Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold25
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: 9553305
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 6276 characters in sequence are not A, C, G, or T
File 28 of 56
Found at i:4764050 original size:29 final size:29
Alignment explanation
Indices: 4764018--4764081 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
4764008 AAAATTAACT
**
4764018 ATTTTTATCCTCAATGTTGAATTTTAATA
1 ATTTTTATCCTCAATAATGAATTTTAATA
* * *
4764047 ATTTTTATCCTTAATAATGATTTTTATTA
1 ATTTTTATCCTCAATAATGAATTTTAATA
4764076 ATTTTT
1 ATTTTT
4764082 TTAAATATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.30, C:0.08, G:0.05, T:0.58
Consensus pattern (29 bp):
ATTTTTATCCTCAATAATGAATTTTAATA
Found at i:4766441 original size:13 final size:12
Alignment explanation
Indices: 4766384--4766445 Score: 67
Period size: 13 Copynumber: 5.2 Consensus size: 12
4766374 TCATAATTTT
4766384 TATTATTATAAA
1 TATTATTATAAA
4766396 TA-TA--ATAAA
1 TATTATTATAAA
*
4766405 TATTATTATAAT
1 TATTATTATAAA
*
4766417 TAATTATAATAAA
1 T-ATTATTATAAA
4766430 TATTATTCATAAA
1 TATTATT-ATAAA
4766443 TAT
1 TAT
4766446 CAATAATAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
9 7 0.17
10 2 0.05
11 2 0.05
12 12 0.29
13 18 0.44
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (12 bp):
TATTATTATAAA
Found at i:4767375 original size:18 final size:19
Alignment explanation
Indices: 4767339--4767379 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
4767329 TTAATTTGGT
**
4767339 ATTTTTTTATATTTTTAAA
1 ATTTTTTTATATTAATAAA
4767358 ATTTTTTTA-ATTAATAAA
1 ATTTTTTTATATTAATAAA
4767376 ATTT
1 ATTT
4767380 AAACTTTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (19 bp):
ATTTTTTTATATTAATAAA
Found at i:4768158 original size:19 final size:20
Alignment explanation
Indices: 4768136--4768173 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
4768126 TTTTAATTTG
*
4768136 ATTATTTTTAT-TTATTTAA
1 ATTATTTATATATTATTTAA
4768155 ATTATTTATATATTATTTA
1 ATTATTTATATATTATTTA
4768174 TAAATAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
ATTATTTATATATTATTTAA
Found at i:4768161 original size:9 final size:11
Alignment explanation
Indices: 4768136--4768175 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
4768126 TTTTAATTTG
*
4768136 ATTATTTTTAT
1 ATTATTTATAT
4768147 -TTATTTA-A-
1 ATTATTTATAT
4768155 ATTATTTATAT
1 ATTATTTATAT
4768166 ATTATTTATA
1 ATTATTTATA
4768176 AATAATAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
9 8 0.32
10 7 0.28
11 10 0.40
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
ATTATTTATAT
Found at i:4768170 original size:30 final size:30
Alignment explanation
Indices: 4768116--4768172 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
4768106 GTTAAAAGTG
*
4768116 TTTATTTAAATTTTAATTTGATTATTTTTA
1 TTTATTTAAATTTTAATATGATTATTTTTA
*
4768146 TTTATTTAAATTATTTATAT-ATTATTT
1 TTTATTTAAATT-TTAATATGATTATTT
4768173 ATAAATAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 19 0.79
31 5 0.21
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.67
Consensus pattern (30 bp):
TTTATTTAAATTTTAATATGATTATTTTTA
Found at i:4769039 original size:3 final size:3
Alignment explanation
Indices: 4769033--4769089 Score: 75
Period size: 3 Copynumber: 19.7 Consensus size: 3
4769023 TAATACATTA
*
4769033 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAC ATAT AA- AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT
4769076 AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AA
4769090 AAAAACACAT
Statistics
Matches: 50, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
2 6 0.12
3 42 0.84
4 2 0.04
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:4769084 original size:28 final size:30
Alignment explanation
Indices: 4769045--4769108 Score: 103
Period size: 30 Copynumber: 2.1 Consensus size: 30
4769035 TAATAATAAT
4769045 AATAATAATAATAATAATAAA-ACATATAAAA
1 AATAATAATAATAA-AA-AAACACATATAAAA
4769076 AATAATAATAATAAAAAAACACATATAAAA
1 AATAATAATAATAAAAAAACACATATAAAA
4769106 AAT
1 AAT
4769109 TAACTAATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
29 3 0.09
30 15 0.47
31 14 0.44
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (30 bp):
AATAATAATAATAAAAAAACACATATAAAA
Found at i:4775185 original size:16 final size:16
Alignment explanation
Indices: 4775166--4775236 Score: 72
Period size: 16 Copynumber: 4.3 Consensus size: 16
4775156 CTTACATATT
4775166 AAATTTAAAATAATTA
1 AAATTTAAAATAATTA
* *
4775182 AAATATAATATAATTA
1 AAATTTAAAATAATTA
* *
4775198 TAA-TTAAAATAATTT
1 AAATTTAAAATAATTA
4775213 AAATTTAAAAATAAATTA
1 AAATTT-AAAAT-AATTA
4775231 ATAATT
1 A-AATT
4775237 ATAAGATATA
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
15 11 0.26
16 18 0.42
17 5 0.12
18 5 0.12
19 4 0.09
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
AAATTTAAAATAATTA
Found at i:4775497 original size:21 final size:21
Alignment explanation
Indices: 4775459--4775498 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
4775449 ATTTTATTTT
* * *
4775459 TAATTTTTTATTATAATAATA
1 TAATTTTTAATCACAATAATA
4775480 TAATTTTTAATCACAATAA
1 TAATTTTTAATCACAATAA
4775499 AAATTATATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (21 bp):
TAATTTTTAATCACAATAATA
Found at i:4780437 original size:20 final size:20
Alignment explanation
Indices: 4780386--4780460 Score: 69
Period size: 20 Copynumber: 3.8 Consensus size: 20
4780376 AAAAAGACAT
** *
4780386 AATGTATCGATACATTGTAG
1 AATGTATCGATACATTCAAA
* *
4780406 AATATATCGATACATTCATA
1 AATGTATCGATACATTCAAA
* * * *
4780426 CATGTATTGATATATTGAAA
1 AATGTATCGATACATTCAAA
4780446 AATGTATCGATACAT
1 AATGTATCGATACAT
4780461 CAGGGTATGA
Statistics
Matches: 41, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.36
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:4780454 original size:40 final size:39
Alignment explanation
Indices: 4780383--4780460 Score: 102
Period size: 40 Copynumber: 2.0 Consensus size: 39
4780373 GGTAAAAAGA
* *
4780383 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* * *
4780422 CATACATGTATTGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
4780461 CAGGGTATGA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
39 4 0.12
40 29 0.88
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.36
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:4781037 original size:32 final size:29
Alignment explanation
Indices: 4780988--4781750 Score: 750
Period size: 32 Copynumber: 25.2 Consensus size: 29
4780978 AATATGGTGA
*
4780988 TTTGAAAAGGGTTGCCACTGACTTGCATGGGC
1 TTTGAAATGGG-TGCCACTGACTTG--TGGGC
* *
4781020 TTTTAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGG-TGCCACTGAC-T-TGTGGGC
* *
4781052 TTTGAAATGAGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATG-GGTGCCACTGAC-T-TGTGGGC
* * *
4781084 TTTGGAATGGGTTGCCACCGACTTGTGTGGGT
1 TTTGAAATGGG-TGCCACTGAC-T-TGTGGGC
*
4781116 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGG-TGCCACTGAC-T-TGTGGGC
*
4781148 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGG-TGCCACTGAC-T-TGTGGGC
*
4781180 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGG-TGCCACTGAC-T-TGTGGGC
4781212 TTTGAAATGGGTTGCCACTGACTTGTGTGGGC
1 TTTGAAATGGG-TGCCACTGAC-T-TGTGGGC
* *
4781244 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGG-TGCCACTGAC-T-TGTGGGC
* *
4781276 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGG-TGCCACTGAC-T-TGTGGGC
* *
4781308 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGG-TGCCACTGAC-T-TGTGGGC
*
4781340 TTTGAAATGGGTTGCCACCGACTTGTGGGC
1 TTTGAAATGGG-TGCCACTGACTTGTGGGC
* * * *
4781370 TCTGAAAAGAGTGCCACTGGCTTGTGGGC
1 TTTGAAATGGGTGCCACTGACTTGTGGGC
4781399 TTTGAAA-GGAGTGCCACTGACTTGTGGGC
1 TTTGAAATGG-GTGCCACTGACTTGTGGGC
* * *
4781428 TTTGAAA-GGATGCCAATGAGTTGTGGGC
1 TTTGAAATGGGTGCCACTGACTTGTGGGC
4781456 TTTGAAA-GGGTGCCACTGACTTGTGGGC
1 TTTGAAATGGGTGCCACTGACTTGTGGGC
* * * *
4781484 TTTGAAAAGAGTGCCATTGATTTGTGGGC
1 TTTGAAATGGGTGCCACTGACTTGTGGGC
4781513 TTTGAAA-GGAGTGCCACTGACTTGTGGGC
1 TTTGAAATGG-GTGCCACTGACTTGTGGGC
4781542 TTTGAAA-GGAGTGCCACTGACTTGTGGGC
1 TTTGAAATGG-GTGCCACTGACTTGTGGGC
* * * *
4781571 TTTAAAAAGAGTGCCACTGATTTGTGGGC
1 TTTGAAATGGGTGCCACTGACTTGTGGGC
* * * * *
4781600 TTTGAAAAGAGTACCACTAACTTGTAGGC
1 TTTGAAATGGGTGCCACTGACTTGTGGGC
4781629 TTTGAAA-GGAGTGCCACTGACTTGTGGGC
1 TTTGAAATGG-GTGCCACTGACTTGTGGGC
4781658 TTTGAAA-GGGTGCCACTGACTTGTGGGC
1 TTTGAAATGGGTGCCACTGACTTGTGGGC
* * *
4781686 TTTGAAAAGAGTGCCACTGATTTGTGGGC
1 TTTGAAATGGGTGCCACTGACTTGTGGGC
4781715 TTTGAAA-GGAGTGCCACTGACTTGTGGGC
1 TTTGAAATGG-GTGCCACTGACTTGTGGGC
4781744 TTTGAAA
1 TTTGAAA
4781751 GGGATGAACA
Statistics
Matches: 670, Mismatches: 50, Indels: 25
0.90 0.07 0.03
Matches are distributed among these distances:
28 78 0.12
29 251 0.37
30 16 0.02
31 2 0.00
32 319 0.48
33 2 0.00
34 2 0.00
ACGTcount: A:0.19, C:0.17, G:0.33, T:0.30
Consensus pattern (29 bp):
TTTGAAATGGGTGCCACTGACTTGTGGGC
Found at i:4782988 original size:1 final size:1
Alignment explanation
Indices: 4782984--4783026 Score: 50
Period size: 1 Copynumber: 43.0 Consensus size: 1
4782974 TTTTTTGCTA
* * * *
4782984 TTTTTTCTTTTTTTTTTGTTTTTTTTGTTTTGTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
4783027 GGGTGCAACG
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.00, C:0.02, G:0.07, T:0.91
Consensus pattern (1 bp):
T
Found at i:4782998 original size:21 final size:21
Alignment explanation
Indices: 4782974--4783021 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
4782964 GACCCTTCTA
4782974 TTTTTTGCTATTTTTTCTTTT-
1 TTTTTTG-TATTTTTTCTTTTG
* *
4782995 TTTTTTGTTTTTTTTGTTTTG
1 TTTTTTGTATTTTTTCTTTTG
4783016 TTTTTT
1 TTTTTT
4783022 TTTTTGGGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.02, C:0.04, G:0.08, T:0.85
Consensus pattern (21 bp):
TTTTTTGTATTTTTTCTTTTG
Found at i:4783007 original size:20 final size:21
Alignment explanation
Indices: 4782974--4783026 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
4782964 GACCCTTCTA
*
4782974 TTTTTTGCTATTTTTTCTTTT-
1 TTTTTTG-TTTTTTTTCTTTTG
*
4782995 TTTTTTGTTTTTTTTGTTTTG
1 TTTTTTGTTTTTTTTCTTTTG
4783016 TTTTTT-TTTTT
1 TTTTTTGTTTTT
4783027 GGGTGCAACG
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 16 0.55
21 13 0.45
ACGTcount: A:0.02, C:0.04, G:0.08, T:0.87
Consensus pattern (21 bp):
TTTTTTGTTTTTTTTCTTTTG
Found at i:4783014 original size:14 final size:13
Alignment explanation
Indices: 4782991--4783026 Score: 63
Period size: 14 Copynumber: 2.7 Consensus size: 13
4782981 CTATTTTTTC
4782991 TTTTTTTTTTGTT
1 TTTTTTTTTTGTT
4783004 TTTTTTGTTTTGTT
1 TTTTTT-TTTTGTT
4783018 TTTTTTTTT
1 TTTTTTTTT
4783027 GGGTGCAACG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 9 0.41
14 13 0.59
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (13 bp):
TTTTTTTTTTGTT
Found at i:4794917 original size:7 final size:7
Alignment explanation
Indices: 4794905--4794936 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
4794895 TGTAAAAGTA
4794905 CTTGTGC
1 CTTGTGC
4794912 CTTGTGC
1 CTTGTGC
4794919 CTTGTGC
1 CTTGTGC
*
4794926 CTTGTTC
1 CTTGTGC
4794933 CTTG
1 CTTG
4794937 ACATGGTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.00, C:0.28, G:0.25, T:0.47
Consensus pattern (7 bp):
CTTGTGC
Found at i:4796134 original size:23 final size:23
Alignment explanation
Indices: 4796108--4796164 Score: 105
Period size: 23 Copynumber: 2.5 Consensus size: 23
4796098 TGGACATGTT
4796108 AAAAATGCATGAAACATAATAAA
1 AAAAATGCATGAAACATAATAAA
*
4796131 AAAAATGCATGAAACATAATCAA
