Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 ID=Chr08-JGI_221_v2.0
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: 57128820
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 677448 characters in sequence are not A, C, G, or T
File 63 of 190
Found at i:18284987 original size:21 final size:19
Alignment explanation
Indices: 18284931--18284991 Score: 70
Period size: 19 Copynumber: 3.1 Consensus size: 19
18284921 TAATTATTTA
18284931 TTAAATT-TAATTAGAATAT
1 TTAAATTATAATTA-AATAT
* *
18284950 ATAAATTATATTTAAATAT
1 TTAAATTATAATTAAATAT
18284969 TTAAATATAATAATTAAATAT
1 TTAAAT-T-ATAATTAAATAT
18284990 TT
1 TT
18284992 GTAATTAGAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
19 16 0.46
20 6 0.17
21 13 0.37
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.48
Consensus pattern (19 bp):
TTAAATTATAATTAAATAT
Found at i:18286842 original size:72 final size:73
Alignment explanation
Indices: 18286752--18286926 Score: 198
Period size: 72 Copynumber: 2.4 Consensus size: 73
18286742 AAAATCACAT
* * * *
18286752 ATAAACAACTATTGATAAAACTAATTTAGTA-AAAAATAAGTAGAATATAAATTCAATGA-AGAA
1 ATAAACAACTTTTGATAAAACTAATTTAGCACAAAAATAAGTAGAACATAAATTCAAT-ATACAA
*
18286815 AGACCAAAC
65 AAACCAAAC
* * *
18286824 ATAAACAACTTTTAATAAAACTAGA-TTA-CACATAAATAAGTAGAACATAAATTCAATATCCAA
1 ATAAACAACTTTTGATAAAACTA-ATTTAGCACAAAAATAAGTAGAACATAAATTCAATATACAA
18286887 AAACCAAAC
65 AAACCAAAC
* *
18286896 ATAAATAA-TTGTTGATAAAACTAGTTTAGCA
1 ATAAACAACTT-TTGATAAAACTAATTTAGCA
18286927 TTGTTGTTTA
Statistics
Matches: 86, Mismatches: 11, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
71 4 0.05
72 79 0.92
73 3 0.03
ACGTcount: A:0.54, C:0.12, G:0.08, T:0.26
Consensus pattern (73 bp):
ATAAACAACTTTTGATAAAACTAATTTAGCACAAAAATAAGTAGAACATAAATTCAATATACAAA
AACCAAAC
Found at i:18287367 original size:18 final size:18
Alignment explanation
Indices: 18287346--18287393 Score: 87
Period size: 18 Copynumber: 2.7 Consensus size: 18
18287336 CCCATCAATT
*
18287346 TGAACATCATTTGAAATG
1 TGAACATCATTTAAAATG
18287364 TGAACATCATTTAAAATG
1 TGAACATCATTTAAAATG
18287382 TGAACATCATTT
1 TGAACATCATTT
18287394 CTCATATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.35
Consensus pattern (18 bp):
TGAACATCATTTAAAATG
Found at i:18288420 original size:117 final size:115
Alignment explanation
Indices: 18288282--18288667 Score: 520
Period size: 117 Copynumber: 3.3 Consensus size: 115
18288272 TTATAGGCAC
18288282 AAGTTTTTAATTAATATTTATGTAATTAAAAATAGTCCCTTTAAGATGATTATTAATTATTATTA
1 AAGTTTTTAATTAATATTTATGTAATTAAAAATAGTCCCTTTAAGATGATTATTAATTATTATTA
18288347 TTGCTACTGACAAAATTTTACATTCTTTTACATTATTTTCTGTAATTTTACA
66 TTGCTACTGACAAAATTTTACATT-TTTTACATT-TTTTCTGTAATTTTACA
** ** *
18288399 AAGTTTTTAATTAATATTTATGTAATTAATATTTATGT-AATTAAAAAAGTCCGATGATTATTAA
1 AAGTTTTTAATTAATATTTATGTAATTAA-AAATA-GTCCCTT---TAA----GATGATTATTAA
18288463 TTATTATTATTGCTACTGACAAAATTTTACA----TT-C---TTTTCTGTAATTTTACA
57 TTATTATTATTGCTACTGACAAAATTTTACATTTTTTACATTTTTTCTGTAATTTTACA
*
18288514 AAGTTTTTAATTAATATTTATGTAATTAAAAATGGTCCCTTTAAGATGATTATTAATTATTATTA
1 AAGTTTTTAATTAATATTTATGTAATTAAAAATAGTCCCTTTAAGATGATTATTAATTATTATTA
*
18288579 TTGCTACTAACAAAATTTTACATTATTTTACATTCTTTTCTGTAATTTTACA
66 TTGCTACTGACAAAATTTTACATT-TTTTACATT-TTTTCTGTAATTTTACA
*
18288631 AAGTTTTTAATTAATATTAATGTAATTAAAAATAGTC
1 AAGTTTTTAATTAATATTTATGTAATTAAAAATAGTC
18288668 TATTTTTCTG
Statistics
Matches: 235, Mismatches: 14, Indels: 40
0.81 0.05 0.14
Matches are distributed among these distances:
107 42 0.18
111 2 0.01
112 2 0.01
113 3 0.01
114 4 0.02
115 46 0.20
117 81 0.34
118 5 0.02
119 3 0.01
120 2 0.01
121 2 0.01
125 43 0.18
ACGTcount: A:0.37, C:0.08, G:0.07, T:0.48
Consensus pattern (115 bp):
AAGTTTTTAATTAATATTTATGTAATTAAAAATAGTCCCTTTAAGATGATTATTAATTATTATTA
TTGCTACTGACAAAATTTTACATTTTTTACATTTTTTCTGTAATTTTACA
Found at i:18288426 original size:15 final size:15
Alignment explanation
Indices: 18288406--18288442 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
18288396 ACAAAGTTTT
18288406 TAATTAATATTTATG
1 TAATTAATATTTATG
18288421 TAATTAATATTTATG
1 TAATTAATATTTATG
18288436 TAATTAA
1 TAATTAA
18288443 AAAAGTCCGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.51
Consensus pattern (15 bp):
TAATTAATATTTATG
Found at i:18288496 original size:125 final size:123
Alignment explanation
Indices: 18288289--18288659 Score: 445
Period size: 115 Copynumber: 3.1 Consensus size: 123
18288279 CACAAGTTTT
18288289 TAATTAATATTTATGTAATTAAAAATAGTCCCTTTAAGATGATTATTAATTATTATTATTGCTAC
1 TAATTAATATTTATGTAATTAAAAA-AGT-CC-----GATGATTATTAATTATTATTATTGCTAC
18288354 TGACAAAATTTTACATTCTTTTACATTATTTTCTGTAATTTTACAAAGTTTTTAATTAATATTTA
59 TGACAAAATTTTACATT-TTTTACATT-TTTTCTGTAATTTTACAAAGTTTTTAATTAATATTTA
18288419 TG
122 TG
18288421 TAATTAATATTTATGTAATTAAAAAAGTCCGATGATTATTAATTATTATTATTGCTACTGACAAA
1 TAATTAATATTTATGTAATTAAAAAAGTCCGATGATTATTAATTATTATTATTGCTACTGACAAA
18288486 ATTTTACA----TT-C---TTTTCTGTAATTTTACAAAGTTTTTAATTAATATTTATG
66 ATTTTACATTTTTTACATTTTTTCTGTAATTTTACAAAGTTTTTAATTAATATTTATG
* ** * *
18288536 TAATTAA-A--AATGGTCCCTT---TAA----GATGATTATTAATTATTATTATTGCTACTAACA
1 TAATTAATATTTAT-GT-AATTAAAAAAGTCCGATGATTATTAATTATTATTATTGCTACTGACA
*
18288591 AAATTTTACATTATTTTACATTCTTTTCTGTAATTTTACAAAGTTTTTAATTAATATTAATG
64 AAATTTTACATT-TTTTACATT-TTTTCTGTAATTTTACAAAGTTTTTAATTAATATTTATG
18288653 TAATTAA
1 TAATTAA
18288660 AAATAGTCTA
Statistics
Matches: 221, Mismatches: 6, Indels: 39
0.83 0.02 0.15
Matches are distributed among these distances:
107 42 0.19
111 2 0.01
112 4 0.02
113 3 0.01
114 3 0.01
115 46 0.21
117 45 0.20
119 1 0.00
120 2 0.01
125 43 0.19
130 2 0.01
131 3 0.01
132 25 0.11
ACGTcount: A:0.36, C:0.08, G:0.07, T:0.48
Consensus pattern (123 bp):
TAATTAATATTTATGTAATTAAAAAAGTCCGATGATTATTAATTATTATTATTGCTACTGACAAA
ATTTTACATTTTTTACATTTTTTCTGTAATTTTACAAAGTTTTTAATTAATATTTATG
Found at i:18290641 original size:19 final size:19
Alignment explanation
Indices: 18290617--18290674 Score: 89
Period size: 19 Copynumber: 3.1 Consensus size: 19
18290607 GTGGTGGAGA
*
18290617 AGAGGAACAAAGCACCAGC
1 AGAGGAACAAAGAACCAGC
* *
18290636 AGAGGAAGAAATAACCAGC
1 AGAGGAACAAAGAACCAGC
18290655 AGAGGAACAAAGAACCAGC
1 AGAGGAACAAAGAACCAGC
18290674 A
1 A
18290675 CCAGTAGAGG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.52, C:0.21, G:0.26, T:0.02
Consensus pattern (19 bp):
AGAGGAACAAAGAACCAGC
Found at i:18290655 original size:25 final size:25
Alignment explanation
Indices: 18290649--18290774 Score: 189
Period size: 25 Copynumber: 5.0 Consensus size: 25
18290639 GGAAGAAATA
18290649 ACCAGCAGAGGAACAAAGAACCAGC
1 ACCAGCAGAGGAACAAAGAACCAGC
*
18290674 ACCAGTAGAGGAACAAAGAACCAGC
1 ACCAGCAGAGGAACAAAGAACCAGC
*
18290699 ACCAACAGAGGAACAAAGAACCAGC
1 ACCAGCAGAGGAACAAAGAACCAGC
* *
18290724 ACCAGCAGAAGAATAAAGAACCAGC
1 ACCAGCAGAGGAACAAAGAACCAGC
* * *
18290749 ACCAGCAGAGGATCAATGAAGCAGC
1 ACCAGCAGAGGAACAAAGAACCAGC
18290774 A
1 A
18290775 GAGGAACAAA
Statistics
Matches: 90, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 90 1.00
ACGTcount: A:0.48, C:0.25, G:0.23, T:0.03
Consensus pattern (25 bp):
ACCAGCAGAGGAACAAAGAACCAGC
Found at i:18290775 original size:19 final size:19
Alignment explanation
Indices: 18290751--18290790 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
18290741 GAACCAGCAC
* *
18290751 CAGCAGAGGATCAATGAAG
1 CAGCAGAGGAACAAAGAAG
18290770 CAGCAGAGGAACAAAGAAG
1 CAGCAGAGGAACAAAGAAG
18290789 CA
1 CA
18290791 ACGGTGAGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.17, G:0.30, T:0.05
Consensus pattern (19 bp):
CAGCAGAGGAACAAAGAAG
Found at i:18292137 original size:27 final size:27
Alignment explanation
Indices: 18292088--18292197 Score: 125
Period size: 27 Copynumber: 4.1 Consensus size: 27
18292078 ACACGCCAGA
18292088 AAAAAGAAG-CATTT-TGGCGATCTATG
1 AAAAAGAAGAC-TTTGTGGCGATCTATG
* * ** *
18292114 AAAATGAAGACTTTATGGTTATCTATA
1 AAAAAGAAGACTTTGTGGCGATCTATG
*
18292141 AAAAAGAAGTCTTTGTGGCGATCTATG
1 AAAAAGAAGACTTTGTGGCGATCTATG
* *
18292168 AAAAGGAAGCCTTTGTGGCGATCTATG
1 AAAAAGAAGACTTTGTGGCGATCTATG
18292195 AAA
1 AAA
18292198 CAAAAGCTTT
Statistics
Matches: 70, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
26 11 0.16
27 59 0.84
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.29
Consensus pattern (27 bp):
AAAAAGAAGACTTTGTGGCGATCTATG
Found at i:18292192 original size:54 final size:55
Alignment explanation
Indices: 18292086--18292241 Score: 160
Period size: 54 Copynumber: 2.9 Consensus size: 55
18292076 GAACACGCCA
* * * **
18292086 GAAAAAAGAAGCATTT-TGGCGATCTATGAAAATGAAGACTTTATGGTTATCTAT
1 GAAAAAAGAAGCATTTGTGGCGATCTATGAAAAGGAAGCCTTTGTGGCGATCTAT
18292140 -AAAAAAGAAGTC-TTTGTGGCGATCTATGAAAAGGAAGCCTTTGTGGCGATCTAT
1 GAAAAAAGAAG-CATTTGTGGCGATCTATGAAAAGGAAGCCTTTGTGGCGATCTAT
* * * * * *
18292194 GAAACAA-AAGCTTTTGTAGAGATATATG-AAGGGAATGCCTTTGTGGCG
1 GAAAAAAGAAGCATTTGTGGCGATCTATGAAAAGGAA-GCCTTTGTGGCG
18292242 CACTCTAAAG
Statistics
Matches: 87, Mismatches: 10, Indels: 10
0.81 0.09 0.09
Matches are distributed among these distances:
53 20 0.23
54 62 0.71
55 5 0.06
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.29
Consensus pattern (55 bp):
GAAAAAAGAAGCATTTGTGGCGATCTATGAAAAGGAAGCCTTTGTGGCGATCTAT
Found at i:18292204 original size:27 final size:27
Alignment explanation
Indices: 18292089--18292241 Score: 109
Period size: 27 Copynumber: 5.7 Consensus size: 27
18292079 CACGCCAGAA
*
18292089 AAAAG-AAGCATTT-TGGCGATCTATG
1 AAAAGAAAGCCTTTGTGGCGATCTATG
* * **
18292114 AAAATG-AAGACTTTATGGTTATCTAT-
1 AAAA-GAAAGCCTTTGTGGCGATCTATG
* *
18292140 AAAAAAGAAGTCTTTGTGGCGATCTATG
1 AAAAGA-AAGCCTTTGTGGCGATCTATG
*
18292168 AAAAGGAAGCCTTTGTGGCGATCTATG
1 AAAAGAAAGCCTTTGTGGCGATCTATG
* * * *
18292195 AAACA-AAAGCTTTTGTAGAGATATATG
1 AAA-AGAAAGCCTTTGTGGCGATCTATG
** *
18292222 AAGGGAATGCCTTTGTGGCG
1 AAAAGAAAGCCTTTGTGGCG
18292242 CACTCTAAAG
Statistics
Matches: 98, Mismatches: 23, Indels: 12
0.74 0.17 0.09
Matches are distributed among these distances:
25 4 0.04
26 11 0.11
27 78 0.80
28 5 0.05
ACGTcount: A:0.35, C:0.11, G:0.25, T:0.29
Consensus pattern (27 bp):
AAAAGAAAGCCTTTGTGGCGATCTATG
Found at i:18293977 original size:40 final size:41
Alignment explanation
Indices: 18293897--18293984 Score: 142
Period size: 40 Copynumber: 2.2 Consensus size: 41
18293887 CCATCATAAA
*
18293897 AAAAGTGGATTCAAAAATCATCATAAAAAAAAGACATCAAG
1 AAAATTGGATTCAAAAATCATCATAAAAAAAAGACATCAAG
* *
18293938 AAGATTGGATTCGAAAATCATCAT-AAAAAAAGACATCAAG
1 AAAATTGGATTCAAAAATCATCATAAAAAAAAGACATCAAG
18293978 AAAATTG
1 AAAATTG
18293985 AGGAACAACT
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
40 22 0.51
41 21 0.49
ACGTcount: A:0.56, C:0.11, G:0.14, T:0.19
Consensus pattern (41 bp):
AAAATTGGATTCAAAAATCATCATAAAAAAAAGACATCAAG
Found at i:18294948 original size:6 final size:6
Alignment explanation
Indices: 18294937--18294973 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
18294927 TAATCATCAA
18294937 CATTCC CATTCC CATTCC CATTCC CATTCC CATTCC C
1 CATTCC CATTCC CATTCC CATTCC CATTCC CATTCC C
18294974 TTCATAATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.16, C:0.51, G:0.00, T:0.32
Consensus pattern (6 bp):
CATTCC
Found at i:18296904 original size:28 final size:31
Alignment explanation
Indices: 18296872--18296939 Score: 88
Period size: 32 Copynumber: 2.3 Consensus size: 31
18296862 TCAAATTAGT
*
18296872 TTTTTTTGTTTTCT-TTTTT-TA-TTAATTA
1 TTTTTTTATTTTCTATTTTTATATTTAATTA
