Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003314.1 Hibiscus syriacus cultivar Beakdansim tig00006976_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: 267825
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.33
File 1 of 2
Found at i:7735 original size:87 final size:87
Alignment explanation
Indices: 7642--7811 Score: 225
Period size: 87 Copynumber: 2.0 Consensus size: 87
7632 AGAATAGTGG
* * ** * *
7642 AACAAATCTACCCCGATTCAATC-TTCTCTGAAGAACAGTGGAATGAATCAAAATTTTCTAGATC
1 AACAAATCTACCCCAATTCAATCATCCT-TGAAGAACAGCAGAATGAATCAAAACTTTCCAGATC
*
7706 TAATCTTCCCTGAAGAGAAATGT
65 TAATCTTCCCTAAAGAGAAATGT
* * * *
7729 AACAAATCTGCCCCAATTCATTCATCCTTGAAGAGCAGCATAATGAATCAAAACTTTCCAGATCT
1 AACAAATCTACCCCAATTCAATCATCCTTGAAGAACAGCAGAATGAATCAAAACTTTCCAGATCT
7794 AATCTTCCCTAAAGAGAA
66 AATCTTCCCTAAAGAGAA
7812 GTGGAACGTA
Statistics
Matches: 71, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
87 68 0.96
88 3 0.04
ACGTcount: A:0.38, C:0.23, G:0.12, T:0.27
Consensus pattern (87 bp):
AACAAATCTACCCCAATTCAATCATCCTTGAAGAACAGCAGAATGAATCAAAACTTTCCAGATCT
AATCTTCCCTAAAGAGAAATGT
Found at i:7901 original size:133 final size:133
Alignment explanation
Indices: 7695--8228 Score: 624
Period size: 133 Copynumber: 4.0 Consensus size: 133
7685 TGAATCAAAA
* * * * * * * *
7695 TTTTCTAGATCTAATCTTCCCTGAAGAGAAATGTAACAAATCTGCCCCAATTCATTCATCCTTGA
1 TTTTCTAGATTTGATCTTCCCTGAAGAGCAGTGGAACAAATCTACCCCAATTCAATCTTCCTTGA
* * * * *
7760 AGAGCAGCATAATGAATCAAAACTTTCCAGATCTAATCTTCCCTAAAGAGAAGTGGAACGTATCC
66 AGAGCAGCAGAATGAATCAAAACTTTCCAGATCTGATCTTCCCTGAAGAGAAGTGGAGCATATCC
7825 ATT
131 ATT
** * * * * * * * *
7828 TTCCCTAGATTTGATATTCCTTAAAGAGAAGTGGAATAAATATACCCCGATTCAATCTTCCATGA
1 TTTTCTAGATTTGATCTTCCCTGAAGAGCAGTGGAACAAATCTACCCCAATTCAATCTTCCTTGA
* * *
7893 AGAGCAGCAGAATGAATCAAAACTTTCTAGATATGATCTTCCCTGAATA-ACAGTGGAGCATATC
66 AGAGCAGCAGAATGAATCAAAACTTTCCAGATCTGATCTTCCCTGAAGAGA-AGTGGAGCATATC
*
7957 CTTT
130 CATT
* * *
7961 TTTTCTAGATTTAATCTTCCCTGAAGAGCAGTGGAACAAATCTACCCCGATTCAATCTTTCTTGA
1 TTTTCTAGATTTGATCTTCCCTGAAGAGCAGTGGAACAAATCTACCCCAATTCAATCTTCCTTGA
* * * *
8026 AGAGCAGC-GAAATGAATCAAAATTTTCCAGATCTGGTCTTCACTGAAGAGTAGTGGAGCATATC
66 AGAGCAGCAG-AATGAATCAAAACTTTCCAGATCTGATCTTCCCTGAAGAGAAGTGGAGCATATC
8090 CATT
130 CATT
* *
8094 TTTTC-AGATTTGATCTTCCCTGAAGAGCAGTGGAGCAAATCTACCCCAATTCAATCTTCCCTGA
1 TTTTCTAGATTTGATCTTCCCTGAAGAGCAGTGGAACAAATCTACCCCAATTCAATCTTCCTTGA
* * ** * * * *
8158 AAAGTAGTGGAGTGAGTCAAAACTTTCCAAATCTGATCTTCCCTGAAGAGCAGTGGAGCATATCC
66 AGAGCAGCAGAATGAATCAAAACTTTCCAGATCTGATCTTCCCTGAAGAGAAGTGGAGCATATCC
*
8223 CTT
131 ATT
8226 TTT
1 TTT
8229 CATATTCGAT
Statistics
Matches: 337, Mismatches: 60, Indels: 9
0.83 0.15 0.02
Matches are distributed among these distances:
132 114 0.34
133 223 0.66
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.30
Consensus pattern (133 bp):
TTTTCTAGATTTGATCTTCCCTGAAGAGCAGTGGAACAAATCTACCCCAATTCAATCTTCCTTGA
AGAGCAGCAGAATGAATCAAAACTTTCCAGATCTGATCTTCCCTGAAGAGAAGTGGAGCATATCC
ATT
Found at i:8436 original size:46 final size:45
Alignment explanation
Indices: 8321--8436 Score: 162
Period size: 44 Copynumber: 2.6 Consensus size: 45
8311 CTGAAGAGTC
* *
8321 ATAAATATATTATATAGTTTTGAAA-TATGGTTTTTGAAAATAAT
1 ATAAATATATTATATAGTTTTGAAATTATGATTTTCGAAAATAAT
* *
8365 ATAAATATATTATATAGTTTTGAAATTTTGATTTTCGAAATTAAT
1 ATAAATATATTATATAGTTTTGAAATTATGATTTTCGAAAATAAT
* *
8410 ATAAATATTATTTTATAGTTTGGAAAT
1 ATAAATA-TATTATATAGTTTTGAAAT
8437 CAAGAATTAA
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
44 25 0.39
45 22 0.34
46 17 0.27
ACGTcount: A:0.41, C:0.01, G:0.10, T:0.47
Consensus pattern (45 bp):
ATAAATATATTATATAGTTTTGAAATTATGATTTTCGAAAATAAT
Found at i:9696 original size:32 final size:32
Alignment explanation
Indices: 9660--9724 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
9650 GGAGATGAAT
9660 TAGTTTATGGGTTTCTGGTGAGTAAGGGCGTC
1 TAGTTTATGGGTTTCTGGTGAGTAAGGGCGTC
*
9692 TAGTTTATGGGTTTCTGGTGAGTAAGGGGGTC
1 TAGTTTATGGGTTTCTGGTGAGTAAGGGCGTC
9724 T
1 T
9725 TTTAGGAGTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.15, C:0.08, G:0.38, T:0.38
Consensus pattern (32 bp):
TAGTTTATGGGTTTCTGGTGAGTAAGGGCGTC
Found at i:15806 original size:10 final size:9
Alignment explanation
Indices: 15779--15820 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
15769 TTAAATAATT
*
15779 TATATAAAA
1 TATAAAAAA
15788 TATAAAAAA
1 TATAAAAAA
15797 TATAAAAAA
1 TATAAAAAA
15806 -ATACATAAAA
1 TATA-A-AAAA
15816 TATAA
1 TATAA
15821 GATAATCTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
8 3 0.10
9 18 0.62
10 5 0.17
11 3 0.10
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.26
Consensus pattern (9 bp):
TATAAAAAA
Found at i:15806 original size:19 final size:19
Alignment explanation
Indices: 15784--15820 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
15774 TAATTTATAT
*
15784 AAAATATAAAAAATATAAA
1 AAAATACAAAAAATATAAA
*
15803 AAAATACATAAAATATAA
1 AAAATACAAAAAATATAA
15821 GATAATCTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.22
Consensus pattern (19 bp):
AAAATACAAAAAATATAAA
Found at i:22490 original size:19 final size:19
Alignment explanation
Indices: 22467--22505 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
22457 ATATTATGAA
22467 TTATAT-TA-TATATTCAT
1 TTATATATAGTATATTCAT
*
22484 TTATATATAGTATATTTAT
1 TTATATATAGTATATTCAT
22503 TTA
1 TTA
22506 CATTCTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
18 2 0.11
19 11 0.58
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.59
Consensus pattern (19 bp):
TTATATATAGTATATTCAT
Found at i:23843 original size:50 final size:50
Alignment explanation
Indices: 23783--23910 Score: 152
Period size: 50 Copynumber: 2.6 Consensus size: 50
23773 TTAGCAGAAA
* * ** *
23783 AGCGCACCCCCTGCACCGCGCTATATGCTGATTTGGTGCCACGTGGGTAT
1 AGCGCACCCCCTGCACCGCGCTATACGCTGATCTGACGCCACATGGGTAT
* * *
23833 AGCGCCCCCCCTGC-CCTGCGATATACGGTGATCTGACGCCACATGGGTAT
1 AGCGCACCCCCTGCACC-GCGCTATACGCTGATCTGACGCCACATGGGTAT
23883 AGCGCACCCCCTG-ATCCGCGCTATACGC
1 AGCGCACCCCCTGCA-CCGCGCTATACGC
23911 CACGTAGGGG
Statistics
Matches: 64, Mismatches: 11, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
49 2 0.03
50 60 0.94
51 2 0.03
ACGTcount: A:0.17, C:0.37, G:0.26, T:0.20
Consensus pattern (50 bp):
AGCGCACCCCCTGCACCGCGCTATACGCTGATCTGACGCCACATGGGTAT
Found at i:27822 original size:15 final size:15
Alignment explanation
Indices: 27802--27835 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
27792 TTCTGACTCC
*
27802 TCGTTGTCATCATCA
1 TCGTTGTCATCACCA
*
27817 TCGTTGTCGTCACCA
1 TCGTTGTCATCACCA
27832 TCGT
1 TCGT
27836 CATCGTCATC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.29, G:0.18, T:0.38
Consensus pattern (15 bp):
TCGTTGTCATCACCA
Found at i:27847 original size:21 final size:21
Alignment explanation
Indices: 27809--27848 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
27799 TCCTCGTTGT
**
27809 CATCATCATCGTTGTCGTCAC
1 CATCATCATCGTCATCGTCAC
*
27830 CATCGTCATCGTCATCGTC
1 CATCATCATCGTCATCGTC
27849 GTCGTCCTGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.17, C:0.35, G:0.15, T:0.33
Consensus pattern (21 bp):
CATCATCATCGTCATCGTCAC
Found at i:28243 original size:18 final size:18
Alignment explanation
Indices: 28217--28253 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
28207 GGCGATGGCA
*
28217 GCATCATATATGGCTGCG
1 GCATAATATATGGCTGCG
28235 GCATAATATATGGCTGCG
1 GCATAATATATGGCTGCG
28253 G
1 G
28254 TGGCTGCTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.24, C:0.19, G:0.30, T:0.27
Consensus pattern (18 bp):
GCATAATATATGGCTGCG
Found at i:29808 original size:18 final size:18
Alignment explanation
Indices: 29785--29822 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
29775 ATAATCATGC
*
29785 ATTAAATGAATCAACTAA
1 ATTAAATAAATCAACTAA
29803 ATTAAATAAATCAACTAA
1 ATTAAATAAATCAACTAA
29821 AT
1 AT
29823 ATTACTAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.58, C:0.11, G:0.03, T:0.29
Consensus pattern (18 bp):
ATTAAATAAATCAACTAA
Found at i:30182 original size:50 final size:50
Alignment explanation
Indices: 30124--30234 Score: 122
Period size: 49 Copynumber: 2.2 Consensus size: 50
30114 CCCCCTGCAC
* * *
30124 CGCGCTATACCCCACGTGTCAG-ATATC-CAGGTATAACGCGGATCAGGGGG
1 CGCGCTATACCCCACGTGAC-GCATATCAC-CGTATAACGCGGAGCAGGGGG
* *
30174 CGCGCTATA--CCACGTGACGCCATATCACCGTATATCGCGGGGCAGGGGG
1 CGCGCTATACCCCACGTGACG-CATATCACCGTATAACGCGGAGCAGGGGG
30223 CGCGCTATACCC
1 CGCGCTATACCC
30235 ACTTGGCGCC
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
47 1 0.02
48 8 0.16
49 31 0.61
50 10 0.20
51 1 0.02
ACGTcount: A:0.22, C:0.32, G:0.30, T:0.17
Consensus pattern (50 bp):
CGCGCTATACCCCACGTGACGCATATCACCGTATAACGCGGAGCAGGGGG
Found at i:30277 original size:49 final size:49
Alignment explanation
Indices: 30170--30277 Score: 119
Period size: 50 Copynumber: 2.2 Consensus size: 49
30160 CGCGGATCAG
* * * * *
30170 GGGGCGCGCTATACCACGTGACGCCATATCACCGTATATCGCGGGGCAG
1 GGGGCGCGCTATACCACGTGACGCCAAATCAACATATAGCGCGGGGCAA
* * * *
30219 GGGGCGCGCTATACCCACTTGGCGCCAAATCAACATATAGCGTGGTGCAA
1 GGGGCGCGCTATA-CCACGTGACGCCAAATCAACATATAGCGCGGGGCAA
30269 GGGG-GCGCT
