Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold468
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: 1127621
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 7
Found at i:522095 original size:86 final size:85
Alignment explanation
Indices: 521958--522118 Score: 252
Period size: 86 Copynumber: 1.9 Consensus size: 85
521948 TTGAATTACA
* * *
521958 TTTAAAAATAATGTTTTATGTAATTTATAATATTTTATATAATTAGTAATGTTTATATGTTATTA
1 TTTAAAAATAATATTTTATGTAATTTATAATATTTTATATAATTAATAATGTTTATATGTAATT-
522023 G-TAATATTTATATAATTATT
65 GTTAATATTTATATAATTATT
* *
522043 TTTAAAAGTAATATTTGTATGTAATTTATAATGTTTTATATAATTAATAATGTTTATATGTAATT
1 TTTAAAAATAATATTT-TATGTAATTTATAATATTTTATATAATTAATAATGTTTATATGTAATT
522108 GTTAATATTTA
65 GTTAATATTTA
522119 ATGTAATTTT
Statistics
Matches: 69, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
85 15 0.22
86 54 0.78
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (85 bp):
TTTAAAAATAATATTTTATGTAATTTATAATATTTTATATAATTAATAATGTTTATATGTAATTG
TTAATATTTATATAATTATT
Found at i:522126 original size:39 final size:39
Alignment explanation
Indices: 522051--522126 Score: 91
Period size: 39 Copynumber: 1.9 Consensus size: 39
522041 TTTTTAAAAG
* * *
522051 TAATATTTGTATGTAATTTATAATGTTTTATATAATTAA
1 TAATATTTATATGTAATTTATAATATTTAATATAATTAA
* *
522090 TAATGTTTATATGTAATTGT-TAATATTTAATGTAATT
1 TAATATTTATATGTAATT-TATAATATTTAATATAATT
522127 TTATGTAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
39 30 0.97
40 1 0.03
ACGTcount: A:0.37, C:0.00, G:0.09, T:0.54
Consensus pattern (39 bp):
TAATATTTATATGTAATTTATAATATTTAATATAATTAA
Found at i:522912 original size:2 final size:2
Alignment explanation
Indices: 522905--522933 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
522895 TATCAACTTT
522905 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
522934 CTCCCAAGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:525579 original size:11 final size:11
Alignment explanation
Indices: 525563--525592 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
525553 GCCATTATAA
525563 GCTTGTTTGGT
1 GCTTGTTTGGT
525574 GCTTGTTTGGT
1 GCTTGTTTGGT
525585 GCTTGTTT
1 GCTTGTTT
525593 TCATGCTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.00, C:0.10, G:0.33, T:0.57
Consensus pattern (11 bp):
GCTTGTTTGGT
Found at i:525725 original size:33 final size:33
Alignment explanation
Indices: 525683--525763 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
525673 GTTATAAGCT
*
525683 ATGTATCGATACATTTCCTTATGTATCGATGCA
1 ATGTATCGATACATTTCCTTATGTATCGACGCA
*
525716 ATGTATCGATACATTTCTTTATGTATCGACGCA
1 ATGTATCGATACATTTCCTTATGTATCGACGCA
525749 ATGTATCGATACATT
1 ATGTATCGATACATT
525764 GTACCATGTA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.28, C:0.17, G:0.15, T:0.40
Consensus pattern (33 bp):
ATGTATCGATACATTTCCTTATGTATCGACGCA
Found at i:525773 original size:33 final size:31
Alignment explanation
Indices: 525683--525777 Score: 118
Period size: 33 Copynumber: 2.9 Consensus size: 31
525673 GTTATAAGCT
*
525683 ATGTATCGATACATTTCCTTATGTATCGATGCA
1 ATGTATCGATACATTTCC--ATGTATCGACGCA
*
525716 ATGTATCGATACATTTCTTTATGTATCGACGCA
1 ATGTATCGATACATTTC--CATGTATCGACGCA
525749 ATGTATCGATACATTGTACCATGTATCGA
1 ATGTATCGATACATT-T-CCATGTATCGA
525778 TACAAATAGT
Statistics
Matches: 55, Mismatches: 3, Indels: 8
0.83 0.05 0.12
Matches are distributed among these distances:
33 53 0.96
34 1 0.02
35 1 0.02
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.38
Consensus pattern (31 bp):
ATGTATCGATACATTTCCATGTATCGACGCA
Found at i:525870 original size:13 final size:13
Alignment explanation
Indices: 525852--525878 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
525842 TACAATGAAC
525852 ATGTATCGATACA
1 ATGTATCGATACA
525865 ATGTATCGATACA
1 ATGTATCGATACA
525878 A
1 A
525879 ATCAACATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:525891 original size:33 final size:32
Alignment explanation
Indices: 525834--525897 Score: 110
Period size: 33 Copynumber: 2.0 Consensus size: 32
525824 AATTTGGCCG
*
525834 TGTATCGATACAATGAACATGTATCGATACAA
1 TGTATCGATACAATCAACATGTATCGATACAA
525866 TGTATCGATACAAATCAACATGTATCGATACA
1 TGTATCGATAC-AATCAACATGTATCGATACA
525898 TCTGGGTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 11 0.37
33 19 0.63
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (32 bp):
TGTATCGATACAATCAACATGTATCGATACAA
Found at i:527983 original size:41 final size:41
Alignment explanation
Indices: 527926--528004 Score: 149
Period size: 41 Copynumber: 1.9 Consensus size: 41
527916 CAACTTTCAG
*
527926 GGCTTGGATTTTGAAATTTGGGAGTTTTTGATTAAAACCAA
1 GGCTTGGATTTTGAAATTTGAGAGTTTTTGATTAAAACCAA
527967 GGCTTGGATTTTGAAATTTGAGAGTTTTTGATTAAAAC
1 GGCTTGGATTTTGAAATTTGAGAGTTTTTGATTAAAAC
528005 TAAGACCACA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.29, C:0.06, G:0.24, T:0.41
Consensus pattern (41 bp):
GGCTTGGATTTTGAAATTTGAGAGTTTTTGATTAAAACCAA
Found at i:528356 original size:13 final size:13
Alignment explanation
Indices: 528338--528365 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
528328 AATAGTACCT
528338 AATGTATCGATAC
1 AATGTATCGATAC
528351 AATGTATCGATAC
1 AATGTATCGATAC
528364 AA
1 AA
528366 GGAATGTTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:532729 original size:24 final size:25
Alignment explanation
Indices: 532697--532743 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
532687 ATGTAGCCAC
*
532697 CATGGCTTTCTTCTTT-AGTTTGCT
1 CATGCCTTTCTTCTTTAAGTTTGCT
532721 CATGCCTTTCTTCTTTAAGTTTG
1 CATGCCTTTCTTCTTTAAGTTTG
532744 GACAGTCAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.11, C:0.21, G:0.15, T:0.53
Consensus pattern (25 bp):
CATGCCTTTCTTCTTTAAGTTTGCT
Found at i:534566 original size:13 final size:13
Alignment explanation
Indices: 534548--534578 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
534538 ACATTTCCTC
534548 ATGTATCGATACA
1 ATGTATCGATACA
534561 ATGTATCGATACA
1 ATGTATCGATACA
*
534574 TTGTA
1 ATGTA
534579 CCATGTATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:534566 original size:33 final size:33
Alignment explanation
Indices: 534528--534594 Score: 109
Period size: 33 Copynumber: 2.0 Consensus size: 33
534518 GTTACAAGCT
*
534528 ATGTATCGATACATT-TCCTCATGTATCGATACA
1 ATGTATCGATACATTGTAC-CATGTATCGATACA
534561 ATGTATCGATACATTGTACCATGTATCGATACA
1 ATGTATCGATACATTGTACCATGTATCGATACA
534594 A
1 A
534595 ATAGTGATAG
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 30 0.94
34 2 0.06
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.34
Consensus pattern (33 bp):
ATGTATCGATACATTGTACCATGTATCGATACA
Found at i:537049 original size:13 final size:13
Alignment explanation
Indices: 537027--537057 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
537017 GATACTTTTC
*
537027 ACAATGTATCGAT
1 ACAATATATCGAT
537040 ACAATATATCGAT
1 ACAATATATCGAT
537053 ACAAT
1 ACAAT
537058 CTCCCCTGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.45, C:0.16, G:0.10, T:0.29
Consensus pattern (13 bp):
ACAATATATCGAT
Found at i:537170 original size:32 final size:33
Alignment explanation
Indices: 537127--537188 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 33
537117 CAATTTTTTA
*
537127 TGTATCAATACAATG-AACATGTATCGATATAT
1 TGTATCAATACAAAGCAACATGTATCGATATAT
* *
537159 TGTATCGATACAAAGCAATATGTATCGATA
1 TGTATCAATACAAAGCAACATGTATCGATA
537189 CTTCGGGGCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 13 0.50
33 13 0.50
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (33 bp):
TGTATCAATACAAAGCAACATGTATCGATATAT
Found at i:543186 original size:15 final size:15
Alignment explanation
Indices: 543168--543203 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
543158 TTAGTTCGAT
* *
543168 AATTTTCTTTTCAAG
1 AATTTTATTTTCAAC
543183 AATTTTATTTTCAAC
1 AATTTTATTTTCAAC
543198 AATTTT
1 AATTTT
543204 TGATTTATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.31, C:0.11, G:0.03, T:0.56
Consensus pattern (15 bp):
AATTTTATTTTCAAC
Found at i:545253 original size:13 final size:13
Alignment explanation
Indices: 545235--545264 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
545225 ACTTTTCACT
545235 ATGTATCGATACA
1 ATGTATCGATACA
545248 ATGTATCGATACA
1 ATGTATCGATACA
545261 ATGT
1 ATGT
545265 CCCATGTATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.37, C:0.13, G:0.17, T:0.33
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:545254 original size:33 final size:33
Alignment explanation
Indices: 545212--545281 Score: 97
Period size: 33 Copynumber: 2.1 Consensus size: 33
545202 GCTGTTGGGC
* * *
545212 ACAATGTATCGATAC-TTTTCACTATGTATCGAT
1 ACAATGTATCGATACAATGTC-CCATGTATCGAT
545245 ACAATGTATCGATACAATGTCCCATGTATCGAT
1 ACAATGTATCGATACAATGTCCCATGTATCGAT
545278 ACAA
1 ACAA
545282 ATAATGTAGG
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
33 30 0.91
34 3 0.09
ACGTcount: A:0.34, C:0.20, G:0.13, T:0.33
Consensus pattern (33 bp):
ACAATGTATCGATACAATGTCCCATGTATCGAT
Found at i:545406 original size:20 final size:21
Alignment explanation
Indices: 545383--545421 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
545373 CAAAGCAATA
545383 TGTATCGATAC-TTCTAGGCT
1 TGTATCGATACTTTCTAGGCT
*
545403 TGTATCGATGCTTTCTAGG
1 TGTATCGATACTTTCTAGG
545422 GTGTTGACCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.18, C:0.18, G:0.23, T:0.41
Consensus pattern (21 bp):
TGTATCGATACTTTCTAGGCT
Found at i:548773 original size:14 final size:14
Alignment explanation
Indices: 548754--548787 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
548744 TAAATTTATC
548754 TTAATTTTTA-AATT
1 TTAATTTTTACAA-T
548768 TTAATTTTTACAAT
1 TTAATTTTTACAAT
548782 TTAATT
1 TTAATT
548788 CTTTTTATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 17 0.89
15 2 0.11
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (14 bp):
TTAATTTTTACAAT
Found at i:552964 original size:13 final size:13
Alignment explanation
Indices: 552946--552971 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
552936 CTCACCCAGA
552946 TGTATCGATACAT
1 TGTATCGATACAT
552959 TGTATCGATACAT
1 TGTATCGATACAT
552972 ATTCATTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:559238 original size:13 final size:13
Alignment explanation
Indices: 559220--559259 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
559210 ACAACATTTC
559220 TTGTATCGATACA
1 TTGTATCGATACA
*
559233 TTGTATTGATACA
1 TTGTATCGATACA
*
559246 TTGGATCGATACA
1 TTGTATCGATACA
559259 T
1 T
559260 GGGTTACTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.30, C:0.12, G:0.17, T:0.40
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:561163 original size:22 final size:22
Alignment explanation
Indices: 561138--561179 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
561128 AAATTTTAGA
561138 TTTGACAAAGGGGGAGAAATGC
1 TTTGACAAAGGGGGAGAAATGC
**
561160 TTTGATTAAGGGGGAGAAAT
1 TTTGACAAAGGGGGAGAAAT
561180 TCTTCAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.36, C:0.05, G:0.36, T:0.24
Consensus pattern (22 bp):
TTTGACAAAGGGGGAGAAATGC
Found at i:561189 original size:22 final size:22
Alignment explanation
Indices: 561145--561200 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
561135 AGATTTGACA
**
561145 AAGGGGGAGAAATGCTTTGATT
1 AAGGGGGAGAAATGCTTCAATT
*
561167 AAGGGGGAGAAATTCTTCAATT
1 AAGGGGGAGAAATGCTTCAATT
561189 AAGGGGGAGAAA
1 AAGGGGGAGAAA
561201 AATGAAAACT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.38, C:0.05, G:0.36, T:0.21
Consensus pattern (22 bp):
AAGGGGGAGAAATGCTTCAATT
Found at i:561742 original size:13 final size:13
Alignment explanation
Indices: 561724--561750 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
561714 ACATTATGCT
561724 TTGTATCGATACA
1 TTGTATCGATACA
561737 TTGTATCGATACA
1 TTGTATCGATACA
561750 T
1 T
561751 GTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:561759 original size:19 final size:19
Alignment explanation
Indices: 561735--561775 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
561725 TGTATCGATA
561735 CATTGTATCGATACATGTT
1 CATTGTATCGATACATGTT
561754 CATTGTATCGATACATGTT
1 CATTGTATCGATACATGTT
561773 CAT
1 CAT
561776 GGACAATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.27, C:0.17, G:0.15, T:0.41
Consensus pattern (19 bp):
CATTGTATCGATACATGTT
Found at i:561855 original size:20 final size:20
Alignment explanation
Indices: 561826--561878 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
561816 TACCACTGTT
* *
561826 TGTATTGATACATGGT-ACAA
1 TGTATCGATACATGATGA-AA
*
561846 TGTATCGATACATGATGAAT
1 TGTATCGATACATGATGAAA
561866 TGTATCGATACAT
1 TGTATCGATACAT
561879 TTCTTGTAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 28 0.97
21 1 0.03
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATGATGAAA
Found at i:562847 original size:21 final size:20
Alignment explanation
Indices: 562823--562865 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
562813 TTCTTTAAAT
562823 AAGAAAAACAAAAAAAGAGAA
1 AAGAAAAACAAAAAAA-AGAA
*
562844 AAGAAAAAGAAAAAAAAGAA
1 AAGAAAAACAAAAAAAAGAA
562864 AA
1 AA
562866 ATTATGACAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.84, C:0.02, G:0.14, T:0.00
Consensus pattern (20 bp):
AAGAAAAACAAAAAAAAGAA
Found at i:562856 original size:20 final size:21
Alignment explanation
Indices: 562827--562865 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
562817 TTAAATAAGA
*
562827 AAAACAAAAAAAGAGAAAAGA
1 AAAACAAAAAAAAAGAAAAGA
*
562848 AAAA-GAAAAAAAAGAAAA
1 AAAACAAAAAAAAAGAAAA
562866 ATTATGACAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.85, C:0.03, G:0.13, T:0.00
