGTTTTTGACAAAGCACCGC-AAAAAACCTAAGCCCAACGACGCCGTTTTCTCGAGCT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCT-GAGCT
* *
48124971 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGTGCCGCTAATGCTCAAGGCT
65 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
* * *
48125021 TTAACGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGTCCAACGACGCCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
*
48125086 TCGAGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
66 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
*
48125135 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGTCCAACGACGCCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
*
48125200 TCGGGGATTTAGCGGCGTTTTT-GGAAAAGCGCCGCTAA
66 TCGGGGATTTAGCGGCGTTTTTAAG-AAAGCGCCGCTAA
48125238 AAATAATTTA
Statistics
Matches: 514, Mismatches: 36, Indels: 17
0.91 0.06 0.03
Matches are distributed among these distances:
113 59 0.11
114 424 0.82
115 31 0.06
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.26
Consensus pattern (114 bp):
TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTCTGAGCTT
TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
Found at i:48125505 original size:15 final size:15
Alignment explanation
Indices: 48125485--48125515 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
48125475 CATATTTTAA
48125485 GGTTTAGGGAGTATG
1 GGTTTAGGGAGTATG
*
48125500 GGTTTAGGGATTATG
1 GGTTTAGGGAGTATG
48125515 G
1 G
48125516 ATTAGGGGTT
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:0.19, C:0.00, G:0.45, T:0.35
Consensus pattern (15 bp):
GGTTTAGGGAGTATG
Found at i:48125789 original size:14 final size:15
Alignment explanation
Indices: 48125755--48125796 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
48125745 ATTTTAAGGT
* *
48125755 TTAGGGAGTATGGAT
1 TTAGGGATTATGGAA
48125770 TTAGGGATTAT-GAA
1 TTAGGGATTATGGAA
*
48125784 TTAGGGATCATGG
1 TTAGGGATTATGG
48125797 TTTAAGGGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.29, C:0.02, G:0.36, T:0.33
Consensus pattern (15 bp):
TTAGGGATTATGGAA
Found at i:48125820 original size:21 final size:22
Alignment explanation
Indices: 48125795--48125839 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 22
48125785 TAGGGATCAT
48125795 GGTTTAAGGGTT-GGGATTTAA
1 GGTTTAAGGGTTAGGGATTTAA
*
48125816 GGTTTAAGGGTTAGGGGTTTAA
1 GGTTTAAGGGTTAGGGATTTAA
48125838 GG
1 GG
48125840 GTTAGATGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 12 0.55
22 10 0.45
ACGTcount: A:0.22, C:0.00, G:0.42, T:0.36
Consensus pattern (22 bp):
GGTTTAAGGGTTAGGGATTTAA
Found at i:48125836 original size:15 final size:15
Alignment explanation
Indices: 48125816--48125844 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
48125806 TGGGATTTAA
48125816 GGTTTAAGGGTTAGG
1 GGTTTAAGGGTTAGG
48125831 GGTTTAAGGGTTAG
1 GGTTTAAGGGTTAG
48125845 ATGTTAGGGG
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:0.21, C:0.00, G:0.45, T:0.34
Consensus pattern (15 bp):
GGTTTAAGGGTTAGG
Found at i:48125863 original size:20 final size:21
Alignment explanation
Indices: 48125825--48125864 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
48125815 AGGTTTAAGG
*
48125825 GTTAGGGGTTTAAGGGTTAGAT
1 GTTAGGGG-TTAAGAGTTAGAT
48125847 GTTAGGGG-TAAGAGTTAG
1 GTTAGGGGTTAAGAGTTAG
48125865 GGATTTAGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
22 8 0.47
ACGTcount: A:0.25, C:0.00, G:0.42, T:0.33
Consensus pattern (21 bp):
GTTAGGGGTTAAGAGTTAGAT
Found at i:48126785 original size:106 final size:107
Alignment explanation
Indices: 48126636--48126847 Score: 345
Period size: 106 Copynumber: 2.0 Consensus size: 107
48126626 AGATAAGCAA
* *
48126636 TAGCGGCGTTTTTATAAAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAATAAAATAAAAAT
1 TAGCGGCATTTTTATAAAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAACAAAATAAAAAT
* * * *
48126701 TTTTTAGCATAGCAAAACTGTGTCATTTTGTTCAAAATGAAT
66 TTTCTAGAATAGCAAAACGGCGTCATTTTGTTCAAAATGAAT
*
48126743 TAGCGGCATTTTT-TATAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAACAAAATAAAAAT
1 TAGCGGCATTTTTATAAAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAACAAAATAAAAAT
*
48126807 TTTCTAGAATAGCAAAACGGCGTCGTTTTGTTCAAAATGAA
66 TTTCTAGAATAGCAAAACGGCGTCATTTTGTTCAAAATGAA
48126848 AAAATTTGAA
Statistics
Matches: 97, Mismatches: 8, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
106 85 0.88
107 12 0.12
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.29
Consensus pattern (107 bp):
TAGCGGCATTTTTATAAAAAAACGCCGCAAAAAATAAATCAATTTATAAAAAACAAAATAAAAAT
TTTCTAGAATAGCAAAACGGCGTCATTTTGTTCAAAATGAAT
Found at i:48127239 original size:154 final size:153
Alignment explanation
Indices: 48126895--48127623 Score: 1033
Period size: 154 Copynumber: 4.8 Consensus size: 153
48126885 TCACATAGCA
* * * **
48126895 AAACGAAATGAATACATCTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATAAAAAAAT
1 AAACTAAATGAATACATTTCAAAAATAATGTACTAAAATAATGTAAAATAATAAAATACGAAAAT
* * *
48126960 AGTATA-TTTTTTAAAAGTAATAAAATTCGGGGAAAAAATACGAACAAAGGG-CAGAAATAAGGG
66 AATATATTTTTTTGAAAGTAATAAAA-TCCGGGAAAAAATACGAACAAAGGGCCA-AAATAA-GG
48127023 GTTTTTTTT-AATTTATTTAAAAAAC
128 GTTTTTTTTAAATTTATTTAAAAAAC
* * * * *
48127048 AAAGTAAATTAATATATTT-AAAACATAATGTACTAAAATCATGTAAAACAATAAAATACGAAAA
1 AAACTAAATGAATACATTTCAAAA-ATAATGTACTAAAATAATGTAAAATAATAAAATACGAAAA
* * *
48127112 TAATATATTTTTATTGAAAGTAATAAAGTCTGAGAAAAAATACGAACAAAGGGCCAAAATAAGGG
65 TAATATATTTTT-TTGAAAGTAATAAAATCCGGGAAAAAATACGAACAAAGGGCCAAAATAAGGG
*
48127177 TTTTTTTTAAATTTATTTAAAAATC
129 TTTTTTTTAAATTTATTTAAAAAAC
48127202 AAACTAAATGAATACATTTCAAAAATAATGTACTAAAATAATGTAAAATAATAAAATACGAAAAT
1 AAACTAAATGAATACATTTCAAAAATAATGTACTAAAATAATGTAAAATAATAAAATACGAAAAT
*
48127267 AATATATTTTTTTG-AAGTAATAAAATCCGGGAAAAAATACGAACAAAGGGCCGAAATAAGGG-T
66 AATATATTTTTTTGAAAGTAATAAAATCCGGGAAAAAATACGAACAAAGGGCCAAAATAAGGGTT
48127330 TTTTTTAAATTTATTTAAAAAAC
131 TTTTTTAAATTTATTTAAAAAAC
* * * *
48127353 ACAGTAAATTAATACATTTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATACGAAAAT
1 AAACTAAATGAATACATTTCAAAAATAATGTACTAAAATAATGTAAAATAATAAAATACGAAAAT
*
48127418 AATATATTTTTATTGAAAGTAATAAAATCCGGGAAAAAAATACGAACAAAGGGCCGAAATAAGGG
66 AATATATTTTT-TTGAAAGTAATAAAATCCGGG-AAAAAATACGAACAAAGGGCCAAAATAAGGG
* *
48127483 TTTTTTTAAAAATTTATTTAAAAATC
129 TTTTTTT-TAAATTTATTTAAAAAAC
* *
48127509 AAACTAAATGAATACATTTCAAAAATAATGTACTAAAATAATGTAAAATAATAAATTTA-AAAAA
1 AAACTAAATGAATACATTTCAAAAATAATGTACTAAAATAATGTAAAATAATAAA-ATACGAAAA
* * * **
48127573 TAGTATA-TTTTTTAAAAGTAATAAAGTCCGAAAAAAAATACGAACAAAGGG
65 TAATATATTTTTTTGAAAGTAATAAAATCCGGGAAAAAATACGAACAAAGGG
48127624 TCGAAGTACG
Statistics
Matches: 521, Mismatches: 43, Indels: 24
0.89 0.07 0.04
Matches are distributed among these distances:
151 95 0.18
152 50 0.10
153 106 0.20
154 162 0.31
155 29 0.06
156 77 0.15
157 2 0.00
ACGTcount: A:0.52, C:0.08, G:0.11, T:0.29
Consensus pattern (153 bp):
AAACTAAATGAATACATTTCAAAAATAATGTACTAAAATAATGTAAAATAATAAAATACGAAAAT
AATATATTTTTTTGAAAGTAATAAAATCCGGGAAAAAATACGAACAAAGGGCCAAAATAAGGGTT
TTTTTTAAATTTATTTAAAAAAC
Found at i:48127250 original size:307 final size:307
Alignment explanation
Indices: 48126895--48127623 Score: 1192
Period size: 307 Copynumber: 2.4 Consensus size: 307
48126885 TCACATAGCA
* * *
48126895 AAACGAAATGAATACATCTCAAACATAATGTACTAAAATAATGTAAAATAATAAAATAAAAAAAT
1 AAACTAAATGAATACATTTCAAAAATAATGTACTAAAATAATGTAAAATAATAAAATAAAAAAAT
*
48126960 AGTATATTTTTTAAAAGTAATAAAATTCGGGGAAAAAATACGAACAAAGGGCAGAAATAAGGGGT
66 AGTATATTTTTTAAAAGTAATAAAA-TCCGGGAAAAAATACGAACAAAGGGCAGAAATAA-GGGT
* * *
48127025 TTTTTTTAATTTATTTAAAAAACAAAGTAAATTAATATATTTAAAACATAATGTACTAAAATCAT
129 TTTTTTAAATTTATTTAAAAAACAAAGTAAATTAATACATTTAAAACATAATGTACTAAAATAAT
* *
48127090 GTAAAACAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAGTCTGAG-AAAAAATA
194 GTAAAACAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAATCCGAGAAAAAAATA
*
48127154 CGAACAAAGGGCCAAAATAAGGGTTTTTTT-TAAATTTATTTAAAAATC
259 CGAACAAAGGGCCAAAATAAGGGTTTTTTTAAAAATTTATTTAAAAATC
**
48127202 AAACTAAATGAATACATTTCAAAAATAATGTACTAAAATAATGTAAAATAATAAAATACGAAAAT
1 AAACTAAATGAATACATTTCAAAAATAATGTACTAAAATAATGTAAAATAATAAAATAAAAAAAT
* ** *
48127267 AATATATTTTTTTGAAGTAATAAAATCCGGGAAAAAATACGAACAAAGGGCCGAAATAAGGGTTT
66 AGTATATTTTTTAAAAGTAATAAAATCCGGGAAAAAATACGAACAAAGGGCAGAAATAAGGGTTT
* *
48127332 TTTTAAATTTATTTAAAAAACACAGTAAATTAATACATTTCAAACATAATGTACTAAAATAATGT
131 TTTTAAATTTATTTAAAAAACAAAGTAAATTAATACATTTAAAACATAATGTACTAAAATAATGT
* *
48127397 AAAATAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAATCCGGGAAAAAAATACG
196 AAAACAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAATCCGAGAAAAAAATACG
*
48127462 AACAAAGGGCCGAAATAAGGGTTTTTTTAAAAATTTATTTAAAAATC
261 AACAAAGGGCCAAAATAAGGGTTTTTTTAAAAATTTATTTAAAAATC
* *
48127509 AAACTAAATGAATACATTTCAAAAATAATGTACTAAAATAATGTAAAATAATAAATTTAAAAAAT
1 AAACTAAATGAATACATTTCAAAAATAATGTACTAAAATAATGTAAAATAATAAAATAAAAAAAT
* **
48127574 AGTATATTTTTTAAAAGTAATAAAGTCCGAAAAAAAATACGAACAAAGGG
66 AGTATATTTTTTAAAAGTAATAAAATCCGGGAAAAAATACGAACAAAGGG
48127624 TCGAAGTACG
Statistics
Matches: 389, Mismatches: 31, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
305 116 0.30
306 69 0.18
307 204 0.52
ACGTcount: A:0.52, C:0.08, G:0.11, T:0.29
Consensus pattern (307 bp):
AAACTAAATGAATACATTTCAAAAATAATGTACTAAAATAATGTAAAATAATAAAATAAAAAAAT
AGTATATTTTTTAAAAGTAATAAAATCCGGGAAAAAATACGAACAAAGGGCAGAAATAAGGGTTT
TTTTAAATTTATTTAAAAAACAAAGTAAATTAATACATTTAAAACATAATGTACTAAAATAATGT
AAAACAATAAAATACGAAAATAATATATTTTTATTGAAAGTAATAAAATCCGAGAAAAAAATACG
AACAAAGGGCCAAAATAAGGGTTTTTTTAAAAATTTATTTAAAAATC
Found at i:48130909 original size:19 final size:19
Alignment explanation
Indices: 48130882--48130928 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 19
48130872 ATAATTTCTA
* *
48130882 ATTTGTATATTATTTTAAT
1 ATTTTTATATTAATTTAAT
48130901 ATTTTTATATATTAATTTAAT
1 A-TTTT-TATATTAATTTAAT
48130922 -TTTTTAT
1 ATTTTTAT
48130929 TTTTTAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
18 3 0.12
19 5 0.21
20 3 0.12
21 13 0.54
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (19 bp):
ATTTTTATATTAATTTAAT
Found at i:48130935 original size:20 final size:21
Alignment explanation
Indices: 48130887--48130928 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
48130877 TTCTAATTTG
*
48130887 TATATTATTTTAATATTTTTA
1 TATATTAATTTAATATTTTTA
48130908 TATATTAATTTAAT-TTTTTA
1 TATATTAATTTAATATTTTTA
48130928 T
1 T
48130929 TTTTTAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 7 0.35
21 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
TATATTAATTTAATATTTTTA
Found at i:48131229 original size:25 final size:26
Alignment explanation
Indices: 48131191--48131247 Score: 80
Period size: 25 Copynumber: 2.2 Consensus size: 26
48131181 AAAATTATAT
* *
48131191 TTAAAAATAGTAAATTAT-TTTTTAA
1 TTAAAAATAGTAAACTATATTTTAAA
*
48131216 TTAAAAATATTAAACTATATTTTAAA
1 TTAAAAATAGTAAACTATATTTTAAA
48131242 TTAAAA
1 TTAAAA
48131248 TTAAAATTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 16 0.57
26 12 0.43
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (26 bp):
TTAAAAATAGTAAACTATATTTTAAA
Found at i:48133249 original size:83 final size:83
Alignment explanation
Indices: 48133157--48133321 Score: 330
Period size: 83 Copynumber: 2.0 Consensus size: 83
48133147 AAAAATGATA
48133157 AAAGAGCCTTCGCTTTTGTTTGACATCAAGTAACCTTAAAAACAACAATTTTTATAACCTTAACA
1 AAAGAGCCTTCGCTTTTGTTTGACATCAAGTAACCTTAAAAACAACAATTTTTATAACCTTAACA
48133222 TTTGACAAAAATGTCTTC
66 TTTGACAAAAATGTCTTC
48133240 AAAGAGCCTTCGCTTTTGTTTGACATCAAGTAACCTTAAAAACAACAATTTTTATAACCTTAACA
1 AAAGAGCCTTCGCTTTTGTTTGACATCAAGTAACCTTAAAAACAACAATTTTTATAACCTTAACA
48133305 TTTGACAAAAATGTCTT
66 TTTGACAAAAATGTCTT
48133322 TGAAGATAAG
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
83 82 1.00
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.34
Consensus pattern (83 bp):
AAAGAGCCTTCGCTTTTGTTTGACATCAAGTAACCTTAAAAACAACAATTTTTATAACCTTAACA
TTTGACAAAAATGTCTTC
Found at i:48143309 original size:16 final size:16
Alignment explanation
Indices: 48143288--48143319 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
48143278 TAAAGTTATC
48143288 ATAGTTAATGTAAATT
1 ATAGTTAATGTAAATT
48143304 ATAGTTAATGTAAATT
1 ATAGTTAATGTAAATT
48143320 CTAATGGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (16 bp):
ATAGTTAATGTAAATT
Found at i:48144284 original size:21 final size:23
Alignment explanation
Indices: 48144259--48144313 Score: 60
Period size: 27 Copynumber: 2.3 Consensus size: 23
48144249 AAAATATATT
48144259 AAATATATA-T-TTTTATTTTTA
1 AAATATATATTATTTTATTTTTA
48144280 AAATATAATAGTTTAGTTTTATTTTTA
1 AAATAT-ATA--TTA-TTTTATTTTTA
48144307 AAATATA
1 AAATATA
48144314 AATAAATCCA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
21 6 0.21
22 3 0.11
25 1 0.04
26 1 0.04
27 17 0.61
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.55
Consensus pattern (23 bp):
AAATATATATTATTTTATTTTTA
Found at i:48144643 original size:33 final size:34
Alignment explanation
Indices: 48144572--48144654 Score: 107
Period size: 33 Copynumber: 2.5 Consensus size: 34
48144562 ACAAAAATAC
* **
48144572 TTTTACTAACAATTAACAATTAATAATTGATTGG
1 TTTTAATAACAATTAACAATTAATAATTGATTAA
48144606 TTTTAAT-ACAATTAACAATTAATAATTTGA-TAA
1 TTTTAATAACAATTAACAATTAATAA-TTGATTAA
*
48144639 TTTTACTAACAATTAA
1 TTTTAATAACAATTAA
48144655 TTTTAATAAC
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
33 25 0.58
34 18 0.42
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.42
Consensus pattern (34 bp):
TTTTAATAACAATTAACAATTAATAATTGATTAA
Found at i:48144657 original size:16 final size:16
Alignment explanation
Indices: 48144636--48144677 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
48144626 AATAATTTGA
*
48144636 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
48144652 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
48144668 TAGTTTTAAT
1 TAATTTTAAT
48144678 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:48145920 original size:21 final size:22
Alignment explanation
Indices: 48145895--48145944 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
48145885 CTAAAAGGGG
*
48145895 AATAAAT-GGGTAAATAAAAAT
1 AATAAATAAGGTAAATAAAAAT
* *
48145916 AAT-AATAAGGTAAGTAATAAT
1 AATAAATAAGGTAAATAAAAAT
48145937 AATAAATA
1 AATAAATA
48145945 CAATAACAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 3 0.12
21 17 0.71
22 4 0.17
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.26
Consensus pattern (22 bp):
AATAAATAAGGTAAATAAAAAT
Found at i:48150211 original size:44 final size:44
Alignment explanation
Indices: 48150103--48150439 Score: 150
Period size: 44 Copynumber: 7.7 Consensus size: 44
48150093 TCGACTTCAA
* * ** * *
48150103 TCTGCTCCACTGCAACCTCAAGGAGATAAGGTTTG-CTTCTTCGG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTTTC-TCAG
* ** * *
48150147 TCTGCCCCACTGTGATTTCAGGGGGATAAGACTTGTTTTCTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTTTCTCAG
* ** * * *
48150191 TCTGCTCCACTGCAACTTCAGGGAGATGAGAC-CCTATGC-GA-
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTTTCTCAG
** ** * * * * *
48150232 TCCACTCTGCTGCAACTTCAGAGAGATAATA-TAT-ATTTCTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACT-TGTTTTC-TCAG
* * * * * *** *
48150276 TCCGCTCCACTACAACTTTAGGGAGATAGGA-TTATCCGCTTCAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTTTC-TCAG
* * * * *
48150320 TCTACTTCACTGTAACTTCAGGGAGATAAGATTTGCTTTT-TCAT
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-TTTTCTCAG
* ** * *
48150364 TCTGCCCCACTGTGACTTCAGGGGGATAAGACCTGTTTTCTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTTTCTCAG
* *
48150408 TCTGCTCCGCTGCAACCTCAGGGAGATAAGAC
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGAC
48150440 CTGATGCGAT
Statistics
Matches: 210, Mismatches: 73, Indels: 20
0.69 0.24 0.07
Matches are distributed among these distances:
41 26 0.12
42 1 0.00
43 9 0.04
44 168 0.80
45 5 0.02
46 1 0.00
ACGTcount: A:0.24, C:0.25, G:0.21, T:0.30
Consensus pattern (44 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTTTTCTCAG
Found at i:48150405 original size:217 final size:217
Alignment explanation
Indices: 48150079--48150524 Score: 657
Period size: 217 Copynumber: 2.1 Consensus size: 217
48150069 CGCAACGTCG
* *
48150079 GGGAGATAGGATTATCGACTTCAATCTGCTCCACTGCAACCTCAAGGAGATAAGGTTTGCTTCTT
1 GGGAGATAGGATTATCGACTTCAATCTACTCCACTGCAACCTCAAGGAGATAAGATTTGCTTCTT
* * * *
48150144 CGGTCTGCCCCACTGTGATTTCAGGGGGATAAGACTTGTTTTCTCAGTCTGCTCCACTGCAACTT
66 CAGTCTGCCCCACTGTGACTTCAGGGGGATAAGACCTGTTTTCTCAGTCTGCTCCACTGCAACCT
* * *
48150209 CAGGGAGATGAGACCCT-ATGCGATCCACTCTGCTGCAACTTCAGAGAGATAATATATATT-TCT
131 CAGGGAGATAAGA-CCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATATATTAT-T
48150272 TTAATCCGCTCCACTACAACTTT-A
194 TTAATCCGCTCCACTACAA-TTTCA
* * * * *
48150296 GGGAGATAGGATTATCCG-CTTCAATCTACTTCACTGTAACTTCAGGGAGATAAGATTTGCTTTT
1 GGGAGATAGGATTAT-CGACTTCAATCTACTCCACTGCAACCTCAAGGAGATAAGATTTGCTTCT
* *
48150360 TCATTCTGCCCCACTGTGACTTCAGGGGGATAAGACCTGTTTTCTCAGTCTGCTCCGCTGCAACC
65 TCAGTCTGCCCCACTGTGACTTCAGGGGGATAAGACCTGTTTTCTCAGTCTGCTCCACTGCAACC
