Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007879.1 Hibiscus syriacus cultivar Beakdansim tig00110257_pilon, whole genome shotgun sequence
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: 1117421
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 4
Found at i:661761 original size:17 final size:17
Alignment explanation
Indices: 661739--661772 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
661729 TTAGAATTAC
*
661739 GAGAGAAAATTATTTTA
1 GAGAGAAAATAATTTTA
*
661756 GAGAGATAATAATTTTA
1 GAGAGAAAATAATTTTA
661773 AAATATATGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.18, T:0.35
Consensus pattern (17 bp):
GAGAGAAAATAATTTTA
Found at i:667354 original size:17 final size:17
Alignment explanation
Indices: 667325--667363 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
667315 TTTAAGGTTT
* *
667325 TTAA-AATATATTTTTA
1 TTAATAATAAATTTTAA
667341 TTAATAATAAATTTTAA
1 TTAATAATAAATTTTAA
667358 TTAATA
1 TTAATA
667364 CTAAGCTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TTAATAATAAATTTTAA
Found at i:672216 original size:3 final size:3
Alignment explanation
Indices: 672208--672235 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
672198 TGTAATAGAC
672208 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
672236 GAATTTGAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:673091 original size:24 final size:24
Alignment explanation
Indices: 673035--673092 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 24
673025 AGAATAAAAT
673035 TTTAATATTATAAATATAAGTATAGA
1 TTTAAT-TTATAAATAT-AGTATAGA
* *
673061 TTAAATTTATAAGATAT-GTATATA
1 TTTAATTTATAA-ATATAGTATAGA
673085 TTTAATTT
1 TTTAATTT
673093 GAATTAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
24 13 0.46
25 6 0.21
26 9 0.32
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (24 bp):
TTTAATTTATAAATATAGTATAGA
Found at i:676877 original size:28 final size:28
Alignment explanation
Indices: 676780--676876 Score: 140
Period size: 28 Copynumber: 3.5 Consensus size: 28
676770 TAATTGAATG
* *
676780 GTGATACGTAACACGACATATATCAACA
1 GTGACACGTGACACGACATATATCAACA
* * *
676808 GTGACACGTGATACGATATATGTCAACA
1 GTGACACGTGACACGACATATATCAACA
*
676836 GTGACACGTGACATGACATATATCAACA
1 GTGACACGTGACACGACATATATCAACA
676864 GTGACACGTGACA
1 GTGACACGTGACA
676877 TCATTCGATT
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 60 1.00
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.22
Consensus pattern (28 bp):
GTGACACGTGACACGACATATATCAACA
Found at i:679333 original size:6 final size:6
Alignment explanation
Indices: 679322--679346 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
679312 GTTTCCCGAA
679322 GACTGC GACTGC GACTGC GACTGC G
1 GACTGC GACTGC GACTGC GACTGC G
679347 GCGGCGTCGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.32, G:0.36, T:0.16
Consensus pattern (6 bp):
GACTGC
Found at i:680279 original size:13 final size:13
Alignment explanation
Indices: 680261--680294 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
680251 AAATTTAGGC
680261 ACTAAAATCAGGT
1 ACTAAAATCAGGT
680274 ACTAAAATCAGGT
1 ACTAAAATCAGGT
680287 ACTAAAAT
1 ACTAAAAT
680295 GAACCAAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.50, C:0.15, G:0.12, T:0.24
Consensus pattern (13 bp):
ACTAAAATCAGGT
Found at i:695872 original size:15 final size:16
Alignment explanation
Indices: 695852--695881 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
695842 CTAAATCAAA
695852 TTATTTTAG-AGTGAT
1 TTATTTTAGTAGTGAT
695867 TTATTTTAGTAGTGA
1 TTATTTTAGTAGTGA
695882 AAGAGATCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.27, C:0.00, G:0.20, T:0.53
Consensus pattern (16 bp):
TTATTTTAGTAGTGAT
Found at i:698873 original size:2 final size:2
Alignment explanation
Indices: 698866--698923 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
698856 GGGCAGCCAA
698866 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
698908 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
698924 GTGTGTGTGT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:704103 original size:57 final size:52
Alignment explanation
Indices: 703992--704152 Score: 170
Period size: 49 Copynumber: 3.0 Consensus size: 52
703982 TCGATTTGCG
* *
703992 AAATTCGCGTTGCGATAGTTGTGTTTATCTATATT-GGTAATTAGCATTACGAAA
1 AAATTCG-GTTGCGATAGTTGTGTTTA-C-ATATTCGGTAATTAGCGTTGCGAAA
*
704046 ACGGAATTCGTGTTGCGATAGTTGTGTTTACATATGTCGGTAATTAGCGTTGTG--A
1 A---AATTCG-GTTGCGATAGTTGTGTTTACATAT-TCGGTAATTAGCGTTGCGAAA
*
704101 AAA--CGGTTGCGATAGTTGTGTTTACCTATATCGGTAATTAGCGTTGCGAAA
1 AAATTCGGTTGCGATAGTTGTGTTTACATAT-TCGGTAATTAGCGTTGCGAAA
704152 A
1 A
704153 TTTCCATGTT
Statistics
Matches: 93, Mismatches: 7, Indels: 17
0.79 0.06 0.15
Matches are distributed among these distances:
49 40 0.43
50 2 0.02
51 2 0.02
52 2 0.02
54 1 0.01
55 6 0.06
56 2 0.02
57 38 0.41
ACGTcount: A:0.27, C:0.12, G:0.25, T:0.37
Consensus pattern (52 bp):
AAATTCGGTTGCGATAGTTGTGTTTACATATTCGGTAATTAGCGTTGCGAAA
Found at i:707622 original size:24 final size:24
Alignment explanation
Indices: 707590--707636 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
707580 GACTTGTCTA
707590 TACTCTCATTGATAATTTTTTCTG
1 TACTCTCATTGATAATTTTTTCTG
707614 TACTCTCATTGATAATTTTTTCT
1 TACTCTCATTGATAATTTTTTCT
707637 CAAATTACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.21, C:0.17, G:0.06, T:0.55
Consensus pattern (24 bp):
TACTCTCATTGATAATTTTTTCTG
Found at i:707647 original size:24 final size:24
Alignment explanation
Indices: 707593--707641 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
707583 TTGTCTATAC
** *
707593 TCTCATTGATAATTTTTTCTGTAC
1 TCTCATTGATAATTTTTTCTCAAA
707617 TCTCATTGATAATTTTTTCTCAAA
1 TCTCATTGATAATTTTTTCTCAAA
707641 T
1 T
707642 TACATTTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.24, C:0.16, G:0.06, T:0.53
Consensus pattern (24 bp):
TCTCATTGATAATTTTTTCTCAAA
Found at i:708280 original size:31 final size:31
Alignment explanation
Indices: 708237--708313 Score: 118
Period size: 31 Copynumber: 2.5 Consensus size: 31
708227 GTATGGGGAT
708237 GTCTAAGGTACGACAACCTTAATATTTTATA
1 GTCTAAGGTACGACAACCTTAATATTTTATA
* ** *
708268 GTCTAAGATACGACAGTCTTAATATTTTATT
1 GTCTAAGGTACGACAACCTTAATATTTTATA
708299 GTCTAAGGTACGACA
1 GTCTAAGGTACGACA
708314 TCCGGATAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.35
Consensus pattern (31 bp):
GTCTAAGGTACGACAACCTTAATATTTTATA
Found at i:709568 original size:21 final size:19
Alignment explanation
Indices: 709544--709586 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
709534 TCGAAATGTA
709544 AAATCAATTTTTTTTCAAAAT
1 AAATCAA-TTTTTTT-AAAAT
*
709565 AAATGAATTTTTTTAAAAT
1 AAATCAATTTTTTTAAAAT
709584 AAA
1 AAA
709587 AGTTAACAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.38
20 7 0.33
21 6 0.29
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (19 bp):
AAATCAATTTTTTTAAAAT
Found at i:712759 original size:37 final size:37
Alignment explanation
Indices: 712686--712760 Score: 91
Period size: 38 Copynumber: 2.0 Consensus size: 37
712676 GTTAGAAAAT
* *
712686 ATTTATATATTTTCTTTAAAAAATTTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAAATTGAAAATCATAAA
*
712723 ATTTATATAATTGTT-TTTACAAAATTGAAAAT-ATAAA
1 ATTTATAT-ATT-TTCTTTAAAAAATTGAAAATCATAAA
712760 A
1 A
712761 AGGTTTAATG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
37 14 0.42
38 17 0.52
39 2 0.06
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (37 bp):
ATTTATATATTTTCTTTAAAAAATTGAAAATCATAAA
Found at i:714787 original size:16 final size:15
Alignment explanation
Indices: 714755--714784 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
714745 CGGGTATCCA
*
714755 GATTTTTGGGTATTT
1 GATTTTTAGGTATTT
714770 GATTTTTAGGTATTT
1 GATTTTTAGGTATTT
714785 TGAATTTTCG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.00, G:0.23, T:0.60
Consensus pattern (15 bp):
GATTTTTAGGTATTT
Found at i:717729 original size:179 final size:177
Alignment explanation
Indices: 717414--717771 Score: 682
Period size: 179 Copynumber: 2.0 Consensus size: 177
717404 GGATTGATCT
717414 CATTGTGGATGCAAATGGCTTTTGCAATCTTCAAACAAAAATGAGGAGCCAGAAGATATTGGAAT
1 CATTGTGGATGCAAATGGCTTTTGCAATCTTCAAACAAAAATGAGGAGCCAGAAGATATTGGAAT
717479 CGGTACATACATGAGTTGTGGTCAAGATCATTCTTCCAAGAACTTGAAGATGTGCCTTTTGGTTT
66 CGGTACATACATGAGTTGTGGTCAAGATCATTCTTCCAAGAACTTGAAGATGTGCCTTTTGGTTT
717544 CACCTTC-AAATGCATGATTTAGTACACGATCTTGCACTATCAGTGG
131 CACCTTCAAAATGCATGATTTAGTACACGATCTTGCACTATCAGTGG
717590 CATTGTGGATGGCAAATGGGCTTTTGCAATCTTCAAACAAAAATGAGGAGCCAGAAGATATTGGG
1 CATTGTGGAT-GCAAAT-GGCTTTTGCAATCTTCAAACAAAAATGAGGAGCCAGAAGATATT-GG
717655 AATCGGTACATACATGAGTTGTGGTCAAGATCATTCTTCCAAGAACTTGAAGATGTGCCTTTTGG
63 AATCGGTACATACATGAGTTGTGGTCAAGATCATTCTTCCAAGAACTTGAAGATGTGCCTTTTGG
717720 TTTCACCTTCAAAATGCATGATTTAGTACACGATCTTGCACTATCAGTGG
128 TTTCACCTTCAAAATGCATGATTTAGTACACGATCTTGCACTATCAGTGG
717770 CA
1 CA
717772 CAAAATGATG
Statistics
Matches: 178, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
176 10 0.06
177 6 0.03
178 44 0.25
179 77 0.43
180 41 0.23
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (177 bp):
CATTGTGGATGCAAATGGCTTTTGCAATCTTCAAACAAAAATGAGGAGCCAGAAGATATTGGAAT
CGGTACATACATGAGTTGTGGTCAAGATCATTCTTCCAAGAACTTGAAGATGTGCCTTTTGGTTT
CACCTTCAAAATGCATGATTTAGTACACGATCTTGCACTATCAGTGG
Found at i:721431 original size:30 final size:30
Alignment explanation
Indices: 721395--721455 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
721385 TGTAAAAGAT
721395 GGTTCGTTGGTTATCGCATATATATATGTC
1 GGTTCGTTGGTTATCGCATATATATATGTC
721425 GGTTCGTTGGTTATCGCATATATATATGTC
1 GGTTCGTTGGTTATCGCATATATATATGTC
721455 G
1 G
721456 CATGGGATTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.20, C:0.13, G:0.25, T:0.43
Consensus pattern (30 bp):
GGTTCGTTGGTTATCGCATATATATATGTC
Found at i:728852 original size:180 final size:172
Alignment explanation
Indices: 728588--728939 Score: 600
Period size: 180 Copynumber: 2.0 Consensus size: 172
728578 TAAATCATGA
728588 TTTTATTTTTTAAAATTTTAAAATTTCGTTCCTAATCATGATTTCATAACTTGATCCCTAAACTT
1 TTTTATTTTTTAAAATTTTAAAATTTCGTTCCTAATCATGATTTCATAACTTGATCCCTAAACTT
728653 TAAACTTCTAATTTCATCTTTAAATTCATCCAAATATGTAA-TT-TTTCGACCGTAGTTTATGCT
66 TAAACTTCTAATTTCATCTTTAAA-TCATCCAAATATGTAATTTGTTTCGACCG-AGTTTATGCT
728716 AAATTTTAATTTTTAAAACGTATAATAATATAGCTTGACTTAAC
129 AAATTTTAATTTTTAAAACGTATAATAATATAGCTTGACTTAAC
728760 TTTTATTTTTTAAAATTTTAAACAATTTCGTTCCTAAATCATGATTTTCATTCTAACTTGATCCC
1 TTTTATTTTTTAAAATTTT-AA-AATTTCGTTCCT-AATCATGA-TTTCA---TAACTTGATCCC
728825 TAAACTTTTAAACTTCTAATTTCATCTTTAAATCATCCAAATATGTAATTTGTTTCGACCGAGTT
59 TAAAC-TTTAAACTTCTAATTTCATCTTTAAATCATCCAAATATGTAATTTGTTTCGACCGAGTT
728890 TATGCTAAATTTTAATTTTTAAAACGTATAATAATATAGCTTGACTTAAC
123 TATGCTAAATTTTAATTTTTAAAACGTATAATAATATAGCTTGACTTAAC
728940 GATTTTTCAA
Statistics
Matches: 170, Mismatches: 0, Indels: 12
0.93 0.00 0.07
Matches are distributed among these distances:
172 19 0.11
173 2 0.01
174 12 0.07
175 8 0.05
176 5 0.03
179 33 0.19
180 82 0.48
181 9 0.05
ACGTcount: A:0.34, C:0.15, G:0.07, T:0.45
Consensus pattern (172 bp):
TTTTATTTTTTAAAATTTTAAAATTTCGTTCCTAATCATGATTTCATAACTTGATCCCTAAACTT
TAAACTTCTAATTTCATCTTTAAATCATCCAAATATGTAATTTGTTTCGACCGAGTTTATGCTAA
ATTTTAATTTTTAAAACGTATAATAATATAGCTTGACTTAAC
Found at i:729656 original size:10 final size:10
Alignment explanation
Indices: 729641--729666 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
