Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr7
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: 47983841
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869652 characters in sequence are not A, C, G, or T
File 3 of 153
Found at i:721844 original size:11 final size:11
Alignment explanation
Indices: 721830--721926 Score: 69
Period size: 11 Copynumber: 8.6 Consensus size: 11
721820 AAAATACTAG
721830 TTTTTAAAATT
1 TTTTTAAAATT
721841 TTTTT--AA--
1 TTTTTAAAATT
721848 -TTTTAAAATT
1 TTTTTAAAATT
721858 TTTTTAAAATT
1 TTTTTAAAATT
721869 TTTTTAAAATACT
1 TTTTTAAAAT--T
**
721882 TTTTTAATTTTT
1 TTTTTAA-AATT
*
721894 TAATTTTAAAATA
1 T--TTTTAAAATT
721907 TTTTTAAAATACT
1 TTTTTAAAAT--T
721920 TTTTTAA
1 TTTTTAA
721927 TTTGTATTTT
Statistics
Matches: 68, Mismatches: 6, Indels: 22
0.71 0.06 0.23
Matches are distributed among these distances:
6 4 0.06
8 2 0.03
9 2 0.03
11 34 0.50
12 2 0.03
13 17 0.25
14 7 0.10
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTTTAAAATT
Found at i:721848 original size:43 final size:40
Alignment explanation
Indices: 721798--721929 Score: 137
Period size: 38 Copynumber: 3.2 Consensus size: 40
721788 TATTTATTTA
721798 TTTTTAATTTTAAAATAGTTTTAAAATACTAGTTTTTAAAAT-T
1 TTTTTAATTTTAAAATAGTTTTAAAAT--T--TTTTTAAAATAT
**
721841 TTTTTAATTTTAAAATTTTTTTAAAATTTTTTTAAAATACT
1 TTTTTAATTTTAAAATAGTTTTAAAATTTTTTTAAAATA-T
* * *
721882 TTTTTAATTTT---TTAATTTTAAAATATTTTTAAAATACT
1 TTTTTAATTTTAAAATAGTTTTAAAATTTTTTTAAAATA-T
721920 TTTTTAATTT
1 TTTTTAATTT
721930 GTATTTTAAT
Statistics
Matches: 81, Mismatches: 6, Indels: 9
0.84 0.06 0.09
Matches are distributed among these distances:
38 33 0.41
39 10 0.12
41 13 0.16
43 25 0.31
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (40 bp):
TTTTTAATTTTAAAATAGTTTTAAAATTTTTTTAAAATAT
Found at i:721853 original size:17 final size:17
Alignment explanation
Indices: 721831--721864 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
721821 AAATACTAGT
721831 TTTTAAAATTTTTTTAA
1 TTTTAAAATTTTTTTAA
721848 TTTTAAAATTTTTTTAA
1 TTTTAAAATTTTTTTAA
721865 AATTTTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTAAAATTTTTTTAA
Found at i:721945 original size:49 final size:49
Alignment explanation
Indices: 721805--721943 Score: 145
Period size: 49 Copynumber: 2.7 Consensus size: 49
721795 TTATTTTTAA
** *
721805 TTTTAAAATAGTTTTAAAATACTAGTTTTTAAAATTTTTTTAATTTTAAAATTT
1 TTTTAAAATTTTTTTAAAATACTA--TTTT--AA-TTTTTTAATTTTAAAATAT
*
721859 TTTTAAAATTTTTTTAAAATACTTTTTTAATTTTTTAATTTTAAAATAT
1 TTTTAAAATTTTTTTAAAATACTATTTTAATTTTTTAATTTTAAAATAT
* **
721908 TTTTAAAATACTTTTTT-AATTTGTATTTTAATTTTT
1 TTTTAAAAT--TTTTTTAAAATACTATTTTAATTTTT
721944 AAAATAAATT
Statistics
Matches: 75, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
49 27 0.36
50 17 0.23
51 6 0.08
52 4 0.05
54 21 0.28
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (49 bp):
TTTTAAAATTTTTTTAAAATACTATTTTAATTTTTTAATTTTAAAATAT
Found at i:724735 original size:21 final size:19
Alignment explanation
Indices: 724689--724760 Score: 117
Period size: 19 Copynumber: 3.7 Consensus size: 19
724679 AATCTTCAAG
*
724689 GATAGGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
724708 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
724727 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
724748 GATATGCAATCTT
1 GATATGCAATCTT
724761 CAAAGATATG
Statistics
Matches: 50, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
19 31 0.62
21 19 0.38
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:724799 original size:21 final size:23
Alignment explanation
Indices: 724742--724799 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 23
724732 ATGCAATCTT
* *
724742 AGATATG-ATATGCAATCTTCAA
1 AGATATGAATTTGTAATCTTCAA
*
724764 AGATATGATTTTGTAATCTT-AA
1 AGATATGAATTTGTAATCTTCAA
*
724786 AGAT-TTAATTTGTA
1 AGATATGAATTTGTA
724800 GATACCCTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
21 8 0.27
22 13 0.43
23 9 0.30
ACGTcount: A:0.38, C:0.07, G:0.14, T:0.41
Consensus pattern (23 bp):
AGATATGAATTTGTAATCTTCAA
Found at i:727245 original size:3 final size:3
Alignment explanation
Indices: 727239--727284 Score: 74
Period size: 3 Copynumber: 15.3 Consensus size: 3
727229 CTTTTAATAA
* *
727239 TAT TAT TAT TAT TAT TGT TAT TAT TAT TAT TAT TAT TAT CAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
727285 GTAATTGCCC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:727469 original size:39 final size:39
Alignment explanation
Indices: 727421--727495 Score: 105
Period size: 39 Copynumber: 1.9 Consensus size: 39
727411 TATATGTGTT
* *
727421 CTTTATATTTTATGATTCATACATATATCTATATATATA
1 CTTTATATTTTATGATACATACATATATATATATATATA
* **
727460 CTTTTTATTTTATGATAGTTACATATATATATATAT
1 CTTTATATTTTATGATACATACATATATATATATAT
727496 GTATATGCTT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 31 1.00
ACGTcount: A:0.35, C:0.08, G:0.04, T:0.53
Consensus pattern (39 bp):
CTTTATATTTTATGATACATACATATATATATATATATA
Found at i:728096 original size:111 final size:110
Alignment explanation
Indices: 727803--728129 Score: 539
Period size: 110 Copynumber: 3.0 Consensus size: 110
727793 TATCAAAAAC
* * * *
727803 AAAATTTTCAAATAAGGCAATGTTTTGCGTTTGGAAAATTCGAGAAAACGTGCCCTAATGCGCTG
1 AAAATTTTCAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGGAAACGTGCCCTAAGGTGCTG
*
727868 GGTGTCGATTTTTCTCATTCAACCAAATGGCTAAATATCCTTTTA
66 GGTGTCGATTTTTCTCGTTCAACCAAATGGCTAAATATCCTTTTA
727913 AAAATTTTCAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGA-GAGAACGTGCCCTAAGGTGCT
1 AAAATTTTCAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGGA-AACGTGCCCTAAGGTGCT
727977 GGGTGTCGATTTTTCTCGTTCAACCAAATGGCTAAATATCCTTTTA
65 GGGTGTCGATTTTTCTCGTTCAACCAAATGGCTAAATATCCTTTTA
* *
728023 AAAATTTTCGAAATAAGGCAATGTTTTGCATTTGGGAAATTTGAGGAAACGTGCCCTAAGGTGCT
1 AAAATTTTC-AAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGGAAACGTGCCCTAAGGTGCT
* * *
728088 GGGTGTCGATTTTTCTCGTTTAACCAAATAGCCAAATATCCT
65 GGGTGTCGATTTTTCTCGTTCAACCAAATGGCTAAATATCCT
728130 CTCGAATTTC
Statistics
Matches: 204, Mismatches: 10, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
109 1 0.00
110 112 0.55
111 89 0.44
112 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (110 bp):
AAAATTTTCAAATAAGGCAATGTTTTGCGTTTGGGAAATTCGAGGAAACGTGCCCTAAGGTGCTG
GGTGTCGATTTTTCTCGTTCAACCAAATGGCTAAATATCCTTTTA
Found at i:731096 original size:32 final size:32
Alignment explanation
Indices: 731055--731138 Score: 123
Period size: 36 Copynumber: 2.5 Consensus size: 32
731045 TTTGAGCCAA
*
731055 TATTTTTTCATTCTTTACGAATAATTATTTTT
1 TATTCTTTCATTCTTTACGAATAATTATTTTT
731087 TATTCTTTCATTCATTCTTTACGAATAATTATTTTT
1 TATTC--T--TTCATTCTTTACGAATAATTATTTTT
731123 TATTCTTTCATTCTTT
1 TATTCTTTCATTCTTT
731139 TGGATTTTCT
Statistics
Matches: 47, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
32 14 0.30
34 2 0.04
36 31 0.66
ACGTcount: A:0.23, C:0.13, G:0.02, T:0.62
Consensus pattern (32 bp):
TATTCTTTCATTCTTTACGAATAATTATTTTT
Found at i:731104 original size:36 final size:36
Alignment explanation
Indices: 731061--731135 Score: 150
Period size: 36 Copynumber: 2.1 Consensus size: 36
731051 CCAATATTTT
731061 TTCATTCTTTACGAATAATTATTTTTTATTCTTTCA
1 TTCATTCTTTACGAATAATTATTTTTTATTCTTTCA
731097 TTCATTCTTTACGAATAATTATTTTTTATTCTTTCA
1 TTCATTCTTTACGAATAATTATTTTTTATTCTTTCA
731133 TTC
1 TTC
731136 TTTTGGATTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.24, C:0.15, G:0.03, T:0.59
Consensus pattern (36 bp):
TTCATTCTTTACGAATAATTATTTTTTATTCTTTCA
Found at i:733436 original size:44 final size:44
Alignment explanation
Indices: 733382--733501 Score: 152
Period size: 44 Copynumber: 2.7 Consensus size: 44
733372 CACAAAGCTT
* * * *
733382 TATCTACCTGGTCAGCAGTGGAATATATTGAAGATTGT-AAGTTC
1 TATCTCCCTGGTCAGCAGTGGAATAGATTGAAGATTATGAA-TCC
*
733426 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTATGAATCC
1 TATCTCCCTGGTCAGCAGTGGAATAGATTGAAGATTATGAATCC
* * *
733470 TATCTCCCTGGGCAGCAGTGGAGTAGGTTGAA
1 TATCTCCCTGGTCAGCAGTGGAATAGATTGAA
733502 AATAGCAGAT
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 66 0.97
45 2 0.03
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.30
Consensus pattern (44 bp):
TATCTCCCTGGTCAGCAGTGGAATAGATTGAAGATTATGAATCC
Found at i:734142 original size:266 final size:267
Alignment explanation
Indices: 733603--734146 Score: 847
Period size: 266 Copynumber: 2.0 Consensus size: 267
733593 CACAACGGTG
* * * *
733603 AATCTTATTTCCCTAGCGTTGTAGTAGAACAGATTGAAGCCACGACGACGAATCTTATCTCCTTG
1 AATCTTATTTCCCTAGCGTTGTAGCAGAACAGATTAAAGCCACAACGACGAATCTTATCTCCCTG
** * *
733668 GTGTTAAGGCTTGGATTAGCTGAAGTGGAGCGGATTAAAGTTGTGGGCAGTGAATCCTATCTCTT
66 GCATTAAGGCTTGGATTAGCTGAAGTGGAGCGGATTAAAGCTGTGGGCAGCGAATCCTATCTCTT
* * * *
733733 TGTCGTTACAGTGGAGCAGATTAAAGCCGCAACGGCGAATCTTACTCCCCTGGCGGTGTAGTGGA
131 TGGCATTACAATGGAGCAGATTAAAGCCACAACGGCGAATCTTACTCCCCTGGCGGTGTAGTGGA
*
733798 ACAGATTCAAGCTACGACGACGAATCTCGTTTCCCCAACATTGCAAGTTAAAAGAGTGAAGCCGC
196 ACAGATTCAAGCTACGACGACGAATCTCGTTTCCCCAACAATGCAAGTTAAAAGAGTGAAGCCGC
* *
733863 AATGGCA
261 AACGACA
* *
733870 AATCTTATTTCCCTAGCGTTGTAGCAGAGCAGATTAAAGCCA-AACGGCGAATCTTATCTCCCTG
1 AATCTTATTTCCCTAGCGTTGTAGCAGAACAGATTAAAGCCACAACGACGAATCTTATCTCCCTG
*
733934 GCATTAAGGCTTGGATTAGCTGAAGTGGAGCGGATTGAAGCTGTGGGCAGCGAATCCTATCTCTT
66 GCATTAAGGCTTGGATTAGCTGAAGTGGAGCGGATTAAAGCTGTGGGCAGCGAATCCTATCTCTT
* * *
733999 TGGCATTACAATGGAGCAGATTAAAGCCACAATGGCGAATCTTATTCCCCTGGTGGTGTAGTGGA
131 TGGCATTACAATGGAGCAGATTAAAGCCACAACGGCGAATCTTACTCCCCTGGCGGTGTAGTGGA
* * * *
734064 ACAGATTGAAGCTACGACGACGAATCTCGTTTCCCCAACAATGCAATTTAAAAGATTGAAGTCGC
196 ACAGATTCAAGCTACGACGACGAATCTCGTTTCCCCAACAATGCAAGTTAAAAGAGTGAAGCCGC
*
734129 AACGACT
261 AACGACA
734136 AATCTTATTTC
1 AATCTTATTTC
734147 TTTGGCATTA
Statistics
Matches: 251, Mismatches: 26, Indels: 1
0.90 0.09 0.00
Matches are distributed among these distances:
266 212 0.84
267 39 0.16
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (267 bp):
AATCTTATTTCCCTAGCGTTGTAGCAGAACAGATTAAAGCCACAACGACGAATCTTATCTCCCTG
GCATTAAGGCTTGGATTAGCTGAAGTGGAGCGGATTAAAGCTGTGGGCAGCGAATCCTATCTCTT
TGGCATTACAATGGAGCAGATTAAAGCCACAACGGCGAATCTTACTCCCCTGGCGGTGTAGTGGA
ACAGATTCAAGCTACGACGACGAATCTCGTTTCCCCAACAATGCAAGTTAAAAGAGTGAAGCCGC
AACGACA
Found at i:734266 original size:150 final size:150
Alignment explanation
Indices: 733986--734266 Score: 427
Period size: 150 Copynumber: 1.9 Consensus size: 150
733976 GTGGGCAGCG
* * * *
733986 AATCCTATCTCTTTGGCATTACAATGGAGCAGATTAAAGCCACAATGGCGAATCTTATTCCCCTG
1 AATCCTATCTCTTTGGCATTACAATGGAGCAAATTAAAGCCACAACGACGAATCTTACTCCCCTG
* *
734051 GTGGTGTAGTGGAACAGATTGAAGCTACGACGACGAATCTCGTTTCCCCAACAATGCAATTTAAA
66 GTGGTGTAGTGGAACAGATTGAAACTACGACAACGAATCTCGTTTCCCCAACAATGCAATTTAAA
734116 AGATTGAAGTCGCAACGACT
131 AGATTGAAGTCGCAACGACT
* * * ** *
734136 AATCTTATTTCTTTGGCATTACAGTGGAGCAAATTAAAGCTGCAACGACGAATCTTACTCCTCTG
1 AATCCTATCTCTTTGGCATTACAATGGAGCAAATTAAAGCCACAACGACGAATCTTACTCCCCTG
* * *
734201 GTGGTGTAGTGGAATAGATTGAAACTACGACAACGAATCTTGTTTCCCCAACATTGCAATTTAAA
66 GTGGTGTAGTGGAACAGATTGAAACTACGACAACGAATCTCGTTTCCCCAACAATGCAATTTAAA
734266 A
131 A
734267 TACTGAAGAT
Statistics
Matches: 116, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
150 116 1.00
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.28
Consensus pattern (150 bp):
AATCCTATCTCTTTGGCATTACAATGGAGCAAATTAAAGCCACAACGACGAATCTTACTCCCCTG
GTGGTGTAGTGGAACAGATTGAAACTACGACAACGAATCTCGTTTCCCCAACAATGCAATTTAAA
AGATTGAAGTCGCAACGACT
Found at i:734460 original size:45 final size:44
Alignment explanation
Indices: 734409--734526 Score: 137
Period size: 45 Copynumber: 2.7 Consensus size: 44
734399 GATCGCGTCT
* *
734409 AGTCTTATCTCCCTGAAGTTGTAGAGGAGCAGACTCAAGAAAGCA
1 AGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAAGAAA-CA
* * * * *
734454 AGTCTTATCGCCCTGAAATTGCAGTGGGGCAGACTAAATAAACA
1 AGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAAGAAACA
* * *
734498 AATCTCATCTCCCTAAAGTTGTAGTGGAG
1 AGTCTTATCTCCCTGAAGTTGTAGTGGAG
734527 TGGATTAGAA
Statistics
Matches: 59, Mismatches: 14, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
44 24 0.41
45 35 0.59
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (44 bp):
AGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAAGAAACA
Found at i:735248 original size:22 final size:23
Alignment explanation
Indices: 735220--735264 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
735210 ATGTAATCTT
735220 AGATATGA-TATGCAATCTTAGA
1 AGATATGATTATGCAATCTTAGA
* *
735242 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGCAATCTTAGA
735265 GATTTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.38, C:0.07, G:0.18, T:0.38
Consensus pattern (23 bp):
AGATATGATTATGCAATCTTAGA
Found at i:735267 original size:22 final size:21
Alignment explanation
Indices: 735207--735267 Score: 72