*
18296900 TTTTTTTATTTTTTATTTTTCATATTTAATTA
1 TTTTTTTATTTTCTATTTTT-ATATTTAATTA
18296932 TTTTTTTA
1 TTTTTTTA
18296940 AACTAGGTAG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
28 12 0.35
29 5 0.15
31 2 0.06
32 15 0.44
ACGTcount: A:0.18, C:0.03, G:0.01, T:0.78
Consensus pattern (31 bp):
TTTTTTTATTTTCTATTTTTATATTTAATTA
Found at i:18297041 original size:17 final size:19
Alignment explanation
Indices: 18296995--18297038 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
18296985 TACGCATATT
18296995 TATTTTTTTA-ATATAATG
1 TATTTTTTTATATATAATG
*
18297013 TATTTTTTTATATGTAAT-
1 TATTTTTTTATATATAATG
18297031 TATTTTTT
1 TATTTTTT
18297039 ATAATCTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 18 0.75
19 6 0.25
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (19 bp):
TATTTTTTTATATATAATG
Found at i:18297981 original size:9 final size:9
Alignment explanation
Indices: 18297942--18297972 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
18297932 CCTAAAAACA
*
18297942 ATGAGGACG
1 ATGACGACG
18297951 ATGACGACG
1 ATGACGACG
18297960 ATGACGACG
1 ATGACGACG
18297969 ATGA
1 ATGA
18297973 GGATGATGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.35, C:0.16, G:0.35, T:0.13
Consensus pattern (9 bp):
ATGACGACG
Found at i:18298048 original size:22 final size:22
Alignment explanation
Indices: 18298023--18298087 Score: 77
Period size: 22 Copynumber: 3.2 Consensus size: 22
18298013 CTTCTAAATA
18298023 TGTTGATGGACAATTTATATTT
1 TGTTGATGGACAATTTATATTT
* *
18298045 TGTT-AT-GA-AA-TTA-AATA
1 TGTTGATGGACAATTTATATTT
18298062 TGTTGATGGACAATTTATATTT
1 TGTTGATGGACAATTTATATTT
18298084 TGTT
1 TGTT
18298088 ATGAAATTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
17 6 0.18
18 5 0.15
19 4 0.12
20 4 0.12
21 5 0.15
22 10 0.29
ACGTcount: A:0.31, C:0.03, G:0.17, T:0.49
Consensus pattern (22 bp):
TGTTGATGGACAATTTATATTT
Found at i:18298056 original size:19 final size:19
Alignment explanation
Indices: 18298034--18298095 Score: 65
Period size: 19 Copynumber: 3.2 Consensus size: 19
18298024 GTTGATGGAC
18298034 AATTTATATTTTGTTATGA
1 AATTTATATTTTGTTATGA
* *
18298053 AA-TTA-AATATGTTGATGGA
1 AATTTATATTTTGTT-AT-GA
18298072 CAATTTATATTTTGTTATGA
1 -AATTTATATTTTGTTATGA
18298092 AATT
1 AATT
18298096 AAATATGTTG
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
17 6 0.18
18 5 0.15
19 8 0.24
20 4 0.12
21 5 0.15
22 6 0.18
ACGTcount: A:0.35, C:0.02, G:0.13, T:0.50
Consensus pattern (19 bp):
AATTTATATTTTGTTATGA
Found at i:18298060 original size:39 final size:39
Alignment explanation
Indices: 18298017--18298110 Score: 188
Period size: 39 Copynumber: 2.4 Consensus size: 39
18298007 GCTTTCCTTC
18298017 TAAATATGTTGATGGACAATTTATATTTTGTTATGAAAT
1 TAAATATGTTGATGGACAATTTATATTTTGTTATGAAAT
18298056 TAAATATGTTGATGGACAATTTATATTTTGTTATGAAAT
1 TAAATATGTTGATGGACAATTTATATTTTGTTATGAAAT
18298095 TAAATATGTTGATGGA
1 TAAATATGTTGATGGA
18298111 TTAATGTATG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 55 1.00
ACGTcount: A:0.36, C:0.02, G:0.17, T:0.45
Consensus pattern (39 bp):
TAAATATGTTGATGGACAATTTATATTTTGTTATGAAAT
Found at i:18298129 original size:39 final size:38
Alignment explanation
Indices: 18298017--18298129 Score: 120
Period size: 39 Copynumber: 2.9 Consensus size: 38
18298007 GCTTTCCTTC
* * *
18298017 TAAATATGTTGATGGACAATTTATATTTTGTTATGAAAT
1 TAAATATGTTGATGGACAATGTATA-TATATTATGAAAT
* * *
18298056 TAAATATGTTGATGGACAATTTATATTTTGTTATGAAAT
1 TAAATATGTTGATGGACAATGTATA-TATATTATGAAAT
*
18298095 TAAATATGTTGATGGATTAATGTATGA-ATATTATG
1 TAAATATGTTGATGGA-CAATGTAT-ATATATTATG
18298130 GTTTGTTGCT
Statistics
Matches: 68, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
39 61 0.90
40 6 0.09
41 1 0.01
ACGTcount: A:0.36, C:0.02, G:0.17, T:0.45
Consensus pattern (38 bp):
TAAATATGTTGATGGACAATGTATATATATTATGAAAT
Found at i:18298789 original size:16 final size:15
Alignment explanation
Indices: 18298770--18298800 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
18298760 AAAATTTTAG
18298770 GCCCGGCCCGAACCCA
1 GCCCGGCCCG-ACCCA
18298786 GCCCGGCCCGACCCA
1 GCCCGGCCCGACCCA
18298801 TGAGCACCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.16, C:0.58, G:0.26, T:0.00
Consensus pattern (15 bp):
GCCCGGCCCGACCCA
Found at i:18301325 original size:51 final size:54
Alignment explanation
Indices: 18301253--18301357 Score: 137
Period size: 54 Copynumber: 2.0 Consensus size: 54
18301243 AAAGTCAAAC
*
18301253 CCTTTTACTTTCCTCCAAAAATTTT-ATTTCC-CC-AAACCCTAAAAACTTTTT
1 CCTTTTACTTTCCTCCAAAAATTTTAACTTCCTCCTAAACCCTAAAAACTTTTT
* * *
18301304 CCTTTTAATTTTCC-CCCAAAATTTTAACTTCCTCCTAAACCCTAATAACTTTTT
1 CCTTTT-ACTTTCCTCCAAAAATTTTAACTTCCTCCTAAACCCTAAAAACTTTTT
18301358 TTTTCGAATT
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
51 16 0.35
52 11 0.24
53 2 0.04
54 17 0.37
ACGTcount: A:0.29, C:0.30, G:0.00, T:0.42
Consensus pattern (54 bp):
CCTTTTACTTTCCTCCAAAAATTTTAACTTCCTCCTAAACCCTAAAAACTTTTT
Found at i:18306970 original size:24 final size:24
Alignment explanation
Indices: 18306919--18306971 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
18306909 AATAAGCTCG
* * **
18306919 TTTAAAAGCTCGTTTATTGGCTTG
1 TTTATAAGCTCGTTTATTGACTCA
*
18306943 TTTATAAGCTTGTTTATTGACTCA
1 TTTATAAGCTCGTTTATTGACTCA
18306967 TTTAT
1 TTTAT
18306972 TTATTAATGA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.23, C:0.11, G:0.15, T:0.51
Consensus pattern (24 bp):
TTTATAAGCTCGTTTATTGACTCA
Found at i:18307150 original size:24 final size:25
Alignment explanation
Indices: 18307104--18307154 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
18307094 GACAAAATAG
18307104 AAAATAGACCCAAACTAAAACAAAA
1 AAAATAGACCCAAACTAAAACAAAA
* *
18307129 AAAATAGACCCAACCT-ACACAAAA
1 AAAATAGACCCAAACTAAAACAAAA
18307153 AA
1 AA
18307155 TAAAAGAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 9 0.38
25 15 0.62
ACGTcount: A:0.65, C:0.24, G:0.04, T:0.08
Consensus pattern (25 bp):
AAAATAGACCCAAACTAAAACAAAA
Found at i:18308508 original size:14 final size:15
Alignment explanation
Indices: 18308484--18308524 Score: 57
Period size: 14 Copynumber: 2.7 Consensus size: 15
18308474 ACATTAAATT
18308484 AATATAATATTTATC-
1 AATA-AATATTTATCA
18308499 AATAAATATTTATCA
1 AATAAATATTTATCA
18308514 AGATAAATATT
1 A-ATAAATATT
18308525 AAATTAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 10 0.42
15 5 0.21
16 9 0.38
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.41
Consensus pattern (15 bp):
AATAAATATTTATCA
Found at i:18308630 original size:20 final size:19
Alignment explanation
Indices: 18308579--18308632 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 19
18308569 ATCTACAAAA
18308579 TAATATTAAATT-A-AATT
1 TAATATTAAATTAATAATT
*
18308596 AAATATTAAGA-TAATCAATT
1 TAATATTAA-ATTAAT-AATT
18308616 TAATATTAAATTAATAA
1 TAATATTAAATTAATAA
18308633 AATACTATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
17 9 0.30
18 2 0.07
19 3 0.10
20 16 0.53
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (19 bp):
TAATATTAAATTAATAATT
Found at i:18308677 original size:37 final size:38
Alignment explanation
Indices: 18308579--18308687 Score: 113
Period size: 37 Copynumber: 2.9 Consensus size: 38
18308569 ATCTACAAAA
18308579 TAATATTAAATTAA-ATTAAA-TATTAAGATAATCAATT
1 TAATATTAAATTAATATTAAACTATTAAGATAAT-AATT
* *
18308616 TAATATTAAATTAATA-AAATACTATTTAGATAAGT-A-T
1 TAATATTAAATTAATATTAA-ACTATTAAGATAA-TAATT
*
18308653 TAA-ATTAAATTTAATATTAAACTATTAAAATAATA
1 TAATATTAAA-TTAATATTAAACTATTAAGATAATA
18308688 TTATTTTTGG
Statistics
Matches: 60, Mismatches: 5, Indels: 14
0.76 0.06 0.18
Matches are distributed among these distances:
36 7 0.12
37 37 0.62
38 5 0.08
39 10 0.17
40 1 0.02
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (38 bp):
TAATATTAAATTAATATTAAACTATTAAGATAATAATT
Found at i:18310304 original size:16 final size:16
Alignment explanation
Indices: 18310283--18310313 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
18310273 CTATGCATGC
18310283 AAAATATAAAAGACAG
1 AAAATATAAAAGACAG
18310299 AAAATATAAAAGACA
1 AAAATATAAAAGACA
18310314 TAATAGTGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.71, C:0.06, G:0.10, T:0.13
Consensus pattern (16 bp):
AAAATATAAAAGACAG
Found at i:18310694 original size:23 final size:23
Alignment explanation
Indices: 18310645--18310694 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
18310635 TATATATATA
* * **
18310645 TAAACGAACATGTTCGCGAACGT
1 TAAACGAACATGTTCACAAACAC
18310668 TAAACGAACATGTTCACAAACAC
1 TAAACGAACATGTTCACAAACAC
18310691 TAAA
1 TAAA
18310695 TGAATCGAGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.44, C:0.22, G:0.14, T:0.20
Consensus pattern (23 bp):
TAAACGAACATGTTCACAAACAC
Found at i:18322132 original size:33 final size:33
Alignment explanation
Indices: 18322095--18322166 Score: 144
Period size: 33 Copynumber: 2.2 Consensus size: 33
18322085 GAGGTGTGTG
18322095 ATTGAGGAAAAAGTTAACAGCAATGATCATTCT
1 ATTGAGGAAAAAGTTAACAGCAATGATCATTCT
18322128 ATTGAGGAAAAAGTTAACAGCAATGATCATTCT
1 ATTGAGGAAAAAGTTAACAGCAATGATCATTCT
18322161 ATTGAG
1 ATTGAG
18322167 AATTAAAATG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.42, C:0.11, G:0.19, T:0.28
Consensus pattern (33 bp):
ATTGAGGAAAAAGTTAACAGCAATGATCATTCT
Found at i:18324397 original size:20 final size:18
Alignment explanation
Indices: 18324360--18324406 Score: 51
Period size: 20 Copynumber: 2.5 Consensus size: 18
18324350 TTGAGAGGGT
18324360 TAAAAGCAAAGTAAGAGAAA
1 TAAAAGCAAAGTAAGAG--A
*
18324380 TAAAAGCATAG-AACGAGA
1 TAAAAGCAAAGTAA-GAGA
18324398 TAAAAGCAA
1 TAAAAGCAA
18324407 TGTGCATGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 9 0.38
19 2 0.08
20 13 0.54
ACGTcount: A:0.62, C:0.09, G:0.19, T:0.11
Consensus pattern (18 bp):
TAAAAGCAAAGTAAGAGA
Found at i:18330117 original size:16 final size:16
Alignment explanation
Indices: 18330083--18330125 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
18330073 AAGAGCTTCT
*
18330083 ATTTTAATTTGTTTTA
1 ATTTTAATTTGTTTCA
18330099 ATTTTAATTT-TATTCA
1 ATTTTAATTTGT-TTCA
*
18330115 ATTTTCATTTG
1 ATTTTAATTTG
18330126 CTCGTTTTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 1 0.04
16 22 0.96
ACGTcount: A:0.26, C:0.05, G:0.05, T:0.65
Consensus pattern (16 bp):
ATTTTAATTTGTTTCA
Found at i:18333119 original size:33 final size:33
Alignment explanation
Indices: 18333077--18333143 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
18333067 TGGTTAAATG
18333077 TTTCAATTGTGGTGCCAATTAGGGCATAGTGGT
1 TTTCAATTGTGGTGCCAATTAGGGCATAGTGGT
*
18333110 TTTCAATTGTGGTGCCAATTAGGGCATATTGGT
1 TTTCAATTGTGGTGCCAATTAGGGCATAGTGGT
18333143 T
1 T
18333144 AGACACTTAG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.21, C:0.12, G:0.28, T:0.39
Consensus pattern (33 bp):
TTTCAATTGTGGTGCCAATTAGGGCATAGTGGT
Found at i:18344590 original size:115 final size:115
Alignment explanation
Indices: 18344451--18344708 Score: 390
Period size: 115 Copynumber: 2.2 Consensus size: 115
18344441 TAAAATAACA
** * * **
18344451 AAATGCCAATTTGGTATCAATACCAATATACAGTATCGATACTTATCTTCAAAGATCGGTACTTT
1 AAATGCCAAAATGATATCAATACCAATATACAGTATCGATACTTATCTCCAAAGATCAATACTTT
18344516 ATAAAGGTATCGATACAGGTTGACTTGTCTCCAAATTTTTGAAAAAGGCT
66 ATAAAGGTATCGATACAGGTTGACTTGTCTCCAAATTTTTGAAAAAGGCT
* *
18344566 AAATGCCAAAATGATATCAATACCAATATACAGTATTGATATTTATCTCCAAAGATCAATACTTT
1 AAATGCCAAAATGATATCAATACCAATATACAGTATCGATACTTATCTCCAAAGATCAATACTTT
* * * *
