Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032250.1 Gossypioides kirkii chromosome KI_08
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: 39602670
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 500 characters in sequence are not A, C, G, or T
File 93 of 125
Found at i:27991117 original size:14 final size:12
Alignment explanation
Indices: 27991076--27991108 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
27991066 TTTTGAAACC
27991076 ACACACGGTGCG
1 ACACACGGTGCG
*
27991088 ACACACAGTGCG
1 ACACACGGTGCG
27991100 ACACACGGT
1 ACACACGGT
27991109 TAGCGACACG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.30, C:0.33, G:0.27, T:0.09
Consensus pattern (12 bp):
ACACACGGTGCG
Found at i:27992690 original size:45 final size:45
Alignment explanation
Indices: 27992639--27992730 Score: 175
Period size: 45 Copynumber: 2.0 Consensus size: 45
27992629 AATAGGTTGA
27992639 GGATGGGAAATAAATCAAGTTGCTAGGAATTGGATTATGTTATGG
1 GGATGGGAAATAAATCAAGTTGCTAGGAATTGGATTATGTTATGG
*
27992684 GGATGGGAAATAAATTAAGTTGCTAGGAATTGGATTATGTTATGG
1 GGATGGGAAATAAATCAAGTTGCTAGGAATTGGATTATGTTATGG
27992729 GG
1 GG
27992731 GTGAAAGTAT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.33, C:0.03, G:0.33, T:0.32
Consensus pattern (45 bp):
GGATGGGAAATAAATCAAGTTGCTAGGAATTGGATTATGTTATGG
Found at i:27997966 original size:2 final size:2
Alignment explanation
Indices: 27997905--27997952 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
27997895 ATTTATTCTA
27997905 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
27997947 AT AT AT
1 AT AT AT
27997953 TATTAACCAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:28002633 original size:31 final size:31
Alignment explanation
Indices: 28002598--28002656 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
28002588 AATAAACTAC
*
28002598 TAAGTTTCAAAACTAATATAGTTAAAAATAT
1 TAAGTTTCAAAACTAACATAGTTAAAAATAT
* *
28002629 TAAGTTTCAAAACTCACATGGTTAAAAA
1 TAAGTTTCAAAACTAACATAGTTAAAAA
28002657 ACTATTAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.49, C:0.10, G:0.08, T:0.32
Consensus pattern (31 bp):
TAAGTTTCAAAACTAACATAGTTAAAAATAT
Found at i:28002640 original size:15 final size:16
Alignment explanation
Indices: 28002591--28002642 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
28002581 TTTAAAAAAT
*
28002591 AAACTACTAAGTTTCA
1 AAACTAATAAGTTTCA
28002607 AAACTAATATAG-TT-A
1 AAACTAATA-AGTTTCA
* *
28002622 AAAATATTAAGTTTCA
1 AAACTAATAAGTTTCA
28002638 AAACT
1 AAACT
28002643 CACATGGTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
14 2 0.07
15 10 0.34
16 15 0.52
17 2 0.07
ACGTcount: A:0.50, C:0.12, G:0.06, T:0.33
Consensus pattern (16 bp):
AAACTAATAAGTTTCA
Found at i:28004471 original size:15 final size:15
Alignment explanation
Indices: 28004453--28004484 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
28004443 AAGTGTTAAA
28004453 AAAATTTAAGTAGTG
1 AAAATTTAAGTAGTG
*
28004468 AAAATTTAATTAGTG
1 AAAATTTAAGTAGTG
28004483 AA
1 AA
28004485 TTTAAGTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.16, T:0.34
Consensus pattern (15 bp):
AAAATTTAAGTAGTG
Found at i:28004488 original size:13 final size:14
Alignment explanation
Indices: 28004454--28004491 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
28004444 AGTGTTAAAA
28004454 AAATTTAAGTAGTG
1 AAATTTAAGTAGTG
*
28004468 AAAATTTAATTAGTG
1 -AAATTTAAGTAGTG
28004483 -AATTTAAGT
1 AAATTTAAGT
28004492 TATAAAATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 8 0.38
15 13 0.62
ACGTcount: A:0.45, C:0.00, G:0.16, T:0.39
Consensus pattern (14 bp):
AAATTTAAGTAGTG
Found at i:28008242 original size:31 final size:31
Alignment explanation
Indices: 28008204--28008287 Score: 159
Period size: 31 Copynumber: 2.7 Consensus size: 31
28008194 AAATTATTTA
28008204 AAAGTTTTAATTTAAGTCATTAAACTATTCG
1 AAAGTTTTAATTTAAGTCATTAAACTATTCG
28008235 AAAGTTTTAATTTAAGTCATTAAACTATTCG
1 AAAGTTTTAATTTAAGTCATTAAACTATTCG
*
28008266 AAAGTTTTTATTTAAGTCATTA
1 AAAGTTTTAATTTAAGTCATTA
28008288 GGCTGTTAAT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 52 1.00
ACGTcount: A:0.38, C:0.08, G:0.10, T:0.44
Consensus pattern (31 bp):
AAAGTTTTAATTTAAGTCATTAAACTATTCG
Found at i:28009786 original size:19 final size:18
Alignment explanation
Indices: 28009752--28009796 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
28009742 AACCGCATCT
28009752 TTATA-ACAAAAAAATC-
1 TTATAGACAAAAAAATCA
28009768 TTAGTAGACAAATAAAATCA
1 TTA-TAGACAAA-AAAATCA
28009788 TTATAGACA
1 TTATAGACA
28009797 GGGTTGAGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
16 3 0.12
17 2 0.08
18 5 0.20
19 12 0.48
20 3 0.12
ACGTcount: A:0.56, C:0.11, G:0.07, T:0.27
Consensus pattern (18 bp):
TTATAGACAAAAAAATCA
Found at i:28010075 original size:20 final size:20
Alignment explanation
Indices: 28010050--28010088 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
28010040 TTTAGGATGA
28010050 CACTTTTTTTACCATATTTT
1 CACTTTTTTTACCATATTTT
28010070 CACTTTTTTTACCATATTT
1 CACTTTTTTTACCATATTT
28010089 GATTCAAGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.21, C:0.21, G:0.00, T:0.59
Consensus pattern (20 bp):
CACTTTTTTTACCATATTTT
Found at i:28010715 original size:25 final size:25
Alignment explanation
Indices: 28010687--28010736 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
28010677 CTACACTAAT
*
28010687 TAGAATTTAAATGTGAAACTAAAAA
1 TAGAATTTAAATATGAAACTAAAAA
* *
28010712 TAGAGTTTAAGTATGAAACTAAAAA
1 TAGAATTTAAATATGAAACTAAAAA
28010737 CAATGTTTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.54, C:0.04, G:0.14, T:0.28
Consensus pattern (25 bp):
TAGAATTTAAATATGAAACTAAAAA
Found at i:28011755 original size:165 final size:167
Alignment explanation
Indices: 28011445--28011772 Score: 462
Period size: 165 Copynumber: 2.0 Consensus size: 167
28011435 CAGGATGAGG
* * *
28011445 AACTCGTTTTCCCAAACACGTAAAGTACACTCAAGAGTGTATACCTCATCAATATATATTGGTCA
1 AACTCATTTTCCCAAACACGCAAAGTACACTCAAGAGTGTATACCACATCAATATATATTGGTCA
* * * * * *
28011510 GCATTGATTGAGGCGTGAGCACAAGCAGTAACGACGTGCACATAGGGGGTAATAAAGTGACTGGA
66 ACATTGATCGAGGCATGAGCACAAGCAGCAACGACGTGCACATAAGAGGTAATAAAGTGACTGGA
***
28011575 ACCTCTTGTAATCGCACTGTCTATTTCAAAGATCAAC
131 ACCTCTCACAATCGCACTGTCTATTTCAAAGATCAAC
* * * *
28011612 AACTCATTTTCTCAAACATGCAAAGTGCACTCAATAGTGTATACCACATCAATA-A-ATTGGTCA
1 AACTCATTTTCCCAAACACGCAAAGTACACTCAAGAGTGTATACCACATCAATATATATTGGTCA
* * *
28011675 ACATTGATCGAGGCATGAGCACAAGCGGCAACGACGTGCGCATAAGAGGTAATGAAGTGACTGGA
66 ACATTGATCGAGGCATGAGCACAAGCAGCAACGACGTGCACATAAGAGGTAATAAAGTGACTGGA
*
28011740 ACCTCTCACAATCGCACTGTCTATTTCAGAGAT
131 ACCTCTCACAATCGCACTGTCTATTTCAAAGAT
28011773 TAACTTCGTA
Statistics
Matches: 141, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
165 93 0.66
166 1 0.01
167 47 0.33
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.25
Consensus pattern (167 bp):
AACTCATTTTCCCAAACACGCAAAGTACACTCAAGAGTGTATACCACATCAATATATATTGGTCA
ACATTGATCGAGGCATGAGCACAAGCAGCAACGACGTGCACATAAGAGGTAATAAAGTGACTGGA
ACCTCTCACAATCGCACTGTCTATTTCAAAGATCAAC
Found at i:28016484 original size:64 final size:64
Alignment explanation
Indices: 28016371--28016495 Score: 169
Period size: 64 Copynumber: 2.0 Consensus size: 64
28016361 GTGAGCCCAG
* * * * *
28016371 CTCTAGTTGGTTTAACCAATAAATATCCGTCAATTCCTGGAACCCAGTGCCTAGCGGATAAACA
1 CTCTAGTTGGTTTAACCAACAAATACCCGTCAAATCCTAGAACCCAGTGCCTAGCAGATAAACA
* * **
28016435 CTCTAGTTGGTTTAACCAACATATACCCGTCAAATCCTAGCACGTAGTGCCTAGCAGATAA
1 CTCTAGTTGGTTTAACCAACAAATACCCGTCAAATCCTAGAACCCAGTGCCTAGCAGATAA
28016496 GCCACGAAAG
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
64 52 1.00
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (64 bp):
CTCTAGTTGGTTTAACCAACAAATACCCGTCAAATCCTAGAACCCAGTGCCTAGCAGATAAACA
Found at i:28018111 original size:23 final size:25
Alignment explanation
Indices: 28018081--28018126 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
28018071 AGTTTAGCCA
28018081 TTTATTATTATTA-TTT-ATTTTGT
1 TTTATTATTATTAGTTTAATTTTGT
*
28018104 TTTATTATTTTTAGTTTAATTTT
1 TTTATTATTATTAGTTTAATTTT
28018127 TCTATTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 12 0.60
24 3 0.15
25 5 0.25
ACGTcount: A:0.22, C:0.00, G:0.04, T:0.74
Consensus pattern (25 bp):
TTTATTATTATTAGTTTAATTTTGT
Found at i:28018126 original size:20 final size:20
Alignment explanation
Indices: 28018085--28018126 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
28018075 TAGCCATTTA
**
28018085 TTATTATTATTTATTTTGTT
1 TTATTATTATTTATTTAATT
28018105 TTATTATT-TTTAGTTTAATT
1 TTATTATTATTTA-TTTAATT
28018125 TT
1 TT
28018127 TCTATTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (20 bp):
TTATTATTATTTATTTAATT
Found at i:28018132 original size:23 final size:23
Alignment explanation
Indices: 28018083--28018132 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
28018073 TTTAGCCATT
* *
28018083 TATTATTATTATTTATTTTGTTT
1 TATTATTATTATTTAATTTGTTC
*
28018106 TATTATTTTTAGTTTAATTT-TTC
1 TATTATTATTA-TTTAATTTGTTC
28018129 TATT
1 TATT
28018133 TTAATTTTCC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 16 0.70
24 7 0.30
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.72
Consensus pattern (23 bp):
TATTATTATTATTTAATTTGTTC
Found at i:28020717 original size:22 final size:22
Alignment explanation
Indices: 28020689--28020740 Score: 104
Period size: 22 Copynumber: 2.4 Consensus size: 22
28020679 TCCGATCCTT
28020689 TTGTGGTAAAAACCATTTTCCC
1 TTGTGGTAAAAACCATTTTCCC
28020711 TTGTGGTAAAAACCATTTTCCC
1 TTGTGGTAAAAACCATTTTCCC
28020733 TTGTGGTA
1 TTGTGGTA
28020741 TAATTAAGGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.38
Consensus pattern (22 bp):
TTGTGGTAAAAACCATTTTCCC
Found at i:28020998 original size:19 final size:19
Alignment explanation
Indices: 28020974--28021032 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
28020964 CAAATTTTTT
28020974 TTAAAAAATTGAAAAAAAA
1 TTAAAAAATTGAAAAAAAA
**
28020993 TTAAAAGTTTTGAAAAAAAA
1 TTAAAA-AATTGAAAAAAAA
* *
28021013 TT-GAAAAGTGCAAAAAAAA
1 TTAAAAAATTG-AAAAAAAA
28021032 T
1 T
28021033 AGTATATTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
18 2 0.06
19 17 0.53
20 13 0.41
ACGTcount: A:0.64, C:0.02, G:0.10, T:0.24
Consensus pattern (19 bp):
TTAAAAAATTGAAAAAAAA
Found at i:28021007 original size:20 final size:21
Alignment explanation
Indices: 28020982--28021021 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
28020972 TTTTAAAAAA
28020982 TTGAAAAAAAATT-AAAAGTT
1 TTGAAAAAAAATTGAAAAGTT
28021002 TTGAAAAAAAATTGAAAAGT
1 TTGAAAAAAAATTGAAAAGT
28021022 GCAAAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.60, C:0.00, G:0.12, T:0.28
Consensus pattern (21 bp):
TTGAAAAAAAATTGAAAAGTT
Found at i:28022026 original size:14 final size:15
Alignment explanation
Indices: 28022009--28022037 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
28021999 AATTGAGGAA
28022009 AAAAAAAGA-AAAAG