Period size: 19 Copynumber: 2.9 Consensus size: 21
735197 GATCTTCAAG
735207 GATATGTAATCTT--AGATAT
1 GATATGTAATCTTAGAGATAT
*
735226 GATATGCAATCTTAGAAGATAT
1 GATATGTAATCTTAG-AGATAT
*
735248 GATTTTGTAATCTTAGAGAT
1 GA-TATGTAATCTTAGAGAT
735268 TTAATTTGTA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 12 0.34
22 12 0.34
23 11 0.31
ACGTcount: A:0.36, C:0.07, G:0.18, T:0.39
Consensus pattern (21 bp):
GATATGTAATCTTAGAGATAT
Found at i:737862 original size:17 final size:17
Alignment explanation
Indices: 737840--737876 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
737830 TTTTAAGCAA
737840 AATTTGATAAAAATAAT
1 AATTTGATAAAAATAAT
* *
737857 AATTTGATAACAATACT
1 AATTTGATAAAAATAAT
737874 AAT
1 AAT
737877 GTTTTTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.35
Consensus pattern (17 bp):
AATTTGATAAAAATAAT
Found at i:742342 original size:26 final size:26
Alignment explanation
Indices: 742313--742366 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
742303 GTTCCTTGAG
*
742313 TTAGTGAAAGATTCATTATTTGATCA
1 TTAGTGAAAGATTCATTATCTGATCA
742339 TTAGTGAAAGATTCATTATCTGATCA
1 TTAGTGAAAGATTCATTATCTGATCA
742365 TT
1 TT
742367 CTTATATGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.33, C:0.09, G:0.15, T:0.43
Consensus pattern (26 bp):
TTAGTGAAAGATTCATTATCTGATCA
Found at i:756874 original size:23 final size:23
Alignment explanation
Indices: 756848--756901 Score: 92
Period size: 23 Copynumber: 2.4 Consensus size: 23
756838 GTAATCCCAA
*
756848 CCTTCTCATTCAACAGATTTGAT
1 CCTTCTCATTCAACAAATTTGAT
756871 CCTTCTCATTCAACAAATTTGAT
1 CCTTCTCATTCAACAAATTTGAT
756894 CC-TCTCAT
1 CCTTCTCAT
756902 CGTTGACTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 6 0.20
23 24 0.80
ACGTcount: A:0.26, C:0.30, G:0.06, T:0.39
Consensus pattern (23 bp):
CCTTCTCATTCAACAAATTTGAT
Found at i:760144 original size:17 final size:17
Alignment explanation
Indices: 760122--760154 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
760112 CACTAACATT
*
760122 AAAATGCAACGACAATA
1 AAAATGCAACAACAATA
760139 AAAATGCAACAACAAT
1 AAAATGCAACAACAAT
760155 GTGCACTAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.61, C:0.18, G:0.09, T:0.12
Consensus pattern (17 bp):
AAAATGCAACAACAATA
Found at i:774389 original size:40 final size:40
Alignment explanation
Indices: 774334--774881 Score: 1078
Period size: 40 Copynumber: 13.7 Consensus size: 40
774324 GAGCATTGGA
774334 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
774374 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
774414 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
774454 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
774494 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
774534 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
774574 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
774614 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
774654 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
774694 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
774734 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
774774 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
774814 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
774854 ATATATCCGGGTTATGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
774882 ATGTGTTTGT
Statistics
Matches: 506, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 506 1.00
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:776557 original size:28 final size:28
Alignment explanation
Indices: 776526--776587 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
776516 TAAAACCTAG
776526 AAAACATGCGCAAAACTGTAACA-TTTGA
1 AAAACATGCGCAAAACTGTAA-ATTTTGA
* * *
776554 AAAATATGGGCAAAATTGTAAATTTTGA
1 AAAACATGCGCAAAACTGTAAATTTTGA
776582 AAAACA
1 AAAACA
776588 GGGAACACAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
27 1 0.03
28 28 0.97
ACGTcount: A:0.50, C:0.11, G:0.15, T:0.24
Consensus pattern (28 bp):
AAAACATGCGCAAAACTGTAAATTTTGA
Found at i:777000 original size:3 final size:3
Alignment explanation
Indices: 776992--777069 Score: 156
Period size: 3 Copynumber: 26.0 Consensus size: 3
776982 GTACTAATTC
776992 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
777040 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
777070 TACTTAGATT
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 75 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:777773 original size:15 final size:17
Alignment explanation
Indices: 777741--777781 Score: 59
Period size: 15 Copynumber: 2.5 Consensus size: 17
777731 AAAATACACC
777741 TTAAAAATACTCATATT
1 TTAAAAATACTCATATT
777758 TTAAAAATA-T-ATATT
1 TTAAAAATACTCATATT
*
777773 TAAAAAATA
1 TTAAAAATA
777782 ATAAATTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 13 0.57
16 1 0.04
17 9 0.39
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (17 bp):
TTAAAAATACTCATATT
Found at i:778513 original size:20 final size:20
Alignment explanation
Indices: 778488--778529 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
778478 TGCAAGTTTT
778488 AGGCTTTTTGGGCATTCTAA
1 AGGCTTTTTGGGCATTCTAA
778508 AGGCTTTTTGGGCATTCTAA
1 AGGCTTTTTGGGCATTCTAA
778528 AG
1 AG
778530 TATATAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.21, C:0.14, G:0.26, T:0.38
Consensus pattern (20 bp):
AGGCTTTTTGGGCATTCTAA
Found at i:781243 original size:21 final size:20
Alignment explanation
Indices: 781212--781264 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
781202 TGGAAAATAA
*
781212 TAAAATAAATAATTCATGAAGT
1 TAAAA-AAATAACTC-TGAAGT
* *
781234 TAAAAAAATAACTCTTAATT
1 TAAAAAAATAACTCTGAAGT
781254 TAAAAAAATAA
1 TAAAAAAATAA
781265 ACGTAATTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 15 0.54
21 8 0.29
22 5 0.18
ACGTcount: A:0.60, C:0.06, G:0.04, T:0.30
Consensus pattern (20 bp):
TAAAAAAATAACTCTGAAGT
Found at i:781271 original size:19 final size:20
Alignment explanation
Indices: 781233--781272 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
781223 ATTCATGAAG
* *
781233 TTAAAAAAATAACTCTTAAT
1 TTAAAAAAATAACACGTAAT
781253 TTAAAAAAATAA-ACGTAAT
1 TTAAAAAAATAACACGTAAT
781272 T
1 T
781273 ATCTAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.57, C:0.07, G:0.03, T:0.33
Consensus pattern (20 bp):
TTAAAAAAATAACACGTAAT
Found at i:782159 original size:153 final size:151
Alignment explanation
Indices: 781918--782602 Score: 920
Period size: 155 Copynumber: 4.5 Consensus size: 151
781908 TAATATAAAC
* * *
781918 TTTTCCCAGATTTTATTACTTTTAAAAAATATAATATTTTCTAATTTT-TTATTTTACATTATTT
1 TTTTCCCGGATTTTATTACTTTAAAAAAATATACTATTTTCTAATTTTATTATTTTACATTATTT
* * *
781982 TAATACATTATA-TTTTAAAGGTATTAATTTAGTTTGTTTTTTAAATAAA-TTAAAAAAATCTTT
66 TAGTACATTA-AGTTTGAAATGTATTAATTTA-TTTGTTTTTTAAATAAATTTAAAAAAATCTTT
782045 ATTTCGGCCCTTTGTTCGTATTT
129 ATTTCGGCCCTTTGTTCGTATTT
782068 TTTTCCCGGATTTTATTACTTTCAATAAAAATATACTATTTTCTAATTTTATTATTTTACATTAT
1 TTTTCCCGGATTTTATTACTTT-AA-AAAAATATACTATTTTCTAATTTTATTATTTTACATTAT
* * *
782133 TTTAGTACATCAAGTTTGAAATGTATTAATTTA-GTGTTTTTTTAAATAAATTTAAAAAAAAAAC
64 TTTAGTACATTAAGTTTGAAATGTATTAATTTATTTG-TTTTTTAAATAAATTT---AAAAAAAT
*
782197 CCTTATTTCGGCCCTTTGTTCGTATTT
125 CTTTATTTCGGCCCTTTGTTCGTATTT
* * * * *
782224 TTTTCTCCAGAGTTTATTACTTTAAAAAAATATATTATTTTCTTATTTTATTGTTTTACATTATT
1 TTTTC-CCGGATTTTATTACTTTAAAAAAATATACTATTTTCTAATTTTATTATTTTACATTATT
* * * * *
782289 TTAGTAAATTATGTTTGAAATATATTAATTTATTGTGTTTTATAAATAAATTTTTAAAAAAATCA
65 TTAGTACATTAAGTTTGAAATGTATTAATTTATT-TGTTTTTTAAATAAA--TTTAAAAAAATCT
*
782354 TTATTTCGGCCCTTTGTTAGTATTT
127 TTATTTCGGCCCTTTGTTCGTATTT
* *
782379 TTTCCCCGAATTTTATTACTTTTAAAAAAATA-A-TATTTTCTAATTTTATTATTTTACATTATT
1 TTTTCCCGGATTTTATTAC-TTTAAAAAAATATACTATTTTCTAATTTTATTATTTTACATTATT
* * *
782442 TTAGTACATTATGTTTGAAATGTATTAATTTA-CTGTTTTTTTAATAAATTTAAAAAAA-CTCTT
65 TTAGTACATTAAGTTTGAAATGTATTAATTTATTTGTTTTTTAAATAAATTTAAAAAAATCT-TT
*
782505 ATTTCGGCCCTTTATTCGTATTTT
129 ATTTCGGCCCTTTGTTCGTA-TTT
*
782529 TTTTCCTGGATTTTATTACTTTAAAAAAA-ATACTATTTTCTAATTTTATTATTTTACATTATTT
1 TTTTCCCGGATTTTATTACTTTAAAAAAATATACTATTTTCTAATTTTATTATTTTACATTATTT
782593 TAGTACATTA
66 TAGTACATTA
782603 TGTTACTTTA
Statistics
Matches: 475, Mismatches: 41, Indels: 38
0.86 0.07 0.07
Matches are distributed among these distances:
148 2 0.00
149 41 0.09
150 81 0.17
151 16 0.03
152 37 0.08
153 101 0.21
154 12 0.03
155 113 0.24
156 52 0.11
157 17 0.04
158 3 0.01
ACGTcount: A:0.32, C:0.09, G:0.07, T:0.52
Consensus pattern (151 bp):
TTTTCCCGGATTTTATTACTTTAAAAAAATATACTATTTTCTAATTTTATTATTTTACATTATTT
TAGTACATTAAGTTTGAAATGTATTAATTTATTTGTTTTTTAAATAAATTTAAAAAAATCTTTAT
TTCGGCCCTTTGTTCGTATTT
Found at i:782289 original size:155 final size:152
Alignment explanation
Indices: 781918--782602 Score: 931
Period size: 153 Copynumber: 4.5 Consensus size: 152
781908 TAATATAAAC
* *
781918 TTTTCCCAGATTTTATTACTTTTAAAAAATATAATATTTTCTAATTTT-TTATTTTACATTATTT
1 TTTTCCCAGATTTTATTACTTTAAAAAAATATACTATTTTCTAATTTTATTATTTTACATTATTT
* * * * * *
781982 TAATACATTATA-TTTTAAAGGTATTAATTTAGTTTGTTTTTTAAATAAA-TTAAAAAAATCTTT
66 TAGTACATTA-AGTTTGAAATGTATTAATTTAGTGTGTTTTTTAAATAAATTTAAAAAAACCCTT
782045 ATTTCGGCCCTTTGTTCGTATTT
130 ATTTCGGCCCTTTGTTCGTATTT
*
782068 TTTTCCCGGATTTTATTACTTTCAATAAAAATATACTATTTTCTAATTTTATTATTTTACATTAT
1 TTTTCCCAGATTTTATTACTTT-AA-AAAAATATACTATTTTCTAATTTTATTATTTTACATTAT
*
782133 TTTAGTACATCAAGTTTGAAATGTATTAATTTAGTGT-TTTTTTAAATAAATTTAAAAAAAAAAC
64 TTTAGTACATTAAGTTTGAAATGTATTAATTTAGTGTGTTTTTTAAATAAATTT---AAAAAAAC
782197 CCTTATTTCGGCCCTTTGTTCGTATTT
126 CCTTATTTCGGCCCTTTGTTCGTATTT
* * * *
782224 TTTTCTCCAGAGTTTATTACTTTAAAAAAATATATTATTTTCTTATTTTATTGTTTTACATTATT
1 TTTTC-CCAGATTTTATTACTTTAAAAAAATATACTATTTTCTAATTTTATTATTTTACATTATT
* * * * * * *
782289 TTAGTAAATTATGTTTGAAATATATTAATTTATTGTGTTTTATAAATAAATTTTTAAAAAAATCA
65 TTAGTACATTAAGTTTGAAATGTATTAATTTAGTGTGTTTTTTAAATAAA--TTTAAAAAAACCC
*
782354 TTATTTCGGCCCTTTGTTAGTA-TT
128 TTATTTCGGCCCTTTGTTCGTATTT
*
782378 TTTTCCCCGAATTTTATTACTTTTAAAAAAATA-A-TATTTTCTAATTTTATTATTTTACATTAT
1 TTTTCCCAG-ATTTTATTAC-TTTAAAAAAATATACTATTTTCTAATTTTATTATTTTACATTAT
* * *
782441 TTTAGTACATTATGTTTGAAATGTATTAATTTACTGT-TTTTTT-AATAAATTTAAAAAAACTCT
64 TTTAGTACATTAAGTTTGAAATGTATTAATTTAGTGTGTTTTTTAAATAAATTTAAAAAAACCCT
*
782504 TATTTCGGCCCTTTATTCGTATTTT
129 TATTTCGGCCCTTTGTTCGTA-TTT
**
782529 TTTTCCTGGATTTTATTACTTTAAAAAAA-ATACTATTTTCTAATTTTATTATTTTACATTATTT
1 TTTTCCCAGATTTTATTACTTTAAAAAAATATACTATTTTCTAATTTTATTATTTTACATTATTT
782593 TAGTACATTA
66 TAGTACATTA
782603 TGTTACTTTA
Statistics
Matches: 478, Mismatches: 39, Indels: 36
0.86 0.07 0.07
Matches are distributed among these distances:
148 1 0.00
149 41 0.09
150 72 0.15
151 16 0.03
152 42 0.09
153 110 0.23
154 17 0.04
155 109 0.23
156 52 0.11
157 15 0.03
158 3 0.01
ACGTcount: A:0.32, C:0.09, G:0.07, T:0.52
Consensus pattern (152 bp):
TTTTCCCAGATTTTATTACTTTAAAAAAATATACTATTTTCTAATTTTATTATTTTACATTATTT
TAGTACATTAAGTTTGAAATGTATTAATTTAGTGTGTTTTTTAAATAAATTTAAAAAAACCCTTA
TTTCGGCCCTTTGTTCGTATTT
Found at i:782676 original size:22 final size:20
Alignment explanation
Indices: 782635--782678 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
782625 TAATAAAAAA
*
782635 TAATATAATGTACATTATTT
1 TAATATAATGTAAATTATTT
782655 TAATATAATGTATTAATTATTT
1 TAATATAATGTA--AATTATTT
782677 TA
1 TA
782679 GTACATTATG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 12 0.57
22 9 0.43
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (20 bp):
TAATATAATGTAAATTATTT
Found at i:782860 original size:21 final size:21
Alignment explanation
Indices: 782834--782874 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
782824 ATAAAAAAAA
*
782834 TTATTTTATTT-TGATATTTTT
1 TTATTTT-TTTGTAATATTTTT
782855 TTATTTTTTTGTAATATTTT
1 TTATTTTTTTGTAATATTTT
782875 GGTAAAAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.20, C:0.00, G:0.05, T:0.76
Consensus pattern (21 bp):
TTATTTTTTTGTAATATTTTT
Found at i:783106 original size:41 final size:40
Alignment explanation
Indices: 783045--783125 Score: 117
Period size: 41 Copynumber: 2.0 Consensus size: 40
783035 ATTGGAGGGG
* *
783045 CATATAAAAGGAGAATAATTAGGGAGCATGAGAATTTTGTC
1 CATATAAAAGGAGAACAATTAGGG-GCAGGAGAATTTTGTC
* *
783086 CATATAAAAGGGGCACAATTAGGGGCAGGAGAATTTTGTC
1 CATATAAAAGGAGAACAATTAGGGGCAGGAGAATTTTGTC
783126 GGTTCGGGAT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
40 15 0.42
41 21 0.58
ACGTcount: A:0.38, C:0.10, G:0.27, T:0.25
Consensus pattern (40 bp):
CATATAAAAGGAGAACAATTAGGGGCAGGAGAATTTTGTC
Found at i:784763 original size:3 final size:3
Alignment explanation
Indices: 784749--784787 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
784739 TACTATGATT
* *
784749 TTA TTT TTA TTA TTA TTA TTA TTG TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
784788 CTACTATATA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:785941 original size:20 final size:21