*
48150425 TCAGGGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATCTATTATTT
130 TCAGGGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATATATTATTT
**
48150490 TAATCCGCTCCACTGTAATTTCA
195 TAATCCGCTCCACTACAATTTCA
48150513 GGGAGATAGGAT
1 GGGAGATAGGAT
48150525 AGTGTCTTCG
Statistics
Matches: 206, Mismatches: 19, Indels: 8
0.88 0.08 0.03
Matches are distributed among these distances:
216 6 0.03
217 197 0.96
218 3 0.01
ACGTcount: A:0.25, C:0.24, G:0.21, T:0.30
Consensus pattern (217 bp):
GGGAGATAGGATTATCGACTTCAATCTACTCCACTGCAACCTCAAGGAGATAAGATTTGCTTCTT
CAGTCTGCCCCACTGTGACTTCAGGGGGATAAGACCTGTTTTCTCAGTCTGCTCCACTGCAACCT
CAGGGAGATAAGACCTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGATATATTATTTT
AATCCGCTCCACTACAATTTCA
Found at i:48150699 original size:141 final size:142
Alignment explanation
Indices: 48150440--48151071 Score: 877
Period size: 141 Copynumber: 4.5 Consensus size: 142
48150430 GAGATAAGAC
* * *
48150440 CTGATGCGATCCACTCTACTGCAACTTCAGAGAGATAAGAT-CTATTATTTTAATCCGCTCCACT
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCT-TTGTTTTAATCCGCTCCACT
* * * ** *
48150504 GTAATTTCAGGGAGATAGGATAGT-GTCTTCGATCTGCTCCGCGGTAATCTCAGGGAGATAGGAT
65 GTAACTTCAGGGAGATAGGATAGTAGTCTTCGATCTACTCTGCTATAATCTCAGGGAGATAAGAT
*
48150568 TACTGGCTTCAAT
130 TTCTGGCTTCAAT
* *
48150581 CTGAAGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATTCTTTGTTTTAATCCGCTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTGTTTTAATCCGCTCCACTG
* * *
48150646 TAACTTCAGGGAGATAGGATAGT-GTCTTCGATCTATTCTGCTATAATTTCAGGGAGATAAGATC
66 TAACTTCAGGGAGATAGGATAGTAGTCTTCGATCTACTCTGCTATAATCTCAGGGAGATAAGATT
48150710 TCTGGCTTCAAT
131 TCTGGCTTCAAT
* * *
48150722 CGGATGCGATCTACTCTACTGTAACTTCAGAAAGATAAGATCCTTTGTTTTAATCCACTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTGTTTTAATCCGCTCCACTG
* * * *
48150787 TAACTTCAGGGAGATA-GATACTAGT-TTCCATCTGCT-TCCCTATAATCTCAGGGAGATAAGAT
66 TAACTTCAGGGAGATAGGATAGTAGTCTTCGATCTACTCT-GCTATAATCTCAGGGAGATAAGAT
*
48150849 TTCTGGTTTCAAT
130 TTCTGGCTTCAAT
* * **
48150862 CTGATGTGATCTACTCTACTGTAACTTTAGAGAGATAAGATCCTTTACTTTAATCCGCTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTGTTTTAATCCGCTCCACTG
* * *
48150927 TAA-TCTCAGGGAGATAGGATTA-TCAG-CTTCAATCTACTCTGCTGTAATCTTAGGGAGATAAG
66 TAACT-TCAGGGAGATAGGA-TAGT-AGTCTTCGATCTACTCTGCTATAATCTCAGGGAGATAAG
48150989 ATTTCTGGCTTCAAT
128 ATTTCTGGCTTCAAT
*
48151004 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTGTTTTAATCCACTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTGTTTTAATCCGCTCCACTG
48151069 TAA
66 TAA
48151072 TCTCAGGAGG
Statistics
Matches: 437, Mismatches: 45, Indels: 17
0.88 0.09 0.03
Matches are distributed among these distances:
139 2 0.00
140 118 0.27
141 205 0.47
142 111 0.25
143 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (142 bp):
CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTGTTTTAATCCGCTCCACTG
TAACTTCAGGGAGATAGGATAGTAGTCTTCGATCTACTCTGCTATAATCTCAGGGAGATAAGATT
TCTGGCTTCAAT
Found at i:48152573 original size:7 final size:7
Alignment explanation
Indices: 48152556--48152616 Score: 74
Period size: 7 Copynumber: 9.0 Consensus size: 7
48152546 TTAGCCTCTC
48152556 CATTTTT
1 CATTTTT
48152563 -ATTTTT
1 CATTTTT
48152569 CATTTTT
1 CATTTTT
*
48152576 -ATTCTT
1 CATTTTT
48152582 CATTTTT
1 CATTTTT
*
48152589 CA-TTCT
1 CATTTTT
48152595 CATTTTT
1 CATTTTT
48152602 CATTTTTT
1 CA-TTTTT
48152610 CATTTTT
1 CATTTTT
48152617 TTGACTCAGA
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
6 16 0.35
7 23 0.50
8 7 0.15
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (7 bp):
CATTTTT
Found at i:48152574 original size:13 final size:14
Alignment explanation
Indices: 48152556--48152616 Score: 74
Period size: 13 Copynumber: 4.5 Consensus size: 14
48152546 TTAGCCTCTC
48152556 CATTTTT-ATTTTT
1 CATTTTTCATTTTT
*
48152569 CATTTTT-ATTCTT
1 CATTTTTCATTTTT
*
48152582 CATTTTTCA-TTCT
1 CATTTTTCATTTTT
48152595 CATTTTTCATTTTTT
1 CATTTTTCA-TTTTT
48152610 CATTTTT
1 CATTTTT
48152617 TTGACTCAGA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
13 30 0.73
14 1 0.02
15 10 0.24
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (14 bp):
CATTTTTCATTTTT
Found at i:48152588 original size:20 final size:20
Alignment explanation
Indices: 48152563--48152616 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
48152553 CTCCATTTTT
48152563 ATTTTTCATTTTTATTCTTC
1 ATTTTTCATTTTTATTCTTC
* * *
48152583 ATTTTTCATTCTCATTTTTC
1 ATTTTTCATTTTTATTCTTC
48152603 ATTTTTTCATTTTT
1 A-TTTTTCATTTTT
48152617 TTGACTCAGA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 18 0.64
21 10 0.36
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (20 bp):
ATTTTTCATTTTTATTCTTC
Found at i:48157757 original size:21 final size:22
Alignment explanation
Indices: 48157732--48157781 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
48157722 CTAAAAGGGG
*
48157732 AATAAAT-GGGTAAATAAAAAT
1 AATAAATAAGGTAAATAAAAAT
* *
48157753 AAT-AATAAGGTAAGTAATAAT
1 AATAAATAAGGTAAATAAAAAT
48157774 AATAAATA
1 AATAAATA
48157782 CAATAACAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 3 0.12
21 17 0.71
22 4 0.17
ACGTcount: A:0.62, C:0.00, G:0.12, T:0.26
Consensus pattern (22 bp):
AATAAATAAGGTAAATAAAAAT
Found at i:48168114 original size:6 final size:6
Alignment explanation
Indices: 48168103--48168142 Score: 66
Period size: 6 Copynumber: 7.0 Consensus size: 6
48168093 TTAGTGATTT
48168103 AATATA AATATA AATAT- -ATATA AATATA AATATA AATATA
1 AATATA AATATA AATATA AATATA AATATA AATATA AATATA
48168143 TATCATTATT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 4 0.12
6 28 0.88
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (6 bp):
AATATA
Found at i:48168125 original size:10 final size:10
Alignment explanation
Indices: 48168110--48168145 Score: 54
Period size: 10 Copynumber: 3.4 Consensus size: 10
48168100 TTTAATATAA
48168110 ATATAAATAT
1 ATATAAATAT
48168120 ATATAAATAT
1 ATATAAATAT
48168130 AAATATAAATAT
1 --ATATAAATAT
48168142 ATAT
1 ATAT
48168146 CATTATTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 14 0.58
12 10 0.42
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (10 bp):
ATATAAATAT
Found at i:48168131 original size:22 final size:22
Alignment explanation
Indices: 48168103--48168145 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
48168093 TTAGTGATTT
48168103 AATATAAATATAAATATATATA
1 AATATAAATATAAATATATATA
48168125 AATATAAATATAAATATATAT
1 AATATAAATATAAATATATAT
48168146 CATTATTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
AATATAAATATAAATATATATA
Found at i:48168145 original size:16 final size:16
Alignment explanation
Indices: 48168104--48168136 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
48168094 TAGTGATTTA
48168104 ATATAAATATAAATAT
1 ATATAAATATAAATAT
48168120 ATATAAATATAAATAT
1 ATATAAATATAAATAT
48168136 A
1 A
48168137 AATATATATC
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
ATATAAATATAAATAT
Found at i:48169970 original size:23 final size:23
Alignment explanation
Indices: 48169937--48169981 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
48169927 TTTTCAATTT
*
48169937 TTATATATTATTGACTTTTAAAAA
1 TTATATATTATAGA-TTTTAAAAA
48169961 TTATA-ATTATAGATTTTAAAA
1 TTATATATTATAGATTTTAAAA
48169982 TTTTTGTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 8 0.40
23 7 0.35
24 5 0.25
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.49
Consensus pattern (23 bp):
TTATATATTATAGATTTTAAAAA
Found at i:48174721 original size:7 final size:7
Alignment explanation
Indices: 48174693--48174734 Score: 50
Period size: 7 Copynumber: 6.1 Consensus size: 7
48174683 ATTACATTTG
48174693 CATTTCC
1 CATTTCC
*
48174700 CAATTCC
1 CATTTCC
* *
48174707 C-CTCCC
1 CATTTCC
48174713 CATTTCC
1 CATTTCC
48174720 CATTTCC
1 CATTTCC
48174727 CATTTCC
1 CATTTCC
48174734 C
1 C
48174735 GTCCCCTATC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
6 4 0.14
7 25 0.86
ACGTcount: A:0.14, C:0.50, G:0.00, T:0.36
Consensus pattern (7 bp):
CATTTCC
Found at i:48183859 original size:12 final size:12
Alignment explanation
Indices: 48183842--48183866 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
48183832 GGTTATCGAC
48183842 GATTTGAGTTTG
1 GATTTGAGTTTG
48183854 GATTTGAGTTTG
1 GATTTGAGTTTG
48183866 G
1 G
48183867 TTTATGTACC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.36, T:0.48
Consensus pattern (12 bp):
GATTTGAGTTTG
Found at i:48184029 original size:15 final size:15
Alignment explanation