1 AAAAAAAGACAAAAG
28022023 AAAAAAAGACAAAAG
1 AAAAAAAGACAAAAG
28022038 TGTGTTTGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.83, C:0.03, G:0.14, T:0.00
Consensus pattern (15 bp):
AAAAAAAGACAAAAG
Found at i:28023417 original size:1 final size:1
Alignment explanation
Indices: 28023411--28023438 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
28023401 ATAAGATGAA
28023411 CCCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCC
28023439 ATTTTGTTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:28024345 original size:50 final size:48
Alignment explanation
Indices: 28024284--28024381 Score: 169
Period size: 50 Copynumber: 2.0 Consensus size: 48
28024274 CAATAATTTG
28024284 TTTTTTTAATATTTATATAAGATATTAAAATGTAAAAATAATCTAATA
1 TTTTTTTAATATTTATATAAGATATTAAAATGTAAAAATAATCTAATA
*
28024332 TTTTTTTAAAATATTTATATAAGATATTAAAATGTAAAAATAGTCTAATA
1 TTTTTTT--AATATTTATATAAGATATTAAAATGTAAAAATAATCTAATA
28024382 ATTTGTTATA
Statistics
Matches: 47, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
48 7 0.15
50 40 0.85
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (48 bp):
TTTTTTTAATATTTATATAAGATATTAAAATGTAAAAATAATCTAATA
Found at i:28025430 original size:6 final size:7
Alignment explanation
Indices: 28025414--28025442 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
28025404 CCTTAACCCC
28025414 TTTTTAT
1 TTTTTAT
28025421 TTTTTAT
1 TTTTTAT
28025428 TTTTTA-
1 TTTTTAT
28025434 TTTTTAT
1 TTTTTAT
28025441 TT
1 TT
28025443 CTGATTTGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (7 bp):
TTTTTAT
Found at i:28025437 original size:13 final size:14
Alignment explanation
Indices: 28025414--28025442 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
28025404 CCTTAACCCC
28025414 TTTTTATTTTTTAT
1 TTTTTATTTTTTAT
28025428 TTTTTA-TTTTTAT
1 TTTTTATTTTTTAT
28025441 TT
1 TT
28025443 CTGATTTGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (14 bp):
TTTTTATTTTTTAT
Found at i:28028391 original size:2 final size:2
Alignment explanation
Indices: 28028384--28028413 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
28028374 CATTCAATTA
28028384 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
28028414 TAAATATGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:28035968 original size:7 final size:7
Alignment explanation
Indices: 28035956--28035980 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
28035946 TCCATGCATA
28035956 ATGTTGG
1 ATGTTGG
28035963 ATGTTGG
1 ATGTTGG
28035970 ATGTTGG
1 ATGTTGG
28035977 ATGT
1 ATGT
28035981 GTATGCCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.40, T:0.44
Consensus pattern (7 bp):
ATGTTGG
Found at i:28039803 original size:12 final size:12
Alignment explanation
Indices: 28039786--28039823 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
28039776 TTAACTTAAT
28039786 CGAACATGTTCA
1 CGAACATGTTCA
**
28039798 CGAACAT-TAAA
1 CGAACATGTTCA
28039809 CGAACATGTTCA
1 CGAACATGTTCA
28039821 CGA
1 CGA
28039824 TCATATAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
11 9 0.43
12 12 0.57
ACGTcount: A:0.39, C:0.24, G:0.16, T:0.21
Consensus pattern (12 bp):
CGAACATGTTCA
Found at i:28039846 original size:24 final size:23
Alignment explanation
Indices: 28039763--28039850 Score: 97
Period size: 23 Copynumber: 3.8 Consensus size: 23
28039753 TTAATGCTCA
**
28039763 CGAACATGTTCATTTAAC-TTAAT
1 CGAACATGTTCA-CGAACATTAAT
*
28039786 CGAACATGTTCACGAACATTAAA
1 CGAACATGTTCACGAACATTAAT
*
28039809 CGAACATGTTCACGATCATATAAT
1 CGAACATGTTCACGAACAT-TAAT
* *
28039833 TGAATATGTTCACGAACA
1 CGAACATGTTCACGAACA
28039851 ATGTTAATGA
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
22 3 0.05
23 34 0.62
24 18 0.33
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.30
Consensus pattern (23 bp):
CGAACATGTTCACGAACATTAAT
Found at i:28049355 original size:30 final size:31
Alignment explanation
Indices: 28049305--28049363 Score: 86
Period size: 30 Copynumber: 1.9 Consensus size: 31
28049295 CTATTTTATT
28049305 ATATATTATATTTATTATTTTTAAAGAATTTA
1 ATATATTATATTTATTATTTTTAAA-AATTTA
*
28049337 ATATA-TAT-TTTTTTATTTTTAAAAATT
1 ATATATTATATTTATTATTTTTAAAAATT
28049364 AAAGTGTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 4 0.15
30 14 0.54
31 3 0.12
32 5 0.19
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (31 bp):
ATATATTATATTTATTATTTTTAAAAATTTA
Found at i:28049780 original size:2 final size:2
Alignment explanation
Indices: 28049773--28049802 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
28049763 GCATGCATAC
28049773 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
28049803 TTACATTTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:28053141 original size:31 final size:31
Alignment explanation
Indices: 28053106--28053176 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
28053096 TATGCAGTTT
*
28053106 TTTTTAAAAATTAAACTTCTTTTA-TTT-TTC
1 TTTTTAAAAATTAAA-TCCTTTTATTTTATTC
**
28053136 ATTTTTTCAAATTAAATCCTTTTATTTTATTC
1 -TTTTTAAAAATTAAATCCTTTTATTTTATTC
28053168 TTTTTAAAA
1 TTTTTAAAA
28053177 TTTTCCCTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
30 7 0.21
31 23 0.70
32 3 0.09
ACGTcount: A:0.31, C:0.10, G:0.00, T:0.59
Consensus pattern (31 bp):
TTTTTAAAAATTAAATCCTTTTATTTTATTC
Found at i:28053172 original size:30 final size:30
Alignment explanation
Indices: 28053106--28053178 Score: 78
Period size: 30 Copynumber: 2.4 Consensus size: 30
28053096 TATGCAGTTT
*
28053106 TTTTTAAAAATTAAACTTCTTTTATTTTTCA
1 TTTTT-AAAATTAAACTCCTTTTATTTTTCA
*
28053137 TTTTTTCAAATTAAA-TCCTTTTATTTTATTC-
1 -TTTTTAAAATTAAACTCCTTTTA-TTT-TTCA
28053168 TTTTTAAAATT
1 TTTTTAAAATT
28053179 TTCCCTTTAC
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
30 17 0.47
31 11 0.31
32 8 0.22
ACGTcount: A:0.30, C:0.10, G:0.00, T:0.60
Consensus pattern (30 bp):
TTTTTAAAATTAAACTCCTTTTATTTTTCA
Found at i:28053305 original size:20 final size:21
Alignment explanation
Indices: 28053269--28053310 Score: 52
Period size: 20 Copynumber: 2.0 Consensus size: 21
28053259 CATTCACTAT
*
28053269 TTATTTGTTATTCATTT-TTA
1 TTATTTATTATTCATTTATTA
28053289 TTATTTATTATAT-ATTTATTA
1 TTATTTATTAT-TCATTTATTA
28053310 T
1 T
28053311 ATGTTGCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.69
Consensus pattern (21 bp):
TTATTTATTATTCATTTATTA
Found at i:28066173 original size:7 final size:7
Alignment explanation
Indices: 28066165--28066195 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
28066155 AAATATTCAG
*
28066165 CACTCAG
1 CACTCAA
28066172 CACTCAA
1 CACTCAA
28066179 CACTCAA
1 CACTCAA
28066186 CACTCAA
1 CACTCAA
28066193 CAC
1 CAC
28066196 ATTTGATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.39, C:0.45, G:0.03, T:0.13
Consensus pattern (7 bp):
CACTCAA
Found at i:28068534 original size:300 final size:300
Alignment explanation
Indices: 28067945--28068548 Score: 951
Period size: 300 Copynumber: 2.0 Consensus size: 300
28067935 ACCACATATG
* * * * * *
28067945 CAAGGACAACATCATTAACATTAACAGTAGTAATTTTCTCAACCAAAGTCAGATCTTATGGCTGC
1 CAAGGACAACATCATCAACATCAACAGCAGTAACTTTCTCAACAAAAGTCAGATCCTATGGCTGC
* * *
28068010 TCTTGAGGCAATGATGCGCGAGCATATTACACGAACTGAAGCAATAATGCAAGGCAACTCTTCTT
66 TCTTGAAGCAATGATGCACGAGCATATCACACGAACTGAAGCAATAATGCAAGGCAACTCTTCTT
* *
28068075 CCATTCGCGCATTGGAAGCACAGCTAGGGTAGTTAGCTTATAATCTCAGCACCAGATTACCAAGC
131 CCATTCGCGCATTGGAAGCACAACTAGGGTAGTTAGCTTATAATCTCAGCACCAGATCACCAAGC
* * * *
28068140 ACTCTGCCTTGTGACACTGAGAATCCTACGTAGAAGGGGAAAAAGCATTGTAAGGCAATCACGCT
196 ACTCTACCTAGTGACACTGAGAATCCTACGCAGAAGGGGAAAAAGCATTGCAAGGCAATCACGCT
* *
28068205 GAGGAGTGGGAAGCAGATCGTTAAACCAAGTAGTTCTAAT
261 GAGGAGTGGGAAGCAGAGCGCTAAACCAAGTAGTTCTAAT
* *
28068245 CAAGGATAGCATCATCAACATCAACAGCAGTAACTTTCTCAACAAAAGTCAGATCCTATGGCTGC
1 CAAGGACAACATCATCAACATCAACAGCAGTAACTTTCTCAACAAAAGTCAGATCCTATGGCTGC
28068310 TCTTGAAGCAATGATGCACGAGCATATCACACGAACTGAAGCAATAATGCAAGGCAACTCTTCTT
66 TCTTGAAGCAATGATGCACGAGCATATCACACGAACTGAAGCAATAATGCAAGGCAACTCTTCTT
* *
28068375 CCATTCGCGCATTGGAAGCACAACTAGGGTAGTTGGCTTCA-AATCTCAGCACCAGATCACCAGG
131 CCATTCGCGCATTGGAAGCACAACTAGGGTAGTTAGCTT-ATAATCTCAGCACCAGATCACCAAG
* *
28068439 CACTCTACCTAGTGACATTGAGAATCCTACGCAGAAGGGGAAAGAGCATTGCAAGGCAATCACGC
195 CACTCTACCTAGTGACACTGAGAATCCTACGCAGAAGGGGAAAAAGCATTGCAAGGCAATCACGC
* *
28068504 TGAGGAGTGGGAAGCA-AGCGGCTGAACCAAGTAGTTTTAAT
260 TGAGGAGTGGGAAGCAGAGC-GCTAAACCAAGTAGTTCTAAT
28068545 CAAG
1 CAAG
28068549 ACCAAGTCGA
Statistics
Matches: 277, Mismatches: 25, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
299 2 0.01
300 274 0.99
301 1 0.00
ACGTcount: A:0.33, C:0.23, G:0.22, T:0.22
Consensus pattern (300 bp):
CAAGGACAACATCATCAACATCAACAGCAGTAACTTTCTCAACAAAAGTCAGATCCTATGGCTGC
TCTTGAAGCAATGATGCACGAGCATATCACACGAACTGAAGCAATAATGCAAGGCAACTCTTCTT
CCATTCGCGCATTGGAAGCACAACTAGGGTAGTTAGCTTATAATCTCAGCACCAGATCACCAAGC
ACTCTACCTAGTGACACTGAGAATCCTACGCAGAAGGGGAAAAAGCATTGCAAGGCAATCACGCT
GAGGAGTGGGAAGCAGAGCGCTAAACCAAGTAGTTCTAAT
Found at i:28075438 original size:16 final size:18
Alignment explanation
Indices: 28075414--28075446 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
28075404 TTAGAAAAGG
28075414 AAAATGAGAAAA-AAAAT
1 AAAATGAGAAAAGAAAAT
28075431 AAAA-GAGAAAAGAAAA
1 AAAATGAGAAAAGAAAA
28075447 GAAGAAGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.79, C:0.00, G:0.15, T:0.06
Consensus pattern (18 bp):
AAAATGAGAAAAGAAAAT
Found at i:28077001 original size:13 final size:14
Alignment explanation
Indices: 28076969--28077002 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
28076959 TACTTTCAGT
28076969 ACAT-TGACATTTA
1 ACATCTGACATTTA
28076982 ACATCTGACATTTA
1 ACATCTGACATTTA
28076996 AC-TCTGA
1 ACATCTGA
28077003 TTGCATTGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 9 0.45
14 11 0.55
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (14 bp):
ACATCTGACATTTA
Found at i:28082448 original size:50 final size:50
Alignment explanation
Indices: 28082388--28082485 Score: 160
Period size: 50 Copynumber: 2.0 Consensus size: 50
28082378 GGCATGGTGT
* * *
28082388 CACATTAGTGTTAGAACTTAGGCAAAAGATGATCAATGAGGACCTAAGAA
1 CACATCAGTGTTAGAACTTAGGCAAAAGAGGATCAATGACGACCTAAGAA
*
28082438 CACATCAGTGTTAGAACTTAGGCAAAAGGGGATCAATGACGACCTAAG
1 CACATCAGTGTTAGAACTTAGGCAAAAGAGGATCAATGACGACCTAAG
28082486 GACTAAAAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 44 1.00
ACGTcount: A:0.40, C:0.16, G:0.23, T:0.20
Consensus pattern (50 bp):
CACATCAGTGTTAGAACTTAGGCAAAAGAGGATCAATGACGACCTAAGAA
Found at i:28082724 original size:50 final size:50
Alignment explanation
Indices: 28082657--28082827 Score: 157
Period size: 50 Copynumber: 3.4 Consensus size: 50
28082647 CAAAACAATT
* * *
28082657 AATCTTATACCCCTAAAGCTGTAAAGAAACAGATTGAAGCCGCAATGGCG
1 AATCTCATACACCTAAAGCTGTAAAGGAACAGATTGAAGCCGCAATGGCG
* * * * *
28082707 AATCTCATACACTTAAAGCTGTAGAGGGGAA-A-ATTAAAGCCACAATGGTG
1 AATCTCATACACCTAAAGCTGTA-A-AGGAACAGATTGAAGCCGCAATGGCG
