Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 144 of 295
Found at i:44600329 original size:27 final size:29
Alignment explanation
Indices: 44600284--44600347 Score: 78
Period size: 27 Copynumber: 2.3 Consensus size: 29
44600274 AAAAAAACTA
* *
44600284 ATTTTTTAATTTTTAAAATTT-T-TATAT
1 ATTTTTAAATTATTAAAATTTATTTATAT
* *
44600311 ATTTTTAAATTATTGAAATTTATTTTTAT
1 ATTTTTAAATTATTAAAATTTATTTATAT
44600340 ATTTTTAA
1 ATTTTTAA
44600348 TTTTAATGAG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 18 0.58
28 1 0.03
29 12 0.39
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (29 bp):
ATTTTTAAATTATTAAAATTTATTTATAT
Found at i:44602302 original size:23 final size:23
Alignment explanation
Indices: 44602276--44602339 Score: 85
Period size: 22 Copynumber: 2.8 Consensus size: 23
44602266 GTAAATAAAA
* *
44602276 ATGGTGATTCGAATACAATTATC
1 ATGGTGATTCCAATACAATTAGC
*
44602299 ATGGTGATTCCAATATAA-TAGC
1 ATGGTGATTCCAATACAATTAGC
*
44602321 ATGATGATTCCAATACAAT
1 ATGGTGATTCCAATACAAT
44602340 GCAAACTAAG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
22 19 0.54
23 16 0.46
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.33
Consensus pattern (23 bp):
ATGGTGATTCCAATACAATTAGC
Found at i:44606372 original size:21 final size:21
Alignment explanation
Indices: 44606346--44606394 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
44606336 TGGTGAAAAT
**
44606346 TATTCTTGAGGACTTGAGACA
1 TATTCTTGAGGACTCAAGACA
*
44606367 TATTCTTGAGGTCTCAAGACA
1 TATTCTTGAGGACTCAAGACA
44606388 TATTCTT
1 TATTCTT
44606395 AATGTCTCGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (21 bp):
TATTCTTGAGGACTCAAGACA
Found at i:44606401 original size:21 final size:21
Alignment explanation
Indices: 44606362--44606402 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
44606352 TGAGGACTTG
*
44606362 AGACATATTCTTGAGGTCTCA
1 AGACATATTCTTAAGGTCTCA
*
44606383 AGACATATTCTTAATGTCTC
1 AGACATATTCTTAAGGTCTC
44606403 GAGAAACTAA
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:0.29, C:0.20, G:0.15, T:0.37
Consensus pattern (21 bp):
AGACATATTCTTAAGGTCTCA
Found at i:44607433 original size:28 final size:29
Alignment explanation
Indices: 44607392--44607451 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 29
44607382 TTAAAGAACT
* * *
44607392 ATCACAATATAACATACATAAAGCGTTGG
1 ATCACAATAAAACACACATAAAGCGTTAG
*
44607421 ATCA-AATAAAACACACATTAAGCGTTAG
1 ATCACAATAAAACACACATAAAGCGTTAG
44607449 ATC
1 ATC
44607452 TCCCACCTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 23 0.85
29 4 0.15
ACGTcount: A:0.47, C:0.18, G:0.12, T:0.23
Consensus pattern (29 bp):
ATCACAATAAAACACACATAAAGCGTTAG
Found at i:44609938 original size:25 final size:25
Alignment explanation
Indices: 44609902--44610016 Score: 78
Period size: 25 Copynumber: 4.6 Consensus size: 25
44609892 GACACACCAC
*
44609902 AGCTCTCTTGAGCTTCCCGATACTT
1 AGCTCTCATGAGCTTCCCGATACTT
* * *
44609927 GGCTCTCATGAGCTTTCCAATA-TT
1 AGCTCTCATGAGCTTCCCGATACTT
* * *
44609951 TGACT-TACAAGAGCTTCCCGATA-TAC
1 AG-CTCT-CATGAGCTTCCCGATACT-T
*
44609977 AGCTCGT-ATGAGCTTCCCGTTACTT
1 AGCTC-TCATGAGCTTCCCGATACTT
44610002 AGCTCAT-ATGAGCTT
1 AGCTC-TCATGAGCTT
44610017 TCCATTATAT
Statistics
Matches: 70, Mismatches: 14, Indels: 12
0.73 0.15 0.12
Matches are distributed among these distances:
24 4 0.06
25 63 0.90
26 2 0.03
27 1 0.01
ACGTcount: A:0.22, C:0.27, G:0.17, T:0.34
Consensus pattern (25 bp):
AGCTCTCATGAGCTTCCCGATACTT
Found at i:44611229 original size:53 final size:53
Alignment explanation
Indices: 44611172--44611340 Score: 146
Period size: 53 Copynumber: 3.1 Consensus size: 53
44611162 AAGTCAGAGA
44611172 GCTCACAAGTTTGGACACGGGCTTGGACACGGCCGTGTGCCCCTATTTCGAAT
1 GCTCACAAGTTTGGACACGGGCTTGGACACGGCCGTGTGCCCCTATTTCGAAT
* * * * * * ** * * **
44611225 GCTCACACGGCCTAGCACATGAGGGTGTGG-CTTGGTCGTGTG-ACCTAAGTCAGAGA-
1 GCTCACA-AG-TTTGGACACG-GGCT-TGGACACGGCCGTGTGCCCCTATTTC-GA-AT
*
44611281 GCTCACAAGTTTGGACACGGGCTTGGACACGGCCGTGTGCCCCTATTTTGAAT
1 GCTCACAAGTTTGGACACGGGCTTGGACACGGCCGTGTGCCCCTATTTCGAAT
44611334 GCTCACA
1 GCTCACA
44611341 CGGCTTGAGA
Statistics
Matches: 82, Mismatches: 25, Indels: 18
0.66 0.20 0.14
Matches are distributed among these distances:
52 4 0.05
53 28 0.34
54 12 0.15
55 13 0.16
56 21 0.26
57 4 0.05
ACGTcount: A:0.20, C:0.27, G:0.30, T:0.24
Consensus pattern (53 bp):
GCTCACAAGTTTGGACACGGGCTTGGACACGGCCGTGTGCCCCTATTTCGAAT
Found at i:44611303 original size:109 final size:109
Alignment explanation
Indices: 44611112--44611344 Score: 448
Period size: 109 Copynumber: 2.1 Consensus size: 109
44611102 GAACAAAACA
44611112 GAATGCTCACACGGCCTAGCACATGAGCGTGTGGCTTGGTCGTGTGACCTAAGTCAGAGAGCTCA
1 GAATGCTCACACGGCCTAGCACATGAGCGTGTGGCTTGGTCGTGTGACCTAAGTCAGAGAGCTCA
44611177 CAAGTTTGGACACGGGCTTGGACACGGCCGTGTGCCCCTATTTC
66 CAAGTTTGGACACGGGCTTGGACACGGCCGTGTGCCCCTATTTC
*
44611221 GAATGCTCACACGGCCTAGCACATGAGGGTGTGGCTTGGTCGTGTGACCTAAGTCAGAGAGCTCA
1 GAATGCTCACACGGCCTAGCACATGAGCGTGTGGCTTGGTCGTGTGACCTAAGTCAGAGAGCTCA
*
44611286 CAAGTTTGGACACGGGCTTGGACACGGCCGTGTGCCCCTATTTT
66 CAAGTTTGGACACGGGCTTGGACACGGCCGTGTGCCCCTATTTC
44611330 GAATGCTCACACGGC
1 GAATGCTCACACGGC
44611345 TTGAGACACC
Statistics
Matches: 122, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
109 122 1.00
ACGTcount: A:0.21, C:0.26, G:0.30, T:0.23
Consensus pattern (109 bp):
GAATGCTCACACGGCCTAGCACATGAGCGTGTGGCTTGGTCGTGTGACCTAAGTCAGAGAGCTCA
CAAGTTTGGACACGGGCTTGGACACGGCCGTGTGCCCCTATTTC
Found at i:44611376 original size:109 final size:109
Alignment explanation
Indices: 44611112--44611376 Score: 363
Period size: 109 Copynumber: 2.4 Consensus size: 109
44611102 GAACAAAACA
* * * ** *
44611112 GAATGCTCACACGGCCTAGCACATGAGCGTGTGGCTTGGTCGTGTGACCTAAGTCAGAGAGCTCA
1 GAATGCTCACACGGCCTAGCACACGAGGGTGTCGCTTGACCATGTGACCTAAGTCAGAGAGCTCA
44611177 CAAGTTTGGACACGGGCTTGGACACGGCCGTGTGCCCCTATTTC
66 CAAGTTTGGACACGGGCTTGGACACGGCCGTGTGCCCCTATTTC
* * ** *
44611221 GAATGCTCACACGGCCTAGCACATGAGGGTGTGGCTTGGTCGTGTGACCTAAGTCAGAGAGCTCA
1 GAATGCTCACACGGCCTAGCACACGAGGGTGTCGCTTGACCATGTGACCTAAGTCAGAGAGCTCA
*
44611286 CAAGTTTGGACACGGGCTTGGACACGGCCGTGTGCCCCTATTTT
66 CAAGTTTGGACACGGGCTTGGACACGGCCGTGTGCCCCTATTTC
* * *
44611330 GAATGCTCACACGGCTTGAG-ACACCG-GTGTGTCTCTTGACCATGTGA
1 GAATGCTCACACGGCCT-AGCACA-CGAGGGTGTCGCTTGACCATGTGA
44611377 GCCACACGGC
Statistics
Matches: 144, Mismatches: 10, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
109 141 0.98
110 3 0.02
ACGTcount: A:0.20, C:0.26, G:0.30, T:0.24
Consensus pattern (109 bp):
GAATGCTCACACGGCCTAGCACACGAGGGTGTCGCTTGACCATGTGACCTAAGTCAGAGAGCTCA
CAAGTTTGGACACGGGCTTGGACACGGCCGTGTGCCCCTATTTC
Found at i:44613383 original size:27 final size:28
Alignment explanation
Indices: 44613353--44613411 Score: 84
Period size: 27 Copynumber: 2.1 Consensus size: 28
44613343 TAGGAAAACT
* **
44613353 AAGAATAGCTTTTGTGGTGAATTCTG-A
1 AAGAATAGCCTTTGTGGCAAATTCTGTA
44613380 AAGAATAGCCTTTGTGGCAAATTCTGTA
1 AAGAATAGCCTTTGTGGCAAATTCTGTA
44613408 AAGA
1 AAGA
44613412 TTGCCCTAGT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 23 0.82
28 5 0.18
ACGTcount: A:0.34, C:0.10, G:0.24, T:0.32
Consensus pattern (28 bp):
AAGAATAGCCTTTGTGGCAAATTCTGTA
Found at i:44614676 original size:20 final size:20
Alignment explanation
Indices: 44614635--44614688 Score: 58
Period size: 20 Copynumber: 2.7 Consensus size: 20
44614625 CTAAGATAAG
* *
44614635 GTATCAGTGCCTTTAAGGAA
1 GTATCAGTACCTTTAAGCAA
44614655 GTATCAGTACC-TTAAGTCAA
1 GTATCAGTACCTTTAAG-CAA
44614675 GTATC-GATACCTTT
1 GTATCAG-TACCTTT
44614689 TGATTTAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
19 6 0.21
20 21 0.72
21 2 0.07
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.33
Consensus pattern (20 bp):
GTATCAGTACCTTTAAGCAA
Found at i:44619178 original size:48 final size:44
Alignment explanation
Indices: 44619096--44619211 Score: 124
Period size: 48 Copynumber: 2.5 Consensus size: 44
44619086 CATTGATTGT
* * *
44619096 TTTATTATTAGATTCAAATTTTGACATATTTTTATCGTAACCAATTAA
1 TTTATTATTAGATTCAAAATTTGACAAATCTTTATC---A-CAATTAA
* *
44619144 TTTATTATTAGATTCAAAATTTGATAAATCTTTATCATAATTAA
1 TTTATTATTAGATTCAAAATTTGACAAATCTTTATCACAATTAA
* **
44619188 CTTATTGCTAGATTCAAAATTTGA
1 TTTATTATTAGATTCAAAATTTGA
44619212 AAGACTTTTA
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
44 27 0.45
45 1 0.02
48 32 0.53
ACGTcount: A:0.37, C:0.09, G:0.07, T:0.47
Consensus pattern (44 bp):
TTTATTATTAGATTCAAAATTTGACAAATCTTTATCACAATTAA
Found at i:44619744 original size:13 final size:13
Alignment explanation
Indices: 44619726--44619750 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44619716 ATTTATTTAT
44619726 AAAAAAATATGGC
1 AAAAAAATATGGC
44619739 AAAAAAATATGG
1 AAAAAAATATGG
44619751 ACATAACTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.04, G:0.16, T:0.16
Consensus pattern (13 bp):
AAAAAAATATGGC
Found at i:44621232 original size:2 final size:2
Alignment explanation
Indices: 44621227--44621254 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
44621217 TTTCCGTTTG
44621227 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
44621255 AAAGCCCGCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:44633525 original size:25 final size:25
Alignment explanation
Indices: 44633497--44633554 Score: 107
Period size: 25 Copynumber: 2.3 Consensus size: 25
44633487 ATGTTGATAT
44633497 GTTTAATTTAATTAATATGGCTTAA
1 GTTTAATTTAATTAATATGGCTTAA
44633522 GTTTAATTTAATTAATATGGCTTAA
1 GTTTAATTTAATTAATATGGCTTAA
*
44633547 ATTTAATT
1 GTTTAATT
44633555 CGTGTTAGGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.36, C:0.03, G:0.10, T:0.50
Consensus pattern (25 bp):
GTTTAATTTAATTAATATGGCTTAA
Found at i:44635257 original size:19 final size:21
Alignment explanation
Indices: 44635208--44635257 Score: 52
Period size: 19 Copynumber: 2.5 Consensus size: 21
44635198 AGAAAATTTT
44635208 TAAT-TAATGATGAATTGAGAA
1 TAATATAATGATGAATT-AGAA
*
44635229 TAATAAAATG-TGAATT-GAA
1 TAATATAATGATGAATTAGAA
*
44635248 TTATATAATG
1 TAATATAATG
44635258 CAATTGAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
19 11 0.44
21 10 0.40
22 4 0.16
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (21 bp):
TAATATAATGATGAATTAGAA
Found at i:44637323 original size:28 final size:28
Alignment explanation
Indices: 44637283--44637336 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
44637273 GGTTACGGAG
*
44637283 CATTACCGTAAAATTATAACTTAAAAAA
1 CATTACCGTAAAATCATAACTTAAAAAA
*
44637311 CATTACTGTAAAATCATAACTTAAAA
1 CATTACCGTAAAATCATAACTTAAAA
44637337 TATTCATTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.52, C:0.15, G:0.04, T:0.30
Consensus pattern (28 bp):
CATTACCGTAAAATCATAACTTAAAAAA
Found at i:44643620 original size:27 final size:27
Alignment explanation
Indices: 44643590--44643665 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 27
44643580 TGTCTTGATA
** * *
44643590 GACTAACCCATTTTTACTGTCCTAGTG
1 GACTAACTAATTTTTACTGTCCGAGCG
* *
44643617 GACTAACTTATTTTTACTGTCCGGGCG
1 GACTAACTAATTTTTACTGTCCGAGCG
44643644 GACTAACTAATTTTTACTGTCC
1 GACTAACTAATTTTTACTGTCC
44643666 CGATGAACTA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.38
Consensus pattern (27 bp):
GACTAACTAATTTTTACTGTCCGAGCG
Found at i:44643675 original size:27 final size:27
Alignment explanation
Indices: 44643590--44643677 Score: 88