1 AAAAATGCATGAAACATAATAAA
4796154 AAAAATGCATG
1 AAAAATGCATG
4796165 GTCAAAGGCT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.61, C:0.11, G:0.11, T:0.18
Consensus pattern (23 bp):
AAAAATGCATGAAACATAATAAA
Found at i:4797127 original size:20 final size:20
Alignment explanation
Indices: 4797080--4797154 Score: 69
Period size: 20 Copynumber: 3.8 Consensus size: 20
4797070 AAAAAGACAT
* ** *
4797080 AATGTATTGATACATTGTAG
1 AATGTATCGATACATTCAAA
* *
4797100 AATATATCGATACATTCATA
1 AATGTATCGATACATTCAAA
* * *
4797120 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCAAA
4797140 AATGTATCGATACAT
1 AATGTATCGATACAT
4797155 CAGGGTATGA
Statistics
Matches: 42, Mismatches: 13, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.36
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:4797148 original size:40 final size:39
Alignment explanation
Indices: 4797077--4797154 Score: 102
Period size: 40 Copynumber: 2.0 Consensus size: 39
4797067 GGTAAAAAGA
* * *
4797077 CATAATGTATTGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
4797116 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
4797155 CAGGGTATGA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
39 4 0.12
40 29 0.88
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.36
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:4798451 original size:57 final size:58
Alignment explanation
Indices: 4798390--4798502 Score: 138
Period size: 57 Copynumber: 2.0 Consensus size: 58
4798380 GAAGATGAAC
* * * * *
4798390 TTAAAATGCATGAAATTATATAAATGGT-ATGAACCATGAAAAATGATTAAAATGACG
1 TTAAAATGCATAAAATTACATAAATGATCATAAACCATAAAAAATGATTAAAATGACG
* * **
4798447 TTAAAGTGCATAAAATTACATATATGATCATAAATTATAAAAAATGATTAAAATGA
1 TTAAAATGCATAAAATTACATAAATGATCATAAACCATAAAAAATGATTAAAATGA
4798503 ACCTAAAAGT
Statistics
Matches: 46, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
57 23 0.50
58 23 0.50
ACGTcount: A:0.51, C:0.06, G:0.12, T:0.30
Consensus pattern (58 bp):
TTAAAATGCATAAAATTACATAAATGATCATAAACCATAAAAAATGATTAAAATGACG
Found at i:4798960 original size:27 final size:29
Alignment explanation
Indices: 4798910--4798977 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 29
4798900 GGATTTATAG
* *
4798910 ATATATGTATATGTGTAATAAAAGATGAT
1 ATATATATATATATGTAATAAAAGATGAT
4798939 ATATATATATATATGT-AT-AAAGATGAT
1 ATATATATATATATGTAATAAAAGATGAT
*
4798966 GTAT-TATATATA
1 ATATATATATATA
4798978 AGCATGTGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
26 8 0.22
27 12 0.33
28 2 0.06
29 14 0.39
ACGTcount: A:0.46, C:0.00, G:0.13, T:0.41
Consensus pattern (29 bp):
ATATATATATATATGTAATAAAAGATGAT
Found at i:4799002 original size:2 final size:2
Alignment explanation
Indices: 4798995--4799021 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4798985 GTTAATAAAC
4798995 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
4799022 GTATTTGATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4800408 original size:25 final size:26
Alignment explanation
Indices: 4800373--4800434 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 26
4800363 AATAAAAAAG
* * *
4800373 TTTATATTTAATTTTTTATAC-TTTT
1 TTTATACTTAATCTTGTATACTTTTT
*
4800398 TTTATACTTAATCTTGTGTACTTTTT
1 TTTATACTTAATCTTGTATACTTTTT
*
4800424 TTTACACTTAA
1 TTTATACTTAA
4800435 CTCGTTGTGG
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
25 17 0.55
26 14 0.45
ACGTcount: A:0.24, C:0.10, G:0.03, T:0.63
Consensus pattern (26 bp):
TTTATACTTAATCTTGTATACTTTTT
Found at i:4800544 original size:12 final size:13
Alignment explanation
Indices: 4800529--4800561 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
4800519 CTTCTTTTTC
4800529 GTCTTCATCTT-A
1 GTCTTCATCTTCA
4800541 GTCTTCATCTTCA
1 GTCTTCATCTTCA
4800554 -TCTTCATC
1 GTCTTCATC
4800562 ATCTTTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 19 0.95
13 1 0.05
ACGTcount: A:0.15, C:0.30, G:0.06, T:0.48
Consensus pattern (13 bp):
GTCTTCATCTTCA
Found at i:4803930 original size:2 final size:2
Alignment explanation
Indices: 4803921--4803949 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
4803911 AATACAGATA
4803921 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4803950 TTGTGAAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:4804683 original size:14 final size:14
Alignment explanation
Indices: 4804654--4804695 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
4804644 ATAATAAATA
4804654 AAATTTAA-ATTATT
1 AAATTTAATATT-TT
4804668 AAATTTAATATTTT
1 AAATTTAATATTTT
* *
4804682 AATTTTTATATTTT
1 AAATTTAATATTTT
4804696 TAAAATTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 22 0.88
15 3 0.12
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
AAATTTAATATTTT
Found at i:4804752 original size:22 final size:21
Alignment explanation
Indices: 4804716--4804768 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
4804706 ATAAATAAGA
*
4804716 AAAAAATTA-TTAATAGTGTT
1 AAAAAATTATTTAATAGTGAT
*
4804736 AAAAAATTATTTAAATATTGAT
1 AAAAAATTATTT-AATAGTGAT
*
4804758 AAAATATTATT
1 AAAAAATTATT
4804769 ATGTCTTATG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 9 0.32
21 2 0.07
22 17 0.61
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.42
Consensus pattern (21 bp):
AAAAAATTATTTAATAGTGAT
Found at i:4804988 original size:29 final size:28
Alignment explanation
Indices: 4804936--4805007 Score: 85
Period size: 29 Copynumber: 2.6 Consensus size: 28
4804926 TTGTTATAAT
*
4804936 TTTAA-AATATAAAAATAACATATTAAA
1 TTTAATAATATAAAAATAAAATATTAAA
**
4804963 TTTAATAATATAAAAATAAAAATATTTTA
1 TTTAATAATATAAAAAT-AAAATATTAAA
4804992 TTTAAT-ATAATAAAAA
1 TTTAATAAT-ATAAAAA
4805008 ACTCTTAATA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
27 5 0.13
28 13 0.33
29 21 0.54
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (28 bp):
TTTAATAATATAAAAATAAAATATTAAA
Found at i:4805003 original size:34 final size:35
Alignment explanation
Indices: 4804938--4805004 Score: 82
Period size: 34 Copynumber: 1.9 Consensus size: 35
4804928 GTTATAATTT
*
4804938 TAAAATATAAAAATAACATATTAAATTTAATAATA
1 TAAAATATAAAAATAACATATTAAATATAATAATA
*** *
4804973 TAAAA-ATAAAAATATTTTATTTAATATAATAA
1 TAAAATATAAAAATAACATATTAAATATAATAA
4805005 AAAACTCTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
34 22 0.81
35 5 0.19
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.37
Consensus pattern (35 bp):
TAAAATATAAAAATAACATATTAAATATAATAATA
Found at i:4805184 original size:284 final size:280
Alignment explanation
Indices: 4804835--4805356 Score: 938
Period size: 285 Copynumber: 1.9 Consensus size: 280
4804825 TAAATTTAAG
4804835 TTTTTTTATATAAAATTTAAAATTTTATATCACGTATCAATATTTTATCGATATTTAAATAATTT
1 TTTTTTTATATAAAATTTAAAATTTTATATCACGTATCAATATTTTATCGATATTTAAATAATTT
* *
4804900 TTTAAAATTATTAATAATTTTATTATTTGTTATAATTTT-AAAATATAAAAATAACATATTAAAT
66 TTTAAAATTATTAATAATTTTATTATTTGTTATAATTTTAAAAATATAAAAATAAAAAATTAAAT
*
4804964 TTAATAATATAAAAATAAAAATATTTTATTTAATATAATAAAAAACTCTTAATAAATTTTTACTG
131 TTAATAATATAAAAATAAAAATATTTTATTTAATATAATAAAAAACGCTTAATAAATTTTTACTG
4805029 AATAAGTAAAATTCAACTTCACTTTTGAAAAGCTAGGCGATGATTTATACAAAAATCGATTTGAG
196 AATAAGTAAAATTCAACTTCACTTTTGAAAAGCTAGGCGATGATTTATACAAAAATCGATTTGAG
4805094 TTTATCATCATATTTGAGTA
261 TTTATCATCATATTTGAGTA
4805114 TTTTTTTATATAAAATTTAAAATTTTATATCACATGATGTATCAATATTTTATCGATATTTAAAT
1 TTTTTTTATATAAAATTTAAAATTTTATATCAC-----GTATCAATATTTTATCGATATTTAAAT
4805179 AATTTTTTAAAATTATTAATAATTTTATTATTTGTTATAATTTTAAAAATATAAAAATAAAAAAT
61 AATTTTTTAAAATTATTAATAATTTTATTATTTGTTATAATTTTAAAAATATAAAAATAAAAAAT
4805244 TAAATTTAATAATATAAAAATAAAAATATTTTATTTAATATAATAAAAAACGCTTAATAAATTTT
126 TAAATTTAATAATATAAAAATAAAAATATTTTATTTAATATAATAAAAAACGCTTAATAAATTTT
* * *
4805309 TACTGAATAAGTAAATTTCAACTTGACTTTTGAAAAGTTAGGCGATGA
191 TACTGAATAAGTAAAATTCAACTTCACTTTTGAAAAGCTAGGCGATGA
4805357 CCGCATTTGT
Statistics
Matches: 231, Mismatches: 6, Indels: 6
0.95 0.02 0.02
Matches are distributed among these distances:
279 33 0.14
284 71 0.31
285 127 0.55
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.44
Consensus pattern (280 bp):
TTTTTTTATATAAAATTTAAAATTTTATATCACGTATCAATATTTTATCGATATTTAAATAATTT
TTTAAAATTATTAATAATTTTATTATTTGTTATAATTTTAAAAATATAAAAATAAAAAATTAAAT
TTAATAATATAAAAATAAAAATATTTTATTTAATATAATAAAAAACGCTTAATAAATTTTTACTG
AATAAGTAAAATTCAACTTCACTTTTGAAAAGCTAGGCGATGATTTATACAAAAATCGATTTGAG
TTTATCATCATATTTGAGTA
Found at i:4805258 original size:28 final size:29
Alignment explanation
Indices: 4805220--4805292 Score: 96
Period size: 28 Copynumber: 2.6 Consensus size: 29
4805210 TTGTTATAAT
*
4805220 TTTAAAAATATAAAAATAAAAA-ATTAAA
1 TTTAATAATATAAAAATAAAAATATTAAA
**
4805248 TTTAATAATATAAAAATAAAAATATTTTA
1 TTTAATAATATAAAAATAAAAATATTAAA
4805277 TTTAAT-ATAATAAAAA
1 TTTAATAAT-ATAAAAA
4805293 ACGCTTAATA
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
28 23 0.57
29 17 0.43
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (29 bp):
TTTAATAATATAAAAATAAAAATATTAAA
Found at i:4810930 original size:15 final size:15
Alignment explanation
Indices: 4810910--4810943 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
4810900 TTATTTCTCC
*
4810910 ATTATTATCAAAAAA
1 ATTATTAACAAAAAA
*
4810925 ATTATTAACAAAATA
1 ATTATTAACAAAAAA
4810940 ATTA
1 ATTA
4810944 ATGTTGGTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (15 bp):
ATTATTAACAAAAAA
Found at i:4812252 original size:2 final size:2
Alignment explanation
Indices: 4812245--4812269 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4812235 TGAAATTAAA
4812245 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
4812270 AGGCTTCAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4816097 original size:20 final size:19
Alignment explanation
Indices: 4816067--4816112 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 19
4816057 ATATCAACCT
*
4816067 ATATAATATATTAAATATA
1 ATATAAAATATTAAATATA
*
4816086 ATTATAAAATATTAGATATA
1 A-TATAAAATATTAAATATA
4816106 ATATAAA
1 ATATAAA
4816113 TAAATATAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 7 0.29
20 17 0.71
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (19 bp):
ATATAAAATATTAAATATA
Found at i:4816117 original size:22 final size:21
Alignment explanation
Indices: 4816069--4816119 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
4816059 ATCAACCTAT
*
4816069 ATAATATATTAAATATAATTAT
1 ATAA-ATATTAAATATAATTAA
*
4816091 A-AAATATTAGATATAATATAA
1 ATAAATATTAAATATAAT-TAA
4816112 ATAAATAT
1 ATAAATAT
4816120 AACATGAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 13 0.52
21 5 0.20
22 7 0.28
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (21 bp):
ATAAATATTAAATATAATTAA
Found at i:4833797 original size:7 final size:7
Alignment explanation
Indices: 4833787--4833816 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
4833777 GGCGAGAGGC
4833787 TTGGGTT
1 TTGGGTT
4833794 TTGGGTT
1 TTGGGTT
4833801 TTGGGTT
1 TTGGGTT
4833808 TTGGGTT
1 TTGGGTT
4833815 TT
1 TT
4833817 AAGAGGTCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.40, T:0.60
Consensus pattern (7 bp):
TTGGGTT
Found at i:4844109 original size:17 final size:18
Alignment explanation
Indices: 4844089--4844129 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
4844079 AATTATTATT
4844089 TAATAAAATTTATT-TT-A
1 TAATAAAATTT-TTATTAA
*
4844106 TAATTAAATTTTTATTAA
1 TAATAAAATTTTTATTAA
4844124 TAATAA
1 TAATAA
4844130 TTAAAATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 2 0.10
17 12 0.60
18 6 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TAATAAAATTTTTATTAA
Found at i:4845743 original size:20 final size:19