* * ** * *
28082757 AATCTCATACACCTAAAGTTGTAGAGGGGCAGATTGAAGCCGTAAGGGCG
1 AATCTCATACACCTAAAGCTGTAAAGGAACAGATTGAAGCCGCAATGGCG
* * *
28082807 AATCTTATACTCCTGAAGCTG
1 AATCTCATACACCTAAAGCTG
28082828 GAAAAGGGCA
Statistics
Matches: 94, Mismatches: 23, Indels: 8
0.75 0.18 0.06
Matches are distributed among these distances:
48 2 0.02
49 1 0.01
50 86 0.91
51 2 0.02
52 3 0.03
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.22
Consensus pattern (50 bp):
AATCTCATACACCTAAAGCTGTAAAGGAACAGATTGAAGCCGCAATGGCG
Found at i:28082887 original size:50 final size:50
Alignment explanation
Indices: 28082763--28082887 Score: 119
Period size: 50 Copynumber: 2.5 Consensus size: 50
28082753 GGTGAATCTC
* * * * *
28082763 ATACACCTAAAGTTGTAGAGGGGCAGATTGAAGCCGTAAGGGCGAATCTT
1 ATACTCCTAAAGTTGTAGAGGGGCAAATTGAAGCCGTAAGAGCAAATCCT
* * * * * *
28082813 ATACTCCTGAAGCTGGAAAAGGGCAAATTGAAG-CTTAAAGAGCAAATCCT
1 ATACTCCTAAAGTTGTAGAGGGGCAAATTGAAGCCGT-AAGAGCAAATCCT
28082863 ATAC-CCATAAAGTTGTAGAGGGGCA
1 ATACTCC-TAAAGTTGTAGAGGGGCA
28082888 GATTAAAACT
Statistics
Matches: 57, Mismatches: 16, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
49 4 0.07
50 53 0.93
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.21
Consensus pattern (50 bp):
ATACTCCTAAAGTTGTAGAGGGGCAAATTGAAGCCGTAAGAGCAAATCCT
Found at i:28086823 original size:8 final size:8
Alignment explanation
Indices: 28086810--28086850 Score: 55
Period size: 8 Copynumber: 4.8 Consensus size: 8
28086800 TTATTTTAGA
28086810 AAAATTTT
1 AAAATTTT
28086818 AAAATTTT
1 AAAATTTT
28086826 AAAATTTT
1 AAAATTTT
28086834 AAATATCTTT
1 AAA-AT-TTT
28086844 ATAAATT
1 A-AAATT
28086851 CTTTAGAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
8 19 0.63
9 3 0.10
10 6 0.20
11 2 0.07
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (8 bp):
AAAATTTT
Found at i:28092409 original size:31 final size:31
Alignment explanation
Indices: 28092374--28092432 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
28092364 ATACTTTTCC
28092374 GAATTTT-TAAATTTT-TTTGAGATTTTTTTTT
1 GAATTTTCT-AATTTTCTTTGA-ATTTTTTTTT
*
28092405 GAATTTTCTTATTTTCTTTGAATTTTTT
1 GAATTTTCTAATTTTCTTTGAATTTTTT
28092433 CAAATTTTCC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
31 19 0.76
32 6 0.24
ACGTcount: A:0.20, C:0.03, G:0.08, T:0.68
Consensus pattern (31 bp):
GAATTTTCTAATTTTCTTTGAATTTTTTTTT
Found at i:28097466 original size:30 final size:30
Alignment explanation
Indices: 28097430--28097486 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
28097420 CCTCCATTAA
*
28097430 TATGTATCAGCCAGGAAAATGGGAGTATGG
1 TATGTATCAACCAGGAAAATGGGAGTATGG
28097460 TATGTATCAACCAGGAAAATGGGAGTA
1 TATGTATCAACCAGGAAAATGGGAGTA
28097487 CGGCCCAGAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.37, C:0.11, G:0.30, T:0.23
Consensus pattern (30 bp):
TATGTATCAACCAGGAAAATGGGAGTATGG
Found at i:28105614 original size:32 final size:32
Alignment explanation
Indices: 28105573--28105637 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
28105563 AATTTTCATT
28105573 AATTGAAATCTGCTATATAGCAACATTACATA
1 AATTGAAATCTGCTATATAGCAACATTACATA
28105605 AATTGAAATCTGCTATATAGCAACATTACATA
1 AATTGAAATCTGCTATATAGCAACATTACATA
28105637 A
1 A
28105638 GTAGTAAAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.45, C:0.15, G:0.09, T:0.31
Consensus pattern (32 bp):
AATTGAAATCTGCTATATAGCAACATTACATA
Found at i:28108396 original size:32 final size:33
Alignment explanation
Indices: 28108358--28108427 Score: 83
Period size: 31 Copynumber: 2.2 Consensus size: 33
28108348 CACGTCCATA
*
28108358 TTATTTTTAATTTTTAAAAAATTTAT-T-TTATT
1 TTATTTTTAATATTTAAAAAATTTATATATT-TT
* *
28108390 TTA-TTTTAATATTTAATAATTTTATATATTTT
1 TTATTTTTAATATTTAAAAAATTTATATATTTT
28108422 TTATTT
1 TTATTT
28108428 ATTGAAAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
31 19 0.59
32 9 0.28
33 4 0.12
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (33 bp):
TTATTTTTAATATTTAAAAAATTTATATATTTT
Found at i:28113193 original size:21 final size:21
Alignment explanation
Indices: 28113167--28113207 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
28113157 GAAGAAATGA
* *
28113167 GCCCAAACCGTTCATGAAGAT
1 GCCCAAACCATCCATGAAGAT
28113188 GCCCAAACCATCCATGAAGA
1 GCCCAAACCATCCATGAAGA
28113208 CTTGGTAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.32, G:0.17, T:0.15
Consensus pattern (21 bp):
GCCCAAACCATCCATGAAGAT
Found at i:28123658 original size:23 final size:23
Alignment explanation
Indices: 28123632--28123819 Score: 109
Period size: 23 Copynumber: 8.1 Consensus size: 23
28123622 ACACTAGCGC
28123632 GCTCTCTGATTAGCACTGTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
* * *
28123655 GCTCTCTGTTTAGCAC-GTCTCAT
1 GCTCTCTGATTAGCACTGTGT-GT
*
28123678 GCTCTCTATTATTAGCACTGTGTGT
1 GCTCTC--TGATTAGCACTGTGTGT
* * *
28123703 GCTCTCTGATCAGTACTTTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
* * * *
28123726 ACTCTCTGTTTCGCACTTTGTGT
1 GCTCTCTGATTAGCACTGTGTGT
* * *
28123749 GC-CTACTGTTTCGCACT-TCATGT
1 GCTCT-CTGATTAGCACTGT-GTGT
* * * *
28123772 GC-CTACTGATTTGCGCTATGTGC
1 GCTCT-CTGATTAGCACTGTGTGT
28123795 GCT-TACTGATT-GCACTGTGTGT
1 GCTCT-CTGATTAGCACTGTGTGT
28123817 GCT
1 GCT
28123820 TACTGTTTCC
Statistics
Matches: 131, Mismatches: 26, Indels: 17
0.75 0.15 0.10
Matches are distributed among these distances:
22 17 0.13
23 95 0.73
24 1 0.01
25 15 0.11
26 3 0.02
ACGTcount: A:0.13, C:0.24, G:0.22, T:0.41
Consensus pattern (23 bp):
GCTCTCTGATTAGCACTGTGTGT
Found at i:28123815 original size:22 final size:23
Alignment explanation
Indices: 28123768--28123824 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 23
28123758 TTCGCACTTC
*
28123768 ATGTGC-C-TACTGATTTGCGCT
1 ATGTGCGCTTACTGATTTGCACT
28123789 ATGTGCGCTTACTGA-TTGCACT
1 ATGTGCGCTTACTGATTTGCACT
* *
28123811 GTGTGTGCTTACTG
1 ATGTGCGCTTACTG
28123825 TTTCCCCAGC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 6 0.19
22 19 0.61
23 6 0.19
ACGTcount: A:0.14, C:0.21, G:0.26, T:0.39
Consensus pattern (23 bp):
ATGTGCGCTTACTGATTTGCACT
Found at i:28132058 original size:27 final size:28
Alignment explanation
Indices: 28132005--28132058 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
28131995 AAATGAACAT
*
28132005 CATGACCTTTGGGTCAACAGGGAGTAAG
1 CATGACCTTTGGGTCAACAAGGAGTAAG
28132033 CATGACCTTTGGGT-AACAAGGAGTAA
1 CATGACCTTTGGGTCAACAAGGAGTAA
28132059 ATCGGATATC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 11 0.44
28 14 0.56
ACGTcount: A:0.31, C:0.17, G:0.30, T:0.22
Consensus pattern (28 bp):
CATGACCTTTGGGTCAACAAGGAGTAAG
Found at i:28133783 original size:71 final size:71
Alignment explanation
Indices: 28133662--28133860 Score: 292
Period size: 71 Copynumber: 2.8 Consensus size: 71
28133652 TCATTTCACA
* * * *
28133662 TATAATGACTCACGATGCTATAGAGAATCCGCAACAAATGTAGGATCTCAACCATCGGACCAGTT
1 TATAGTGACTCACGATGCTGTAGAGAATCCGCAACAAATGCAAGATCTCAACCATCGGACCAGTT
28133727 TCACTT
66 TCACTT
*
28133733 TATAGTGACTCACGATGCTGTAGAGAATCCGCAACAAATGCAAGATCTCAACCA-CTAGACCAGT
1 TATAGTGACTCACGATGCTGTAGAGAATCCGCAACAAATGCAAGATCTCAACCATC-GGACCAGT
28133797 TTCACTT
65 TTCACTT
* * * * *
28133804 TGTAGTGACTCACGATACTGTAGAGAATTCGCAACAAATGCAAGGTCTCAGCCATCG
1 TATAGTGACTCACGATGCTGTAGAGAATCCGCAACAAATGCAAGATCTCAACCATCG
28133861 AACTTTTAAT
Statistics
Matches: 115, Mismatches: 11, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
70 1 0.01
71 113 0.98
72 1 0.01
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (71 bp):
TATAGTGACTCACGATGCTGTAGAGAATCCGCAACAAATGCAAGATCTCAACCATCGGACCAGTT
TCACTT
Found at i:28137168 original size:24 final size:24
Alignment explanation
Indices: 28137141--28137195 Score: 83
Period size: 24 Copynumber: 2.3 Consensus size: 24
28137131 TTTAGCCAAC
28137141 ACGAGCCAAAAATGATTAGCTCTT
1 ACGAGCCAAAAATGATTAGCTCTT
* *
28137165 ACGAGCCTAGAATGATTAGCTCTT
1 ACGAGCCAAAAATGATTAGCTCTT
*
28137189 ACAAGCC
1 ACGAGCC
28137196 CAAACAGAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.24
Consensus pattern (24 bp):
ACGAGCCAAAAATGATTAGCTCTT
Found at i:28141176 original size:23 final size:23
Alignment explanation
Indices: 28141101--28141214 Score: 126
Period size: 23 Copynumber: 5.0 Consensus size: 23
28141091 AAGTGCTGGG
*
28141101 GAAACAGTAAGCACACACAGTGC
1 GAAACAGTAGGCACACACAGTGC
* * * *
28141124 -AATCAGTAGGCGCACATAGCGC
1 GAAACAGTAGGCACACACAGTGC
28141146 -AAATCAGTAGGCACACGA-AGTGC
1 GAAA-CAGTAGGCACAC-ACAGTGC
*
28141169 GAAACAGTAGGCACACAAAGTGC
1 GAAACAGTAGGCACACACAGTGC
*
28141192 GAAACAGTAAGCACACACAGTGC
1 GAAACAGTAGGCACACACAGTGC
28141215 TGAACGGTAA
Statistics
Matches: 77, Mismatches: 10, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
22 20 0.26
23 53 0.69
24 4 0.05
ACGTcount: A:0.40, C:0.25, G:0.25, T:0.11
Consensus pattern (23 bp):
GAAACAGTAGGCACACACAGTGC
Found at i:28141200 original size:46 final size:45
Alignment explanation
Indices: 28141101--28141214 Score: 142
Period size: 46 Copynumber: 2.5 Consensus size: 45
28141091 AAGTGCTGGG
* * *
28141101 GAAACAGTAAGCACACACAGTGCAATCAGTAGGCGCACATAGCGC
1 GAAACAGTAAGCACACACAGTGCAAACAGTAGGCACACAAAGCGC
* *
28141146 -AAATCAGTAGGCACACGA-AGTGCGAAACAGTAGGCACACAAAGTGC
1 GAAA-CAGTAAGCACAC-ACAGTGC-AAACAGTAGGCACACAAAGCGC
28141192 GAAACAGTAAGCACACACAGTGC
1 GAAACAGTAAGCACACACAGTGC
28141215 TGAACGGTAA
Statistics
Matches: 58, Mismatches: 6, Indels: 9
0.79 0.08 0.12
Matches are distributed among these distances:
44 3 0.05
45 17 0.29
46 35 0.60
47 3 0.05
ACGTcount: A:0.40, C:0.25, G:0.25, T:0.11
Consensus pattern (45 bp):
GAAACAGTAAGCACACACAGTGCAAACAGTAGGCACACAAAGCGC
Found at i:28141226 original size:23 final size:23
Alignment explanation
Indices: 28141077--28141214 Score: 120
Period size: 23 Copynumber: 5.9 Consensus size: 23
28141067 CGAAGTACTT
28141077 AACAGTAAGCACAC-AAGTGCTGGGGA
1 AACAGTAAGCACACAAAGTGC----GA
*
28141103 AACAGTAAGCACACACAGTGC-A
1 AACAGTAAGCACACAAAGTGCGA
* * * * *
28141125 ATCAGTAGGCGCACATAGCGC-A
1 AACAGTAAGCACACAAAGTGCGA
* *
28141147 AATCAGTAGGCACACGAAGTGCGA
1 AA-CAGTAAGCACACAAAGTGCGA
*
28141171 AACAGTAGGCACACAAAGTGCGA
1 AACAGTAAGCACACAAAGTGCGA
*
28141194 AACAGTAAGCACACACAGTGC
1 AACAGTAAGCACACAAAGTGC
28141215 TGAACGGTAA
Statistics
Matches: 95, Mismatches: 14, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
22 19 0.20
23 54 0.57
24 3 0.03
26 14 0.15
27 5 0.05
ACGTcount: A:0.40, C:0.24, G:0.25, T:0.11
Consensus pattern (23 bp):
AACAGTAAGCACACAAAGTGCGA
Found at i:28147368 original size:23 final size:23
Alignment explanation
Indices: 28147293--28147406 Score: 117
Period size: 23 Copynumber: 5.0 Consensus size: 23
28147283 AAGTGCTGGG
* *
28147293 GAAACAGTAAGCACACACAGTGC
1 GAAACAGTAGGCACACAAAGTGC
* * *
28147316 -AATCAGTAGGCGCACATAA-CGC
1 GAAACAGTAGGCACACA-AAGTGC
*
28147338 -AAATCAGTAGGCACACGAAGTGC
1 GAAA-CAGTAGGCACACAAAGTGC
28147361 GAAACAGTAGGCACACAAAGTGC
1 GAAACAGTAGGCACACAAAGTGC
* *
28147384 GAAACAGTAAGCACACACAGTGC
1 GAAACAGTAGGCACACAAAGTGC
