Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009072.1 Hibiscus syriacus cultivar Beakdansim tig00112503_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: 2600608
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 5 of 13
Found at i:764719 original size:85 final size:85
Alignment explanation
Indices: 764576--765082 Score: 613
Period size: 85 Copynumber: 6.0 Consensus size: 85
764566 TTATTCACAG
* * ** *
764576 CATAACTCAAGGCGATAAGGGATATCTGCCAACAAAGACCTTCTAGTTCGATTACATTCAGCTCA
1 CATAACTCAAGGCGAGAAGGGCTATCTATCAACAAAGACCTTCGAGTTCGATTACATTCAGCTCA
764641 AAGGCATATCAAATTTACAA
66 AAGGCATATCAAATTTACAA
* * ** *
764661 CATAACTCAAGGCGAGAAGGGTTATTTATCAGTAAATACCTTCGAGTTCGATTACATTCAGCTCA
1 CATAACTCAAGGCGAGAAGGGCTATCTATCAACAAAGACCTTCGAGTTCGATTACATTCAGCTCA
* *
764726 AAGGCATACCCAATTTACAA
66 AAGGCATATCAAATTTACAA
* * * * * *
764746 CATAACTCAAGGAGAGAAGGG-T-TATATGCAAAAAAAAACCTTCGAGTTTGATTACATTCATCT
1 CATAACTCAAGGCGAGAAGGGCTATCTAT-C-AACAAAGACCTTCGAGTTCGATTACATTCAGCT
* * *
764809 TAAAGGCATATCCAATTTACAG
64 CAAAGGCATATCAAATTTACAA
* * * * *
764831 CATAGCTCAAGGTGAGAAGGGCTATATGTCAACCAAGACCTTCGAGTTCGATTACATTCAGCTCA
1 CATAACTCAAGGCGAGAAGGGCTATCTATCAACAAAGACCTTCGAGTTCGATTACATTCAGCTCA
* *
764896 AAGACATATCAAATTTACAG
66 AAGGCATATCAAATTTACAA
* ** * * * *
764916 CATAGCTCAAGGCGAGAAGTACTATCTGTCAACCAAGACCTTTGAGTTCAATTACATTCAGCTCA
1 CATAACTCAAGGCGAGAAGGGCTATCTATCAACAAAGACCTTCGAGTTCGATTACATTCAGCTCA
764981 AAGGCATATCAAATTTACAA
66 AAGGCATATCAAATTTACAA
* * * *
765001 CATAGCTCAAGGCAAGAAGGGCTATCTATCAACAAATACCTTCGAGTTCGATTCCATTCAGCTCA
1 CATAACTCAAGGCGAGAAGGGCTATCTATCAACAAAGACCTTCGAGTTCGATTACATTCAGCTCA
* *
765066 AGGGCATGTCAAATTTA
66 AAGGCATATCAAATTTA
765083 TAGCATATAT
Statistics
Matches: 367, Mismatches: 51, Indels: 8
0.86 0.12 0.02
Matches are distributed among these distances:
83 4 0.01
84 2 0.01
85 355 0.97
86 2 0.01
87 4 0.01
ACGTcount: A:0.36, C:0.21, G:0.17, T:0.26
Consensus pattern (85 bp):
CATAACTCAAGGCGAGAAGGGCTATCTATCAACAAAGACCTTCGAGTTCGATTACATTCAGCTCA
AAGGCATATCAAATTTACAA
Found at i:765110 original size:85 final size:85
Alignment explanation
Indices: 764572--765151 Score: 554
Period size: 85 Copynumber: 6.8 Consensus size: 85
764562 GGAATTATTC
* * ** * * *
764572 ACAGCATAACTCAAGGCGATAAGGGATATCTGCCAACAAAGACCTTCTAGTTCGATTACATTCAG
1 ACAGCATAGCTCAAGGCGAGAAAAGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAG
764637 CTCAAAGGCATATCAAATTT
66 CTCAAAGGCATATCAAATTT
* * ** * * * ** *
764657 ACAACATAACTCAAGGCGAGAAGGGTTATTTATCAGTAAATACCTTCGAGTTCGATTACATTCAG
1 ACAGCATAGCTCAAGGCGAGAAAAGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAG
* *
764722 CTCAAAGGCATACCCAATTT
66 CTCAAAGGCATATCAAATTT
* * * ** * * * * *
764742 ACAACATAACTCAAGGAGAGAAGGGTTATATG-CAAAAAAAAACCTTCGAGTTTGATTACATTCA
1 ACAGCATAGCTCAAGGCGAGAAAAGCTATCTGTC-AACAAAGACCTTCGAGTTCGATTACATTCA
* * *
764806 TCTTAAAGGCATATCCAATTT
65 GCTCAAAGGCATATCAAATTT
* ** * *
764827 ACAGCATAGCTCAAGGTGAGAAGGGCTATATGTCAACCAAGACCTTCGAGTTCGATTACATTCAG
1 ACAGCATAGCTCAAGGCGAGAAAAGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAG
*
764892 CTCAAAGACATATCAAATTT
66 CTCAAAGGCATATCAAATTT
* * * *
764912 ACAGCATAGCTCAAGGCGAGAAGTA-CTATCTGTCAACCAAGACCTTTGAGTTCAATTACATTCA
1 ACAGCATAGCTCAAGGCGAGAA-AAGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCA
764976 GCTCAAAGGCATATCAAATTT
65 GCTCAAAGGCATATCAAATTT
* * ** * * *
764997 ACAACATAGCTCAAGGCAAGAAGGGCTATCTATCAACAAATACCTTCGAGTTCGATTCCATTCAG
1 ACAGCATAGCTCAAGGCGAGAAAAGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAG
* *
765062 CTCAAGGGCATGTCAAATTT
66 CTCAAAGGCATATCAAATTT
* ** * * * * ** * *
765082 ATAGCATATATTAAGTCGATAAAAGCTATCTGTCAATAAA-AATTGTCAAGTTCGATTCCATTCA
1 ACAGCATAGCTCAAGGCGAGAAAAGCTATCTGTCAACAAAGACCT-TCGAGTTCGATTACATTCA
765146 GCTCAA
65 GCTCAA
765152 TGACACATCA
Statistics
Matches: 422, Mismatches: 68, Indels: 10
0.84 0.14 0.02
Matches are distributed among these distances:
84 3 0.01
85 418 0.99
86 1 0.00
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.26
Consensus pattern (85 bp):
ACAGCATAGCTCAAGGCGAGAAAAGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACATTCAG
CTCAAAGGCATATCAAATTT
Found at i:765113 original size:170 final size:169
Alignment explanation
Indices: 764572--765151 Score: 612
Period size: 170 Copynumber: 3.4 Consensus size: 169
764562 GGAATTATTC
* ** * *
764572 ACAGCATAACTCAAGGCGATAAGGGATATCTGCCAACAAAGACCTTCT-AGTTCGATTACATTCA
1 ACAGCATAA-TCAAGGCGAGAAAAGCTATCTGTCAACAAAGACCTT-TGAGTTCGATTACATTCA
* * * **
764636 GCTCAAAGGCATATCAAATTTACAACATAACTCAAGGCGAGAAGGGTTATTTATCAGTAAATACC
64 GCTCAAAGGCATATCAAATTTACAACATAGCTCAAGGCGAGAAGGGCTATATATCAACAAATACC
* *
764701 TTCGAGTTCGATTACATTCAGCTCAAAGGCATACCCAATTT
129 TTCGAGTTCGATTACATTCAGCTCAAAGGCATATCAAATTT
* * ** * * * * * *
764742 ACAACATAACTCAAGGAGAGAAGGGTTATATG-CAAAAAAAAACCTTCGAGTTTGATTACATTCA
1 ACAGCATAA-TCAAGGCGAGAAAAGCTATCTGTC-AACAAAGACCTTTGAGTTCGATTACATTCA
* * * * * * * *
764806 TCTTAAAGGCATATCCAATTTACAGCATAGCTCAAGGTGAGAAGGGCTATATGTCAACCAAGACC
64 GCTCAAAGGCATATCAAATTTACAACATAGCTCAAGGCGAGAAGGGCTATATATCAACAAATACC
*
764871 TTCGAGTTCGATTACATTCAGCTCAAAGACATATCAAATTT
129 TTCGAGTTCGATTACATTCAGCTCAAAGGCATATCAAATTT
* * * *
764912 ACAGCATAGCTCAAGGCGAGAAGTA-CTATCTGTCAACCAAGACCTTTGAGTTCAATTACATTCA
1 ACAGCATA-ATCAAGGCGAGAA-AAGCTATCTGTCAACAAAGACCTTTGAGTTCGATTACATTCA
* *
764976 GCTCAAAGGCATATCAAATTTACAACATAGCTCAAGGCAAGAAGGGCTATCTATCAACAAATACC
64 GCTCAAAGGCATATCAAATTTACAACATAGCTCAAGGCGAGAAGGGCTATATATCAACAAATACC
* * *
765041 TTCGAGTTCGATTCCATTCAGCTCAAGGGCATGTCAAATTT
129 TTCGAGTTCGATTACATTCAGCTCAAAGGCATATCAAATTT
* * * * * * * *
765082 ATAGCATATATTAAGTCGATAAAAGCTATCTGTCAATAAA-A-ATTGTCAAGTTCGATTCCATTC
1 ACAGCATA-ATCAAGGCGAGAAAAGCTATCTGTCAACAAAGACCTT-T-GAGTTCGATTACATTC
765145 AGCTCAA
63 AGCTCAA
765152 TGACACATCA
Statistics
Matches: 337, Mismatches: 65, Indels: 16
0.81 0.16 0.04
Matches are distributed among these distances:
168 2 0.01
169 4 0.01
170 330 0.98
171 1 0.00
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.26
Consensus pattern (169 bp):
ACAGCATAATCAAGGCGAGAAAAGCTATCTGTCAACAAAGACCTTTGAGTTCGATTACATTCAGC
TCAAAGGCATATCAAATTTACAACATAGCTCAAGGCGAGAAGGGCTATATATCAACAAATACCTT
CGAGTTCGATTACATTCAGCTCAAAGGCATATCAAATTT
Found at i:765136 original size:255 final size:255
Alignment explanation
Indices: 764615--765162 Score: 620
Period size: 255 Copynumber: 2.1 Consensus size: 255
764605 CAACAAAGAC
* *
764615 CTTCTAGTTCGATTACATTCAGCTCAAAGGCATATCAAATTTACAACATAACTCAAGGCGAGAAG
1 CTTCAAGTTCGATTACATTCAGCTCAAAGACATATCAAATTTACAACATAACTCAAGGCGAGAAG
** * ** * * *
764680 GGTTATTTATCAGTAAATACCTTCGAGTTCGATTACATTCAGCTCAAAGGCATACCCAATTTACA
66 GACTATCTATCAACAAAGACCTTCGAGTTCAATTACATTCAGCTCAAAGGCATACCAAATTTACA
* * *
764745 ACATAACTCAAGGAGAGAAGGGTTATATGCAAAAAAAAACCTTCGAGTTTGATTACATTCATCTT
131 ACATAACTCAAGGAGAGAAGGGTTATATGCAAAAAAAAACCTTCGAGTTCGATTACATTCAGCTC
* * ** * *
764810 AAAGGCATATCCAATTTACAGCATAGCTCAAGGTGAGAAGGGCTATATGTCAACCAAGAC
196 AAAGGCATATCAAATTTACAGCATAGATCAAGGTGAGAAAAGCTATATGTCAACCAAAAA
* * *
764870 CTTCGAGTTCGATTACATTCAGCTCAAAGACATATCAAATTTACAGCATAGCTCAAGGCGAGAAG
1 CTTCAAGTTCGATTACATTCAGCTCAAAGACATATCAAATTTACAACATAACTCAAGGCGAGAAG
* * * * *
764935 TACTATCTGTCAACCAAGACCTTTGAGTTCAATTACATTCAGCTCAAAGGCATATCAAATTTACA
66 GACTATCTATCAACAAAGACCTTCGAGTTCAATTACATTCAGCTCAAAGGCATACCAAATTTACA
* * * * *
765000 ACATAGCTCAAGGCA-AGAAGGGCTATCTAT-C-AACAAATACCTTCGAGTTCGATTCCATTCAG
131 ACATAACTCAAGG-AGAGAAGGG-T-TATATGCAAAAAAAAACCTTCGAGTTCGATTACATTCAG
* * * * * * * *
765062 CTCAAGGGCATGTCAAATTTATAGCATATATTAA-GTCGATAAAAGCTATCTGTCAA-TAAAAA
193 CTCAAAGGCATATCAAATTTACAGCATAGATCAAGGT-GAGAAAAGCTATATGTCAACCAAAAA
* * * *
765124 TTGTCAAGTTCGATTCCATTCAGCTCAATGACACATCAA
1 CT-TCAAGTTCGATTACATTCAGCTCAAAGACATATCAA
765163 CCACATGGTA
Statistics
Matches: 244, Mismatches: 44, Indels: 10
0.82 0.15 0.03
Matches are distributed among these distances:
254 6 0.02
255 231 0.95
256 3 0.01
257 4 0.02
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.27
Consensus pattern (255 bp):
CTTCAAGTTCGATTACATTCAGCTCAAAGACATATCAAATTTACAACATAACTCAAGGCGAGAAG
GACTATCTATCAACAAAGACCTTCGAGTTCAATTACATTCAGCTCAAAGGCATACCAAATTTACA
ACATAACTCAAGGAGAGAAGGGTTATATGCAAAAAAAAACCTTCGAGTTCGATTACATTCAGCTC
AAAGGCATATCAAATTTACAGCATAGATCAAGGTGAGAAAAGCTATATGTCAACCAAAAA
Found at i:766023 original size:10 final size:10
Alignment explanation
Indices: 766010--766041 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
766000 AAATAATTAG
766010 AAAAATAAAA
1 AAAAATAAAA
766020 AAAAAT--AA
1 AAAAATAAAA
766028 AAAAATAAAA
1 AAAAATAAAA
766038 AAAA
1 AAAA
766042 CATACTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
8 8 0.40
10 12 0.60
ACGTcount: A:0.91, C:0.00, G:0.00, T:0.09
Consensus pattern (10 bp):
AAAAATAAAA
Found at i:766057 original size:19 final size:19
Alignment explanation
Indices: 766010--766059 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
766000 AAATAATTAG
766010 AAAAA-TAAAAAAAAATAA
1 AAAAATTAAAAAAAAATAA
*
766028 AAAAA-TAAAAAAAACATAC
1 AAAAATTAAAAAAAA-ATAA
*
766047 TAAAATTAAAAAA
1 AAAAATTAAAAAA
766060 TGAATAACTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 14 0.50
19 7 0.25
20 7 0.25
ACGTcount: A:0.82, C:0.04, G:0.00, T:0.14
Consensus pattern (19 bp):
AAAAATTAAAAAAAAATAA
Found at i:768090 original size:2 final size:2
Alignment explanation
Indices: 768083--768172 Score: 54
Period size: 2 Copynumber: 48.5 Consensus size: 2
768073 AACCAAATTA
*
768083 AT AT AT AT AT GT A- AT AT AT A- AT AT AT A- AT -T AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * *
768120 AT A- AT AT AGT AT GT AT AT AT -T AC GT A- AT AT A- AT AC AT AT
1 AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
768159 AT ACT AT AT AT AT A
1 AT A-T AT AT AT AT A
768173 AAGAATAACA
Statistics
Matches: 67, Mismatches: 10, Indels: 22
0.68 0.10 0.22
Matches are distributed among these distances:
1 9 0.13
2 54 0.81
3 4 0.06
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.43
Consensus pattern (2 bp):
AT
Found at i:768104 original size:7 final size:7
Alignment explanation
Indices: 768081--768172 Score: 73
Period size: 7 Copynumber: 13.0 Consensus size: 7
768071 GGAACCAAAT
768081 TAATATA
1 TAATATA
*
768088 T-ATATG
1 TAATATA
768094 TAATATA
1 TAATATA
768101 TAATATA
1 TAATATA
768108 TAAT-TA
1 TAATATA
768114 TAATATA
1 TAATATA
768121 TAATATA
1 TAATATA
*
768128 GTATGTATA
1 -TA-ATATA
* **
768137 TATTACG
1 TAATATA
768144 TAATATAA
1 TAATAT-A
768152 TACATATA
1 TA-ATATA
*
768160 TACTATA
1 TAATATA
768167 T-ATATA
1 TAATATA
768173 AAGAATAACA
Statistics
Matches: 68, Mismatches: 11, Indels: 13
0.74 0.12 0.14
Matches are distributed among these distances:
6 15 0.22
7 36 0.53
8 9 0.13
9 8 0.12
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.43
Consensus pattern (7 bp):
TAATATA
Found at i:768106 original size:20 final size:20
Alignment explanation
Indices: 768081--768139 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 20
768071 GGAACCAAAT
768081 TAATATATATATGTAATATA
1 TAATATATATATGTAATATA
*
768101 TAATATATA-ATTATAATATA
1 TAATATATATA-TGTAATATA
*
768121 TAATATA-GTATGT-ATATA
1 TAATATATATATGTAATATA
768139 T
1 T
768140 TACGTAATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
18 6 0.18
19 3 0.09
20 25 0.74