729631 AAAATACCTA
729641 AAATCCCCCC
1 AAATCCCCCC
729651 AAATCCCCCC
1 AAATCCCCCC
729661 AAATCC
1 AAATCC
729667 TATTTTTAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.35, C:0.54, G:0.00, T:0.12
Consensus pattern (10 bp):
AAATCCCCCC
Found at i:730519 original size:62 final size:61
Alignment explanation
Indices: 730395--730518 Score: 198
Period size: 61 Copynumber: 2.0 Consensus size: 61
730385 TATTCTTTTA
*
730395 ATAAGTCAATTTAAAAAATATTTGTTATTTTTTTTAATTTTAAACATTAAAAGATAATTAT
1 ATAAGTCAATTTAAAAAATATTTGTTATTCTTTTTAATTTTAAACATTAAAAGATAATTAT
* *
730456 ATAAGTCAATTTAAAAAGATATTTGTTA-TCTTTTTAATTTTGAATATT-AAAGATAATTAT
1 ATAAGTCAATTTAAAAA-ATATTTGTTATTCTTTTTAATTTTAAACATTAAAAGATAATTAT
730516 ATA
1 ATA
730519 TTATATGTTT
Statistics
Matches: 59, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
60 15 0.25
61 34 0.58
62 10 0.17
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (61 bp):
ATAAGTCAATTTAAAAAATATTTGTTATTCTTTTTAATTTTAAACATTAAAAGATAATTAT
Found at i:731673 original size:31 final size:31
Alignment explanation
Indices: 731635--731696 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
731625 AAGTGTTCTA
731635 TACGAGCTGTGGCGAGAGGATGAAGCTTTGC
1 TACGAGCTGTGGCGAGAGGATGAAGCTTTGC
731666 TACGAGCTGTGGCGAGAGGATGAAGCTTTGC
1 TACGAGCTGTGGCGAGAGGATGAAGCTTTGC
731697 ATGCGCCATG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.16, G:0.39, T:0.23
Consensus pattern (31 bp):
TACGAGCTGTGGCGAGAGGATGAAGCTTTGC
Found at i:731813 original size:29 final size:29
Alignment explanation
Indices: 731775--731862 Score: 122
Period size: 29 Copynumber: 3.0 Consensus size: 29
731765 AAGGCGCAGG
*
731775 ACAAGGTCGCCCAGCGTGCATGGCGACCT
1 ACAAGGTCGCCCGGCGTGCATGGCGACCT
* * *
731804 ACCATGTCGCCTGGCGTGCATGGCGACCT
1 ACAAGGTCGCCCGGCGTGCATGGCGACCT
* *
731833 ACAAGGTCGCCCGGAGGGCATGGCGACCT
1 ACAAGGTCGCCCGGCGTGCATGGCGACCT
731862 A
1 A
731863 TGCTGGGAAG
Statistics
Matches: 50, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 50 1.00
ACGTcount: A:0.19, C:0.33, G:0.33, T:0.15
Consensus pattern (29 bp):
ACAAGGTCGCCCGGCGTGCATGGCGACCT
Found at i:733806 original size:29 final size:29
Alignment explanation
Indices: 733720--733795 Score: 143
Period size: 29 Copynumber: 2.6 Consensus size: 29
733710 GTGTTGGCCG
733720 TAGGTCGCCATGCCTTCCGGGCTACCTAC
1 TAGGTCGCCATGCCTTCCGGGCTACCTAC
733749 TAGGTCGCCATGCCTTCCGGGCTACCTAC
1 TAGGTCGCCATGCCTTCCGGGCTACCTAC
*
733778 TAGGTCGCCATGTCTTCC
1 TAGGTCGCCATGCCTTCC
733796 CGACGAGCTA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.13, C:0.37, G:0.24, T:0.26
Consensus pattern (29 bp):
TAGGTCGCCATGCCTTCCGGGCTACCTAC
Found at i:733870 original size:20 final size:20
Alignment explanation
Indices: 733845--733916 Score: 81
Period size: 20 Copynumber: 3.5 Consensus size: 20
733835 AACACGCTGG
733845 GCATCCGAGGCCATCCGAGA
1 GCATCCGAGGCCATCCGAGA
733865 GCATCCGAGGCCATCCGAACGA
1 GCATCCGAGGCCATCCG-A-GA
* * *
733887 GCTATGCGAGGGCATCCGAGG
1 GC-ATCCGAGGCCATCCGAGA
*
733908 GCAACCGAG
1 GCATCCGAG
733917 CGAGCTATGT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
20 22 0.50
21 4 0.09
22 5 0.11
23 13 0.30
ACGTcount: A:0.25, C:0.32, G:0.33, T:0.10
Consensus pattern (20 bp):
GCATCCGAGGCCATCCGAGA
Found at i:733908 original size:10 final size:10
Alignment explanation
Indices: 733843--733916 Score: 67
Period size: 10 Copynumber: 7.1 Consensus size: 10
733833 CCAACACGCT
733843 GGGCATCCGA
1 GGGCATCCGA
*
733853 GGCCATCCGA
1 GGGCATCCGA
*
733863 GAGCATCCGA
1 GGGCATCCGA
*
733873 GGCCATCCGAA
1 GGGCATCCG-A
* *
733884 CGAGCTATGCGA
1 -GGGC-ATCCGA
733896 GGGCATCCGA
1 GGGCATCCGA
*
733906 GGGCAACCGA
1 GGGCATCCGA
733916 G
1 G
733917 CGAGCTATGT
Statistics
Matches: 50, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
10 39 0.78
11 4 0.08
12 3 0.06
13 4 0.08
ACGTcount: A:0.24, C:0.31, G:0.35, T:0.09
Consensus pattern (10 bp):
GGGCATCCGA
Found at i:733941 original size:33 final size:33
Alignment explanation
Indices: 733867--733953 Score: 113
Period size: 33 Copynumber: 2.6 Consensus size: 33
733857 ATCCGAGAGC
* * * *
733867 ATCCGAGGCCATCCGAACGAGCTATGCGAGGGC
1 ATCCGAGGGCAACCGAGCGAGCTATGCGAGGGA
*
733900 ATCCGAGGGCAACCGAGCGAGCTATGTGAGGGA
1 ATCCGAGGGCAACCGAGCGAGCTATGCGAGGGA
733933 ATCCGAGGG-AAGCCGAGCGAG
1 ATCCGAGGGCAA-CCGAGCGAG
733954 GGTAGGTCGC
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
32 2 0.04
33 46 0.96
ACGTcount: A:0.26, C:0.25, G:0.38, T:0.10
Consensus pattern (33 bp):
ATCCGAGGGCAACCGAGCGAGCTATGCGAGGGA
Found at i:733990 original size:29 final size:29
Alignment explanation
Indices: 733957--734012 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
733947 GAGCGAGGGT
*
733957 AGGTCGCCCGGAGTGCATAG-CGACCTACA
1 AGGTCGCCCGGAGGGCAT-GTCGACCTACA
733986 AGGTCGCCCGGAGGGCATGTCGACCTA
1 AGGTCGCCCGGAGGGCATGTCGACCTA
734013 TGTGTTGGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 1 0.04
29 24 0.96
ACGTcount: A:0.21, C:0.30, G:0.34, T:0.14
Consensus pattern (29 bp):
AGGTCGCCCGGAGGGCATGTCGACCTACA
Found at i:737226 original size:62 final size:61
Alignment explanation
Indices: 737103--737294 Score: 253
Period size: 62 Copynumber: 3.2 Consensus size: 61
737093 ATGGTCATTT
* * * * *
737103 TTAATTTTTAAATACTATGGTTGGA-CCTAAATCAAAAAACTATTTTTTATTCTAATATAA
1 TTAATTTTTAAATAGTTTGGGTGGACCCCAAATCAAAAAACTAATTTTTATTCTAATATAA
*
737163 TTAATTTTTAAACAGTTTGGGTGGACCCCAAATCAAAAAACTAATGTTTTATTCTAATATAA
1 TTAATTTTTAAATAGTTTGGGTGGACCCCAAATCAAAAAACTAAT-TTTTATTCTAATATAA
* * * * *
737225 TTAATTTTTAAATAGTTCGGGTGGGCTCCAAATC-AAAAACTAATTTTTAATGTAATATAA
1 TTAATTTTTAAATAGTTTGGGTGGACCCCAAATCAAAAAACTAATTTTTATTCTAATATAA
*
737285 TAAATTTTTA
1 TTAATTTTTA
737295 GGGTAAAGTA
Statistics
Matches: 117, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
60 44 0.38
61 27 0.23
62 46 0.39
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (61 bp):
TTAATTTTTAAATAGTTTGGGTGGACCCCAAATCAAAAAACTAATTTTTATTCTAATATAA
Found at i:737786 original size:274 final size:273
Alignment explanation
Indices: 737275--737820 Score: 1051
Period size: 274 Copynumber: 2.0 Consensus size: 273
737265 TAATTTTTAA
737275 TGTAATATAATAAATTTTTAGGGTAAAGTATAGTAATGGTCATTGAATTTTTCTAAAGCTTTCAT
1 TGTAATATAATAAATTTTTAGGGTAAAGTATAGTAATGGTCATTGAATTTTTCTAAAGCTTTCAT
737340 TTAGGTCCTCCAACTTTTAAAACTTGCAATAGAGTCCTCCAACTTTAGTCCCGTTGCAATATGGT
66 TTAGGTCCTCCAACTTTTAAAACTTGCAATAGAGTCCTCCAACTTTAGTCCCGTTGCAATATGGT
737405 CCACGACATAACCAGCGTTTGACGCCGTTACACTGCCGTTAGTACGTTTGCAATATAGTCACTAA
131 CCACGACATAACCAGCGTTTGACGCCGTTACACTGCCGTTAGTACGTTTGCAATATAGTCACTAA
737470 ACTTTTCAGGTGTTTGCATTTAGGTCCCCCAACTTTTAAAACTTGCAACACATTCCTCAATTTTA
196 ACTTTTCAGGTGTTTGCATTTAGGTCCCCCAACTTTTAAAACTTGCAACACATTCCTCAATTTTA
737535 TTCTAAACCCCAT
261 TTCTAAACCCCAT
737548 TGTAATATAATAAA-TTTTAGGGTAAAGTATAGTAATGGTCATTGAATTTTTCTAAAGCTTTCAT
1 TGTAATATAATAAATTTTTAGGGTAAAGTATAGTAATGGTCATTGAATTTTTCTAAAGCTTTCAT
737612 TTAGGTCCTCCAACTTTTAAAACTTGCAATAGAGTCCTCCAACATTTAGT-CCGTTTGCAATATG
66 TTAGGTCCTCCAACTTTTAAAACTTGCAATAGAGTCCTCCAAC-TTTAGTCCCG-TTGCAATATG
737676 GTCCACGACATAACCAGCCGTTTGACGCCGTTACACTGCCGTTAGTACGTTTGCAATATAGTCAC
129 GTCCACGACATAACCAG-CGTTTGACGCCGTTACACTGCCGTTAGTACGTTTGCAATATAGTCAC
737741 TAAACTTTTCAGGTGTTTGCATTTAGGTCCCCCAACTTTTAAAACTTGCAACACATTCCTCAATT
193 TAAACTTTTCAGGTGTTTGCATTTAGGTCCCCCAACTTTTAAAACTTGCAACACATTCCTCAATT
737806 TTATTCTAAACCCCA
258 TTATTCTAAACCCCA
737821 AATTCCTTTT
Statistics
Matches: 270, Mismatches: 0, Indels: 5
0.98 0.00 0.02
Matches are distributed among these distances:
272 96 0.36
273 47 0.17
274 127 0.47
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (273 bp):
TGTAATATAATAAATTTTTAGGGTAAAGTATAGTAATGGTCATTGAATTTTTCTAAAGCTTTCAT
TTAGGTCCTCCAACTTTTAAAACTTGCAATAGAGTCCTCCAACTTTAGTCCCGTTGCAATATGGT
CCACGACATAACCAGCGTTTGACGCCGTTACACTGCCGTTAGTACGTTTGCAATATAGTCACTAA
ACTTTTCAGGTGTTTGCATTTAGGTCCCCCAACTTTTAAAACTTGCAACACATTCCTCAATTTTA
TTCTAAACCCCAT
Found at i:738297 original size:16 final size:16
Alignment explanation
Indices: 738276--738306 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
738266 TCTCTTTCGC
738276 TCACATGCACTCTCGT
1 TCACATGCACTCTCGT
738292 TCACATGCACTCTCG
1 TCACATGCACTCTCG
738307 GTTGGTTTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.39, G:0.13, T:0.29
Consensus pattern (16 bp):
TCACATGCACTCTCGT
Found at i:738622 original size:11 final size:11
Alignment explanation
Indices: 738606--738630 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
738596 CAACTCGATA
738606 TTTCTAACCTT
1 TTTCTAACCTT
738617 TTTCTAACCTT
1 TTTCTAACCTT
738628 TTT
1 TTT
738631 TTTAAGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.24, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTCTAACCTT
Found at i:743324 original size:42 final size:43
Alignment explanation
Indices: 743258--743341 Score: 118
Period size: 42 Copynumber: 2.0 Consensus size: 43
743248 TTCTGAAATC
**
743258 TCGTATTTTATTTCATGTAATTCGTTTTTTGAAAAATATTTTT
1 TCGTATTTTATTTCATGTAATTCGTTTTCCGAAAAATATTTTT
*
743301 TCGTATTTGT-TTT-ATGTAATTCGTTTTCCGGAAAATATTTT
1 TCGTATTT-TATTTCATGTAATTCGTTTTCCGAAAAATATTTT
743342 CCGTGTTTGT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
42 25 0.68
43 11 0.30
44 1 0.03
ACGTcount: A:0.24, C:0.08, G:0.12, T:0.56
Consensus pattern (43 bp):
TCGTATTTTATTTCATGTAATTCGTTTTCCGAAAAATATTTTT
Found at i:743756 original size:35 final size:34
Alignment explanation
Indices: 743717--743833 Score: 144
Period size: 35 Copynumber: 3.4 Consensus size: 34
743707 AGATGAACGT
*
743717 TTGAATCAAAAGTGCGATGTTTACTTTCGTTCGAC
1 TTGAATCGAAAGTGCGATGTTT-CTTTCGTTCGAC
* *
743752 TTGAATCGAAAGTACGATGTTTCATTCCGTTCGAC
1 TTGAATCGAAAGTGCGATGTTTC-TTTCGTTCGAC
* * * *
743787 TTGAATCGAAAGTGTGATGATTCATTCTGTTCTAC
1 TTGAATCGAAAGTGCGATGTTTCTTTC-GTTCGAC
743822 TTGAATCGAAAG
1 TTGAATCGAAAG
743834 AAATTCTAAA
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
34 3 0.04
35 68 0.96
ACGTcount: A:0.27, C:0.16, G:0.21, T:0.36
Consensus pattern (34 bp):
TTGAATCGAAAGTGCGATGTTTCTTTCGTTCGAC
Found at i:745155 original size:14 final size:14
Alignment explanation
Indices: 745136--745168 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
745126 CCGAGAGCAT
745136 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
745150 CCGAGGCCATCCGA
1 CCGAGGCCATCCGA
*
745164 ACGAG
1 CCGAG
745169 CTATGCGAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.24, C:0.39, G:0.30, T:0.06
Consensus pattern (14 bp):
CCGAGGCCATCCGA
Found at i:745163 original size:44 final size:46
Alignment explanation
Indices: 745100--745188 Score: 137
Period size: 44 Copynumber: 2.0 Consensus size: 46
745090 TTTCTTGTTT
745100 ATCCGACCGAGGCCATCCGAA-AGC-ATCCGAGAGCATCCGAGGCC
1 ATCCGACCGAGGCCATCCGAACAGCTATCCGAGAGCATCCGAGGCC
* *
745144 ATCCGACCGAGGCCATCCGAACGAGCTATGCGAGGGCATCCGAGG
1 ATCCGACCGAGGCCATCCGAAC-AGCTATCCGAGAGCATCCGAGG
745189 GCAACCGAGC
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
44 21 0.52
46 3 0.08
47 16 0.40
ACGTcount: A:0.26, C:0.34, G:0.30, T:0.10
Consensus pattern (46 bp):
ATCCGACCGAGGCCATCCGAACAGCTATCCGAGAGCATCCGAGGCC
Found at i:745189 original size:10 final size:10
Alignment explanation
Indices: 745174--745230 Score: 51
Period size: 10 Copynumber: 5.4 Consensus size: 10
745164 ACGAGCTATG
745174 CGAGGGCATC
1 CGAGGGCATC
*
745184 CGAGGGCAAC
1 CGAGGGCATC
*
745194 CGAGCGAGCTATG
1 CGAG-G-GC-ATC
*
745207 CGAGGGAATC
1 CGAGGGCATC
*
745217 CGAGGGCAAC
1 CGAGGGCATC
745227 CGAG
1 CGAG