28147407 TGAACGGTAA
Statistics
Matches: 75, Mismatches: 12, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
22 19 0.25
23 53 0.71
24 3 0.04
ACGTcount: A:0.41, C:0.25, G:0.24, T:0.11
Consensus pattern (23 bp):
GAAACAGTAGGCACACAAAGTGC
Found at i:28147392 original size:46 final size:45
Alignment explanation
Indices: 28147293--28147406 Score: 135
Period size: 46 Copynumber: 2.5 Consensus size: 45
28147283 AAGTGCTGGG
* *
28147293 GAAACAGTAAGCACACACAGTGCAATCAGTAGGCGCACATAACGC
1 GAAACAGTAAGCACACACAGTGCAAACAGTAGGCACACATAACGC
* *
28147338 -AAATCAGTAGGCACACGA-AGTGCGAAACAGTAGGCACACA-AAGTGC
1 GAAA-CAGTAAGCACAC-ACAGTGC-AAACAGTAGGCACACATAA-CGC
28147384 GAAACAGTAAGCACACACAGTGC
1 GAAACAGTAAGCACACACAGTGC
28147407 TGAACGGTAA
Statistics
Matches: 58, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
44 3 0.05
45 19 0.33
46 33 0.57
47 3 0.05
ACGTcount: A:0.41, C:0.25, G:0.24, T:0.11
Consensus pattern (45 bp):
GAAACAGTAAGCACACACAGTGCAAACAGTAGGCACACATAACGC
Found at i:28147418 original size:23 final size:23
Alignment explanation
Indices: 28147269--28147406 Score: 113
Period size: 23 Copynumber: 5.9 Consensus size: 23
28147259 TGAAGTACTT
28147269 AACAGTAAGCACAC-AAGTGCTGGGGA
1 AACAGTAAGCACACAAAGTGC----GA
*
28147295 AACAGTAAGCACACACAGTGC-A
1 AACAGTAAGCACACAAAGTGCGA
* * * *
28147317 ATCAGTAGGCGCACATAA-CGC-A
1 AACAGTAAGCACACA-AAGTGCGA
* *
28147339 AATCAGTAGGCACACGAAGTGCGA
1 AA-CAGTAAGCACACAAAGTGCGA
*
28147363 AACAGTAGGCACACAAAGTGCGA
1 AACAGTAAGCACACAAAGTGCGA
*
28147386 AACAGTAAGCACACACAGTGC
1 AACAGTAAGCACACAAAGTGC
28147407 TGAACGGTAA
Statistics
Matches: 94, Mismatches: 13, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
22 19 0.20
23 53 0.56
24 3 0.03
26 14 0.15
27 5 0.05
ACGTcount: A:0.41, C:0.24, G:0.25, T:0.11
Consensus pattern (23 bp):
AACAGTAAGCACACAAAGTGCGA
Found at i:28152256 original size:20 final size:20
Alignment explanation
Indices: 28152218--28152256 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
28152208 CTAACGAAAT
*
28152218 AATTTAATATTCTTTTATAA
1 AATTTAATATTCTTGTATAA
28152238 AATTTAAATATT-TTGTATA
1 AATTT-AATATTCTTGTATA
28152257 TATTTTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (20 bp):
AATTTAATATTCTTGTATAA
Found at i:28152530 original size:18 final size:16
Alignment explanation
Indices: 28152498--28152541 Score: 56
Period size: 14 Copynumber: 2.8 Consensus size: 16
28152488 ATAGGATGAG
28152498 AATAAATTTTTAATTA
1 AATAAATTTTTAATTA
28152514 AATAAA--TTTAATTA
1 AATAAATTTTTAATTA
*
28152528 ATTAAAATTTTTAA
1 AAT-AAATTTTTAA
28152542 ACCTAAATCT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
14 10 0.42
15 3 0.12
16 6 0.25
17 5 0.21
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
AATAAATTTTTAATTA
Found at i:28152808 original size:12 final size:12
Alignment explanation
Indices: 28152788--28152818 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
28152778 GGAGTAAAAA
28152788 AAGAAGAAGATG
1 AAGAAGAAGATG
*
28152800 AAGATGAAGATG
1 AAGAAGAAGATG
28152812 AAGAAGA
1 AAGAAGA
28152819 GAGGTGTGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.32, T:0.10
Consensus pattern (12 bp):
AAGAAGAAGATG
Found at i:28157934 original size:15 final size:16
Alignment explanation
Indices: 28157916--28157968 Score: 58
Period size: 15 Copynumber: 3.5 Consensus size: 16
28157906 TTTAGATTTC
*
28157916 AAATTTTTAATTT-TG
1 AAATTTATAATTTATG
28157931 AAATTTATAATTTATG
1 AAATTTATAATTTATG
* *
28157947 -AATTTATTATTTCT-
1 AAATTTATAATTTATG
28157961 AAATTTAT
1 AAATTTAT
28157969 TGTTTCGATA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
15 31 0.94
16 2 0.06
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.57
Consensus pattern (16 bp):
AAATTTATAATTTATG
Found at i:28157969 original size:15 final size:15
Alignment explanation
Indices: 28157911--28157974 Score: 53
Period size: 15 Copynumber: 4.3 Consensus size: 15
28157901 TTAGATTTAG
28157911 ATTTC-AAATTT-TT
1 ATTTCTAAATTTATT
*
28157924 AATTT-TGAAATTTATA
1 -ATTTCT-AAATTTATT
* *
28157940 ATTTATGAATTTATT
1 ATTTCTAAATTTATT
28157955 ATTTCTAAATTTATT
1 ATTTCTAAATTTATT
*
28157970 GTTTC
1 ATTTC
28157975 GATAATTCAA
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
14 4 0.10
15 34 0.85
16 2 0.05
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.58
Consensus pattern (15 bp):
ATTTCTAAATTTATT
Found at i:28159731 original size:84 final size:84
Alignment explanation
Indices: 28159627--28159820 Score: 293
Period size: 84 Copynumber: 2.3 Consensus size: 84
28159617 CCTACGTTGG
* *
28159627 GTGGGACTAAAGA-CCTACACATGGCATAGAAAGGCGAAAAACAAGAATAATTTGGACAAAACCA
1 GTGGAACTAAAGATCC-ACACATGGCATAGAAAGACGAAAAACAAGAATAATTTGGACAAAACCA
* *
28159691 ACACA-CGATAATTGTGTTTA
65 ACACACCG-CAACTGTGTTTA
* *
28159711 GTGGAACTAAAGATCCACACATGGCATAGAAAGATGAAAAACAAGAATAATTTGGACAAAACCCA
1 GTGGAACTAAAGATCCACACATGGCATAGAAAGACGAAAAACAAGAATAATTTGGACAAAACCAA
28159776 CACACCGCAACTGTGTTTA
66 CACACCGCAACTGTGTTTA
*
28159795 GTGGAACTAAAGATCTACACATGGCA
1 GTGGAACTAAAGATCCACACATGGCA
28159821 ATTGTGTAAC
Statistics
Matches: 101, Mismatches: 7, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
84 97 0.96
85 4 0.04
ACGTcount: A:0.43, C:0.19, G:0.20, T:0.19
Consensus pattern (84 bp):
GTGGAACTAAAGATCCACACATGGCATAGAAAGACGAAAAACAAGAATAATTTGGACAAAACCAA
CACACCGCAACTGTGTTTA
Found at i:28161075 original size:17 final size:17
Alignment explanation
Indices: 28161053--28161091 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
28161043 TGTAAAAACA
*
28161053 TTTTAAAATCTTTTAAT
1 TTTTAAAAACTTTTAAT
* *
28161070 TTTTAAAAAGTTTTTAT
1 TTTTAAAAACTTTTAAT
28161087 TTTTA
1 TTTTA
28161092 TTTTTTTAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (17 bp):
TTTTAAAAACTTTTAAT
Found at i:28162288 original size:38 final size:38
Alignment explanation
Indices: 28162219--28162308 Score: 117
Period size: 38 Copynumber: 2.4 Consensus size: 38
28162209 GAGTGCCGGA
* ** * **
28162219 TGGAGCACTATAGTGCGCATTTTTATTGGAGTGTAGGT
1 TGGAGCACTATGGTGCAAATTTATACCGGAGTGTAGGT
28162257 TGGAGCACTATGGTGCAAATTTATACCGGAGTGTAGGT
1 TGGAGCACTATGGTGCAAATTTATACCGGAGTGTAGGT
*
28162295 TGGAGCACTTTGGT
1 TGGAGCACTATGGT
28162309 ACGTATATTG
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 45 1.00
ACGTcount: A:0.22, C:0.12, G:0.32, T:0.33
Consensus pattern (38 bp):
TGGAGCACTATGGTGCAAATTTATACCGGAGTGTAGGT
Found at i:28164954 original size:63 final size:61
Alignment explanation
Indices: 28164856--28165034 Score: 184
Period size: 63 Copynumber: 2.9 Consensus size: 61
28164846 CATTTTTCTT
*
28164856 ATTTTA-TTTA-TTTACTTATTTATCATTTTATGAATATAAATAAATAAAAAAATATAAAAAA
1 ATTTTATTTTATTTTA-TTATTTATTATTTTATGAATATAAATAAATAAAAAAATA-AAAAAA
* * * * **
28164917 ATATTTATTTTATTTTATTATTTATTATTGTATGAATATTAATAAATAAATGTGAAATAATATTA
1 AT-TTTATTTTATTTTATTATTTATTATTTTATGAATATAAATAAATAAA---AAAATAAAAAAA
* * * *
28164982 ATTTTGTTTTATTAT-TTATTTATTATTTTATGAATATAGATAAATAAATAAAT
1 ATTTTATTTTATTTTATTATTTATTATTTTATGAATATAAATAAATAAAAAAAT
28165035 TCAAATAATA
Statistics
Matches: 99, Mismatches: 13, Indels: 13
0.79 0.10 0.10
Matches are distributed among these distances:
60 4 0.04
61 2 0.02
62 4 0.04
63 64 0.65
64 15 0.15
65 5 0.05
66 5 0.05
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.50
Consensus pattern (61 bp):
ATTTTATTTTATTTTATTATTTATTATTTTATGAATATAAATAAATAAAAAAATAAAAAAA
Found at i:28164992 original size:59 final size:61
Alignment explanation
Indices: 28164862--28165001 Score: 160
Period size: 59 Copynumber: 2.3 Consensus size: 61
28164852 TCTTATTTTA
* * *
28164862 TTTA-TTTACTTATTTATCATTTTATGAATATAAATAAATAAAAAAATATAAAAAAATATTTAT
1 TTTATTTTA-TTATTTATTATTGTATGAATAT--ATAAATAAAAAAATATAAAAAAATATTAAT
* * * *
28164925 TTTATTTTATTATTTATTATTGTATGAATAT-T-AATAAATAAATGTGAAATAATATTAAT
1 TTTATTTTATTATTTATTATTGTATGAATATATAAATAAAAAAATATAAAAAAATATTAAT
*
28164984 TTTGTTTTATTATTTATT
1 TTTATTTTATTATTTATT
28165002 TATTATTTTA
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
59 39 0.57
60 1 0.01
63 24 0.35
64 4 0.06
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.51
Consensus pattern (61 bp):
TTTATTTTATTATTTATTATTGTATGAATATATAAATAAAAAAATATAAAAAAATATTAAT
Found at i:28166145 original size:89 final size:89
Alignment explanation
Indices: 28165994--28166317 Score: 370
Period size: 89 Copynumber: 3.6 Consensus size: 89
28165984 AATTATATTG
***
28165994 ACCCCTAAACTTTTCAAAAATTCCAATTTTACCCATGAACTTTCCAAAAATCCAAAATTTACCCC
1 ACCCCTAAACTTTTCAAAAATTCCAATTTTACCCCCAAACTTTCCAAAAATCCAAAATTTACCCC
28166059 AAATTTTCCAAAAATTCAAATTTA
66 AAATTTTCCAAAAATTCAAATTTA
*
28166083 ACCCCTAAACTTTTCAAAAATTCCAATTTTACCCCCAAACTTTCTAAAAATCCAAAATTTACCCC
1 ACCCCTAAACTTTTCAAAAATTCCAATTTTACCCCCAAACTTTCCAAAAATCCAAAATTTACCCC
*
28166148 TAAATTTTCC-AAAATTCAAATTTT
66 -AAATTTTCCAAAAATTCAAATTTA
* * ** * * * *
28166172 A-CCCTCAAACTTTCCAAAAAATAGAATTTAACCTCCGAACTTTCCAAAACTTCC--AATTTGAC
1 ACCCCT-AAACTTTTCAAAAATTCCAATTTTACCCCCAAACTTTCCAAAA-ATCCAAAATTT-AC
* *
28166234 CGCTAAACTTTT-TAAAAATTCAAATTTA
63 C-CCAAA-TTTTCCAAAAATTCAAATTTA
* * * ** *
28166262 ACCCCTAAACTTTTTAAAAATTCTAATTTGACCCTTAAACTTTCCAAAAATTCAAA
1 ACCCCTAAACTTTTCAAAAATTCCAATTTTACCCCCAAACTTTCCAAAAATCCAAA
28166318 TTTGACTCGA
Statistics
Matches: 196, Mismatches: 29, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
88 9 0.05
89 118 0.60
90 64 0.33
91 5 0.03
ACGTcount: A:0.40, C:0.25, G:0.02, T:0.32
Consensus pattern (89 bp):
ACCCCTAAACTTTTCAAAAATTCCAATTTTACCCCCAAACTTTCCAAAAATCCAAAATTTACCCC
AAATTTTCCAAAAATTCAAATTTA
Found at i:28166321 original size:30 final size:30
Alignment explanation
Indices: 28165991--28166323 Score: 311
Period size: 30 Copynumber: 11.2 Consensus size: 30
28165981 TAAAATTATA
* *
28165991 TTGACCCCTAAACTTTTCAAAAATTCCAAT
1 TTGACCCCTAAACTTTCCAAAAATTCAAAT
* * * *
28166021 TTTACCCATGAACTTTCCAAAAATCCAAAAT
1 TTGACCCCTAAACTTTCCAAAAATTC-AAAT
*
28166052 TT-ACCCC-AAATTTTCCAAAAATTCAAAT
1 TTGACCCCTAAACTTTCCAAAAATTCAAAT
* * *
28166080 TTAACCCCTAAACTTTTCAAAAATTCCAAT
1 TTGACCCCTAAACTTTCCAAAAATTCAAAT
* * * *
28166110 TTTACCCCCAAACTTTCTAAAAATCCAAAAT
1 TTGACCCCTAAACTTTCCAAAAATTC-AAAT
*
28166141 TT-ACCCCTAAATTTTCC-AAAATTCAAAT
1 TTGACCCCTAAACTTTCCAAAAATTCAAAT
* *
28166169 TTTA-CCCTCAAACTTTCCAAAAAAT-AGAAT
1 TTGACCCCT-AAACTTTCCAAAAATTCA-AAT
* * * *
28166199 TTAACCTCC-GAACTTTCCAAAACTTCCAAT
1 TTGACC-CCTAAACTTTCCAAAAATTCAAAT
* **
28166229 TTGACCGCTAAACTTTTTAAAAATTCAAAT
1 TTGACCCCTAAACTTTCCAAAAATTCAAAT
* ** *
28166259 TTAACCCCTAAACTTTTTAAAAATTCTAAT
1 TTGACCCCTAAACTTTCCAAAAATTCAAAT
*
28166289 TTGACCCTTAAACTTTCCAAAAATTCAAAT
1 TTGACCCCTAAACTTTCCAAAAATTCAAAT
28166319 TTGAC
1 TTGAC
28166324 TCGATTTTAA
Statistics
Matches: 246, Mismatches: 45, Indels: 24
0.78 0.14 0.08
Matches are distributed among these distances:
28 16 0.07
29 36 0.15
30 181 0.74
31 11 0.04
32 2 0.01
ACGTcount: A:0.40, C:0.25, G:0.02, T:0.33
Consensus pattern (30 bp):
TTGACCCCTAAACTTTCCAAAAATTCAAAT