Alignment explanation
Indices: 4845714--4845751 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
4845704 AAAACTTCGG
4845714 GAAAAGAAATGTAAATAAAT
1 GAAAAGAAATG-AAATAAAT
*
4845734 GAAAATAAATGAAATAAA
1 GAAAAGAAATGAAATAAA
4845752 ACATAAGGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.68, C:0.00, G:0.13, T:0.18
Consensus pattern (19 bp):
GAAAAGAAATGAAATAAAT
Found at i:4845750 original size:9 final size:10
Alignment explanation
Indices: 4845714--4845751 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
4845704 AAAACTTCGG
*
4845714 GAAAAGAAAT
1 GAAAATAAAT
*
4845724 GTAAATAAAT
1 GAAAATAAAT
4845734 GAAAATAAAT
1 GAAAATAAAT
4845744 G-AAATAAA
1 GAAAATAAA
4845752 ACATAAGGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
9 7 0.28
10 18 0.72
ACGTcount: A:0.68, C:0.00, G:0.13, T:0.18
Consensus pattern (10 bp):
GAAAATAAAT
Found at i:4845775 original size:34 final size:34
Alignment explanation
Indices: 4845726--4845797 Score: 87
Period size: 34 Copynumber: 2.2 Consensus size: 34
4845716 AAAGAAATGT
4845726 AAATAAATGAAAATAAATGAAATAAAACATAAGGA
1 AAATAAATGAAAATAAATGAAATAAAA-ATAAGGA
* **
4845761 AAATGAAT-AAAATAAATTTAATAAAAATAA--A
1 AAATAAATGAAAATAAATGAAATAAAAATAAGGA
4845792 AAATAA
1 AAATAA
4845798 CAAAAATTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
31 6 0.18
33 4 0.12
34 16 0.48
35 7 0.21
ACGTcount: A:0.71, C:0.01, G:0.07, T:0.21
Consensus pattern (34 bp):
AAATAAATGAAAATAAATGAAATAAAAATAAGGA
Found at i:4847251 original size:15 final size:14
Alignment explanation
Indices: 4847233--4847266 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
4847223 GAACTTATTT
4847233 AAAAAAATACAAAAA
1 AAAAAAATA-AAAAA
*
4847248 AAAAAAATAAAGAA
1 AAAAAAATAAAAAA
4847262 AAAAA
1 AAAAA
4847267 TGGTACAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.88, C:0.03, G:0.03, T:0.06
Consensus pattern (14 bp):
AAAAAAATAAAAAA
Found at i:4853654 original size:16 final size:16
Alignment explanation
Indices: 4853629--4853662 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
4853619 ATTACATATA
4853629 ATTTTTTTCAT-TTTT
1 ATTTTTTTCATATTTT
4853644 ATTTCTTTTCATATTTT
1 ATTT-TTTTCATATTTT
4853661 AT
1 AT
4853663 GTATTAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 7 0.41
17 6 0.35
ACGTcount: A:0.18, C:0.09, G:0.00, T:0.74
Consensus pattern (16 bp):
ATTTTTTTCATATTTT
Found at i:4854673 original size:28 final size:26
Alignment explanation
Indices: 4854640--4854706 Score: 73
Period size: 28 Copynumber: 2.5 Consensus size: 26
4854630 GGGTAATGTA
*
4854640 ATTTAATTTTAAATATTAAAATTTAATT
1 ATTTAATTTTAAATAAT-AAATTTAA-T
* *
4854668 ATTTAAGTATTACATAATAAATTTAAT
1 ATTTAA-TTTTAAATAATAAATTTAAT
4854695 A-TTAATTTTAAA
1 ATTTAATTTTAAA
4854707 GTTTAATGAA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
25 5 0.15
26 4 0.12
27 2 0.06
28 14 0.42
29 8 0.24
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (26 bp):
ATTTAATTTTAAATAATAAATTTAAT
Found at i:4861590 original size:13 final size:14
Alignment explanation
Indices: 4861568--4861601 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
4861558 GATTACATGC
4861568 TTTATCTTATAT-CT
1 TTTAT-TTATATCCT
4861582 TTTATTTATATCCT
1 TTTATTTATATCCT
4861596 TTTATT
1 TTTATT
4861602 ATTTTTTCGG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.21, C:0.12, G:0.00, T:0.68
Consensus pattern (14 bp):
TTTATTTATATCCT
Found at i:4868454 original size:21 final size:21
Alignment explanation
Indices: 4868428--4868495 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
4868418 ATAAAAAATG
4868428 GGTTCAGATTCTGGAGATTCA
1 GGTTCAGATTCTGGAGATTCA
** ** * *
4868449 GGTTCAGACACATGGTCAAT-G
1 GGTTCAGATTC-TGGAGATTCA
4868470 GGTTCAGATTCTGGAGATTCA
1 GGTTCAGATTCTGGAGATTCA
4868491 GGTTC
1 GGTTC
4868496 GGACACATGG
Statistics
Matches: 33, Mismatches: 12, Indels: 4
0.67 0.24 0.08
Matches are distributed among these distances:
20 5 0.15
21 23 0.70
22 5 0.15
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (21 bp):
GGTTCAGATTCTGGAGATTCA
Found at i:4868471 original size:42 final size:42
Alignment explanation
Indices: 4868424--4868506 Score: 157
Period size: 42 Copynumber: 2.0 Consensus size: 42
4868414 CAGGATAAAA
4868424 AATGGGTTCAGATTCTGGAGATTCAGGTTCAGACACATGGTC
1 AATGGGTTCAGATTCTGGAGATTCAGGTTCAGACACATGGTC
*
4868466 AATGGGTTCAGATTCTGGAGATTCAGGTTCGGACACATGGT
1 AATGGGTTCAGATTCTGGAGATTCAGGTTCAGACACATGGT
4868507 TAGGTTTGGA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.25, C:0.16, G:0.30, T:0.29
Consensus pattern (42 bp):
AATGGGTTCAGATTCTGGAGATTCAGGTTCAGACACATGGTC
Found at i:4868517 original size:18 final size:18
Alignment explanation
Indices: 4868490--4868525 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
4868480 CTGGAGATTC
4868490 AGGTTCGGACACATGGTT
1 AGGTTCGGACACATGGTT
*
4868508 AGGTTTGGACACATGGTT
1 AGGTTCGGACACATGGTT
4868526 CGGTGTTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.14, G:0.33, T:0.31
Consensus pattern (18 bp):
AGGTTCGGACACATGGTT
Found at i:4870489 original size:31 final size:31
Alignment explanation
Indices: 4870377--4870489 Score: 84
Period size: 31 Copynumber: 3.6 Consensus size: 31
4870367 ACTATCTAAC
* * * *
4870377 AAAATTAATCAGCAATGAAGGCTGACTGAAT
1 AAAATAAATCAGCAATAAAAGTTGACTGAAT
* *** * *
4870408 GAAATAAATCAATGATAAAAGTTAATCT-AAC
1 AAAATAAATCAGCAATAAAAGTTGA-CTGAAT
* * **
4870439 AAAATCAATCACCTCTAAAAGTTGACTGAAT
1 AAAATAAATCAGCAATAAAAGTTGACTGAAT
4870470 AAAATAAATCAGCAATAAAA
1 AAAATAAATCAGCAATAAAA
4870490 ACTAATTCAG
Statistics
Matches: 58, Mismatches: 22, Indels: 4
0.69 0.26 0.05
Matches are distributed among these distances:
30 2 0.03
31 54 0.93
32 2 0.03
ACGTcount: A:0.52, C:0.13, G:0.12, T:0.23
Consensus pattern (31 bp):
AAAATAAATCAGCAATAAAAGTTGACTGAAT
Found at i:4871362 original size:31 final size:30
Alignment explanation
Indices: 4871327--4871420 Score: 79
Period size: 31 Copynumber: 3.2 Consensus size: 30
4871317 AGCAATGAAG
4871327 GCTGACTGAATGAAATAAATCAGTGATAAAA
1 GCTGACTGAAT-AAATAAATCAGTGATAAAA
* ** *
4871358 GCTGATCT-AAT--A-AAATCAATCCTAAAG
1 GCTGA-CTGAATAAATAAATCAGTGATAAAA
*
4871385 GCTGACTGAATAAAATAAATCAGCGATAAAA
1 GCTGACTGAAT-AAATAAATCAGTGATAAAA
*
4871416 ACTGA
1 GCTGA
4871421 TTCAGAGAGA
Statistics
Matches: 47, Mismatches: 10, Indels: 12
0.68 0.14 0.17
Matches are distributed among these distances:
26 2 0.04
27 19 0.40
28 1 0.02
30 1 0.02
31 22 0.47
32 2 0.04
ACGTcount: A:0.48, C:0.14, G:0.16, T:0.22
Consensus pattern (30 bp):
GCTGACTGAATAAATAAATCAGTGATAAAA
Found at i:4871383 original size:27 final size:27
Alignment explanation
Indices: 4871353--4871405 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
4871343 AAATCAGTGA
*
4871353 TAAAAGCTGATCT-AATAAAATCAATCC
1 TAAAAGCTGA-CTGAATAAAATAAATCC
*
4871380 TAAAGGCTGACTGAATAAAATAAATC
1 TAAAAGCTGACTGAATAAAATAAATC
4871406 AGCGATAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 2 0.09
27 21 0.91
ACGTcount: A:0.49, C:0.15, G:0.11, T:0.25
Consensus pattern (27 bp):
TAAAAGCTGACTGAATAAAATAAATCC
Found at i:4871683 original size:23 final size:23
Alignment explanation
Indices: 4871653--4871700 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
4871643 AACAATACCC
4871653 ACTAAATAAGGAGATTATCACTA
1 ACTAAATAAGGAGATTATCACTA
*
4871676 ACTAAATAAGGAGATTGTCACTA
1 ACTAAATAAGGAGATTATCACTA
4871699 AC
1 AC
4871701 AGAGAATCCC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.25
Consensus pattern (23 bp):
ACTAAATAAGGAGATTATCACTA
Found at i:4871972 original size:18 final size:19
Alignment explanation
Indices: 4871949--4871991 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
4871939 AGCAGCTTAA
4871949 ATTAAAATA-ATTTTAAAT
1 ATTAAAATATATTTTAAAT
*
4871967 ATTAAAATATATTTTTAAT
1 ATTAAAATATATTTTAAAT
4871986 ATTAAA
1 ATTAAA
4871992 TAAATAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 9 0.39
19 14 0.61
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
ATTAAAATATATTTTAAAT
Found at i:4874871 original size:2 final size:2
Alignment explanation
Indices: 4874864--4874896 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
4874854 TTAAAGCAAA
4874864 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4874897 ATTAATTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4876261 original size:24 final size:24
Alignment explanation
Indices: 4876234--4876279 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
4876224 CTTATGATGC
*
4876234 ACCACCACCCTACTACTATGAGAA
1 ACCACCACCATACTACTATGAGAA
* *
4876258 ACCACCTCCATACTATTATGAG
1 ACCACCACCATACTACTATGAG
4876280 TCACCTCCAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.35, C:0.35, G:0.09, T:0.22
Consensus pattern (24 bp):
ACCACCACCATACTACTATGAGAA
Found at i:4876350 original size:60 final size:60
Alignment explanation
Indices: 4876258--4877500 Score: 1176
Period size: 60 Copynumber: 20.7 Consensus size: 60
4876248 ACTATGAGAA
* * ** *
4876258 ACCACCTCCATACTATTATGAGTCACCTCCACCTCCTCCATATGTTTACAAGTCACCTCC
1 ACCACCTCCATACAAATACAAGTCACCACCACCTCCTCCATATGTTTACAAGTCACCTCC
** *
4876318 ACCACCTCCATACAAATATGAGTCTCCACCACCTCCTCCATATGTTTACAAGTCACCTCC
1 ACCACCTCCATACAAATACAAGTCACCACCACCTCCTCCATATGTTTACAAGTCACCTCC
** *
4876378 ACCACCTCCATACAAATATGAGTCTCCACCACCTCCTCCATATGTTTACAAGTCACCTCC
1 ACCACCTCCATACAAATACAAGTCACCACCACCTCCTCCATATGTTTACAAGTCACCTCC
** * * *
4876438 ACCACCTCCATACAAATATGAGTCGCCACCACCTCCTCCCTATGTTTACAAATCACCTCC
1 ACCACCTCCATACAAATACAAGTCACCACCACCTCCTCCATATGTTTACAAGTCACCTCC
* * * * * ** * *
4876498 TCCACCTCCATACATATACAAGTCACCTCCTCCACCTCCATACATTTACAAATCACCACC
1 ACCACCTCCATACAAATACAAGTCACCACCACCTCCTCCATATGTTTACAAGTCACCTCC
** * *
4876558 ACCACCTCCATATGAGTACAAGTCACCTCCACCTCCTCCATATGTTTACAAGTCACCTCC
1 ACCACCTCCATACAAATACAAGTCACCACCACCTCCTCCATATGTTTACAAGTCACCTCC
** * *
4876618 ACCACCTCCATACAAATATGAGTCTCCACCACCTCCTCCATATATTTACAAGTCACCTCC
1 ACCACCTCCATACAAATACAAGTCACCACCACCTCCTCCATATGTTTACAAGTCACCTCC
** * *
4876678 ACCACCTCCATACAAATATGAGTCGCCACCACCTCCTCCCTATGTTTACAAGTCACCTCC
1 ACCACCTCCATACAAATACAAGTCACCACCACCTCCTCCATATGTTTACAAGTCACCTCC
* ** *
4876738 TCCACCTCCATACAAATATGAGTCTCCACCACCTCCTCCATATGTTTACAAGTCACCTCC
1 ACCACCTCCATACAAATACAAGTCACCACCACCTCCTCCATATGTTTACAAGTCACCTCC
** * * *
4876798 ACCACCTCCATACAAATATGAGTCGCCACCACCTCCTCCCTATGTTTACAAATCACCTCC
1 ACCACCTCCATACAAATACAAGTCACCACCACCTCCTCCATATGTTTACAAGTCACCTCC
* * * * * ** *
4876858 TCCACCTCCATACATATACAAGTCACCTCCTCCACCTCCATACATATACAAGTCACCTCC
1 ACCACCTCCATACAAATACAAGTCACCACCACCTCCTCCATATGTTTACAAGTCACCTCC
* ** * * **
4876918 TCCACCTCCATACATTTACAAATCACCACCACCACCTCCATATGAGTACAAGTCACCTCC
1 ACCACCTCCATACAAATACAAGTCACCACCACCTCCTCCATATGTTTACAAGTCACCTCC
* **** * * **** ** * *
4876978 ACCTCCTCCATATGTTTACAAGTCACCTCCACCACCTCCATACAAATATGAGTCTCCACC
1 ACCACCTCCATACAAATACAAGTCACCACCACCTCCTCCATATGTTTACAAGTCACCTCC
* * ** * * **** ** * *
4877038 ACCTCCTCCATATATTTACAAGTCACCTCCACCACCTCCATACAAATATGAGTCGCCACC
1 ACCACCTCCATACAAATACAAGTCACCACCACCTCCTCCATATGTTTACAAGTCACCTCC
* * **** * * * * *
4877098 ACCTCCTCCCTATGTTTACAAGTCACCTCCTCCACCTCCATACT-TTTACAAATCACCACC
1 ACCACCTCCATACAAATACAAGTCACCACCACCTCCTCCATA-TGTTTACAAGTCACCTCC
* ** * * * * *
4877158 ACCTCCTCCATATGAGTACAAGTCACCACCACCTCCTCCATACGTATATAAGTCTCCTCC
1 ACCACCTCCATACAAATACAAGTCACCACCACCTCCTCCATATGTTTACAAGTCACCTCC
* * * ** * *
4877218 TCCACCGCCATATATTTACAAGTCACCACCTCCTCCTCCATATGTTTACAAATCACCTCC
1 ACCACCTCCATACAAATACAAGTCACCACCACCTCCTCCATATGTTTACAAGTCACCTCC
* *** * * *
4877278 ACCTCCTCCATATGTATACAAGTCCCCACCACCTCCTCCATATATTTACAAGTCACCACC
1 ACCACCTCCATACAAATACAAGTCACCACCACCTCCTCCATATGTTTACAAGTCACCTCC
* * ** * * *