745231 CGAGGGTAGG
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
10 27 0.73
11 2 0.05
12 3 0.08
13 5 0.14
ACGTcount: A:0.26, C:0.26, G:0.40, T:0.07
Consensus pattern (10 bp):
CGAGGGCATC
Found at i:745202 original size:33 final size:33
Alignment explanation
Indices: 745150--745234 Score: 134
Period size: 33 Copynumber: 2.6 Consensus size: 33
745140 GGCCATCCGA
* * * *
745150 CCGAGGCCATCCGAACGAGCTATGCGAGGGCAT
1 CCGAGGGCAACCGAGCGAGCTATGCGAGGGAAT
745183 CCGAGGGCAACCGAGCGAGCTATGCGAGGGAAT
1 CCGAGGGCAACCGAGCGAGCTATGCGAGGGAAT
745216 CCGAGGGCAACCGAGCGAG
1 CCGAGGGCAACCGAGCGAG
745235 GGTAGGTCGC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 48 1.00
ACGTcount: A:0.26, C:0.28, G:0.38, T:0.08
Consensus pattern (33 bp):
CCGAGGGCAACCGAGCGAGCTATGCGAGGGAAT
Found at i:745352 original size:10 final size:10
Alignment explanation
Indices: 745337--745413 Score: 61
Period size: 10 Copynumber: 7.7 Consensus size: 10
745327 ATGGCCTCAG
745337 TCGGATGGCC
1 TCGGATGGCC
745347 TCGGAT-GCTC
1 TCGGATGGC-C
*
745357 TCAGATGGCC
1 TCGGATGGCC
*
745367 TCGGAT-GCTT
1 TCGGATGGC-C
*
745377 TCGGATAGCC
1 TCGGATGGCC
*
745387 TCGGAT-GCTT
1 TCGGATGGC-C
745397 TCGGATGGCC
1 TCGGATGGCC
*
745407 TCAGATG
1 TCGGATG
745414 CCCAGCGTGT
Statistics
Matches: 54, Mismatches: 7, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
9 6 0.11
10 42 0.78
11 6 0.11
ACGTcount: A:0.14, C:0.26, G:0.32, T:0.27
Consensus pattern (10 bp):
TCGGATGGCC
Found at i:745365 original size:20 final size:20
Alignment explanation
Indices: 745337--745414 Score: 120
Period size: 20 Copynumber: 3.9 Consensus size: 20
745327 ATGGCCTCAG
*
745337 TCGGATGGCCTCGGATGCTC
1 TCGGATGGCCTCGGATGCTT
*
745357 TCAGATGGCCTCGGATGCTT
1 TCGGATGGCCTCGGATGCTT
*
745377 TCGGATAGCCTCGGATGCTT
1 TCGGATGGCCTCGGATGCTT
*
745397 TCGGATGGCCTCAGATGC
1 TCGGATGGCCTCGGATGC
745415 CCAGCGTGTT
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 52 1.00
ACGTcount: A:0.14, C:0.27, G:0.32, T:0.27
Consensus pattern (20 bp):
TCGGATGGCCTCGGATGCTT
Found at i:745486 original size:29 final size:29
Alignment explanation
Indices: 745453--745510 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
745443 GCAATCTCTT
*
745453 GTAGGTCGCCGGGAAGACATGGCGACCTA
1 GTAGGTCGCCCGGAAGACATGGCGACCTA
**
745482 GTAGGTCGCCCGGAAGGTATGGCGACCTA
1 GTAGGTCGCCCGGAAGACATGGCGACCTA
745511 CGGCCAACAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.22, C:0.24, G:0.38, T:0.16
Consensus pattern (29 bp):
GTAGGTCGCCCGGAAGACATGGCGACCTA
Found at i:747495 original size:2 final size:2
Alignment explanation
Indices: 747488--747529 Score: 66
Period size: 2 Copynumber: 20.0 Consensus size: 2
747478 ATGAACATGG
747488 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AGT AT AT AGT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT A-T AT AT
747530 GTATGAAAAC
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 34 0.89
3 4 0.11
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (2 bp):
AT
Found at i:756002 original size:191 final size:192
Alignment explanation
Indices: 755675--756058 Score: 688
Period size: 191 Copynumber: 2.0 Consensus size: 192
755665 TCAGGTTGAG
755675 AGCTGTTTACGTAGGAGACCTCCAAATTATGAAATACCCTCCGTGGGACTCGATCCCACGACCCT
1 AGCTGTTTACGTAGGAGACCTCCAAATTATGAAATACCCTCCGTGGGACTCGATCCCACGACCCT
755740 AAGGTTAAGAGCCTTGTGCTCTACCATTTGAGCTGGATGGTCATTTATTAGGAGACTTCATTCAA
66 AAGGTTAAGAGCCTTGTGCTCTACCATTTGAGCTGGATGGTCATTTATTAGGAGACTTCATTCAA
*
755805 ATCTACTAATTCTTGTGTTACAAATATATTT-TATATT-TAAAATTGATGTTCAGATTCTCTTAA
131 ATCTACTAATTCATGTGTTACAAATAT-TTTATAT-TTATAAAATTGATGTTC--ATTCTCTTAA
755868 A
192 A
755869 AGCTGTTTACGTAGGAGACCTCC-AATTATGAAATACCCTCCGTGGGACTCGATCCCACGACCCT
1 AGCTGTTTACGTAGGAGACCTCCAAATTATGAAATACCCTCCGTGGGACTCGATCCCACGACCCT
755933 -AGGTTAAGAGCC-TGTGCTCTACCATTTGAGCTGGATGGTCATTTATTAGGAGACTTCATTCAA
66 AAGGTTAAGAGCCTTGTGCTCTACCATTTGAGCTGGATGGTCATTTATTAGGAGACTTCATTCAA
755996 ATCTACTAATTCATGTGTTACAAATATTTTATATTTATAAAATTGATGTTCATTCTCTTAAA
131 ATCTACTAATTCATGTGTTACAAATATTTTATATTTATAAAATTGATGTTCATTCTCTTAAA
756058 A
1 A
756059 CCGAACTCAA
Statistics
Matches: 187, Mismatches: 1, Indels: 9
0.95 0.01 0.05
Matches are distributed among these distances:
189 12 0.06
190 5 0.03
191 94 0.50
192 12 0.06
193 41 0.22
194 23 0.12
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (192 bp):
AGCTGTTTACGTAGGAGACCTCCAAATTATGAAATACCCTCCGTGGGACTCGATCCCACGACCCT
AAGGTTAAGAGCCTTGTGCTCTACCATTTGAGCTGGATGGTCATTTATTAGGAGACTTCATTCAA
ATCTACTAATTCATGTGTTACAAATATTTTATATTTATAAAATTGATGTTCATTCTCTTAAA
Found at i:756227 original size:18 final size:18
Alignment explanation
Indices: 756204--756243 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
756194 CTCTCTCAAA
756204 TTTAAAATTATTATATAT
1 TTTAAAATTATTATATAT
* *
756222 TTTAAAATTTTTATGTAT
1 TTTAAAATTATTATATAT
756240 TTTA
1 TTTA
756244 TTAAAAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.60
Consensus pattern (18 bp):
TTTAAAATTATTATATAT
Found at i:759464 original size:59 final size:59
Alignment explanation
Indices: 759399--759546 Score: 253
Period size: 59 Copynumber: 2.5 Consensus size: 59
759389 GACTATTTTA
759399 TAACTTTTAATAGTCGGGGGACTCAACAAAGTAACGCCCTATAGTCA-GAGATTATTGTG
1 TAACTTTTAATAGTCGGGGGACTCAACAAAGTAACGCCCTATAGT-ATGAGATTATTGTG
*
759458 TAACTTTTAATAGTCAGGGGACTCAACAAAGTAACGCCCTATAGTATGAGATTATTGTG
1 TAACTTTTAATAGTCGGGGGACTCAACAAAGTAACGCCCTATAGTATGAGATTATTGTG
* *
759517 TAACTTTTAATAGTCGAGAGACTCAACAAA
1 TAACTTTTAATAGTCGGGGGACTCAACAAA
759547 ACGATGCCCT
Statistics
Matches: 84, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
58 1 0.01
59 83 0.99
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (59 bp):
TAACTTTTAATAGTCGGGGGACTCAACAAAGTAACGCCCTATAGTATGAGATTATTGTG
Found at i:765116 original size:21 final size:21
Alignment explanation
Indices: 764982--765140 Score: 200
Period size: 21 Copynumber: 7.6 Consensus size: 21
764972 TTGTACCAAG
* *
764982 GACGAAAAGAGCATTCATCAA
1 GACGAGAAGACCATTCATCAA
*
765003 GATGAGAATG-CCATTCATCAA
1 GACGAGAA-GACCATTCATCAA
765024 GACGAGAATG-CCATTCATCAA
1 GACGAGAA-GACCATTCATCAA
*
765045 GACGAGAAGGCCATTCATCAA
1 GACGAGAAGACCATTCATCAA
765066 GACGAGAAGACCATTCATCAA
1 GACGAGAAGACCATTCATCAA
*
765087 GACGAGAAGACCTTTCAT-AA
1 GACGAGAAGACCATTCATCAA
* *
765107 CGACGAGAAGACC-TTCGTAAA
1 -GACGAGAAGACCATTCATCAA
765128 GACGAGAAGACCA
1 GACGAGAAGACCA
765141 CATCACATGG
Statistics
Matches: 126, Mismatches: 7, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
20 19 0.15
21 106 0.84
22 1 0.01
ACGTcount: A:0.41, C:0.22, G:0.21, T:0.16
Consensus pattern (21 bp):
GACGAGAAGACCATTCATCAA
Found at i:767747 original size:17 final size:17
Alignment explanation
Indices: 767727--767766 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
767717 AGAGAAATGT
*
767727 AGAAAGAGAA-AAGGAAA
1 AGAAA-AGAAGAAAGAAA
767744 AGAAAAGAAGAAAGAAA
1 AGAAAAGAAGAAAGAAA
767761 AGAAAA
1 AGAAAA
767767 AATTGAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 4 0.19
17 17 0.81
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (17 bp):
AGAAAAGAAGAAAGAAA
Found at i:767750 original size:5 final size:5
Alignment explanation
Indices: 767727--767796 Score: 54
Period size: 5 Copynumber: 13.2 Consensus size: 5
767717 AGAGAAATGT
* *
767727 AGAAA GAGAAA AGGAAA AGAAA AGAAGAA AGAAA AGAAA A-AAT TGAAA
1 AGAAA -AGAAA A-GAAA AGAAA AG-A-AA AGAAA AGAAA AGAAA AGAAA
767775 ATGAAA AGAAA ATG-AA AGAAA A
1 A-GAAA AGAAA A-GAAA AGAAA A
767797 TCGATCAAAC
Statistics
Matches: 53, Mismatches: 4, Indels: 15
0.74 0.06 0.21
Matches are distributed among these distances:
4 3 0.06
5 28 0.53
6 18 0.34
7 4 0.08
ACGTcount: A:0.73, C:0.00, G:0.21, T:0.06
Consensus pattern (5 bp):
AGAAA
Found at i:767757 original size:12 final size:11
Alignment explanation
Indices: 767727--767796 Score: 56
Period size: 11 Copynumber: 6.5 Consensus size: 11
767717 AGAGAAATGT
*
767727 AGAAAGAGAAA
1 AGAAAAAGAAA
*
767738 AGGAAAAGAAA
1 AGAAAAAGAAA
767749 AGAAGAAAGAAA
1 AGAA-AAAGAAA
*
767761 AG-AAAA-AAT
1 AGAAAAAGAAA
* *
767770 TGAAAATGAAA
1 AGAAAAAGAAA
*
767781 AGAAAATG-AA
1 AGAAAAAGAAA
767791 AGAAAA
1 AGAAAA
767797 TCGATCAAAC
Statistics
Matches: 48, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
9 3 0.06
10 14 0.29
11 22 0.46
12 9 0.19
ACGTcount: A:0.73, C:0.00, G:0.21, T:0.06
Consensus pattern (11 bp):
AGAAAAAGAAA
Found at i:770674 original size:54 final size:54
Alignment explanation
Indices: 770408--771508 Score: 1151
Period size: 54 Copynumber: 20.3 Consensus size: 54
770398 TTTTCGTGTA
* * * *
770408 TGAAGAAAGAGGGAGCGAACCTGTTTGCAGAAGATTATTCGAGTTCTATACTTCC
1 TGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGA-TGTTCGAGTTCTATACTCCC
* ** *
770463 TGAAGAAAGAGCGAAGCGAACCCGTAAGAAGAAGAT-TCTCGAGTTCTATACTTCC
1 TGAAGAAAGAG-GGAGCGAACCCGTTTGAAGAAGATGT-TCGAGTTCTATACTCCC
* ** *
770518 TGAAGAAAGAGGGAGCAAACCCGTTTTCAGAAGATTGTTCGAGTTCTATACTCTC
1 TGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGA-TGTTCGAGTTCTATACTCCC
* * * * **
770573 TAAAGAAAGAGAGAGCGAACCCG-TT--AGAAGATTTTTGAGTTCTATACTCAT
1 TGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCTATACTCCC
* * *
770624 TGAAGAAAGAGGGAGAGAACCCGTTTAAAGAAGATGTTCGAGTTCCATACTCCC
1 TGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCTATACTCCC
* *
770678 T-AGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTTGAGTTCCATACTCCC
1 TGA-AGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCTATACTCCC
* * * *
770732 T-AGAGAAAGAGGGAGCGAACCTGTTTGCAGAAGATTATTCGAGTTCTATACTTCC
1 TGA-AGAAAGAGGGAGCGAACCCGTTTGAAGAAGA-TGTTCGAGTTCTATACTCCC
* ** *
770787 TGAAGAAAGAGCGAAGCGAACCCGTAAGAAGAAGAT-TCTCGAGTTCTATACTTCC
1 TGAAGAAAGAG-GGAGCGAACCCGTTTGAAGAAGATGT-TCGAGTTCTATACTCCC
** *
770842 TGAAGAAAGAGGGAGCGAACCCGTTTTCAGAAGATTGTTCGAGTTCTATACTCTC
1 TGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGA-TGTTCGAGTTCTATACTCCC
* * * **
770897 TAAAGAAAGAGGGAGCGAACCCG-TT--AGAAGATTTTCTAGTTCTATACTCAT
1 TGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCTATACTCCC
**
770948 TGAAGAAAGAGGGAGAAAACCCGTTTGAAGAAGATGTTCGAGTTCTATACTCCC
1 TGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCTATACTCCC
* ** *
771002 TGAAGAAAGAGTGAGCGAACCCGTAAGAAGAAGAT-TATCGAGTTCTATACTTCC
1 TGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGT-TCGAGTTCTATACTCCC
**
771056 TGAAGAAAGAGGGAGCGAACCCGTTTTTAGAAGATTGTTCGAGTTCTATACTCCC
1 TGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGA-TGTTCGAGTTCTATACTCCC
* * * * *
771111 TGAAGAAAGAGCGAAGCAAACCCATTTGAAGAAGATGTTTGAGTTCCATACTCCC
1 TGAAGAAAGAG-GGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCTATACTCCC
* *
771166 T-AGAGAAAGAGGGAGCGAACCCGTTTGAAGAAAAT-TTCCAAGTTCTATACTCCC
1 TGA-AGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTT-CGAGTTCTATACTCCC
* * * *
771220 TGAAGAAAGAGGGAGCAAACCTGTTTGAAGAAGATGTCCAAGTTCTATACTCCC
1 TGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCTATACTCCC
* * * * *
771274 T-AGAGGAAGAGGGAGAGAACTCGTTTGAAGAAAATGTCCGAGTTCTATACTCCC
1 TGA-AGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCTATACTCCC
* * * *
771328 TGAAGAAAGAGGGAGCGAACCTGTTTGCAGAAGATTATTCGGGTTCTATACTCCC
1 TGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGA-TGTTCGAGTTCTATACTCCC
* * * **
771383 TGAAGAAAGAGGGAGCGAACCCGATT-ATTGAAGATTATTCGAG-TCTTATACTCTT
1 TGAAGAAAGAGGGAGCGAACCCGTTTGA-AGAAGA-TGTTCGAGTTC-TATACTCCC
* * * * *
771438 TGAAGAAATAGGGAACAAACACGATTATTGAAG-A-ATGTTCGAG-TCTTATACTCTC