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (20 bp):
TAATATATATATGTAATATA
Found at i:771083 original size:272 final size:273
Alignment explanation
Indices: 770611--771109 Score: 697
Period size: 272 Copynumber: 1.8 Consensus size: 273
770601 AGTGTTAATA
* * * * * * *
770611 ATTATTACAAAAAATATTGTCACAAAAAATAATGATATTCACGTTTTAGTGACAACTTATATTTG
1 ATTATTAAAAAAAACATTATCACAAAAAATAATGATATTCACATTTTAGTGACAAATTATACTTA
**
770676 TAGTTATAAATTTTAACTATAGTGATAACATATATTAATTATCATAACTATTTTTCTCCAATTTT
66 TAGTTATAAATTTTAACTATAGTGATAACATATATTAACGATCATAACTATTTTTCTCCAATTTT
*
770741 TTGTTTCAAAAGTTATATTGAAATTTTTTATAATTATAATTTATAGTTATTGTTATAGAAAAAAT
131 TTGTTTCAAAAGTTATATTGAAATATTTTATAATTATAATTTATAGTTATTGTTATAGAAAAAAT
* * *
770806 TATCACATCAAATACTAAAATTCAGGTTTTTTGTACTTATATATTTTAATCATTATGAAAAATTA
196 TATCACACCAAATAATAAAATTCAAGTTTTTTGTACTTATATATTTTAATCATTATGAAAAATTA
770871 TACTATCAGAACC
261 TACTATCAGAACC
*
770884 ATTATTATAAAAAAACATTATCACAAAAAA-AATGATATTCACATTTGT-GTGAGAAATTATACT
1 ATTATTA-AAAAAAACATTATCACAAAAAATAATGATATTCACATTT-TAGTGACAAATTATACT
* * * *
770947 TATATTTATAAATTTTAATTATAGTGATAACATATATT-GCGAT-A-AA-TATTTTTCTCCACTT
64 TATAGTTATAAATTTTAACTATAGTGATAACATATATTAACGATCATAACTATTTTTCTCCA--A
* *
771008 TTTTTTGTTTCAAAAAGTTATATTGATAA-ATTTTGTAATTATAATTTATATTTATTGTTATAGA
127 TTTTTTGTTTC-AAAAGTTATATTGA-AATATTTTATAATTATAATTTATAGTTATTGTTATAGA
* *
771072 AAAAGTTATCACACCAGATAATAAAATTCAAGTTTTTT
190 AAAAATTATCACACCAAATAATAAAATTCAAGTTTTTT
771110 CTAATCAATT
Statistics
Matches: 198, Mismatches: 22, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
269 12 0.06
270 2 0.01
271 12 0.06
272 81 0.41
273 71 0.36
274 20 0.10
ACGTcount: A:0.40, C:0.09, G:0.08, T:0.43
Consensus pattern (273 bp):
ATTATTAAAAAAAACATTATCACAAAAAATAATGATATTCACATTTTAGTGACAAATTATACTTA
TAGTTATAAATTTTAACTATAGTGATAACATATATTAACGATCATAACTATTTTTCTCCAATTTT
TTGTTTCAAAAGTTATATTGAAATATTTTATAATTATAATTTATAGTTATTGTTATAGAAAAAAT
TATCACACCAAATAATAAAATTCAAGTTTTTTGTACTTATATATTTTAATCATTATGAAAAATTA
TACTATCAGAACC
Found at i:778953 original size:22 final size:22
Alignment explanation
Indices: 778911--778953 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
778901 TAAAATATAT
* * *
778911 TTTTAGTTATCATAACCAATTA
1 TTTTAGTTATAAGAACAAATTA
778933 TTTTAGTTATAAGAACAAATT
1 TTTTAGTTATAAGAACAAATT
778954 TAAATAAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (22 bp):
TTTTAGTTATAAGAACAAATTA
Found at i:779223 original size:198 final size:197
Alignment explanation
Indices: 778993--779801 Score: 1015
Period size: 198 Copynumber: 4.1 Consensus size: 197
778983 AAATTATGAT
* * * **
778993 AATTTATTTAG-AAAAATAACAAATTAAATTTAGTTGAAATAAAAAATTATGTCAAATTTATTTA
1 AATTTATTTAGTCACAATAACATATTAAATTTAGTCAAAATAAAAAATTATGTCAAATTTATTTA
* * ** * * *
779057 GTCAAAATATTTTATCAAAATAACAAATTATGACAAATTTA-AAAAGTTATAATAACAAATTATA
66 GTCAAAATATTTTGTCAAAATAAAAAATTATGACAAATTTATTTAA-TCAAAATAACAATTTATA
*
779121 ATAAATATTAATTTCTCAATATAAAAAAGTTATGACAAATAATATT-TTTCACAATAATC-AATT
130 ACAAATATTAATTTCTC-ATATAAAAAA-TTATGACAAATAATATTCTTTCACAATAA-CAAATT
*
779184 ATAAAA
192 GTAAAA
* *
779190 AATTTATTTAGTCACAATAACATATTAAATTTAGTCAAAATAAAAATTTATGTTAAATTTATTTC
1 AATTTATTTAGTCACAATAACATATTAAATTTAGTCAAAATAAAAAATTATGTCAAATTTATTT-
* * * * * *
779255 A-TCACAAA-ATTTTGTCAAAATAACAACTTTTGACAAATTTATTTAGTCATAATAATAATTTAT
65 AGTCA-AAATATTTTGTCAAAATAAAAAATTATGACAAATTTATTTAATCAAAATAACAATTTAT
* * *
779318 AACAAATATTAATTCCTCAATATAAAAAATTATGACAAATAATATTATTTCACAATAACATATTG
129 AACAAATATTAATTTCTC-ATATAAAAAATTATGACAAATAATATTCTTTCACAATAACAAATTG
*
779383 TAACA
193 TAAAA
* * * *
779388 AATTTATTTAGTTACAATAACATAGTAAATTTAGTCAAAATAAAAATTTATGTCAAATTTATTTT
1 AATTTATTTAGTCACAATAACATATTAAATTTAGTCAAAATAAAAAATTATGTCAAATTTATTTA
* * * *
779453 GTCACAATATTTTGTCAAAATAAAAAATTCTGATAAATTTATTTAATCAAAATAATAATTTATAA
66 GTCAAAATATTTTGTCAAAATAAAAAATTATGACAAATTTATTTAATCAAAATAACAATTTATAA
* * * *
779518 CAAATATTAATTTCTCATCATAAAAAATTGTGACAAGTAATATTCTTTAACAATAACAAATTGCA
131 CAAATATTAATTTCTCAT-ATAAAAAATTATGACAAATAATATTCTTTCACAATAACAAATTGTA
*
779583 ACA
195 AAA
* * ** * * * *
779586 AACTGATTTAGTCACAATAACACGTTAAATTTACTCAAAGTAAACAATTATGTCAAATTTATTTC
1 AATTTATTTAGTCACAATAACATATTAAATTTAGTCAAAATAAAAAATTATGTCAAATTTATTTA
* *
779651 GTTC-CAATATTTTTTCAAAATAAAAAATTATGACAAATTTATTTAATCAAAATAACAATTTATA
66 G-TCAAAATATTTTGTCAAAATAAAAAATTATGACAAATTTATTTAATCAAAATAACAATTTATA
*
779715 ACAAATATTAATTTCTCAT-TAAAAAATTGTGACAAATAATATTCTTTCACAATAACAAATTGTA
130 ACAAATATTAATTTCTCATATAAAAAATTATGACAAATAATATTCTTTCACAATAACAAATTGTA
779779 ACAA
195 A-AA
779783 AA-TTATTTAGTCACAATAA
1 AATTTATTTAGTCACAATAA
779802 AAAAGTTATA
Statistics
Matches: 542, Mismatches: 59, Indels: 23
0.87 0.09 0.04
Matches are distributed among these distances:
196 59 0.11
197 36 0.07
198 440 0.81
199 7 0.01
ACGTcount: A:0.48, C:0.10, G:0.05, T:0.37
Consensus pattern (197 bp):
AATTTATTTAGTCACAATAACATATTAAATTTAGTCAAAATAAAAAATTATGTCAAATTTATTTA
GTCAAAATATTTTGTCAAAATAAAAAATTATGACAAATTTATTTAATCAAAATAACAATTTATAA
CAAATATTAATTTCTCATATAAAAAATTATGACAAATAATATTCTTTCACAATAACAAATTGTAA
AA
Found at i:779446 original size:98 final size:96
Alignment explanation
Indices: 779145--779446 Score: 249
Period size: 98 Copynumber: 3.1 Consensus size: 96
779135 CTCAATATAA
* *
779145 AAAAGTTATGACAAATAATATTTTTCACAATAATCAATTATAAAAAATTTATTTAGTCACAATAA
1 AAAA-TTATGACAAATAATATTTTTCACAATAA-CAATTATAACAAATTTATTTAGTTACAATAA
*
779210 CATATTAAATTTAGTCAAAATAAAAATTTATGTT
64 CATAATAAATTTAGTCAAAATAAAAATTTATG-T
* ** * * * * * *
779244 AAATTTATTTCATCACAAAATTTTGTCAAAATAACAACTTTTGACAAATTTATTTAG-T-C-AT-
1 AAAATTATGACA-AATAATATTTT-TCACAATAACAA-TTATAACAAATTTATTTAGTTACAATA
* ** *
779305 A-ATAAT-AATTTA-TAACAAATATTAATTCCTCAATAT
63 ACATAATAAATTTAGTCA-AAATAAAAATT--T--ATGT
*
779341 AAAAAATTATGACAAATAATATTATTTCACAATAACATATTGTAACAAATTTATTTAGTTACAAT
1 --AAAATTATGACAAATAATATT-TTTCACAATAACA-ATTATAACAAATTTATTTAGTTACAAT
*
779406 AACATAGTAAATTTAGTCAAAATAAAAATTTATGT
62 AACATAATAAATTTAGTCAAAATAAAAATTTATGT
*
779441 CAAATT
1 AAAATT
779447 TATTTTGTCA
Statistics
Matches: 153, Mismatches: 31, Indels: 39
0.69 0.14 0.17
Matches are distributed among these distances:
93 2 0.01
94 15 0.10
95 4 0.03
96 2 0.01
97 3 0.02
98 47 0.31
99 27 0.18
100 28 0.18
101 2 0.01
102 2 0.01
103 4 0.03
104 15 0.10
105 2 0.01
ACGTcount: A:0.48, C:0.10, G:0.05, T:0.38
Consensus pattern (96 bp):
AAAATTATGACAAATAATATTTTTCACAATAACAATTATAACAAATTTATTTAGTTACAATAACA
TAATAAATTTAGTCAAAATAAAAATTTATGT
Found at i:779817 original size:32 final size:32
Alignment explanation
Indices: 779656--779836 Score: 97
Period size: 32 Copynumber: 5.7 Consensus size: 32
779646 ATTTCGTTCC
* * *
779656 AATATTT-TTTCAAAATAAAAAATTATGACAA
1 AATATTTATGTCACAATAAAAAATTATAACAA
* * * * *
779687 ATTTATTTA-ATCAAAATAACAATTTATAAC-A
1 A-ATATTTATGTCACAATAAAAAATTATAACAA
* * * * * *
779718 AATATTAATTTCTCATTAAAAAATTGTGACAAA
1 AATATTTATGTCACAATAAAAAATTATAAC-AA
* *
779751 TAATATTCT-T-TCACAATAACAAATTGTAACAA
1 -AATATT-TATGTCACAATAAAAAATTATAACAA
779783 AATTATTTA-GTCACAATAAAAAAGTTATAA-AA
1 AA-TATTTATGTCACAATAAAAAA-TTATAACAA
*
779815 AATATTTATTGTCAAAATAAAA
1 AATATTTA-TGTCACAATAAAA
779837 GTAGTGAGAA
Statistics
Matches: 114, Mismatches: 23, Indels: 24
0.71 0.14 0.15
Matches are distributed among these distances:
30 5 0.04
31 25 0.22
32 44 0.39
33 33 0.29
34 7 0.06
ACGTcount: A:0.52, C:0.09, G:0.04, T:0.35
Consensus pattern (32 bp):
AATATTTATGTCACAATAAAAAATTATAACAA
Found at i:783319 original size:19 final size:17
Alignment explanation
Indices: 783285--783323 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
783275 TTGTTCTCCG
*
783285 TAAAACATAAAATAAAT
1 TAAAAAATAAAATAAAT
783302 TAAAAAATAATAATTAAAT
1 TAAAAAATAA-AA-TAAAT
783321 TAA
1 TAA
783324 GCGGGCTACC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 9 0.47
18 2 0.11
19 8 0.42
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (17 bp):
TAAAAAATAAAATAAAT
Found at i:784885 original size:18 final size:20
Alignment explanation
Indices: 784848--784891 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
784838 TAAATTTATA
784848 AAATTTTTAAAAATAAAAAT
1 AAATTTTTAAAAATAAAAAT
*
784868 AAATTTTTAATAAA-AAATAT
1 AAATTTTTAA-AAATAAAAAT
784888 AAAT
1 AAAT
784892 AAAATATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 19 0.86
21 3 0.14
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
AAATTTTTAAAAATAAAAAT
Found at i:784896 original size:25 final size:24
Alignment explanation
Indices: 784856--784902 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
784846 TAAAATTTTT
*
784856 AAAAATAAAAATAAATTTTTAATA
1 AAAAATAAAAATAAATATTTAATA
*
784880 AAAAATATAAATAAAATATTTAA
1 AAAAATAAAAAT-AAATATTTAA
784903 AATATATAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (24 bp):
AAAAATAAAAATAAATATTTAATA
Found at i:785262 original size:31 final size:31
Alignment explanation
Indices: 785224--785332 Score: 110
Period size: 31 Copynumber: 3.3 Consensus size: 31
785214 AAACTGCCTA
785224 TTTGGTCACTTATATATTATCTAATTTATGT
1 TTTGGTCACTTATATATTATCTAATTTATGT
* ** * **
785255 TTTGGTCACTCGATTATTATTTAGGGTAAATTACCT
1 TTTGGTCACT-TA-TA-TA-TTA-TCTAATTTATGT
785291 ATTTGGTCACTTATATATTATCTAATTTATGT
1 -TTTGGTCACTTATATATTATCTAATTTATGT
785323 TTTGGTCACT
1 TTTGGTCACT
785333 CGATTATTTT
Statistics
Matches: 60, Mismatches: 12, Indels: 12
0.71 0.14 0.14
Matches are distributed among these distances:
31 20 0.33
32 8 0.13
33 5 0.08
34 4 0.07
35 5 0.08
36 8 0.13
37 10 0.17
ACGTcount: A:0.25, C:0.12, G:0.13, T:0.50
Consensus pattern (31 bp):
TTTGGTCACTTATATATTATCTAATTTATGT
Found at i:785359 original size:68 final size:68
Alignment explanation
Indices: 785206--785340 Score: 243
Period size: 68 Copynumber: 2.0 Consensus size: 68
785196 TTAGGGATTT
* * *
785206 TTTAAGGTAAACTGCCTATTTGGTCACTTATATATTATCTAATTTATGTTTTGGTCACTCGATTA
1 TTTAGGGTAAATTACCTATTTGGTCACTTATATATTATCTAATTTATGTTTTGGTCACTCGATTA
785271 TTA
66 TTA
785274 TTTAGGGTAAATTACCTATTTGGTCACTTATATATTATCTAATTTATGTTTTGGTCACTCGATTA
1 TTTAGGGTAAATTACCTATTTGGTCACTTATATATTATCTAATTTATGTTTTGGTCACTCGATTA
785339 TT
66 TT
785341 TTTTTTTAAA
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
68 64 1.00
ACGTcount: A:0.26, C:0.13, G:0.13, T:0.48
Consensus pattern (68 bp):
TTTAGGGTAAATTACCTATTTGGTCACTTATATATTATCTAATTTATGTTTTGGTCACTCGATTA
TTA
Found at i:785728 original size:17 final size:17
Alignment explanation
Indices: 785706--785749 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
785696 ATGTAAAAAT
785706 AAATATTTAAATTTAAA
1 AAATATTTAAATTTAAA
** **
785723 AAATATAAAAATTTATT
1 AAATATTTAAATTTAAA
785740 AAATATTTAA
1 AAATATTTAA
785750 TCAAGTAGGG
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AAATATTTAAATTTAAA
Found at i:787648 original size:27 final size:25
Alignment explanation
Indices: 787600--787649 Score: 82
Period size: 27 Copynumber: 1.9 Consensus size: 25
787590 GTCCCGTCCC
787600 CGAACCCGACCCGAAATATTATACT
1 CGAACCCGACCCGAAATATTATACT
787625 CGAACCCGAACCCGAAAATATTATA
1 CGAACCCG-ACCCG-AAATATTATA
787650 TATATATAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 8 0.35
26 5 0.22
27 10 0.43
ACGTcount: A:0.40, C:0.30, G:0.12, T:0.18
Consensus pattern (25 bp):
CGAACCCGACCCGAAATATTATACT
Found at i:787686 original size:36 final size:35
Alignment explanation
