Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_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: 20687664
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 91
Found at i:5519 original size:227 final size:226
Alignment explanation
Indices: 5120--5631 Score: 864
Period size: 227 Copynumber: 2.3 Consensus size: 226
5110 TTATTAGTTC
*
5120 AAAGAAAAAAAGGCAAAAAGAGGTTGAGAACAAGATCATTGTAGATTGGAAAAGAATATTGATAA
1 AAAGAAAAAAAGGCAAAAAGAGGTTGAGAACAAGATCATTGTAGATTGGAAAAGAATACTGATAA
*
5185 AGAACAATAAAATGACAAGCAATAAATTCAAGAAACTCTAAATAATTTGACAATGAATGTTCAAA
66 AGAACAATAAAATGACAAGCAATAAATTCAAGAAACTCTAAATAATTTGACAATAAATGTTCAAA
* * **
5250 CACTCATACAGACGTCATGCTCAAACTTGAGACCTTTAAAGATAACAAACATCACTTAACCATTT
131 CAATCATACAAACGTCATGCTCAAACCCGAGACCTTTAAAGATAACAAACATCACTTAACCATTT
*
5315 ATTAGTTTTAAGCCTTAAATAATGAATTCGT
196 ATTAGTTGTAAGCCTTAAATAATGAATTCGT
5346 AAAGAAAAAAAAGGCAAAAAGAGGTTGAGAACAAGATCATTGTAGATTGGAAAAGAATACTGAAT
1 AAAG-AAAAAAAGGCAAAAAGAGGTTGAGAACAAGATCATTGTAGATTGGAAAAGAATACTG-AT
* * *
5411 AAAGAACAATCAAATGACAAGCAATAAATTCGAGAAACTCTCAATAA-TTGACAATAAATGTTCA
64 AAAGAACAATAAAATGACAAGCAATAAATTCAAGAAACTCTAAATAATTTGACAATAAATGTTCA
* * *
5475 AACAATCCTTCAAACGTCATGCTCAAACCCGAGACCTTTAAAGATAACAAATATCACTTAACCAT
129 AACAATCATACAAACGTCATGCTCAAACCCGAGACCTTTAAAGATAACAAACATCACTTAACCAT
5540 TTATTAGTTGTAAGCCTTAAATAATGAATTCGT
194 TTATTAGTTGTAAGCCTTAAATAATGAATTCGT
* *
5573 AAGGAAAAAATGGCAAAAAGAGGTTGAGAACAAGATCATTGTAGATTGGAAAAGAATAC
1 AAAGAAAAAAAGGCAAAAAGAGGTTGAGAACAAGATCATTGTAGATTGGAAAAGAATAC
5632 CATATAACTG
Statistics
Matches: 269, Mismatches: 15, Indels: 4
0.93 0.05 0.01
Matches are distributed among these distances:
226 58 0.22
227 165 0.61
228 46 0.17
ACGTcount: A:0.47, C:0.14, G:0.15, T:0.24
Consensus pattern (226 bp):
AAAGAAAAAAAGGCAAAAAGAGGTTGAGAACAAGATCATTGTAGATTGGAAAAGAATACTGATAA
AGAACAATAAAATGACAAGCAATAAATTCAAGAAACTCTAAATAATTTGACAATAAATGTTCAAA
CAATCATACAAACGTCATGCTCAAACCCGAGACCTTTAAAGATAACAAACATCACTTAACCATTT
ATTAGTTGTAAGCCTTAAATAATGAATTCGT
Found at i:7250 original size:27 final size:27
Alignment explanation
Indices: 7220--7271 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
7210 CTTCATGTCA
*
7220 AGTGGTGAGCATATAATTCTCGAATCC
1 AGTGGAGAGCATATAATTCTCGAATCC
* * *
7247 AGTGGAGTGTATATGATTCTCGAAT
1 AGTGGAGAGCATATAATTCTCGAAT
7272 TAGGCCGTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.29, C:0.13, G:0.25, T:0.33
Consensus pattern (27 bp):
AGTGGAGAGCATATAATTCTCGAATCC
Found at i:9155 original size:111 final size:111
Alignment explanation
Indices: 8955--9320 Score: 522
Period size: 111 Copynumber: 3.3 Consensus size: 111
8945 TTCAAAAAAT
** * * * *
8955 TATCGATCATTTTTATAAAAAATATCTATACTTTCAACATATTAGGTAAATGTTACTGGTTTTGT
1 TATCGATCATTTTTAT-AAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACTGTTTTTGT
*
9020 CATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTATAAAG
65 CATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGTAAAG
*
9067 TATCTATCATTTTTATAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACTGTTTTTGTC
1 TATCGATCATTTTTATAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACTGTTTTTGTC
*
9132 ATAATGAAACTGGTTTTGTCATATTTTTACTTGTTATATTGTAAAG
66 ATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGTAAAG
* * * * * *
9178 TATCTATCCTTTTTATAAAAGGATCAATACTTTCAATATATCAGGTAAATTTTACCGTTTTTGTT
1 TATCGATCATTTTTATAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACTGTTTTTGTC
* *
9243 ATAATG-AACTAGTTTTGTCATATTTTTACCTG-TATATTGTAAAAA
66 ATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGT-AAAG
*
9288 TATCGATACATTTTTAT-AAAGTATCGATACTTT
1 TATCGAT-CATTTTTATAAAAGGATCGATACTTT
9321 ATAGGCACTA
Statistics
Matches: 231, Mismatches: 21, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
109 8 0.03
110 47 0.20
111 161 0.70
112 15 0.06
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.45
Consensus pattern (111 bp):
TATCGATCATTTTTATAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACTGTTTTTGTC
ATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTGTAAAG
Found at i:10079 original size:109 final size:111
Alignment explanation
Indices: 9789--10231 Score: 641
Period size: 111 Copynumber: 4.0 Consensus size: 111
9779 ATATATATAT
* *
9789 TTTCAACATATCAGGTAAATTTTACCGATTTTGTCATAATCAAACTGGTTTTGTCATATTTTTAC
1 TTTCAACATATCAAGTAAATTTTACCGATTTTGTCATAATGAAACTGGTTTTGTCATATTTTTAC
*
9854 CTGTTATATTGTAAAATATCTATTC-TTTTTATAAAAAGATCGATAC
66 CTGTTATATTGTAAAATATCTA-TCATTTTTATAAAAGGATCGATAC
* *
9900 TTTCAACATATCAGGTAAATTTTACCGTTTTTGTCATAATGAAACTGGTTTTGTCATATTTTTAC
1 TTTCAACATATCAAGTAAATTTTACCGATTTTGTCATAATGAAACTGGTTTTGTCATATTTTTAC
*
9965 C--TTATATTGTAAAGTATCTATCATTTTTATAAAAGGATCGATAC
66 CTGTTATATTGTAAAATATCTATCATTTTTATAAAAGGATCGATAC
* *
10009 TTTC-ATATATCAAGTAAATTTTACCGTTTTTGTCATAATGAAACTGGTTTTGTCATA-TTTTAC
1 TTTCAACATATCAAGTAAATTTTACCGATTTTGTCATAATGAAACTGGTTTTGTCATATTTTTAC
* * *
10072 CTGTTATATTGTAAAGTATCTATCCTTTTTATAAAATGATCGATAC
66 CTGTTATATTGTAAAATATCTATCATTTTTATAAAAGGATCGATAC
* * *
10118 TTTCAACATATCAAGTAAATTTTACCGATTTTATCATAATAAAATTGGTGTTT-TCATATTTTTA
1 TTTCAACATATCAAGTAAATTTTACCGATTTTGTCATAATGAAACTGGT-TTTGTCATATTTTTA
* * *
10182 CCTGTTATATTGTAAAACATCGATAT-AGTTTTAT-AAAGTATCGATAC
65 CCTGTTATATTGTAAAATATC--TATCATTTTTATAAAAGGATCGATAC
10229 TTT
1 TTT
10232 ATAGGCGCTA
Statistics
Matches: 305, Mismatches: 19, Indels: 16
0.90 0.06 0.05
Matches are distributed among these distances:
107 7 0.02
108 53 0.17
109 87 0.29
110 44 0.14
111 105 0.34
112 6 0.02
113 3 0.01
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.45
Consensus pattern (111 bp):
TTTCAACATATCAAGTAAATTTTACCGATTTTGTCATAATGAAACTGGTTTTGTCATATTTTTAC
CTGTTATATTGTAAAATATCTATCATTTTTATAAAAGGATCGATAC
Found at i:10182 original size:218 final size:219
Alignment explanation
Indices: 9796--10231 Score: 664
Period size: 218 Copynumber: 2.0 Consensus size: 219
9786 TATTTTCAAC
*
9796 ATATCAGGTAAATTTTACCGATTTTGTCATAATCAAACTGGTTTTGTCATATTTTTACCTGTTAT
1 ATATCAAGTAAATTTTACCGATTTTGTCATAATCAAACTGGTTTTGTCATATTTTTACCTGTTAT
* *
9861 ATTGTAAAATATCTATTCTTTTTATAAAAAGATCGATACTTTCAACATATCAGGTAAATTTTACC
66 ATTGTAAAATATCTATCCTTTTTATAAAAAGATCGATACTTTCAACATATCAAGTAAATTTTACC
* * * ** *
9926 GTTTTTGTCATAATGAAACTGGTTTTGTCATATTTTTACC-TTATATTGTAAAGTATC-TATCAT
131 GATTTTATCATAATAAAACTGGTTTTGTCATATTTTTACCGTTATATTGTAAAACATCATAT-AG
9989 TTTTATAAAAGGATCGATACTTTCAT
195 TTTTAT-AAAGGATCGATACTTTCAT
* *
10015 ATATCAAGTAAATTTTACCGTTTTTGTCATAATGAAACTGGTTTTGTCATA-TTTTACCTGTTAT
1 ATATCAAGTAAATTTTACCGATTTTGTCATAATCAAACTGGTTTTGTCATATTTTTACCTGTTAT
* *
10079 ATTGTAAAGTATCTATCCTTTTTATAAAATGATCGATACTTTCAACATATCAAGTAAATTTTACC
66 ATTGTAAAATATCTATCCTTTTTATAAAAAGATCGATACTTTCAACATATCAAGTAAATTTTACC
*
10144 GATTTTATCATAATAAAATTGGTGTTT-TCATATTTTTACCTGTTATATTGTAAAACATCGATAT
131 GATTTTATCATAATAAAACTGGT-TTTGTCATATTTTTACC-GTTATATTGTAAAACATC-ATAT
*
10208 AGTTTTATAAAGTATCGATACTTT
193 AGTTTTATAAAGGATCGATACTTT
10232 ATAGGCGCTA
Statistics
Matches: 197, Mismatches: 15, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
218 106 0.54
219 51 0.26
220 30 0.15
221 7 0.04
222 3 0.02
ACGTcount: A:0.32, C:0.12, G:0.11, T:0.45
Consensus pattern (219 bp):
ATATCAAGTAAATTTTACCGATTTTGTCATAATCAAACTGGTTTTGTCATATTTTTACCTGTTAT
ATTGTAAAATATCTATCCTTTTTATAAAAAGATCGATACTTTCAACATATCAAGTAAATTTTACC
GATTTTATCATAATAAAACTGGTTTTGTCATATTTTTACCGTTATATTGTAAAACATCATATAGT
TTTATAAAGGATCGATACTTTCAT
Found at i:10980 original size:908 final size:911
Alignment explanation
Indices: 8950--11246 Score: 3654
Period size: 908 Copynumber: 2.5 Consensus size: 911
8940 TAACTTTCAA
* * * * * * *
8950 AAAATTATCGATCATTTTTATAAAAAATATCTATACTTTCAACATATTAGGTAAATGTTACTGGT
1 AAAA-TATCTATCTTTTTTAT-AAAAAGATCGATACTTTCAACATATCAGGTAAATTTTACTGTT
9015 TTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTGTTATATTATAAAGTATCTATCATTTT
64 TTTGTCATAATGAAACTGGTTTTGTCATATTTTTACCT-TTATATTATAAAGTATCTATCATTTT
*
9080 TATAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACTGTTTTTGTCATAATGAAACTGG
128 TATAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGTTTTTGTCATAATGAAACTGG
* *
9145 TTTTGTCATATTTTTACTTGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGGATCAATACTT
193 TTTTGTCATATTTTTACCTGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGGATCGATACTT
* * * * * * *
9210 TCAATATATCAGGTAAATTTTACCGTTTTTGTTATAATGAACTAGTTTTGTCATATTTTTACCTG
258 TCAACATATCAAGTAAATTTTACCGTTTTTATCATAAT-AAATTGTTTTATCATATTTTTACCTG
*
9275 -TATATTGTAAAAATATCGATACATTTTTATAAAGTATCGATACTTTATAGGCACTATTACT-TC
322 TTATATTGT-AAAATATCGATACATTTTTATAAAGTATCGATACTTTATAGGCGCTATTACTGT-
* *
9338 TTTTCTTTTAAATTCCAAAAGTTGCAATACTTATTTAAATGGAATCGATACTTTCAACATATTCG
385 TTTTCTTTTAAATTCCAAAAGTTTCGATACTTATTTAAATGGAATCGATACTTTCAACATATTCG
* *
9403 GTAGGTAGTTTAATGTAATAGGTAGGTATTTGACTGTAAAAAATATTAATTTAAGATTATCTTTT
450 GTAGGTAGTTTAATGTAATAGGTAGGTATTTCACTGTAAAAAACATTAATTTAAGATTATCTTTT
* ** * *
9468 GAGTGAGTTTTAAGATATTAATTTAGTAATTATATGCGTCTAGTGATTTATTTTTTATGTTACGG
515 GAGTGAGATTTAAGATATTAATTTAGTAATTATACACGTCTAATGATTTA-TTTTTATGTTACGA
9533 TATATATTATTATTAAATTAAAAACAATAAACATAGATATTACATATTTATTATTATCATTGGTT
579 TATATATTATTATTAAATTAAAAACAATAAACATAGATATTACATATTTATTATTATCATTGGTT
9598 AAAATTATTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAATGTTT
644 AAAATTATTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAATGTTT
* * * *
9663 GTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAATACTATTAAAAACTTTTG
709 ATGTAAATGAAATTATTAAATTAATATTGTAGGTAGAAAACATGAAACACTATTAAAAAATTTTG
* ** *
9728 AAACATAAATTATATAACTTTCAAAAAAGTATAAATCCTTTTTATAAAAATATATATATATTTTC
774 AAACATAAATTACATAACTTTCAAAAAAGTATAAATAATTTTTATAAAAATATATATATACTTTC
*
9793 AACATATCAGGTAAATTTTACCGATTTTGTCATAATCAAACTGGTTTTGTCATATTTTTACCTGT
839 AACATATCAGGTAAATGTTACCGATTTTGTCATAATCAAACTGGTTTTGTCATATTTTTACCTGT
9858 TATATTGT
904 TATATTGT
*
9866 AAAATATCTAT-TCTTTTTATAAAAAGATCGATACTTTCAACATATCAGGTAAATTTTACCGTTT
1 AAAATATCTATCT-TTTTTATAAAAAGATCGATACTTTCAACATATCAGGTAAATTTTACTGTTT
*
9930 TTGTCATAATGAAACTGGTTTTGTCATATTTTTACC-TTATATTGTAAAGTATCTATCATTTTTA
65 TTGTCATAATGAAACTGGTTTTGTCATATTTTTACCTTTATATTATAAAGTATCTATCATTTTTA
* *
9994 TAAAAGGATCGATACTTTC-ATATATCAAGTAAATTTTACCGTTTTTGTCATAATGAAACTGGTT
130 TAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGTTTTTGTCATAATGAAACTGGTT
*
10058 TTGTCATA-TTTTACCTGTTATATTGTAAAGTATCTATCCTTTTTATAAAATGATCGATACTTTC
195 TTGTCATATTTTTACCTGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGGATCGATACTTTC
*
10122 AACATATCAAGTAAATTTTACCGATTTTATCATAATAAAATTGGTGTTT-TCATATTTTTACCTG
260 AACATATCAAGTAAATTTTACCGTTTTTATCATAAT-AAATT-GT-TTTATCATATTTTTACCTG
* * *
10186 TTATATTGTAAAACATCGATATAGTTTTATAAAGTATCGATACTTTATAGGCGCTATTACTGTTT
322 TTATATTGTAAAATATCGATACATTTTTATAAAGTATCGATACTTTATAGGCGCTATTACTGTTT
10251 TTCTTTTAAATTCCAAAAGTTTCGATACTTATTTAAATGGAATCGATACTTTCAACATATTCGGT
387 TTCTTTTAAATTCCAAAAGTTTCGATACTTATTTAAATGGAATCGATACTTTCAACATATTCGGT
* * *
10316 AGGTAGTTTAATGTAATAAGTAGGTA-TTCACTGTGAAAAACATTAATTTAAGGTTATCTTTTGA