1 GGGGCGCGCT
30278 TTTTTGTTAA
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
49 18 0.37
50 31 0.63
ACGTcount: A:0.21, C:0.29, G:0.33, T:0.17
Consensus pattern (49 bp):
GGGGCGCGCTATACCACGTGACGCCAAATCAACATATAGCGCGGGGCAA
Found at i:30403 original size:2 final size:2
Alignment explanation
Indices: 30396--30431 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
30386 ACATACATAC
30396 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
30432 TTCTTTTCTT
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):
AT
Found at i:30497 original size:2 final size:2
Alignment explanation
Indices: 30492--30518 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
30482 TTTTTTATTT
30492 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
30519 TTATTATTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:30582 original size:87 final size:87
Alignment explanation
Indices: 30399--30589 Score: 196
Period size: 87 Copynumber: 2.2 Consensus size: 87
30389 TACATACATA
* *
30399 TATATATATATATATATATATATATATATATATTTCTTTTCTTTTGTTTTATTTTATTATATATA
1 TATAT-TATATATATATATATATATATATATATTTATTTTCTTTTATTTTATTTTATTATATATA
** * *
30464 TATTTTTCTTATGTACATTTTTT
65 TATTACTATTATGAACATTTTTT
* *
30487 TATTTTATATATATATATATATATATATATATTTATTATT-TTTATCATTATTATTTTATTA-CT
1 TATATTATATATATATATATATATATATATATTTATT-TTCTTT-T-ATT-TTATTTTATTATAT
30550 ATAT-TTACTATTAT-AAC-TGTTATTT
62 ATATATTACTATTATGAACAT-TT-TTT
*
30575 T-TATTATACATATAT
1 TATATTATATATATAT
30590 TACTCATATT
Statistics
Matches: 87, Mismatches: 10, Indels: 13
0.79 0.09 0.12
Matches are distributed among these distances:
86 1 0.01
87 50 0.57
88 18 0.21
89 7 0.08
90 11 0.13
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (87 bp):
TATATTATATATATATATATATATATATATATTTATTTTCTTTTATTTTATTTTATTATATATAT
ATTACTATTATGAACATTTTTT
Found at i:30706 original size:18 final size:20
Alignment explanation
Indices: 30669--30714 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 20
30659 TTATTTTTAC
*
30669 TTTATTTTTGTTCCTTTGGTG
1 TTTATTTTTGTT-CTTTGGTA
30690 TTTATTTTT-TT-TTTGGTA
1 TTTATTTTTGTTCTTTGGTA
30708 TTTATTT
1 TTTATTT
30715 ATTCATTGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 13 0.54
20 2 0.08
21 9 0.38
ACGTcount: A:0.09, C:0.04, G:0.13, T:0.74
Consensus pattern (20 bp):
TTTATTTTTGTTCTTTGGTA
Found at i:36368 original size:15 final size:16
Alignment explanation
Indices: 36332--36368 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
36322 CCCCCGGTTT
36332 CAACTCCTCCTCCTAG
1 CAACTCCTCCTCCTAG
*
36348 C-TCTCCTCCTCC-AG
1 CAACTCCTCCTCCTAG
36362 CAACTCC
1 CAACTCC
36369 CCCACCCGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 3
0.78 0.09 0.13
Matches are distributed among these distances:
14 3 0.17
15 14 0.78
16 1 0.06
ACGTcount: A:0.16, C:0.54, G:0.05, T:0.24
Consensus pattern (16 bp):
CAACTCCTCCTCCTAG
Found at i:36402 original size:30 final size:32
Alignment explanation
Indices: 36345--36404 Score: 79
Period size: 33 Copynumber: 1.9 Consensus size: 32
36335 CTCCTCCTCC
*
36345 TAGCTCTCCTCCTCCAGCAACTCCCCCACCCGT
1 TAGCTCTCCTCCTCCAGC-ACTACCCCACCCGT
*
36378 TAGCTCTCCTCCTCCTGC-C-ACCCCACC
1 TAGCTCTCCTCCTCCAGCACTACCCCACC
36405 TCCCGCCACT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 7 0.28
31 1 0.04
33 17 0.68
ACGTcount: A:0.13, C:0.57, G:0.08, T:0.22
Consensus pattern (32 bp):
TAGCTCTCCTCCTCCAGCACTACCCCACCCGT
Found at i:36434 original size:30 final size:30
Alignment explanation
Indices: 36400--36512 Score: 118
Period size: 30 Copynumber: 3.8 Consensus size: 30
36390 TCCTGCCACC
* * *
36400 CCACCTCCCGCCACTCCTCCACCGGCTTCT
1 CCACCTCCCGCAACCCCTCCACCCGCTTCT
* *
36430 CCACCTCCCGCAACCCCACCACCCTCTTCT
1 CCACCTCCCGCAACCCCTCCACCCGCTTCT
* * * **
36460 CCTCCTCCCGCTACCCCTCCACCTGCAACT
1 CCACCTCCCGCAACCCCTCCACCCGCTTCT
* *
36490 CCTCCTCCCGCAACCCCACCACC
1 CCACCTCCCGCAACCCCTCCACC
36513 TGCTCCTTTG
Statistics
Matches: 69, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 69 1.00
ACGTcount: A:0.14, C:0.63, G:0.06, T:0.17
Consensus pattern (30 bp):
CCACCTCCCGCAACCCCTCCACCCGCTTCT
Found at i:36448 original size:15 final size:15
Alignment explanation
Indices: 36430--36509 Score: 52
Period size: 15 Copynumber: 5.3 Consensus size: 15
36420 ACCGGCTTCT
36430 CCACCTCCCGCAACC
1 CCACCTCCCGCAACC
* * ** *
36445 CCACCACCCTCTTCT
1 CCACCTCCCGCAACC
* *
36460 CCTCCTCCCGCTACC
1 CCACCTCCCGCAACC
* * * *
36475 CCTCCACCTGCAACT
1 CCACCTCCCGCAACC
*
36490 CCTCCTCCCGCAACC
1 CCACCTCCCGCAACC
36505 CCACC
1 CCACC
36510 ACCTGCTCCT
Statistics
Matches: 47, Mismatches: 18, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
15 47 1.00
ACGTcount: A:0.15, C:0.64, G:0.05, T:0.16
Consensus pattern (15 bp):
CCACCTCCCGCAACC
Found at i:37936 original size:168 final size:168
Alignment explanation
Indices: 37658--37989 Score: 515
Period size: 168 Copynumber: 2.0 Consensus size: 168
37648 TTAACCATTG
** * * *
37658 TTCAAAATAAAGGTTGAAAACCAATTAAGGTTGGTGATCTCATGTCTGGCAATCTTCTCTCTCTT
1 TTCAAAATAAAGGTTGAAAACCAATTAAGACTGGTGATCTCACGTCTGGAAACCTTCTCTCTCTT
* * * *
37723 TTTTTACCCTTCTTTGTGTCTTCTTCTTCCTTTTTCATCCTTCATTCTTCATTCCCTTGTAGTCT
66 TTTTTACCCTTCTTTGTCTCTTCTTCTTCCTTTTTCATACTTCATTCTTCATTCCCTTGCAATCT
37788 CCAAAGGTGAAAACTTGGTGATCTTTTAAACCTAATTC
131 CCAAAGGTGAAAACTTGGTGATCTTTTAAACCTAATTC
* *
37826 TTCAAAATAAAGGTTGAAAACCAATTGAGACTGGTGATCTCACGTTTGGAAACCTTCTCT-T-TT
1 TTCAAAATAAAGGTTGAAAACCAATTAAGACTGGTGATCTCACGTCTGGAAACCTTCTCTCTCTT
* *
37889 TTTCTTCACCCTTCTTTGTCTCTTCTTCTTCCTTTTTTATACTTCATTCTTCTTTCCCTTGCAAT
66 TTT-TT-ACCCTTCTTTGTCTCTTCTTCTTCCTTTTTCATACTTCATTCTTCATTCCCTTGCAAT
37954 CTCCAAAGGTGAAAACTTGGTGATCTTTTAAACCTA
129 CTCCAAAGGTGAAAACTTGGTGATCTTTTAAACCTA
37990 GTTCAGTGTT
Statistics
Matches: 149, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
166 5 0.03
167 3 0.02
168 141 0.95
ACGTcount: A:0.23, C:0.23, G:0.12, T:0.42
Consensus pattern (168 bp):
TTCAAAATAAAGGTTGAAAACCAATTAAGACTGGTGATCTCACGTCTGGAAACCTTCTCTCTCTT
TTTTTACCCTTCTTTGTCTCTTCTTCTTCCTTTTTCATACTTCATTCTTCATTCCCTTGCAATCT
CCAAAGGTGAAAACTTGGTGATCTTTTAAACCTAATTC
Found at i:38830 original size:20 final size:19
Alignment explanation
Indices: 38801--38839 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
38791 CTTTATTAGT
*
38801 CAGGGGGTATCTATACCAA
1 CAGGGGGTATCGATACCAA
38820 CAGGTGGGTATCGATACCAA
1 CAGG-GGGTATCGATACCAA
38840 AGGATTAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.31, C:0.21, G:0.28, T:0.21
Consensus pattern (19 bp):
CAGGGGGTATCGATACCAA
Found at i:38869 original size:20 final size:20
Alignment explanation
Indices: 38827--38877 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
38817 CAACAGGTGG
* *
38827 GTATCGATACCAAAGGATTA
1 GTATTGATACCAAAGGATCA
* *
38847 GTATTGATACTAAAGGGTCA
1 GTATTGATACCAAAGGATCA
*
38867 GTATTGGTACC
1 GTATTGATACC
38878 CACGAATAGT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.29
Consensus pattern (20 bp):
GTATTGATACCAAAGGATCA
Found at i:43110 original size:2 final size:2
Alignment explanation
Indices: 43103--43142 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
43093 ATATTTGTAA
*
43103 AT AT AT AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
43143 TCAGTAAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:43532 original size:36 final size:36
Alignment explanation
Indices: 43484--43553 Score: 122
Period size: 36 Copynumber: 1.9 Consensus size: 36
43474 ATCCGATTTC
* *
43484 CTGTCTATGTTCGGAGTTCTATATTCGGAGTTTTTA
1 CTGTCTACGTTCGGAGTCCTATATTCGGAGTTTTTA
43520 CTGTCTACGTTCGGAGTCCTATATTCGGAGTTTT
1 CTGTCTACGTTCGGAGTCCTATATTCGGAGTTTT
43554 ACCGCCTATG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.16, C:0.17, G:0.23, T:0.44
Consensus pattern (36 bp):
CTGTCTACGTTCGGAGTCCTATATTCGGAGTTTTTA
Found at i:46809 original size:15 final size:14
Alignment explanation
Indices: 46789--46833 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 14
46779 AAATAAAATT
46789 ATAATTAAATTTAAA
1 ATAATT-AATTTAAA
46804 ATAATTTAATATTAAA
1 ATAA-TTAAT-TTAAA
*
46820 ATAAATAATTTAAA
1 ATAATTAATTTAAA
46834 TGTTAAGGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 5 0.19
15 11 0.41
16 11 0.41
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
ATAATTAATTTAAA
Found at i:48615 original size:22 final size:22
Alignment explanation
Indices: 48586--48640 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
48576 ACATGCCCAT
* *
48586 CGTTAAAAAATTGTTAAGTGGC
1 CGTTAAAAAATTATTAAGTGAC
*
48608 TGTTAAAAAATTATTAAGTGAC
1 CGTTAAAAAATTATTAAGTGAC
48630 CGTTAAAAAAT
1 CGTTAAAAAAT
48641 CTGCACATGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.44, C:0.07, G:0.16, T:0.33
Consensus pattern (22 bp):
CGTTAAAAAATTATTAAGTGAC
Found at i:60476 original size:25 final size:24
Alignment explanation
Indices: 60448--60518 Score: 79
Period size: 24 Copynumber: 2.9 Consensus size: 24
60438 GAACTCAAAA
* *
60448 AAAATTAGAAATTCGATTGAAGCCT
1 AAAATTAG-AACTCAATTGAAGCCT
* *
60473 AAAATTTGAGCTCAATTGAAGCCT
1 AAAATTAGAACTCAATTGAAGCCT
* *
60497 AAAATTTGAGCTCAATTGAAGC
1 AAAATTAGAACTCAATTGAAGC
60519 GAAAGAATAG
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
24 35 0.83
25 7 0.17
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (24 bp):