18344631 ATAAAGGTATCGGTACAGGTTGGCTTGTGTCCAAATTTTTGAAAATGGCT
66 ATAAAGGTATCGATACAGGTTGACTTGTCTCCAAATTTTTGAAAAAGGCT
*
18344681 AAATGCCAAAACGATATCAATACGCAAT
1 AAATGCCAAAATGATATCAATAC-CAAT
18344709 TTGGTATCGA
Statistics
Matches: 129, Mismatches: 13, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
115 125 0.97
116 4 0.03
ACGTcount: A:0.37, C:0.16, G:0.15, T:0.31
Consensus pattern (115 bp):
AAATGCCAAAATGATATCAATACCAATATACAGTATCGATACTTATCTCCAAAGATCAATACTTT
ATAAAGGTATCGATACAGGTTGACTTGTCTCCAAATTTTTGAAAAAGGCT
Found at i:18344984 original size:20 final size:20
Alignment explanation
Indices: 18344959--18345032 Score: 96
Period size: 20 Copynumber: 3.7 Consensus size: 20
18344949 CACGAAGTTG
18344959 TTAAATGAATTGATATTTGA
1 TTAAATGAATTGATATTTGA
* * *
18344979 TTAAATTAATTGAGAAGTTG-
1 TTAAATGAATTGA-TATTTGA
18344999 TTAAATGAATTGATATTTGA
1 TTAAATGAATTGATATTTGA
*
18345019 TTAAATTAATTGAT
1 TTAAATGAATTGAT
18345033 GTGAATTGTG
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
19 4 0.09
20 37 0.82
21 4 0.09
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.45
Consensus pattern (20 bp):
TTAAATGAATTGATATTTGA
Found at i:18345007 original size:40 final size:40
Alignment explanation
Indices: 18344952--18345031 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
18344942 TATCGTACAC
18344952 GAAGTTGTTAAATGAATTGATATTTGATTAAATTAATTGA
1 GAAGTTGTTAAATGAATTGATATTTGATTAAATTAATTGA
18344992 GAAGTTGTTAAATGAATTGATATTTGATTAAATTAATTGA
1 GAAGTTGTTAAATGAATTGATATTTGATTAAATTAATTGA
18345032 TGTGAATTGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.42
Consensus pattern (40 bp):
GAAGTTGTTAAATGAATTGATATTTGATTAAATTAATTGA
Found at i:18351177 original size:12 final size:12
Alignment explanation
Indices: 18351160--18351184 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
18351150 CACGTCTGAA
18351160 TGCTAGGCCGTG
1 TGCTAGGCCGTG
18351172 TGCTAGGCCGTG
1 TGCTAGGCCGTG
18351184 T
1 T
18351185 AACTCACTGG
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:0.08, C:0.24, G:0.40, T:0.28
Consensus pattern (12 bp):
TGCTAGGCCGTG
Found at i:18352756 original size:27 final size:26
Alignment explanation
Indices: 18352706--18352763 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
18352696 NNNNNNNCCA
18352706 CCCAACTTTTGAAATTACAATTTTGC
1 CCCAACTTTTGAAATTACAATTTTGC
* *
18352732 CCCAAC-TTTGCATAATTACACTTTTGT
1 CCCAACTTTTG-A-AATTACAATTTTGC
18352759 CCCAA
1 CCCAA
18352764 GCTCGAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 4 0.14
26 7 0.25
27 17 0.61
ACGTcount: A:0.29, C:0.28, G:0.07, T:0.36
Consensus pattern (26 bp):
CCCAACTTTTGAAATTACAATTTTGC
Found at i:18364392 original size:26 final size:26
Alignment explanation
Indices: 18364358--18364419 Score: 115
Period size: 26 Copynumber: 2.4 Consensus size: 26
18364348 TATATTTTTA
*
18364358 TTAAATTATATTTAATAATAATTATT
1 TTAAATTATATGTAATAATAATTATT
18364384 TTAAATTATATGTAATAATAATTATT
1 TTAAATTATATGTAATAATAATTATT
18364410 TTAAATTATA
1 TTAAATTATA
18364420 CAAATTCATA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (26 bp):
TTAAATTATATGTAATAATAATTATT
Found at i:18364626 original size:25 final size:26
Alignment explanation
Indices: 18364594--18364648 Score: 71
Period size: 24 Copynumber: 2.2 Consensus size: 26
18364584 TTATTAAATT
*
18364594 ATATATTTTAATTATAA-TATATTTA
1 ATATATTTTAATAATAATTATATTTA
*
18364619 ATATA-TTTAATAATAATTATGTTTA
1 ATATATTTTAATAATAATTATATTTA
18364644 A-ATAT
1 ATATAT
18364649 GATTAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 13 0.50
25 13 0.50
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
ATATATTTTAATAATAATTATATTTA
Found at i:18364815 original size:39 final size:40
Alignment explanation
Indices: 18364772--18364876 Score: 104
Period size: 44 Copynumber: 2.5 Consensus size: 40
18364762 TTCCATTATG
18364772 CTATTACACCTCTATTTCATTCAACCAAACACAAGA-TTA
1 CTATTACACCTCTATTTCATTCAACCAAACACAAGATTTA
* *** *
18364811 CTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATTTG
1 CTATTACACCTCTA-T---TT-CATTCAACCAAACACAAGATTTA
*
18364856 CTATTACACCTCTATTCCATT
1 CTATTACACCTCTATTTCATT
18364877 ACACCTCTAA
Statistics
Matches: 53, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
39 13 0.25
40 5 0.09
41 1 0.02
43 2 0.04
44 17 0.32
45 15 0.28
ACGTcount: A:0.31, C:0.29, G:0.05, T:0.35
Consensus pattern (40 bp):
CTATTACACCTCTATTTCATTCAACCAAACACAAGATTTA
Found at i:18364870 original size:45 final size:44
Alignment explanation
Indices: 18364770--18364879 Score: 131
Period size: 45 Copynumber: 2.6 Consensus size: 44
18364760 TTTTCCATTA
18364770 TGCTATTACACCTCTA-T---TT-CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
* * ***
18364809 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGA-T
18364854 TGCTATTACACCTCTATTCCATTACA
1 TGCTATTACACCTCTATTCCATTACA
18364880 CCTCTAATCC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
39 14 0.24
40 1 0.02
43 2 0.03
44 16 0.28
45 25 0.43
ACGTcount: A:0.32, C:0.28, G:0.05, T:0.35
Consensus pattern (44 bp):
TGCTATTACACCTCTATTCCATTACATTCAACCAAACACAAGAT
Found at i:18364879 original size:16 final size:16
Alignment explanation
Indices: 18364858--18364895 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
18364848 TTGATTTGCT
*
18364858 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
18364874 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
*
18364890 AATACA
1 ATTACA
18364896 ACGAACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.32
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:18365599 original size:13 final size:13
Alignment explanation
Indices: 18365583--18365610 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
18365573 TTAAGATATA
18365583 TTATTATTTTTAG
1 TTATTATTTTTAG
18365596 TTATTATTTTTAG
1 TTATTATTTTTAG
18365609 TT
1 TT
18365611 TATCATACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.00, G:0.07, T:0.71
Consensus pattern (13 bp):
TTATTATTTTTAG
Found at i:18367350 original size:27 final size:27
Alignment explanation
Indices: 18367298--18367350 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
18367288 TCTGTGATAT
*
18367298 AGTATTAATGAAATAATACATTTTATA
1 AGTATTAATGAAATAATACATATTATA
18367325 AGTATTAAT-ATAATAACTAC-TATTAT
1 AGTATTAATGA-AATAA-TACATATTAT
18367351 CTTATAGATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 1 0.04
27 19 0.83
28 3 0.13
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.42
Consensus pattern (27 bp):
AGTATTAATGAAATAATACATATTATA
Found at i:18370622 original size:22 final size:22
Alignment explanation
Indices: 18370573--18370616 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
18370563 ATATATATTT
18370573 AAACCCAAACCCAATACCAACC
1 AAACCCAAACCCAATACCAACC
* *
18370595 AAACCCAAATCCTATACCAACC
1 AAACCCAAACCCAATACCAACC
18370617 TCACCCCAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.48, C:0.43, G:0.00, T:0.09
Consensus pattern (22 bp):
AAACCCAAACCCAATACCAACC
Found at i:18374171 original size:13 final size:13
Alignment explanation
Indices: 18374153--18374177 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18374143 TTCAAGGTTT
18374153 TTTTTTACATCTC
1 TTTTTTACATCTC
18374166 TTTTTTACATCT
1 TTTTTTACATCT
18374178 GTTCTTTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.20, G:0.00, T:0.64
Consensus pattern (13 bp):
TTTTTTACATCTC
Found at i:18374842 original size:3 final size:3
Alignment explanation
Indices: 18374836--18374919 Score: 55
Period size: 3 Copynumber: 27.7 Consensus size: 3
18374826 TTTAGCATTT
* * * * *
18374836 TTA TTA TT- TTC TTCA TTA TTT TTA ATA -TA TTA TCA TCTT TTA TTA
1 TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
* * *
18374881 TTA TTA TTG TCA TTA TTA GTTA TTA TTA GTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TT
18374920 TCCTCATCTA
Statistics
Matches: 62, Mismatches: 14, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
2 4 0.06
3 52 0.84
4 6 0.10
ACGTcount: A:0.27, C:0.06, G:0.04, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:18374893 original size:22 final size:22
Alignment explanation
Indices: 18374863--18374919 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
18374853 ATTTTTAATA
*
18374863 TATTATCATCTTTTA-TTATTAT
1 TATTATCAT-TATTAGTTATTAT
*
18374885 TATTGTCATTATTAGTTATTAT
1 TATTATCATTATTAGTTATTAT
* *
18374907 TAGTATTATTATT
1 TATTATCATTATT
18374920 TCCTCATCTA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
21 4 0.14
22 25 0.86
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.61
Consensus pattern (22 bp):
TATTATCATTATTAGTTATTAT
Found at i:18375040 original size:2 final size:2
Alignment explanation
Indices: 18375033--18375093 Score: 79
Period size: 2 Copynumber: 29.5 Consensus size: 2
18375023 NNNNNNNNNA
*
18375033 AT AT AT AT AC AT ACT AT -T AT AGT ACT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT A-T AT AT AT A-T A-T AT AT AT AT AT AT AT AT
18375075 AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
18375094 CATGCGCATG
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
1 1 0.02
2 46 0.87
3 6 0.11
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.46
Consensus pattern (2 bp):
AT
Found at i:18379060 original size:30 final size:30
Alignment explanation
Indices: 18379020--18379093 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 30
18379010 GGCTCAGATC
*
18379020 AAAAAAGAAAAGAAAAATC-AAAGTCAAAAT
1 AAAAAAGAAAA-AAAAATCAAAAATCAAAAT
* *
18379050 GAAAATGAAAAAAAAATCAAAAATCAAAAT
1 AAAAAAGAAAAAAAAATCAAAAATCAAAAT
*
18379080 AAAAAA-AACAAAAA
1 AAAAAAGAAAAAAAA
18379094 GAAGAAAGAA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
29 14 0.38
30 23 0.62
ACGTcount: A:0.77, C:0.07, G:0.07, T:0.09
Consensus pattern (30 bp):
AAAAAAGAAAAAAAAATCAAAAATCAAAAT
Found at i:18379072 original size:24 final size:24
Alignment explanation
Indices: 18379017--18379116 Score: 86
Period size: 24 Copynumber: 4.3 Consensus size: 24
18379007 AAAGGCTCAG
*
18379017 ATCAAAAAAGAAAA-GAAAAATCAAA
1 ATCAAAAATGAAAATGAAAAA--AAA
*
18379042 GTC-AAAATGAAAATGAAAAAAAA
1 ATCAAAAATGAAAATGAAAAAAAA
*
18379065 ATCAAAAATCAAAAT--AAAAAAA
1 ATCAAAAATGAAAATGAAAAAAAA
* *
18379087 A-CAAAAA-GAAGAAAGAAGAAAAA
1 ATCAAAAATGAA-AATGAAAAAAAA
18379110 ATCAAAA
1 ATCAAAA
18379117 TCAAGATCAA
Statistics
Matches: 62, Mismatches: 7, Indels: 13
0.76 0.09 0.16
Matches are distributed among these distances:
20 2 0.03
21 8 0.13
22 8 0.13
23 12 0.19
24 24 0.39
25 8 0.13
ACGTcount: A:0.75, C:0.07, G:0.09, T:0.09
Consensus pattern (24 bp):
ATCAAAAATGAAAATGAAAAAAAA
Found at i:18379129 original size:50 final size:52
Alignment explanation
Indices: 18379062--18379161 Score: 125
Period size: 50 Copynumber: 2.0 Consensus size: 52
18379052 AAATGAAAAA
18379062 AAAATCAAAAATCAAAATAAAAAAAACAAAAAG-AAGAAAGAA-GAAAAAATC
1 AAAATCAAAAATCAAAATAAAAAAAACAAAAAGAAAG-AAGAATGAAAAAATC
* * ** *
18379113 AAAATC-AAGATCAAAATGAAAATGAGAAAAAGAAAGAAGAATGAAAAAA
1 AAAATCAAAAATCAAAATAAAAAAAACAAAAAGAAAGAAGAATGAAAAAA
18379162 GAGAAATCTA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
50 26 0.62
51 16 0.38
ACGTcount: A:0.73, C:0.06, G:0.12, T:0.09
Consensus pattern (52 bp):
AAAATCAAAAATCAAAATAAAAAAAACAAAAAGAAAGAAGAATGAAAAAATC
Found at i:18380139 original size:7 final size:7
Alignment explanation
Indices: 18380127--18380177 Score: 79
Period size: 7 Copynumber: 7.6 Consensus size: 7
18380117 TCTGAGTCAA
18380127 AAAAATG
1 AAAAATG
18380134 AAAAATG
1 AAAAATG
*
18380141 -AGAATG
1 AAAAATG