452 AGGTAGTTTAATGTAATAGGTAGGTATTTCACTGTAAAAAACATTAATTTAAGATTATCTTTTGA
10380 GTGAGATTTAAGATATTAATTTAGTAATTATACACGTCTAATGATTTA-TTTTATGTTACGATAT
517 GTGAGATTTAAGATATTAATTTAGTAATTATACACGTCTAATGATTTATTTTTATGTTACGATAT
* *
10444 ATATTATTATTAAATTAAAAATAATAAACATAGATATTACATATTTATTATTATCTTTGGTTAAA
582 ATATTATTATTAAATTAAAAACAATAAACATAGATATTACATATTTATTATTATCATTGGTTAAA
* * *
10509 ATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTATG
647 ATTATTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAATGTTTATG
10574 TAAATGAAATTATTAAATTAATATTGTAGGTAGAAAACATGAAACACTATTAAAAAATTTTGAAA
712 TAAATGAAATTATTAAATTAATATTGTAGGTAGAAAACATGAAACACTATTAAAAAATTTTGAAA
** * *
10639 CATAAATTACATAACTTTCAAAAAAGTATCGATAATTTTTAT-AAAA-GTATCTATACTTTCAAC
777 CATAAATTACATAACTTTCAAAAAAGTATAAATAATTTTTATAAAAATATATATATACTTTCAAC
* * * *
10702 ATATTAGGTAAATGTTATCGGTTTTGTCATAATGAAACTGGTTTTGTCATA-TTTTACCTGTTAT
842 ATATCAGGTAAATGTTACCGATTTTGTCATAATCAAACTGGTTTTGTCATATTTTTACCTGTTAT
10766 ATTGT
907 ATTGT
* * * *
10771 AAAGTATCTATCTTTTTTATAAAAGGATCGATACTCTCTACATATCAGGTAAATTTTACTGTTTT
1 AAAATATCTATCTTTTTTATAAAAAGATCGATACTTTCAACATATCAGGTAAATTTTACTGTTTT
*
10836 TGTCATAATGAAACTGTTTTTGTCATATTTTTACCTTTTATATTATAAAGTATCTATC-TTTTTA
66 TGTCATAATGAAACTGGTTTTGTCATATTTTTACC-TTTATATTATAAAGTATCTATCATTTTTA
*
10900 TAAAATGATCGATACTTTCAACATATCAGGTAAATTTTACCGTTTTTGTCATAATGAAACTGGTT
130 TAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGTTTTTGTCATAATGAAACTGGTT
* *
10965 TTGTCATATTTTTACCTGTTACATTGTAAAGTATTTATCCTTTTTATAAAAGGATCGATACTTTC
195 TTGTCATATTTTTACCTGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGGATCGATACTTTC
*
11030 AACATATCAAGTAAATTTTACCGGTTTTTTTCATAATGAAATTGTTTTTATCATATTTTTACCTG
260 AACATATCAAGTAAATTTTACC-GTTTTTATCATAAT-AAATTG-TTTTATCATATTTTTACCTG
* *
11095 TTATATTGTAAAATATCGATAGATTTTTATAAAGTATCGATACTTTATAGGCGCTATTACTG-CT
322 TTATATTGTAAAATATCGATACATTTTTATAAAGTATCGATACTTTATAGGCGCTATTACTGTTT
* *
11159 TTCTTTTAAATTCCAAAAGTGTCGATACTTATTTAAATGAAATCGATACTTTCAACATACCTT--
387 TTCTTTTAAATTCCAAAAGTTTCGATACTTATTTAAATGGAATCGATACTTTCAACATA--TTCG
*
11222 GTAGGTAGTTTAATATAATAGGTAG
450 GTAGGTAGTTTAATGTAATAGGTAG
11247 CACCTATTTT
Statistics
Matches: 1281, Mismatches: 85, Indels: 38
0.91 0.06 0.03
Matches are distributed among these distances:
905 110 0.09
906 85 0.07
907 75 0.06
908 398 0.31
909 92 0.07
910 167 0.13
911 205 0.16
912 58 0.05
914 74 0.06
915 13 0.01
916 4 0.00
ACGTcount: A:0.36, C:0.10, G:0.11, T:0.43
Consensus pattern (911 bp):
AAAATATCTATCTTTTTTATAAAAAGATCGATACTTTCAACATATCAGGTAAATTTTACTGTTTT
TGTCATAATGAAACTGGTTTTGTCATATTTTTACCTTTATATTATAAAGTATCTATCATTTTTAT
AAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGTTTTTGTCATAATGAAACTGGTTT
TGTCATATTTTTACCTGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGGATCGATACTTTCA
ACATATCAAGTAAATTTTACCGTTTTTATCATAATAAATTGTTTTATCATATTTTTACCTGTTAT
ATTGTAAAATATCGATACATTTTTATAAAGTATCGATACTTTATAGGCGCTATTACTGTTTTTCT
TTTAAATTCCAAAAGTTTCGATACTTATTTAAATGGAATCGATACTTTCAACATATTCGGTAGGT
AGTTTAATGTAATAGGTAGGTATTTCACTGTAAAAAACATTAATTTAAGATTATCTTTTGAGTGA
GATTTAAGATATTAATTTAGTAATTATACACGTCTAATGATTTATTTTTATGTTACGATATATAT
TATTATTAAATTAAAAACAATAAACATAGATATTACATATTTATTATTATCATTGGTTAAAATTA
TTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAATGTTTATGTAAA
TGAAATTATTAAATTAATATTGTAGGTAGAAAACATGAAACACTATTAAAAAATTTTGAAACATA
AATTACATAACTTTCAAAAAAGTATAAATAATTTTTATAAAAATATATATATACTTTCAACATAT
CAGGTAAATGTTACCGATTTTGTCATAATCAAACTGGTTTTGTCATATTTTTACCTGTTATATTG
T
Found at i:11045 original size:111 final size:111
Alignment explanation
Indices: 10674--11140 Score: 661
Period size: 110 Copynumber: 4.2 Consensus size: 111
10664 GTATCGATAA
* * * * * *
10674 TTTTTATAAAAGTATCTATACTTTCAACATATTAGGTAAATGTTATCGGTTTTGTCATAATGAAA
1 TTTTTATAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGTTTTTGTCATAATGAAA
*
10739 CTGGTTTTGTCATA-TTTTACCTGTTATATTGTAAAGTATCTATCT
66 CTGGTTTTGTCATATTTTTACCTGTTATATTGTAAAGTATCTATCC
* * *
10784 TTTTTATAAAAGGATCGATACTCTCTACATATCAGGTAAATTTTACTGTTTTTGTCATAATGAAA
1 TTTTTATAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGTTTTTGTCATAATGAAA
* * *
10849 CTGTTTTTGTCATATTTTTACCTTTTATATTATAAAGTATCTAT-C
66 CTGGTTTTGTCATATTTTTACCTGTTATATTGTAAAGTATCTATCC
*
10894 TTTTTATAAAATGATCGATACTTTCAACATATCAGGTAAATTTTACCGTTTTTGTCATAATGAAA
1 TTTTTATAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGTTTTTGTCATAATGAAA
* *
10959 CTGGTTTTGTCATATTTTTACCTGTTACATTGTAAAGTATTTATCC
66 CTGGTTTTGTCATATTTTTACCTGTTATATTGTAAAGTATCTATCC
* *
11005 TTTTTATAAAAGGATCGATACTTTCAACATATCAAGTAAATTTTACCGGTTTTTTTCATAATGAA
1 TTTTTATAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACC-GTTTTTGTCATAATGAA
* * * * * **
11070 ATTGTTTTTATCATATTTTTACCTGTTATATTGTAAAATATCGATAGA
65 ACTGGTTTTGTCATATTTTTACCTGTTATATTGTAAAGTATCTAT-CC
*
11118 TTTTTAT-AAAGTATCGATACTTT
1 TTTTTATAAAAGGATCGATACTTT
11141 ATAGGCGCTA
Statistics
Matches: 318, Mismatches: 35, Indels: 6
0.89 0.10 0.02
Matches are distributed among these distances:
110 169 0.53
111 73 0.23
112 69 0.22
113 7 0.02
ACGTcount: A:0.31, C:0.12, G:0.11, T:0.46
Consensus pattern (111 bp):
TTTTTATAAAAGGATCGATACTTTCAACATATCAGGTAAATTTTACCGTTTTTGTCATAATGAAA
CTGGTTTTGTCATATTTTTACCTGTTATATTGTAAAGTATCTATCC
Found at i:11663 original size:25 final size:25
Alignment explanation
Indices: 11605--11664 Score: 79
Period size: 23 Copynumber: 2.5 Consensus size: 25
11595 AGTAATTAAC
* *
11605 ATATTTTATTATATAAGCGTTACCT
1 ATATATTATTATATAAGCGCTACCT
*
11630 AT-TA-CATTATATAAGCGCTACCT
1 ATATATTATTATATAAGCGCTACCT
11653 ATATATTATTAT
1 ATATATTATTAT
11665 GCTTGATAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
23 19 0.66
24 3 0.10
25 7 0.24
ACGTcount: A:0.35, C:0.13, G:0.07, T:0.45
Consensus pattern (25 bp):
ATATATTATTATATAAGCGCTACCT
Found at i:11699 original size:87 final size:86
Alignment explanation
Indices: 11508--11763 Score: 356
Period size: 87 Copynumber: 3.0 Consensus size: 86
11498 TAACAAATTA
* * * * *
11508 AGTAATTAACCTATTTTAATATATAAACGCTACCTATTACGTTTTATAAGCGCTACCTAATATGT
1 AGTAATTAA-CTATTTTATTATATAAGCGTTACCTATTACATTATATAAGCGCTACCTAATATGT
*
11573 TATTGTGCTTGATAATGTTTCC
65 TATTGTGCTTGATAATATTTCC
*
11595 AGTAATTAACATATTTTATTATATAAGCGTTACCTATTACATTATATAAGCGCTACCT-ATATAT
1 AGTAATTAAC-TATTTTATTATATAAGCGTTACCTATTACATTATATAAGCGCTACCTAATATGT
* *
11659 TATTATGCTTGATAATATTTCT
65 TATTGTGCTTGATAATATTTCC
*
11681 AGTAATTAATCTA-TTT-TTATATAAGCGTTACCTATTACATTATATAAGCGGTACCTAATATGT
1 AGTAATTAA-CTATTTTATTATATAAGCGTTACCTATTACATTATATAAGCGCTACCTAATATGT
**
11744 TATTGTATTTGATAATATTT
65 TATTGTGCTTGATAATATTT
11764 TCGATTAAAT
Statistics
Matches: 152, Mismatches: 14, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
84 39 0.26
85 25 0.16
86 36 0.24
87 52 0.34
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.44
Consensus pattern (86 bp):
AGTAATTAACTATTTTATTATATAAGCGTTACCTATTACATTATATAAGCGCTACCTAATATGTT
ATTGTGCTTGATAATATTTCC
Found at i:11746 original size:23 final size:23
Alignment explanation
Indices: 11697--11740 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
11687 TAATCTATTT
* *
11697 TTATATAAGCGTTACCTATTACA
1 TTATATAAGCGGTACCTAATACA
11720 TTATATAAGCGGTACCTAATA
1 TTATATAAGCGGTACCTAATA
11741 TGTTATTGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.36
Consensus pattern (23 bp):
TTATATAAGCGGTACCTAATACA
Found at i:11831 original size:17 final size:16
Alignment explanation
Indices: 11797--11832 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
11787 TGGTCTAAAT
*
11797 TTTAACCGATCACTTA
1 TTTAACCGATCACCTA
11813 TTTAACCGATCACACTA
1 TTTAACCGATCAC-CTA
11830 TTT
1 TTT
11833 TTTAACCATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.31, C:0.25, G:0.06, T:0.39
Consensus pattern (16 bp):
TTTAACCGATCACCTA
Found at i:12565 original size:23 final size:23
Alignment explanation
Indices: 12539--12608 Score: 71
Period size: 23 Copynumber: 3.2 Consensus size: 23
12529 GTTAATATTT
12539 AATATTATATATTATTAAATATG
1 AATATTATATATTATTAAATATG
*
12562 AATA-TATA-A-TATAAAATATG
1 AATATTATATATTATTAAATATG
12582 -ATATTCATATATTTATT-AATAT-
1 AATATT-ATATA-TTATTAAATATG
12604 AATAT
1 AATAT
12609 GAATAGTAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
19 3 0.08
20 11 0.28
21 4 0.10
22 5 0.13
23 13 0.33
24 3 0.08
ACGTcount: A:0.50, C:0.01, G:0.03, T:0.46
Consensus pattern (23 bp):
AATATTATATATTATTAAATATG
Found at i:12569 original size:20 final size:20
Alignment explanation
Indices: 12544--12608 Score: 62
Period size: 20 Copynumber: 3.1 Consensus size: 20
12534 TATTTAATAT
12544 TATATATTATTAAATATGAA
1 TATATATTATTAAATATGAA
* *
12564 TATATAATATAAAATATGATA
1 TATATATTATTAAATATGA-A
12585 TTCATATATTTATT-AATAT-AA
1 -T-ATATA-TTATTAAATATGAA
12606 TAT
1 TAT
12609 GAATAGTAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
19 2 0.05
20 18 0.49
21 2 0.05
22 2 0.05
23 10 0.27
24 3 0.08
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (20 bp):
TATATATTATTAAATATGAA
Found at i:13070 original size:158 final size:158
Alignment explanation
Indices: 12843--13150 Score: 519
Period size: 158 Copynumber: 1.9 Consensus size: 158
12833 GGCCCCCTTT
* *
12843 TAGTGTTGGTTTATTTTCTTTCAACCTGATTATTTTAATTTATTAAAATGAGGACCAAATTGAAA
1 TAGTGTTGGTTTATTTTCTTTCAACCAGATTATTTTAATTTATTAAAATGAGGACCAAATCGAAA
*
12908 GAATATACAAGTAACATATACCAATTGTGTAATTATACCTAAATGTTTTTAACTGTCACGTCACA
66 GAATATACAAGTAACATATACCAATTGTGTAATTATACCTAAATATTTTTAACTG-CACGTCACA
*
12973 TGTTCCGTTAATTGTTAACGACAGGTGGA
130 TGTTCCATTAATTGTTAACGACAGGTGGA
*
13002 TAGTGTTGGTTTATTTT-TTTCAACCAGATTATTTTAATTTATTAAAATGAGGACCAAATCGAAG
1 TAGTGTTGGTTTATTTTCTTTCAACCAGATTATTTTAATTTATTAAAATGAGGACCAAATCGAAA
* * *
13066 GAATATATAAGTAACCTATACCAATTGTTTAATTATACCTAAATATTTTTAACTGCACGTCACAT
66 GAATATACAAGTAACATATACCAATTGTGTAATTATACCTAAATATTTTTAACTGCACGTCACAT
*
13131 GTTCCATTAATTTTTAACGA
131 GTTCCATTAATTGTTAACGA
13151 TGGGTGGCTT
Statistics
Matches: 140, Mismatches: 9, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
157 28 0.20
158 95 0.68
159 17 0.12
ACGTcount: A:0.34, C:0.13, G:0.13, T:0.39
Consensus pattern (158 bp):
TAGTGTTGGTTTATTTTCTTTCAACCAGATTATTTTAATTTATTAAAATGAGGACCAAATCGAAA
GAATATACAAGTAACATATACCAATTGTGTAATTATACCTAAATATTTTTAACTGCACGTCACAT
GTTCCATTAATTGTTAACGACAGGTGGA
Found at i:13980 original size:14 final size:14
Alignment explanation
Indices: 13961--13987 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
13951 GTATGCTTTG
13961 ATAAAAATGAAATA
1 ATAAAAATGAAATA
13975 ATAAAAATGAAAT
1 ATAAAAATGAAAT
13988 CATCATTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.22
Consensus pattern (14 bp):
ATAAAAATGAAATA
Found at i:16014 original size:19 final size:19
Alignment explanation
Indices: 15984--16032 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
15974 GGATATATGT
15984 ACAAGT-ATACACAATCGA
1 ACAAGTAATACACAATCGA
16002 ACAAGTAATACACAATCGA
1 ACAAGTAATACACAATCGA
16021 ACAAGTAATACA
1 ACAAGTAATACA
16033 GTTATAAGTC
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
18 6 0.20
19 24 0.80
ACGTcount: A:0.53, C:0.20, G:0.10, T:0.16