AAAATTAGAACTCAATTGAAGCCT
Found at i:60492 original size:24 final size:24
Alignment explanation
Indices: 60463--60518 Score: 112
Period size: 24 Copynumber: 2.3 Consensus size: 24
60453 TAGAAATTCG
60463 ATTGAAGCCTAAAATTTGAGCTCA
1 ATTGAAGCCTAAAATTTGAGCTCA
60487 ATTGAAGCCTAAAATTTGAGCTCA
1 ATTGAAGCCTAAAATTTGAGCTCA
60511 ATTGAAGC
1 ATTGAAGC
60519 GAAAGAATAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.29
Consensus pattern (24 bp):
ATTGAAGCCTAAAATTTGAGCTCA
Found at i:61763 original size:24 final size:24
Alignment explanation
Indices: 61718--61766 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
61708 CACTCACCAG
*
61718 TGTTTAATAATTAATATAATATTT
1 TGTTTAATAATTAAGATAATATTT
*
61742 TGTTTAATAATATAAGCT-ATATTT
1 TGTTTAATAAT-TAAGATAATATTT
61766 T
1 T
61767 TTAATGAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.39, C:0.02, G:0.06, T:0.53
Consensus pattern (24 bp):
TGTTTAATAATTAAGATAATATTT
Found at i:62536 original size:35 final size:35
Alignment explanation
Indices: 62490--62564 Score: 123
Period size: 35 Copynumber: 2.1 Consensus size: 35
62480 AAAATACTTC
*
62490 AATTTAGGGTTTATAATATAATTGAAGTATTTTGA
1 AATTTAGGGTTTAGAATATAATTGAAGTATTTTGA
* *
62525 AATTTAGGGTTTAGAATGTAATTGAAGTATTTTGG
1 AATTTAGGGTTTAGAATATAATTGAAGTATTTTGA
62560 AATTT
1 AATTT
62565 TGAACATAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.35, C:0.00, G:0.20, T:0.45
Consensus pattern (35 bp):
AATTTAGGGTTTAGAATATAATTGAAGTATTTTGA
Found at i:66465 original size:20 final size:21
Alignment explanation
Indices: 66419--66472 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
66409 TATAAGGATA
* *
66419 AATTATATA-TTTAGTCACTT
1 AATTATTTATTTTAGTCACTC
*
66439 AACTATTTATTTTAGTCAC-C
1 AATTATTTATTTTAGTCACTC
66459 AATTATTCTATTTT
1 AATTATT-TATTTT
66473 TTATAATCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
20 13 0.46
21 15 0.54
ACGTcount: A:0.31, C:0.13, G:0.04, T:0.52
Consensus pattern (21 bp):
AATTATTTATTTTAGTCACTC
Found at i:71246 original size:19 final size:20
Alignment explanation
Indices: 71222--71264 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
71212 AGAAGTCAAA
*
71222 TTCGCAAAGCG-CTTTTATT
1 TTCGCAAAGCGAATTTTATT
*
71241 TTCGCAATGCGAATTTTATT
1 TTCGCAAAGCGAATTTTATT
71261 TTCG
1 TTCG
71265 AATTCGAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.21, C:0.19, G:0.16, T:0.44
Consensus pattern (20 bp):
TTCGCAAAGCGAATTTTATT
Found at i:71408 original size:22 final size:22
Alignment explanation
Indices: 71383--71433 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
71373 CTACGGCGAC
71383 ATCCGTCCCCATCTCCGACGAA
1 ATCCGTCCCCATCTCCGACGAA
* *
71405 ATCCATCCCCATCTCCGGCGAA
1 ATCCGTCCCCATCTCCGACGAA
71427 ATCCGTC
1 ATCCGTC
71434 TATCTCCATC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.22, C:0.45, G:0.14, T:0.20
Consensus pattern (22 bp):
ATCCGTCCCCATCTCCGACGAA
Found at i:71898 original size:20 final size:19
Alignment explanation
Indices: 71817--71891 Score: 96
Period size: 19 Copynumber: 3.8 Consensus size: 19
71807 AATATGTAAA
* *
71817 TCGCATTGCGATTTTCCAAAT
1 TCGCGTTGCGATTTT-C-ATT
71838 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
71857 TCGCGTTGCAATTTTCATTT
1 TCGCGTTGCGATTTTCA-TT
71877 TCGCGTTGCGATTTT
1 TCGCGTTGCGATTTT
71892 AAGTTTCAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
19 18 0.37
20 17 0.35
21 14 0.29
ACGTcount: A:0.15, C:0.21, G:0.19, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:73591 original size:21 final size:21
Alignment explanation
Indices: 73564--73616 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
73554 GTTAGGGGAG
* *
73564 TTACGTGATGAGGTCAATGCT
1 TTACGTGAAGAGGTCAATACT
* *
73585 TTGCGTGAAGAGGTTAATACT
1 TTACGTGAAGAGGTCAATACT
73606 TTACGTGAAGA
1 TTACGTGAAGA
73617 CAATGGTGCA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.28, C:0.11, G:0.28, T:0.32
Consensus pattern (21 bp):
TTACGTGAAGAGGTCAATACT
Found at i:73654 original size:21 final size:23
Alignment explanation
Indices: 73630--73746 Score: 83
Period size: 21 Copynumber: 5.5 Consensus size: 23
73620 TGGTGCATGG
73630 CGTGATGAGGTA-CGGT-CTTTA
1 CGTGATGAGGTATCGGTACTTTA
* **
73651 CGTGGTGAGGTAGAGGT--TTTA
1 CGTGATGAGGTATCGGTACTTTA
* **
73672 CGCGATGA-CAAT-GGTACTTTA
1 CGTGATGAGGTATCGGTACTTTA
* *
73693 CGTGGTAAGGTATC--TACTTTA
1 CGTGATGAGGTATCGGTACTTTA
*
73714 CGTGGTGAGGTATC--TACTTTA
1 CGTGATGAGGTATCGGTACTTTA
73735 CGTGATGAGGTA
1 CGTGATGAGGTA
73747 GCCGCTCTAC
Statistics
Matches: 77, Mismatches: 14, Indels: 10
0.76 0.14 0.10
Matches are distributed among these distances:
19 3 0.04
20 1 0.01
21 68 0.88
22 5 0.06
ACGTcount: A:0.22, C:0.13, G:0.32, T:0.33
Consensus pattern (23 bp):
CGTGATGAGGTATCGGTACTTTA
Found at i:74100 original size:39 final size:39
Alignment explanation
Indices: 74028--74137 Score: 112
Period size: 39 Copynumber: 2.7 Consensus size: 39
74018 CCTGTCATTG
* * *
74028 TTCAAGAGGCACCTCCTACCATTCAAGAAGCCCCTATCATCC
1 TTCAAGAGGC-CC-CC-ACCGTTCAAGAGGCCCCTATCATAC
* *
74070 TTCAAGAGGCCCCCACCGTTCAAGAGGCCCCTGTCATAG
1 TTCAAGAGGCCCCCACCGTTCAAGAGGCCCCTATCATAC
*
74109 TTCAAGAGGTCCCTCCCACCGTTCGAGAG
1 TTCAAGAGG--CC-CCCACCGTTCAAGAG
74138 CCCGATTCAC
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
39 29 0.49
40 2 0.03
41 4 0.07
42 24 0.41
ACGTcount: A:0.25, C:0.36, G:0.19, T:0.20
Consensus pattern (39 bp):
TTCAAGAGGCCCCCACCGTTCAAGAGGCCCCTATCATAC
Found at i:74113 original size:21 final size:20
Alignment explanation
Indices: 74049--74122 Score: 71
Period size: 21 Copynumber: 3.7 Consensus size: 20
74039 CCTCCTACCA
* *
74049 TTCAAGAAGCCCCTATCATCC
1 TTCAAGAGGCCCCT-TCATCG
*
74070 TTCAAGAGGCCCC--CACCG
1 TTCAAGAGGCCCCTTCATCG
*
74088 TTCAAGAGGCCCCTGTCATAG
1 TTCAAGAGGCCCCT-TCATCG
*
74109 TTCAAGAGGTCCCT
1 TTCAAGAGGCCCCT
74123 CCCACCGTTC
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
18 16 0.36
21 28 0.64
ACGTcount: A:0.24, C:0.35, G:0.19, T:0.22
Consensus pattern (20 bp):
TTCAAGAGGCCCCTTCATCG
Found at i:74132 original size:21 final size:20
Alignment explanation
Indices: 74027--74137 Score: 66
Period size: 21 Copynumber: 5.5 Consensus size: 20
74017 ACCTGTCATT
*
74027 GTTCAAGAGGCACCTCCTACC
1 GTTCAAGAGGC-CCTCCCACC
* * **
74048 ATTCAAGAAGCCCCTATCATCC
1 GTTCAAG-AGGCCCTCCCA-CC
74070 -TTCAAGAGG-CC-CCCACC
1 GTTCAAGAGGCCCTCCCACC
** **
74087 GTTCAAGAGGCCCCTGTCATA
1 GTTCAAGAGG-CCCTCCCACC
74108 GTTCAAGAGGTCCCTCCCACC
1 GTTCAAGAGG-CCCTCCCACC
*
74129 GTTCGAGAG
1 GTTCAAGAG
74138 CCCGATTCAC
Statistics
Matches: 66, Mismatches: 18, Indels: 12
0.69 0.19 0.12
Matches are distributed among these distances:
17 2 0.03
18 11 0.17
19 2 0.03
20 4 0.06
21 42 0.64
22 5 0.08
ACGTcount: A:0.24, C:0.36, G:0.20, T:0.20
Consensus pattern (20 bp):
GTTCAAGAGGCCCTCCCACC
Found at i:75499 original size:13 final size:14
Alignment explanation
Indices: 75474--75506 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
75464 AAATTGATGT
75474 ATTTGTAAAAGTTG
1 ATTTGTAAAAGTTG
75488 ATTTGT-AAAGTTG
1 ATTTGTAAAAGTTG
75501 ATTTGT
1 ATTTGT
75507 TTGATTGATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.30, C:0.00, G:0.21, T:0.48
Consensus pattern (14 bp):
ATTTGTAAAAGTTG
Found at i:75657 original size:20 final size:20
Alignment explanation
Indices: 75632--75673 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
75622 GTACACTTTT
*
75632 GCAACGTGAAAATCAAATTC
1 GCAACGCGAAAATCAAATTC
*
75652 GCAACGCGAAAGTCAAATTC
1 GCAACGCGAAAATCAAATTC
75672 GC
1 GC
75674 GTTGCAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.24, G:0.19, T:0.17
Consensus pattern (20 bp):
GCAACGCGAAAATCAAATTC
Found at i:75704 original size:20 final size:20
Alignment explanation
Indices: 75681--75727 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
75671 CGCGTTGCAA
*
75681 TTTCGCATTTCGAATTTGAC
1 TTTCGCATTGCGAATTTGAC
*
75701 TTTCGCGTTGCGAATTTGAC
1 TTTCGCATTGCGAATTTGAC
75721 TTTCGCA
1 TTTCGCA
75728 ACAATCGCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.17, C:0.21, G:0.19, T:0.43
Consensus pattern (20 bp):
TTTCGCATTGCGAATTTGAC
Found at i:79016 original size:16 final size:15
Alignment explanation
Indices: 78994--79032 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
78984 GGAATCATTG
78994 AAAAATTATATAGAAA
1 AAAAATTATATA-AAA
* *
79010 TAAAATTATGTAAAA
1 AAAAATTATATAAAA
79025 AAAAATTA
1 AAAAATTA
79033 GAGATGGGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (15 bp):
AAAAATTATATAAAA
Found at i:79233 original size:40 final size:40
Alignment explanation
Indices: 79189--79299 Score: 143
Period size: 40 Copynumber: 2.8 Consensus size: 40
79179 ACTAAAACCT
*
79189 GTTGCGAAATTAAAATTCGTGTTGCGAATTC-GAAAATCGA
1 GTTGCGAAATTAAAATTCGCGTTGCGAATTCAG-AAATCGA
** *
79229 GTTGCGAAAACAAAATCCGCGTTGCGAATTCAGAAATCGA
1 GTTGCGAAATTAAAATTCGCGTTGCGAATTCAGAAATCGA
* *
79269 GTTGCGAATTTGAAATTCAGCGTTGCGAATT
1 GTTGCGAAATTAAAATTC-GCGTTGCGAATT
79300 TGGAAAATTG
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
40 47 0.78
41 13 0.22
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.28
Consensus pattern (40 bp):
GTTGCGAAATTAAAATTCGCGTTGCGAATTCAGAAATCGA
Found at i:79295 original size:21 final size:19
Alignment explanation