18380147 AAAAATG
1 AAAAATG
18380154 AAAAAT-
1 AAAAATG
18380160 AAAAATG
1 AAAAATG
18380167 AAAAATG
1 AAAAATG
18380174 AAAA
1 AAAA
18380178 TGGAGAGGCT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
6 11 0.28
7 29 0.73
ACGTcount: A:0.73, C:0.00, G:0.14, T:0.14
Consensus pattern (7 bp):
AAAAATG
Found at i:18380150 original size:20 final size:20
Alignment explanation
Indices: 18380127--18380177 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
18380117 TCTGAGTCAA
* *
18380127 AAAAATGAAAAATGAGAATG
1 AAAAATGAAAAATAAAAATG
18380147 AAAAATGAAAAATAAAAATG
1 AAAAATGAAAAATAAAAATG
18380167 AAAAATGAAAA
1 AAAAATGAAAA
18380178 TGGAGAGGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.73, C:0.00, G:0.14, T:0.14
Consensus pattern (20 bp):
AAAAATGAAAAATAAAAATG
Found at i:18380179 original size:13 final size:14
Alignment explanation
Indices: 18380127--18380177 Score: 79
Period size: 13 Copynumber: 3.8 Consensus size: 14
18380117 TCTGAGTCAA
18380127 AAAAATGAAAAATG
1 AAAAATGAAAAATG
*
18380141 -AGAATGAAAAATG
1 AAAAATGAAAAATG
18380154 AAAAAT-AAAAATG
1 AAAAATGAAAAATG
18380167 AAAAATGAAAA
1 AAAAATGAAAA
18380178 TGGAGAGGCT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
13 25 0.76
14 8 0.24
ACGTcount: A:0.73, C:0.00, G:0.14, T:0.14
Consensus pattern (14 bp):
AAAAATGAAAAATG
Found at i:18381757 original size:41 final size:43
Alignment explanation
Indices: 18381695--18381805 Score: 118
Period size: 41 Copynumber: 2.6 Consensus size: 43
18381685 GAAAGTAAAT
* * *
18381695 GATCTTATCTCTCTGAAGTTACAGCAGAGTAGATC-G-TATCA
1 GATCTTATCTCCCTGAGGTTACAGCAGAGTAGACCAGATATCA
* ** *
18381736 GGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCA
1 GATCTTATCTCCCTGAGGTTACAGCAGAGTAGACC--AG-ATATCA
18381782 GATCTTATCTCCCTGAGGTTACAG
1 GATCTTATCTCCCTGAGGTTACAG
18381806 TGGAGCAGAT
Statistics
Matches: 57, Mismatches: 8, Indels: 5
0.81 0.11 0.07
Matches are distributed among these distances:
41 29 0.51
44 1 0.02
46 27 0.47
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.31
Consensus pattern (43 bp):
GATCTTATCTCCCTGAGGTTACAGCAGAGTAGACCAGATATCA
Found at i:18381805 original size:46 final size:45
Alignment explanation
Indices: 18381695--18382511 Score: 392
Period size: 44 Copynumber: 18.6 Consensus size: 45
18381685 GAAAGTAAAT
* * ** *
18381695 GATCTTATCTCTCTGAAGTTACAGCAGAGTAGATC---GTA-TCA
1 GATCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAATTCA
* *
18381736 GGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCA
1 GATCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAA-TTCA
* * * *
18381782 GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCA--GA
1 GATCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAG-AATTCA
* * * *
18381826 GATCTTCTATCCCTGAGATTACAGTGGAGCAGATCGAAG-A--CA
1 GATCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAATTCA
* * * ** * * **
18381868 CTATCCTATCTCCCTGAAGTTACAGTGGAGCGGGT-TAA-AATAAA
1 -GATCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAATTCA
* * * * *
18381912 GGATCTCATCTCTCTGAAGTTACAGTAGAGTAGATC---GCA-TCA
1 -GATCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAATTCA
* * * *
18381954 GGTCTTATCTCCCTAAGGTTACAGTGGAGTAGACCGAAAAATTTCA
1 GATCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAA-TTCA
* * * *
18382000 GATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCA--GA
1 GATCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAG-AATTCA
* * ** *
18382044 GATCTTATTTCCCTGAGATTACAGCAGAGCAGATCGAAG-A--CA
1 GATCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAATTCA
* * * * * ** * * **
18382086 CTATCCTATCTCTCTGAAGTTACAGTGAAGCGGGT-TAA-AATAAA
1 -GATCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAATTCA
* * * * * * *
18382130 GGATCTCATCTCTCTGAAGTTACAGTAGAGCAGATC---GCATACA
1 -GATCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAATTCA
* *
18382173 G-TCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAATAATTTCA
1 GATCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAA-TTCA
*
18382218 GATCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCA
1 GATCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAA-TTCA
* * ** * * *
18382264 GATCTTATCTCCCTGAGATTACAGCGGAACAGATTGAAGCTAGT-A
1 GATCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAG-AATTCA
* * ** * **
18382309 -ATCCTATCTCCCTGAGATTACAGTGGAGCGGAT-TAA-AATAAAA
1 GATCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAAT-TCA
* * * ** *
18382352 GATCTTATCTCTCTAAAGTTACAGCAGAGTAGATC---GCA-TCA
1 GATCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAATTCA
* * * * *
18382393 GGTCTTATCTCCCTGAGGTTACAGTGCAGTTGACCGAAAAATTTCA
1 GATCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAA-TTCA
* ** * * *
18382439 GATCTTATCTCCCTGAGATTACAACGGAGTAGATTGAAGCTAGT-A
1 GATCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAG-AATTCA
* *
18382484 -ATCCTATCTCCCTGAGATTACAGTGGAG
1 GATCTTATCTCCCTGAGGTTACAGTGGAG
18382512 CGGATTAAAA
Statistics
Matches: 586, Mismatches: 149, Indels: 79
0.72 0.18 0.10
Matches are distributed among these distances:
41 112 0.19
42 12 0.02
43 58 0.10
44 209 0.36
45 6 0.01
46 185 0.32
47 4 0.01
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (45 bp):
GATCTTATCTCCCTGAGGTTACAGTGGAGTAGATCGAAGAATTCA
Found at i:18381999 original size:218 final size:218
Alignment explanation
Indices: 18381690--18382512 Score: 1206
Period size: 218 Copynumber: 3.8 Consensus size: 218
18381680 AAATTGAAAG
* * *
18381690 TAAATGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGTATCAGGTCTTATCTCCCTGAGGT
1 TAAAGGATCTCATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGT
*
18381755 TACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAA
66 TACAGTGGAGTAGACCGAAAAATTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAA
* * *
18381820 GCCAGAGATCTTCTATCCCTGAGATTACAGTGGAGCAGATCGAAGACACTATCCTATCTCCCTGA
131 GCCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGA
18381885 AGTTACAGTGGAGCGGGTTAAAA
196 AGTTACAGTGGAGCGGGTTAAAA
* *
18381908 TAAAGGATCTCATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTAAGGT
1 TAAAGGATCTCATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGT
18381973 TACAGTGGAGTAGACCGAAAAATTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAA
66 TACAGTGGAGTAGACCGAAAAATTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAA
* * *
18382038 GCCAGAGATCTTATTTCCCTGAGATTACAGCAGAGCAGATCGAAGACACTATCCTATCTCTCTGA
131 GCCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGA
*
18382103 AGTTACAGTGAAGCGGGTTAAAA
196 AGTTACAGTGGAGCGGGTTAAAA
* *
18382126 TAAAGGATCTCATCTCTCTGAAGTTACAGTAGAGCAGATCGCATACA-GTCTTATCTCCCTGAGG
1 TAAAGGATCTCATCTCTCTGAAGTTACAGCAGAGTAGATCGCAT-CAGGTCTTATCTCCCTGAGG
* * **
18382190 TTACAGTGGAGTAGACCGAATAATTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGA
65 TTACAGTGGAGTAGACCGAAAAATTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGA
* * * * *
18382255 AG-AATTTCAGATCTTATCTCCCTGAGATTACAGCGGAACAGATTGAAG-CTAGTAATCCTATCT
130 AGCCA---GAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGAC-ACT-ATCCTATCT
*
18382318 CCCTG-AGATTACAGTGGAGCGGATTAAAA
190 CCCTGAAG-TTACAGTGGAGCGGGTTAAAA
* * *
18382347 TAAAAGATCTTATCTCTCTAAAGTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGT
1 TAAAGGATCTCATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGT
* * * ** *
18382412 TACAGTGCAGTTGACCGAAAAATTTCAGATCTTATCTCCCTGAGATTACAACGGAGTAGATTGAA
66 TACAGTGGAGTAGACCGAAAAATTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAA
* * *
18382477 GCTAGTA-ATCCTATCTCCCTGAGATTACAGTGGAGC
131 GCCAG-AGATCTTATCTCCCTGAGATTACAGCGGAGC
18382513 GGATTAAAAT
Statistics
Matches: 549, Mismatches: 46, Indels: 19
0.89 0.07 0.03
Matches are distributed among these distances:
217 1 0.00
218 328 0.60
219 29 0.05
220 43 0.08
221 147 0.27
222 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (218 bp):
TAAAGGATCTCATCTCTCTGAAGTTACAGCAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGT
TACAGTGGAGTAGACCGAAAAATTTCAGATCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAA
GCCAGAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACTATCCTATCTCCCTGA
AGTTACAGTGGAGCGGGTTAAAA
Found at i:18382417 original size:85 final size:84
Alignment explanation
Indices: 18382313--18382593 Score: 283
Period size: 85 Copynumber: 3.2 Consensus size: 84
18382303 CTAGTAATCC
18382313 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTAAAGTTACAGCA
1 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCT-AAGTTACAGCA
18382378 GAGTAGATCGCATCAGGTCT
65 GAGTAGATCGCATCAGGTCT
* * ** ** *** * * *
18382398 TATCTCCCTGAGGTTACAGTGCAGTTGACCGAAAAATTTCAGATCTTATCTCCCTGAGATTACAA
1 TATCTCCCTGAGATTACAGTGGAGCGGA--TTAAAATAAAAGATCTTATCTCTCTAAG-TTACAG
* * * * * *
18382463 CGGAGTAGATTGAAGCTAGTAATCC
63 CAGAGTAGATCGCATC-AG--GTCT
* *
18382488 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTCATCTCTCTGAAGTTACAGCA
1 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCT-AAGTTACAGCA
* *
18382553 GAGTTGATCGCATCATGTCT
65 GAGTAGATCGCATCAGGTCT
*
18382573 TATCTCCCTGAGGTTACAGTG
1 TATCTCCCTGAGATTACAGTG
18382594 NNNNNNNNNN
Statistics
Matches: 148, Mismatches: 41, Indels: 14
0.73 0.20 0.07
Matches are distributed among these distances:
85 46 0.31
86 2 0.01
87 37 0.25
88 35 0.24
89 2 0.01
90 26 0.18
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (84 bp):
TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAAGATCTTATCTCTCTAAGTTACAGCAG
AGTAGATCGCATCAGGTCT
Found at i:18382475 original size:175 final size:175
Alignment explanation
Indices: 18382215--18382593 Score: 650
Period size: 175 Copynumber: 2.2 Consensus size: 175
18382205 CCGAATAATT
* * *
18382215 TCAGATCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGAAGAATTTCAGATCTTATCTCCCTGA
1 TCAGGTCTTATCTCCCTGAGGTTACAGTGCAGTAGACCGAAAAATTTCAGATCTTATCTCCCTGA
*
18382280 GATTACAGCGGAACAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAA
66 GATTACAACGGAACAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAA
*
18382345 AATAAAAGATCTTATCTCTCTAAAGTTACAGCAGAGTAGATCGCA
131 AATAAAAGATCTCATCTCTCTAAAGTTACAGCAGAGTAGATCGCA
*
18382390 TCAGGTCTTATCTCCCTGAGGTTACAGTGCAGTTGACCGAAAAATTTCAGATCTTATCTCCCTGA
1 TCAGGTCTTATCTCCCTGAGGTTACAGTGCAGTAGACCGAAAAATTTCAGATCTTATCTCCCTGA
**
18382455 GATTACAACGGAGTAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAA
66 GATTACAACGGAACAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAA
* * *
18382520 AATAAAGGATCTCATCTCTCTGAAGTTACAGCAGAGTTGATCGCA
131 AATAAAAGATCTCATCTCTCTAAAGTTACAGCAGAGTAGATCGCA
*
18382565 TCATGTCTTATCTCCCTGAGGTTACAGTG
1 TCAGGTCTTATCTCCCTGAGGTTACAGTG
18382594 NNNNNNNNNN
Statistics
Matches: 192, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
175 192 1.00
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.29
Consensus pattern (175 bp):
TCAGGTCTTATCTCCCTGAGGTTACAGTGCAGTAGACCGAAAAATTTCAGATCTTATCTCCCTGA
GATTACAACGGAACAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAA
AATAAAAGATCTCATCTCTCTAAAGTTACAGCAGAGTAGATCGCA
Found at i:18384148 original size:87 final size:85
Alignment explanation
Indices: 18384057--18384321 Score: 250
Period size: 87 Copynumber: 3.0 Consensus size: 85
18384047 ATAGCGGAGC
18384057 AGATCCAAGACACTATCCTATCTCCCTGAAGTTACAGTGGAGCGAATTAAAATAAAGGATCTCAT
1 AGATCCAAG-CA-TATCCTATCTCCCTGAAGTTACAGTGGAGCGAATTAAAATAAAGGATCTCAT
*
18384122 GTCTCTGAAGTTACAGTAGAGT
64 CTCTCTGAAGTTACAGTAGAGT
* ** * * * * * **
18384144 AGATCGC-ATCAGGTCTTATCTCCCTGAGGTTACAGTGGAGTAGACCGA-TGAATTTCA-GATCT