Consensus pattern (21 bp):
AAAACAAAAAAAAAGAAAAGA
Found at i:564688 original size:92 final size:90
Alignment explanation
Indices: 564444--564688 Score: 226
Period size: 90 Copynumber: 2.7 Consensus size: 90
564434 AAACAGAAAT
* * ** * *
564444 GATGCAGCCCACACATTTTTAATCATATCCCCTTTATCT-AACCACTAGATGATATTGATGCATC
1 GATGCAGACCACATATTCCTAATCATATCCCCTTT-TCTCCACCACTAGATGGTATTGATGCATC
* * *
564508 ACCAAGCCTAATTTCCTTAGGGCAAG
65 ACAAAGCCCAATATCCTTAGGGCAAG
* * * * * * *
564534 GGTGCAGCCCACATATTCCTAATCATAT-TCC-TTTCACCCATCTACTAGATGGTACTCATGCAT
1 GATGCAGACCACATATTCCTAATCATATCCCCTTTTC-TCCA-CCACTAGATGGTATTGATGCAT
* *
564597 CACAAAGCCCGATATCCTTGGGGCAAG
64 CACAAAGCCCAATATCCTTAGGGCAAG
* * * *
564624 GATATCTCGACCACTTATTCCTAATCATATCCCCTTTTCTCCACCACTAGAAGGTATTGATGCAT
1 GAT-GC-AGACCACATATTCCTAATCATATCCCCTTTTCTCCACCACTAGATGGTATTGATGCAT
564689 TACATGACCA
Statistics
Matches: 121, Mismatches: 27, Indels: 12
0.76 0.17 0.08
Matches are distributed among these distances:
87 2 0.02
88 2 0.02
89 3 0.02
90 66 0.55
91 1 0.01
92 38 0.31
93 5 0.04
94 4 0.03
ACGTcount: A:0.28, C:0.29, G:0.14, T:0.30
Consensus pattern (90 bp):
GATGCAGACCACATATTCCTAATCATATCCCCTTTTCTCCACCACTAGATGGTATTGATGCATCA
CAAAGCCCAATATCCTTAGGGCAAG
Found at i:565273 original size:16 final size:18
Alignment explanation
Indices: 565235--565273 Score: 57
Period size: 16 Copynumber: 2.3 Consensus size: 18
565225 TACTTTGGTC
565235 ATAAAATGAAAAAAATAG
1 ATAAAATGAAAAAAATAG
565253 A-AAAAT-AAAAAAATA-
1 ATAAAATGAAAAAAATAG
565268 ATAAAA
1 ATAAAA
565274 ACAAGGTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 1 0.05
16 13 0.65
17 5 0.25
18 1 0.05
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.15
Consensus pattern (18 bp):
ATAAAATGAAAAAAATAG
Found at i:569708 original size:21 final size:21
Alignment explanation
Indices: 569667--569708 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
569657 CAAAGAAGCT
*
569667 CAAGATCAAATGAATCATCGG
1 CAAGATCAAATGAAGCATCGG
*
569688 CAAGATGAAATGCAAGC-TCGG
1 CAAGATCAAATG-AAGCATCGG
569709 TTAACAAAGC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.40, C:0.19, G:0.24, T:0.17
Consensus pattern (21 bp):
CAAGATCAAATGAAGCATCGG
Found at i:573923 original size:51 final size:51
Alignment explanation
Indices: 573860--573975 Score: 133
Period size: 51 Copynumber: 2.3 Consensus size: 51
573850 TTTTCGAAGA
* ** *
573860 GATACTCAAACCCCTGTTTTATTTCTAAAACACCAATTTTCCACCATCGGG
1 GATACTCCAACCCCAATTTTATTTCTAAAACACCAATTTTCCACAATCGGG
* * * * * * *
573911 GATACTCCAACCCCAATTTTATTTTTAGAATATCGATTTTTCACAATCTGG
1 GATACTCCAACCCCAATTTTATTTCTAAAACACCAATTTTCCACAATCGGG
573962 GATACTCCAACCCC
1 GATACTCCAACCCC
573976 GTTATTTCTG
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 54 1.00
ACGTcount: A:0.29, C:0.28, G:0.09, T:0.33
Consensus pattern (51 bp):
GATACTCCAACCCCAATTTTATTTCTAAAACACCAATTTTCCACAATCGGG
Found at i:573923 original size:79 final size:80
Alignment explanation
Indices: 573639--573922 Score: 256
Period size: 79 Copynumber: 3.6 Consensus size: 80
573629 TCATTCATGT
* * * * *
573639 TTTTATTTCTAAAACACCGATTTTTCACCATCAGGGACACTCGAACCTCGTTATTTTCG-AGGGA
1 TTTTATTTCTAAAACACCAATTTTCCACAATCAGGGATACTCCAACCTCGTTATTTTCGAAGGG-
*
573703 ATATTCCAA-CTCTGA
65 ATACTCCAACCTCTGA
* * * * ** * *
573718 TTTTATTTTTAAAACATCAATTTTTCATAATCAAAGATACTCTAACCTCGTTATTTTTGAAGGGA
1 TTTTATTTCTAAAACACCAATTTTCCACAATCAGGGATACTCCAACCTCGTTATTTTCGAAGGGA
573783 TACTCCAACCTC-GA
66 TACTCCAACCTCTGA
* * * * * ** * *
573797 TTTTATTTTTAAAATATCGATTTTCCAAAATGGGGGATAC-CCTAACC-CTATTATTTTCGAAGA
1 TTTTATTTCTAAAACACCAATTTTCCACAATCAGGGATACTCC-AACCTC-GTTATTTTCGAAGG
* *
573860 GATACTCAAACCCCTG-
64 GATACTCCAACCTCTGA
* *
573876 TTTTATTTCTAAAACACCAATTTTCCACCATCGGGGATACTCCAACC
1 TTTTATTTCTAAAACACCAATTTTCCACAATCAGGGATACTCCAACC
573923 CCAATTTTAT
Statistics
Matches: 167, Mismatches: 32, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
78 2 0.01
79 155 0.93
80 10 0.06
ACGTcount: A:0.31, C:0.23, G:0.11, T:0.36
Consensus pattern (80 bp):
TTTTATTTCTAAAACACCAATTTTCCACAATCAGGGATACTCCAACCTCGTTATTTTCGAAGGGA
TACTCCAACCTCTGA
Found at i:573993 original size:79 final size:79
Alignment explanation
Indices: 573910--574082 Score: 188
Period size: 79 Copynumber: 2.2 Consensus size: 79
573900 CCACCATCGG
* * * * * *
573910 GGATACTCCAACCCCAATTTTATTTTTAGAATATC-GATTTTTCACAATCTGGGATACTCCAACC
1 GGATACTCCAACCCCAATTTTATTTTCAGAACACCAGCTTTCT-ACAATCGGGGATACTCCAACC
*
573974 CCGTTATTTCTGAA-A
65 CCGTTATTTAT-AAGA
** ** * *
573989 GGATACTCTTACCTTAGTTTTATTTTCAGAACACCAGCTTTCTACAATCGGGGATACTCCAGCCC
1 GGATACTCCAACCCCAATTTTATTTTCAGAACACCAGCTTTCTACAATCGGGGATACTCCAACCC
*
574054 CGTTATTTATAAGG
66 CGTTATTTATAAGA
574068 GGATACTCCAACCCC
1 GGATACTCCAACCCC
574083 GTCTTTATCT
Statistics
Matches: 74, Mismatches: 18, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
78 2 0.03
79 67 0.91
80 5 0.07
ACGTcount: A:0.27, C:0.26, G:0.14, T:0.33
Consensus pattern (79 bp):
GGATACTCCAACCCCAATTTTATTTTCAGAACACCAGCTTTCTACAATCGGGGATACTCCAACCC
CGTTATTTATAAGA
Found at i:574012 original size:130 final size:130
Alignment explanation
Indices: 573779--574054 Score: 310
Period size: 130 Copynumber: 2.1 Consensus size: 130
573769 TATTTTTGAA
* * *
573779 GGGATACTCCAACCTCGATTTTATTTTTAAAATATCGATTTTCCAAAATGGGGGATACCCTAACC
1 GGGATACTCCAACCCCAATTTTATTTTTAAAATATCGATTTTCCAAAATCGGGGATACCCTAACC
* * *
573844 CTATTATTTTCGAAGAGATACTCAAACCCCTGTTTTA-TTTCTAAAACACCAATTTTCCACCATC
66 CCATTATTTTCGAAGAGATACTCAAACCCCTGTTTTATTTTC-AAAACACCAACTTTCCACAATC
573908 G
130 G
* * * *
573909 GGGATACTCCAACCCCAATTTTATTTTTAGAATATCGATTTTTCACAATCTGGGATACTCC-AAC
1 GGGATACTCCAACCCCAATTTTATTTTTAAAATATCGATTTTCCAAAATCGGGGATAC-CCTAAC
* ** * * * *
573973 CCCGTTA-TTTCTGAA-AGGATACTCTTA-CCTTAGTTTTATTTTCAGAACACCAGCTTTCTACA
65 CCCATTATTTTC-GAAGA-GATACTCAAACCCCT-GTTTTATTTTCAAAACACCAACTTTCCACA
574035 ATCG
127 ATCG
*
574039 GGGATACTCCAGCCCC
1 GGGATACTCCAACCCC
574055 GTTATTTATA
Statistics
Matches: 123, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
129 8 0.07
130 109 0.89
131 6 0.05
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.34
Consensus pattern (130 bp):
GGGATACTCCAACCCCAATTTTATTTTTAAAATATCGATTTTCCAAAATCGGGGATACCCTAACC
CCATTATTTTCGAAGAGATACTCAAACCCCTGTTTTATTTTCAAAACACCAACTTTCCACAATCG
Found at i:581289 original size:16 final size:13
Alignment explanation
Indices: 581259--581299 Score: 57
Period size: 14 Copynumber: 3.2 Consensus size: 13
581249 AAAATAACAC
581259 AAAAAAGAGAAAG
1 AAAAAAGAGAAAG
581272 AAAAAAGAAGAAAG
1 AAAAAAG-AGAAAG
*
581286 AGAAAAGA-AAAG
1 AAAAAAGAGAAAG
581298 AA
1 AA
581300 CCTGCCTAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 5 0.20
13 8 0.32
14 12 0.48
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (13 bp):
AAAAAAGAGAAAG
Found at i:582433 original size:61 final size:61
Alignment explanation
Indices: 582270--582974 Score: 785
Period size: 61 Copynumber: 11.4 Consensus size: 61
582260 AACCATTTAT
* * * **
582270 CCTTCCAGTTCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAAGACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * *
582331 -CTATCCAGTCCTC-AAGAGCAGGACATCTTTTCCTTTTAAAGCCTACACAAGTTGATGGCA
1 CCT-TTCAGTCCTCAAAGAGCAAGACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* **
582391 CCTTTCAGTCCTCGAAGAGCAAGACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTCACA
1 CCTTTCAGTCCTCAAAGAGCAAGACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * *
582452 CCTTTTAGTCCTCAAAGAGCAGGATGTTTTTTCCCTTTAATA-CCCATACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAAGACGTCTTTTCCTTTTAA-AGCCCACACAAGTTGGTGGCA
* * *
582513 CCTTTCAGTCCTCGAAGAGCAAGATGTCTTTTCCTTTTAAAGCCCACATAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAAGACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
*
582574 CCTTTCAGTCCTCAAAGAGCAGGACG-CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAAGACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
582634 CCTTTCAGTCCTCAAAGAGCAAGACGTCTTTTCCTTTTAAAGCCCACATAAATTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAAGACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * * *
582695 CCTTTTAGTCCTCAAAGAGTAGGATGCCTTTTCCTTTTAAAGGCCACATAAGTTGGTGGCA
1 CCTTTCAGTCCTCAAAGAGCAAGACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * ** *
582756 CCTTCCAGTCCTCAAAGAGTAAGACG-CTTTCTCCTTGCAAAGCCCACACAAGTTGGAGGCA
1 CCTTTCAGTCCTCAAAGAGCAAGACGTCTTT-TCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
582817 CC-TTCTAGTCCTCAAAGAGCATGACACTTTCCTTTCTCCTTTTAAAGCCCACATAAGTTGGTGA
1 CCTTTC-AGTCCTCAAAGAGCA--AGAC-GT-CTTT-TCCTTTTAAAGCCCACACAAGTTGGTGG
582881 CA
60 CA
* * * * *
582883 CC-TTCTAGTCCCCAAAGAGTAGGACACTTTCTTCTCTCATTTTAAAGCCCACACAAGTTGGTGG
1 CCTTTC-AGTCCTCAAAGAGCA--AGAC-GTCTT-T-TCCTTTTAAAGCCCACACAAGTTGGTGG
582947 CA
60 CA
* * *
582949 CCTTTTAGTTCTCAAAGAGCAGGACG
1 CCTTTCAGTCCTCAAAGAGCAAGACG
582975 CACTTCATTT
Statistics
Matches: 557, Mismatches: 72, Indels: 28
0.85 0.11 0.04
Matches are distributed among these distances:
60 120 0.22
61 326 0.59
62 1 0.00
63 3 0.01
64 2 0.00
65 3 0.01
66 100 0.18
67 2 0.00
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (61 bp):
CCTTTCAGTCCTCAAAGAGCAAGACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:582712 original size:243 final size:243
Alignment explanation
Indices: 582270--582972 Score: 871
Period size: 243 Copynumber: 2.8 Consensus size: 243
582260 AACCATTTAT
* * *
582270 CCTTCCAGTTCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CTA
1 CCTTCCAGTCCTCAAAGAGCAAGAC-GCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCT-
* * *
582334 TCCAGTCCTC-AAGAGCAGGACAT-CTTTTCCTTTTAAAGCCTACACAAGTTGATGGCACCTTTC
64 TTCAGTCCTCAAAGAGCAGGAC-TCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* **
582397 AGTCCTCGAAGAGCAAGACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTCACACCTTTTAGTC
128 AGTCCTCAAAGAGCAAGACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTC
** *
582462 CTCAAAGAGCAGGATGTTTTTTCCCTTTAATA-CCCATACAAGTTGGTGGCA
193 CTCAAAGAGCAGGATGCCTTTTCCCTTTAA-AGCCCACACAAGTTGGTGGCA
* * * *
582513 CCTTTCAGTCCTCGAAGAGCAAGATGTCTTTTCCTTTTAAAGCCCACATAAGTTGGTGGCACCTT
1 CCTTCCAGTCCTCAAAGAGCAAGACG-CTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
*
582578 TCAGTCCTCAAAGAGCAGGAC-GCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAG
65 TCAGTCCTCAAAGAGCAGGACTCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAG
* *
582642 TCCTCAAAGAGCAAGACGTCTTTTCCTTTTAAAGCCCACATAAATTGGTGGCACCTTTTAGTCCT
130 TCCTCAAAGAGCAAGACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCT
* * * *
582707 CAAAGAGTAGGATGCCTTTTCCTTTTAAAGGCCACATAAGTTGGTGGCA
195 CAAAGAGCAGGATGCCTTTTCCCTTTAAAGCCCACACAAGTTGGTGGCA
* ** *
582756 CCTTCCAGTCCTCAAAGAGTAAGACGCTTTCTCCTTGCAAAGCCCACACAAGTTGGAGGCACC-T
1 CCTTCCAGTCCTCAAAGAGCAAGACGCTTT-TCCTTTTAAAGCCCACACAAGTTGGTGGCACCTT
* * *
582820 TCTAGTCCTCAAAGAGCATGACACTTTCCTTTCTCCTTTTAAAGCCCACATAAGTTGGTGACACC
65 TC-AGTCCTCAAAGAGCA-G-GAC--TCCTTT-TCCTTTTAAAGCCCACACAAGTTGGTGGCACC
* * * * *
582885 -TTCTAGTCCCCAAAGAGTAGGACACTTTCTTCTCTCATTTTAAAGCCCACACAAGTTGGTGGCA
124 TTTC-AGTCCTCAAAGAGCA--AGAC-GTCTT-T-TCCTTTTAAAGCCCACACAAGTTGGTGGCA
*
582949 CCTTTTAGTTCTCAAAGAGCAGGA
183 CCTTTTAGTCCTCAAAGAGCAGGA
582973 CGCACTTCAT
Statistics
Matches: 398, Mismatches: 43, Indels: 27
0.85 0.09 0.06
Matches are distributed among these distances:
242 8 0.02
243 267 0.67
244 14 0.04
245 2 0.01
248 7 0.02
249 43 0.11
251 3 0.01
252 4 0.01
253 1 0.00
254 49 0.12
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (243 bp):
CCTTCCAGTCCTCAAAGAGCAAGACGCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
CAGTCCTCAAAGAGCAGGACTCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
CCTCAAAGAGCAAGACGTCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTC
AAAGAGCAGGATGCCTTTTCCCTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:583061 original size:33 final size:33
Alignment explanation
Indices: 583024--583086 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
583014 ATTTCATTCA
* *
583024 TTTTTCCTTTGTCCTCGAAGAGTAGGATGCACT
1 TTTTTCCTTTGTCCTCAAAGAGCAGGATGCACT
*
583057 TTTTTTCTTTGTCCTCAAAGAGCAGGATGC
1 TTTTTCCTTTGTCCTCAAAGAGCAGGATGC
583087 CCCTTCCTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.19, C:0.21, G:0.21, T:0.40
Consensus pattern (33 bp):
TTTTTCCTTTGTCCTCAAAGAGCAGGATGCACT
Found at i:591391 original size:28 final size:28
Alignment explanation
Indices: 591347--591745 Score: 241
Period size: 28 Copynumber: 13.9 Consensus size: 28
591337 TGGTAATACT
*
591347 AGTGGCA-CCCTTCAAAGCCCATAAGTC
1 AGTGGCACCCCTTCAAAGCCCACAAGTC
*
591374 AGTGGCACCCCTTCAAAGCCCATAAGTC
1 AGTGGCACCCCTTCAAAGCCCACAAGTC
* * *
591402 ATTGGCAACCCTTCAAAGCCCATAAGTC
1 AGTGGCACCCCTTCAAAGCCCACAAGTC
** ** *
591430 AGTGGCA-CCCTT-TTAGCTTACAAGTT
1 AGTGGCACCCCTTCAAAGCCCACAAGTC
* *
591456 AGTAGCA-CTCTTCCAAAGCCCACAAGTC
1 AGTGGCACCCCTT-CAAAGCCCACAAGTC
* ** *
591484 AGTGACACCTTTTTTAAAGCCCACACAAGTC
1 AGTGGCACC-CCTTCAAAG-CC-CACAAGTC
* * *
591515 -GATGGCAACCTCTCTCAAAGCCCACGAGTT
1 AG-TGGC-ACCCCT-TCAAAGCCCACAAGTC
* * *
591545 AGTGGCACCCTTTCGAAGCCTACAAGTC
1 AGTGGCACCCCTTCAAAGCCCACAAGTC
* * *
591573 AGTGGCACCCTTTTAAAGCCCATAAGTC
1 AGTGGCACCCCTTCAAAGCCCACAAGTC
* **
591601 AGTGGCATCTTTTCAAAGCCCACAAGTC
1 AGTGGCACCCCTTCAAAGCCCACAAGTC
* ** * *
591629 AATGGCATTCTTTTAAAGCCCACAAGTC
1 AGTGGCACCCCTTCAAAGCCCACAAGTC
* * * *
591657 AATGGCATCCTTTTAAAGCCCACACAAGTC
1 AGTGGCACCCCTTCAAAG-CC-CACAAGTC
* **
591687 GGTGGCAACCTTTTCTAAAAGCTCACACAAGTC
1 AGTGGC-ACCCCTTC--AAAGC-C-CACAAGTC
* *
591720 GGTGGCAACCCTCTCAAAAGCCCACA