Period size: 27 Copynumber: 3.3 Consensus size: 27
44643580 TGTCTTGATA
** *
44643590 GACTAACCCATTTTTACTGT-CCTAGTG
1 GACTAACTAATTTTTACTGTCCCGA-TG
* * **
44643617 GACTAACTTATTTTTACTGTCCGGGCG
1 GACTAACTAATTTTTACTGTCCCGATG
44643644 GACTAACTAATTTTTACTGTCCCGATG
1 GACTAACTAATTTTTACTGTCCCGATG
*
44643671 AACTAAC
1 GACTAAC
44643678 CTATGTTTAC
Statistics
Matches: 49, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
27 48 0.98
28 1 0.02
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.35
Consensus pattern (27 bp):
GACTAACTAATTTTTACTGTCCCGATG
Found at i:44643702 original size:54 final size:54
Alignment explanation
Indices: 44643589--44643702 Score: 122
Period size: 54 Copynumber: 2.1 Consensus size: 54
44643579 TTGTCTTGAT
* * * * * * *
44643589 AGACTAACCCATTTTTACTGTCCTAGTGGACTAACTTATTTTTACTGTCCGGGC
1 AGACTAACCAATTTTTACTGTCCGAGTGAACTAACCTATGTTTACTATCCGAGC
* * *
44643643 GGACTAACTAATTTTTACTGTCCCGA-TGAACTAACCTATGTTTACTATCCTAGC
1 AGACTAACCAATTTTTACTGT-CCGAGTGAACTAACCTATGTTTACTATCCGAGC
44643697 AGACTA
1 AGACTA
44643703 CCCCATGTTT
Statistics
Matches: 48, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
54 45 0.94
55 3 0.06
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (54 bp):
AGACTAACCAATTTTTACTGTCCGAGTGAACTAACCTATGTTTACTATCCGAGC
Found at i:44650853 original size:30 final size:28
Alignment explanation
Indices: 44650817--44650907 Score: 73
Period size: 30 Copynumber: 3.2 Consensus size: 28
44650807 ATTAAAACTT
44650817 ATTAAAATTTATAATAATTATTAGAAATTA
1 ATTAAAATTTATAA-AATT-TTAGAAATTA
*** *
44650847 ATTAAAAACCATAAAAATTTAGAAA--A
1 ATTAAAATTTATAAAATTTTAGAAATTA
*
44650873 A--ATAATTTATAAAAATTGTTAGAAATTA
1 ATTAAAATTTAT-AAAATT-TTAGAAATTA
44650901 ATTAAAA
1 ATTAAAA
44650908 ACCATAAAAT
Statistics
Matches: 45, Mismatches: 10, Indels: 12
0.67 0.15 0.18
Matches are distributed among these distances:
24 5 0.11
25 5 0.11
26 9 0.20
28 9 0.20
29 3 0.07
30 14 0.31
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.35
Consensus pattern (28 bp):
ATTAAAATTTATAAAATTTTAGAAATTA
Found at i:44650897 original size:54 final size:54
Alignment explanation
Indices: 44650822--44650934 Score: 183
Period size: 54 Copynumber: 2.1 Consensus size: 54
44650812 AACTTATTAA
*
44650822 AATTTATAATAATTATTAGAAATTAATTAAAAACCATAAAAATTTAG-AAAAAAT
1 AATTTATAAAAATTATTAGAAATTAATTAAAAACCAT-AAAATTTAGTAAAAAAT
* *
44650876 AATTTATAAAAATTGTTAGAAATTAATTAAAAACCATAAAATTTTGTAAAAAAT
1 AATTTATAAAAATTATTAGAAATTAATTAAAAACCATAAAATTTAGTAAAAAAT
44650930 AATTT
1 AATTT
44650935 TTTTCCAAAA
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
53 8 0.15
54 47 0.85
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.35
Consensus pattern (54 bp):
AATTTATAAAAATTATTAGAAATTAATTAAAAACCATAAAATTTAGTAAAAAAT
Found at i:44651121 original size:33 final size:33
Alignment explanation
Indices: 44651060--44651137 Score: 86
Period size: 33 Copynumber: 2.4 Consensus size: 33
44651050 TTTCTAACAA
** * **
44651060 TTTTAATAAATTATTTTTCTAAATTTTTATGGT
1 TTTTAATAAATTATTTTAATAAACTTTTATAAT
44651093 TTTTAATAAATTATTTTAA-ATAACTTTTATAAT
1 TTTTAATAAATTATTTTAATA-AACTTTTATAAT
*
44651126 TTTTAATTAATT
1 TTTTAATAAATT
44651138 TATAATAATT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
32 1 0.03
33 37 0.97
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.59
Consensus pattern (33 bp):
TTTTAATAAATTATTTTAATAAACTTTTATAAT
Found at i:44651129 original size:9 final size:9
Alignment explanation
Indices: 44651112--44651189 Score: 52
Period size: 9 Copynumber: 8.4 Consensus size: 9
44651102 ATTATTTTAA
*
44651112 ATAACTTTT
1 ATAATTTTT
44651121 ATAA-TTTT
1 ATAATTTTT
44651129 -TAATTAATTT
1 ATAATT--TTT
**
44651139 ATAATAATT
1 ATAATTTTT
*
44651148 ATAATTTTA
1 ATAATTTTT
*
44651157 ATCAATTTTA
1 AT-AATTTTT
*
44651167 ATGACTTTTT
1 AT-AATTTTT
44651177 ATAATTTTT
1 ATAATTTTT
44651186 ATAA
1 ATAA
44651190 AAAAAATTAT
Statistics
Matches: 55, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
7 3 0.05
8 5 0.09
9 24 0.44
10 19 0.35
11 4 0.07
ACGTcount: A:0.40, C:0.04, G:0.01, T:0.55
Consensus pattern (9 bp):
ATAATTTTT
Found at i:44651150 original size:27 final size:25
Alignment explanation
Indices: 44651119--44651168 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 25
44651109 TAAATAACTT
*
44651119 TTATAATTTTTAATTAATTTATAATAA
1 TTATAA-TTTTAATCAATTT-TAATAA
44651146 TTATAATTTTAATCAATTTTAAT
1 TTATAATTTTAATCAATTTTAAT
44651169 GACTTTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 4 0.18
26 12 0.55
27 6 0.27
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (25 bp):
TTATAATTTTAATCAATTTTAATAA
Found at i:44681680 original size:14 final size:15
Alignment explanation
Indices: 44681661--44681690 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
44681651 ATATTTGACT
44681661 TGTTCTTAATT-ATG
1 TGTTCTTAATTCATG
44681675 TGTTCTTAATTCATG
1 TGTTCTTAATTCATG
44681690 T
1 T
44681691 TTTAATATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.20, C:0.10, G:0.13, T:0.57
Consensus pattern (15 bp):
TGTTCTTAATTCATG
Found at i:44683551 original size:93 final size:93
Alignment explanation
Indices: 44683443--44683613 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
44683433 CGCCCTAAGT
* * *
44683443 GAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCAGACTCAACTCAACGAG-TTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
44683507 ACGAGTTTGGATGCCTAGTTACATCTCAC
65 ACGAGTTCGGATGCCTAGTTACATCTCAC
*
44683536 GAACTCAGACTCAACTCAACGAGTTCGGACATTCGTATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
44683601 CGAGTTCGGATGC
66 CGAGTTCGGATGC
44683614 TCAACCATCC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:44683607 original size:46 final size:46
Alignment explanation
Indices: 44683438--44683610 Score: 183
Period size: 46 Copynumber: 3.7 Consensus size: 46
44683428 TAACCCGCCC
* * *
44683438 TAAGTGAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAG-TTCGGACATTCGTATCCA
* * * *
44683484 TAAGTGAACTCGGACTCAACTCAACGAGTTTGG--ATGCCTAGTTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGTA--TCCA
* * *
44683530 TCTCA-CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGTATCCA
1 --TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGTATCCA
44683577 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
44683611 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
44 3 0.03
45 4 0.04
46 61 0.59
47 29 0.28
48 2 0.02
49 5 0.05
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGTATCCA
Found at i:44690577 original size:47 final size:49
Alignment explanation
Indices: 44690501--44690630 Score: 139
Period size: 46 Copynumber: 2.8 Consensus size: 49
44690491 AACTCGCCCC
* * *
44690501 TAAGTGAACTCGAACTCAACTCAATGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A-TTCACATCCA
* *
44690549 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTCGCATCCA
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATCCA
*
44690594 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
44690631 TCAACCATCC
Statistics
Matches: 68, Mismatches: 7, Indels: 13
0.77 0.08 0.15
Matches are distributed among these distances:
42 2 0.03
43 4 0.06
44 2 0.03
45 2 0.03
46 29 0.43
47 27 0.40
48 2 0.03
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (49 bp):
TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATCCA
Found at i:44690646 original size:46 final size:44
Alignment explanation
Indices: 44690503--44690646 Score: 123
Period size: 46 Copynumber: 3.1 Consensus size: 44
44690493 CTCGCCCCTA
* *
44690503 AGTGAACTCGAACTCAACTCAATGAGTTCGGATGCCTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT
* * * *
44690550 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATCT
44690596 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CT
44690642 AGTGA
1 AGTGA
44690647 CATGTCACTT
Statistics
Matches: 78, Mismatches: 11, Indels: 16
0.74 0.10 0.15
Matches are distributed among these distances:
44 9 0.12
45 1 0.01
46 33 0.42
47 29 0.37
48 1 0.01
49 4 0.05
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCT
Found at i:44693382 original size:18 final size:19
Alignment explanation
Indices: 44693343--44693384 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
44693333 GTTGTGATTT
* *
44693343 GGCTATATGGGCCGGAATG
1 GGCTAAATGGGCCCGAATG
44693362 GGCTAAATGGGCCCG-ATG
1 GGCTAAATGGGCCCGAATG
44693380 GGCTA
1 GGCTA
44693385 TTGGGCCCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.21, C:0.19, G:0.40, T:0.19
Consensus pattern (19 bp):
GGCTAAATGGGCCCGAATG
Found at i:44693509 original size:29 final size:29
Alignment explanation
Indices: 44693477--44693560 Score: 98
Period size: 29 Copynumber: 2.9 Consensus size: 29
44693467 GCCTAACGGG
44693477 CCATATAAATGTGATTTGGGCCTAATGAA
1 CCATATAAATGTGATTTGGGCCTAATGAA
* * **
44693506 CCATATACAGGTGATTTGGGCCTAATGGG
1 CCATATAAATGTGATTTGGGCCTAATGAA
* * *
44693535 CCATATGAATATGA-TTGGGCTTAATG
1 CCATATAAATGTGATTTGGGCCTAATG
44693561 GGCCAGATAC
Statistics
Matches: 46, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
28 11 0.24
29 35 0.76
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (29 bp):
CCATATAAATGTGATTTGGGCCTAATGAA
Found at i:44706560 original size:28 final size:28
Alignment explanation
Indices: 44706520--44706577 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
44706510 ATAGTTAAGA
44706520 GTAAGACTGATGTTTTTACAAGAGATTT
1 GTAAGACTGATGTTTTTACAAGAGATTT
44706548 GTAAGACTGATGTTTTTACAAGAGATTT
1 GTAAGACTGATGTTTTTACAAGAGATTT
44706576 GT
1 GT
44706578 GAAGCTTAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.31, C:0.07, G:0.22, T:0.40
Consensus pattern (28 bp):
GTAAGACTGATGTTTTTACAAGAGATTT
Found at i:44719504 original size:11 final size:11
Alignment explanation
Indices: 44719488--44719516 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
44719478 AGCCGAATAG
44719488 AAGAAAGAAAA
1 AAGAAAGAAAA
44719499 AAGAAAGAAAA
1 AAGAAAGAAAA
44719510 AA-AAAGA
1 AAGAAAGA
44719517 GAGAAAAAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.28
11 13 0.72
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (11 bp):
AAGAAAGAAAA
Found at i:44719512 original size:14 final size:14
Alignment explanation
Indices: 44719488--44719524 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
44719478 AGCCGAATAG
44719488 AAGAAAGAAAAAAGA
1 AAGAAA-AAAAAAGA
44719503 AAGAAAAAAAAAGA
1 AAGAAAAAAAAAGA
*
44719517 GAGAAAAA
1 AAGAAAAA
44719525 GCTCTCATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (14 bp):
AAGAAAAAAAAAGA
Found at i:44720155 original size:38 final size:38
Alignment explanation
Indices: 44720113--44720354 Score: 457
Period size: 38 Copynumber: 6.4 Consensus size: 38
44720103 AACATAGACA
44720113 TGTATGTTCGGCCACATGAATGAGTACATAAGTTGATG
1 TGTATGTTCGGCCACATGAATGAGTACATAAGTTGATG
44720151 TGTATGTTCGGCCACATGAATGAGTACATAAGTTGATG
1 TGTATGTTCGGCCACATGAATGAGTACATAAGTTGATG
*
44720189 TGTATGTTCGGCCACATGAAGGAGTACATAAGTTGATG
1 TGTATGTTCGGCCACATGAATGAGTACATAAGTTGATG
*
44720227 TGTATATTCGGCCACATGAATGAGTACATAAGTTGATG
1 TGTATGTTCGGCCACATGAATGAGTACATAAGTTGATG
44720265 TGTATGTTCGGCCACATGAATGAGTACATAAGTTGATG
1 TGTATGTTCGGCCACATGAATGAGTACATAAGTTGATG
44720303 TGTATGTTCGGCCACATGAATGAGTACATAAGTTGATG
1 TGTATGTTCGGCCACATGAATGAGTACATAAGTTGATG
*
44720341 TGTGTGTTCGGCCA
1 TGTATGTTCGGCCA
44720355 TAGGTAAGCA
Statistics
Matches: 199, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 199 1.00