Indices: 48184009--48184045 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
48183999 TGTAAGGAGG
48184009 AAGAAATACAGTGTA
1 AAGAAATACAGTGTA
48184024 AAGAAATACAGTGTA
1 AAGAAATACAGTGTA
*
48184039 AGGAAAT
1 AAGAAAT
48184046 GAATAAAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.54, C:0.05, G:0.22, T:0.19
Consensus pattern (15 bp):
AAGAAATACAGTGTA
Found at i:48185040 original size:32 final size:31
Alignment explanation
Indices: 48184994--48185082 Score: 115
Period size: 32 Copynumber: 2.8 Consensus size: 31
48184984 ATAAGCTAAA
* *
48184994 TTAAATTTTAAACATTTAGAAAGAAAGAATC
1 TTAAAATTGAAACATTTAGAAAGAAAGAATC
* *
48185025 TTAAAATCTGCAACATTTAGAAAGAAAGTATC
1 TTAAAAT-TGAAACATTTAGAAAGAAAGAATC
* *
48185057 TTAAAATTTAAAAATTTAGAAAGAAA
1 TTAAAATTGAAACATTTAGAAAGAAA
48185083 TTAAGCAAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
31 22 0.44
32 28 0.56
ACGTcount: A:0.53, C:0.07, G:0.10, T:0.30
Consensus pattern (31 bp):
TTAAAATTGAAACATTTAGAAAGAAAGAATC
Found at i:48185130 original size:21 final size:22
Alignment explanation
Indices: 48185080--48185131 Score: 79
Period size: 23 Copynumber: 2.4 Consensus size: 22
48185070 ATTTAGAAAG
48185080 AAATTAAGCAAAATACAACGCGA
1 AAATTAAGCAAAATACAAC-CGA
48185103 AAATTAAGCAAAATACAA-CGA
1 AAATTAAGCAAAATACAACCGA
*
48185124 CAATTAAG
1 AAATTAAG
48185132 TAAATTAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
21 10 0.36
23 18 0.64
ACGTcount: A:0.58, C:0.15, G:0.12, T:0.15
Consensus pattern (22 bp):
AAATTAAGCAAAATACAACCGA
Found at i:48201519 original size:6 final size:6
Alignment explanation
Indices: 48201510--48201538 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
48201500 GTTGGATTTC
48201510 CTTTTT CTTTTT CTTTTT -TTTTT CTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT
48201539 TTATTGAGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.23
6 17 0.77
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (6 bp):
CTTTTT
Found at i:48201531 original size:11 final size:11
Alignment explanation
Indices: 48201510--48201540 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
48201500 GTTGGATTTC
48201510 CTTTTTCTTTTT
1 CTTTTT-TTTTT
48201522 CTTTTTTTTTT
1 CTTTTTTTTTT
48201533 CTTTTTTT
1 CTTTTTTT
48201541 ATTGAGGATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.68
12 6 0.32
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (11 bp):
CTTTTTTTTTT
Found at i:48208066 original size:21 final size:21
Alignment explanation
Indices: 48208042--48208084 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
48208032 GAGTCGATGG
*
48208042 GTGA-TATGAAGTCAGCTCTCT
1 GTGATTATGAAG-CAGCACTCT
*
48208063 GTGATTGTGAAGCAGCACTCT
1 GTGATTATGAAGCAGCACTCT
48208084 G
1 G
48208085 CTTGGAACCG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (21 bp):
GTGATTATGAAGCAGCACTCT
Found at i:48216831 original size:29 final size:28
Alignment explanation
Indices: 48216785--48216842 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 28
48216775 TATTATTTAA
48216785 TTTTTTAAAAATATTTGTAATACATAAAAT
1 TTTTTTAAAAATATTTGTAATA-A-AAAAT
* *
48216815 TTTTTTGATAATA-TTGTAATAAAAAAT
1 TTTTTTAAAAATATTTGTAATAAAAAAT
48216842 T
1 T
48216843 AAAAATATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 6 0.23
28 1 0.04
29 8 0.31
30 11 0.42
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (28 bp):
TTTTTTAAAAATATTTGTAATAAAAAAT
Found at i:48238902 original size:17 final size:16
Alignment explanation
Indices: 48238877--48238909 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
48238867 TTTTTTGATT
48238877 TTAATATTAATATTAA
1 TTAATATTAATATTAA
48238893 TTAATAATTAATATTAA
1 TTAAT-ATTAATATTAA
48238910 AAAAACTCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TTAATATTAATATTAA
Found at i:48242577 original size:2 final size:2
Alignment explanation
Indices: 48242570--48242596 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
48242560 ATGAGTGAGT
48242570 GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA G
48242597 TAATTTCTAC
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:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:48245662 original size:18 final size:17
Alignment explanation
Indices: 48245639--48245672 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
48245629 TAAAAATGGT
48245639 AATAATTATATATTTAAA
1 AATAATTATA-ATTTAAA
48245657 AATAATTATAATTTAA
1 AATAATTATAATTTAA
48245673 TTTACAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AATAATTATAATTTAAA
Found at i:48250327 original size:20 final size:21
Alignment explanation
Indices: 48250302--48250353 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
48250292 CATATTTCAT
48250302 ATATATGCATTTC-CCATACC
1 ATATATGCATTTCACCATACC
**
48250322 ATATATAAATTTCACCATACC
1 ATATATGCATTTCACCATACC
*
48250343 A-ATAAGCATTT
1 ATATATGCATTT
48250354 AGTTAAAATT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 18 0.69
21 8 0.31
ACGTcount: A:0.38, C:0.23, G:0.04, T:0.35
Consensus pattern (21 bp):
ATATATGCATTTCACCATACC
Found at i:48254187 original size:57 final size:57
Alignment explanation
Indices: 48254110--48254218 Score: 166
Period size: 57 Copynumber: 1.9 Consensus size: 57
48254100 GATCCTATCC
48254110 TGATATAGCCCTCCCGAAGAATATGTGTGAAAA-AGATCTAGCCCGAACGGGTGATCT
1 TGATATAGCCCTCCCGAAGAATATGTG-GAAAATAGATCTAGCCCGAACGGGTGATCT
* * * *
48254167 TGATATAGCCCTTCCGAAGAATATGTGGAAAATGGATTTAGCCCGGACGGGT
1 TGATATAGCCCTCCCGAAGAATATGTGGAAAATAGATCTAGCCCGAACGGGT
48254219 AATCCGAATT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
56 5 0.11
57 42 0.89
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.24
Consensus pattern (57 bp):
TGATATAGCCCTCCCGAAGAATATGTGGAAAATAGATCTAGCCCGAACGGGTGATCT
Found at i:48255157 original size:9 final size:9
Alignment explanation
Indices: 48255145--48255203 Score: 57
Period size: 9 Copynumber: 6.4 Consensus size: 9
48255135 TAAAATAAAA
48255145 AATTCGGTT
1 AATTCGGTT
48255154 AATTCAGGTAT
1 AATTC-GGT-T
**
48255165 TTTTCGG-T
1 AATTCGGTT
48255173 AATTCGGTT
1 AATTCGGTT
*
48255182 AATTCGGGT
1 AATTCGGTT
*
48255191 AATTCGGGT
1 AATTCGGTT
48255200 AATT
1 AATT
48255204 TTTAACCAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
8 6 0.14
9 27 0.64
10 5 0.12
11 4 0.10
ACGTcount: A:0.24, C:0.10, G:0.24, T:0.42
Consensus pattern (9 bp):
AATTCGGTT
Found at i:48257153 original size:16 final size:16
Alignment explanation
Indices: 48257132--48257164 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
48257122 CATAGTTTCA
48257132 CTTTCGTTTTTTCCTG
1 CTTTCGTTTTTTCCTG
48257148 CTTTCGTTTTTTCCTG
1 CTTTCGTTTTTTCCTG
48257164 C
1 C
48257165 CTTAGTGTTC
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:0.00, C:0.27, G:0.12, T:0.61
Consensus pattern (16 bp):
CTTTCGTTTTTTCCTG
Found at i:48273953 original size:15 final size:15
Alignment explanation
Indices: 48273933--48273962 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
48273923 TTGAGTTAGT
48273933 TTTGGATCAAATTAA
1 TTTGGATCAAATTAA
*
48273948 TTTGGATTAAATTAA
1 TTTGGATCAAATTAA
48273963 CTCATGTTTA
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:0.40, C:0.03, G:0.13, T:0.43
Consensus pattern (15 bp):
TTTGGATCAAATTAA
Found at i:48289774 original size:22 final size:22
Alignment explanation
Indices: 48289744--48289795 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
48289734 AAAATAATTT
*
48289744 ATTAGTATTAT-TTAATAATAAA
1 ATTAATATTATGTTAAT-ATAAA
*
48289766 ATTAATATT-TGTTAATATAAT
1 ATTAATATTATGTTAATATAAA
48289787 ATTAA-ATTA
1 ATTAATATTA
48289796 ATATCAACTT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 3 0.12
21 10 0.38
22 13 0.50
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (22 bp):
ATTAATATTATGTTAATATAAA
Found at i:48291550 original size:105 final size:105
Alignment explanation
Indices: 48291411--48291621 Score: 404
Period size: 105 Copynumber: 2.0 Consensus size: 105
48291401 CATTTGATAG
48291411 TTCTACAATAACTCAAACACTTTTATTTATTATTGATCTCTTATTAATTTAATTAATTAAAGATA
1 TTCTACAATAACTCAAACACTTTTATTTATTATTGATCTCTTATTAATTTAATTAATTAAAGATA
48291476 AAATAAGCATTTAATTATTCTATTTTAATTAGGGGTAAAC
66 AAATAAGCATTTAATTATTCTATTTTAATTAGGGGTAAAC
*
48291516 TTCTACAATAACTTAAACACTTTTATTTATTATTGATCTCTTATTAATTTAATTAATTAAAGATA
1 TTCTACAATAACTCAAACACTTTTATTTATTATTGATCTCTTATTAATTTAATTAATTAAAGATA
*
48291581 AAATAAGCTTTTAATTATTCTATTTTAATTAGGGGTAAAC
66 AAATAAGCATTTAATTATTCTATTTTAATTAGGGGTAAAC
48291621 T
1 T
48291622 ACACCCATGG
Statistics
Matches: 104, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
105 104 1.00
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.45