Alignment explanation
Indices: 785918--785971 Score: 67
Period size: 20 Copynumber: 2.7 Consensus size: 21
785908 CCTGATTGAA
785918 TGATGCTTTAAAT-AATTGTT
1 TGATGCTTTAAATCAATTGTT
* *
785938 TGAT-ATTTAAATCGATTGTT
1 TGATGCTTTAAATCAATTGTT
*
785958 TGATGCTTTGAATC
1 TGATGCTTTAAATC
785972 TTTATGCTAC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 7 0.25
20 14 0.50
21 7 0.25
ACGTcount: A:0.28, C:0.07, G:0.17, T:0.48
Consensus pattern (21 bp):
TGATGCTTTAAATCAATTGTT
Found at i:788074 original size:44 final size:44
Alignment explanation
Indices: 787967--788082 Score: 130
Period size: 44 Copynumber: 2.6 Consensus size: 44
787957 TAATTTTGGA
*
787967 TAAA-AATAATTATATTAAGAATATTATTAAATTATATGTTATTT
1 TAAATAATAATTATATTAA-AATATAATTAAATTATATGTTATTT
* *
788011 TAATTTAATAATTATATTAAAATATAATTAAATTTTTAT-TT-TTAT
1 TAA-ATAATAATTATATTAAAATATAATTAAA-TTATATGTTATT-T
* *
788056 TAAATAATAATTCTATTAAAATTTAAT
1 TAAATAATAATTATATTAAAATATAAT
788083 AACAATAATC
Statistics
Matches: 62, Mismatches: 6, Indels: 8
0.82 0.08 0.11
Matches are distributed among these distances:
44 26 0.42
45 17 0.27
46 19 0.31
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.50
Consensus pattern (44 bp):
TAAATAATAATTATATTAAAATATAATTAAATTATATGTTATTT
Found at i:789827 original size:43 final size:44
Alignment explanation
Indices: 789774--789856 Score: 105
Period size: 43 Copynumber: 1.9 Consensus size: 44
789764 CAAAATTTTT
* * *
789774 GGGAGAAAAAAGAAAGGCTCAGTTGAATATTCTACAAATTGTGG
1 GGGAGAAAAAAGAAAGCCTCAATAGAATATTCTACAAATTGTGG
* * *
789818 GGGA-AAAAAATAAAGCCTCAATAGAGTATTCTACTAATT
1 GGGAGAAAAAAGAAAGCCTCAATAGAATATTCTACAAATT
789857 CCTGCGATTG
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
43 29 0.88
44 4 0.12
ACGTcount: A:0.43, C:0.11, G:0.22, T:0.24
Consensus pattern (44 bp):
GGGAGAAAAAAGAAAGCCTCAATAGAATATTCTACAAATTGTGG
Found at i:792367 original size:43 final size:44
Alignment explanation
Indices: 792293--792375 Score: 105
Period size: 43 Copynumber: 1.9 Consensus size: 44
792283 CAAAATTTTT
* * * *
792293 GGGAGAAAAATAAAAGGCTCAGTTGAATATTCTACAAATTGTGG
1 GGGAAAAAAATAAAAGCCTCAATAGAATATTCTACAAATTGTGG
* *
792337 GGGAAAAAAAT-AAAGCCTCAATAGAGTATTCTACTAATT
1 GGGAAAAAAATAAAAGCCTCAATAGAATATTCTACAAATT
792376 CCTGCGATGG
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
43 23 0.70
44 10 0.30
ACGTcount: A:0.43, C:0.11, G:0.20, T:0.25
Consensus pattern (44 bp):
GGGAAAAAAATAAAAGCCTCAATAGAATATTCTACAAATTGTGG
Found at i:795872 original size:2 final size:2
Alignment explanation
Indices: 795850--795892 Score: 59
Period size: 2 Copynumber: 21.5 Consensus size: 2
795840 TCATTGTATT
* * *
795850 TG TG AG TG TA TG TG TG CG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
795892 T
1 T
795893 CTATATATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.05, C:0.02, G:0.47, T:0.47
Consensus pattern (2 bp):
TG
Found at i:796766 original size:40 final size:40
Alignment explanation
Indices: 796711--796792 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
796701 AAACCTGATT
796711 CCAACACTTAAAACCCCGGCCACACAACAAAATATACAAG
1 CCAACACTTAAAACCCCGGCCACACAACAAAATATACAAG
796751 CCAACACTTAAAACCCCGGCCACACAACAAAATATACAAG
1 CCAACACTTAAAACCCCGGCCACACAACAAAATATACAAG
796791 CC
1 CC
796793 TACCTTTAAC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.46, C:0.37, G:0.07, T:0.10
Consensus pattern (40 bp):
CCAACACTTAAAACCCCGGCCACACAACAAAATATACAAG
Found at i:799848 original size:19 final size:18
Alignment explanation
Indices: 799824--799870 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 18
799814 AGAAGTTTTT
799824 AAAATTATTAAACAATTA
1 AAAATTATTAAACAATTA
* **
799842 CAAAATTAATAAATGATTA
1 -AAAATTATTAAACAATTA
799861 AAAATTATTA
1 AAAATTATTA
799871 CAAAAAATGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 9 0.38
19 15 0.62
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (18 bp):
AAAATTATTAAACAATTA
Found at i:799885 original size:102 final size:102
Alignment explanation
Indices: 799770--799975 Score: 403
Period size: 102 Copynumber: 2.0 Consensus size: 102
799760 AGGTGAAAAT
799770 AAAAAATGACTTTTAAGGACATTAGATTAAAAATTATATATAATAGAAGTTTTTAAAATTATTAA
1 AAAAAATGACTTTTAAGGACATTAGATTAAAAATTATATATAATAGAAGTTTTTAAAATTATTAA
799835 ACAATTACAAAATTAATAAATGATTAAAAATTATTAC
66 ACAATTACAAAATTAATAAATGATTAAAAATTATTAC
*
799872 AAAAAATGACTTTTAAGGACATTAGATTAAAAATTATATATAATAGAAGTTTTTAAAATTATTTA
1 AAAAAATGACTTTTAAGGACATTAGATTAAAAATTATATATAATAGAAGTTTTTAAAATTATTAA
799937 ACAATTACAAAATTAATAAATGATTAAAAATTATTAC
66 ACAATTACAAAATTAATAAATGATTAAAAATTATTAC
799974 AA
1 AA
799976 TTATATTTAT
Statistics
Matches: 103, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
102 103 1.00
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.35
Consensus pattern (102 bp):
AAAAAATGACTTTTAAGGACATTAGATTAAAAATTATATATAATAGAAGTTTTTAAAATTATTAA
ACAATTACAAAATTAATAAATGATTAAAAATTATTAC
Found at i:800484 original size:11 final size:12
Alignment explanation
Indices: 800454--800486 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
800444 TTCAGCTTGG
*
800454 ATGCTGGTCTGC
1 ATGCTGGTTTGC
800466 ATGCTGGTTTGC
1 ATGCTGGTTTGC
800478 A-GCTGGTTT
1 ATGCTGGTTT
800487 CCTGTTGCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 8 0.40
12 12 0.60
ACGTcount: A:0.09, C:0.18, G:0.33, T:0.39
Consensus pattern (12 bp):
ATGCTGGTTTGC
Found at i:803328 original size:18 final size:18
Alignment explanation
Indices: 803305--803347 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
803295 CAACCCAAGG
803305 GGAAGGGGAAAGGGAAGA
1 GGAAGGGGAAAGGGAAGA
*
803323 GGAAGGGGAAAGGGGAGA
1 GGAAGGGGAAAGGGAAGA
*
803341 AGAAGGG
1 GGAAGGG
803348 TAGCCAAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.42, C:0.00, G:0.58, T:0.00
Consensus pattern (18 bp):
GGAAGGGGAAAGGGAAGA
Found at i:803562 original size:28 final size:28
Alignment explanation
Indices: 803522--803577 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
803512 CTTTCTAAAC
803522 AGCCTTGCATTTGTTAACATTTTAGTTG
1 AGCCTTGCATTTGTTAACATTTTAGTTG
*
803550 AGCCTTGCGTTTGTTAACATTTTAGTTG
1 AGCCTTGCATTTGTTAACATTTTAGTTG
803578 CAATTTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.20, C:0.14, G:0.20, T:0.46
Consensus pattern (28 bp):
AGCCTTGCATTTGTTAACATTTTAGTTG
Found at i:806816 original size:4 final size:4
Alignment explanation
Indices: 806794--806827 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
806784 TTTCTCTTTT
* *
806794 CATC CTTC CATC CACC CATC CATC CATC CATC CA
1 CATC CATC CATC CATC CATC CATC CATC CATC CA
806828 AGTACATCCT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.24, C:0.53, G:0.00, T:0.24
Consensus pattern (4 bp):
CATC
Found at i:811635 original size:89 final size:89
Alignment explanation
Indices: 811484--811663 Score: 342
Period size: 89 Copynumber: 2.0 Consensus size: 89
811474 AACACAAAGA
*
811484 CTAAACTACTGGTTTTTGCTACAGTTAAATGTTTCATTTATGAGACTCAGTGATTCGCATTTGTT
1 CTAAACTACTGGTTTTTGCTACAGTTAAATGTTTCATTTATGAGACTCAGTGATTCGCATTTGTC
811549 GGATATCCATGTACAAAAAATCTT
66 GGATATCCATGTACAAAAAATCTT
*
811573 CTAAACTACTGGTTTTTGCTACAGTTAAATGTTTCATTTATGGGACTCAGTGATTCGCATTTGTC
1 CTAAACTACTGGTTTTTGCTACAGTTAAATGTTTCATTTATGAGACTCAGTGATTCGCATTTGTC
811638 GGATATCCATGTACAAAAAATCTT
66 GGATATCCATGTACAAAAAATCTT
811662 CT
1 CT
811664 GCATTGAGTA
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
89 89 1.00
ACGTcount: A:0.28, C:0.17, G:0.16, T:0.39
Consensus pattern (89 bp):
CTAAACTACTGGTTTTTGCTACAGTTAAATGTTTCATTTATGAGACTCAGTGATTCGCATTTGTC
GGATATCCATGTACAAAAAATCTT
Found at i:814032 original size:101 final size:101
Alignment explanation
Indices: 813857--814061 Score: 356
Period size: 101 Copynumber: 2.0 Consensus size: 101
813847 ATTTAACCAC
* *
813857 TTAATTATTCGAAATTTATCATTTAAATTATCTCTTTATTAACTTGCTAACAAATCTCAACATGA
1 TTAATTATTCAAAATTTATCACTTAAATTATCTCTTTATTAACTTGCTAACAAATCTCAACATGA
*
813922 GCTGTTTAATCACTATTCCTCATATATACTACTAAT
66 GCTGTTTAATCACTATTCATCATATATACTACTAAT
* *
813958 TTAATTATTCAAAATTTATCACTTAAATTATCTCTTTATTAATTTGCTAACGAATCTCAACATGA
1 TTAATTATTCAAAATTTATCACTTAAATTATCTCTTTATTAACTTGCTAACAAATCTCAACATGA
*
814023 GTTGTTTAATCACTATTCATCATATATACTACTAAT
66 GCTGTTTAATCACTATTCATCATATATACTACTAAT
814059 TTA
1 TTA
814062 TGAAAACTTA
Statistics
Matches: 98, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
101 98 1.00
ACGTcount: A:0.35, C:0.17, G:0.05, T:0.43
Consensus pattern (101 bp):
TTAATTATTCAAAATTTATCACTTAAATTATCTCTTTATTAACTTGCTAACAAATCTCAACATGA
GCTGTTTAATCACTATTCATCATATATACTACTAAT
Found at i:828540 original size:50 final size:49
Alignment explanation
Indices: 828364--828540 Score: 187
Period size: 50 Copynumber: 3.5 Consensus size: 49
828354 AATGGACAAT
* * * *
828364 GAGTTACTTAATGCACGAC-TTCATTTAAAGATGCAAACTTTAACTGACATGG-
1 GAGTTACATAATGCATGACATT-ATTT-ATGATGC-AAC-TTAACTAACA-GGA
* * *
828416 GAGTTACATAATGCATGACATAATTTATGATGTAATCTTAACTAACATGA
1 GAGTTACATAATGCATGACATTATTTATGATGCAA-CTTAACTAACAGGA
*
828466 GAGTTACATAATGCATGTCATTATTTATGATGCATACTTAACTAACAGGA
1 GAGTTACATAATGCATGACATTATTTATGATGCA-ACTTAACTAACAGGA
* *
828516 AAGTTACATAATGCATGACTTTATT
1 GAGTTACATAATGCATGACATTATT
828541 AAATGCAGAA
Statistics
Matches: 107, Mismatches: 14, Indels: 10
0.82 0.11 0.08
Matches are distributed among these distances:
49 1 0.01
50 77 0.72
51 7 0.07
52 21 0.20
53 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (49 bp):
GAGTTACATAATGCATGACATTATTTATGATGCAACTTAACTAACAGGA
Found at i:832094 original size:50 final size:49
Alignment explanation
Indices: 831918--832094 Score: 187
Period size: 50 Copynumber: 3.5 Consensus size: 49
831908 AATGGACAAT
* * * *
831918 GAGTTACTTAATGCACGAC-TTCATTTAAAGATGCAAACTTTAACTGACATGG-
1 GAGTTACATAATGCATGACATT-ATTT-ATGATGC-AAC-TTAACTAACA-GGA
* * *
831970 GAGTTACATAATGCATGACATAATTTATGATGTAATCTTAACTAACATGA
1 GAGTTACATAATGCATGACATTATTTATGATGCAA-CTTAACTAACAGGA
*
832020 GAGTTACATAATGCATGTCATTATTTATGATGCATACTTAACTAACAGGA
1 GAGTTACATAATGCATGACATTATTTATGATGCA-ACTTAACTAACAGGA
* *
832070 AAGTTACATAATGCATGACTTTATT
1 GAGTTACATAATGCATGACATTATT
832095 AAATGCAGAA
Statistics
Matches: 107, Mismatches: 14, Indels: 10
0.82 0.11 0.08
Matches are distributed among these distances:
49 1 0.01
50 77 0.72
51 7 0.07
52 21 0.20
53 1 0.01
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (49 bp):
GAGTTACATAATGCATGACATTATTTATGATGCAACTTAACTAACAGGA
Found at i:838011 original size:126 final size:126
Alignment explanation
Indices: 837840--838235 Score: 580
Period size: 126 Copynumber: 3.1 Consensus size: 126
837830 GGCCAAACAT
* * *
837840 GAACTACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTTCCATCAATTTTACTGATAGTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCATCAATTTTACTGACAGTGCATC
*
837905 TTGCTTGAAGCGTTTTTGACACCATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAG
66 CTGCTTGAAGCGTTTTTGACACCATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAG
* *
837966 GAACTACTGTAGAAAAAGAGAGTCTACGTGGGAGCTTTTTTCATCAATTTTACTGACAGTGCATC
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCATCAATTTTACTGACAGTGCATC
* * * *
838031 CTGCTTGAAGTGTTTTTGACACCATTTGTTTAGAACCTTCATCTCAAAATTATTTTTTCAG
66 CTGCTTGAAGCGTTTTTGACACCATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAG
* * ** *
838092 GATCTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTTAGT-AATTTTGTTGACACTGCAT
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCA-TCAATTTTACTGACAGTGCAT
** *
838156 CCTGCTTGAAGCGTTTTTTGACATTATCTT-TTCAGAACCGTCTTCTCAAAATTATTTTTTTAG
65 CCTGCTTGAAGCG-TTTTTGACACCAT-TTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAG
*
838219 GAACAACTGTAGAAAAA
1 GAACTACTGTAGAAAAA
838236 AAAACAAAAG
Statistics
Matches: 241, Mismatches: 26, Indels: 5
0.89 0.10 0.02
Matches are distributed among these distances:
126 183 0.76
127 56 0.23
128 2 0.01
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.37
Consensus pattern (126 bp):
GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCATCAATTTTACTGACAGTGCATC
CTGCTTGAAGCGTTTTTGACACCATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAG
Found at i:838348 original size:34 final size:34
Alignment explanation
Indices: 838305--838381 Score: 118
Period size: 34 Copynumber: 2.3 Consensus size: 34
838295 AAACACCAAA
838305 TTATTTAAAAAAACTAAACCATAATTTAATTAAT
1 TTATTTAAAAAAACTAAACCATAATTTAATTAAT
* ** *
838339 TTTTTTAAAAACCCTAAACCCTAATTTAATTAAT
1 TTATTTAAAAAAACTAAACCATAATTTAATTAAT
838373 TTATTTAAA
1 TTATTTAAA
838382 GCCCAAAAAC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.42
Consensus pattern (34 bp):
TTATTTAAAAAAACTAAACCATAATTTAATTAAT
Found at i:838402 original size:33 final size:34
Alignment explanation
Indices: 838305--838408 Score: 111
Period size: 34 Copynumber: 3.1 Consensus size: 34
838295 AAACACCAAA
** * *
838305 TTATTTAAAAAAACTAAACCATAATTTAATTAAT
1 TTATTTAAAAACCCAAAAACATAATTTAATTAAT
* * * *
838339 TTTTTTAAAAACCCTAAACCCTAATTTAATTAAT