ACGTcount: A:0.28, C:0.14, G:0.27, T:0.31
Consensus pattern (38 bp):
TGTATGTTCGGCCACATGAATGAGTACATAAGTTGATG
Found at i:44721044 original size:40 final size:41
Alignment explanation
Indices: 44720950--44721170 Score: 203
Period size: 40 Copynumber: 5.6 Consensus size: 41
44720940 TATTCGAATG
* * *
44720950 ATATCCAGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTCGTGCTA-GTGACT
* * * *
44720991 ATAACCAGACTAAGAT-CCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCCGAAGGCATTCGTGCTAG-TGACT
* * *
44721031 ATATCCGGGCTAAGA-CCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCCGAAGGCATTCGTGCTAGTGACT
*
44721071 ATATCCGGGCTAAG-TCCCGAAGGCA-TCTGTGCTAGTGACC
1 ATATCCGGGCTAAGATCCCGAAGGCATTC-GTGCTAGTGACT
* * *
44721111 ATATCCGGGCTAAGA-CCCGAAGGCCTT-GTGCAAGT-AGTT
1 ATATCCGGGCTAAGATCCCGAAGGCATTCGTGCTAGTGA-CT
44721150 ATATCC-GGCTAA-ATCCCGAAG
1 ATATCCGGGCTAAGATCCCGAAG
44721171 ATTACTTGAT
Statistics
Matches: 150, Mismatches: 20, Indels: 23
0.78 0.10 0.12
Matches are distributed among these distances:
37 1 0.01
38 14 0.09
39 15 0.10
40 89 0.59
41 30 0.20
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (41 bp):
ATATCCGGGCTAAGATCCCGAAGGCATTCGTGCTAGTGACT
Found at i:44728354 original size:38 final size:38
Alignment explanation
Indices: 44728312--44728510 Score: 217
Period size: 38 Copynumber: 5.4 Consensus size: 38
44728302 AACATAGACA
*
44728312 TGTATGTTCGGCCACATGAATCAGTACATAAGTTGATG
1 TGTATGTTCGGCCACATGAATGAGTACATAAGTTGATG
44728350 TGTATGTTCGGCCACATG-ATGAGTACATAAGTTTGGATG
1 TGTATGTTCGGCCACATGAATGAGTACATAAG-TT-GATG
44728389 TGTAATGTTGGGTTCGGCCACATGAATGAGTAC--------ATG
1 TGT-A---T--GTTCGGCCACATGAATGAGTACATAAGTTGATG
44728425 T-TA--TTCGG-CACATGAATGAGTACATAAGTTGATG
1 TGTATGTTCGGCCACATGAATGAGTACATAAGTTGATG
44728459 TGTATGTTCGGCCACATGAATGAGTACATAAGTTGATG
1 TGTATGTTCGGCCACATGAATGAGTACATAAGTTGATG
*
44728497 TGTGTGTTCGGCCA
1 TGTATGTTCGGCCA
44728511 TAGGTAAGCA
Statistics
Matches: 138, Mismatches: 2, Indels: 42
0.76 0.01 0.23
Matches are distributed among these distances:
26 15 0.11
27 5 0.04
34 5 0.04
35 3 0.02
36 4 0.03
37 17 0.12
38 59 0.43
39 7 0.05
40 1 0.01
43 1 0.01
45 13 0.09
46 8 0.06
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.32
Consensus pattern (38 bp):
TGTATGTTCGGCCACATGAATGAGTACATAAGTTGATG
Found at i:44729196 original size:40 final size:40
Alignment explanation
Indices: 44729096--44729279 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 40
44729086 TATTCGAATG
* * *
44729096 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCTA-GTGACT
* * * * *
44729137 ATAACTGGACTAA-ATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCTAG-TGACT
* * *
44729176 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCTAGTGACT
* *
44729216 ATATCCGGGCTAAGTCCCGAAGGCA-TCTGTGCTAGTGACC
1 ATATCCGGGCTAAGACCCGAAGGCATTC-GTGCTAGTGACT
44729256 ATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
44729280 CTTGTGCAAG
Statistics
Matches: 117, Mismatches: 22, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
39 15 0.13
40 92 0.79
41 10 0.09
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCTAGTGACT
Found at i:44729236 original size:80 final size:78
Alignment explanation
Indices: 44729096--44729315 Score: 241
Period size: 80 Copynumber: 2.8 Consensus size: 78
44729086 TATTCGAATG
* * * * *
44729096 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACTGGACTAAAT-CCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC-TTTGTGCTA-G-GATTATATCCGGGCTAAATCCCGAAGGC
*
44729160 AT-TCGTGCGAGTTG-CT
63 ATCT-GTGCGAG-TGACC
*
44729176 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGC-TTTGTGCTAG-GATTATATCCGGGCTAAATCCCGAAGGCA
*
44729241 TCTGTGCTAGTGACC
64 TCTGTGCGAGTGACC
* * *
44729256 ATATCCGGGCTAAGACCCGAAGGCCTTGTGCAAGTAGTTATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGACCCGAAGGCTTTGTGCTAGGA-TTATATCCGGGCTAAATCCCGAAG
44729316 ATTACTTGAG
Statistics
Matches: 122, Mismatches: 14, Indels: 10
0.84 0.10 0.07
Matches are distributed among these distances:
78 15 0.12
79 33 0.27
80 73 0.60
81 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.25
Consensus pattern (78 bp):
ATATCCGGGCTAAGACCCGAAGGCTTTGTGCTAGGATTATATCCGGGCTAAATCCCGAAGGCATC
TGTGCGAGTGACC
Found at i:44750031 original size:40 final size:40
Alignment explanation
Indices: 44749931--44750195 Score: 286
Period size: 40 Copynumber: 6.7 Consensus size: 40
44749921 GCTCCTCGTT
* * * *
44749931 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* **
44749971 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
44750010 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
44750050 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
44750090 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
44750130 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
44750171 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
44750196 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 22, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
39 39 0.20
40 143 0.73
41 15 0.08
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:44750155 original size:80 final size:80
Alignment explanation
Indices: 44749898--44750195 Score: 263
Period size: 80 Copynumber: 3.7 Consensus size: 80
44749888 AAATCACGTA
* ** * * *
44749898 CCTTCGGGATTTAA-CCGGATATAGCTC-CTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTTT
1 CCTTCGGGACTTAACCCGGATATAG-TCACTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
44749960 AGTAACTCACAC-AATG
64 AATAACTCGCACAAATG
* * * *
44749976 CCTTCGGGACATAACCCGGATTTA-ACAACTCGCACGAATGCCTTCGGGACTTAACCCGG-ATTT
1 CCTTCGGGACTTAACCCGGATATAGTC-ACTCGCAC-AAAGCCTTCGGGACTTAACCCGGAATTT
*
44750039 AATAACTCGCACGAATG
64 AATAACTCGCACAAATG
* *
44750056 CCTTCGGGACTTAACCCGGATTTAGT-ATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGAATTT
1 CCTTCGGGACTTAACCCGGATATAGTCA-CTCGCACAAA-GCCTTCGGGACTTAACCCGGAATTT
* *
44750120 -GTATCTCGCACAAATG
64 AATAACTCGCACAAATG
** * * *
44750136 CCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTAACCCGGATATAGTCAC-TCGCACAAAGCCTTCGGGACTTAACCCGGA
44750196 CAGCATTCAA
Statistics
Matches: 182, Mismatches: 26, Indels: 22
0.79 0.11 0.10
Matches are distributed among these distances:
77 1 0.01
78 12 0.07
79 50 0.27
80 106 0.58
81 13 0.07
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAACCCGGATATAGTCACTCGCACAAAGCCTTCGGGACTTAACCCGGAATTTAA
TAACTCGCACAAATG
Found at i:44750204 original size:41 final size:41
Alignment explanation
Indices: 44750127--44750204 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
44750117 TTTGTATCTC
* * *
44750127 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
44750168 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
44750205 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:44757541 original size:39 final size:40
Alignment explanation
Indices: 44757496--44757667 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
44757486 GCTCCTCGTT
* * *
44757496 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
44757536 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
44757575 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
44757615 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
44757655 CAAATGCCTTCGG
1 CAAATGCCTTCGG
44757668 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:44757596 original size:40 final size:39
Alignment explanation
Indices: 44757498--44757720 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
44757488 TCCTCGTTCA
* * * *
44757498 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
44757537 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
44757576 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
44757616 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
44757656 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
44757697 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
44757721 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 40 0.25
40 105 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:44757680 original size:80 final size:79
Alignment explanation
Indices: 44757496--44757720 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
44757486 GCTCCTCGTT
* * * * *
44757496 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
44757560 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
44757575 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
44757640 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
44757655 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
44757719 GA
63 GA
44757721 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 69 0.57
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:44757729 original size:41 final size:41
Alignment explanation
Indices: 44757652--44757729 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
44757642 TTTGTATCTC
* * *
44757652 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
44757693 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
44757730 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:44759619 original size:12 final size:12
Alignment explanation
Indices: 44759602--44759632 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
44759592 GAAGAAATCA
44759602 GAGATTTAACCG
1 GAGATTTAACCG
*
44759614 GAGATTTACCCG
1 GAGATTTAACCG
44759626 GAGATTT
1 GAGATTT
44759633 GCAATTGACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (12 bp):
GAGATTTAACCG
Found at i:44771182 original size:46 final size:46
Alignment explanation
Indices: 44771011--44771183 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
44771001 AACCCGCCCC
* *
44771011 TAAGTGAACTCGGACTCAACTCAACGAGCTC-GAGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-CATTCGCATCCA
** * * *
44771057 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCCTAG-TTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAC-ATTCGCATCCA
* * *
44771103 TTTCA-CGAACTCGGACTCAACGCAACGAGTTCGGACATTCGCATCCA
1 --TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
44771150 TAAGTGAACTCGGACTCAACTCAATGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
44771184 TGCTCAACCA
Statistics
Matches: 103, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
45 2 0.02
46 63 0.61
47 36 0.35
48 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:44774569 original size:47 final size:47
Alignment explanation
Indices: 44774503--44774950 Score: 745
Period size: 47 Copynumber: 9.4 Consensus size: 47
44774493 TATCACAGTT
* * * *
44774503 ATACACTTCCAC-TTCCATCACATTGACCATTCGGCCTTATCATATAT
1 ATACACTTTCACATT-CATCACATTGGCCATTCGGCCTTATCACATAC
*
44774550 ATATACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
* * * *
44774597 ATACACTTCCATATTCATCACATTGGCCATTCGACCTTACCACATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
44774644 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
44774691 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATAC
44774740 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
44774787 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
44774834 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATAC
44774883 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATAC
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATAC
44774932 ATACACTTTCACATTCATC
1 ATACACTTTCACATTCATC