Indices: 787639--787737 Score: 155
Period size: 34 Copynumber: 2.8 Consensus size: 35
787629 CCCGAACCCG
787639 AAAATATTATATATATATAGTTAATATAAAAAATAT
1 AAAATATTATATATATATA-TTAATATAAAAAATAT
787675 AAAATATTATATATATA-ATTAATATAAAAAATAT
1 AAAATATTATATATATATATTAATATAAAAAATAT
*
787709 AAAATAGTATATATATATATATATATATA
1 AAAATATTATATATATATAT-TA-ATATA
787738 TATAATCGGG
Statistics
Matches: 59, Mismatches: 1, Indels: 5
0.91 0.02 0.08
Matches are distributed among these distances:
34 32 0.54
35 3 0.05
36 19 0.32
37 5 0.08
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (35 bp):
AAAATATTATATATATATATTAATATAAAAAATAT
Found at i:787721 original size:2 final size:2
Alignment explanation
Indices: 787716--787741 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
787706 TATAAAATAG
787716 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
787742 ATCGGGGCGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:797398 original size:6 final size:6
Alignment explanation
Indices: 797389--797413 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
797379 AAAAAAAAAA
797389 TCGTGG TCGTGG TCGTGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG T
797414 AATACGTGTC
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:0.00, C:0.16, G:0.48, T:0.36
Consensus pattern (6 bp):
TCGTGG
Found at i:797581 original size:20 final size:20
Alignment explanation
Indices: 797506--797583 Score: 95
Period size: 20 Copynumber: 3.9 Consensus size: 20
797496 GCAACGAATT
797506 TGGAAAATCGCAACGAC-AAC
1 TGGAAAATCGCAACG-CGAAC
* * *
797526 TAGAAAATCGTAACACGAAC
1 TGGAAAATCGCAACGCGAAC
*
797546 TGGAAAATCGCAACGCGAAA
1 TGGAAAATCGCAACGCGAAC
*
797566 TGGAAAATCGTAACGCGA
1 TGGAAAATCGCAACGCGA
797584 TTTTCAACTA
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
19 1 0.02
20 48 0.98
ACGTcount: A:0.45, C:0.21, G:0.22, T:0.13
Consensus pattern (20 bp):
TGGAAAATCGCAACGCGAAC
Found at i:797601 original size:21 final size:21
Alignment explanation
Indices: 797572--797644 Score: 119
Period size: 21 Copynumber: 3.5 Consensus size: 21
797562 GAAATGGAAA
*
797572 ATCGTAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
797593 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
* *
797614 ATCGTAACGCGATTTTCAATT
1 ATCGCAACGCGATTTTCAACT
797635 ATCGCAACGC
1 ATCGCAACGC
797645 CGAATTTGCG
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 48 1.00
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (21 bp):
ATCGCAACGCGATTTTCAACT
Found at i:797604 original size:41 final size:42
Alignment explanation
Indices: 797552--797644 Score: 125
Period size: 42 Copynumber: 2.2 Consensus size: 42
797542 GAACTGGAAA
*
797552 ATCGCAACGCGAAATGGAA-AATCGTAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGCAACAATCGTAACGCGATTTTCAACT
** * * *
797593 ATCGCAACGCGATTTTCAACTATCGTAACGCGATTTTCAATT
1 ATCGCAACGCGAAATGCAACAATCGTAACGCGATTTTCAACT
797635 ATCGCAACGC
1 ATCGCAACGC
797645 CGAATTTGCG
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
41 15 0.33
42 30 0.67
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (42 bp):
ATCGCAACGCGAAATGCAACAATCGTAACGCGATTTTCAACT
Found at i:802365 original size:15 final size:15
Alignment explanation
Indices: 802321--802372 Score: 77
Period size: 15 Copynumber: 3.5 Consensus size: 15
802311 GATATTTAGT
*
802321 GGGGCGGGCGGATGT
1 GGGGCGGGCGGATGC
802336 GGGGCGGGCGGATGC
1 GGGGCGGGCGGATGC
*
802351 GGGGCGGGTGGATGC
1 GGGGCGGGCGGATGC
*
802366 GGTGCGG
1 GGGGCGG
802373 ATGCGGGGCG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 34 1.00
ACGTcount: A:0.06, C:0.15, G:0.67, T:0.12
Consensus pattern (15 bp):
GGGGCGGGCGGATGC
Found at i:802728 original size:12 final size:12
Alignment explanation
Indices: 802711--802736 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
802701 ATAATAATTA
802711 ATGTTGATGATT
1 ATGTTGATGATT
802723 ATGTTGATGATT
1 ATGTTGATGATT
802735 AT
1 AT
802737 CACAATTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (12 bp):
ATGTTGATGATT
Found at i:802763 original size:70 final size:70
Alignment explanation
Indices: 802665--802795 Score: 210
Period size: 70 Copynumber: 1.9 Consensus size: 70
802655 ATTTTCATTC
* *
802665 ATCACAATTTTCAAATATGGATTTTACACATGCATGATAATAATTAATGTTGATGATTATGTTGA
1 ATCACAATTTTCAAATATGGATTCTACACATGCATAATAATAATTAATGTTGATGATTATGTTGA
802730 TGATT
66 TGATT
* *
802735 ATCACAATTTTCAAGTATGTG-TTCTACACATGCATAATAATGATTAATGTTGATGATTATG
1 ATCACAATTTTCAAATATG-GATTCTACACATGCATAATAATAATTAATGTTGATGATTATG
802796 AATTGCCGCA
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
70 55 0.98
71 1 0.02
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (70 bp):
ATCACAATTTTCAAATATGGATTCTACACATGCATAATAATAATTAATGTTGATGATTATGTTGA
TGATT
Found at i:804111 original size:13 final size:14
Alignment explanation
Indices: 804089--804119 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
804079 TGAATAATAT
804089 TTTTTGAAAAATTA
1 TTTTTGAAAAATTA
804103 TTTTT-AAAAATTA
1 TTTTTGAAAAATTA
804116 TTTT
1 TTTT
804120 ACGATATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (14 bp):
TTTTTGAAAAATTA
Found at i:806298 original size:3 final size:3
Alignment explanation
Indices: 806210--806285 Score: 138
Period size: 3 Copynumber: 26.0 Consensus size: 3
806200 GATACTCATT
806210 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
806257 TTA TTA TTA TTA TTA TTA TT- TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
806286 ATAAATATTA
Statistics
Matches: 71, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
2 4 0.06
3 67 0.94
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:810004 original size:142 final size:138
Alignment explanation
Indices: 809779--810054 Score: 516
Period size: 142 Copynumber: 2.0 Consensus size: 138
809769 GGATATGTTG
809779 AAGCTGCAGTGGTAGATTGTTTGAACGCTACAAAAAAAGTAATCCTGTTCTGTAATTCTAGCAGA
1 AAGCTGCAGTGGTAGATTGTTTGAACGCTACAAAAAAAGTAATCCTGTTCTGTAATTCTAGCAGA
809844 GACTTTCAGATCATTAAATGTTTGCAGAAAGCTAGGAGGTGGACGATTCTCAGGGTGTACCCAGT
66 GACTTTCAGATCATTAAATGTTTGCAGAAAGCTAGGAGGTGGACGATTCTCAGGGTGTACCCAGT
809909 TGTTTATT
131 TGTTTATT
809917 AAGCTGCAGTGGTAGATTGTTTGAACAGCTACAAAAAAAGATTAATCCTGCTTCTGTAATTCTAG
1 AAGCTGCAGTGGTAGATTGTTTGAAC-GCTACAAAAAAAG--TAATCCTG-TTCTGTAATTCTAG
809982 CAGAGACTTTCAGATCATTAAATGTTTGCAGAAAGCTAGGAGGTGGACGATTCTCAGGGTGTACC
62 CAGAGACTTTCAGATCATTAAATGTTTGCAGAAAGCTAGGAGGTGGACGATTCTCAGGGTGTACC
810047 CAGTTGTT
127 CAGTTGTT
810055 ATATGTTTGG
Statistics
Matches: 134, Mismatches: 0, Indels: 4
0.97 0.00 0.03
Matches are distributed among these distances:
138 26 0.19
139 13 0.10
141 8 0.06
142 87 0.65
ACGTcount: A:0.30, C:0.16, G:0.24, T:0.30
Consensus pattern (138 bp):
AAGCTGCAGTGGTAGATTGTTTGAACGCTACAAAAAAAGTAATCCTGTTCTGTAATTCTAGCAGA
GACTTTCAGATCATTAAATGTTTGCAGAAAGCTAGGAGGTGGACGATTCTCAGGGTGTACCCAGT
TGTTTATT
Found at i:811900 original size:15 final size:15
Alignment explanation
Indices: 811880--811911 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
811870 ATCAATACCT
811880 TTTTGCATACATGCA
1 TTTTGCATACATGCA
*
811895 TTTTGCATACATTCA
1 TTTTGCATACATGCA
811910 TT
1 TT
811912 ATTCATTTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.09, T:0.47
Consensus pattern (15 bp):
TTTTGCATACATGCA
Found at i:821162 original size:92 final size:92
Alignment explanation
Indices: 820609--821149 Score: 938
Period size: 92 Copynumber: 5.9 Consensus size: 92
820599 GAACAAGTGC
820609 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGGACTAC
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGGACTAC
* *
820674 AGAACCAGTTATTGAAATTGGAAGAAG
66 AGAACCAGTTATTGAATTTGGAAGATG
* *
820701 AATGTGCTCATAGTATCTTCTGGAAGTGTTCTTTGAGTTATCTGATTTGGTTTGGTATGGACTAC
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGGACTAC
*
820766 AGAACCAATTATTGAATTTGGAAGATG
66 AGAACCAGTTATTGAATTTGGAAGATG
* *
820793 AATGTGCTAATAGTATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGGACTAC
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGGACTAC
820858 AGAACCAGTTATTGAATTTGGAAGATG
66 AGAACCAGTTATTGAATTTGGAAGATG
* * *
820885 AATGTGCTAATAGTATCTTCTGGAAGTGTTATTTGAGTTATCTGATCTGGTTTGGTATGGACTAC
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGGACTAC
*
820950 AGAACCAGTTATTGAATTTAGAAGATG
66 AGAACCAGTTATTGAATTTGGAAGATG
* *
820977 AATGTGCTCATAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGTACTAC
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGGACTAC
821042 AGAACCAGTTATTGAATTTGGAAGATG
66 AGAACCAGTTATTGAATTTGGAAGATG
*
821069 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGTACTAC
1 AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGGACTAC
* *
821134 AGAACCAATCATTGAA
66 AGAACCAGTTATTGAA
821150 ATTAAAAGAT
Statistics
Matches: 430, Mismatches: 19, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 430 1.00
ACGTcount: A:0.27, C:0.12, G:0.24, T:0.38
Consensus pattern (92 bp):
AATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGGACTAC
AGAACCAGTTATTGAATTTGGAAGATG
Found at i:822194 original size:225 final size:223
Alignment explanation
Indices: 821807--822568 Score: 1106
Period size: 225 Copynumber: 3.4 Consensus size: 223
821797 TAGCAAAAAT
*
821807 TCAAATCCATCATTCAATGGATCAACTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCT--
1 TCAAATCCATCATTCAATGGATCAACTTTTCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGA
* ** *
821870 -GAAGA-AA-AAGTTCATAATAAGAAGAATTTGTTCAACTTTTGCTCAAATCCATCATTTGATGG
66 AGAAGAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACTTTTGCTTGAATTCATCATTTGATGG
* ***
821932 TTCAGCAGCGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAAAAGTTCAT
131 ATCAGCTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAAAAGTTCAT
821997 AATGAGAAGAATTTGTTCAACCTTTTGC
196 AATGAGAAGAATTTGTTCAACCTTTTGC
*
822025 TCAAATCCATCATTCAATGGATCAGCTTTTCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATTCAATGGATCAACTTTTCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGA
*
822090 AGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGCTCAACTTTTGCTTGAATTCATCATTTGAT
66 AGAA-G-AGAAGAAGTTCATAATAAGAAGAACTTGTTCAACTTTTGCTTGAATTCATCATTTGAT
*
822155 GGATCAGCTTTGCCAGAGAAAGTTCATAATGAAAAGAACTCATCTGAAGAAGGAAGAAAAAGTTC
129 GGATCAGCTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAAAAGTTC
822220 ATAATGAGAAGAATTTGTTCAACCTTTTGC
194 ATAATGAGAAGAATTTGTTCAACCTTTTGC
**
822250 TCAAATCCATCATTTGATGGATCAACTTTTCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATTCAATGGATCAACTTTTCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGA
*
822315 AGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACTTTTTCTTGAATTCATCATTTGAT
66 AGAA-G-AGAAGAAGTTCATAATAAGAAGAACTTGTTCAACTTTTGCTTGAATTCATCATTTGAT
* *
822380 GGATCAACTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTC
129 GGATCAGCTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAAAAGTTC
* * * * *
822445 ATAATAATAAGAACTTGTTTAACCCTTTGC
194 ATAATGAGAAGAATTTGTTCAACCTTTTGC
** * ** * **** *** *
822475 TTGAATTCATCATTTGATGGATCAGCAGCGCCAAAGAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATTCAATGGATCAACTTTTCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGA
*
822540 AGAAGAG-AG-AGTTCATAATGAGAAGAACT
66 AGAAGAGAAGAAGTTCATAATAAGAAGAACT
822569 CATCTGAAGA
Statistics
Matches: 499, Mismatches: 38, Indels: 11
0.91 0.07 0.02