1 TTATTTAAAAACCCAAAAACATAATTTAATTAAT
* *
838373 TTATTT-AAAGCCCAAAAACATAATTTAATTATT
1 TTATTTAAAAACCCAAAAACATAATTTAATTAAT
838406 TTA
1 TTA
838409 AAAAAAACCA
Statistics
Matches: 60, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
33 25 0.42
34 35 0.58
ACGTcount: A:0.46, C:0.12, G:0.01, T:0.40
Consensus pattern (34 bp):
TTATTTAAAAACCCAAAAACATAATTTAATTAAT
Found at i:838428 original size:33 final size:33
Alignment explanation
Indices: 838303--838428 Score: 100
Period size: 33 Copynumber: 3.9 Consensus size: 33
838293 CTAAACACCA
838303 AATTA-TTT-AAAAAAA-C-TAAACCATAATTT
1 AATTATTTTAAAAAAAACCATAAACCATAATTT
*** * *
838332 AATTAATTTTTTTAAAAACCCTAAACCCTAATTT
1 AATT-ATTTTAAAAAAAACCATAAACCATAATTT
* ** ** *
838366 AATTAATTTATTTAAAGCCCA-AAAACATAATTT
1 AATTATTTTA-AAAAAAACCATAAACCATAATTT
838399 AATTATTTTAAAAAAAACCATAAACCATAA
1 AATTATTTTAAAAAAAACCATAAACCATAA
838429 ACCATAAATC
Statistics
Matches: 74, Mismatches: 16, Indels: 10
0.74 0.16 0.10
Matches are distributed among these distances:
29 4 0.05
30 1 0.01
31 3 0.04
32 11 0.15
33 32 0.43
34 23 0.31
ACGTcount: A:0.51, C:0.13, G:0.01, T:0.35
Consensus pattern (33 bp):
AATTATTTTAAAAAAAACCATAAACCATAATTT
Found at i:838462 original size:7 final size:7
Alignment explanation
Indices: 838413--838445 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
838403 ATTTTAAAAA
838413 AAACCAT
1 AAACCAT
838420 AAACCAT
1 AAACCAT
838427 AAACCAT
1 AAACCAT
838434 AAATCC-T
1 AAA-CCAT
838441 AAACC
1 AAACC
838446 TACCTAAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
6 2 0.08
7 21 0.84
8 2 0.08
ACGTcount: A:0.55, C:0.30, G:0.00, T:0.15
Consensus pattern (7 bp):
AAACCAT
Found at i:838512 original size:15 final size:16
Alignment explanation
Indices: 838479--838526 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 16
838469 TTATTTTAAC
* *
838479 AAAACCCTAAATCTTA
1 AAAACCCTAAAACTAA
838495 AAAACCCTAAAAC-AA
1 AAAACCCTAAAACTAA
* *
838510 AAAACCTTAGAACTAA
1 AAAACCCTAAAACTAA
838526 A
1 A
838527 CATGCAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
15 12 0.44
16 15 0.56
ACGTcount: A:0.58, C:0.23, G:0.02, T:0.17
Consensus pattern (16 bp):
AAAACCCTAAAACTAA
Found at i:838727 original size:31 final size:30
Alignment explanation
Indices: 838691--838762 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 30
838681 GATTAAATCA
838691 AAATTAAAGTTTCA-A-GTATACATTTGAACC
1 AAATTAAAGTTTCACATGTATA-A-TTGAACC
* *
838721 ACAATTAGAGTTTCACATGTATAATTGCACC
1 A-AATTAAAGTTTCACATGTATAATTGAACC
838752 AAATTAAAGTT
1 AAATTAAAGTT
838763 CATGTAAACA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
30 10 0.28
31 19 0.53
32 2 0.06
33 5 0.14
ACGTcount: A:0.42, C:0.14, G:0.11, T:0.33
Consensus pattern (30 bp):
AAATTAAAGTTTCACATGTATAATTGAACC
Found at i:840113 original size:18 final size:17
Alignment explanation
Indices: 840080--840118 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
840070 TTTCATAAAT
840080 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
840098 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
840115 TGTG
1 TGTG
840119 GAAGGAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:840362 original size:23 final size:23
Alignment explanation
Indices: 840336--840410 Score: 114
Period size: 23 Copynumber: 3.3 Consensus size: 23
840326 ATGTTATTGC
*
840336 TCAGTGGTAGCTTCGGCTACATT
1 TCAGTGGTAGCTTCGGCTACATA
*
840359 TCAGTGGTAGCTACGGCTACATA
1 TCAGTGGTAGCTTCGGCTACATA
**
840382 TCAGTGGTAGCTTTAGCTACATA
1 TCAGTGGTAGCTTCGGCTACATA
840405 TCAGTG
1 TCAGTG
840411 TGGCACTTAT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (23 bp):
TCAGTGGTAGCTTCGGCTACATA
Found at i:841740 original size:28 final size:26
Alignment explanation
Indices: 841676--841740 Score: 69
Period size: 28 Copynumber: 2.5 Consensus size: 26
841666 AACGGTATAT
841676 AAAA-AATAATTCCAAAAAAAATTAA
1 AAAATAATAATTCCAAAAAAAATTAA
* * *
841701 AATATAAAAATTCTCTAAAAAAATTAAA
1 AAAATAATAATTC-CAAAAAAAATT-AA
*
841729 AAAATCATAATT
1 AAAATAATAATT
841741 TATTTTTTGA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
25 3 0.10
26 7 0.23
27 10 0.32
28 11 0.35
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (26 bp):
AAAATAATAATTCCAAAAAAAATTAA
Found at i:843700 original size:12 final size:12
Alignment explanation
Indices: 843675--843713 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
843665 ACTCGCTTCT
* *
843675 TTACTTACTCAC
1 TTACTTGCTTAC
*
843687 TTACTTGTTTAC
1 TTACTTGCTTAC
843699 TTACTTGCTTAC
1 TTACTTGCTTAC
843711 TTA
1 TTA
843714 AATAACTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:844039 original size:50 final size:50
Alignment explanation
Indices: 843969--844153 Score: 154
Period size: 50 Copynumber: 3.6 Consensus size: 50
843959 ACTACCAATG
* * ** * * **
843969 CCATATCCCAGATATGGTCTTACATGGGAGTTCTCATGTCGGTGCCCATG
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACA
* * **
844019 GCATGTCCCGGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACA
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACA
* * * * **
844069 CCATGTCCCAGACATAGTCTGACATGGGACTACTCATAATCTCAATGATGCCAATG
1 CCATGTCCCAGACATGGTCTTACATGGGAC--CTC-TCATCTC---GGTGCCAACA
844125 CCATGTCCCAGACATGGTCTTACATGGGA
1 CCATGTCCCAGACATGGTCTTACATGGGA
844154 TCTCATTCCC
Statistics
Matches: 105, Mismatches: 24, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
50 62 0.59
52 3 0.03
53 6 0.06
56 34 0.32
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.25
Consensus pattern (50 bp):
CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAACA
Found at i:846313 original size:23 final size:23
Alignment explanation
Indices: 846286--846330 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
846276 GCATCAGTAA
846286 AAAAAAGGCATGTTAATTAATCC
1 AAAAAAGGCATGTTAATTAATCC
*
846309 AAAAAAGGTATGTTAATTAATC
1 AAAAAAGGCATGTTAATTAATC
846331 AAAGGTCCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.49, C:0.09, G:0.13, T:0.29
Consensus pattern (23 bp):
AAAAAAGGCATGTTAATTAATCC
Found at i:851808 original size:8 final size:8
Alignment explanation
Indices: 851795--851820 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
851785 AATCCACTTG
851795 TTTAGTTC
1 TTTAGTTC
851803 TTTAGTTC
1 TTTAGTTC
851811 TTTAGTTC
1 TTTAGTTC
851819 TT
1 TT
851821 AAGGAGCACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.12, C:0.12, G:0.12, T:0.65
Consensus pattern (8 bp):
TTTAGTTC
Found at i:854598 original size:18 final size:18
Alignment explanation
Indices: 854577--854613 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
854567 ATTTTTCATT
854577 TTAAACTCAATTATTTAA
1 TTAAACTCAATTATTTAA
* *
854595 TTAAATTTAATTATTTAA
1 TTAAACTCAATTATTTAA
854613 T
1 T
854614 AGTCCCAACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.51
Consensus pattern (18 bp):
TTAAACTCAATTATTTAA
Found at i:856749 original size:20 final size:21
Alignment explanation
Indices: 856721--856771 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
856711 TTAGGCTTTA
* *
856721 TGGCACAACACAAG-TTGATG
1 TGGCTCAACACAAGACTGATG
* *
856741 TGGCTCAACACAGGACTGCTG
1 TGGCTCAACACAAGACTGATG
856762 TGGCTCAACA
1 TGGCTCAACA
856772 TAAGGCTGCG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 12 0.46
21 14 0.54
ACGTcount: A:0.29, C:0.25, G:0.25, T:0.20
Consensus pattern (21 bp):
TGGCTCAACACAAGACTGATG
Found at i:856780 original size:21 final size:21
Alignment explanation
Indices: 856739--856780 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
856729 CACAAGTTGA
*
856739 TGTGGCTCAACACAGGACTGC
1 TGTGGCTCAACAAAGGACTGC
856760 TGTGGCTCAACATAAGG-CTGC
1 TGTGGCTCAACA-AAGGACTGC
856781 GTGTTGCAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.24, C:0.26, G:0.29, T:0.21
Consensus pattern (21 bp):
TGTGGCTCAACAAAGGACTGC
Found at i:860189 original size:17 final size:17
Alignment explanation
Indices: 860167--860236 Score: 51
Period size: 17 Copynumber: 4.2 Consensus size: 17
860157 CAATTAGGGA
860167 TTAAATTGAAAAATGTG
1 TTAAATTGAAAAATGTG
860184 TTAAATTG-----TGTGG
1 TTAAATTGAAAAATGT-G
*
860197 TAAAATTTTGAAAAATGTG
1 TTAAA--TTGAAAAATGTG
* *
860216 TCAAATTGAAAACTGTG
1 TTAAATTGAAAAATGTG
860233 TTAA
1 TTAA
860237 TTTGTGAATA
Statistics
Matches: 41, Mismatches: 4, Indels: 16
0.67 0.07 0.26
Matches are distributed among these distances:
12 3 0.07
13 5 0.12
15 3 0.07
17 22 0.54
19 5 0.12
20 3 0.07
ACGTcount: A:0.41, C:0.03, G:0.19, T:0.37
Consensus pattern (17 bp):
TTAAATTGAAAAATGTG
Found at i:860580 original size:36 final size:36
Alignment explanation
Indices: 860533--860605 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
860523 CGTCGAGGTA
*
860533 AGTTCGTGTAATTAAATTGTGTAATTATTTGCTTTG
1 AGTTCGTGTAATTAAATTGTGTAATTATATGCTTTG
860569 AGTTCGTGTAATTAAATTGTGTAATTATATGCTTTG
1 AGTTCGTGTAATTAAATTGTGTAATTATATGCTTTG
860605 A
1 A
860606 TTGAATTAGA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.27, C:0.05, G:0.19, T:0.48
Consensus pattern (36 bp):
AGTTCGTGTAATTAAATTGTGTAATTATATGCTTTG
Found at i:860786 original size:25 final size:23
Alignment explanation
Indices: 860758--860843 Score: 68
Period size: 25 Copynumber: 3.5 Consensus size: 23
860748 CAATTCGTAT
860758 GAGCTTACCGATACTCAGCTCGCAA
1 GAGCTTACCGATA-TCAGCTCG-AA
*
860783 GAGCTTACC-ATTATTCAGCTCGGA
1 GAGCTTACCGA-TA-TCAGCTCGAA
*
860807 GAAGCTTACCGTTTAT-AGCTCGTAA
1 G-AGCTTACCG-ATATCAGCTCG-AA
*
860832 GAGCATACCGAT
1 GAGCTTACCGAT
860844 CTAGAGCTCG
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
23 1 0.02
24 17 0.34
25 30 0.60
26 2 0.04
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.26
Consensus pattern (23 bp):
GAGCTTACCGATATCAGCTCGAA
Found at i:862051 original size:37 final size:37
Alignment explanation
Indices: 861992--862113 Score: 174
Period size: 37 Copynumber: 3.3 Consensus size: 37
861982 TCGAACTGAA
*
861992 AACATGCCAAATGCTCATAAGAGCTAATCCAACCGAT
1 AACACGCCAAATGCTCATAAGAGCTAATCCAACCGAT
* * *
862029 AACACGCCAATTGCTCCA-AAGAGCTAGTCCAACCGAA
1 AACACGCCAAATGCT-CATAAGAGCTAATCCAACCGAT
**
862066 AACACGCCAAATGCTCATAAGAGCTAATCCTCCCGAT
1 AACACGCCAAATGCTCATAAGAGCTAATCCAACCGAT
862103 AACACGCCAAA
1 AACACGCCAAA
862114 ATAGGGAGTA
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
36 2 0.03
37 70 0.95
38 2 0.03
ACGTcount: A:0.39, C:0.31, G:0.14, T:0.16
Consensus pattern (37 bp):
AACACGCCAAATGCTCATAAGAGCTAATCCAACCGAT
Found at i:869847 original size:41 final size:41
Alignment explanation
Indices: 869789--869871 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
869779 AAAATCCATG
869789 GATAAGTCTACCCATGGTGAAGTAGGAATCGGCAAAGGAGT
1 GATAAGTCTACCCATGGTGAAGTAGGAATCGGCAAAGGAGT
*
869830 GATAAGTCTACCTATGGTGAAGTAGGAATCGGCAAAGGAGT
1 GATAAGTCTACCCATGGTGAAGTAGGAATCGGCAAAGGAGT
869871 G
1 G
869872 TAAAGGCCGT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.34, C:0.13, G:0.33, T:0.20
Consensus pattern (41 bp):
GATAAGTCTACCCATGGTGAAGTAGGAATCGGCAAAGGAGT
Found at i:876981 original size:27 final size:26
Alignment explanation
Indices: 876901--876989 Score: 67
Period size: 27 Copynumber: 3.4 Consensus size: 26
876891 TACGCACATC
* * *
876901 CTTTGCATAGACAATTCACACATAAAA
1 CTTTACATA-ACAGTTCATACATAAAA
* * *
876928 CTTTACATAATTAG-T-ATGCAT-ATA
1 CTTTACATAA-CAGTTCATACATAAAA
*
876952 CTTTGCATACACAGTTCATACATAAAA
1 CTTTACATA-ACAGTTCATACATAAAA
876979 CTTTACATAAC
1 CTTTACATAAC
876990 CAGTACGGAC
Statistics
Matches: 46, Mismatches: 11, Indels: 11
0.68 0.16 0.16
Matches are distributed among these distances:
24 12 0.26
25 6 0.13
26 9 0.20
27 19 0.41
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.33
Consensus pattern (26 bp):
CTTTACATAACAGTTCATACATAAAA
Found at i:877055 original size:102 final size:102
Alignment explanation
Indices: 876875--877174 Score: 386
Period size: 102 Copynumber: 2.9 Consensus size: 102
876865 GCACATATAG
* * *
876875 AACTTTACATAATTAGTACGCACATCCTTTGCATAGACAATTCACACATAAAACTTTACATAATT
1 AACTTTACATAATTAGTACGCACATACTTTGTATAGACAATTCACACATAGAACTTTACATAATT
* *
876940 AGTATGCATATACTTTGCATACACAGTTCATACATAA
66 AGTATGCACATACTTTGCATACATAGTTCATACATAA
** * * * *
876977 AACTTTACATAACCAGTACGGACATACTTTTTATAGACAATTCACATATAGAA-TGTCACATAAT
1 AACTTTACATAATTAGTACGCACATACTTTGTATAGACAATTCACACATAGAACT-TTACATAAT
* * * *
877041 TAGTATGCACATACTTTGCATAGATAATTCAAACATAG
65 TAGTATGCACATACTTTGCATACATAGTTCATACATAA
* * * * *
877079 AACTTTACATAATTAGTACGCACATACTTTGTATAGATAGTTCACGCATAGAACTTTACGTAATC
1 AACTTTACATAATTAGTACGCACATACTTTGTATAGACAATTCACACATAGAACTTTACATAATT
* *
877144 AGTATGCAGATACTTTGCATATATAGTTCAT
66 AGTATGCACATACTTTGCATACATAGTTCAT
877175 TGACCTTTCC
Statistics
Matches: 166, Mismatches: 30, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
101 1 0.01
102 164 0.99
103 1 0.01
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (102 bp):
AACTTTACATAATTAGTACGCACATACTTTGTATAGACAATTCACACATAGAACTTTACATAATT
AGTATGCACATACTTTGCATACATAGTTCATACATAA
Found at i:877134 original size:153 final size:153