Consensus pattern (19 bp):
ACAAGTAATACACAATCGA
Found at i:18852 original size:20 final size:20
Alignment explanation
Indices: 18835--18872 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
18825 GTGGTGCAGC
18835 AGTCGCACGACGGGTGCACT
1 AGTCGCACGACGGGTGCACT
18855 AGTCGCACGACGGGTGCA
1 AGTCGCACGACGGGTGCA
18873 TTTTCTCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.21, C:0.29, G:0.37, T:0.13
Consensus pattern (20 bp):
AGTCGCACGACGGGTGCACT
Found at i:33793 original size:20 final size:20
Alignment explanation
Indices: 33764--33802 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
33754 AGAGCTCATA
*
33764 TAGGATCATATAGATGCATT
1 TAGGAGCATATAGATGCATT
*
33784 TAGGAGCATATAGTTGCAT
1 TAGGAGCATATAGATGCAT
33803 GTGGTGGAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.33
Consensus pattern (20 bp):
TAGGAGCATATAGATGCATT
Found at i:37427 original size:16 final size:18
Alignment explanation
Indices: 37406--37445 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
37396 GCTAGAAATT
37406 ATAAAA-GA-ATTAAGGA
1 ATAAAAGGAGATTAAGGA
37422 ATAAAATGGAGATTAAGGA
1 ATAAAA-GGAGATTAAGGA
37441 A-AAAA
1 ATAAAA
37446 TTCCTAATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
16 6 0.29
18 6 0.29
19 9 0.43
ACGTcount: A:0.62, C:0.00, G:0.20, T:0.17
Consensus pattern (18 bp):
ATAAAAGGAGATTAAGGA
Found at i:39133 original size:20 final size:20
Alignment explanation
Indices: 39104--39142 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
39094 AGAGCTCATA
*
39104 TAGGATCATATAGATGCATT
1 TAGGAGCATATAGATGCATT
*
39124 TAGGAGCATATAGTTGCAT
1 TAGGAGCATATAGATGCAT
39143 GTGGTGAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.33
Consensus pattern (20 bp):
TAGGAGCATATAGATGCATT
Found at i:43144 original size:81 final size:81
Alignment explanation
Indices: 42985--43145 Score: 218
Period size: 81 Copynumber: 2.0 Consensus size: 81
42975 AAAAATATGG
* * * *
42985 ATCAACATTTCTGAGAGATGAAGTTCATAATGAGAAGAAATTGTTCAAACTTTTTCTTGATATCA
1 ATCAACATTTCTAAGAGATGAAGTTCATAATGAGAAGAAATTGTTCAAACCTTTGCTCGATATCA
*
43050 TGAAAGAAGGAGTTGT
66 TCAAAGAAGGAGTTGT
*
43066 ATCAACTTTTCTAAGAGAAT-AAGTTCATAATGAGAAGAAATTGTTCAAACCTTTGCTCGAT-TC
1 ATCAACATTTCTAAGAG-ATGAAGTTCATAATGAGAAGAAATTGTTCAAACCTTTGCTCGATAT-
* *
43129 CATCATAGAATGAGTTG
64 CATCAAAGAAGGAGTTG
43146 GATCTTTATT
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
80 1 0.01
81 67 0.96
82 2 0.03
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (81 bp):
ATCAACATTTCTAAGAGATGAAGTTCATAATGAGAAGAAATTGTTCAAACCTTTGCTCGATATCA
TCAAAGAAGGAGTTGT
Found at i:44030 original size:44 final size:44
Alignment explanation
Indices: 43967--44055 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
43957 AACCGTTAAC
*
43967 TGAACTTTTTTTAACCGTTAACTGAATCGAAATTTATTTGAAAA
1 TGAACTTTTTTTAACCGTTAACTGAATCGAAATTTATGTGAAAA
44011 TGAACTTTTTTTAACCGTTAACTGAATCGAAATTTATGTGAAAA
1 TGAACTTTTTTTAACCGTTAACTGAATCGAAATTTATGTGAAAA
44055 T
1 T
44056 TATTAACCGA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.36, C:0.11, G:0.12, T:0.40
Consensus pattern (44 bp):
TGAACTTTTTTTAACCGTTAACTGAATCGAAATTTATGTGAAAA
Found at i:44393 original size:22 final size:22
Alignment explanation
Indices: 44368--44411 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
44358 CGAATCGAAT
44368 TAACCGTTAACCAAATTCTAAA
1 TAACCGTTAACCAAATTCTAAA
44390 TAACCGTTAACCAAATTCTAAA
1 TAACCGTTAACCAAATTCTAAA
44412 AACAATTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.23, G:0.05, T:0.27
Consensus pattern (22 bp):
TAACCGTTAACCAAATTCTAAA
Found at i:45680 original size:16 final size:16
Alignment explanation
Indices: 45661--45694 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
45651 CAATATACGA
45661 ATAAAAATATATTTAT
1 ATAAAAATATATTTAT
**
45677 ATAAATGTATATTTAT
1 ATAAAAATATATTTAT
45693 AT
1 AT
45695 TTAGATGTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
ATAAAAATATATTTAT
Found at i:45769 original size:16 final size:18
Alignment explanation
Indices: 45737--45770 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
45727 TATTAATGTG
45737 TGAATCATTTATATTTTT
1 TGAATCATTTATATTTTT
45755 TGAAT-ATTT-TATTTTT
1 TGAATCATTTATATTTTT
45771 AATAAGAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (18 bp):
TGAATCATTTATATTTTT
Found at i:46444 original size:130 final size:130
Alignment explanation
Indices: 46240--46487 Score: 406
Period size: 130 Copynumber: 1.9 Consensus size: 130
46230 AATTTTCTTC
* *
46240 TAATTAGGTGGTGACATGTGTCACCAATAACATATATCATGATTATGTGTTAACACAAGTCAGAT
1 TAATTAGGTGGTGACATGTGTCACCAATAACATATATCATGATCATGTGCTAACACAAGTCAGAT
** *
46305 CCTGGTTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATACAAA
66 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAGCATATACAAA
* * * * *
46370 TAATTAGGTGGTGACATGTGTCACTAATGACATGTGTCATGATCATGTGCTAACACATGTCAGAT
1 TAATTAGGTGGTGACATGTGTCACCAATAACATATATCATGATCATGTGCTAACACAAGTCAGAT
46435 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT
66 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT
46488 TATATAAATA
Statistics
Matches: 108, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 108 1.00
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (130 bp):
TAATTAGGTGGTGACATGTGTCACCAATAACATATATCATGATCATGTGCTAACACAAGTCAGAT
CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAGCATATACAAA
Found at i:48951 original size:2 final size:2
Alignment explanation
Indices: 48944--48971 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
48934 TCATTAAAAT
48944 TA 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 TA
48972 AATTAAAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:51885 original size:21 final size:22
Alignment explanation
Indices: 51859--51899 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
51849 TTTCAAAAAA
51859 ACAAAAAAAA-CAAAAAAAGCC
1 ACAAAAAAAAGCAAAAAAAGCC
*
51880 ACAAAAAAAAGCCAAAAAAG
1 ACAAAAAAAAGCAAAAAAAG
51900 TCAAAATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.76, C:0.17, G:0.07, T:0.00
Consensus pattern (22 bp):
ACAAAAAAAAGCAAAAAAAGCC
Found at i:51895 original size:11 final size:13
Alignment explanation
Indices: 51870--51898 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
51860 CAAAAAAAAC
51870 AAAAAAAGCCACA
1 AAAAAAAGCCACA
51883 AAAAAAAGCCA-A
1 AAAAAAAGCCACA
51895 AAAA
1 AAAA
51899 GTCAAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.31
13 11 0.69
ACGTcount: A:0.76, C:0.17, G:0.07, T:0.00
Consensus pattern (13 bp):
AAAAAAAGCCACA
Found at i:54523 original size:9 final size:9
Alignment explanation
Indices: 54509--54535 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
54499 TAATAACTCG
54509 GATATTTCT
1 GATATTTCT
54518 GATATTTCT
1 GATATTTCT
54527 GATATTTCT
1 GATATTTCT
54536 ACCCATACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.11, G:0.11, T:0.56
Consensus pattern (9 bp):
GATATTTCT
Found at i:56518 original size:11 final size:10
Alignment explanation
Indices: 56462--56517 Score: 96
Period size: 10 Copynumber: 5.7 Consensus size: 10
56452 CTATTTTTTC
56462 AAAAAAACAA
1 AAAAAAACAA
56472 AAAAAAACAA
1 AAAAAAACAA
*
56482 AAAAACA-AA
1 AAAAAAACAA
56491 AAAAAAACAA
1 AAAAAAACAA
56501 AAAAAAACAA
1 AAAAAAACAA
56511 AAAAAAA
1 AAAAAAA
56518 AGCCAAAAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
9 8 0.19
10 35 0.81
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAACAA
Found at i:56525 original size:11 final size:11
Alignment explanation
Indices: 56462--56526 Score: 68
Period size: 11 Copynumber: 6.3 Consensus size: 11
56452 CTATTTTTTC
56462 AAAAAAA-CAA
1 AAAAAAACCAA
56472 AAAAAAA-C--
1 AAAAAAACCAA
56480 AAAAAAA-CAA
1 AAAAAAACCAA
*
56490 AAAAAAAACAA
1 AAAAAAACCAA
*
56501 AAAAAAACAAA
1 AAAAAAACCAA
56512 AAAAAAAGCCAA
1 AAAAAAA-CCAA
56524 AAA
1 AAA
56527 GCCAAAATTT
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
8 8 0.17
10 15 0.31
11 19 0.40
12 6 0.12
ACGTcount: A:0.88, C:0.11, G:0.02, T:0.00
Consensus pattern (11 bp):
AAAAAAACCAA
Found at i:56526 original size:1 final size:1
Alignment explanation
Indices: 56462--56518 Score: 69
Period size: 1 Copynumber: 57.0 Consensus size: 1
56452 CTATTTTTTC
* * * * *
56462 AAAAAAACAAAAAAAAACAAAAAAACAAAAAAAAAACAAAAAAAAACAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
56519 GCCAAAAAGC
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
1 46 1.00
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:56533 original size:21 final size:20
Alignment explanation
Indices: 56461--56526 Score: 91
Period size: 21 Copynumber: 3.3 Consensus size: 20
56451 GCTATTTTTT
56461 CAAAAAAAC-AAAAAAAAA-
1 CAAAAAAACAAAAAAAAAAC
56479 CAAAAAAACAAAAAAAAAAC
1 CAAAAAAACAAAAAAAAAAC
*
56499 AAAAAAAAACAAAAAAAAAAGC
1 -CAAAAAAACAAAAAAAAAA-C
56521 CAAAAA
1 CAAAAA
56527 GCCAAAATTT
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
18 9 0.21
19 9 0.21
21 23 0.55
22 1 0.02
ACGTcount: A:0.86, C:0.12, G:0.02, T:0.00
Consensus pattern (20 bp):
CAAAAAAACAAAAAAAAAAC
Found at i:61254 original size:31 final size:31
Alignment explanation
Indices: 61200--61274 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
61190 CTCGCTTTTT
* * *
61200 AAAAGTCTCTGAAATAAATTGATATATGACTG
1 AAAAGTTTCT-AAATAAAGTGATATATCACTG
* *
61232 GAAAGTTTCTAAATGAAGTGATATATCACTG
1 AAAAGTTTCTAAATAAAGTGATATATCACTG
61263 AAAAGTTTCTAA
1 AAAAGTTTCTAA
61275 TATTGATGAT
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
31 29 0.78
32 8 0.22
ACGTcount: A:0.43, C:0.09, G:0.16, T:0.32
Consensus pattern (31 bp):
AAAAGTTTCTAAATAAAGTGATATATCACTG
Found at i:63922 original size:21 final size:21
Alignment explanation
Indices: 63892--64027 Score: 127
Period size: 21 Copynumber: 6.5 Consensus size: 21
63882 GATTTACATA
*
63892 TTCGCATTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
63913 CTCGCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
*
63934 TTCGCGTTGCGATTTATTCCAAG
1 TTCGCGTTGCGA--TAGTCCAAG
*
63957 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
63976 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
* *
63999 TT--CGTTGCGATTGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
64018 TTCGCGTTGC
1 TTCGCGTTGC
64028 TTCAAAATTA
Statistics
Matches: 92, Mismatches: 15, Indels: 16
0.75 0.12 0.13
Matches are distributed among these distances:
19 16 0.17
21 59 0.64
23 17 0.18
ACGTcount: A:0.18, C:0.21, G:0.26, T:0.34
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:63944 original size:42 final size:41
Alignment explanation
Indices: 63917--64027 Score: 186
Period size: 42 Copynumber: 2.7 Consensus size: 41
63907 TCCAAGCTCG
63917 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGA-TTATTCCAAGTT
*
63959 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGA-TTATTCCAAGTT
*
64001 CGTTGCGATTGTCGAAGTTCGCGTTGC
1 CGTTGCGATAGTCGAAGTTCGCGTTGC
64028 TTCAAAATTA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 67 1.00
ACGTcount: A:0.18, C:0.20, G:0.27, T:0.35
Consensus pattern (41 bp):
CGTTGCGATAGTCGAAGTTCGCGTTGCGATTATTCCAAGTT