1 TGAAGAAAGAGGGAGCGAACCCG--T-TTGAAGAAGATGTTCGAGTTC-TATACTCCC
*
771493 TGAAGAAATAGGGAGC
1 TGAAGAAAGAGGGAGC
771509 AGACAAGAAT
Statistics
Matches: 889, Mismatches: 123, Indels: 68
0.82 0.11 0.06
Matches are distributed among these distances:
51 72 0.08
52 16 0.02
53 5 0.01
54 393 0.44
55 339 0.38
56 59 0.07
57 1 0.00
58 3 0.00
59 1 0.00
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (54 bp):
TGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGTTCGAGTTCTATACTCCC
Found at i:770894 original size:324 final size:323
Alignment explanation
Indices: 770408--771434 Score: 1431
Period size: 324 Copynumber: 3.2 Consensus size: 323
770398 TTTTCGTGTA
*
770408 TGAAGAAAGAGGGAGCGAACCTGTTTGCAGAAGATTATTCGAGTTCTATACTTCCTGAAGAAAGA
1 TGAAGAAAGAGGGAGCGAACCCGTTTGCAGAAGATTATTCGAGTTCTATACTTCCTGAAGAAAGA
*
770473 GCGAAGCGAACCCGTAAGAAGAAGATTCTCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCAAAC
66 GCGAAGCGAACCCGTAAGAAGAAGATTCTCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAAC
*
770538 CCGTTTTCAGAAGATTGTTCGAGTTCTATACTCTCTAAAGAAAGAGAGAGCGAACCCGTTAGAAG
131 CCGTTTTCAGAAGATTGTTCGAGTTCTATACTCTCTAAAGAAAGAGGGAGCGAACCCGTTAGAAG
*
770603 ATTTTTGAGTTCTATACTCATTGAAGAAAGAGGGAGAGAACCCGTTTAAAGAAGATGTTCGAGTT
196 ATTTTT-AGTTCTATACTCATTGAAGAAAGAGGGAGAGAACCCGTTTGAAGAAGATGTTCGAGTT
* *
770668 CCATACTCCCT-AGAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATGT-TTGAGTTCCATACTCC
260 CTATACTCCCTGA-AGAAAGAGGGAGCGAACCCGTTTGAAGAAGAT-TATTGAGTTCTATACTCC
770731 C
323 C
*
770732 T-AGAGAAAGAGGGAGCGAACCTGTTTGCAGAAGATTATTCGAGTTCTATACTTCCTGAAGAAAG
1 TGA-AGAAAGAGGGAGCGAACCCGTTTGCAGAAGATTATTCGAGTTCTATACTTCCTGAAGAAAG
770796 AGCGAAGCGAACCCGTAAGAAGAAGATTCTCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAA
65 AGCGAAGCGAACCCGTAAGAAGAAGATTCTCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAA
770861 CCCGTTTTCAGAAGATTGTTCGAGTTCTATACTCTCTAAAGAAAGAGGGAGCGAACCCGTTAGAA
130 CCCGTTTTCAGAAGATTGTTCGAGTTCTATACTCTCTAAAGAAAGAGGGAGCGAACCCGTTAGAA
*
770926 GATTTTCTAGTTCTATACTCATTGAAGAAAGAGGGAGAAAACCCGTTTGAAGAAGATGTTCGAGT
195 GATTTT-TAGTTCTATACTCATTGAAGAAAGAGGGAGAGAACCCGTTTGAAGAAGATGTTCGAGT
* ** * *
770991 TCTATACTCCCTGAAGAAAGAGTGAGCGAACCCGTAAGAAGAAGATTATCGAGTTCTATACTTCC
259 TCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATTATTGAGTTCTATACTCCC
** * *
771056 TGAAGAAAGAGGGAGCGAACCCGTTTTTAGAAGATTGTTCGAGTTCTATACTCCCTGAAGAAAGA
1 TGAAGAAAGAGGGAGCGAACCCGTTTGCAGAAGATTATTCGAGTTCTATACTTCCTGAAGAAAGA
* * ** * * *
771121 GCGAAGCAAACCCATTTGAAGAAGATGT-TTGAGTTCCATACTCCCT-AGAGAAAGAGGGAGCGA
66 GCGAAGCGAACCCGTAAGAAGAAGAT-TCTCGAGTTCTATACTTCCTGA-AGAAAGAGGGAGCGA
** * * * * * * *
771184 ACCCGTTTGAAGAAAATT-TCCAAGTTCTATACTCCCTGAAGAAAGAGGGAGCAAACCTGTTTGA
129 ACCCGTTTTCAGAAGATTGTTCGAGTTCTATACTCTCTAAAGAAAGAGGGAGCGAACCCG-TT--
*** ** * * * *
771248 AGAAGATGTCCAAGTTCTATACTCCCT-AGAGGAAGAGGGAGAGAACTCGTTTGAAGAAAATGTC
191 AGAAGAT-TTTTAGTTCTATACTCATTGA-AGAAAGAGGGAGAGAACCCGTTTGAAGAAGATGTT
* * *
771312 CGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCTGTTTGCAGAAGATTATTCGGGTTCTAT
254 CGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATTATT-GAGTTCTAT
771377 ACTCCC
318 ACTCCC
* ***
771383 TGAAGAAAGAGGGAGCGAACCCGATTATTGAAGATTATTCGAG-TCTTATACT
1 TGAAGAAAGAGGGAGCGAACCCGTTTGCAGAAGATTATTCGAGTTC-TATACT
771435 CTTTGAAGAA
Statistics
Matches: 635, Mismatches: 54, Indels: 25
0.89 0.08 0.04
Matches are distributed among these distances:
323 38 0.06
324 432 0.68
325 5 0.01
326 101 0.16
327 59 0.09
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.24
Consensus pattern (323 bp):
TGAAGAAAGAGGGAGCGAACCCGTTTGCAGAAGATTATTCGAGTTCTATACTTCCTGAAGAAAGA
GCGAAGCGAACCCGTAAGAAGAAGATTCTCGAGTTCTATACTTCCTGAAGAAAGAGGGAGCGAAC
CCGTTTTCAGAAGATTGTTCGAGTTCTATACTCTCTAAAGAAAGAGGGAGCGAACCCGTTAGAAG
ATTTTTAGTTCTATACTCATTGAAGAAAGAGGGAGAGAACCCGTTTGAAGAAGATGTTCGAGTTC
TATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTGAAGAAGATTATTGAGTTCTATACTCCC
Found at i:771524 original size:55 final size:55
Alignment explanation
Indices: 771374--771620 Score: 286
Period size: 55 Copynumber: 4.5 Consensus size: 55
771364 ATTCGGGTTC
* * ** * *
771374 TATACTCCCTGAAGAAAGAGGGAGC-GAACCCGATTATTGAAGATTATTCGAGTCT
1 TATACTCTCTGAAGAAATAGGGAGCAG-ACAAGATTATTGAAGAATGTTCGAGTCT
* * * *
771429 TATACTCTTTGAAGAAATAGGGAACAAACACGATTATTGAAGAATGTTCGAGTCT
1 TATACTCTCTGAAGAAATAGGGAGCAGACAAGATTATTGAAGAATGTTCGAGTCT
* *
771484 TATACTCTCTGAAGAAATAGGGAGCAGACAAGAATGTTGAA-AATTGTTCGAGTCT
1 TATACTCTCTGAAGAAATAGGGAGCAGACAAGATTATTGAAGAA-TGTTCGAGTCT
* * *
771539 AATACTCTCTGAAGAAATAGGGAGCAGA-AATGATTGTTGAAGATTGTTCGAGTCT
1 TATACTCTCTGAAGAAATAGGGAGCAGACAA-GATTATTGAAGAATGTTCGAGTCT
* *
771594 TATACTCTCTGAAG-CATAGAGAGCAGA
1 TATACTCTCTGAAGAAATAGGGAGCAGA
771621 GACGTTTGTT
Statistics
Matches: 168, Mismatches: 20, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
54 15 0.09
55 152 0.90
56 1 0.01
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (55 bp):
TATACTCTCTGAAGAAATAGGGAGCAGACAAGATTATTGAAGAATGTTCGAGTCT
Found at i:776164 original size:22 final size:22
Alignment explanation
Indices: 776139--776180 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
776129 ATCCTAAATG
776139 ATAAACCCTAAACCATAACCAT
1 ATAAACCCTAAACCATAACCAT
* *
776161 ATAATCTCTAAACCATAACC
1 ATAAACCCTAAACCATAACC
776181 CTAAATCATA
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:0.48, C:0.31, G:0.00, T:0.21
Consensus pattern (22 bp):
ATAAACCCTAAACCATAACCAT
Found at i:776599 original size:19 final size:21
Alignment explanation
Indices: 776572--776610 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
776562 TGAAAGACGT
776572 AAATAAATATTAAT-ATTTTA
1 AAATAAATATTAATAATTTTA
776592 AAAT-AATATTAATAATTTT
1 AAATAAATATTAATAATTTT
776611 GTTAAACATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
AAATAAATATTAATAATTTTA
Found at i:777177 original size:26 final size:26
Alignment explanation
Indices: 777135--777276 Score: 223
Period size: 26 Copynumber: 5.5 Consensus size: 26
777125 AAGAGCTTAG
*
777135 AGGGAGAGAAGTGATCCTTGTTATGT
1 AGGGAGAAAAGTGATCCTTGTTATGT
*
777161 AGGGAGAGAAA-TAATCCTTGTTATGT
1 AGGGAGA-AAAGTGATCCTTGTTATGT
* *
777187 AGGGAGAAAAGTGACCCTTGTTTTGT
1 AGGGAGAAAAGTGATCCTTGTTATGT
777213 AGGGAGAAAAGTGATCCTTGTTATGT
1 AGGGAGAAAAGTGATCCTTGTTATGT
777239 AGGGAGAAAAGTGATCCTTGTTATGT
1 AGGGAGAAAAGTGATCCTTGTTATGT
*
777265 AGGGATAAAAGT
1 AGGGAGAAAAGT
777277 TGTACCCTAG
Statistics
Matches: 106, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
25 3 0.03
26 101 0.95
27 2 0.02
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.30
Consensus pattern (26 bp):
AGGGAGAAAAGTGATCCTTGTTATGT
Found at i:778610 original size:82 final size:80
Alignment explanation
Indices: 778471--778628 Score: 253
Period size: 82 Copynumber: 1.9 Consensus size: 80
778461 AAAACAATTC
* * *
778471 ACTATATAATAGAGAAGTTTAGAACTATTGTAGGGGGCCATATGAAATGAAATCACTTGAGAGGG
1 ACTATATAATAGAGAAGTTTAGAACTATTATAGGGGCCCATATGAAATGAAAACACTTGAGAGGG
778536 ACAAAGTTAAAAAAA
66 ACAAAGTTAAAAAAA
*
778551 ACTATTATAATAGAGAAGTTTAGAATTATTATAGGTGGCCCATATGAAATGAAAACACTTGAGAG
1 ACTA-TATAATAGAGAAGTTTAGAACTATTATAGG-GGCCCATATGAAATGAAAACACTTGAGAG
*
778616 GGTCAAAGTTAAA
64 GGACAAAGTTAAA
778629 GAAACTTGTG
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
80 4 0.06
81 28 0.39
82 39 0.55
ACGTcount: A:0.44, C:0.09, G:0.22, T:0.26
Consensus pattern (80 bp):
ACTATATAATAGAGAAGTTTAGAACTATTATAGGGGCCCATATGAAATGAAAACACTTGAGAGGG
ACAAAGTTAAAAAAA
Found at i:779345 original size:22 final size:23
Alignment explanation
Indices: 779320--779366 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
779310 TGTTAATTTA
779320 ATTAA-AAATATAA-AATATTTTT
1 ATTAATAAATATAATAAT-TTTTT
*
779342 ATTAATAATTATAATAATTTTTT
1 ATTAATAAATATAATAATTTTTT
779365 AT
1 AT
779367 CCTACTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 5 0.23
23 14 0.64
24 3 0.14
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
ATTAATAAATATAATAATTTTTT
Found at i:779999 original size:21 final size:21
Alignment explanation
Indices: 779973--780027 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
779963 CGTTAAAAAG
*
779973 ATTAACATTTTAGATAACGAA
1 ATTAACATTTTAGATAACAAA
779994 ATTAACATTTTAGATAACAAA
1 ATTAACATTTTAGATAACAAA
780015 ATTAACATTTTAG
1 ATTAACATTTTAG
780028 GTAGCACTCT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.47, C:0.09, G:0.07, T:0.36
Consensus pattern (21 bp):
ATTAACATTTTAGATAACAAA
Found at i:782540 original size:41 final size:39
Alignment explanation
Indices: 782480--782559 Score: 106
Period size: 41 Copynumber: 2.0 Consensus size: 39
782470 ATATCTGTAC
*
782480 AATGAGCTTAAGGACGAGAATGAGATGGAATTTAGAGAGTT
1 AATGAGCTTAAGGACGAGAATGAGA--GAATTTAAAGAGTT
** *
782521 AATGAGCTTGGGGATGAGAATGAGAGAATTTAAAGAGTT
1 AATGAGCTTAAGGACGAGAATGAGAGAATTTAAAGAGTT
782560 TGAGATGAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 13 0.37
41 22 0.63
ACGTcount: A:0.39, C:0.04, G:0.33, T:0.25
Consensus pattern (39 bp):
AATGAGCTTAAGGACGAGAATGAGAGAATTTAAAGAGTT
Found at i:786249 original size:21 final size:21
Alignment explanation
Indices: 786225--786594 Score: 130
Period size: 24 Copynumber: 16.8 Consensus size: 21
786215 TTTAGACTTG
786225 AAATGAAATAA-ATAAATAGAT
1 AAAT-AAATAATATAAATAGAT
*
786246 AAATAAATAATATAAATATAT
1 AAATAAATAATATAAATAGAT
*
786267 AAA-ATAATTATATAAATA-AT
1 AAATA-AATAATATAAATAGAT
* *
786287 ATTATACAAT-ATAT-AATACAT
1 A-AATA-AATAATATAAATAGAT
** * * * *
786308 GTAT-ACTCATATATATAATAT
1 AAATAAATAATATAAAT-AGAT
786329 AAAT-AATAATAT-AAT--AT
1 AAATAAATAATATAAATAGAT
786346 AATATAATATAATATAATATA-AT
1 AA-ATAA-ATAATATAA-ATAGAT
*
786369 AATATAATATAATATAATATAATAT
1 AA-ATAA-ATAATATAA-AT-AGAT
*
786394 AATATAATATAATATAATATATAT
1 AA-ATAA-ATAATATAA-ATAGAT
786418 AATATAATATAATATAATATA-AT
1 AA-ATAA-ATAATATAA-ATAGAT
786441 ATAATATAATAATAT-AAT--AT
1 A-AATA-AATAATATAAATAGAT
*
786461 AATATAATATAATATAAAATATAT
1 AA-ATAA-ATAATAT-AAATAGAT
786485 ATAATATAATAATATAATATA-AT
1 A-AATA-AATAATATAA-ATAGAT
* *
786508 AATATATATAATATAATATAATAT
1 AA-ATAAATAATATAA-AT-AGAT
786532 AATATAATATAATATATAAT--AT
1 AA-ATAA-ATAATATA-AATAGAT
*
786554 AATATATAATAATATAATATAATAT
1 AA-ATA-AATAATATAA-AT-AGAT
*
786579 AAATATAT-ATATAAAT
1 AAATAAATAATATAAAT
786595 TTAACATAAT
Statistics
Matches: 296, Mismatches: 16, Indels: 74
0.77 0.04 0.19
Matches are distributed among these distances:
17 4 0.01
18 4 0.01
19 7 0.02
20 41 0.14
21 52 0.18
22 47 0.16
23 47 0.16
24 55 0.19
25 38 0.13
26 1 0.00
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.38
Consensus pattern (21 bp):
AAATAAATAATATAAATAGAT
Found at i:786272 original size:15 final size:15
Alignment explanation
Indices: 786254--786591 Score: 122
Period size: 17 Copynumber: 20.8 Consensus size: 15
786244 ATAAATAAAT
786254 AATATAAATATATAA
1 AATATAAATATATAA
* *
786269 AATAATTATATAAATAA
1 AAT-A-TAAATATATAA
*
786286 TATTATACAATATATAA
1 -AATATA-AATATATAA
* *
786303 TACATGTATACTCATATATA
1 -A-ATATA-AAT-ATATA-A
786323 TAATATAAATA-AT--
1 -AATATAAATATATAA
*
786336 AATAT-AATATAATAT
1 AATATAAATAT-ATAA
786351 AATATAATATAATATAA
1 AATATAA-AT-ATATAA
*
786368 TAATAT-AATATAATAT
1 -AATATAAATAT-ATAA
786384 AATATAATATAATATAA
1 AATATAA-AT-ATATAA
* *
786401 TATAATATAATATATAT
1 AAT-ATA-AATATATAA
*
786418 AATAT-AATATAATAT
1 AATATAAATAT-ATAA
786433 AATATAATATAATATAA
1 AATATAA-AT-ATATAA
786450 TAATATAATATAATATAATA
1 -AATATAA-AT-ATAT-A-A
*
786470 TAATATAAAATATATAT
1 -AATAT-AAATATATAA
*
786487 AATAT-AATA-ATAT