Alignment explanation
Indices: 876866--877147 Score: 404
Period size: 153 Copynumber: 1.8 Consensus size: 153
876856 AGTGCTAGTG
* * *
876866 CACATATAGAACTTTACATAATTAGTACGCACATCCTTTGCATAGACAATTCACACATAAAACTT
1 CACATATAGAACTTCACATAATTAGTACGCACATACTTTGCATAGACAATTCAAACATAAAACTT
* * *
876931 TACATAATTAGTATGCATATACTTTGCATACACAGTTCATACATAAAACTTTACATAACCAGTAC
66 TACATAATTAGTACGCACATACTTTGCATACACAGTTCACACATAAAACTTTACATAACCAGTAC
876996 GGACATACTTTTTATAGACAATT
131 GGACATACTTTTTATAGACAATT
* * *
877019 CACATATAGAA-TGTCACATAATTAGTATGCACATACTTTGCATAGATAATTCAAACATAGAACT
1 CACATATAGAACT-TCACATAATTAGTACGCACATACTTTGCATAGACAATTCAAACATAAAACT
* * * * * * *
877083 TTACATAATTAGTACGCACATACTTTGTATAGATAGTTCACGCATAGAACTTTACGTAATCAGTA
65 TTACATAATTAGTACGCACATACTTTGCATACACAGTTCACACATAAAACTTTACATAACCAGTA
877148 TGCAGATACT
Statistics
Matches: 112, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
152 1 0.01
153 111 0.99
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (153 bp):
CACATATAGAACTTCACATAATTAGTACGCACATACTTTGCATAGACAATTCAAACATAAAACTT
TACATAATTAGTACGCACATACTTTGCATACACAGTTCACACATAAAACTTTACATAACCAGTAC
GGACATACTTTTTATAGACAATT
Found at i:877173 original size:51 final size:51
Alignment explanation
Indices: 876866--877164 Score: 339
Period size: 51 Copynumber: 5.9 Consensus size: 51
876856 AGTGCTAGTG
* *
876866 CACATATAGAACTTTACATAATTAGTACGCACATCCTTTGCATAGACAATT
1 CACACATAGAACTTTACATAATTAGTACGCACATACTTTGCATAGACAATT
* * * * *
876917 CACACATAAAACTTTACATAATTAGTATGCATATACTTTGCATACACAGTT
1 CACACATAGAACTTTACATAATTAGTACGCACATACTTTGCATAGACAATT
* * ** * **
876968 CATACATAAAACTTTACATAACCAGTACGGACATACTTTTTATAGACAATT
1 CACACATAGAACTTTACATAATTAGTACGCACATACTTTGCATAGACAATT
* * * *
877019 CACATATAGAA-TGTCACATAATTAGTATGCACATACTTTGCATAGATAATT
1 CACACATAGAACT-TTACATAATTAGTACGCACATACTTTGCATAGACAATT
* * * *
877070 CAAACATAGAACTTTACATAATTAGTACGCACATACTTTGTATAGATAGTT
1 CACACATAGAACTTTACATAATTAGTACGCACATACTTTGCATAGACAATT
* * * * *
877121 CACGCATAGAACTTTACGTAATCAGTATGCAGATACTTTGCATA
1 CACACATAGAACTTTACATAATTAGTACGCACATACTTTGCATA
877165 TATAGTTCAT
Statistics
Matches: 205, Mismatches: 41, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
50 1 0.00
51 203 0.99
52 1 0.00
ACGTcount: A:0.38, C:0.19, G:0.11, T:0.32
Consensus pattern (51 bp):
CACACATAGAACTTTACATAATTAGTACGCACATACTTTGCATAGACAATT
Found at i:882892 original size:11 final size:11
Alignment explanation
Indices: 882876--882908 Score: 66
Period size: 11 Copynumber: 3.0 Consensus size: 11
882866 CTTATTTATT
882876 TTATCTAATTC
1 TTATCTAATTC
882887 TTATCTAATTC
1 TTATCTAATTC
882898 TTATCTAATTC
1 TTATCTAATTC
882909 GAAAAAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.27, C:0.18, G:0.00, T:0.55
Consensus pattern (11 bp):
TTATCTAATTC
Found at i:885715 original size:28 final size:28
Alignment explanation
Indices: 885681--885735 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
885671 CCAGTGCCAT
*
885681 TTTGTTTTGATATTGCACTTCGGTGCAC
1 TTTGTTTAGATATTGCACTTCGGTGCAC
* *
885709 TTTGTTTAGTTATTGTACTTCGGTGCA
1 TTTGTTTAGATATTGCACTTCGGTGCA
885736 TCTATATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.15, C:0.15, G:0.22, T:0.49
Consensus pattern (28 bp):
TTTGTTTAGATATTGCACTTCGGTGCAC
Found at i:897430 original size:129 final size:129
Alignment explanation
Indices: 897161--897539 Score: 591
Period size: 129 Copynumber: 2.9 Consensus size: 129
897151 TATCGGCTTC
** * * * * *
897161 AATCTGCTTCCTTATGCTTGAAGATAGGATTCTCCATCTTCGATCTACTCCAG-TACTGCTTAGG
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCC-GCTACTACTTAGG
* * * *
897225 GAGACAAGATCTGTAA-TTTCCAACTTATTCCACTGCTGACCAAGGACATAGGACTTGTGGCTTA
65 GAGACAAGATCTGTAATTTTCCAACCTATTCCACTGCTGACCAAGGATATAGGAATTGTGACTTA
*
897289 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTACTTAAGG
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTACTTAGGG
*
897354 AGACAAGATCTGTAATTTTCCAACCTATTCCACTGCTGACCATGGATATAGGAATTGTGACTTA
66 AGACAAGATCTGTAATTTTCCAACCTATTCCACTGCTGACCAAGGATATAGGAATTGTGACTTA
897418 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTACTTAGGG
1 AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTACTTAGGG
* * *
897483 AGACAAGATCTATAATTTCCCAACCTATTCCACTGCTGACCAGGGATATAGGAATTG
66 AGACAAGATCTGTAATTTTCCAACCTATTCCACTGCTGACCAAGGATATAGGAATTG
897540 CAATCTTCAA
Statistics
Matches: 232, Mismatches: 17, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
127 1 0.00
128 70 0.30
129 161 0.69
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (129 bp):
AATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGCTCCGCTACTACTTAGGG
AGACAAGATCTGTAATTTTCCAACCTATTCCACTGCTGACCAAGGATATAGGAATTGTGACTTA
Found at i:897553 original size:44 final size:44
Alignment explanation
Indices: 897503--897754 Score: 414
Period size: 44 Copynumber: 5.7 Consensus size: 44
897493 TATAATTTCC
** ** *
897503 CAACCTATTCCACTGCTGACCAGGGATATAGGAATTGCAATCTT
1 CAACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTGCAATCTT
897547 CAACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTGCAATCTT
1 CAACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTGCAATCTT
* * *
897591 CAACCTATTCCATTGCTGGTCAGAGAGCTAGGACTTTCAATCTT
1 CAACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTGCAATCTT
897635 CAACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTGCAATCTT
1 CAACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTGCAATCTT
*
897679 AAACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTGCAATCTT
1 CAACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTGCAATCTT
*
897723 CAACCTATTCCACTGCTGGTCAGTGAGCTAGG
1 CAACCTATTCCACTGCTGGTCAGGGAGCTAGG
897755 TTTATGATTT
Statistics
Matches: 194, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 194 1.00
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (44 bp):
CAACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTGCAATCTT
Found at i:899027 original size:7 final size:7
Alignment explanation
Indices: 898992--899034 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
898982 TAAGCCTCTC
898992 CATTTTT
1 CATTTTT
*
898999 AATTTTT
1 CATTTTT
899006 CA-TTTT
1 CATTTTT
899012 CATTTTTT
1 CA-TTTTT
899020 CATTTTT
1 CATTTTT
899027 CATATTTT
1 CAT-TTTT
899035 TTCTGACTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
6 6 0.19
7 15 0.48
8 10 0.32
ACGTcount: A:0.19, C:0.12, G:0.00, T:0.70
Consensus pattern (7 bp):
CATTTTT
Found at i:903459 original size:33 final size:32
Alignment explanation
Indices: 903417--903568 Score: 107
Period size: 33 Copynumber: 4.5 Consensus size: 32
903407 ATATAAAGGG
903417 GGTTGCTAAGTGCTGATTCCCTGATTCATTGGT
1 GGTTGCTAAGTGCTGATTCCCTG-TTCATTGGT
* *
903450 GGTTGCTAAGTGCTGATTCCC---CCA-AGG-
1 GGTTGCTAAGTGCTGATTCCCTGTTCATTGGT
903477 GGTTGCTAAGTGCTGATTCCACTGTATCATTGAATGT
1 GGTTGCTAAGTGCTGATTCC-CTGT-TCATTG---GT
* * *
903514 GAAAGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGGT
1 ------GGTTGCTAAGTGCTGATTCCCTG-TTCATTGGT
903553 GGTTGCTAAGTGCTGA
1 GGTTGCTAAGTGCTGA
903569 ATCCACCGAT
Statistics
Matches: 95, Mismatches: 7, Indels: 34
0.70 0.05 0.25
Matches are distributed among these distances:
27 20 0.21
28 3 0.03
29 2 0.02
32 2 0.02
33 38 0.40
36 1 0.01
39 2 0.02
42 7 0.07
43 20 0.21
ACGTcount: A:0.20, C:0.19, G:0.29, T:0.32
Consensus pattern (32 bp):
GGTTGCTAAGTGCTGATTCCCTGTTCATTGGT
Found at i:908082 original size:17 final size:17
Alignment explanation
Indices: 908060--908093 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
908050 TCTTACAAAT
908060 TTAATTATTCATAAGTA
1 TTAATTATTCATAAGTA
908077 TTAATTATTCATAAGTA
1 TTAATTATTCATAAGTA
908094 CTATTCAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (17 bp):
TTAATTATTCATAAGTA
Found at i:913453 original size:19 final size:20
Alignment explanation
Indices: 913429--913467 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
913419 GAAACTCGAA
*
913429 TTCAGCTCCAT-GAGCTCGT
1 TTCAGCTCAATCGAGCTCGT
913448 TTCAGCTCAATCGAGCTCGT
1 TTCAGCTCAATCGAGCTCGT
913468 CTTTAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.18, C:0.31, G:0.21, T:0.31
Consensus pattern (20 bp):
TTCAGCTCAATCGAGCTCGT
Found at i:923592 original size:95 final size:95
Alignment explanation
Indices: 923429--923617 Score: 308
Period size: 95 Copynumber: 2.0 Consensus size: 95
923419 GGAACATATG
923429 TTTGATTGTATGAGCATTTGTAACATGGAAATATGATGATGTTATAATTAGTGTGTAAATGAATG
1 TTTGATTGTATGAGCATTTGTAACATGGAAATATGATGATGTTATAATTAGTGTGTAAATGAATG
*
923494 CGTGATTTGGTATGTTTTGATTACACTTAC
66 CGTGATTTGGTATGTGTTGATTACACTTAC
* * * *
923524 TTTGATTGTGTGAGCA-TTGTAGCATGGGAATATGGTCGATGTTATAATTAGTGTGTAAATGAAT
1 TTTGATTGTATGAGCATTTGTAACATGGAAATATGAT-GATGTTATAATTAGTGTGTAAATGAAT
*
923588 GCGTGATTTGGTATGTGTTGGTTACACTTA
65 GCGTGATTTGGTATGTGTTGATTACACTTA
923618 TTGTACACTA
Statistics
Matches: 87, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
94 17 0.20
95 70 0.80
ACGTcount: A:0.27, C:0.06, G:0.25, T:0.41
Consensus pattern (95 bp):
TTTGATTGTATGAGCATTTGTAACATGGAAATATGATGATGTTATAATTAGTGTGTAAATGAATG
CGTGATTTGGTATGTGTTGATTACACTTAC
Found at i:930903 original size:50 final size:51
Alignment explanation
Indices: 930805--930912 Score: 148
Period size: 50 Copynumber: 2.1 Consensus size: 51
930795 CTCCAAAACG
* * *
930805 AAAATGAAAATGGAGAAATGAAATCATTTAGAAATGAATGTGGTTTTCTCC
1 AAAATGAAAATGGAGAAATGAAATCATTTAGAAATGAATATGGATTTCTCA
* *
930856 AAAATGAAAAT-GATAAATGAATTCATTTAGAAATGAATAAT-GATTTCTCA
1 AAAATGAAAATGGAGAAATGAAATCATTTAGAAATGAAT-ATGGATTTCTCA
930906 AAAATGA
1 AAAATGA
930913 TCGTAAGACT
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
50 39 0.76
51 12 0.24
ACGTcount: A:0.48, C:0.06, G:0.16, T:0.30
Consensus pattern (51 bp):
AAAATGAAAATGGAGAAATGAAATCATTTAGAAATGAATATGGATTTCTCA
Found at i:959419 original size:12 final size:13
Alignment explanation
Indices: 959384--959417 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
959374 CTAAATTTAA
959384 ATAAAATAATTATT
1 ATAAAA-AATTATT
*
959398 TTAAAAAATTATT
1 ATAAAAAATTATT
959411 ATAAAAA
1 ATAAAAA
959418 TTTAGTGTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
13 13 0.72
14 5 0.28
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
ATAAAAAATTATT
Found at i:960532 original size:12 final size:12
Alignment explanation
Indices: 960515--960541 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
960505 TAATAACCAG
960515 AATAAAGCTAAA
1 AATAAAGCTAAA
960527 AATAAAGCTAAA
1 AATAAAGCTAAA
960539 AAT
1 AAT
960542 GCTTGTGCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.67, C:0.07, G:0.07, T:0.19
Consensus pattern (12 bp):
AATAAAGCTAAA
Found at i:974617 original size:21 final size:21
Alignment explanation
Indices: 974588--974630 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
974578 AAAGTAGAAC
* * *
974588 AGGTTTTTAGCGGCGTTTTTT
1 AGGTCTTTAGCGGAGCTTTTT
974609 AGGTCTTTAGCGGAGCTTTTT
1 AGGTCTTTAGCGGAGCTTTTT
974630 A
1 A
974631 ACGCCACTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.14, C:0.12, G:0.28, T:0.47
Consensus pattern (21 bp):
AGGTCTTTAGCGGAGCTTTTT
Found at i:974776 original size:42 final size:42
Alignment explanation
Indices: 974701--974868 Score: 246
Period size: 42 Copynumber: 4.0 Consensus size: 42
974691 ACATCACTAA
* *
974701 CTTTTGCGGCGCTTACATAAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTT--AGAAAAAAACGCCGCTAAAGATCATGTT
* *
974745 CTTTAGCGGCGCTTAGAAAAAAACGCTGCTAAAGATCATGCT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
*
974787 CTTTAGCGGCGCTTAGGAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
* * *
974829 CTTTAGCGACGCTTAGGAAAAAACGCCGCTAAAGAACATG
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATG
974869 GAAGAAAACG
Statistics
Matches: 115, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
42 102 0.89
44 13 0.11
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.23
Consensus pattern (42 bp):
CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
Found at i:974886 original size:67 final size:66
Alignment explanation
Indices: 974802--974928 Score: 166
Period size: 67 Copynumber: 1.9 Consensus size: 66
974792 GCGGCGCTTA
* *
974802 GGAAAAAACGCCGCT-AAAGATCATGTTCTTTAGCGACGCTTAGGAAAAAACGCCGCTAAAGAAC
1 GGAAAAAACGCCGCTAAAAG-TAATGTTCTATAGCGACGCTTAGGAAAAAACGCCGCTAAAGAAC
974866 AT
65 AT
* * ***
974868 GGAAGAAAACGCCTCTAAAAGTAATGTTCTATAGCGGCGCTTATTCAAAAACGCCGCTAAA
1 GGAA-AAAACGCCGCTAAAAGTAATGTTCTATAGCGACGCTTAGGAAAAAACGCCGCTAAA
974929 AGTAGTGTTC
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
66 4 0.08
67 44 0.85
68 4 0.08
ACGTcount: A:0.39, C:0.21, G:0.20, T:0.20
Consensus pattern (66 bp):
GGAAAAAACGCCGCTAAAAGTAATGTTCTATAGCGACGCTTAGGAAAAAACGCCGCTAAAGAACA
T
Found at i:974932 original size:42 final size:43
Alignment explanation
Indices: 974873--974965 Score: 143
Period size: 42 Copynumber: 2.2 Consensus size: 43
974863 AACATGGAAG
*
974873 AAAACGCCTCTAAAAGTAATGTTCTATAGCGGCGCTTA-TTCA