44774951 GTAACAAAAT
Statistics
Matches: 382, Mismatches: 14, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
47 261 0.68
48 2 0.01
49 119 0.31
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (47 bp):
ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAC
Found at i:44774809 original size:143 final size:143
Alignment explanation
Indices: 44774503--44774950 Score: 767
Period size: 143 Copynumber: 3.1 Consensus size: 143
44774493 TATCACAGTT
* * * * *
44774503 ATACACTTCCAC-TTCCATCACATTGACCATTCGGCCTTATCATATATATATACTTTCACATTCA
1 ATACACTTTCACATT-CATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCA
* *
44774567 TCACATTGGCCATTCGGCCTTATCAC--ATACATACACTTCCATATTCATCACATTGGCCATTCG
65 TCACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTCATCACATTGGCCATTCG
* *
44774630 ACCTTACCACATAC
130 GCCTTATCACATAC
44774644 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCAT
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCAT
44774709 CACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTCATCACATTGGCCATTCGG
66 CACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTCATCACATTGGCCATTCGG
44774774 CCTTATCACATAC
131 CCTTATCACATAC
44774787 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCAT
1 ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCAT
44774852 CACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTCATCACATTGGCCATTCGG
66 CACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTCATCACATTGGCCATTCGG
44774917 CCTTATCACATATAC
131 CCTTATCAC--ATAC
44774932 ATACACTTTCACATTCATC
1 ATACACTTTCACATTCATC
44774951 GTAACAAAAT
Statistics
Matches: 293, Mismatches: 9, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
141 82 0.28
142 2 0.01
143 186 0.63
145 23 0.08
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (143 bp):
ATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATACATACACTTTCACATTCAT
CACATTGGCCATTCGGCCTTATCACATATACATACACTTTCACATTCATCACATTGGCCATTCGG
CCTTATCACATAC
Found at i:44783161 original size:46 final size:46
Alignment explanation
Indices: 44783094--44783266 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
44783084 AACCCGCCCC
* *
44783094 TAAGTGAACTCGGACTCAACTCAACAAGCTT-GGGCGTTCGTATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAG-TTCGGACGTTCGTATCCA
* * *
44783140 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCCTAGT-TACAA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-TTCGTAT-CCA
* * * *
44783187 TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 -TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGTATCCA
44783233 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
44783267 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
45 4 0.04
46 65 0.61
47 36 0.34
48 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGTATCCA
Found at i:44783726 original size:30 final size:30
Alignment explanation
Indices: 44783692--44783751 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
44783682 ATTTAATACG
44783692 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
44783722 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
44783752 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:44787664 original size:20 final size:20
Alignment explanation
Indices: 44787641--44787679 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
44787631 TAAAATATTG
44787641 AGAAATTAAATTATTTTCAC
1 AGAAATTAAATTATTTTCAC
44787661 AGAAATTAAATTATTTTCA
1 AGAAATTAAATTATTTTCA
44787680 TAGATTTTGT
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:0.46, C:0.08, G:0.05, T:0.41
Consensus pattern (20 bp):
AGAAATTAAATTATTTTCAC
Found at i:44792585 original size:44 final size:43
Alignment explanation
Indices: 44792512--44792598 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 43
44792502 TGTCATACAT
44792512 ATCACGAACTCAGACCACAACTCAATGAGTTCAGATGTCACATAA
1 ATCACGAACTCAGACCACAACTCAATGAGTTCAGAT-T-ACATAA
*
44792557 ATCATGAACTCAGA-CACAACTCAATGAGTTCAGATTACATAA
1 ATCACGAACTCAGACCACAACTCAATGAGTTCAGATTACATAA
44792599 TTCCTAGTGG
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
42 6 0.15
43 1 0.02
44 21 0.51
45 13 0.32
ACGTcount: A:0.41, C:0.24, G:0.13, T:0.22
Consensus pattern (43 bp):
ATCACGAACTCAGACCACAACTCAATGAGTTCAGATTACATAA
Found at i:44794549 original size:25 final size:25
Alignment explanation
Indices: 44794515--44794566 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
44794505 CCTATACCAA
44794515 CTCAAATCACACTGTCATATTCTCT
1 CTCAAATCACACTGTCATATTCTCT
44794540 CTCAAATCACACTGTCATATTCTCT
1 CTCAAATCACACTGTCATATTCTCT
44794565 CT
1 CT
44794567 TCATGATTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.27, C:0.33, G:0.04, T:0.37
Consensus pattern (25 bp):
CTCAAATCACACTGTCATATTCTCT
Found at i:44798064 original size:53 final size:54
Alignment explanation
Indices: 44797986--44798115 Score: 217
Period size: 53 Copynumber: 2.4 Consensus size: 54
44797976 CAATATAAGA
*
44797986 GATTTATCCTGGACTGGTAATCCCGACATCACCTTATGAGTTCATATAATGGGG
1 GATTTAACCTGGACTGGTAATCCCGACATCACCTTATGAGTTCATATAATGGGG
44798040 GATTTAACCTGGA-TGGTAATCCCGACATCACCTTATGAGTTCATATAATGGGG
1 GATTTAACCTGGACTGGTAATCCCGACATCACCTTATGAGTTCATATAATGGGG
* * *
44798093 GATTTAGCTTGCACTGGTAATCC
1 GATTTAACCTGGACTGGTAATCC
44798116 TTCCATATGA
Statistics
Matches: 71, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
53 50 0.70
54 21 0.30
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (54 bp):
GATTTAACCTGGACTGGTAATCCCGACATCACCTTATGAGTTCATATAATGGGG
Found at i:44811904 original size:850 final size:853
Alignment explanation
Indices: 44810286--44811959 Score: 1996
Period size: 850 Copynumber: 2.0 Consensus size: 853
44810276 AATTACAACA
* * * *
44810286 TAGTCCCTAGGCTCGTAAAATGAAATTGTTCATTTTCTTGGTTACCCAAGCTTAGCCGAACCTTT
1 TAGTCCCTAGGCTCGTAAAATGAAATTGTGCAATTTCTTGGTTACCCAAGCCTAGCCGAACATTT
44810351 ACTATGCTCATATCAACCCATATTTTCCTTTATTTCACATTATTACCACCCACTTTTACACTTTT
66 ACTATGCTCATATCAACCCATATTTTCCTTTATTTCACATTATTACCACCCACTTTTACACTTTT
* **
44810416 ACAAACAAGTCCCTTTTTTAGGTGTTTTCACTAAAAATCACCTAGTAAAAGATGTTTATCATGCA
131 ACAAACAAGTCCCTTTTTTAGGTGTTTTCACTAAAAATCACCTAGCAAAAGATGTTTATCACACA
* * * *
44810481 TCAAACATTCATATTCCTCCATCAAATCAACAAAATATATGCATGTTACACATGGGTCTAATTTC
196 TCAAAAATTCATATCCCTCCAT---AT-----AAATATATGCATATTACACATGGGTCAAATTTC
* * *
44810546 ATACATGAACCCTAGCTCAAAATATAGCTAGAAATGGATAGATCATGCTTCAAACATCGCAAAAA
253 ATACATGAACCCTAACTCAAAATATAGATAGAAATGGATAGATAATGCTTCAAACATCGCAAAAA
* * *
44810611 TACAAAGAACATTAAAAACGGGGCTAGGATTGACTTACAATCAAGCTTGAAATGTTGAACAAAAC
318 TACAAAGAACATAAAAAACGGGGCTAGGATAGACTTACAATCAAGCTTGAAAAGTTG-A-AAAAC
**** *
44810676 CCTAGCTATGGTTTCTTGAAAATTTTCGGCAATGAGAGAAGATGGACACCAATTTTGACTTATTT
381 CCTAGCTATGAACCCTTGAAAATTTTCGGCAATGAGAGAAGATGGACA-CAATTTTCACTTATTT
* * * * *
44810741 TCCCTTTTTATTCTTTTATTTACCCAGTGACTAAAATGCCCTTAGGGTCTTTCTTTCAAGTTTTT
445 TCCCTTTTTATTCTTTTATTTACCAAATGACAAAAATGCCCTTAAGGTCTTTCTTTCAAATTTTT
* * ** * *
44810806 CTTATGCATGTCTGTTTTTATCTTAAATTATAAAAATTGGTCAAATTGCTAATTAGGACCCTCTA
510 CCTATGCATGCCCATTTTTATCTCAAATTATAAAAATTGGTCAAATTACTAATTAGGACCCTCTA
* * * ** * *
44810871 ATTCATAATCTAAATCAATTTCATGCTTAAAGGTTCTAGAATGCAAGTTTTACATCTTATTCAAT
575 ATTAATAATC-AAATAAATTTCATGCTTAAAGCTTCTAGAACACAAGTTTTACAACCTATTCAAT
** * * * *
44810936 TTAGTCCCTAGAATTTAATTGGACATTTTATGCATAGAATTCCTTCATGAAACTTTCACACAAGC
639 TTAGTCCCTAGAATCAAATTGGACATCTTAGGCATAGAATTCATTCATGAAAATTTCACACAAGC
* * **
44811001 ATGAAATCATATCATAGACCTCATGAGAATCATAAAATAATTATTTTTATTTTGGGTTTGTGGTC
704 ATGAAATCATATCATAGACCTCATAAGAATCATAAAATAATTATTTCTATTTTGAATTTGTGGTC
* *
44811066 TCAAAACCACAATTCTAACTAGGCCCTAATTTGGGATGTTACAAAAATTACCTTTTTACCCCTAA
769 TCAAAACCACAATTCTAACTAGACCCTAATTCGGGATGTTACAAAAATTACCTTTTTACCCCTAA
44811131 CTTTTCACTTATTTACATTT
834 CTTTTCACTTATTTACATTT
* * *
44811151 TAGTCCCTAGGCTTGTAAAATGAAA-TGCATGCAATTTCTTGGTTATCCAAGCCTAGCC-ATTCA
1 TAGTCCCTAGGCTCGTAAAATGAAATTG--TGCAATTTCTTGGTTACCCAAGCCTAGCCGA-ACA
* * * * * *
44811214 TATTA-TAT-CTCATATCAGCCCATATTTTCGTTTATTTCACCTT-TCTACTACTCATTTTTACA
63 T-TTACTATGCTCATATCAACCCATATTTTCCTTTATTTCACATTAT-TACCACCCACTTTTACA
*
44811276 CCTTTTAC-AACAAGT-CC-TTTTTAGGTGTTTTCACTAAAAATCACTTAGCAAAAGATGTTTAT
126 -CTTTTACAAACAAGTCCCTTTTTTAGGTGTTTTCACTAAAAATCACCTAGCAAAAGATGTTTAT
* *
44811338 TACACATCAAAAATTCATATCCCTCCAT-T-AA-ATAT-CA-ATTACAGATGGGTCAAATTTCAT
190 CACACATCAAAAATTCATATCCCTCCATATAAATATATGCATATTACACATGGGTCAAATTTCAT
* * * *
44811398 GCATGAACCCTAACTCAAAATA-ATGATAGGAATGGGTAGATAATGCTTCAAGGAC-T-TCAAAA
255 ACATGAACCCTAACTCAAAATATA-GATAGAAATGGATAGATAATGCTTCAA--ACATCGCAAAA
** *
44811460 ATGTAAAGAACATAAAAAACGGGGCTAGGA-AGCACTTACAATCAATCTTGAAAAGTTG-AAAAC
317 ATACAAAGAACATAAAAAACGGGGCTAGGATAG-ACTTACAATCAAGCTTGAAAAGTTGAAAAAC
* *
44811523 CGTAGCTATGAAACCCTTGTAAAATTTTACTATGGC-TTGA-AGAAGATGGACA-AGATTTTCAC
381 CCTAGCTATG-AACCCTTG-AAAATTTT-C---GGCAATGAGAGAAGATGGACACA-ATTTTCAC
* *
44811585 TTCATTTTTCCTTTTTATTCTTTTATTTACCAAATGACAAAAATGCCTTTAAGGTCTTTCTTTCA
439 TT-ATTTTCCCTTTTTATTCTTTTATTTACCAAATGACAAAAATGCCCTTAAGGTCTTTCTTTCA
* * * * * * * *
44811650 AATTTTTCCTATTCATGCCCATTTTTGTC-CAAATTTTTAGAATTTGGTCTAGTTACTATTTAAG
503 AATTTTTCCTATGCATGCCCATTTTTATCTCAAA-TTATAAAAATTGGTCAAATTACTAATT-AG
* *
44811714 GA-CCTCTAATTAATAATC-AATGAAATTTCATGCTTAAATCTTCTAGAACACAAGTTTTTCAAC
566 GACCCTCTAATTAATAATCAAAT-AAATTTCATGCTTAAAGCTTCTAGAACACAAGTTTTACAAC
* *
44811777 CTATTCAATTTAGTCCCTA-AAGTCAAATTGGACATCTTAGGCATATAATTTATTCATGAAAATT
630 CTATTCAATTTAGTCCCTAGAA-TCAAATTGGACATCTTAGGCATAGAATTCATTCATGAAAATT
* * *
44811841 TCACACAAGCATGCAATCATATCATGGACCATCA-AATAATCATAAAATAATTATTTCTATTTTG
694 TCACACAAGCATGAAATCATATCATAGACC-TCATAAGAATCATAAAATAATTATTTCTATTTTG
** ** *
44811905 AATTTGTGGTCTCAAAATTACTGTTCTGACTAGACCCTAATTCGGGATGTTACAA
758 AATTTGTGGTCTCAAAACCACAATTCTAACTAGACCCTAATTCGGGATGTTACAA
44811960 TAAAAGTTTA
Statistics
Matches: 691, Mismatches: 95, Indels: 61
0.82 0.11 0.07
Matches are distributed among these distances:
847 14 0.02
848 4 0.01
849 16 0.02
850 318 0.46
851 131 0.19
852 13 0.02
853 5 0.01
859 1 0.00
863 66 0.10
864 5 0.01
865 78 0.11
866 37 0.05
867 3 0.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.36
Consensus pattern (853 bp):
TAGTCCCTAGGCTCGTAAAATGAAATTGTGCAATTTCTTGGTTACCCAAGCCTAGCCGAACATTT
ACTATGCTCATATCAACCCATATTTTCCTTTATTTCACATTATTACCACCCACTTTTACACTTTT
ACAAACAAGTCCCTTTTTTAGGTGTTTTCACTAAAAATCACCTAGCAAAAGATGTTTATCACACA
TCAAAAATTCATATCCCTCCATATAAATATATGCATATTACACATGGGTCAAATTTCATACATGA
ACCCTAACTCAAAATATAGATAGAAATGGATAGATAATGCTTCAAACATCGCAAAAATACAAAGA
ACATAAAAAACGGGGCTAGGATAGACTTACAATCAAGCTTGAAAAGTTGAAAAACCCTAGCTATG
AACCCTTGAAAATTTTCGGCAATGAGAGAAGATGGACACAATTTTCACTTATTTTCCCTTTTTAT
TCTTTTATTTACCAAATGACAAAAATGCCCTTAAGGTCTTTCTTTCAAATTTTTCCTATGCATGC
CCATTTTTATCTCAAATTATAAAAATTGGTCAAATTACTAATTAGGACCCTCTAATTAATAATCA
AATAAATTTCATGCTTAAAGCTTCTAGAACACAAGTTTTACAACCTATTCAATTTAGTCCCTAGA
ATCAAATTGGACATCTTAGGCATAGAATTCATTCATGAAAATTTCACACAAGCATGAAATCATAT
CATAGACCTCATAAGAATCATAAAATAATTATTTCTATTTTGAATTTGTGGTCTCAAAACCACAA
TTCTAACTAGACCCTAATTCGGGATGTTACAAAAATTACCTTTTTACCCCTAACTTTTCACTTAT
TTACATTT
Found at i:44812981 original size:37 final size:37
Alignment explanation
Indices: 44812926--44813055 Score: 143
Period size: 37 Copynumber: 3.5 Consensus size: 37
44812916 AAAAATGGAA
* * *
44812926 TACTGATTCTATTAAATGTGTTCTAACAAGCAATATC
1 TACTGATTCTACTAAATGTGCTCAAACAAGCAATATC