1 AATATAAATATATAA
*
786500 AATATAATAATATATAT
1 AATAT-A-AATATATAA
*
786517 AATAT-AATATAATAT
1 AATATAAATAT-ATAA
*
786532 AATATAATATAATATAT
1 AATATAA-AT-ATATAA
786549 AATAT-AATATATAA
1 AATATAAATATATAA
786563 TAATAT-AATATAATATA
1 -AATATAAATAT-ATA-A
*
786580 AATATATATATA
1 AATATAAATATA
786592 AATTTAACAT
Statistics
Matches: 261, Mismatches: 21, Indels: 81
0.72 0.06 0.22
Matches are distributed among these distances:
11 4 0.02
12 5 0.02
13 11 0.04
14 19 0.07
15 45 0.17
16 35 0.13
17 70 0.27
18 43 0.16
19 15 0.06
20 12 0.05
21 2 0.01
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.39
Consensus pattern (15 bp):
AATATAAATATATAA
Found at i:786628 original size:5 final size:5
Alignment explanation
Indices: 786244--786628 Score: 412
Period size: 5 Copynumber: 77.6 Consensus size: 5
786234 AAATAAATAG
*
786244 ATAA- ATAA- ATAAT ATAA- AT-AT ATAAA ATAAT -T-AT ATAA- ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
* * * *
786287 ATTAT ACAAT AT-AT AATACAT GT-AT ACTCAT AT-AT ATAAT ATAAAT
1 ATAAT ATAAT ATAAT -ATA-AT ATAAT A-TAAT ATAAT ATAAT AT-AAT
786333 AATAAT ATAAT ATAAT ATAAT ATAAT ATAAT AT-A- ATAAT ATAAT ATAAT
1 -ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
786382 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT AT-AT ATAAT ATAAT ATAAT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
*
786431 ATAAT ATAAT ATAAT AT-A- ATAAT ATAAT ATAAT ATAAT ATAAT ATAAA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
786479 ATATAT ATAAT AT-A- ATAAT ATAAT ATAAT AATATAT ATAAT ATAAT
1 ATA-AT ATAAT ATAAT ATAAT ATAAT ATAAT -ATA-AT ATAAT ATAAT
786525 ATAAT ATAAT ATAAT ATAATAT ATAAT ATAAT AT-AT AATAAT ATAAT
1 ATAAT ATAAT ATAAT AT-A-AT ATAAT ATAAT ATAAT -ATAAT ATAAT
* *
786572 ATAAT ATAAAT ATATAT ATAAAT TTAAC ATAAT AT-AT AATAATT ATAAT
1 ATAAT AT-AAT ATA-AT AT-AAT ATAAT ATAAT ATAAT -ATAA-T ATAAT
*
786621 ATACT ATA
1 ATAAT ATA
786629 TAATTTACAT
Statistics
Matches: 332, Mismatches: 15, Indels: 67
0.80 0.04 0.16
Matches are distributed among these distances:
3 9 0.03
4 40 0.12
5 230 0.69
6 41 0.12
7 12 0.04
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:791689 original size:19 final size:19
Alignment explanation
Indices: 791665--791710 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
791655 GAAACTTTCA
*
791665 AAAGTTACACGTTAATCAC
1 AAAGTTACACGATAATCAC
*
791684 AAAGTTA-TCGATAATCAC
1 AAAGTTACACGATAATCAC
*
791702 AAAATTACA
1 AAAGTTACA
791711 TTTTGACCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
18 15 0.68
19 7 0.32
ACGTcount: A:0.48, C:0.17, G:0.09, T:0.26
Consensus pattern (19 bp):
AAAGTTACACGATAATCAC
Found at i:793319 original size:2 final size:2
Alignment explanation
Indices: 793312--793338 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
793302 GTTCACATGA
793312 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
793339 AAGCAAAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:796136 original size:18 final size:16
Alignment explanation
Indices: 796113--796147 Score: 52
Period size: 18 Copynumber: 2.1 Consensus size: 16
796103 ATTGTTCAAC
796113 TTTTGGCTTCTCCATTTG
1 TTTTGGCTT-TCC-TTTG
796131 TTTTGGCTTTCCTTTG
1 TTTTGGCTTTCCTTTG
796147 T
1 T
796148 GGTGAGAGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 3 0.18
18 9 0.53
ACGTcount: A:0.03, C:0.20, G:0.17, T:0.60
Consensus pattern (16 bp):
TTTTGGCTTTCCTTTG
Found at i:796758 original size:60 final size:60
Alignment explanation
Indices: 796679--796793 Score: 169
Period size: 60 Copynumber: 1.9 Consensus size: 60
796669 CAAAAGTAAT
* * *
796679 AAATTGATCACTAAAACATCAAATA-GATCATTGAACAATGATTTTATATCTAATTCTAAA
1 AAATTGATCACCAAAACATCAAATATGATC-TGGAACAATAATTTTATATCTAATTCTAAA
* *
796739 AAATTGGTCACCAAAACATCAAATATGTTCTGGAACAATAATTTTATATCTAATT
1 AAATTGATCACCAAAACATCAAATATGATCTGGAACAATAATTTTATATCTAATT
796794 TATTCTAAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
60 46 0.94
61 3 0.06
ACGTcount: A:0.44, C:0.14, G:0.08, T:0.34
Consensus pattern (60 bp):
AAATTGATCACCAAAACATCAAATATGATCTGGAACAATAATTTTATATCTAATTCTAAA
Found at i:797057 original size:31 final size:32
Alignment explanation
Indices: 797019--797082 Score: 94
Period size: 31 Copynumber: 2.0 Consensus size: 32
797009 TGATCATGTC
* *
797019 TTAATTAAATAAAAGTCAAAGTGA-TAAATAT
1 TTAATTAAATAAAAATCAAAGTGACAAAATAT
*
797050 TTAATTAAATAAAAATGAAAGTGACAAAATAT
1 TTAATTAAATAAAAATCAAAGTGACAAAATAT
797082 T
1 T
797083 ATATTTTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 22 0.76
32 7 0.24
ACGTcount: A:0.56, C:0.03, G:0.09, T:0.31
Consensus pattern (32 bp):
TTAATTAAATAAAAATCAAAGTGACAAAATAT
Found at i:799041 original size:43 final size:43
Alignment explanation
Indices: 798991--799242 Score: 242
Period size: 43 Copynumber: 5.9 Consensus size: 43
798981 TGGTAACAAA
* ** * *
798991 AAACGCCGCAACAGGTAACGATATATAGCGGCGTTTGTCCAAC
1 AAACGCCGCAATAGGTATTGATATTTAGCGGCGTTTTTCCAAC
* *
799034 AAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTTCAAC
1 AAACGCCGCAATAGGTATTGATATTTAGCGGCGTTTTTCCAAC
* * *
799077 AAACGCCACAATAGGTGTTGAGATTTAGCGGCGTTTTTTCC-AC
1 AAACGCCGCAATAGGTATTGATATTTAGCGGCG-TTTTTCCAAC
* * *
799120 AAACGCCGCAATAGGTATTGAGATTTAGCAGCGTTTTT-TACAC
1 AAACGCCGCAATAGGTATTGATATTTAGCGGCGTTTTTCCA-AC
* * * * * * *
799163 AAACACCGCAATATGTCTTGAGATTTTGCGGCATTTTTCCCAC
1 AAACGCCGCAATAGGTATTGATATTTAGCGGCGTTTTTCCAAC
* * *
799206 AAACGCCGCAA-AGG-ATCTGGTATATAGCTGCGTTTTT
1 AAACGCCGCAATAGGTAT-TGATATTTAGCGGCGTTTTT
799243 TAGAACAAAC
Statistics
Matches: 173, Mismatches: 31, Indels: 11
0.80 0.14 0.05
Matches are distributed among these distances:
41 1 0.01
42 21 0.12
43 145 0.84
44 6 0.03
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (43 bp):
AAACGCCGCAATAGGTATTGATATTTAGCGGCGTTTTTCCAAC
Found at i:799108 original size:86 final size:83
Alignment explanation
Indices: 799016--799264 Score: 275
Period size: 86 Copynumber: 2.9 Consensus size: 83
799006 TAACGATATA
* *
799016 TAGCGGCGTTTGTCCAACAAACGCCGCAATAGGTGTTGATATTTAGCGGCGTTTTTTCAACAAAC
1 TAGCGGCGTTTTTCC-ACAAACGCCGCAATAGGT-TTGATATTTAGCAGCGTTTTTT-AACAAAC
*
799081 GCCACAATAGGTGTTGAGATT
63 GCCACAATAGGTCTTGAGATT
*
799102 TAGCGGCGTTTTTTCCACAAACGCCGCAATAGGTATTGAGATTTAGCAGCGTTTTTTACACAAAC
1 TAGCGGCG-TTTTTCCACAAACGCCGCAATAGGT-TTGATATTTAGCAGCGTTTTTTA-ACAAAC
* * *
799167 ACCGCAATATGTCTTGAGATT
63 GCCACAATAGGTCTTGAGATT
* * * * * *
799188 TTGCGGCATTTTTCCCACAAACGCCGCAA-AGGATCTGGTATATAGCTGCGTTTTTTAGAACAAA
1 TAGCGGCGTTTTT-CCACAAACGCCGCAATAGG-TTTGATATTTAGCAGCGTTTTTT--AACAAA
*
799252 CGCCACAAAAGGT
62 CGCCACAATAGGT
799265 TATATCTATA
Statistics
Matches: 138, Mismatches: 19, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
85 26 0.19
86 105 0.76
87 7 0.05
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (83 bp):
TAGCGGCGTTTTTCCACAAACGCCGCAATAGGTTTGATATTTAGCAGCGTTTTTTAACAAACGCC
ACAATAGGTCTTGAGATT
Found at i:803114 original size:41 final size:41
Alignment explanation
Indices: 803058--803478 Score: 357
Period size: 41 Copynumber: 10.1 Consensus size: 41
803048 TTGTGTTTAC
*
803058 AAACGCCACTAAAGTACAAGTCTTTAGCGACGTTTGTATAA
1 AAACGCCACTAAAGTACGAGTCTTTAGCGACGTTTGTATAA
* *
803099 AAATGCCACTGAAGTACGAGTCTTTAGCGACGTTTGTATAA
1 AAACGCCACTAAAGTACGAGTCTTTAGCGACGTTTGTATAA
* * * * *
803140 AAACGCCACTGAAGTATGAGTCTATAGCGGCGTTTATATAA
1 AAACGCCACTAAAGTACGAGTCTTTAGCGACGTTTGTATAA
* * * * *
803181 AAATGCCACTGAATTACAAGTCTTTAGC-AGCGTTTGTAAACA
1 AAACGCCACTAAAGTACGAGTCTTTAGCGA-CGTTTGTATA-A
* *
803223 CAAACGCCACTAAAGTACGAGTCGTTAGCGGCGTTTGTATAA
1 -AAACGCCACTAAAGTACGAGTCTTTAGCGACGTTTGTATAA
* * **
803265 AAACGCCACTAAA-TAACTAGTTTTTAGCGGTGTTTGTATAA
1 AAACGCCACTAAAGT-ACGAGTCTTTAGCGACGTTTGTATAA
* * * * * *
803306 AAACGCCACTAATGAACTCA-TTTTTAGCGGCGTTTGTACAAA
1 AAACGCCACTAAAGTAC-GAGTCTTTAGCGACGTTTGTA-TAA
*
803348 AAATGCCGCTAACCACTAAAGTACGAGTCTTTAGCGACGTTTTTATAA
1 AAA---CG----CCACTAAAGTACGAGTCTTTAGCGACGTTTGTATAA
* * * * * *
803396 AAACCCCACTAAATTAC-AATATTTAGCGGCGTTTATATAA
1 AAACGCCACTAAAGTACGAGTCTTTAGCGACGTTTGTATAA
* * * * *
803436 AAACTCCACTAAAATATGAGTATTTAGCGACGTTT-TAAAA
1 AAACGCCACTAAAGTACGAGTCTTTAGCGACGTTTGTATAA
803476 AAA
1 AAA
803479 AACTCCACTA
Statistics
Matches: 312, Mismatches: 51, Indels: 35
0.78 0.13 0.09
Matches are distributed among these distances:
40 41 0.13
41 197 0.63
42 8 0.03
43 32 0.10
45 3 0.01
48 6 0.02
49 25 0.08
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.29
Consensus pattern (41 bp):
AAACGCCACTAAAGTACGAGTCTTTAGCGACGTTTGTATAA
Found at i:803479 original size:41 final size:40
Alignment explanation
Indices: 803360--803488 Score: 134
Period size: 40 Copynumber: 3.1 Consensus size: 40
803350 ATGCCGCTAA
* * * *
803360 CCACTAAAGTACGAGTCTTTAGCGACGTTTTTATAAAAACC
1 CCACTAAAATA-GAGTATTTAGCGACGTTTTAATAAAAACT
* * * *
803401 CCACTAAATTACAATATTTAGCGGCG-TTTATATAAAAACT
1 CCACTAAAATAGAGTATTTAGCGACGTTTTA-ATAAAAACT
*
803441 CCACTAAAATATGAGTATTTAGCGACGTTTTAAAAAAAAACT
1 CCACTAAAATA-GAGTATTTAGCGACGTTTT-AATAAAAACT
803483 CCACTA
1 CCACTA
803489 TAGCACATGT
Statistics
Matches: 72, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
39 3 0.04
40 29 0.40
41 22 0.31
42 17 0.24
43 1 0.01
ACGTcount: A:0.40, C:0.19, G:0.12, T:0.29
Consensus pattern (40 bp):
CCACTAAAATAGAGTATTTAGCGACGTTTTAATAAAAACT
Found at i:804059 original size:16 final size:16
Alignment explanation
Indices: 804040--804077 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
804030 GTTCAGATTA
804040 TTTTTTGTTCGAATTG
1 TTTTTTGTTCGAATTG
* *
804056 TTTTTGGTTCGAGTTG
1 TTTTTTGTTCGAATTG
804072 TTTTTT
1 TTTTTT
804078 ATTTGGGTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.08, C:0.05, G:0.21, T:0.66
Consensus pattern (16 bp):
TTTTTTGTTCGAATTG
Found at i:807643 original size:21 final size:20
Alignment explanation
Indices: 807557--807714 Score: 77
Period size: 21 Copynumber: 7.8 Consensus size: 20
807547 AAATGACCAA
**
807557 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
807576 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
807596 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
807616 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * * *
807637 GAAAATCGCGATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
807658 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
807678 CAATAATCGCAACGCGAATAT
1 CAA-AATCGCAACGCGATTTT
*
807699 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
807715 ACACATAAAT
Statistics
Matches: 102, Mismatches: 31, Indels: 11
0.71 0.22 0.08
Matches are distributed among these distances:
19 16 0.16
20 42 0.41
21 44 0.43
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:807724 original size:20 final size:20
Alignment explanation
Indices: 807701--807870 Score: 119
Period size: 20 Copynumber: 8.4 Consensus size: 20
807691 GCGAATATGA
807701 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTAAC-CAT
* * *
807721 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTAACCAT
* * *
807741 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTAACCAT
****
807761 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTAACCAT
* * *
807781 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTAACCAT
* * *
807801 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTAACCAT
* *
807821 AAATCGCAACG-ATAATACAT
1 AAATCGCAACGCGTAA-CCAT
* *
807841 AAAATCGCAACGCGTATCCGT
1 -AAATCGCAACGCGTAACCAT
807862 AAATCGCAA
1 AAATCGCAA
807871 TGCGATATTT
Statistics