1 AGTGGCACCCCT-TC-AAAGCCCACA
591746 CAAGTTGGTG
Statistics
Matches: 302, Mismatches: 52, Indels: 33
0.78 0.13 0.09
Matches are distributed among these distances:
26 18 0.06
27 12 0.04
28 167 0.55
29 11 0.04
30 32 0.11
31 22 0.07
32 18 0.06
33 22 0.07
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.23
Consensus pattern (28 bp):
AGTGGCACCCCTTCAAAGCCCACAAGTC
Found at i:591434 original size:56 final size:55
Alignment explanation
Indices: 591347--591745 Score: 291
Period size: 56 Copynumber: 6.9 Consensus size: 55
591337 TGGTAATACT
* * *
591347 AGTGGCACCCTTCAAAGCCCATAAGTCAGTGGCACCCCTTCAAAGCCCATAAGTC
1 AGTGGCACCCTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTC
* * * ** *
591402 ATTGGCAACCCTTCAAAGCCCATAAGTCAGTGGCACCCTTT--TAGCTTACAAGTT
1 AGTGGC-ACCCTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTC
* * * * *
591456 AGTAGCACTCTTCCAAAGCCCACAAGTCAGTGACACCTTTTTTAAAGCCCACACAAGTC
1 AGTGGCACCCTT-CAAAGCCCACAAGTCAGTGGCACC-CTTTCAAAG-CC-CACAAGTC
* * * *
591515 -GATGGCAACCTCTCTCAAAGCCCACGAGTTAGTGGCACCCTTTCGAAGCCTACAAGTC
1 AG-TGGC-ACC-CT-TCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTC
* * * *
591573 AGTGGCACCCTTTTAAAGCCCATAAGTCAGTGGCATCTTTTCAAAGCCCACAAGTC
1 AGTGGCACCC-TTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTC
* * * * * * *
591629 AATGGCATTCTTTTAAAGCCCACAAGTCAATGGCATCCTTTTAAAGCCCACACAAGTC
1 AGTGGCA-CCCTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG-CC-CACAAGTC
* * * *
591687 GGTGGCAACCTTTTCTAAAAGCTCACACAAGTCGGTGGCAACCCTCTCAAAAGCCCACA
1 AGTGGC-ACC-CTTC--AAAGC-C-CACAAGTCAGTGGC-ACCCTTTC-AAAGCCCACA
591746 CAAGTTGGTG
Statistics
Matches: 270, Mismatches: 50, Indels: 40
0.75 0.14 0.11
Matches are distributed among these distances:
53 5 0.02
54 34 0.13
55 8 0.03
56 107 0.40
57 9 0.03
58 26 0.10
59 16 0.06
60 8 0.03
61 28 0.10
62 2 0.01
63 16 0.06
64 7 0.03
65 4 0.01
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.23
Consensus pattern (55 bp):
AGTGGCACCCTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTC
Found at i:591756 original size:32 final size:33
Alignment explanation
Indices: 591671--591758 Score: 133
Period size: 33 Copynumber: 2.7 Consensus size: 33
591661 GCATCCTTTT
* *
591671 AAAGCCCACACAAGTCGGTGGCAACCTTTTCTA
1 AAAGCCCACACAAGTCGGTGGCAACCCTCTCTA
*
591704 AAAGCTCACACAAGTCGGTGGCAACCCTCTC-A
1 AAAGCCCACACAAGTCGGTGGCAACCCTCTCTA
*
591736 AAAGCCCACACAAGTTGGTGGCA
1 AAAGCCCACACAAGTCGGTGGCA
591759 TCTCTTTCTA
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
32 22 0.44
33 28 0.56
ACGTcount: A:0.32, C:0.31, G:0.20, T:0.17
Consensus pattern (33 bp):
AAAGCCCACACAAGTCGGTGGCAACCCTCTCTA
Found at i:593206 original size:20 final size:20
Alignment explanation
Indices: 593172--593225 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
593162 GTTATTGGGG
593172 AGAAA-AAAGGAAAAAGAAGA
1 AGAAAGAAA-GAAAAAGAAGA
*
593192 AGGAAGAAAGAAAAAGAAGA
1 AGAAAGAAAGAAAAAGAAGA
593212 AGAAAGAAA-AAAAA
1 AGAAAGAAAGAAAAA
593226 ATGGAGTGGC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (20 bp):
AGAAAGAAAGAAAAAGAAGA
Found at i:593213 original size:16 final size:17
Alignment explanation
Indices: 593188--593222 Score: 63
Period size: 16 Copynumber: 2.1 Consensus size: 17
593178 AAGGAAAAAG
593188 AAGAAGGAAGAAAGAAA
1 AAGAAGGAAGAAAGAAA
593205 AAGAA-GAAGAAAGAAA
1 AAGAAGGAAGAAAGAAA
593221 AA
1 AA
593223 AAAATGGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (17 bp):
AAGAAGGAAGAAAGAAA
Found at i:595841 original size:35 final size:34
Alignment explanation
Indices: 595787--595882 Score: 129
Period size: 35 Copynumber: 2.8 Consensus size: 34
595777 AAAATTGCTC
* * *
595787 TCAAGCTCTTTCCATCATCGTTTGACTGTATCTGG
1 TCAAACTCTTTCCATCATCGTTTGACTGAATCT-A
* *
595822 TCAAACTTTTTCCATCATCGTTTAACTGAATCTA
1 TCAAACTCTTTCCATCATCGTTTGACTGAATCTA
*
595856 TCAAACTCTTTCCATCATCATTTGACT
1 TCAAACTCTTTCCATCATCGTTTGACT
595883 ATACTCAGTC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
34 24 0.45
35 29 0.55
ACGTcount: A:0.24, C:0.26, G:0.09, T:0.41
Consensus pattern (34 bp):
TCAAACTCTTTCCATCATCGTTTGACTGAATCTA
Found at i:595924 original size:30 final size:30
Alignment explanation
Indices: 595891--596083 Score: 101
Period size: 30 Copynumber: 6.4 Consensus size: 30
595881 CTATACTCAG
*
595891 TCAAATCTTACCCCTCTTGACTGTATTCGG
1 TCAAATCTTACCCCTCTTGACTGTATTCGA
* * * *
595921 TCAAGTCTTTCCTCAT-TTGACTGTACTCGA
1 TCAAATCTTACC-CCTCTTGACTGTATTCGA
* * *
595951 TTAAATCTCATCCCTCTTGACTGTATTCGA
1 TCAAATCTTACCCCTCTTGACTGTATTCGA
* * * *
595981 TCAAGA-C-TA-TCCTCATTTGATTGTATTTGG
1 TCAA-ATCTTACCCCTC--TTGACTGTATTCGA
* *
596011 TCAAAT-TTCACCCCCGCTTGATTGTATTCGA
1 TCAAATCTT-A-CCCCTCTTGACTGTATTCGA
* * * * * *
596042 TCAAGTCTTTCCTCAT-TTGATTATACTCGA
1 TCAAATCTTACC-CCTCTTGACTGTATTCGA
596072 TCAAATCTTACC
1 TCAAATCTTACC
596084 TTTTTTATTA
Statistics
Matches: 121, Mismatches: 30, Indels: 24
0.69 0.17 0.14
Matches are distributed among these distances:
28 4 0.03
29 4 0.03
30 86 0.71
31 22 0.18
32 2 0.02
33 3 0.02
ACGTcount: A:0.23, C:0.26, G:0.12, T:0.39
Consensus pattern (30 bp):
TCAAATCTTACCCCTCTTGACTGTATTCGA
Found at i:596057 original size:121 final size:120
Alignment explanation
Indices: 595901--596308 Score: 494
Period size: 121 Copynumber: 3.4 Consensus size: 120
595891 TCAAATCTTA
* * * * *
595901 CCCCTCTTGACTGTATTCGGTCAAGTCTTTCCTCATTTGACTGTACTCGATTAAATCTCATCCCT
1 CCCCGCTTGACTGTATTCGATCAAGTCTTTCCTCATTTGACTGTACTCGATCAAATCTTA-CCTT
* *
595966 CTTGACTGTATTCGATCAAGACTATCCTCATTTGATTGTATTTGGTCAAATTTCAC
65 CTTGACTGTATTCGGTCAAGACTATCCTTATTTGATTGTATTTGGTCAAATTTCAC
* * * *
596022 CCCCGCTTGATTGTATTCGATCAAGTCTTTCCTCATTTGATTATACTCGATCAAATCTTACCTTT
1 CCCCGCTTGACTGTATTCGATCAAGTCTTTCCTCATTTGACTGTACTCGATCAAATCTTACCTTC
* * * * **
596087 TTTATTATATTCGGTCAAGACTATCCTTATTTGAATGTATTCAGTCAAATTTCAC
66 TTGACTGTATTCGGTCAAGACTATCCTTATTTGATTGTATTTGGTCAAATTTCAC
** * * * ** * *
596142 CTTCGCTGGACTGTATTCTATCAAGTCTTTCCTCATTTGATTGTTTTTGGTCAAATCTTACCTTT
1 CCCCGCTTGACTGTATTCGATCAAGTCTTTCCTCATTTGACTGTACTCGATCAAATCTTACC-TT
596207 CTTGACTGTATTCGGTCAAGACTATCCTTATTTGATTGTATTTGGTCAAATTTCAC
65 CTTGACTGTATTCGGTCAAGACTATCCTTATTTGATTGTATTTGGTCAAATTTCAC
* * * * * *
596263 CCTCGCTTGACTATATTC-AGCCAAGTCTTTCATCGTTTGACCGTAC
1 CCCCGCTTGACTGTATTCGA-TCAAGTCTTTCCTCATTTGACTGTAC
596309 CCAGTCAAAC
Statistics
Matches: 241, Mismatches: 44, Indels: 4
0.83 0.15 0.01
Matches are distributed among these distances:
120 103 0.43
121 138 0.57
ACGTcount: A:0.22, C:0.23, G:0.13, T:0.42
Consensus pattern (120 bp):
CCCCGCTTGACTGTATTCGATCAAGTCTTTCCTCATTTGACTGTACTCGATCAAATCTTACCTTC
TTGACTGTATTCGGTCAAGACTATCCTTATTTGATTGTATTTGGTCAAATTTCAC
Found at i:596247 original size:30 final size:30
Alignment explanation
Indices: 595967--596255 Score: 110
Period size: 30 Copynumber: 9.6 Consensus size: 30
595957 CTCATCCCTC
* * *
595967 TTGACTGTATTCGATCAAGACTATCCTCAT
1 TTGATTGTATTCGGTCAAGACTATCCTTAT
* * * ****
595997 TTGATTGTATTTGGTCAA-ATTTCACCCCCGC
1 TTGATTGTATTCGGTCAAGA-CT-ATCCTTAT
* * * *
596028 TTGATTGTATTCGATCAAGTCTTTCCTCAT
1 TTGATTGTATTCGGTCAAGACTATCCTTAT
* * *
596058 TTGATTATACTCGATCAA-ATCT-TACCTT-T
1 TTGATTGTATTCGGTCAAGA-CTAT-CCTTAT
* *
596087 TTTATTATATTCGGTCAAGACTATCCTTAT
1 TTGATTGTATTCGGTCAAGACTATCCTTAT
* * * **
596117 TTGAATGTATTCAGTCAA-A-TTTCACCTTCGC
1 TTGATTGTATTCGGTCAAGACTAT--CCTT-AT
* * ** * * *
596148 TGGACTGTATTCTATCAAGTCTTTCCTCAT
1 TTGATTGTATTCGGTCAAGACTATCCTTAT
* *
596178 TTGATTGTTTTTGGTCAA-ATCT-TACCTT-T
1 TTGATTGTATTCGGTCAAGA-CTAT-CCTTAT
*
596207 CTTGACTGTATTCGGTCAAGACTATCCTTAT
1 -TTGATTGTATTCGGTCAAGACTATCCTTAT
*
596238 TTGATTGTATTTGGTCAA
1 TTGATTGTATTCGGTCAA
596256 ATTTCACCCT
Statistics
Matches: 188, Mismatches: 52, Indels: 38
0.68 0.19 0.14
Matches are distributed among these distances:
28 2 0.01
29 27 0.14
30 115 0.61
31 41 0.22
33 3 0.02
ACGTcount: A:0.23, C:0.20, G:0.13, T:0.44
Consensus pattern (30 bp):
TTGATTGTATTCGGTCAAGACTATCCTTAT
Found at i:596428 original size:12 final size:12
Alignment explanation
Indices: 596411--596444 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
596401 TCAAACCCTT
*
596411 CTAACCCTTTGA
1 CTAACCCCTTGA
596423 CTAACCCCTTGA
1 CTAACCCCTTGA
596435 CTAACCCCTT
1 CTAACCCCTT
596445 TTGATCAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.24, C:0.41, G:0.06, T:0.29
Consensus pattern (12 bp):
CTAACCCCTTGA
Found at i:596568 original size:42 final size:42
Alignment explanation
Indices: 596520--596878 Score: 309
Period size: 42 Copynumber: 8.6 Consensus size: 42
596510 TTACCCGTCA
* * *
596520 ACTTTGACCCAGGAAACTTCTTTAACCTTTGTCTGCCTATCG
1 ACTTTGACCCAGGAGACTTCTTTACCCTTTGTCTGCCCATCG
** * *
596562 GTTTTGACCTAGGAGACTTCTTTACCCTTTGTTTGCCCATCG
1 ACTTTGACCCAGGAGACTTCTTTACCCTTTGTCTGCCCATCG
* * * * * *
596604 GC-TTAACTC-GAGAGACTTTTTTACCCTTTGTCTGCCTATTG
1 ACTTTGACCCAG-GAGACTTCTTTACCCTTTGTCTGCCCATCG
* *
596645 ACTTTGA-CCTGAGAGACTT-TTTACCCTTTGTCTGCCTATCG
1 ACTTTGACCCAG-GAGACTTCTTTACCCTTTGTCTGCCCATCG
* * * * * *
596686 GCTTTAACCTAGGAGACTTCTTTA-CCTTATATCTACCCGTCG
1 ACTTTGACCCAGGAGACTTCTTTACCCTT-TGTCTGCCCATCG
* * *
596728 ACTTTGACTC-GAGAGACTTCTTTACCCTTTGTCTTCCCATCT
1 ACTTTGACCCAG-GAGACTTCTTTACCCTTTGTCTGCCCATCG
* ** * *
596770 ATTTTGACTTAGGAGACTTTTTTACCCTTTTATCTGCCCATCG
1 ACTTTGACCCAGGAGACTTCTTTACCC-TTTGTCTGCCCATCG
** *
596813 ACTTTGACCTGGGAGAC-TCTTTTACCCTTTGTTTGCCCATCG
1 ACTTTGACCCAGGAGACTTC-TTTACCCTTTGTCTGCCCATCG
* *
596855 GCTTTGACCCATGAGACTTCTTTA
1 ACTTTGACCCAGGAGACTTCTTTA
596879 TCTTCTATCT
Statistics
Matches: 254, Mismatches: 51, Indels: 24
0.77 0.16 0.07
Matches are distributed among these distances:
40 1 0.00
41 70 0.28
42 143 0.56
43 40 0.16
ACGTcount: A:0.18, C:0.27, G:0.16, T:0.39
Consensus pattern (42 bp):
ACTTTGACCCAGGAGACTTCTTTACCCTTTGTCTGCCCATCG
Found at i:596652 original size:83 final size:84
Alignment explanation
Indices: 596530--596858 Score: 334
Period size: 83 Copynumber: 3.9 Consensus size: 84
596520 ACTTTGACCC
* * * * **
596530 AGGAAACTTCTTTAACCTTTGTCTGCCTATCGGTTTTGACCT-AGGAGACTTCTTTACCCTTTGT
1 AGGAGACTTCTTTACCCTTTATCTGCCCATCGACTTTGACCTGA-GAGACTTCTTTACCCTTTGT
*
596594 TTGCCCATCGGCTTAACTCG
65 TTGCCCATCGGCTTAACTCT
* * * * *
596614 A-GAGACTTTTTTACCCTTTGTCTGCCTATTGACTTTGACCTGAGAGACTT-TTTACCCTTTGTC
1 AGGAGACTTCTTTACCCTTTATCTGCCCATCGACTTTGACCTGAGAGACTTCTTTACCCTTTGTT
*
596677 TGCCTATCGGCTTTAAC-CT
66 TGCCCATCGGC-TTAACTCT
* *
596696 AGGAGACTTCTTTA-CCTTATATCTACCCGTCGACTTTGA-CTCGAGAGACTTCTTTACCCTTTG
1 AGGAGACTTCTTTACCCTT-TATCTGCCCATCGACTTTGACCT-GAGAGACTTCTTTACCCTTTG
*** *
596759 TCTT-CCCATCTATTTTGACT-T
64 T-TTGCCCATC-GGCTTAACTCT
* *
596780 AGGAGACTTTTTTACCCTTTTATCTGCCCATCGACTTTGACCTGGGAGAC-TCTTTTACCCTTTG
1 AGGAGACTTCTTTACCC-TTTATCTGCCCATCGACTTTGACCTGAGAGACTTC-TTTACCCTTTG
596844 TTTGCCCATCGGCTT
64 TTTGCCCATCGGCTT
596859 TGACCCATGA
Statistics
Matches: 203, Mismatches: 28, Indels: 28
0.78 0.11 0.11
Matches are distributed among these distances:
82 30 0.15
83 81 0.40
84 43 0.21
85 45 0.22
86 4 0.02
ACGTcount: A:0.17, C:0.27, G:0.16, T:0.40
Consensus pattern (84 bp):
AGGAGACTTCTTTACCCTTTATCTGCCCATCGACTTTGACCTGAGAGACTTCTTTACCCTTTGTT
TGCCCATCGGCTTAACTCT
Found at i:596969 original size:125 final size:126
Alignment explanation
Indices: 596818--597124 Score: 402
Period size: 126 Copynumber: 2.4 Consensus size: 126
596808 CATCGACTTT
* * * * **
596818 GACCTGGGAGACTCTTTTACCCTTTGTTTGCCCATCGGCTTTGACCC-ATGAGACTTCTTTATCT
1 GACCCGGGAGACTTTTTTATCCTTTGTCTGCCCATCGGCTCAGACCCGA-GAGACTTCTTTATCT
596882 TCTATCTACCCGTCAGCTCAGATC-CGGAGACTTCTTTATCTTTTGTCTACCCGTCGGCTCA
65 TCTATCTACCCGTCAGCTCAGATCTCGGAGACTTCTTTATCTTTTGTCTACCCGTCGGCTCA
* *
596943 GACTCGGGAGACTTTTTTATCTTTTGTCTGCCCATCGGCTCAGACCCGAGAGACTTCTTTATCTT
1 GACCCGGGAGACTTTTTTATCCTTTGTCTGCCCATCGGCTCAGACCCGAGAGACTTCTTTATCTT
* * * * * *
597008 TTGTCTACCTGTCAGCTCAGATCTGGGAGACTTTTTTATCTTTTGTCTACCCGTCGGGTCA
66 CTATCTACCCGTCAGCTCAGATCTCGGAGACTTCTTTATCTTTTGTCTACCCGTCGGCTCA
** * * * * *
597069 GACCCAAGAGACTTTTTTATCCTTTGTCTGTCTATCAGCTCAGGCCCGGGAGACTT
1 GACCCGGGAGACTTTTTTATCCTTTGTCTGCCCATCGGCTCAGACCCGAGAGACTT
597125 TTGCACCTTT
Statistics
Matches: 157, Mismatches: 23, Indels: 3
0.86 0.13 0.02
Matches are distributed among these distances:
125 75 0.48
126 82 0.52
ACGTcount: A:0.17, C:0.28, G:0.20, T:0.36
Consensus pattern (126 bp):
GACCCGGGAGACTTTTTTATCCTTTGTCTGCCCATCGGCTCAGACCCGAGAGACTTCTTTATCTT
CTATCTACCCGTCAGCTCAGATCTCGGAGACTTCTTTATCTTTTGTCTACCCGTCGGCTCA
Found at i:597026 original size:84 final size:84
Alignment explanation
Indices: 596867--597126 Score: 335
Period size: 84 Copynumber: 3.1 Consensus size: 84
596857 TTTGACCCAT
* * * * *
596867 GAGACTTCTTTATCTTCTATCTACCCGTCAGCTCAGATCCG-GAGACTTCTTTATCTTTTGTCTA
1 GAGACTTTTTTATCTTTTGTCTACCCGTCGGCTCAGACCCGAGAGACTTCTTTATCTTTTGTCTA
* *
596931 CCCGTCGGCTCAGACTCGG
66 CCTGTCAGCTCAGACTCGG
* *
596950 GAGACTTTTTTATCTTTTGTCTGCCCATCGGCTCAGACCCGAGAGACTTCTTTATCTTTTGTCTA
1 GAGACTTTTTTATCTTTTGTCTACCCGTCGGCTCAGACCCGAGAGACTTCTTTATCTTTTGTCTA
597015 CCTGTCAGCTCAGA-TCTGG
66 CCTGTCAGCTCAGACTC-GG
* * * * *
597034 GAGACTTTTTTATCTTTTGTCTACCCGTCGGGTCAGACCCAAGAGACTTTTTTATCCTTTGTCTG
1 GAGACTTTTTTATCTTTTGTCTACCCGTCGGCTCAGACCCGAGAGACTTCTTTATCTTTTGTCTA
* * * *
597099 TCTATCAGCTCAGGCCCGG
66 CCTGTCAGCTCAGACTCGG
597118 GAGACTTTT
1 GAGACTTTT
597127 GCACCTTTTA
Statistics
Matches: 154, Mismatches: 20, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
83 36 0.23
84 117 0.76
85 1 0.01
ACGTcount: A:0.17, C:0.27, G:0.19, T:0.37
Consensus pattern (84 bp):
GAGACTTTTTTATCTTTTGTCTACCCGTCGGCTCAGACCCGAGAGACTTCTTTATCTTTTGTCTA
CCTGTCAGCTCAGACTCGG