Indices: 79189--79301 Score: 73
Period size: 20 Copynumber: 5.6 Consensus size: 19
79179 ACTAAAACCT
* * *
79189 GTTGCGAAATTAAAATTCGT
1 GTTGCGAATTTGAAA-TCGC
* *
79209 GTTGCGAATTCGAAAATCGA
1 GTTGCGAATTTG-AAATCGC
****
79229 GTTGCGAAAACAAAATCCGC
1 GTTGCGAATTTGAAAT-CGC
* *
79249 GTTGCGAATTCAGAAATCGA
1 GTTGCGAATT-TGAAATCGC
79269 GTTGCGAATTTGAAATTCAGC
1 GTTGCGAATTTGAAA-TC-GC
79290 GTTGCGAATTTG
1 GTTGCGAATTTG
79302 GAAAATTGCA
Statistics
Matches: 73, Mismatches: 15, Indels: 9
0.75 0.15 0.09
Matches are distributed among these distances:
19 8 0.11
20 45 0.62
21 20 0.27
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (19 bp):
GTTGCGAATTTGAAATCGC
Found at i:79346 original size:20 final size:20
Alignment explanation
Indices: 79317--79357 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
79307 TTGCAACGCA
* *
79317 ATTTATAGATTCGTGTTGCG
1 ATTTACAGATTCGCGTTGCG
79337 ATTTACAGATTCGCGTTGCG
1 ATTTACAGATTCGCGTTGCG
79357 A
1 A
79358 ATTAGGAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.22, C:0.15, G:0.24, T:0.39
Consensus pattern (20 bp):
ATTTACAGATTCGCGTTGCG
Found at i:80686 original size:32 final size:32
Alignment explanation
Indices: 80645--80707 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
80635 GCTATAACAT
80645 ATCATAACTAATTCCTATTATACACATTTCAA
1 ATCATAACTAATTCCTATTATACACATTTCAA
*
80677 ATCATAACTAATTCCTATTATGCACATTTCA
1 ATCATAACTAATTCCTATTATACACATTTCA
80708 TGTAATCATG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.38, C:0.22, G:0.02, T:0.38
Consensus pattern (32 bp):
ATCATAACTAATTCCTATTATACACATTTCAA
Found at i:81239 original size:23 final size:23
Alignment explanation
Indices: 81203--81262 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
81193 CAGCTCATAT
* * *
81203 AAATGCAGCTAAGTGCCACGTAG
1 AAATGCACCGAAGTACCACGTAG
* * *
81226 AATTGCATCGAAGTACCGCGTAG
1 AAATGCACCGAAGTACCACGTAG
81249 AAATGCACCGAAGT
1 AAATGCACCGAAGT
81263 TCCATATAAA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (23 bp):
AAATGCACCGAAGTACCACGTAG
Found at i:85055 original size:23 final size:23
Alignment explanation
Indices: 85019--85083 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 23
85009 CAGCTCGTAT
*
85019 AAATGCACCGAAGTGCCATGTAG
1 AAATACACCGAAGTGCCATGTAG
* * **
85042 AATTATACCGAAGTGCCGCGTAG
1 AAATACACCGAAGTGCCATGTAG
*
85065 AAATACACCAAAGTGCCAT
1 AAATACACCGAAGTGCCAT
85084 ATAAAATGTC
Statistics
Matches: 32, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.18
Consensus pattern (23 bp):
AAATACACCGAAGTGCCATGTAG
Found at i:87331 original size:65 final size:63
Alignment explanation
Indices: 87239--87361 Score: 167
Period size: 65 Copynumber: 1.9 Consensus size: 63
87229 CTCTCAAACG
* *
87239 AAAAAATTTCATAATGTCATAGAGGTACCGATACCCCCCAGTTGGGTACCGATACCCCCTTGAAC
1 AAAAAATTACATAATGTCATAGAGGTACCGATA--CCCCAGTAGGGTACCGATACCCCCTTGAAC
* * *
87304 AAAAAATTACATAATGT-TTTGAGGGTACCGATACCCCAGTAGGGTATCGATACCCCCT
1 AAAAAATTACATAATGTCATAGA-GGTACCGATACCCCAGTAGGGTACCGATACCCCCT
87362 AAAGGAAAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
63 23 0.44
64 3 0.06
65 26 0.50
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (63 bp):
AAAAAATTACATAATGTCATAGAGGTACCGATACCCCAGTAGGGTACCGATACCCCCTTGAAC
Found at i:89199 original size:23 final size:23
Alignment explanation
Indices: 89173--89234 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
89163 GCTGCACTAT
**
89173 GGTGCAATTCTACGAGGTACTTC
1 GGTGCAATTCTACGAGACACTTC
* *
89196 GGTGCAATTCTATGTGACACTTC
1 GGTGCAATTCTACGAGACACTTC
* *
89219 GGTGCATTTATACGAG
1 GGTGCAATTCTACGAG
89235 CTGTGGTGAC
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (23 bp):
GGTGCAATTCTACGAGACACTTC
Found at i:99396 original size:2 final size:2
Alignment explanation
Indices: 99389--99434 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
99379 TCAAATTGGA
99389 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
99431 AT AT
1 AT AT
99435 TTCTTGTCTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:102744 original size:24 final size:24
Alignment explanation
Indices: 102712--102768 Score: 105
Period size: 24 Copynumber: 2.4 Consensus size: 24
102702 GGATTGTGAG
*
102712 ATTCTCATGGGATGAGAATCTCAT
1 ATTCCCATGGGATGAGAATCTCAT
102736 ATTCCCATGGGATGAGAATCTCAT
1 ATTCCCATGGGATGAGAATCTCAT
102760 ATTCCCATG
1 ATTCCCATG
102769 TTTGGTTAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (24 bp):
ATTCCCATGGGATGAGAATCTCAT
Found at i:103163 original size:37 final size:37
Alignment explanation
Indices: 103087--103163 Score: 102
Period size: 37 Copynumber: 2.1 Consensus size: 37
103077 TTTATATATT
*
103087 TTTAATTTTGTAAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAAATTATATAAATATTATCAA
* * *
103124 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAAAAAAATTATATAAATATTAT-CAA
103161 TTT
1 TTT
103164 GTAATATTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 13 0.37
37 22 0.63
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.47
Consensus pattern (37 bp):
TTTAATTTTGTAAAAAAAATTATATAAATATTATCAA
Found at i:106930 original size:23 final size:23
Alignment explanation
Indices: 106904--106964 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
106894 CACCACAGCT
*
106904 CGTATAATTGCACCGAAGTGCCA
1 CGTAGAATTGCACCGAAGTGCCA
*
106927 CGTAGAATTGCACCGAAGTGCCG
1 CGTAGAATTGCACCGAAGTGCCA
*
106950 CGTAGAATTGTACCG
1 CGTAGAATTGCACCG
106965 TAGTACCATA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.28, C:0.25, G:0.26, T:0.21
Consensus pattern (23 bp):
CGTAGAATTGCACCGAAGTGCCA
Found at i:112795 original size:20 final size:20
Alignment explanation
Indices: 112772--112817 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
112762 CAATAGGTGG
* *
112772 GTATCGATACCAAAGGTTTA
1 GTATCGATACCAAAGGGTCA
* *
112792 GTATCAATACTAAAGGGTCA
1 GTATCGATACCAAAGGGTCA
112812 GTATCG
1 GTATCG
112818 GTATCCACAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.35, C:0.15, G:0.22, T:0.28
Consensus pattern (20 bp):
GTATCGATACCAAAGGGTCA
Found at i:118766 original size:13 final size:13
Alignment explanation
Indices: 118748--118772 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
118738 GATCAAAGGA
118748 GGTCAACGGTCAC
1 GGTCAACGGTCAC
118761 GGTCAACGGTCA
1 GGTCAACGGTCA
118773 ACAGTCGGGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.28, G:0.32, T:0.16
Consensus pattern (13 bp):
GGTCAACGGTCAC
Found at i:118837 original size:19 final size:19
Alignment explanation
Indices: 118815--118872 Score: 82
Period size: 19 Copynumber: 3.0 Consensus size: 19
118805 CGGTCGGGTT
*
118815 GGGTCAGACCGGTCAAACC
1 GGGTCAAACCGGTCAAACC
118834 GGGTCAAACCGGGTCAAACC
1 GGGTCAAACC-GGTCAAACC
118854 -GGTCAAAACCGGTCAAACC
1 GGGTC-AAACCGGTCAAACC
118873 AGTTTTCCAG
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
19 22 0.61
20 14 0.39
ACGTcount: A:0.31, C:0.31, G:0.28, T:0.10
Consensus pattern (19 bp):
GGGTCAAACCGGTCAAACC
Found at i:118838 original size:10 final size:9
Alignment explanation
Indices: 118816--118872 Score: 78
Period size: 10 Copynumber: 6.0 Consensus size: 9
118806 GGTCGGGTTG
*
118816 GGTCAGACC
1 GGTCAAACC
118825 GGTCAAACC
1 GGTCAAACC
118834 GGGTCAAACC
1 -GGTCAAACC
118844 GGGTCAAACC
1 -GGTCAAACC
118854 GGTCAAAACC
1 GGTC-AAACC
118864 GGTCAAACC
1 GGTCAAACC
118873 AGTTTTCCAG
Statistics
Matches: 45, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
9 17 0.38
10 28 0.62
ACGTcount: A:0.32, C:0.32, G:0.26, T:0.11
Consensus pattern (9 bp):
GGTCAAACC
Found at i:118847 original size:29 final size:29
Alignment explanation
Indices: 118815--118872 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
118805 CGGTCGGGTT
*
118815 GGGTCAGACCGGTC-AAACCGGGTCAAACC
1 GGGTCAAACCGGTCAAAACC-GGTCAAACC
118844 GGGTCAAACCGGTCAAAACCGGTCAAACC
1 GGGTCAAACCGGTCAAAACCGGTCAAACC
118873 AGTTTTCCAG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 22 0.81
30 5 0.19
ACGTcount: A:0.31, C:0.31, G:0.28, T:0.10
Consensus pattern (29 bp):
GGGTCAAACCGGTCAAAACCGGTCAAACC
Found at i:129350 original size:19 final size:19
Alignment explanation
Indices: 129328--129365 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
129318 CATAATGACA
129328 ATATCTAGTGCGAATGGCC
1 ATATCTAGTGCGAATGGCC
129347 ATATCTAGTGCGAATGGCC
1 ATATCTAGTGCGAATGGCC
129366 GTCTTTGCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (19 bp):
ATATCTAGTGCGAATGGCC
Found at i:132252 original size:14 final size:14
Alignment explanation
Indices: 132233--132261 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
132223 GTCACGGTCA
132233 CGGTCGGGTCGGGT
1 CGGTCGGGTCGGGT
132247 CGGTCGGGTCGGGT
1 CGGTCGGGTCGGGT
132261 C
1 C
132262 AGACCGGTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.00, C:0.24, G:0.55, T:0.21
Consensus pattern (14 bp):
CGGTCGGGTCGGGT
Found at i:132305 original size:11 final size:10
Alignment explanation
Indices: 132282--132314 Score: 57
Period size: 10 Copynumber: 3.2 Consensus size: 10
132272 GAACCAGTCG
132282 AAACCGGTCA
1 AAACCGGTCA
132292 AAACCGGTTCA
1 AAACCGG-TCA
132303 AAACCGGTCA
1 AAACCGGTCA
132313 AA
1 AA
132315 CTGGTTTTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.42, C:0.27, G:0.18, T:0.12
Consensus pattern (10 bp):