1 AGATC-CAAGCATATCCTATCTCCCTGAAGTTACAGTGGAG-CGA---ATTAAAATAAAGGATCT
* * * *
18384206 TATCTCCCTGAGGTTACAGTAGAGC
61 CATCTCTCTGAAGTTACAGTAGAGT
** *
18384231 AGATTGAAGCTAGTAATCCTATCTCCCTG-AGTTACAGTGGAGCGGATTAAAATAAAGGATCTCA
1 AGATCCAAGC-A-T-ATCCTATCTCCCTGAAGTTACAGTGGAGCGAATTAAAATAAAGGATCTCA
18384295 TCTCTCTGAAGTTACAGTAGAGT
63 TCTCTCTGAAGTTACAGTAGAGT
18384318 AGAT
1 AGAT
18384322 NNNNNNNNNN
Statistics
Matches: 135, Mismatches: 32, Indels: 22
0.71 0.17 0.12
Matches are distributed among these distances:
85 26 0.19
86 9 0.07
87 67 0.50
88 8 0.06
89 13 0.10
90 12 0.09
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (85 bp):
AGATCCAAGCATATCCTATCTCCCTGAAGTTACAGTGGAGCGAATTAAAATAAAGGATCTCATCT
CTCTGAAGTTACAGTAGAGT
Found at i:18385039 original size:44 final size:44
Alignment explanation
Indices: 18384991--18385496 Score: 366
Period size: 44 Copynumber: 11.7 Consensus size: 44
18384981 CCACCAGTCC
* *
18384991 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAAATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCT
* * * * *
18385035 TATCTTCCTAAGCAGTAGTGAAGCAGATCGAAAACGACAAATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCT
* * * *** * * *
18385079 TATCTTCCTAAGCAGTAGTGAAGCAGAT-TAAG-CCACCAGTCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCT
* * * *
18385121 TATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGATCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCT
* * * * * *
18385165 TATCTCCCTAAGTAGTAGTGGAGCAGGTCAAAGATGGTAGATAT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCT
* *
18385209 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCT
* * * ** * ** * * *
18385253 TATCTTCCTAAGCAGTAGTGAAGTAGAT-TTAGGTCACCAGTCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCT
* * * * *
18385296 AATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATTGTAGATCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCT
* * *
18385340 TATCTCCCTAAGCAGTAGTAGAGCAGATCG--CAT--CAAGTCT
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCT
** * *
18385380 TATCTCCCTAAGCAGTAGTGGAGCAGA-CAGAAGA-AACCAATCC
1 TATCTCCCTAAGCAGTAGTGGAGCAGATC-GAAGATGGCAAATCT
** * * * *** *
18385423 TATCTCCCTAAAGTTGCAGTGGAGCAGAT-TAAAACCTCAGATCT
1 TATCTCCCT-AAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCT
* *
18385467 TATCTCCCTAAGCATTAGTGGAGTAGATCG
1 TATCTCCCTAAGCAGTAGTGGAGCAGATCG
18385497 CATCAAGTCC
Statistics
Matches: 359, Mismatches: 91, Indels: 24
0.76 0.19 0.05
Matches are distributed among these distances:
39 1 0.00
40 31 0.09
42 34 0.09
43 64 0.18
44 229 0.64
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.25
Consensus pattern (44 bp):
TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGCAAATCT
Found at i:18385124 original size:130 final size:130
Alignment explanation
Indices: 18384964--18385236 Score: 404
Period size: 130 Copynumber: 2.1 Consensus size: 130
18384954 CTGAGATTAC
18384964 AGTGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGT
1 AGTGAAGCAGA-TTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGT
* * * *
18385029 AAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATCGAAA-ACGACAAATCTTATCTTCCTAAGCA
65 AAATCCTATCTCCCTAAGCAGTAGTGAAGCAGATC-AAAGACGACAAATATTATCTCCCTAAGCA
18385093 GT
129 GT
18385095 AGTGAAGCAGATTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTA
1 AGTGAAGCAGATTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTA
* * * * * ** *
18385160 GATCCTATCTCCCTAAGTAGTAGTGGAGCAGGTCAAAGATGGTAGATATTATCTCCCTAAGCAGT
66 AATCCTATCTCCCTAAGCAGTAGTGAAGCAGATCAAAGACGACAAATATTATCTCCCTAAGCAGT
*
18385225 AGTGGAGCAGAT
1 AGTGAAGCAGAT
18385237 CGAAGACGGC
Statistics
Matches: 128, Mismatches: 13, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
129 3 0.02
130 114 0.89
131 11 0.09
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.24
Consensus pattern (130 bp):
AGTGAAGCAGATTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTA
AATCCTATCTCCCTAAGCAGTAGTGAAGCAGATCAAAGACGACAAATATTATCTCCCTAAGCAGT
Found at i:18385237 original size:174 final size:174
Alignment explanation
Indices: 18384988--18385406 Score: 614
Period size: 174 Copynumber: 2.4 Consensus size: 174
18384978 AAGCCACCAG
* *
18384988 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAAATCTTATCTTCCTAAGCAGTAG
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTC-AAGATGGTAGATCTTATCTCCCTAAGCAGTAG
*
18385053 TGAAGCAGATCGAAAACGACAAATCTTATCTTCCTAAGCAGTAGTGAAGCAGA-TTAAGCCACCA
65 TGGAGCAGATCGAAAACGACAAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCA
*
18385117 GTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGA
130 GTCCAATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGA
* *
18385162 TCCTATCTCCCTAAGTAGTAGTGGAGCAGGTCAAAGATGGTAGATATTATCTCCCTAAGCAGTAG
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTC-AAGATGGTAGATCTTATCTCCCTAAGCAGTAG
* * * * * *
18385227 TGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAGTGAAGTAGATTTAGGTCACCA
65 TGGAGCAGATCGAAAACGACAAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCA
*
18385292 GTCCAATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATTGTAGA
130 GTCCAATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGA
* * * **
18385337 TCTTATCTCCCTAAGCAGTAGTAGAGCAGATC--GCAT-CAAG-TCTTATCTCCCTAAGCAGTAG
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAG-ATGGTAGATCTTATCTCCCTAAGCAGTAG
18385398 TGGAGCAGA
65 TGGAGCAGA
18385407 CAGAAGAAAC
Statistics
Matches: 222, Mismatches: 21, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
171 29 0.13
172 3 0.01
173 2 0.01
174 108 0.49
175 80 0.36
ACGTcount: A:0.30, C:0.21, G:0.24, T:0.25
Consensus pattern (174 bp):
TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAGATGGTAGATCTTATCTCCCTAAGCAGTAGT
GGAGCAGATCGAAAACGACAAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAG
TCCAATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGA
Found at i:18385448 original size:84 final size:84
Alignment explanation
Indices: 18385116--18385451 Score: 191
Period size: 87 Copynumber: 3.9 Consensus size: 84
18385106 TTAAGCCACC
* * **** * *
18385116 AGTCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGATCCTATCTCCCTAAGTAGT
1 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGGACGAAGAAACCAGATCCTATCTCCCTAAGCAGC
* * **
18385181 AGTGGAGCAGGTCAAAG-ATGGT
66 AGTAGAGCAGATC---GCAT-CA
* *** * *
18385203 AGATATTATCTCCCTAAGCAGTAGTGGAGCA-GATCGAAGACGGC-GAATCTTATCTTCCTAAGC
1 AG-TCTTATCTCCCTAAGCAGTAGTGGAGCAGGA-CGAAGAAACCAG-ATCCTATCTCCCTAAGC
* * * *
18385266 AGTAGT-GAAGTAGATTTAGGTCA-CC
63 AGCAGTAG-AGCAGA--T-CG-CATCA
** * **** * *
18385291 AGTCCAATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATTGTAGATCTTATCTCCCTAAGCAGT
1 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGGACGAAGAAACCAGATCCTATCTCCCTAAGCAGC
18385356 AGTAGAGCAGATCGCATCA
66 AGTAGAGCAGATCGCATCA
**
18385375 AGTCTTATCTCCCTAAGCAGTAGTGGAGCA-GACAGAAGAAACCA-ATCCTATCTCCCTAAAGTT
1 AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGGAC-GAAGAAACCAGATCCTATCTCCCT-AAGCA
*
18385438 GCAGTGGAGCAGAT
64 GCAGTAGAGCAGAT
18385452 TAAAACCTCA
Statistics
Matches: 198, Mismatches: 36, Indels: 33
0.74 0.13 0.12
Matches are distributed among these distances:
83 16 0.08
84 51 0.26
85 1 0.01
87 64 0.32
88 64 0.32
90 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (84 bp):
AGTCTTATCTCCCTAAGCAGTAGTGGAGCAGGACGAAGAAACCAGATCCTATCTCCCTAAGCAGC
AGTAGAGCAGATCGCATCA
Found at i:18386252 original size:13 final size:13
Alignment explanation
Indices: 18386234--18386258 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18386224 TTTCAAGGTT
18386234 TTTTTTACATCTC
1 TTTTTTACATCTC
18386247 TTTTTTACATCT
1 TTTTTTACATCT
18386259 GTTCTTTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.20, G:0.00, T:0.64
Consensus pattern (13 bp):
TTTTTTACATCTC
Found at i:18386925 original size:3 final size:3
Alignment explanation
Indices: 18386914--18387002 Score: 65
Period size: 3 Copynumber: 29.3 Consensus size: 3
18386904 TTTTTTAGTC
* * * * * *
18386914 TAT TTT TAT TAT T-T TCT TCAT TAT TTT TAA TA- TAT TAT CAT CTTT
1 TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT -TAT
* *
18386959 TAT TAT TAT TAT TGT CAT TAT TAGT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT T
18387003 TCCTCATCTA
Statistics
Matches: 67, Mismatches: 14, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
2 4 0.06
3 57 0.85
4 6 0.09
ACGTcount: A:0.27, C:0.06, G:0.02, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:18386976 original size:22 final size:22
Alignment explanation
Indices: 18386946--18387002 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
18386936 ATTTTTAATA
*
18386946 TATTATCATCTTTTA-TTATTAT
1 TATTATCAT-TATTAGTTATTAT
*
18386968 TATTGTCATTATTAGTTATTAT
1 TATTATCATTATTAGTTATTAT
*
18386990 TATTATTATTATT
1 TATTATCATTATT
18387003 TCCTCATCTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 4 0.13
22 26 0.87
ACGTcount: A:0.28, C:0.05, G:0.04, T:0.63
Consensus pattern (22 bp):
TATTATCATTATTAGTTATTAT
Found at i:18387105 original size:2 final size:2
Alignment explanation
Indices: 18387100--18387161 Score: 54
Period size: 2 Copynumber: 30.5 Consensus size: 2
18387090 TTTTTTACAA
* * * * *
18387100 AT AT AT AT AC AT ACT A- AT AT AT TT AT AT AGT TT AT AT GT AC AT
1 AT AT AT AT AT AT A-T AT AT AT AT AT AT AT A-T AT AT AT AT AT AT
18387143 AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
18387162 CATGCGCATG
Statistics
Matches: 47, Mismatches: 10, Indels: 6
0.75 0.16 0.10
Matches are distributed among these distances:
1 1 0.02
2 43 0.91
3 3 0.06
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:18387136 original size:31 final size:31
Alignment explanation
Indices: 18387101--18387159 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
18387091 TTTTTACAAA
*
18387101 TATATATACATACTA-ATATATTTATATAGTT
1 TATATATACATA-TATATATATATATATAGTT
*
18387132 TATATGTACATATATATATATATATATA
1 TATATATACATATATATATATATATATA
18387160 TACATGCGCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 2 0.08
31 23 0.92
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.47
Consensus pattern (31 bp):
TATATATACATATATATATATATATATAGTT
Found at i:18388170 original size:21 final size:21
Alignment explanation
Indices: 18388132--18388172 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
18388122 TGTCAACAGT
*
18388132 ATGATTTACCAAACTAAAACA
1 ATGATTTACAAAACTAAAACA
* *
18388153 ATGATTTTCAAAATTAAAAC
1 ATGATTTACAAAACTAAAAC
18388173 TTTAGAAATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.51, C:0.15, G:0.05, T:0.29
Consensus pattern (21 bp):
ATGATTTACAAAACTAAAACA
Found at i:18390572 original size:86 final size:85
Alignment explanation
Indices: 18390371--18390589 Score: 269
Period size: 85 Copynumber: 2.6 Consensus size: 85
18390361 AAAAATGCCA
* * * * * * * *
18390371 CTAAAGAGCATGATCTTTAGTGGCGTTTTACCTAAAAATGCAGCTAAAGAACATGACATTTAGCG
1 CTAAAGAACATGACCTTTAGCGGCGCTTTACCCACAAACGCCGCTAAAGAACATGACATTTAGCG
* * * *
18390436 GTGCTTTGCCACAAATGCTG
66 GCGCTTTCCCACAAACGCCG
*
18390456 CTAAAGAACATGACCATTAGCGGCGCTTTACCCACAAACGCCGCTAAAGAACATGATC-TTTAGC
1 CTAAAGAACATGACCTTTAGCGGCGCTTTACCCACAAACGCCGCTAAAGAACATGA-CATTTAGC
18390520 GGCGCTTTACCCACAAACGCCG
65 GGCGCTTT-CCCACAAACGCCG
* * *
18390542 CTAAAGAACATGACCTTTAGCGGTGGTTTACCCACAAACACCGCTAAA
1 CTAAAGAACATGACCTTTAGCGGCGCTTTACCCACAAACGCCGCTAAA
18390590 AGTATGGTTA
Statistics