Matches are distributed among these distances:
218 61 0.12
221 22 0.04
222 3 0.01
223 3 0.01
224 3 0.01
225 407 0.82
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (223 bp):
TCAAATCCATCATTCAATGGATCAACTTTTCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGA
AGAAGAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACTTTTGCTTGAATTCATCATTTGATGG
ATCAGCTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAAAAGTTCAT
AATGAGAAGAATTTGTTCAACCTTTTGC
Found at i:822208 original size:112 final size:113
Alignment explanation
Indices: 821807--822568 Score: 967
Period size: 113 Copynumber: 6.9 Consensus size: 113
821797 TAGCAAAAAT
** * * ****
821807 TCAAATCCATCATTCAATGGATCAACTTTTCCAGTTCGAGTTCATAATGAGAAGAACTCATCT--
1 TCAAATCCATCATTTGATGGATCAGCTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
*
821870 -GAA-G-A-AA-AAGTTCATAATAAGAAGAATTTGTTCAA-CTTTTGC
66 AGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACCTTTTGC
* ***
821912 TCAAATCCATCATTTGATGGTTCAGCAGCGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATTTGATGGATCAGCTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
* * *
821977 AGAAGGAAGAAAAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACCTTTTGC
** * ** *
822025 TCAAATCCATCATTCAATGGATCAGCTTTTCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATTTGATGGATCAGCTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
*
822090 AGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGCTCAA-CTTTTGC
66 AGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACCTTTTGC
** * *
822137 TTGAATTCATCATTTGATGGATCAGCTTTGCCAGAGAAAGTTCATAATGAAAAGAACTCATCTGA
1 TCAAATCCATCATTTGATGGATCAGCTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
* * *
822202 AGAAGGAAGAAAAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
66 AGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACCTTTTGC
* * ** *
822250 TCAAATCCATCATTTGATGGATCAACTTTTCCAGTTAGAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATTTGATGGATCAGCTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
*
822315 AGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAA-CTTTTTC
66 AGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACCTTTTGC
** * *
822362 TTGAATTCATCATTTGATGGATCAACTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATTTGATGGATCAGCTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
* * *
822427 AGAAGGAAGAAGAAGTTCATAATAATAAGAACTTGTTTAACCCTTTGC
66 AGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACCTTTTGC
** * *** *
822475 TTGAATTCATCATTTGATGGATCAGCAGCGCCAAAGAAAGTTCATAATGAGAAGAACTCATCTGA
1 TCAAATCCATCATTTGATGGATCAGCTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
*
822540 AGAA-G-AG-AG-AGTTCATAATGAGAAGAACT
66 AGAAGGAAGAAGAAGTTCATAATAAGAAGAACT
822569 CATCTGAAGA
Statistics
Matches: 575, Mismatches: 72, Indels: 16
0.87 0.11 0.02
Matches are distributed among these distances:
105 51 0.09
108 3 0.01
109 19 0.03
110 3 0.01
111 4 0.01
112 228 0.40
113 267 0.46
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (113 bp):
TCAAATCCATCATTTGATGGATCAGCTTTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGA
AGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTCAACCTTTTGC
Found at i:822570 original size:149 final size:149
Alignment explanation
Indices: 822394--822721 Score: 431
Period size: 149 Copynumber: 2.2 Consensus size: 149
822384 CAACTTTGCC
* *
822394 AGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAATAAGAAC
1 AGAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAAC
* ** * * *
822459 TTGTTTAACCCTTTGCTTGAATTCATCATTTGATGGATCAGCAGCGCCAAAGAAAGTTCATAATG
66 TTGTTCAACCCTTTGCTCAAATCCACCACTTGATGGATCAGCAGCGCCAAAGAAAGTTCATAATG
822524 AGAAGAACTCATCTGAAGA
131 AGAAGAACTCATCTGAAGA
* *
822543 AGAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAT
1 AGAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAAC
* **** *****
822608 TTGTTCAACCTTTTGCTCAAATCCACCACTTGATGGATCAGCTTTTCCAGTTTGAGTTCATAATG
66 TTGTTCAACCCTTTGCTCAAATCCACCACTTGATGGATCAGCAGCGCCAAAGAAAGTTCATAATG
*
822673 AGAAGGACTCATCTGAAGA
131 AGAAGAACTCATCTGAAGA
822692 AGGAAGAAGAAGTTCATAATGAGAAGAACT
1 A-G-AG-AG-AGTTCATAATGAGAAGAACT
822722 TGTTTAACCC
Statistics
Matches: 154, Mismatches: 21, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
149 129 0.84
150 1 0.01
151 2 0.01
152 2 0.01
153 20 0.13
ACGTcount: A:0.40, C:0.14, G:0.21, T:0.25
Consensus pattern (149 bp):
AGAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAAC
TTGTTCAACCCTTTGCTCAAATCCACCACTTGATGGATCAGCAGCGCCAAAGAAAGTTCATAATG
AGAAGAACTCATCTGAAGA
Found at i:822751 original size:113 final size:113
Alignment explanation
Indices: 822543--822844 Score: 396
Period size: 113 Copynumber: 2.7 Consensus size: 113
822533 CATCTGAAGA
*
822543 AGAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAT
1 AGAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAC
* * * * *
822608 TTGTTCAACCTTTTGCTCAAATCCACCACTTGATGGATCAGCTTTTCC
66 TTGTTCAACCCTTTGCTCAAATCCACCACTTAATGGATCAACCTTTAC
*** *
822656 AGTTTGAGTTCATAATGAGAAGGACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAC
1 AGAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAC
* * * *
822721 TTGTTTAACCCTTTGTTCAAATTCATCACTTAATGGATCAACCTTTAC
66 TTGTTCAACCCTTTGCTCAAATCCACCACTTAATGGATCAACCTTTAC
* * **
822769 AGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAA-G-AG-A-AAGTTCATAATAAGAAGGGC
1 AGAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAC
* *
822830 TTATTCAACCTTTTG
66 TTGTTCAACCCTTTG
822845 AATGACTCTA
Statistics
Matches: 164, Mismatches: 25, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
109 29 0.18
110 1 0.01
111 2 0.01
112 1 0.01
113 131 0.80
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.27
Consensus pattern (113 bp):
AGAGAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAAC
TTGTTCAACCCTTTGCTCAAATCCACCACTTAATGGATCAACCTTTAC
Found at i:822759 original size:262 final size:261
Alignment explanation
Indices: 822286--822826 Score: 796
Period size: 262 Copynumber: 2.1 Consensus size: 261
822276 TTTTCCAGTT
822286 AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGT
1 AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGT
* ** * * *
822351 TCAACTTTTTCTTGAATTCATCATTTGATGGATCAACTTTGCCAGAGAAAGTTCATAATGAGAAG
66 TCAACTTTTGCTCAAATCCACCACTTGATGGATCAACTTTGCCAGAGAAAGTTCATAATGAGAAG
* *
822416 AACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAATAAGAACTTGTTTAACCCTTTGCTTGAAT
131 AACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTTAACCCTTTGCTTAAAT
* * * *
822481 TCATCATTTGATGGATCAGCAGCGCCAAAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGA
196 TCATCACTTAATGGATCAACAGCGACAAAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGA
822546 G
261 G
* *
822547 AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGT
1 AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGT
* * ****
822612 TCAACCTTTTGCTCAAATCCACCACTTGATGGATCAGCTTTTCCAGTTTGAGTTCATAATGAGAA
66 TCAA-CTTTTGCTCAAATCCACCACTTGATGGATCAACTTTGCCAGAGAAAGTTCATAATGAGAA
* *
822677 GGACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTTAACCCTTTG-TTCAA
130 GAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTTAACCCTTTGCTT-AA
**** *
822741 ATTCATCACTTAATGGATCAACCTTTACAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAA
194 ATTCATCACTTAATGGATCAACAGCGACAAAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAA
822806 GAG
259 GAG
* *
822809 AAAGTTCATAATAAGAAG
1 AGAGTTCATAATGAGAAG
822827 GGCTTATTCA
Statistics
Matches: 249, Mismatches: 29, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
261 69 0.28
262 180 0.72
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.27
Consensus pattern (261 bp):
AGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGT
TCAACTTTTGCTCAAATCCACCACTTGATGGATCAACTTTGCCAGAGAAAGTTCATAATGAGAAG
AACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAACTTGTTTAACCCTTTGCTTAAAT
TCATCACTTAATGGATCAACAGCGACAAAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGA
G
Found at i:823115 original size:3 final size:3
Alignment explanation
Indices: 823068--823102 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
823058 TTTTATTTAT
823068 TTA TTA TTA TTA TTA TTA TTA TT- TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
823103 ATAAATATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:825495 original size:23 final size:23
Alignment explanation
Indices: 825441--825487 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 23
825431 AAACGTATAA
825441 AAAGACATAA-GAAAACATGTCAT
1 AAAGACA-AATGAAAACATGTCAT
825464 AAAGACAAATGAAAACATGTCAT
1 AAAGACAAATGAAAACATGTCAT
825487 A
1 A
825488 CACGCAAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 2 0.09
23 21 0.91
ACGTcount: A:0.57, C:0.13, G:0.13, T:0.17
Consensus pattern (23 bp):
AAAGACAAATGAAAACATGTCAT
Found at i:826064 original size:17 final size:17
Alignment explanation
Indices: 826021--826064 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
826011 AATGTAATCG
826021 TATTCTTTTAAATTTTTA
1 TATT-TTTTAAATTTTTA
**
826039 TATAATTTAAATTTTTA
1 TATTTTTTAAATTTTTA
826056 TATTTTTTA
1 TATTTTTTA
826065 TTAACAATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 19 0.86
18 3 0.14
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (17 bp):
TATTTTTTAAATTTTTA
Found at i:826457 original size:24 final size:24
Alignment explanation
Indices: 826430--826502 Score: 58
Period size: 24 Copynumber: 3.0 Consensus size: 24
826420 CGTTCATTTA
826430 CGTTC-GTGAACGTTCGGTTATGTT
1 CGTTCGGT-AACGTTCGGTTATGTT
* * * *
826454 CGTTTGGTTATGTTCGTTTATGTT
1 CGTTCGGTAACGTTCGGTTATGTT
* * * *
826478 CGTTCGATTATGTTCGTTTATGTT
1 CGTTCGGTAACGTTCGGTTATGTT
826502 C
1 C
826503 ATTCATTTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
24 40 0.95
25 2 0.05
ACGTcount: A:0.11, C:0.14, G:0.25, T:0.51
Consensus pattern (24 bp):
CGTTCGGTAACGTTCGGTTATGTT
Found at i:826462 original size:14 final size:14
Alignment explanation
Indices: 826440--826496 Score: 59
Period size: 14 Copynumber: 4.4 Consensus size: 14
826430 CGTTCGTGAA
*
826440 CGTTCGGTTATGTT
1 CGTTTGGTTATGTT
826454 CGTTTGGTTATGTT
1 CGTTTGGTTATGTT
826468 CG--T--TTATGTT
1 CGTTTGGTTATGTT
* *
826478 CGTTCGATTATGTT
1 CGTTTGGTTATGTT
826492 CGTTT
1 CGTTT
826497 ATGTTCATTC
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
10 9 0.25
12 1 0.03
14 26 0.72
ACGTcount: A:0.09, C:0.12, G:0.25, T:0.54
Consensus pattern (14 bp):
CGTTTGGTTATGTT
Found at i:826512 original size:24 final size:24
Alignment explanation
Indices: 826441--826515 Score: 89
Period size: 24 Copynumber: 3.1 Consensus size: 24
826431 GTTCGTGAAC
* * * *
826441 GTTCGGTTATGTTCGTTTGGTTAT
1 GTTCGTTTATGTTCATTCGATTAT
*
826465 GTTCGTTTATGTTCGTTCGATTAT
1 GTTCGTTTATGTTCATTCGATTAT
826489 GTTCGTTTATGTTCATTC-ATTTAT
1 GTTCGTTTATGTTCATTCGA-TTAT
826513 GTT
1 GTT
826516 TAACACAATC
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
23 1 0.02
24 45 0.98
ACGTcount: A:0.12, C:0.11, G:0.21, T:0.56
Consensus pattern (24 bp):
GTTCGTTTATGTTCATTCGATTAT
Found at i:827254 original size:10 final size:10
Alignment explanation
Indices: 827239--827313 Score: 61
Period size: 10 Copynumber: 7.7 Consensus size: 10
827229 GGGTCTCCAA
827239 CGTTTATGTT
1 CGTTTATGTT
827249 CGTTTATGTT
1 CGTTTATGTT
827259 CGTGTTCAT-TT