Consensus pattern (105 bp):
TTCTACAATAACTCAAACACTTTTATTTATTATTGATCTCTTATTAATTTAATTAATTAAAGATA
AAATAAGCATTTAATTATTCTATTTTAATTAGGGGTAAAC
Found at i:48293106 original size:20 final size:21
Alignment explanation
Indices: 48293068--48293108 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
48293058 ACAGTAGTGG
*
48293068 GAAAATAAATTAAATTTATTT
1 GAAAATAAATTAAAATTATTT
48293089 GAAAATAAA-TAAAATTATTT
1 GAAAATAAATTAAAATTATTT
48293109 ACATGTTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (21 bp):
GAAAATAAATTAAAATTATTT
Found at i:48295910 original size:19 final size:19
Alignment explanation
Indices: 48295886--48295977 Score: 139
Period size: 19 Copynumber: 4.8 Consensus size: 19
48295876 AATATTTAGG
48295886 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
48295905 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* **
48295924 AATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
48295943 GATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
48295962 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
48295978 AGATATGATT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 67 1.00
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:48296003 original size:22 final size:21
Alignment explanation
Indices: 48295886--48296003 Score: 99
Period size: 19 Copynumber: 5.9 Consensus size: 21
48295876 AATATTTAGG
*
48295886 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
48295905 GATATGCAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
* *
48295924 AATATATAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
48295943 GATATATAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
48295962 GATATGCAATCTTAGAAGATAT
1 GATATGTAATCTTAG-AGATAT
*
48295984 GATTTTGTAATCTTAGAGAT
1 GA-TATGTAATCTTAGAGAT
48296004 TTAATTTGTA
Statistics
Matches: 87, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
19 64 0.74
22 12 0.14
23 11 0.13
ACGTcount: A:0.39, C:0.08, G:0.14, T:0.39
Consensus pattern (21 bp):
GATATGTAATCTTAGAGATAT
Found at i:48299591 original size:9 final size:9
Alignment explanation
Indices: 48299571--48299602 Score: 50
Period size: 8 Copynumber: 3.8 Consensus size: 9
48299561 TATATTTTTT
48299571 AAAAAATG-
1 AAAAAATGA
48299579 AAAAAATGA
1 AAAAAATGA
48299588 AAAAAAT-A
1 AAAAAATGA
48299596 AAAAAAT
1 AAAAAAT
48299603 ATTTTAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 16 0.70
9 7 0.30
ACGTcount: A:0.81, C:0.00, G:0.06, T:0.12
Consensus pattern (9 bp):
AAAAAATGA
Found at i:48299611 original size:9 final size:9
Alignment explanation
Indices: 48299599--48299641 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
48299589 AAAAATAAAA
48299599 AAATATTTT
1 AAATATTTT
48299608 AAATATTTT
1 AAATATTTT
*
48299617 AAATATATT
1 AAATATTTT
48299626 AAA-ATTCTT
1 AAATATT-TT
48299635 AAA-ATTT
1 AAATATTT
48299642 AATGTTATAC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
8 3 0.10
9 28 0.90
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (9 bp):
AAATATTTT
Found at i:48308529 original size:20 final size:20
Alignment explanation
Indices: 48308491--48308578 Score: 74
Period size: 20 Copynumber: 4.5 Consensus size: 20
48308481 AGATCAGATC
*
48308491 AAAATATTTAAAGAA-TTACT
1 AAAAT-TTTTAAGAATTTACT
48308511 AAAATTTTTAAGAATTTACT
1 AAAATTTTTAAGAATTTACT
* * * *
48308531 CATATTTTTAAG-TTTATACC
1 AAAATTTTTAAGAATT-TACT
* *
48308551 AAAATATTTAAGGATTTA-T
1 AAAATTTTTAAGAATTTACT
48308570 AAAATTTTT
1 AAAATTTTT
48308579 TAATGCTTTG
Statistics
Matches: 54, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
19 18 0.33
20 34 0.63
21 2 0.04
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.44
Consensus pattern (20 bp):
AAAATTTTTAAGAATTTACT
Found at i:48308835 original size:20 final size:20
Alignment explanation
Indices: 48308798--48308854 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 20
48308788 ATCATATTAG
*
48308798 TAAAACATTAGAATTTTTGA
1 TAAAACATTAGAAATTTTGA
* * *
48308818 TAAAATATTGGAAATTTTGG
1 TAAAACATTAGAAATTTTGA
* *
48308838 TAGAACCTTA-AAATTTT
1 TAAAACATTAGAAATTTT
48308855 TGGTAAATCT
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
19 7 0.24
20 22 0.76
ACGTcount: A:0.42, C:0.05, G:0.12, T:0.40
Consensus pattern (20 bp):
TAAAACATTAGAAATTTTGA
Found at i:48308855 original size:20 final size:19
Alignment explanation
Indices: 48308832--48308919 Score: 70
Period size: 20 Copynumber: 4.4 Consensus size: 19
48308822 ATATTGGAAA
*
48308832 TTTTGGTAGAACCTTAAAAT
1 TTTTGGTA-AATCTTAAAAT
* *
48308852 TTTTGGTAAATCTTTAGAT
1 TTTTGGTAAATCTTAAAAT
* *
48308871 ATTTGGTATAATCTTAAAAA
1 TTTTGGTA-AATCTTAAAAT
*
48308891 TTTTGAG-AAATCCTTAAGAGT
1 TTTTG-GTAAAT-CTTAA-AAT
48308912 TTTTGGTA
1 TTTTGGTA
48308920 TGCAAAAAAT
Statistics
Matches: 53, Mismatches: 10, Indels: 9
0.74 0.14 0.12
Matches are distributed among these distances:
19 18 0.34
20 27 0.51
21 8 0.15
ACGTcount: A:0.33, C:0.07, G:0.16, T:0.44
Consensus pattern (19 bp):
TTTTGGTAAATCTTAAAAT
Found at i:48308902 original size:39 final size:41
Alignment explanation
Indices: 48308833--48308920 Score: 101
Period size: 39 Copynumber: 2.2 Consensus size: 41
48308823 TATTGGAAAT
* * *
48308833 TTTGGTAGAACCTTAAAATTTTTGGTAAAT-CTTTAGA-TA
1 TTTGGTATAACCTTAAAAATTTTGGTAAATCCTTAAGAGTA
* *
48308872 TTTGGTATAATCTTAAAAATTTTGAG-AAATCCTTAAGAGTT
1 TTTGGTATAACCTTAAAAATTTTG-GTAAATCCTTAAGAGTA
48308913 TTTGGTAT
1 TTTGGTAT
48308921 GCAAAAAATA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
39 25 0.61
40 7 0.17
41 9 0.22
ACGTcount: A:0.33, C:0.07, G:0.16, T:0.44
Consensus pattern (41 bp):
TTTGGTATAACCTTAAAAATTTTGGTAAATCCTTAAGAGTA
Found at i:48308991 original size:20 final size:20
Alignment explanation
Indices: 48308966--48309012 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
48308956 AAGAAAATCT
48308966 TTAGAAATATTGATAAACCC
1 TTAGAAATATTGATAAACCC
* *
48308986 TTAGAAATTTTGATAAATCC
1 TTAGAAATATTGATAAACCC
48309006 TTAGAAA
1 TTAGAAA
48309013 CTTTGGTATG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.34
Consensus pattern (20 bp):
TTAGAAATATTGATAAACCC
Found at i:48309017 original size:20 final size:19
Alignment explanation
Indices: 48308960--48309017 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 19
48308950 GAATCTAAGA
*
48308960 AAATCTTTAGAAATATTGAT
1 AAATCCTTAGAAAT-TTGAT
*
48308980 AAACCCTTAGAAATTTTGAT
1 AAATCCTTAGAAA-TTTGAT
48309000 AAATCCTTAGAAACTTTG
1 AAATCCTTAGAAA-TTTG
48309018 GTATGTCAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 32 0.97
21 1 0.03
ACGTcount: A:0.41, C:0.12, G:0.10, T:0.36
Consensus pattern (19 bp):
AAATCCTTAGAAATTTGAT
Found at i:48310730 original size:31 final size:30
Alignment explanation
Indices: 48310661--48310732 Score: 74
Period size: 31 Copynumber: 2.3 Consensus size: 30
48310651 TAAAATTAGT
*
48310661 CCCTAAACTTAGTAATTAGATCCACTTTGG
1 CCCTAAACTTAGCAATTAGATCCACTTTGG
* * *
48310691 CACTTAAACTTTGCAATTAG-TCCTATTTTGG
1 C-CCTAAACTTAGCAATTAGATCC-ACTTTGG
48310722 ACCCTAAACTT
1 -CCCTAAACTT
48310733 GAAAACACAA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
30 4 0.12
31 29 0.85
32 1 0.03
ACGTcount: A:0.29, C:0.24, G:0.11, T:0.36
Consensus pattern (30 bp):
CCCTAAACTTAGCAATTAGATCCACTTTGG
Found at i:48326994 original size:20 final size:20
Alignment explanation
Indices: 48326969--48327008 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
48326959 CGTAAAATAA
*
48326969 TTTCTGAAAAATGTTTTACT
1 TTTCTGAAAAATGATTTACT
*
48326989 TTTCTGTAAAATGATTTACT
1 TTTCTGAAAAATGATTTACT
48327009 GGAAAATATT
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:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (20 bp):
TTTCTGAAAAATGATTTACT
Found at i:48326998 original size:34 final size:35
Alignment explanation
Indices: 48326954--48327020 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
48326944 CACTAAAATA
*
48326954 TTTTCCGTAAAATAATTT-CTGAAAAATGTTTTAC
1 TTTTCCGTAAAATAATTTACTGAAAAATATTTTAC
* * *
48326988 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATAATTTACTGAAAAATATTTT
48327021 CTGGTGTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.34, C:0.09, G:0.10, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATAATTTACTGAAAAATATTTTAC
Found at i:48328025 original size:23 final size:24
Alignment explanation
Indices: 48327981--48328026 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 24
48327971 TTTCTCACAT
* **
48327981 TTTCAATTCAATCATTTTTCCACC
1 TTTCAATTCAATAATTAATCCACC
48328005 TTTCAA-TCAATAATTAATCCAC
1 TTTCAATTCAATAATTAATCCAC
48328027 AAATTCACAC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.33, C:0.26, G:0.00, T:0.41