1 AAAACGCCGCTAAAAGTAATGTTCTATAGCGGCGCTTATTTCA
* *
974915 AAAACGCCGCTAAAAGTAGTGTTCTTTAGCGGCGCTTATTTCA
1 AAAACGCCGCTAAAAGTAATGTTCTATAGCGGCGCTTATTTCA
*
974958 CAAACGCC
1 AAAACGCC
974966 ACTGTTTTGA
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
42 35 0.76
43 11 0.24
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (43 bp):
AAAACGCCGCTAAAAGTAATGTTCTATAGCGGCGCTTATTTCA
Found at i:975389 original size:12 final size:12
Alignment explanation
Indices: 975372--975432 Score: 65
Period size: 12 Copynumber: 5.3 Consensus size: 12
975362 TTTTGAACCT
975372 CTGCTTCTCTCG
1 CTGCTTCTCTCG
*
975384 CTGCTTCTTTCG
1 CTGCTTCTCTCG
**
975396 CTGCGGC-CT--
1 CTGCTTCTCTCG
975405 CTGCTTCTCTCG
1 CTGCTTCTCTCG
*
975417 CTGCTTCTCTTG
1 CTGCTTCTCTCG
975429 CTGC
1 CTGC
975433 GACCTCTGTT
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
9 5 0.13
10 2 0.05
11 1 0.03
12 31 0.79
ACGTcount: A:0.00, C:0.39, G:0.20, T:0.41
Consensus pattern (12 bp):
CTGCTTCTCTCG
Found at i:975407 original size:33 final size:33
Alignment explanation
Indices: 975368--975451 Score: 136
Period size: 33 Copynumber: 2.6 Consensus size: 33
975358 TTTCTTTTGA
975368 ACCTCTGCTTCTCTCGCTGCTTCT-TTCGCTGCG
1 ACCTCTGCTTCTCTCGCTGCTTCTCTT-GCTGCG
*
975401 GCCTCTGCTTCTCTCGCTGCTTCTCTTGCTGCG
1 ACCTCTGCTTCTCTCGCTGCTTCTCTTGCTGCG
975434 ACCTCTG-TTCTCTCGCTG
1 ACCTCTGCTTCTCTCGCTG
975452 TAGCCGCTGC
Statistics
Matches: 48, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
32 11 0.23
33 35 0.73
34 2 0.04
ACGTcount: A:0.02, C:0.39, G:0.19, T:0.39
Consensus pattern (33 bp):
ACCTCTGCTTCTCTCGCTGCTTCTCTTGCTGCG
Found at i:980398 original size:9 final size:9
Alignment explanation
Indices: 980384--980625 Score: 188
Period size: 9 Copynumber: 26.9 Consensus size: 9
980374 TACTACATCA
*
980384 TTATGTGAG
1 TTATGTAAG
980393 TTATGTAAG
1 TTATGTAAG
* *
980402 TTATTTAAT
1 TTATGTAAG
*
980411 TTACT-TAAT
1 TTA-TGTAAG
980420 TTATGTAAG
1 TTATGTAAG
980429 TTATGTAAG
1 TTATGTAAG
* * *
980438 ATATTTAAT
1 TTATGTAAG
980447 TTATGTAAG
1 TTATGTAAG
980456 TTATGTAAG
1 TTATGTAAG
* *
980465 TTATTTAAT
1 TTATGTAAG
*
980474 TTACT-TAAT
1 TTA-TGTAAG
980483 TTATGTAAG
1 TTATGTAAG
* *
980492 TTATTTAAT
1 TTATGTAAG
*
980501 TTACT-TAAT
1 TTA-TGTAAG
980510 TTATGTAAG
1 TTATGTAAG
* *
980519 TTATTTAAT
1 TTATGTAAG
*
980528 TTACT-TAAT
1 TTA-TGTAAG
980537 TTATGTAAG
1 TTATGTAAG
*
980546 TTATGCAAG
1 TTATGTAAG
* * *
980555 ATATTTAAT
1 TTATGTAAG
980564 TTATGTAAG
1 TTATGTAAG
980573 TTATGTAAG
1 TTATGTAAG
*
980582 TTACT-TAAT
1 TTA-TGTAAG
980591 TTATGTAAG
1 TTATGTAAG
* *
980600 TTATTTAAT
1 TTATGTAAG
*
980609 TTTTGTAAG
1 TTATGTAAG
980618 TTATGTAA
1 TTATGTAA
980626 TTAACCAAAT
Statistics
Matches: 188, Mismatches: 35, Indels: 20
0.77 0.14 0.08
Matches are distributed among these distances:
8 5 0.03
9 178 0.95
10 5 0.03
ACGTcount: A:0.33, C:0.02, G:0.12, T:0.52
Consensus pattern (9 bp):
TTATGTAAG
Found at i:980431 original size:27 final size:27
Alignment explanation
Indices: 980415--980610 Score: 270
Period size: 27 Copynumber: 7.3 Consensus size: 27
980405 TTTAATTTAC
* *
980415 TTAATTTA-TGTAAGTTATGTAAGATAT
1 TTAATTTACT-TAATTTATGTAAGTTAT
*
980442 TTAATTTA-TGTAAGTTATGTAAGTTAT
1 TTAATTTACT-TAATTTATGTAAGTTAT
980469 TTAATTTACTTAATTTATGTAAGTTAT
1 TTAATTTACTTAATTTATGTAAGTTAT
980496 TTAATTTACTTAATTTATGTAAGTTAT
1 TTAATTTACTTAATTTATGTAAGTTAT
980523 TTAATTTACTTAATTTATGTAAGTTAT
1 TTAATTTACTTAATTTATGTAAGTTAT
** ** *
980550 GCAAGATATTTAATTTATGTAAGTTAT
1 TTAATTTACTTAATTTATGTAAGTTAT
* *
980577 GTAAGTTACTTAATTTATGTAAGTTAT
1 TTAATTTACTTAATTTATGTAAGTTAT
980604 TTAATTT
1 TTAATTT
980611 TTGTAAGTTA
Statistics
Matches: 156, Mismatches: 12, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
27 155 0.99
28 1 0.01
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.52
Consensus pattern (27 bp):
TTAATTTACTTAATTTATGTAAGTTAT
Found at i:980456 original size:54 final size:54
Alignment explanation
Indices: 980393--980603 Score: 278
Period size: 54 Copynumber: 3.7 Consensus size: 54
980383 ATTATGTGAG
980393 TTATGTAAGTTATTTAATTTACTTAATTTATGTAAGTTATGTAAGATATTTAATTTATGT
1 TTATGTAAGTTATTTAATTTACTTAATTTATGTAAGTTATGTAAGATATTT-A---A--T
* ** *
980453 AAGTTATGTAAGTTATTTAATTTACTTAATTTATGTAAGTTATTTAATTTACTTAAT
1 ---TTATGTAAGTTATTTAATTTACTTAATTTATGTAAGTTATGTAAGATATTTAAT
*
980510 TTATGTAAGTTATTTAATTTACTTAATTTATGTAAGTTATGCAAGATATTTAAT
1 TTATGTAAGTTATTTAATTTACTTAATTTATGTAAGTTATGTAAGATATTTAAT
* *
980564 TTATGTAAGTTATGTAAGTTACTTAATTTATGTAAGTTAT
1 TTATGTAAGTTATTTAATTTACTTAATTTATGTAAGTTAT
980604 TTAATTTTTG
Statistics
Matches: 137, Mismatches: 11, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
54 87 0.64
57 1 0.01
59 1 0.01
62 1 0.01
63 47 0.34
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.52
Consensus pattern (54 bp):
TTATGTAAGTTATTTAATTTACTTAATTTATGTAAGTTATGTAAGATATTTAAT
Found at i:982053 original size:21 final size:22
Alignment explanation
Indices: 982035--982082 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 22
982025 TGTAAATTTT
982035 ATAAGCACCAACTGGAATTTGTAA
1 ATAAG-ACCAACTGGAATTTGT-A
*
982059 ATTAGACCAACTGGAATTTGTA
1 ATAAGACCAACTGGAATTTGTA
982081 AT
1 AT
982083 TTCTAATTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 3 0.13
23 16 0.70
24 4 0.17
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.29
Consensus pattern (22 bp):
ATAAGACCAACTGGAATTTGTA
Found at i:988615 original size:74 final size:73
Alignment explanation
Indices: 988461--989307 Score: 1012
Period size: 74 Copynumber: 11.4 Consensus size: 73
988451 ATTAAAAAGT
* ** * * * *
988461 TCAACCCACCTCTCGCAATATGAGTTGATTTTTG-AAAGTAGAATTTGAAAATACCTCGGCGTGC
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAATTACCTCAGCGTGT
*
988525 CCCGAGGC
66 CCTGAGGC
988533 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAACAGAAATTGAAATTACCTCAGCGTG
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAAACAGAAATTGAAATTACCTCAGCGTG
988598 TCCTGAGGC
65 TCCTGAGGC
* * **
988607 TCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAAGCAGAAATTGAAAATACCTCAATGT
1 TCAACTCACCTCTCGCAATATGAGTTGA-TTT-TTGAAAAACAGAAATTGAAATTACCTCAGCGT
*
988672 GTCTTGAGGC
64 GTCCTGAGGC
* *
988682 TCAACTCACCTCTCACAATATGAGTTGATTTTTTTG-ACAACAGAAATTGAAATTACCTCAGCGT
1 TCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTGAAATTACCTCAGCGT
988746 GTCCTGAGGC
64 GTCCTGAGGC
*
988756 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTGAACAGGAATTGAAAATA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAC----A--G---A--AATTGAAATTA
* *
988821 CCTCAACGTGTCTTGAGGC
55 CCTCAGCGTGTCCTGAGGC
* * **
988840 TCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAAGCAGAAATTGAAAATACCTCAATGT
1 TCAACTCACCTCTCGCAATATGAGTTGA-TTT-TTGAAAAACAGAAATTGAAATTACCTCAGCGT
*
988905 GTCTTGAGGC
64 GTCCTGAGGC
*
988915 TCAACTCACCTCTCGCAATATGAATTGATTTTTTTG-AAAACAGAAATTGAAATTACCTCAGCGT
1 TCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTGAAATTACCTCAGCGT
988979 GTCCTGAGGC
64 GTCCTGAGGC
**
988989 TCAACTCATTTCTCGCAATATGAGTTGATTTTTTTG-AAAACAGAAATTGAAATTACCTCAGCGT
1 TCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTGAAATTACCTCAGCGT
989053 GTCCTGAGGC
64 GTCCTGAGGC
** *
989063 TCAACTCATTTCTCGCAATATGAGTTGATTTTTTTG-ACAACAGAAATTGAAATTACCTCAGCGT
1 TCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAAACAGAAATTGAAATTACCTCAGCGT
989127 GTCCTGAGGC
64 GTCCTGAGGC
* *
989137 TCAACTCACCTCTAGCAATATGAGTTGA-TTTTGAAAAACAAAAATTGAAATTACCTCAGCGTGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAATTACCTCAGCGTGT
989201 CCTGAGGC
66 CCTGAGGC
** * * * * * * * * *
989209 TCAACTCATTTCTCGCAATATGAG-TCA-ATTT--AAAACATAAACTAAAAATACCTCGGTGTGC
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAATTACCTCAGCGTGT
*
989270 CCCGAGGC
66 CCTGAGGC
*
989278 TCAACTCACTTCTCGCAATATGAGTTGATT
1 TCAACTCACCTCTCGCAATATGAGTTGATT
989308 AAAAATACCT
Statistics
Matches: 694, Mismatches: 58, Indels: 47
0.87 0.07 0.06
Matches are distributed among these distances:
69 53 0.08
70 2 0.00
71 10 0.01
72 96 0.14
73 4 0.01
74 320 0.46
75 126 0.18
76 11 0.02
77 2 0.00
79 1 0.00
80 1 0.00
82 2 0.00
84 55 0.08
85 3 0.00
86 8 0.01
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (73 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAATTACCTCAGCGTGT
CCTGAGGC
Found at i:988728 original size:149 final size:148
Alignment explanation
Indices: 988461--989307 Score: 1063
Period size: 149 Copynumber: 5.7 Consensus size: 148
988451 ATTAAAAAGT
* * * *
988461 TCAACCCACCTCTCGCAATATGAGTTGA-TTTTTG-AAAGTAGAATTTGAAAATACCTCGGCGTG
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAGCAGAAATTGAAAATACCTCAGCGTG
* * ***
988524 CCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAACAGAAATTGAAATTAC
66 TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAATTAC
988589 CTCAGCGTGTCCTGAGGC
131 CTCAGCGTGTCCTGAGGC
**
988607 TCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAAGCAGAAATTGAAAATACCTCAATGT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTT-TTGAAAAGCAGAAATTGAAAATACCTCAGCGT
* * *
988672 GTCTTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGACAACAGAAATTGAAATTA
65 GTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAATTA
988737 CCTCAGCGTGTCCTGAGGC
130 CCTCAGCGTGTCCTGAGGC
*
988756 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAACATAAATTGAACAGGAATTGAAAAT
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTG------A-AAA--G--CAGAAATTGAAAAT
* * *
988820 ACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAAGCAGA
55 ACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAA-CAGA
* ** *
988885 AATTGAAAATACCTCAATGTGTCTTGAGGC
119 AATTGAAATTACCTCAGCGTGTCCTGAGGC
* *
988915 TCAACTCACCTCTCGCAATATGAATTGATTTTTTTGAAAA-CAGAAATTGAAATTACCTCAGCGT
1 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAGCAGAAATTGAAAATACCTCAGCGT
**
988979 GTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAATTA
65 GTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAATTA
989044 CCTCAGCGTGTCCTGAGGC
130 CCTCAGCGTGTCCTGAGGC
** * *
989063 TCAACTCATTTCTCGCAATATGAGTTGATTTTTTTGACAA-CAGAAATTGAAATTACCTCAGCGT
1 TCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAAGCAGAAATTGAAAATACCTCAGCGT
* *
989127 GTCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGA---TTTTGAAAAACAAAAATTGAAATT
65 GTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AAAACAGAAATTGAAATT
989189 ACCTCAGCGTGTCCTGAGGC
129 ACCTCAGCGTGTCCTGAGGC
** * * * * * * *
989209 TCAACTCATTTCTCGCAATATGAG-TCA--ATTT-AAAA-CATAAACTAAAAATACCTCGGTGTG
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAGCAGAAATTGAAAATACCTCAGCGTG
* * *
989269 CCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATT
66 TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
989308 AAAAATACCT
Statistics
Matches: 625, Mismatches: 56, Indels: 43
0.86 0.08 0.06
Matches are distributed among these distances:
141 55 0.09
142 3 0.00
145 7 0.01
146 88 0.14
147 6 0.01
148 131 0.21
149 194 0.31
153 1 0.00
154 6 0.01
155 1 0.00
156 1 0.00
158 69 0.11
159 57 0.09
161 6 0.01
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (148 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAGCAGAAATTGAAAATACCTCAGCGTG
TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAATTAC
CTCAGCGTGTCCTGAGGC
Found at i:988886 original size:233 final size:222
Alignment explanation
Indices: 988461--989307 Score: 1104
Period size: 233 Copynumber: 3.8 Consensus size: 222
988451 ATTAAAAAGT
* * ** * * * *
988461 TCAACCCACCTCTCGCAATATGAGTTGATTTTTGAAAGTAGAATTTGAAAATACCTCGGCGTGCC
1 TCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTC
*
988526 CCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA-AAAAACAGAAATTGAAATTACC
66 CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGATAAAAACAGAAATTGAAATTACC
988590 TCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAAGCAGAAAT
131 TCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAAGCAGAAAT
988655 TGAAAATACCTCAATGTGTCTTGAGGC
196 TGAAAATACCTCAATGTGTCTTGAGGC
*
988682 TCAACTCACCTCTCACAATATGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTG
1 TCAACTCACCTCTCACAATATGAGTTGA--TTTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
*
988747 TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTGAACAGGAA
64 TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG------ATAAA---AACAGAAA
* * *
988812 TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGA
120 TTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGA
988877 AAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGC
185 AAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGC
* *
988915 TCAACTCACCTCTCGCAATATGAATTGATTTTTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
1 TCAACTCACCTCTCACAATATGAGTTGA--TTTTTGAAAACAGAAATTGAAATTACCTCAGCGTG
** * *
988980 TCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTT-TTGAAAACAGAAATTGAAATTA
64 TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGATAAAAACAGAAATTGAAATTA
** * *
989044 CCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTGACAA-CAGAA
129 CCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAAGCAGAA
* ** *
989108 ATTGAAATTACCTCAGCGTGTCCTGAGGC
194 ATTGAAAATACCTCAATGTGTCTTGAGGC
*
989137 TCAACTCACCTCT-AGCAATATGAGTTGA-TTTTGAAAAACAAAAATTGAAATTACCTCAGCGTG
1 TCAACTCACCTCTCA-CAATATGAGTTGATTTTTG-AAAACAGAAATTGAAATTACCTCAGCGTG
** * * * * * *
989200 TCCTGAGGCTCAACTCATTTCTCGCAATATGAG-TCA--ATT--T-AAAACATAAACTAAAAATA
64 TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGATAAAAACAGAAATTGAAATTA
* * * * *
989259 CCTCGGTGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATT
129 CCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
989308 AAAAATACCT
Statistics
Matches: 565, Mismatches: 47, Indels: 34
0.87 0.07 0.05
Matches are distributed among these distances:
215 59 0.10
216 1 0.00
217 2 0.00
219 7 0.01
220 61 0.11
221 26 0.05
222 55 0.10
223 138 0.24
226 3 0.01
229 1 0.00
230 3 0.01
233 209 0.37
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (222 bp):
TCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTC
CTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGATAAAAACAGAAATTGAAATTACC
TCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAAGCAGAAAT
TGAAAATACCTCAATGTGTCTTGAGGC
Found at i:989010 original size:307 final size:295
Alignment explanation
Indices: 988461--989307 Score: 1107
Period size: 307 Copynumber: 2.9 Consensus size: 295
988451 ATTAAAAAGT
* * ** * *
988461 TCAACCCACCTCTCGCAATATGAGTTGA-TTTTTGAA-AGTAGAATTTGAAAATACCTCGGCGTG
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAACAACAGAAATTGAAAATACCTCAGCGTG
* *
988524 CCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAAACAGAAATTGAAATTAC
66 TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAAACAGAAATTGAAATTAC
* *
988589 CTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAAGCAGAAA
130 CTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTTTGAAAA-CAGAAA
* * * *
988654 TTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTGA
194 TTGAAAATACCTCAGTGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTGA
*
988719 CAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGC
259 AAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGC
* *
988756 TCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACATAAATTGAACAGGAATTGAAAATA
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTT--------TAAA--CAACAGAAATTGAAAATA
* * *
988821 CCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAAGCAGAA
56 CCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT-TTGAAAAACAGAA
* ** *
988886 ATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTTTG
119 ATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTTTG
* * *
988951 AAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
184 AAAACAGAAATTGAAAATACCTCAGTGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTG
989016 ATTTTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGC
249 ATTTTTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGC
** ** *
989063 TCAACTCATTTCTCGCAATATGAGTTGATTTTTTTGACAACAGAAATTGAAATTACCTCAGCGTG
1 TCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAACAACAGAAATTGAAAATACCTCAGCGTG
* *
989128 TCCTGAGGCTCAACTCACCTCTAGCAATATGAGTTGA-TTTTGAAAAACAAAAATTGAAATTACC
66 TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAATTACC
** *** * *
989192 TCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATG-A--G-TCAATTT-AAAACATAAACT
131 TCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTTTGAAAACAGAAATT
* * * *
989252 AAAAATACCTCGGTGTGCCCCGAGGCTCAACTCACTTCTCGCAATATGAGTTGATT
196 GAAAATACCTCAGTGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATT
989308 AAAAATACCT
Statistics
Matches: 482, Mismatches: 56, Indels: 34
0.84 0.10 0.06
Matches are distributed among these distances:
289 59 0.12
290 4 0.01
291 1 0.00
293 1 0.00
294 56 0.12
295 29 0.06
296 4 0.01
297 59 0.12
299 2 0.00
304 3 0.01
307 186 0.39
308 75 0.16
309 3 0.01
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.30
Consensus pattern (295 bp):
TCAACTCACCTCTCGCAATATGAGTTGATTTTTTAAACAACAGAAATTGAAAATACCTCAGCGTG
TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAATTACC
TCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAATTGATTTTTTTGAAAACAGAAATT
GAAAATACCTCAGTGTGTCCTGAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTTGAAA
ACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGC
Found at i:1003527 original size:27 final size:27
Alignment explanation
Indices: 1003486--1003537 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
1003476 TAGTATTGGC
1003486 GCCTATCTGGAAGGCGCCAATGGTGGT
1 GCCTATCTGGAAGGCGCCAATGGTGGT
* *
1003513 GCCTATTTGGGAGGCGCCAATGGTG
1 GCCTATCTGGAAGGCGCCAATGGTG
1003538 AACAAAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.17, C:0.21, G:0.38, T:0.23
Consensus pattern (27 bp):
GCCTATCTGGAAGGCGCCAATGGTGGT
Found at i:1003664 original size:19 final size:19
Alignment explanation
Indices: 1003658--1004111 Score: 138
Period size: 19 Copynumber: 23.5 Consensus size: 19
1003648 CATACAAAAT
*
1003658 TACAATATTACAATATTCA
1 TACAAAATTACAATATTCA
* *
1003677 TACAAAAAAATGCAATATTCA
1 TAC--AAAATTACAATATTCA
1003698 TACAAAATT-CTAATATTACAA
1 TACAAAATTAC-AATATT-C-A
1003719 TATTCATACAACATTACAATATTCA
1 TA--C--A-AA-ATTACAATATTCA
* **
1003744 TAAAAAAATTATGATATTCA
1 T-ACAAAATTACAATATTCA
1003764 TACAAAATTACAATA-T--
1 TACAAAATTACAATATTCA
*
1003780 TACAATATT-C-ATA--CA
1 TACAAAATTACAATATTCA
1003795 -A-AAAATTACAATATTCA
1 TACAAAATTACAATATTCA
*
1003812 TACAAAATTATAATA-T--
1 TACAAAATTACAATATTCA
*
1003828 TACAATATT-C---ATTCA
1 TACAAAATTACAATATTCA
* * *
1003843 -AAAAAAATATAATATTCA
1 TACAAAATTACAATATTCA
*
1003861 TACAAAATTACAA-AAT--
1 TACAAAATTACAATATTCA
*
1003877 TACAATATT-C-ATA--CA
1 TACAAAATTACAATATTCA
* *
1003892 -AAAAAATTGCAATATTCA
1 TACAAAATTACAATATTCA
1003910 TACAAAACTATAATATTACAATATTCA
1 T-----AC-A-AA-ATTACAATATTCA
*
1003937 TACAAAAAATTTATAATATTCA
1 TAC--AAAA-TTACAATATTCA
1003959 TACAAAATTACAATATTCATA
1 TACAAAATTACAATATTC--A
* * *
1003980 TAAAAAATTACTA-ATCCAA
1 TACAAAATTACAATATTC-A
*
1003999 AACTATAAA-TACAAATTTAATT-A
1 TAC-A-AAATTAC-AA--T-ATTCA
*
1004022 TAAAATAATTACAATATTCA
1 TACAA-AATTACAATATTCA
*
1004042 TACAACATTACAATATTCA
1 TACAAAATTACAATATTCA
* *
1004061 TAAAAAAATTATAATATTCA
1 T-ACAAAATTACAATATTCA
*
1004081 TACAAAAAATTTAAAATATTCA
1 TAC--AAAA-TTACAATATTCA
1004103 TACAAAATT
1 TACAAAATT
1004112 CTAATCTAAA
Statistics
Matches: 324, Mismatches: 48, Indels: 126
0.65 0.10 0.25
Matches are distributed among these distances:
12 1 0.00
13 6 0.02
14 17 0.05
15 7 0.02
16 27 0.08
17 2 0.01
18 13 0.04
19 77 0.24
20 50 0.15
21 43 0.13
22 38 0.12
23 7 0.02
24 1 0.00
25 6 0.02
26 6 0.02
27 22 0.07
28 1 0.00
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.33
Consensus pattern (19 bp):
TACAAAATTACAATATTCA
Found at i:1003672 original size:27 final size:26
Alignment explanation
Indices: 1003637--1003975 Score: 246
Period size: 27 Copynumber: 14.1 Consensus size: 26
1003627 ATATCCCCAC
*
1003637 ATTATAATATTCATACAAAATTACAAT
1 ATTACAATATTCATACAAAATTA-AAT
1003664 ATTACAATATTCATAC-AAA--AAA-
1 ATTACAATATTCATACAAAATTAAAT
* *
1003686 A-TGCAATATTCATACAAAATTCTAAT
1 ATTACAATATTCATACAAAATT-AAAT
*
1003712 ATTACAATATTCATACAACATTACAAT
1 ATTACAATATTCATACAAAATTA-AAT
*
1003739 ATT-C-ATA---A-A-AAAATT-AT-
1 ATTACAATATTCATACAAAATTAAAT
*
1003756 -----GATATTCATACAAAATTACAAT
1 ATTACAATATTCATACAAAATTA-AAT
1003778 ATTACAATATTCATAC--AA--AAA-
1 ATTACAATATTCATACAAAATTAAAT
1003799 ATTACAATATTCATACAAAATTATAAT
1 ATTACAATATTCATACAAAATTA-AAT
*
1003826 ATTACAATATTCATTCAAAA--AAA-
1 ATTACAATATTCATACAAAATTAAAT
* *
1003849 A-TATAATATTCATACAAAATTACAAA
1 ATTACAATATTCATACAAAATTA-AAT
1003875 ATTACAATATTCATAC-AAA--AAA-
1 ATTACAATATTCATACAAAATTAAAT
* *
1003897 ATTGCAATATTCATACAAAACTATAAT
1 ATTACAATATTCATACAAAATTA-AAT
1003924 ATTACAATATTCATAC-AAA--AAAT
1 ATTACAATATTCATACAAAATTAAAT
*
1003947 -TTATAATATTCATACAAAATTACAAT
1 ATTACAATATTCATACAAAATTA-AAT
1003973 ATT
1 ATT
1003976 CATATAAAAA
Statistics
Matches: 253, Mismatches: 17, Indels: 84
0.71 0.05 0.24
Matches are distributed among these distances:
14 3 0.01
17 1 0.00
18 2 0.01
19 6 0.02
20 5 0.02
21 31 0.12
22 52 0.21
23 17 0.07
24 6 0.02
25 13 0.05
26 19 0.08
27 98 0.39
ACGTcount: A:0.53, C:0.13, G:0.01, T:0.33
Consensus pattern (26 bp):
ATTACAATATTCATACAAAATTAAAT
Found at i:1003857 original size:22 final size:22
Alignment explanation
Indices: 1003642--1004109 Score: 202
Period size: 27 Copynumber: 20.7 Consensus size: 22
1003632 CCCACATTAT
1003642 AATATTCATACAAAATTACAATATTAC
1 AATATTCATACAAAA--A-AA-A-TAC
*
1003669 AATATTCATAC-AAAAAAATGC
1 AATATTCATACAAAAAAAATAC
*
1003690 AATATTCATACAAAATTCTAATATTAC
1 AATATTCATACAAAA----AA-AATAC
* *
1003717 AATATTCATAC---AACATTAC
1 AATATTCATACAAAAAAAATAC
* *
1003736 AATATTCAT--AAAAAAATTAT
1 AATATTCATACAAAAAAAATAC
*
1003756 GATATTCATACAAAATTACAATATTAC
1 AATATTCATACAAAA--A-AA-A-TAC
*
1003783 AATATTCATAC-AAAAAATTAC
1 AATATTCATACAAAAAAAATAC
1003804 AATATTCATACAAAATTATAATATTAC
1 AATATTCATACAAAA--A-AA-A-TAC
* *
1003831 AATATTCATTCAAAAAAAATAT
1 AATATTCATACAAAAAAAATAC
1003853 AATATTCATACAAAATTACAAAATTAC
1 AATATTCATAC-AAA--A-AAAA-TAC
* *
1003880 AATATTCATACAAAAAAATTGC
1 AATATTCATACAAAAAAAATAC
1003902 AATATTCATACAAAACTATAATATTAC
1 AATATTCATACAAAA--A-AA-A-TAC
** *
1003929 AATATTCATACAAAAAATTTAT
1 AATATTCATACAAAAAAAATAC
*
1003951 AATATTCATAC---AAAATTAC
1 AATATTCATACAAAAAAAATAC
* *
1003970 AATATTCATA-TAAAAAATTAC
1 AATATTCATACAAAAAAAATAC
* * * *
1003991 TA-ATCCA-A-AACTATAAATAC
1 AATATTCATACAA-AAAAAATAC
* * * *
1004011 AA-ATTTAATTATAAAATAATTAC
1 AATA-TTCA-TACAAAAAAAATAC
* *
1004034 AATATTCATAC---AACATTAC
1 AATATTCATACAAAAAAAATAC
* *
1004053 AATATTCAT--AAAAAAATTAT
1 AATATTCATACAAAAAAAATAC
** *
1004073 AATATTCATACAAAAAATTTAA
1 AATATTCATACAAAAAAAATAC
1004095 AATATTCATACAAAA
1 AATATTCATACAAAA
1004110 TTCTAATCTA
Statistics
Matches: 351, Mismatches: 44, Indels: 97
0.71 0.09 0.20
Matches are distributed among these distances:
19 47 0.13
20 42 0.12
21 38 0.11
22 79 0.23
23 24 0.07
24 13 0.04
25 9 0.03
26 15 0.04
27 84 0.24
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.32
Consensus pattern (22 bp):
AATATTCATACAAAAAAAATAC
Found at i:1003866 original size:49 final size:49
Alignment explanation
Indices: 1003725--1003975 Score: 373
Period size: 49 Copynumber: 5.2 Consensus size: 49
1003715 ACAATATTCA
* *
1003725 TACAACATTACAATATTCAT--AAAAAAATTATGATATTCATACAAAAT
1 TACAATATTACAATATTCATACAAAAAAATTATAATATTCATACAAAAT
*
1003772 TACAATATTACAATATTCATAC-AAAAAATTACAATATTCATACAAAAT
1 TACAATATTACAATATTCATACAAAAAAATTATAATATTCATACAAAAT
* * *
1003820 TATAATATTACAATATTCATTCAAAAAAAATATAATATTCATACAAAAT
1 TACAATATTACAATATTCATACAAAAAAATTATAATATTCATACAAAAT
* ** *
1003869 TACAAAATTACAATATTCATACAAAAAAATTGCAATATTCATACAAAAC
1 TACAATATTACAATATTCATACAAAAAAATTATAATATTCATACAAAAT
* *
1003918 TATAATATTACAATATTCATACAAAAAATTTATAATATTCATACAAAAT
1 TACAATATTACAATATTCATACAAAAAAATTATAATATTCATACAAAAT
1003967 TACAATATT
1 TACAATATT
1003976 CATATAAAAA
Statistics
Matches: 180, Mismatches: 21, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
47 19 0.11
48 44 0.24
49 117 0.65
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.33
Consensus pattern (49 bp):
TACAATATTACAATATTCATACAAAAAAATTATAATATTCATACAAAAT
Found at i:1004111 original size:20 final size:20
Alignment explanation
Indices: 1004034--1004111 Score: 86
Period size: 20 Copynumber: 3.9 Consensus size: 20
1004024 AAATAATTAC
* *
1004034 AATATTCATACAACA-TTAC
1 AATATTCATACAAAATTTAA
* * *
1004053 AATATTCATAAAAAAATTAT
1 AATATTCATACAAAATTTAA
1004073 AATATTCATACAAAAAATTTAA
1 AATATTCATAC--AAAATTTAA
1004095 AATATTCATACAAAATT
1 AATATTCATACAAAATT
1004112 CTAATCTAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
19 13 0.26
20 19 0.38
22 18 0.36
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (20 bp):
AATATTCATACAAAATTTAA
Found at i:1013948 original size:21 final size:20
Alignment explanation
Indices: 1013922--1014119 Score: 94
Period size: 21 Copynumber: 9.6 Consensus size: 20
1013912 ATTCAGCTCT
*
1013922 TATGAGCTTCTGTTTAACTC
1 TATGAGCTTCTGTTCAACTC
* * *
1013942 ATATGAGTTTCTGCTCAGCTC
1 -TATGAGCTTCTGTTCAACTC
1013963 TATTGAGCTTCTGTTCAACTC
1 TA-TGAGCTTCTGTTCAACTC
* *
1013984 TTATGAGTTTCCGTTCAACTC
1 -TATGAGCTTCTGTTCAACTC
* * * *
1014005 TATTAAGCTTCTATTTAACCC
1 TA-TGAGCTTCTGTTCAACTC
* *
1014026 TTATG-GCTTTTCGTTCAGCTC
1 -TATGAGCTTCT-GTTCAACTC
** * *
1014047 TTACAAGCTTCTGTACAACCC
1 -TATGAGCTTCTGTTCAACTC
* * * * * *
1014068 TTATGGGTTTCTTTTTAGCTTT
1 -TATGAGCTTCTGTTCAAC-TC
*
1014090 TATGAGCTTCTGTTCAGCT-
1 TATGAGCTTCTGTTCAACTC
1014109 TATGAGCTTCT
1 TATGAGCTTCT
1014120 ATTAACGATA
Statistics
Matches: 129, Mismatches: 41, Indels: 16
0.69 0.22 0.09