AAACCGGTCA
Found at i:137386 original size:51 final size:51
Alignment explanation
Indices: 137286--137414 Score: 161
Period size: 51 Copynumber: 2.5 Consensus size: 51
137276 TTAGCAGTAA
* *
137286 AGCGCGCCCCCTGCACCGCGCTATACGACGATTTGGCGCCACGTGGGGTAT
1 AGCGCGCCCCCTGCACCGCGCTATACGACGATCTGGCGACACGTGGGGTAT
* ** *
137337 AGTGCGCCCCCTGCACCGCGCTATACGGTGATCTGGCATACACGT-GGGTAT
1 AGCGCGCCCCCTGCACCGCGCTATACGACGATCTGGC-GACACGTGGGGTAT
* * *
137388 AGCGCGGCCCCTGCAGCGCGTTATACG
1 AGCGCGCCCCCTGCACCGCGCTATACG
137415 CCACGTAGGG
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
51 62 0.93
52 5 0.07
ACGTcount: A:0.16, C:0.34, G:0.31, T:0.19
Consensus pattern (51 bp):
AGCGCGCCCCCTGCACCGCGCTATACGACGATCTGGCGACACGTGGGGTAT
Found at i:141665 original size:18 final size:18
Alignment explanation
Indices: 141642--141678 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
141632 AAAGGCAATG
141642 GCGGCATCATATATGGCT
1 GCGGCATCATATATGGCT
141660 GCGGCATCATATATGGCT
1 GCGGCATCATATATGGCT
141678 G
1 G
141679 TAATGGTTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.22, G:0.30, T:0.27
Consensus pattern (18 bp):
GCGGCATCATATATGGCT
Found at i:143382 original size:110 final size:111
Alignment explanation
Indices: 143188--143408 Score: 399
Period size: 110 Copynumber: 2.0 Consensus size: 111
143178 ATTGCAAAAA
* * *
143188 TTAATTTTTAATCTAATAATCATGCATTAAATGAATCAACTAATTATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
*
143253 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
143299 TTAATTCTTAATCTAATAATCATGCATTAAATAAAT-AACTAAATATTACTAATAATTTAAATTA
1 TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
143363 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
143409 ATGATTTTCA
Statistics
Matches: 106, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
110 72 0.68
111 34 0.32
ACGTcount: A:0.45, C:0.10, G:0.09, T:0.36
Consensus pattern (111 bp):
TTAATTCTTAATCTAATAATCATGCATTAAATAAATCAACTAAATATTACTAATAATTTAAATTA
AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
Found at i:143542 original size:12 final size:10
Alignment explanation
Indices: 143528--143568 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
143518 ACCTTAAAAA
*
143528 GAGAGTATTT
1 GAGAGAATTT
143538 GAGAGAAATTT
1 GAGAG-AATTT
143549 -AGAGAATTT
1 GAGAGAATTT
143558 GAGAGAATTT
1 GAGAGAATTT
143568 G
1 G
143569 GTGTGATAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 5 0.18
10 19 0.68
11 4 0.14
ACGTcount: A:0.39, C:0.00, G:0.29, T:0.32
Consensus pattern (10 bp):
GAGAGAATTT
Found at i:143803 original size:51 final size:51
Alignment explanation
Indices: 143683--143806 Score: 151
Period size: 51 Copynumber: 2.4 Consensus size: 51
143673 GATATCCAGG
* * * * *
143683 TATAGCGCGCTGCAGGGGCCGCGCTATACACACGTGTATGCCAGATCACCG
1 TATAGCGCGGTGCAGGGGGCGCGCTATACACACGTGTACGCCAAATCACCA
* * * *
143734 TATAGCGTGGTGCAGGGGGCGCGCTATACCCCACGTG-GCGCCAAATCATCA
1 TATAGCGCGGTGCAGGGGGCGCGCTATA-CACACGTGTACGCCAAATCACCA
143785 TATAGCGCGGTGCAGGGGGCGC
1 TATAGCGCGGTGCAGGGGGCGC
143807 ACTTTACTGC
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
51 55 0.89
52 7 0.11
ACGTcount: A:0.20, C:0.29, G:0.34, T:0.17
Consensus pattern (51 bp):
TATAGCGCGGTGCAGGGGGCGCGCTATACACACGTGTACGCCAAATCACCA
Found at i:145001 original size:10 final size:10
Alignment explanation
Indices: 144978--145033 Score: 60
Period size: 10 Copynumber: 5.6 Consensus size: 10
144968 TCACTTTTTA
*
144978 AAAAAT-AAA
1 AAAAATGAAT
144987 AAAAATGCAAT
1 AAAAATG-AAT
144998 AAAAATGAAT
1 AAAAATGAAT
145008 AAAAATGAAT
1 AAAAATGAAT
* * *
145018 TAAATTCAAT
1 AAAAATGAAT
145028 AAAAAT
1 AAAAAT
145034 ATAATGTAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
9 6 0.15
10 24 0.62
11 9 0.23
ACGTcount: A:0.70, C:0.04, G:0.05, T:0.21
Consensus pattern (10 bp):
AAAAATGAAT
Found at i:145388 original size:11 final size:10
Alignment explanation
Indices: 145364--145420 Score: 60
Period size: 10 Copynumber: 5.6 Consensus size: 10
145354 ATTTTTTTAA
* *
145364 AAAAATAAAG
1 AAAAATGAAT
145374 AAAAATGAAAT
1 AAAAATG-AAT
145385 AAAAATGAAT
1 AAAAATGAAT
*
145395 TAAAATGAAT
1 AAAAATGAAT
* *
145405 AAAATTCAAT
1 AAAAATGAAT
145415 AAAAAT
1 AAAAAT
145421 ATAATGTAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
10 30 0.77
11 9 0.23
ACGTcount: A:0.70, C:0.02, G:0.07, T:0.21
Consensus pattern (10 bp):
AAAAATGAAT
Found at i:145389 original size:21 final size:20
Alignment explanation
Indices: 145364--145408 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
145354 ATTTTTTTAA
145364 AAAAATAAAGAAAAATGAAAT
1 AAAAATAAAGAAAAATG-AAT
* **
145385 AAAAATGAATTAAAATGAAT
1 AAAAATAAAGAAAAATGAAT
145405 AAAA
1 AAAA
145409 TTCAATAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.73, C:0.00, G:0.09, T:0.18
Consensus pattern (20 bp):
AAAAATAAAGAAAAATGAAT
Found at i:145639 original size:387 final size:386
Alignment explanation
Indices: 144887--146039 Score: 1941
Period size: 387 Copynumber: 3.0 Consensus size: 386
144877 TTTAATAATG
* *
144887 TTTATTGACTTTTAAAATTAATTGTTTAAAAATATTAAAATAAACTTTTAATTACAATTGAGAGA
1 TTTATTGACTTTTAAAATTAATTATTTAAAAATATTAAAATAAACTTTTAATTACAATTAAGAGA
* * *
144952 TCAAATGAATTATTATTCA-CTTTTT-AAAAAATAAA-AAAAATGCAATAAAAATGAATAAAAAT
66 TCAAATGAATTATTATTCATTTTTTTAAAAAAATAAAGAAAAATGAAATAAAAATGAATTAAAAT
* *
145014 GAATTAAATTCAATAAAAATATAATGTAAAGCT-AAAAATATCACCTCTTTATTTAAAATATTCT
131 GAATAAAATTCAATAAAAATATAATGTAAAGCTAAAAAATATCACTTCTTTATTTAAAATATTCT
* *
145078 TTTTAATATTAATTTTAAAAAATATTAAATAAATATTAAATATTAAATTTATTAAAAATGAATAA
196 TTCTAATATTAATTTTAAAAAATATTAAAT--AT-TT-AAT-TTAATTTTATTAAAAATGAATAA
*
145143 ATATTATTAACTGTTGTTAAAAATAATAATT-A--ACGAGACAAAACAATTTTTGTGAAGATTGA
256 ATATTATTAAATGTTGTTAAAAATAATAATTAATGACGAGACAAAACAATTTTTGTGAAGATTGA
*
145205 GCAGAAAAGATCAACTCTTTGATCGGATGTTTATTCGTGGTACAATTGAGTTGATATTTAGACAG
321 GCAGAAAAGATCAACTCTTTGATCGGATGTTTATTCGTGGTACAATTGAGTTGATATTTAGACAA
145270 C
386 C
145271 TTTATTGACTTTTAAAATTAATTATTTAAAAATATTAAAATAAACTTTTAATTACAATTAAGAGA
1 TTTATTGACTTTTAAAATTAATTATTTAAAAATATTAAAATAAACTTTTAATTACAATTAAGAGA
145336 TCAAATGAATTATTATTCATTTTTTTAAAAAAATAAAGAAAAATGAAATAAAAATGAATTAAAAT
66 TCAAATGAATTATTATTCATTTTTTTAAAAAAATAAAGAAAAATGAAATAAAAATGAATTAAAAT
145401 GAATAAAATTCAATAAAAATATAATGTAAAGCTAAAAAATATCACTTCTTTATTTAAAATATTCT
131 GAATAAAATTCAATAAAAATATAATGTAAAGCTAAAAAATATCACTTCTTTATTTAAAATATTCT
145466 TTCTAATATTAATTTTAAAAAAATATTAAAT-TTTAATTTGAATTTTATTAAAAATGAATAAATA
196 TTCTAATATTAATTTT-AAAAAATATTAAATATTTAATTT-AATTTTATTAAAAATGAATAAATA
145530 TTATTAAATGTTGTTAAAAATAATAATTAATGACGAGACAAAACAATTTTTGTGAAGATTGAGCA
259 TTATTAAATGTTGTTAAAAATAATAATTAATGACGAGACAAAACAATTTTTGTGAAGATTGAGCA
*
145595 GAAAAGATCAATTCTTTGATCGGATGTTTATTCGTGGTACAATTGAGTTGATATTTAGACAAC
324 GAAAAGATCAACTCTTTGATCGGATGTTTATTCGTGGTACAATTGAGTTGATATTTAGACAAC
145658 TTTATTGACTTTTAAAATTAATTATTTAAAAATATTAAAATAAACTTTTAATTACAATTAAGAGA
1 TTTATTGACTTTTAAAATTAATTATTTAAAAATATTAAAATAAACTTTTAATTACAATTAAGAGA
145723 TCAAATGAATTATTATTCATTTTTTTAAAAAAAATAAAGAAAAATGAAATAAAAATGAATTAAAA
66 TCAAATGAATTATTATTCATTTTTTT-AAAAAAATAAAGAAAAATGAAATAAAAATGAATTAAAA
*
145788 GTGAATAAAATTCAATTAAAATATAATGTAAAGCTAAAAAATATCACTTCTTTATTTAAAATATT
130 -TGAATAAAATTCAATAAAAATATAATGTAAAGCTAAAAAATATCACTTCTTTATTTAAAATATT
*
145853 CTTTCTAATATTAATTTTAAAAAATATTAAAAAATATTAAATTTTAATTTTATTAAAAATGAATA
194 CTTTCTAATATTAATTTTAAAAAATATT---AAATATTTAA-TTTAATTTTATTAAAAATGAATA
* * *
145918 AATATTATTAAATGTTGTTAAAAATAATAATAAATGACGAAACAAAACAATTTTTGTGAAGATTA
255 AATATTATTAAATGTTGTTAAAAATAATAATTAATGACGAGACAAAACAATTTTTGTGAAGATTG
* *
145983 AGCAGAAACGATCAACTCTTTGATCGGATGTTTATTTGTGGT---ATTGAGTTGATATTT
320 AGCAGAAAAGATCAACTCTTTGATCGGATGTTTATTCGTGGTACAATTGAGTTGATATTT
146040 TAAGTTAGAC
Statistics
Matches: 733, Mismatches: 20, Indels: 27
0.94 0.03 0.03
Matches are distributed among these distances:
383 2 0.00
384 135 0.18
385 8 0.01
386 11 0.02
387 242 0.33
388 93 0.13
389 110 0.15
391 4 0.01
392 125 0.17
393 3 0.00
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (386 bp):
TTTATTGACTTTTAAAATTAATTATTTAAAAATATTAAAATAAACTTTTAATTACAATTAAGAGA
TCAAATGAATTATTATTCATTTTTTTAAAAAAATAAAGAAAAATGAAATAAAAATGAATTAAAAT
GAATAAAATTCAATAAAAATATAATGTAAAGCTAAAAAATATCACTTCTTTATTTAAAATATTCT
TTCTAATATTAATTTTAAAAAATATTAAATATTTAATTTAATTTTATTAAAAATGAATAAATATT
ATTAAATGTTGTTAAAAATAATAATTAATGACGAGACAAAACAATTTTTGTGAAGATTGAGCAGA
AAAGATCAACTCTTTGATCGGATGTTTATTCGTGGTACAATTGAGTTGATATTTAGACAAC
Found at i:145776 original size:11 final size:11
Alignment explanation
Indices: 145752--145797 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
145742 TTTTTTTAAA
*
145752 AAAAAT-AAAG
1 AAAAATGAAAT
145762 AAAAATGAAAT
1 AAAAATGAAAT
*
145773 AAAAATGAATT
1 AAAAATGAAAT
*
145784 AAAAGTG-AAT
1 AAAAATGAAAT
145794 AAAA
1 AAAA
145798 TTCAATTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
10 12 0.39
11 19 0.61
ACGTcount: A:0.72, C:0.00, G:0.11, T:0.17
Consensus pattern (11 bp):
AAAAATGAAAT
Found at i:145787 original size:21 final size:20
Alignment explanation
Indices: 145763--145809 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
145753 AAAATAAAGA
*
145763 AAAATGAAATAAAAATGAATT
1 AAAATG-AATAAAAATCAATT
*