Found at i:597122 original size:42 final size:42
Alignment explanation
Indices: 596867--597126 Score: 288
Period size: 42 Copynumber: 6.2 Consensus size: 42
596857 TTTGACCCAT
* * * *
596867 GAGACTTCTTTATCTTCTATCTACCCGTCAGCTCAGATCC-G
1 GAGACTTTTTTATCTTTTGTCTACCCGTCAGCTCAGACCCGG
* * *
596908 GAGACTTCTTTATCTTTTGTCTACCCGTCGGCTCAGACTCGG
1 GAGACTTTTTTATCTTTTGTCTACCCGTCAGCTCAGACCCGG
* * * *
596950 GAGACTTTTTTATCTTTTGTCTGCCCATCGGCTCAGACCCGA
1 GAGACTTTTTTATCTTTTGTCTACCCGTCAGCTCAGACCCGG
* * * *
596992 GAGACTTCTTTATCTTTTGTCTACCTGTCAGCTCAGATCTGG
1 GAGACTTTTTTATCTTTTGTCTACCCGTCAGCTCAGACCCGG
* * **
597034 GAGACTTTTTTATCTTTTGTCTACCCGTCGGGTCAGACCCAA
1 GAGACTTTTTTATCTTTTGTCTACCCGTCAGCTCAGACCCGG
* ** ** *
597076 GAGACTTTTTTATCCTTTGTCTGTCTATCAGCTCAGGCCCGG
1 GAGACTTTTTTATCTTTTGTCTACCCGTCAGCTCAGACCCGG
597118 GAGACTTTT
1 GAGACTTTT
597127 GCACCTTTTA
Statistics
Matches: 182, Mismatches: 36, Indels: 1
0.83 0.16 0.00
Matches are distributed among these distances:
41 35 0.19
42 147 0.81
ACGTcount: A:0.17, C:0.27, G:0.19, T:0.37
Consensus pattern (42 bp):
GAGACTTTTTTATCTTTTGTCTACCCGTCAGCTCAGACCCGG
Found at i:598585 original size:168 final size:166
Alignment explanation
Indices: 598379--598698 Score: 453
Period size: 168 Copynumber: 1.9 Consensus size: 166
598369 ATTACTAGAG
* * *
598379 TTTCTTCTCCGTAAATTTTTTTGGGAAGATTTTTCTTGGTTTTTAAATTTCAAAATTCATCAAAT
1 TTTCTACTCCGTAAATTTTTTGGGGAAGATTTTTCTTGGTTTTTAAATTTCAAAATTCATAAAAT
* * *
598444 ATCATCATTTAATTCATATTAAATTAGTTCTCAAAAATT-CTTTCATTTTCATGAGTTTTTAAAT
66 ATCATCATTTAATTCATATTAAATCAGTTCTCAAAAATTAATTT-ATTTTCATGA-ATTTTAAAT
* *
598508 TTTTTCCTTGAAATTTCCCTTTTTTCCAAAATACATTGT
129 TTTTCCCTTGAAA-GTCCCTTTTTTCCAAAATACATTGT
* ** * * *
598547 TTTCTACTTCGTAAATTTTTTGGGGGGGATTTTTCTTGGTTTTTAATTTTTAAAATTTATAAAAT
1 TTTCTACTCCGTAAATTTTTTGGGGAAGATTTTTCTTGGTTTTTAAATTTCAAAATTCATAAAAT
* *
598612 ATCATCATTTAATTCATATTAAATCAGTTTTGAAAAATTAATTTATTTTCATGAATTTTAAATTT
66 ATCATCATTTAATTCATATTAAATCAGTTCTCAAAAATTAATTTATTTTCATGAATTTTAAATTT
*
598677 TTCCCTTTAAAGTCCCTTTTTT
131 TTCCCTTGAAAGTCCCTTTTTT
598699 TCGAGAAACC
Statistics
Matches: 134, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
166 10 0.07
167 19 0.14
168 102 0.76
169 3 0.02
ACGTcount: A:0.29, C:0.12, G:0.08, T:0.51
Consensus pattern (166 bp):
TTTCTACTCCGTAAATTTTTTGGGGAAGATTTTTCTTGGTTTTTAAATTTCAAAATTCATAAAAT
ATCATCATTTAATTCATATTAAATCAGTTCTCAAAAATTAATTTATTTTCATGAATTTTAAATTT
TTCCCTTGAAAGTCCCTTTTTTCCAAAATACATTGT
Found at i:599316 original size:40 final size:40
Alignment explanation
Indices: 599276--599587 Score: 197
Period size: 40 Copynumber: 7.8 Consensus size: 40
599266 AAATGAAAAT
* *
599276 AGCAGCTGATGGAGGAGGAAACAATAGCACCAAAAGAAAT
1 AGCAGCTAATGGAGGAGGAAACAATAGCACCAAAAGAAAC
* * * ** * ** *
599316 AGCAGTTGAT--A-GAGGAAGCAGCAACAGTAAACGAAAAC
1 AGCAGCTAATGGAGGAGGAAACAATAGCACCAAAAG-AAAC
** * * * * *
599354 AATAGCTAATGGAGAAAGAAATAGTAGCACTAAAAGAAAC
1 AGCAGCTAATGGAGGAGGAAACAATAGCACCAAAAGAAAC
* *
599394 AGCAGCTAATGGAAGAGGAAACAATAGAACCAAAAGAAAC
1 AGCAGCTAATGGAGGAGGAAACAATAGCACCAAAAGAAAC
* * ** **
599434 AACAGCTAATGGAGGAGGAAGCAGCAGCAGTAAACA-AAGAC
1 AGCAGCTAATGGAGGAGGAAACAATAGCACCAAA-AGAA-AC
* * * * * *
599475 AACAGCTGAT---GGAGGAAGCAGTAGCAGCAAACAAAAAC
1 AGCAGCTAATGGAGGAGGAAACAATAGCACCAAA-AGAAAC
* *
599513 AGCAGCTAATGGAGGAAGAAACAACAGCACCAAAAGAAAC
1 AGCAGCTAATGGAGGAGGAAACAATAGCACCAAAAGAAAC
* *
599553 AGCAGCTGATGGAGGAGGAAAACAACAGCGACCAA
1 AGCAGCTAATGGAGGAGG-AAACAATAGC-ACCAA
599588 CAACAATAGC
Statistics
Matches: 209, Mismatches: 51, Indels: 22
0.74 0.18 0.08
Matches are distributed among these distances:
37 15 0.07
38 41 0.20
39 2 0.01
40 94 0.45
41 52 0.25
42 5 0.02
ACGTcount: A:0.49, C:0.16, G:0.26, T:0.09
Consensus pattern (40 bp):
AGCAGCTAATGGAGGAGGAAACAATAGCACCAAAAGAAAC
Found at i:599366 original size:78 final size:78
Alignment explanation
Indices: 599278--599568 Score: 246
Period size: 78 Copynumber: 3.7 Consensus size: 78
599268 ATGAAAATAG
* * * * * *
599278 CAGCTGATGGAGGAGGAAACAATAGCACCAAAAGAAATAGCAGTTGATAGAGGAAGCAGCAACAG
1 CAGCTAATGGAGGAAGAAACAACAGCACCAAAAGAAACAGCAGCTGATAGAGGAAGCAGTAACAG
*
599343 TAAACGAAAACAA
66 CAAACGAAAACAA
* * * ** * * * *
599356 TAGCTAATGGAGAAAGAAATAGTAGCACTAAAAGAAACAGCAGCTAATGGAAGAGGAAACAATAG
1 CAGCTAATGGAGGAAGAAACAACAGCACCAAAAGAAACAGCAGCTGAT---AGAGGAAGCAGTA-
* *
599421 A-ACCAAAAG-AAACAA
62 ACAGCAAACGAAAACAA
* * * ** * * *
599436 CAGCTAATGGAGGAGGAAGCAGCAGCAGTAAACA-AAGACAACAGCTGATGGAGGAAGCAGTAGC
1 CAGCTAATGGAGGAAGAAACAACAGCACCAAA-AGAA-ACAGCAGCTGATAGAGGAAGCAGTAAC
* *
599500 AGCAAACAAAAACAG
64 AGCAAACGAAAACAA
*
599515 CAGCTAATGGAGGAAGAAACAACAGCACCAAAAGAAACAGCAGCTGATGGAGGA
1 CAGCTAATGGAGGAAGAAACAACAGCACCAAAAGAAACAGCAGCTGATAGAGGA
599569 GGAAAACAAC
Statistics
Matches: 165, Mismatches: 39, Indels: 18
0.74 0.18 0.08
Matches are distributed among these distances:
78 71 0.43
79 34 0.21
80 33 0.20
81 26 0.16
82 1 0.01
ACGTcount: A:0.49, C:0.16, G:0.26, T:0.09
Consensus pattern (78 bp):
CAGCTAATGGAGGAAGAAACAACAGCACCAAAAGAAACAGCAGCTGATAGAGGAAGCAGTAACAG
CAAACGAAAACAA
Found at i:599501 original size:38 final size:38
Alignment explanation
Indices: 599430--599530 Score: 130
Period size: 38 Copynumber: 2.6 Consensus size: 38
599420 GAACCAAAAG
*
599430 AAACAACAGCTAATGGAGGAGGAAGCAGCAGCAGTAAACAA
1 AAACAACAGCTAAT---GGAGGAAGCAGCAGCAGCAAACAA
* * *
599471 AGACAACAGCTGATGGAGGAAGCAGTAGCAGCAAACAA
1 AAACAACAGCTAATGGAGGAAGCAGCAGCAGCAAACAA
*
599509 AAACAGCAGCTAATGGAGGAAG
1 AAACAACAGCTAATGGAGGAAG
599531 AAACAACAGC
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
38 41 0.77
41 12 0.23
ACGTcount: A:0.47, C:0.17, G:0.29, T:0.08
Consensus pattern (38 bp):
AAACAACAGCTAATGGAGGAAGCAGCAGCAGCAAACAA
Found at i:599687 original size:13 final size:13
Alignment explanation
Indices: 599669--599732 Score: 50
Period size: 13 Copynumber: 5.2 Consensus size: 13
599659 AAGGGGAAAA
599669 CAATAGCAACAAC
1 CAATAGCAACAAC
599682 CAATAGCAACCAAC
1 CAATAGCAA-CAAC
*
599696 CACT-GCAAC-AC
1 CAATAGCAACAAC
599707 C--TAGCAACCAAC
1 CAATAGCAA-CAAC
*
599719 CACT-GCAAC-AC
1 CAATAGCAACAAC
599730 CAA
1 CAA
599733 GCAACCACAC
Statistics
Matches: 43, Mismatches: 2, Indels: 14
0.73 0.03 0.24
Matches are distributed among these distances:
9 1 0.02
10 4 0.09
11 8 0.19
12 5 0.12
13 17 0.40
14 8 0.19
ACGTcount: A:0.45, C:0.39, G:0.08, T:0.08
Consensus pattern (13 bp):
CAATAGCAACAAC
Found at i:599711 original size:23 final size:23
Alignment explanation
Indices: 599685--599739 Score: 101
Period size: 23 Copynumber: 2.4 Consensus size: 23
599675 CAACAACCAA
599685 TAGCAACCAACCACTGCAACACC
1 TAGCAACCAACCACTGCAACACC
599708 TAGCAACCAACCACTGCAACACC
1 TAGCAACCAACCACTGCAACACC
*
599731 AAGCAACCA
1 TAGCAACCA
599740 CACAAAAACC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.42, C:0.42, G:0.09, T:0.07
Consensus pattern (23 bp):
TAGCAACCAACCACTGCAACACC
Found at i:601712 original size:158 final size:156
Alignment explanation
Indices: 601109--601868 Score: 725
Period size: 156 Copynumber: 4.9 Consensus size: 156
601099 TCTTACATTG
* * * *
601109 TCATCAGGTCTGCTTTTATGCCGAAGGTGGGTATGTAGGATAGATTCAT-CC-TTTCTATAAT-C
1 TCATCAGGTCTGCTTTAATGCCGAAGGTGGGTATTTAGGATAGGTTCATCCCATTT-TGTAATCC
* * * * * * ** * * * *
601171 TTTTTAAGTCCTTTAGGGGT-GCTAGGTACTTTTATATCAAAGATATTCC-CTAAAGGCATTTTT
65 TTTTTAAGTCATTTAGGGATATCGA-GCACTTCTACGTCGAAGATA-TCCTTTAGAGGCATTTTG
*
601234 GTAATTTTCTAAAACGAAGTCCTAGGTTA
128 GTAATTTTTTAAAACGAAGTCCTAGGTTA
* * *
601263 TCA-CTAGGTCTGCTTTAATGCCAAAGGTGGGTATTTAGAATAGGTTCATTCCATTTTGTAATCC
1 TCATC-AGGTCTGCTTTAATGCCGAAGGTGGGTATTTAGGATAGGTTCATCCCATTTTGTAATCC
* * * * * * *
601327 TTTTTAAGTCCTTTGGGGATATCAAGCACTTCTACGTTGAAGATATCCTCTAGCGGTATTTTGGT
65 TTTTTAAGTCATTTAGGGATATCGAGCACTTCTACGTCGAAGATATCCTTTAGAGGCATTTTGGT
* * *
601392 AATTTTTTAGAACTAAGTCCTAGGTTG
130 AATTTTTTAAAACGAAGTCCTAGGTTA
* * *
601419 TCATC-GAGTTTGCTTTAATGTCGAAGGTGGGAATTTAGGATAGGTTCATCCCATTTTGTAATCC
1 TCATCAG-GTCTGCTTTAATGCCGAAGGTGGGTATTTAGGATAGGTTCATCCCATTTTGTAATCC
* * * * * *
601483 TTTTTAAGTCATTTAGGGATATTGGGCATTTCTACATCGAAGATATCCTTTATAGGTATTTTGGT
65 TTTTTAAGTCATTTAGGGATATCGAGCACTTCTACGTCGAAGATATCCTTTAGAGGCATTTTGGT
* * *
601548 AATTTTTTAAAACCAAGTCTTAAGTTA
130 AATTTTTTAAAACGAAGTCCTAGGTTA
* * * * *
601575 TCATCGGGTCTGCATTAATGTCGAAGGTGGGTATTTAGGATAAGTTCATCCCATTTTTGTATTCC
1 TCATCAGGTCTGCTTTAATGCCGAAGGTGGGTATTTAGGATAGGTTCATCCCA-TTTTGTAATCC
* * * * *
601640 TTTTTTAAGTCTTTTAGGGATATCGCGCACTTCTACGTCGAAGATTTTCTTTAGGGGCATTTTGG
65 -TTTTTAAGTCATTTAGGGATATCGAGCACTTCTACGTCGAAGATATCCTTTAGAGGCATTTTGG
** * *
601705 TAATTTTTTAGAATTGAA-TTCTAGGTTG
129 TAATTTTTTA-AAACGAAGTCCTAGGTTA
* * * * *
601733 TCACCAGGTCTGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCATCCCA-TCTATAATCAT
1 TCATCAGGTCTGCTTTAATGCCGAAGGTGGGTATTTAGGATAGGTTCATCCCATTTTGTAATCCT
* * * * * * *
601797 TTTTAAGTCCTTTAAGGG-TATCG-GATACTTCTACATCGAAGGTAT-CTCCTAGGGGCATTTTC
66 TTTTAAGTCATTT-AGGGATATCGAG-CACTTCTACGTCGAAGATATCCT-TTAGAGGCATTTTG
601859 GTAATTTTTT
128 GTAATTTTTT
601869 TGAACTTAGC
Statistics
Matches: 506, Mismatches: 85, Indels: 29
0.82 0.14 0.05
Matches are distributed among these distances:
153 1 0.00
154 45 0.09
155 67 0.13
156 258 0.51
157 14 0.03
158 117 0.23
159 4 0.01
ACGTcount: A:0.24, C:0.15, G:0.20, T:0.40
Consensus pattern (156 bp):
TCATCAGGTCTGCTTTAATGCCGAAGGTGGGTATTTAGGATAGGTTCATCCCATTTTGTAATCCT
TTTTAAGTCATTTAGGGATATCGAGCACTTCTACGTCGAAGATATCCTTTAGAGGCATTTTGGTA
ATTTTTTAAAACGAAGTCCTAGGTTA
Found at i:601761 original size:314 final size:310
Alignment explanation
Indices: 601072--601866 Score: 881
Period size: 314 Copynumber: 2.6 Consensus size: 310
601062 TACTCATAAG
** * **
601072 GGCATTTTCATAATTTTTTA-AA-TAGAGTCTTACATTGTCATCAGGTCTGCTTTTATGCCGAAG
1 GGCATTTTGGTAATTTTTTAGAACTA-AGTCCTAGGTTGTCATCAGGTCTGCTTTTATGCCGAAG
* * ** *
601135 GTGGGTATGTAGGATAGATTCAT-CC-TTTCTATAAT-CTTTTTAAGTCCTTTAGGGGTGCTAGG
65 GTGGGTATTTAGGATAGGTTCATCCCATTT-TATAATCCTTTTTAAGTCCTTTA-GGGTATTGGG
* * * * *
601197 TACTTT-TATATCAAAGATATTCCCTAAAGGCATTTTTGTAATTTTCTAAAACGAAGTCCTAGGT
128 TA-TTTCTACATCGAAGATA-TCCCTAAAGGCATTTTGGTAATTTTCTAAAACCAAGTCCTAAGT
* * *
601261 TATCACTAGGTCTGCTTTAATGCCAAAGGTGGGTATTTAGAATAGGTTCATTCCATTTTGTAATC
191 TATCACTAGGTCTGCATTAATGCCAAAGGTGGGTATTTAGAATAAGTTCATCCCATTTTGTAATC
* *
601326 CTTTTTAAGTCCTTTGGGGATATCAAGCACTTCTACGTTGAAGATATCCTCTAGC
256 CTTTTTAAGTCCTTTAGGGATATCAAGCACTTCTACGTCGAAGATATCCTCTAGC
* * * *
601381 GGTATTTTGGTAATTTTTTAGAACTAAGTCCTAGGTTGTCATC-GAGTTTGCTTTAATGTCGAAG
1 GGCATTTTGGTAATTTTTTAGAACTAAGTCCTAGGTTGTCATCAG-GTCTGCTTTTATGCCGAAG
* * * *
601445 GTGGGAATTTAGGATAGGTTCATCCCATTTTGTAATCCTTTTTAAGTCATTTAGGGATATTGGGC
65 GTGGGTATTTAGGATAGGTTCATCCCATTTTATAATCCTTTTTAAGTCCTTTAGGG-TATTGGGT
* * * * *
601510 ATTTCTACATCGAAGATATCCTTTATAGGTATTTTGGTAATTTTTTAAAACCAAGTCTTAAGTTA
129 ATTTCTACATCGAAGATATCC-CTAAAGGCATTTTGGTAATTTTCTAAAACCAAGTCCTAAGTTA
* * * * *
601575 TCA-TCGGGTCTGCATTAATGTCGAAGGTGGGTATTTAGGATAAGTTCATCCCATTTTTGTATTC
193 TCACT-AGGTCTGCATTAATGCCAAAGGTGGGTATTTAGAATAAGTTCATCCCA-TTTTGTAATC
* ** * * * *
601639 CTTTTTTAAGTCTTTTAGGGATATCGCGCACTTCTACGTCGAAGATTTTCTTTAGG
256 C-TTTTTAAGTCCTTTAGGGATATCAAGCACTTCTACGTCGAAGATATCCTCTAGC
* * *
601695 GGCATTTTGGTAATTTTTTAGAATTGAA-TTCTAGGTTGTCACCAGGTCTGCTTTTATGCCGAAG
1 GGCATTTTGGTAATTTTTTAGAACT-AAGTCCTAGGTTGTCATCAGGTCTGCTTTTATGCCGAAG
* * * *
601759 GTGGGTATTTAGGATAGGTTCATCCCA-TCTATAATCATTTTTAAGTCCTTTAAGGGTATCGGAT
65 GTGGGTATTTAGGATAGGTTCATCCCATTTTATAATCCTTTTTAAGTCCTTT-AGGGTATTGGGT
* * ** *
601823 ACTTCTACATCGAAGGTATCTCCTAGGGGCATTTTCGTAATTTT
129 ATTTCTACATCGAAGATATC-CCTAAAGGCATTTTGGTAATTTT
601867 TTTGAACTTA
Statistics
Matches: 403, Mismatches: 67, Indels: 28
0.81 0.13 0.06
Matches are distributed among these distances:
309 18 0.04
310 52 0.13
311 19 0.05
312 113 0.28
313 70 0.17
314 128 0.32
315 3 0.01
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (310 bp):
GGCATTTTGGTAATTTTTTAGAACTAAGTCCTAGGTTGTCATCAGGTCTGCTTTTATGCCGAAGG
TGGGTATTTAGGATAGGTTCATCCCATTTTATAATCCTTTTTAAGTCCTTTAGGGTATTGGGTAT
TTCTACATCGAAGATATCCCTAAAGGCATTTTGGTAATTTTCTAAAACCAAGTCCTAAGTTATCA
CTAGGTCTGCATTAATGCCAAAGGTGGGTATTTAGAATAAGTTCATCCCATTTTGTAATCCTTTT
TAAGTCCTTTAGGGATATCAAGCACTTCTACGTCGAAGATATCCTCTAGC
Found at i:603765 original size:13 final size:14
Alignment explanation
Indices: 603747--603778 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
603737 ATTTTAATGG
603747 TAATTTGCTTG-TT
1 TAATTTGCTTGTTT
603760 TAATTTGCTTGTTT
1 TAATTTGCTTGTTT
603774 TAATT
1 TAATT
603779 GTATATCTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.19, C:0.06, G:0.12, T:0.62
Consensus pattern (14 bp):
TAATTTGCTTGTTT
Found at i:603928 original size:13 final size:12
Alignment explanation
Indices: 603906--603939 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
603896 TTGCAATTGC
*
603906 AAATTTTTACCA
1 AAATTTTTACAA
603918 AAATATTTTACAA
1 AAAT-TTTTACAA
603931 AAATTTTTA
1 AAATTTTTA
603940 AATCTTCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (12 bp):
AAATTTTTACAA
Found at i:604438 original size:21 final size:21
Alignment explanation
Indices: 604395--604439 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
604385 AAGCCTTAAT
* * **
604395 TGTATCAGTACAATCTTGTCA
1 TGTATCAATACAATCCTAACA
604416 TGTATCAATACAATCCTAACA
1 TGTATCAATACAATCCTAACA
604437 TGT
1 TGT
604440 GTTGATACAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.36
Consensus pattern (21 bp):
TGTATCAATACAATCCTAACA
Found at i:606072 original size:21 final size:20
Alignment explanation
Indices: 606043--606082 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