* * *
44812963 TACTGATTCTATTGAATGTGCTCAAACGAGCAATATC
1 TACTGATTCTACTAAATGTGCTCAAACAAGCAATATC
* * * *
44813000 TACTAATTCTACTAAATGTGCTAAAATAAGAAATATC
1 TACTGATTCTACTAAATGTGCTCAAACAAGCAATATC
** *
44813037 TGTTGATTCTACTGAATGT
1 TACTGATTCTACTAAATGT
44813056 TTGCTCGAAT
Statistics
Matches: 78, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 78 1.00
ACGTcount: A:0.35, C:0.15, G:0.13, T:0.36
Consensus pattern (37 bp):
TACTGATTCTACTAAATGTGCTCAAACAAGCAATATC
Found at i:44815167 original size:22 final size:22
Alignment explanation
Indices: 44815139--44815198 Score: 68
Period size: 23 Copynumber: 2.7 Consensus size: 22
44815129 AGCTCGCATA
*
44815139 AGCTTACTGTTCATCTTGA-TAG
1 AGCTTACTGTTCATC-TCATTAG
* *
44815161 AGTTTACTGCTTCAGCTCATTAG
1 AGCTTACTG-TTCATCTCATTAG
44815184 AGCTTACTGTTCATC
1 AGCTTACTGTTCATC
44815199 AGCTCAGGAG
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
22 15 0.48
23 16 0.52
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.40
Consensus pattern (22 bp):
AGCTTACTGTTCATCTCATTAG
Found at i:44821666 original size:31 final size:31
Alignment explanation
Indices: 44821615--44821684 Score: 95
Period size: 31 Copynumber: 2.3 Consensus size: 31
44821605 ACCCTGACCA
* * *
44821615 AATTAAGTTATCACAATAGTTAATACATCCC
1 AATTAAATTACCACAATAGTTAATACATCAC
* *
44821646 AATTAAATTACCACATTAGTTAATATATCAC
1 AATTAAATTACCACAATAGTTAATACATCAC
44821677 AATTAAAT
1 AATTAAAT
44821685 AAAAAGTCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.46, C:0.16, G:0.04, T:0.34
Consensus pattern (31 bp):
AATTAAATTACCACAATAGTTAATACATCAC
Found at i:44823738 original size:42 final size:43
Alignment explanation
Indices: 44823588--44823781 Score: 225
Period size: 43 Copynumber: 4.6 Consensus size: 43
44823578 ACACCAATGA
* ** *
44823588 AATATCCCAGATATGGTCTTACATGGGATATCATATCGATGCC
1 AATATCCCAGATATGGTCTTACACGAAATCTCATATCGATGCC
*
44823631 AATAGCCCA-ACTATGGTCTTACACGAAATCTCATATCGATGCC
1 AATATCCCAGA-TATGGTCTTACACGAAATCTCATATCGATGCC
* * * * * *
44823674 AATAGCCCAGCTATGGTCTTACACGAAATCTGACATTGATACC
1 AATATCCCAGATATGGTCTTACACGAAATCTCATATCGATGCC
* *
44823717 -ATATCCCAGATATGGTCTTACACGAAGTCTCATAAT-GATGTC
1 AATATCCCAGATATGGTCTTACACGAAATCTCAT-ATCGATGCC
44823759 -ATATCCCAGATATGGTCTTACAC
1 AATATCCCAGATATGGTCTTACAC
44823782 ATAGCCTCGG
Statistics
Matches: 131, Mismatches: 17, Indels: 7
0.85 0.11 0.05
Matches are distributed among these distances:
42 56 0.43
43 75 0.57
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.28
Consensus pattern (43 bp):
AATATCCCAGATATGGTCTTACACGAAATCTCATATCGATGCC
Found at i:44827176 original size:40 final size:40
Alignment explanation
Indices: 44827122--44827306 Score: 246
Period size: 40 Copynumber: 4.6 Consensus size: 40
44827112 CTTGCACAAG
* * *
44827122 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCACAGAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* *
44827162 GCCTTCGGGACTTAGCCCAGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
44827202 GCCTTCGGGTCTTAGCCCGGATATAGTAACTCGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
* *
44827242 GCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCAC-TAGCACAAAT
*
44827283 GCCTTCGGGACTTAGCCCAGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
44827307 CATTCGAATA
Statistics
Matches: 125, Mismatches: 17, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
39 2 0.02
40 94 0.75
41 26 0.21
42 3 0.02
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:44833010 original size:108 final size:108
Alignment explanation
Indices: 44832816--44833059 Score: 391
Period size: 108 Copynumber: 2.3 Consensus size: 108
44832806 AGATCCTAAT
* * *
44832816 CGGATTACCTGTCTGGGCTAAATCCTTAATGCACATGTATTCTTCGAGAGGCTCGATCATCTAAA
1 CGGATTACCCGTCTGGGCTAAATCCTTAATGCACATGTATTCTACGAGAGGCTCGATCATCCAAA
*
44832881 GGAACAACCATCCGGGCTAGATCCTTTTCATAATTGAGATCAA
66 GGAACAACCATCCCGGCTAGATCCTTTTCATAATTGAGATCAA
*
44832924 CGGATTACCCGTCCGGGCTAAATCCTTAATGCACATGTATTCTAC-AGGAGGCTCGATCATCCAA
1 CGGATTACCCGTCTGGGCTAAATCCTTAATGCACATGTATTCTACGA-GAGGCTCGATCATCCAA
** *
44832988 AGGAACAACTGTCCCGGTTAGATCCTTTTCATAATTGAGATCAA
65 AGGAACAACCATCCCGGCTAGATCCTTTTCATAATTGAGATCAA
*
44833032 CAGATTACCCGTCTGGGCTAAATCCTTA
1 CGGATTACCCGTCTGGGCTAAATCCTTA
44833060 CTGTAACACA
Statistics
Matches: 125, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
107 1 0.01
108 124 0.99
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (108 bp):
CGGATTACCCGTCTGGGCTAAATCCTTAATGCACATGTATTCTACGAGAGGCTCGATCATCCAAA
GGAACAACCATCCCGGCTAGATCCTTTTCATAATTGAGATCAA
Found at i:44857235 original size:17 final size:17
Alignment explanation
Indices: 44857213--44857258 Score: 92
Period size: 17 Copynumber: 2.7 Consensus size: 17
44857203 AATAGTCCAT
44857213 AAATTACAATTTGGAAA
1 AAATTACAATTTGGAAA
44857230 AAATTACAATTTGGAAA
1 AAATTACAATTTGGAAA
44857247 AAATTACAATTT
1 AAATTACAATTT
44857259 TGCCCCTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 29 1.00
ACGTcount: A:0.52, C:0.07, G:0.09, T:0.33
Consensus pattern (17 bp):
AAATTACAATTTGGAAA
Found at i:44863544 original size:11 final size:11
Alignment explanation
Indices: 44863524--44863571 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
44863514 TATATTCTAT
44863524 CTATTATTATA
1 CTATTATTATA
*
44863535 CTATTCTTATA
1 CTATTATTATA
*
44863546 ATATTATTATA
1 CTATTATTATA
44863557 -TA-TATTATTA
1 CTATTATTA-TA
44863567 CTATT
1 CTATT
44863572 TGATTTAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
9 5 0.16
10 4 0.13
11 21 0.68
12 1 0.03
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.56
Consensus pattern (11 bp):
CTATTATTATA
Found at i:44863663 original size:28 final size:29
Alignment explanation
Indices: 44863609--44863664 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 29
44863599 TTTTATTTAG
* **
44863609 TTATTATTTAGATTTAGTATATTTAGAAT
1 TTATTATTTAGATTTAATATAAATAGAAT
*
44863638 TTATTATTTA-ATTTAATTTAAATAGAA
1 TTATTATTTAGATTTAATATAAATAGAA
44863665 AATTTAATAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 13 0.57
29 10 0.43
ACGTcount: A:0.39, C:0.00, G:0.07, T:0.54
Consensus pattern (29 bp):
TTATTATTTAGATTTAATATAAATAGAAT
Found at i:44866911 original size:24 final size:25
Alignment explanation
Indices: 44866884--44866931 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
44866874 AGCTCATCTA
* *
44866884 AGCCTTTAA-CAGGTAGCTCCGAAG
1 AGCCATTAATCAGGGAGCTCCGAAG
*
44866908 AGCCATTAATTAGGGAGCTCCGAA
1 AGCCATTAATCAGGGAGCTCCGAA
44866932 TAGCAATATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.21
Consensus pattern (25 bp):
AGCCATTAATCAGGGAGCTCCGAAG
Found at i:44867008 original size:26 final size:25
Alignment explanation
Indices: 44866968--44867034 Score: 75
Period size: 25 Copynumber: 2.7 Consensus size: 25
44866958 AGCCATATCG
*
44866968 GGAAA-CTCACAAAGAGCCAATAAAT
1 GGAAAGCTCACTAAGAGCC-ATAAAT
* *
44866993 GGAAAGCTCACTAAGAGCCGTAACT
1 GGAAAGCTCACTAAGAGCCATAAAT
*
44867018 GGGAAGCTCA-TAAGAGC
1 GGAAAGCTCACTAAGAGC
44867035 TAAGGTGTGT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
24 7 0.19
25 18 0.49
26 12 0.32
ACGTcount: A:0.42, C:0.21, G:0.24, T:0.13
Consensus pattern (25 bp):
GGAAAGCTCACTAAGAGCCATAAAT
Found at i:44870239 original size:39 final size:39
Alignment explanation
Indices: 44870153--44870276 Score: 160
Period size: 39 Copynumber: 3.2 Consensus size: 39
44870143 GAATCGAGTC
* * **
44870153 ACCAGCACAAAACCTGCGGGACTTTAAGTTCAGATATAAT
1 ACCAGCACGAAGCCTGCGGGACTTTAA-CCCAGATATAAT
* * *
44870193 ACCAGCACTAGGCCTGCGGGACTTTAACCCGGATATAAT
1 ACCAGCACGAAGCCTGCGGGACTTTAACCCAGATATAAT
44870232 ACCAGCACGAAGCCTGCGGGA-TTTAACCCAGATATAAT
1 ACCAGCACGAAGCCTGCGGGACTTTAACCCAGATATAAT
*
44870270 TCCAGCA
1 ACCAGCA
44870277 TATATCCTAC
Statistics
Matches: 74, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
38 22 0.30
39 28 0.38
40 24 0.32
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.20
Consensus pattern (39 bp):
ACCAGCACGAAGCCTGCGGGACTTTAACCCAGATATAAT
Found at i:44870295 original size:77 final size:80
Alignment explanation
Indices: 44870153--44870305 Score: 188
Period size: 77 Copynumber: 1.9 Consensus size: 80
44870143 GAATCGAGTC
** * *
44870153 ACCAGCACAAAACCTGCGGGACTTTAAGTTCAGATATAATACCAGCACTAGGCCTGCGGGACTTT
1 ACCAGCACAAAACCTGCGGGACTTTAAGCCCAGATATAATACCAGCACTAAGCCTACGGGACTTT
44870218 AA-CCCGGATATAAT
66 AAGCCCGGATATAAT
* * * * *
44870232 ACCAGCACGAAGCCTGCGGGA-TTTAA-CCCAGATATAATTCCAGCA-TATATCCTACGGGTCTT
1 ACCAGCACAAAACCTGCGGGACTTTAAGCCCAGATATAATACCAGCACTA-AGCCTACGGGACTT
44870294 TAAGCCCGGATA
65 TAAGCCCGGATA
44870306 CACATCAAAT
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
76 2 0.03
77 29 0.46
78 13 0.21
79 19 0.30
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.22
Consensus pattern (80 bp):
ACCAGCACAAAACCTGCGGGACTTTAAGCCCAGATATAATACCAGCACTAAGCCTACGGGACTTT
AAGCCCGGATATAAT
Found at i:44878297 original size:40 final size:39
Alignment explanation
Indices: 44878253--44878339 Score: 95
Period size: 40 Copynumber: 2.2 Consensus size: 39
44878243 GAATCTAGTC
44878253 ACCAGCACAAAACCTACGAGACTTTAAGT-TAAGATATAAT
1 ACCAGCACAAAACCTACGAGACTTTAA-TCT-AGATATAAT
* ** * * *
44878293 ACCAGCACTAGGCCTGCGGGACTTTAATCTAGATATATT
1 ACCAGCACAAAACCTACGAGACTTTAATCTAGATATAAT
44878332 ACCAGCAC
1 ACCAGCAC
44878340 GAAGCCTGCG
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
39 17 0.43
40 23 0.57
ACGTcount: A:0.37, C:0.24, G:0.16, T:0.23
Consensus pattern (39 bp):
ACCAGCACAAAACCTACGAGACTTTAATCTAGATATAAT
Found at i:44878366 original size:38 final size:38
Alignment explanation
Indices: 44878284--44878369 Score: 102
Period size: 39 Copynumber: 2.2 Consensus size: 38
44878274 CTTTAAGTTA
* * * *
44878284 AGATATAATACCAGCACTAGGCCTGCGGGACTTTAATCT
1 AGATATAATACCAGCACGAAGCCTGC-GGACTTTAACCC
*
44878323 AGATATATTACCAGCACGAAGCCTGC-GACATTTAACCC
1 AGATATAATACCAGCACGAAGCCTGCGGAC-TTTAACCC
44878361 AGATATAAT
1 AGATATAAT
44878370 TCCTGCATAT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
37 3 0.08
38 14 0.35
39 23 0.57
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.24
Consensus pattern (38 bp):
AGATATAATACCAGCACGAAGCCTGCGGACTTTAACCC
Found at i:44883755 original size:35 final size:35
Alignment explanation
Indices: 44883711--44883783 Score: 137
Period size: 35 Copynumber: 2.1 Consensus size: 35
44883701 TCATGGTTAA
44883711 TAAGTATGCCAAATCTATGGTATGATTAGGTAAGT
1 TAAGTATGCCAAATCTATGGTATGATTAGGTAAGT
*
44883746 TAAGTATGCCAAATCTATGGTATGATTAGGTAATT
1 TAAGTATGCCAAATCTATGGTATGATTAGGTAAGT
44883781 TAA
1 TAA
44883784 AAATAGGGTT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.36, C:0.08, G:0.21, T:0.36
Consensus pattern (35 bp):
TAAGTATGCCAAATCTATGGTATGATTAGGTAAGT
Found at i:44887679 original size:24 final size:25
Alignment explanation
Indices: 44887652--44887703 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
44887642 CATGCATCGG
44887652 CCACATTATG-GAGCTAGTTTAAGA
1 CCACATTATGAGAGCTAGTTTAAGA
44887676 CCACATTATGAGAGCTAGTTTAAGA
1 CCACATTATGAGAGCTAGTTTAAGA
44887701 CCA
1 CCA
44887704 TGTATGGGAC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 10 0.37
25 17 0.63
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (25 bp):
CCACATTATGAGAGCTAGTTTAAGA
Found at i:44887905 original size:49 final size:48
Alignment explanation
Indices: 44887691--44887913 Score: 183