Matches: 115, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
85 60 0.52
86 55 0.48
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (85 bp):
CTAAAGAACATGACCTTTAGCGGCGCTTTACCCACAAACGCCGCTAAAGAACATGACATTTAGCG
GCGCTTTCCCACAAACGCCG
Found at i:18390580 original size:43 final size:43
Alignment explanation
Indices: 18390371--18390589 Score: 269
Period size: 43 Copynumber: 5.1 Consensus size: 43
18390361 AAAAATGCCA
* * * * * * * *
18390371 CTAAAGAGCATGATCTTTAGTGGCGTTTTACCTAAAAATGCAG
1 CTAAAGAACATGACCTTTAGCGGCGCTTTACCCACAAACGCCG
* * * * *
18390414 CTAAAGAACATGACATTTAGCGGTGCTTT-GCCACAAATGCTG
1 CTAAAGAACATGACCTTTAGCGGCGCTTTACCCACAAACGCCG
*
18390456 CTAAAGAACATGACCATTAGCGGCGCTTTACCCACAAACGCCG
1 CTAAAGAACATGACCTTTAGCGGCGCTTTACCCACAAACGCCG
*
18390499 CTAAAGAACATGATCTTTAGCGGCGCTTTACCCACAAACGCCG
1 CTAAAGAACATGACCTTTAGCGGCGCTTTACCCACAAACGCCG
* * *
18390542 CTAAAGAACATGACCTTTAGCGGTGGTTTACCCACAAACACCG
1 CTAAAGAACATGACCTTTAGCGGCGCTTTACCCACAAACGCCG
18390585 CTAAA
1 CTAAA
18390590 AGTATGGTTA
Statistics
Matches: 153, Mismatches: 22, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
42 35 0.23
43 118 0.77
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (43 bp):
CTAAAGAACATGACCTTTAGCGGCGCTTTACCCACAAACGCCG
Found at i:18391183 original size:28 final size:29
Alignment explanation
Indices: 18391114--18391183 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 29
18391104 TAGAGATATG
* * * *
18391114 ATCAAATAAGTCCCTCTACTATTAAATGG
1 ATCAAATAAGTCCCTATACTATAAAAAGA
* * *
18391143 ATCAATTCAGTCCCTATCCTATAAAAAGA
1 ATCAAATAAGTCCCTATACTATAAAAAGA
18391172 ATCAAAT-AGTCC
1 ATCAAATAAGTCC
18391184 ATTTTCCAAT
Statistics
Matches: 33, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
28 5 0.15
29 28 0.85
ACGTcount: A:0.40, C:0.23, G:0.09, T:0.29
Consensus pattern (29 bp):
ATCAAATAAGTCCCTATACTATAAAAAGA
Found at i:18391837 original size:86 final size:84
Alignment explanation
Indices: 18391710--18392041 Score: 353
Period size: 86 Copynumber: 3.9 Consensus size: 84
18391700 GTTTATGTGA
* * * ** * *
18391710 AACAAATTAGCCAAAATCAACT-ATTCATAGTTCATATATTTACCGGCAATAGGGCTAAATCTTC
1 AACAAATTAGCAAAAATCAA-TGGTTCA-AGTTCATGTATTTACCAACAATA-GACTAAATTTTC
* * *
18391774 AATTTCTATAACGATTTATATGT
63 AATTT-TATAACAACTTATATGC
* * *
18391797 AACAAGTTAGCAAAAATCAATGGTTCAAGTTCATGTATTTACCAAAAATCAGACTAATTTTTCAA
1 AACAAATTAGCAAAAATCAATGGTTCAAGTTCATGTATTTACCAACAAT-AGACTAAATTTTCAA
18391862 TATTTATAACAACTTATATGC
65 T-TTTATAACAACTTATATGC
* * *
18391883 AACAAATTAGCAAAAATAAATGGTTCAAGTTCATGCATTTACCAACAACCAGACTAAATTTTCAA
1 AACAAATTAGCAAAAATCAATGGTTCAAGTTCATGTATTTACCAACAA-TAGACTAAATTTTCAA
*
18391948 TTTTTATAACAACTTATGTGC
65 -TTTTATAACAACTTATATGC
** * * * *
18391969 AACAAATTAG-AAAAATCAACAGTTCAAGTTCATGCATTGACCAACAACCAGACCAAATTTTCAA
1 AACAAATTAGCAAAAATCAATGGTTCAAGTTCATGTATTTACCAACAA-TAGACTAAATTTTCAA
18392033 CTTTTATAA
65 -TTTTATAA
18392042 AGTAGAAAGA
Statistics
Matches: 214, Mismatches: 26, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
85 57 0.27
86 131 0.61
87 26 0.12
ACGTcount: A:0.42, C:0.17, G:0.09, T:0.32
Consensus pattern (84 bp):
AACAAATTAGCAAAAATCAATGGTTCAAGTTCATGTATTTACCAACAATAGACTAAATTTTCAAT
TTTATAACAACTTATATGC
Found at i:18392027 original size:85 final size:86
Alignment explanation
Indices: 18391764--18392041 Score: 387
Period size: 86 Copynumber: 3.2 Consensus size: 86
18391754 GGCAATAGGG
* * * * * *
18391764 CTAAATCTTCAATTTCTATAACGATTTATATGTAACAAGTTAGCAAAAATCAATGGTTCAAGTTC
1 CTAAATTTTCAATTTTTATAACAACTTATATGCAACAAATTAGCAAAAATCAATGGTTCAAGTTC
* * *
18391829 ATGTATTTACCAAAAATCAGA
66 ATGCATTTACCAACAACCAGA
* * *
18391850 CTAATTTTTCAATATTTATAACAACTTATATGCAACAAATTAGCAAAAATAAATGGTTCAAGTTC
1 CTAAATTTTCAATTTTTATAACAACTTATATGCAACAAATTAGCAAAAATCAATGGTTCAAGTTC
18391915 ATGCATTTACCAACAACCAGA
66 ATGCATTTACCAACAACCAGA
* **
18391936 CTAAATTTTCAATTTTTATAACAACTTATGTGCAACAAATTAG-AAAAATCAACAGTTCAAGTTC
1 CTAAATTTTCAATTTTTATAACAACTTATATGCAACAAATTAGCAAAAATCAATGGTTCAAGTTC
*
18392000 ATGCATTGACCAACAACCAGA
66 ATGCATTTACCAACAACCAGA
* *
18392021 CCAAATTTTCAACTTTTATAA
1 CTAAATTTTCAATTTTTATAA
18392042 AGTAGAAAGA
Statistics
Matches: 171, Mismatches: 21, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
85 57 0.33
86 114 0.67
ACGTcount: A:0.42, C:0.17, G:0.09, T:0.32
Consensus pattern (86 bp):
CTAAATTTTCAATTTTTATAACAACTTATATGCAACAAATTAGCAAAAATCAATGGTTCAAGTTC
ATGCATTTACCAACAACCAGA
Found at i:18395554 original size:11 final size:11
Alignment explanation
Indices: 18395538--18395597 Score: 65
Period size: 10 Copynumber: 5.7 Consensus size: 11
18395528 AAAATGAAAG
18395538 TTTAAAATCTT
1 TTTAAAATCTT
18395549 TTTAAAA--TT
1 TTTAAAATCTT
*
18395558 TTTAAAA-ATT
1 TTTAAAATCTT
18395568 TTTAAAATC-T
1 TTTAAAATCTT
*
18395578 TTTAAAATTCAT
1 TTTAAAA-TCTT
18395590 TTTAAAAT
1 TTTAAAAT
18395598 TTTAAATCAT
Statistics
Matches: 44, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
9 9 0.20
10 17 0.39
11 10 0.23
12 8 0.18
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (11 bp):
TTTAAAATCTT
Found at i:18395603 original size:20 final size:19
Alignment explanation
Indices: 18395538--18395600 Score: 74
Period size: 19 Copynumber: 3.1 Consensus size: 19
18395528 AAAATGAAAG
18395538 TTTAAAATCTTTTTAAAATT
1 TTTAAAATC-TTTTAAAATT
18395558 TTTAAAAAT-TTTTAAAATCT
1 TTT-AAAATCTTTTAAAAT-T
18395578 TTTAAAATTCATTTTAAAATT
1 TTTAAAA-TC-TTTTAAAATT
18395599 TT
1 TT
18395601 AAATCATGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
19 13 0.34
20 8 0.21
21 8 0.21
22 9 0.24
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (19 bp):
TTTAAAATCTTTTAAAATT
Found at i:18396074 original size:14 final size:14
Alignment explanation
Indices: 18396054--18396260 Score: 84
Period size: 14 Copynumber: 14.4 Consensus size: 14
18396044 ACTAGTTAAT
*
18396054 CTAAACCCTAAACC
1 CTAAACCATAAACC
*
18396068 ATAAACCATAAACC
1 CTAAACCATAAACC
*
18396082 TTAAAACTC-TAAAACC
1 CT-AAAC-CAT-AAACC
* *
18396098 ATAAACGATAAACC
1 CTAAACCATAAACC
*
18396112 CTTAACACAT-AACC
1 CTAAAC-CATAAACC
*
18396126 TCTAAACCTTAAACC
1 -CTAAACCATAAACC
* *
18396141 C-CAACCTTTAAACC
1 CTAAACC-ATAAACC
* *
18396155 ATAAATCATAAA-C
1 CTAAACCATAAACC
* *
18396168 CAAAACCTCTAAACC
1 CTAAACC-ATAAACC
* *
18396183 CATAATCCATGAACC
1 C-TAAACCATAAACC
* *
18396198 TTAAA--ATGGTAACAC
1 CTAAACCAT--AAAC-C
* *
18396213 CTAAACCTTAAACT
1 CTAAACCATAAACC
*
18396227 CTAAACCATATACC
1 CTAAACCATAAACC
*
18396241 CTAAACCAAAAACC
1 CTAAACCATAAACC
18396255 CTAAAC
1 CTAAAC
18396261 TATAGTGATA
Statistics
Matches: 141, Mismatches: 35, Indels: 34
0.67 0.17 0.16
Matches are distributed among these distances:
12 2 0.01
13 9 0.06
14 79 0.56
15 39 0.28
16 11 0.08
17 1 0.01
ACGTcount: A:0.47, C:0.31, G:0.02, T:0.20
Consensus pattern (14 bp):
CTAAACCATAAACC
Found at i:18396079 original size:21 final size:21
Alignment explanation
Indices: 18396055--18396168 Score: 63
Period size: 21 Copynumber: 5.3 Consensus size: 21
18396045 CTAGTTAATC
18396055 TAAACCCTAAACCATAAACCA
1 TAAACCCTAAACCATAAACCA
*
18396076 TAAACCTTAAAACTC-TAAAACCA
1 TAAACCCT-AAAC-CAT-AAACCA
** * *
18396099 TAAACGATAAACCCTTAACACA
1 TAAACCCTAAACCATAAAC-CA
*
18396121 T-AACCTCTAAACCTTAAACC-
1 TAAACC-CTAAACCATAAACCA
** * *
18396141 CCAACCTTTAAACCATAAATCA
1 TAAACC-CTAAACCATAAACCA
18396163 TAAACC
1 TAAACC
18396169 AAAACCTCTA
Statistics
Matches: 71, Mismatches: 14, Indels: 15
0.71 0.14 0.15
Matches are distributed among these distances:
21 31 0.44
22 27 0.38
23 13 0.18
ACGTcount: A:0.48, C:0.31, G:0.01, T:0.20
Consensus pattern (21 bp):
TAAACCCTAAACCATAAACCA
Found at i:18396501 original size:41 final size:41
Alignment explanation
Indices: 18396439--18396814 Score: 511
Period size: 41 Copynumber: 9.2 Consensus size: 41
18396429 TAAATTATTT
*
18396439 TAAATCCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
* * **
18396480 TAAAGCCCTGAGCATTAGCGGCGCTTTCTCTAAAATGCCAA
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
* * *
18396521 TAAAGCACTGAGCATTAGCGGCGCTTTCTCAAAACCACCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
* * *
18396562 TAAAGCACTGAGCATTAGCGGCGCTTTCTCAGAAACGCCAC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
* * * *
18396603 TAAAG-ACTGAGCATTAGCGGCTCTTTTTTAAAAACGCCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
*
18396643 TAAAGCCCTGAGCATTAGCGACGCTTTCTCAAAAACGCCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
*
18396684 TAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
* * * *
18396725 TAAAGCCCTGAGCATTAGCGGTGCTTTTTCAAAAACGCTGT
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
* * * * *
18396766 TAAAGCCCCGAGCATTAGCGGTGCTTTCTCTAAAATGTCGC
1 TAAAGCCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
18396807 TAAAGCCC
1 TAAAGCCC
18396815 CGAAAGCTCG
Statistics
Matches: 294, Mismatches: 40, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
40 35 0.12
41 259 0.88
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (41 bp):
TAAAGCCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
Found at i:18396727 original size:163 final size:163
Alignment explanation
Indices: 18396446--18396814 Score: 504
Period size: 163 Copynumber: 2.3 Consensus size: 163
18396436 TTTTAAATCC
* *
18396446 CTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTCT
1 CTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGACGCTTTCTCA
* *
18396511 AAAATGCCAATAAAGCACTGAGCATTAGCGGCGCTTTCTCAAAACCACCGCTAAAGCACTGAGCA
66 AAAACGCCAATAAAGCACTGAGCATTAGCGGCGCTTTCTCAAAAACACCGCTAAAGCACTGAGCA
*
18396576 TTAGCGGCGCTTTCTCAGAAACGCCACTAAAGA
131 TTAGCGGCGCTTTCTCAAAAACGCCACTAAAGA
* * *
18396609 CTGAGCATTAGCGGCTCTTTTTTAAAAACGCCGCTAAAGCCCTGAGCATTAGCGACGCTTTCTCA
1 CTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGACGCTTTCTCA
** * * * *
18396674 AAAACGCCGCTAAAGCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGCTAAAGCCCTGAGCA
66 AAAACGCCAATAAAGCACTGAGCATTAGCGGCGCTTTCTCAAAAACACCGCTAAAGCACTGAGCA
* * *** *
18396739 TTAGCGGTGCTTTTTCAAAAACGCTGTTAAAGCC
131 TTAGCGGCGCTTTCTCAAAAACGCCACTAAAG-A
* * * * *
18396773 CCGAGCATTAGCGGTGCTTTCTCTAAAATGTCGCTAAAGCCC
1 CTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCC
18396815 CGAAAGCTCG
Statistics
Matches: 177, Mismatches: 28, Indels: 1
0.86 0.14 0.00
Matches are distributed among these distances:
163 143 0.81
164 34 0.19
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (163 bp):
CTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCTGAGCATTAGCGACGCTTTCTCA
AAAACGCCAATAAAGCACTGAGCATTAGCGGCGCTTTCTCAAAAACACCGCTAAAGCACTGAGCA
TTAGCGGCGCTTTCTCAAAAACGCCACTAAAGA
Found at i:18396898 original size:39 final size:40
Alignment explanation
Indices: 18396849--18396935 Score: 97
Period size: 39 Copynumber: 2.2 Consensus size: 40
18396839 TGGGCTTAGG
* **
18396849 TTTTTTGCGGCGCTTTCTGGAAAA-CACCGCTAATGCTT-A
1 TTTTTAGCGGCGCTTTC-CAAAAAGCACCGCTAATGCTTGA
* *
18396888 TTTTTAGCGGCGTTTTCCAAAAAGCGCCGCTAATGCTTGA
1 TTTTTAGCGGCGCTTTCCAAAAAGCACCGCTAATGCTTGA
*
18396928 TCTTTAGC
1 TTTTTAGC
18396936 TGCGTTTTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
38 4 0.10
39 28 0.70
40 8 0.20
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.36
Consensus pattern (40 bp):
TTTTTAGCGGCGCTTTCCAAAAAGCACCGCTAATGCTTGA
Found at i:18398852 original size:14 final size:15
Alignment explanation
Indices: 18398833--18398866 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
18398823 TGTAATTTGC
18398833 TTTTGGGTTTTC-TT
1 TTTTGGGTTTTCGTT
*
18398847 TTTTGGTTTTTCGTT