606033 AAATTTTTTG
*
606043 TTCATAAAAACAAACATATA
1 TTCATAAAAACAAAAATATA
*
606063 TTCATGAAAAAGAAAAATAT
1 TTCAT-AAAAACAAAAATAT
606083 GTATTTGAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.60, C:0.10, G:0.05, T:0.25
Consensus pattern (20 bp):
TTCATAAAAACAAAAATATA
Found at i:606922 original size:20 final size:20
Alignment explanation
Indices: 606885--606923 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
606875 AATAAGGATG
*
606885 AAATTAAAAATATTAGAAAA
1 AAATTAAAAATATCAGAAAA
* *
606905 AAATTAATACTATCAGAAA
1 AAATTAAAAATATCAGAAA
606924 CATAGAAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.26
Consensus pattern (20 bp):
AAATTAAAAATATCAGAAAA
Found at i:609942 original size:13 final size:13
Alignment explanation
Indices: 609924--609949 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
609914 TACAGCAAGC
609924 ATGTATCGATACA
1 ATGTATCGATACA
609937 ATGTATCGATACA
1 ATGTATCGATACA
609950 CAAAAAATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:612198 original size:21 final size:21
Alignment explanation
Indices: 612165--612209 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
612155 TTGCAAGTTG
*
612165 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
612187 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
612207 AAA
1 AAA
612210 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:614032 original size:15 final size:15
Alignment explanation
Indices: 614012--614042 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
614002 TAAAAATGTC
*
614012 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
614027 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
614042 C
1 C
614043 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:614374 original size:13 final size:13
Alignment explanation
Indices: 614356--614381 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
614346 GGGTATTTAG
614356 AAATAAGTTGGAT
1 AAATAAGTTGGAT
614369 AAATAAGTTGGAT
1 AAATAAGTTGGAT
614382 GAAGATGGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (13 bp):
AAATAAGTTGGAT
Found at i:616321 original size:20 final size:20
Alignment explanation
Indices: 616278--616324 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
616268 AAATCTTTTG
616278 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
616299 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
616319 CAAAAT
1 CAAAAT
616325 CAGCATCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 6 0.26
21 9 0.39
22 8 0.35
ACGTcount: A:0.32, C:0.19, G:0.04, T:0.45
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:618716 original size:13 final size:13
Alignment explanation
Indices: 618698--618723 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
618688 TACAGCAAGC
618698 ATGTATCGATACA
1 ATGTATCGATACA
618711 ATGTATCGATACA
1 ATGTATCGATACA
618724 CAAAAAATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:620816 original size:19 final size:18
Alignment explanation
Indices: 620792--620842 Score: 70
Period size: 17 Copynumber: 2.9 Consensus size: 18
620782 TTTAAAATCC
620792 ATATTTATCTCAATAAAT
1 ATATTTATCTCAATAAAT
620810 AATATTTATCT-AATAAAT
1 -ATATTTATCTCAATAAAT
*
620828 ATAATTATC-CAATAA
1 ATATTTATCTCAATAA
620843 TTATCCAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 13 0.43
18 7 0.23
19 10 0.33
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (18 bp):
ATATTTATCTCAATAAAT
Found at i:620842 original size:11 final size:11
Alignment explanation
Indices: 620828--620857 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
620818 TCTAATAAAT
620828 ATAATTATCCA
1 ATAATTATCCA
620839 ATAATTATCCA
1 ATAATTATCCA
620850 ATAATTAT
1 ATAATTAT
620858 AATAAATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.40
Consensus pattern (11 bp):
ATAATTATCCA
Found at i:625255 original size:24 final size:26
Alignment explanation
Indices: 625228--625276 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
625218 TTAAAATTTT
625228 ATTCAT-CG-GGGACACTCCAACCCC
1 ATTCATCCGAGGGACACTCCAACCCC
*
625252 ATTCCTCCGAAGGGACACTCCAACC
1 ATTCATCCG-AGGGACACTCCAACC
625277 TTGTTTTCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 5 0.24
25 2 0.10
27 14 0.67
ACGTcount: A:0.27, C:0.41, G:0.16, T:0.16
Consensus pattern (26 bp):
ATTCATCCGAGGGACACTCCAACCCC
Found at i:626289 original size:33 final size:33
Alignment explanation
Indices: 626200--627294 Score: 401
Period size: 27 Copynumber: 35.0 Consensus size: 33
626190 TCTGTGGCAC
*
626200 CCTTTTAAGTCCAAAACTCTGTGGCACCTTTTT
1 CCTTTTAAGTCCACAACTCTGTGGCACCTTTTT
* *
626233 -CTTTTAAGTCCTCAACTTTGTGGCACCTTTTT
1 CCTTTTAAGTCCACAACTCTGTGGCACCTTTTT
* * *
626265 CCTTTTAAGACCACAGCTCCGTGGCA-C-----
1 CCTTTTAAGTCCACAACTCTGTGGCACCTTTTT
*
626292 CCTTTTAAGCCCACAACTCTGTGGCACC-TTTT
1 CCTTTTAAGTCCACAACTCTGTGGCACCTTTTT
* * * *
626324 ACTTTTCAAAG-CCTATAACTCCGTGGCATCCTTTGGCAT
1 CCTTTT--AAGTCC-ACAACTCTGTGGCA-CCTTT---TT
* *
626363 CCTTTTAAGTCCACAACTTTATGGCA------T
1 CCTTTTAAGTCCACAACTCTGTGGCACCTTTTT
* **
626390 CCTCTTAAGTCCACAACTCCATGGCA-C-----
1 CCTTTTAAGTCCACAACTCTGTGGCACCTTTTT
* ** *
626417 CCTTTTAAGTTCACAACTCAATGGCACATTTTT
1 CCTTTTAAGTCCACAACTCTGTGGCACCTTTTT
**
626450 -CTTTTAAGTCCACAACTCCATGGCA------T
1 CCTTTTAAGTCCACAACTCTGTGGCACCTTTTT
* * *
626476 CCTTTTAAGCCCACAACTCTGTGCCATCTTTTT
1 CCTTTTAAGTCCACAACTCTGTGGCACCTTTTT
* *
626509 -CTTTTCAAAGCCCATAACTCTGTGGCACCCTTTTT
1 CCTTTT--AAGTCCACAACTCTGTGGCA-CCTTTTT
* * *
626544 CCTTTTAAGTCCATAACTCTGTAGTA-C-----
1 CCTTTTAAGTCCACAACTCTGTGGCACCTTTTT
** *
626571 CCTTTTAAG-CCACAACTCCATGGCACCTTTTC
1 CCTTTTAAGTCCACAACTCTGTGGCACCTTTTT
**
626603 CCTTTTAAGTCCACAACTCCATGGCA-C-----
1 CCTTTTAAGTCCACAACTCTGTGGCACCTTTTT
* * ** * *
626630 CATTTTAAGTCCATAACTCCATGGCACCCTTTC
1 CCTTTTAAGTCCACAACTCTGTGGCACCTTTTT
* * *
626663 CCTTTTAAGTCCACAACTCCGTGGCACCCTTTC
1 CCTTTTAAGTCCACAACTCTGTGGCACCTTTTT
* * * *
626696 CCTTTTAAGTCCATAACTCAGTAGCA-TTTTTT
1 CCTTTTAAGTCCACAACTCTGTGGCACCTTTTT
* *
626728 TCTTTTAAGTTCACAACTCTGTGGCA-C-----
1 CCTTTTAAGTCCACAACTCTGTGGCACCTTTTT
* ** *
626755 CCTTTTAAGCCCACAACTCAATGGCACCTTGTT
1 CCTTTTAAGTCCACAACTCTGTGGCACCTTTTT
* * *
626788 -CTTTTCAAAGCCCACAACTCCGTGGCATCTTTTTT
1 CCTTTT--AAGTCCACAACTCTGTGGCA-CCTTTTT
* *
626823 TCTTTTAAGCCCACAACTCTGTGGCA------T
1 CCTTTTAAGTCCACAACTCTGTGGCACCTTTTT
* *
626850 CCTTTTAAATCCATAACTCTGTGGCA------T
1 CCTTTTAAGTCCACAACTCTGTGGCACCTTTTT
** *
626877 CCTTTTAAGTCCACAACTCAATGGCACATTTTT
1 CCTTTTAAGTCCACAACTCTGTGGCACCTTTTT
* *
626910 -CTTTTAAGTCCACGACT-TCATGGCA-C-----
1 CCTTTTAAGTCCACAACTCT-GTGGCACCTTTTT
* * *
626936 CCTTTTAAGCCCACAACT-TCATGACACCTTTTT
1 CCTTTTAAGTCCACAACTCT-GTGGCACCTTTTT
* * **
626969 -CTTTTCAAATCCCATAACTCTGTAACATCCTTTTT
1 CCTTTT-AAGT-CCACAACTCTGTGGCA-CCTTTTT
* * *
627004 CCTTTTAAGTCTATAA-TTTCGTGGCA-C-----
1 CCTTTTAAGTCCACAACTCT-GTGGCACCTTTTT
* *
627031 CCTTTTAAGCCCACAACT-TCGTGCCACCTTTTT
1 CCTTTTAAGTCCACAACTCT-GTGGCACCTTTTT
* * **
627064 CTTTTTAAAG-CCAACAACTCCGCAGCACCCTTTTT
1 CCTTTT-AAGTCC-ACAACTCTGTGGCA-CCTTTTT
*
627099 CCTTTTAAGTCCACAACTCTATGGCA-C-----
1 CCTTTTAAGTCCACAACTCTGTGGCACCTTTTT
* * *
627126 CCTTTTAAGCCCACAACTCTATGACACCCTTTTT
1 CCTTTTAAGTCCACAACTCTGTGGCA-CCTTTTT
* *
627160 CTTTCTTAAGTCCACAACTCCT-TGGCACTTTTTTT
1 CCTT-TTAAGTCCACAACT-CTGTGGCAC-CTTTTT
* *
627195 CCTTCTTAAGTCCACAA-TTTCGTGACACCATTTTT
1 CCTT-TTAAGTCCACAACTCT-GTGGCACC-TTTTT
** * *
627230 --TTCAAAGCCCACAACTCTGTGGCATCTTTTTT
1 CCTTTTAAGTCCACAACTCTGTGGCA-CCTTTTT
* * *
627262 CTTTTTAAGTCCACAATTCTGTGGCACCCTTTT
1 CCTTTTAAGTCCACAACTCTGTGGCACCTTTTT
627295 AAGTCCATAA
Statistics
Matches: 826, Mismatches: 131, Indels: 210
0.71 0.11 0.18
Matches are distributed among these distances:
26 12 0.01
27 258 0.31
28 6 0.01
29 1 0.00
32 151 0.18
33 115 0.14
34 157 0.19
35 86 0.10
36 19 0.02
37 13 0.02
38 2 0.00
39 6 0.01
ACGTcount: A:0.23, C:0.31, G:0.11, T:0.36
Consensus pattern (33 bp):
CCTTTTAAGTCCACAACTCTGTGGCACCTTTTT
Found at i:626508 original size:59 final size:59
Alignment explanation
Indices: 626394--626542 Score: 174
Period size: 59 Copynumber: 2.5 Consensus size: 59
626384 TGGCATCCTC
** *
626394 TTAAGTCCACAACTCCATGGCACCCTTTTAAGTTCACAACTCAATGGCACATTTTTCTT
1 TTAAGTCCACAACTCCATGGCACCCTTTTAAGCCCACAACTCAATGCCACATTTTTCTT
* **
626453 TTAAGTCCACAACTCCATGGCATCCTTTTAAGCCCACAACTCTGTGCCATC-TTTTTCTT
1 TTAAGTCCACAACTCCATGGCACCCTTTTAAGCCCACAACTCAATGCCA-CATTTTTCTT
* * **
626512 TTCAAAGCCCATAACTCTGTGGCACCCTTTT
1 TT--AAGTCCACAACTCCATGGCACCCTTTT
626543 TCCTTTTAAG
Statistics
Matches: 76, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
59 53 0.70
60 1 0.01
61 22 0.29
ACGTcount: A:0.24, C:0.31, G:0.11, T:0.34
Consensus pattern (59 bp):
TTAAGTCCACAACTCCATGGCACCCTTTTAAGCCCACAACTCAATGCCACATTTTTCTT
Found at i:626519 original size:184 final size:180
Alignment explanation
Indices: 626253--626601 Score: 475
Period size: 184 Copynumber: 1.9 Consensus size: 180
626243 CTCAACTTTG
* * * *
626253 TGGCACCTTTTTCCTTTTAAGACCACAGCTCCGTGGCACCCTTTTAAGCCCACAACTCTGTGGCA
1 TGGCACATTTTTCCTTTTAAGACCACAACTCCATGGCACCCTTTTAAGCCCACAACTCTGTGCCA
* * *
626318 CCTTTTACTTTTCAAAGCCTATAACTCCGTGGCATCCTTTGGCATCCTTTTAAGTCCACAACTTT
66 CCTTTTACTTTTCAAAGCCCATAACTCCGTGGCACCCTTT---ATCCTTTTAAGTCCACAACTCT
* *
626383 ATGGCATCCTCTTAAGTCCACAACTCCATGGCACCCTTTTAAGTTCACAACTCAA
128 ATAGCACCCTCTTAAG-CCACAACTCCATGGCA-CCTTTTAAGTTCACAACTCAA
* *
626438 TGGCACATTTTT-CTTTTAAGTCCACAACTCCATGGCATCCTTTTAAGCCCACAACTCTGTGCCA
1 TGGCACATTTTTCCTTTTAAGACCACAACTCCATGGCACCCTTTTAAGCCCACAACTCTGTGCCA
* * * * * *
626502 TCTTTTTCTTTTCAAAGCCCATAACTCTGTGGCACCCTTTTTCCTTTTAAGTCCATAACTCTGTA
66 CCTTTTACTTTTCAAAGCCCATAACTCCGTGGCACCCTTTATCCTTTTAAGTCCACAACTCTATA
* *
626567 GTACCCTTTTAAGCCACAACTCCATGGCACCTTTT
131 GCACCCTCTTAAGCCACAACTCCATGGCACCTTTT
626602 CCCTTTTAAG
Statistics
Matches: 145, Mismatches: 19, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
179 6 0.04
180 16 0.11
181 30 0.21
184 82 0.57
185 11 0.08
ACGTcount: A:0.23, C:0.31, G:0.12, T:0.34
Consensus pattern (180 bp):
TGGCACATTTTTCCTTTTAAGACCACAACTCCATGGCACCCTTTTAAGCCCACAACTCTGTGCCA
CCTTTTACTTTTCAAAGCCCATAACTCCGTGGCACCCTTTATCCTTTTAAGTCCACAACTCTATA
GCACCCTCTTAAGCCACAACTCCATGGCACCTTTTAAGTTCACAACTCAA
Found at i:626608 original size:95 final size:92
Alignment explanation
Indices: 626187--627211 Score: 710
Period size: 95 Copynumber: 11.0 Consensus size: 92
626177 CGACACCCAT
* * * * * * **
626187 AACTCTGTGGCACCCTTTTAAGTCCAAAACTCTGTGGCACCTTTTTCTTTTAAGTCCTCAACTTT
1 AACTCTGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACCTTTTCCTTTTAAGCCCACAACTCC
*
626252 GTGGCACCTTTTTCCTTTTAAGACCAC
66 GTGGCACCTTTTTCCTTTTAAGTCCAC
* * * * * *
626279 AGCTCCGTGGCACCCTTTTAAGCCCACAACTCTGTGGCACCTTTTACTTTTCAAAGCCTATAACT
1 AACTCTGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACCTTTTCCTTTT--AAGCCCACAACT
*
626344 CCGTGGCATCCTTTGGCATCCTTTTAAGTCCAC
64 CCGTGGCA-CCTTT---TTCCTTTTAAGTCCAC
* * * * * * ** *
626377 AACTTTATGGCATCCTCTTAAGTCCACAACTCCATGGCA-C----CCTTTTAAGTTCACAACTCA
1 AACTCTGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACCTTTTCCTTTTAAGCCCACAACTCC
* *
626437 ATGGCACATTTTT-CTTTTAAGTCCAC
66 GTGGCACCTTTTTCCTTTTAAGTCCAC
** * * * * * *
626463 AACTCCATGGCATCCTTTTAAGCCCACAACTCTGTGCCATCTTTTTCTTTTCAAAGCCCATAACT
1 AACTCTGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACCTTTTCCTTTT--AAGCCCACAACT
* *
626528 CTGTGGCACCCTTTTTCCTTTTAAGTCCAT
64 CCGTGGCA-CCTTTTTCCTTTTAAGTCCAC
* * * *
626558 AACTCTGTAGTACCCTTTTAAG-CCACAACTCCATGGCACCTTTTCCCTTTTAAGTCCACAACTC
1 AACTCTGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACCTTTT-CCTTTTAAGCCCACAACTC
* * *
626622 CATGGCA-C-----CATTTTAAGTCCAT
65 CGTGGCACCTTTTTCCTTTTAAGTCCAC
** * * *
626644 AACTCCATGGCACCCTTTCCCTTTTAAGTCCACAACTCCGTGGCACCCTTTCCCTTTTAAGTCCA
1 AACTCTGTGGCA------CCCTTTTAAGCCCACAACTCCGTGGCA-CCTTTTCCTTTTAAGCCCA
* * * * * *
626709 TAACTCAGTAGCA-TTTTTTTCTTTTAAGTTCAC
59 CAACTCCGTGGCACCTTTTTCCTTTTAAGTCCAC
**
626742 AACTCTGTGGCACCCTTTTAAGCCCACAACTCAATGGCACCTTGTT-CTTTTCAAAGCCCACAAC
1 AACTCTGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACCTT-TTCCTTTT--AAGCCCACAAC
* * *
626806 TCCGTGGCATCTTTTTTTCTTTTAAGCCCAC
63 TCCGTGGCA-CCTTTTTCCTTTTAAGTCCAC
* ** * * * *
626837 AACTCTGTGGCATCCTTTTAAATCCATAACTCTGTGGCA-----TCCTTTTAAGTCCACAACTCA
1 AACTCTGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACCTTTTCCTTTTAAGCCCACAACTCC
* *
626897 ATGGCACATTTTT-CTTTTAAGTCCAC
66 GTGGCACCTTTTTCCTTTTAAGTCCAC
* * * * * * * *
626923 GACT-TCATGGCACCCTTTTAAGCCCACAACTTCATGACACCTTTTTCTTTTCAAATCCCATAAC
1 AACTCT-GTGGCACCCTTTTAAGCCCACAACTCCGTGGCACCTTTTCCTTTT--AAGCCCACAAC
* ** * *
626987 TCTGTAACATCCTTTTTCCTTTTAAGTCTAT
63 TCCGTGGCA-CCTTTTTCCTTTTAAGTCCAC
* * * * *
627018 AA-TTTCGTGGCACCCTTTTAAGCCCACAACTTCGTGCCACCTTTTTCTTTTTAAAGCCAACAAC
1 AACTCT-GTGGCACCCTTTTAAGCCCACAACTCCGTGGCACC-TTTTCCTTTT-AAGCCCACAAC
**
627082 TCCGCAGCACCCTTTTTCCTTTTAAGTCCAC
63 TCCGTGGCA-CCTTTTTCCTTTTAAGTCCAC
* ** * * *
627113 AACTCTATGGCACCCTTTTAAGCCCACAACTCTATGACACCCTTTTTCTTTCTTAAGTCCACAAC
1 AACTCTGTGGCACCCTTTTAAGCCCACAACTCCGTGGCA-CC-TTTTCCTT-TTAAGCCCACAAC
* *
627178 TCCTTGGCACTTTTTTTCCTTCTTAAGTCCAC
63 TCCGTGGCAC-CTTTTTCCTT-TTAAGTCCAC
627210 AA
1 AA
627212 TTTCGTGACA
Statistics
Matches: 734, Mismatches: 147, Indels: 99
0.75 0.15 0.10
Matches are distributed among these distances:
85 1 0.00
86 105 0.14
87 8 0.01
88 17 0.02
89 1 0.00
90 9 0.01
91 35 0.05
92 81 0.11
93 102 0.14
94 50 0.07
95 201 0.27
96 45 0.06
97 15 0.02
98 64 0.09
ACGTcount: A:0.23, C:0.31, G:0.11, T:0.35
Consensus pattern (92 bp):
AACTCTGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACCTTTTCCTTTTAAGCCCACAACTCC