Consensus pattern (24 bp):
TTTCAATTCAATAATTAATCCACC
Found at i:48329083 original size:5 final size:5
Alignment explanation
Indices: 48329067--48329101 Score: 54
Period size: 5 Copynumber: 7.0 Consensus size: 5
48329057 TATTTATTTT
48329067 ATATA ATAATA ATATA ATATA ATATA AT-TA ATATA
1 ATATA AT-ATA ATATA ATATA ATATA ATATA ATATA
48329102 TTATTTACTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
4 4 0.14
5 19 0.68
6 5 0.18
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:48329088 original size:16 final size:14
Alignment explanation
Indices: 48329067--48329101 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
48329057 TATTTATTTT
48329067 ATATAATAATAATATA
1 ATATAAT-ATAAT-TA
48329083 ATATAATATAATTA
1 ATATAATATAATTA
48329097 ATATA
1 ATATA
48329102 TTATTTACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 7 0.37
15 5 0.26
16 7 0.37
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
ATATAATATAATTA
Found at i:48331102 original size:24 final size:25
Alignment explanation
Indices: 48331075--48331131 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
48331065 ATCTTTGTGG
*
48331075 TTTTGTCCACA-TTTT-TTAGTTTTA
1 TTTTGTCCACAGTTTTGTGA-TTTTA
* *
48331099 TTTTGTCTATAGTTTTGTGATTTTA
1 TTTTGTCCACAGTTTTGTGATTTTA
48331124 TTTTGTCC
1 TTTTGTCC
48331132 TTTTTTTCCT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 9 0.33
25 16 0.59
26 2 0.07
ACGTcount: A:0.14, C:0.11, G:0.12, T:0.63
Consensus pattern (25 bp):
TTTTGTCCACAGTTTTGTGATTTTA
Found at i:48333452 original size:21 final size:22
Alignment explanation
Indices: 48333428--48333485 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
48333418 TTTCACTATT
48333428 GTTTT-CTATTGTTTTACTACC
1 GTTTTGCTATTGTTTTACTACC
* *
48333449 GTTTTGCTATT-ATTTCCTACC
1 GTTTTGCTATTGTTTTACTACC
* *
48333470 ATTTTGATATTGTTTT
1 GTTTTGCTATTGTTTT
48333486 GCTATTATAT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 22 0.73
22 8 0.27
ACGTcount: A:0.16, C:0.16, G:0.10, T:0.59
Consensus pattern (22 bp):
GTTTTGCTATTGTTTTACTACC
Found at i:48342186 original size:12 final size:12
Alignment explanation
Indices: 48342171--48342196 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
48342161 AATTAATGAA
48342171 GTTGTTAAAACT
1 GTTGTTAAAACT
48342183 GTTGTTAAAACT
1 GTTGTTAAAACT
48342195 GT
1 GT
48342197 AACTAGTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (12 bp):
GTTGTTAAAACT
Found at i:48344998 original size:21 final size:21
Alignment explanation
Indices: 48344969--48345014 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
48344959 ATTACTAATA
*
48344969 CTCACCCTACAACACCTGA-TT
1 CTCAACCTACAACACCT-ACTT
48344990 CTCAACCTACAACACCTACTT
1 CTCAACCTACAACACCTACTT
48345011 CTCA
1 CTCA
48345015 GTTTAACTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 1 0.04
21 22 0.96
ACGTcount: A:0.30, C:0.43, G:0.02, T:0.24
Consensus pattern (21 bp):
CTCAACCTACAACACCTACTT
Found at i:48348903 original size:3 final size:3
Alignment explanation
Indices: 48348888--48348944 Score: 51
Period size: 3 Copynumber: 19.0 Consensus size: 3
48348878 TTTAAGATTT
* * ** * * *
48348888 TTA TTA TTG TTA TTA TTA TTA ATA CCA TCA TCA TCA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
48348936 TTA TTA TTA
1 TTA TTA TTA
48348945 AATAGTTTTA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.33, C:0.09, G:0.02, T:0.56
Consensus pattern (3 bp):
TTA
Found at i:48359066 original size:74 final size:74
Alignment explanation
Indices: 48358982--48359139 Score: 255
Period size: 74 Copynumber: 2.1 Consensus size: 74
48358972 CTATGATGAA
* * *
48358982 TCTTATTATTTGATTTCTGATTTACGCGATAAACACTTGATTCTTTTTCTCAATTATTTATGCTT
1 TCTTATTATTTGATTTCTGATTTACGCGATAAACACTTGATTCTTGTTCTCAAGTATGTATGCTT
48359047 ATTTCTTGT
66 ATTTCTTGT
* *
48359056 TCTTATTATTTGATTTTTGATTTACGCGATAAATACTTGATTCTTGTTCTCAAGTATGTATGCTT
1 TCTTATTATTTGATTTCTGATTTACGCGATAAACACTTGATTCTTGTTCTCAAGTATGTATGCTT
48359121 ATTTCTTGT
66 ATTTCTTGT
*
48359130 T-TTAATATTT
1 TCTTATTATTT
48359140 TTGAGATATT
Statistics
Matches: 78, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
73 8 0.10
74 70 0.90
ACGTcount: A:0.22, C:0.13, G:0.11, T:0.54
Consensus pattern (74 bp):
TCTTATTATTTGATTTCTGATTTACGCGATAAACACTTGATTCTTGTTCTCAAGTATGTATGCTT
ATTTCTTGT
Found at i:48359587 original size:113 final size:111
Alignment explanation
Indices: 48359412--48359972 Score: 463
Period size: 114 Copynumber: 4.9 Consensus size: 111
48359402 TTTACCACGC
* * *
48359412 AGCGCCGCAAAATATC-AAGACCAACACGCAGCGTTCTGGTCTTGATGTATATTGGC-ATTAGTG
1 AGCGCCGCAAAAGATCTTA-ACCAAAACGCAGCGTT-TGGTCTTGATGTATATT-GCAATTAGTG
* *
48359475 GCGCTTATGAACAAACGCCGGTAATGTATAGTATTAGCGGCGCTTAGCGGA
63 GCGCTTATGAA-AAACGCCGCTAAAGTATAGTATTAGCGGCG-TTAGCGGA
* *
48359526 AGCGCCGCAAAAGATGTTAACCAAAACGCAGAGTTTGGTCTTGATGTATATTGCAATTAGTGGCG
1 AGCGCCGCAAAAGATCTTAACCAAAACGCAGCGTTTGGTCTTGATGTATATTGCAATTAGTGGCG
* * *
48359591 CTTATAAAGAAAACGCCGCTAATGTATAGTATTAGCGGCGTATAGCGTTA
66 CTTAT-GA-AAAACGCCGCTAAAGTATAGTATTAGCGGCGT-TAGCG-GA
* * * * * * **
48359641 AACGCCGCAAGATATCTTAATCAAAACGCACCGTTTTGGTCTTGATGTATACTATAATTAGTGGC
1 AGCGCCGCAAAAGATCTTAACCAAAACGCAGCG-TTTGGTCTTGATGTATATTGCAATTAGTGGC
* * * * ** * *
48359706 GTTTAAGGAAAACGCCAG-TAAAGGATAGT-TATAGAAGCGTTTGGTGGTA
65 GCTTATGAAAAACGCC-GCTAAAGTATAGTAT-TAGCGGCG-TTAGCGG-A
* * * * *
48359755 AGCGCCTCCAAATATCTTAACCAAAACGCAGAGTTTGGTCTTGA-GGAGTATTAG-AATTAGTGG
1 AGCGCCGCAAAAGATCTTAACCAAAACGCAGCGTTTGGTCTTGATGTA-TATT-GCAATTAGTGG
* * * *
48359818 CGCTTGATGAAAAACGCCGCTAAAGTATA-TCATTAGTGGCGTTTGTGTA
64 CGCTT-ATGAAAAACGCCGCTAAAGTATAGT-ATTAGCGGCGTTAGCGGA
* * * *
48359867 ACGCGCCGC-AAAGTATCTTAACCAAAACACAGCGTTTAGTTCTTGATGTATACTGGAATTAGTG
1 A-GCGCCGCAAAAG-ATCTTAACCAAAACGCAGCGTTT-GGTCTTGATGTATATTGCAATTAGTG
** * * * *
48359931 GCGCACATGGGAAAACGCCGCTGAAGCATAATATTAGCGGCG
63 GCGCTTAT-GAAAAACGCCGCTAAAGTATAGTATTAGCGGCG
48359973 CTTTTACCGA
Statistics
Matches: 363, Mismatches: 60, Indels: 48
0.77 0.13 0.10
Matches are distributed among these distances:
112 9 0.02
113 98 0.27
114 189 0.52
115 35 0.10
116 32 0.09
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (111 bp):
AGCGCCGCAAAAGATCTTAACCAAAACGCAGCGTTTGGTCTTGATGTATATTGCAATTAGTGGCG
CTTATGAAAAACGCCGCTAAAGTATAGTATTAGCGGCGTTAGCGGA
Found at i:48360099 original size:18 final size:18
Alignment explanation
Indices: 48360078--48360113 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
48360068 TTATTTTATA
48360078 TGTTT-TTTATATTTAATT
1 TGTTTATTTATA-TTAATT
48360096 TGTTTATTTATATTAATT
1 TGTTTATTTATATTAATT
48360114 AAAATTCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.25, C:0.00, G:0.06, T:0.69
Consensus pattern (18 bp):
TGTTTATTTATATTAATT
Found at i:48360245 original size:20 final size:20
Alignment explanation
Indices: 48360220--48360257 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
48360210 GATTGATTTG
48360220 TAATTT-ATATATATATTAAA
1 TAATTTCATATATA-ATTAAA
48360240 TAATTTCATATATAATTA
1 TAATTTCATATATAATTA
48360258 TAAAAGATAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (20 bp):
TAATTTCATATATAATTAAA
Found at i:48360442 original size:14 final size:14
Alignment explanation
Indices: 48360423--48360449 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
48360413 GGATTCTGGT
48360423 TAATTTAAGGGTTG
1 TAATTTAAGGGTTG
48360437 TAATTTAAGGGTT
1 TAATTTAAGGGTT
48360450 ATAGATTAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.26, T:0.44
Consensus pattern (14 bp):
TAATTTAAGGGTTG
Found at i:48363502 original size:67 final size:67
Alignment explanation
Indices: 48363429--48363567 Score: 253
Period size: 67 Copynumber: 2.1 Consensus size: 67
48363419 ATTAATTGAT
*
48363429 TGAATGTCAATGAATTATCAATTTTGGTTA-TCTAATTGATTGAATGTTTTATAAATTCATTATA
1 TGAATGTCAATGAATTATCAATTTTGGTTAGT-TAATTGATTGAATGTTTAATAAATTCATTATA
48363493 TAA
65 TAA
48363496 TGAATGTCAATGAATTATCAATTTTGGTTAGTTAATTGATTGAATGTTTAATAAATTCATTATAT
1 TGAATGTCAATGAATTATCAATTTTGGTTAGTTAATTGATTGAATGTTTAATAAATTCATTATAT
48363561 AA
66 AA
48363563 TGAAT
1 TGAAT
48363568 TCTCAACAAA
Statistics
Matches: 70, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
67 69 0.99
68 1 0.01
ACGTcount: A:0.37, C:0.05, G:0.13, T:0.45
Consensus pattern (67 bp):
TGAATGTCAATGAATTATCAATTTTGGTTAGTTAATTGATTGAATGTTTAATAAATTCATTATAT
AA
Found at i:48363742 original size:34 final size:35
Alignment explanation
Indices: 48363702--48363826 Score: 110
Period size: 36 Copynumber: 3.3 Consensus size: 35
48363692 ACTTATTAAT
48363702 ATATATATTTTAAAATTGATATCTTACATTACTTAA