4877338 ACCGCCTCCATATATGTATAAGTCACCACCACCTCCTCCATATGTGTACATA-TCACCACC
1 ACCACCTCCATACAAATACAAGTCACCACCACCTCCTCCATATGTTTACA-AGTCACCTCC
** * * *
4877398 ACCACCTCCATACATGTATAAGTCACCACCACCTCCTCCATACGTGTACAAGTCACCTCC
1 ACCACCTCCATACAAATACAAGTCACCACCACCTCCTCCATATGTTTACAAGTCACCTCC
* * *** * *
4877458 ACCTCCCCCATACGTCTACAACTCACCACCACCTCCCCCATAT
1 ACCACCTCCATACAAATACAAGTCACCACCACCTCCTCCATAT
4877501 TACAAGTAGC
Statistics
Matches: 1032, Mismatches: 147, Indels: 8
0.87 0.12 0.01
Matches are distributed among these distances:
59 1 0.00
60 1030 1.00
61 1 0.00
ACGTcount: A:0.28, C:0.41, G:0.06, T:0.25
Consensus pattern (60 bp):
ACCACCTCCATACAAATACAAGTCACCACCACCTCCTCCATATGTTTACAAGTCACCTCC
Found at i:4876368 original size:36 final size:36
Alignment explanation
Indices: 4876328--4876428 Score: 91
Period size: 30 Copynumber: 3.1 Consensus size: 36
4876318 ACCACCTCCA
4876328 TACAAATATGAGTCTCCACCACCTCCTCCATATGTT
1 TACAAATATGAGTCTCCACCACCTCCTCCATATGTT
* * *
4876364 TAC----A--AGTCACCTCCACCACCTCC--A----
1 TACAAATATGAGTCTCCACCACCTCCTCCATATGTT
4876388 TACAAATATGAGTCTCCACCACCTCCTCCATATGTT
1 TACAAATATGAGTCTCCACCACCTCCTCCATATGTT
4876424 TACAA
1 TACAA
4876429 GTCACCTCCA
Statistics
Matches: 47, Mismatches: 6, Indels: 24
0.61 0.08 0.31
Matches are distributed among these distances:
24 3 0.06
28 2 0.04
30 32 0.68
32 2 0.04
36 8 0.17
ACGTcount: A:0.30, C:0.37, G:0.07, T:0.27
Consensus pattern (36 bp):
TACAAATATGAGTCTCCACCACCTCCTCCATATGTT
Found at i:4876511 original size:24 final size:26
Alignment explanation
Indices: 4876485--4876631 Score: 69
Period size: 30 Copynumber: 5.0 Consensus size: 26
4876475 CCCTATGTTT
*
4876485 ACAAATCACCTCCTCCACCTCCATAC
1 ACAAGTCACCTCCTCCACCTCCATAC
4876511 ATATACAAGTCACCTCCTCCACCTCCATAC
1 ----ACAAGTCACCTCCTCCACCTCCATAC
* * * *
4876541 ATTTACAAATCACCACCACCACCTCCATATGAGT
1 ----ACAAGTCACCTCCTCCACCTCC--AT-A-C
* * *
4876575 ACAAGTCACCTCCACCTCCTCCATATGTTT
1 ACAAGTCACCTCCTCCACCTCCATA----C
*
4876605 ACAAGTCACCTCCACCACCTCCATAC
1 ACAAGTCACCTCCTCCACCTCCATAC
4876631 A
1 A
4876632 AATATGAGTC
Statistics
Matches: 98, Mismatches: 12, Indels: 18
0.77 0.09 0.14
Matches are distributed among these distances:
26 1 0.01
27 1 0.01
28 2 0.02
30 91 0.93
32 2 0.02
33 1 0.01
ACGTcount: A:0.31, C:0.43, G:0.04, T:0.22
Consensus pattern (26 bp):
ACAAGTCACCTCCTCCACCTCCATAC
Found at i:4878429 original size:12 final size:12
Alignment explanation
Indices: 4878414--4878442 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
4878404 AAAAAATAAA
4878414 AAATATAAATAT
1 AAATATAAATAT
4878426 AAATATAAATAT
1 AAATATAAATAT
4878438 AAATA
1 AAATA
4878443 AGAAAAAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
AAATATAAATAT
Found at i:4878570 original size:25 final size:24
Alignment explanation
Indices: 4878540--4878586 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
4878530 TATTTTAAAA
4878540 TAAATAAAAAACAAAACTAAAAATC
1 TAAATAAAAAA-AAAACTAAAAATC
* *
4878565 TAAATAGAAAAAAAATTAAAAA
1 TAAATAAAAAAAAAACTAAAAA
4878587 CAACTCCATG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 10 0.50
25 10 0.50
ACGTcount: A:0.74, C:0.06, G:0.02, T:0.17
Consensus pattern (24 bp):
TAAATAAAAAAAAAACTAAAAATC
Found at i:4878947 original size:12 final size:12
Alignment explanation
Indices: 4878930--4878981 Score: 54
Period size: 12 Copynumber: 4.3 Consensus size: 12
4878920 ATTATATTTT
4878930 AATTATTTTATA
1 AATTATTTTATA
4878942 AATTATTTTAT-
1 AATTATTTTATA
*
4878953 TATTATATTT-TA
1 AATTAT-TTTATA
*
4878965 ATTTATTTTATA
1 AATTATTTTATA
4878977 TAATT
1 -AATT
4878982 TATTATGATA
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
11 9 0.28
12 20 0.62
13 3 0.09
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
AATTATTTTATA
Found at i:4878957 original size:23 final size:22
Alignment explanation
Indices: 4878924--4878977 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 22
4878914 TATGATATTA
4878924 TATTTTA-ATTAT-TTTATAAAT
1 TATTTTATATTATATTT-TAAAT
*
4878945 TATTTTATTATTATATTTTAATT
1 TATTTTA-TATTATATTTTAAAT
4878968 TATTTTATAT
1 TATTTTATAT
4878978 AATTTATTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 7 0.24
22 3 0.10
23 16 0.55
24 3 0.10
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (22 bp):
TATTTTATATTATATTTTAAAT
Found at i:4878982 original size:20 final size:20
Alignment explanation
Indices: 4878925--4878982 Score: 56
Period size: 18 Copynumber: 3.2 Consensus size: 20
4878915 ATGATATTAT
4878925 ATTTTAA-TTATTTTATA-A
1 ATTTTAATTTATTTTATATA
* *
4878943 A--TTATTTTATTAT-TAT-
1 ATTTTAATTTATTTTATATA
4878959 ATTTTAATTTATTTTATATA
1 ATTTTAATTTATTTTATATA
4878979 ATTT
1 ATTT
4878983 ATTATGATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 10
0.68 0.09 0.23
Matches are distributed among these distances:
16 6 0.20
17 6 0.20
18 11 0.37
19 3 0.10
20 4 0.13
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
ATTTTAATTTATTTTATATA
Found at i:4879327 original size:2 final size:2
Alignment explanation
Indices: 4879320--4879353 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
4879310 TATAGTTTGA
4879320 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4879354 GATAAATTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4880417 original size:12 final size:12
Alignment explanation
Indices: 4880376--4880419 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
4880366 ACTTTAAACT
4880376 CATAAAAAATAA
1 CATAAAAAATAA
4880388 CATAGAAATAA-AA
1 CATA-AAA-AATAA
*
4880401 CATAAAAAATGA
1 CATAAAAAATAA
4880413 CATAAAA
1 CATAAAA
4880420 GCAACCATGT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
11 2 0.07
12 15 0.54
13 9 0.32
14 2 0.07
ACGTcount: A:0.70, C:0.09, G:0.05, T:0.16
Consensus pattern (12 bp):
CATAAAAAATAA
Found at i:4883115 original size:78 final size:78
Alignment explanation
Indices: 4883006--4883154 Score: 235
Period size: 78 Copynumber: 1.9 Consensus size: 78
4882996 AATCGTATTG
* * * *
4883006 GTGCCATGGTTGCGATCAGGATCGGAGTGACTCGGCATCACTGATAATATTAATTCCATGGTGGC
1 GTGCCATGGTGGCGATCAGGATCGGAGTGACTCGACATCACTAATAATATTAATGCCATGGTGGC
4883071 AATCAGCATTAAA
66 AATCAGCATTAAA
* * *
4883084 GTGCCATGGTGGCGATCGGGATCGGAGTGACTCGACGTCACTAATAATATTGATGCCATGGTGGC
1 GTGCCATGGTGGCGATCAGGATCGGAGTGACTCGACATCACTAATAATATTAATGCCATGGTGGC
4883149 AATCAG
66 AATCAG
4883155 GATCGGAGTA
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
78 64 1.00
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (78 bp):
GTGCCATGGTGGCGATCAGGATCGGAGTGACTCGACATCACTAATAATATTAATGCCATGGTGGC
AATCAGCATTAAA
Found at i:4883163 original size:52 final size:52
Alignment explanation
Indices: 4883085--4883251 Score: 217
Period size: 52 Copynumber: 3.2 Consensus size: 52
4883075 AGCATTAAAG
* *
4883085 TGCCATGGTGGCGATCGGGATCGGAGTGACTCGACGTCACTAATAATATTGA
1 TGCCATGGTGGCGATCAGGATCGGAGTGACTCGGCGTCACTAATAATATTGA
* * * * * * *
4883137 TGCCATGGTGGCAATCAGGATCGGAGTAACTTGGTGTCACTGACAGTATTGA
1 TGCCATGGTGGCGATCAGGATCGGAGTGACTCGGCGTCACTAATAATATTGA
* * * *
4883189 TGACAAGGTGGCGATCAGGATAGAAGTGACTCGGCGTCACTAATAATATTGA
1 TGCCATGGTGGCGATCAGGATCGGAGTGACTCGGCGTCACTAATAATATTGA
4883241 TGCCATGGTGG
1 TGCCATGGTGG
4883252 TGATTAACAT
Statistics
Matches: 93, Mismatches: 22, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
52 93 1.00
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.25
Consensus pattern (52 bp):
TGCCATGGTGGCGATCAGGATCGGAGTGACTCGGCGTCACTAATAATATTGA
Found at i:4883172 original size:78 final size:78
Alignment explanation
Indices: 4883010--4883172 Score: 200
Period size: 78 Copynumber: 2.1 Consensus size: 78
4883000 GTATTGGTGC
* * * *
4883010 CATGGTTGCGATCAGGATCGGAGTGACTCGGCATCACTGATAATATTAATTCCATGGTGGCAATC
1 CATGGTGGCGATCAGGATCGGAGTGACTCGACATCACTAATAATATTAATGCCATGGTGGCAATC
* **
4883075 AGCATTAAAGTGC
66 AGCATCAAAGTAA
* * *
4883088 CATGGTGGCGATCGGGATCGGAGTGACTCGACGTCACTAATAATATTGATGCCATGGTGGCAATC
1 CATGGTGGCGATCAGGATCGGAGTGACTCGACATCACTAATAATATTAATGCCATGGTGGCAATC
* **
4883153 AGGATCGGAGTAA
66 AGCATCAAAGTAA
*
4883166 CTTGGTG
1 CATGGTG
4883173 TCACTGACAG
Statistics
Matches: 71, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
78 71 1.00
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.26
Consensus pattern (78 bp):
CATGGTGGCGATCAGGATCGGAGTGACTCGACATCACTAATAATATTAATGCCATGGTGGCAATC
AGCATCAAAGTAA
Found at i:4883237 original size:182 final size:182
Alignment explanation
Indices: 4882983--4883391 Score: 550
Period size: 182 Copynumber: 2.2 Consensus size: 182
4882973 GATCTAAGCG
* * * * *
4882983 ACTTGGTGTCACTAATC-GTATTGGTGCCATGGTTGCGATCAGGATCGGAGTGACTCGGCATCAC
1 ACTTGGTGTCACTAA-CAGTATTGATGCCAAGGTGGCGATCAGGATAGAAGTGACTCGGCATCAC
* * * * *
4883047 TGATAATATTAATTCCATGGTGGCAATCAGCATTAAAGTGCCATGGTGGCGATCGGGATCGGAGT
65 TAATAATATTAATGCCATGGTGGCAATCAACATTAAAGTGCCATGGTGGCGATCAGGATCAGAGT
* *
4883112 GACTCGACGTCACTAATAATATTGATGCCATGGTGGCAATCAGGATCGGAGTA
130 GACTCGACGTCACTAATAATATTGAAGCCATGGTGGCAATCAGGATCAGAGTA
* * *
4883165 ACTTGGTGTCACTGACAGTATTGATGACAAGGTGGCGATCAGGATAGAAGTGACTCGGCGTCACT
1 ACTTGGTGTCACTAACAGTATTGATGCCAAGGTGGCGATCAGGATAGAAGTGACTCGGCATCACT
* ** * * *
4883230 AATAATATTGATGCCATGGTGGTGATTAACATTAGAGTGGCATGGTGGCGATCAGGATCAGAGTG
66 AATAATATTAATGCCATGGTGGCAATCAACATTAAAGTGCCATGGTGGCGATCAGGATCAGAGTG
** * *
4883295 ACTCGGTGTCACTAATAATATTGAAGCCATGGTGGCAATCGGGATCAGAGTG
131 ACTCGACGTCACTAATAATATTGAAGCCATGGTGGCAATCAGGATCAGAGTA
* * *
4883347 ATTTGGCGTCACTAACAGTATTGATGCCAAGGTGGCAATCAGGAT
1 ACTTGGTGTCACTAACAGTATTGATGCCAAGGTGGCGATCAGGAT
4883392 CAGAGTGCCA
Statistics
Matches: 196, Mismatches: 30, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
181 1 0.01
182 195 0.99
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.26
Consensus pattern (182 bp):
ACTTGGTGTCACTAACAGTATTGATGCCAAGGTGGCGATCAGGATAGAAGTGACTCGGCATCACT
AATAATATTAATGCCATGGTGGCAATCAACATTAAAGTGCCATGGTGGCGATCAGGATCAGAGTG
ACTCGACGTCACTAATAATATTGAAGCCATGGTGGCAATCAGGATCAGAGTA
Found at i:4883274 original size:130 final size:130
Alignment explanation
Indices: 4883137--4883428 Score: 334
Period size: 130 Copynumber: 2.2 Consensus size: 130
4883127 ATAATATTGA
* * * * * *
4883137 TGCCATGGTGGCAATCAGGATCGGAGTAACTTGGTGTCACTGACAGTATTGATGACAAGGTGGCG
1 TGCCATGGTGGCGATCAGGATCGGAGTAACTCGGTGTCACTAACAATATTGAAGACAAGGTGGCA
* * ** * *
4883202 ATCAGGAT-AGAAGTGACTCGGCGTCACTAATAATATTGATGCCATGGTGGTGATTAACATTAGA
66 ATCAGGATCAG-AGTGACTCGGCGTCACTAACAATATTGATGCCAAGGTGGCAATCAACATCAGA
4883266 G
130 G
* * * * * *
4883267 TGGCATGGTGGCGATCAGGATCAGAGTGACTCGGTGTCACTAATAATATTGAAGCCATGGTGGCA
1 TGCCATGGTGGCGATCAGGATCGGAGTAACTCGGTGTCACTAACAATATTGAAGACAAGGTGGCA
* * * * **
4883332 ATCGGGATCAGAGTGATTTGGCGTCACTAACAGTATTGATGCCAAGGTGGCAATCAGGATCAGAG
66 ATCAGGATCAGAGTGACTCGGCGTCACTAACAATATTGATGCCAAGGTGGCAATCAACATCAGAG
* *
4883397 TGCCATGGTGGCGATCGGGATCGGAGTGACTC
1 TGCCATGGTGGCGATCAGGATCGGAGTAACTC
4883429 AACATCATTG
Statistics
Matches: 134, Mismatches: 27, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
130 132 0.99
131 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.25
Consensus pattern (130 bp):
TGCCATGGTGGCGATCAGGATCGGAGTAACTCGGTGTCACTAACAATATTGAAGACAAGGTGGCA
ATCAGGATCAGAGTGACTCGGCGTCACTAACAATATTGATGCCAAGGTGGCAATCAACATCAGAG
Found at i:4883358 original size:52 final size:52
Alignment explanation
Indices: 4883270--4883398 Score: 177
Period size: 52 Copynumber: 2.5 Consensus size: 52
4883260 ATTAGAGTGG
* * *
4883270 CATGGTGGCGATCAGGATCAGAGTGACTCGGTGTCACTAATAATATTGAAGC
1 CATGGTGGCAATCAGGATCAGAGTGACTCGGCGTCACTAACAATATTGAAGC
* * * * *
4883322 CATGGTGGCAATCGGGATCAGAGTGATTTGGCGTCACTAACAGTATTGATGC