1 CGT-TT-ATGTT
* **
827270 ATGTTCGTGTT
1 -CGTTTATGTT
827281 CGTTTATGTT
1 CGTTTATGTT
827291 CG----TGTT
1 CGTTTATGTT
827297 CGTTTATGTT
1 CGTTTATGTT
827307 CGTTTAT
1 CGTTTAT
827314 TTATTAAATG
Statistics
Matches: 51, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
6 6 0.12
10 34 0.67
11 7 0.14
12 4 0.08
ACGTcount: A:0.09, C:0.12, G:0.21, T:0.57
Consensus pattern (10 bp):
CGTTTATGTT
Found at i:827270 original size:16 final size:16
Alignment explanation
Indices: 827245--827309 Score: 121
Period size: 16 Copynumber: 4.1 Consensus size: 16
827235 CCAACGTTTA
827245 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
*
827261 TGTTCATTTATGTTCG
1 TGTTCGTTTATGTTCG
827277 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
827293 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
827309 T
1 T
827310 TTATTTATTA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.08, C:0.12, G:0.23, T:0.57
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:827400 original size:16 final size:16
Alignment explanation
Indices: 827379--827411 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
827369 AAAAAAATTT
827379 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
827395 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
827411 T
1 T
827412 TTATTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.06, C:0.12, G:0.24, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:829189 original size:13 final size:12
Alignment explanation
Indices: 829170--829203 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
829160 TCCCTATAAT
829170 TAACCCTAAACC
1 TAACCCTAAACC
*
829182 TAAACCCTAACCC
1 T-AACCCTAAACC
829195 TAACCCTAA
1 TAACCCTAA
829204 CCTTACACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.41, C:0.41, G:0.00, T:0.18
Consensus pattern (12 bp):
TAACCCTAAACC
Found at i:829204 original size:6 final size:6
Alignment explanation
Indices: 829170--829205 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
829160 TCCCTATAAT
*
829170 TAACCC TAAACC TAAACCC TAACCC TAACCC TAACC
1 TAACCC TAACCC T-AACCC TAACCC TAACCC TAACC
829206 TTACACAATC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
6 22 0.81
7 5 0.19
ACGTcount: A:0.39, C:0.44, G:0.00, T:0.17
Consensus pattern (6 bp):
TAACCC
Found at i:840226 original size:21 final size:22
Alignment explanation
Indices: 840197--840243 Score: 55
Period size: 21 Copynumber: 2.2 Consensus size: 22
840187 TAGTTTACCT
840197 TTTTCATATGA-TA-ATTTATATC
1 TTTTCATAT-ATTATATTT-TATC
840219 TTTT-ATATATTATATTTTATC
1 TTTTCATATATTATATTTTATC
840240 TTTT
1 TTTT
840244 TTTAATTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
20 1 0.04
21 14 0.61
22 8 0.35
ACGTcount: A:0.28, C:0.06, G:0.02, T:0.64
Consensus pattern (22 bp):
TTTTCATATATTATATTTTATC
Found at i:840228 original size:23 final size:21
Alignment explanation
Indices: 840202--840243 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 21
840192 TACCTTTTTC
840202 ATATGATAATTTATATCTTTTAT
1 ATATGAT-ATTT-TATCTTTTAT
*
840225 ATATTATATTTTATCTTTT
1 ATATGATATTTTATCTTTT
840244 TTTAATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 8 0.44
22 4 0.22
23 6 0.33
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (21 bp):
ATATGATATTTTATCTTTTAT
Found at i:842857 original size:3 final size:3
Alignment explanation
Indices: 842849--842893 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
842839 CCTTTTAAAG
842849 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
842894 TATTATTATT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
CAT
Found at i:842898 original size:3 final size:3
Alignment explanation
Indices: 842892--842925 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
842882 CATCATCATC
842892 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
842926 CATTTTGCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:845467 original size:10 final size:10
Alignment explanation
Indices: 845452--845481 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
845442 TGGCAGCTTC
845452 AATTCAAAAT
1 AATTCAAAAT
*
845462 AATTCAAACT
1 AATTCAAAAT
845472 AATTCAAAAT
1 AATTCAAAAT
845482 CTAAAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (10 bp):
AATTCAAAAT
Found at i:845682 original size:20 final size:20
Alignment explanation
Indices: 845657--845726 Score: 140
Period size: 20 Copynumber: 3.5 Consensus size: 20
845647 GATTGAATTT
845657 ATTCAAAGTTTTCAAAAATA
1 ATTCAAAGTTTTCAAAAATA
845677 ATTCAAAGTTTTCAAAAATA
1 ATTCAAAGTTTTCAAAAATA
845697 ATTCAAAGTTTTCAAAAATA
1 ATTCAAAGTTTTCAAAAATA
845717 ATTCAAAGTT
1 ATTCAAAGTT
845727 CATTTAACTT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 50 1.00
ACGTcount: A:0.49, C:0.10, G:0.06, T:0.36
Consensus pattern (20 bp):
ATTCAAAGTTTTCAAAAATA
Found at i:845683 original size:11 final size:11
Alignment explanation
Indices: 845667--845723 Score: 50
Period size: 10 Copynumber: 5.5 Consensus size: 11
845657 ATTCAAAGTT
845667 TTCAAAAATAA
1 TTCAAAAATAA
* *
845678 TTC-AAAGT-T
1 TTCAAAAATAA
845687 TTCAAAAATAA
1 TTCAAAAATAA
* *
845698 TTC-AAAGT-T
1 TTCAAAAATAA
845707 TTCAAAAATAA
1 TTCAAAAATAA
845718 TTCAAA
1 TTCAAA
845724 GTTCATTTAA
Statistics
Matches: 34, Mismatches: 8, Indels: 8
0.68 0.16 0.16
Matches are distributed among these distances:
9 6 0.18
10 16 0.47
11 12 0.35
ACGTcount: A:0.53, C:0.11, G:0.04, T:0.33
Consensus pattern (11 bp):
TTCAAAAATAA
Found at i:849559 original size:20 final size:20
Alignment explanation
Indices: 849516--849559 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
849506 TTTGTAGAGA
* * *
849516 AAATTACTCCCAACGGCTCC
1 AAATCACTCCCAACGACTAC
*
849536 AAATCACTCCCAACGACTAG
1 AAATCACTCCCAACGACTAC
849556 AAAT
1 AAAT
849560 GACCACAAAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.39, C:0.34, G:0.09, T:0.18
Consensus pattern (20 bp):
AAATCACTCCCAACGACTAC
Found at i:850874 original size:27 final size:27
Alignment explanation
Indices: 850840--850892 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
850830 AATATGGTGT
850840 AAATCACGAGAAA-ATGA-AAAGAAAAA
1 AAATCACGAGAAACAT-ACAAAGAAAAA
850866 AAATACACGAGAAACATACAAAGAAAA
1 AAAT-CACGAGAAACATACAAAGAAAA
850893 GCCGAAAGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 4 0.17
27 10 0.42
28 10 0.42
ACGTcount: A:0.68, C:0.11, G:0.13, T:0.08
Consensus pattern (27 bp):
AAATCACGAGAAACATACAAAGAAAAA
Found at i:851559 original size:67 final size:63
Alignment explanation
Indices: 851475--851636 Score: 141
Period size: 66 Copynumber: 2.4 Consensus size: 63
851465 TACATTTTAT
* ** *
851475 TTTTATTCTTCTCTTTTTCTTTTATTTTGGTTTTTTTCATTT-TTA-TTTATTTTATTTAAATCC
1 TTTTATTTTTCT-TTTTTCTTTT-TTTTAATTTTTTT-ATTTCTGATTTTATTTTATTT--AT-C
851538 ATTA
60 ATTA
* *
851542 TTTTATTTTATCTTTTTT-TTAGTTTTTAATTTTTTTATTTCTGATTTTATTTTATTTATTATTA
1 TTTTATTTT-TCTTTTTTCTT-TTTTTTAATTTTTTTATTTCTGATTTTATTTTATTTATCATTA
*
851606 TTATTATTTATTTCTTTTTTCTTTTCTTTAA
1 TT-TTA-TT-TTTCTTTTTTCTTTTTTTTAA
851637 GTAACGTTTT
Statistics
Matches: 79, Mismatches: 8, Indels: 17
0.76 0.08 0.16
Matches are distributed among these distances:
64 6 0.08
65 9 0.11
66 31 0.39
67 30 0.38
68 3 0.04
ACGTcount: A:0.17, C:0.07, G:0.02, T:0.73
Consensus pattern (63 bp):
TTTTATTTTTCTTTTTTCTTTTTTTTAATTTTTTTATTTCTGATTTTATTTTATTTATCATTA
Found at i:851742 original size:3 final size:3
Alignment explanation
Indices: 851734--851766 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
851724 TTACCTAATA
*
851734 TAT TAT TAT TAT TAT TAT TCT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
851767 ACAAAGTCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:852152 original size:16 final size:16
Alignment explanation
Indices: 852131--852178 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
852121 TTTGATTTAC
852131 TCATCTTT-TTCTTATT
1 TCATCTTTATT-TTATT
852147 TCATCTTTATTTTATT
1 TCATCTTTATTTTATT
*
852163 TTAT-TTTATTTTATT
1 TCATCTTTATTTTATT
852178 T
1 T
852179 TATTTCGTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
15 12 0.40
16 16 0.53
17 2 0.07
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.73
Consensus pattern (16 bp):
TCATCTTTATTTTATT
Found at i:852162 original size:5 final size:5
Alignment explanation
Indices: 852142--852183 Score: 66
Period size: 5 Copynumber: 8.2 Consensus size: 5
852132 CATCTTTTTC
*
852142 TTATT TCATCT TTATT TTATT TTATT TTATT TTATT TTATT T
1 TTATT TTAT-T TTATT TTATT TTATT TTATT TTATT TTATT T
852184 CGTTTCGTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
5 30 0.88
6 4 0.12
ACGTcount: A:0.19, C:0.05, G:0.00, T:0.76
Consensus pattern (5 bp):
TTATT
Found at i:852189 original size:5 final size:5
Alignment explanation
Indices: 852181--852208 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
852171 TTTTATTTTA
852181 TTTCG TTTCG TTTCG TTTCG TTTCG TTT
1 TTTCG TTTCG TTTCG TTTCG TTTCG TTT
852209 ATTTTATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.18, G:0.18, T:0.64
Consensus pattern (5 bp):
TTTCG
Found at i:852214 original size:5 final size:5
Alignment explanation
Indices: 852206--852255 Score: 50
Period size: 5 Copynumber: 10.2 Consensus size: 5
852196 TTTCGTTTCG
* * *
852206 TTTAT TTTAT TTT-G TTTAT TTTATT TTTAT TTTAG TTT-G TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTA-T TTTAT TTTAT TTTAT TTTAT TTTAT
852255 T
1 T
852256 GTTTTGCTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
4 7 0.18
5 26 0.68
6 5 0.13
ACGTcount: A:0.16, C:0.00, G:0.06, T:0.78
Consensus pattern (5 bp):
TTTAT
Found at i:852224 original size:14 final size:14
Alignment explanation
Indices: 852205--852255 Score: 72
Period size: 14 Copynumber: 3.9 Consensus size: 14
852195 GTTTCGTTTC
852205 GTTTATTTTATTTT
1 GTTTATTTTATTTT
852219 GTTTATTTTA--TT
1 GTTTATTTTATTTT
*
852231 -TTTATTTTAGTTT
1 GTTTATTTTATTTT
852244 GTTTATTTTATT
1 GTTTATTTTATT
852256 GTTTTGCTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
11 9 0.27
12 2 0.06
13 2 0.06
14 20 0.61
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (14 bp):
GTTTATTTTATTTT
Found at i:852234 original size:25 final size:25
Alignment explanation
Indices: 852206--852255 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
852196 TTTCGTTTCG
*
852206 TTTATTTTATTTTGTTTATTTTATT
1 TTTATTTTAGTTTGTTTATTTTATT
852231 TTTATTTTAGTTTGTTTATTTTATT
1 TTTATTTTAGTTTGTTTATTTTATT
852256 GTTTTGCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.16, C:0.00, G:0.06, T:0.78
Consensus pattern (25 bp):
TTTATTTTAGTTTGTTTATTTTATT
Found at i:859091 original size:54 final size:54
Alignment explanation
Indices: 859020--859127 Score: 216
Period size: 54 Copynumber: 2.0 Consensus size: 54
859010 TTGATGAATG
859020 CGACAATGAAGAGGAGTGCAACTTACCTACCGAATTATTGAGAATGAAAGAAAT
1 CGACAATGAAGAGGAGTGCAACTTACCTACCGAATTATTGAGAATGAAAGAAAT
859074 CGACAATGAAGAGGAGTGCAACTTACCTACCGAATTATTGAGAATGAAAGAAAT
1 CGACAATGAAGAGGAGTGCAACTTACCTACCGAATTATTGAGAATGAAAGAAAT
859128 ATAAGACAAA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.43, C:0.15, G:0.22, T:0.20
Consensus pattern (54 bp):
CGACAATGAAGAGGAGTGCAACTTACCTACCGAATTATTGAGAATGAAAGAAAT
Found at i:862381 original size:62 final size:63
Alignment explanation
Indices: 862288--862409 Score: 169
Period size: 62 Copynumber: 2.0 Consensus size: 63
862278 AAAATACTTC
* *