1 ATATATATTTTAAAATTGATATCTTACATTACTT-A
* * *
48363738 ATATATATTTTTAAGTATATT-TTA-CATGACTTATTAATATA
1 ATATATA-TTTTAA--A-ATTGATATC-TTAC--ATTACT-TA
48363779 TATATATATTTTAAAATTGATATCTTACATTACTTAA
1 -ATATATATTTTAAAATTGATATCTTACATTACTT-A
48363816 ATATATATTTT
1 ATATATATTTT
48363827 TAAGTATATT
Statistics
Matches: 71, Mismatches: 6, Indels: 24
0.70 0.06 0.24
Matches are distributed among these distances:
36 19 0.27
37 12 0.17
38 4 0.06
39 12 0.17
40 4 0.06
41 12 0.17
42 8 0.11
ACGTcount: A:0.40, C:0.06, G:0.03, T:0.50
Consensus pattern (35 bp):
ATATATATTTTAAAATTGATATCTTACATTACTTA
Found at i:48363745 original size:83 final size:79
Alignment explanation
Indices: 48363609--48363849 Score: 276
Period size: 78 Copynumber: 3.0 Consensus size: 79
48363599 AATATAAATA
* * * * * ** *
48363609 ACTTATTAATATATATATTTTAAAGTTAATAT-ATA-ATTTCAATATTTATTATATTTTTAAATA
1 ACTTATTAATATATATATTTTAAAATTGATATCTTACATTAC-TTAAATA-TATATTTTTAAGTA
*
48363672 TATTTTTACAATTTAATTT
64 TATTTTTAC-A--TAACTT
48363691 GACTTATTAATATATATATTTTAAAATTGATATCTTACATTACTTAAATATATATTTTTAAGTAT
1 -ACTTATTAATATATATATTTTAAAATTGATATCTTACATTACTTAAATATATATTTTTAAGTAT
*
48363756 A-TTTTACATGACTT
65 ATTTTTACATAACTT
*
48363770 A-TTAATATATATATATATTTTAAAATTGATATCTTACATTACTTAAATATATATTTTTAAGTAT
1 ACTTATTA-ATATATATATTTTAAAATTGATATCTTACATTACTTAAATATATATTTTTAAGTAT
*
48363834 A-TTTTACATGACTT
65 ATTTTTACATAACTT
48363848 AC
1 AC
48363850 ATTACTTACT
Statistics
Matches: 143, Mismatches: 11, Indels: 12
0.86 0.07 0.07
Matches are distributed among these distances:
77 5 0.03
78 72 0.50
79 4 0.03
81 1 0.01
82 6 0.04
83 45 0.31
84 6 0.04
85 4 0.03
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.51
Consensus pattern (79 bp):
ACTTATTAATATATATATTTTAAAATTGATATCTTACATTACTTAAATATATATTTTTAAGTATA
TTTTTACATAACTT
Found at i:48363798 original size:78 final size:78
Alignment explanation
Indices: 48363700--48363848 Score: 298
Period size: 78 Copynumber: 1.9 Consensus size: 78
48363690 TGACTTATTA
48363700 ATATATATATTTTAAAATTGATATCTTACATTACTTAAATATATATTTTTAAGTATATTTTACAT
1 ATATATATATTTTAAAATTGATATCTTACATTACTTAAATATATATTTTTAAGTATATTTTACAT
48363765 GACTTATTAATAT
66 GACTTATTAATAT
48363778 ATATATATATTTTAAAATTGATATCTTACATTACTTAAATATATATTTTTAAGTATATTTTACAT
1 ATATATATATTTTAAAATTGATATCTTACATTACTTAAATATATATTTTTAAGTATATTTTACAT
48363843 GACTTA
66 GACTTA
48363849 CATTACTTAC
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
78 71 1.00
ACGTcount: A:0.40, C:0.07, G:0.04, T:0.50
Consensus pattern (78 bp):
ATATATATATTTTAAAATTGATATCTTACATTACTTAAATATATATTTTTAAGTATATTTTACAT
GACTTATTAATAT
Found at i:48363841 original size:34 final size:36
Alignment explanation
Indices: 48363780--48363848 Score: 88
Period size: 34 Copynumber: 2.0 Consensus size: 36
48363770 ATTAATATAT
* *
48363780 ATATATATTTTAAAATTGATATCTTACATTACTTAA
1 ATATATATTTTAAAAGTGATATCTTACATGACTTAA
* *
48363816 ATATATATTTT-TAAGT-ATATTTTACATGACTTA
1 ATATATATTTTAAAAGTGATATCTTACATGACTTA
48363849 CATTACTTAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
34 15 0.52
35 3 0.10
36 11 0.38
ACGTcount: A:0.39, C:0.07, G:0.04, T:0.49
Consensus pattern (36 bp):
ATATATATTTTAAAAGTGATATCTTACATGACTTAA
Found at i:48363905 original size:13 final size:12
Alignment explanation
Indices: 48363879--48363927 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 12
48363869 TTTTTACTAA
*
48363879 AATTAACTTGAAT
1 AATT-ACTTAAAT
48363892 ATATTACTTAAAT
1 A-ATTACTTAAAT
48363905 AATTTACTTAAAT
1 AA-TTACTTAAAT
48363918 ACATTACTTA
1 A-ATTACTTA
48363928 CTAAAATGTG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
12 1 0.03
13 27 0.84
14 4 0.12
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43
Consensus pattern (12 bp):
AATTACTTAAAT
Found at i:48364196 original size:16 final size:16
Alignment explanation
Indices: 48364175--48364376 Score: 71
Period size: 16 Copynumber: 12.1 Consensus size: 16
48364165 ACACTTATAA
48364175 AACTTACATAATACAT
1 AACTTACATAATACAT
*
48364191 AACTTACAT-GT---T
1 AACTTACATAATACAT
48364203 AACTTACATAATACAT
1 AACTTACATAATACAT
* * *
48364219 GACTTATATAAAATTCTCAAAT
1 AACTTACAT--AA---T-ACAT
48364241 AAACTTACATAATACAT
1 -AACTTACATAATACAT
* *
48364258 TAGTTACATAATAACTTATAT
1 AACTTACATAAT-AC----AT
48364279 AAGCTTACATAATACA-
1 AA-CTTACATAATACAT
*
48364295 CA-TTAC-T--TACAT
1 AACTTACATAATACAT
* * *
48364307 AGCATACATAACTTACAC
1 AACTTACATAA--TACAT
* *
48364325 AACTTAAATAATACAA
1 AACTTACATAATACAT
48364341 AACTTACATAACTTACAT
1 AACTTACATAA--TACAT
*
48364359 AACCTACATAATACAT
1 AACTTACATAATACAT
48364375 AA
1 AA
48364377 TAACTTACAA
Statistics
Matches: 136, Mismatches: 24, Indels: 52
0.64 0.11 0.25
Matches are distributed among these distances:
11 4 0.03
12 10 0.07
13 5 0.04
14 5 0.04
15 1 0.01
16 49 0.36
17 6 0.04
18 29 0.21
21 8 0.06
22 12 0.09
23 7 0.05
ACGTcount: A:0.48, C:0.18, G:0.02, T:0.32
Consensus pattern (16 bp):
AACTTACATAATACAT
Found at i:48364323 original size:9 final size:9
Alignment explanation
Indices: 48364268--48364489 Score: 135
Period size: 9 Copynumber: 25.4 Consensus size: 9
48364258 TAGTTACATA
*
48364268 ATAACTTAT
1 ATAACTTAC
48364277 ATAAGCTTAC
1 ATAA-CTTAC
*
48364287 ATAA-TACAC
1 ATAACT-TAC
*
48364296 ATTACTTAC
1 ATAACTTAC
* *
48364305 ATAGCATAC
1 ATAACTTAC
48364314 ATAACTTAC
1 ATAACTTAC
* *
48364323 ACAACTTAA
1 ATAACTTAC
48364332 ATAA--TAC
1 ATAACTTAC
*
48364339 AAAACTTAC
1 ATAACTTAC
48364348 ATAACTTAC
1 ATAACTTAC
*
48364357 ATAACCTAC
1 ATAACTTAC
*
48364366 ATAATACATA-
1 AT-A-ACTTAC
48364376 ATAACTTAC
1 ATAACTTAC
48364385 --AACTTAC
1 ATAACTTAC
*
48364392 ATAACATAC
1 ATAACTTAC
* **
48364401 ATTACTTTG
1 ATAACTTAC
48364410 ATAACTTAC
1 ATAACTTAC
48364419 ATAACTTAC
1 ATAACTTAC
48364428 AT-AC-TAC
1 ATAACTTAC
* *
48364435 ACAACTTAA
1 ATAACTTAC
*
48364444 ATAGCTTAC
1 ATAACTTAC
*
48364453 TTAA--TAC
1 ATAACTTAC
48364460 ATAACTT--
1 ATAACTTAC
* *
48364467 ATACGCGTAC
1 ATA-ACTTAC
48364477 ATAACTTAC
1 ATAACTTAC
48364486 ATAA
1 ATAA
48364490 TTGACTTAAT
Statistics
Matches: 158, Mismatches: 38, Indels: 34
0.69 0.17 0.15
Matches are distributed among these distances:
7 25 0.16
8 11 0.07
9 103 0.65
10 15 0.09
11 4 0.03
ACGTcount: A:0.45, C:0.21, G:0.03, T:0.31
Consensus pattern (9 bp):
ATAACTTAC
Found at i:48364344 original size:25 final size:25
Alignment explanation
Indices: 48364310--48364360 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
48364300 CTTACATAGC
*
48364310 ATACATAACTTACACAACTTAAATA
1 ATACAAAACTTACACAACTTAAATA
* *
48364335 ATACAAAACTTACATAACTTACATA
1 ATACAAAACTTACACAACTTAAATA
48364360 A
1 A
48364361 CCTACATAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.53, C:0.20, G:0.00, T:0.27
Consensus pattern (25 bp):
ATACAAAACTTACACAACTTAAATA
Found at i:48364401 original size:62 final size:62
Alignment explanation
Indices: 48364309--48364435 Score: 150
Period size: 62 Copynumber: 2.0 Consensus size: 62
48364299 ACTTACATAG
48364309 CATACATAACTTACACAACTTAAATAATACAAAACTTACATAACTTACATAACCTACATAATA
1 CATACATAACTTA-ACAACTTAAATAATACAAAACTTACATAACTTACATAACCTACATAATA
* ** ** * *
48364372 CATA-ATAACTT-ACAACTTACATAACATACATTACTTTGATAACTTACATAACTTACATACTA
1 CATACATAACTTAACAACTTAAAT-A-ATACAAAACTTACATAACTTACATAACCTACATAATA
48364434 CA
1 CA
48364436 CAACTTAAAT
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
60 10 0.18
61 1 0.02
62 40 0.73
63 4 0.07
ACGTcount: A:0.47, C:0.22, G:0.01, T:0.30
Consensus pattern (62 bp):
CATACATAACTTAACAACTTAAATAATACAAAACTTACATAACTTACATAACCTACATAATA
Found at i:48364451 original size:25 final size:25
Alignment explanation
Indices: 48364412--48364467 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
48364402 TTACTTTGAT
* *
48364412 AACTTACATAACTTACATACTACAC
1 AACTTAAATAACTTACATAATACAC
* * *
48364437 AACTTAAATAGCTTACTTAATACAT
1 AACTTAAATAACTTACATAATACAC
48364462 AACTTA
1 AACTTA
48364468 TACGCGTACA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.45, C:0.21, G:0.02, T:0.32
Consensus pattern (25 bp):
AACTTAAATAACTTACATAATACAC
Found at i:48370040 original size:21 final size:21
Alignment explanation
Indices: 48370014--48370063 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
48370004 CTACAACTTA
*
48370014 AAGCAGAGGCGGCAGCGAGGG
1 AAGCAGAGGCGGCAGCGAGAG
* *
48370035 AAGCAGAAGCTGCAGCGAGAG
1 AAGCAGAGGCGGCAGCGAGAG
*
48370056 AAGTAGAG
1 AAGCAGAG
48370064 CAGACCAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.36, C:0.16, G:0.44, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCGGCAGCGAGAG
Found at i:48370584 original size:42 final size:43
Alignment explanation