1 CATGGTGGCAATCAGGATCAGAGTGACTCGGCGTCACTAACAATATTGAAGC
*
4883374 CAAGGTGGCAATCAGGATCAGAGTG
1 CATGGTGGCAATCAGGATCAGAGTG
4883399 CCATGGTGGC
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.28, C:0.17, G:0.31, T:0.24
Consensus pattern (52 bp):
CATGGTGGCAATCAGGATCAGAGTGACTCGGCGTCACTAACAATATTGAAGC
Found at i:4883400 original size:26 final size:26
Alignment explanation
Indices: 4883371--4883424 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
4883361 ACAGTATTGA
4883371 TGCCAAGGTGGCAATCAGGATCAGAG
1 TGCCAAGGTGGCAATCAGGATCAGAG
* * * *
4883397 TGCCATGGTGGCGATCGGGATCGGAG
1 TGCCAAGGTGGCAATCAGGATCAGAG
4883423 TG
1 TG
4883425 ACTCAACATC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.22, C:0.19, G:0.41, T:0.19
Consensus pattern (26 bp):
TGCCAAGGTGGCAATCAGGATCAGAG
Found at i:4883443 original size:130 final size:130
Alignment explanation
Indices: 4883195--4883477 Score: 334
Period size: 130 Copynumber: 2.2 Consensus size: 130
4883185 TTGATGACAA
* * ** *
4883195 GGTGGCGATCAGGAT-AGAAGTGACTCGGCGTCACTAATAATATTGATGCCATGGTGGTGATTAA
1 GGTGGCGATCAGGATCAG-AGTGACTCGGCGTCACTAACAATATTGATGCCAAGGTGGCAATCAA
* * ****
4883259 CATTAGAGTGGCATGGTGGCGATCAGGATCAGAGTGACTCGGTGTCACTAATAATATTGAAGCCA
65 CATCAGAGTGCCATGGTGGCGATCAGGATCAGAGTGACTCAACATCACTAATAATATTGAAGCCA
4883324 T
130 T
* * * * * **
4883325 GGTGGCAATCGGGATCAGAGTGATTTGGCGTCACTAACAGTATTGATGCCAAGGTGGCAATCAGG
1 GGTGGCGATCAGGATCAGAGTGACTCGGCGTCACTAACAATATTGATGCCAAGGTGGCAATCAAC
* * * * * *
4883390 ATCAGAGTGCCATGGTGGCGATCGGGATCGGAGTGACTCAACATCATTGATAATATTGATGCCGT
66 ATCAGAGTGCCATGGTGGCGATCAGGATCAGAGTGACTCAACATCACTAATAATATTGAAGCCAT
4883455 GGTGGCGATCAGGATCAGAGTGA
1 GGTGGCGATCAGGATCAGAGTGA
4883478 AGCCGTGGTG
Statistics
Matches: 126, Mismatches: 26, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
130 124 0.98
131 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (130 bp):
GGTGGCGATCAGGATCAGAGTGACTCGGCGTCACTAACAATATTGATGCCAAGGTGGCAATCAAC
ATCAGAGTGCCATGGTGGCGATCAGGATCAGAGTGACTCAACATCACTAATAATATTGAAGCCAT
Found at i:4883449 original size:78 final size:79
Alignment explanation
Indices: 4883365--4883707 Score: 237
Period size: 78 Copynumber: 4.2 Consensus size: 79
4883355 TCACTAACAG
* *
4883365 TATTGATGCCAAGGTGGCAATCAGGATCAGAGT-GCCATGGTGGCGATCGGGATCGGAGTGACTC
1 TATTGATGCCGAGGTGGCAATCAGGATCAGAGTAGCCATGGTGGCGATCAGGATCGGAGTGACTC
4883429 AACATCATTGATAA
66 AACATCATTGATAA
* * * * *
4883443 TATTGATGCCGTGGTGGCGATCAGGATCAGAGTGAAGCCGTGGTGGTGAGCAGGATCGGAGTGA-
1 TATTGATGCCGAGGTGGCAATCAGGATCAGAGT--AGCCATGGTGGCGATCAGGATCGGAGTGAC
* * **
4883507 --AGCTGTGGTGGTGAGTAGGA
64 TCAAC-ATCAT--TGA-TA--A
* * * * * * * * *
4883527 TCGAAGTGAAGCTGTGGTGGCAAGCAGGATCAGAGTGAAGCTATGGTAGCGAACAGGATTGGAGT
1 T---ATTGATGCCGAGGTGGCAATCAGGATCAGAGT--AGCCATGGTGGCGATCAGGATCGGAGT
* *
4883592 GACTCGACATCATTGACAA
61 GACTCAACATCATTGATAA
* * * * * * *
4883611 TATTGATGCCAAAGTGGCGATCAGGATTAAAAT-GCCATGGTGGCGATCAGGATCGGAGTGACTT
1 TATTGATGCCGAGGTGGCAATCAGGATCAGAGTAGCCATGGTGGCGATCAGGATCGGAGTGACTC
* * * *
4883675 GACGTCACTGATAG
66 AACATCATTGATAA
4883689 TATTGATGCCGAGGTGGCA
1 TATTGATGCCGAGGTGGCA
4883708 TGTCCTAAAG
Statistics
Matches: 199, Mismatches: 51, Indels: 30
0.71 0.18 0.11
Matches are distributed among these distances:
78 84 0.42
79 2 0.01
81 48 0.24
82 2 0.01
84 4 0.02
86 1 0.01
87 55 0.28
89 2 0.01
90 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.35, T:0.23
Consensus pattern (79 bp):
TATTGATGCCGAGGTGGCAATCAGGATCAGAGTAGCCATGGTGGCGATCAGGATCGGAGTGACTC
AACATCATTGATAA
Found at i:4883591 original size:29 final size:29
Alignment explanation
Indices: 4883453--4883593 Score: 149
Period size: 29 Copynumber: 4.9 Consensus size: 29
4883443 TATTGATGCC
* * *
4883453 GTGGTGGCGATCAGGATCAGAGTGAAGCC
1 GTGGTGGCGAACAGGATCGGAGTGAAGCT
* *
4883482 GTGGTGGTGAGCAGGATCGGAGTGAAGCT
1 GTGGTGGCGAACAGGATCGGAGTGAAGCT
* ** *
4883511 GTGGTGGTGAGTAGGATCGAAGTGAAGCT
1 GTGGTGGCGAACAGGATCGGAGTGAAGCT
*
4883540 GTGGTGGC-AAGCAGGATCAGAGTGAAGCT
1 GTGGTGGCGAA-CAGGATCGGAGTGAAGCT
* * *
4883569 ATGGTAGCGAACAGGATTGGAGTGA
1 GTGGTGGCGAACAGGATCGGAGTGA
4883594 CTCGACATCA
Statistics
Matches: 95, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
28 1 0.01
29 92 0.97
30 2 0.02
ACGTcount: A:0.26, C:0.11, G:0.43, T:0.20
Consensus pattern (29 bp):
GTGGTGGCGAACAGGATCGGAGTGAAGCT
Found at i:4886568 original size:16 final size:16
Alignment explanation
Indices: 4886547--4886597 Score: 63
Period size: 16 Copynumber: 3.4 Consensus size: 16
4886537 AAGTTTAGTG
4886547 ATAAAATTTAATTAAA
1 ATAAAATTTAATTAAA
*
4886563 ATAAAATTTAA-T--G
1 ATAAAATTTAATTAAA
*
4886576 ATAAAATTTTATTAAA
1 ATAAAATTTAATTAAA
4886592 ATAAAA
1 ATAAAA
4886598 GTTCAAGGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
13 10 0.34
14 1 0.03
15 1 0.03
16 17 0.59
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (16 bp):
ATAAAATTTAATTAAA
Found at i:4886572 original size:29 final size:29
Alignment explanation
Indices: 4886535--4886597 Score: 99
Period size: 29 Copynumber: 2.2 Consensus size: 29
4886525 AATTTTGTTC
* *
4886535 TAAAGTTTAGTGATAAAATTTAATTAAAA
1 TAAAATTTAATGATAAAATTTAATTAAAA
*
4886564 TAAAATTTAATGATAAAATTTTATTAAAA
1 TAAAATTTAATGATAAAATTTAATTAAAA
4886593 TAAAA
1 TAAAA
4886598 GTTCAAGGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (29 bp):
TAAAATTTAATGATAAAATTTAATTAAAA
Found at i:4886772 original size:23 final size:23
Alignment explanation
Indices: 4886746--4886796 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
4886736 AACTAGTTTT
*
4886746 TATTTAATTTTAAT-TTTAAAATA
1 TATTTAATTTAAATATTT-AAATA
* *
4886769 TATTAAATTTAAATATTTTAATA
1 TATTTAATTTAAATATTTAAATA
4886792 TATTT
1 TATTT
4886797 TAAAATTTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
23 20 0.87
24 3 0.13
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
TATTTAATTTAAATATTTAAATA
Found at i:4890245 original size:79 final size:79
Alignment explanation
Indices: 4890114--4890710 Score: 674
Period size: 79 Copynumber: 7.6 Consensus size: 79
4890104 TTATTGATGT
* * * * * * **
4890114 TTTTATTT-TTAAATATCGATTTTCCACTATCGGAGATA-TCCAACCCCATTATTTTTAAGGGGA
1 TTTTATTTCTAAAATATCAATTTTTCACCATCGGGGATACTCCAACCCTATTATTTTCGAGGGGA
4890177 TACTCTAACCTCGA
66 TACTCTAACCTCGA
* * * * *
4890191 TTTTATCTCTAAAATA-CTAATTTTTCACCATTGCGGATACTCCAACCCCT-TTATTTCCGAGAG
1 TTTTATTTCTAAAATATC-AATTTTTCACCATCGGGGATACTCCAA-CCCTATTATTTTCGAGGG
*
4890254 GATACTCTAACCCCGA
64 GATACTCTAACCTCGA
* * * * * *
4890270 TTTTATTTCTAAAACATCAATTTTTCACCATTGAGCATACTCCAACTCTATTATTGTCGAGGGGA
1 TTTTATTTCTAAAATATCAATTTTTCACCATCGGGGATACTCCAACCCTATTATTTTCGAGGGGA
*
4890335 TACTCTAA-CTCCA
66 TACTCTAACCTCGA
* * *
4890348 GTTTTATTTCTAAAACA-CTAATTTTTCACCATCGGGGATATTCCAACCTTATTA-TTTCTGAGG
1 -TTTTATTTCTAAAATATC-AATTTTTCACCATCGGGGATACTCCAACCCTATTATTTTC-GAGG
* *
4890411 GGACACTCCAACCTCGA
63 GGATACTCTAACCTCGA
* * ** * *
4890428 TTTTATTTCTCAAATATCGATTTTTCACCATTTGGGATACTCTAACCC-GTTATTTTCGAGGGGA
1 TTTTATTTCTAAAATATCAATTTTTCACCATCGGGGATACTCCAACCCTATTATTTTCGAGGGGA
*
4890492 CACTCTAACCTC-A
66 TACTCTAACCTCGA
* *
4890505 GTTTTATTTTTAAAATATCAATTTTTCACCATCGGGGATACTCCAACTCTATTATTTTCGAGGGG
1 -TTTTATTTCTAAAATATCAATTTTTCACCATCGGGGATACTCCAACCCTATTATTTTCGAGGGG
*
4890570 ATACTCCAACCTCGA
65 ATACTCTAACCTCGA
* * * *
4890585 TTTTATTTCTAAAACATCAATTTTTCACCATCGGGGATCCTCCAACCCTATTATTTTCAAAGGGA
1 TTTTATTTCTAAAATATCAATTTTTCACCATCGGGGATACTCCAACCCTATTATTTTCGAGGGGA
4890650 TACTCTAACC-CTGA
66 TACTCTAACCTC-GA
* * *
4890664 TTTTATTTCTGAAATATCGATTTTTCACCATCGGAGATACTCCAACC
1 TTTTATTTCTAAAATATCAATTTTTCACCATCGGGGATACTCCAACC
4890711 TCGTTGTTTT
Statistics
Matches: 438, Mismatches: 66, Indels: 30
0.82 0.12 0.06
Matches are distributed among these distances:
77 9 0.02
78 94 0.21
79 325 0.74
80 10 0.02
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.37
Consensus pattern (79 bp):
TTTTATTTCTAAAATATCAATTTTTCACCATCGGGGATACTCCAACCCTATTATTTTCGAGGGGA
TACTCTAACCTCGA
Found at i:4890568 original size:236 final size:233
Alignment explanation
Indices: 4890114--4890723 Score: 746
Period size: 236 Copynumber: 2.6 Consensus size: 233
4890104 TTATTGATGT
* * * * * * *
4890114 TTTTATTT-TTAAATATCGATTTTCCACTATCGGAGATATCCAACCCCATTATTTTTAAGGGGAT
1 TTTTATTTCTAAAACATCAATTTTTCACCATCGGGGATATCCAACCCTATTA-TTTTAAGGGGAT
* * *
4890178 ACTCTAACCTCGATTTTATCTCTAAAATA-CTAATTTTTCACCATTGCGGATACTCCAACCCCTT
65 ACTCTAACCTCGATTTTATTTCTAAAATATC-GATTTTTCACCATTG-GGATACTCCAA-CCCGT
* * * *
4890242 TATTTCCGAGAGGATACTCTAACCCCGATTTTATTTCTAAAACATCAATTTTTCACCATTGAGCA
127 TATTTTCGAGAGGACACTCTAACCCAGATTTTATTTCTAAAACATCAATTTTTCACCATCGAGCA
*
4890307 TACTCCAACTCTATTATTGTCGAGGGGATACTCTAA-CTCCA
192 TACTCCAACTCTATTATTGTCGAGGGGATACTCCAACCTCCA
* *
4890348 GTTTTATTTCTAAAACA-CTAATTTTTCACCATCGGGGATATTCCAACCTTATTATTTCTGAGGG
1 -TTTTATTTCTAAAACATC-AATTTTTCACCATCGGGGATA-TCCAACCCTATTATTT-TAAGGG
* * * *
4890412 GACACTCCAACCTCGATTTTATTTCTCAAATATCGATTTTTCACCATTTGGGATACTCTAACCCG
62 GATACTCTAACCTCGATTTTATTTCTAAAATATCGATTTTTCACCA-TTGGGATACTCCAACCCG
* * * *
4890477 TTATTTTCGAGGGGACACTCTAACCTCAG-TTTTATTTTTAAAATATCAATTTTTCACCATCGGG
126 TTATTTTCGAGAGGACACTCTAACC-CAGATTTTATTTCTAAAACATCAATTTTTCACCATCGAG
* * *
4890541 GATACTCCAACTCTATTATTTTCGAGGGGATACTCCAACCTCGA
190 CATACTCCAACTCTATTATTGTCGAGGGGATACTCCAACCTCCA
* *
4890585 TTTTATTTCTAAAACATCAATTTTTCACCATCGGGGATCCTCCAACCCTATTATTTTCAAAGGGA
1 TTTTATTTCTAAAACATCAATTTTTCACCATCGGGGAT-ATCCAACCCTATTATTTT-AAGGGGA
* *
4890650 TACTCTAACC-CTGATTTTATTTCTGAAATATCGATTTTTCACCATCGGAGATACTCCAACCTCG
64 TACTCTAACCTC-GATTTTATTTCTAAAATATCGATTTTTCACCATTGG-GATACTCCAACC-CG
*
4890714 TTGTTTTCGA
126 TTATTTTCGA
4890724 ATGGATACTT
Statistics
Matches: 323, Mismatches: 38, Indels: 26
0.83 0.10 0.07
Matches are distributed among these distances:
235 14 0.04
236 222 0.69
237 83 0.26
238 4 0.01
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.37
Consensus pattern (233 bp):
TTTTATTTCTAAAACATCAATTTTTCACCATCGGGGATATCCAACCCTATTATTTTAAGGGGATA
CTCTAACCTCGATTTTATTTCTAAAATATCGATTTTTCACCATTGGGATACTCCAACCCGTTATT
TTCGAGAGGACACTCTAACCCAGATTTTATTTCTAAAACATCAATTTTTCACCATCGAGCATACT
CCAACTCTATTATTGTCGAGGGGATACTCCAACCTCCA
Found at i:4890696 original size:315 final size:314
Alignment explanation
Indices: 4890114--4890711 Score: 787
Period size: 315 Copynumber: 1.9 Consensus size: 314
4890104 TTATTGATGT
* * * *
4890114 TTTTATTTTTAAATATCGATTTTCCACTATCGGAGATATCCAACCCCATTATTTTTAAGGGGATA
1 TTTTATTTTCAAATATCGATTTTCCACCATCGGAGATATCCAACCCCATTATTTTCAAGGGGACA
*
4890179 CTCTAACCTCGATTTTATCTCTAAAATACTAATTTTTCACCATTGCGGATACTCCAACCCCTTTA
66 CTCTAACCTCGATTTTATCTCTAAAATACTAATTTTTCACCATCGCGGATACTCCAACCCCTTTA
* *
4890244 TTTCCGAGAGGATACTCTAACCCCGATTTTATTTCTAAAACATCAATTTTTCACCATTGAGCATA
131 TTTCCGAGAGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCACCATCGAGCATA
* * *
4890309 CTCCAACTCTATTATTGTCGAGGGGATACTCTAACTCCAGTTTTATTTCTAAAACACTAATTTTT
196 CTCCAACCCTATTATTGTCAAAGGGATACTCTAACTCCAGTTTTATTTCTAAAACACTAATTTTT
* *
4890374 CACCATCGGGGATATTCCAACCTTATTATTTCTGAGGGGACACTCCAACCTCGA
261 CACCATCGGAGATACTCCAACCTTATTATTTCTGAGGGGACACTCCAACCTCGA
* * * * *
4890428 TTTTATTTCTCAAATATCGATTTTTCACCATTTGG-GATACTCTAA-CCCGTTATTTTCGAGGGG
1 TTTTATTT-TCAAATATCGATTTTCCACCA-TCGGAGATA-TCCAACCCCATTATTTTCAAGGGG
* * * *
4890491 ACACTCTAACCTC-AGTTTTATTTTTAAAATA-TCAATTTTTCACCATCGGGGATACTCCAA-CT
63 ACACTCTAACCTCGA-TTTTATCTCTAAAATACT-AATTTTTCACCATCGCGGATACTCCAACCC
* * *
4890553 CTATTATTTTCGAGGGGATACTCCAACCTCGATTTTATTTCTAAAACATCAATTTTTCACCATCG
126 CT-TTATTTCCGAGAGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCACCATCG
* * * * * * *