GTGGCACCTTTTTCCTTTTAAGTCCAC
Found at i:626688 original size:60 final size:60
Alignment explanation
Indices: 626520--626814 Score: 249
Period size: 60 Copynumber: 4.8 Consensus size: 60
626510 TTTTCAAAGC
** * * * * *
626520 CCATAACTCTGTGGCACCCTTTTTCCTTTTAAGTCCATAACTCTGTAGTACCCTTTTAAG-
1 CCATAACTCCATGGCACCC-TTTCCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGT
* * * *
626580 CCACAACTCCATGGCACCTTTTCCCTTTTAAGTCCACAACTCCATGGCACCATTTTAAGT
1 CCATAACTCCATGGCACCCTTTCCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGT
626640 CCATAACTCCATGGCACCCTTTCCCTTTTAAGTCCACAACTCCGTGGCACCCTTTCCCTTTTAAG
1 CCATAACTCCATGGCACCCTTTCCCTTTTAAGTCCACAACTCCGTGGCA------CCCTTTTAAG
626705 T
60 T
* ** ** * * *
626706 CCATAACT-CAGTAGCA-TTTTTTTCTTTTAAGTTCACAACTCTGTGGCACCCTTTTAAGC
1 CCATAACTCCA-TGGCACCCTTTCCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGT
* * * *
626765 CCACAACTCAATGGCA-CCTTGT-TCTTTTCAAAGCCCACAACTCCGTGGCA
1 CCATAACTCCATGGCACCCTT-TCCCTTTT--AAGTCCACAACTCCGTGGCA
626815 TCTTTTTTTC
Statistics
Matches: 192, Mismatches: 31, Indels: 23
0.78 0.13 0.09
Matches are distributed among these distances:
59 62 0.32
60 63 0.33
61 17 0.09
65 28 0.15
66 22 0.11
ACGTcount: A:0.23, C:0.33, G:0.12, T:0.33
Consensus pattern (60 bp):
CCATAACTCCATGGCACCCTTTCCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTAAGT
Found at i:626701 original size:279 final size:272
Alignment explanation
Indices: 626187--627187 Score: 875
Period size: 279 Copynumber: 3.6 Consensus size: 272
626177 CGACACCCAT
* * * * * *
626187 AACTCTGTGGCACCCTTTTAAGTCCAAAACTCTGTGGCACCTTTTTCTTTT--AAGTCCTCAACT
1 AACTCCGTGGCACCCTTTTAAGCCCACAACTCTGTGCCACCTTTTTCTTTTCAAAGCCCACAACT
** * * * *
626250 TTGTGGCA-CCTTTTTCCTTTTAAGACCACAGCTCCGTGGCACCCTTTTAAGCCCACAACTCTGT
66 CCGTGGCACCCTTTTTCCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAG-CCACAACTCTAT
* * *
626314 GGCACCTTTTACTTTTCAAAG-CCTATAACTCCGTGGCATCCTTTGGCATCCTTTTAAGTCCACA
130 GGCACCTTTTCCTTTT--AAGTCC-ACAACTCCATGGCA--C-----CAT--TTTTAAGTCCACA
** * * * * * * *
626378 ACTTTATGGCATCCTCTTAAGTCCACAACTCCATGGCA-----CCCTTTTAAGTTCACAACTCAA
183 ACTCCATGGCACCCTTTTAAGCCCACAACTCCATGACACCTTTCCCTTTTAAGTCCATAACTCAG
*
626438 TGGCACATTTTTCTTTTAAGTCCAC
248 TAGCACATTTTTCTTTTAAGTCCAC
* * * *
626463 AACTCCATGGCATCCTTTTAAGCCCACAACTCTGTGCCATCTTTTTCTTTTCAAAGCCCATAACT
1 AACTCCGTGGCACCCTTTTAAGCCCACAACTCTGTGCCACCTTTTTCTTTTCAAAGCCCACAACT
* * * * *
626528 CTGTGGCACCCTTTTTCCTTTTAAGTCCATAACTCTGTAGTACCCTTTTAAGCCACAACTCCATG
66 CCGTGGCACCCTTTTTCCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGCCACAACTCTATG
*
626593 GCACCTTTTCCCTTTTAAGTCCACAACTCCATGGCACCA-TTTTAAGTCCATAACTCCATGGCAC
131 GCACCTTTT-CCTTTTAAGTCCACAACTCCATGGCACCATTTTTAAGTCCACAACTCCATGGCA-
* * *
626657 CCTTTCCCTTTTAAGTCCACAACTCCGTGGCACCCTTTCCCTTTTAAGTCCATAACTCAGTAGCA
194 -----CCCTTTTAAGCCCACAACTCCATGACA-CCTTTCCCTTTTAAGTCCATAACTCAGTAGCA
** *
626722 TTTTTTTCTTTTAAGTTCAC
253 CATTTTTCTTTTAAGTCCAC
* ** * *
626742 AACTCTGTGGCACCCTTTTAAGCCCACAACTCAATGGCACCTTGTTCTTTTCAAAGCCCACAACT
1 AACTCCGTGGCACCCTTTTAAGCCCACAACTCTGTGCCACCTTTTTCTTTTCAAAGCCCACAACT
* * * * * * * *
626807 CCGTGGCATCTTTTTTTCTTTTAAGCCCACAACTCTGTGGCATCCTTTTAAATCCATAACTCTGT
66 CCGTGGCACCCTTTTTCCTTTTAAGTCCACAACTCTGTGGCACCCTTTT-AAGCCACAACTCTAT
* * *
626872 GGCA-----TCCTTTTAAGTCCACAACTCAATGGCA-CATTTTTCTTTTAAGTCCACGACTTCAT
130 GGCACCTTTTCCTTTTAAGTCCACAACTCCATGGCACCA----T-TTTTAAGTCCACAACTCCAT
* ** * * *
626931 GGCACCCTTTTAAGCCCACAACTTCATGACACCTTTTTCTTTTCAAATCCCATAACTCTGTAACA
190 GGCACCCTTTTAAGCCCACAACTCCATGACACCTTTCCCTTTT-AAGT-CCATAACTCAGTAGCA
* * *
626996 TCCTTTTTCCTTTTAAGTCTAT
253 -CATTTTT-CTTTTAAGTCCAC
* * * *
627018 AATTTCGTGGCACCCTTTTAAGCCCACAACT-TCGTGCCACCTTTTTCTTTTTAAAGCCAACAAC
1 AACTCCGTGGCACCCTTTTAAGCCCACAACTCT-GTGCCACCTTTTTCTTTTCAAAGCCCACAAC
** *
627082 TCCGCAGCACCCTTTTTCCTTTTAAGTCCACAACTCTATGGCACCCTTTTAAGCCCACAACTCTA
65 TCCGTGGCACCCTTTTTCCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAG-CCACAACTCTA
* * *
627147 TGACACCCTTTTTCTTTCTTAAGTCCACAACTCCTTGGCAC
129 TGGCA-CC-TTTTCCTT-TTAAGTCCACAACTCCATGGCAC
627188 TTTTTTTCCT
Statistics
Matches: 587, Mismatches: 99, Indels: 69
0.78 0.13 0.09
Matches are distributed among these distances:
267 21 0.04
270 2 0.00
272 10 0.02
273 52 0.09
274 39 0.07
275 9 0.02
276 163 0.28
277 15 0.03
278 38 0.06
279 199 0.34
280 15 0.03
283 4 0.01
284 20 0.03
ACGTcount: A:0.23, C:0.31, G:0.11, T:0.35
Consensus pattern (272 bp):
AACTCCGTGGCACCCTTTTAAGCCCACAACTCTGTGCCACCTTTTTCTTTTCAAAGCCCACAACT
CCGTGGCACCCTTTTTCCTTTTAAGTCCACAACTCTGTGGCACCCTTTTAAGCCACAACTCTATG
GCACCTTTTCCTTTTAAGTCCACAACTCCATGGCACCATTTTTAAGTCCACAACTCCATGGCACC
CTTTTAAGCCCACAACTCCATGACACCTTTCCCTTTTAAGTCCATAACTCAGTAGCACATTTTTC
TTTTAAGTCCAC
Found at i:626790 original size:59 final size:59
Alignment explanation
Indices: 626516--626991 Score: 320
Period size: 59 Copynumber: 7.8 Consensus size: 59
626506 TTTCTTTTCA
* ** * * *
626516 AAGCCCATAACTCTGTGGCACCCTTTTTCCTTTTAAGTCCATAACTCTGTAGTACCCTTTT
1 AAGCCCACAACTCAATGGCA-CCTTTTT-CTTTTAAGTCCACAACTCTGTGGCACCCTTTT
* * ** *
626577 AAG-CCACAACTCCATGGCACCTTTTCCCTTTTAAGTCCACAACTCCATGGCACCATTTT
1 AAGCCCACAACTCAATGGCACCTTTT-TCTTTTAAGTCCACAACTCTGTGGCACCCTTTT
* * * ** *
626636 AAGTCCATAACTCCATGGCACCCTTTCCCTTTTAAGTCCACAACTCCGTGGCACCCTTTCCCTTT
1 AAGCCCACAACTCAATGGCA-CCTTTTTCTTTTAAGTCCACAACTCTGTGGCA------CCCTTT
626701 T
59 T
* * * * ** *
626702 AAGTCCATAACTCAGTAGCATTTTTTTCTTTTAAGTTCACAACTCTGTGGCACCCTTTT
1 AAGCCCACAACTCAATGGCACCTTTTTCTTTTAAGTCCACAACTCTGTGGCACCCTTTT
* * * *
626761 AAGCCCACAACTCAATGGCACCTTGTTCTTTTCAAAGCCCACAACTCCGTGGCATCTTTTTTTCT
1 AAGCCCACAACTCAATGGCACCTTTTTCTTTT--AAGTCCACAACTCTGTGGCA-C------CCT
626826 TTT
57 TTT
** * * * *
626829 AAGCCCACAACTCTGTGGCA-----TCCTTTTAAATCCATAACTCTGTGGCATCCTTTT
1 AAGCCCACAACTCAATGGCACCTTTTTCTTTTAAGTCCACAACTCTGTGGCACCCTTTT
* * * *
626883 AAGTCCACAACTCAATGGCACATTTTTCTTTTAAGTCCACGACT-TCATGGCACCCTTTT
1 AAGCCCACAACTCAATGGCACCTTTTTCTTTTAAGTCCACAACTCT-GTGGCACCCTTTT
* * *
626942 AAGCCCACAACTTC-ATGACACCTTTTTCTTTTCAAATCCCATAACTCTGT
1 AAGCCCACAAC-TCAATGGCACCTTTTTCTTTT-AAGT-CCACAACTCTGT
626992 AACATCCTTT
Statistics
Matches: 328, Mismatches: 59, Indels: 56
0.74 0.13 0.13
Matches are distributed among these distances:
54 22 0.07
58 1 0.00
59 119 0.36
60 58 0.18
61 48 0.15
62 2 0.01
63 6 0.02
65 26 0.08
66 23 0.07
68 23 0.07
ACGTcount: A:0.24, C:0.31, G:0.11, T:0.34
Consensus pattern (59 bp):
AAGCCCACAACTCAATGGCACCTTTTTCTTTTAAGTCCACAACTCTGTGGCACCCTTTT
Found at i:626799 original size:34 final size:34
Alignment explanation
Indices: 626756--626850 Score: 104
Period size: 34 Copynumber: 2.8 Consensus size: 34
626746 CTGTGGCACC
626756 CTTTTAAGCCCACAACTCAATGGCA-C-CTTGTT
1 CTTTTAAGCCCACAACTCAATGGCATCTCTTGTT
** * *
626788 CTTTTCAAAGCCCACAACTCCGTGGCATCTTTTTTT
1 CTTTT--AAGCCCACAACTCAATGGCATCTCTTGTT
**
626824 CTTTTAAGCCCACAACTCTGTGGCATC
1 CTTTTAAGCCCACAACTCAATGGCATC
626851 CTTTTAAATC
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
32 5 0.09
34 39 0.72
35 1 0.02
36 9 0.17
ACGTcount: A:0.22, C:0.32, G:0.13, T:0.34
Consensus pattern (34 bp):
CTTTTAAGCCCACAACTCAATGGCATCTCTTGTT
Found at i:627037 original size:181 final size:181
Alignment explanation
Indices: 626696--627180 Score: 469
Period size: 181 Copynumber: 2.6 Consensus size: 181
626686 GCACCCTTTC
* * ** * *
626696 CCTTTTAAGTCCATAACTCAGTAGCATTTTTTTCTTTTAAGTTCACAACTCTGTGGCACCCTTTT
1 CCTTTTAAGTCCACAACTCAATAGCACATTTTTCTTTTAAGTCCACAACTCTATGGCACCCTTTT
* ** * *
626761 AAGCCCACAACTCAATGGCACCTTGTTCTTTTCAAAGCCCACAACTCCGTGGCATCTTTTTTTCT
66 AAGCCCACAACTCAATGACACCTTGTTCTTTTCAAAGCCCACAACTCCGTAACATCCTTTTTCCT
*
626826 TTTAAGCCCACAACTCTGTGGCATCCTTTTAAATCCATAACTCTGTGGCAT
131 TTTAAGCCCACAACTCTGTGGCACCCTTTTAAATCCATAACTCTGTGGCAT
* *
626877 CCTTTTAAGTCCACAACTCAATGGCACATTTTTCTTTTAAGTCCACGACT-TCATGGCACCCTTT
1 CCTTTTAAGTCCACAACTCAATAGCACATTTTTCTTTTAAGTCCACAACTCT-ATGGCACCCTTT
* * * *
626941 TAAGCCCACAACTTC-ATGACACCTTTTTCTTTTCAAATCCCATAACTCTGTAACATCCTTTTTC
65 TAAGCCCACAAC-TCAATGACACCTTGTTCTTTTCAAAGCCCACAACTCCGTAACATCCTTTTTC
* * * * ** * *
627005 CTTTTAAGTCTATAA-TTTCGTGGCACCCTTTTAAGCCCACAACT-TCGTGCCACCTTTTT
129 CTTTTAAGCCCACAACTCT-GTGGCACCCTTTTAAATCCATAACTCT-GTGGCA------T
* *** *
627064 CTTTTTAAAG-CCAACAACTCCGCAGCACCCTTTTTCCTTTTAAGTCCACAACTCTATGGCACCC
1 CCTTTT-AAGTCC-ACAACTCAATAGCA-CATTTTT-CTTTTAAGTCCACAACTCTATGGCACCC
* * * *
627128 TTTTAAGCCCACAACTCTATGACACCCTTTTTC-TTTCTTAAGTCCACAACTCC
62 TTTTAAGCCCACAACTCAATGACA-CCTTGTTCTTTTC-AAAGCCCACAACTCC
627181 TTGGCACTTT
Statistics
Matches: 248, Mismatches: 38, Indels: 26
0.79 0.12 0.08
Matches are distributed among these distances:
180 4 0.02
181 144 0.58
182 2 0.01
187 8 0.03
188 13 0.05
189 8 0.03
190 50 0.20
191 19 0.08
ACGTcount: A:0.24, C:0.31, G:0.10, T:0.36
Consensus pattern (181 bp):
CCTTTTAAGTCCACAACTCAATAGCACATTTTTCTTTTAAGTCCACAACTCTATGGCACCCTTTT
AAGCCCACAACTCAATGACACCTTGTTCTTTTCAAAGCCCACAACTCCGTAACATCCTTTTTCCT
TTTAAGCCCACAACTCTGTGGCACCCTTTTAAATCCATAACTCTGTGGCAT
Found at i:627115 original size:34 final size:32
Alignment explanation
Indices: 627031--627117 Score: 86
Period size: 34 Copynumber: 2.6 Consensus size: 32
627021 TTCGTGGCAC
* *
627031 CCTTTTAAGCCCACAACTTCGTGCCACCTTTTT
1 CCTTTTAAG-CCACAACTCCGAGCCACCTTTTT
*
627064 CTTTTTAAAGCCAACAACTCCGCAG-CACCCTTTTT
1 CCTTTT-AAGCC-ACAACTCCG-AGCCA-CCTTTTT
627099 CCTTTTAAGTCCACAACTC
1 CCTTTTAAG-CCACAACTC
627118 TATGGCACCC
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
33 7 0.16
34 23 0.51
35 15 0.33
ACGTcount: A:0.23, C:0.36, G:0.08, T:0.33
Consensus pattern (32 bp):
CCTTTTAAGCCACAACTCCGAGCCACCTTTTT
Found at i:627176 original size:35 final size:35
Alignment explanation
Indices: 627130--627294 Score: 144
Period size: 35 Copynumber: 4.8 Consensus size: 35
627120 TGGCACCCTT
* * *
627130 TTAAGCCCACAACTCTATGACACCCTTTTTCTTTC
1 TTAAGTCCACAACTCTGTGGCACCCTTTTTCTTTC
** *
627165 TTAAGTCCACAACTCCT-TGGCACTTTTTTTCCTTC
1 TTAAGTCCACAACT-CTGTGGCACCCTTTTTCTTTC
* * *
627200 TTAAGTCCACAA-TTTCGTGACA-CCATTTT-TTTC
1 TTAAGTCCACAACTCT-GTGGCACCCTTTTTCTTTC
* * * *
627233 -AAAGCCCACAACTCTGTGGCATCTTTTTTCTTT-
1 TTAAGTCCACAACTCTGTGGCACCCTTTTTCTTTC
*
627266 TTAAGTCCACAATTCTGTGGCACCCTTTT
1 TTAAGTCCACAACTCTGTGGCACCCTTTT
627295 AAGTCCATAA
Statistics
Matches: 101, Mismatches: 22, Indels: 15
0.73 0.16 0.11
Matches are distributed among these distances:
32 14 0.14
33 11 0.11
34 31 0.31
35 43 0.43
36 2 0.02
ACGTcount: A:0.21, C:0.29, G:0.10, T:0.40
Consensus pattern (35 bp):
TTAAGTCCACAACTCTGTGGCACCCTTTTTCTTTC
Found at i:627362 original size:32 final size:31
Alignment explanation
Indices: 627320--627467 Score: 190
Period size: 32 Copynumber: 4.7 Consensus size: 31
627310 TGGAACCTTT
* *
627320 CCTTCTAAAGCCCACATAAGTTGGTCGCAAC
1 CCTTCTAAAGCCCACACAAGTTGGTGGCAAC
* *
627351 CTCTT-TAAAAGCCCACACAAGTTGGTTGTAAC
1 C-CTTCT-AAAGCCCACACAAGTTGGTGGCAAC
*
627383 CTCTTCTAAAGCCCACATAAGTTGGTGGCAAC
1 C-CTTCTAAAGCCCACACAAGTTGGTGGCAAC
*
627415 CCTTCTAAAGCCCACACAAGTTAGTGGCAAC
1 CCTTCTAAAGCCCACACAAGTTGGTGGCAAC
*
627446 CCTCTCAAAAGCCCACACAAGT
1 CCT-TCTAAAGCCCACACAAGT
627468 CGATGGCATC
Statistics
Matches: 104, Mismatches: 9, Indels: 7
0.87 0.08 0.06
Matches are distributed among these distances:
31 33 0.32
32 70 0.67
33 1 0.01
ACGTcount: A:0.31, C:0.31, G:0.16, T:0.22
Consensus pattern (31 bp):
CCTTCTAAAGCCCACACAAGTTGGTGGCAAC
Found at i:627395 original size:64 final size:62
Alignment explanation
Indices: 627320--627467 Score: 199
Period size: 63 Copynumber: 2.3 Consensus size: 62
627310 TGGAACCTTT
* * *
627320 CCTTCTAAAGCCCACATAAGTTGGTCGCAACCTCTT-TAAAAGCCCACACAAGTTGGTTGTAAC
1 CCTTCTAAAGCCCACATAAGTTGGTCGCAACC-CTTCT-AAAGCCCACACAAGTTAGTGGCAAC
*
627383 CTCTTCTAAAGCCCACATAAGTTGGTGGCAACCCTTCTAAAGCCCACACAAGTTAGTGGCAAC
1 C-CTTCTAAAGCCCACATAAGTTGGTCGCAACCCTTCTAAAGCCCACACAAGTTAGTGGCAAC
* *
627446 CCTCTCAAAAGCCCACACAAGT
1 CCT-TCTAAAGCCCACATAAGT
627468 CGATGGCATC
Statistics
Matches: 76, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
62 2 0.03
63 43 0.57
64 31 0.41
ACGTcount: A:0.31, C:0.31, G:0.16, T:0.22
Consensus pattern (62 bp):
CCTTCTAAAGCCCACATAAGTTGGTCGCAACCCTTCTAAAGCCCACACAAGTTAGTGGCAAC
Found at i:627485 original size:95 final size:94
Alignment explanation
Indices: 627320--627491 Score: 222
Period size: 95 Copynumber: 1.8 Consensus size: 94
627310 TGGAACCTTT
* * * * * * *
627320 CCTTCTAAAGCCCACATAAGTTGGTCGCAACCTCTTTAAAAGCCCACACAAGTTGGTTGTAACCT
1 CCTTCTAAAGCCCACACAAGTTAGTCGCAACCTCTTCAAAAGCCCACACAAGTCGATGGCAACCT
627385 CTTCTAAAGCCCACATAAGTTGGTGGCAAC
66 CTTCT-AAGCCCACATAAGTTGGTGGCAAC
* *
627415 CCTTCTAAAGCCCACACAAGTTAGTGGCAACC-CTCTCAAAAGCCCACACAAGTCGATGGC-ATC
1 CCTTCTAAAGCCCACACAAGTTAGTCGCAACCTCT-TCAAAAGCCCACACAAGTCGATGGCAACC
627478 TCTTTCTAAGCCCA
65 TC-TTCTAAGCCCA
627492 ATGTCGTTGA
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
94 13 0.20
95 53 0.80
ACGTcount: A:0.30, C:0.31, G:0.16, T:0.23
Consensus pattern (94 bp):
CCTTCTAAAGCCCACACAAGTTAGTCGCAACCTCTTCAAAAGCCCACACAAGTCGATGGCAACCT
CTTCTAAGCCCACATAAGTTGGTGGCAAC
Found at i:627805 original size:52 final size:51
Alignment explanation
Indices: 627636--627981 Score: 222
Period size: 52 Copynumber: 6.7 Consensus size: 51
627626 TAGCACAATC
** * * * *
627636 CCAATATCGCTGGCCTTCTATCAGCATATTAGAACCTTTACGATTTTTAAGT
1 CCAATATCGCTGGCCTTGAATCAGCATATTAGCACTTTTTC-ATCTTTAAGT
* * * * * * * * *
627688 CCAATGTCACTAGCCTTGAATCAGCACATTGGCACCTTATC-TTTCTTAAGC
1 CCAATATCGCTGGCCTTGAATCAGCATATTAGCACTTTTTCATCT-TTAAGT
* *
627739 CCAATATCGTTGGCCTTGAATCAGCATATTAGTACTTTTGTCATCTTTAAGT