Found at i:28170844 original size:17 final size:16
Alignment explanation
Indices: 28170809--28170853 Score: 65
Period size: 16 Copynumber: 2.8 Consensus size: 16
28170799 ATTGTACATT
28170809 TTTTTATATTTTATTA
1 TTTTTATATTTTATTA
28170825 TTTTTA-ATTTTATATA
1 TTTTTATATTTTAT-TA
*
28170841 ATTTTATATTTTA
1 TTTTTATATTTTA
28170854 ATTTTCTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 7 0.27
16 13 0.50
17 6 0.23
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTTATATTTTATTA
Found at i:28170852 original size:23 final size:24
Alignment explanation
Indices: 28170808--28170868 Score: 72
Period size: 23 Copynumber: 2.5 Consensus size: 24
28170798 CATTGTACAT
*
28170808 TTTTTTATATTTTATTATTTTTAA
1 TTTTATATATTTTATTATTTTTAA
28170832 TTTTATATAATTTTA-TA-TTTTAA
1 TTTTATAT-ATTTTATTATTTTTAA
*
28170855 TTTTCTATTATTTT
1 TTTTATA-TATTTT
28170869 TAAAAAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
23 17 0.52
24 10 0.30
25 6 0.18
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (24 bp):
TTTTATATATTTTATTATTTTTAA
Found at i:28174385 original size:21 final size:21
Alignment explanation
Indices: 28174353--28174396 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
28174343 CCCTTCAATT
* *
28174353 TTTATTTTATTTTAA-TTTTG
1 TTTAATTTAATTTAATTTTTG
28174373 TTTAATTTAATTTAATTTTTG
1 TTTAATTTAATTTAATTTTTG
28174394 TTT
1 TTT
28174397 TTAATTCTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.73
Consensus pattern (21 bp):
TTTAATTTAATTTAATTTTTG
Found at i:28174579 original size:12 final size:12
Alignment explanation
Indices: 28174564--28174589 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
28174554 TAATATTTAA
28174564 TTTTATTTATTG
1 TTTTATTTATTG
28174576 TTTTATTTATTG
1 TTTTATTTATTG
28174588 TT
1 TT
28174590 CATTTATTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (12 bp):
TTTTATTTATTG
Found at i:28174583 original size:17 final size:17
Alignment explanation
Indices: 28174544--28174583 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
28174534 ATTATTTGCA
28174544 TTATTTTATTTAATATT
1 TTATTTTATTTAATATT
* * *
28174561 TAATTTTATTTATTGTT
1 TTATTTTATTTAATATT
28174578 TTATTT
1 TTATTT
28174584 ATTGTTCATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (17 bp):
TTATTTTATTTAATATT
Found at i:28174597 original size:15 final size:15
Alignment explanation
Indices: 28174565--28174609 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
28174555 AATATTTAAT
28174565 TTTATTTATTG-T--
1 TTTATTTATTGTTCA
28174577 TTTATTTATTGTTCA
1 TTTATTTATTGTTCA
*
28174592 TTTATTTGTTGTTCA
1 TTTATTTATTGTTCA
28174607 TTT
1 TTT
28174610 TCTTTGTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
12 11 0.38
13 1 0.03
15 17 0.59
ACGTcount: A:0.16, C:0.04, G:0.09, T:0.71
Consensus pattern (15 bp):
TTTATTTATTGTTCA
Found at i:28179301 original size:16 final size:14
Alignment explanation
Indices: 28179280--28179332 Score: 52
Period size: 14 Copynumber: 3.5 Consensus size: 14
28179270 GAAGAGAGGG
28179280 AAAAAAAAGGACAAAT
1 AAAAAAAA-GA-AAAT
28179296 AAAAAAGAAAGAAAAT
1 -AAAAA-AAAGAAAAT
* *
28179312 AAAATAAAGAGAAT
1 AAAAAAAAGAAAAT
28179326 AAAAAAA
1 AAAAAAA
28179333 TTGTTAGAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
14 14 0.44
15 4 0.12
16 4 0.12
17 7 0.22
18 3 0.09
ACGTcount: A:0.79, C:0.02, G:0.11, T:0.08
Consensus pattern (14 bp):
AAAAAAAAGAAAAT
Found at i:28181658 original size:38 final size:38
Alignment explanation
Indices: 28181607--28181682 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
28181597 ATCTTAAGGA
28181607 GATGTCAATACAATCCAACCTAACTTTGTCGTAGGCTT
1 GATGTCAATACAATCCAACCTAACTTTGTCGTAGGCTT
28181645 GATGTCAATACAATCCAACCTAACTTTGTCGTAGGCTT
1 GATGTCAATACAATCCAACCTAACTTTGTCGTAGGCTT
28181683 TCTCTAAGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.32
Consensus pattern (38 bp):
GATGTCAATACAATCCAACCTAACTTTGTCGTAGGCTT
Found at i:28185844 original size:32 final size:32
Alignment explanation
Indices: 28185808--28185870 Score: 99
Period size: 32 Copynumber: 2.0 Consensus size: 32
28185798 TTATAAACTT
*
28185808 ATAAATTAATTACTTGAATTTAATAACTCATG
1 ATAAATTAATTAATTGAATTTAATAACTCATG
* *
28185840 ATAAATTAATTAATTTAATTTTATAACTCAT
1 ATAAATTAATTAATTGAATTTAATAACTCAT
28185871 TTTGATTAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.44
Consensus pattern (32 bp):
ATAAATTAATTAATTGAATTTAATAACTCATG
Found at i:28204283 original size:28 final size:28
Alignment explanation
Indices: 28204247--28204321 Score: 75
Period size: 28 Copynumber: 2.7 Consensus size: 28
28204237 TACGGATCAC
*
28204247 AATTCAAGTTTCATATATAATTGCACTA-
1 AATTAAAGTTTCATATATAATTGCA-TAG
*
28204275 AATTAAAGTTTC-TGTATCAATTGCATAG
1 AATTAAAGTTTCATATAT-AATTGCATAG
**
28204303 AACCAAAG-TTCATATATAA
1 AATTAAAGTTTCATATATAA
28204322 ATTTGATATT
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
27 11 0.28
28 28 0.72
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.36
Consensus pattern (28 bp):
AATTAAAGTTTCATATATAATTGCATAG
Found at i:28206401 original size:29 final size:29
Alignment explanation
Indices: 28206347--28206402 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
28206337 CGAGTTATTT
* *
28206347 AAATTCGAAAACTCAATTCGATTCGAAAA
1 AAATTCGAAAACTCAATTCAACTCGAAAA
*
28206376 AAATTCGAATAATTCAATT-AACTCGAA
1 AAATTCGAA-AACTCAATTCAACTCGAA
28206403 TAATTCGATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 15 0.65
30 8 0.35
ACGTcount: A:0.48, C:0.16, G:0.09, T:0.27
Consensus pattern (29 bp):
AAATTCGAAAACTCAATTCAACTCGAAAA
Found at i:28206434 original size:21 final size:23
Alignment explanation
Indices: 28206393--28206434 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
28206383 AATAATTCAA
*
28206393 TTAACTCGAATAATTCGATTTGT
1 TTAACTCGAATAATTCAATTTGT
28206416 TTAACTCG-A-AATTCAATTT
1 TTAACTCGAATAATTCAATTT
28206435 TCTTTTTTCG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 1 0.06
23 8 0.44
ACGTcount: A:0.33, C:0.14, G:0.10, T:0.43
Consensus pattern (23 bp):
TTAACTCGAATAATTCAATTTGT
Found at i:28213202 original size:21 final size:21
Alignment explanation
Indices: 28213178--28213246 Score: 65
Period size: 21 Copynumber: 3.5 Consensus size: 21
28213168 AAAATTAATT
28213178 TAAAATTATTTTTTAAAAATA
1 TAAAATTATTTTTTAAAAATA
*
28213199 TAAAATTA----TTAAAATTA
1 TAAAATTATTTTTTAAAAATA
* * **
28213216 TTATATTATTTTTTTGAAATA
1 TAAAATTATTTTTTAAAAATA
28213237 TAAAATTATT
1 TAAAATTATT
28213247 AAAATTATTA
Statistics
Matches: 36, Mismatches: 8, Indels: 8
0.69 0.15 0.15
Matches are distributed among these distances:
17 14 0.39
21 22 0.61
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (21 bp):
TAAAATTATTTTTTAAAAATA
Found at i:28213228 original size:38 final size:38
Alignment explanation
Indices: 28213166--28213265 Score: 137
Period size: 38 Copynumber: 2.6 Consensus size: 38
28213156 AGCAAATGAT
28213166 TTAAAATTAATTTAAAATTATTTTTTAAAAATATAAAATTA
1 TTAAAATT-A-TT-AAATTATTTTTTAAAAATATAAAATTA
* **
28213207 TTAAAATTATTATATTATTTTTTTGAAATATAAAATTA
1 TTAAAATTATTAAATTATTTTTTAAAAATATAAAATTA
*
28213245 TTAAAATTATTAAATAATTTT
1 TTAAAATTATTAAATTATTTT
28213266 AATCTCATCG
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
38 43 0.80
39 2 0.04
40 1 0.02
41 8 0.15
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (38 bp):
TTAAAATTATTAAATTATTTTTTAAAAATATAAAATTA
Found at i:28215376 original size:2 final size:2
Alignment explanation
Indices: 28215369--28215395 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
28215359 AAGTTGAGTG
28215369 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
28215396 CAATGGTGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:28216226 original size:82 final size:81
Alignment explanation
Indices: 28215965--28216240 Score: 408
Period size: 82 Copynumber: 3.4 Consensus size: 81
28215955 GTGCAAATCC
* * * * * *
28215965 GTTGGTTAATCCAACTAGAGCTGAGCTCACTCATTACGGTTTATCCGCTAGGCATTGAGTTCCAG
1 GTTGGTTAATCCAACTAGAGCTGAGCTCACTTATTGCGGTTTAT-CGCTAGGTACTGGGTGCCAG
28216030 GAATTGACGAAATTATT
65 GAATTGACGAAATTATT
*
28216047 GTTGGTTAATCCAACTAAAGCTGAGCTCACTTATTGCGGTTTATCGCTAGGTACTGGGTGCCAGG
1 GTTGGTTAATCCAACTAGAGCTGAGCTCACTTATTGCGGTTTATCGCTAGGTACTGGGTGCCAGG
28216112 AATTGACGAAATTATT
66 AATTGACGAAATTATT
* * *
28216128 GTTGGTTAATCCAACTAGAGCTGGGCTCACTTATTGTGATTTATCTGCTAGGTACTGGGTGCCAG
1 GTTGGTTAATCCAACTAGAGCTGAGCTCACTTATTGCGGTTTATC-GCTAGGTACTGGGTGCCAG
* *
28216193 AAATTGACGGAATTATT
65 GAATTGACGAAATTATT
* *
28216210 GTTGGTTAATCTAACTAGAGCTGGGCTCACT
1 GTTGGTTAATCCAACTAGAGCTGAGCTCACT
28216241 ATAAATATTA
Statistics
Matches: 179, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
81 74 0.41
82 105 0.59
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (81 bp):
GTTGGTTAATCCAACTAGAGCTGAGCTCACTTATTGCGGTTTATCGCTAGGTACTGGGTGCCAGG
AATTGACGAAATTATT
Found at i:28227166 original size:39 final size:39
Alignment explanation
Indices: 28227102--28227237 Score: 148
Period size: 39 Copynumber: 3.5 Consensus size: 39
28227092 AGTCGTGCTA
*
28227102 TGTTTACAGTGTCACTG-TCGGTTCAATATAGTTTCGCAG
1 TGTTTACAGTGTCACTGCT-GATTCAATATAGTTTCGCAG
* ** *
28227141 TGTTTACAGTGTCACTGCTTATTCAATATAACTTCGTAG
1 TGTTTACAGTGTCACTGCTGATTCAATATAGTTTCGCAG
* * * * * * *
28227180 TGTTTAAAATGTCATTGCCGGTTCAGTATAGTTCCGCAG
1 TGTTTACAGTGTCACTGCTGATTCAATATAGTTTCGCAG
28227219 TGTTTACAGTGTCACTGCT
1 TGTTTACAGTGTCACTGCT
28227238 TACTCAGTAT
Statistics
Matches: 76, Mismatches: 20, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
39 75 0.99
40 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.39
Consensus pattern (39 bp):
TGTTTACAGTGTCACTGCTGATTCAATATAGTTTCGCAG
Found at i:28231399 original size:18 final size:18
Alignment explanation
Indices: 28231376--28231412 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
28231366 ACAATTCATA
28231376 TCACTTTCAATTCCAATT
1 TCACTTTCAATTCCAATT
* *
28231394 TCACTTTCACTTTCAATT
1 TCACTTTCAATTCCAATT
28231412 T
1 T
28231413 TGATCACAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.24, C:0.27, G:0.00, T:0.49
Consensus pattern (18 bp):
TCACTTTCAATTCCAATT
Found at i:28235012 original size:30 final size:29
Alignment explanation
Indices: 28234978--28235071 Score: 95
Period size: 30 Copynumber: 3.2 Consensus size: 29
28234968 ATTTTTGAGG
*
28234978 AATTTGGGATCAAAATCGAAGTTTTTGGAA
1 AATTTGGGATCAAAATCGAA-CTTTTGGAA
* *
28235008 AATTTGGGATTAAAATTGAACTTTTGGAA
1 AATTTGGGATCAAAATCGAACTTTTGGAA
*
28235037 AATTTTGGG-TCGAAAAT-GTGACTTTTGG-A
1 AA-TTTGGGATC-AAAATCG-AACTTTTGGAA
28235066 AATTTG
1 AATTTG
28235072 AGGGCAAAAT
Statistics
Matches: 56, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
28 4 0.07
29 15 0.27
30 37 0.66
ACGTcount: A:0.34, C:0.05, G:0.23, T:0.37
Consensus pattern (29 bp):
AATTTGGGATCAAAATCGAACTTTTGGAA
Found at i:28235091 original size:29 final size:29
Alignment explanation
Indices: 28235071--28235562 Score: 374
Period size: 29 Copynumber: 16.9 Consensus size: 29
28235061 TTGGAAATTT
*