Indices: 48370483--48370586 Score: 122
Period size: 43 Copynumber: 2.4 Consensus size: 43
48370473 TAAAGAATTC
* * *
48370483 TTCTAAGCA-CCGCTAAAGAACATGGTCTTTAGCGGCATTTTTT
1 TTCTAAG-AGCCGCTAAAGAACATGGTCTTTAGAGGCAGTTTCT
* ** *
48370526 TTCTAAGCGTTGCTAAAGAACATGTTCTTTAGAGGC-GTTTCT
1 TTCTAAGAGCCGCTAAAGAACATGGTCTTTAGAGGCAGTTTCT
48370568 TTCTAAGAGCCGCTAAAGA
1 TTCTAAGAGCCGCTAAAGA
48370587 CCTAAGCGCC
Statistics
Matches: 50, Mismatches: 10, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
42 20 0.40
43 30 0.60
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (43 bp):
TTCTAAGAGCCGCTAAAGAACATGGTCTTTAGAGGCAGTTTCT
Found at i:48370597 original size:18 final size:18
Alignment explanation
Indices: 48370570--48370604 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
48370560 GCGTTTCTTT
48370570 CTAAGAGCCGCTAAAGAC
1 CTAAGAGCCGCTAAAGAC
*
48370588 CTAAGCGCCGCTAAAGA
1 CTAAGAGCCGCTAAAGA
48370605 ACATGGTCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.37, C:0.29, G:0.23, T:0.11
Consensus pattern (18 bp):
CTAAGAGCCGCTAAAGAC
Found at i:48370603 original size:60 final size:61
Alignment explanation
Indices: 48370528--48370647 Score: 179
Period size: 60 Copynumber: 2.0 Consensus size: 61
48370518 CATTTTTTTT
** *
48370528 CTAAGCGTTGCTAAAGAACATGTTCTTTAGAGGCGTTTCTTT-CTAAGAGCCGCTAAAGAC
1 CTAAGCGCCGCTAAAGAACATGGTCTTTAGAGGCGTTTCTTTCCTAAGAGCCGCTAAAGAC
* * *
48370588 CTAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCCTAAGCGCCGCTAAAGA
1 CTAAGCGCCGCTAAAGAACATGGTCTTTAGAGGCGTTTCTTTCCTAAGAGCCGCTAAAGA
48370648 ACATGGTTTT
Statistics
Matches: 53, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
60 37 0.70
61 16 0.30
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (61 bp):
CTAAGCGCCGCTAAAGAACATGGTCTTTAGAGGCGTTTCTTTCCTAAGAGCCGCTAAAGAC
Found at i:48370627 original size:103 final size:106
Alignment explanation
Indices: 48370380--48370668 Score: 338
Period size: 103 Copynumber: 2.7 Consensus size: 106
48370370 TTTTGTATAA
* * *** * * *
48370380 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCG-CTTAAGAATAAACGCCGCTGAAGAACAT-TC
1 AAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTACTAAGCGCCGCTAAAGAACATGT-
* * *
48370443 TCTTTAGCGGCGTTTTTTTCTAAGCGCGGCTAAAGAATTCTTCT
65 TCTTTAGCGGCGTTTCTTTCTAAGAGCCGCTAAAGAA-TC-TCT
* * * **
48370487 AAGCACCGCTAAAGAACATGGTCTTTAGCGGCATTTTTTTTCTAAGCGTTGCTAAAGAACATGTT
1 AAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTACTAAGCGCCGCTAAAGAACATGTT
*
48370552 CTTTAGAGGCGTTTCTTTCTAAGAGCCGCTAAAG-A-C-CT
66 CTTTAGCGGCGTTTCTTTCTAAGAGCCGCTAAAGAATCTCT
*
48370590 AAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCCTAAGCGCCGCTAAAGAACATGGT
1 AAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTACTAAGCGCCGCTAAAGAACAT-GT
48370655 T-TTTAGCGGCGTTT
65 TCTTTAGCGGCGTTT
48370669 TTGTTTGAAA
Statistics
Matches: 156, Mismatches: 23, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
103 71 0.46
104 3 0.02
105 1 0.01
107 31 0.20
108 49 0.31
109 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.30
Consensus pattern (106 bp):
AAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTACTAAGCGCCGCTAAAGAACATGTT
CTTTAGCGGCGTTTCTTTCTAAGAGCCGCTAAAGAATCTCT
Found at i:48370635 original size:43 final size:43
Alignment explanation
Indices: 48370587--48370670 Score: 159
Period size: 43 Copynumber: 2.0 Consensus size: 43
48370577 CCGCTAAAGA
48370587 CCTAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTT
1 CCTAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTT
*
48370630 CCTAAGCGCCGCTAAAGAACATGGTTTTTAGCGGCGTTTTT
1 CCTAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTT
48370671 GTTTGAAAAC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.21, C:0.23, G:0.24, T:0.32
Consensus pattern (43 bp):
CCTAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTT
Found at i:48378315 original size:44 final size:44
Alignment explanation
Indices: 48378252--48378339 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
48378242 TCAATCATTT
48378252 TGAGCATATGATATACCGTTTTAAAGATCTCATGGAGAGAAATA
1 TGAGCATATGATATACCGTTTTAAAGATCTCATGGAGAGAAATA
48378296 TGAGCATATGATATACCGTTTTAAAGATCTCATGGAGAGAAATA
1 TGAGCATATGATATACCGTTTTAAAGATCTCATGGAGAGAAATA
48378340 CAAAACCATA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.39, C:0.11, G:0.20, T:0.30
Consensus pattern (44 bp):
TGAGCATATGATATACCGTTTTAAAGATCTCATGGAGAGAAATA
Found at i:48380843 original size:15 final size:15
Alignment explanation
Indices: 48380820--48380849 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
48380810 GTGAAGAGAA
48380820 ATATCTGAAATAATG
1 ATATCTGAAATAATG
*
48380835 ATATGTGAAATAATG
1 ATATCTGAAATAATG
48380850 TACAGATATT
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:0.47, C:0.03, G:0.17, T:0.33
Consensus pattern (15 bp):
ATATCTGAAATAATG
Found at i:48393003 original size:44 final size:43
Alignment explanation
Indices: 48392940--48393028 Score: 133
Period size: 44 Copynumber: 2.0 Consensus size: 43
48392930 GTTTTCCTTC
* * *
48392940 AAATATATTTTAATTACAATTAGTTAAACTTTAATTGTCGAATT
1 AAATATATTTTAATTACAATTAGCTAAA-TTTAACTGTAGAATT
*
48392984 AAATATATTTTAATTACAATTAGCTATATTTAACTGTAGAATT
1 AAATATATTTTAATTACAATTAGCTAAATTTAACTGTAGAATT
48393027 AA
1 AA
48393029 TTTTTTAGAT
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
43 15 0.37
44 26 0.63
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.44
Consensus pattern (43 bp):
AAATATATTTTAATTACAATTAGCTAAATTTAACTGTAGAATT
Found at i:48393011 original size:21 final size:21
Alignment explanation
Indices: 48392942--48393014 Score: 74
Period size: 21 Copynumber: 3.4 Consensus size: 21
48392932 TTTCCTTCAA
48392942 ATATATTTTAATTACAATTAG
1 ATATATTTTAATTACAATTAG
* * * * *
48392963 TTAAACTTTAATTGTCGAATTAA
1 ATATATTTTAATT-AC-AATTAG
48392986 ATATATTTTAATTACAATTAG
1 ATATATTTTAATTACAATTAG
*
48393007 CTATATTT
1 ATATATTT
48393015 AACTGTAGAA
Statistics
Matches: 39, Mismatches: 11, Indels: 4
0.72 0.20 0.07
Matches are distributed among these distances:
21 22 0.56
22 2 0.05
23 15 0.38
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.48
Consensus pattern (21 bp):
ATATATTTTAATTACAATTAG
Found at i:48393012 original size:23 final size:22
Alignment explanation
Indices: 48392942--48393012 Score: 65
Period size: 23 Copynumber: 3.2 Consensus size: 22
48392932 TTTCCTTCAA
48392942 ATATATTTTAATTACAATTAGT
1 ATATATTTTAATTACAATTAGT
* * * *
48392964 -TAAACTTTAATTGTCGAATTA-A
1 ATATATTTTAATT-AC-AATTAGT
48392986 ATATATTTTAATTACAATTAGCT
1 ATATATTTTAATTACAATTAG-T
48393009 ATAT
1 ATAT
48393013 TTAACTGTAG
Statistics
Matches: 36, Mismatches: 8, Indels: 9
0.68 0.15 0.17
Matches are distributed among these distances:
21 15 0.42
22 2 0.06
23 19 0.53
ACGTcount: A:0.41, C:0.07, G:0.06, T:0.46
Consensus pattern (22 bp):
ATATATTTTAATTACAATTAGT
Found at i:48395242 original size:28 final size:30
Alignment explanation
Indices: 48395202--48395260 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
48395192 AATAAAAATC
* *
48395202 AATAAAAGTTATAA-AAATCGTTAAATTTT
1 AATAAAAGATATAAGAAATCGTAAAATTTT
*
48395231 AATAAAA-ATATAAGAAATTGTAAAATTTT
1 AATAAAAGATATAAGAAATCGTAAAATTTT
48395260 A
1 A
48395261 TGTTAAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 5 0.19
29 21 0.81
ACGTcount: A:0.56, C:0.02, G:0.07, T:0.36
Consensus pattern (30 bp):
AATAAAAGATATAAGAAATCGTAAAATTTT
Found at i:48397761 original size:31 final size:31
Alignment explanation
Indices: 48397726--48397786 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
48397716 AACAATCCAA
48397726 TGACTTAAATAAAAACTTTTAAATAGTTCAG
1 TGACTTAAATAAAAACTTTTAAATAGTTCAG
* * * *
48397757 TGACTTAAATGAAAATTTTTGAATATTTCA
1 TGACTTAAATAAAAACTTTTAAATAGTTCA
48397787 ATAACCAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.43, C:0.08, G:0.10, T:0.39
Consensus pattern (31 bp):
TGACTTAAATAAAAACTTTTAAATAGTTCAG
Found at i:48409752 original size:48 final size:49
Alignment explanation
Indices: 48409687--48409782 Score: 124
Period size: 49 Copynumber: 2.0 Consensus size: 49
48409677 CGTGTTACAC
* *
48409687 AACATTACAAGAGTTGTAATAA-TTTGTATAATTGGGTAATGTTTTGTA
1 AACATTACAAGAATTGTAATAATTTTGTATAATTGGGTAATATTTTGTA
* * *
48409735 AACATTACAA-ATATTGTAATAATTTTTTGTTATTGGGTAATATTTTGT
1 AACATTACAAGA-ATTGTAATAATTTTGTATAATTGGGTAATATTTTGT
48409783 GTAATTACAC
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
47 1 0.02
48 19 0.46
49 21 0.51
ACGTcount: A:0.34, C:0.04, G:0.16, T:0.46
Consensus pattern (49 bp):
AACATTACAAGAATTGTAATAATTTTGTATAATTGGGTAATATTTTGTA
Done.