Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 17174986
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 31 of 78
Found at i:6408352 original size:33 final size:33
Alignment explanation
Indices: 6408306--6408397 Score: 148
Period size: 33 Copynumber: 2.8 Consensus size: 33
6408296 ACAAATCACA
** *
6408306 TTGCGATTTTCATTTCGTGTTGCGATTTTTTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
*
6408339 TTGTGATTTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
6408372 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
6408398 AGCCATTTCC
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 54 1.00
ACGTcount: A:0.12, C:0.16, G:0.21, T:0.51
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:6408416 original size:20 final size:19
Alignment explanation
Indices: 6408382--6408436 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
6408372 TTGCGATTTT
*
6408382 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
6408401 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
6408421 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
6408437 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:6408994 original size:18 final size:18
Alignment explanation
Indices: 6408971--6409018 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
6408961 CGGGTCGATC
6408971 AGGTGATGGCTCTGGGTG
1 AGGTGATGGCTCTGGGTG
*
6408989 AGGTGATAGCTCTGGGTG
1 AGGTGATGGCTCTGGGTG
6409007 AGGTGATGGCTC
1 AGGTGATGGCTC
6409019 CCAAAGTGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.15, C:0.12, G:0.46, T:0.27
Consensus pattern (18 bp):
AGGTGATGGCTCTGGGTG
Found at i:6410361 original size:20 final size:20
Alignment explanation
Indices: 6410313--6410371 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
6410303 AATAGTTTCT
** *
6410313 GAAAATGAAAATCGCAACAC
1 GAAAATGACTATCGCAACGC
6410333 GAAAATGACTATCGCAACGC
1 GAAAATGACTATCGCAACGC
**
6410353 GAATTTGACTATCGCAACG
1 GAAAATGACTATCGCAACG
6410372 AGAGAATCGC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.42, C:0.22, G:0.19, T:0.17
Consensus pattern (20 bp):
GAAAATGACTATCGCAACGC
Found at i:6410675 original size:22 final size:22
Alignment explanation
Indices: 6410648--6410691 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
6410638 GATGGAGATA
6410648 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGTCGGAGATGGG
6410670 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGTCGGAGATGGG
6410692 TGAGAGAGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.18, C:0.14, G:0.45, T:0.23
Consensus pattern (22 bp):
GACGGATTTCGTCGGAGATGGG
Found at i:6410881 original size:20 final size:20
Alignment explanation
Indices: 6410856--6410923 Score: 127
Period size: 20 Copynumber: 3.4 Consensus size: 20
6410846 TGTATTTTCT
6410856 CGTTGCGAAAGTCAGTATCG
1 CGTTGCGAAAGTCAGTATCG
*
6410876 CGTTGCGAAAGTAAGTATCG
1 CGTTGCGAAAGTCAGTATCG
6410896 CGTTGCGAAAGTCAGTATCG
1 CGTTGCGAAAGTCAGTATCG
6410916 CGTTGCGA
1 CGTTGCGA
6410924 TTTACTTATT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 46 1.00
ACGTcount: A:0.25, C:0.19, G:0.31, T:0.25
Consensus pattern (20 bp):
CGTTGCGAAAGTCAGTATCG
Found at i:6410985 original size:21 final size:22
Alignment explanation
Indices: 6410933--6410985 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
6410923 ATTTACTTAT
*
6410933 TCGCATTGCG-AATTGGGAAAA
1 TCGCATTGCGAAATTGGAAAAA
**
6410954 TCGCAACGCGAAATT-GAAAAA
1 TCGCATTGCGAAATTGGAAAAA
6410975 TCGCATTGCGA
1 TCGCATTGCGA
6410986 TAGTCATAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.21
Consensus pattern (22 bp):
TCGCATTGCGAAATTGGAAAAA
Found at i:6416038 original size:66 final size:64
Alignment explanation
Indices: 6415932--6416094 Score: 181
Period size: 64 Copynumber: 2.5 Consensus size: 64
6415922 TTGTTGAAGG
*
6415932 TGCATCGATGCATAAGGAGTGCATCGATGCA-CTCATTTAAATTAAATGAACATCGAAT-GCAAT
1 TGCATCGATGCATAAGGAGTGCATCGATGCACCTCA-TTAAAATAAA--AACATCGAATAG-AAT
6415995 GGA
62 GGA
* * **
6415998 TGCATCGATGCATAAGGAGTGCATCGATGCACCTGC-TTAAAATACAAACATCGAATAGGATTTA
1 TGCATCGATGCATAAGGAGTGCATCGATGCACCT-CATTAAAATAAAAACATCGAATAGAATGGA
* *
6416062 TGCACCGATGCAT-GGGTAGTGCATCGATGCACC
1 TGCATCGATGCATAAGG-AGTGCATCGATGCACC
6416095 CGTCAAGGGA
Statistics
Matches: 86, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
63 2 0.02
64 41 0.48
65 1 0.01
66 39 0.45
67 2 0.02
68 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.25
Consensus pattern (64 bp):
TGCATCGATGCATAAGGAGTGCATCGATGCACCTCATTAAAATAAAAACATCGAATAGAATGGA
Found at i:6416720 original size:2 final size:2
Alignment explanation
Indices: 6416713--6416771 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
6416703 CATGAGTTAG
6416713 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6416755 AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
6416772 GGAATTTGTA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6417503 original size:22 final size:22
Alignment explanation
Indices: 6417478--6417598 Score: 206
Period size: 22 Copynumber: 5.5 Consensus size: 22
6417468 TGGTATATTA
6417478 GTCCTTCGGGACGTATCCAGTG
1 GTCCTTCGGGACGTATCCAGTG
6417500 GTCCTTCGGGACGTATCCAGTG
1 GTCCTTCGGGACGTATCCAGTG
*
6417522 GTCCTTCGGGACGTATCTAGTG
1 GTCCTTCGGGACGTATCCAGTG
6417544 GTCCTTCGGGACGTATCCAGTG
1 GTCCTTCGGGACGTATCCAGTG
* *
6417566 GTCATTCGGGACGTATCTAGTG
1 GTCCTTCGGGACGTATCCAGTG
*
6417588 GTCTTTCGGGA
1 GTCCTTCGGGA
6417599 AATAATAGTC
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 94 1.00
ACGTcount: A:0.14, C:0.24, G:0.32, T:0.30
Consensus pattern (22 bp):
GTCCTTCGGGACGTATCCAGTG
Found at i:6421337 original size:66 final size:64
Alignment explanation
Indices: 6421231--6421393 Score: 170
Period size: 64 Copynumber: 2.5 Consensus size: 64
6421221 TTGTTGAAGG
* * *
6421231 TGCATCGATGCGTAAGGAGTGCATCGATGCA-CTCATTTAAATTAAATGAACATCGAATTCCATG
1 TGCATCGATGCATAAGGAGTGCATCGATGCACCTCA-TTAAAATAAA--AACATCGAATACCATG
6421295 GA
63 GA
* ** **
6421297 TGCATCGATGCATAAGGAGTGCATCGATGCACCTGC-TTAAAATACAAACATCGAATAGGATTTA
1 TGCATCGATGCATAAGGAGTGCATCGATGCACCT-CATTAAAATAAAAACATCGAATACCATGGA
* *
6421361 TGCACCGATGCAT-GGGTAGTGCATCGATGCACC
1 TGCATCGATGCATAAGG-AGTGCATCGATGCACC
6421394 CGTCAAGGGA
Statistics
Matches: 84, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
63 2 0.02
64 41 0.49
66 38 0.45
67 2 0.02
68 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (64 bp):
TGCATCGATGCATAAGGAGTGCATCGATGCACCTCATTAAAATAAAAACATCGAATACCATGGA
Found at i:6422760 original size:22 final size:22
Alignment explanation
Indices: 6422735--6422811 Score: 136
Period size: 22 Copynumber: 3.5 Consensus size: 22
6422725 GAGTATATTA
*
6422735 GTCCTTCGGGACGTATCCAATG
1 GTCCTTCGGGACGTATCCAGTG
6422757 GTCCTTCGGGACGTATCCAGTG
1 GTCCTTCGGGACGTATCCAGTG
*
6422779 GTCCTTCGGGACGTATCTAGTG
1 GTCCTTCGGGACGTATCCAGTG
6422801 GTCCTTCGGGA
1 GTCCTTCGGGA
6422812 TATAATAGTC
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 53 1.00
ACGTcount: A:0.14, C:0.26, G:0.31, T:0.29
Consensus pattern (22 bp):
GTCCTTCGGGACGTATCCAGTG
Found at i:6422932 original size:17 final size:17
Alignment explanation
Indices: 6422897--6422934 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
6422887 AGCATTAGTG
6422897 CACAACCTTAATGTACT
1 CACAACCTTAATGTACT
*
6422914 CACATACCTTAA-GTTCT
1 CACA-ACCTTAATGTACT
6422931 CACA
1 CACA
6422935 GGTGTATATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.34, C:0.32, G:0.05, T:0.29
Consensus pattern (17 bp):
CACAACCTTAATGTACT
Found at i:6423601 original size:37 final size:37
Alignment explanation
Indices: 6423551--6423639 Score: 151
Period size: 37 Copynumber: 2.4 Consensus size: 37
6423541 GGGTGTTACA
* *
6423551 AAACTCCTAAAAATATGATAGAGTTTTACTAGGATTC
1 AAACTCCTAAAAATATAATAGAGTTCTACTAGGATTC
*
6423588 AAACTCCTAAAAATATAATAGAGTTCTACTATGATTC
1 AAACTCCTAAAAATATAATAGAGTTCTACTAGGATTC
6423625 AAACTCCTAAAAATA
1 AAACTCCTAAAAATA
6423640 GGATCCAGAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 49 1.00
ACGTcount: A:0.45, C:0.16, G:0.09, T:0.30
Consensus pattern (37 bp):
AAACTCCTAAAAATATAATAGAGTTCTACTAGGATTC
Found at i:6424112 original size:63 final size:63
Alignment explanation
Indices: 6424013--6424145 Score: 239
Period size: 63 Copynumber: 2.1 Consensus size: 63
6424003 TTTGATTCGA
6424013 TCCCTTACATTTACGTTTTAATTATTATTATTTTATTTATTTACCTTTATTTATACGCACATT
1 TCCCTTACATTTACGTTTTAATTATTATTATTTTATTTATTTACCTTTATTTATACGCACATT
* *
6424076 TCCCTTACATTTACGTTTTAATTATTATTATTTTATTTATTTACCTTTTTTTCTACGCACATT
1 TCCCTTACATTTACGTTTTAATTATTATTATTTTATTTATTTACCTTTATTTATACGCACATT
*
6424139 TCTCTTA
1 TCCCTTA
6424146 TTACTCATTT
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
63 67 1.00
ACGTcount: A:0.23, C:0.17, G:0.03, T:0.56
Consensus pattern (63 bp):
TCCCTTACATTTACGTTTTAATTATTATTATTTTATTTATTTACCTTTATTTATACGCACATT
Found at i:6424350 original size:41 final size:39
Alignment explanation
Indices: 6424242--6424395 Score: 108
Period size: 39 Copynumber: 3.9 Consensus size: 39
6424232 CTTTAGTATA
* *
6424242 TATTTTTA-TTTTT-TTAGATTACATATATATATATGTTA-
1 TATTTTTACTTTTTATT-TATTATATATATATATAT-TTAC
*
6424280 T-TTTTTA-TTATCTGT-TTTATTA-ATTTATATATATTTAC
1 TATTTTTACTT-T-T-TATTTATTATATATATATATATTTAC
* * *
6424318 TATTTTTTATGTTTTTATTTATTATATATATATATATATAT
1 TA-TTTTTA-CTTTTTATTTATTATATATATATATATTTAC
* *
6424359 TATTTTTACTTTTTA-TTATTATTTTATTTATATATTT
1 TATTTTTACTTTTTATTTATTA-TATATATATATATTT
6424396 TTTTCTTCTT
Statistics
Matches: 96, Mismatches: 9, Indels: 21
0.76 0.07 0.17
Matches are distributed among these distances:
37 11 0.11
38 20 0.21
39 24 0.25
40 23 0.24
41 16 0.17
42 2 0.02
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.66
Consensus pattern (39 bp):
TATTTTTACTTTTTATTTATTATATATATATATATTTAC
Found at i:6424505 original size:26 final size:27
Alignment explanation
Indices: 6424460--6424532 Score: 80
Period size: 26 Copynumber: 2.8 Consensus size: 27
6424450 CTTTGCTTTC
* *
6424460 TTTATTT-TATCTTATC-TTTTATTTAA
1 TTTATTTATTTCTTA-CATTTTAATTAA
* *
6424486 TTTGTTTTTTTCTT-CATTTTAATTAA
1 TTTATTTATTTCTTACATTTTAATTAA
6424512 TTTATTTATTTCTTACATTTT
1 TTTATTTATTTCTTACATTTT
6424533 TATCTAACAT