28235071 GAGGGCAAAATGGTAATTTTTGGATGCTC
1 GAGGGCAAAATGGTAATTTTTGGATGTTC
* *
28235100 GGGGGCAAAATAGTAA-TTTTGGATGTTC
1 GAGGGCAAAATGGTAATTTTTGGATGTTC
* * *
28235128 GTGGGTAAAATGGTAATTTTTGAAAAT-TTC
1 GAGGGCAAAATGGTAATTTTTG--GATGTTC
* ** * *
28235158 AAGGTAAAAATTGTAATTTTTAGATGTTC
1 GAGGGCAAAATGGTAATTTTTGGATGTTC
** * *
28235187 GAGGGTTAAATGGTAA-TTTTGGAAAAGTTT
1 GAGGGCAAAATGGTAATTTTTGG--ATGTTC
*
28235217 G-GGGTTAAAATGGTAA-TTTTGGATGTTC
1 GAGGG-CAAAATGGTAATTTTTGGATGTTC
* * **
28235245 GAGGGAAAAATGGTAATTTTTAGACATTC
1 GAGGGCAAAATGGTAATTTTTGGATGTTC
* * *
28235274 AGGGGGCAAAATGGTAATTTTTAGATGTTT
1 -GAGGGCAAAATGGTAATTTTTGGATGTTC
28235304 GAGGGGCAAAATGGTAATTTTTGGATGTTC
1 GA-GGGCAAAATGGTAATTTTTGGATGTTC
* * *
28235334 G-GAGGTAAAATAGTAATTTTTGGACGTTC
1 GAG-GGCAAAATGGTAATTTTTGGATGTTC
* * * ** *
28235363 GAGGGCCAAACGGTAATTTTTGAACATTT
1 GAGGGCAAAATGGTAATTTTTGGATGTTC
* * * **
28235392 G-CGACAAAATGGTAATTTGTGGACATTC
1 GAGGGCAAAATGGTAATTTTTGGATGTTC
* * * *
28235420 GGGGGCAAAACGATAATTTTTGGATTTTC
1 GAGGGCAAAATGGTAATTTTTGGATGTTC
28235449 GAGGGCAAAATGGTAATTTTTGGATGTTC
1 GAGGGCAAAATGGTAATTTTTGGATGTTC
*
28235478 G-GTGGCAAAATGATAATTTTTGGATG-TC
1 GAG-GGCAAAATGGTAATTTTTGGATGTTC
* * *
28235506 TAGGGGTAAAACGGTAATTTTTGGATGTT-
1 GA-GGGCAAAATGGTAATTTTTGGATGTTC
* * * *
28235535 TAGGGGTAAAACGGTAATTTTTTGATGT
1 GA-GGGCAAAATGGTAATTTTTGGATGT
28235563 ATAGGGGCAA
Statistics
Matches: 374, Mismatches: 71, Indels: 36
0.78 0.15 0.07
Matches are distributed among these distances:
28 71 0.19
29 208 0.56
30 93 0.25
31 2 0.01
ACGTcount: A:0.30, C:0.07, G:0.28, T:0.35
Consensus pattern (29 bp):
GAGGGCAAAATGGTAATTTTTGGATGTTC
Found at i:28235230 original size:30 final size:29
Alignment explanation
Indices: 28235000--28235239 Score: 104
Period size: 29 Copynumber: 8.2 Consensus size: 29
28234990 AAATCGAAGT
* *
28235000 TTTTGGAAAATTTGGGATTAAAATTG-AA
1 TTTTGGAAAATTTGGGGTTAAAATGGTAA
* * *
28235028 CTTTTGGAAAATTTTGGGTCGAAAAT-GTGAC
1 -TTTTGGAAAATTTGGGGT-TAAAATGGT-AA
*
28235059 TTTTGG-AAATTTGAGGG-CAAAATGGTAA
1 TTTTGGAAAATTTG-GGGTTAAAATGGTAA
*** * ** *
28235087 TTTTTGG-ATGCTCGGGGGCAAAATAGTAA
1 -TTTTGGAAAATTTGGGGTTAAAATGGTAA
** *
28235116 TTTTGG-ATGTTCGTGGG-TAAAATGGTAA
1 TTTTGGAAAATTTG-GGGTTAAAATGGTAA
* ** * *
28235144 TTTTTGAAAATTTCAAGGTAAAAATTGTAA
1 TTTTGGAAAATTT-GGGGTTAAAATGGTAA
* *
28235174 TTTT--TAGATGTTCGAGGGTT-AAATGGTAA
1 TTTTGGAAAAT-TT-G-GGGTTAAAATGGTAA
28235203 TTTTGGAAAAGTTTGGGGTTAAAATGGTAA
1 TTTTGGAAAA-TTTGGGGTTAAAATGGTAA
28235233 TTTTGGA
1 TTTTGGA
28235240 TGTTCGAGGG
Statistics
Matches: 163, Mismatches: 31, Indels: 33
0.72 0.14 0.15
Matches are distributed among these distances:
28 38 0.23
29 72 0.44
30 47 0.29
31 5 0.03
32 1 0.01
ACGTcount: A:0.32, C:0.04, G:0.26, T:0.38
Consensus pattern (29 bp):
TTTTGGAAAATTTGGGGTTAAAATGGTAA
Found at i:28235437 original size:86 final size:86
Alignment explanation
Indices: 28235310--28235470 Score: 216
Period size: 86 Copynumber: 1.9 Consensus size: 86
28235300 GTTTGAGGGG
* ** * * *
28235310 CAAAATGGTAATTTTTGGATGTTCGGAGGTAAAATAGTAATTTTTGGACGTTCGAGGGCCAAACG
1 CAAAATGGTAATTTGTGGACATTCGGAGGCAAAAGAGTAATTTTTGGACGTTCGAGGGCAAAACG
28235375 GTAATTTTTGAACATTTGCGA
66 GTAATTTTTGAACATTTGCGA
* ** *
28235396 CAAAATGGTAATTTGTGGACATTCGGGGGCAAAACGA-TAATTTTTGGATTTTCGAGGGCAAAAT
1 CAAAATGGTAATTTGTGGACATTCGGAGGCAAAA-GAGTAATTTTTGGACGTTCGAGGGCAAAAC
28235460 GGTAATTTTTG
65 GGTAATTTTTG
28235471 GATGTTCGGT
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
86 63 0.98
87 1 0.02
ACGTcount: A:0.30, C:0.10, G:0.26, T:0.34
Consensus pattern (86 bp):
CAAAATGGTAATTTGTGGACATTCGGAGGCAAAAGAGTAATTTTTGGACGTTCGAGGGCAAAACG
GTAATTTTTGAACATTTGCGA
Found at i:28235479 original size:144 final size:146
Alignment explanation
Indices: 28235251--28235528 Score: 395
Period size: 144 Copynumber: 1.9 Consensus size: 146
28235241 GTTCGAGGGA
* * *
28235251 AAAATGGTAATTTTTAGACATTCAGGGGGCAAAATGGTAATTTTTAGATGTTTGAGGGGCAAAAT
1 AAAATGGTAATTTGTAGACATTCAGGGGGCAAAACGATAATTTTTAGATGTTTGAGGGGCAAAAT
* *
28235316 GGTAATTTTTGGATGTTCGGAGGTAAAAT-AGTAATTTTTGGACGTTCGA-GGGCCAAACGGTAA
66 GGTAATTTTTGGATGTTCGGAGGCAAAATGA-TAATTTTTGGACG-TCGAGGGGCAAAACGGTAA
28235379 TTTTTGAACATTTGCGAC
129 TTTTTGAACATTTGCGAC
* *
28235397 AAAATGGTAATTTGTGGACATTC-GGGGGCAAAACGATAATTTTTGGAT-TTTCGA-GGGCAAAA
1 AAAATGGTAATTTGTAGACATTCAGGGGGCAAAACGATAATTTTTAGATGTTT-GAGGGGCAAAA
* * * *
28235459 TGGTAATTTTTGGATGTTCGGTGGCAAAATGATAATTTTTGGATGTCTAGGGGTAAAACGGTAAT
65 TGGTAATTTTTGGATGTTCGGAGGCAAAATGATAATTTTTGGACGTCGAGGGGCAAAACGGTAAT
28235524 TTTTG
130 TTTTG
28235529 GATGTTTAGG
Statistics
Matches: 118, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
143 3 0.03
144 69 0.58
145 25 0.21
146 21 0.18
ACGTcount: A:0.30, C:0.08, G:0.27, T:0.34
Consensus pattern (146 bp):
AAAATGGTAATTTGTAGACATTCAGGGGGCAAAACGATAATTTTTAGATGTTTGAGGGGCAAAAT
GGTAATTTTTGGATGTTCGGAGGCAAAATGATAATTTTTGGACGTCGAGGGGCAAAACGGTAATT
TTTGAACATTTGCGAC
Found at i:28235610 original size:58 final size:57
Alignment explanation
Indices: 28235484--28235613 Score: 143
Period size: 58 Copynumber: 2.2 Consensus size: 57
28235474 GTTCGGTGGC
* * * ** *
28235484 AAAATGATAATTTTTGGATGTCTAGGGGTAAAACGGTAATTTTTGGATGTTTAGGGGT
1 AAAATG-TAATTTTTGGATGTATAGGGGCAAAACGATAATTTTTAAAAGTTTAGGGGT
* * * *
28235542 AAAACGGTAATTTTTTGATGTATAGGGGCAAGACGATAATTTTTTAAAAGTTTAGGTGT
1 AAAA-TGTAATTTTTGGATGTATAGGGGCAAAACGATAA-TTTTTAAAAGTTTAGGGGT
28235601 AAAATGTAATTTT
1 AAAATGTAATTTT
28235614 GAAAGTTTAA
Statistics
Matches: 59, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
58 39 0.66
59 20 0.34
ACGTcount: A:0.33, C:0.04, G:0.25, T:0.38
Consensus pattern (57 bp):
AAAATGTAATTTTTGGATGTATAGGGGCAAAACGATAATTTTTAAAAGTTTAGGGGT
Found at i:28235610 original size:87 final size:87
Alignment explanation
Indices: 28235421--28235613 Score: 203
Period size: 87 Copynumber: 2.2 Consensus size: 87
28235411 TGGACATTCG
* * * * *
28235421 GGGGCAAAACGATAATTTTTGGATTTTCGAGGGCAAAATGGTAATTTTTGGATGTTCGGTGGCAA
1 GGGGTAAAACGGTAATTTTTGGATTTTAGAGGGCAAAACGGTAATTTTTGGATGTTAGGTGGCAA
* ** *
28235486 AATGATAATTTTTGGATGTCTA
66 AACGATAATTTTTAAAAGTCTA
* *
28235508 GGGGTAAAACGGTAATTTTTGGATGTTTAG-GGGTAAAACGGTAATTTTTTGATGTATAGG-GGC
1 GGGGTAAAACGGTAATTTTTGGAT-TTTAGAGGGCAAAACGGTAATTTTTGGATGT-TAGGTGGC
* *
28235571 AAGACGATAATTTTTTAAAAGTTTA
64 AAAACGATAA-TTTTTAAAAGTCTA
* *
28235596 GGTGTAAAA-TGTAATTTT
1 GGGGTAAAACGGTAATTTT
28235614 GAAAGTTTAA
Statistics
Matches: 88, Mismatches: 15, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
87 63 0.72
88 25 0.28
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.37
Consensus pattern (87 bp):
GGGGTAAAACGGTAATTTTTGGATTTTAGAGGGCAAAACGGTAATTTTTGGATGTTAGGTGGCAA
AACGATAATTTTTAAAAGTCTA
Found at i:28235652 original size:30 final size:30
Alignment explanation
Indices: 28235578--28235754 Score: 177
Period size: 30 Copynumber: 6.0 Consensus size: 30
28235568 GGCAAGACGA
* *
28235578 TAATTTTTTAAAAGTTT-AGGTGT-AAAATG
1 TAATTTTTGAGAAGTTTAAGG-GTCAAAATG
*
28235607 TAA-TTTTGA-AAGTTTAAGGGTTAAAATG
1 TAATTTTTGAGAAGTTTAAGGGTCAAAATG
*
28235635 TAATTTTTGAGAAGTTT-AGGGATTAAAATG
1 TAATTTTTGAGAAGTTTAAGGG-TCAAAATG
*
28235665 TGATTTTTGAGAAG-TTAAGGGGTCAAAATG
1 TAATTTTTGAGAAGTTTAA-GGGTCAAAATG
* * *
28235695 TAATTTTAGAGAAGTTTAAGGGTCGAAATA
1 TAATTTTTGAGAAGTTTAAGGGTCAAAATG
* * * *
28235725 TAATTTTAGACAAATTTTAGGGTCAAAATG
1 TAATTTTTGAGAAGTTTAAGGGTCAAAATG
28235755 GGATTTAGGG
Statistics
Matches: 128, Mismatches: 12, Indels: 15
0.83 0.08 0.10
Matches are distributed among these distances:
27 8 0.06
28 17 0.13
29 15 0.12
30 81 0.63
31 7 0.05
ACGTcount: A:0.38, C:0.02, G:0.22, T:0.38
Consensus pattern (30 bp):
TAATTTTTGAGAAGTTTAAGGGTCAAAATG
Found at i:28235773 original size:90 final size:88
Alignment explanation
Indices: 28235589--28235774 Score: 209
Period size: 90 Copynumber: 2.1 Consensus size: 88
28235579 AATTTTTTAA
* * * * *
28235589 AAGTTT-AGGTGTAAAATGTAATTTTGAAAGTTTAAGGGTTAAAATGTAATTTTTGAGAAGTTTA
1 AAGTTTAAGGGGTAAAATGTAATTTTGAAAGTTTAAGGGTCAAAATATAATTTTAGAAAAGTTTA
* * *
28235653 GGGATTAAAATGTGATTTTTGAG
66 GGGATCAAAATGGGATTTTAGAG
* *
28235676 AAG-TTAAGGGGTCAAAATGTAATTTTAGAGAAGTTTAAGGGTCGAAATATAATTTTAGACAAAT
1 AAGTTTAAGGGGT-AAAATGTAATTTT-GA-AAGTTTAAGGGTCAAAATATAATTTTAGA-AAAG
*
28235740 TTTAGGG-TCAAAATGGGA-TTTAGGG
62 TTTAGGGATCAAAATGGGATTTTAGAG
28235765 AAGTTTAAGG
1 AAGTTTAAGG
28235775 ACCTTCAGCG
Statistics
Matches: 82, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
86 2 0.02
87 8 0.10
88 13 0.16
89 10 0.12
90 40 0.49
91 9 0.11
ACGTcount: A:0.37, C:0.02, G:0.25, T:0.35
Consensus pattern (88 bp):
AAGTTTAAGGGGTAAAATGTAATTTTGAAAGTTTAAGGGTCAAAATATAATTTTAGAAAAGTTTA
GGGATCAAAATGGGATTTTAGAG
Found at i:28236847 original size:16 final size:16
Alignment explanation
Indices: 28236826--28236857 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
28236816 GGCTTGTTGG
28236826 GTAATTAGGTTTGGGT
1 GTAATTAGGTTTGGGT
*
28236842 GTAATTGGGTTTGGGT
1 GTAATTAGGTTTGGGT
28236858 TTGTATTTGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.00, G:0.41, T:0.44
Consensus pattern (16 bp):
GTAATTAGGTTTGGGT
Found at i:28236969 original size:6 final size:6
Alignment explanation
Indices: 28236955--28237019 Score: 66
Period size: 6 Copynumber: 11.2 Consensus size: 6
28236945 GTTTAAAACC
* *
28236955 ATTTCAA ATTTAA A-TTAA ATTTAA ATTTAA ACTTAA A-ATAA ATTTAA
1 ATTT-AA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA
28237002 ATTTCAA A--TAA ATTTAA A
1 ATTT-AA ATTTAA ATTTAA A
28237020 ACCAATTTAA
Statistics
Matches: 50, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
4 3 0.06
5 10 0.20
6 30 0.60
7 7 0.14
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.42
Consensus pattern (6 bp):
ATTTAA
Found at i:28236978 original size:40 final size:39
Alignment explanation
Indices: 28236923--28237020 Score: 108
Period size: 40 Copynumber: 2.4 Consensus size: 39
28236913 ATTTTGGACT
** **
28236923 TTTAAACTAAATTTAAAATTAAGTTTAAAA-CCATTTCAAA
1 TTTAAA-TAAATTTAAAATTAAACTTAAAATAAATTT-AAA
*
28236963 TTTAAATTAAATTTAAATTTAAACTTAAAATAAATTTAAA
1 TTTAAA-TAAATTTAAAATTAAACTTAAAATAAATTTAAA
28237003 TTTCAAATAAATTTAAAA
1 TTT-AAATAAATTTAAAA
28237021 CCAATTTAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
40 42 0.86
41 7 0.14
ACGTcount: A:0.53, C:0.06, G:0.01, T:0.40
Consensus pattern (39 bp):
TTTAAATAAATTTAAAATTAAACTTAAAATAAATTTAAA
Found at i:28236980 original size:17 final size:15
Alignment explanation
Indices: 28236960--28237019 Score: 66
Period size: 17 Copynumber: 3.6 Consensus size: 15
28236950 AAACCATTTC
28236960 AAATTTAAATTAAATTT
1 AAATTTAAATTAAA--T
28236977 AAATTTAAACTTAAAAT
1 AAATTTAAA-TT-AAAT
28236994 AAATTTAAATTTCAAAT
1 AAATTTAAA-TT-AAAT
28237011 AAATTTAAA
1 AAATTTAAA
28237020 ACCAATTTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
17 34 0.87
18 2 0.05
19 3 0.08
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (15 bp):
AAATTTAAATTAAAT