Found at i:65368 original size:18 final size:17
Alignment explanation
Indices: 65345--65387 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
65335 ATATATACAT
65345 ATAATAATAATAACATGA
1 ATAATAATAATAA-ATGA
*
65363 ATAATAAAAATAAATGA
1 ATAATAATAATAAATGA
65380 ATAA-AATA
1 ATAATAATA
65388 TCCATATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 3 0.13
17 8 0.35
18 12 0.52
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (17 bp):
ATAATAATAATAAATGA
Found at i:66735 original size:105 final size:105
Alignment explanation
Indices: 66541--67264 Score: 1158
Period size: 105 Copynumber: 7.0 Consensus size: 105
66531 GCATTGTTCA
* * **
66541 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGAATCTG-AA-TGA-AA-TT-TTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
*
66601 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
66641 GAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
*
66706 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
** *
66746 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGCGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
66811 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
66851 AAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
66916 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
66956 AAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGTTCTGAAATTGAGAA---GTTGTTGACAGG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
67018 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
67058 AAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAGG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
67123 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
67163 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG-TTGTTGACAA
* ** * *
67228 CCAGTTGTCCCTTCGTTGTGAAGTTGAACTTGTGTTG
65 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
67265 CCTCGAGTGC
Statistics
Matches: 589, Mismatches: 26, Indels: 12
0.94 0.04 0.02
Matches are distributed among these distances:
100 35 0.06
101 1 0.00
102 102 0.17
103 2 0.00
104 2 0.00
105 406 0.69
106 41 0.07
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.34
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAG
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:67059 original size:207 final size:208
Alignment explanation
Indices: 66541--67264 Score: 1159
Period size: 207 Copynumber: 3.5 Consensus size: 208
66531 GCATTGTTCA
* * ** *
66541 GAGTCCAATATCCTCCGTCGTGAAGTTGAAATTGAATCTG-AA-TGA-AATTTTGTTGACAAGCA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAATGTTGTTGACAAGCA
* *
66603 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCATTGTGAAGTT
66 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCATTGTGAAGTT
* *
66668 GAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAA
131 GAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAA
*
66733 CTTGCATTGTCTG
196 CTTGCGTTGTCTG
** *
66746 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGCGATTGGGAAGTTGTTGTTGACAAG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA--TGTTGTTGACAAG
*
66811 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCGTTGTGAAG
64 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCATTGTGAAG
66876 TTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTG
129 TTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTG
66941 AACTTGCGTTGTCTG
194 AACTTGCGTTGTCTG
* * * *
66956 AAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGTTCTGAAATTGAGAA-GTTGTTGACAGGCA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAATGTTGTTGACAAGCA
67020 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCATTGTGAAGTT
66 GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCATTGTGAAGTT
*
67085 GAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAGGCAGCGGTCCCTTCGTCGTGAAGTTGAA
131 GAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAA
67150 CTTGCGTTGTCTG
196 CTTGCGTTGTCTG
67163 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA--TG-TTGTTGACAA
* ** * *
67228 CCAGTTGTCCCTTCGTTGTGAAGTTGAACTTGTGTTG
63 GCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
67265 CCTCGAGTGC
Statistics
Matches: 479, Mismatches: 31, Indels: 12
0.92 0.06 0.02
Matches are distributed among these distances:
205 36 0.08
206 1 0.00
207 203 0.42
208 2 0.00
210 196 0.41
211 41 0.09
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.34
Consensus pattern (208 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAATGTTGTTGACAAGCA
GCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCATTGTGAAGTT
GAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAA
CTTGCGTTGTCTG
Found at i:67158 original size:312 final size:313
Alignment explanation
Indices: 66542--67264 Score: 1170
Period size: 312 Copynumber: 2.3 Consensus size: 313
66532 CATTGTTCAG
* * **
66542 AGTCCAATATCCTCCGTCGTGAAGTTGAAATTGAATCTG-AA-TGA-AA-TT-TTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
* *
66602 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGGAGTCCAATATCCTTCATTGTGAAGT
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCATTGTGAAGT
* *
66667 TGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGA
131 TGAAATTGGCTCTGAAATTGAGAA--TGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGA
* * ** *
66732 ACTTGCATTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGCGATTGGGAAG
194 ACTTGCATTGTCTGAAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAG
66797 TTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGA
259 TTGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGA
66852 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
66917 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCATTGTGAAGT
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCATTGTGAAGT
* *
66982 TGAAATTGGTTCTGAAATTGAGAA-GTTGTTGACAGGCAGCGGTCCCTTCGTCGTGAAGTTGAAC
131 TGAAATTGGCTCTGAAATTGAGAATGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAAC
*
67046 TTGCGTTGTCTGAAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTT
196 TTGCATTGTCTGAAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTT
* *
67111 GTTGTTGACAGGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
261 GTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGA
*
67164 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG-TTGTTGACAAG
** * *
67229 CAGTTGTCCCTTCGTTGTGAAGTTGAACTTGTGTTG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
67265 CCTCGAGTGC
Statistics
Matches: 384, Mismatches: 23, Indels: 9
0.92 0.06 0.02
Matches are distributed among these distances:
310 35 0.09
311 2 0.01
312 205 0.53
313 44 0.11
314 2 0.01
315 96 0.25
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.34
Consensus pattern (313 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGC
AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGAAGTCCAATATCCTTCATTGTGAAGT
TGAAATTGGCTCTGAAATTGAGAATGTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAAC
TTGCATTGTCTGAAGTCCAATATCCTTCATTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTT
GTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGA
Found at i:68040 original size:67 final size:66
Alignment explanation
Indices: 67905--68062 Score: 203
Period size: 68 Copynumber: 2.4 Consensus size: 66
67895 AAGATATCTG
* * **
67905 TTGTTTCATGAGAAACGGTCTCAAGGGAAACAAAATTATGTTTTAAGGGAAATAAATTTGAAGAT
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTATGTTTTAAGGGAAATAAATTCAAAGA-
67970 TT
65 TT
* *
67972 TGTGTTTCAAGAGTAACTGTCTCAAGGGAGAA-AAAATT-TGTTTTAGGGGAAATAAATTCAAAG
1 T-TGTTTCAAGAGAAACTGTCTCAAGGGA-AACAAAATTATGTTTTAAGGGAAATAAATTCAAAG
*
68035 GTT
64 ATT
*
68038 TTGTTTCAAGGGAAACTGTCTCAAG
1 TTGTTTCAAGAGAAACTGTCTCAAG
68063 ATAGACGAAA
Statistics
Matches: 80, Mismatches: 9, Indels: 6
0.84 0.09 0.06
Matches are distributed among these distances:
65 22 0.28
66 3 0.04
67 23 0.29
68 30 0.38
69 2 0.03
ACGTcount: A:0.36, C:0.09, G:0.23, T:0.32
Consensus pattern (66 bp):
TTGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTATGTTTTAAGGGAAATAAATTCAAAGAT
T
Found at i:68089 original size:36 final size:35
Alignment explanation
Indices: 68038--68159 Score: 131
Period size: 36 Copynumber: 3.4 Consensus size: 35
68028 TTCAAAGGTT
68038 TTGTTTCAAGGGAAACTGTCTCAAGATAGACGAAAA
1 TTGTTTCAAGGGAAACTGTCTCAAGA-AGACGAAAA
* *
68074 TTGTTTCAAGAGAAACTGTCTTAAGAGAGAC-AAAA
1 TTGTTTCAAGGGAAACTGTCTCAAGA-AGACGAAAA
* * * *
68109 CTTAGTTCCAATGGAAACTATCTCAAG-AGACGAAAT
1 -TT-GTTTCAAGGGAAACTGTCTCAAGAAGACGAAAA
*
68145 TTATTTCAAGGGAAA
1 TTGTTTCAAGGGAAA
68160 TGTTTTCAAT
Statistics
Matches: 71, Mismatches: 12, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
34 10 0.14
35 10 0.14
36 33 0.46
37 18 0.25
ACGTcount: A:0.40, C:0.14, G:0.20, T:0.26
Consensus pattern (35 bp):
TTGTTTCAAGGGAAACTGTCTCAAGAAGACGAAAA
Found at i:68664 original size:17 final size:17
Alignment explanation
Indices: 68644--68677 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
68634 GTTGAATCCC
*
68644 CAAAGATGCCCCAATAT
1 CAAAAATGCCCCAATAT
68661 CAAAAATGCCCCAATAT
1 CAAAAATGCCCCAATAT
68678 TGATGTTGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.29, G:0.09, T:0.18
Consensus pattern (17 bp):
CAAAAATGCCCCAATAT
Found at i:69127 original size:22 final size:22
Alignment explanation
Indices: 69102--69145 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
69092 CATTTTTGTT
69102 CATTTGATGCT-AAATGGTTTGA
1 CATTTGATGCTCAAA-GGTTTGA
69124 CATTTGATGCTCAAAGGTTTGA
1 CATTTGATGCTCAAAGGTTTGA
69146 TGGGGTAGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 18 0.86
23 3 0.14
ACGTcount: A:0.27, C:0.11, G:0.23, T:0.39
Consensus pattern (22 bp):
CATTTGATGCTCAAAGGTTTGA
Found at i:69759 original size:24 final size:24
Alignment explanation
Indices: 69732--69776 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
69722 TTGCATGTGT
69732 TTTTTGTCCCTTTTT-CTTTTTCC
1 TTTTTGTCCCTTTTTGCTTTTTCC
* *
69755 TTTTTGTTCTTTTTTGCTTTTT
1 TTTTTGTCCCTTTTTGCTTTTT
69777 TTTTGCTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.00, C:0.18, G:0.07, T:0.76
Consensus pattern (24 bp):
TTTTTGTCCCTTTTTGCTTTTTCC
Found at i:69794 original size:12 final size:11
Alignment explanation
Indices: 69755--69791 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
69745 TTCTTTTTCC
*
69755 TTTTTG-TTCT
1 TTTTTGCTTTT
69765 TTTTTGCTTTT
1 TTTTTGCTTTT
69776 TTTTTGCTTTT
1 TTTTTGCTTTT
69787 TTTTT
1 TTTTT
69792 TGCCCTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
10 6 0.24
11 19 0.76
ACGTcount: A:0.00, C:0.08, G:0.08, T:0.84
Consensus pattern (11 bp):
TTTTTGCTTTT
Found at i:69800 original size:12 final size:12
Alignment explanation
Indices: 69764--69801 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
69754 CTTTTTGTTC
69764 TTTTTTG-CTTT
1 TTTTTTGCCTTT
*
69775 TTTTTTGCTTTT
1 TTTTTTGCCTTT
*
69787 TTTTTTGCCCTT
1 TTTTTTGCCTTT
69799 TTT
1 TTT
69802 ATTCTGATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
11 7 0.30
12 16 0.70
ACGTcount: A:0.00, C:0.13, G:0.08, T:0.79
Consensus pattern (12 bp):