Matches: 124, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
19 2 0.02
20 105 0.85
21 15 0.12
22 2 0.02
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.21
Consensus pattern (20 bp):
AAATCGCAACGCGTAACCAT
Found at i:807727 original size:40 final size:40
Alignment explanation
Indices: 807682--807870 Score: 193
Period size: 40 Copynumber: 4.7 Consensus size: 40
807672 GATTTTCAAT
* ** *
807682 AATCGCAACGCGAATATGAAAATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGTAAC-CATA
* * * *
807722 AATCGCAATGCGTATCCGTAAATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGTAACCATA
** * * *
807762 AATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGTAACCATA
* * *
807802 TATCGCAACGCGTATCCGTAAATCGCAACG-ATAATACATAA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGTAA-CCAT-A
807843 AATCGCAACGCGTATCCGTAAATCGCAA
1 AATCGCAACGCGTATCCGTAAATCGCAA
807871 TGCGATATTT
Statistics
Matches: 124, Mismatches: 22, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
39 2 0.02
40 92 0.74
41 30 0.24
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.20
Consensus pattern (40 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGTAACCATA
Found at i:807765 original size:60 final size:60
Alignment explanation
Indices: 807682--807870 Score: 243
Period size: 60 Copynumber: 3.1 Consensus size: 60
807672 GATTTTCAAT
* ** * *
807682 AATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAATGCGTATCCGTA
* * ***
807742 AATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAATGCGTATCCGTA
* ** *
807802 TATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAATGCGTATCCGTA
807863 AATCGCAA
1 AATCGCAA
807871 TGCGATATTT
Statistics
Matches: 108, Mismatches: 20, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 81 0.75
61 27 0.25
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.20
Consensus pattern (60 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAATGCGTATCCGTA
Found at i:808293 original size:33 final size:33
Alignment explanation
Indices: 808254--808324 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
808244 TTCACTTAGA
*
808254 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
808287 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
808320 TTTCA
1 TTTCA
808325 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:808464 original size:14 final size:14
Alignment explanation
Indices: 808445--808499 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
808435 AGAATGACTG
808445 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
*
808459 TCGCAACGCGAAATGAAAA
1 TCGCAA--CG--A-GAGAA
808478 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
808492 TCGCAACG
1 TCGCAACG
808500 CGAAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.42, C:0.24, G:0.25, T:0.09
Consensus pattern (14 bp):
TCGCAACGAGAGAA
Found at i:808482 original size:33 final size:33
Alignment explanation
Indices: 808445--808515 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
808435 AGAATGACTG
**
808445 TCGCAACGAGAGAATCGCAACGCGAAATGAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
808478 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
808511 TCGCA
1 TCGCA
808516 TTGCGATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.44, C:0.25, G:0.23, T:0.08
Consensus pattern (33 bp):
TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
Found at i:808533 original size:19 final size:19
Alignment explanation
Indices: 808511--808608 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
808501 GAAACCAAAA
*
808511 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
808530 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
808544 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
808563 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * *
808577 TCTCGTTGCGATTGTCATC
1 TCGCGTTGCGATTTTCATT
808596 TCGCGTTGCGATT
1 TCGCGTTGCGATT
808609 CTCTCGTTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
16 5 0.08
17 6 0.10
19 32 0.51
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:808552 original size:14 final size:14
Alignment explanation
Indices: 808533--808622 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
808523 TTTCATTTCG
808533 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
808547 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
808566 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
808580 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
808597 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
808613 CGTTGCGATT
1 CGTTGCGATT
808623 TTCATTTCAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.09, C:0.26, G:0.23, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:808558 original size:33 final size:33
Alignment explanation
Indices: 808516--808630 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
808506 CAAAATCGCA
808516 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
808549 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
808582 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
808615 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
808631 AACCAAAAGA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:810535 original size:92 final size:93
Alignment explanation
Indices: 810329--810707 Score: 735
Period size: 92 Copynumber: 4.1 Consensus size: 93
810319 TAGATTGCTT
*
810329 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
810394 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
810422 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
810486 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
810514 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
810578 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
810606 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
810671 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
810699 AGTAAATTT
1 AGTAAATTT
810708 ATCCATTCAA
Statistics
Matches: 284, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
92 184 0.65
93 100 0.35
ACGTcount: A:0.22, C:0.13, G:0.18, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:810559 original size:185 final size:185
Alignment explanation
Indices: 810329--810709 Score: 737
Period size: 185 Copynumber: 2.1 Consensus size: 185
810319 TAGATTGCTT
810329 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
810394 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
65 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
810459 GTGTATTCTTTAACACTGTGAAATA-TATTTGTCTTTGTTTTGTCTTTTGGTTGAA
130 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
810514 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATATAT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATATAT
810579 TTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTG
66 TTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTG
810644 TGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 TGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
810699 AGTAAATTTAT
1 AGTAAATTTAT
810710 CCATTCAAGT
Statistics
Matches: 193, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
184 92 0.48
185 101 0.52
ACGTcount: A:0.23, C:0.13, G:0.18, T:0.46
Consensus pattern (185 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATATAT
TTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTG
TGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:810791 original size:19 final size:19
Alignment explanation
Indices: 810751--810879 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
810741 TAGTTTACTT
* *
810751 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
810771 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
810790 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
810809 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
810823 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
810842 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
810856 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
810875 TCGCA
1 TCGCA
810880 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:810830 original size:33 final size:32
Alignment explanation
Indices: 810787--810879 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
810777 CGCGAAACCA
**
810787 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
810819 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
810852 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
810880 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:810877 original size:52 final size:52
Alignment explanation
Indices: 810751--810879 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
810741 TAGTTTACTT
**
810751 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
810803 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
810856 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
810880 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:810897 original size:19 final size:19
Alignment explanation
Indices: 810875--811009 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
810865 GAAACCAAAA
*
810875 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
810894 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
810910 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
810927 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
810943 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
810960 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
810979 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
810999 TCGTGTTGCGA
1 TCGCGTTGCGA
811010 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 46 0.48
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:810916 original size:14 final size:14
Alignment explanation
Indices: 810897--810953 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
810887 TTTCATTTCG
810897 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
810911 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
810928 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
810944 CGTTGCGATT
1 CGTTGCGATT
810954 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:810922 original size:33 final size:33
Alignment explanation
Indices: 810880--810972 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
810870 CAAAATCGCA
*
810880 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
810913 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
810946 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
810973 TTGGTTTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:812920 original size:14 final size:14
Alignment explanation
Indices: 812901--812936 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
812891 ATTGTTTAAT
812901 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
812915 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
812929 TGATTTGT
1 TGATTTGT
812937 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:813111 original size:20 final size:19
Alignment explanation
Indices: 813043--813125 Score: 113
Period size: 19 Copynumber: 4.6 Consensus size: 19
813033 AAAAATGACT
813043 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
813062 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
813076 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
813095 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
813115 ATCGCAATGCG
1 ATCGCAATGCG
813126 TTTATAATTT
Statistics