145784 AAAAGTGAATAAAATTCAATT
1 AAAA-TGAATAAAAATCAATT
145805 AAAAT
1 AAAAT
145810 ATAATGTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 1 0.04
21 20 0.87
22 2 0.09
ACGTcount: A:0.64, C:0.02, G:0.09, T:0.26
Consensus pattern (20 bp):
AAAATGAATAAAAATCAATT
Found at i:145884 original size:10 final size:10
Alignment explanation
Indices: 145869--145893 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
145859 AATATTAATT
145869 TTAAAAAATA
1 TTAAAAAATA
145879 TTAAAAAATA
1 TTAAAAAATA
145889 TTAAA
1 TTAAA
145894 TTTTAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (10 bp):
TTAAAAAATA
Found at i:146355 original size:20 final size:21
Alignment explanation
Indices: 146332--146378 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
146322 TTTACATTAT
146332 ATTTTTATTG-AATTTTATTC
1 ATTTTTATTGCAATTTTATTC
* *
146352 ATTTTTATTGCATTTTTATTT
1 ATTTTTATTGCAATTTTATTC
146373 ATTTTT
1 ATTTTT
146379 TTAAAAAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 10 0.42
21 14 0.58
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.70
Consensus pattern (21 bp):
ATTTTTATTGCAATTTTATTC
Found at i:146376 original size:10 final size:10
Alignment explanation
Indices: 146332--146378 Score: 58
Period size: 10 Copynumber: 4.6 Consensus size: 10
146322 TTTACATTAT
*
146332 ATTTTTATTG
1 ATTTTTATTC
*
146342 AATTTTATTC
1 ATTTTTATTC
146352 ATTTTTATTGC
1 ATTTTTATT-C
*
146363 ATTTTTATTT
1 ATTTTTATTC
146373 ATTTTT
1 ATTTTT
146379 TTAAAAAAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
10 22 0.69
11 10 0.31
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.70
Consensus pattern (10 bp):
ATTTTTATTC
Found at i:149161 original size:25 final size:25
Alignment explanation
Indices: 149133--149180 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
149123 TTTAGGGTGG
* *
149133 TGTGGAGGTTGAATCCTGGGACAAT
1 TGTGGAAGTTGAATCCAGGGACAAT
*
149158 TGTGGAATTTGAATCCAGGGACA
1 TGTGGAAGTTGAATCCAGGGACA
149181 GTGCACTAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.27, C:0.12, G:0.33, T:0.27
Consensus pattern (25 bp):
TGTGGAAGTTGAATCCAGGGACAAT
Found at i:161005 original size:19 final size:20
Alignment explanation
Indices: 160981--161019 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
160971 ATATACCTTA
160981 AAGAGC-TATGAGAGAATTT
1 AAGAGCATATGAGAGAATTT
* *
161000 AAGAGCATTTGAGAGGATTT
1 AAGAGCATATGAGAGAATTT
161020 GGTGTGATGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.38, C:0.05, G:0.28, T:0.28
Consensus pattern (20 bp):
AAGAGCATATGAGAGAATTT
Found at i:165294 original size:2 final size:2
Alignment explanation
Indices: 165284--165318 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
165274 TGTGTGTGTT
*
165284 TA TA GA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
165319 GTAAGAGAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
TA
Found at i:165872 original size:13 final size:13
Alignment explanation
Indices: 165854--165884 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
165844 AATCGTAAAA
*
165854 AATAAATGAATAT
1 AATAAATAAATAT
165867 AATAAATAAATAT
1 AATAAATAAATAT
165880 AATAA
1 AATAA
165885 TTATTAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (13 bp):
AATAAATAAATAT
Found at i:165909 original size:32 final size:32
Alignment explanation
Indices: 165873--165936 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
165863 ATATAATAAA
* *
165873 TAAATATAATAAT-TATTAATAATATTAATTAT
1 TAAATATAATAATATATAAAT-ATAGTAATTAT
165905 TAAATATAATAATATATAAATATAGTAATTAT
1 TAAATATAATAATATATAAATATAGTAATTAT
165937 AGTAGATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 23 0.79
33 6 0.21
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (32 bp):
TAAATATAATAATATATAAATATAGTAATTAT
Found at i:165917 original size:16 final size:16
Alignment explanation
Indices: 165862--165936 Score: 79
Period size: 16 Copynumber: 4.9 Consensus size: 16
165852 AAAATAAATG
165862 AATATAATAA--A-TA
1 AATATAATAATTATTA
165875 AATATAATAATTATT-
1 AATATAATAATTATTA
*
165890 AATAATATTAATTATTA
1 AAT-ATAATAATTATTA
165907 AATATAATAA-TATATA
1 AATATAATAATTAT-TA
*
165923 AATATAGTAATTAT
1 AATATAATAATTAT
165937 AGTAGATATT
Statistics
Matches: 52, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
13 10 0.19
15 7 0.13
16 29 0.56
17 6 0.12
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.41
Consensus pattern (16 bp):
AATATAATAATTATTA
Found at i:168691 original size:35 final size:35
Alignment explanation
Indices: 168647--168721 Score: 132
Period size: 35 Copynumber: 2.1 Consensus size: 35
168637 CAACCCATCA
* *
168647 GACCTGACTCAGCAGCTCACCAAGAGAATCCAGCC
1 GACCCGACTCAGCAGCTCACCAAGAGAATCCAGAC
168682 GACCCGACTCAGCAGCTCACCAAGAGAATCCAGAC
1 GACCCGACTCAGCAGCTCACCAAGAGAATCCAGAC
168717 GACCC
1 GACCC
168722 AATTGGAGCC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.32, C:0.39, G:0.20, T:0.09
Consensus pattern (35 bp):
GACCCGACTCAGCAGCTCACCAAGAGAATCCAGAC
Found at i:170550 original size:19 final size:19
Alignment explanation
Indices: 170528--170565 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
170518 AATTCGGAGC
170528 AAATTAATT-TAACTTTAAT
1 AAATTAATTAT-ACTTTAAT
*
170547 AAATTGATTATACTTTAAT
1 AAATTAATTATACTTTAAT
170566 TATCGATGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 16 0.94
20 1 0.06
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (19 bp):
AAATTAATTATACTTTAAT
Found at i:174515 original size:382 final size:383
Alignment explanation
Indices: 173768--174531 Score: 1415
Period size: 382 Copynumber: 2.0 Consensus size: 383
173758 ATGGGGGTGG
173768 GTTCATTGCAGAGTTCAATAAGATGATGGAAACTGGTTATAATACTGGATATTTTCTCCAATTAC
1 GTTCATTGCAGAGTTCAATAAGATGATGGAAACTGGTTATAATACTGGATATTTTCTCCAATTAC
*
173833 TTGTGTTTTTGCTTCATAGTATATTGTCCAAATAAAATTTTAATCATGATTAAGATGATATCAAA
66 TTGTGTTTTTGCTTCATAGTACATTGTCCAAATAAAATTTTAATCATGATTAAGATGATATCAAA
173898 TGATTCGGAAGCCCAAGTACAAGAAATCAGAATAATAAATATTTAAAGATTAATCTATCCTTATA
131 TGATTCGGAAGCCCAAGTACAAGAAATCAGAATAATAAATATTTAAAGATTAATCTATCCTTATA
*
173963 TATTCTGAATTTTCTTAATTTAATGACATCATGCTTACAAATACGTTGTAAATGTAGTCACCGGT
196 TATTCTGAATTTTCTTAATTTAATGACATCATGCTTACAAATACGTTGTAAACGTAGTCACCGGT
*
174028 GCTCCTCCTCTAGAAACAACAATGATTCCTTTAATTTGGTTCGTACTCGGTAAAAGGGACGTATT
261 GCTCCTCCTCTAGAAACAACAATGATTCCTTTAATTTGGTTCGTACTAGGTAAAAGGGACGTATT
174093 TTCTCAAAGCAATTATGGAAACCTTACATTTATTCAGCACAAAGGGTAGAAAATATAT
326 TTCTCAAAGCAATTATGGAAACCTTACATTTATTCAGCACAAAGGGTAGAAAATATAT
174151 GTTCATTGCAGAGTTCAATAAGATGATGGAAACTGGTTAT-ATACTGGATATTTTCTCCAATTAC
1 GTTCATTGCAGAGTTCAATAAGATGATGGAAACTGGTTATAATACTGGATATTTTCTCCAATTAC
*
174215 TTGTGTTTTTGCTTCATAGTGCATTGTCCAAATAAAATTTTAATCATGATTAAGATGATATCAAA
66 TTGTGTTTTTGCTTCATAGTACATTGTCCAAATAAAATTTTAATCATGATTAAGATGATATCAAA
*
174280 TGATTCGGAAGCCCAAGTACAAGAAATCAGAATAATAAATATTTAAAGATTAATCTAT-TTGTAT
131 TGATTCGGAAGCCCAAGTACAAGAAATCAGAATAATAAATATTTAAAGATTAATCTATCCT-TAT
* * *
174344 CTATTCTGAATTTTCTTAATTTAATGACATCATGCTTACAAATATGTTGTAAACGTAGTCACTGG
195 ATATTCTGAATTTTCTTAATTTAATGACATCATGCTTACAAATACGTTGTAAACGTAGTCACCGG
* *
174409 TGCTCCTCTTCTAGAAACAACAATGATTCTTTTAATTTGGTTCGTACTAGGTAAAAGGGACGTAT
260 TGCTCCTCCTCTAGAAACAACAATGATTCCTTTAATTTGGTTCGTACTAGGTAAAAGGGACGTAT
174474 TTTCTCAAAGCAATTATGGAAACCTTACATTTATTCAGCACAAAGGGTAGAAAATATA
325 TTTCTCAAAGCAATTATGGAAACCTTACATTTATTCAGCACAAAGGGTAGAAAATATA
174532 GTTTCACAGG
Statistics
Matches: 370, Mismatches: 10, Indels: 3
0.97 0.03 0.01
Matches are distributed among these distances:
381 1 0.00
382 329 0.89
383 40 0.11
ACGTcount: A:0.35, C:0.14, G:0.15, T:0.35
Consensus pattern (383 bp):
GTTCATTGCAGAGTTCAATAAGATGATGGAAACTGGTTATAATACTGGATATTTTCTCCAATTAC
TTGTGTTTTTGCTTCATAGTACATTGTCCAAATAAAATTTTAATCATGATTAAGATGATATCAAA
TGATTCGGAAGCCCAAGTACAAGAAATCAGAATAATAAATATTTAAAGATTAATCTATCCTTATA
TATTCTGAATTTTCTTAATTTAATGACATCATGCTTACAAATACGTTGTAAACGTAGTCACCGGT
GCTCCTCCTCTAGAAACAACAATGATTCCTTTAATTTGGTTCGTACTAGGTAAAAGGGACGTATT
TTCTCAAAGCAATTATGGAAACCTTACATTTATTCAGCACAAAGGGTAGAAAATATAT
Found at i:175409 original size:13 final size:14
Alignment explanation
Indices: 175366--175410 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
175356 TTAAATGATA
*
175366 AACAAACACAAATG
1 AACAAACATAAATG
*
175380 AACAAACATAAACG
1 AACAAACATAAATG
*
175394 AACACA-ATAAATG
1 AACAAACATAAATG
175407 AACA
1 AACA
175411 TAAACGAACA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
13 10 0.37
14 17 0.63
ACGTcount: A:0.64, C:0.20, G:0.07, T:0.09
Consensus pattern (14 bp):
AACAAACATAAATG
Found at i:175625 original size:14 final size:14
Alignment explanation
Indices: 175592--175626 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
175582 AGATTGGGCT
175592 AAACATAAATGAAC
1 AAACATAAATGAAC
**
175606 GCACATAAATGAAC
1 AAACATAAATGAAC
175620 AAACATA
1 AAACATA
175627 TTACCGAATG
Statistics
Matches: 17, Mismatches: 4, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.60, C:0.17, G:0.09, T:0.14
Consensus pattern (14 bp):
AAACATAAATGAAC
Found at i:176300 original size:21 final size:20
Alignment explanation
Indices: 176271--176325 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
176261 ATTCTGACTA
176271 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTT-CCAAAT