Period size: 49 Copynumber: 4.7 Consensus size: 48
44887681 TTATGAGAGC
* * * * * * *
44887691 TAGTTTAAGACCATGTATGGGACATGGCATTGGCATTGA-GACGAGTGC
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGATGA-TGT
* * *
44887739 CAATGTAAGA-CATGTCTGGGACAT-GCATTGG-CTACGA-GATG-TGT
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGATGATGATGT
* * * * * *
44887783 CAATGTAAGACCATGTCTGGGACATGGCATTGGCAC-GGAT-ATGTGAGAGA
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGATGA--TGA-TGT
44887833 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGATGATCGT
1 TAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGATGAT-GT
44887882 TAGTGTAAGACCATGTCTGGGACATGGCATCG
1 TAGTGTAAGACCATGTCTGGGACATGGCATCG
44887914 ACACCTCACC
Statistics
Matches: 145, Mismatches: 17, Indels: 25
0.78 0.09 0.13
Matches are distributed among these distances:
44 12 0.08
45 15 0.10
46 22 0.15
47 13 0.09
48 10 0.07
49 37 0.26
50 35 0.24
51 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (48 bp):
TAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGATGATGT
Found at i:44898010 original size:28 final size:28
Alignment explanation
Indices: 44897970--44898038 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 28
44897960 TGAGATTGGT
*
44897970 ACTAAGTGTGCGAGTTTAATT-GTATAGC
1 ACTAAGTGTGCGAGTTTAATTATTA-AGC
*
44897998 ACTAAGTGTGCGAGTTTGATTATTAAGC
1 ACTAAGTGTGCGAGTTTAATTATTAAGC
44898026 ACTAAGTGTGCGA
1 ACTAAGTGTGCGA
44898039 ACTTACTATA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
28 36 0.95
29 2 0.05
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (28 bp):
ACTAAGTGTGCGAGTTTAATTATTAAGC
Found at i:44901791 original size:35 final size:36
Alignment explanation
Indices: 44901726--44901795 Score: 90
Period size: 36 Copynumber: 2.0 Consensus size: 36
44901716 ATGAACACTG
*
44901726 TAGGGAGTGATAAGAGGAGAAATTTGAGGAGATGAT
1 TAGGGAGTGATAAGAGGAGAAAATTGAGGAGATGAT
* *
44901762 TAGGGAGTTATCAG-GGAGAAAAATT-AGGAGATGA
1 TAGGGAGTGATAAGAGGAG-AAAATTGAGGAGATGA
44901796 GGAGTGAAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
35 13 0.43
36 17 0.57
ACGTcount: A:0.40, C:0.01, G:0.37, T:0.21
Consensus pattern (36 bp):
TAGGGAGTGATAAGAGGAGAAAATTGAGGAGATGAT
Found at i:44902884 original size:29 final size:29
Alignment explanation
Indices: 44902838--44902922 Score: 100
Period size: 29 Copynumber: 3.0 Consensus size: 29
44902828 GCATGTATAT
*
44902838 GAATGTGATTTGGACCTAATGGGCCATAC
1 GAATGTGATTTGGGCCTAATGGGCCATAC
* **
44902867 GAATGTGATTTGGGCCTAATGCGTAATAC
1 GAATGTGATTTGGGCCTAATGGGCCATAC
** *
44902896 GAATAAGA-TTGGGCCTAGTGGGCCATA
1 GAATGTGATTTGGGCCTAATGGGCCATA
44902923 TGCATGTATG
Statistics
Matches: 46, Mismatches: 10, Indels: 1
0.81 0.18 0.02
Matches are distributed among these distances:
28 15 0.33
29 31 0.67
ACGTcount: A:0.28, C:0.15, G:0.29, T:0.27
Consensus pattern (29 bp):
GAATGTGATTTGGGCCTAATGGGCCATAC
Found at i:44906686 original size:16 final size:18
Alignment explanation
Indices: 44906664--44906706 Score: 63
Period size: 16 Copynumber: 2.5 Consensus size: 18
44906654 CAAGCACTCT
44906664 CATAAACCAGCAG-TTCC
1 CATAAACCAGCAGCTTCC
*
44906681 CA-AAACCAGCAGCTTTC
1 CATAAACCAGCAGCTTCC
44906698 CATAAACCA
1 CATAAACCA
44906707 TCCCATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 10 0.43
17 7 0.30
18 6 0.26
ACGTcount: A:0.40, C:0.35, G:0.09, T:0.16
Consensus pattern (18 bp):
CATAAACCAGCAGCTTCC
Found at i:44907107 original size:14 final size:15
Alignment explanation
Indices: 44907088--44907127 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
44907078 CTGTCGTGTG
44907088 TTTTAGTTTTA-GAC
1 TTTTAGTTTTAGGAC
*
44907102 TTTTAGTTTTAGGAT
1 TTTTAGTTTTAGGAC
*
44907117 TTTTATTTTTA
1 TTTTAGTTTTA
44907128 TTTATTAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.20, C:0.03, G:0.12, T:0.65
Consensus pattern (15 bp):
TTTTAGTTTTAGGAC
Found at i:44908281 original size:19 final size:19
Alignment explanation
Indices: 44908252--44908289 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
44908242 TATTTTATGA
44908252 AAAAATATTGATACTCAAAT
1 AAAAATATTGATAC-CAAAT
44908272 AAAAAT-TTGATACCAAAT
1 AAAAATATTGATACCAAAT
44908290 TAGCATTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.28
19 7 0.39
20 6 0.33
ACGTcount: A:0.55, C:0.11, G:0.05, T:0.29
Consensus pattern (19 bp):
AAAAATATTGATACCAAAT
Found at i:44919600 original size:40 final size:40
Alignment explanation
Indices: 44919545--44919679 Score: 216
Period size: 40 Copynumber: 3.4 Consensus size: 40
44919535 TATGTGCATA
*
44919545 GCATTCCTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
* *
44919585 GCATTCGTGCAGGTTATTATAACCGGGTTAAGTCCAGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
**
44919625 GCATTCGTATGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
*
44919665 GCATTCGTGCTGGTT
1 GCATTCGTGCGGGTT
44919680 GTTACATCCG
Statistics
Matches: 85, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 85 1.00
ACGTcount: A:0.23, C:0.19, G:0.28, T:0.30
Consensus pattern (40 bp):
GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
Found at i:44927998 original size:40 final size:40
Alignment explanation
Indices: 44927943--44928037 Score: 163
Period size: 40 Copynumber: 2.4 Consensus size: 40
44927933 TATGTGCATA
*
44927943 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTAATATAACCGGGTTAAGTCCCGAAG
*
44927983 GCATTCGTGCGGGTTAATATAACCGGGTTAAGTCTCGAAG
1 GCATTCGTGCGGGTTAATATAACCGGGTTAAGTCCCGAAG
*
44928023 GCATTCGTGCTGGTT
1 GCATTCGTGCGGGTT
44928038 GTTACATCCG
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.21, C:0.19, G:0.31, T:0.29
Consensus pattern (40 bp):
GCATTCGTGCGGGTTAATATAACCGGGTTAAGTCCCGAAG
Found at i:44930235 original size:57 final size:58
Alignment explanation
Indices: 44930164--44930277 Score: 151
Period size: 58 Copynumber: 2.0 Consensus size: 58
44930154 CGTAGCATTT
* * *
44930164 GCTCTAGAGAGCTTA-A-TATGGATTACCCGTCCGGGCTAAATCCAATTTACAACATAA
1 GCTCAAGAGAGCTTACATTA-GAATTACCCGTCCGGGCTAAATCCAATCTACAACATAA
* * *
44930221 GCTCAAGAGGGCTTACATTAGAATTACCCGTCCGGGCTAAATTCTATCTACAACATA
1 GCTCAAGAGAGCTTACATTAGAATTACCCGTCCGGGCTAAATCCAATCTACAACATA
44930278 TGCACTATTA
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
57 13 0.27
58 34 0.69
59 2 0.04
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (58 bp):
GCTCAAGAGAGCTTACATTAGAATTACCCGTCCGGGCTAAATCCAATCTACAACATAA
Found at i:44943335 original size:8 final size:8
Alignment explanation
Indices: 44943322--44943348 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
44943312 GCTAACCCTC
44943322 ACATTTTG
1 ACATTTTG
44943330 ACATTTTG
1 ACATTTTG
44943338 ACATTTTG
1 ACATTTTG
44943346 ACA
1 ACA
44943349 CTTTAGTCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.30, C:0.15, G:0.11, T:0.44
Consensus pattern (8 bp):
ACATTTTG
Found at i:44951231 original size:22 final size:22
Alignment explanation
Indices: 44951205--44951246 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
44951195 GTGTCGAAGT
44951205 TGATGTATATTTTCATAATAGA
1 TGATGTATATTTTCATAATAGA
*
44951227 TGATGTATATTTTGATAATA
1 TGATGTATATTTTCATAATA
44951247 TGTGAATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.36, C:0.02, G:0.14, T:0.48
Consensus pattern (22 bp):
TGATGTATATTTTCATAATAGA
Found at i:44951453 original size:16 final size:15
Alignment explanation
Indices: 44951428--44951458 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
44951418 TTATGATGCG
44951428 TAATTATAATATAAT
1 TAATTATAATATAAT
44951443 TAATATATAATATAAT
1 TAAT-TATAATATAAT
44951459 AAGAGATAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TAATTATAATATAAT
Found at i:44957796 original size:22 final size:22
Alignment explanation
Indices: 44957768--44957861 Score: 116
Period size: 22 Copynumber: 4.1 Consensus size: 22
44957758 ATAGATCAGT
44957768 AAAATAAAAATAAATAATATAA
1 AAAATAAAAATAAATAATATAA
*
44957790 CAAATAAAAATAAATAATATAA
1 AAAATAAAAATAAATAATATAA
*
44957812 AAAATAATAATAAATAATAATAA
1 AAAATAAAAATAAATAAT-ATAA
* *
44957835 ATAATGAAATAATGAAATAAAATAA
1 AAAAT-AAA-AAT-AAATAATATAA
44957860 AA
1 AA
44957862 TAAAGAAAAG
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
22 37 0.61
23 8 0.13
24 2 0.03
25 8 0.13
26 6 0.10
ACGTcount: A:0.73, C:0.01, G:0.02, T:0.23
Consensus pattern (22 bp):
AAAATAAAAATAAATAATATAA
Found at i:44957839 original size:10 final size:10
Alignment explanation
Indices: 44957769--44957839 Score: 70
Period size: 10 Copynumber: 6.7 Consensus size: 10
44957759 TAGATCAGTA
*
44957769 AAATAAAAAT
1 AAATAATAAT
*
44957779 AAATAATATAAC
1 AAAT-A-ATAAT
*
44957791 AAATAAAAAT
1 AAATAATAAT
*
44957801 AAATAATATAAA
1 AAAT-A-ATAAT
44957813 AAATAATAAT
1 AAATAATAAT
44957823 AAATAATAAT
1 AAATAATAAT
44957833 AAATAAT
1 AAATAAT
44957840 GAAATAATGA
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
10 32 0.64
11 4 0.08
12 14 0.28
ACGTcount: A:0.73, C:0.01, G:0.00, T:0.25
Consensus pattern (10 bp):
AAATAATAAT
Found at i:44964921 original size:46 final size:47
Alignment explanation
Indices: 44964790--44964998 Score: 164
Period size: 46 Copynumber: 4.4 Consensus size: 47
44964780 GTGGTGAGCT
* * *
44964790 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-ATTGAGATG-AATGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTA-CGAGATGTAATACC
*
44964838 AGTGTAAGACATGTTTGGGACATGCATCGGGCT-CGAGATGTAA-ACC
1 AGTGTAAGACATGTCTGGGACATGCATC-GGCTACGAGATGTAATACC
* * *
44964884 AGTGTAAGACATGTCTGGGACATGCATCGACTACGAGATGT-GT--T
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGTAATACC
* * * * * *
44964928 AGTGTAAGACCATGTCTAGAACATGGCATCGG-TACAGATATGTGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTAC-GAGATGTAATA-CC
44964978 AGTGTAAGACCATGTCTGGGA
1 AGTGTAAGA-CATGTCTGGGA
44964999 AATGGCGTCG
Statistics
Matches: 133, Mismatches: 16, Indels: 22
0.78 0.09 0.13
Matches are distributed among these distances:
44 9 0.07
45 18 0.14
46 59 0.44
47 18 0.14
48 9 0.07
50 20 0.15
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGTAATACC
Found at i:44967488 original size:28 final size:28
Alignment explanation
Indices: 44967456--44967520 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
44967446 ATTTACTAGA
*
44967456 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
44967484 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
44967512 ATACCCCTA
1 ATACCCCTA
44967521 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:44967667 original size:28 final size:29
Alignment explanation
Indices: 44967636--44967716 Score: 130
Period size: 28 Copynumber: 2.8 Consensus size: 29
44967626 CTGGTTGCTA
44967636 TGCCACAAATTATCTGTTCTGGTGGC-CC
1 TGCCACAAATTATCTGTTCTGGTGGCACC
44967664 TGCCACAAATTATCTGTTCTGGTGGCACC
1 TGCCACAAATTATCTGTTCTGGTGGCACC
*
44967693 -GCCACAAAATATCTGTATCTGGTG
1 TGCCACAAATTATCTGT-TCTGGTG
44967717 ACTCTGTCAC
Statistics
Matches: 50, Mismatches: 1, Indels: 3
0.93 0.02 0.06
Matches are distributed among these distances:
28 41 0.82
29 9 0.18
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.31
Consensus pattern (29 bp):
TGCCACAAATTATCTGTTCTGGTGGCACC
Found at i:44968204 original size:19 final size:19
Alignment explanation
Indices: 44968180--44968218 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
44968170 TTTTAATTAT
* *
44968180 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
44968199 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