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
25 1 0.03
26 27 0.69
27 11 0.28
ACGTcount: A:0.21, C:0.08, G:0.01, T:0.70
Consensus pattern (27 bp):
TTTATTTATTTCTTACATTTTAATTAA
Found at i:6428314 original size:72 final size:74
Alignment explanation
Indices: 6428221--6428388 Score: 225
Period size: 72 Copynumber: 2.3 Consensus size: 74
6428211 TTTAATGCAG
* * **
6428221 ATGATTTATCTCACTTGAGATTGCTTTTCTTAAAACATA-ATTTGTCTCACTTGAGATTGTTTT-
1 ATGATTTATTTCACTTAAGATTGCTTTTCTTAAAACA-AGATTTGTCTCACTTGAGACCGTTTTC
6428284 ACTCGAAAGA
65 ACTCGAAAGA
* *
6428294 A-GATTTATTTCACTTAAGATTGTTTTTCTTAAAACAAGATTTGTCTCGCTTGAGACCGTTTTCA
1 ATGATTTATTTCACTTAAGATTGCTTTTCTTAAAACAAGATTTGTCTCACTTGAGACCGTTTTCA
6428358 CTCGAAAGA
66 CTCGAAAGA
*
6428367 ATGCATTTCATTTCACTCAAGA
1 ATG-ATTT-ATTTCACTTAAGA
6428389 CTATTTTTAA
Statistics
Matches: 83, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
71 1 0.01
72 53 0.64
73 12 0.14
74 1 0.01
75 4 0.05
76 12 0.14
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (74 bp):
ATGATTTATTTCACTTAAGATTGCTTTTCTTAAAACAAGATTTGTCTCACTTGAGACCGTTTTCA
CTCGAAAGA
Found at i:6428355 original size:36 final size:36
Alignment explanation
Indices: 6428223--6428348 Score: 146
Period size: 36 Copynumber: 3.5 Consensus size: 36
6428213 TAATGCAGAT
* *
6428223 GATTTATCTCACTTGAGATTGCTTTTCTTAAAACATA
1 GATTTGTCTCACTTGAGATTGTTTTTCTTAAAACA-A
* ** *
6428260 -ATTTGTCTCACTTGAGATTGTTTTACTCGAAAGAA
1 GATTTGTCTCACTTGAGATTGTTTTTCTTAAAACAA
* * *
6428295 GATTTATTTCACTTAAGATTGTTTTTCTTAAAACAA
1 GATTTGTCTCACTTGAGATTGTTTTTCTTAAAACAA
*
6428331 GATTTGTCTCGCTTGAGA
1 GATTTGTCTCACTTGAGA
6428349 CCGTTTTCAC
Statistics
Matches: 71, Mismatches: 17, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
35 1 0.01
36 70 0.99
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (36 bp):
GATTTGTCTCACTTGAGATTGTTTTTCTTAAAACAA
Found at i:6428405 original size:72 final size:71
Alignment explanation
Indices: 6428246--6428421 Score: 189
Period size: 72 Copynumber: 2.4 Consensus size: 71
6428236 TGAGATTGCT
* ** *
6428246 TTTCTTAAAACATA-ATTTGTCTCACTTGAGATTGTTTTACTCGAAAGAAGATTTATTTCACTTA
1 TTTCTTAAAACA-AGATTTGTCTCGCTTGAGACCGTTTTACTCGAAAGAAGATTTATTTCACTCA
* *
6428310 AGATTGTT
65 AGA-TCTA
6428318 TTTCTTAAAACAAGATTTGTCTCGCTTGAGACCGTTTTCACTCGAAAGAATGCATTTCATTTCAC
1 TTTCTTAAAACAAGATTTGTCTCGCTTGAGACCGTTTT-ACTCGAAAGAA-G-ATTT-ATTTCAC
6428383 TCAAGA-CTA
62 TCAAGATCTA
* *
6428392 TTT-TT-AAAGAAGATTTTATCTCGCTTGAGA
1 TTTCTTAAAACAAGA-TTTGTCTCGCTTGAGA
6428422 TAGTTTCTCT
Statistics
Matches: 90, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
71 1 0.01
72 40 0.44
73 28 0.31
74 5 0.06
75 4 0.04
76 12 0.13
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.40
Consensus pattern (71 bp):
TTTCTTAAAACAAGATTTGTCTCGCTTGAGACCGTTTTACTCGAAAGAAGATTTATTTCACTCAA
GATCTA
Found at i:6428500 original size:36 final size:36
Alignment explanation
Indices: 6428448--6428653 Score: 196
Period size: 36 Copynumber: 5.9 Consensus size: 36
6428438 ATAAGACTTC
6428448 GTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTT
1 GTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTT
* *
6428484 GTCTCTCTTGATACAGTTTCTCTTGAAACAAA----
1 GTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTT
* * * * *
6428516 --ATCT-TTGA-ATATGTTTTACATT-AAACAAATTTC
1 GTCTCTCTTGAGACA-G-TTTCCCTTGAAACAAATTTT
* ** * *
6428549 GTCTCCCTTGAGACAGTTTCTTTTGGAACTAAGTTTT
1 GTCTCTCTTGAGACAGTTTCCCTTGAAAC-AAATTTT
*
6428586 GTCTCTCTTGAGACAGTTTCCCTTTAAACAAATTTT
1 GTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTT
*
6428622 GTCTCTCTTGAGATAGTTTCCCTTGAAACAAA
1 GTCTCTCTTGAGACAGTTTCCCTTGAAACAAA
6428654 ATCTTTGAAT
Statistics
Matches: 134, Mismatches: 24, Indels: 24
0.74 0.13 0.13
Matches are distributed among these distances:
28 2 0.01
29 12 0.09
30 8 0.06
35 7 0.05
36 74 0.55
37 31 0.23
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.40
Consensus pattern (36 bp):
GTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTT
Found at i:6428665 original size:138 final size:137
Alignment explanation
Indices: 6428448--6428899 Score: 613
Period size: 138 Copynumber: 3.2 Consensus size: 137
6428438 ATAAGACTTC
* *
6428448 GTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGATACAGTTTCTCTTGAAAC
1 GTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAC
6428513 AAAATCTTTGAATATGTTTTACATT-AAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAA
66 AAAATCTTTGAATATGTTTT-C-TTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAA
6428577 CTAAGTTTT
129 CTAAGTTTT
* *
6428586 GTCTCTCTTGAGACAGTTTCCCTTTAAACAAATTTTGTCTCTCTTGAGATAGTTTCCCTTGAAAC
1 GTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAC
* *
6428651 AAAATCTTTGAATATATTTTCCTTGAAACAAATTTCGTCTTCCTTGAGACAGTTTCTTTTGGAAC
66 AAAATCTTTGAATATGTTTT-CTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAAC
6428716 TAAGTTTT
130 TAAGTTTT
*
6428724 GTCTCTCTTGAGACAG-TTCCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTTCCTTGAAA
1 GTCTCTCTTGAGACAGTTTCC-CTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAA
** * *
6428788 CCAAGTTTTGTCTCTCTTGAGATA-GTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTT
65 -CAA------AATCT-TTGA-ATATGTTT-TCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTT
** * *
6428852 CCCTTGAAACAAAGTTTT
120 CTTTTGGAACTAAGTTTT
*
6428870 GTCTCTCTTGAGACAGTTTCTCTTGAAACA
1 GTCTCTCTTGAGACAGTTTCCCTTGAAACA
6428900 CCGATCTCTG
Statistics
Matches: 280, Mismatches: 21, Indels: 18
0.88 0.07 0.06
Matches are distributed among these distances:
137 6 0.02
138 184 0.66
139 3 0.01
145 3 0.01
146 77 0.28
147 7 0.03
ACGTcount: A:0.25, C:0.20, G:0.14, T:0.41
Consensus pattern (137 bp):
GTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAAC
AAAATCTTTGAATATGTTTTCTTGAAACAAATTTCGTCTCCCTTGAGACAGTTTCTTTTGGAACT
AAGTTTT
Found at i:6428794 original size:73 final size:73
Alignment explanation
Indices: 6428668--6428899 Score: 353
Period size: 73 Copynumber: 3.2 Consensus size: 73
6428658 TTGAATATAT
* * * *
6428668 TTTC-CTTGAAACAAATTTCGTCT-TCCTTGAGACAG-TTTCTTTTGGAACTAAGTTTTGTCTCT
1 TTTCTCTTGAAACAAATTTTGTCTCT-CTTGAGACAGTTTTC-CTTGAAACAAAGTTTTGTCTCT
6428730 CTTGAGACAG
64 CTTGAGACAG
* *
6428740 TTCCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTTCCTTGAAACCAAGTTTTGTCTCTCT
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTTCCTTGAAACAAAGTTTTGTCTCTCT
*
6428805 TGAGATAG
66 TGAGACAG
*
6428813 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAAGTTTTGTCTCTCT
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTTCCTTGAAACAAAGTTTTGTCTCTCT
6428878 TGAGACAG
66 TGAGACAG
6428886 TTTCTCTTGAAACA
1 TTTCTCTTGAAACA
6428900 CCGATCTCTG
Statistics
Matches: 147, Mismatches: 10, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
72 3 0.02
73 139 0.95
74 5 0.03
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (73 bp):
TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTTCCTTGAAACAAAGTTTTGTCTCTCT
TGAGACAG
Found at i:6428899 original size:37 final size:36
Alignment explanation
Indices: 6428668--6428899 Score: 326
Period size: 37 Copynumber: 6.4 Consensus size: 36
6428658 TTGAATATAT
*
6428668 TTTC-CTTGAAACAAATTTCGTCT-TCCTTGAGACAG
1 TTTCTCTTGAAACAAATTTTGTCTCT-CTTGAGACAG
* * *
6428703 TTTCTTTTGGAACTAAGTTTTGTCTCTCTTGAGACAG
1 TTTCTCTTGAAAC-AAATTTTGTCTCTCTTGAGACAG
*
6428740 TTCCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
* *
6428776 TTT-TCCTTGAAACCAAGTTTTGTCTCTCTTGAGATAG
1 TTTCT-CTTGAAA-CAAATTTTGTCTCTCTTGAGACAG
6428813 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
1 TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
*
6428849 TTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAG
1 TTTCTCTTGAAACAAA-TTTTGTCTCTCTTGAGACAG
6428886 TTTCTCTTGAAACA
1 TTTCTCTTGAAACA
6428900 CCGATCTCTG
Statistics
Matches: 175, Mismatches: 15, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
35 5 0.03
36 74 0.42
37 94 0.54
38 2 0.01
ACGTcount: A:0.24, C:0.20, G:0.15, T:0.41
Consensus pattern (36 bp):
TTTCTCTTGAAACAAATTTTGTCTCTCTTGAGACAG
Found at i:6428987 original size:67 final size:67
Alignment explanation
Indices: 6428848--6428996 Score: 176
Period size: 67 Copynumber: 2.2 Consensus size: 67
6428838 TCTTGAGACA
* * * *** * *
6428848 GTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACACCGATCTCTGAAT
1 GTTTCTCTTGAAACAAAATTTTGCCTCTCTTGAGACAGTTTCTCTTGAAACAAAAAACTCTGAAA
6428913 AT
66 AT
* *
6428915 ATTTCTCTTGAAACAAAATTTTGCCT-TCCTTGAGACAGTTTCTCTTGAAA-AAAAAACATTTGA
1 GTTTCTCTTGAAACAAAATTTTGCCTCT-CTTGAGACAGTTTCTCTTGAAACAAAAAAC-TCTGA
6428978 AAAT
64 AAAT
6428982 GTTTCTCTTGAAACA
1 GTTTCTCTTGAAACA
6428997 CAAAGCCTTC
Statistics
Matches: 69, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
66 4 0.06
67 65 0.94
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (67 bp):
GTTTCTCTTGAAACAAAATTTTGCCTCTCTTGAGACAGTTTCTCTTGAAACAAAAAACTCTGAAA
AT
Found at i:6429136 original size:83 final size:84
Alignment explanation
Indices: 6428996--6429193 Score: 265
Period size: 83 Copynumber: 2.4 Consensus size: 84
6428986 CTCTTGAAAC
* * * * *
6428996 ACAAAG-CCTTCGAGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAATATAACTCAAGG
1 ACAAAGACCTTCGAGTTCGACTACACTCAGCTTCAAAGACACATCATTTGCAACATAACTCAAGG
* *
6429060 CTAGAAGGGTTATCTGTCA
66 CAAGAAGGGTTATCAGTCA
* *
6429079 ACAAAGACCTTCGAGTTCGACTACGCTCAGCTT-AAAGACACATCATTTGCAGCATAACTCAAGG
1 ACAAAGACCTTCGAGTTCGACTACACTCAGCTTCAAAGACACATCATTTGCAACATAACTCAAGG
6429143 CAAGAAGGGTTATCAGTCA
66 CAAGAAGGGTTATCAGTCA
* * * *
6429162 TCAAAGACCTTAGAGTTCGATTACATTCAGCT
1 ACAAAGACCTTCGAGTTCGACTACACTCAGCT
6429194 CGATGACAAA
Statistics
Matches: 100, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
83 76 0.76
84 24 0.24
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.25
Consensus pattern (84 bp):
ACAAAGACCTTCGAGTTCGACTACACTCAGCTTCAAAGACACATCATTTGCAACATAACTCAAGG
CAAGAAGGGTTATCAGTCA
Found at i:6429709 original size:37 final size:37
Alignment explanation
Indices: 6429668--6429745 Score: 138
Period size: 37 Copynumber: 2.1 Consensus size: 37
6429658 AACATAGCGT
6429668 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAAGA
1 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAAGA
* *
6429705 TAGAGTTTTACTAGGATTCAAACTTCTAAAAATATGA
1 TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAAGA
6429742 TAGA
1 TAGA
6429746 CTTCTAAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (37 bp):
TAGAGTTTTACTAGGATTCAAACTCCTAAAAATAAGA
Found at i:6429750 original size:19 final size:19
Alignment explanation
Indices: 6429726--6429770 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
6429716 TAGGATTCAA
6429726 ACTTCTAAAAATATGATAG
1 ACTTCTAAAAATATGATAG
6429745 ACTTCTAAAAATATGATAG
1 ACTTCTAAAAATATGATAG
*
6429764 AGTTCTA
1 ACTTCTA
6429771 CTATGATTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.33
Consensus pattern (19 bp):
ACTTCTAAAAATATGATAG
Found at i:6430338 original size:24 final size:24
Alignment explanation
Indices: 6430294--6430353 Score: 59
Period size: 25 Copynumber: 2.5 Consensus size: 24
6430284 CATGTAATAT
* *
6430294 TTTTTTACATTATATGCA-TTTTC
1 TTTTTTACATTATATACATTTTTA
* *
6430317 TTTTTTACTTTAGTATATATTTTTA
1 TTTTTTACATTA-TATACATTTTTA
*
6430342 TTTTTTAGATTA
1 TTTTTTACATTA
6430354 CATATATATA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
23 11 0.38
24 4 0.14
25 14 0.48
ACGTcount: A:0.23, C:0.07, G:0.05, T:0.65
Consensus pattern (24 bp):
TTTTTTACATTATATACATTTTTA
Found at i:6430417 original size:37 final size:37
Alignment explanation
Indices: 6430375--6430479 Score: 106
Period size: 39 Copynumber: 2.7 Consensus size: 37
6430365 ATATATATAT
6430375 CTGTTTTATTAATTTATTTATATATTTACTATTTTTTA
1 CTGTTTTATTAATTTATTTATATATTTACTA-TTTTTA
* * * *
6430413 -TGTTTTTATTTATTATATATATATATATATTATTTTTA
1 CTG-TTTTATTAATT-TATTTATATATTTACTATTTTTA
6430451 CT-TTTTATTATTATTTTATTTATATATTT
1 CTGTTTTATTA--A-TTTATTTATATATTT
6430480 TTGTACTTTT
Statistics
Matches: 54, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
37 9 0.17
38 16 0.30
39 27 0.50
40 2 0.04
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.68
Consensus pattern (37 bp):
CTGTTTTATTAATTTATTTATATATTTACTATTTTTA
Found at i:6430436 original size:39 final size:36
Alignment explanation
Indices: 6430378--6430506 Score: 106
Period size: 38 Copynumber: 3.6 Consensus size: 36
6430368 TATATATCTG
* *
6430378 TTTTATTAATTTATTTATATATTTACTATTTTTTATGT
1 TTTTATTTATTTATTTATATATTTACTA-TTTTTA-CT
* * *
6430416 TTTTATTTATTATATATATATATATATTATTTTTACT
1 TTTTATTTATT-TATTTATATATTTACTATTTTTACT
6430453 TTTTA-TTA-TTATTT-TAT-TTATA-TATTTTTGTACT
1 TTTTATTTATTTATTTATATATT-TACTA-TTTT-TACT
* *
6430487 TTTTCTTTATTTTTTTATAT
1 TTTTATTTATTTATTTATAT
6430507 TTTTTTATTT
Statistics
Matches: 75, Mismatches: 9, Indels: 15
0.76 0.09 0.15
Matches are distributed among these distances:
32 3 0.04
33 9 0.12
34 12 0.16
35 4 0.05
36 8 0.11
37 9 0.12
38 16 0.21
39 14 0.19
ACGTcount: A:0.26, C:0.03, G:0.02, T:0.70
Consensus pattern (36 bp):
TTTTATTTATTTATTTATATATTTACTATTTTTACT
Found at i:6430464 original size:19 final size:18
Alignment explanation
Indices: 6430440--6430531 Score: 64
Period size: 19 Copynumber: 5.0 Consensus size: 18
6430430 TATATATATA
6430440 TATTATTTTTACTTTTTAT
1 TATT-TTTTTACTTTTTAT
* *
6430459 TATTATTTTA-TTTATA-
1 TATTTTTTTACTTTTTAT
* *
6430475 TATTTTTGTACTTTTTCTT
1 TATTTTTTTACTTTTT-AT
*
6430494 TATTTTTTTA-TATTTTTT
1 TATTTTTTTACT-TTTTAT
*
6430512 TATTTTACTTACTATTTTAT
1 TATTTT-TTTACT-TTTTAT
6430532 CTTTGCTTTC
Statistics
Matches: 58, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
16 8 0.14
17 9 0.16
18 14 0.24
19 20 0.34
20 7 0.12
ACGTcount: A:0.21, C:0.05, G:0.01, T:0.73
Consensus pattern (18 bp):
TATTTTTTTACTTTTTAT
Found at i:6430469 original size:11 final size:13
Alignment explanation
Indices: 6430387--6430480 Score: 54
Period size: 13 Copynumber: 7.2 Consensus size: 13
6430377 GTTTTATTAA
6430387 TTTATTTATATAT
1 TTTATTTATATAT
* *
6430400 TTACTATTTTTTATGTT
1 TT--TA-TTTATAT-AT
6430417 TTTATTTAT-TA-
1 TTTATTTATATAT
* *
6430428 TATATATATATAT
1 TTTATTTATATAT
* *
6430441 ATTATTTTTACT-T
1 TTTATTTATA-TAT
6430454 TTTA-TTAT-TAT
1 TTTATTTATATAT
6430465 TTTATTTATATAT
1 TTTATTTATATAT
6430478 TTT
1 TTT
6430481 TGTACTTTTT
Statistics
Matches: 59, Mismatches: 12, Indels: 20
0.65 0.13 0.22
Matches are distributed among these distances:
10 1 0.02
11 12 0.20
12 9 0.15
13 19 0.32
14 5 0.08
15 4 0.07
16 6 0.10
17 3 0.05
ACGTcount: A:0.28, C:0.02, G:0.01, T:0.69
Consensus pattern (13 bp):
TTTATTTATATAT
Found at i:6430497 original size:35 final size:35
Alignment explanation
Indices: 6430415--6430506 Score: 105
Period size: 35 Copynumber: 2.6 Consensus size: 35
6430405 ATTTTTTATG
* *
6430415 TTTTTATTTATTATATATATATATATATTATTTTTAC
1 TTTTT-TTTATTAT-TTTATATATATATTATTTGTAC
* *
6430452 TTTTTATTATTATTTTATTTATATATT-TTTGTAC
1 TTTTTTTTATTATTTTATATATATATTATTTGTAC
*
6430486 TTTTTCTTTATTTTTTTATAT
1 TTTTT-TTTATTATTTTATAT
6430507 TTTTTTATTT
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
34 11 0.23
35 24 0.51
36 7 0.15
37 5 0.11
ACGTcount: A:0.25, C:0.03, G:0.01, T:0.71
Consensus pattern (35 bp):
TTTTTTTTATTATTTTATATATATATTATTTGTAC
Found at i:6430499 original size:10 final size:10
Alignment explanation
Indices: 6430438--6430514 Score: 59
Period size: 10 Copynumber: 7.3 Consensus size: 10
6430428 TATATATATA
6430438 TATATTATTTT
1 TATATT-TTTT
*
6430449 TACT-TTTTAT
1 TA-TATTTTTT
6430459 TATTATTTTATT
1 TA-TATTTT-TT
*
6430471 TATATATTTT
1 TATATTTTTT
*
6430481 TGTACTTTTTCT
1 TATA-TTTTT-T
6430493 T-TATTTTTT
1 TATATTTTTT
6430502 TATATTTTTT
1 TATATTTTTT
6430512 TAT
1 TAT
6430515 TTTACTTACT
Statistics
Matches: 54, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
9 2 0.04
10 27 0.50
11 19 0.35
12 6 0.11
ACGTcount: A:0.21, C:0.04, G:0.01, T:0.74
Consensus pattern (10 bp):
TATATTTTTT
Found at i:6430512 original size:31 final size:33
Alignment explanation
Indices: 6430438--6430512 Score: 93
Period size: 34 Copynumber: 2.3 Consensus size: 33
6430428 TATATATATA
* *
6430438 TATATTATTTTTACTTTTTATTATTATTTTATT
1 TATATTTTTTTTACTTTTTACTATTATTTTATT
*
6430471 TATATATTTTTGTACTTTTT-CT-TTATTTT-TT
1 TATAT-TTTTTTTACTTTTTACTATTATTTTATT
6430502 TATATTTTTTT
1 TATATTTTTTT
6430513 ATTTTACTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
30 5 0.14
31 7 0.19
32 7 0.19
33 6 0.16
34 12 0.32
ACGTcount: A:0.20, C:0.04, G:0.01, T:0.75
Consensus pattern (33 bp):
TATATTTTTTTTACTTTTTACTATTATTTTATT
Found at i:6439515 original size:3 final size:3
Alignment explanation
Indices: 6439507--6439562 Score: 85
Period size: 3 Copynumber: 18.0 Consensus size: 3
6439497 CTATTTGTTT
*
6439507 TTA TTA TTA TTTA TTA TTA TCA TTTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA -TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
6439554 TTA TTA TTA
1 TTA TTA TTA
6439563 ATTTACATTT
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
3 44 0.90
4 5 0.10
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:6443627 original size:2 final size:2
Alignment explanation
Indices: 6443620--6443647 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
6443610 TGGGGTTGGG
6443620 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6443648 GGGGTGTAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6445929 original size:14 final size:15
Alignment explanation
Indices: 6445902--6445933 Score: 57
Period size: 14 Copynumber: 2.2 Consensus size: 15
6445892 TCTAAATTTA
6445902 AAATATACAAAAAAT
1 AAATATACAAAAAAT
6445917 AAATATA-AAAAAAT
1 AAATATACAAAAAAT
6445931 AAA
1 AAA
6445934 ATGAAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (15 bp):
AAATATACAAAAAAT
Found at i:6445935 original size:15 final size:16
Alignment explanation
Indices: 6445900--6445935 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
6445890 ATTCTAAATT
6445900 TAAAATATACAAAAAA
1 TAAAATATACAAAAAA
6445916 T-AAATATA-AAAAAA
1 TAAAATATACAAAAAA
6445930 TAAAAT
1 TAAAAT
6445936 GAAAATTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 7 0.37
15 11 0.58
16 1 0.05
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (16 bp):
TAAAATATACAAAAAA
Found at i:6449342 original size:32 final size:32
Alignment explanation
Indices: 6449280--6449344 Score: 89
Period size: 32 Copynumber: 2.0 Consensus size: 32
6449270 CATCTTAAAG
6449280 AATTGTAACAAGTAATATTCTTTCACAATAACA
1 AATTGTAACAAG-AATATTCTTTCACAATAACA
6449313 AATTGTAACAA-AATGATT-TATTCACAATAACA
1 AATTGTAACAAGAAT-ATTCT-TTCACAATAACA
6449345 CGTTAAATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
31 4 0.13
32 15 0.50
33 11 0.37
ACGTcount: A:0.48, C:0.14, G:0.06, T:0.32
Consensus pattern (32 bp):
AATTGTAACAAGAATATTCTTTCACAATAACA
Found at i:6449379 original size:199 final size:195
Alignment explanation
Indices: 6449027--6449535 Score: 673
Period size: 199 Copynumber: 2.6 Consensus size: 195
6449017 GGATTTTGAT
* * * * *
6449027 ATTTATTTAGTCATAATAACAATTTATAACAATTATTAATTTCTCAATATAAAAAATTATGACAA
1 ATTTATTTAATCAAAATAACAATTTATAACAAATATTAATTTCTC-ATTTAAAAAATTGTGACAA
* * * *
6449092 AAAATATTCTTTCATAATAACAAATTGAAACAAATTTATTTAGTT-ACAATAACGTAATAAATTT
65 ATAATATTCTTTCACAATAACAAATTGTAACAAAATTATTTA-TTCACAATAACGT-ATAAATTT
* * *
6449156 ATTCAAAATAAAAATTTGTGTCAAATTTATTTTGTCACAATATTTTGTCGAAATAAAAAAATTCT
128 ATTCAAAATAAAAAGTTATGTCAAATTTATTTGGTCACAATATTTTGTC-AAA-AAAAAAATTCT
6449221 GACAA
191 GACAA
* * *
6449226 ATTTATTTAATCAAAATAATAATTTATAACAAATATTAATTTCTCATCTTAAAGAATTGTAACAA
1 ATTTATTTAATCAAAATAACAATTTATAACAAATATTAATTTCTCAT-TTAAAAAATTGTGACAA
* *
6449291 GTAATATTCTTTCACAATAACAAATTGTAACAAAATGATTTATTCACAATAACACGT-TAAATTT
65 ATAATATTCTTTCACAATAACAAATTGTAACAAAATTATTTATTCACAAT-A-ACGTATAAATTT
* * * * *
6449355 AGTT-AAAGTAAACAGTTATGTCAAATTTATTTGGTCTCAATATTTTGTCAAAATAAAAATTGTG
128 A-TTCAAAATAAAAAGTTATGTCAAATTTATTTGGTCACAATATTTTGTCAAAAAAAAAATTCTG
6449419 ACAA
192 ACAA
* * *
6449423 ATTTACTTAATCAAAATAACAATTTGTAACAAATATTAATTTCTCATTTATAAAAAATGTGACAA
1 ATTTATTTAATCAAAATAACAATTTATAACAAATATTAATTTCTCATTTA-AAAAATTGTGACAA
*
6449488 ATAATATTCTTTCACAATAACAAATTGTAACAAAATTATTTAGTCACA
65 ATAATATTCTTTCACAATAACAAATTGTAACAAAATTATTTATTCACA
6449536 GTAAAAAAGT
Statistics
Matches: 273, Mismatches: 31, Indels: 14
0.86 0.10 0.04
Matches are distributed among these distances:
196 3 0.01
197 114 0.42
198 7 0.03