4890618 GGGATCCTCCAACCCTATTATTTTCAAAGGGATACTCTAAC-CCTGATTTTATTTCTGAAATA-T
190 AGCATACTCCAACCCTATTATTGTCAAAGGGATACTCTAACTCCAG-TTTTATTTCTAAAACACT
*
4890681 CGATTTTTCACCATCGGAGATACTCCAACCT
254 -AATTTTTCACCATCGGAGATACTCCAACCT
4890712 CGTTGTTTTC
Statistics
Matches: 244, Mismatches: 32, Indels: 15
0.84 0.11 0.05
Matches are distributed among these distances:
314 17 0.07
315 220 0.90
316 7 0.03
ACGTcount: A:0.28, C:0.24, G:0.12, T:0.37
Consensus pattern (314 bp):
TTTTATTTTCAAATATCGATTTTCCACCATCGGAGATATCCAACCCCATTATTTTCAAGGGGACA
CTCTAACCTCGATTTTATCTCTAAAATACTAATTTTTCACCATCGCGGATACTCCAACCCCTTTA
TTTCCGAGAGGATACTCCAACCCCGATTTTATTTCTAAAACATCAATTTTTCACCATCGAGCATA
CTCCAACCCTATTATTGTCAAAGGGATACTCTAACTCCAGTTTTATTTCTAAAACACTAATTTTT
CACCATCGGAGATACTCCAACCTTATTATTTCTGAGGGGACACTCCAACCTCGA
Found at i:4894749 original size:35 final size:35
Alignment explanation
Indices: 4894703--4894842 Score: 262
Period size: 35 Copynumber: 4.0 Consensus size: 35
4894693 CAAAATAAAA
*
4894703 ATAAAAATGAAGGCATGGAATAATGGGCATGGAAT
1 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
*
4894738 ATAAAAATGAAGTCATGGAATGATGGGCATGGAAT
1 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
4894773 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
1 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
4894808 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
1 ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
4894843 GATGGGCATG
Statistics
Matches: 102, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 102 1.00
ACGTcount: A:0.44, C:0.06, G:0.30, T:0.21
Consensus pattern (35 bp):
ATAAAAATGAAGGCATGGAATGATGGGCATGGAAT
Found at i:4894837 original size:49 final size:49
Alignment explanation
Indices: 4894784--4894887 Score: 208
Period size: 49 Copynumber: 2.1 Consensus size: 49
4894774 TAAAAATGAA
4894784 GGCATGGAATGATGGGCATGGAATATAAAAATGAAGGCATGGAATGATG
1 GGCATGGAATGATGGGCATGGAATATAAAAATGAAGGCATGGAATGATG
4894833 GGCATGGAATGATGGGCATGGAATATAAAAATGAAGGCATGGAATGATG
1 GGCATGGAATGATGGGCATGGAATATAAAAATGAAGGCATGGAATGATG
4894882 GGCATG
1 GGCATG
4894888 AAAAATGAAA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 55 1.00
ACGTcount: A:0.38, C:0.07, G:0.36, T:0.20
Consensus pattern (49 bp):
GGCATGGAATGATGGGCATGGAATATAAAAATGAAGGCATGGAATGATG
Found at i:4894838 original size:14 final size:14
Alignment explanation
Indices: 4894819--4894856 Score: 76
Period size: 14 Copynumber: 2.7 Consensus size: 14
4894809 TAAAAATGAA
4894819 GGCATGGAATGATG
1 GGCATGGAATGATG
4894833 GGCATGGAATGATG
1 GGCATGGAATGATG
4894847 GGCATGGAAT
1 GGCATGGAAT
4894857 ATAAAAATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.29, C:0.08, G:0.42, T:0.21
Consensus pattern (14 bp):
GGCATGGAATGATG
Found at i:4896359 original size:79 final size:79
Alignment explanation
Indices: 4896228--4896894 Score: 900
Period size: 79 Copynumber: 8.4 Consensus size: 79
4896218 TTTAATTTTC
* * * *
4896228 TCAATTTTTCACAATCGGGGATACTCCAACCCCGTTA-TGTCCGAGGGGATACTCCAACCCGAGT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCTGAGGGGATACTCTAACCCG-GT
*
4896292 TTTATTTCTAAAACA
65 TTTATCTCTAAAACA
**
4896307 TCAATTTTTCATAATCGGGGATACTCCAACCCTATTATTTTC-GAGGGGATACTCTAACCCCGGT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCTGAGGGGATACTCTAA-CCCGGT
4896371 TTTATCTCTAAAACA
65 TTTATCTCTAAAACA
* * *
4896386 TCAATTTTTCATAATCGGGGATACTCCAACCCCATTATTTTC-GAGGGGAAACTCTAACCTCGAT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCTGAGGGGATACTCTAACC-CGGT
4896450 TTTATCTCTAAAACA
65 TTTATCTCTAAAACA
* * * *
4896465 TTAATTTTTCATAATCAGGGATACTCCAACCCCGTTA-TTTCTGAGGGGATATTCCAACCTCGGT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCTGAGGGGATACTCTAACC-CGGT
*
4896529 TTTATTTCTAAAACA
65 TTTATCTCTAAAACA
* * *
4896544 TCAATTTTTCATAATCGGAGATACTCCAACCCTGTTA-TTTCTGA-GGGAGTACTCTAACCTCGA
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCTGAGGGGA-TACTCTAACC-CGG
* *
4896607 TTTTATTTCTAAAATA
64 TTTTATCTCTAAAACA
* * * * *
4896623 TTAATTTTTCATAATCGGAGATACTCCAACCCTGTTATTTCCTGAGGGGATACTCCAACCCCGGT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCTGAGGGGATACTCTAA-CCCGGT
*
4896688 TTTATCTCTTAAACA
65 TTTATCTCTAAAACA
* * *
4896703 TCAATTTCTCATAATCGGGGATACTCCAACCCCATTA-TTTCTGAAGGGATACTCTAACCCTGGT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCTGAGGGGATACTCTAACCC-GGT
4896767 TTTATCTCTAAAACA
65 TTTATCTCTAAAACA
* *
4896782 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTA-TTTCCGAGGGGATACTCTAACCCCGAT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCTGAGGGGATACTCTAA-CCCGGT
*
4896846 TTTATTTCTAAAACA
65 TTTATCTCTAAAACA
*
4896861 ACAATTTTTCATAATCGGGGATACTCCAACCCCG
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCG
4896895 GTTTTATTTT
Statistics
Matches: 530, Mismatches: 48, Indels: 20
0.89 0.08 0.03
Matches are distributed among these distances:
78 13 0.02
79 441 0.83
80 70 0.13
81 6 0.01
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (79 bp):
TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTTCTGAGGGGATACTCTAACCCGGTT
TTATCTCTAAAACA
Found at i:4896805 original size:317 final size:316
Alignment explanation
Indices: 4896228--4896894 Score: 1036
Period size: 317 Copynumber: 2.1 Consensus size: 316
4896218 TTTAATTTTC
*
4896228 TCAATTTTTCACAATCGGGGATACTCCAACCCCGTTATGTCCGAGGGGATACTCCAACCCGAGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATGTCCGAGGGGATACTCCAACCCGAGTT
* *
4896293 TTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAACCCTATTATTTTCGAGGGGATA
66 TTATTTCTAAAACATCAATTTTTCATAATCGGAGATACTCCAACCCTATTATTTCCGAGGGGATA
* *
4896358 CTCTAACCCCGGTTTTATCTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAACCCCATTA
131 CTCCAACCCCGGTTTTATCTCTAAAACATCAATTTCTCATAATCGGGGATACTCCAACCCCATTA
* *
4896423 TTTTCGAGGGGAAACTCTAACCTCGATTTTATCTCTAAAACATTAATTTTTCATAATCAGGGATA
196 TTTTCGAAGGGAAACTCTAACCTCGATTTTATCTCTAAAACATCAATTTTTCATAATCAGGGATA
* * * *
4896488 CTCCAACCCCGTTATTTCTGAGGGGATATTCCAACCTCGGTTTTATTTCTAAAACA
261 CTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGATTTTATTTCTAAAACA
* * * * *
4896544 TCAATTTTTCATAATCGGAGATACTCCAACCCTGTTATTTCTGA-GGGAGTACTCTAACCTCGA-
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATGTCCGAGGGGA-TACTCCAACC-CGAG
* * *
4896607 TTTTATTTCTAAAATATTAATTTTTCATAATCGGAGATACTCCAACCCTGTTATTTCCTGAGGGG
64 TTTTATTTCTAAAACATCAATTTTTCATAATCGGAGATACTCCAACCCTATTATTTCC-GAGGGG
*
4896672 ATACTCCAACCCCGGTTTTATCTCTTAAACATCAATTTCTCATAATCGGGGATACTCCAACCCCA
128 ATACTCCAACCCCGGTTTTATCTCTAAAACATCAATTTCTCATAATCGGGGATACTCCAACCCCA
* * *
4896737 TTA-TTTCTGAAGGGATACTCTAACC-CTGGTTTTATCTCTAAAACATCAATTTTTCATAATCGG
193 TTATTTTC-GAAGGGAAACTCTAACCTC-GATTTTATCTCTAAAACATCAATTTTTCATAATCAG
*
4896800 GGATACTCCAACCCCGTTATTTCCGAGGGGATACTCTAACCCCGATTTTATTTCTAAAACA
256 GGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGATTTTATTTCTAAAACA
*
4896861 ACAATTTTTCATAATCGGGGATACTCCAACCCCG
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCG
4896895 GTTTTATTTT
Statistics
Matches: 319, Mismatches: 27, Indels: 9
0.90 0.08 0.03
Matches are distributed among these distances:
315 4 0.01
316 106 0.33
317 209 0.66
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (316 bp):
TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATGTCCGAGGGGATACTCCAACCCGAGTT
TTATTTCTAAAACATCAATTTTTCATAATCGGAGATACTCCAACCCTATTATTTCCGAGGGGATA
CTCCAACCCCGGTTTTATCTCTAAAACATCAATTTCTCATAATCGGGGATACTCCAACCCCATTA
TTTTCGAAGGGAAACTCTAACCTCGATTTTATCTCTAAAACATCAATTTTTCATAATCAGGGATA
CTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGATTTTATTTCTAAAACA
Found at i:4896902 original size:51 final size:52
Alignment explanation
Indices: 4896826--4896946 Score: 190
Period size: 52 Copynumber: 2.3 Consensus size: 52
4896816 TTATTTCCGA
* * *
4896826 GGGGATACTCTAACCCCGATTTTA-TTTCTAAAACAACAATTTTTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCTAAAACAACAATTTCTCACAATC
* *
4896877 GGGGATACTCCAACCCCGGTTTTATTTTCTAAAACATCAATTTCTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCTAAAACAACAATTTCTCACAATC
4896929 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
4896947 TTATTTTCAT
Statistics
Matches: 64, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
51 22 0.34
52 42 0.66
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.31
Consensus pattern (52 bp):
GGGGATACTCCAACCCCGATTTTATTTTCTAAAACAACAATTTCTCACAATC
Found at i:4897099 original size:134 final size:132
Alignment explanation
Indices: 4896748--4897072 Score: 343
Period size: 131 Copynumber: 2.5 Consensus size: 132
4896738 TATTTCTGAA
* * * * * * *
4896748 GGGATACTCTAACCCTGGTTTTA-TCTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
1 GGGATACTCCAACCCCGATTTTATTTTCTAAAACACCAATTTCTCACAATCGGGGATACTCCAAC
* *** * ***
4896812 CCCGTTATTTCCGA-GGGGATACTCTAAC-CCCGATTTTATTTCTAAAACAACAATTTTTCATAA
66 CCCGTTATTTTC-ATGAAAATACTCTAACGCCGGCCCTTATTTCTAAAACAACAATTTTTCATAA
4896875 TCG
130 TCG
* *
4896878 GGGATACTCCAACCCCGGTTTTATTTTCTAAAACATCAATTTCTCACAATCGGGGATACTCCAAC
1 GGGATACTCCAACCCCGATTTTATTTTCTAAAACACCAATTTCTCACAATCGGGGATACTCCAAC
** * * *
4896943 CCCGTTATTTTCATGAGGATACTCTAACGCCGGCCCTTATTTCTAAAGCATCAATTTTTTTTATA
66 CCCGTTATTTTCATGAAAATACTCTAACGCCGGCCCTTATTTCTAAAACAACAA--TTTTTCATA
4897008 ATCG
129 ATCG
* * * * *
4897012 GGGATACTCTAACCCCGATTTTATTTTTTAGAACACC-ATTTTTCCATAATCGGGGATACTC
1 GGGATACTCCAACCCCGATTTTATTTTCTAAAACACCAATTTCT-CACAATCGGGGATACTC
4897073 TAGCCCTTTT
Statistics
Matches: 168, Mismatches: 21, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
130 22 0.13
131 62 0.37
132 19 0.11
133 5 0.03
134 60 0.36
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (132 bp):
GGGATACTCCAACCCCGATTTTATTTTCTAAAACACCAATTTCTCACAATCGGGGATACTCCAAC
CCCGTTATTTTCATGAAAATACTCTAACGCCGGCCCTTATTTCTAAAACAACAATTTTTCATAAT
CG
Found at i:4899149 original size:4 final size:4
Alignment explanation
Indices: 4899140--4899164 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
4899130 TATTTTGAGG
4899140 TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT T
4899165 GTTTTGTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:4910568 original size:61 final size:61
Alignment explanation
Indices: 4910465--4910613 Score: 228
Period size: 61 Copynumber: 2.4 Consensus size: 61
4910455 CTTCTTCCAC
* *
4910465 TTTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTTCTAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCG
*
4910526 TTTT-TCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCG
1 TTTTCT-AGTCCTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCG
* * *
4910587 CTTCCTAGTCCTCAAAGAGTAGGACGC
1 TTTTCTAGTCCTCAAAGAGCAGGACGC
4910614 TCCCTCATTT
Statistics
Matches: 80, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
60 1 0.01
61 78 0.98
62 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (61 bp):
TTTTCTAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCG
Found at i:4910796 original size:55 final size:56
Alignment explanation
Indices: 4910631--4910879 Score: 333
Period size: 55 Copynumber: 4.4 Consensus size: 56
4910621 TTTCGCCCTT
* * * *
4910631 TAGTACTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTC
1 TAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
4910687 TAGTCCTCAAAGAGCAGGACGCCTTCGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
1 TAGTCCTCAAAGAGCAGGA------CGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
* *
4910749 -AATCTTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
1 TAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
* * *
4910804 -AGTCCTCAAAGAGCAGGACTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCC
1 TAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
*
4910858 TAGTCCTCAAAGAGCAGAACGC
1 TAGTCCTCAAAGAGCAGGACGC
4910880 TCTCTCCTTT
Statistics
Matches: 173, Mismatches: 13, Indels: 15
0.86 0.06 0.07
Matches are distributed among these distances:
54 4 0.02
55 101 0.58
56 18 0.10
61 16 0.09
62 34 0.20
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (56 bp):
TAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
Found at i:4911099 original size:61 final size:61
Alignment explanation
Indices: 4910894--4911101 Score: 251
Period size: 61 Copynumber: 3.4 Consensus size: 61
4910884 TCCTTTCACC
*
4910894 TTCAGTCCTCAAAGAGCAGGACGCCTTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACTT
1 TTCAGTCCTCAAAGAGCAGGACACC-TTTT-CTTTTCAAAGCCCACACAAGTTGGTGGCACTT
* * ** * * *
4910956 TTCAATCCTCAAAGAGCTGGA-TGCTTTTTTTTTGCAAATCCCACACTAGTTGGTGGCA-TCT
1 TTCAGTCCTCAAAGAGCAGGACACCTTTTCTTTT-CAAAGCCCACACAAGTTGGTGGCACT-T
* * * *
4911017 TCCAGTCCTCAAAGAGCAGGACACCTTTTCTTTTCAAAGACCACACCAGTTCGTGGCACTT
1 TTCAGTCCTCAAAGAGCAGGACACCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTT
4911078 TTCAGTCCTCAAAGAGCAGGACAC
1 TTCAGTCCTCAAAGAGCAGGACAC
4911102 ACTTCTTTCC
Statistics
Matches: 123, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
59 4 0.03
60 5 0.04
61 85 0.69
62 29 0.24
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.29
Consensus pattern (61 bp):
TTCAGTCCTCAAAGAGCAGGACACCTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTT
Found at i:4911330 original size:40 final size:41
Alignment explanation
Indices: 4911232--4911335 Score: 113
Period size: 42 Copynumber: 2.5 Consensus size: 41
4911222 ACGAGACGTA
* *
4911232 CTCTTTTTCACTTTGTCCTCAAGAAGCAGGACACTTTCCTTTT
1 CTCTTTTT--CTTTGTCCTCAAGAAGCAAGACACTTTCCTATT
* * *
4911275 CTTCTTTTCCTTTGTCCTCAAGGAGCAAGAC-CTATTTC-ATT
1 C-TCTTTTTCTTTGTCCTCAAGAAGCAAGACACT-TTCCTATT
4911316 CTCTTTTTCTTTGTCCTCAA
1 CTCTTTTTCTTTGTCCTCAA
4911336 AAAGTGGGAC
Statistics
Matches: 53, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
40 18 0.34
41 5 0.09
42 23 0.43
43 1 0.02
44 6 0.11
ACGTcount: A:0.17, C:0.28, G:0.11, T:0.44
Consensus pattern (41 bp):
CTCTTTTTCTTTGTCCTCAAGAAGCAAGACACTTTCCTATT
Found at i:4911849 original size:21 final size:21
Alignment explanation
Indices: 4911824--4911980 Score: 131
Period size: 21 Copynumber: 8.5 Consensus size: 21
4911814 TGGAATGATG
4911824 GGCATGGAATATAAAAATGAA
1 GGCATGGAATATAAAAATGAA
4911845 GGCATGGAATATAAAAATGAA
1 GGCATGGAATATAAAAATGAA
*
4911866 GGCATGG-A-AT---GATG--
1 GGCATGGAATATAAAAATGAA
4911880 GGCATGGAATATAAAAATGAA
1 GGCATGGAATATAAAAATGAA
*
4911901 GGCATGG-A-AT---GATG--
1 GGCATGGAATATAAAAATGAA
*
4911915 GGCATGGAATATAAAAATGGA
1 GGCATGGAATATAAAAATGAA
*
4911936 GGCATGG-A-AT---GATG--
1 GGCATGGAATATAAAAATGAA
4911950 GGCATGGAATATAAAAATGAA
1 GGCATGGAATATAAAAATGAA
4911971 GGCATGGAAT
1 GGCATGGAAT
4911981 GATGGGCATG
Statistics
Matches: 109, Mismatches: 6, Indels: 42
0.69 0.04 0.27
Matches are distributed among these distances:
14 21 0.19
15 3 0.03
16 15 0.14
19 15 0.14
20 3 0.03
21 52 0.48
ACGTcount: A:0.44, C:0.06, G:0.31, T:0.20
Consensus pattern (21 bp):
GGCATGGAATATAAAAATGAA
Found at i:4911865 original size:56 final size:56
Alignment explanation
Indices: 4911799--4911910 Score: 224
Period size: 56 Copynumber: 2.0 Consensus size: 56
4911789 AAAAATAATA
4911799 ATAAAAATGAAGGCATGGAATGATGGGCATGGAATATAAAAATGAAGGCATGGAAT
1 ATAAAAATGAAGGCATGGAATGATGGGCATGGAATATAAAAATGAAGGCATGGAAT
4911855 ATAAAAATGAAGGCATGGAATGATGGGCATGGAATATAAAAATGAAGGCATGGAAT
1 ATAAAAATGAAGGCATGGAATGATGGGCATGGAATATAAAAATGAAGGCATGGAAT
4911911 GATGGGCATG
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.46, C:0.05, G:0.29, T:0.20
Consensus pattern (56 bp):
ATAAAAATGAAGGCATGGAATGATGGGCATGGAATATAAAAATGAAGGCATGGAAT
Found at i:4911884 original size:35 final size:35
Alignment explanation
Indices: 4911845--4911990 Score: 283
Period size: 35 Copynumber: 4.2 Consensus size: 35
4911835 TAAAAATGAA
4911845 GGCATGGAATATAAAAATGAAGGCATGGAATGATG
1 GGCATGGAATATAAAAATGAAGGCATGGAATGATG
4911880 GGCATGGAATATAAAAATGAAGGCATGGAATGATG
1 GGCATGGAATATAAAAATGAAGGCATGGAATGATG
*
4911915 GGCATGGAATATAAAAATGGAGGCATGGAATGATG
1 GGCATGGAATATAAAAATGAAGGCATGGAATGATG
4911950 GGCATGGAATATAAAAATGAAGGCATGGAATGATG
1 GGCATGGAATATAAAAATGAAGGCATGGAATGATG
4911985 GGCATG
1 GGCATG
4911991 AAAAATGAAA
Statistics
Matches: 109, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 109 1.00
ACGTcount: A:0.41, C:0.06, G:0.33, T:0.20
Consensus pattern (35 bp):
GGCATGGAATATAAAAATGAAGGCATGGAATGATG
Found at i:4913523 original size:79 final size:79
Alignment explanation
Indices: 4913392--4914217 Score: 1217
Period size: 79 Copynumber: 10.4 Consensus size: 79
4913382 TTTAATTTTC
4913392 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
4913457 TTATTTCTAAAACA
66 TTATTTCTAAAACA
** *
4913471 TCAATTTTTCATAATCGATGATACTCCTACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
*
4913536 TTATCTCTAAAACA
66 TTATTTCTAAAACA
* * * *
4913550 TTAATTTTTTATAATCAGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCTAACCCCGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
*
4913615 TTATCTCTAAAACA
66 TTATTTCTAAAACA
* *
4913629 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATATTCCAACCCCGATT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
4913694 TTATTTCTAAAACA
66 TTATTTCTAAAACA
* *
4913708 TCAATTTTTCATAATCGAGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCTAACCCCGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
*
4913773 TTATTTCTAAAATA
66 TTATTTCTAAAACA
* * * * *
4913787 TTAATTTTTCATAATCGGGGATACTCCAA-CCCATTATTTTCGAGGGAATACTCTAACCCCGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
*
4913851 TTATTTCTAAAATA
66 TTATTTCTAAAACA
* * ** * *
4913865 TTAATTTTTCATAATCGGGGATACTCTAGTCCCATTATTTCTGAGGGGATACTCCAACCCCGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
*
4913930 TTATCTCTAAAACA
66 TTATTTCTAAAACA
* * * *
4913944 TCAATTTCTCATAATCGGGGATACTCCAACCCCGTTATTTCCAAGAGGATACTCTAACCCCGGTT
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
*
4914009 TTATCTCTAAAACA
66 TTATTTCTAAAACA
*
4914023 TCAATTTTTCATAATCGGGGATACTCTAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGG-T
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
4914087 TTATTTTCTAAAACA
66 TTA-TTTCTAAAACA
* * *
4914102 TCAATTTCTCACAATCGGGGATACTCCAACCCCGTTATTTTC-ACGGGGATACTCCAACCCCGGC
1 TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGA-GGGGATACTCCAACCCCGG-
** *
4914166 CCTTATTTCTAAAGCA
64 TTTTATTTCTAAAACA
* *
4914182 TCAATTTTTTTTATAATCGGGGATACTCTAACCCCG
1 TCAA--TTTTTCATAATCGGGGATACTCCAACCCCG
4914218 ATTTTATTTT
Statistics
Matches: 678, Mismatches: 62, Indels: 11
0.90 0.08 0.01
Matches are distributed among these distances:
78 78 0.12
79 557 0.82
80 14 0.02
81 3 0.00
82 26 0.04
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (79 bp):
TCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT
TTATTTCTAAAACA
Found at i:4919491 original size:17 final size:18
Alignment explanation
Indices: 4919469--4919505 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 18
4919459 AAGAAAATTC
4919469 AAGAAAT-AACAAC-AAAG
1 AAGAAATGAA-AACTAAAG
4919486 AAGAAATGAAAACTAAAG
1 AAGAAATGAAAACTAAAG
4919504 AA
1 AA
4919506 CAAGGGAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.70, C:0.08, G:0.14, T:0.08
Consensus pattern (18 bp):
AAGAAATGAAAACTAAAG
Found at i:4921239 original size:15 final size:15
Alignment explanation
Indices: 4921221--4921249 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
4921211 TATATGTTAT
4921221 ATTTAATTTAAAAAA
1 ATTTAATTTAAAAAA
4921236 ATTTAATTTAAAAA
1 ATTTAATTTAAAAA
4921250 TAAAAAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
ATTTAATTTAAAAAA
Found at i:4921255 original size:21 final size:22
Alignment explanation
Indices: 4921231--4921270 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
4921221 ATTTAATTTA
4921231 AAAAAATTT-AAT-TTAAAAAT
1 AAAAAATTTAAATATTAAAAAT
4921251 AAAAAATTTAAATATTAAAA
1 AAAAAATTTAAATATTAAAA
4921271 TTTAAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.50
21 3 0.17
22 6 0.33
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (22 bp):
AAAAAATTTAAATATTAAAAAT
Found at i:4922726 original size:16 final size:16
Alignment explanation
Indices: 4922705--4922754 Score: 100
Period size: 16 Copynumber: 3.1 Consensus size: 16
4922695 AATTATTTAA
4922705 CTTATTCTCAAGCTAT
1 CTTATTCTCAAGCTAT
4922721 CTTATTCTCAAGCTAT
1 CTTATTCTCAAGCTAT
4922737 CTTATTCTCAAGCTAT
1 CTTATTCTCAAGCTAT
4922753 CT
1 CT
4922755 CCTTTTTATA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.24, C:0.26, G:0.06, T:0.44
Consensus pattern (16 bp):
CTTATTCTCAAGCTAT
Found at i:4928337 original size:16 final size:15
Alignment explanation
Indices: 4928318--4928358 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
4928308 AATAATTTTT
4928318 TTATTTTAAAATTATA
1 TTATTTTAAAATTA-A
4928334 TTATTTTAAAATTAA
1 TTATTTTAAAATTAA
4928349 -T-TTTTAAAAT
1 TTATTTTAAAAT
4928359 ATGTTAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 9 0.36
14 1 0.04
15 1 0.04
16 14 0.56
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TTATTTTAAAATTAA
Found at i:4928443 original size:11 final size:11
Alignment explanation
Indices: 4928427--4928511 Score: 70
Period size: 11 Copynumber: 7.7 Consensus size: 11
4928417 AAAAAATTAT
4928427 TTTATTTATAA
1 TTTATTTATAA
*
4928438 TTTATTTAAAA
1 TTTATTTATAA
4928449 TTT-TTT-T-A
1 TTTATTTATAA
*
4928457 TTTTTTTA-AA
1 TTTATTTATAA
*
4928467 TTTTTTTATAA
1 TTTATTTATAA
*
4928478 TTTATTTAAAA
1 TTTATTTATAA
4928489 CTTTTTAATTTATAA
1 ---TTT-ATTTATAA
4928504 TTTATTTA
1 TTTATTTA
4928512 ATTTTTTTTT
Statistics
Matches: 61, Mismatches: 5, Indels: 16
0.74 0.06 0.20
Matches are distributed among these distances:
8 4 0.07
9 3 0.05
10 12 0.20
11 29 0.48
12 3 0.05
14 3 0.05
15 7 0.11
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (11 bp):
TTTATTTATAA
Found at i:4928464 original size:19 final size:19
Alignment explanation
Indices: 4928437--4928499 Score: 65
Period size: 18 Copynumber: 3.2 Consensus size: 19
4928427 TTTATTTATA
*
4928437 ATTTATTTAAAATTTTTTT
1 ATTTTTTTAAAATTTTTTT
4928456 ATTTTTTT-AAATTTTTTT
1 ATTTTTTTAAAATTTTTTT
* *
4928474 ATAATTTATTTAAAACTTTTTA
1 AT--TTT-TTTAAAATTTTTTT
4928496 ATTT
1 ATTT
4928500 ATAATTTATT
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
18 12 0.32
19 7 0.19
20 5 0.14
21 3 0.08
22 10 0.27
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (19 bp):
ATTTTTTTAAAATTTTTTT
Found at i:4928469 original size:29 final size:31
Alignment explanation
Indices: 4928423--4928512 Score: 85
Period size: 29 Copynumber: 2.8 Consensus size: 31
4928413 ATATAAAAAA
*
4928423 TTATTTTATTTATAATTTATTTAAAATTTTT
1 TTATTTTATTTATAATTTATTTAAAATTTAT
* *
4928454 TTATTTT-TTTA-AATTTTTTTATAATTTAT
1 TTATTTTATTTATAATTTATTTAAAATTTAT
4928483 TTAAAACTTTTTAATTTATAATTTATTTAA
1 TT---A--TTTT-ATTTATAATTTATTTAA
4928513 TTTTTTTTTA
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
29 17 0.37
30 4 0.09
31 7 0.15
32 1 0.02
34 4 0.09
36 4 0.09
37 9 0.20
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (31 bp):
TTATTTTATTTATAATTTATTTAAAATTTAT
Found at i:4928500 original size:19 final size:19
Alignment explanation
Indices: 4928435--4928501 Score: 80
Period size: 19 Copynumber: 3.4 Consensus size: 19
4928425 ATTTTATTTA
4928435 TAATTTATTTAAAATTTTT
1 TAATTTATTTAAAATTTTT
* * *
4928454 TTATTTTTTTAAATTTTTTT
1 TAATTTATTTAAA-ATTTTT
*
4928474 ATAATTTATTTAAAACTTTT