Matches: 56, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
14 10 0.18
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 21 0.38
20 19 0.34
ACGTcount: A:0.43, C:0.18, G:0.24, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:813178 original size:19 final size:19
Alignment explanation
Indices: 813154--813427 Score: 354
Period size: 19 Copynumber: 15.4 Consensus size: 19
813144 GATTATCTCG
813154 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
813173 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
813192 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
813206 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
813225 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
813244 TTGCGATTTCCATTTCGCA
1 TTGCGATTTTCATTTCGCA
813263 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
813282 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
813301 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
813315 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
813334 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
813353 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
813367 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
813387 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
813401 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
813420 TTGCGATT
1 TTGCGATT
813428 GTATTTTCCG
Statistics
Matches: 226, Mismatches: 8, Indels: 42
0.82 0.03 0.15
Matches are distributed among these distances:
14 29 0.13
16 24 0.11
17 21 0.09
18 3 0.01
19 137 0.61
20 12 0.05
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:813194 original size:52 final size:52
Alignment explanation
Indices: 813132--813399 Score: 455
Period size: 52 Copynumber: 5.0 Consensus size: 52
813122 TGCGTTTATA
*
813132 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
813184 ATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
813236 ATTTCGCATTGCGATTTCCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGA-TT-C-TCTCG--TTGCGATTTTCATTTCGCATTGCGATTTTC
813293 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
813345 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTC
813398 AT
1 AT
813400 GTTGGGATTT
Statistics
Matches: 207, Mismatches: 3, Indels: 11
0.94 0.01 0.05
Matches are distributed among these distances:
52 131 0.63
53 19 0.09
54 5 0.02
55 6 0.03
56 2 0.01
57 44 0.21
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.46
Consensus pattern (52 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:813283 original size:109 final size:105
Alignment explanation
Indices: 813132--813399 Score: 459
Period size: 109 Copynumber: 2.5 Consensus size: 105
813122 TGCGTTTATA
813132 ATTTCGCATTGCGATT-ATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGC
1 ATTTCGCATTGCGATTCATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGC
*
813196 GATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
66 GATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
813236 ATTTCGCATTGCGATTTCCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
1 ATTTCGCATTGCGA-TT-CATCTCG--TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
813301 TTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
62 TTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
813345 ATTTCGCATTGCGATTC-TCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCAT
1 ATTTCGCATTGCGATTCATCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCAT
813400 GTTGGGATTT
Statistics
Matches: 155, Mismatches: 3, Indels: 11
0.92 0.02 0.07
Matches are distributed among these distances:
104 29 0.19
105 19 0.12
106 4 0.03
107 6 0.04
108 2 0.01
109 95 0.61
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.46
Consensus pattern (105 bp):
ATTTCGCATTGCGATTCATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGC
GATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:815931 original size:23 final size:23
Alignment explanation
Indices: 815898--815942 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
815888 CTGAAACATC
815898 ATCAAAATCCGTG-TATTGACCAT
1 ATCAAAATCCG-GATATTGACCAT
*
815921 ATCAAAGTCCGGATATTGACCA
1 ATCAAAATCCGGATATTGACCA
815943 AGACCAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 1 0.05
23 19 0.95
ACGTcount: A:0.36, C:0.22, G:0.16, T:0.27
Consensus pattern (23 bp):
ATCAAAATCCGGATATTGACCAT
Found at i:816645 original size:20 final size:20
Alignment explanation
Indices: 816617--817006 Score: 457
Period size: 20 Copynumber: 19.4 Consensus size: 20
816607 AAATTTCAGT
* * * *
816617 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
816637 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
816657 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
816677 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
816697 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
816717 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
816737 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
816757 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
816777 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
816797 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
816817 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* * *
816837 GTTGCGATTTTATGTATTA-TC
1 GTTGCGA-TTTACGGA-TACGC
816858 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
816878 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
816898 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
816918 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
816938 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
816958 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
816978 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
816998 GTTGCGATT
1 GTTGCGATT
817007 ATTGAAAATC
Statistics
Matches: 323, Mismatches: 36, Indels: 22
0.85 0.09 0.06
Matches are distributed among these distances:
19 7 0.02
20 295 0.91
21 19 0.06
22 2 0.01
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.36
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:817988 original size:20 final size:20
Alignment explanation
Indices: 817960--818001 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
817950 ATAATTTCAG
*
817960 TAAAAAAATTAGGTTTTTTA
1 TAAAAAAATTAAGTTTTTTA
*
817980 TAAATAAATTAAGTTTTTTA
1 TAAAAAAATTAAGTTTTTTA
818000 TA
1 TA
818002 GTTTTTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (20 bp):
TAAAAAAATTAAGTTTTTTA
Found at i:818656 original size:2 final size:2
Alignment explanation
Indices: 818649--818687 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
818639 CTTGTGTATT
818649 TA TA TA TA TA 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 TA TA TA TA TA T
818688 CATGTGATAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:822221 original size:11 final size:10
Alignment explanation
Indices: 822198--822235 Score: 51
Period size: 9 Copynumber: 3.8 Consensus size: 10
822188 TTTAAACTAA
*
822198 ATTAAAATAT
1 ATTAAATTAT
822208 ATTAATATTAT
1 ATTAA-ATTAT
822219 ATTAAATT-T
1 ATTAAATTAT
822228 ATTAAATT
1 ATTAAATT
822236 TACATGAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
9 9 0.35
10 8 0.31
11 9 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (10 bp):
ATTAAATTAT
Found at i:829044 original size:29 final size:31
Alignment explanation
Indices: 829002--829072 Score: 119
Period size: 29 Copynumber: 2.3 Consensus size: 31
828992 TTAAGAGACT
829002 AAATAAGAATAGAGTACTTTTTT-AG-AAAA
1 AAATAAGAATAGAGTACTTTTTTAAGAAAAA
829031 AAATAAGAATAGAGTACTTTTTTAGAGAAAAA
1 AAATAAGAATAGAGTACTTTTTTA-AGAAAAA
829063 AAATAAGAAT
1 AAATAAGAAT
829073 TGAAATTCCA
Statistics
Matches: 39, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
29 23 0.59
31 2 0.05
32 14 0.36
ACGTcount: A:0.55, C:0.03, G:0.14, T:0.28
Consensus pattern (31 bp):
AAATAAGAATAGAGTACTTTTTTAAGAAAAA
Found at i:829837 original size:2 final size:2
Alignment explanation
Indices: 829826--829925 Score: 64
Period size: 2 Copynumber: 56.5 Consensus size: 2
829816 GAACCCGAAA
* * *
829826 AT AT -T AT AT AT AT AT A- AT -T A- AT AT A- AA AA AT AT A- AA
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
829862 AT AT -T AT AT AT AT A- AT -T A- AT AT A- AA AT AT AT A- AA AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
829898 AT -T AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
829926 ATCGGGGCGG
Statistics
Matches: 81, Mismatches: 4, Indels: 26
0.73 0.04 0.23
Matches are distributed among these distances:
1 13 0.16
2 68 0.84
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:829925 original size:34 final size:36
Alignment explanation
Indices: 829823--829921 Score: 150
Period size: 34 Copynumber: 2.8 Consensus size: 36
829813 CCCGAACCCG
*
829823 AAAATATTATATATATATA-ATTAATATAAAAAATAT
1 AAAATATTATATATATATATA-TAATATAAAATATAT
829859 AAAATATTATATATATA-AT-TAATATAAAATATAT
1 AAAATATTATATATATATATATAATATAAAATATAT
829893 AAAATATTATATATATATATATATATATA
1 AAAATATTATATATATATATATA-ATATA
829922 TATAATCGGG
Statistics
Matches: 58, Mismatches: 1, Indels: 7
0.88 0.02 0.11
Matches are distributed among these distances:
34 31 0.53
35 3 0.05
36 19 0.33
37 5 0.09
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (36 bp):
AAAATATTATATATATATATATAATATAAAATATAT
Found at i:831989 original size:31 final size:30
Alignment explanation
Indices: 831951--832024 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 30
831941 TTCTACCAAA
* *
831951 ATTTCAGCATTTCATCCC-CTTTAACTCTGTC
1 ATTTCAGC-TTTCATCCCTC-CTAACTCTGCC
831982 ATTTCAGCCTTTCATCCCTCCTAACTCTGCC
1 ATTTCAG-CTTTCATCCCTCCTAACTCTGCC
*
832013 ATGTCAGCTTTC
1 ATTTCAGCTTTC
832025 TGCGGGCTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
30 5 0.13
31 31 0.82
32 2 0.05
ACGTcount: A:0.18, C:0.35, G:0.08, T:0.39
Consensus pattern (30 bp):
ATTTCAGCTTTCATCCCTCCTAACTCTGCC
Found at i:836092 original size:134 final size:135
Alignment explanation
Indices: 835851--836121 Score: 427
Period size: 134 Copynumber: 2.0 Consensus size: 135
835841 GAGGGGGGGA
* *
835851 CAGAAATCAGAAGGCAAAACAAGTTTGAGAAAAAAAATTAATTCTACCCAGAGATCTAATTCACA
1 CAGAAATCAGAAGGCAAAACAAGTTTCAGAAAAAAAATGAATTCTACCCAGAGATCTAATTCACA
* * *
835916 TAAGAGTAAACAAATTCACAGCACCAAAGAGGCTAAGAACTAAAAGAATGGACCTTTAGGAAACA
66 TAAAAGTAAACAAATTCACACCACCAAAGAGGCCAAGAACTAAAAGAATGGACCTTTAGGAAACA
835981 AAACC
131 AAACC
* **
835986 CAGAAATCATAAGGCAAAACAAGTTTCAG-GGAAAAATGAATTCTACCCAGAGATCTAATTCACA
1 CAGAAATCAGAAGGCAAAACAAGTTTCAGAAAAAAAATGAATTCTACCCAGAGATCTAATTCACA
* * * *
836050 TAAAAGTAAACAAATTCACACCCCCAATGAGGCCAAGGACTAAAAGAATGGACTTTTAGGAAACA
66 TAAAAGTAAACAAATTCACACCACCAAAGAGGCCAAGAACTAAAAGAATGGACCTTTAGGAAACA
836115 AAACC
131 AAACC
836120 CA
1 CA
836122 ACAAGATGAA
Statistics
Matches: 124, Mismatches: 12, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
134 97 0.78
135 27 0.22
ACGTcount: A:0.48, C:0.19, G:0.15, T:0.17
Consensus pattern (135 bp):
CAGAAATCAGAAGGCAAAACAAGTTTCAGAAAAAAAATGAATTCTACCCAGAGATCTAATTCACA
TAAAAGTAAACAAATTCACACCACCAAAGAGGCCAAGAACTAAAAGAATGGACCTTTAGGAAACA
AAACC
Found at i:837527 original size:25 final size:25
Alignment explanation
Indices: 837491--837540 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
837481 ACATTCCGTA
837491 AACCAAACGCA-CTCTAATAAATATG
1 AACCAAACGCACCT-TAATAAATATG
* *
837516 AACCAAATGCACCTTAATACATATG
1 AACCAAACGCACCTTAATAAATATG
837541 CATCAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 20 0.91