199 142 0.52
200 3 0.01
201 4 0.01
ACGTcount: A:0.46, C:0.11, G:0.06, T:0.38
Consensus pattern (195 bp):
ATTTATTTAATCAAAATAACAATTTATAACAAATATTAATTTCTCATTTAAAAAATTGTGACAAA
TAATATTCTTTCACAATAACAAATTGTAACAAAATTATTTATTCACAATAACGTATAAATTTATT
CAAAATAAAAAGTTATGTCAAATTTATTTGGTCACAATATTTTGTCAAAAAAAAAATTCTGACAA
Found at i:6449535 original size:32 final size:31
Alignment explanation
Indices: 6449395--6449542 Score: 75
Period size: 33 Copynumber: 4.6 Consensus size: 31
6449385 TTGGTCTCAA
* * *
6449395 TATTTTGTCAAAATAAAAATTGTGACAAATT
1 TATTTAGTCAAAATAAAAATTGTAACAAAAT
* * *
6449426 TACTTAATCAAAATAACAATTTGTAACAAATAT
1 TATTTAGTCAAAATAA-AAATTGTAACAAA-AT
* ** * * *
6449459 TAATTT-CTCATTTATAAAAAATGTGACAAATAA
1 T-ATTTAGTCA-AAATAAAAATTGTAACAAA-AT
* *
6449492 TATTCT-TTCACAATAACAAATTGTAACAAAAT
1 TATT-TAGTCAAAATAA-AAATTGTAACAAAAT
* *
6449524 TATTTAGTCACAGTAAAAA
1 TATTTAGTCAAAATAAAAA
6449543 AGTTATAAAA
Statistics
Matches: 88, Mismatches: 22, Indels: 14
0.71 0.18 0.11
Matches are distributed among these distances:
31 17 0.19
32 31 0.35
33 33 0.38
34 7 0.08
ACGTcount: A:0.48, C:0.11, G:0.06, T:0.35
Consensus pattern (31 bp):
TATTTAGTCAAAATAAAAATTGTAACAAAAT
Found at i:6453049 original size:94 final size:94
Alignment explanation
Indices: 6452885--6453072 Score: 281
Period size: 94 Copynumber: 2.0 Consensus size: 94
6452875 GCCTAACAGC
* *
6452885 ACGTGAAGGATTAGTTAAAACTAACCCAGCTCCAGCTCATACACCAACATTCTCCTTACTTTACT
1 ACGTGAAGGATTAGTTAAAACTAACCCAGCTCCAGCTCATACACCAACACTCCCCTTACTTTACT
6452950 ACTGGCTTTCCT-TAAGCTCTTT-AACGCAT
66 ACTGGCTTTCCTCT-AGCT-TTTAAACGCAT
* ** *
6452979 ACGTGAAGGATTAGTTAAAACTAACCCAGCTCCAGTTCATATTCCAACACTCCCCTTGCTTTACT
1 ACGTGAAGGATTAGTTAAAACTAACCCAGCTCCAGCTCATACACCAACACTCCCCTTACTTTACT
*
6453044 GCTGGCTTTCCTCTAGCTTTTAAACGCAT
66 ACTGGCTTTCCTCTAGCTTTTAAACGCAT
6453073 GCAAGACACG
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
93 3 0.04
94 81 0.95
95 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.13, T:0.31
Consensus pattern (94 bp):
ACGTGAAGGATTAGTTAAAACTAACCCAGCTCCAGCTCATACACCAACACTCCCCTTACTTTACT
ACTGGCTTTCCTCTAGCTTTTAAACGCAT
Found at i:6462579 original size:19 final size:18
Alignment explanation
Indices: 6462557--6462604 Score: 60
Period size: 20 Copynumber: 2.6 Consensus size: 18
6462547 GAAAGAAGGG
6462557 GAGAAGAAAGAAGAGAAAA
1 GAGAAGAAAGAAGA-AAAA
* *
6462576 GAGAAAGAAAGAATAAGAA
1 GAG-AAGAAAGAAGAAAAA
6462595 GAGAAGAAAG
1 GAGAAGAAAG
6462605 TTAAACTCGG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
18 7 0.27
19 9 0.35
20 10 0.38
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.02
Consensus pattern (18 bp):
GAGAAGAAAGAAGAAAAA
Found at i:6462582 original size:16 final size:16
Alignment explanation
Indices: 6462561--6462604 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 16
6462551 GAAGGGGAGA
6462561 AGAAAGAAGAGAA-AAG
1 AGAAAGAA-AGAATAAG
6462577 AGAAAGAAAGAATAAG
1 AGAAAGAAAGAATAAG
6462593 AAGAGAAGAAAG
1 -AGA-AAGAAAG
6462605 TTAAACTCGG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
15 4 0.16
16 11 0.44
17 3 0.12
18 7 0.28
ACGTcount: A:0.68, C:0.00, G:0.30, T:0.02
Consensus pattern (16 bp):
AGAAAGAAAGAATAAG
Found at i:6465830 original size:20 final size:19
Alignment explanation
Indices: 6465805--6465891 Score: 78
Period size: 20 Copynumber: 4.7 Consensus size: 19
6465795 TATTTGAATT
6465805 TTTTATAATAATTAACTTGA
1 TTTTATAATAATTAA-TTGA
*
6465825 TTTTATAATAATTTA-TGTA
1 TTTTATAATAATTAATTG-A
*
6465844 TATGTAT-AT-A-T--TTGA
1 T-TTTATAATAATTAATTGA
6465859 TTTTATAATAATTAACTTGA
1 TTTTATAATAATTAA-TTGA
6465879 TTTTATAATAATT
1 TTTTATAATAATT
6465892 TATGTATTTT
Statistics
Matches: 55, Mismatches: 3, Indels: 18
0.72 0.04 0.24
Matches are distributed among these distances:
14 4 0.07
15 4 0.07
16 3 0.05
17 2 0.04
18 3 0.05
19 4 0.07
20 35 0.64
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.54
Consensus pattern (19 bp):
TTTTATAATAATTAATTGA
Found at i:6465869 original size:54 final size:56
Alignment explanation
Indices: 6465791--6465898 Score: 193
Period size: 54 Copynumber: 1.9 Consensus size: 56
6465781 TGTATGTACA
6465791 TATATATTTGAATTTTTTATAATAATTAACTTGATTTTATAATAATTTATGTATATG
1 TATATATTTGAA-TTTTTATAATAATTAACTTGATTTTATAATAATTTATGTATATG
6465848 TATATATTTG-A-TTTTATAATAATTAACTTGATTTTATAATAATTTATGTAT
1 TATATATTTGAATTTTTATAATAATTAACTTGATTTTATAATAATTTATGTAT
6465899 TTTTTAGTAT
Statistics
Matches: 51, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
54 40 0.78
56 1 0.02
57 10 0.20
ACGTcount: A:0.37, C:0.02, G:0.06, T:0.55
Consensus pattern (56 bp):
TATATATTTGAATTTTTATAATAATTAACTTGATTTTATAATAATTTATGTATATG
Found at i:6465902 original size:20 final size:20
Alignment explanation
Indices: 6465804--6465925 Score: 57
Period size: 20 Copynumber: 6.2 Consensus size: 20
6465794 ATATTTGAAT
*
6465804 TTTTTATAATAATTAACT-TGA
1 TTTTTATAATAATTTA-TGT-A
6465825 -TTTTATAATAATTTATGTA
1 TTTTTATAATAATTTATGTA
* *
6465844 TATGTAT-AT-A-TT-TG-A
1 TTTTTATAATAATTTATGTA
*
6465859 -TTTTATAATAATTAACT-TGA
1 TTTTTATAATAATTTA-TGT-A
6465879 -TTTTATAATAATTTATGTA
1 TTTTTATAATAATTTATGTA
*
6465898 TTTTTTAGTATAATAATTTATGTG
1 --TTTT--TATAATAATTTATGTA
6465922 TTTT
1 TTTT
6465926 AAGTTGAAAA
Statistics
Matches: 78, Mismatches: 8, Indels: 29
0.68 0.07 0.25
Matches are distributed among these distances:
14 4 0.05
15 3 0.04
16 3 0.04
17 3 0.04
18 1 0.01
19 7 0.09
20 35 0.45
22 7 0.09
24 15 0.19
ACGTcount: A:0.34, C:0.02, G:0.07, T:0.57
Consensus pattern (20 bp):
TTTTTATAATAATTTATGTA
Found at i:6467433 original size:33 final size:33
Alignment explanation
Indices: 6467396--6467459 Score: 76
Period size: 33 Copynumber: 1.9 Consensus size: 33
6467386 TAATGCCTCC
* *
6467396 AATTAAACAGTAAAATTA-ACATTTATAAATATT
1 AATTAAACA-TAAAATTATAAAATTATAAATATT
* *
6467429 AATTAGACATGAAATTATAAAATTATAAATA
1 AATTAAACATAAAATTATAAAATTATAAATA
6467460 AATATTATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
32 7 0.27
33 19 0.73
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.34
Consensus pattern (33 bp):
AATTAAACATAAAATTATAAAATTATAAATATT
Found at i:6467574 original size:3 final size:3
Alignment explanation
Indices: 6467566--6467622 Score: 114
Period size: 3 Copynumber: 19.0 Consensus size: 3
6467556 AATTATATAG
6467566 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
6467614 TAT TAT TAT
1 TAT TAT TAT
6467623 AAAATATACC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 54 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:6468570 original size:8 final size:8
Alignment explanation
Indices: 6468557--6468581 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
6468547 ATATTCATGA
6468557 AATTAATC
1 AATTAATC
6468565 AATTAATC
1 AATTAATC
6468573 AATTAATC
1 AATTAATC
6468581 A
1 A
6468582 TAAAATAAAC
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:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (8 bp):
AATTAATC
Found at i:6469318 original size:16 final size:16
Alignment explanation
Indices: 6469299--6469331 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
6469289 CTTCTCTTAT
6469299 TCTTCTTCT-TTCTTTC
1 TCTT-TTCTCTTCTTTC
6469315 TCTTTTCTCTTCTTTC
1 TCTTTTCTCTTCTTTC
6469331 T
1 T
6469332 TCATTTTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (16 bp):
TCTTTTCTCTTCTTTC
Found at i:6469327 original size:20 final size:19
Alignment explanation
Indices: 6469285--6469355 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 19
6469275 TACCGACTAA
6469285 CTTTCTTCTCTTATTCTTCTT
1 CTTTCTTCTCTT-TTC-TCTT
6469306 CTTTCTTTCTCTTTTCTCTT
1 CTTTC-TTCTCTTTTCTCTT
*
6469326 CTTTCTTCATTTTTTCTCTT
1 CTTTCTTC-TCTTTTCTCTT
* *
6469346 ATTCCTTCTC
1 CTTTCTTCTC
6469356 CCCTTCTTTC
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
19 4 0.09
20 25 0.57
21 8 0.18
22 7 0.16
ACGTcount: A:0.04, C:0.30, G:0.00, T:0.66
Consensus pattern (19 bp):
CTTTCTTCTCTTTTCTCTT
Found at i:6469331 original size:27 final size:28
Alignment explanation
Indices: 6469299--6469369 Score: 85
Period size: 27 Copynumber: 2.6 Consensus size: 28
6469289 CTTCTCTTAT
6469299 TCTTCTTCTTTCTTTCTCTT-TTCTCTTC
1 TCTTCTTCTTTCTTTCTCTTATTC-CTTC
6469327 T-TTCTTCATTT-TTTCTCTTATTCCTTC
1 TCTTCTTC-TTTCTTTCTCTTATTCCTTC
**
6469354 TCCCCTTCTTTCTTTC
1 TCTTCTTCTTTCTTTC
6469370 ACTCCCGGTG
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
27 22 0.59
28 15 0.41
ACGTcount: A:0.03, C:0.32, G:0.00, T:0.65
Consensus pattern (28 bp):
TCTTCTTCTTTCTTTCTCTTATTCCTTC
Found at i:6475474 original size:5 final size:5
Alignment explanation
Indices: 6475464--6475491 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
6475454 CCAGCCACCG
6475464 GAGAT GAGAT GAGAT GAGAT GAGAT GAG
1 GAGAT GAGAT GAGAT GAGAT GAGAT GAG
6475492 GGAAGGGCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.43, T:0.18
Consensus pattern (5 bp):
GAGAT
Found at i:6479993 original size:28 final size:28
Alignment explanation
Indices: 6479941--6479995 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 28
6479931 GAGTGAAGCT
**
6479941 TGAAGAAGAGTGAAATGGGTCGTGGGGG
1 TGAAGAAGAGTGAAATGGGGAGTGGGGG
6479969 TGAAGAAGAGT-AAATTGGGGAGTGGGG
1 TGAAGAAGAGTGAAA-TGGGGAGTGGGG
6479996 ACGGGAAGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.12
28 21 0.88
ACGTcount: A:0.31, C:0.02, G:0.49, T:0.18
Consensus pattern (28 bp):
TGAAGAAGAGTGAAATGGGGAGTGGGGG
Found at i:6483486 original size:131 final size:130
Alignment explanation
Indices: 6483187--6483535 Score: 423
Period size: 131 Copynumber: 2.7 Consensus size: 130
6483177 TAGTAGGGAC
* * * ** * * *
6483187 GACACTGCTCATACGTGATGAGGA-CATCTGGTTAGTGGATAACACGGTTCCTACGCAATGAGGA
1 GACACAGCTCCTACGTGATGAGGAGGA-CTGGTCGGTGGATGACACGGTTCTTACGCGATGAGGA
* *
6483251 CGGCAAACCATCTTTAGGGAAGATGATAACACGGTTCCTACGTGATGATGACGAGTGATTATCTA
65 CGGCAAGCCATCTTTA-GG--GATGATAACACGGTTCCTACGTGATGAGGACGAGTGATTATCTA
6483316 GGGT
127 GGGT
* ** * * *
6483320 GACACAGCTCCTACGTGATAAGGAGGTTTGGTCGGTGGATGACATGGTTCTTACGTGATGAGGAT
1 GACACAGCTCCTACGTGATGAGGAGGACTGGTCGGTGGATGACACGGTTCTTACGCGATGAGGAC
** * *
6483385 GATAAGCCATCTTTAGGGATGATAACACGGTTTCTACGTGATGAGGACG-GTTGGTTATCTAGGG
66 GGCAAGCCATCTTTAGGGATGATAACACGGTTCCTACGTGATGAGGACGAG-TGATTATCTA-GG