TTTTTTGCCTTT
Found at i:69801 original size:14 final size:12
Alignment explanation
Indices: 69764--69794 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
69754 CTTTTTGTTC
69764 TTTTTTGC-TTT
1 TTTTTTGCTTTT
69775 TTTTTTGCTTTT
1 TTTTTTGCTTTT
69787 TTTTTTGC
1 TTTTTTGC
69795 CCTTTTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.00, C:0.10, G:0.10, T:0.81
Consensus pattern (12 bp):
TTTTTTGCTTTT
Found at i:73849 original size:14 final size:14
Alignment explanation
Indices: 73832--73858 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
73822 TATATTACAT
73832 AAATAAAAATAATC
1 AAATAAAAATAATC
73846 AAATAAAAATAAT
1 AAATAAAAATAAT
73859 TAAGAATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.74, C:0.04, G:0.00, T:0.22
Consensus pattern (14 bp):
AAATAAAAATAATC
Found at i:74096 original size:55 final size:57
Alignment explanation
Indices: 73980--74096 Score: 125
Period size: 59 Copynumber: 2.1 Consensus size: 57
73970 ATATTAAGAA
* * *
73980 ATATATATATAATAATAATAAAATATAGTAAAAATCAAATGAAATAATTTAATATATAT
1 ATATACATATAATAATAATAAAATATAATAAAAATCAAATGAAATAA--TAATATACAT
* *
74039 ATATACATATAATAATAATAACATGAATAAT-AAAAT-AAATG-AATAA-AATATCCAT
1 ATATACATATAATAATAATAAAAT--ATAATAAAAATCAAATGAAATAATAATATACAT
74094 ATA
1 ATA
74097 ATAATAAAGA
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
55 10 0.20
58 5 0.10
59 27 0.53
60 5 0.10
61 4 0.08
ACGTcount: A:0.60, C:0.04, G:0.03, T:0.32
Consensus pattern (57 bp):
ATATACATATAATAATAATAAAATATAATAAAAATCAAATGAAATAATAATATACAT
Found at i:77521 original size:20 final size:20
Alignment explanation
Indices: 77492--77530 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
77482 AGAGCTCATA
*
77492 TAGGATCATATAGATGCATT
1 TAGGAGCATATAGATGCATT
*
77512 TAGGAGCATATAGTTGCAT
1 TAGGAGCATATAGATGCAT
77531 GTGGTGAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.33
Consensus pattern (20 bp):
TAGGAGCATATAGATGCATT
Found at i:81478 original size:81 final size:81
Alignment explanation
Indices: 81319--81479 Score: 218
Period size: 81 Copynumber: 2.0 Consensus size: 81
81309 AAAAATATGG
* * * *
81319 ATCAACATTTCTGAGAGATGAAGTTCATAATGAGAAGAAATTGTTCAAACTTTTTCTTGATATCA
1 ATCAACATTTCTAAGAGATGAAGTTCATAATGAGAAGAAATTGTTCAAACCTTTGCTCGATATCA
*
81384 TGAAAGAAGGAGTTGT
66 TCAAAGAAGGAGTTGT
*
81400 ATCAACTTTTCTAAGAGAAT-AAGTTCATAATGAGAAGAAATTGTTCAAACCTTTGCTCGAT-TC
1 ATCAACATTTCTAAGAG-ATGAAGTTCATAATGAGAAGAAATTGTTCAAACCTTTGCTCGATAT-
* *
81463 CATCATAGAATGAGTTG
64 CATCAAAGAAGGAGTTG
81480 GATCTTTATT
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
80 1 0.01
81 67 0.96
82 2 0.03
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (81 bp):
ATCAACATTTCTAAGAGATGAAGTTCATAATGAGAAGAAATTGTTCAAACCTTTGCTCGATATCA
TCAAAGAAGGAGTTGT
Found at i:82348 original size:44 final size:44
Alignment explanation
Indices: 82285--82373 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
82275 AACCGTTAAC
82285 TGAACTTTTTTTAACCGTTAACTGAATCGAAATTTATTTGAAAA
1 TGAACTTTTTTTAACCGTTAACTGAATCGAAATTTATTTGAAAA
82329 TGAACTTTTTTTAACCGTTAACTGAATCGAAATTTATTTGAAAA
1 TGAACTTTTTTTAACCGTTAACTGAATCGAAATTTATTTGAAAA
82373 T
1 T
82374 TATTAACCGA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.42
Consensus pattern (44 bp):
TGAACTTTTTTTAACCGTTAACTGAATCGAAATTTATTTGAAAA
Found at i:82706 original size:22 final size:22
Alignment explanation
Indices: 82681--82724 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
82671 CGAATCGAAT
82681 TAACCGTTAACCAAATTCTAAA
1 TAACCGTTAACCAAATTCTAAA
82703 TAACCGTTAACCAAATTCTAAA
1 TAACCGTTAACCAAATTCTAAA
82725 AACAATTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.45, C:0.23, G:0.05, T:0.27
Consensus pattern (22 bp):
TAACCGTTAACCAAATTCTAAA
Found at i:84894 original size:24 final size:25
Alignment explanation
Indices: 84845--84894 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
84835 CAAAACATCA
84845 TATTAATTATATTTAGAAAAATATG
1 TATTAATTATATTTAGAAAAATATG
84870 TATTAATTA-ATTTTAGAAAAA-ATG
1 TATTAATTATA-TTTAGAAAAATATG
84894 T
1 T
84895 TATGACACAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (25 bp):
TATTAATTATATTTAGAAAAATATG
Found at i:85370 original size:2 final size:2
Alignment explanation
Indices: 85363--85398 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
85353 TCATTAAAAT
85363 TA TA TA TA TA 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 TA TA TA TA TA
85399 AAAATTAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:87789 original size:31 final size:33
Alignment explanation
Indices: 87724--87800 Score: 95
Period size: 31 Copynumber: 2.4 Consensus size: 33
87714 CTCGCTTTTT
* * *
87724 AAAAGTCTCTGAAATGAATTGATATATATGACTG
1 AAAAGTTTCTGAAATGAAGTGA-ATATATCACTG
87758 AAAAGTTTCT-AAATGAAGTG-ATATATCACTG
1 AAAAGTTTCTGAAATGAAGTGAATATATCACTG
*
87789 AAATGTTTCTGA
1 AAAAGTTTCTGA
87801 TATTGATAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
31 19 0.50
32 1 0.03
33 9 0.24
34 9 0.24
ACGTcount: A:0.40, C:0.09, G:0.17, T:0.34
Consensus pattern (33 bp):
AAAAGTTTCTGAAATGAAGTGAATATATCACTG
Found at i:91460 original size:21 final size:21
Alignment explanation
Indices: 91430--91565 Score: 127
Period size: 21 Copynumber: 6.5 Consensus size: 21
91420 GATTTACATA
*
91430 TTCGCATTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
91451 CTCGCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
*
91472 TTCGCGTTGCGATTTATTCCAAG
1 TTCGCGTTGCGA--TAGTCCAAG
*
91495 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
91514 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
* *
91537 TT--CGTTGCGATTGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
91556 TTCGCGTTGC
1 TTCGCGTTGC
91566 TTCAAAATTA
Statistics
Matches: 92, Mismatches: 15, Indels: 16
0.75 0.12 0.13
Matches are distributed among these distances:
19 16 0.17
21 59 0.64
23 17 0.18
ACGTcount: A:0.18, C:0.21, G:0.26, T:0.34
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:91482 original size:42 final size:41
Alignment explanation
Indices: 91455--91565 Score: 186
Period size: 42 Copynumber: 2.7 Consensus size: 41
91445 TCCAAGCTCG
91455 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGA-TTATTCCAAGTT
*
91497 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGA-TTATTCCAAGTT
*
91539 CGTTGCGATTGTCGAAGTTCGCGTTGC
1 CGTTGCGATAGTCGAAGTTCGCGTTGC
91566 TTCAAAATTA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 67 1.00
ACGTcount: A:0.18, C:0.20, G:0.27, T:0.35
Consensus pattern (41 bp):
CGTTGCGATAGTCGAAGTTCGCGTTGCGATTATTCCAAGTT
Found at i:94552 original size:20 final size:20
Alignment explanation
Indices: 94523--94561 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
94513 AGAGCTCATA
*
94523 TAGGATCATATAGATGCATT
1 TAGGAGCATATAGATGCATT
*
94543 TAGGAGCATATAGTTGCAT
1 TAGGAGCATATAGATGCAT
94562 GTGGTGAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.33
Consensus pattern (20 bp):
TAGGAGCATATAGATGCATT
Found at i:98534 original size:80 final size:80
Alignment explanation
Indices: 98377--98535 Score: 207
Period size: 80 Copynumber: 2.0 Consensus size: 80
98367 AAAAATATGG
* * * *
98377 ATCAACATTTCTGAGAGATGAAGTTCATAATGAGAAGAAATTGTTCAAACTTTTTCTTGATATCA
1 ATCAACATTTCTAAGAGATGAAGTTCATAATGAGAAGAAATTGTTCAAACCTTTGCTCGATATCA
*
98442 TGAAGAAGGAGTTGT
66 TCAAGAAGGAGTTGT
*
98457 ATCAACTTTTCTAAGAGAAT-AAGTTCATAATGAGAAGAAATTGTTC-AACCTTTGCTCGAT-TC
1 ATCAACATTTCTAAGAG-ATGAAGTTCATAATGAGAAGAAATTGTTCAAACCTTTGCTCGATAT-
*
98519 CATCATAGAATGAGTTG
64 CATCA-AGAAGGAGTTG
98536 GATCTTTATT
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 15 0.22
80 51 0.74
81 2 0.03
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (80 bp):
ATCAACATTTCTAAGAGATGAAGTTCATAATGAGAAGAAATTGTTCAAACCTTTGCTCGATATCA
TCAAGAAGGAGTTGT
Found at i:99038 original size:16 final size:16
Alignment explanation
Indices: 99013--99057 Score: 81
Period size: 16 Copynumber: 2.8 Consensus size: 16
99003 TCTGGTAAGG
*
99013 GAGAAAAACTTCTAAT
1 GAGAATAACTTCTAAT
99029 GAGAATAACTTCTAAT
1 GAGAATAACTTCTAAT
99045 GAGAATAACTTCT
1 GAGAATAACTTCT
99058 TTAACCTTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.29
Consensus pattern (16 bp):
GAGAATAACTTCTAAT
Found at i:99868 original size:43 final size:44
Alignment explanation
Indices: 99807--99891 Score: 163
Period size: 43 Copynumber: 2.0 Consensus size: 44
99797 CCGTTAACTG
99807 ACTTTTTTTAACCGTTAACTGAATCGAAATTTA-TTGAAAATGA
1 ACTTTTTTTAACCGTTAACTGAATCGAAATTTATTTGAAAATGA
99850 ACTTTTTTTAACCGTTAACTGAATCGAAATTTATTTGAAAAT
1 ACTTTTTTTAACCGTTAACTGAATCGAAATTTATTTGAAAAT
99892 TATTAACCGA
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
43 33 0.80
44 8 0.20
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.41
Consensus pattern (44 bp):
ACTTTTTTTAACCGTTAACTGAATCGAAATTTATTTGAAAATGA
Found at i:102874 original size:2 final size:2
Alignment explanation
Indices: 102867--102896 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
102857 CATTAAAATT
102867 TA TA 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 TA TA
102897 AATAAATTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:105682 original size:31 final size:32
Alignment explanation
Indices: 105635--105709 Score: 107
Period size: 31 Copynumber: 2.4 Consensus size: 32
105625 CTCGCTTTTT
* * *
105635 AAAAGTCTCTGAAATGAATTGATATATGACTG
1 AAAAGTTTCTGAAATGAAGTGATATATCACTG
105667 AAAAGTTTCT-AAATGAAGTGATATATCACTG
1 AAAAGTTTCTGAAATGAAGTGATATATCACTG
*
105698 AAATGTTTCTGA
1 AAAAGTTTCTGA
105710 TATTGATAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
31 28 0.74
32 10 0.26
ACGTcount: A:0.40, C:0.09, G:0.17, T:0.33
Consensus pattern (32 bp):
AAAAGTTTCTGAAATGAAGTGATATATCACTG
Found at i:109245 original size:19 final size:19
Alignment explanation
Indices: 109221--109275 Score: 92
Period size: 19 Copynumber: 2.9 Consensus size: 19
109211 AATGACCAAT
109221 TAAATCGCAATGCGATCGA
1 TAAATCGCAATGCGATCGA
109240 TAAATCGCAATGCGATCGA
1 TAAATCGCAATGCGATCGA
* *
109259 TAATTCGCAACGCGATC
1 TAAATCGCAATGCGATC
109276 TCCGGTATCG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 34 1.00
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.22
Consensus pattern (19 bp):
TAAATCGCAATGCGATCGA
Found at i:109373 original size:21 final size:21
Alignment explanation
Indices: 109343--109520 Score: 143
Period size: 21 Copynumber: 8.5 Consensus size: 21
109333 GATTTACATA
*
109343 TTCGCATTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
*
109364 TTCGCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
109385 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
*
109408 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
109427 TTCGCGTTGCAATTTATTCCAAG
1 TTCGCGTTGCGA--TAGTCCAAG
* * *
109450 TT--CGTTGCGATACTCGAAA
1 TTCGCGTTGCGATAGTCCAAG
* *
109469 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
*
109492 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
109511 TTCGCGTTGC
1 TTCGCGTTGC
109521 TTCAAAATTA
Statistics
Matches: 125, Mismatches: 20, Indels: 24
0.74 0.12 0.14
Matches are distributed among these distances:
19 24 0.19
21 75 0.60
23 26 0.21
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.34
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:109395 original size:42 final size:41
Alignment explanation
Indices: 109368--109520 Score: 243
Period size: 42 Copynumber: 3.7 Consensus size: 41
109358 TCCAAGTTCG
109368 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGA-TTATTCCAAATT
* *
109410 CGTTGCGATAGTCGAAGTTCGCGTTGCAATTTATTCCAAGTT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGA-TTATTCCAAATT
* *
109452 CGTTGCGATACTCGAAATTCGCGTTGCGATTTATTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGA-TTATTCCAAATT
109494 CGTTGCGATAGTCGAAGTTCGCGTTGC
1 CGTTGCGATAGTCGAAGTTCGCGTTGC
109521 TTCAAAATTA
Statistics
Matches: 103, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 103 1.00
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.35
Consensus pattern (41 bp):
CGTTGCGATAGTCGAAGTTCGCGTTGCGATTATTCCAAATT
Found at i:109458 original size:84 final size:85
Alignment explanation
Indices: 109358--109520 Score: 292
Period size: 84 Copynumber: 1.9 Consensus size: 85
109348 ATTGCGATAG
* *
109358 TCCAAGTTCGCGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTC
1 TCCAAGTTC-CGTTGCGATACTCGAAATTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTC
109423 GAAGTTCGCGTTGCAATTTAT
65 GAAGTTCGCGTTGCAATTTAT
109444 TCCAAGTT-CGTTGCGATACTCGAAATTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCG
1 TCCAAGTTCCGTTGCGATACTCGAAATTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCG
109508 AAGTTCGCGTTGC
66 AAGTTCGCGTTGC
109521 TTCAAAATTA
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
84 67 0.89
86 8 0.11
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.34
Consensus pattern (85 bp):
TCCAAGTTCCGTTGCGATACTCGAAATTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTCG
AAGTTCGCGTTGCAATTTAT
Found at i:113833 original size:18 final size:19
Alignment explanation
Indices: 113812--113848 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
113802 TTTTTGATCC
113812 CTTGTTTGT-TTTAAATTT
1 CTTGTTTGTATTTAAATTT
*
113830 CTTGTTTGTATTTTAATTT
1 CTTGTTTGTATTTAAATTT
113849 GTGATTTGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.16, C:0.05, G:0.11, T:0.68
Consensus pattern (19 bp):
CTTGTTTGTATTTAAATTT
Found at i:121036 original size:36 final size:36
Alignment explanation
Indices: 120989--121140 Score: 195
Period size: 36 Copynumber: 4.3 Consensus size: 36
120979 TGAGATTGGG
*
120989 GCAAACCATCTTAAGCCTTCACCAAAGAGGAGTGAA
1 GCAAACCATCTTAAGCCTTCACCAAAGAGTAGTGAA
* **
121025 GCAAACCATCTTAAGCCTTCATCGGAGAGTAGTGAA
1 GCAAACCATCTTAAGCCTTCACCAAAGAGTAGTGAA
*
121061 GC-AATCATCTTAAGCCTTCA-CAGAAGAGTAGTGAA
1 GCAAACCATCTTAAGCCTTCACCA-AAGAGTAGTGAA
*
121096 GC--ACCATCTTAAGCCTTCACCTAAGAGTAGTGAA
1 GCAAACCATCTTAAGCCTTCACCAAAGAGTAGTGAA
*
121130 ACAAATCCATC
1 GCAAA-CCATC
121141 CATAAAACCT
Statistics
Matches: 101, Mismatches: 10, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
34 30 0.30
35 31 0.31
36 35 0.35
37 5 0.05
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.21
Consensus pattern (36 bp):
GCAAACCATCTTAAGCCTTCACCAAAGAGTAGTGAA
Found at i:121495 original size:42 final size:41
Alignment explanation
Indices: 121429--121530 Score: 105
Period size: 42 Copynumber: 2.5 Consensus size: 41
121419 TTCACAATTT
* * * * *
121429 ATAAGTCCTTCGGGAAATCAGTAAGTCTTTCGAGCATGATG
1 ATAAATCCTTCGGGACATCAGTAAGCCTTTAGAGCAAGATG
* * *
121470 CTTAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATG
1 -ATAAATCCTTCGGGACATCAGTAAGCCTTTAGAGCAAGATG
* *
121512 ATAAGTCCTTCGGGCCATC
1 ATAAATCCTTCGGGACATC
121531 CATAAAACCT
Statistics
Matches: 49, Mismatches: 11, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
41 16 0.33
42 33 0.67
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (41 bp):
ATAAATCCTTCGGGACATCAGTAAGCCTTTAGAGCAAGATG
Found at i:121915 original size:222 final size:219
Alignment explanation
Indices: 121256--121937 Score: 1106
Period size: 216 Copynumber: 3.1 Consensus size: 219
121246 TCACAATTTA
*
121256 TAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGTAAGATGATAAGTCCTTCGGGCCATCCATAAA
1 TAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAA
* * *
121321 ACCTTCGGGTAGGATATTTTCACATGAATTTGAAAATGAAAAAA--AA-GATGTTTTAAGAAGAT
66 ACCTTCGGGTAGGATGTTTTCACATTAATTTGAAAATAAAAAAATGAATGATGTTTTAAGAAGAT
** *
121383 GAAATTTTTGAAAACGAAGAATATGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGAAATC
131 GAAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGACATC
121448 AGTAAGTCTTTCGAGCATGATGCT
196 AGTAAGTCTTTCGAGCATGATGCT
121472 TAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAA
1 TAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAA
121537 ACCTTCGGGTAGGATGTTTTCACATTAATTTG--AA-AAAAAAATGAATGATGTTTTAAGAAGAT
66 ACCTTCGGGTAGGATGTTTTCACATTAATTTGAAAATAAAAAAATGAATGATGTTTTAAGAAGAT
* *
121599 GAAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTTGGGCCATC
131 GAAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGACATC
* *
121664 AGTAAATCTTTTGAGCATGATGCT
196 AGTAAGTCTTTCGAGCATGATGCT
*
121688 TAAATCCTTTGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAA
1 TAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAA
*
121753 ACCTTCGGGTAGGATGTTTTCATATTAATTTGAAAATAATAAAAAAATGAATGATGTTTTAAGAA
66 ACCTTCGGGTAGGATGTTTTCACATTAATTTG--AA-AATAAAAAAATGAATGATGTTTTAAGAA
* * * * *
121818 GATAAAATTTTTGAAAACGAAGAATGCAATTTTCAAAATTTCATAATTTATAAGTTCTTCGGGTC
128 GATGAAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGAC
*
121883 ATCAGTAAGTCTTTCGAGCATGATGAT
193 ATCAGTAAGTCTTTCGAGCATGATGCT
* *
121910 TAAATCCTTCGGGTAATTTGTAAGCCTT
1 TAAATCCTTCGGGTCATCTGTAAGCCTT
121938 CACCAAAGAG
Statistics
Matches: 432, Mismatches: 25, Indels: 12
0.92 0.05 0.03
Matches are distributed among these distances:
213 6 0.01
214 2 0.00
215 2 0.00
216 287 0.66
221 2 0.00
222 133 0.31
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (219 bp):
TAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAGTCCTTCGGGCCATCCATAAA
ACCTTCGGGTAGGATGTTTTCACATTAATTTGAAAATAAAAAAATGAATGATGTTTTAAGAAGAT
GAAATTTTTGAAAACGAAGAATGCGATTTTCAAAATTTCACAATTTATAAGTCCTTCGGGACATC
AGTAAGTCTTTCGAGCATGATGCT
Found at i:122140 original size:55 final size:54
Alignment explanation
Indices: 121969--122144 Score: 151
Period size: 57 Copynumber: 3.1 Consensus size: 54
121959 AATCACATCA
* *
121969 GAAGATTTCTCGAGTTCTATACTCCTTGAAAGGAATAGGGAGC-GAACCCAT-TTTTCT
1 GAAGATTTATCGAGTTCTATACTCC-TGAAA-GAATAGGGAGCAG-A--CATGTTTTCC
* * * * * * *
122026 GAAGATTTATTGAATTCTATACTCCCTGAAAAGAATAGAGAGAAAATATGTTGAT-C
1 GAAGATTTATCGAGTTCTATACT-CCTG-AAAGAATAGGGAGCAGACATGTT-TTCC
* *
122082 GAAGATTAATCGAGTCCTATACTCTCTGAAAGAATAGGGAGCAGACATGTTTTCC
1 GAAGATTTATCGAGTTCTATACTC-CTGAAAGAATAGGGAGCAGACATGTTTTCC
122137 GAAGATTT
1 GAAGATTT
122145 TTAAGTCTCA
Statistics
Matches: 93, Mismatches: 19, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
54 1 0.01
55 30 0.32
56 24 0.26
57 33 0.35
58 5 0.05
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.30
Consensus pattern (54 bp):
GAAGATTTATCGAGTTCTATACTCCTGAAAGAATAGGGAGCAGACATGTTTTCC
Found at i:127155 original size:19 final size:19
Alignment explanation
Indices: 127101--127157 Score: 96
Period size: 19 Copynumber: 3.0 Consensus size: 19
127091 AAAGGACCAA
* *
127101 TAAATCGCAATGCGATATC
1 TAAATCGCAACGCGATCTC
127120 TAAATCGCAACGCGATCTC
1 TAAATCGCAACGCGATCTC
127139 TAAATCGCAACGCGATCTC
1 TAAATCGCAACGCGATCTC
127158 CAGTATCGCA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 36 1.00
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (19 bp):
TAAATCGCAACGCGATCTC
Found at i:127308 original size:21 final size:21
Alignment explanation
Indices: 127284--127358 Score: 73
Period size: 21 Copynumber: 3.6 Consensus size: 21
127274 GATTCTGACT
*
127284 ATCGCAACGTGATAATACAAA
1 ATCGCAACGCGATAATACAAA
** *
127305 ATCGCAACGCGATTCTGAC--T
1 ATCGCAACGCGATAAT-ACAAA
*
127325 ATCGAAACGCGATAATACAAA
1 ATCGCAACGCGATAATACAAA
*
127346 ATCGCAATGCGAT
1 ATCGCAACGCGAT
127359 TTTCAAAGCG
Statistics
Matches: 41, Mismatches: 10, Indels: 6
0.72 0.18 0.11
Matches are distributed among these distances:
19 2 0.05
20 13 0.32
21 24 0.59
22 2 0.05
ACGTcount: A:0.40, C:0.23, G:0.17, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGATAATACAAA
Found at i:127349 original size:41 final size:41
Alignment explanation
Indices: 127262--127359 Score: 151
Period size: 41 Copynumber: 2.4 Consensus size: 41
127252 GCGAATATGT
* * * *
127262 AAATCACAACACGATTCTGACTATCGCAACGTGATAATACA
1 AAATCGCAACGCGATTCTGACTATCGAAACGCGATAATACA
127303 AAATCGCAACGCGATTCTGACTATCGAAACGCGATAATACA
1 AAATCGCAACGCGATTCTGACTATCGAAACGCGATAATACA
*
127344 AAATCGCAATGCGATT
1 AAATCGCAACGCGATT
127360 TTCAAAGCGC
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.40, C:0.23, G:0.15, T:0.21
Consensus pattern (41 bp):
AAATCGCAACGCGATTCTGACTATCGAAACGCGATAATACA
Found at i:127934 original size:20 final size:20
Alignment explanation
Indices: 127895--127943 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
127885 GTGATTATCT
*
127895 CGTTGCAATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCG
**
127915 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCG
*
127935 TGTTGCGAT
1 CGTTGCGAT
127944 TTTCATTTCC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.37
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCG
Found at i:127949 original size:20 final size:20
Alignment explanation
Indices: 127911--127966 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
127901 AATAGTCAAA
* **
127911 TTCGCGTTGCGATAGTCATT
1 TTCGTGTTGCGATTTTCATT
127931 TTCGTGTTGCGATTTTCATT
1 TTCGTGTTGCGATTTTCATT
* *
127951 TCCGTGTTACGATTTT
1 TTCGTGTTGCGATTTT
127967 AAGTTTCAGA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.12, C:0.18, G:0.21, T:0.48
Consensus pattern (20 bp):
TTCGTGTTGCGATTTTCATT
Found at i:129178 original size:20 final size:20
Alignment explanation
Indices: 129153--129191 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
129143 ACTAGTACAC
129153 GATAGTCATTTCCGCGTTGT
1 GATAGTCATTTCCGCGTTGT
129173 GATAGTCATTTCCGCGTTG
1 GATAGTCATTTCCGCGTTG
129192 CGATTTTAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.15, C:0.21, G:0.26, T:0.38
Consensus pattern (20 bp):
GATAGTCATTTCCGCGTTGT
Found at i:129213 original size:20 final size:20
Alignment explanation
Indices: 129188--129225 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
129178 TCATTTCCGC
129188 GTTGCGATTTTAAGTTTCGT
1 GTTGCGATTTTAAGTTTCGT
129208 GTTGCGATTTTAAGTTTC
1 GTTGCGATTTTAAGTTTC
129226 AGAACCTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.16, C:0.11, G:0.24, T:0.50
Consensus pattern (20 bp):
GTTGCGATTTTAAGTTTCGT
Found at i:129747 original size:18 final size:20
Alignment explanation
Indices: 129710--129749 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
129700 CCTTTCATCG
129710 TTCAAGAGGCCTCTCCTATCA
1 TTCAAGAGG-CTCTCCTATCA
129731 TTCAAGAGG-TC-CCTATCA