1 TTTTGGGTTTTCGTT
18398862 TTTTG
1 TTTTG
18398867 CTGGATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.00, C:0.06, G:0.21, T:0.74
Consensus pattern (15 bp):
TTTTGGGTTTTCGTT
Found at i:18399009 original size:13 final size:13
Alignment explanation
Indices: 18398991--18399055 Score: 71
Period size: 13 Copynumber: 5.0 Consensus size: 13
18398981 GTTTGGCAAA
18398991 GCTTTTGAAAAGT
1 GCTTTTGAAAAGT
18399004 GCTTTTGAAAAGT
1 GCTTTTGAAAAGT
*
18399017 GAC--GTGAAAAAGT
1 G-CTTTTG-AAAAGT
* *
18399030 ACTTTTGAGAAGT
1 GCTTTTGAAAAGT
18399043 GCTTTTGAAAAGT
1 GCTTTTGAAAAGT
18399056 TTGGTTTAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
12 3 0.07
13 36 0.86
14 3 0.07
ACGTcount: A:0.34, C:0.08, G:0.25, T:0.34
Consensus pattern (13 bp):
GCTTTTGAAAAGT
Found at i:18401019 original size:19 final size:19
Alignment explanation
Indices: 18400964--18401044 Score: 108
Period size: 19 Copynumber: 4.1 Consensus size: 19
18400954 ATTGGGTGGA
18400964 TCAGCTCTTACGAGCTTCTGT
1 TCAGCT-TT-CGAGCTTCTGT
*
18400985 TCAGCTCTTACGAGCTTCTAT
1 TCAGCT-TT-CGAGCTTCTGT
*
18401006 TCAACTTTCGAGCTTCTGT
1 TCAGCTTTCGAGCTTCTGT
18401025 TCAGCTTTCGAGCTTCTGT
1 TCAGCTTTCGAGCTTCTGT
18401044 T
1 T
18401045 GGCGTGTTTG
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
19 29 0.52
20 2 0.04
21 25 0.45
ACGTcount: A:0.15, C:0.27, G:0.17, T:0.41
Consensus pattern (19 bp):
TCAGCTTTCGAGCTTCTGT
Found at i:18406398 original size:25 final size:24
Alignment explanation
Indices: 18406297--18406415 Score: 96
Period size: 25 Copynumber: 4.8 Consensus size: 24
18406287 TAGCTCTTCG
* * *
18406297 GAGCTTCCCGATATTGGCTCACTT
1 GAGCTTCCCGTTAATGGCTCACAT
* * * **
18406321 GAATCTTCCCGATATTGGCTCGTAT
1 G-AGCTTCCCGTTAATGGCTCACAT
*
18406346 GAGCTTCCCGTTAATGGCTCTC-T
1 GAGCTTCCCGTTAATGGCTCACAT
* *
18406369 AGAGCCTCCCGTTACGTGGCTCACAT
1 -GAGCTTCCCGTTA-ATGGCTCACAT
18406395 GAGCTTCCCGTTATATGGCTC
1 GAGCTTCCCGTTA-ATGGCTC
18406416 GAGAGAAAGA
Statistics
Matches: 76, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
23 1 0.01
24 29 0.38
25 45 0.59
26 1 0.01
ACGTcount: A:0.17, C:0.29, G:0.22, T:0.32
Consensus pattern (24 bp):
GAGCTTCCCGTTAATGGCTCACAT
Found at i:18406727 original size:18 final size:17
Alignment explanation
Indices: 18406700--18406741 Score: 75
Period size: 18 Copynumber: 2.4 Consensus size: 17
18406690 ATGTTTCTTG
18406700 ATGTTTATATGAAATAC
1 ATGTTTATATGAAATAC
18406717 ATGTCTTATATGAAATAC
1 ATGT-TTATATGAAATAC
18406735 ATGTTTA
1 ATGTTTA
18406742 ACATTGTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 7 0.29
18 17 0.71
ACGTcount: A:0.38, C:0.07, G:0.12, T:0.43
Consensus pattern (17 bp):
ATGTTTATATGAAATAC
Found at i:18425848 original size:113 final size:113
Alignment explanation
Indices: 18425519--18425865 Score: 341
Period size: 113 Copynumber: 3.1 Consensus size: 113
18425509 GATTCACAAA
* * * *
18425519 AAGCGCCGCAAAAAA-ATAAGGCCAACGACGCCGTTTACTAAGTTTTTGGGCCATTAGCGGCGTT
1 AAGCGCCGCAAAAAACCTAAGGGCAACGACGCCGTTTTCTAAGTTTTTGGGCCTTTAGCGGCGTT
* * ** * * *
18425583 TTTATAAAAACGCTGCTAATGCTCGGGGGA-CTTT-GCGGCGATTTCTAAA
66 TTT-TAAAAGCGCCGCTAATGCTC--ATGATCTTTAGCGGCGTTTTCTGAG
* * * ** ** *
18425632 AAGTGCCGCAAAAAACCTAA-TGCAAACGACGTCG-TTTCCGAGTTTTTGTCCCTTTTGCGGCGC
1 AAGCGCCGCAAAAAACCTAAGGGC-AACGACGCCGTTTTCTAAGTTTTTGGGCCTTTAGCGGCG-
*
18425695 TTTTTTAAAAGCGCCGGTAATGCTCAT-ATCTTTAGCGGCGTTTTCTGAG
64 TTTTTTAAAAGCGCCGCTAATGCTCATGATCTTTAGCGGCGTTTTCTGAG
**
18425744 AAGCGCCGCAAAAAACCTAAGGGCAACGACGCCGTTTTCTTTGTTTTTGGGCCTTTAGCGGCGTT
1 AAGCGCCGCAAAAAACCTAAGGGCAACGACGCCGTTTTCTAAGTTTTTGGGCCTTTAGCGGCGTT
* * * *
18425809 TTCTTAAAAGCGCCGCTAATGAT-TTGTTCTTTAGCGGCGTTTTTTTG-G
66 TT-TTAAAAGCGCCGCTAATGCTCATGATCTTTAGCGGCG-TTTTCTGAG
18425857 AAGCGCCGC
1 AAGCGCCGC
18425866 TAATCCTTCT
Statistics
Matches: 190, Mismatches: 34, Indels: 20
0.78 0.14 0.08
Matches are distributed among these distances:
110 1 0.01
111 4 0.02
112 45 0.24
113 117 0.62
114 23 0.12
ACGTcount: A:0.23, C:0.22, G:0.24, T:0.30
Consensus pattern (113 bp):
AAGCGCCGCAAAAAACCTAAGGGCAACGACGCCGTTTTCTAAGTTTTTGGGCCTTTAGCGGCGTT
TTTTAAAAGCGCCGCTAATGCTCATGATCTTTAGCGGCGTTTTCTGAG
Found at i:18426247 original size:18 final size:21
Alignment explanation
Indices: 18426201--18426249 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 21
18426191 TAGTTCGACT
18426201 AAATTAATATATAAATCAAAC
1 AAATTAATATATAAATCAAAC
* *
18426222 AAAGTAATATA-AAA-C-ACC
1 AAATTAATATATAAATCAAAC
18426240 AAATTAATAT
1 AAATTAATAT
18426250 CGTGATTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
18 11 0.44
19 1 0.04
20 3 0.12
21 10 0.40
ACGTcount: A:0.61, C:0.10, G:0.02, T:0.27
Consensus pattern (21 bp):
AAATTAATATATAAATCAAAC
Found at i:18426844 original size:14 final size:13
Alignment explanation
Indices: 18426825--18426864 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
18426815 TCGGGGGTAA
18426825 GGGTTTGTGGTTTG
1 GGGTTTG-GGTTTG
18426839 GGGTTTGGGGTTTG
1 GGGTTT-GGGTTTG
*
18426853 GGATTTGGGTTT
1 GGGTTTGGGTTT
18426865 TTGAGTTTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
13 6 0.25
14 17 0.71
15 1 0.04
ACGTcount: A:0.03, C:0.00, G:0.50, T:0.47
Consensus pattern (13 bp):
GGGTTTGGGTTTG
Found at i:18428146 original size:19 final size:19
Alignment explanation
Indices: 18428124--18428167 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
18428114 CAGACATCTC
*
18428124 CCCCAAATCCCTAAAATTT
1 CCCCAAATCCCTAAAAGTT
* * *
18428143 CCCCTAATTCCTAACAGTT
1 CCCCAAATCCCTAAAAGTT
18428162 CCCCAA
1 CCCCAA
18428168 CGTAGTCCAG
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.32, C:0.41, G:0.02, T:0.25
Consensus pattern (19 bp):
CCCCAAATCCCTAAAAGTT
Found at i:18434049 original size:21 final size:20
Alignment explanation
Indices: 18434023--18434093 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 20
18434013 CTACAACTTA
18434023 AAGCAGAGGCGGAAGCGAGGG
1 AAGCAGAGGC-GAAGCGAGGG
* * *
18434044 AAGCAGCGGCTGCAGCAAGGG
1 AAGCAGAGGC-GAAGCGAGGG
* * *
18434065 AAGCGGAGGCTACAGCGAGAG
1 AAGCAGAGGCGA-AGCGAGGG
18434086 AAGCAGAG
1 AAGCAGAG
18434094 TAGAGCAAAA
Statistics
Matches: 38, Mismatches: 11, Indels: 2
0.75 0.22 0.04
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.34, C:0.18, G:0.45, T:0.03
Consensus pattern (20 bp):
AAGCAGAGGCGAAGCGAGGG
Found at i:18434336 original size:14 final size:14
Alignment explanation
Indices: 18434317--18434350 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
18434307 ATTGCTATTG
18434317 GTTGCTTTTGAATT
1 GTTGCTTTTGAATT
18434331 GTTGCTTTTGAATT
1 GTTGCTTTTGAATT
*
18434345 TTTGCT
1 GTTGCT
18434351 ACAGGAGGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.12, C:0.09, G:0.21, T:0.59
Consensus pattern (14 bp):
GTTGCTTTTGAATT
Found at i:18434470 original size:42 final size:41
Alignment explanation
Indices: 18434418--18434623 Score: 182
Period size: 42 Copynumber: 4.9 Consensus size: 41
18434408 GTTTTTGTAT
* *
18434418 AAAAGCGCCACTAAAGAACATGTTCTTTAGCAGCGTTTGTAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCAGCGTTTG-AA
* * * *
18434460 AAAAATGCCACTAAAGAACATGTTCTTTAGCGGCGCTTGTAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCAGCGTTTG-AA
* * **
18434502 AAAAACGCCGCTAAAGAACACGTTCTTTAG-AGGCGCTTAGGG
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCA-GCG-TTTGAA
* * * * * *
18434544 AAAAATGGCGCTAAAGAACACGTTCTTTAG-AGGCAATTAGGA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCA-GC-GTTTGAA
* *
18434586 AAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGTTT
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCAGCGTTT
18434624 TTCCTTTCTT
Statistics
Matches: 137, Mismatches: 23, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
41 2 0.01
42 133 0.97
43 2 0.01
ACGTcount: A:0.36, C:0.19, G:0.22, T:0.23
Consensus pattern (41 bp):
AAAAACGCCGCTAAAGAACATGTTCTTTAGCAGCGTTTGAA
Found at i:18434558 original size:84 final size:84
Alignment explanation
Indices: 18434412--18434622 Score: 230
Period size: 84 Copynumber: 2.5 Consensus size: 84
18434402 AGTGGCGTTT
* * * *
18434412 TTGTATAAAAGCGCCACTAAAGAACATGTTCTTTAGCA-GCGTTTGTAAAAAAATGCCACTAAAG
1 TTGTAAAAAAACGCCGCTAAAGAACATGTTCTTTAG-AGGCGTTAGTAAAAAAATGCCACTAAAG
* * **
18434476 AACATGTTCTTTAGCGGCGC
65 AACACGTTCTTTAGAGGCAA
* ** * *
18434496 TTGTAAAAAAACGCCGCTAAAGAACACGTTCTTTAGAGGCGCTTAG-GGAAAAATGGCGCTAAAG
1 TTGTAAAAAAACGCCGCTAAAGAACATGTTCTTTAGAGGCG-TTAGTAAAAAAATGCCACTAAAG
18434560 AACACGTTCTTTAGAGGCAA
65 AACACGTTCTTTAGAGGCAA
* * *
18434580 TTAG-GAAAAAACGCCGCTAAAGAACATGATCTTTAGCGGCGTT
1 TT-GTAAAAAAACGCCGCTAAAGAACATGTTCTTTAGAGGCGTT
18434623 TTTCCTTTCT
Statistics
Matches: 107, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
83 3 0.03
84 100 0.93
85 4 0.04
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (84 bp):
TTGTAAAAAAACGCCGCTAAAGAACATGTTCTTTAGAGGCGTTAGTAAAAAAATGCCACTAAAGA
ACACGTTCTTTAGAGGCAA
Found at i:18436141 original size:40 final size:40
Alignment explanation
Indices: 18436079--18436157 Score: 95
Period size: 40 Copynumber: 2.0 Consensus size: 40
18436069 GGACAAAAAA
* *
18436079 CGCCAGTAAAAATAGAGCATTAGTGGTGCTTTATGGAAAT
1 CGCCACTAAAAATAGAGCATTAGCGGTGCTTTATGGAAAT
* * * * *
18436119 CGCCACTAAAGATTGAGGATTAGCGGTGTTTTTTGGAAA
1 CGCCACTAAAAATAGAGCATTAGCGGTGCTTTATGGAAA
18436158 AGCGCTGCAA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.32, C:0.13, G:0.27, T:0.29
Consensus pattern (40 bp):
CGCCACTAAAAATAGAGCATTAGCGGTGCTTTATGGAAAT
Found at i:18436265 original size:41 final size:41
Alignment explanation
Indices: 18436203--18436444 Score: 389
Period size: 41 Copynumber: 5.9 Consensus size: 41
18436193 TTCTGACCTT
* *
18436203 TCGGGGCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATAC
1 TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
*
18436244 TCGGGGCTTTAGCGGCATTTTTGAAAAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
*
18436285 TC-GGG-TATTAGCGGCGTTTTTGAAAAGGCGCCGCTAATGC
1 TCGGGGCT-TTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
*
18436325 TCGGGGCTTTAGCGGCGTTTTTGAAAAAGTGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
* *
18436366 TCGGGCCTTTAGCGGCGTTTTTGAAAAAGTGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
*
18436407 TCGGGCCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAA
1 TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAA
18436445 AAACATTTTA
Statistics
Matches: 189, Mismatches: 9, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
39 1 0.01
40 36 0.19
41 151 0.80
42 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (41 bp):
TCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGC
Found at i:18436346 original size:81 final size:81
Alignment explanation
Indices: 18436206--18436444 Score: 390
Period size: 81 Copynumber: 2.9 Consensus size: 81
18436196 TGACCTTTCG
* * *
18436206 GGGCTTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATACTCGGGGCTTTAGCGGCATTTTTGAAAA
1 GGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGGGCTTTAGCGGCGTTTTTGAAAA
18436271 AGCGCCGCTAATGCTC
66 AGCGCCGCTAATGCTC
*
18436287 GGG-TATTAGCGGCGTTTTTGAAAAGGCGCCGCTAATGCTCGGGGCTTTAGCGGCGTTTTTGAAA
1 GGGCT-TTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGGGCTTTAGCGGCGTTTTTGAAA
*
18436351 AAGTGCCGCTAATGCTC
65 AAGCGCCGCTAATGCTC
* *
18436368 GGGCCTTTAGCGGCGTTTTTGAAAAAGTGCCGCTAATGCTCGGGCCTTTAGCGGCGTTTTTGAAA
1 GGG-CTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGGGCTTTAGCGGCGTTTTTGAAA
18436433 AAGCGCCGCTAA
65 AAGCGCCGCTAA
18436445 AAACATTTTA