6483449 GT
129 GT
* *
6483451 GACACGGCTCCTACGTGATGAGGAGGACTGGTCGGTGGATGACACGGTTCTTACGCGATGAAGAC
1 GACACAGCTCCTACGTGATGAGGAGGACTGGTCGGTGGATGACACGGTTCTTACGCGATGAGGAC
*
6483516 GGCATGCCATCTTTAGGGAT
66 GGCAAGCCATCTTTAGGGAT
6483536 AATGGTTTCA
Statistics
Matches: 182, Mismatches: 31, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
129 1 0.01
130 39 0.21
131 78 0.43
132 2 0.01
133 62 0.34
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.26
Consensus pattern (130 bp):
GACACAGCTCCTACGTGATGAGGAGGACTGGTCGGTGGATGACACGGTTCTTACGCGATGAGGAC
GGCAAGCCATCTTTAGGGATGATAACACGGTTCCTACGTGATGAGGACGAGTGATTATCTAGGGT
Found at i:6483618 original size:36 final size:34
Alignment explanation
Indices: 6483569--6483691 Score: 87
Period size: 36 Copynumber: 3.6 Consensus size: 34
6483559 CAAAGATGAA
*
6483569 GTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTT
1 GTTTCAAGGGAAAC-GTCTCAAGAGAGA-AAAATTT
* **
6483605 GTTTCAAGGGAAACGACTCAA-AGATG-----GGT
1 GTTTCAAGGGAAACGTCTCAAGAGA-GAAAAATTT
* *
6483634 GTTTCAAGGAAAACTGTCTCAAGAGAGATAAAATTC
1 GTTTCAAGGGAAAC-GTCTCAAGAGAGA-AAAATTT
*
6483670 ATTTCAAGGGAAACGATCTCAA
1 GTTTCAAGGGAAACG-TCTCAA
6483692 AGATGGGTGT
Statistics
Matches: 66, Mismatches: 11, Indels: 20
0.68 0.11 0.21
Matches are distributed among these distances:
29 14 0.21
30 7 0.11
31 3 0.05
34 3 0.05
35 8 0.12
36 31 0.47
ACGTcount: A:0.40, C:0.15, G:0.22, T:0.24
Consensus pattern (34 bp):
GTTTCAAGGGAAACGTCTCAAGAGAGAAAAATTT
Found at i:6483648 original size:65 final size:65
Alignment explanation
Indices: 6483540--6483761 Score: 295
Period size: 66 Copynumber: 3.4 Consensus size: 65
6483530 AGGGATAATG
* ** *
6483540 GTTTCAAGAGAAACCGACTCAAAGAT-GAAGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
1 GTTTCAAGGGAAA-CGACTCAAAGATGGGTGTTTCAAGAGAAACTGTCTCAAGAGAGAAAAAATT
6483604 T
65 T
*
6483605 GTTTCAAGGGAAACGACTCAAAGATGGGTGTTTCAAG-GAAAACTGTCTCAAGAGAGATAAAATT
1 GTTTCAAGGGAAACGACTCAAAGATGGGTGTTTCAAGAG-AAACTGTCTCAAGAGAGAAAAAATT
*
6483669 C
65 T
* * * *
6483670 ATTTCAAGGGAAACGATCTCAAAGATGGGTGTTTCATGAGAAACTGTCTCAAGAAAGAAAAAAAT
1 GTTTCAAGGGAAACGA-CTCAAAGATGGGTGTTTCAAGAGAAACTGTCTCAAGAGAGAAAAAATT
6483735 T
65 T
*
6483736 GTTTCAAGGGAAACAAACTCAAAGAT
1 GTTTCAAGGGAAAC-GACTCAAAGAT
6483762 TATAAATTTT
Statistics
Matches: 139, Mismatches: 13, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
64 13 0.09
65 60 0.43
66 64 0.46
67 2 0.01
ACGTcount: A:0.42, C:0.14, G:0.22, T:0.23
Consensus pattern (65 bp):
GTTTCAAGGGAAACGACTCAAAGATGGGTGTTTCAAGAGAAACTGTCTCAAGAGAGAAAAAATTT
Found at i:6484021 original size:37 final size:37
Alignment explanation
Indices: 6483904--6484029 Score: 193
Period size: 36 Copynumber: 3.5 Consensus size: 37
6483894 TTTTATTCCG
* * *
6483904 AGAGAAACTGTCTCAAGTGAGACAAAATTTG-TTTTG
1 AGAGAAATTGTCTCAAGCGAGACAAAATTTGTTTTTA
6483940 AGAGAAATTGTCTCAAGCGAGACAAAATTTGTTTTTA
1 AGAGAAATTGTCTCAAGCGAGACAAAATTTGTTTTTA
*
6483977 AGA-AAATTGTCTCAAGCGAGACAAAAATTGTTTTTA
1 AGAGAAATTGTCTCAAGCGAGACAAAATTTGTTTTTA
*
6484013 AAAGAAATTGTCTCAAG
1 AGAGAAATTGTCTCAAG
6484030 GGTGACACCA
Statistics
Matches: 83, Mismatches: 5, Indels: 3
0.91 0.05 0.03
Matches are distributed among these distances:
36 63 0.76
37 20 0.24
ACGTcount: A:0.40, C:0.11, G:0.19, T:0.30
Consensus pattern (37 bp):
AGAGAAATTGTCTCAAGCGAGACAAAATTTGTTTTTA
Found at i:6484363 original size:16 final size:16
Alignment explanation
Indices: 6484342--6484381 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
6484332 TTCATGTATC
*
6484342 ATGTATGTATATGTTG
1 ATGTATGTATATATTG
* *
6484358 ATGTATGTTTGTATTG
1 ATGTATGTATATATTG
6484374 ATGTATGT
1 ATGTATGT
6484382 TTTCTCGATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.25, T:0.53
Consensus pattern (16 bp):
ATGTATGTATATATTG
Found at i:6485433 original size:4 final size:4
Alignment explanation
Indices: 6485409--6485463 Score: 83
Period size: 4 Copynumber: 13.8 Consensus size: 4
6485399 AGCTTTATTG
* * *
6485409 TATA CATA TATA CATA CATA TATA TATA TATA TATA TATA TATA TATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
6485457 TATA TAT
1 TATA TAT
6485464 CTGAGTATAC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 47 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.45
Consensus pattern (4 bp):
TATA
Found at i:6488024 original size:18 final size:18
Alignment explanation
Indices: 6488001--6488038 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
6487991 CAAAAGAAAG
6488001 AAATGAGTTAATACAAAC
1 AAATGAGTTAATACAAAC
*
6488019 AAATGAGTTAGTACAAAC
1 AAATGAGTTAATACAAAC
6488037 AA
1 AA
6488039 GATAATCAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.55, C:0.11, G:0.13, T:0.21
Consensus pattern (18 bp):
AAATGAGTTAATACAAAC
Found at i:6490755 original size:9 final size:9
Alignment explanation
Indices: 6490737--6490766 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
6490727 TTCGAATGGT
6490737 TTTTTTTTC
1 TTTTTTTTC
*
6490746 TTTTTGTTC
1 TTTTTTTTC
6490755 TTTTTTTTC
1 TTTTTTTTC
6490764 TTT
1 TTT
6490767 GATTTCTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.00, C:0.10, G:0.03, T:0.87
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:6490773 original size:18 final size:18
Alignment explanation
Indices: 6490737--6490775 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
6490727 TTCGAATGGT
*
6490737 TTTTTTTTCTTTTTGTTC
1 TTTTTTTTCTTTATGTTC
6490755 TTTTTTTTCTTTGAT-TTC
1 TTTTTTTTCTTT-ATGTTC
6490773 TTT
1 TTT
6490776 CGTTTTTCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 18 0.95
19 1 0.05
ACGTcount: A:0.03, C:0.10, G:0.05, T:0.82
Consensus pattern (18 bp):
TTTTTTTTCTTTATGTTC
Found at i:6491372 original size:18 final size:18
Alignment explanation
Indices: 6491349--6491386 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
6491339 TAAATAATAT
6491349 TAATAAAAATAACTATAA
1 TAATAAAAATAACTATAA
* *
6491367 TAATAATAATAAGTATAA
1 TAATAAAAATAACTATAA
6491385 TA
1 TA
6491387 TTTATTAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.32
Consensus pattern (18 bp):
TAATAAAAATAACTATAA
Found at i:6492752 original size:84 final size:83
Alignment explanation
Indices: 6492553--6492761 Score: 228
Period size: 84 Copynumber: 2.5 Consensus size: 83
6492543 TTTTAAACCC
* *
6492553 AAACGCCACTATATATGAATCATATTGCGGCGTTTG--T-GTAACGCCGCTAAAGTAATACTCTG
1 AAACACCACTATATATGAATCATATTGCGGCGTTTGTATAGAAACGCCGCTAAAGTAATACTCTG
*
6492615 TTACGGCGTTTGATGAAA
66 TTACGGCCTTTGATGAAA
** * *
6492633 AAACGTCACTATAGATGAATCATATTGCGGCGTTTGTATAGAAACGCCGCTAAAGTACTAAC-CT
1 AAACACCACTATATATGAATCATATTGCGGCGTTTGTATAGAAACGCCGCTAAAGTAAT-ACTCT
* **
6492697 TTTACGGCCTTCTTTTGAAA
65 GTTACGGCCTT-TGATGAAA
* * * ** *
6492717 AACCACCACTATATATAAACCATATTGCAACGTTTGTATAAAAAC
1 AAACACCACTATATATGAATCATATTGCGGCGTTTGTATAGAAAC
6492762 ATCTTTAAAG
Statistics
Matches: 107, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
80 34 0.32
82 1 0.01
83 28 0.26
84 44 0.41
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (83 bp):
AAACACCACTATATATGAATCATATTGCGGCGTTTGTATAGAAACGCCGCTAAAGTAATACTCTG
TTACGGCCTTTGATGAAA
Found at i:6492820 original size:49 final size:49
Alignment explanation
Indices: 6492724--6492825 Score: 123
Period size: 49 Copynumber: 2.1 Consensus size: 49
6492714 AAAAACCACC
* * **
6492724 ACTATATATAAACCATATTGCAACGTTTGTATAAAAACATCTTTAAAGT
1 ACTACATATAAACCATATTGCAACGTTTGTATAAAAACAACGCTAAAGT
* * * * *
6492773 ACTACATATTAACCCTATTGCGATGTTTGTATAAAAATAACGCTAAAGT
1 ACTACATATAAACCATATTGCAACGTTTGTATAAAAACAACGCTAAAGT
6492822 ACTA
1 ACTA
6492826 TTCGTTTTCA
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.41, C:0.16, G:0.10, T:0.33
Consensus pattern (49 bp):
ACTACATATAAACCATATTGCAACGTTTGTATAAAAACAACGCTAAAGT
Found at i:6493991 original size:39 final size:34
Alignment explanation
Indices: 6493957--6494020 Score: 98
Period size: 31 Copynumber: 2.0 Consensus size: 34
6493947 GATTTAATAG
*
6493957 TTTAATAATATAATT--AAAA-TAAAAATTAAAA
1 TTTAATATTATAATTAAAAAATTAAAAATTAAAA
6493988 TTTAATATTATAATTAAAAAATTAAAAATTAAA
1 TTTAATATTATAATTAAAAAATTAAAAATTAAA
6494021 TAATATAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 14 0.48
33 4 0.14
34 11 0.38
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (34 bp):
TTTAATATTATAATTAAAAAATTAAAAATTAAAA
Found at i:6493993 original size:28 final size:29
Alignment explanation
Indices: 6493962--6494029 Score: 72
Period size: 27 Copynumber: 2.4 Consensus size: 29
6493952 AATAGTTTAA
*
6493962 TAATATAATTAAAAT-AAAAATTAAAATT
1 TAATATAATTAAAATAAAAAATTAAAAAT
* *
6493990 TAATATTA-T-AATTAAAAAATTAAAAAT
1 TAATATAATTAAAATAAAAAATTAAAAAT
6494017 TAA-ATAATATAAA
1 TAATATAAT-TAAA
6494030 TAATACAACA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
26 6 0.19
27 16 0.50
28 8 0.25
29 2 0.06
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (29 bp):
TAATATAATTAAAATAAAAAATTAAAAAT
Found at i:6494777 original size:33 final size:33
Alignment explanation
Indices: 6494731--6494830 Score: 173
Period size: 33 Copynumber: 3.0 Consensus size: 33
6494721 TCAGGTTTCG
**
6494731 GATGTGGATTCATTCAAAGTTCCCGAGCCTCGA
1 GATGTGGGCTCATTCAAAGTTCCCGAGCCTCGA
6494764 GATGTGGGCTCATTCAAAGTTCCCGAGCCTCGA
1 GATGTGGGCTCATTCAAAGTTCCCGAGCCTCGA
*
6494797 GATGTGGGCTCATTCAAAGTTCCTGAGCCTCGA
1 GATGTGGGCTCATTCAAAGTTCCCGAGCCTCGA
6494830 G
1 G
6494831 GGGAAGTTGT
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 64 1.00
ACGTcount: A:0.22, C:0.25, G:0.27, T:0.26
Consensus pattern (33 bp):
GATGTGGGCTCATTCAAAGTTCCCGAGCCTCGA
Found at i:6500919 original size:33 final size:32
Alignment explanation
Indices: 6500873--6500953 Score: 107
Period size: 28 Copynumber: 2.6 Consensus size: 32
6500863 AAACTTTATT
*
6500873 TATTCGGGTCGGGTCGGGTTTTTTTAAGTTTGA
1 TATTC-GGTCGGGTCGGGTTTTTTTAAGTGTGA
6500906 TATT---T-GGGTCGGGTTTTTTTAAGTGTGA
1 TATTCGGTCGGGTCGGGTTTTTTTAAGTGTGA
6500934 TATTCAGGTCGGGTCGGGTT
1 TATTC-GGTCGGGTCGGGTT
6500954 CGGGTTTAGG
Statistics
Matches: 42, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
28 26 0.62
29 1 0.02
32 1 0.02
33 14 0.33
ACGTcount: A:0.12, C:0.09, G:0.35, T:0.44
Consensus pattern (32 bp):
TATTCGGTCGGGTCGGGTTTTTTTAAGTGTGA