Found at i:28236991 original size:23 final size:24
Alignment explanation
Indices: 28236955--28237009 Score: 85
Period size: 23 Copynumber: 2.3 Consensus size: 24
28236945 GTTTAAAACC
* *
28236955 ATTTCAAATTTAAATTAAATTTAA
1 ATTTCAAACTTAAAATAAATTTAA
28236979 ATTT-AAACTTAAAATAAATTTAA
1 ATTTCAAACTTAAAATAAATTTAA
28237002 ATTTCAAA
1 ATTTCAAA
28237010 TAAATTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 21 0.75
24 7 0.25
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (24 bp):
ATTTCAAACTTAAAATAAATTTAA
Found at i:28237013 original size:28 final size:27
Alignment explanation
Indices: 28236965--28237049 Score: 82
Period size: 28 Copynumber: 3.0 Consensus size: 27
28236955 ATTTCAAATT
28236965 TAAA-TTAAATTTAAATTTAAACTTAAAA
1 TAAATTTAAATTTAAA--TAAACTTAAAA
*
28236993 TAAATTTAAATTTCAAATAAATTTAAAA
1 TAAATTTAAATTT-AAATAAACTTAAAA
** * *
28237021 CCAATTTAAACTTAAAATAATCTTAAAA
1 TAAATTTAAA-TTTAAATAAACTTAAAA
28237049 T
1 T
28237050 TAAAAGTTTG
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
28 34 0.72
29 10 0.21
30 3 0.06
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (27 bp):
TAAATTTAAATTTAAATAAACTTAAAA
Found at i:28237019 original size:23 final size:22
Alignment explanation
Indices: 28236965--28237015 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 22
28236955 ATTTCAAATT
28236965 TAAATTAAATTTAAATTTAAAC
1 TAAATTAAATTTAAATTTAAAC
*
28236987 TTAAAATAAATTTAAATTTCAAA-
1 -TAAATTAAATTTAAATTT-AAAC
28237010 TAAATT
1 TAAATT
28237016 TAAAACCAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 5 0.20
23 17 0.68
24 3 0.12
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (22 bp):
TAAATTAAATTTAAATTTAAAC
Found at i:28237036 original size:34 final size:34
Alignment explanation
Indices: 28236923--28237036 Score: 94
Period size: 34 Copynumber: 3.4 Consensus size: 34
28236913 ATTTTGGACT
*
28236923 TTTAAAC-TAAATTTAAAATTAAGTTTAAAACC-A
1 TTTAAACTTAAATTT-AAATTAAATTTAAAACCAA
* *
28236956 TTTCAAATTTAAA-TTAAATTTAAATTT-AAACTTAA
1 TTT-AAACTTAAATTTAAA-TTAAATTTAAAAC-CAA
** *
28236991 AATAAATTTAAATTTCAAA-TAAATTTAAAACCAA
1 TTTAAACTTAAATTT-AAATTAAATTTAAAACCAA
28237025 TTTAAACTTAAA
1 TTTAAACTTAAA
28237037 ATAATCTTAA
Statistics
Matches: 64, Mismatches: 9, Indels: 15
0.73 0.10 0.17
Matches are distributed among these distances:
33 10 0.16
34 39 0.61
35 12 0.19
36 3 0.05
ACGTcount: A:0.53, C:0.08, G:0.01, T:0.39
Consensus pattern (34 bp):
TTTAAACTTAAATTTAAATTAAATTTAAAACCAA
Found at i:28238175 original size:209 final size:208
Alignment explanation
Indices: 28237812--28238209 Score: 681
Period size: 209 Copynumber: 1.9 Consensus size: 208
28237802 AATCCGCTTT
*
28237812 CTGTATCTCATCAGGAAGCTGACCGTTGTATTGCTTCGACCTGCTTCTCAATATCTCATCAAGGA
1 CTGTATCTCATCAGGAAGCTGACCATTGTATTGCTTCGACCTGCTTCTCAATATCTCATCAAGGA
*
28237877 GCTGGGATTCGAAGTTTCGCTCACATTGAGCTTTGTTTCATTGATTTGGTATACTTCTCTGTATC
66 GCTGGGATTCGAAGTTTCGCCCACATTGAGCTTTGTTTCATTGATTTGGTATACTTCTCTGTATC
* *
28237942 TCATCAGGAAGATGACCACCTCACTTGTTTCAATTCGCTTCTCTGTATCTTATCAGGAAGACGAA
131 TCATCAGGAAGATGACCACCTCACTTGTTTCAATCCGCTT-TCTGTATCTCATCAGGAAGACGAA
28238007 TTTGGTCCACTTCC
195 TTTGGTCCACTTCC
* *
28238021 CTGTATCTCATCAGGAAGCTGACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATC-AGGA
1 CTGTATCTCATCAGGAAGCTGACCATTGTATTGCTTCGACCTGCTTCTCAATATCTCATCAAGG-
* *
28238085 AGCTGGGGTTCGAAGTTTCGCCCACATTGAGCTTTGTTTCATTGATTTGGTATACTTCTTTGTAT
65 AGCTGGGATTCGAAGTTTCGCCCACATTGAGCTTTGTTTCATTGATTTGGTATACTTCTCTGTAT
* *
28238150 CTCATCAGGAAGATGACCGCCTCACTTGTTTTAATCCGCTTTCTGTATCTCATCAGGAAG
130 CTCATCAGGAAGATGACCACCTCACTTGTTTCAATCCGCTTTCTGTATCTCATCAGGAAG
28238210 CTGACCGTTG
Statistics
Matches: 178, Mismatches: 10, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
208 21 0.12
209 157 0.88
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.36
Consensus pattern (208 bp):
CTGTATCTCATCAGGAAGCTGACCATTGTATTGCTTCGACCTGCTTCTCAATATCTCATCAAGGA
GCTGGGATTCGAAGTTTCGCCCACATTGAGCTTTGTTTCATTGATTTGGTATACTTCTCTGTATC
TCATCAGGAAGATGACCACCTCACTTGTTTCAATCCGCTTTCTGTATCTCATCAGGAAGACGAAT
TTGGTCCACTTCC
Found at i:28238306 original size:171 final size:172
Alignment explanation
Indices: 28238016--28238381 Score: 626
Period size: 171 Copynumber: 2.1 Consensus size: 172
28238006 ATTTGGTCCA
* *
28238016 CTTCCCTGTATCTCATCAGGAAGCTGACCATTTTATTGCTTCGACCTGCTTCTCAGTATCTCATC
1 CTTCTCTGTATCTCATCAGGAAGCTGACCATTGTATTGCTTCGACCTGCTTCTCAGTATCTCATC
* * *
28238081 AGGAAGCTGGGGTTCGAAGTTTCGCCCACATTGAGCTTTGTTTCATTGATTTGGTATACTTCTTT
66 AAGAAGCTGGGATTCGAAGTTTCGCCCACATTGAGCTTTGTTTCATTGATTTGGTATACTTCTCT
*
28238146 GTATCTCATCAGGAAGATGACCGCCTCACTTGTTTTAATCCG
131 GTATCTCATCAGGAAGATGACCGCCTCACTTGTTTCAATCCG
*
28238188 CTT-TCTGTATCTCATCAGGAAGCTGACCGTTGTATTGCTTCGACCTGCTTCTCAGTATCTCATC
1 CTTCTCTGTATCTCATCAGGAAGCTGACCATTGTATTGCTTCGACCTGCTTCTCAGTATCTCATC
*
28238252 AAGAAGCTGGGATTCGAAGTTTCGCTCACATTGAGCTTTGTTTCATTGATTTGGTATACTTCTCT
66 AAGAAGCTGGGATTCGAAGTTTCGCCCACATTGAGCTTTGTTTCATTGATTTGGTATACTTCTCT
**
28238317 GTATCTCATCAGGAAGATGACCGCCTCACTTGTTTCAATTTG
131 GTATCTCATCAGGAAGATGACCGCCTCACTTGTTTCAATCCG
*
28238359 CTTCTTTGTATCTCATCAGGAAG
1 CTTCTCTGTATCTCATCAGGAAG
28238382 ACGAATTTGG
Statistics
Matches: 182, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
171 161 0.88
172 21 0.12
ACGTcount: A:0.20, C:0.23, G:0.19, T:0.37
Consensus pattern (172 bp):
CTTCTCTGTATCTCATCAGGAAGCTGACCATTGTATTGCTTCGACCTGCTTCTCAGTATCTCATC
AAGAAGCTGGGATTCGAAGTTTCGCCCACATTGAGCTTTGTTTCATTGATTTGGTATACTTCTCT
GTATCTCATCAGGAAGATGACCGCCTCACTTGTTTCAATCCG
Found at i:28238427 original size:380 final size:380
Alignment explanation
Indices: 28237726--28238483 Score: 1374
Period size: 380 Copynumber: 2.0 Consensus size: 380
28237716 ACTTTAGATA
*
28237726 CCACATTGAGCTTTGTTTCATTGATTTGGTATACTTCTCTATATCTCATCAGGAAAATGACCTCC
1 CCACATTGAGCTTTGTTTCATTGATTTGGTATACTTCTCTATATCTCATCAGGAAAATGACCGCC
28237791 TCACTTGTTTTAATCCGCTTTCTGTATCTCATCAGGAAGCTGACCGTTGTATTGCTTCGACCTGC
66 TCACTTGTTTTAATCCGCTTTCTGTATCTCATCAGGAAGCTGACCGTTGTATTGCTTCGACCTGC
*
28237856 TTCTCAATATCTCATCAAGGAGCTGGGATTCGAAGTTTCGCTCACATTGAGCTTTGTTTCATTGA
131 TTCTCAATATCTCATCAAGAAGCTGGGATTCGAAGTTTCGCTCACATTGAGCTTTGTTTCATTGA
28237921 TTTGGTATACTTCTCTGTATCTCATCAGGAAGATGACCACCTCACTTGTTTCAATTCGCTTCTCT
196 TTTGGTATACTTCTCTGTATCTCATCAGGAAGATGACCACCTCACTTGTTTCAATTCGCTTCTCT
*
28237986 GTATCTTATCAGGAAGACGAATTTGGTCCACTTCCCTGTATCTCATCAGGAAGCTGACCATTTTA
261 GTATCTCATCAGGAAGACGAATTTGGTCCACTTCCCTGTATCTCATCAGGAAGCTGACCATTTTA
* *
28238051 TTGCTTCGACCTGCTTCTCAGTATCTCATCAGGAAGCTGGGGTTCGAAGTTTCGC
326 TTGCTTCGACCTGCTTCTCAATATCTCATCAGGAAGCTGAGGTTCGAAGTTTCGC
* * *
28238106 CCACATTGAGCTTTGTTTCATTGATTTGGTATACTTCTTTGTATCTCATCAGGAAGATGACCGCC
1 CCACATTGAGCTTTGTTTCATTGATTTGGTATACTTCTCTATATCTCATCAGGAAAATGACCGCC
28238171 TCACTTGTTTTAATCCGCTTTCTGTATCTCATCAGGAAGCTGACCGTTGTATTGCTTCGACCTGC
66 TCACTTGTTTTAATCCGCTTTCTGTATCTCATCAGGAAGCTGACCGTTGTATTGCTTCGACCTGC
*
28238236 TTCTCAGTATCTCATCAAGAAGCTGGGATTCGAAGTTTCGCTCACATTGAGCTTTGTTTCATTGA
131 TTCTCAATATCTCATCAAGAAGCTGGGATTCGAAGTTTCGCTCACATTGAGCTTTGTTTCATTGA
* * *
28238301 TTTGGTATACTTCTCTGTATCTCATCAGGAAGATGACCGCCTCACTTGTTTCAATTTGCTTCTTT
196 TTTGGTATACTTCTCTGTATCTCATCAGGAAGATGACCACCTCACTTGTTTCAATTCGCTTCTCT
* *
28238366 GTATCTCATCAGGAAGACGAATTTGGTCCACTTCTCTTTATCTCATCAGGAAG-TAGACCATTTT
261 GTATCTCATCAGGAAGACGAATTTGGTCCACTTCCCTGTATCTCATCAGGAAGCT-GACCATTTT
28238430 ATTGCTTCGACCTGCTTCTCAATATCTCATCAGGAAGCTGAGGTTCGAAGTTTC
325 ATTGCTTCGACCTGCTTCTCAATATCTCATCAGGAAGCTGAGGTTCGAAGTTTC
28238484 CCCCTGCACT
Statistics
Matches: 363, Mismatches: 14, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
379 1 0.00
380 362 1.00
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.37
Consensus pattern (380 bp):
CCACATTGAGCTTTGTTTCATTGATTTGGTATACTTCTCTATATCTCATCAGGAAAATGACCGCC
TCACTTGTTTTAATCCGCTTTCTGTATCTCATCAGGAAGCTGACCGTTGTATTGCTTCGACCTGC
TTCTCAATATCTCATCAAGAAGCTGGGATTCGAAGTTTCGCTCACATTGAGCTTTGTTTCATTGA
TTTGGTATACTTCTCTGTATCTCATCAGGAAGATGACCACCTCACTTGTTTCAATTCGCTTCTCT
GTATCTCATCAGGAAGACGAATTTGGTCCACTTCCCTGTATCTCATCAGGAAGCTGACCATTTTA
TTGCTTCGACCTGCTTCTCAATATCTCATCAGGAAGCTGAGGTTCGAAGTTTCGC
Found at i:28238835 original size:21 final size:21
Alignment explanation
Indices: 28238811--28238851 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
28238801 ACCTTTTCTA
* *
28238811 AAGTTTAAAGTCAAAACCATT
1 AAGTTGAAAGGCAAAACCATT
*
28238832 AAGTTGAAAGGGAAAACCAT
1 AAGTTGAAAGGCAAAACCAT
28238852 ATCGTTTTAA
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:0.49, C:0.12, G:0.17, T:0.22
Consensus pattern (21 bp):
AAGTTGAAAGGCAAAACCATT
Found at i:28239709 original size:9 final size:9
Alignment explanation
Indices: 28239695--28239753 Score: 50
Period size: 9 Copynumber: 6.4 Consensus size: 9
28239685 TTTTAAACTA
28239695 TAAAATTAT
1 TAAAATTAT
28239704 TAAAATTAT
1 TAAAATTAT
* *
28239713 TATATTATTTTT
1 TA-A--AATTAT
28239725 TAAAA-TA-
1 TAAAATTAT
*
28239732 TAAGATTAT
1 TAAAATTAT
28239741 TAAAATTAT
1 TAAAATTAT
28239750 TAAA
1 TAAA
28239754 TAATTTTAAT
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
7 4 0.10
8 3 0.08
9 24 0.62
10 1 0.03
11 1 0.03
12 6 0.15
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (9 bp):
TAAAATTAT
Found at i:28239710 original size:37 final size:37
Alignment explanation
Indices: 28239668--28239760 Score: 116
Period size: 37 Copynumber: 2.5 Consensus size: 37
28239658 CACGTCAGCA
*
28239668 AAAATT-TAAAATTATTTTTTTAAACTATAAAATTATT
1 AAAATTATAAAATTA-TTTTTTAAAATATAAAATTATT
* * *
28239705 AAAATTATTATATTATTTTTTAAAATATAAGATTATT
1 AAAATTATAAAATTATTTTTTAAAATATAAAATTATT
* *
28239742 AAAATTATTAAATAATTTT
1 AAAATTATAAAATTATTTT
28239761 AATCTTATCT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
37 43 0.88
38 6 0.12
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (37 bp):
AAAATTATAAAATTATTTTTTAAAATATAAAATTATT
Found at i:28246499 original size:22 final size:20
Alignment explanation
Indices: 28246447--28246517 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 20
28246437 AAGCCTCTCA
28246447 CTTTTCTTTCTCATTTTTCT
1 CTTTTCTTTCTCATTTTTCT
* *
28246467 CTCATTCCTTTCTTATTGCTTTCT
1 CT--TTTCTTTCTCATT--TTTCT
28246491 CTTTTCTTT-TCCATTTCCTTCT
1 CTTTTCTTTCT-CATTT--TTCT
28246513 CTTTT
1 CTTTT
28246518 AATCACTCCT
Statistics
Matches: 40, Mismatches: 4, Indels: 12
0.71 0.07 0.21
Matches are distributed among these distances:
20 3 0.08
21 1 0.03
22 29 0.73
24 7 0.17
ACGTcount: A:0.06, C:0.28, G:0.01, T:0.65
Consensus pattern (20 bp):
CTTTTCTTTCTCATTTTTCT
Found at i:28256921 original size:209 final size:208
Alignment explanation
Indices: 28256561--28257603 Score: 1432
Period size: 209 Copynumber: 4.9 Consensus size: 208
28256551 TCTTCCTGAT
* * *
28256561 GAAGTGGATCAAAACAAGTGATGCAGTCATCTTCTTGATGAGATACTGAGAAGCAGACCAAGTCA
1 GAAGTGGATCAAAA-AAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAGTCA
* * *