Matches are distributed among these distances:
19 11 0.09
20 10 0.08
21 99 0.77
22 9 0.07
ACGTcount: A:0.19, C:0.22, G:0.15, T:0.44
Consensus pattern (20 bp):
TATGAGCTTCTGTTCAACTC
Found at i:1014029 original size:42 final size:42
Alignment explanation
Indices: 1013907--1014078 Score: 152
Period size: 42 Copynumber: 4.1 Consensus size: 42
1013897 TATGTTTTAC
* * * * *
1013907 TTTCCATTCAGCTCT-TATGAGCTTCTGTTTAACTCATATGAG
1 TTTCCGTTCAGCTCTAT-TAAGCTTCTGTTCAACCCTTATGAG
* * * *
1013949 TTTCTGCTCAGCTCTATTGAGCTTCTGTTCAACTCTTATGAG
1 TTTCCGTTCAGCTCTATTAAGCTTCTGTTCAACCCTTATGAG
* * *
1013991 TTTCCGTTCAACTCTATTAAGCTTCTATTTAACCCTTATG-G
1 TTTCCGTTCAGCTCTATTAAGCTTCTGTTCAACCCTTATGAG
* * * *
1014032 CTTTTCGTTCAGCTCT-TACAAGCTTCTGTACAACCCTTATGGG
1 -TTTCCGTTCAGCTCTAT-TAAGCTTCTGTTCAACCCTTATGAG
1014075 TTTC
1 TTTC
1014079 TTTTTAGCTT
Statistics
Matches: 107, Mismatches: 19, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
41 2 0.02
42 103 0.96
43 2 0.02
ACGTcount: A:0.19, C:0.24, G:0.14, T:0.42
Consensus pattern (42 bp):
TTTCCGTTCAGCTCTATTAAGCTTCTGTTCAACCCTTATGAG
Found at i:1020757 original size:43 final size:43
Alignment explanation
Indices: 1020709--1020793 Score: 161
Period size: 43 Copynumber: 2.0 Consensus size: 43
1020699 GTTTGGTGTA
1020709 TTGGAGATCCGTGTATCCAATGAGTGATGATAGAGCTCACTTG
1 TTGGAGATCCGTGTATCCAATGAGTGATGATAGAGCTCACTTG
*
1020752 TTGGAGATCCGTGTATCCGATGAGTGATGATAGAGCTCACTT
1 TTGGAGATCCGTGTATCCAATGAGTGATGATAGAGCTCACTT
1020794 TTATGTTTCA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (43 bp):
TTGGAGATCCGTGTATCCAATGAGTGATGATAGAGCTCACTTG
Found at i:1021034 original size:39 final size:39
Alignment explanation
Indices: 1020897--1021013 Score: 171
Period size: 39 Copynumber: 3.0 Consensus size: 39
1020887 AAAATGTTTT
**
1020897 TGAGTATTGCAATATATGCTTGAACATTATGCGATTATA
1 TGAGTATTGCAATATATGCTTGAACATTATGTAATTATA
* * *
1020936 TGAGTATTGCAAGATGTGCTTGAACATTATATAATTATA
1 TGAGTATTGCAATATATGCTTGAACATTATGTAATTATA
* *
1020975 TGAGTATTGCAACATGTGCTTGAACATTATGTAATTATA
1 TGAGTATTGCAATATATGCTTGAACATTATGTAATTATA
1021014 CGTGTAATGT
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 71 1.00
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.38
Consensus pattern (39 bp):
TGAGTATTGCAATATATGCTTGAACATTATGTAATTATA
Found at i:1022841 original size:21 final size:21
Alignment explanation
Indices: 1022817--1022859 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
1022807 CATTTTCCCA
1022817 ATTGTAAATCCAATCATCATT
1 ATTGTAAATCCAATCATCATT
1022838 ATTGTAAATCCAATCATCATT
1 ATTGTAAATCCAATCATCATT
1022859 A
1 A
1022860 ATCTCAAGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.19, G:0.05, T:0.37
Consensus pattern (21 bp):
ATTGTAAATCCAATCATCATT
Found at i:1026621 original size:23 final size:22
Alignment explanation
Indices: 1026558--1027291 Score: 317
Period size: 23 Copynumber: 32.2 Consensus size: 22
1026548 GATGTTTTAT
*
1026558 TGCTGT-AATTGAGGTGTATAAA
1 TGCTGTAAATTGAAGTGT-TAAA
* * *
1026580 TGTTGTTAATAG-AGATGTTAAA
1 TGCTGTAAATTGAAG-TGTTAAA
*
1026602 GTGCTGCAAATTGAAGTGTTTAAA
1 -TGCTGTAAATTGAAGTG-TTAAA
**
1026626 TATTGTAAATTGAAGTGTTAAA
1 TGCTGTAAATTGAAGTGTTAAA
* * *
1026648 CTGTTGCAAATTGAAGTATTTAAA
1 -TGCTGTAAATTGAAGT-GTTAAA
* *
1026672 TGTTGTGAATTGAAGTGTTAAA
1 TGCTGTAAATTGAAGTGTTAAA
* *
1026694 GTGCTGCAAATTTAAGTGTTTAAA
1 -TGCTGTAAATTGAAGTG-TTAAA
* *
1026718 TGTTGTAAATTGAAGTGTTTTAAG
1 TGCTGTAAATTGAAGTG--TTAAA
* * * **
1026742 TACTGCAAATTGAATTGTTTAGT
1 TGCTGTAAATTGAAGTG-TTAAA
* *
1026765 TGCTGGAAATTG-AGATGTT-TA
1 TGCTGTAAATTGAAG-TGTTAAA
*
1026786 TCGCTGT-AATTGAGGTGTATAAA
1 T-GCTGTAAATTGAAGTGT-TAAA
* * *
1026809 TGTTGTTAATTG-GGATGTTAAA
1 TGCTGTAAATTGAAG-TGTTAAA
* * *
1026831 GTGTTGTAAGTTGAGGTGTTTAAA
1 -TGCTGTAAATTGAAGTG-TTAAA
* *
1026855 TGCTATAAATTGAAGTGTTTAAT
1 TGCTGTAAATTGAAGTG-TTAAA
* * *
1026878 TACTGTAAATTGAGGTGCTCAAA
1 TGCTGTAAATTGAAGTG-TTAAA
* *
1026901 TGATGTAAATTGAAGTGTTTAAG
1 TGCTGTAAATTGAAGTG-TTAAA
** **
1026924 TGCTACAAATTGAA-TGTTTAGT
1 TGCTGTAAATTGAAGTG-TTAAA
* * *
1026946 TGCTGGAAATTG-AGATGTTTAT
1 TGCTGTAAATTGAAG-TGTTAAA
* *
1026968 TGTTGT-AATTGAGGTGTATAAA
1 TGCTGTAAATTGAAGTGT-TAAA
* * *
1026990 TGTTGTTAATTG-GGATGTTAAA
1 TGCTGTAAATTGAAG-TGTTAAA
* * * *
1027012 GTGTTGGAAGTTGAGGTGTTTAAA
1 -TGCTGTAAATTGAAGTG-TTAAA
*
1027036 TGCTGTAAATTGAAGTGTTTAAT
1 TGCTGTAAATTGAAGTG-TTAAA
* *
1027059 TGTTGTAAATTGAGGTGCTTAAA
1 TGCTGTAAATTGAAGTG-TTAAA
** *
1027082 TTATGTAAATTGAAGTGTTTAAG
1 TGCTGTAAATTGAAGTG-TTAAA
* * **
1027105 TGCTGCAAATTGAATTGTTTAGT
1 TGCTGTAAATTGAAGTG-TTAAA
* *
1027128 TGCTGGAAATTG-AGATGTT-TA
1 TGCTGTAAATTGAAG-TGTTAAA
*
1027149 TCGCTGT-AATTGAGGTGTATAAA
1 T-GCTGTAAATTGAAGTGT-TAAA
* * *
1027172 TGTTGTTAATTG-GGATGTTAAA
1 TGCTGTAAATTGAAG-TGTTAAA
* * *
1027194 GTGTTGTAAGTTGAGGTGTTTAAA
1 -TGCTGTAAATTGAAGTG-TTAAA
* *
1027218 TGCTGTAAATTGAAGTGTTTGAT
1 TGCTGTAAATTGAAGTG-TTAAA
* *
1027241 TGCTGTAAATTGAGGTGCTCAAA
1 TGCTGTAAATTGAAGTG-TTAAA
* *
1027264 TGATGTAAATTGAAGTGTTTAAG
1 TGCTGTAAATTGAAGTG-TTAAA
1027287 TGCTG
1 TGCTG
1027292 GAAACTATGT
Statistics
Matches: 552, Mismatches: 121, Indels: 77
0.74 0.16 0.10
Matches are distributed among these distances:
21 27 0.05
22 96 0.17
23 373 0.68
24 56 0.10
ACGTcount: A:0.31, C:0.04, G:0.25, T:0.40
Consensus pattern (22 bp):
TGCTGTAAATTGAAGTGTTAAA
Found at i:1026645 original size:46 final size:46
Alignment explanation
Indices: 1026506--1027291 Score: 521
Period size: 46 Copynumber: 17.2 Consensus size: 46
1026496 TAAAGCCCTA
* * * ** * *
1026506 TTTAAGTACTGCAATTTGAAGTGTTTAGTTGCTGGAAATT-AAGATG
1 TTTAAGTGCTGCAAATTGAGGTGTTTAAATGTTGTAAATTGAAG-TG
* * * * * *
1026552 TTTTATTGCTG-TAATTGAGGTGTATAAATGTTGTTAATAG-AGATG
1 TTTAAGTGCTGCAAATTGAGGTGTTTAAATGTTGTAAATTGAAG-TG
* * *
1026597 TTAAAGTGCTGCAAATTGAAGTGTTTAAATATTGTAAATTGAAGTG
1 TTTAAGTGCTGCAAATTGAGGTGTTTAAATGTTGTAAATTGAAGTG
* * * * * *
1026643 TTAAACTGTTGCAAATTGAAGTATTTAAATGTTGTGAATTGAAGTG
1 TTTAAGTGCTGCAAATTGAGGTGTTTAAATGTTGTAAATTGAAGTG
* * *
1026689 TTAAAGTGCTGCAAATTTAAGTGTTTAAATGTTGTAAATTGAAGTG
1 TTTAAGTGCTGCAAATTGAGGTGTTTAAATGTTGTAAATTGAAGTG
* ** ** * *
1026735 TTTTAAGTACTGCAAATTGAATTGTTTAGTTGCTGGAAATTG-AGATG
1 -TTTAAGTGCTGCAAATTGAGGTGTTTAAATGTTGTAAATTGAAG-TG
* * * *
1026782 TTT-A-TCGCTG-TAATTGAGGTGTATAAATGTTGTTAATTG-GGATG
1 TTTAAGT-GCTGCAAATTGAGGTGTTTAAATGTTGTAAATTGAAG-TG
* * * * * *
1026826 TTAAAGTGTTGTAAGTTGAGGTGTTTAAATGCTATAAATTGAAGTG
1 TTTAAGTGCTGCAAATTGAGGTGTTTAAATGTTGTAAATTGAAGTG
* * * * * *
1026872 TTTAATTACTGTAAATTGAGGTGCTCAAATGATGTAAATTGAAGTG
1 TTTAAGTGCTGCAAATTGAGGTGTTTAAATGTTGTAAATTGAAGTG
* * ** * *
1026918 TTTAAGTGCTACAAATTGA-ATGTTTAGTTGCTGGAAATTG-AGATG
1 TTTAAGTGCTGCAAATTGAGGTGTTTAAATGTTGTAAATTGAAG-TG
* * * * * *
1026963 TTT-ATTGTTG-TAATTGAGGTGTATAAATGTTGTTAATTG-GGATG
1 TTTAAGTGCTGCAAATTGAGGTGTTTAAATGTTGTAAATTGAAG-TG
* * * * *
1027007 TTAAAGTGTTGGAAGTTGAGGTGTTTAAATGCTGTAAATTGAAGTG
1 TTTAAGTGCTGCAAATTGAGGTGTTTAAATGTTGTAAATTGAAGTG
* * * *
1027053 TTTAATTGTTGTAAATTGAGGTGCTTAAAT-TATGTAAATTGAAGTG
1 TTTAAGTGCTGCAAATTGAGGTGTTTAAATGT-TGTAAATTGAAGTG
** ** * *
1027099 TTTAAGTGCTGCAAATTGAATTGTTTAGTTGCTGGAAATTG-AGATG
1 TTTAAGTGCTGCAAATTGAGGTGTTTAAATGTTGTAAATTGAAG-TG
* * * *
1027145 TTT-A-TCGCTG-TAATTGAGGTGTATAAATGTTGTTAATTG-GGATG
1 TTTAAGT-GCTGCAAATTGAGGTGTTTAAATGTTGTAAATTGAAG-TG
* * * * *
1027189 TTAAAGTGTTGTAAGTTGAGGTGTTTAAATGCTGTAAATTGAAGTG
1 TTTAAGTGCTGCAAATTGAGGTGTTTAAATGTTGTAAATTGAAGTG
* * * * * *
1027235 TTTGATTGCTGTAAATTGAGGTGCTCAAATGATGTAAATTGAAGTG
1 TTTAAGTGCTGCAAATTGAGGTGTTTAAATGTTGTAAATTGAAGTG
1027281 TTTAAGTGCTG
1 TTTAAGTGCTG
1027292 GAAACTATGT
Statistics
Matches: 573, Mismatches: 144, Indels: 46
0.75 0.19 0.06
Matches are distributed among these distances:
43 6 0.01
44 80 0.14
45 75 0.13
46 372 0.65
47 40 0.07
ACGTcount: A:0.31, C:0.04, G:0.25, T:0.40
Consensus pattern (46 bp):
TTTAAGTGCTGCAAATTGAGGTGTTTAAATGTTGTAAATTGAAGTG
Found at i:1026914 original size:229 final size:229
Alignment explanation
Indices: 1026506--1026943 Score: 617
Period size: 229 Copynumber: 1.9 Consensus size: 229
1026496 TAAAGCCCTA
* *
1026506 TTTAAGTACTGCAATTTGAAGTGTTTAGTTGCTGGAAATTAAGATGTTTTATTGCTGTAATTGAG
1 TTTAAGTACTGCAAATTGAAGTGTTTAGTTGCTGGAAATTAAGATGTTTTATCGCTGTAATTGAG
* *
1026571 GTGTATAAATGTTGTTAATAGAGATGTTAAAGTGCTGCAAATTGAAGTGTTTAAATATTGTAAAT
66 GTGTATAAATGTTGTTAATAGAGATGTTAAAGTGCTGCAAATTGAAGTGTTTAAATACTATAAAT
** * * * * *
1026636 TGAAGTGTTAAACTGTTGCAAATTGAAGTATTTAAATGTTGTGAATTGAAGTGTTAAAGTGCTGC
131 TGAAGTGTTAAACTACTGCAAATTGAAGTACTCAAATGATGTAAATTGAAGTGTTAAAGTGCTAC
*
1026701 AAATTTAAGTGTTTAAATGTTGTAAATTGAAGTGT
196 AAATTGAA-TGTTTAAATGTTGTAAATTGAAGTGT
* *
1026736 TTTAAGTACTGCAAATTGAATTGTTTAGTTGCTGGAAATTGAGATG-TTTATCGCTGTAATTGAG
1 TTTAAGTACTGCAAATTGAAGTGTTTAGTTGCTGGAAATTAAGATGTTTTATCGCTGTAATTGAG
* * * * * * *
1026800 GTGTATAAATGTTGTTAATTGGGATGTTAAAGTGTTGTAAGTTGAGGTGTTTAAATGCTATAAAT
66 GTGTATAAATGTTGTTAATAGAGATGTTAAAGTGCTGCAAATTGAAGTGTTTAAATACTATAAAT
* * * * * *
1026865 TGAAGTGTTTAATTACTGTAAATTGAGGTGCTCAAATGATGTAAATTGAAGTGTTTAAGTGCTAC
131 TGAAGTGTTAAACTACTGCAAATTGAAGTACTCAAATGATGTAAATTGAAGTGTTAAAGTGCTAC
1026930 AAATTGAATGTTTA
196 AAATTGAATGTTTA
1026944 GTTGCTGGAA
Statistics
Matches: 181, Mismatches: 27, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
228 6 0.03
229 132 0.73
230 43 0.24
ACGTcount: A:0.32, C:0.05, G:0.23, T:0.40
Consensus pattern (229 bp):
TTTAAGTACTGCAAATTGAAGTGTTTAGTTGCTGGAAATTAAGATGTTTTATCGCTGTAATTGAG
GTGTATAAATGTTGTTAATAGAGATGTTAAAGTGCTGCAAATTGAAGTGTTTAAATACTATAAAT
TGAAGTGTTAAACTACTGCAAATTGAAGTACTCAAATGATGTAAATTGAAGTGTTAAAGTGCTAC
AAATTGAATGTTTAAATGTTGTAAATTGAAGTGT
Found at i:1026949 original size:22 final size:21
Alignment explanation
Indices: 1026907--1026966 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 21
1026897 CAAATGATGT
1026907 AAATTGAAGTGTTTAAGTGCTAC
1 AAATTGAA-TGTTT-AGTGCTAC
**
1026930 AAATTGAATGTTTAGTTGCTGG
1 AAATTGAATGTTTAG-TGCTAC
1026952 AAATTGAGATGTTTA
1 AAATTGA-ATGTTTA
1026967 TTGTTGTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 2 0.06
22 16 0.48
23 15 0.45
ACGTcount: A:0.33, C:0.05, G:0.23, T:0.38
Consensus pattern (21 bp):
AAATTGAATGTTTAGTGCTAC
Found at i:1027213 original size:113 final size:114
Alignment explanation
Indices: 1027037--1027254 Score: 275
Period size: 113 Copynumber: 1.9 Consensus size: 114
1027027 GTGTTTAAAT
* *
1027037 GCTGTAAATTGAAGTGTTTAATTGTTGTAAATTGAGGTGCTTAAATTATGTAAATTGAAGTGTTT
1 GCTGTAAATTGAAGTGTATAAATGTTGTAAATTGAGGTGCTTAAATTATGTAAATTGAAGTGTTT
* *
1027102 AAGTGCTGCAAATTGAATTGTTT-AGTTGCTGGAAATTGAGATGTTTATC
66 AAATGCTGCAAATTGAAGTGTTTGA-TTGCTGGAAATTGAGATGTTTATC
* * * *
1027151 GCTGT-AATTGAGGTGTATAAATGTTGTTAATTG-GGATG-TTAAAGTGT-TGTAAGTTGAGGTG
1 GCTGTAAATTGAAGTGTATAAATGTTGTAAATTGAGG-TGCTTAAA-T-TATGTAAATTGAAGTG
* *
1027212 TTTAAATGCTGTAAATTGAAGTGTTTGATTGCTGTAAATTGAG
63 TTTAAATGCTGCAAATTGAAGTGTTTGATTGCTGGAAATTGAG
1027255 GTGCTCAAAT
Statistics
Matches: 90, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
112 7 0.08
113 76 0.84
114 7 0.08
ACGTcount: A:0.29, C:0.04, G:0.26, T:0.41
Consensus pattern (114 bp):
GCTGTAAATTGAAGTGTATAAATGTTGTAAATTGAGGTGCTTAAATTATGTAAATTGAAGTGTTT
AAATGCTGCAAATTGAAGTGTTTGATTGCTGGAAATTGAGATGTTTATC
Found at i:1027274 original size:136 final size:136
Alignment explanation
Indices: 1027022--1027284 Score: 305
Period size: 136 Copynumber: 1.9 Consensus size: 136
1027012 GTGTTGGAAG
* * * *
1027022 TTGAGGTGTTTAAATGCTGTAAATTGAAGTGTTTAATTGTTGTAAATTGAGGTGCTTAAATTATG
1 TTGAGGTGTATAAATGCTGTAAATTGAAGTGTTAAAGTGTTGTAAATTGAGGTGCTTAAATGATG
* * * ** *
1027087 TAAATTGAAGTGTTTAAGTGCTGCAAATTGAATTGTTTAGTTGCTGGAAATTG-AGATGTTTATC
66 TAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGCTCAAATGATGGAAATTGAAG-TGTTTATC
1027151 GCTGTAA
130 GCTGTAA
* * * * * *
1027158 TTGAGGTGTATAAATGTTGTTAATTG-GGATGTTAAAGTGTTGTAAGTTGAGGTGTTTAAATGCT
1 TTGAGGTGTATAAATGCTGTAAATTGAAG-TGTTAAAGTGTTGTAAATTGAGGTGCTTAAATGAT
* * * * *
1027222 GTAAATTGAAGTGTTTGATTGCTGTAAATTGAGGTGCTCAAATGATGTAAATTGAAGTGTTTA
65 GTAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGCTCAAATGATGGAAATTGAAGTGTTTA
1027285 AGTGCTGGAA
Statistics
Matches: 104, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
135 1 0.01
136 101 0.97
137 2 0.02
ACGTcount: A:0.29, C:0.04, G:0.26, T:0.41
Consensus pattern (136 bp):
TTGAGGTGTATAAATGCTGTAAATTGAAGTGTTAAAGTGTTGTAAATTGAGGTGCTTAAATGATG
TAAATTGAAGTGTTTAAGTGCTGCAAATTGAAGTGCTCAAATGATGGAAATTGAAGTGTTTATCG
CTGTAA
Found at i:1030979 original size:13 final size:14
Alignment explanation
Indices: 1030961--1030996 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
1030951 CAATGTATTA
*
1030961 AAAATATTAA-TTT
1 AAAATAATAAGTTT
1030974 AAAATAATAAGTTT
1 AAAATAATAAGTTT
1030988 AAAATAATA
1 AAAATAATA
1030997 TGAAATAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 9 0.43
14 12 0.57
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (14 bp):
AAAATAATAAGTTT
Done.