Found at i:6505303 original size:13 final size:13
Alignment explanation
Indices: 6505285--6505318 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
6505275 CCTGCTGCGG
6505285 CCACTCCACAACA
1 CCACTCCACAACA
*
6505298 CCACTCCACAGCA
1 CCACTCCACAACA
6505311 CCACTCCA
1 CCACTCCA
6505319 ATTCTCATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.32, C:0.56, G:0.03, T:0.09
Consensus pattern (13 bp):
CCACTCCACAACA
Found at i:6515203 original size:18 final size:18
Alignment explanation
Indices: 6515180--6515216 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
6515170 CATTGGCAAC
6515180 TATGGTAACTGAGATTAT
1 TATGGTAACTGAGATTAT
6515198 TATGGTAACTGAGATTAT
1 TATGGTAACTGAGATTAT
6515216 T
1 T
6515217 TTTATTGTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.05, G:0.22, T:0.41
Consensus pattern (18 bp):
TATGGTAACTGAGATTAT
Found at i:6517187 original size:2 final size:2
Alignment explanation
Indices: 6517153--6517178 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6517143 ATGAATACGA
6517153 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
6517179 GAAATATATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6517234 original size:37 final size:37
Alignment explanation
Indices: 6517168--6517239 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
6517158 TATATATATA
* * *
6517168 TATATATATATGAAATATATTTTTCTTTTGTCTCCAC
1 TATAAATAAATGAAATATATTTCTCTTTTGTCTCCAC
6517205 TATAAATAAATGAAATATTATTTCT-TTTTGTCTCC
1 TATAAATAAATGAAATA-TATTTCTCTTTTGTCTCC
6517240 TTAGTGTAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
37 25 0.81
38 6 0.19
ACGTcount: A:0.32, C:0.12, G:0.06, T:0.50
Consensus pattern (37 bp):
TATAAATAAATGAAATATATTTCTCTTTTGTCTCCAC
Found at i:6519013 original size:37 final size:37
Alignment explanation
Indices: 6518945--6519032 Score: 97
Period size: 37 Copynumber: 2.4 Consensus size: 37
6518935 TTTAATATAT
* * * *
6518945 ATATATATATTATACCTTTCAAAACCCTTTTTAAAAA
1 ATATATATATTATATCTTTAAAAAACATTTTTAAAAA
* * **
6518982 ATATATATATTATATGTTTAAAAAATATTTTTTTAAA
1 ATATATATATTATATCTTTAAAAAACATTTTTAAAAA
6519019 AT-TATATATTATAT
1 ATATATATATTATAT
6519033 ACGTATTCAA
Statistics
Matches: 43, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
36 12 0.28
37 31 0.72
ACGTcount: A:0.44, C:0.07, G:0.01, T:0.48
Consensus pattern (37 bp):
ATATATATATTATATCTTTAAAAAACATTTTTAAAAA
Found at i:6519064 original size:37 final size:36
Alignment explanation
Indices: 6518985--6519323 Score: 318
Period size: 37 Copynumber: 9.3 Consensus size: 36
6518975 TTAAAAAATA
* ** * * *
6518985 TATATATTATAT-GTTTAAAAAATATTTTTTTAAAAT
1 TATATATTATATACTTTTCAAAA-ATGTTTTCAAAAC
* *
6519021 TATATATTATATACGTATTCAAAAATGTTTTCAAAAT
1 TATATATTATATAC-TTTTCAAAAATGTTTTCAAAAC
* *
6519058 TATATATTATATACCTTTCCAAAAATGTTTTCCAAAC
1 TATATATTATATA-CTTTTCAAAAATGTTTTCAAAAC
**
6519095 TATATATTATATA-TTTTCAAAACCGTTTT-AAAAC
1 TATATATTATATACTTTTCAAAAATGTTTTCAAAAC
* *
6519129 TATATATTATATATATTTTCAAAAATATTTTCAAAAC
1 TATATATTATATA-CTTTTCAAAAATGTTTTCAAAAC
*
6519166 TATATATTATATATCTTTTCAAAAAAATATTTTCAAAAC
1 TATATATTATATA-CTTTTC--AAAAATGTTTTCAAAAC
* *
6519205 TATATATTATATATATTTTCAAAAATGTTTTTAAAAC
1 TATATATTATATA-CTTTTCAAAAATGTTTTCAAAAC
*
6519242 TATATATTATACATA-TTTTC-AAAACGTTTT-AAAAC
1 TATATATTAT--ATACTTTTCAAAAATGTTTTCAAAAC
**
6519277 --TATATTATATA-TATTTCAAAAAAATTTCTCAAAAC
1 TATATATTATATACT-TTTCAAAAATGTTT-TCAAAAC
*
6519312 TATATAATATAT
1 TATATATTATAT
6519324 GTTTTATTTA
Statistics
Matches: 262, Mismatches: 25, Indels: 31
0.82 0.08 0.10
Matches are distributed among these distances:
31 4 0.02
32 4 0.02
33 15 0.06
34 18 0.07
35 23 0.09
36 34 0.13
37 118 0.45
38 7 0.03
39 39 0.15
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.45
Consensus pattern (36 bp):
TATATATTATATACTTTTCAAAAATGTTTTCAAAAC
Found at i:6519153 original size:147 final size:147
Alignment explanation
Indices: 6518948--6519358 Score: 455
Period size: 147 Copynumber: 2.8 Consensus size: 147
6518938 AATATATATA
** * * *
6518948 TATATATTATA-CCTTTCAAAACCCTTTTTAAAAAATATA-TATATTATATGTTTAAAAAATATT
1 TATATATTATATATTTTCAAAA-CCGTTTTAAAACATATATTATA-TATAT-TTTCAAAAATATT
* * * * *
6519011 TTTTTAAAATTATATATTATATA-CGTATTC-AAAAATGTTTTCAAAATTATATATTATATACCT
63 TTTTCAAAACTATATATTATATATC-TATTCAAAAAATATTTTCAAAACTATATATTATATACAT
*
6519074 TTCCAAAAATGTTTTCCAAAC
127 TTCCAAAAATGTTTTCAAAAC
6519095 TATATATTATATATTTTCAAAACCGTTTTAAAACTATATATTATATATATTTTCAAAAATA--TT
1 TATATATTATATATTTTCAAAACCGTTTTAAAAC-ATATATTATATATATTTTCAAAAATATTTT
* *
6519158 TTCAAAACTATATATTATATATCTTTTCAAAAAAATATTTTCAAAACTATATATTATATATATTT
65 TTCAAAACTATATATTATATATCTATTC-AAAAAATATTTTCAAAACTATATATTATATACATTT
* *
6519223 TCAAAAATGTTTTTAAAAC
129 CCAAAAATGTTTTCAAAAC
*
6519242 TATATATTATACATATTTTCAAAA-CGTTTTAAAAC-TATATTATATATA-TTTCAAAAA-AATT
1 TATATATTAT--ATATTTTCAAAACCGTTTTAAAACATATATTATATATATTTTCAAAAATATTT
* * * * * *
6519303 TCTCAAAACTATATAATATATGTTTTATTTAAAAAACATATTTTCAAAACCATATA
64 TTTCAAAACTATATATTATAT-ATCTA-TTCAAAAA-ATATTTTCAAAACTATATA
6519359 ATGTATTTTT
Statistics
Matches: 229, Mismatches: 22, Indels: 25
0.83 0.08 0.09
Matches are distributed among these distances:
144 1 0.00
145 34 0.15
146 34 0.15
147 95 0.41
148 49 0.21
149 16 0.07
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.44
Consensus pattern (147 bp):
TATATATTATATATTTTCAAAACCGTTTTAAAACATATATTATATATATTTTCAAAAATATTTTT
TCAAAACTATATATTATATATCTATTCAAAAAATATTTTCAAAACTATATATTATATACATTTCC
AAAAATGTTTTCAAAAC
Found at i:6519337 original size:37 final size:37
Alignment explanation
Indices: 6519002--6519360 Score: 293
Period size: 37 Copynumber: 9.7 Consensus size: 37
6518992 TATATGTTTA
* * * ** *
6519002 AAAAATATTTTTTTAAAATTATATATTATATACGTATTC
1 AAAAATA--TTTTCAAAACTATATAATATATATATTTTC
* * * ** *
6519041 AAAAATGTTTTCAAAATTATATATTATATACCTTTCC
1 AAAAATATTTTCAAAACTATATAATATATATATTTTC
* *
6519078 AAAAATGTTTTCCAAACTATAT-AT-TATATATTTTC
1 AAAAATATTTTCAAAACTATATAATATATATATTTTC
*** *
6519113 AAAACCGTTTT-AAAACTATATATTATATATATTTTC
1 AAAAATATTTTCAAAACTATATAATATATATATTTTC
* *
6519149 AAAAATATTTTCAAAACTATATATTATATATCTTTTC
1 AAAAATATTTTCAAAACTATATAATATATATATTTTC
*
6519186 AAAAAAATATTTTCAAAACTATATATTATATATATTTTC
1 --AAAAATATTTTCAAAACTATATAATATATATATTTTC
* * * *
6519225 AAAAATGTTTTTAAAACTATATATTATACATATTTTC
1 AAAAATATTTTCAAAACTATATAATATATATATTTTC
**
6519262 -AAAACGTTTT-AAAACTATAT--TATATATA-TTTC
1 AAAAATATTTTCAAAACTATATAATATATATATTTTC
* * **
6519294 AAAAAAATTTCTCAAAACTATATAATATATGTTTTATTTAA
1 AAAAATATTT-TCAAAACTATATAATATA---TATATTTTC
*
6519335 AAAACATATTTTCAAAACCATATAAT
1 AAAA-ATATTTTCAAAACTATATAAT
6519361 GTATTTTTCA
Statistics
Matches: 273, Mismatches: 32, Indels: 28
0.82 0.10 0.08
Matches are distributed among these distances:
32 4 0.01
33 14 0.05
34 10 0.04
35 38 0.14
36 29 0.11
37 108 0.40
39 42 0.15
40 3 0.01
41 20 0.07
42 5 0.02
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.44
Consensus pattern (37 bp):
AAAAATATTTTCAAAACTATATAATATATATATTTTC
Found at i:6519358 original size:41 final size:39
Alignment explanation
Indices: 6519288--6519368 Score: 101
Period size: 41 Copynumber: 2.0 Consensus size: 39
6519278 ATATTATATA
*
6519288 TATTTCAAAAAAATTTCTCAAAACTATATAATATATGTTT
1 TATTTCAAAAAAATTTCTCAAAACCATATAATATAT-TTT
* *
6519328 TATTT-AAAAAACATATTTTCAAAACCATATAATGTATTTT
1 TATTTCAAAAAA-AT-TTCTCAAAACCATATAATATATTTT
6519368 T
1 T
6519369 CAAAAACCTA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
39 6 0.17
40 11 0.31
41 19 0.53
ACGTcount: A:0.44, C:0.10, G:0.02, T:0.43
Consensus pattern (39 bp):
TATTTCAAAAAAATTTCTCAAAACCATATAATATATTTT
Found at i:6524038 original size:18 final size:18
Alignment explanation
Indices: 6524012--6524046 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6524002 ACTGAAAATT
* *
6524012 TGTCTCGAATGACCACTA
1 TGTCCCGAAGGACCACTA
6524030 TGTCCCGAAGGACCACT
1 TGTCCCGAAGGACCACT
6524047 CCTTAAGAAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.23
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:6533948 original size:91 final size:92
Alignment explanation
Indices: 6533827--6533994 Score: 266
Period size: 92 Copynumber: 1.8 Consensus size: 92
6533817 TGGATCAACA
* * * *
6533827 TTTCCAGTGGAGAGTTCGTAATGAGGAGAACTCATCC-AAAAAGGGAGAAGAAGTTCATAATGAG
1 TTTCCAATGGAGAGTTCATAATAAGAAGAACTCATCCGAAAAAGGGAGAAGAAGTTCATAATGAG
6533891 AAGAACTTGTTCAATCTCACATCATTG
66 AAGAACTTGTTCAATCTCACATCATTG
* *
6533918 TTTCCAATGGAGAGTTCATAATAAGAAGAACTCATCCGACAGAGGGAGAAGAAGTTCATAATGAG
1 TTTCCAATGGAGAGTTCATAATAAGAAGAACTCATCCGAAAAAGGGAGAAGAAGTTCATAATGAG
*
6533983 AAGATCTTGTTC
66 AAGAACTTGTTC
6533995 GACCTATCAC
Statistics
Matches: 69, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
91 33 0.48
92 36 0.52
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.25
Consensus pattern (92 bp):
TTTCCAATGGAGAGTTCATAATAAGAAGAACTCATCCGAAAAAGGGAGAAGAAGTTCATAATGAG
AAGAACTTGTTCAATCTCACATCATTG
Found at i:6534248 original size:105 final size:107
Alignment explanation
Indices: 6534054--6534341 Score: 382
Period size: 105 Copynumber: 2.7 Consensus size: 107
6534044 GGGATTGATA
* * *
6534054 TTTCTAATGGAGAGTTCATAATGAGAAGAACTCGTCCTAAAGGAGAAAGTTCATAATGAGAAGAA
1 TTTC-AATGAAGAGTTCATAATGAGAAGAACTCGTCATAAGGGAGAAAGTTCATAATGAGAAGAA
*
6534119 CTTGTTCCTTTCAAATTCACCACAGAAGGAGGTGAACCAACAT
65 CTTGTTCCTTTCAAATCCACCACAGAAGGAGGTGAACCAACAT
* *
6534162 TTTC-A-GAAGAGTTCATAATGAGAAGAACTCGTCTTAAGGGAGAAAGTTCATAATGAGTAGAAC
1 TTTCAATGAAGAGTTCATAATGAGAAGAACTCGTCATAAGGGAGAAAGTTCATAATGAGAAGAAC
* * * * *
6534225 ATGTTCCTTTCAAGTCCATCACAGAAGGAGGTGGATCAACAT
66 TTGTTCCTTTCAAATCCACCACAGAAGGAGGTGAACCAACAT
* * * *
6534267 TTTCAATGGAGAGTTCATAATGGGAAGAACTCATCCAAAGAGGGAGAAGAAGTTCATAATGAGAA
1 TTTCAATGAAGAGTTCATAATGAGAAGAACTCGT-CATA-AGGGAG-A-AAGTTCATAATGAGAA
6534332 GAACTTGTTC
62 GAACTTGTTC
6534342 AACCTTGCAT
Statistics
Matches: 157, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
105 94 0.60
106 2 0.01
107 24 0.15
108 6 0.04
109 6 0.04
110 1 0.01
111 24 0.15
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.25
Consensus pattern (107 bp):
TTTCAATGAAGAGTTCATAATGAGAAGAACTCGTCATAAGGGAGAAAGTTCATAATGAGAAGAAC