* *
176292 TCGCGTTGCGACTTTCCTAAT
1 TCGCATTGCGA-TTTCCAAAT
*
176313 TCGCAATGCGATT
1 TCGCATTGCGATT
176326 ACGTAAATCG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 2 0.07
21 24 0.83
22 3 0.10
ACGTcount: A:0.20, C:0.27, G:0.18, T:0.35
Consensus pattern (20 bp):
TCGCATTGCGATTTCCAAAT
Found at i:176354 original size:21 final size:21
Alignment explanation
Indices: 176313--176369 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 21
176303 CTTTCCTAAT
*
176313 TCGCAATGCG-ATTACGTAAA
1 TCGCAATGCGAATTACGAAAA
*
176333 TCGCAATGCGAATTAGGAAAA
1 TCGCAATGCGAATTACGAAAA
176354 TCGCAATGCG-ATTACG
1 TCGCAATGCGAATTACG
176370 TATTCGCGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
20 15 0.45
21 18 0.55
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAATTACGAAAA
Found at i:176396 original size:21 final size:21
Alignment explanation
Indices: 176371--176438 Score: 66
Period size: 21 Copynumber: 3.3 Consensus size: 21
176361 GCGATTACGT
* *
176371 ATTCGCGTTGCAATTTTCCTA
1 ATTCGCGTTGCGATTTTCATA
* * * *
176392 ATTCGCATTGTGATTTACGT-
1 ATTCGCGTTGCGATTTTCATA
*
176412 ATTAGCGTTGCGATTTTCATA
1 ATTCGCGTTGCGATTTTCATA
176433 ATTCGC
1 ATTCGC
176439 AATGCGAATA
Statistics
Matches: 35, Mismatches: 11, Indels: 2
0.73 0.23 0.04
Matches are distributed among these distances:
20 15 0.43
21 20 0.57
ACGTcount: A:0.21, C:0.19, G:0.18, T:0.43
Consensus pattern (21 bp):
ATTCGCGTTGCGATTTTCATA
Found at i:177124 original size:33 final size:33
Alignment explanation
Indices: 177065--177158 Score: 116
Period size: 33 Copynumber: 2.8 Consensus size: 33
177055 CGAGAATGAA
** *
177065 AATCGGCAACGCGGAAATGACTATCGCAACGAGAG
1 AATC-GCAACGC-GAAATGAAAATCGCAACAAGAG
*
177100 AATCGCAACGCGAAATGAAAATCGCAACAAGAT
1 AATCGCAACGCGAAATGAAAATCGCAACAAGAG
**
177133 AATCGCAACGCGAAACCAAAATCGCA
1 AATCGCAACGCGAAATGAAAATCGCA
177159 TTGCGATTTT
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
33 42 0.79
34 7 0.13
35 4 0.08
ACGTcount: A:0.44, C:0.24, G:0.21, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACAAGAG
Found at i:177176 original size:19 final size:19
Alignment explanation
Indices: 177154--177312 Score: 98
Period size: 19 Copynumber: 9.1 Consensus size: 19
177144 GAAACCAAAA
*
177154 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
177173 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
177187 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
177206 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * *
177220 TCTCATTGCCATTTTCATT
1 TCGCGTTGCGATTTTCATT
177239 TCGCGTTGCGA--TT-A--
1 TCGCGTTGCGATTTTCATT
* **
177253 TCTCGTTGCGATAGTCATTT
1 TCGCGTTGCGATTTTCA-TT
*
177273 TCGCGTTACGA-TTTCATT
1 TCGCGTTGCGATTTTCATT
*
177291 CTCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
177311 TC
1 TC
177313 AACCAAAAGA
Statistics
Matches: 105, Mismatches: 17, Indels: 36
0.66 0.11 0.23
Matches are distributed among these distances:
14 28 0.27
16 8 0.08
17 9 0.09
18 2 0.02
19 42 0.40
20 16 0.15
ACGTcount: A:0.13, C:0.24, G:0.18, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:177201 original size:33 final size:33
Alignment explanation
Indices: 177159--177312 Score: 200
Period size: 33 Copynumber: 4.5 Consensus size: 33
177149 CAAAATCGCA
177159 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
177192 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCA
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
177225 TTGCCATTTTCATTTCGCGTTGCGATTATCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
** *
177258 TTGCGATAGTCATTTTCGCGTTACGATTTCATTCTCTCG
1 TTGCGATTTTCA-TTTCGCGTTGCG-----ATTCTCTCG
177297 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
177313 AACCAAAAGA
Statistics
Matches: 104, Mismatches: 11, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
33 71 0.68
34 11 0.11
38 4 0.04
39 18 0.17
ACGTcount: A:0.12, C:0.23, G:0.18, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:179191 original size:94 final size:93
Alignment explanation
Indices: 178999--179374 Score: 589
Period size: 94 Copynumber: 4.1 Consensus size: 93
178989 TAGATTGCTT
* *
178999 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAAC--TGT-TT-ATTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
*
179060 ATTTATCTTTTGTTTTGTCTTTTGGTTGA
66 ATTTGTC-TTTGTTTTGTCTTTTGGTTGA
179089 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
179154 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTG-A
* *
179183 AGTAAATTTGTTCGGTTGCTGCCAATTTTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
179248 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTG-A
* ** * * * *
179277 AGTAAATTTGTTCATTTGCTGCTAATTCTGCTAAACTGTATATTCTTTAATACTCTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
179342 ATTTGTCTTTGTTTTGTCTTTTGGTTGA
66 ATTTGTCTTTGTTTTGTCTTTTGGTTGA
179370 AGTAA
1 AGTAA
179375 TGCAATCCAT
Statistics
Matches: 269, Mismatches: 12, Indels: 7
0.93 0.04 0.02
Matches are distributed among these distances:
90 35 0.13
92 3 0.01
93 28 0.10
94 203 0.75
ACGTcount: A:0.22, C:0.12, G:0.18, T:0.48
Consensus pattern (93 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAGTTAGT
ATTTGTCTTTGTTTTGTCTTTTGGTTGA
Found at i:179511 original size:39 final size:38
Alignment explanation
Indices: 179463--179538 Score: 116
Period size: 39 Copynumber: 2.0 Consensus size: 38
179453 TCTTTTGGTT
* *
179463 GAAATGAAAATCGCAACGAGAGAATGAAAATCGCAACGC
1 GAAACGAAAATCGCAACGAGA-AATGAAAATCACAACGC
*
179502 GAAACGAAAATCGCAACGCGAAATGAAAATCACAACG
1 GAAACGAAAATCGCAACGAGAAATGAAAATCACAACG
179539 ACAAAATCGC
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
38 15 0.44
39 19 0.56
ACGTcount: A:0.50, C:0.20, G:0.21, T:0.09
Consensus pattern (38 bp):
GAAACGAAAATCGCAACGAGAAATGAAAATCACAACGC
Found at i:179512 original size:19 final size:19
Alignment explanation
Indices: 179463--179578 Score: 116
Period size: 19 Copynumber: 6.3 Consensus size: 19
179453 TCTTTTGGTT
* *
179463 GAAATGAAAATCGCAACGA
1 GAAACGAAAATCGCAACGC
*
179482 GAGAATGAAAATCGCAACGC
1 GA-AACGAAAATCGCAACGC
179502 GAAACGAAAATCGCAACGC
1 GAAACGAAAATCGCAACGC
* *
179521 GAAATGAAAATCACAA--C
1 GAAACGAAAATCGCAACGC
*
179538 G--AC-AAAATCGCAATGC
1 GAAACGAAAATCGCAACGC
*
179554 GAAACCAAAAATCGCAACGC
1 GAAA-CGAAAATCGCAACGC
179574 GAAAC
1 GAAAC
179579 TATAATCACG
Statistics
Matches: 83, Mismatches: 7, Indels: 14
0.80 0.07 0.13
Matches are distributed among these distances:
14 9 0.11
15 1 0.01
16 2 0.02
17 2 0.02
18 1 0.01
19 34 0.41
20 34 0.41
ACGTcount: A:0.50, C:0.22, G:0.19, T:0.09
Consensus pattern (19 bp):
GAAACGAAAATCGCAACGC
Found at i:179564 original size:20 final size:20
Alignment explanation
Indices: 179541--179578 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
179531 TCACAACGAC
*
179541 AAAATCGCAATGCGAAACCA
1 AAAATCGCAACGCGAAACCA
179561 AAAATCGCAACGCGAAAC
1 AAAATCGCAACGCGAAAC
179579 TATAATCACG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.26, G:0.16, T:0.08
Consensus pattern (20 bp):
AAAATCGCAACGCGAAACCA
Found at i:179645 original size:19 final size:20
Alignment explanation
Indices: 179621--179672 Score: 61
Period size: 21 Copynumber: 2.6 Consensus size: 20
179611 GCGATTTTGT
*
179621 CGTTGCGATTTTCA-TTTCG
1 CGTTGCGATTTTCATTTTCA
**
179640 CGTTGCGATAATCATTTTTCA
1 CGTTGCGATTTTCA-TTTTCA
179661 CGTTGCGATTTT
1 CGTTGCGATTTT
179673 AAGTTCTATT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 12 0.46
21 14 0.54
ACGTcount: A:0.15, C:0.19, G:0.19, T:0.46
Consensus pattern (20 bp):
CGTTGCGATTTTCATTTTCA
Found at i:180142 original size:21 final size:21
Alignment explanation
Indices: 180118--180184 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
180108 TCATTCCTCG
180118 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
180139 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
180160 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
180181 AGAG
1 AGAG
180185 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:180142 original size:42 final size:42
Alignment explanation
Indices: 180066--180184 Score: 107
Period size: 42 Copynumber: 2.8 Consensus size: 42
180056 GACTCGCCTG
* * * * * * *
180066 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
*
180108 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * *
180150 TCA-TCGTTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 TCATTCCTCG-AGA-GTCCCCTCCCACCGTTCAAGAG
180185 CCCGATTCAC
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 4 0.06
42 58 0.91
43 2 0.03
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.23
Consensus pattern (42 bp):
TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
Found at i:181551 original size:14 final size:14
Alignment explanation
Indices: 181532--181567 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
181522 ATTGTTTAAT
181532 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
181546 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
181560 TGATTTGT
1 TGATTTGT
181568 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:181715 original size:19 final size:19
Alignment explanation
Indices: 181691--181736 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