1 -TAATTTATTTAAAATTTTT
4928494 TAATTTAT
1 TAATTTAT
4928502 AATTTATTTA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
19 19 0.49
20 9 0.23
21 11 0.28
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (19 bp):
TAATTTATTTAAAATTTTT
Found at i:4929316 original size:89 final size:89
Alignment explanation
Indices: 4929143--4929613 Score: 515
Period size: 89 Copynumber: 5.3 Consensus size: 89
4929133 TTTAAACCTC
* * * ** *
4929143 CTGACACGACGAAAAATATTAGACTAATGA-TTAATAAAATTCTCAAAACCCGAAAGATGTGATA
1 CTGACACGATGAAAAATATTTGACTAAT-ACCTAATAAAATTCTTGAAACCCGAAAGATGTGACA
** * * *
4929207 GATGCATGCAGGTATTAGATTGCTT
65 GATGCATGTTGATATCAGATTCCTT
* * * *
4929232 CTGACATGATTAAAAATATTTGACTAATACCTAACAAAATTCTTGAAACCCGAAAGATGTGACAA
1 CTGACACGATGAAAAATATTTGACTAATACCTAATAAAATTCTTGAAACCCGAAAGATGTGACAG
* *
4929297 ATGTATGTTGATATCAGATTCTTT
66 ATGCATGTTGATATCAGATTCCTT
* * *
4929321 CTGACACGACGAAAAATATTTAACTAATGCCTAATAAAATTCTTGAAACCCGAAAGATGTGACAG
1 CTGACACGATGAAAAATATTTGACTAATACCTAATAAAATTCTTGAAACCCGAAAGATGTGACAG
* *
4929386 ATGAATG-TGAGTATCAGATTTCTT
66 ATGCATGTTGA-TATCAGATTCCTT
* * * * * * *
4929410 CTGACACAATAAAAAATATTTGACTAATACTTAATAAACTTCTTGAAAACCGAAATATGTAACAG
1 CTGACACGATGAAAAATATTTGACTAATACCTAATAAAATTCTTGAAACCCGAAAGATGTGACAG
*
4929475 ATGCAT-ATGAGTATCAGATTCCTT
66 ATGCATGTTGA-TATCAGATTCCTT
* * * * *
4929499 CTAACACGATGAAAAATATTTGACTAATGCCTAATAAATTTTTTGAAACCCGAAAGATATGACAG
1 CTGACACGATGAAAAATATTTGACTAATACCTAATAAAATTCTTGAAACCCGAAAGATGTGACAG
* *
4929564 ATGCATGTGGGTATCAGATTCCTT
66 ATGCATGTTGATATCAGATTCCTT
*
4929588 CT-A-ACAAT-AGAAAATATTTG-CTAATA
1 CTGACACGATGA-AAAATATTTGACTAATA
4929614 ATACGACAGA
Statistics
Matches: 322, Mismatches: 55, Indels: 13
0.83 0.14 0.03
Matches are distributed among these distances:
86 6 0.02
87 14 0.04
88 5 0.02
89 296 0.92
90 1 0.00
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (89 bp):
CTGACACGATGAAAAATATTTGACTAATACCTAATAAAATTCTTGAAACCCGAAAGATGTGACAG
ATGCATGTTGATATCAGATTCCTT
Found at i:4929455 original size:178 final size:178
Alignment explanation
Indices: 4929143--4929613 Score: 594
Period size: 178 Copynumber: 2.7 Consensus size: 178
4929133 TTTAAACCTC
** ** *
4929143 CTGACACGACGAAAAATA-TTAGACTAATGATTAATAAAATTCTCAAAACCCGAAAGATGTGATA
1 CTGACACGACGAAAAATATTTA-ACTAATGCCTAATAAAATTCTTGAAACCCGAAAGATGTGACA
* * * ** *
4929207 GATGCATG-CAGGTATTAGATTGCTTCTGACATGATTAAAAATATTTGACTAATACCTAACAAAA
65 GATGCATGTGA-GTATCAGATTCCTTCTGACACAATAAAAAATATTTGACTAATACCTAACAAAA
* * * * *
4929271 TTCTTGAAACCCGAAAGATGTGACAAATGTATGTTGA-TATCAGATTCTTT
129 TTCTTGAAAACCGAAAGATGTAACAAATGCAT-ATGAGTATCAGATTCCTT
4929321 CTGACACGACGAAAAATATTTAACTAATGCCTAATAAAATTCTTGAAACCCGAAAGATGTGACAG
1 CTGACACGACGAAAAATATTTAACTAATGCCTAATAAAATTCTTGAAACCCGAAAGATGTGACAG
* * * * *
4929386 ATGAATGTGAGTATCAGATTTCTTCTGACACAATAAAAAATATTTGACTAATACTTAATAAACTT
66 ATGCATGTGAGTATCAGATTCCTTCTGACACAATAAAAAATATTTGACTAATACCTAACAAAATT
* *
4929451 CTTGAAAACCGAAATATGTAACAGATGCATATGAGTATCAGATTCCTT
131 CTTGAAAACCGAAAGATGTAACAAATGCATATGAGTATCAGATTCCTT
* * * * * *
4929499 CTAACACGATGAAAAATATTTGACTAATGCCTAATAAATTTTTTGAAACCCGAAAGATATGACAG
1 CTGACACGACGAAAAATATTTAACTAATGCCTAATAAAATTCTTGAAACCCGAAAGATGTGACAG
* *
4929564 ATGCATGTGGGTATCAGATTCCTTCT-A-ACAATAGAAAATATTTG-CTAATA
66 ATGCATGTGAGTATCAGATTCCTTCTGACACAATAAAAAATATTTGACTAATA
4929614 ATACGACAGA
Statistics
Matches: 258, Mismatches: 32, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
175 6 0.02
176 16 0.06
177 4 0.02
178 228 0.88
179 4 0.02
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (178 bp):
CTGACACGACGAAAAATATTTAACTAATGCCTAATAAAATTCTTGAAACCCGAAAGATGTGACAG
ATGCATGTGAGTATCAGATTCCTTCTGACACAATAAAAAATATTTGACTAATACCTAACAAAATT
CTTGAAAACCGAAAGATGTAACAAATGCATATGAGTATCAGATTCCTT
Found at i:4934329 original size:22 final size:22
Alignment explanation
Indices: 4934301--4934343 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
4934291 ATTTTAAATA
4934301 ATATTTTTAT-ATTAATATTTAT
1 ATATTTTTATAATTAA-ATTTAT
4934323 ATATTTTTATAATTAAATTTA
1 ATATTTTTATAATTAAATTTA
4934344 AGTAAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
ATATTTTTATAATTAAATTTAT
Found at i:4935949 original size:33 final size:33
Alignment explanation
Indices: 4935911--4935974 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
4935901 ATGGTGGAAT
* *
4935911 GGAGGATGCTCATGGTGAAATGGGGGTAGATAA
1 GGAGGACGCTCAGGGTGAAATGGGGGTAGATAA
*
4935944 GGAGGACGCTTAGGGTGAAATGGGGGTAGAT
1 GGAGGACGCTCAGGGTGAAATGGGGGTAGAT
4935975 GAGGCGGTAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.28, C:0.06, G:0.45, T:0.20
Consensus pattern (33 bp):
GGAGGACGCTCAGGGTGAAATGGGGGTAGATAA
Found at i:4936006 original size:45 final size:45
Alignment explanation
Indices: 4935935--4936068 Score: 198
Period size: 45 Copynumber: 3.0 Consensus size: 45
4935925 GTGAAATGGG
* *
4935935 GGTAGATAAGGAGGACGCTTAG-GGTGAAATGGGGGTAGATGAGGC
1 GGTAGATAAGGAGGATGCTT-GTGGTGAAATGGGGGTAGATAAGGC
* *
4935980 GGTAGATAAGGAGGATGATTGTGGTGAAATGGAGGTAGATAAGGC
1 GGTAGATAAGGAGGATGCTTGTGGTGAAATGGGGGTAGATAAGGC
* *
4936025 GGTAGATAAGGAGGATGCTCGTGGTGAAATGGGGGTAAATAAGG
1 GGTAGATAAGGAGGATGCTTGTGGTGAAATGGGGGTAGATAAGG
4936069 AGGCTTGTAA
Statistics
Matches: 80, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
44 1 0.01
45 79 0.99
ACGTcount: A:0.31, C:0.04, G:0.44, T:0.20
Consensus pattern (45 bp):
GGTAGATAAGGAGGATGCTTGTGGTGAAATGGGGGTAGATAAGGC
Found at i:4936251 original size:45 final size:45
Alignment explanation
Indices: 4936109--4936251 Score: 126
Period size: 45 Copynumber: 3.1 Consensus size: 45
4936099 AGTTGATGGT
* * * * *
4936109 GGTGGAGGTGACGTATAATAGTATGGAGGTGGTGATGGAGAGGGA
1 GGTGGAGGTGACTTATAATAGTATGGAGGAGATGATGGTGAAGGA
* * * * * *
4936154 GGAGGAGGTGATTTATAATAATATGGAGGTGGAGGA-GAGGGTGACGGT
1 GGTGGAGGTGACTTATAATAGTATGGA---GGA-GATGATGGTGAAGGA
* *
4936202 GGTGGAGGAGACTTGTAATAGTATGGAGGAGATGATGGTGAAGGA
1 GGTGGAGGTGACTTATAATAGTATGGAGGAGATGATGGTGAAGGA
4936247 GGTGG
1 GGTGG
4936252 TGGGGATGGT
Statistics
Matches: 75, Mismatches: 18, Indels: 10
0.73 0.17 0.10
Matches are distributed among these distances:
44 2 0.03
45 40 0.53
48 32 0.43
49 1 0.01
ACGTcount: A:0.28, C:0.02, G:0.48, T:0.22
Consensus pattern (45 bp):
GGTGGAGGTGACTTATAATAGTATGGAGGAGATGATGGTGAAGGA
Found at i:4936260 original size:21 final size:21
Alignment explanation
Indices: 4936235--4936278 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
4936225 TGGAGGAGAT
*
4936235 GATGGTGAAGGAGGTGGTGGG
1 GATGGTGAAGGAGGTGGCGGG
* *
4936256 GATGGTGATGGTGGTGGCGGG
1 GATGGTGAAGGAGGTGGCGGG
4936277 GA
1 GA
4936279 ATTATATACA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.02, G:0.61, T:0.20
Consensus pattern (21 bp):
GATGGTGAAGGAGGTGGCGGG
Found at i:4936386 original size:54 final size:51
Alignment explanation
Indices: 4936301--4936407 Score: 126
Period size: 54 Copynumber: 2.0 Consensus size: 51
4936291 AGGAGGGGGA
* *
4936301 GGTGGAGACTTGTAAATGTATGGAACAGGTGGGGATGGTGAAGAAGGTGGTGGT
1 GGTGGAGACTTGTAAATGCAAGGAACAGGTGGGGAT-G-G-AGAAGGTGGTGGT
* * *
4936355 GGTGGAGACTTGTAGATGCAAGG-ACGGGGTGGTGATGGAGAAGGTGGTGGT
1 GGTGGAGACTTGTAAATGCAAGGAAC-AGGTGGGGATGGAGAAGGTGGTGGT
4936406 GG
1 GG
4936408 AGATTTATAG
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
51 15 0.32
52 1 0.02
53 3 0.06
54 28 0.60
ACGTcount: A:0.23, C:0.05, G:0.50, T:0.22
Consensus pattern (51 bp):
GGTGGAGACTTGTAAATGCAAGGAACAGGTGGGGATGGAGAAGGTGGTGGT
Found at i:4936408 original size:48 final size:48
Alignment explanation
Indices: 4936349--4936463 Score: 124
Period size: 48 Copynumber: 2.4 Consensus size: 48
4936339 TGAAGAAGGT
** *
4936349 GGTGGTGGTGGAGACTTGTAGATGCAAGGACGGGGTGGTG-ATGGAGAA
1 GGTGGTGGTGGAGACTTGTAGACACAAGGACGGGGTGGAGAAT-GAGAA
* * * **
4936397 GGTGGTGGTGGAGATTTATAGACATAAGGTGGGGGTGGAGAATGAGAA
1 GGTGGTGGTGGAGACTTGTAGACACAAGGACGGGGTGGAGAATGAGAA
* *
4936445 GGAGGTGGTGGGGACTTGT
1 GGTGGTGGTGGAGACTTGT
4936464 GGGCATAAGG
Statistics
Matches: 54, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
48 52 0.96
49 2 0.04
ACGTcount: A:0.23, C:0.04, G:0.50, T:0.23
Consensus pattern (48 bp):
GGTGGTGGTGGAGACTTGTAGACACAAGGACGGGGTGGAGAATGAGAA
Found at i:4936535 original size:48 final size:48
Alignment explanation
Indices: 4936480--4936698 Score: 224
Period size: 48 Copynumber: 4.6 Consensus size: 48
4936470 AAGGAGGAGG
* * * *
4936480 TGGTGATGGTGGAGGTGGGGACTTGTAGACATAAGGAGTAGGTGGCGA
1 TGGTGATGGTGGAGGTGGAGACTTGTAAACATATGGAGGAGGTGGCGA
* * * *
4936528 TGGTGATGGTGGAGGTGGAGACTTATAAATATATGGTGGAGGAGGCGA
1 TGGTGATGGTGGAGGTGGAGACTTGTAAACATATGGAGGAGGTGGCGA
*
4936576 TGGTGATGGTGGAGGTGGAGACTTGTAAACATATGGAGGAGGTGGTGA
1 TGGTGATGGTGGAGGTGGAGACTTGTAAACATATGGAGGAGGTGGCGA
* * * * * * * * **
4936624 AGGTGAGGGGGGTGGAGGAGA-TCTATAAAGATACGGAGGAGGTGATGA
1 TGGTGATGGTGGAGGTGGAGACT-TGTAAACATATGGAGGAGGTGGCGA
* * *
4936672 TGGAGATGGTGGTGGTGGAGATTTGTA
1 TGGTGATGGTGGAGGTGGAGACTTGTA
4936699 GTAATTTGCT
Statistics
Matches: 141, Mismatches: 28, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
47 1 0.01
48 139 0.99
49 1 0.01
ACGTcount: A:0.26, C:0.04, G:0.47, T:0.24
Consensus pattern (48 bp):
TGGTGATGGTGGAGGTGGAGACTTGTAAACATATGGAGGAGGTGGCGA
Found at i:4936539 original size:42 final size:43
Alignment explanation
Indices: 4936450--4936539 Score: 130
Period size: 42 Copynumber: 2.1 Consensus size: 43
4936440 GAGAAGGAGG
* * *
4936450 TGGTGGGGACTTGTGGGCATAAGGAGGAGGTGGTGATGGTGGA
1 TGGTGGGGACTTGTAGACATAAGGAGGAGGTGGCGATGGTGGA
*
4936493 -GGTGGGGACTTGTAGACATAAGGAGTAGGTGGCGATGGT-GA
1 TGGTGGGGACTTGTAGACATAAGGAGGAGGTGGCGATGGTGGA
4936534 TGGTGG
1 TGGTGG
4936540 AGGTGGAGAC
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
41 2 0.05
42 40 0.95
ACGTcount: A:0.20, C:0.06, G:0.51, T:0.23
Consensus pattern (43 bp):
TGGTGGGGACTTGTAGACATAAGGAGGAGGTGGCGATGGTGGA
Found at i:4936611 original size:27 final size:26
Alignment explanation
Indices: 4936533--4936620 Score: 69
Period size: 27 Copynumber: 3.5 Consensus size: 26
4936523 GGCGATGGTG
*
4936533 ATGGTGGAGGTGGAGACTTATAAATAT
1 ATGGTGGAGGTGGAGACTTGTAAA-AT
* * * *
4936560 ATGGTGGAGGAGGCGA-TGGT----G
1 ATGGTGGAGGTGGAGACTTGTAAAAT
4936581 ATGGTGGAGGTGGAGACTTGTAAACAT
1 ATGGTGGAGGTGGAGACTTGTAAA-AT
*
4936608 ATGGAGGAGGTGG
1 ATGGTGGAGGTGG
4936621 TGAAGGTGAG
Statistics
Matches: 45, Mismatches: 10, Indels: 12
0.67 0.15 0.18
Matches are distributed among these distances:
21 14 0.31
22 3 0.07
26 2 0.04
27 26 0.58
ACGTcount: A:0.27, C:0.05, G:0.44, T:0.24
Consensus pattern (26 bp):
ATGGTGGAGGTGGAGACTTGTAAAAT
Found at i:4936644 original size:96 final size:96
Alignment explanation
Indices: 4936471--4936698 Score: 253
Period size: 96 Copynumber: 2.4 Consensus size: 96
4936461 TGTGGGCATA
* * * * * *
4936471 AGGAGGAGGTGGTGATGGTGGAGGTGGGGACTTGTAGACATAAGGAGTAGGTGGCGATGGTGATG
1 AGGAGGAGATGGTGATGGTGGAGGTGGAGACTTGTAAACATAAGGAGGAGGTGGCGAAGGTGAGG
* * * * *
4936536 GTGGAGGTGGAGA-CTTATAAATATATGGTGG
66 GGGGAGGAGGAGATC-TATAAAGATACGGAGG
* * *
4936567 AGGAGGCGATGGTGATGGTGGAGGTGGAGACTTGTAAACATATGGAGGAGGTGGTGAAGGTGAGG
1 AGGAGGAGATGGTGATGGTGGAGGTGGAGACTTGTAAACATAAGGAGGAGGTGGCGAAGGTGAGG
*
4936632 GGGGTGGAGGAGATCTATAAAGATACGGAGG
66 GGGGAGGAGGAGATCTATAAAGATACGGAGG
* * * *
4936663 AGG-TGATGATGGAGATGGTGGTGGTGGAGATTTGTA
1 AGGAGGA-GATGGTGATGGTGGAGGTGGAGACTTGTA
4936699 GTAATTTGCT
Statistics
Matches: 110, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
95 1 0.01
96 108 0.98
97 1 0.01
ACGTcount: A:0.26, C:0.04, G:0.47, T:0.23
Consensus pattern (96 bp):
AGGAGGAGATGGTGATGGTGGAGGTGGAGACTTGTAAACATAAGGAGGAGGTGGCGAAGGTGAGG
GGGGAGGAGGAGATCTATAAAGATACGGAGG
Done.