1 CCAATATCGCTGGCCTTGAATCAGCATATTAGCACTTTT-TCATCTTTAAGT
* * * *
627791 CCGATATCGCTGGCCTTGAATCAGCATATCAGCATCTTTATT-AT-TCCTAA-A
1 CCAATATCGCTGGCCTTGAATCAGCATATTAGCA-CTTT-TTCATCT-TTAAGT
* * * *
627842 CCTAATGTCGCTGG-CTGTGAATTAGCACATT-G-ACATTCTTCTCATCTTTAGGT
1 CC-AATATCGCTGGCCT-TGAATCAGCATATTAGCAC-TT-TT-TCATCTTTAAGT
* * * * * *
627895 CCAATGTTGCTGGCCTTGAATTAGCACATTGGCACATTTGTT-ATCTTTATGT
1 CCAATATCGCTGGCCTTGAATCAGCATATTAGCAC-TTT-TTCATCTTTAAGT
* *
627947 CCAATATCGCTGGCCTTGAATCAGTATATTGGCAC
1 CCAATATCGCTGGCCTTGAATCAGCATATTAGCAC
627982 CTTTATCAAT
Statistics
Matches: 233, Mismatches: 43, Indels: 36
0.75 0.14 0.12
Matches are distributed among these distances:
49 1 0.00
50 7 0.03
51 43 0.18
52 160 0.69
53 15 0.06
54 7 0.03
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (51 bp):
CCAATATCGCTGGCCTTGAATCAGCATATTAGCACTTTTTCATCTTTAAGT
Found at i:632143 original size:155 final size:155
Alignment explanation
Indices: 631962--632321 Score: 526
Period size: 154 Copynumber: 2.3 Consensus size: 155
631952 GCCCCTAAAA
* * * *
631962 GATACCTTCGACGTAGAAGTAGCCGATACCCCTAAAGGACTTGAAAAAGGTTTAAGACGAGATGA
1 GATACTTTCGACGTAGAAGTACCCGATACCCCTAAAAGACTTGAAAAAGGTTTAAGACGAAATGA
* * * *
632027 ACCTATCCTAAATGCCCACCTTTGGCATAAAAATAGACCCGATGATAATCTAGGAGTTGGTTATA
66 ACCAATCCTAAATGCCCACCTTTGGCATAAAAATAGACCCGATGACAACCTAGGAGTTAGTTATA
*
632092 GAAAATTACGAAAATA-CCTCTAGGG
131 AAAAATTACGAAAATACCCT-TAGGG
* *
632117 GATACTTTCGATGTAGAAGTACCCGATACCCCTAAAAAACTTG-AAAAGGTTTAAGACGAAATGA
1 GATACTTTCGACGTAGAAGTACCCGATACCCCTAAAAGACTTGAAAAAGGTTTAAGACGAAATGA
* * * * *
632181 ACCAATCCTAAATGCCTACCTTTGGCATAAAAGTGGACCCGATGACAACCTAGTAGTTAGTTCTA
66 ACCAATCCTAAATGCCCACCTTTGGCATAAAAATAGACCCGATGACAACCTAGGAGTTAGTTATA
*
632246 AAAAATTATGAAAATACCCTTAGGG
131 AAAAATTACGAAAATACCCTTAGGG
* *
632271 GATACTTTCGACGTAGAAGTACCTGATACCCCTAAAAGACTTAAAAAAGGT
1 GATACTTTCGACGTAGAAGTACCCGATACCCCTAAAAGACTTGAAAAAGGT
632322 GATAAAAGGT
Statistics
Matches: 182, Mismatches: 21, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
154 134 0.74
155 48 0.26
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (155 bp):
GATACTTTCGACGTAGAAGTACCCGATACCCCTAAAAGACTTGAAAAAGGTTTAAGACGAAATGA
ACCAATCCTAAATGCCCACCTTTGGCATAAAAATAGACCCGATGACAACCTAGGAGTTAGTTATA
AAAAATTACGAAAATACCCTTAGGG
Found at i:632722 original size:15 final size:16
Alignment explanation
Indices: 632697--632726 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
632687 AGAATTTATT
632697 TATTATTTTATTTTTA
1 TATTATTTTATTTTTA
632713 TATT-TTTTATTTTT
1 TATTATTTTATTTTT
632727 GAAAATTTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (16 bp):
TATTATTTTATTTTTA
Found at i:633020 original size:163 final size:162
Alignment explanation
Indices: 632743--633167 Score: 541
Period size: 163 Copynumber: 2.6 Consensus size: 162
632733 TTCATTTCGG
* * **
632743 ACCTTAATGCAAGCCCGAAAAGATACGAAAAGTTTTTGAAATCTTTTATACCCCTACGGATTCCC
1 ACCTTAATGGAAGCCCAAAAAGATACGAAAAGTTTTTGAAATCTTTTATACCCCTAC-GAACCCC
* ** * * *
632808 ATAGGAATATAAAAAATAAAAAAAAAATTAA-AGTTTCTCTTAGTTATGAAAGTATTAGCTTAAT
65 ATAGGAATATAAAAAATTAAAAAATGATTAATA-TTTATCTTAATTATGAAAGTATTAACTTAAT
* * *
632872 TTTATATATTTGTTTTCGAAAGATA-CATTTTCAT
129 TTTATATACTTATTTTCGAAAAATACCA-TTTCAT
* * *
632906 ACCTTAATGGAAACCCAAAAAGATACAAAAAGTTTTTGAAATCTTTTATACCCCTACGAACCCCT
1 ACCTTAATGGAAGCCCAAAAAGATACGAAAAGTTTTTGAAATCTTTTATACCCCTACGAACCCCA
* *
632971 TAGGAATATAAAAAATTAGAAAAATGATTAATATTTAT-TTCAATTATGAAAGTGTTAATTTAAT
66 TAGGAATATAAAAAATTA-AAAAATGATTAATATTTATCTT-AATTATGAAAGTATTAACTTAAT
* * *
633035 TTTATTTACTTATTTTTGAAAAATACCATTTCGT
129 TTTATATACTTATTTTCGAAAAATACCATTTCAT
* * * * *
633069 ACCTTAATGGAAGCTCAAAAAAATATGAAAAGTTTTTGAAATCTTTTATACCCCTATGGACCCCC
1 ACCTTAATGGAAGCCCAAAAAGATACGAAAAGTTTTTGAAATCTTTTATACCCCTA-CGAACCCC
633134 ATAGGAATATAAAAAATTAAAAAATGATTAATAT
65 ATAGGAATATAAAAAATTAAAAAATGATTAATAT
633168 GGAAATATGT
Statistics
Matches: 228, Mismatches: 29, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
162 24 0.11
163 177 0.78
164 27 0.12
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.34
Consensus pattern (162 bp):
ACCTTAATGGAAGCCCAAAAAGATACGAAAAGTTTTTGAAATCTTTTATACCCCTACGAACCCCA
TAGGAATATAAAAAATTAAAAAATGATTAATATTTATCTTAATTATGAAAGTATTAACTTAATTT
TATATACTTATTTTCGAAAAATACCATTTCAT
Found at i:633982 original size:17 final size:16
Alignment explanation
Indices: 633960--634002 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
633950 ACTCATTTTC
633960 TTCTTTTTTTCTTGCCT
1 TTCTTTTTTTC-TGCCT
* **
633977 TTCTTTTTCTCTGTTT
1 TTCTTTTTTTCTGCCT
633993 TTCTTTTTTT
1 TTCTTTTTTT
634003 TTCAGCTGAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 12 0.55
17 10 0.45
ACGTcount: A:0.00, C:0.19, G:0.05, T:0.77
Consensus pattern (16 bp):
TTCTTTTTTTCTGCCT
Found at i:634558 original size:165 final size:168
Alignment explanation
Indices: 634374--634895 Score: 473
Period size: 165 Copynumber: 3.1 Consensus size: 168
634364 AATGGGAGTT
* * * *
634374 AATAATAATATTAGATGAATTTTAAAAATTTTAAATC-AATAAAAATCTCCTAGAAAATATTTAC
1 AATAATAATATTTGATGAATTTTAAAAATTTTAAAACTAAGAAAAATCTCCTAGAAAAAATTTAC
* * * * *
634438 GGAGTAGAAAACT-CGATTTTTTAAAAATA-GAGAGATTTCAA-ATAAAAAA-TGAAAACCCCAT
66 GAAGTAGAAAACTCCG-TATTTCAAAAATAGGAGA-ATTTCAAGA-AAAAAATTCAAAAACCCAT
634499 GAAAATGAATGAATTTTTAAAAA-TAATTTAATATGAAATA
128 GAAAATGAATGAATTTTTAAAAATTAATTTAATATGAAATA
* * *
634539 AATAATAATATTTGATGAATTTTAAAAA-TTAAAAACTAAGAAAAATCTCTTCGAAAAAATTTAC
1 AATAATAATATTTGATGAATTTTAAAAATTTTAAAACTAAGAAAAATCTCCTAGAAAAAATTTAC
*
634603 GAAGTAGAAAACTCCGTATTTCAAAAATAGGAGAATTTCAAGGAAAAAAATTCAAAAACTCATGA
66 GAAGTAGAAAACTCCGTATTTCAAAAATAGGAGAATTTCAA-GAAAAAAATTCAAAAACCCATGA
* * * **
634668 AGATGACTGAATTTTTAAAAATTGATTTAATATGATTTA
130 AAATGAATGAATTTTTAAAAATTAATTTAATATGAAATA
* * * * *
634707 AATAATAATATTTTATGAATTTTAAAAAATTTT-AAACCATG-AAAGTCCTTCT-GAAAAAATTT
1 AATAATAATATTTGATGAATTTT-AAAAATTTTAAAACTAAGAAAAAT-CTCCTAGAAAAAATTT
* * * * * * * *
634769 ACAAAG-AGAAAAACTCTGTAATTT-GAAAATATGAGGAATTCCAA-AAGAACA-TCAATAACCC
64 ACGAAGTAG-AAAACTCCGT-ATTTCAAAAATAGGA-GAATTTCAAGAAAAAAATTCAAAAACCC
** * * * * *
634830 AAAAAAATAAAAGGAATTTTT-AAAATTGATTTGATGA-GAATTA
126 ATGAAAAT-GAATGAATTTTTAAAAATTAATTTAAT-ATGAAATA
* *
634873 AATGATAATATTTGAAGAATTTT
1 AATAATAATATTTGATGAATTTT
634896 GATGTTTGAA
Statistics
Matches: 297, Mismatches: 45, Indels: 29
0.80 0.12 0.08
Matches are distributed among these distances:
164 6 0.02
165 80 0.27
166 63 0.21
167 48 0.16
168 72 0.24
169 26 0.09
170 2 0.01
ACGTcount: A:0.50, C:0.08, G:0.11, T:0.31
Consensus pattern (168 bp):
AATAATAATATTTGATGAATTTTAAAAATTTTAAAACTAAGAAAAATCTCCTAGAAAAAATTTAC
GAAGTAGAAAACTCCGTATTTCAAAAATAGGAGAATTTCAAGAAAAAAATTCAAAAACCCATGAA
AATGAATGAATTTTTAAAAATTAATTTAATATGAAATA
Found at i:636006 original size:72 final size:72
Alignment explanation
Indices: 635872--636015 Score: 180
Period size: 72 Copynumber: 2.0 Consensus size: 72
635862 ATATAGACAG
* * * * * * * *
635872 ATGAGGAAAGGCTTGATCGAATACAATCAAGCGAGATAAGATTTGATCAAGTATAGTCAAATGAA
1 ATGAAGAAAGACTTGACCAAATACAATCAAGCAAGATAAAATTTGATCAAGTACAATCAAATGAA
635937 GAAAGAC
66 GAAAGAC
* * * *
635944 ATGAAGAAAGACTTGACCAAATACAGTCAAGCAAGGTAAAATTTGATCGAGTACAATTAAATGAA
1 ATGAAGAAAGACTTGACCAAATACAATCAAGCAAGATAAAATTTGATCAAGTACAATCAAATGAA
636009 GAAAGAC
66 GAAAGAC
636016 TTGACCGAAT
Statistics
Matches: 60, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
72 60 1.00
ACGTcount: A:0.47, C:0.12, G:0.22, T:0.20
Consensus pattern (72 bp):
ATGAAGAAAGACTTGACCAAATACAATCAAGCAAGATAAAATTTGATCAAGTACAATCAAATGAA
GAAAGAC
Found at i:636042 original size:60 final size:60
Alignment explanation
Indices: 635944--636636 Score: 553
Period size: 60 Copynumber: 11.6 Consensus size: 60
635934 GAAGAAAGAC
* * * *
635944 ATGAAGAAAGACTTGACCAAATACAGTCAAGCAAGGTAAAATTTGATCGAGTACAATTAA
1 ATGAAGAAAGACTTGACCGAATACAGTCAAGCAGGGTAAAATTTGATCGAGTACAGTCAA
* * * * *
636004 ATGAAGAAAGACTTGACCGAATATAGTCAAGCATGGTAAGATTTGACCGAGTATAGTCAA
1 ATGAAGAAAGACTTGACCGAATACAGTCAAGCAGGGTAAAATTTGATCGAGTACAGTCAA
** * * * *
636064 ATGAAGAAAGTTTTAACCGAATACAATCAA-AAGGGGTAAGATTTGATCGAGTACAGTCAA
1 ATGAAGAAAGACTTGACCGAATACAGTCAAGCA-GGGTAAAATTTGATCGAGTACAGTCAA
* * * * * *
636124 ATGAGGAAAGACTTGACTGAATACAGTCAAGCAAGGATGAAATTTGA-CTGAATATAGTCAA
1 ATGAAGAAAGACTTGACCGAATACAGTCAAGC-AGGGTAAAATTTGATC-GAGTACAGTCAA
* * * * ** * *
636185 ATGAGGAAGGTCTTGACCGAATACAGTTAAATAGGGTAAGATTTGATCGAGTACAATCAA
1 ATGAAGAAAGACTTGACCGAATACAGTCAAGCAGGGTAAAATTTGATCGAGTACAGTCAA
* * * * * * * *
636245 ATGACGAAAAACTTAACTGAATACAATCAAGTGAGGGTGAAATTTGATCGAATACAGTCAA
1 ATGAAGAAAGACTTGACCGAATACAGTCAAG-CAGGGTAAAATTTGATCGAGTACAGTCAA
** * *
636306 AT-AAGAAAGA--T---CGAATACAGTCAAGTGGGGTAAAATTTGACCGAGTATAGTCAA
1 ATGAAGAAAGACTTGACCGAATACAGTCAAGCAGGGTAAAATTTGATCGAGTACAGTCAA
** * *
636360 ATG-AGAAAAGACTTGATTGAATACAGTCAAGCGAGGGTGAAATTTGATCGAATACAGTCAA
1 ATGAAG-AAAGACTTGACCGAATACAGTCAAGC-AGGGTAAAATTTGATCGAGTACAGTCAA
* * * ** *
636421 ATG-AGGAAGATCTTGATCGAATACAGTAAAAAAGGGTAAGATTTGATCGAGTACAGTCAA
1 ATGAAGAAAGA-CTTGACCGAATACAGTCAAGCAGGGTAAAATTTGATCGAGTACAGTCAA
* * * * * * *
636481 ATGAGGAAAGACTTGACTGAATATATTCAAGCGAGGGTGAAATTTGACCGAGTATAGTCAA
1 ATGAAGAAAGACTTGACCGAATACAGTCAAGC-AGGGTAAAATTTGATCGAGTACAGTCAA
* * * * ** * * * * * *
636542 ATGAGGAAAGGCTTAATCGAGCAAAGTCAAACAAGGTAATATTTGACCGAATACAGTCAA
1 ATGAAGAAAGACTTGACCGAATACAGTCAAGCAGGGTAAAATTTGATCGAGTACAGTCAA
* * * * * *
636602 ATGATGAAGGTCTTAATCGAATACAATCAAG-AGGG
1 ATGAAGAAAGACTTGACCGAATACAGTCAAGCAGGG
636637 ATGGTTTTTG
Statistics
Matches: 500, Mismatches: 116, Indels: 35
0.77 0.18 0.05
Matches are distributed among these distances:
54 27 0.05
55 17 0.03
57 1 0.00
58 1 0.00
59 4 0.01
60 279 0.56
61 170 0.34
62 1 0.00
ACGTcount: A:0.42, C:0.12, G:0.23, T:0.23
Consensus pattern (60 bp):
ATGAAGAAAGACTTGACCGAATACAGTCAAGCAGGGTAAAATTTGATCGAGTACAGTCAA
Found at i:636149 original size:30 final size:30
Alignment explanation
Indices: 636002--636503 Score: 211
Period size: 30 Copynumber: 16.8 Consensus size: 30
635992 GAGTACAATT
* * * *
636002 AAATGAAGAAAGACTTGACCGAATATAGTC
1 AAATGAGGAAAGATTTGACTGAATACAGTC
* * * *
636032 -AA-GCATGGTAAGATTTGACCGAGTATAGTC
1 AAATG-A-GGAAAGATTTGACTGAATACAGTC
* * * * *
636062 AAATGAAGAAAGTTTTAACCGAATACAATC
1 AAATGAGGAAAGATTTGACTGAATACAGTC
* * * *
636092 AAAAGGGGTAAGATTTGA-TCGAGTACAGTC
1 AAATGAGGAAAGATTTGACT-GAATACAGTC
*
636122 AAATGAGGAAAGACTTGACTGAATACAGTC
1 AAATGAGGAAAGATTTGACTGAATACAGTC
*** *
636152 AAGCAAGGATGAA-ATTTGACTGAATATAGTC
1 AAATGAGGA--AAGATTTGACTGAATACAGTC
* * *
636183 AAATGAGG-AAGGTCTTGACCGAATACAGTT
1 AAATGAGGAAAGAT-TTGACTGAATACAGTC
* * *
636213 AAAT-AGGGTAAGATTTGA-TCGAGTACAATC
1 AAATGA-GGAAAGATTTGACT-GAATACAGTC
* * * * *
636243 AAATGACGAAAAACTTAACTGAATACAATC
1 AAATGAGGAAAGATTTGACTGAATACAGTC
* *
636273 AAGTGAGGGTGAA-ATTTGA-TCGAATACAGTC
1 AAATGA-GG-AAAGATTTGACT-GAATACAGTC
*
636304 AAAT-AAGAAAGA--T--C-GAATACAGTC
1 AAATGAGGAAAGATTTGACTGAATACAGTC
* * * * *
636328 AAGTGGGGTAAA-ATTTGACCGAGTATAGTC
1 AAATGAGG-AAAGATTTGACTGAATACAGTC
* * *
636358 AAATGAGAAAAGACTTGATTGAATACAGTC
1 AAATGAGGAAAGATTTGACTGAATACAGTC
** *
636388 AAGCGAGGGTGAA-ATTTGA-TCGAATACAGTC
1 AAATGA-GG-AAAGATTTGACT-GAATACAGTC
636419 AAATGAGG-AAGATCTTGA-TCGAATACAGT-
1 AAATGAGGAAAGAT-TTGACT-GAATACAGTC
** * *
636448 AAAAAAGGGTAAGATTTGA-TCGAGTACAGTC
1 AAATGA-GGAAAGATTTGACT-GAATACAGTC
*
636479 AAATGAGGAAAGACTTGACTGAATA
1 AAATGAGGAAAGATTTGACTGAATA
636504 TATTCAAGCG
Statistics
Matches: 350, Mismatches: 85, Indels: 74
0.69 0.17 0.15
Matches are distributed among these distances:
24 13 0.04
25 2 0.01
26 3 0.01
27 2 0.01
28 7 0.02
29 17 0.05
30 221 0.63
31 78 0.22
32 7 0.02
ACGTcount: A:0.42, C:0.12, G:0.23, T:0.23
Consensus pattern (30 bp):
AAATGAGGAAAGATTTGACTGAATACAGTC
Found at i:636234 original size:121 final size:121
Alignment explanation
Indices: 635955--636605 Score: 660
Period size: 121 Copynumber: 5.4 Consensus size: 121
635945 TGAAGAAAGA
* ** * * * * *
635955 CTTGACCAAATACAGTCAAGCAAGGTAAAATTTGATCGAGTACAATTAAATGAAGAAAGACTTGA
1 CTTGACCGAATACAGTCAAATAGGGTAAGATTTGATCGAGTACAGTCAAATGAGGAAAGACTTGA
* * * * * * *
636020 CCGAATATAGTCAAGC-ATGGT-AAGATTTGACCGAGTATAGTCAAATGAAGAAAGT
66 CTGAATACAGTCAAGCGAGGGTGAA-ATTTGACTGAATATAGTCAAATGAGGAAGGT
* * *
636075 TTTAACCGAATACAATCAAA-AGGGGTAAGATTTGATCGAGTACAGTCAAATGAGGAAAGACTTG
1 CTTGACCGAATACAGTCAAATA-GGGTAAGATTTGATCGAGTACAGTCAAATGAGGAAAGACTTG
* *
636139 ACTGAATACAGTCAAGCAAGGATGAAATTTGACTGAATATAGTCAAATGAGGAAGGT
65 ACTGAATACAGTCAAGCGAGGGTGAAATTTGACTGAATATAGTCAAATGAGGAAGGT
* * * * *
636196 CTTGACCGAATACAGTTAAATAGGGTAAGATTTGATCGAGTACAATCAAATGACGAAAAACTTAA
1 CTTGACCGAATACAGTCAAATAGGGTAAGATTTGATCGAGTACAGTCAAATGAGGAAAGACTTGA
* * * *
636261 CTGAATACAATCAAGTGAGGGTGAAATTTGA-TCGAATACAGTCAAAT-AAGAA---
66 CTGAATACAGTCAAGCGAGGGTGAAATTTGACT-GAATATAGTCAAATGAGGAAGGT
* * * * * * * *
636313 --AGATCGAATACAGTCAAGTGGGGTAAAATTTGACCGAGTATAGTCAAATGAGAAAAGACTTGA
1 CTTGACCGAATACAGTCAAATAGGGTAAGATTTGATCGAGTACAGTCAAATGAGGAAAGACTTGA
* * *
636376 TTGAATACAGTCAAGCGAGGGTGAAATTTGA-TCGAATACAGTCAAATGAGGAAGAT
66 CTGAATACAGTCAAGCGAGGGTGAAATTTGACT-GAATATAGTCAAATGAGGAAGGT
* * *
636432 CTTGATCGAATACAGTAAAAAAGGGTAAGATTTGATCGAGTACAGTCAAATGAGGAAAGACTTGA
1 CTTGACCGAATACAGTCAAATAGGGTAAGATTTGATCGAGTACAGTCAAATGAGGAAAGACTTGA
* * * *
636497 CTGAATATATTCAAGCGAGGGTGAAATTTGACCGAGTATAGTCAAATGAGGAAAGG-
66 CTGAATACAGTCAAGCGAGGGTGAAATTTGACTGAATATAGTCAAATGAGG-AAGGT
* * ** * * * * * *
636553 CTTAATCGAGCAAAGTCAAACAAGGTAATATTTGACCGAATACAGTCAAATGA
1 CTTGACCGAATACAGTCAAATAGGGTAAGATTTGATCGAGTACAGTCAAATGA
636606 TGAAGGTCTT
Statistics