862288 GTTTAGGATGAAAACCCAAGAGGGCATCCTAAGTTG-AAAAAGAAAAAGAA-AAAAGAAAAAAT
1 GTTTAGGATGAAAACCCAAGAGGGCACCCTAAATTGAAAAAAGAAAAA-AAGAAAAGAAAAAAT
* *
862350 GTTTAGGGTGAAAACCCGAA-AGGGCGCCCTAAATTGAAAAAAGAAAAAAAGAAAAGAAAA
1 GTTTAGGATGAAAACCC-AAGAGGGCACCCTAAATTGAAAAAAGAAAAAAAGAAAAGAAAA
862410 TAAGATGGGT
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
62 31 0.58
63 22 0.42
ACGTcount: A:0.54, C:0.11, G:0.22, T:0.13
Consensus pattern (63 bp):
GTTTAGGATGAAAACCCAAGAGGGCACCCTAAATTGAAAAAAGAAAAAAAGAAAAGAAAAAAT
Found at i:863296 original size:35 final size:35
Alignment explanation
Indices: 863250--863338 Score: 178
Period size: 35 Copynumber: 2.5 Consensus size: 35
863240 AGAAGGGATT
863250 TCAACTTCACAACGAAGGATATCCAATTCAAAAGC
1 TCAACTTCACAACGAAGGATATCCAATTCAAAAGC
863285 TCAACTTCACAACGAAGGATATCCAATTCAAAAGC
1 TCAACTTCACAACGAAGGATATCCAATTCAAAAGC
863320 TCAACTTCACAACGAAGGA
1 TCAACTTCACAACGAAGGA
863339 GGCATCCACG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 54 1.00
ACGTcount: A:0.43, C:0.26, G:0.12, T:0.19
Consensus pattern (35 bp):
TCAACTTCACAACGAAGGATATCCAATTCAAAAGC
Found at i:864590 original size:26 final size:26
Alignment explanation
Indices: 864556--864608 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 26
864546 ATATGGATGT
864556 AAATCACGAGAAA-ATAAAAAGAAAA
1 AAATCACGAGAAACATAAAAAGAAAA
*
864581 AAATACACGAGAAACATACAAAGAAAA
1 AAAT-CACGAGAAACATAAAAAGAAAA
864608 A
1 A
864609 CCGAAAGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 4 0.16
26 9 0.36
27 12 0.48
ACGTcount: A:0.70, C:0.11, G:0.11, T:0.08
Consensus pattern (26 bp):
AAATCACGAGAAACATAAAAAGAAAA
Found at i:865294 original size:17 final size:19
Alignment explanation
Indices: 865269--865306 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
865259 TTTATTTTGA
865269 TTTAGTCCTT-TTTA-TAT
1 TTTAGTCCTTATTTATTAT
*
865286 TTTATTCCTTATTTATTAT
1 TTTAGTCCTTATTTATTAT
865305 TT
1 TT
865307 ATTTATTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 9 0.50
18 4 0.22
19 5 0.28
ACGTcount: A:0.18, C:0.11, G:0.03, T:0.68
Consensus pattern (19 bp):
TTTAGTCCTTATTTATTAT
Found at i:865356 original size:25 final size:25
Alignment explanation
Indices: 865328--865387 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
865318 TAATACTACA
*
865328 TTTTATTTTTATTCTTTTCTTTTTG
1 TTTTATTTTTATTCTTTTCATTTTG
* * *
865353 TTTTGTTTCTATTTTTTTCATTTTG
1 TTTTATTTTTATTCTTTTCATTTTG
865378 TATTTATTTT
1 T-TTTATTTT
865388 ATTTAAATCC
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
25 22 0.79
26 6 0.21
ACGTcount: A:0.10, C:0.07, G:0.05, T:0.78
Consensus pattern (25 bp):
TTTTATTTTTATTCTTTTCATTTTG
Found at i:865390 original size:25 final size:24
Alignment explanation
Indices: 865328--865465 Score: 82
Period size: 26 Copynumber: 5.4 Consensus size: 24
865318 TAATACTACA
* *
865328 TTTTATTTTTATTCTTTTCTTTTTG
1 TTTTA-TTTTATTTTTTTCATTTTG
*
865353 TTTTGTTTCTATTTTTTTCATTTTG
1 TTTTATTT-TATTTTTTTCATTTTG
** * *
865378 TATTTATTTTATTTAAATCCA--TTA
1 T-TTTATTTTATTT-TTTTCATTTTG
* *
865402 TTTTATTTTATCTTTTTTTAGTTTTA
1 TTTTATTTTAT-TTTTTTCA-TTTTG
*
865428 TTTTATTTTATTTCTTTTTTATTTATG
1 TTTTATTTTA-TT-TTTTTCATTT-TG
865455 ATTTTATTTTA
1 -TTTTATTTTA
865466 ATTATTATTT
Statistics
Matches: 89, Mismatches: 13, Indels: 19
0.74 0.11 0.16
Matches are distributed among these distances:
23 12 0.13
24 8 0.09
25 24 0.27
26 26 0.29
27 9 0.10
28 10 0.11
ACGTcount: A:0.17, C:0.06, G:0.04, T:0.74
Consensus pattern (24 bp):
TTTTATTTTATTTTTTTCATTTTG
Found at i:865407 original size:5 final size:5
Alignment explanation
Indices: 865399--865475 Score: 75
Period size: 5 Copynumber: 14.2 Consensus size: 5
865389 TTTAAATCCA
*
865399 TTATT TTATT TTATCT TT-TT TTAGTT TTATT TTATT TTATT TCTTTT
1 TTATT TTATT TTAT-T TTATT TTA-TT TTATT TTATT TTATT T-TATT
865446 TTATT TATGATT TTATT TTAATT ATTATT T
1 TTATT T-T-ATT TTATT TT-ATT -TTATT T
865476 CTTTTTTTTC
Statistics
Matches: 62, Mismatches: 2, Indels: 16
0.77 0.03 0.20
Matches are distributed among these distances:
4 3 0.05
5 33 0.53
6 20 0.32
7 6 0.10
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.75
Consensus pattern (5 bp):
TTATT
Found at i:865447 original size:16 final size:15
Alignment explanation
Indices: 865399--865482 Score: 62
Period size: 16 Copynumber: 5.1 Consensus size: 15
865389 TTTAAATCCA
*
865399 TTATTTTATTTTATCT
1 TTATTTTATTTT-TTT
*
865415 TT-TTTTAGTTTTATT
1 TTATTTTA-TTTTTTT
865430 TTATTTTATTTCTTTT
1 TTATTTTATTT-TTTT
865446 TTATTTATGATTTTATTT
1 TTATTT-T-ATTTT-TTT
*
865464 TAATTATTATTTCTTTT
1 TTATT-TTATTT-TTTT
865481 TT
1 TT
865483 TTCTTTTCTT
Statistics
Matches: 55, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
15 11 0.20
16 20 0.36
17 10 0.18
18 13 0.24
19 1 0.02
ACGTcount: A:0.18, C:0.04, G:0.02, T:0.76
Consensus pattern (15 bp):
TTATTTTATTTTTTT
Found at i:865447 original size:21 final size:21
Alignment explanation
Indices: 865402--865475 Score: 71
Period size: 21 Copynumber: 3.4 Consensus size: 21
865392 AAATCCATTA
865402 TTTTATTTTATCTTT-TTTTAG
1 TTTTATTTTAT-TTTATTTTAG
*
865423 TTTTATTTTATTTTATTTCT-T
1 TTTTATTTTATTTTATTT-TAG
*
865444 TTTTATTTATGATTTTATTTTAA
1 TTTTATTT-T-ATTTTATTTTAG
865467 TTATTATTT
1 TT-TTATTT
865476 CTTTTTTTTC
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
20 3 0.07
21 22 0.49
22 3 0.07
23 11 0.24
24 6 0.13
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.76
Consensus pattern (21 bp):
TTTTATTTTATTTTATTTTAG
Found at i:865451 original size:69 final size:72
Alignment explanation
Indices: 865283--865453 Score: 176
Period size: 73 Copynumber: 2.4 Consensus size: 72
865273 GTCCTTTTTA
* *
865283 TATTTTATTCCTTATTTATTATTTATTTA-TTTATTTAATACTACATTTTATTTTTATTCTTTTC
1 TATTTTATT--TTATTTCTTTTTTATTTATTTTATTTAATACTACATTTTATTTTTATTCTTTTC
*
865347 TTTTTGTTT
64 TTTTAGTTT
* * * *
865356 TGTTTCTATTTT-TTTCATTTTGTATTTATTTTATTTAA-A-TCCATTATTTTATTTTA-TC-TT
1 TATTT-TATTTTATTTC-TTTTTTATTTATTTTATTTAATACTACATT-TTAT-TTTTATTCTTT
865416 T-TTTTAGTTT
62 TCTTTTAGTTT
865426 TATTTTATTTTATTTCTTTTTTATTTAT
1 TATTTTATTTTATTTCTTTTTTATTTAT
865454 GATTTTATTT
Statistics
Matches: 83, Mismatches: 9, Indels: 16
0.77 0.08 0.15
Matches are distributed among these distances:
69 17 0.20
70 16 0.19
71 11 0.13
72 17 0.20
73 18 0.22
74 4 0.05
ACGTcount: A:0.19, C:0.07, G:0.02, T:0.71
Consensus pattern (72 bp):
TATTTTATTTTATTTCTTTTTTATTTATTTTATTTAATACTACATTTTATTTTTATTCTTTTCTT
TTAGTTT
Found at i:865458 original size:28 final size:26
Alignment explanation
Indices: 865399--865465 Score: 91
Period size: 26 Copynumber: 2.5 Consensus size: 26
865389 TTTAAATCCA
865399 TTATTTTATTTTATCTTTTTTTAGTT
1 TTATTTTATTTTATCTTTTTTTAGTT
*
865425 TTATTTTATTTTATTTCTTTTTTA-TT
1 TTATTTTATTTTATCT-TTTTTTAGTT
865451 TATGATTTTATTTTA
1 T-T-ATTTTATTTTA
865466 ATTATTATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
26 18 0.49
27 8 0.22
28 11 0.30
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (26 bp):
TTATTTTATTTTATCTTTTTTTAGTT
Found at i:865481 original size:17 final size:17
Alignment explanation
Indices: 865435--865481 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 17
865425 TTATTTTATT
*
865435 TTATTTCTTTTTTATTTA
1 TTATTTC-TTTTTAATTA
*
865453 TGATTT-TATTTTAATTA
1 TTATTTCT-TTTTAATTA
865470 TTATTTCTTTTT
1 TTATTTCTTTTT
865482 TTTCTTTTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
16 1 0.04
17 17 0.71
18 6 0.25
ACGTcount: A:0.19, C:0.04, G:0.02, T:0.74
Consensus pattern (17 bp):
TTATTTCTTTTTAATTA
Found at i:865517 original size:2 final size:2
Alignment explanation
Indices: 865510--865536 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
865500 CGTTTTTGCT
865510 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 T
865537 GTTTTTATTA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:865609 original size:10 final size:11
Alignment explanation
Indices: 865594--865639 Score: 51
Period size: 10 Copynumber: 4.4 Consensus size: 11
865584 TTTACGTAAG
865594 ATTATATTA-T
1 ATTATATTATT
865604 ATTATATTATT
1 ATTATATTATT
* *
865615 ATTATAATAAT
1 ATTATATTATT
*
865626 AAT-TATTATT
1 ATTATATTATT
865636 ATTA
1 ATTA
865640 GTATACAAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
10 16 0.57
11 12 0.43
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (11 bp):
ATTATATTATT
Found at i:865895 original size:5 final size:5
Alignment explanation
Indices: 865885--865937 Score: 65
Period size: 5 Copynumber: 11.0 Consensus size: 5
865875 CATCTCTACA
* *
865885 TTATT TTATT TTA-T TTATT TTATT TTATT TTAGT TT-GT TTATT TTATT
1 TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTATT
*
865933 GTATT
1 TTATT
865938 GCTTTTGGAG
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
4 8 0.19
5 35 0.81
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.75
Consensus pattern (5 bp):
TTATT
Found at i:865904 original size:14 final size:14
Alignment explanation
Indices: 865885--865914 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
865875 CATCTCTACA
865885 TTATTTTATTTTAT
1 TTATTTTATTTTAT
865899 TTATTTTATTTTAT
1 TTATTTTATTTTAT
865913 TT
1 TT
865915 TAGTTTGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (14 bp):
TTATTTTATTTTAT
Found at i:865909 original size:19 final size:18
Alignment explanation
Indices: 865885--865937 Score: 70
Period size: 19 Copynumber: 2.8 Consensus size: 18
865875 CATCTCTACA
*
865885 TTATTTTATTTTATTTATT
1 TTATTTTATTTTATTT-GT
865904 TTATTTTATTTTAGTTTGT
1 TTATTTTATTTTA-TTTGT
*
865923 TTATTTTATTGTATT
1 TTATTTTATTTTATT
865938 GCTTTTGGAG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
18 2 0.06
19 26 0.84
20 3 0.10
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.75
Consensus pattern (18 bp):
TTATTTTATTTTATTTGT
Found at i:865912 original size:24 final size:24
Alignment explanation
Indices: 865885--865937 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
865875 CATCTCTACA
*
865885 TTATTTTATTTTATTTATTTTATT
1 TTATTTTAGTTTATTTATTTTATT
*
865909 TTATTTTAGTTTGTTTATTTTATT
1 TTATTTTAGTTTATTTATTTTATT
*
865933 GTATT
1 TTATT
865938 GCTTTTGGAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.75
Consensus pattern (24 bp):
TTATTTTAGTTTATTTATTTTATT
Found at i:869948 original size:24 final size:24
Alignment explanation
Indices: 869892--869948 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
869882 TTTTATTATG
869892 ACATTCTTTTTTCTACTTTGTGAC
1 ACATTCTTTTTTCTACTTTGTGAC
* *
869916 ACGTCCTTTTCTTGCT-C-TTGTGAC
1 ACATTCTTTT-TT-CTACTTTGTGAC
869940 ACATTCTTT
1 ACATTCTTT
869949 ATGGCTTTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
24 22 0.81
25 3 0.11
26 2 0.07
ACGTcount: A:0.14, C:0.25, G:0.11, T:0.51
Consensus pattern (24 bp):
ACATTCTTTTTTCTACTTTGTGAC
Found at i:870892 original size:66 final size:66
Alignment explanation
Indices: 870811--870940 Score: 260
Period size: 66 Copynumber: 2.0 Consensus size: 66
870801 CACTGTATAA
870811 GTGAATCCTAATCCAAATTAAATATAGTTATTCCTACTTTCAAATTTAAATAATTGTGAATAATG
1 GTGAATCCTAATCCAAATTAAATATAGTTATTCCTACTTTCAAATTTAAATAATTGTGAATAATG
870876 C
66 C
870877 GTGAATCCTAATCCAAATTAAATATAGTTATTCCTACTTTCAAATTTAAATAATTGTGAATAAT
1 GTGAATCCTAATCCAAATTAAATATAGTTATTCCTACTTTCAAATTTAAATAATTGTGAATAAT
870941 ACTGATAGTA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.38
Consensus pattern (66 bp):