44968218 T
1 T
44968219 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:44974278 original size:46 final size:44
Alignment explanation
Indices: 44974195--44974309 Score: 133
Period size: 46 Copynumber: 2.5 Consensus size: 44
44974185 GACGAGAGCT
* * * *
44974195 AGTGTAAGACATGTTTGGGACATACATTTGCCTCGAGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATTAGACTCGAGATGT--GCC
*
44974241 GGTGTAAGACATGTCTGGGACATGCA-TAGACTGCGAGATGTGCC
1 AGTGTAAGACATGTCTGGGACATGCATTAGACT-CGAGATGTGCC
*
44974285 AGTGTAAGACCATGTCTGAGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
44974310 GCATCAGTAC
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
44 11 0.18
45 18 0.30
46 31 0.52
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATTAGACTCGAGATGTGCC
Found at i:44974401 original size:49 final size:47
Alignment explanation
Indices: 44974147--44974460 Score: 204
Period size: 47 Copynumber: 6.6 Consensus size: 47
44974137 ATGGTAAGCT
* * *
44974147 AGTGTAATACCATGTCTGGGACATGGCATCGACATTGAGA-CGA-GAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGAC--TCA-ATCGATGAGCC
* * * * *
44974195 AGTGTAAGA-CATGTTTGGGACAT-ACATTTGCCTCGAGAT-G-TAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCA-TCGACTC-A-ATCGATGAGCC
* * * *
44974241 GGTGTAAGA-CATGTCTGGGACAT-GCATAGACTGCGA--GATGTGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACT-CAATCGATGAGCC
* * *
44974285 AGTGTAAGACCATGTCTGAGACATGGCATCAGTACGT-ATATGTGA-GAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATC-G-AC-TCA-AT-CGATGAGCC
* * * *
44974335 AGTGTAAGACCATGTCTGGGACGTGGCGTCGGCCTCAATTTCGAT-AGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATC-GACTCAA--TCGATGAGCC
** *
44974384 AGTGTAAGACCATGTCTGGGACATGGCATCGACTTGATGGATGAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACTCAATCGATGAGCC
44974431 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
44974461 AACATTATAC
Statistics
Matches: 209, Mismatches: 37, Indels: 41
0.73 0.13 0.14
Matches are distributed among these distances:
43 1 0.00
44 13 0.06
45 18 0.09
46 41 0.20
47 50 0.24
48 17 0.08
49 35 0.17
50 32 0.15
51 2 0.01
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACTCAATCGATGAGCC
Found at i:44976668 original size:46 final size:45
Alignment explanation
Indices: 44976601--44976772 Score: 186
Period size: 46 Copynumber: 3.7 Consensus size: 45
44976591 AACCCGCCCT
* * *
44976601 TAAGTGAAGTCGGACTTAACTCAACGAGTTCAGGCGTTCGTATACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-GGCATTCGTATACA
* *
44976647 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG-ATGCCTAGTTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGCATTCGTA--TACA
* * * * *
44976693 TCTCA-CGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCA
1 --TAAGTGAACTCGGACTCAACTCAACGAGTTCGG-CATTCGTATACA
44976740 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG
44976773 ATGCTCAACC
Statistics
Matches: 104, Mismatches: 15, Indels: 14
0.78 0.11 0.11
Matches are distributed among these distances:
44 4 0.04
45 4 0.04
46 60 0.58
47 30 0.29
48 2 0.02
49 4 0.04
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.24
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGCATTCGTATACA
Found at i:44976792 original size:46 final size:44
Alignment explanation
Indices: 44976649--44976792 Score: 132
Period size: 46 Copynumber: 3.1 Consensus size: 44
44976639 CGTATACATA
44976649 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT
* * * * *
44976696 CA-CGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATCT
44976742 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CT
44976788 AGTGA
1 AGTGA
44976793 CATGTCACTT
Statistics
Matches: 78, Mismatches: 11, Indels: 16
0.74 0.10 0.15
Matches are distributed among these distances:
44 9 0.12
45 1 0.01
46 32 0.41
47 30 0.38
48 1 0.01
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCT
Found at i:44979198 original size:15 final size:15
Alignment explanation
Indices: 44979172--44979227 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
44979162 CAAGGAAACC
44979172 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
44979187 -ACATAGAGAAATCCA
1 GA-ATAAAGAAATCCA
44979202 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
44979217 GAATAAAGAAA
1 GAATAAAGAAA
44979228 CCCAAGATAC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
14 1 0.03
15 35 0.95
16 1 0.03
ACGTcount: A:0.61, C:0.12, G:0.14, T:0.12
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:44983624 original size:15 final size:15
Alignment explanation
Indices: 44983598--44983653 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
44983588 CAAGGAAACC
44983598 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
44983613 -AGATAGAGAAATCCA
1 GA-ATAAAGAAATCCA
44983628 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
44983643 GAATAAAGAAA
1 GAATAAAGAAA
44983654 CCCAAGATAC
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
14 1 0.03
15 35 0.95
16 1 0.03
ACGTcount: A:0.61, C:0.11, G:0.16, T:0.12
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:44988106 original size:28 final size:28
Alignment explanation
Indices: 44988072--44988127 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
44988062 TAAAGTTTAT
44988072 GTTGATGATATTGTATAGGAGAAAGTGA
1 GTTGATGATATTGTATAGGAGAAAGTGA
44988100 GTTGATGATATTGTATAGGAGAAAGTGA
1 GTTGATGATATTGTATAGGAGAAAGTGA
44988128 TGTCAAATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (28 bp):
GTTGATGATATTGTATAGGAGAAAGTGA
Found at i:44988505 original size:46 final size:47
Alignment explanation
Indices: 44988414--44988733 Score: 254
Period size: 46 Copynumber: 6.8 Consensus size: 47
44988404 TGGGTTATGG
*
44988414 TGAG-CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGA
1 TGAGTCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGA
*
44988460 TGAGTTCTAGTGTAAGA-CATGTTTGGGACAT-GCATCGGCCTCGAGA
1 TGAG-TCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGA
* *
44988506 TGTAAG-CCAGTGTAAGA-CATGTCTGGGACAT-GCATC-GACTACGAGA
1 TG--AGTCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCT-CGAGA
* * * *
44988552 TGTGTC-AGTGTAAGACCAAGTCTGGGACATGGCATCGGCAC-GGATA
1 TGAGTCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-CTCGAGA
* * *
44988598 TGTGCGAG-CTAGTGTAAGACCATGTCTGGGACATGGCGTCAGCCTCAATTTTGA
1 --T--GAGTCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA----GA
* * * *
44988652 T-AGTC-AGTGTAAGGCCATATCTGGGACATGGCATC-GACTTGATTGA
1 TGAGTCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA--GA
* *
44988698 TGAG-CCAGTGTAAGACCATGTCTGGGACATGACATC
1 TGAGTCTAGTGTAAGACCATGTCTGGGACATGGCATC
44988734 AGCATTATAC
Statistics
Matches: 225, Mismatches: 26, Indels: 45
0.76 0.09 0.15
Matches are distributed among these distances:
44 10 0.04
45 17 0.08
46 69 0.31
47 43 0.19
48 19 0.08
49 31 0.14
50 34 0.15
52 1 0.00
54 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (47 bp):
TGAGTCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGAGA
Found at i:44988736 original size:96 final size:95
Alignment explanation
Indices: 44988415--44988736 Score: 274
Period size: 96 Copynumber: 3.4 Consensus size: 95
44988405 GGGTTATGGT
* * * * *
44988415 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-CGAGATGAGTTCTAGTGTAAGA-C
1 GAGCCAGTGTAAGACCATGTCTGGGACAT-GCATCAGCCTACAAGATGTG-TC-AGTGTAAGACC
* * * *
44988478 ATGTTTGGGACAT-GCATCGGC-CTCGAGATGT-
63 AAGTCTGGGACATGGCATCGGCAC-GGATATGTC
* * *
44988509 AAGCCAGTGTAAGA-CATGTCTGGGACATGCATC-GACTACGAGATGTGTCAGTGTAAGACCAAG
1 GAGCCAGTGTAAGACCATGTCTGGGACATGCATCAGCCTACAAGATGTGTCAGTGTAAGACCAAG
44988572 TCTGGGACATGGCATCGGCACGGATATGTGC
66 TCTGGGACATGGCATCGGCACGGATATGT-C
* * ** *
44988603 GAGCTAGTGTAAGACCATGTCTGGGACATGGCGTCAGCCT-CAATTTTGATAGTCAGTGTAAGGC
1 GAGCCAGTGTAAGACCATGTCTGGGACAT-GCATCAGCCTACAA-GATG-T-GTCAGTGTAAGAC
*
44988667 CATA-TCTGGGACATGGCATC-G-ACTTGAT-TGAT-
62 CA-AGTCTGGGACATGGCATCGGCAC-GGATATG-TC
44988699 GAGCCAGTGTAAGACCATGTCTGGGACATGACATCAGC
1 GAGCCAGTGTAAGACCATGTCTGGGACATG-CATCAGC
44988737 ATTATACCCT
Statistics
Matches: 192, Mismatches: 20, Indels: 30
0.79 0.08 0.12
Matches are distributed among these distances:
90 9 0.05
91 16 0.08
92 27 0.14
93 15 0.08
94 24 0.12
95 15 0.08
96 40 0.21
97 9 0.05
98 6 0.03
99 30 0.16
100 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (95 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGCATCAGCCTACAAGATGTGTCAGTGTAAGACCAAG
TCTGGGACATGGCATCGGCACGGATATGTC
Found at i:44994292 original size:47 final size:47
Alignment explanation
Indices: 44994241--44994345 Score: 192
Period size: 47 Copynumber: 2.2 Consensus size: 47
44994231 TAGTATTAAT
*
44994241 TATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
44994288 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
*
44994335 AATGTGATAAG
1 TATGTGATAAG
44994346 TCCCGAAGGA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 56 1.00
ACGTcount: A:0.34, C:0.08, G:0.30, T:0.28
Consensus pattern (47 bp):
TATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
Found at i:44997410 original size:27 final size:27
Alignment explanation
Indices: 44997380--44997556 Score: 203
Period size: 27 Copynumber: 6.5 Consensus size: 27
44997370 TATTGAGTCT
* * * *
44997380 GCACACTCAGTGCTATATAATCAACTC
1 GCACACTTAGTGCTACATAGTCAAATC
* *
44997407 GCACACTTAGTGCTACGTAATCAAATC
1 GCACACTTAGTGCTACATAGTCAAATC
44997434 GCACACTTAGTGCTACATAGTCAAACTC
1 GCACACTTAGTGCTACATAGTCAAA-TC
** * *
44997462 GCACACTTAGTGCCGCATGGTCAATTC
1 GCACACTTAGTGCTACATAGTCAAATC
* **
44997489 GCACACTTAGTGC-ATCATATTCATTTC
1 GCACACTTAGTGCTA-CATAGTCAAATC
*
44997516 GCACACTTAGTGCAACATAGTCAAATC
1 GCACACTTAGTGCTACATAGTCAAATC
44997543 GCACACTTAGTGCT
1 GCACACTTAGTGCT
44997557 GTACAATTTA
Statistics
Matches: 129, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 105 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
GCACACTTAGTGCTACATAGTCAAATC
Found at i:44997518 original size:82 final size:81
Alignment explanation
Indices: 44997400--44997555 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
44997390 TGCTATATAA
* *
44997400 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
44997465 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
44997482 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
44997546 CACTTAGTGC
65 CACTTAGTGC
44997556 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:45013217 original size:54 final size:53
Alignment explanation
Indices: 45013156--45013298 Score: 178
Period size: 45 Copynumber: 2.8 Consensus size: 53
45013146 TACCGAGTAT
* *
45013156 CATTGATTGTAACA-GTGGTTGCTATGTGCTGATTCCACCGGGTAAATTGGGTAC
1 CATTGATTATAA-AGGTGGTTGCTATGTGCTGATTCCACCGGGT-AATCGGGTAC
*
45013210 CATTGATTATAAAGGTGGTTGCTATGTGTTGATT---CC-----ATCGGGTAC
1 CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGGGTAATCGGGTAC
45013255 CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGGGTA
1 CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGGGTA
45013299 CCATTGATTT
Statistics
Matches: 76, Mismatches: 4, Indels: 19
0.77 0.04 0.19
Matches are distributed among these distances:
45 41 0.54
48 2 0.03
51 2 0.03
53 1 0.01
54 30 0.39
ACGTcount: A:0.22, C:0.15, G:0.27, T:0.35
Consensus pattern (53 bp):
CATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACCGGGTAATCGGGTAC
Found at i:45013268 original size:45 final size:44