Matches: 443, Mismatches: 75, Indels: 25
0.82 0.14 0.05
Matches are distributed among these distances:
115 94 0.21
116 4 0.01
119 1 0.00
120 72 0.16
121 266 0.60
122 6 0.01
ACGTcount: A:0.42, C:0.12, G:0.23, T:0.23
Consensus pattern (121 bp):
CTTGACCGAATACAGTCAAATAGGGTAAGATTTGATCGAGTACAGTCAAATGAGGAAAGACTTGA
CTGAATACAGTCAAGCGAGGGTGAAATTTGACTGAATATAGTCAAATGAGGAAGGT
Found at i:636383 original size:236 final size:237
Alignment explanation
Indices: 635951--636551 Score: 755
Period size: 236 Copynumber: 2.5 Consensus size: 237
635941 GACATGAAGA
* ** * *
635951 AAGA-CTTGACCAAATACAGTCAAGCAA-GGTAAAATTTGATCGAGTACAATTAAATGAAGAAAG
1 AAGATCTTGACCGAATACAGT-AAAAAAGGGTAAGATTTGATCGAGTACAATCAAATGAAGAAAG
* * * *
636014 ACTTGACCGAATATAGTCAAGCATGGT-AAGATTTGACCGAGTATAGTCAAATGAAGAAAGTTTT
65 ACTTGACTGAATATAATCAAGGAGGGTGAA-ATTTGACCGAGTATAGTCAAATGAAGAAAG---T
* * *
636078 AACCGAATACAATCAAAAGGGGTAAGATTTGATCGAGTACAGTCAAATGAGGAAAGACTTGACTG
126 -ACCGAATACAATCAAAAGGGGTAAAATTTGACCGAGTACAGTCAAATGAGAAAAGACTTGACTG
*
636143 AATACAGTCAAGCAAGGATGAAATTTGA-CTGAATATAGTCAAATGAGG
190 AATACAGTCAAGCAAGGATGAAATTTGATC-GAATACAGTCAAATGAGG
* * * * *
636191 AAGGTCTTGACCGAATACAGTTAAATAGGGTAAGATTTGATCGAGTACAATCAAATGACGAAAAA
1 AAGATCTTGACCGAATACAGTAAAAAAGGGTAAGATTTGATCGAGTACAATCAAATGAAGAAAGA
* * * * * *
636256 CTTAACTGAATACAATCAAGTGAGGGTGAAATTTGATCGAATACAGTCAAAT-AAGAAAG-ATCG
66 CTTGACTGAATATAATCAAG-GAGGGTGAAATTTGACCGAGTATAGTCAAATGAAGAAAGTACCG
* ** * *
636319 AATACAGTCAAGTGGGGTAAAATTTGACCGAGTATAGTCAAATGAGAAAAGACTTGATTGAATAC
130 AATACAATCAAAAGGGGTAAAATTTGACCGAGTACAGTCAAATGAGAAAAGACTTGACTGAATAC
* *
636384 AGTCAAGCGAGGGTGAAATTTGATCGAATACAGTCAAATGAGG
195 AGTCAAGCAAGGATGAAATTTGATCGAATACAGTCAAATGAGG
* * *
636427 AAGATCTTGATCGAATACAGTAAAAAAGGGTAAGATTTGATCGAGTACAGTCAAATGAGGAAAGA
1 AAGATCTTGACCGAATACAGTAAAAAAGGGTAAGATTTGATCGAGTACAATCAAATGAAGAAAGA
* *
636492 CTTGACTGAATATATTCAAGCGAGGGTGAAATTTGACCGAGTATAGTCAAATGAGGAAAG
66 CTTGACTGAATATAATCAAG-GAGGGTGAAATTTGACCGAGTATAGTCAAATGAAGAAAG
636552 GCTTAATCGA
Statistics
Matches: 309, Mismatches: 46, Indels: 15
0.84 0.12 0.04
Matches are distributed among these distances:
236 201 0.65
237 7 0.02
240 5 0.02
241 71 0.23
242 23 0.07
243 2 0.01
ACGTcount: A:0.42, C:0.12, G:0.23, T:0.23
Consensus pattern (237 bp):
AAGATCTTGACCGAATACAGTAAAAAAGGGTAAGATTTGATCGAGTACAATCAAATGAAGAAAGA
CTTGACTGAATATAATCAAGGAGGGTGAAATTTGACCGAGTATAGTCAAATGAAGAAAGTACCGA
ATACAATCAAAAGGGGTAAAATTTGACCGAGTACAGTCAAATGAGAAAAGACTTGACTGAATACA
GTCAAGCAAGGATGAAATTTGATCGAATACAGTCAAATGAGG
Found at i:636413 original size:31 final size:32
Alignment explanation
Indices: 636367--636547 Score: 121
Period size: 31 Copynumber: 5.9 Consensus size: 32
636357 CAAATGAGAA
* * *
636367 AAGACTTGATTGAATACAGTCAAGCGAGGGTG
1 AAGATTTGATCGAATACAGTCAAACGAGGGTG
*
636399 AA-ATTTGATCGAATACAGTCAAATGA--G-G
1 AAGATTTGATCGAATACAGTCAAACGAGGGTG
**
636427 AAGATCTTGATCGAATACAGT-AAAAAAGGGT-
1 AAGAT-TTGATCGAATACAGTCAAACGAGGGTG
* * *
636458 AAGATTTGATCGAGTACAGTCAAATGA-GG-A
1 AAGATTTGATCGAATACAGTCAAACGAGGGTG
* * * *
636488 AAGACTTGA-CTGAATATATTCAAGCGAGGGTG
1 AAGATTTGATC-GAATACAGTCAAACGAGGGTG
* * * *
636520 AA-ATTTGACCGAGTATAGTCAAATGAGG
1 AAGATTTGATCGAATACAGTCAAACGAGG
636548 AAAGGCTTAA
Statistics
Matches: 117, Mismatches: 21, Indels: 23
0.73 0.13 0.14
Matches are distributed among these distances:
28 3 0.03
29 8 0.07
30 50 0.43
31 51 0.44
32 5 0.04
ACGTcount: A:0.39, C:0.11, G:0.26, T:0.24
Consensus pattern (32 bp):
AAGATTTGATCGAATACAGTCAAACGAGGGTG
Found at i:639003 original size:56 final size:56
Alignment explanation
Indices: 638929--639035 Score: 144
Period size: 56 Copynumber: 1.9 Consensus size: 56
638919 TTATTAGGCT
* *
638929 TACAACATAGCCAGCTATGTTAAGCTCAATACACTA-GGGCTTAACTTTACTGAACG
1 TACAACATAGCCAACTATGTTAAGCTCAATACACTATGGGC-CAACTTTACTGAACG
* * * *
638985 TACAATATAGCTAACTATGTTAGGCTCAATACATTATGGGCCAACTTTACT
1 TACAACATAGCCAACTATGTTAAGCTCAATACACTATGGGCCAACTTTACT
639036 AAGTTTACAA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
56 40 0.91
57 4 0.09
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (56 bp):
TACAACATAGCCAACTATGTTAAGCTCAATACACTATGGGCCAACTTTACTGAACG
Found at i:639045 original size:56 final size:55
Alignment explanation
Indices: 638908--639057 Score: 142
Period size: 56 Copynumber: 2.7 Consensus size: 55
638898 TCTTTTTTCA
* * * *
638908 ATGGGCCAGCTTTATTAGGCTTACAACATAGCCAGCTATGTTAAGCTCAATACACT
1 ATGGGCCAACTTTACTAAG-TTACAACATAGCCAACTATGTTAAGCTCAATACACT
* * * * *
638964 A-GGGCTTAACTTTACTGAACG-TACAATATAGCTAACTATGTTAGGCTCAATACATT
1 ATGGGC-CAACTTTACT-AA-GTTACAACATAGCCAACTATGTTAAGCTCAATACACT
* *
639020 ATGGGCCAACTTTACTAAGTTTACAACATGGTCAACTA
1 ATGGGCCAACTTTACTAAG-TTACAACATAGCCAACTA
639058 CGTTGGGCTT
Statistics
Matches: 74, Mismatches: 14, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
54 1 0.01
55 6 0.08
56 61 0.82
57 5 0.07
58 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.30
Consensus pattern (55 bp):
ATGGGCCAACTTTACTAAGTTACAACATAGCCAACTATGTTAAGCTCAATACACT
Found at i:640524 original size:22 final size:23
Alignment explanation
Indices: 640493--640537 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
640483 TTTCGTTATT
*
640493 TTATAAATTTTA-AAATATATAA
1 TTATAAATTTTACAAATAAATAA
*
640515 TTATATATTTTACAAATAAATAA
1 TTATAAATTTTACAAATAAATAA
640538 AATTAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (23 bp):
TTATAAATTTTACAAATAAATAA
Found at i:641984 original size:11 final size:10
Alignment explanation
Indices: 641932--641981 Score: 57
Period size: 10 Copynumber: 4.9 Consensus size: 10
641922 ATCATGAAAA
641932 TTTAATTAAT
1 TTTAATTAAT
*
641942 TTTAA-AATAT
1 TTTAATTA-AT
641952 TTTAATTAAT
1 TTTAATTAAT
*
641962 TTCACATTAAT
1 TTTA-ATTAAT
641973 TTTAATTAA
1 TTTAATTAA
641982 ATTACATTCT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
9 1 0.03
10 22 0.67
11 10 0.30
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (10 bp):
TTTAATTAAT
Found at i:642030 original size:80 final size:79
Alignment explanation
Indices: 641939--642099 Score: 261
Period size: 80 Copynumber: 2.0 Consensus size: 79
641929 AAATTTAATT
* *
641939 AATTTTAAAATATTTTAATTAATTTCACATTAATTTTAATTAAATTACATTCTAGTTCAAAT-CC
1 AATTTTAAAATATTTTAATTAATATCACATTAATTTTAATTAAATTACATTCTACTTCAAATACC
642003 CTATTAAATATTTAA
66 C-ATTAAATATTTAA
* *
642018 AATTTTAAAAATATTTTAATTACTATCATATTAATTTTAATTAAATTACATTCTACTTCAAATAC
1 AATTTT-AAAATATTTTAATTAATATCACATTAATTTTAATTAAATTACATTCTACTTCAAATAC
642083 CCATTAAATATTTAA
65 CCATTAAATATTTAA
642098 AA
1 AA
642100 CTTATTTTTA
Statistics
Matches: 76, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
79 6 0.08
80 67 0.88
81 3 0.04
ACGTcount: A:0.43, C:0.11, G:0.01, T:0.45
Consensus pattern (79 bp):
AATTTTAAAATATTTTAATTAATATCACATTAATTTTAATTAAATTACATTCTACTTCAAATACC
CATTAAATATTTAA
Found at i:645227 original size:20 final size:20
Alignment explanation
Indices: 645189--645227 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
645179 TAATATAGTG
**
645189 ATATAAACCAATATTAACCA
1 ATATAAACCAATACGAACCA
*
645209 ATATAAATCAATACGAACC
1 ATATAAACCAATACGAACC
645228 GGTTCAAATA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.54, C:0.21, G:0.03, T:0.23
Consensus pattern (20 bp):
ATATAAACCAATACGAACCA
Found at i:656955 original size:34 final size:35
Alignment explanation
Indices: 656908--656975 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 35
656898 GTTATGTTGA
*
656908 CAAAGTTGTCATTTCCCA-TATTCTAGGGATTTGC
1 CAAAGTTGACATTTCCCACTATTCTAGGGATTTGC
* * * *
656942 CAAATTTGACATTTCCTACTTTTTTAGGGATTTG
1 CAAAGTTGACATTTCCCACTATTCTAGGGATTTG
656976 TTTCCGACTA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
34 15 0.54
35 13 0.46
ACGTcount: A:0.24, C:0.18, G:0.16, T:0.43
Consensus pattern (35 bp):
CAAAGTTGACATTTCCCACTATTCTAGGGATTTGC
Found at i:658545 original size:82 final size:82
Alignment explanation
Indices: 658442--658606 Score: 233
Period size: 82 Copynumber: 2.0 Consensus size: 82
658432 GCTCTCCCTG
* * * * * *
658442 TTCCAAAGTTATTTTGGAATTTATTATTTGTTAGTAAGATTAACAAAGATCTAAATTATCCTACC
1 TTCCAAAGTTATCTTGCAATTTATTATTCGTTAGTAAAATTAACAAAGATCCAAATTATACTACC
658507 C-GCTTCTCACATTCCAT
66 CAG-TTCTCACATTCCAT
* *
658524 TTCCAAAGTTATCTTGCAATTTATTATTCGTTAGTAAAATTACCAAAGATCCAAATTATACTGCC
1 TTCCAAAGTTATCTTGCAATTTATTATTCGTTAGTAAAATTAACAAAGATCCAAATTATACTACC
*
658589 CAGTTCTCACTTTCCAT
66 CAGTTCTCACATTCCAT
658606 T
1 T
658607 CAGTAAATTT
Statistics
Matches: 73, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
82 72 0.99
83 1 0.01
ACGTcount: A:0.32, C:0.20, G:0.09, T:0.39
Consensus pattern (82 bp):
TTCCAAAGTTATCTTGCAATTTATTATTCGTTAGTAAAATTAACAAAGATCCAAATTATACTACC
CAGTTCTCACATTCCAT
Found at i:665642 original size:27 final size:28
Alignment explanation
Indices: 665603--665655 Score: 65
Period size: 27 Copynumber: 1.9 Consensus size: 28
665593 AAAATTGAAT
*
665603 AAAATATATTAAA-AAAGAAAAGAATAAA
1 AAAATATAATAAAGAAA-AAAAGAATAAA
*
665631 AAAAT-TAATAAAGAAAAAGAGAATA
1 AAAATATAATAAAGAAAAAAAGAATA
665656 TAATTAAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
27 14 0.64
28 8 0.36
ACGTcount: A:0.74, C:0.00, G:0.09, T:0.17
Consensus pattern (28 bp):
AAAATATAATAAAGAAAAAAAGAATAAA
Found at i:665650 original size:25 final size:25
Alignment explanation
Indices: 665599--665647 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
665589 TAAAAAAATT
*
665599 GAATAAAATATATTAAAAAAGAAAA
1 GAATAAAATAAATTAAAAAAGAAAA
*
665624 GAATAAAA-AAATTAATAAAGAAAA
1 GAATAAAATAAATTAAAAAAGAAAA
665648 AGAGAATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 14 0.64
25 8 0.36
ACGTcount: A:0.73, C:0.00, G:0.08, T:0.18
Consensus pattern (25 bp):
GAATAAAATAAATTAAAAAAGAAAA
Found at i:666043 original size:20 final size:20
Alignment explanation
Indices: 666012--666049 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
666002 GATCTACCAT
666012 TTTAAGAAATAACAAAAAATG
1 TTTAAGAAATAA-AAAAAATG
666033 TTTAA-AAATAAAAAAAA
1 TTTAAGAAATAAAAAAAA
666050 AAGAATGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 6 0.35
20 6 0.35
21 5 0.29
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.24
Consensus pattern (20 bp):
TTTAAGAAATAAAAAAAATG
Found at i:666051 original size:21 final size:21
Alignment explanation
Indices: 666012--666050 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
666002 GATCTACCAT
*
666012 TTTAAGAAATAACAAAAAATG
1 TTTAAGAAATAAAAAAAAATG
666033 TTTAA-AAATAAAAAAAAA
1 TTTAAGAAATAAAAAAAAA
666051 AGAATGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.69, C:0.03, G:0.05, T:0.23
Consensus pattern (21 bp):
TTTAAGAAATAAAAAAAAATG
Found at i:668857 original size:16 final size:16
Alignment explanation
Indices: 668838--668911 Score: 60
Period size: 16 Copynumber: 4.6 Consensus size: 16
668828 TTCGAGTCCA
668838 TTCGGGTTTGAGCTCG
1 TTCGGGTTTGAGCTCG
* *
668854 TTCGAG-TTCAGGCTCG
1 TTCGGGTTTGA-GCTCG
* * * *
668870 TTCAGGTTCGAGTTTG
1 TTCGGGTTTGAGCTCG
* *
668886 TTCGAGTTCGAGCTCG
1 TTCGGGTTTGAGCTCG
668902 TTCGGGTTTG
1 TTCGGGTTTG
668912 GACTTATACG
Statistics
Matches: 42, Mismatches: 14, Indels: 4
0.70 0.23 0.07
Matches are distributed among these distances:
15 3 0.07
16 37 0.88
17 2 0.05
ACGTcount: A:0.09, C:0.19, G:0.34, T:0.38
Consensus pattern (16 bp):
TTCGGGTTTGAGCTCG
Found at i:669120 original size:36 final size:33
Alignment explanation
Indices: 669075--669160 Score: 86
Period size: 36 Copynumber: 2.4 Consensus size: 33
669065 TTTTTGAGTA
669075 AATT-TTTATTATACAAT-TATATTTATAATATATTT
1 AATTATTTATTATA-AATCTATATTTAT-ATATA--T
669110 AATTATTTATTTATTGAAATCTATATTTATATATAT
1 AATTATTTA-TTA-T-AAATCTATATTTATATATAT
669146 AATTAATTTATTATA
1 AATT-ATTTATTATA
669161 TAAAATTAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 13
0.78 0.00 0.22
Matches are distributed among these distances:
34 1 0.02
35 5 0.11
36 12 0.27
37 8 0.18
38 9 0.20
39 10 0.22
ACGTcount: A:0.41, C:0.02, G:0.01, T:0.56
Consensus pattern (33 bp):
AATTATTTATTATAAATCTATATTTATATATAT
Found at i:669162 original size:18 final size:17
Alignment explanation
Indices: 669134--669172 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
669124 TGAAATCTAT
*
669134 ATTTATATATATAATTA
1 ATTTATATATAAAATTA
669151 ATTTATTATATAAAATTA
1 ATTTA-TATATAAAATTA
669169 ATTT
1 ATTT
669173 TTCAAATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTATATATAAAATTA
Found at i:669835 original size:20 final size:20
Alignment explanation
Indices: 669810--669853 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
669800 CATCGAATCT
669810 GTCACAACTTGTGACATTCC
1 GTCACAACTTGTGACATTCC
*
669830 GTCACAACTTGTGACATTCT
1 GTCACAACTTGTGACATTCC
669850 GTCA
1 GTCA
669854 TAATTTTCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.25, C:0.27, G:0.16, T:0.32
Consensus pattern (20 bp):
GTCACAACTTGTGACATTCC
Found at i:681672 original size:49 final size:48
Alignment explanation
Indices: 681561--681673 Score: 111
Period size: 49 Copynumber: 2.3 Consensus size: 48
681551 ATTTTGGTCA
* * *
681561 ATTTTGACAATAAA-TACAAAACTAGCTCTAAAAGACTTCATTTCGATT
1 ATTTTGATAA-AAAGTACAAAACTAACTCTAAAAGACTTCATTTAGATT
* * * * **
681609 AGTTTTAATGAAAAGTACAAAACTAATTTTAAAAGACTTGGTTTAGATT
1 A-TTTTGATAAAAAGTACAAAACTAACTCTAAAAGACTTCATTTAGATT
681658 GATTTTGATAAAAAGT
1 -ATTTTGATAAAAAGT
681674 TGAAAGACTT
Statistics
Matches: 51, Mismatches: 11, Indels: 5
0.76 0.16 0.07
Matches are distributed among these distances:
48 4 0.08
49 46 0.90
50 1 0.02
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.35
Consensus pattern (48 bp):
ATTTTGATAAAAAGTACAAAACTAACTCTAAAAGACTTCATTTAGATT
Done.