1 TTCAAGAGGCTCTCCTATCA
129749 T
1 T
129750 CCCTCAAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.42
19 2 0.11
21 9 0.47
ACGTcount: A:0.25, C:0.30, G:0.15, T:0.30
Consensus pattern (20 bp):
TTCAAGAGGCTCTCCTATCA
Found at i:129777 original size:21 final size:21
Alignment explanation
Indices: 129753--129825 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 21
129743 CTATCATCCC
129753 TCAAGAGTCCCCTCCCACCGT
1 TCAAGAGTCCCCTCCCACCGT
* ** *
129774 TCAAGAGGCCCCTGTCATCGT
1 TCAAGAGTCCCCTCCCACCGT
* *
129795 TGAAGAGGT-CCCTCCCACCAT
1 TCAAGA-GTCCCCTCCCACCGT
129816 TCAAGAGTCC
1 TCAAGAGTCC
129826 GATTCACACG
Statistics
Matches: 39, Mismatches: 11, Indels: 4
0.72 0.20 0.07
Matches are distributed among these distances:
20 2 0.05
21 36 0.92
22 1 0.03
ACGTcount: A:0.22, C:0.38, G:0.19, T:0.21
Consensus pattern (21 bp):
TCAAGAGTCCCCTCCCACCGT
Found at i:129777 original size:42 final size:42
Alignment explanation
Indices: 129711--129822 Score: 120
Period size: 42 Copynumber: 2.7 Consensus size: 42
129701 CTTTCATCGT
* * *
129711 TCAAGAGG-CCTCTCCTATCATTCAAGAGGTCCCTATCATCCC
1 TCAAGAGGTCC-CTCCCACCATTCAAGAGGCCCCTATCATCCC
* * **
129753 TCAAGA-GTCCCCTCCCACCGTTCAAGAGGCCCCTGTCATCGT
1 TCAAGAGGT-CCCTCCCACCATTCAAGAGGCCCCTATCATCCC
*
129795 TGAAGAGGTCCCTCCCACCATTCAAGAG
1 TCAAGAGGTCCCTCCCACCATTCAAGAG
129823 TCCGATTCAC
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
41 1 0.02
42 53 0.91
43 4 0.07
ACGTcount: A:0.23, C:0.37, G:0.18, T:0.22
Consensus pattern (42 bp):
TCAAGAGGTCCCTCCCACCATTCAAGAGGCCCCTATCATCCC
Found at i:130578 original size:3 final size:3
Alignment explanation
Indices: 130563--130605 Score: 61
Period size: 3 Copynumber: 14.7 Consensus size: 3
130553 GGTTAAAAAA
* *
130563 TAT TAT TA- AAT TAT TAT TAT TAT TAT TAT TAT TAG TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
130606 AGTGTGTTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
2 1 0.03
3 34 0.97
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:132834 original size:30 final size:30
Alignment explanation
Indices: 132769--132834 Score: 71
Period size: 30 Copynumber: 2.2 Consensus size: 30
132759 ATATTTTTAC
* *
132769 TATTTTAGTCTTTTAAATTTCTGTTTGTGT
1 TATTTTAGTCCTTTAAATTTCTATTTGTGT
* * *
132799 CATTTTAGTCCTTTAATTTTTTAATTT-TGT
1 TATTTTAGTCCTTTAAATTTCT-ATTTGTGT
132829 TATTTT
1 TATTTT
132835 GATTCTTAAG
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
30 26 0.90
31 3 0.10
ACGTcount: A:0.18, C:0.08, G:0.09, T:0.65
Consensus pattern (30 bp):
TATTTTAGTCCTTTAAATTTCTATTTGTGT
Found at i:134070 original size:14 final size:14
Alignment explanation
Indices: 134051--134087 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
134041 GCTTGTTTAC
134051 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
134065 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
134079 TTGATTTGT
1 TTGATTTGT
134088 TTAATTGATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.49
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:134232 original size:20 final size:21
Alignment explanation
Indices: 134207--134260 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
134197 AGGTACACTT
134207 TCGCAACGCT-AAA-CTCAAAA
1 TCGCAACGCTGAAAGC-CAAAA
*
134227 TCGCAATG-TGAAAGCCAAAA
1 TCGCAACGCTGAAAGCCAAAA
134247 TCGCAACGC-GAAAG
1 TCGCAACGCTGAAAG
134261 TTAATTCGCG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
19 1 0.03
20 27 0.93
21 1 0.03
ACGTcount: A:0.43, C:0.26, G:0.19, T:0.13
Consensus pattern (21 bp):
TCGCAACGCTGAAAGCCAAAA
Found at i:134294 original size:20 final size:20
Alignment explanation
Indices: 134263--134399 Score: 160
Period size: 20 Copynumber: 7.2 Consensus size: 20
134253 CGCGAAAGTT
*
134263 AATTCGCGTTGCGATAGTCT
1 AATTCGCGTTGCGATAGTCA
* *
134283 AATACGCTTTGCGAT--T--
1 AATTCGCGTTGCGATAGTCA
*
134299 --TTCTCGTTGCGATAGTCA
1 AATTCGCGTTGCGATAGTCA
* *
134317 AATTCCCGTTGCGATAATCA
1 AATTCGCGTTGCGATAGTCA
*
134337 AATTCACGTTGCGATAGTCA
1 AATTCGCGTTGCGATAGTCA
134357 AATTCGCGTTGCGATAGTCA
1 AATTCGCGTTGCGATAGTCA
*
134377 AATTCGCATTGCGATAGTCA
1 AATTCGCGTTGCGATAGTCA
134397 AAT
1 AAT
134400 GAATGTGTAA
Statistics
Matches: 100, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
14 10 0.10
16 1 0.01
18 1 0.01
20 88 0.88
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.33
Consensus pattern (20 bp):
AATTCGCGTTGCGATAGTCA
Found at i:136895 original size:24 final size:24
Alignment explanation
Indices: 136861--136914 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
136851 CTGAAGCATC
136861 ATCAAAATCCGAGTATAT-ACCAAG
1 ATCAAAATCCGAGTAT-TGACCAAG
* *
136885 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
136909 ATCAAA
1 ATCAAA
136915 TTTTGAGTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
23 1 0.04
24 26 0.96
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:137614 original size:21 final size:17
Alignment explanation
Indices: 137568--137603 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
137558 CGGATGGGGA
137568 AGGATGTCGTTGGATAT
1 AGGATGTCGTTGGATAT
137585 AGGATGTCGTTGGATAT
1 AGGATGTCGTTGGATAT
137602 AG
1 AG
137604 AACGGATGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.25, C:0.06, G:0.36, T:0.33
Consensus pattern (17 bp):
AGGATGTCGTTGGATAT
Found at i:137776 original size:20 final size:20
Alignment explanation
Indices: 137751--137819 Score: 68
Period size: 20 Copynumber: 3.4 Consensus size: 20
137741 GAAATTCAGT
137751 GTTGCGATAGTCAGAATCGC
1 GTTGCGATAGTCAGAATCGC
* **
137771 GTTGCGATTTTGT-ATTATCGC
1 GTTGCGA--TAGTCAGAATCGC
* *
137792 ATTGCGATAGTCAGAATAGC
1 GTTGCGATAGTCAGAATCGC
137812 GTTGCGAT
1 GTTGCGAT
137820 TTACATATTC
Statistics
Matches: 37, Mismatches: 9, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
19 3 0.08
20 19 0.51
21 12 0.32
22 3 0.08
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.33
Consensus pattern (20 bp):
GTTGCGATAGTCAGAATCGC
Found at i:137863 original size:22 final size:21
Alignment explanation
Indices: 137840--137880 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
137830 GCATTGCAAT
*
137840 TTTCTAAAATCGCAACGCGAA
1 TTTCGAAAATCGCAACGCGAA
* *
137861 TTTGGAAAATCGCAATGCGA
1 TTTCGAAAATCGCAACGCGA
137881 TAGTCAAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.24
Consensus pattern (21 bp):
TTTCGAAAATCGCAACGCGAA
Found at i:137901 original size:41 final size:41
Alignment explanation
Indices: 137730--137909 Score: 130
Period size: 41 Copynumber: 4.4 Consensus size: 41
137720 ACTAAAACAT
* ** *
137730 GTTGCGAATTT-GAAATTCAGTGTTGCGATAGTCAGAATCGC
1 GTTGCGAATTTGGAAAATC-GCATTGCGATAGTCAAAATCGC
* * ** * *
137771 GTTGCGATTTTGTATTATCGCATTGCGATAGTCAGAATAGC
1 GTTGCGAATTTGGAAAATCGCATTGCGATAGTCAAAATCGC
** * * * **
137812 GTTGCG-ATTTACATATTCGCATTGCAATTTTCTAAAATCGC
1 GTTGCGAATTTGGAAAATCGCATTGCGATAGTC-AAAATCGC
*** *
137853 AACGCGAATTTGGAAAATCGCAATGCGATAGTCAAAATCGC
1 GTTGCGAATTTGGAAAATCGCATTGCGATAGTCAAAATCGC
*
137894 GTTGCGAATCTGGAAA
1 GTTGCGAATTTGGAAA
137910 TTGATTTGCG
Statistics
Matches: 103, Mismatches: 33, Indels: 6
0.73 0.23 0.04
Matches are distributed among these distances:
40 18 0.17
41 64 0.62
42 21 0.20
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (41 bp):
GTTGCGAATTTGGAAAATCGCATTGCGATAGTCAAAATCGC
Found at i:140934 original size:24 final size:25
Alignment explanation
Indices: 140907--140997 Score: 71
Period size: 29 Copynumber: 3.6 Consensus size: 25
140897 ATATATTAAT
140907 TTTTTA-AATAATTAAAATAATATA
1 TTTTTATAATAATTAAAATAATATA
* * *
140931 TTTTATAATAATATATTTACAATTATGTA
1 TTTT-T-ATAATA-A-TTAAAATAATATA
* *
140960 TTTTT-TAAGTGATTAAATTAATATA
1 TTTTTATAA-TAATTAAAATAATATA
140985 -TTTTATAATAATT
1 TTTTTATAATAATT
140998 TTTATATTTT
Statistics
Matches: 51, Mismatches: 9, Indels: 14
0.69 0.12 0.19
Matches are distributed among these distances:
24 12 0.24
25 13 0.25
26 5 0.10
27 5 0.10
28 2 0.04
29 14 0.27
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (25 bp):
TTTTTATAATAATTAAAATAATATA
Found at i:141024 original size:21 final size:21
Alignment explanation
Indices: 140962--141043 Score: 71
Period size: 21 Copynumber: 3.9 Consensus size: 21
140952 ATTATGTATT
*
140962 TTTTAAGTGATTAAATTAATATA
1 TTTTAA-TAATTAAA-TAATATA
* **
140985 TTTT-ATAA-TAATTTTTATA
1 TTTTAATAATTAAATAATATA
141004 TTTTAATAATTAAATAATATA
1 TTTTAATAATTAAATAATATA
*
141025 TCTTAATAATATAAA-AATA
1 TTTTAATAAT-TAAATAATA
141044 AAAATTCTTA
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
19 9 0.19
20 7 0.15
21 23 0.48
22 5 0.10
23 4 0.08
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.49
Consensus pattern (21 bp):
TTTTAATAATTAAATAATATA
Found at i:141418 original size:2 final size:2
Alignment explanation
Indices: 141405--141442 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
141395 ACATCTGTAA
*
141405 AT AT AA 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
141443 TCTCAATTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:142002 original size:26 final size:26
Alignment explanation
Indices: 141955--142116 Score: 103
Period size: 26 Copynumber: 5.9 Consensus size: 26
141945 AGCTTTTATA
*
141955 TATATATATTATAGTTTTGAAAAATAG
1 TATATATA-TATAGTTTAGAAAAATAG
* *
141982 TATATACATATAGTTTAGAAAACTAAATCG
1 TATATATATATAGTTTAG--AA--AAATAG
*
142012 TATATATTACATAGTTTA-AAAAATAG
1 TATATA-TATATAGTTTAGAAAAATAG
* *
142038 TATATATATGTACTTTGAGAAACAAAATAG
1 TATATATATATAGTTT-AG--A-AAAATAG
* * * *
142068 TATATATTATATAATTTTG-GAAATTG
1 TATATA-TATATAGTTTAGAAAAATAG
* *
142094 TGTATATATGTAGTTTAGAAAAA
1 TATATATATATAGTTTAGAAAAA
142117 CAAAACAATA
Statistics
Matches: 104, Mismatches: 19, Indels: 25
0.70 0.13 0.17
Matches are distributed among these distances:
25 16 0.15
26 34 0.33
27 7 0.07
28 4 0.04
29 1 0.01
30 25 0.24
31 17 0.16
ACGTcount: A:0.45, C:0.04, G:0.12, T:0.40
Consensus pattern (26 bp):
TATATATATATAGTTTAGAAAAATAG
Found at i:142043 original size:56 final size:56
Alignment explanation
Indices: 141957--142085 Score: 147
Period size: 56 Copynumber: 2.3 Consensus size: 56
141947 CTTTTATATA
* * * *
141957 TATATATT-ATAGTTTTGAAAAATAGTATATACATATAGTTT-AGAAAACTAAATCG
1 TATATATTAATAGTTTTAAAAAATAGTATATACATATACTTTGAG-AAACAAAATAG
* *
142012 TATATATTACATAG-TTTAAAAAATAGTATATATATGTACTTTGAGAAACAAAATAG
1 TATATATTA-ATAGTTTTAAAAAATAGTATATACATATACTTTGAGAAACAAAATAG
*
142068 TATATATTATATAATTTT
1 TATATATTA-ATAGTTTT
142086 GGAAATTGTG
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
55 8 0.13
56 45 0.73
57 9 0.15
ACGTcount: A:0.46, C:0.05, G:0.09, T:0.40
Consensus pattern (56 bp):
TATATATTAATAGTTTTAAAAAATAGTATATACATATACTTTGAGAAACAAAATAG
Found at i:166793 original size:10 final size:10
Alignment explanation
Indices: 166778--166852 Score: 61
Period size: 10 Copynumber: 7.7 Consensus size: 10
166768 CATTTAATAA
166778 ATAAACGAAC
1 ATAAACGAAC
166788 ATAAACGAAC
1 ATAAACGAAC
166798 ----ACGAAC
1 ATAAACGAAC
166804 ATAAACGAAC
1 ATAAACGAAC
** *
166814 ACGAAC-ATAA
1 ATAAACGA-AC
166824 ATGAACACGAAC
1 AT-AA-ACGAAC
166836 ATAAACGAAC
1 ATAAACGAAC
166846 ATAAACG
1 ATAAACG