Alignment explanation
Indices: 45013204--45013378 Score: 232
Period size: 45 Copynumber: 4.0 Consensus size: 44
45013194 CGGGTAAATT
* *
45013204 GGGTACCATTGATTATAAAGGTGGTTGCTATGTGTTGATTCCATC
1 GGGTACCATTGATTATAAAGGTGG-TGCTATGTGCTGATTCCACC
45013249 GGGTACCATTGATTATAAAGGTGGTTGCTATGTGCTGATTCCACC
1 GGGTACCATTGATTATAAAGGTGG-TGCTATGTGCTGATTCCACC
*
45013294 GGGTACCATTGATT-TAAAGGTGGT--TATGTGTTGATTCCACC
1 GGGTACCATTGATTATAAAGGTGGTGCTATGTGCTGATTCCACC
* * * * *
45013335 GAGTATCATTGACTATAAGGGTGGTGCTGTGTGCTGA-TCCACC
1 GGGTACCATTGATTATAAAGGTGGTGCTATGTGCTGATTCCACC
45013378 G
1 G
45013379 TGTATTTGTT
Statistics
Matches: 118, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
41 27 0.23
42 9 0.08
43 8 0.07
44 17 0.14
45 57 0.48
ACGTcount: A:0.22, C:0.16, G:0.28, T:0.34
Consensus pattern (44 bp):
GGGTACCATTGATTATAAAGGTGGTGCTATGTGCTGATTCCACC
Found at i:45013358 original size:86 final size:87
Alignment explanation
Indices: 45013204--45013378 Score: 248
Period size: 86 Copynumber: 2.0 Consensus size: 87
45013194 CGGGTAAATT
* * *
45013204 GGGTACCATTGATTATAAAGGTGGTTGCTATGTGTTGATTCCATCGGGTACCATTGATTATAAAG
1 GGGTACCATTGATTATAAAGGTGGTT-CTATGTGTTGATTCCACCGAGTACCATTGACTATAAAG
45013269 GTGGTTGCTATGTGCTGATTCCACC
65 GTGG-TGCTATGTGCTGA-TCCACC
* *
45013294 GGGTACCATTGATT-TAAAGGTGG-T-TATGTGTTGATTCCACCGAGTATCATTGACTATAAGGG
1 GGGTACCATTGATTATAAAGGTGGTTCTATGTGTTGATTCCACCGAGTACCATTGACTATAAAGG
*
45013356 TGGTGCTGTGTGCTGATCCACC
66 TGGTGCTATGTGCTGATCCACC
45013378 G
1 G
45013379 TGTATTTGTT
Statistics
Matches: 79, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
84 7 0.09
85 12 0.15
86 36 0.46
88 1 0.01
89 9 0.11
90 14 0.18
ACGTcount: A:0.22, C:0.16, G:0.28, T:0.34
Consensus pattern (87 bp):
GGGTACCATTGATTATAAAGGTGGTTCTATGTGTTGATTCCACCGAGTACCATTGACTATAAAGG
TGGTGCTATGTGCTGATCCACC
Found at i:45013565 original size:15 final size:15
Alignment explanation
Indices: 45013545--45013574 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
45013535 TGATTAAGAG
45013545 TGAAAAGTAAAATTA
1 TGAAAAGTAAAATTA
*
45013560 TGAAAAGTAGAATTA
1 TGAAAAGTAAAATTA
45013575 GCAACAAAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.17, T:0.27
Consensus pattern (15 bp):
TGAAAAGTAAAATTA
Found at i:45022518 original size:68 final size:68
Alignment explanation
Indices: 45022441--45022661 Score: 343
Period size: 68 Copynumber: 3.2 Consensus size: 68
45022431 CTGTGAAATC
* * * **
45022441 AACAGATTCGGATAGCTACATTTATTAAATAAAACAGCATAAATGGCAGTGCATTGAACAGTGAA
1 AACACATTCGGACAGCTACATTTACTAAATAAAACAGCATAAATGATAGTGCATTGAACAGTGAA
45022506 TTT
66 TTT
*
45022509 AACACATTCGGACAGCTACATTTACTAAATGAAACAGCATAAATGATAGTGCATTGAACAGTGAA
1 AACACATTCGGACAGCTACATTTACTAAATAAAACAGCATAAATGATAGTGCATTGAACAGTGAA
45022574 TTT
66 TTT
* * * *
45022577 AACACATTCGGACTGCTACATTTACTAAATAAAACAGCATAAATGATGGTGCTTTGATCAGTGAA
1 AACACATTCGGACAGCTACATTTACTAAATAAAACAGCATAAATGATAGTGCATTGAACAGTGAA
*
45022642 TCT
66 TTT
45022645 AACACATTCGGACAGCT
1 AACACATTCGGACAGCT
45022662 TAATTTTAAG
Statistics
Matches: 140, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
68 140 1.00
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (68 bp):
AACACATTCGGACAGCTACATTTACTAAATAAAACAGCATAAATGATAGTGCATTGAACAGTGAA
TTT
Found at i:45025591 original size:20 final size:19
Alignment explanation
Indices: 45025520--45025596 Score: 57
Period size: 19 Copynumber: 3.9 Consensus size: 19
45025510 ATATATTTGT
* *
45025520 AAATATTATTAAAATTTATAA
1 AAATATTA-AAAAATTAAT-A
* *
45025541 AAATACTAAACAAATTCA-A
1 AAATATTAAA-AAATTAATA
45025560 AAATATTAAAAAATTAATA
1 AAATATTAAAAAATTAATA
* *
45025579 AAATCATTTAAAATTTAA
1 AAAT-ATTAAAAAATTAA
45025597 GTACAAAATG
Statistics
Matches: 46, Mismatches: 7, Indels: 7
0.77 0.12 0.12
Matches are distributed among these distances:
18 6 0.13
19 15 0.33
20 12 0.26
21 13 0.28
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (19 bp):
AAATATTAAAAAATTAATA
Found at i:45047210 original size:36 final size:34
Alignment explanation
Indices: 45047036--45047421 Score: 288
Period size: 35 Copynumber: 10.6 Consensus size: 34
45047026 ATGCCGACCT
*
45047036 TTAAAAAGGGTTGGGATAGACCTAGT-TAAGACCAACC
1 TTAAAAA-GGTTGGGATAGA-CT-GTCTAAG-GCAACC
* * *
45047073 TTTGAAAAAGGTTGTGATAAACCTGTCTAAGACAACC
1 -TT-AAAAAGGTTGGGATAGA-CTGTCTAAGGCAACC
* ** * * *
45047110 TTAAAAAGGTCGATATAGTTCTTGTTTAAGGCAACTT
1 TTAAAAAGGTTGGGATAG-AC-TGTCTAAGGCAAC-C
* *
45047147 TTAAAAACGGTTGGGATAGAGCCGTCTAATGCAACC
1 TTAAAAA-GGTTGGGATAGA-CTGTCTAAGGCAACC
* ** *
45047183 TTAAAAAGGTTGGGATCGACATTGTCTAAAACGACC
1 TTAAAAAGGTTGGGATAGAC--TGTCTAAGGCAACC
*
45047219 TATAAAAAAAGGTTGGGATAGACCTATCTAAGGCAACC
1 T-T--AAAAAGGTTGGGATAGA-CTGTCTAAGGCAACC
* *
45047257 TTAAACAGGTTAGGATAGACCATGTCTAAGGCAACC
1 TTAAAAAGGTTGGGATAGA-C-TGTCTAAGGCAACC
* *
45047293 TTTAAAAAAGGTCGGAATAGACTTGTCTAAGGCAACC
1 -TT-AAAAAGGTTGGGATAGAC-TGTCTAAGGCAACC
* *
45047330 TTAAAAAGGTTGGGATAGACCATGTCTAAGGTAACTT
1 TTAAAAAGGTTGGGATAGA-C-TGTCTAAGGCAAC-C
* *
45047367 TTAAAAAAGGTTGGGATAGACCTGTTTAAAGCAACC
1 TT-AAAAAGGTTGGGATAGA-CTGTCTAAGGCAACC
45047403 TTAAAAAGGTTGGGATAGA
1 TTAAAAAGGTTGGGATAGA
45047422 TATTATTTAA
Statistics
Matches: 283, Mismatches: 46, Indels: 41
0.76 0.12 0.11
Matches are distributed among these distances:
34 1 0.00
35 73 0.26
36 61 0.22
37 55 0.19
38 71 0.25
39 21 0.07
40 1 0.00
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.26
Consensus pattern (34 bp):
TTAAAAAGGTTGGGATAGACTGTCTAAGGCAACC
Found at i:45047313 original size:147 final size:146
Alignment explanation
Indices: 45047077--45047421 Score: 392
Period size: 147 Copynumber: 2.4 Consensus size: 146
45047067 CCAACCTTTG
* * * * * ** * *
45047077 AAAAAGGTTGTGATAAACCTGTCTAAGACAACCTTAAAAAGG-TCGATATAGTTCTTGTTTAAGG
1 AAAAAGGTTGGGATAGACCTGTCTAAGGCAACCTTAAAAAGGTTAG-GATAGACCATGTCTAAGG
* * * * * *
45047141 CAACTTTTAAAAACGGTTGGGATAGAGC-CGTCTAATGCAACCTTAAAAAGGTTGGGATCGA-CA
65 CAACCTTTAAAAAAGGTCGGAATAGA-CTCGTCTAAGGCAACCTTAAAAAGGTTGGGATAGACCA
*
45047204 TTGTCTAAAACG-ACCTATAA
129 -TGTCT--AACGTAACTATAA
* *
45047224 AAAAAGGTTGGGATAGACCTATCTAAGGCAACCTTAAACAGGTTAGGATAGACCATGTCTAAGGC
1 AAAAAGGTTGGGATAGACCTGTCTAAGGCAACCTTAAAAAGGTTAGGATAGACCATGTCTAAGGC
*
45047289 AACCTTTAAAAAAGGTCGGAATAGACTTGTCTAAGGCAACCTTAAAAAGGTTGGGATAGACCATG
66 AACCTTTAAAAAAGGTCGGAATAGACTCGTCTAAGGCAACCTTAAAAAGGTTGGGATAGACCATG
* * *
45047354 TCTAAGGTAACTTTTA
131 TCTAACGTAACTATAA
* * *
45047370 AAAAAGGTTGGGATAGACCTGTTTAAAGCAACCTTAAAAAGGTTGGGATAGA
1 AAAAAGGTTGGGATAGACCTGTCTAAGGCAACCTTAAAAAGGTTAGGATAGA
45047422 TATTATTTAA
Statistics
Matches: 167, Mismatches: 27, Indels: 9
0.82 0.13 0.04
Matches are distributed among these distances:
145 3 0.02
146 53 0.32
147 107 0.64
148 4 0.02
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (146 bp):
AAAAAGGTTGGGATAGACCTGTCTAAGGCAACCTTAAAAAGGTTAGGATAGACCATGTCTAAGGC
AACCTTTAAAAAAGGTCGGAATAGACTCGTCTAAGGCAACCTTAAAAAGGTTGGGATAGACCATG
TCTAACGTAACTATAA
Found at i:45047445 original size:73 final size:73
Alignment explanation
Indices: 45047036--45047461 Score: 387
Period size: 73 Copynumber: 5.8 Consensus size: 73
45047026 ATGCCGACCT
* * * * * *
45047036 TTAAAAAGGGTTGGGATAGACCTAGT-TAAGACCAACCTTTGAAAAAGGTTGTGATAAACCTGTC
1 TTAAAAA-GGTTGGGATAGACATTGTCTAA-AGCAACCTTTAAAAAAGGTTGGGATAGACCTGTC
45047100 T-AAGACAACC
64 TAAAG-CAACC
* ** * * * * *
45047110 TTAAAAAGGTCGATATAGTTC-TTGTTTAAGGCAACTTTTAAAAACGGTTGGGATAGAGCC-GTC
1 TTAAAAAGGTTGGGATAG-ACATTGTCTAAAGCAACCTTTAAAAAAGGTTGGGATAGA-CCTGTC
*
45047173 TAATGCAACC
64 TAAAGCAACC
* * * * *
45047183 TTAAAAAGGTTGGGATCGACATTGTCTAAAACGACCTATAAAAAAAGGTTGGGATAGACCTATCT
1 TTAAAAAGGTTGGGATAGACATTGTCTAAAGCAACCT-TTAAAAAAGGTTGGGATAGACCTGTCT
*
45047248 AAGGCAACC
65 AAAGCAACC
* * * * * *
45047257 TTAAACAGGTTAGGATAGACCA-TGTCTAAGGCAACCTTTAAAAAAGGTCGGAATAGACTTGTCT
1 TTAAAAAGGTTGGGATAGA-CATTGTCTAAAGCAACCTTTAAAAAAGGTTGGGATAGACCTGTCT
*
45047321 AAGGCAACC
65 AAAGCAACC
* * * *
45047330 TTAAAAAGGTTGGGATAGACCA-TGTCTAAGGTAACTTTTAAAAAAGGTTGGGATAGACCTGTTT
1 TTAAAAAGGTTGGGATAGA-CATTGTCTAAAGCAACCTTTAAAAAAGGTTGGGATAGACCTGTCT
45047394 AAAGCAACC
65 AAAGCAACC
* * * * * *
45047403 TTAAAAAGGTTGGGATAGATATTATTTAAAACAACCTATAAAAAAAGATTGGGATAGAC
1 TTAAAAAGGTTGGGATAGACATTGTCTAAAGCAACCT-TTAAAAAAGGTTGGGATAGAC
45047462 ACGTATAATA
Statistics
Matches: 286, Mismatches: 56, Indels: 20
0.79 0.15 0.06
Matches are distributed among these distances:
72 2 0.01
73 191 0.67
74 91 0.32
75 2 0.01
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.26
Consensus pattern (73 bp):
TTAAAAAGGTTGGGATAGACATTGTCTAAAGCAACCTTTAAAAAAGGTTGGGATAGACCTGTCTA
AAGCAACC
Found at i:45047583 original size:7 final size:6
Alignment explanation
Indices: 45047569--45047611 Score: 59
Period size: 6 Copynumber: 6.8 Consensus size: 6
45047559 ACAACTAAAA
*
45047569 AAAATT AAAATTT AAAATAC AAAATT AAAATT AAAATT AAAAT
1 AAAATT AAAA-TT AAAAT-T AAAATT AAAATT AAAATT AAAAT
45047612 AAAGATTGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
6 22 0.67
7 11 0.33
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (6 bp):
AAAATT
Found at i:45050329 original size:44 final size:46
Alignment explanation
Indices: 45050261--45050383 Score: 189
Period size: 44 Copynumber: 2.7 Consensus size: 46
45050251 ATCAAATAAA
*
45050261 TAATGCATACTTTA-CCTGGGTAAAGTATGCATTATTAGTGAA-T-C
1 TAATACATACTTTATCC-GGGTAAAGTATGCATTATTAGTGAACTGC
*
45050305 TACTACATACTTTATCCGGGTAAAGTATGCATTATTAGTGAATCTGC
1 TAATACATACTTTATCCGGGTAAAGTATGCATTATTAGTGAA-CTGC
45050352 TAATACATACTTTATCCGGGTAAAGTATGCAT
1 TAATACATACTTTATCCGGGTAAAGTATGCAT
45050384 ACATTCGTAA
Statistics
Matches: 72, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
44 37 0.51
45 2 0.03
46 1 0.01
47 32 0.44
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (46 bp):
TAATACATACTTTATCCGGGTAAAGTATGCATTATTAGTGAACTGC
Found at i:45051029 original size:21 final size:22
Alignment explanation
Indices: 45051000--45051042 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
45050990 AGATTAATCG
45051000 CAAACCCATAA-CACAAAACCC
1 CAAACCCATAATCACAAAACCC
* *
45051021 CAAATCCATAATCATAAAACCC
1 CAAACCCATAATCACAAAACCC
45051043 TAAAATCATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.51, C:0.37, G:0.00, T:0.12
Consensus pattern (22 bp):
CAAACCCATAATCACAAAACCC
Found at i:45051052 original size:22 final size:21
Alignment explanation
Indices: 45051005--45051053 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
45050995 AATCGCAAAC
*
45051005 CCATAACACAAAACCCCAAAT
1 CCATAACACAAAACCCAAAAT
*
45051026 CCATAATCATAAAACCCTAAAAT
1 CCATAA-CACAAAACCC-AAAAT
45051049 -CATAA
1 CCATAA
45051054 ACCCCAAACC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 6 0.25
22 14 0.58
23 4 0.17
ACGTcount: A:0.53, C:0.31, G:0.00, T:0.16
Consensus pattern (21 bp):
CCATAACACAAAACCCAAAAT
Found at i:45051092 original size:37 final size:37
Alignment explanation
Indices: 45051015--45051092 Score: 111
Period size: 37 Copynumber: 2.1 Consensus size: 37
45051005 CCATAACACA
* * * *
45051015 AAACCCCAAATCCATAATCATAAAACCCTAAAATCAT
1 AAACCCCAAACCCATAAACACAAAACCCTAAAACCAT
*
45051052 AAACCCCAAACCCATAAACACAAAACCCTAAAACCTT
1 AAACCCCAAACCCATAAACACAAAACCCTAAAACCAT
45051089 AAAC
1 AAAC
45051093 TATATAAACT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.53, C:0.33, G:0.00, T:0.14
Consensus pattern (37 bp):
AAACCCCAAACCCATAAACACAAAACCCTAAAACCAT
Done.