Statistics
Matches: 146, Mismatches: 9, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
80 1 0.01
81 77 0.53
82 67 0.46
83 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (81 bp):
GGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGGGGCTTTAGCGGCGTTTTTGAAAA
AGCGCCGCTAATGCTC
Found at i:18436810 original size:7 final size:7
Alignment explanation
Indices: 18436798--18436878 Score: 65
Period size: 7 Copynumber: 11.6 Consensus size: 7
18436788 GAGTATAGAT
18436798 TTAGGGA
1 TTAGGGA
18436805 TTAGGGA
1 TTAGGGA
18436812 TTAGGGA
1 TTAGGGA
18436819 TTAGGGA
1 TTAGGGA
* *
18436826 TTATGGT
1 TTAGGGA
*
18436833 TTAAGGA
1 TTAGGGA
*
18436840 TT-GTGA
1 TTAGGGA
* *
18436846 TTTAAGGT
1 -TTAGGGA
*
18436854 TTAGGGG
1 TTAGGGA
*
18436861 TTAGGGT
1 TTAGGGA
*
18436868 TTAGGGG
1 TTAGGGA
18436875 TTAG
1 TTAG
18436879 ACATTATGGG
Statistics
Matches: 59, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
6 2 0.03
7 56 0.95
8 1 0.02
ACGTcount: A:0.23, C:0.00, G:0.40, T:0.37
Consensus pattern (7 bp):
TTAGGGA
Found at i:18436824 original size:21 final size:21
Alignment explanation
Indices: 18436798--18436878 Score: 74
Period size: 21 Copynumber: 3.9 Consensus size: 21
18436788 GAGTATAGAT
*
18436798 TTAGGGATTAGGGATTAGGGA
1 TTAGGGATTAGGGTTTAGGGA
* *
18436819 TTAGGGATTATGGTTTAAGGA
1 TTAGGGATTAGGGTTTAGGGA
* * *
18436840 TT-GTGATTTAAGGTTTAGGGG
1 TTAGGGA-TTAGGGTTTAGGGA
* *
18436861 TTAGGGTTTAGGGGTTAG
1 TTAGGGATTAGGGTTTAG
18436879 ACATTATGGG
Statistics
Matches: 47, Mismatches: 11, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
20 3 0.06
21 42 0.89
22 2 0.04
ACGTcount: A:0.23, C:0.00, G:0.40, T:0.37
Consensus pattern (21 bp):
TTAGGGATTAGGGTTTAGGGA
Found at i:18437121 original size:15 final size:14
Alignment explanation
Indices: 18437102--18437144 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 14
18437092 ACTATTTTAA
18437102 GGTTTATGGATTAT
1 GGTTTATGGATTAT
* *
18437116 GAGTTTAGGGATTAC
1 G-GTTTATGGATTAT
*
18437131 GGTTTATGGTTTAT
1 GGTTTATGGATTAT
18437145 TATTTAAGGG
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.21, C:0.02, G:0.30, T:0.47
Consensus pattern (14 bp):
GGTTTATGGATTAT
Found at i:18437122 original size:22 final size:22
Alignment explanation
Indices: 18437074--18437122 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
18437064 ATGGTGTAGG
*
18437074 GTTTAAGGTTTAAGGGTTACTA
1 GTTTAAGGTTTAAGGATTACTA
* *
18437096 TTTTAAGGTTTATGGATTA-TGA
1 GTTTAAGGTTTAAGGATTACT-A
18437118 GTTTA
1 GTTTA
18437123 GGGATTACGG
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 1 0.05
22 21 0.95
ACGTcount: A:0.27, C:0.02, G:0.24, T:0.47
Consensus pattern (22 bp):
GTTTAAGGTTTAAGGATTACTA
Found at i:18437185 original size:22 final size:22
Alignment explanation
Indices: 18437147--18437197 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
18437137 TGGTTTATTA
*
18437147 TTTAAGGGTTGGGATTTAAG-G
1 TTTAGGGGTTGGGATTTAAGAG
*
18437168 TTTAGGGGTTAGGGATTTAAGAT
1 TTTAGGGGTT-GGGATTTAAGAG
18437191 TTTAGGG
1 TTTAGGG
18437198 TTTAAGGGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 9 0.35
22 10 0.38
23 7 0.27
ACGTcount: A:0.24, C:0.00, G:0.37, T:0.39
Consensus pattern (22 bp):
TTTAGGGGTTGGGATTTAAGAG
Found at i:18437601 original size:6 final size:6
Alignment explanation
Indices: 18437585--18437638 Score: 54
Period size: 6 Copynumber: 8.3 Consensus size: 6
18437575 GGACCAAATT
* *
18437585 ATAACAA ATAAAA ATAAAA TATAAAA ATAAAA ATGAAAT ACAAAA ACTAAAA
1 ATAA-AA ATAAAA ATAAAA -ATAAAA ATAAAA AT-AAAA ATAAAA A-TAAAA
18437637 AT
1 AT
18437639 TATAATTTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
6 21 0.52
7 19 0.47
ACGTcount: A:0.74, C:0.06, G:0.02, T:0.19
Consensus pattern (6 bp):
ATAAAA
Found at i:18437608 original size:13 final size:13
Alignment explanation
Indices: 18437592--18437616 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18437582 ATTATAACAA
18437592 ATAAAAATAAAAT
1 ATAAAAATAAAAT
18437605 ATAAAAATAAAA
1 ATAAAAATAAAA
18437617 ATGAAATACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
ATAAAAATAAAAT
Found at i:18437614 original size:19 final size:19
Alignment explanation
Indices: 18437584--18437638 Score: 74
Period size: 19 Copynumber: 2.8 Consensus size: 19
18437574 AGGACCAAAT
18437584 TATAACAAATAAAAATAAAA
1 TATAA-AAATAAAAATAAAA
*
18437604 TATAAAAATAAAAATGAAA
1 TATAAAAATAAAAATAAAA
*
18437623 TACAAAAACTAAAAAT
1 TATAAAAA-TAAAAAT
18437639 TATAATTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
19 20 0.62
20 12 0.38
ACGTcount: A:0.73, C:0.05, G:0.02, T:0.20
Consensus pattern (19 bp):
TATAAAAATAAAAATAAAA
Found at i:18440021 original size:24 final size:24
Alignment explanation
Indices: 18439974--18440021 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
18439964 TAGGCCATTT
**
18439974 TAATTAACACCATCATTTTTCTTC
1 TAATTAACACCATCATTTAGCTTC
18439998 TAATTAACACCAT-AGTTTAGCTTC
1 TAATTAACACCATCA-TTTAGCTTC
18440022 GCATTTTGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.31, C:0.23, G:0.04, T:0.42
Consensus pattern (24 bp):
TAATTAACACCATCATTTAGCTTC
Found at i:18445463 original size:25 final size:26
Alignment explanation
Indices: 18445429--18445481 Score: 99
Period size: 25 Copynumber: 2.1 Consensus size: 26
18445419 CCTTGTTGTC
18445429 ATATGTGCTTTAGGTGATGTAT-CTT
1 ATATGTGCTTTAGGTGATGTATACTT
18445454 ATATGTGCTTTAGGTGATGTATACTT
1 ATATGTGCTTTAGGTGATGTATACTT
18445480 AT
1 AT
18445482 TGTATAAACA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 22 0.81
26 5 0.19
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.47
Consensus pattern (26 bp):
ATATGTGCTTTAGGTGATGTATACTT
Found at i:18447616 original size:15 final size:15
Alignment explanation
Indices: 18447596--18447624 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
18447586 AATACTGTTG
18447596 CTGTGTAGGAGAAGA
1 CTGTGTAGGAGAAGA
18447611 CTGTGTAGGAGAAG
1 CTGTGTAGGAGAAG
18447625 GTTATGTACA
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:0.31, C:0.07, G:0.41, T:0.21
Consensus pattern (15 bp):
CTGTGTAGGAGAAGA
Found at i:18449030 original size:33 final size:34
Alignment explanation
Indices: 18448972--18449041 Score: 124
Period size: 33 Copynumber: 2.1 Consensus size: 34
18448962 ATATGTTTTG
18448972 CAAAAATTCAGACTCTTTTTAACAAGTAACTATA
1 CAAAAATTCAGACTCTTTTTAACAAGTAACTATA
*
18449006 CAAAAATTCGGACTC-TTTTAACAAGTAACTATA
1 CAAAAATTCAGACTCTTTTTAACAAGTAACTATA
18449039 CAA
1 CAA
18449042 GGTTTTTATC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
33 21 0.60
34 14 0.40
ACGTcount: A:0.44, C:0.19, G:0.07, T:0.30
Consensus pattern (34 bp):
CAAAAATTCAGACTCTTTTTAACAAGTAACTATA
Found at i:18456477 original size:16 final size:18
Alignment explanation
Indices: 18456451--18456483 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
18456441 TTAATTTACA
18456451 TAAATTAA-TTTCTCAAT
1 TAAATTAATTTTCTCAAT
18456468 TAAA-TAATTTTCTCAA
1 TAAATTAATTTTCTCAA
18456484 CCTAATTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:18458874 original size:23 final size:23
Alignment explanation
Indices: 18458847--18458895 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
18458837 TAATTAAGGC
* * *
18458847 TTAATTAACTTAGTTAATCATGT
1 TTAATTAACTTAATAAAACATGT
*
18458870 TTAATTAATTTAATAAAACATGT
1 TTAATTAACTTAATAAAACATGT
18458893 TTA
1 TTA
18458896 TCCATTTAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (23 bp):
TTAATTAACTTAATAAAACATGT
Found at i:18465284 original size:43 final size:42
Alignment explanation
Indices: 18465223--18465466 Score: 265
Period size: 43 Copynumber: 5.7 Consensus size: 42
18465213 ACTTTGATTC
* *
18465223 ATCCGATGATGCATTGTGTGTGCCAATATATTTGCTTCGGTAT
1 ATCCGATGATGCACTGTGTGTGCCAGTATATTT-CTTCGGTAT
* * * *
18465266 ATCCGATGATGCATTGTGTGTGCCAGTATATTTTTTCAGTTT
1 ATCCGATGATGCACTGTGTGTGCCAGTATATTTCTTCGGTAT
* * ** *
18465308 ATTCGATGATGCACTATGTGTGTTAGTATATTT-TTTGGTAT
1 ATCCGATGATGCACTGTGTGTGCCAGTATATTTCTTCGGTAT
* * *
18465349 ATCTGATGATACACTGTGTGTGACAGTATATTTGCTTCGGTAT
1 ATCCGATGATGCACTGTGTGTGCCAGTATATTT-CTTCGGTAT
* * *
18465392 ATCCGATGATGCACTATGTGTGCCAGTATATTTTTCTTTGGTTTT
1 ATCCGATGATGCACTGTGTGTGCCAGTATA--TTTCTTCGG-TAT
* *
18465437 ATCTGATGATGCACTGTGTGTGCTAGTATA
1 ATCCGATGATGCACTGTGTGTGCCAGTATA
18465467 GTAGCTTCGA
Statistics
Matches: 168, Mismatches: 28, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
41 32 0.19
42 34 0.20
43 65 0.39
44 5 0.03
45 32 0.19
ACGTcount: A:0.21, C:0.14, G:0.23, T:0.43
Consensus pattern (42 bp):
ATCCGATGATGCACTGTGTGTGCCAGTATATTTCTTCGGTAT
Found at i:18465379 original size:126 final size:129
Alignment explanation
Indices: 18465227--18465466 Score: 353
Period size: 126 Copynumber: 1.9 Consensus size: 129
18465217 TGATTCATCC
* * * * *
18465227 GATGATGCATTGTGTGTGCCAATATATTTGCTTCGGTATATCCGATGATGCATTGTGTGTGCCAG
1 GATGATACACTGTGTGTGACAATATATTTGCTTCGGTATATCCGATGATGCACTATGTGTGCCAG
*
18465292 TATA-TTTT-TTCAG-TTTAT-TCGATGATGCACTATGTGTGTTAGTATATTTTTTGGTATATCT
66 TATATTTTTCTTCAGTTTTATCT-GATGATGCACTATGTGTGCTAGTATATTTTTTGGTATATCT
*
18465353 GATGATACACTGTGTGTGACAGTATATTTGCTTCGGTATATCCGATGATGCACTATGTGTGCCAG
1 GATGATACACTGTGTGTGACAATATATTTGCTTCGGTATATCCGATGATGCACTATGTGTGCCAG
** *
18465418 TATATTTTTCTTTGGTTTTATCTGATGATGCACTGTGTGTGCTAGTATA
66 TATATTTTTCTTCAGTTTTATCTGATGATGCACTATGTGTGCTAGTATA
18465467 GTAGCTTCGA
Statistics
Matches: 100, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
126 63 0.63
127 4 0.04
128 3 0.03
129 29 0.29
130 1 0.01
ACGTcount: A:0.21, C:0.13, G:0.23, T:0.43
Consensus pattern (129 bp):
GATGATACACTGTGTGTGACAATATATTTGCTTCGGTATATCCGATGATGCACTATGTGTGCCAG
TATATTTTTCTTCAGTTTTATCTGATGATGCACTATGTGTGCTAGTATATTTTTTGGTATATCT
Found at i:18465509 original size:88 final size:88
Alignment explanation
Indices: 18465311--18465502 Score: 191
Period size: 88 Copynumber: 2.2 Consensus size: 88
18465301 TCAGTTTATT
** ** *
18465311 CGATGATGCACTATGTGTGTTAGTATA--TTT-TTTGG-TATATCTGATGATACACTGTGTGTGA
1 CGATGATGCACTATACGTGCCAGTATATTTTTCTTTGGTTTTATCTGATGATACACTGTGTGTGA
* * *
18465372 CAGTATATTTGCTTCGGTATATC
66 CAGTATAGTAGCTTCGCTATATC
** *
18465395 CGATGATGCACTATGTGTGCCAGTATATTTTTCTTTGGTTTTATCTGATGATGCACTGTGTGTG-
1 CGATGATGCACTATACGTGCCAGTATATTTTTCTTTGGTTTTATCTGATGATACACTGTGTGTGA
18465459 CTAGTATAGTAGCTTCGACT-TCATC
66 C-AGTATAGTAGCTTCG-CTAT-ATC
* *
18465484 TGGTGATGCACT-TACGTGC
1 CGATGATGCACTATACGTGC
18465503 TGGTATAATT
Statistics
Matches: 90, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
84 25 0.28
86 3 0.03
87 6 0.07
88 42 0.47
89 14 0.16
ACGTcount: A:0.20, C:0.15, G:0.23, T:0.41
Consensus pattern (88 bp):
CGATGATGCACTATACGTGCCAGTATATTTTTCTTTGGTTTTATCTGATGATACACTGTGTGTGA
CAGTATAGTAGCTTCGCTATATC
Found at i:18471412 original size:2 final size:2
Alignment explanation
Indices: 18471405--18471444 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
18471395 CAAATGTACA
*
18471405 AT AT AT AT AT CT 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
18471445 TACTACACTA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18473851 original size:21 final size:22
Alignment explanation
Indices: 18473827--18473868 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
18473817 ACAGCAGAAC
*
18473827 AGGT-TTTAGCGGCGTTTTTTT
1 AGGTCTTTAGCGGCGCTTTTTT
18473848 AGGTCTTTAGCGGCGCTTTTT
1 AGGTCTTTAGCGGCGCTTTTT
18473869 AACGCCACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.10, C:0.14, G:0.29, T:0.48
Consensus pattern (22 bp):
AGGTCTTTAGCGGCGCTTTTTT
Done.