TTGTTCCTTTCAAATCCACCACAGAAGGAGGTGAACCAACAT
Found at i:6534585 original size:9 final size:9
Alignment explanation
Indices: 6534571--6534607 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
6534561 GACTTTAAAA
6534571 ATATATATT
1 ATATATATT
6534580 ATATATATT
1 ATATATATT
6534589 ATAT-TATT
1 ATATATATT
6534597 AT-TATTATT
1 ATATA-TATT
6534606 AT
1 AT
6534608 TATTTTATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
7 1 0.04
8 6 0.23
9 19 0.73
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (9 bp):
ATATATATT
Found at i:6534593 original size:14 final size:14
Alignment explanation
Indices: 6534576--6534623 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
6534566 TAAAAATATA
6534576 TATTATATATATTA-
1 TATTAT-TATATTAT
6534590 TATTATTATTATTAT
1 TATTATTA-TATTAT
*
6534605 TATTATTTTATTAT
1 TATTATTATATTAT
6534619 TATTA
1 TATTA
6534624 ATAAAAATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
13 2 0.06
14 22 0.71
15 7 0.23
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (14 bp):
TATTATTATATTAT
Found at i:6534598 original size:3 final size:3
Alignment explanation
Indices: 6534576--6534623 Score: 66
Period size: 3 Copynumber: 16.7 Consensus size: 3
6534566 TAAAAATATA
6534576 TAT TA- TAT ATAT TA- TAT TAT TAT TAT TAT TAT TAT T-T TAT TAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
6534619 TAT TA
1 TAT TA
6534624 ATAAAAATAT
Statistics
Matches: 41, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
2 6 0.15
3 32 0.78
4 3 0.07
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:6534601 original size:20 final size:20
Alignment explanation
Indices: 6534576--6534623 Score: 71
Period size: 20 Copynumber: 2.4 Consensus size: 20
6534566 TAAAAATATA
6534576 TATTA-TATATATTATATTAT
1 TATTATTAT-TATTATATTAT
*
6534596 TATTATTATTATTATTTTAT
1 TATTATTATTATTATATTAT
6534616 TATTATTA
1 TATTATTA
6534624 ATAAAAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 23 0.88
21 3 0.12
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
TATTATTATTATTATATTAT
Found at i:6534634 original size:23 final size:23
Alignment explanation
Indices: 6534584--6534635 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
6534574 TATATTATAT
* **
6534584 ATATTATATTATTATTATTATTA
1 ATATTATATTATTATTAATAAAA
* *
6534607 TTATTTTATTATTATTAATAAAA
1 ATATTATATTATTATTAATAAAA
6534630 ATATTA
1 ATATTA
6534636 CATGTGTTTG
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (23 bp):
ATATTATATTATTATTAATAAAA
Found at i:6536527 original size:17 final size:19
Alignment explanation
Indices: 6536487--6536528 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 19
6536477 AACGCATACC
6536487 ATTTTTTGTCTTAAAAATG
1 ATTTTTTGTCTTAAAAATG
*
6536506 A-TTTTTG-CTT-AAAATT
1 ATTTTTTGTCTTAAAAATG
6536522 ATTTTTT
1 ATTTTTT
6536529 AAAAGACATT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 6 0.29
17 8 0.38
18 6 0.29
19 1 0.05
ACGTcount: A:0.29, C:0.05, G:0.07, T:0.60
Consensus pattern (19 bp):
ATTTTTTGTCTTAAAAATG
Found at i:6541718 original size:8 final size:8
Alignment explanation
Indices: 6541705--6541729 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
6541695 AATCGCTGAG
6541705 CTAACAAC
1 CTAACAAC
6541713 CTAACAAC
1 CTAACAAC
6541721 CTAACAAC
1 CTAACAAC
6541729 C
1 C
6541730 CTAGGCTTAG
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:0.48, C:0.40, G:0.00, T:0.12
Consensus pattern (8 bp):
CTAACAAC
Found at i:6542420 original size:20 final size:20
Alignment explanation
Indices: 6542392--6542463 Score: 90
Period size: 20 Copynumber: 3.5 Consensus size: 20
6542382 TTCCCAATTT
*
6542392 GCAATGCGAATAAGTAAATC
1 GCAACGCGAATAAGTAAATC
** *
6542412 GCAACGCGAATTGGGAAATTC
1 GCAACGCGAATAAGTAAA-TC
*
6542433 GCAATGCGAATAAGTAAATC
1 GCAACGCGAATAAGTAAATC
6542453 GCAACGCGAAT
1 GCAACGCGAAT
6542464 TGGGAAAATC
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 26 0.62
21 16 0.38
ACGTcount: A:0.40, C:0.18, G:0.24, T:0.18
Consensus pattern (20 bp):
GCAACGCGAATAAGTAAATC
Found at i:6542436 original size:21 final size:20
Alignment explanation
Indices: 6542407--6542482 Score: 89
Period size: 21 Copynumber: 3.7 Consensus size: 20
6542397 GCGAATAAGT
6542407 AAATCGCAACGCGAATTGGG
1 AAATCGCAACGCGAATTGGG
* ** *
6542427 AAATTCGCAATGCGAATAAGT
1 AAA-TCGCAACGCGAATTGGG
6542448 AAATCGCAACGCGAATTGGG
1 AAATCGCAACGCGAATTGGG
*
6542468 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
6542483 TACTGACTAT
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
20 16 0.36
21 29 0.64
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.17
Consensus pattern (20 bp):
AAATCGCAACGCGAATTGGG
Found at i:6542437 original size:41 final size:41
Alignment explanation
Indices: 6542387--6542482 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 41
6542377 CGATTTTCCC
*
6542387 AATTTGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
6542428 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
1 AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
*
6542469 AAATCGCAATGCGA
1 AATTCGCAATGCGA
6542483 TACTGACTAT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.40, C:0.17, G:0.24, T:0.20
Consensus pattern (41 bp):
AATTCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGA
Found at i:6542495 original size:41 final size:41
Alignment explanation
Indices: 6542409--6542543 Score: 123
Period size: 41 Copynumber: 3.3 Consensus size: 41
6542399 GAATAAGTAA
* * *
6542409 ATCGCAACGCGAATTGGGAAATTCGCAATGCGAATA-AGTA-A
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCG-ATACTG-ACT
6542450 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
* * ** * * *
6542491 ATCGCAATGCGATAAT-AAAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGGGAAAATCGCAATGCGATACTGACT
*
6542532 TTCGCAACGCGA
1 ATCGCAACGCGA
6542544 TACTGACTTT
Statistics
Matches: 79, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
40 4 0.05
41 73 0.92
42 2 0.03
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.20
Consensus pattern (41 bp):
ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTGACT
Found at i:6542496 original size:20 final size:20
Alignment explanation
Indices: 6542471--6542565 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
6542461 AATTGGGAAA
*
6542471 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* * * **
6542491 ATCGCAATGCGATAATAAAAA
1 ATCGCAACGCGATACT-GACT
* *
6542512 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTGACT
*
6542532 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTGACT
*
6542552 TTCGCAACGCGATA
1 ATCGCAACGCGATA
6542566 ATACATAATC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.77
21 14 0.23
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:6543085 original size:20 final size:20
Alignment explanation
Indices: 6543060--6543097 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
6543050 CGATTCTCTC
6543060 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
6543080 GTTGCGATTTTCATTTTC
1 GTTGCGATAGTCATTTTC
6543098 AGAAACTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:6544438 original size:18 final size:18
Alignment explanation
Indices: 6544417--6544461 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
6544407 TCCACTTCGG
*
6544417 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
* *
6544435 GAGCTATCACCTCACCTA
1 GAGCCATCACCTCACCCA
6544453 GAGCCATCA
1 GAGCCATCA
6544462 TCTGATCGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.27, C:0.42, G:0.16, T:0.16
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:6544988 original size:19 final size:20
Alignment explanation
Indices: 6544934--6544989 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
6544924 TAGTTTACTT
* *
6544934 TCGCAACACGAAAATGACTA
1 TCGCAACGCGGAAATGACTA
*
6544954 TCGCAACGCGGAAATGGCTA
1 TCGCAACGCGGAAATGACTA
*
6544974 TCGCAATGC-GAAATGA
1 TCGCAACGCGGAAATGA
6544990 AAATCGTAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 6 0.19
20 25 0.81
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.16
Consensus pattern (20 bp):
TCGCAACGCGGAAATGACTA
Found at i:6545008 original size:14 final size:14
Alignment explanation
Indices: 6544989--6545046 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 14
6544979 ATGCGAAATG
*
6544989 AAAATCGTAACGAC
1 AAAATCGCAACGAC
*
6545003 AAAATCGCAACGCGAA
1 AAAATCGCAA--CGAC
6545019 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
*
6545035 AAAATCGTAACG
1 AAAATCGCAACG
6545047 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.53
16 8 0.22
18 9 0.25
ACGTcount: A:0.48, C:0.22, G:0.17, T:0.12
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:6545033 original size:32 final size:33
Alignment explanation
Indices: 6544973--6545063 Score: 148
Period size: 32 Copynumber: 2.8 Consensus size: 33
6544963 GGAAATGGCT
* *
6544973 ATCGCAATGCGAAATGAAAATCGTAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
6545006 ATCGCAACGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAAA
*
6545038 ATCGTAACGCGAAATGAAAATCGCAA
1 ATCGCAACGCGAAATGAAAATCGCAA
6545064 TGCGATAGTC
Statistics
Matches: 54, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
32 30 0.56
33 24 0.44
ACGTcount: A:0.47, C:0.21, G:0.19, T:0.13
Consensus pattern (33 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAAA
Found at i:6547120 original size:14 final size:15
Alignment explanation
Indices: 6547101--6547172 Score: 58
Period size: 14 Copynumber: 4.5 Consensus size: 15
6547091 CGAAATGGCT
6547101 ATCGCAA-CGAGAAA
1 ATCGCAAGCGAGAAA
*
6547115 ATCGCAATGCGAAATGAA
1 ATCGCAA-GCGAGA--AA
6547133 ATCGCAATGCGAAATGAAA
1 ATCGCAA-GCG--A-GAAA
6547152 ATCGCAA-CGAGAAA
1 ATCGCAAGCGAGAAA
6547166 ATCGCAA
1 ATCGCAA
6547173 TGCAATTTTC
Statistics
Matches: 49, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
14 18 0.37
15 1 0.02
16 4 0.08
17 2 0.04
18 13 0.27
19 9 0.18
20 1 0.02
21 1 0.02
ACGTcount: A:0.47, C:0.19, G:0.21, T:0.12
Consensus pattern (15 bp):
ATCGCAAGCGAGAAA
Found at i:6547165 original size:19 final size:19
Alignment explanation
Indices: 6547111--6547158 Score: 89
Period size: 18 Copynumber: 2.6 Consensus size: 19
6547101 ATCGCAACGA
6547111 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