GTGAATCCTAATCCAAATTAAATATAGTTATTCCTACTTTCAAATTTAAATAATTGTGAATAATG
C
Found at i:873644 original size:32 final size:32
Alignment explanation
Indices: 873591--873651 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
873581 ATCACCACAT
*
873591 AAATTAACATCTAACTAAGGTAGTCAAATATA
1 AAATTAACATCTAACTAAGGTAGACAAATATA
873623 AAATTCAACATAC-AACT-AGGTAGACAAAT
1 AAATT-AACAT-CTAACTAAGGTAGACAAAT
873652 TTCACCAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
32 16 0.62
33 9 0.35
34 1 0.04
ACGTcount: A:0.51, C:0.15, G:0.10, T:0.25
Consensus pattern (32 bp):
AAATTAACATCTAACTAAGGTAGACAAATATA
Found at i:887691 original size:20 final size:20
Alignment explanation
Indices: 887661--887734 Score: 112
Period size: 20 Copynumber: 3.7 Consensus size: 20
887651 GTTTGCTTCA
*
887661 AGGAATGTAAGATTACCAGT
1 AGGAATATAAGATTACCAGT
*
887681 CGGAATATAAGATTACCAGT
1 AGGAATATAAGATTACCAGT
*
887701 AGGAATGTAAGATTACCAGT
1 AGGAATATAAGATTACCAGT
*
887721 GGGAATATAAGATT
1 AGGAATATAAGATT
887735 GCTAAGGAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.41, C:0.09, G:0.24, T:0.26
Consensus pattern (20 bp):
AGGAATATAAGATTACCAGT
Found at i:900921 original size:17 final size:17
Alignment explanation
Indices: 900896--900931 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
900886 ATAAAATTAC
*
900896 GAGATATAATTATTTTA
1 GAGAGATAATTATTTTA
900913 GAGAGATAATTATTTTA
1 GAGAGATAATTATTTTA
900930 GA
1 GA
900932 AATATGTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.17, T:0.42
Consensus pattern (17 bp):
GAGAGATAATTATTTTA
Found at i:909125 original size:126 final size:126
Alignment explanation
Indices: 908900--909141 Score: 385
Period size: 126 Copynumber: 1.9 Consensus size: 126
908890 CTATAAACCT
* * * * *
908900 ATTTGCAGCTGATTGGAACATTCCCCGGTGGCAATGAGACAACAAACCAAATCTTATTTGACTCA
1 ATTTGCAGCTGATTAGAACATTCCCCAGTGACAACGACACAACAAACCAAATCTTATTTGACTCA
908965 AGGGCTTGAATCTCCTCTTTCATAGCCTAAACCCATTCTGGATGTTGAATAAGCTAACCCC
66 AGGGCTTGAATCTCCTCTTTCATAGCCTAAACCCATTCTGGATGTTGAATAAGCTAACCCC
* * * * *
909026 ATTTGTAGCTGATTAGAACCTTCCCCAGTGACAACGACACCACATACCAAGTCTTATTTGACTCA
1 ATTTGCAGCTGATTAGAACATTCCCCAGTGACAACGACACAACAAACCAAATCTTATTTGACTCA
*
909091 AGGGCTTGAATCTCCTTTTTCATAGCCTAAACCCATTCTGGATGTTGAATA
66 AGGGCTTGAATCTCCTCTTTCATAGCCTAAACCCATTCTGGATGTTGAATA
909142 GCCTCATGGT
Statistics
Matches: 105, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
126 105 1.00
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (126 bp):
ATTTGCAGCTGATTAGAACATTCCCCAGTGACAACGACACAACAAACCAAATCTTATTTGACTCA
AGGGCTTGAATCTCCTCTTTCATAGCCTAAACCCATTCTGGATGTTGAATAAGCTAACCCC
Found at i:913784 original size:12 final size:12
Alignment explanation
Indices: 913769--913820 Score: 61
Period size: 12 Copynumber: 4.4 Consensus size: 12
913759 AAATAGTAAG
913769 TAAAAAAACAAA
1 TAAAAAAACAAA
*
913781 TAAAAAAACATA
1 TAAAAAAACAAA
*
913793 TAAAAAAAGAAA
1 TAAAAAAACAAA
* *
913805 -AAGAAAATAAA
1 TAAAAAAACAAA
913816 TAAAA
1 TAAAA
913821 CAAATAAACT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
11 9 0.27
12 24 0.73
ACGTcount: A:0.81, C:0.04, G:0.04, T:0.12
Consensus pattern (12 bp):
TAAAAAAACAAA
Found at i:913796 original size:24 final size:23
Alignment explanation
Indices: 913769--913828 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
913759 AAATAGTAAG
913769 TAAAAAAACAAATAAAAAAACATA
1 TAAAAAAACAAATAAAAAAA-ATA
* *
913793 TAAAAAAA-GAA-AAAGAAAATA
1 TAAAAAAACAAATAAAAAAAATA
*
913814 -AATAAAACAAATAAA
1 TAAAAAAACAAATAAA
913829 CTAAATAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
20 6 0.20
21 5 0.17
22 9 0.30
23 2 0.07
24 8 0.27
ACGTcount: A:0.80, C:0.05, G:0.03, T:0.12
Consensus pattern (23 bp):
TAAAAAAACAAATAAAAAAAATA
Found at i:913871 original size:29 final size:27
Alignment explanation
Indices: 913830--913895 Score: 66
Period size: 27 Copynumber: 2.4 Consensus size: 27
913820 ACAAATAAAC
913830 TAAATA-ATA-ATAACAAAGTACAAATAA-
1 TAAATATATATATAACAAA-TA-AAA-AAG
* *
913857 TATATATATATATAATAAATAAAAAAG
1 TAAATATATATATAACAAATAAAAAAG
913884 TAAATATATATA
1 TAAATATATATA
913896 AATTAATAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
26 2 0.06
27 19 0.58
28 5 0.15
29 7 0.21
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (27 bp):
TAAATATATATATAACAAATAAAAAAG
Found at i:913978 original size:2 final size:2
Alignment explanation
Indices: 913971--914009 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
913961 AATAATTACA
913971 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
914010 GTAACAATAC
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:914205 original size:2 final size:2
Alignment explanation
Indices: 914165--914189 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
914155 CTTGTGTAGA
914165 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 A
914190 ATAATAAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:914425 original size:12 final size:11
Alignment explanation
Indices: 914397--914437 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
914387 TAACAAAATA
* *
914397 AATAATATAAA
1 AATAATACAAG
914408 AATAATACAAG
1 AATAATACAAG
914419 TAATAATACAAG
1 -AATAATACAAG
914431 AATAATA
1 AATAATA
914438 AAAAGAAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
11 16 0.59
12 11 0.41
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.24
Consensus pattern (11 bp):
AATAATACAAG
Found at i:914484 original size:27 final size:28
Alignment explanation
Indices: 914455--914506 Score: 83
Period size: 25 Copynumber: 2.0 Consensus size: 28
914445 AGAGAAAGTA
914455 AAAAAATATA-ATA-ATAATA-AAATAT
1 AAAAAATATACATATATAATATAAATAT
914480 AAAAAATATACATATATAATATAAATA
1 AAAAAATATACATATATAATATAAATA
914507 AGTAGAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 10 0.42
26 3 0.12
27 6 0.25
28 5 0.21
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (28 bp):
AAAAAATATACATATATAATATAAATAT
Found at i:914543 original size:12 final size:12
Alignment explanation
Indices: 914521--914565 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
914511 GAATAAAAAG
914521 AAAATATAATAGT
1 AAAA-ATAATAGT
*
914534 AAAAATAATAAT
1 AAAAATAATAGT
*
914546 AAATATAATAGT
1 AAAAATAATAGT
*
914558 AATAATAA
1 AAAAATAA
914566 AATTGCAAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
12 23 0.85
13 4 0.15
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (12 bp):
AAAAATAATAGT
Found at i:914644 original size:2 final size:2
Alignment explanation
Indices: 914577--914628 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
914567 ATTGCAAAGA
914577 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
914619 AT AT AT AT AT
1 AT AT AT AT AT
914629 GGTAATAACG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:915212 original size:37 final size:37
Alignment explanation
Indices: 915171--915274 Score: 154
Period size: 37 Copynumber: 2.8 Consensus size: 37
915161 GTGCTTGTGG
* * * *
915171 ATCCTATCTTTAGGAGTTTAAATCATAGTACAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAACTCT
* *
915208 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAACTCT
915245 ATCCTATTTTTAGGAGTTTGAATCCTAGTA
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTA
915275 GGACGAAAAG
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.40
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAACTCT
Found at i:916360 original size:106 final size:106
Alignment explanation
Indices: 916006--917792 Score: 2640
Period size: 106 Copynumber: 16.9 Consensus size: 106
915996 GCATTGTTCT
* * * ** * *
916006 GAGTCCAATATCCTCCG-TCGTGAAGTTGAAATTAGCTCTGGAACCGGGAAATTGTTTGTTGACA
1 GAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACA
* * * *
916070 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTT
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
916112 GAGTCCAATATCATTCGCTGTGAAGTTGAAATTGACTCTG-AA-T--GAA-AT-TTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
* * * * *
916171 TCAACCG-CCCTTTCGTCGTGAAGTTGAGCTTGTGTTGTCTTG
66 CCAGCGGTCCC-TTCGTCGTGAAGTTGAACTTGCGTTGTC-TG
* * * * *
916213 GGGTCTAAGATCCTTCGCTGAGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTATTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
* * *
916278 CCAGCGGCCCCTTCGTTGTGAAGTTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
916319 GAGTCCAATATCCTACGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTATTGAAAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
916384 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
916425 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
*
916490 CCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
916531 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
* * * *
916596 CCAACGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTTTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * * *
916637 GAGTCCAATATCCTACGATGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTATTTATTAAAAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
916702 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
916743 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAAATTGAGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
*
916808 CCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
916849 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
* *
916914 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
916955 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
*
917020 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
917061 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTAACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
*
917126 CCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
917167 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
* * *
917232 CCAGTGGTCCCTTCGTTGTGAAGTTGAACTTGCGTTTTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
917273 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATCGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
*
917338 CCAGCGGTCCCTTCATCGTGATA-TTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGA-AGTTGAACTTGCGTTGTCTG
* * * *
917379 GAGTCCAATATCCATCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
* *
917444 CCAGCAGTCTCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
917485 GAGCCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGAAAGTTGTTTATTGAAAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
* *
917550 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTATCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
917591 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
*
917656 CTAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * * *
917697 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCCGAAATTGGAAAATT-ATTGTTGTCAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
* **
917761 CCAGCCGTCCCTTCGTTTTGAAGTTGAACTTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTG
917793 TGGGTTCTTG
Statistics
Matches: 1532, Mismatches: 137, Indels: 25
0.90 0.08 0.01
Matches are distributed among these distances:
99 3 0.00
100 42 0.03
101 36 0.02
102 5 0.00
103 1 0.00
105 42 0.03
106 1359 0.89
107 41 0.03
108 3 0.00
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:918214 original size:18 final size:19
Alignment explanation