26 2 0.09
ACGTcount: A:0.46, C:0.24, G:0.08, T:0.22
Consensus pattern (25 bp):
AACCAAACGCACCTTAATAAATATG
Found at i:839642 original size:3 final size:3
Alignment explanation
Indices: 839634--839664 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
839624 AATATGTAAT
839634 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
839665 CTTAATTTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:840616 original size:2 final size:2
Alignment explanation
Indices: 840609--840636 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
840599 AAGTCAGTTC
840609 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
840637 TGTGTGTGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:841779 original size:31 final size:31
Alignment explanation
Indices: 841744--841808 Score: 112
Period size: 31 Copynumber: 2.1 Consensus size: 31
841734 CGAAAAATTC
841744 TTTAGACACTAAAAATTAACTTTAAGCATAG
1 TTTAGACACTAAAAATTAACTTTAAGCATAG
* *
841775 TTTAGTCACTAAAAATTAACTTTAAGTATAG
1 TTTAGACACTAAAAATTAACTTTAAGCATAG
841806 TTT
1 TTT
841809 TTGCATGTGA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.38
Consensus pattern (31 bp):
TTTAGACACTAAAAATTAACTTTAAGCATAG
Found at i:844030 original size:42 final size:41
Alignment explanation
Indices: 843889--844290 Score: 225
Period size: 41 Copynumber: 9.9 Consensus size: 41
843879 CACAAAACGA
* * *
843889 TACTTTAGCGGTGTTTCTTAAACAAACGCCGCTATAGATTAG
1 TACTTTAGCGGCGTTT-TTATACAAACGCCGCAATAGATTAG
*
843931 TACTTTAGCGGCGTTTTTATACAAACGCCGCAATAGGGA-TCG
1 TACTTTAGCGGCGTTTTTATACAAACGCCGCAATA--GATTAG
* * *
843973 T--TTATAGTGGCGTTTTTCTAACAAACGCCGCGATAGATTAG
1 TACTT-TAGCGGCGTTTTTAT-ACAAACGCCGCAATAGATTAG
* * * **
844014 TACTTTAGCAGTGTTTTTATACAAACGTCGCAATA-AAGAG
1 TACTTTAGCGGCGTTTTTATACAAACGCCGCAATAGATTAG
** * *
844054 TACTTTAGTAGCGTTTTTATATAAACGCCGCAATAG---GG
1 TACTTTAGCGGCGTTTTTATACAAACGCCGCAATAGATTAG
* * * ** * *** * *
844092 TTCTTTATCGGCGTTTATGCAAAAATATCGCGA-CGATGTAG
1 TACTTTAGCGGCGTTTTTATACAAACGCCGCAATAGAT-TAG
* * * * *
844133 TACTTTAGCGGCGTTTTTCTACAAATGCCGTAATAAATCAG
1 TACTTTAGCGGCGTTTTTATACAAACGCCGCAATAGATTAG
* * *
844174 TGA-ATTAGCAGCGTTTTTAAATACAAACGCCACAA-A-A-TAG
1 T-ACTTTAGCGGCGTTTTT--ATACAAACGCCGCAATAGATTAG
* * * * * **
844214 TAACATTAGCGGCGTTTTTAAAAAAACGCCGCAAGAAATCGG
1 T-ACTTTAGCGGCGTTTTTATACAAACGCCGCAATAGATTAG
* * *
844256 TCCATTAGCGGCGTTTTTAAACAAACGCCGCAATA
1 TACTTTAGCGGCGTTTTTATACAAACGCCGCAATA
844291 AGTTAGTGAA
Statistics
Matches: 275, Mismatches: 65, Indels: 41
0.72 0.17 0.11
Matches are distributed among these distances:
37 1 0.00
38 22 0.08
39 12 0.04
40 43 0.16
41 133 0.48
42 49 0.18
43 15 0.05
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.30
Consensus pattern (41 bp):
TACTTTAGCGGCGTTTTTATACAAACGCCGCAATAGATTAG
Found at i:844310 original size:41 final size:41
Alignment explanation
Indices: 844138--844325 Score: 130
Period size: 41 Copynumber: 4.6 Consensus size: 41
844128 TGTAGTACTT
** * * * * *
844138 TAGCGGCGTTTTTCTACAAATGCCGTAATAAATCAGTGAAT
1 TAGCGGCGTTTTTAAACAAACGCCGCAAGAAATCAGTCAAG
* * * *
844179 TAGCAGCGTTTTTAAATACAAACGCCAC-A-AAAT-AGTAACAT
1 TAGCGGCGTTTTT-AA-ACAAACGCCGCAAGAAATCAGTCA-AG
* * * *
844220 TAGCGGCGTTTTTAAAAAAACGCCGCAAGAAATCGGTCCAT
1 TAGCGGCGTTTTTAAACAAACGCCGCAAGAAATCAGTCAAG
* * * *
844261 TAGCGGCGTTTTTAAACAAACGCCGCAATAAGTTAGTGAAG
1 TAGCGGCGTTTTTAAACAAACGCCGCAAGAAATCAGTCAAG
* *
844302 TAGTGGCGTTTTAAATACAAACGC
1 TAGCGGCGTTTTTAA-ACAAACGC
844326 TGCTAGTTTT
Statistics
Matches: 117, Mismatches: 23, Indels: 13
0.76 0.15 0.08
Matches are distributed among these distances:
39 9 0.08
40 7 0.06
41 82 0.70
42 11 0.09
43 8 0.07
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.26
Consensus pattern (41 bp):
TAGCGGCGTTTTTAAACAAACGCCGCAAGAAATCAGTCAAG
Found at i:847329 original size:22 final size:22
Alignment explanation
Indices: 847304--847350 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
847294 TTTGTAAAGC
847304 CTTCTTGATCCTTGAATGTTTA
1 CTTCTTGATCCTTGAATGTTTA
847326 CTTCTTGATCCTTGAATGTTTA
1 CTTCTTGATCCTTGAATGTTTA
847348 CTT
1 CTT
847351 TTTGTAAAGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.17, C:0.19, G:0.13, T:0.51
Consensus pattern (22 bp):
CTTCTTGATCCTTGAATGTTTA
Found at i:849210 original size:43 final size:43
Alignment explanation
Indices: 849107--849375 Score: 213
Period size: 43 Copynumber: 6.3 Consensus size: 43
849097 ATAACATGTA
* ** * * *
849107 GCGGCGTTTTCGATAAAAACGCCGCTAAATC-TCAACGCTTATT
1 GCGGCGTTTTTGGGAAAAACGCCGCTAAA-CAACAACACCTATT
*
849150 ACGGCGCTTGTTT--GAAAAACGCCGCTAAACAACAACACCTATT
1 GCGGCG-TT-TTTGGGAAAAACGCCGCTAAACAACAACACCTATT
* * * * *
849193 GCGACATTTTTGGGAAAAACGCCGCTAAACAACGATACCTACT
1 GCGGCGTTTTTGGGAAAAACGCCGCTAAACAACAACACCTATT
** **
849236 GCGGCGTTTGGGGGAAAAACGCCGCTAAATGACAACACCTATT
1 GCGGCGTTTTTGGGAAAAACGCCGCTAAACAACAACACCTATT
** * * * *
849279 GCGGCGTTTTTAAGACAAACGCCGCTAAATAGCAACACCTATG
1 GCGGCGTTTTTGGGAAAAACGCCGCTAAACAACAACACCTATT
** * * * **
849322 GCGGCGTTTTT-TCAACAAACGCCGCTATATATCGTCACCTATT
1 GCGGCGTTTTTGGGAA-AAACGCCGCTAAACAACAACACCTATT
849365 GCGGCGTTTTT
1 GCGGCGTTTTT
849376 TGTTAACAAA
Statistics
Matches: 183, Mismatches: 37, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
41 3 0.02
42 4 0.02
43 172 0.94
44 2 0.01
45 2 0.01
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (43 bp):
GCGGCGTTTTTGGGAAAAACGCCGCTAAACAACAACACCTATT
Found at i:849342 original size:86 final size:84
Alignment explanation
Indices: 849063--849375 Score: 243
Period size: 86 Copynumber: 3.6 Consensus size: 84
849053 ATAGTTATTA
* * * * * *
849063 GCGGCGTTTTTTACCACAAACGCCGCTAAATATCATA-ACATGTAGCGGCGTTTTCGATAAAAAC
1 GCGGCGTTTTTT--CAAAAACGCCGCTAAATATCA-ACACCTATTGCGGCGTTTTTGAGAAAAAC
** * *
849127 GCCGCTAAATCTCAACGCTTATT
63 GCCGCTAAATAACAACACCTA-T
* * * * * * * *
849150 ACGGCGCTTGTTTGAAAAACGCCGCTAAACAACAACACCTATTGCGACATTTTTGGGAAAAACGC
1 GCGGCG-TTTTTTCAAAAACGCCGCTAAATATCAACACCTATTGCGGCGTTTTTGAGAAAAACGC
* * *
849215 CGCTAAACAACGATACCTACT
65 CGCTAAATAACAACACCTA-T
**** * *
849236 GCGGCGTTTGGGGGAAAAACGCCGCTAAATGA-CAACACCTATTGCGGCGTTTTTAAGACAAACG
1 GCGGCGTTT-TTTCAAAAACGCCGCTAAAT-ATCAACACCTATTGCGGCGTTTTTGAGAAAAACG
*
849300 CCGCTAAATAGCAACACCTAT
64 CCGCTAAATAACAACACCTAT
* **
849321 GGCGGCGTTTTTTCAACAAACGCCGCTATATATCGTCACCTATTGCGGCGTTTTT
1 -GCGGCGTTTTTTCAA-AAACGCCGCTAAATATCAACACCTATTGCGGCGTTTTT
849376 TGTTAACAAA
Statistics
Matches: 175, Mismatches: 44, Indels: 15
0.75 0.19 0.06
Matches are distributed among these distances:
85 7 0.04
86 157 0.90
87 6 0.03
88 5 0.03
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.25
Consensus pattern (84 bp):
GCGGCGTTTTTTCAAAAACGCCGCTAAATATCAACACCTATTGCGGCGTTTTTGAGAAAAACGCC
GCTAAATAACAACACCTAT
Found at i:849362 original size:129 final size:128
Alignment explanation
Indices: 849063--849373 Score: 297
Period size: 129 Copynumber: 2.4 Consensus size: 128
849053 ATAGTTATTA
* * * * * *
849063 GCGGCGTTTTTTACCACAAACGCCGCTAAATATCATAAC-ATGTAGCGGCGTTTTCGATAAAAAC
1 GCGGCGTTTTTT-CAACAAACGCCGCTAAATATCGTACCTA-CT-GCGGCGTTTGCGAGAAAAAC
* * *
849127 GCCGCTAAATCTCAACGCTTATTACGGCGCTTGTTTGAAAAACGCCGCTAAACAACAACACCTAT
63 GCCGCTAAATCACAACACCTATTACGGCGCTTGTTTGAAAAACGCCGCTAAACAACAACACCTAT
*
849192 T
128 G
* * ** * * * *
849193 GCGACATTTTTGGGAA-AAACGCCGCTAAACAACGATACCTACTGCGGCGTTTGGGGGAAAAACG
1 GCGGCGTTTTT-TCAACAAACGCCGCTAAATATCG-TACCTACTGCGGCGTTTGCGAGAAAAACG
* * * * *
849257 CCGCTAAATGACAACACCTATTGCGGCG-TT-TTTAAGACAAACGCCGCTAAATAGCAACACCTA
64 CCGCTAAATCACAACACCTATTACGGCGCTTGTTT--GAAAAACGCCGCTAAACAACAACACCTA
849320 TG
127 TG
* *
849322 GCGGCGTTTTTTCAACAAACGCCGCTATATATCGTCACCTATTGCGGCGTTT
1 GCGGCGTTTTTTCAACAAACGCCGCTAAATATCGT-ACCTACTGCGGCGTTT
849374 TTTGTTAACA
Statistics
Matches: 143, Mismatches: 31, Indels: 15
0.76 0.16 0.08
Matches are distributed among these distances:
127 3 0.02
128 5 0.03
129 120 0.84
130 14 0.10
131 1 0.01
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (128 bp):
GCGGCGTTTTTTCAACAAACGCCGCTAAATATCGTACCTACTGCGGCGTTTGCGAGAAAAACGCC
GCTAAATCACAACACCTATTACGGCGCTTGTTTGAAAAACGCCGCTAAACAACAACACCTATG
Found at i:849376 original size:43 final size:43
Alignment explanation
Indices: 849058--849391 Score: 196
Period size: 43 Copynumber: 7.7 Consensus size: 43
849048 TATACATAGT
* * *
849058 TATTAGCGGCGTTTTTTACCACAAACGCCGCTAAATATCATA-ACA
1 TATT-GCGGCGTTTTTTA-AACAAACGCCGCTAAATAGCA-ACACC
* * ** ** * *
849103 TGTAGCGGCGTTTTCGATAA-AAACGCCGCTAAATCTCAACGCT
1 TATTGCGGCGTTTTTTA-AACAAACGCCGCTAAATAGCAACACC
* * * * *
849146 TATTACGGCGCTTGTTTGAA-AAACGCCGCTAAACAACAACACC
1 TATTGCGGCG-TTTTTTAAACAAACGCCGCTAAATAGCAACACC
* * ** * * * *
849189 TATTGCGACATTTTTGGGAA-AAACGCCGCTAAACAACGATACC
1 TATTGCGGCGTTTTT-TAAACAAACGCCGCTAAATAGCAACACC
* ****
849232 TACTGCGGCGTTTGGGGGAA-AAACGCCGCTAAAT-GACAACACC
1 TATTGCGGCGTTT-TTTAAACAAACGCCGCTAAATAG-CAACACC
849275 TATTGCGGCG-TTTTTAAGACAAACGCCGCTAAATAGCAACACC
1 TATTGCGGCGTTTTTTAA-ACAAACGCCGCTAAATAGCAACACC
* * * * **
849318 TATGGCGGCGTTTTTTCAACAAACGCCGCTATATATCGTCACC
1 TATTGCGGCGTTTTTTAAACAAACGCCGCTAAATAGCAACACC
*
849361 TATTGCGGCGTTTTTTGTTAACAAACGCCGC
1 TATTGCGGCG-TTTTT-TAAACAAACGCCGC
849392 GAACTTTAGC
Statistics
Matches: 228, Mismatches: 50, Indels: 22
0.76 0.17 0.07
Matches are distributed among these distances:
41 1 0.00
42 8 0.04
43 177 0.78
44 27 0.12
45 15 0.07
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.25
Consensus pattern (43 bp):
TATTGCGGCGTTTTTTAAACAAACGCCGCTAAATAGCAACACC
Found at i:849567 original size:3 final size:3
Alignment explanation
Indices: 849559--849593 Score: 52
Period size: 3 Copynumber: 11.0 Consensus size: 3
849549 ATCACACATT
849559 TTA TTA TTA TTA TTA TTA TATA TTTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA T-TA -TTA TTA TTA TTA
849594 CAATTACAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 25 0.83
4 4 0.13
5 1 0.03
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:849849 original size:18 final size:20
Alignment explanation
Indices: 849823--849866 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
849813 AAATAGAGAG
*
849823 AAATTAATC-AATC-ATAAA
1 AAATCAATCAAATCAATAAA
849841 AAATCAATCAAATCAAATAAA
1 AAATCAATCAAATC-AATAAA
849862 AAATC
1 AAATC
849867 CGAAGCAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 8 0.36
19 4 0.18
21 10 0.45
ACGTcount: A:0.64, C:0.14, G:0.00, T:0.23
Consensus pattern (20 bp):
AAATCAATCAAATCAATAAA
Found at i:850020 original size:17 final size:17
Alignment explanation
Indices: 849993--850044 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 17
849983 AAGAAAATAT
849993 AGAAGAACAAAAAGAAAA
1 AGAA-AACAAAAAGAAAA
*
850011 AGAAAACAAAAAAGAAGAG
1 AGAAAAC-AAAAAGAA-AA
*
850030 AGAAAA-AAAATGAAA
1 AGAAAACAAAAAGAAA
850045 CCTTACCCCT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
16 1 0.03
17 10 0.33
18 12 0.40
19 7 0.23
ACGTcount: A:0.77, C:0.04, G:0.17, T:0.02
Consensus pattern (17 bp):
AGAAAACAAAAAGAAAA
Found at i:850025 original size:27 final size:28
Alignment explanation
Indices: 849973--850026 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
849963 AAATCAGTCA
* * *
849973 AAAAAGAAAAAAGAAAATATAGAAGAAC
1 AAAAAGAAAAAAGAAAACAAAAAAGAAC
850001 AAAAAG-AAAAAGAAAACAAAAAAGAA
1 AAAAAGAAAAAAGAAAACAAAAAAGAA
850027 GAGAGAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 17 0.74
28 6 0.26
ACGTcount: A:0.80, C:0.04, G:0.13, T:0.04
Consensus pattern (28 bp):
AAAAAGAAAAAAGAAAACAAAAAAGAAC
Done.