6547130 G-AAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
6547148 GAAAATCGCAA
1 GAAAATCGCAA
6547159 CGAGAAAATC
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 18 0.64
19 10 0.36
ACGTcount: A:0.48, C:0.17, G:0.21, T:0.15
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:6547228 original size:20 final size:20
Alignment explanation
Indices: 6547203--6547250 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
6547193 GCGATATTCT
6547203 CGTTGCGATAACCATTTTCA
1 CGTTGCGATAACCATTTTCA
*
6547223 CGTTGCGATAGCCATTTTCA
1 CGTTGCGATAACCATTTTCA
6547243 CGTTGCGA
1 CGTTGCGA
6547251 AAGTCAAATG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (20 bp):
CGTTGCGATAACCATTTTCA
Found at i:6548935 original size:24 final size:24
Alignment explanation
Indices: 6548879--6548937 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 24
6548869 AGTCAGTATT
* * *
6548879 CGAAATTTGATCTTGGTCATTACC
1 CGAAATTTGATATTGGTCAATACA
* *
6548903 CGGACTTTGATATTGGTCAATACA
1 CGAAATTTGATATTGGTCAATACA
*
6548927 CGAATTTTGAT
1 CGAAATTTGAT
6548938 GATGTTTCAG
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.37
Consensus pattern (24 bp):
CGAAATTTGATATTGGTCAATACA
Found at i:6551445 original size:19 final size:19
Alignment explanation
Indices: 6551423--6551520 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
6551413 GGAAATTACT
6551423 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
6551442 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
*
6551456 ATCACAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
**
6551475 ATCGCAA--CG--A-GGGA
1 ATCGCAATGCGAAATGAAA
6551489 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
6551508 ATCGCAACGCGAA
1 ATCGCAATGCGAA
6551521 TTTAATTTCG
Statistics
Matches: 60, Mismatches: 9, Indels: 20
0.67 0.10 0.22
Matches are distributed among these distances:
14 18 0.30
15 2 0.03
16 4 0.07
17 4 0.07
18 2 0.03
19 30 0.50
ACGTcount: A:0.45, C:0.19, G:0.23, T:0.12
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:6551469 original size:33 final size:33
Alignment explanation
Indices: 6551427--6551516 Score: 162
Period size: 33 Copynumber: 2.7 Consensus size: 33
6551417 ATTACTATCG
6551427 CAATGCGAAATGAAAATCGCAACGAGAGAATCA
1 CAATGCGAAATGAAAATCGCAACGAGAGAATCA
* *
6551460 CAATGCGAAATGAAAATCGCAACGAGGGAATCG
1 CAATGCGAAATGAAAATCGCAACGAGAGAATCA
6551493 CAATGCGAAATGAAAATCGCAACG
1 CAATGCGAAATGAAAATCGCAACG
6551517 CGAATTTAAT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.46, C:0.19, G:0.23, T:0.12
Consensus pattern (33 bp):
CAATGCGAAATGAAAATCGCAACGAGAGAATCA
Found at i:6551538 original size:19 final size:20
Alignment explanation
Indices: 6551516--6551558 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
6551506 AAATCGCAAC
6551516 GCGAATTT-AATTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
* *
6551535 GCGATTTTCATTTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
6551555 GCGA
1 GCGA
6551559 TTCTCTCGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.16, C:0.19, G:0.23, T:0.42
Consensus pattern (20 bp):
GCGAATTTCAATTTCGCGTT
Found at i:6551543 original size:14 final size:14
Alignment explanation
Indices: 6551544--6551577 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
6551534 TGCGATTTTC
6551544 ATTTTCGCGTTGCG
1 ATTTTCGCGTTGCG
* *
6551558 ATTCTCTCGTTGCG
1 ATTTTCGCGTTGCG
6551572 ATTTTC
1 ATTTTC
6551578 ATTTCGCATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.09, C:0.24, G:0.21, T:0.47
Consensus pattern (14 bp):
ATTTTCGCGTTGCG
Found at i:6551718 original size:14 final size:14
Alignment explanation
Indices: 6551699--6551735 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
6551689 CATCAATTAA
6551699 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
6551713 ACAAATCACCTTTT
1 ACAAATCAACTTTT
6551727 ACAAATCAA
1 ACAAATCAA
6551736 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:6553155 original size:21 final size:21
Alignment explanation
Indices: 6553089--6553155 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
6553079 GTGAATCGGG
*
6553089 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
6553109 CCTCTTCAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
6553131 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
6553152 CTCT
1 CTCT
6553156 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.21, G:0.36, T:0.24
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:6553174 original size:42 final size:41
Alignment explanation
Indices: 6553089--6553211 Score: 113
Period size: 42 Copynumber: 2.9 Consensus size: 41
6553079 GTGAATCGGG
* * * * *
6553089 CTCTTGAATGGTGGGA-GGGACCTCTTCAACGATGACAGTGGC
1 CTCTTGAACGGTGGGAGGGGA-CTC-TCGAGGATGATAGGGGC
6553131 CTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGGGGC
1 CTCTTGAACGGTGGGAGGGGACTCTCGAGG-ATGATAGGGGC
* * * * *
6553173 CTCTTCAACGATAGGAGTGGACTCTTGAGGGATGATAGG
1 CTCTTGAACGGTGGGAGGGGACTCTCGA-GGATGATAGG
6553212 CGAGTCGGGC
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 4 0.06
42 58 0.85
43 6 0.09
ACGTcount: A:0.23, C:0.18, G:0.37, T:0.23
Consensus pattern (41 bp):
CTCTTGAACGGTGGGAGGGGACTCTCGAGGATGATAGGGGC
Found at i:6555319 original size:19 final size:19
Alignment explanation
Indices: 6555202--6555386 Score: 165
Period size: 19 Copynumber: 10.1 Consensus size: 19
6555192 TCTTTTGCTT
*
6555202 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
6555221 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
6555241 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
6555259 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** *
6555275 GAAATGACTATCGCGAC-C
1 GAAATGAAAATCGCAACGC
*
6555293 ---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGC
6555308 GAAATGAAAATCGCAACCGC
1 GAAATGAAAATCGCAA-CGC
*
6555328 GAAATTAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
6555347 GAGATGAAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
6555366 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
6555385 GA
1 GA
6555387 TTTTGGTTTC
Statistics
Matches: 136, Mismatches: 17, Indels: 26
0.76 0.09 0.15
Matches are distributed among these distances:
14 19 0.14
15 3 0.02
16 2 0.01
17 1 0.01
18 4 0.03
19 60 0.44
20 45 0.33
21 2 0.01
ACGTcount: A:0.43, C:0.22, G:0.23, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:6555340 original size:39 final size:38
Alignment explanation
Indices: 6555202--6555386 Score: 165
Period size: 33 Copynumber: 5.1 Consensus size: 38
6555192 TCTTTTGCTT
* *
6555202 GAAATGAAAATCGCAACGAGATAATGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGCGA-AATGAAAATCGCAACGC
** *
6555241 GGAAATGACTATCGCAA--CG--A-GAGAATCGCAACGC
1 -GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGC
** * *
6555275 GAAATGACTATCGCGAC-C---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGC
*
6555308 GAAATGAAAATCGCAACCGCGAAATTAAAATCGCAACGC
1 GAAATGAAAATCGCAA-CGCGAAATGAAAATCGCAACGC
* *
6555347 GAGATGAAAATCGCAACGCGAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGC
6555385 GA
1 GA
6555387 TTTTGGTTTC
Statistics
Matches: 125, Mismatches: 13, Indels: 16
0.81 0.08 0.10
Matches are distributed among these distances:
33 42 0.34
34 16 0.13
35 2 0.02
38 24 0.19
39 27 0.22
40 14 0.11
ACGTcount: A:0.43, C:0.22, G:0.23, T:0.12
Consensus pattern (38 bp):
GAAATGAAAATCGCAACGCGAAATGAAAATCGCAACGC
Found at i:6555415 original size:19 final size:19
Alignment explanation
Indices: 6555382--6555426 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
6555372 AAAATCGCAA
*
6555382 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGATTTCGCGT
*
6555401 TGCGATTTTTATTTCGCGT
1 TGCGATTTTGATTTCGCGT
6555420 TGCGATT
1 TGCGATT
6555427 ATCTCGTTGC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.09, C:0.16, G:0.27, T:0.49
Consensus pattern (19 bp):
TGCGATTTTGATTTCGCGT
Found at i:6556065 original size:20 final size:20
Alignment explanation
Indices: 6555980--6556073 Score: 80
Period size: 20 Copynumber: 4.7 Consensus size: 20
6555970 CGCTATGTAA
*
6555980 ATCGCGTTGCGAAAGTCAGT
1 ATCGCGTTGCGATAGTCAGT
* * *
6556000 ATCGTGTTGCGAAAGTAAGT
1 ATCGCGTTGCGATAGTCAGT
* ** * *
6556020 ATCTCGTTGCGATTTTTTATT
1 ATCGCGTTGCGA-TAGTCAGT
*
6556041 ATCGCATTGCGATAGTCAGT
1 ATCGCGTTGCGATAGTCAGT
*
6556061 ATCGCATTGCGAT
1 ATCGCGTTGCGAT
6556074 TTTCCCAATT
Statistics
Matches: 58, Mismatches: 15, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
20 45 0.78
21 13 0.22
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.35
Consensus pattern (20 bp):
ATCGCGTTGCGATAGTCAGT
Found at i:6556092 original size:41 final size:41
Alignment explanation
Indices: 6556062--6556157 Score: 147
Period size: 41 Copynumber: 2.3 Consensus size: 41
6556052 ATAGTCAGTA
* * *
6556062 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTCACGTAT
* *
6556103 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTCACGTAT
6556144 TCGCATTGCGAATT
1 TCGCATTGCGAATT
6556158 GGGAAAATCG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 54 1.00
ACGTcount: A:0.19, C:0.24, G:0.18, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGAATTTCCCAATTCGCGTTGCGATTCACGTAT
Found at i:6556106 original size:20 final size:20
Alignment explanation
Indices: 6556062--6556154 Score: 96
Period size: 20 Copynumber: 4.5 Consensus size: 20
6556052 ATAGTCAGTA
* **
6556062 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACTTAT
*
6556083 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
* **
6556103 TCGCATTGCGAATTTCCCAAT
1 TCGCATTGCG-ATTTACTTAT
*
6556124 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTTAT
6556144 TCGCATTGCGA
1 TCGCATTGCGA
6556155 ATTGGGAAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 32 0.55
21 26 0.45
ACGTcount: A:0.18, C:0.25, G:0.18, T:0.39
Consensus pattern (20 bp):
TCGCATTGCGATTTACTTAT
Found at i:6559558 original size:2 final size:2
Alignment explanation
Indices: 6559551--6559577 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6559541 AACATCTTTA
6559551 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
6559578 GGGATAATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Done.