Indices: 918181--918217 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
918171 TGTTGAATCC
*
918181 CCAAATAATGCCCCAATAT
1 CCAAATAATACCCCAATAT
918200 CCAAA-AATACCCCAATAT
1 CCAAATAATACCCCAATAT
918218 TTGATGTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.46, C:0.32, G:0.03, T:0.19
Consensus pattern (19 bp):
CCAAATAATACCCCAATAT
Found at i:919299 original size:18 final size:18
Alignment explanation
Indices: 919271--919309 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
919261 GTCCCTTTTC
*
919271 TTTTTGATTTTTGTTCTTT
1 TTTTTGA-TTTTCTTCTTT
919290 TTTTTG-TTTTCTTCTTT
1 TTTTTGATTTTCTTCTTT
919307 TTT
1 TTT
919310 GCTTCTTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 13 0.68
19 6 0.32
ACGTcount: A:0.03, C:0.08, G:0.08, T:0.82
Consensus pattern (18 bp):
TTTTTGATTTTCTTCTTT
Found at i:919339 original size:15 final size:14
Alignment explanation
Indices: 919271--919343 Score: 60
Period size: 15 Copynumber: 5.1 Consensus size: 14
919261 GTCCCTTTTC
*
919271 TTTTTGATTTTTGT
1 TTTTTCATTTTTGT
*
919285 TCTTT--TTTTTGT
1 TTTTTCATTTTTGT
*
919297 TTTCTTCTTTTTTGCT
1 TTT-TTCATTTTTG-T
919313 TCTTTTCATTTTTGT
1 T-TTTTCATTTTTGT
*
919328 TTTTTCCCTTTTTGT
1 TTTTT-CATTTTTGT
919343 T
1 T
919344 CTGATTGAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
12 9 0.18
13 2 0.04
14 8 0.16
15 17 0.35
16 11 0.22
17 2 0.04
ACGTcount: A:0.03, C:0.12, G:0.08, T:0.77
Consensus pattern (14 bp):
TTTTTCATTTTTGT
Found at i:923709 original size:13 final size:12
Alignment explanation
Indices: 923662--923721 Score: 52
Period size: 12 Copynumber: 4.9 Consensus size: 12
923652 AAATAGTAAG
*
923662 TAAAAAAATATA
1 TAAAAAAATAAA
923674 TAAAAAAA-AGAA
1 TAAAAAAATA-AA
923686 -AAAGAAAATAAA
1 TAAA-AAAATAAA
923698 TAAAACAAATAAA
1 TAAAA-AAATAAA
* *
923711 CAAAATAATAA
1 TAAAAAAATAA
923722 TAACAAAGTA
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
11 4 0.10
12 21 0.52
13 15 0.38
ACGTcount: A:0.78, C:0.03, G:0.03, T:0.15
Consensus pattern (12 bp):
TAAAAAAATAAA
Found at i:923767 original size:23 final size:25
Alignment explanation
Indices: 923740--923787 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
923730 TACGAATAAT
923740 ATGT-ATATATA-AAATAAATAAAA
1 ATGTAATATATATAAATAAATAAAA
*
923763 ATGTAAATATATATAAATTAATAAA
1 ATGT-AATATATATAAATAAATAAA
923788 TTAAATGACG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 4 0.19
25 7 0.33
26 10 0.48
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (25 bp):
ATGTAATATATATAAATAAATAAAA
Found at i:924273 original size:12 final size:11
Alignment explanation
Indices: 924245--924285 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
924235 TAACAAAATA
* *
924245 AATAATATAAA
1 AATAATACAAG
924256 AATAATACAAG
1 AATAATACAAG
924267 TAATAATACAAG
1 -AATAATACAAG
924279 AATAATA
1 AATAATA
924286 AAAAGAAAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
11 16 0.59
12 11 0.41
ACGTcount: A:0.66, C:0.05, G:0.05, T:0.24
Consensus pattern (11 bp):
AATAATACAAG
Found at i:924375 original size:12 final size:12
Alignment explanation
Indices: 924353--924397 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
924343 GAATAAAAGG
924353 AAAATATAATAGT
1 AAAA-ATAATAGT
*
924366 AAAAATAATAAT
1 AAAAATAATAGT
*
924378 AAATATAATAGT
1 AAAAATAATAGT
*
924390 AATAATAA
1 AAAAATAA
924398 AAATGCAAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
12 23 0.85
13 4 0.15
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (12 bp):
AAAAATAATAGT
Found at i:925011 original size:37 final size:37
Alignment explanation
Indices: 924970--925074 Score: 156
Period size: 37 Copynumber: 2.8 Consensus size: 37
924960 GTGCTTGTGG
* * *
924970 ATCCTATCTTTAGGAGTTTAAATCATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
* * *
925007 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
925044 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
925075 GATGAAAAGG
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
Found at i:929128 original size:31 final size:31
Alignment explanation
Indices: 929093--929157 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
929083 AAACTATTTC
929093 AACATCTTTACAAAATTATATCTTAAAAAGA
1 AACATCTTTACAAAATTATATCTTAAAAAGA
929124 AACATCTTTACAAAATTATATCTTAAAAAGA
1 AACATCTTTACAAAATTATATCTTAAAAAGA
929155 AAC
1 AAC
929158 GTCAAAATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.52, C:0.14, G:0.03, T:0.31
Consensus pattern (31 bp):
AACATCTTTACAAAATTATATCTTAAAAAGA
Found at i:938294 original size:35 final size:34
Alignment explanation
Indices: 938209--938295 Score: 88
Period size: 35 Copynumber: 2.5 Consensus size: 34
938199 ATTTGGTATT
*
938209 TAAATACAACAAACTTACAATAAGAATTAAACGG
1 TAAATACAACAAAATTACAATAAGAATTAAACGG
* * *
938243 TAAATGATAACCAAATTACAATAAATGATATTAAATGG
1 TAAAT-ACAACAAAATTACAAT-AA-GA-ATTAAACGG
938281 T-AATA-AACAAAATTA
1 TAAATACAACAAAATTA
938296 ACTGAAATAA
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
34 5 0.11
35 22 0.50
36 3 0.07
37 5 0.11
38 9 0.20
ACGTcount: A:0.56, C:0.10, G:0.08, T:0.25
Consensus pattern (34 bp):
TAAATACAACAAAATTACAATAAGAATTAAACGG
Found at i:940522 original size:111 final size:111
Alignment explanation
Indices: 940390--940611 Score: 399
Period size: 111 Copynumber: 2.0 Consensus size: 111
940380 ATTACAAAAA
* *
940390 TTAATTTTTAATTTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATATTTTAAATTA
1 TTAATTCTTAATTTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
*
940455 AATTAAAACATTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
66 AATTAAAACATTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
940501 TTAATTCTTAATTTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATTTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
* *
940566 AATTAAAACGTTAAAATGTTACCGTATTAGCAAAGTGTAGAGATAT
66 AATTAAAACATTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
940612 ATGATTTTCA
Statistics
Matches: 106, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
111 106 1.00
ACGTcount: A:0.45, C:0.09, G:0.08, T:0.38
Consensus pattern (111 bp):
TTAATTCTTAATTTAATAATCATGCATTAAATAAATCAACTAATTATTACTAATAATTTAAATTA
AATTAAAACATTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
Found at i:940693 original size:17 final size:18
Alignment explanation
Indices: 940673--940713 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
940663 GAATTATATT
940673 AGTAAAATAT-TAAATAA
1 AGTAAAATATGTAAATAA
940690 AGTAAAATATGTAAATAA
1 AGTAAAATATGTAAATAA
*
940708 ATTAAA
1 AGTAAA
940714 TACATAATAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 10 0.45
18 12 0.55
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.29
Consensus pattern (18 bp):
AGTAAAATATGTAAATAA
Found at i:946014 original size:13 final size:13
Alignment explanation
Indices: 945998--946023 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
945988 TTTAATTACG
945998 AAAATTAAAAATT
1 AAAATTAAAAATT
946011 AAAATTAAAAATT
1 AAAATTAAAAATT
946024 CGATTCGAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AAAATTAAAAATT
Found at i:946382 original size:16 final size:15
Alignment explanation
Indices: 946363--946404 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 15
946353 CCAAGAGACC
946363 AAAAA-TAAATAAATA
1 AAAAATTAAATAAA-A
946378 AAAAATTAAATAAAA
1 AAAAATTAAATAAAA
946393 AATAAATTAAAT
1 AA-AAATTAAAT
946405 TAAACTAGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.32
16 17 0.68
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
AAAAATTAAATAAAA
Found at i:946403 original size:12 final size:11
Alignment explanation
Indices: 946369--946399 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
946359 GACCAAAAAT
946369 AAATAAATAAA
1 AAATAAATAAA
946380 AAATTAAATAAA
1 AAA-TAAATAAA
946392 AAATAAAT
1 AAATAAAT
946400 TAAATTAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (11 bp):
AAATAAATAAA
Found at i:947732 original size:84 final size:84
Alignment explanation
Indices: 947383--948457 Score: 1010
Period size: 84 Copynumber: 13.0 Consensus size: 84
947373 GCTATGTTGT
* *** *
947383 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTATTTTGG-ACACATATAACCCTT
1 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGT-CTTTGGTTGGCAGATAACCCTT
* * *
947447 CTAGCCTTGAGTTATGCTGT
65 CTAGACTTAAGTTATGCTGC
* * * * * * *
947467 AAATGATATGCCGTCGAAGCTGAGTGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTT
1 AAATGATGTGCC-TTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTT
*
947532 CTAGACTTAAGTTGTGCTGC
65 CTAGACTTAAGTTATGCTGC
* * *
947552 AAATGATATGCCTTGTAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG-T---AGATAGCCCTTC
1 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTC
* *
947613 TCGACTTAAGCTATGCTGC
66 TAGACTTAAGTTATGCTGC
*
947632 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTTGAAGGGTCTTTGGTTGGCAGATAACCCTT
1 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAA-GGTCTTTGGTTGGCAGATAACCCTT
*
947697 CTCGACTT-AGTTATGCTGC
65 CTAGACTTAAGTTATGCTGC
* * * * * *
947716 AAATGATATGCCTTGGAGCTGAGCGTTGTCGAACTCGAAGGTCTTTTAG-TGACAAATAACCTTT
1 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTTGGCAGATAACCCTT
* * * *
947780 CTAGCCTTGAGTTATACTGT
65 CTAGACTTAAGTTATGCTGC
* * * * * * ** **
947800 AAATGATGTTCCCTCGAAGCTGAGTGTAATAGAACTCGGGGGGTC--T--TTGGCAGATAGGCCT
1 AAATGATG-TGCCTTGGAGCTGAGCGTAGTCGAACTC-GAAGGTCTTTGGTTGGCAGATAACCCT
* * *
947861 TCTTGACTTAAGCTATTCTGC
64 TCTAGACTTAAGTTATGCTGC
* * **
947882 AAATGATGTGCCTTGGAGTTGAGCGTATTCGAACTCGAATATCTTTGGTTGGCAGATAACCCTTC
1 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTC
947947 TAGACTTAAGTTATGCTGC
66 TAGACTTAAGTTATGCTGC
* * * * * * *
947966 AAATTATATGTCTTGGAGCTGAGCTTAGTCAAACTCGAAGGTTTTTTGG-TGACAGATAACCCTT
1 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGG-TCTTTGGTTGGCAGATAACCCTT
* * * *
948030 CTAGCCTTGAGTTATGTTGT
65 CTAGACTTAAGTTATGCTGC
*** * * * *
948050 AAATGATGTGCCCTCAAAGCTGAGTGTAATCGAACTCG-GGGTC--T--TTGGCAGATAGCCCTT
1 AAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTT
* * *
948110 CTCGACTTAAGCTATGATGC
65 CTAGACTTAAGTTATGCTGC
* * * * *
948130 AAATGATGTTCCTTGAAGCTAAGCATAGTCGAACTCGAAGGTCTTTGGTTGGAAGATAACCCTTC
1 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTC
948195 TCA-ACTTAAGTTATGCTGC
66 T-AGACTTAAGTTATGCTGC
* * *
948214 AAATGATATGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTCTTTTGG-TGACAGATAACCCTT
1 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTC-TTTGGTTGGCAGATAACCCTT
* * * *
948278 TTAGCCTTGAGTTATGCTGT
65 CTAGACTTAAGTTATGCTGC
* * * * ** **
948298 AAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTC--T--TTGGCAGATAGGCCTT
1 AAATGATGTG-CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTT
* *
948359 CTCGACTTAAGCTATGCTGC
65 CTAGACTTAAGTTATGCTGC
* *
948379 AAATGATGTGCCCTGGAGCTGAGCATAGTCGAACTCGAAGGTCTTT-GTTGGCAGATAACCCTTC
1 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTC
* *
948443 TAGCCTTGAGTTATG
66 TAGACTTAAGTTATG
948458 TTGCGGATAG
Statistics
Matches: 789, Mismatches: 170, Indels: 65
0.77 0.17 0.06
Matches are distributed among these distances:
79 21 0.03
80 130 0.16
81 67 0.08
82 37 0.05
83 52 0.07
84 318 0.40
85 159 0.20
86 5 0.01
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (84 bp):
AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTC
TAGACTTAAGTTATGCTGC
Done.