166853 TTGGAGACCC
Statistics
Matches: 51, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
6 6 0.12
9 1 0.02
10 35 0.69
11 3 0.06
12 5 0.10
13 1 0.02
ACGTcount: A:0.57, C:0.21, G:0.12, T:0.09
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:166803 original size:16 final size:16
Alignment explanation
Indices: 166782--166846 Score: 121
Period size: 16 Copynumber: 4.1 Consensus size: 16
166772 TAATAAATAA
166782 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
166798 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
166814 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
166830 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
166846 A
1 A
166847 TAAACGTTGG
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:0.57, C:0.23, G:0.12, T:0.08
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:167614 original size:14 final size:14
Alignment explanation
Indices: 167597--167652 Score: 66
Period size: 14 Copynumber: 4.3 Consensus size: 14
167587 AATGAACATA
167597 AACGAACATAATCG
1 AACGAACATAATCG
167611 AACGAACAT-A---
1 AACGAACATAATCG
* *
167621 AACAAACATAACCG
1 AACGAACATAATCG
167635 AACGAACATAATCG
1 AACGAACATAATCG
167649 AACG
1 AACG
167653 TTCACGAACG
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
10 8 0.23
11 1 0.03
13 1 0.03
14 25 0.71
ACGTcount: A:0.54, C:0.23, G:0.12, T:0.11
Consensus pattern (14 bp):
AACGAACATAATCG
Found at i:167617 original size:24 final size:24
Alignment explanation
Indices: 167577--167651 Score: 98
Period size: 24 Copynumber: 3.1 Consensus size: 24
167567 GATTGAGTTA
*
167577 AACATAAAT-GAATGAACATAAACG
1 AACAT-AATCGAACGAACATAAACG
*
167601 AACATAATCGAACGAACATAAACA
1 AACATAATCGAACGAACATAAACG
* *
167625 AACATAACCGAACGAACATAATCG
1 AACATAATCGAACGAACATAAACG
167649 AAC
1 AAC
167652 GTTCACGAAC
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
23 3 0.07
24 42 0.93
ACGTcount: A:0.56, C:0.20, G:0.11, T:0.13
Consensus pattern (24 bp):
AACATAATCGAACGAACATAAACG
Found at i:168990 original size:25 final size:25
Alignment explanation
Indices: 168956--169005 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
168946 TGGTAGTGTT
168956 GGTATTGATATATATGTCCAGTTAC
1 GGTATTGATATATATGTCCAGTTAC
168981 GGTATTGATATATATGTCCAGTTAC
1 GGTATTGATATATATGTCCAGTTAC
169006 AGTCATTTCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.40
Consensus pattern (25 bp):
GGTATTGATATATATGTCCAGTTAC
Found at i:169366 original size:44 final size:44
Alignment explanation
Indices: 169306--169403 Score: 187
Period size: 44 Copynumber: 2.2 Consensus size: 44
169296 ATGTCCGTAC
169306 ATTATCTTAAATAATTTGGTAAATTACATATTTAGTCACCAATT
1 ATTATCTTAAATAATTTGGTAAATTACATATTTAGTCACCAATT
169350 ATTATCTTAAATAATTTGGTAAATTACATATTTAGTCACCAATT
1 ATTATCTTAAATAATTTGGTAAATTACATATTTAGTCACCAATT
*
169394 ATTATTTTAA
1 ATTATCTTAA
169404 TTTTTCTTTG
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 53 1.00
ACGTcount: A:0.39, C:0.10, G:0.06, T:0.45
Consensus pattern (44 bp):
ATTATCTTAAATAATTTGGTAAATTACATATTTAGTCACCAATT
Found at i:173535 original size:20 final size:20
Alignment explanation
Indices: 173510--173562 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
173500 AGAAATTTGT
173510 TAGTATCGGTACTACCTAGA
1 TAGTATCGGTACTACCTAGA
173530 TAGTATCGGTACTACCTAGA
1 TAGTATCGGTACTACCTAGA
*
173550 TAGTATCGATACT
1 TAGTATCGGTACT
173563 TCTCTTACCT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (20 bp):
TAGTATCGGTACTACCTAGA
Found at i:173805 original size:35 final size:38
Alignment explanation
Indices: 173764--173836 Score: 125
Period size: 35 Copynumber: 2.0 Consensus size: 38
173754 TATCAAAATA
173764 TATAAAACATGGTTCAA-AATCT-CCCC-TTTTGATAT
1 TATAAAACATGGTTCAAGAATCTCCCCCTTTTTGATAT
173799 TATAAAACATGGTTCAAGAATCTCCCCCTTTTTGATAT
1 TATAAAACATGGTTCAAGAATCTCCCCCTTTTTGATAT
173837 AACAAAATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
35 17 0.49
36 5 0.14
37 4 0.11
38 9 0.26
ACGTcount: A:0.33, C:0.21, G:0.10, T:0.37
Consensus pattern (38 bp):
TATAAAACATGGTTCAAGAATCTCCCCCTTTTTGATAT
Found at i:176198 original size:20 final size:20
Alignment explanation
Indices: 176173--176221 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
176163 GGTTGTTTCT
*
176173 AGCCGTTGTGAGTGATTTGG
1 AGCCGTTGGGAGTGATTTGG
176193 AGCCGTTGGGAGTGATTTGG
1 AGCCGTTGGGAGTGATTTGG
176213 AGCCGTTGG
1 AGCCGTTGG
176222 AAATGTTTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.14, C:0.12, G:0.43, T:0.31
Consensus pattern (20 bp):
AGCCGTTGGGAGTGATTTGG
Found at i:177568 original size:11 final size:11
Alignment explanation
Indices: 177552--177582 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
177542 GGGTTGGCCG
177552 AAACCCGACCC
1 AAACCCGACCC
177563 AAACCCGACCC
1 AAACCCGACCC
177574 AAACCCGAC
1 AAACCCGAC
177583 TCATGCCCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.39, C:0.52, G:0.10, T:0.00
Consensus pattern (11 bp):
AAACCCGACCC
Found at i:179874 original size:24 final size:24
Alignment explanation
Indices: 179846--179893 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
179836 TTGGGTCAAA
*
179846 GTCAACTATGGTCAAAGTCAACAG
1 GTCAACTAGGGTCAAAGTCAACAG
* * *
179870 GTCAAGTCGGGTCAAAGTTAACAG
1 GTCAACTAGGGTCAAAGTCAACAG
179894 TACAAATTGG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.35, C:0.19, G:0.25, T:0.21
Consensus pattern (24 bp):
GTCAACTAGGGTCAAAGTCAACAG
Found at i:189479 original size:18 final size:18
Alignment explanation
Indices: 189456--189517 Score: 106
Period size: 18 Copynumber: 3.4 Consensus size: 18
189446 AAAACATGTT
**
189456 TATGAACAGTAAAATATG
1 TATGAACAGTAAAATACA
189474 TATGAACAGTAAAATACA
1 TATGAACAGTAAAATACA
189492 TATGAACAGTAAAATACA
1 TATGAACAGTAAAATACA
189510 TATGAACA
1 TATGAACA
189518 ATATCCTATG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 42 1.00
ACGTcount: A:0.53, C:0.10, G:0.13, T:0.24
Consensus pattern (18 bp):
TATGAACAGTAAAATACA
Found at i:190413 original size:24 final size:24
Alignment explanation
Indices: 190386--190456 Score: 90
Period size: 24 Copynumber: 3.0 Consensus size: 24
190376 CACCACAACT
* *
190386 CGTATAAATTGTACCGAAGTGCCA
1 CGTAGAAATTGCACCGAAGTGCCA
* *
190410 CGTAGAATTTGCACCGAAGTGCCG
1 CGTAGAAATTGCACCGAAGTGCCA
*
190434 CGTAGAAA-TGCACCGTAGTGCCA
1 CGTAGAAATTGCACCGAAGTGCCA
190457 TATAAGATTG
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
23 13 0.32
24 27 0.68
ACGTcount: A:0.30, C:0.24, G:0.25, T:0.21
Consensus pattern (24 bp):
CGTAGAAATTGCACCGAAGTGCCA
Found at i:194928 original size:22 final size:21
Alignment explanation
Indices: 194878--194933 Score: 62
Period size: 22 Copynumber: 2.7 Consensus size: 21
194868 CAGACCTCGT
*
194878 GGGGGTATTGATT-CCCTCAA
1 GGGGGTATCGATTCCCCTCAA
* *
194898 -GGGGAATCGGTTCCCCTTCAA
1 GGGGGTATCGATTCCCC-TCAA
194919 GGGGGTATCGATTCC
1 GGGGGTATCGATTCC
194934 TCATGCACAA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
19 9 0.32
20 3 0.11
21 4 0.14
22 12 0.43
ACGTcount: A:0.18, C:0.23, G:0.32, T:0.27
Consensus pattern (21 bp):
GGGGGTATCGATTCCCCTCAA
Found at i:200374 original size:20 final size:20
Alignment explanation
Indices: 200337--200375 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
200327 AGATTGAGTG
* * *
200337 GATTTTGATGTTGTTTGCAC
1 GATTTTAATGATGATTGCAC
200357 GATTTTAATGATGATTGCA
1 GATTTTAATGATGATTGCA
200376 AGTTTAGGAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (20 bp):
GATTTTAATGATGATTGCAC
Found at i:200604 original size:20 final size:20
Alignment explanation
Indices: 200575--200612 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
200565 CCCCTTCAAA
*
200575 GGGGGAATCGGTTCCCTCAT
1 GGGGGAATCGATTCCCTCAT
*
200595 GGGGGGATCGATTCCCTC
1 GGGGGAATCGATTCCCTC
200613 TGCACCAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.26, G:0.37, T:0.24
Consensus pattern (20 bp):
GGGGGAATCGATTCCCTCAT
Found at i:212562 original size:64 final size:62
Alignment explanation
Indices: 212473--212632 Score: 171
Period size: 64 Copynumber: 2.5 Consensus size: 62
212463 TTGTTTAAGG
* * * * *
212473 TGCATCGATGCACATGCAGTTCATCGATGCAT-TAATTTAAAAAGAAAACATCGAATAGGATTTA
1 TGCATCGATGCATAAGGAGTGCATCGATGCATCCAA-TT-AAAA-AAAACATCGAATAGGATTTA
* * *
212537 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAATACAAACATCGAATAGGATTTA
1 TGCATCGATGCATAAGGAGTGCATCGATGCAT-CCAATTAAAAAAAACATCGAATAGGATTTA
*
212600 TGCATCGATGCAT-GGTGTAGTGCATCGATGCAT
1 TGCATCGATGCATAAG-G-AGTGCATCGATGCAT
212633 ACCTCAATTA
Statistics
Matches: 83, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
62 1 0.01
63 33 0.40
64 46 0.55
65 2 0.02
66 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.28
Consensus pattern (62 bp):
TGCATCGATGCATAAGGAGTGCATCGATGCATCCAATTAAAAAAAACATCGAATAGGATTTA
Found at i:213318 original size:103 final size:103
Alignment explanation
Indices: 213093--213310 Score: 391
Period size: 103 Copynumber: 2.1 Consensus size: 103
213083 GTAGAGGGTC
* *
213093 TATGTGGTCATTCGGGACATATATGTATTCTTTGGAATATGTGTGAGGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATAC
* *
213158 TTGATCTTTGACATATGTATATGATTCTTAAGGAATGA
66 TTGATCCTTGACATATGTATATGATTCTTAAAGAATGA
213196 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATAC
1 TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATAC
*
213261 TTGATCCTTGGCATATGTATATGATTCTTAAAGAATGA
66 TTGATCCTTGACATATGTATATGATTCTTAAAGAATGA
213299 TATGTGGTCCTT
1 TATGTGGTCCTT
213311 ATGGACATTA
Statistics
Matches: 110, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 110 1.00
ACGTcount: A:0.26, C:0.12, G:0.24, T:0.38
Consensus pattern (103 bp):
TATGTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATAC
TTGATCCTTGACATATGTATATGATTCTTAAAGAATGA
Found at i:213384 original size:23 final size:23
Alignment explanation
Indices: 213335--213394 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
213325 ATAGCACTAC
*
213335 GGTGCAATTCTACGCGGAACTCT
1 GGTGCAATTCTATGCGGAACTCT
* *
213358 GGTGCAATTCTATGTGGCACT-T
1 GGTGCAATTCTATGCGGAACTCT
*
213380 AGGTGCAATTATATG
1 -GGTGCAATTCTATG
213395 AGCTGTGGTG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 1 0.03
23 31 0.97
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (23 bp):
GGTGCAATTCTATGCGGAACTCT
Found at i:219525 original size:64 final size:67
Alignment explanation
Indices: 219449--219576 Score: 210
Period size: 64 Copynumber: 2.0 Consensus size: 67
219439 TTTAAAAAGA
219449 AAACATCGAATAGGATTTATGCATCGATGCATAAG-G-AGTGCATCGATGCAT-CC-CCATTAAA
1 AAACATCGAATAGGATTTATGCATCGATGCAT-AGTGTAGTGCATCGATGCATACCTCCATTAAA
219510 TAC
65 TAC
*
219513 AAACATCGAATAGGATTTATGCATCGATGCATGGTGTAGTGCATCGATGCATACCTCCATTAAA
1 AAACATCGAATAGGATTTATGCATCGATGCATAGTGTAGTGCATCGATGCATACCTCCATTAAA
219577 AGATGAAAAT
Statistics
Matches: 59, Mismatches: 1, Indels: 5
0.91 0.02 0.08
Matches are distributed among these distances:
63 1 0.02
64 33 0.56
65 15 0.25
66 2 0.03
67 8 0.14
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.27
Consensus pattern (67 bp):
AAACATCGAATAGGATTTATGCATCGATGCATAGTGTAGTGCATCGATGCATACCTCCATTAAAT
AC
Done.