28256626 ATGAAACTAGGCTCAAAGTGAGCAAAT-TCTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGC
65 ATAAAACCAGACTCAAAGTGAGCAAATCT-TCGAACCCCAGCTTCCTGATGAGATACTGAGAAGC
*
28256690 AGGTCGAAGCAATAAAGCGGTTACCTTCTTGATGAGATACAAAGAAGTGAACCAGATCCGTCTTT
129 AGGTCGAAGCAATAAAGCGGTTACCTTCCTGATGAGATACAAAGAAGTGAACCAGATCCGTCTTT
*
28256755 TTGATGAGACACAGA
194 CTGATGAGACACAGA
* *
28256770 GAAGTGGATCAAAATAAGTGATGCGATCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCA
1 GAAGTGGATCAAAA-AAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAGTCA
* *
28256835 ATAAAACCAGACTCAAAGTGAGCAAATCTTCGAACCCCGGCTTCCTGATGAGATACTGAGAAGTA
65 ATAAAACCAGACTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCA
* *
28256900 GGTCGAAGCAATAAAGCGGTTACCTTCCTGATGAGATACAAAGAGGTGAACCAGATCCGTCTTCC
130 GGTCGAAGCAATAAAGCGGTTACCTTCCTGATGAGATACAAAGAAGTGAACCAGATCCGTCTTTC
*
28256965 TGATGAGACATAGA
195 TGATGAGACACAGA
*
28256979 AAAGTGGATC-AAAAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAGTCAA
1 GAAGTGGATCAAAAAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAGTCAA
*
28257043 TCAAAAACCAAAGCAATGAAACTAGGCTCAAAGTGAGCAAATCCTCGAACCCCAGCTTCCTGATG
66 T--AAAA-C----C-A-G-----A--CTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATG
* *
28257108 AGATACTGAGAAGCAGGTCGAAGCAATAAAGCGATTACCTTCTTGATGAGATACAAAGAAGTGAA
115 AGATACTGAGAAGCAGGTCGAAGCAATAAAGCGGTTACCTTCCTGATGAGATACAAAGAAGTGAA
28257173 CCAGATCCGTCTTTCTGATGAGACACAGA
180 CCAGATCCGTCTTTCTGATGAGACACAGA
*
28257202 GAAGTGGATCAAAATAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAATCA
1 GAAGTGGATCAAAA-AAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAGTCA
* *
28257267 ATAAAACCAGACTCAAAGTGAGCAAATCTTCGAACCCCGGCTTCCTGATGAGATACTGAGAAGTA
65 ATAAAACCAGACTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCA
* * *
28257332 GGTCGAAGCAATAAAGCGGTTACCTTCCTGATAAGATACAAAGAGGTGAACCAGATCCGTCTTCC
130 GGTCGAAGCAATAAAGCGGTTACCTTCCTGATGAGATACAAAGAAGTGAACCAGATCCGTCTTTC
*
28257397 TGATGAGACATAGA
195 TGATGAGACACAGA
* *
28257411 AAAGTGGATC-AAAAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAGTCAG
1 GAAGTGGATCAAAAAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAGTCAA
* * * * * ** * *
28257475 TGAAACCAAAGCTCGATGTGAGCGAAA-CGTCGAACCCCAGCTTTTTGAT-AAAGTACTGAGAAA
66 TAAAACCAGA-CTCAAAGTGAGC-AAATCTTCGAACCCCAGCTTCCTGATGAGA-TACTGAGAAG
** * * * * *
28257538 CAGGTCGAAGCAATAAAATGGTCATCTTCCTGACGAGA-AGCAGAGAAGTGAACCAAATCCGTCT
128 CAGGTCGAAGCAATAAAGCGGTTACCTTCCTGATGAGATA-CAAAGAAGTGAACCAGATCCGTCT
28257602 TT
192 TT
28257604 TCTAGTAAAA
Statistics
Matches: 749, Mismatches: 62, Indels: 47
0.87 0.07 0.05
Matches are distributed among these distances:
207 110 0.15
208 96 0.13
209 340 0.45
210 2 0.00
211 1 0.00
214 1 0.00
215 1 0.00
216 2 0.00
217 1 0.00
218 1 0.00
221 1 0.00
222 1 0.00
223 138 0.18
224 3 0.00
225 51 0.07
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.21
Consensus pattern (208 bp):
GAAGTGGATCAAAAAAGTGATGCGGTCATCTTCCTGATGAGATACTGAGAAGTAGACCAAGTCAA
TAAAACCAGACTCAAAGTGAGCAAATCTTCGAACCCCAGCTTCCTGATGAGATACTGAGAAGCAG
GTCGAAGCAATAAAGCGGTTACCTTCCTGATGAGATACAAAGAAGTGAACCAGATCCGTCTTTCT
GATGAGACACAGA
Found at i:28257427 original size:432 final size:432
Alignment explanation
Indices: 28256624--28257473 Score: 1655
Period size: 432 Copynumber: 2.0 Consensus size: 432
28256614 CAGACCAAGT
*
28256624 CAATGAAACTAGGCTCAAAGTGAGCAAATTCTCGAACCCCAGCTTCCTGATGAGATACTGAGAAG
1 CAATGAAACTAGGCTCAAAGTGAGCAAATCCTCGAACCCCAGCTTCCTGATGAGATACTGAGAAG
*
28256689 CAGGTCGAAGCAATAAAGCGGTTACCTTCTTGATGAGATACAAAGAAGTGAACCAGATCCGTCTT
66 CAGGTCGAAGCAATAAAGCGATTACCTTCTTGATGAGATACAAAGAAGTGAACCAGATCCGTCTT
*
28256754 TTTGATGAGACACAGAGAAGTGGATCAAAATAAGTGATGCGATCATCTTCCTGATGAGATACTGA
131 TCTGATGAGACACAGAGAAGTGGATCAAAATAAGTGATGCGATCATCTTCCTGATGAGATACTGA
28256819 GAAGTAGACCAAATCAATAAAACCAGACTCAAAGTGAGCAAATCTTCGAACCCCGGCTTCCTGAT
196 GAAGTAGACCAAATCAATAAAACCAGACTCAAAGTGAGCAAATCTTCGAACCCCGGCTTCCTGAT
*
28256884 GAGATACTGAGAAGTAGGTCGAAGCAATAAAGCGGTTACCTTCCTGATGAGATACAAAGAGGTGA
261 GAGATACTGAGAAGTAGGTCGAAGCAATAAAGCGGTTACCTTCCTGATAAGATACAAAGAGGTGA
28256949 ACCAGATCCGTCTTCCTGATGAGACATAGAAAAGTGGATCAAAAAGTGATGCGGTCATCTTCCTG
326 ACCAGATCCGTCTTCCTGATGAGACATAGAAAAGTGGATCAAAAAGTGATGCGGTCATCTTCCTG
28257014 ATGAGATACTGAGAAGTAGACCAAGTCAATCAAAAACCAAAG
391 ATGAGATACTGAGAAGTAGACCAAGTCAATCAAAAACCAAAG
28257056 CAATGAAACTAGGCTCAAAGTGAGCAAATCCTCGAACCCCAGCTTCCTGATGAGATACTGAGAAG
1 CAATGAAACTAGGCTCAAAGTGAGCAAATCCTCGAACCCCAGCTTCCTGATGAGATACTGAGAAG
28257121 CAGGTCGAAGCAATAAAGCGATTACCTTCTTGATGAGATACAAAGAAGTGAACCAGATCCGTCTT
66 CAGGTCGAAGCAATAAAGCGATTACCTTCTTGATGAGATACAAAGAAGTGAACCAGATCCGTCTT
*
28257186 TCTGATGAGACACAGAGAAGTGGATCAAAATAAGTGATGCGGTCATCTTCCTGATGAGATACTGA
131 TCTGATGAGACACAGAGAAGTGGATCAAAATAAGTGATGCGATCATCTTCCTGATGAGATACTGA
28257251 GAAGTAGACCAAATCAATAAAACCAGACTCAAAGTGAGCAAATCTTCGAACCCCGGCTTCCTGAT
196 GAAGTAGACCAAATCAATAAAACCAGACTCAAAGTGAGCAAATCTTCGAACCCCGGCTTCCTGAT
28257316 GAGATACTGAGAAGTAGGTCGAAGCAATAAAGCGGTTACCTTCCTGATAAGATACAAAGAGGTGA
261 GAGATACTGAGAAGTAGGTCGAAGCAATAAAGCGGTTACCTTCCTGATAAGATACAAAGAGGTGA
28257381 ACCAGATCCGTCTTCCTGATGAGACATAGAAAAGTGGATCAAAAAGTGATGCGGTCATCTTCCTG
326 ACCAGATCCGTCTTCCTGATGAGACATAGAAAAGTGGATCAAAAAGTGATGCGGTCATCTTCCTG
28257446 ATGAGATACTGAGAAGTAGACCAAGTCA
391 ATGAGATACTGAGAAGTAGACCAAGTCA
28257474 GTGAAACCAA
Statistics
Matches: 413, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
432 413 1.00
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.21
Consensus pattern (432 bp):
CAATGAAACTAGGCTCAAAGTGAGCAAATCCTCGAACCCCAGCTTCCTGATGAGATACTGAGAAG
CAGGTCGAAGCAATAAAGCGATTACCTTCTTGATGAGATACAAAGAAGTGAACCAGATCCGTCTT
TCTGATGAGACACAGAGAAGTGGATCAAAATAAGTGATGCGATCATCTTCCTGATGAGATACTGA
GAAGTAGACCAAATCAATAAAACCAGACTCAAAGTGAGCAAATCTTCGAACCCCGGCTTCCTGAT
GAGATACTGAGAAGTAGGTCGAAGCAATAAAGCGGTTACCTTCCTGATAAGATACAAAGAGGTGA
ACCAGATCCGTCTTCCTGATGAGACATAGAAAAGTGGATCAAAAAGTGATGCGGTCATCTTCCTG
ATGAGATACTGAGAAGTAGACCAAGTCAATCAAAAACCAAAG
Found at i:28258012 original size:6 final size:6
Alignment explanation
Indices: 28258003--28258061 Score: 52
Period size: 6 Copynumber: 10.2 Consensus size: 6
28257993 TTAAATTGGT
* ** *
28258003 TTTAAA TTT-AT TTTAAA TTTAAA TTT-GT TTTAAA TTTAAA TTT-AG
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
28258048 TTTAAA TTTGAAA T
1 TTTAAA TTT-AAA T
28258062 GGTTTTAAAC
Statistics
Matches: 41, Mismatches: 8, Indels: 7
0.73 0.14 0.12
Matches are distributed among these distances:
5 11 0.27
6 26 0.63
7 4 0.10
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (6 bp):
TTTAAA
Found at i:28258018 original size:28 final size:28
Alignment explanation
Indices: 28257974--28258055 Score: 112
Period size: 28 Copynumber: 2.9 Consensus size: 28
28257964 AAACTTTTGA
*
28257974 TTTTAAATTTATATTAAGTTTAAATTGG
1 TTTTAAATTTATTTTAAGTTTAAATTGG
* *
28258002 TTTTAAATTTATTTTAAATTTAAATTTG
1 TTTTAAATTTATTTTAAGTTTAAATTGG
*
28258030 TTTTAAATTTAAATTT-AGTTTAAATT
1 TTTTAAATTT-ATTTTAAGTTTAAATT
28258056 TGAAATGGTT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 44 0.92
29 4 0.08
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (28 bp):
TTTTAAATTTATTTTAAGTTTAAATTGG
Found at i:28258023 original size:17 final size:17
Alignment explanation
Indices: 28258003--28258061 Score: 91
Period size: 17 Copynumber: 3.4 Consensus size: 17
28257993 TTAAATTGGT
28258003 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
*
28258020 TTTAAATTTGTTTTAAA
1 TTTAAATTTATTTTAAA
*
28258037 TTTAAATTTAGTTTAAA
1 TTTAAATTTATTTTAAA
28258054 TTTGAAAT
1 TTT-AAAT
28258062 GGTTTTAAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
17 34 0.89
18 4 0.11
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:28258046 original size:34 final size:34
Alignment explanation
Indices: 28258003--28258080 Score: 104
Period size: 34 Copynumber: 2.3 Consensus size: 34
28257993 TTAAATTGGT
* *
28258003 TTTAAATTTATTTTAAATTT-AAATTTGTTTTAAA
1 TTTAAATTTAGTTTAAATTTGAAA-TGGTTTTAAA
28258037 TTTAAATTTAGTTTAAATTTGAAATGGTTTTAAA
1 TTTAAATTTAGTTTAAATTTGAAATGGTTTTAAA
* *
28258071 CTTAATTTTA
1 TTTAAATTTA
28258081 AAATTTAATT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
34 36 0.92
35 3 0.08
ACGTcount: A:0.37, C:0.01, G:0.06, T:0.55
Consensus pattern (34 bp):
TTTAAATTTAGTTTAAATTTGAAATGGTTTTAAA
Found at i:28258068 original size:17 final size:15
Alignment explanation
Indices: 28258013--28258088 Score: 57
Period size: 17 Copynumber: 4.8 Consensus size: 15
28258003 TTTAAATTTA
28258013 TTTTAAATTTAAATTTG
1 TTTTAAATTTAAA--TG
*
28258030 TTTTAAATTTAAATT
1 TTTTAAATTTAAATG
28258045 TAGTTTAAATTTGAAATGG
1 T--TTTAAATTT-AAAT-G
*
28258064 TTTTAAACTT-AAT-
1 TTTTAAATTTAAATG
*
28258077 TTTAAAATTTAA
1 TTTTAAATTTAA
28258089 TTTAAAAAGT
Statistics
Matches: 49, Mismatches: 5, Indels: 13
0.73 0.07 0.19
Matches are distributed among these distances:
13 8 0.16
14 1 0.02
15 5 0.10
17 30 0.61
18 4 0.08
19 1 0.02
ACGTcount: A:0.39, C:0.01, G:0.07, T:0.53
Consensus pattern (15 bp):
TTTTAAATTTAAATG
Found at i:28260849 original size:24 final size:24
Alignment explanation
Indices: 28260822--28260885 Score: 85
Period size: 24 Copynumber: 2.7 Consensus size: 24
28260812 ACTCTATTTG
*
28260822 GGCTCGAATGAGCTAACTTATCTA
1 GGCTCGAATGAGCTAACCTATCTA
*
28260846 GGCTCGTAA-GAACTAACCTATCTA
1 GGCTCG-AATGAGCTAACCTATCTA
*
28260870 GGCTCGTATGAGCTAA
1 GGCTCGAATGAGCTAA
28260886 ATTCCTAGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
23 1 0.03
24 31 0.91
25 2 0.06
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
GGCTCGAATGAGCTAACCTATCTA
Found at i:28266121 original size:78 final size:76
Alignment explanation
Indices: 28266034--28266356 Score: 294
Period size: 78 Copynumber: 4.2 Consensus size: 76
28266024 TCGTGCGATA
* * * *
28266034 TTTATAGTGTCACCGTCAGTTCAAAATAACATT-GCAGTGTTTACAGTGTCACTACTAAG-TCAG
1 TTTACAGTGTCACC-TAAG-TCAATATAAC-TTCGCAGTGTTTACAGTGTCACTACT-GGCTCAG
*
28266097 TATAGCTTCGCAGTG
62 TATAGTTTCGCAGTG
* * * *
28266112 TTTACAGTGTCACTACTAAGTCAGTATAGCTTCGTAGTGTTTGCAGTGTCACTACTGGCTCAGTA
1 TTTACAGTGTCAC--CTAAGTCAATATAACTTCGCAGTGTTTACAGTGTCACTACTGGCTCAGTA
* *
28266177 TAGTTTTGCGGTG
64 TAGTTTCGCAGTG
* * * * * * *
28266190 TTTACAATGTCACTGCTAAGTCAATATAGCTTCGTAATGTTTACAGTGTCACTGCCGGTTCAGTA
1 TTTACAGTGTCAC--CTAAGTCAATATAACTTCGCAGTGTTTACAGTGTCACTACTGGCTCAGTA
28266255 TAGTTTCGCAGTG
64 TAGTTTCGCAGTG
** * * *
28266268 TTTACAGTGTCA-CTACTTTCAATATAACTTCGCAGTGTTTACAATGTCACTA-TCGGTTTAGTA
1 TTTACAGTGTCACCTA-AGTCAATATAACTTCGCAGTGTTTACAGTGTCACTACT-GGCTCAGTA
* *
28266331 TAGTTTTGCATTG
64 TAGTTTCGCAGTG
*
28266344 TTTACAATGTCAC
1 TTTACAGTGTCAC
28266357 TACTTACTTA
Statistics
Matches: 204, Mismatches: 34, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
75 3 0.01
76 59 0.29
77 3 0.01
78 135 0.66
79 3 0.01
80 1 0.00
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.37
Consensus pattern (76 bp):
TTTACAGTGTCACCTAAGTCAATATAACTTCGCAGTGTTTACAGTGTCACTACTGGCTCAGTATA
GTTTCGCAGTG
Done.