181681 TGCGAAATGA
181691 AAAATCGCAACACGAAACT
1 AAAATCGCAACACGAAACT
*
181710 AAAATCGCAACGCGAAACT
1 AAAATCGCAACACGAAACT
*
181729 AAATTCGC
1 AAAATCGC
181737 GTTGCGATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.48, C:0.26, G:0.13, T:0.13
Consensus pattern (19 bp):
AAAATCGCAACACGAAACT
Found at i:181754 original size:19 final size:19
Alignment explanation
Indices: 181732--181882 Score: 89
Period size: 19 Copynumber: 8.7 Consensus size: 19
181722 CGAAACTAAA
181732 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
181751 TTCGCTTTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
181766 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
181784 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
181799 -TCTCGTTGCGATTTGCAT
1 TTCGCGTTGCGATTTTCAT
*
181817 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
181832 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* **
181850 TTCGCATTGCGATAGTCATT
1 TTCGCGTTGCGATTTTCA-T
181870 TTCGCGTTGCGAT
1 TTCGCGTTGCGAT
181883 AGACATTAAG
Statistics
Matches: 96, Mismatches: 20, Indels: 31
0.65 0.14 0.21
Matches are distributed among these distances:
14 26 0.27
16 8 0.08
17 8 0.08
19 41 0.43
20 13 0.14
ACGTcount: A:0.12, C:0.24, G:0.21, T:0.44
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:181778 original size:33 final size:33
Alignment explanation
Indices: 181736--181862 Score: 227
Period size: 33 Copynumber: 3.8 Consensus size: 33
181726 ACTAAATTCG
* *
181736 CGTTGCGATTTTCATTTCGCTTTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
181769 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
*
181802 CGTTGCGATTTGCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
181835 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
181863 AGTCATTTTC
Statistics
Matches: 90, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 90 1.00
ACGTcount: A:0.12, C:0.24, G:0.20, T:0.44
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
Found at i:181809 original size:14 final size:14
Alignment explanation
Indices: 181757--181844 Score: 59
Period size: 14 Copynumber: 5.6 Consensus size: 14
181747 TCATTTCGCT
*
181757 TTGCGATTCCCTCG
1 TTGCGATTCTCTCG
*
181771 TTGCGATTTTCATTTCG
1 TTGCGA--TTC-TCTCG
181788 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
*
181804 TTGCGATTTGCATTTCG
1 TTGCGA-TT-C-TCTCG
181821 CATTGCGATTCTCTCG
1 --TTGCGATTCTCTCG
181837 TTGCGATT
1 TTGCGATT
181845 TTCATTTCGC
Statistics
Matches: 59, Mismatches: 5, Indels: 20
0.70 0.06 0.24
Matches are distributed among these distances:
14 20 0.34
15 2 0.03
16 12 0.20
17 11 0.19
18 2 0.03
19 12 0.20
ACGTcount: A:0.11, C:0.25, G:0.20, T:0.43
Consensus pattern (14 bp):
TTGCGATTCTCTCG
Found at i:181874 original size:20 final size:20
Alignment explanation
Indices: 181849--181889 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
181839 GCGATTTTCA
*
181849 TTTCGCATTGCGATAGTCAT
1 TTTCGCATTGCGATAGACAT
*
181869 TTTCGCGTTGCGATAGACAT
1 TTTCGCATTGCGATAGACAT
181889 T
1 T
181890 AAGATGATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.39
Consensus pattern (20 bp):
TTTCGCATTGCGATAGACAT
Found at i:181928 original size:20 final size:20
Alignment explanation
Indices: 181856--181928 Score: 60
Period size: 20 Copynumber: 3.6 Consensus size: 20
181846 TCATTTCGCA
* *
181856 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTACGTG
* *
181876 TTGCGATAGACA-TTAAGATG
1 TTGCGATAGTCATTTACG-TG
*
181896 ATTGCGA-ACGTCATTTCCGTG
1 -TTGCGATA-GTCATTTACGTG
181917 TTGCGATAGTCA
1 TTGCGATAGTCA
181929 AATGAATGCC
Statistics
Matches: 41, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
19 3 0.07
20 23 0.56
21 12 0.29
22 3 0.07
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (20 bp):
TTGCGATAGTCATTTACGTG
Found at i:184466 original size:24 final size:24
Alignment explanation
Indices: 184415--184466 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
184405 ATCTGAGTAT
** *
184415 TGACCAAGATCAAAGTCCGGGTAT
1 TGACCAAGATCAAAGTCCGAATAC
* *
184439 TGACCAAGATCAAATTTCGAATAC
1 TGACCAAGATCAAAGTCCGAATAC
184463 TGAC
1 TGAC
184467 TAGTACTCAC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.37, C:0.21, G:0.19, T:0.23
Consensus pattern (24 bp):
TGACCAAGATCAAAGTCCGAATAC
Found at i:185330 original size:20 final size:20
Alignment explanation
Indices: 185315--185748 Score: 343
Period size: 20 Copynumber: 21.3 Consensus size: 20
185305 AGAATCTCAT
185315 TGCGATTTAC-TAAATCGCAA
1 TGCGA-TTACGTAAATCGCAA
*
185335 TGCGATTACGTAAATCGAAA
1 TGCGATTACGTAAATCGCAA
* *
185355 TGCGAATTAGGAAAATCGCAA
1 TGCG-ATTACGTAAATCGCAA
* *
185376 TGTGAATACGTAAATCGCAA
1 TGCGATTACGTAAATCGCAA
*
185396 TGCGATTATGTAAATCGCAA
1 TGCGATTACGTAAATCGCAA
* *
185416 TGCGAATTAGGAAAATCGCAA
1 TGCG-ATTACGTAAATCGCAA
185437 TGCGATTACGTAAATCGCAA
1 TGCGATTACGTAAATCGCAA
* * *
185457 TGCGAATTAGGAAAATCACAA
1 TGCG-ATTACGTAAATCGCAA
* *
185478 TGCGAATTAGGAAAATCGCAA
1 TGCG-ATTACGTAAATCGCAA
*
185499 TGCGATTATGTAAATCGCAA
1 TGCGATTACGTAAATCGCAA
* * *
185519 TGCGAATAGGAAAATCGCAA
1 TGCGATTACGTAAATCGCAA
* * *
185539 TGCGAATAGGAAAATCGCAA
1 TGCGATTACGTAAATCGCAA
185559 TGCGATTACGTAAATCGCAA
1 TGCGATTACGTAAATCGCAA
* * *
185579 TGCGAATTAGGAAAAACGCAA
1 TGCG-ATTACGTAAATCGCAA
*
185600 TGCGATTACGTAAATCGCAT
1 TGCGATTACGTAAATCGCAA
* * * * *
185620 TGTGATTATGT-ATTCACAT
1 TGCGATTACGTAAATCGCAA
* *
185639 TGCGATTTACGT-ATTCGCAT
1 TGCGA-TTACGTAAATCGCAA
* *
185659 TGCGAATTAGGAAAATCGCAA
1 TGCG-ATTACGTAAATCGCAA
* ** *
185680 CGCGAATTTGGGAAATCGCAA
1 TGCG-ATTACGTAAATCGCAA
* ** *
185701 CGCGAATTTGGAAAATCGCAA
1 TGCG-ATTACGTAAATCGCAA
* ** *
185722 CGCGAATTTGGGAAATCGCAA
1 TGCG-ATTACGTAAATCGCAA
185743 TGCGAT
1 TGCGAT
185749 AGTCAGAATC
Statistics
Matches: 355, Mismatches: 51, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
19 14 0.04
20 185 0.52
21 156 0.44
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (20 bp):
TGCGATTACGTAAATCGCAA
Found at i:185377 original size:41 final size:40
Alignment explanation
Indices: 185315--185748 Score: 397
Period size: 41 Copynumber: 10.7 Consensus size: 40
185305 AGAATCTCAT
* * *
185315 TGCGATTTAC-TAAATCGCAATGCGATTACGTAAATCGAAA
1 TGCGA-TTACGTAAATCGCAATGCGATTAGGAAAATCGCAA
* * * * * *
185355 TGCGAATTAGGAAAATCGCAATGTGAATACGTAAATCGCAA
1 TGCG-ATTACGTAAATCGCAATGCGATTAGGAAAATCGCAA
*
185396 TGCGATTATGTAAATCGCAATGCGAATTAGGAAAATCGCAA
1 TGCGATTACGTAAATCGCAATGCG-ATTAGGAAAATCGCAA
*
185437 TGCGATTACGTAAATCGCAATGCGAATTAGGAAAATCACAA
1 TGCGATTACGTAAATCGCAATGCG-ATTAGGAAAATCGCAA
* * * *
185478 TGCGAATTAGGAAAATCGCAATGCGATTATGTAAATCGCAA
1 TGCG-ATTACGTAAATCGCAATGCGATTAGGAAAATCGCAA
* * * *
185519 TGCGAATAGGAAAATCGCAATGCGAATAGGAAAATCGCAA
1 TGCGATTACGTAAATCGCAATGCGATTAGGAAAATCGCAA
*
185559 TGCGATTACGTAAATCGCAATGCGAATTAGGAAAAACGCAA
1 TGCGATTACGTAAATCGCAATGCG-ATTAGGAAAATCGCAA
* * * * * * *
185600 TGCGATTACGTAAATCGCATTGTGATTATG-TATTCACAT
1 TGCGATTACGTAAATCGCAATGCGATTAGGAAAATCGCAA
* *
185639 TGCGATTTACGT-ATTCGCATTGCGAATTAGGAAAATCGCAA
1 TGCGA-TTACGTAAATCGCAATGCG-ATTAGGAAAATCGCAA
* ** * * *
185680 CGCGAATTTGGGAAATCGCAACGCGAATTTGGAAAATCGCAA
1 TGCG-ATTACGTAAATCGCAATGCG-ATTAGGAAAATCGCAA
* ** *
185722 CGCGAATTTGGGAAATCGCAATGCGAT
1 TGCG-ATTACGTAAATCGCAATGCGAT
185749 AGTCAGAATC
Statistics
Matches: 333, Mismatches: 51, Indels: 19
0.83 0.13 0.05
Matches are distributed among these distances:
39 19 0.06
40 93 0.28
41 153 0.46
42 68 0.20
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (40 bp):
TGCGATTACGTAAATCGCAATGCGATTAGGAAAATCGCAA
Found at i:185390 original size:61 final size:61
Alignment explanation
Indices: 185315--185748 Score: 491
Period size: 61 Copynumber: 7.1 Consensus size: 61
185305 AGAATCTCAT
* * *
185315 TGCGATTTAC-TAAATCGCAATGCGATTACGTAAATCGAAATGCGAATTAGGAAAATCGCAA
1 TGCGA-TTACGTAAATCGCAATGCGATTAGGAAAATCGCAATGCGAATTAGGAAAATCGCAA
* * * *
185376 TGTGAATACGTAAATCGCAATGCGATTATGTAAATCGCAATGCGAATTAGGAAAATCGCAA
1 TGCGATTACGTAAATCGCAATGCGATTAGGAAAATCGCAATGCGAATTAGGAAAATCGCAA
*
185437 TGCGATTACGTAAATCGCAATGCGAATTAGGAAAATCACAATGCGAATTAGGAAAATCGCAA
1 TGCGATTACGTAAATCGCAATGCG-ATTAGGAAAATCGCAATGCGAATTAGGAAAATCGCAA
* *
185499 TGCGATTATGTAAATCGCAATGCGAATAGGAAAATCGCAATGCGAA-TAGGAAAATCGCAA
1 TGCGATTACGTAAATCGCAATGCGATTAGGAAAATCGCAATGCGAATTAGGAAAATCGCAA
* * * *
185559 TGCGATTACGTAAATCGCAATGCGAATTAGGAAAAACGCAATGCG-ATTACGTAAATCGCAT
1 TGCGATTACGTAAATCGCAATGCG-ATTAGGAAAATCGCAATGCGAATTAGGAAAATCGCAA
* * * * * * * * *
185620 TGTGATTATGT-ATTCACATTGCGATTTACG-TATTCGCATTGCGAATTAGGAAAATCGCAA
1 TGCGATTACGTAAATCGCAATGCGA-TTAGGAAAATCGCAATGCGAATTAGGAAAATCGCAA
* ** * * * * * *
185680 CGCGAATTTGGGAAATCGCAACGCGAATTTGGAAAATCGCAACGCGAATTTGGGAAATCGCAA
1 TGCG-ATTACGTAAATCGCAATGCG-ATTAGGAAAATCGCAATGCGAATTAGGAAAATCGCAA
185743 TGCGAT
1 TGCGAT
185749 AGTCAGAATC
Statistics
Matches: 314, Mismatches: 49, Indels: 19
0.82 0.13 0.05
Matches are distributed among these distances:
59 10 0.03
60 69 0.22
61 137 0.44
62 70 0.22
63 28 0.09
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (61 bp):
TGCGATTACGTAAATCGCAATGCGATTAGGAAAATCGCAATGCGAATTAGGAAAATCGCAA
Found at i:185684 original size:21 final size:21
Alignment explanation
Indices: 185660--185747 Score: 140
Period size: 21 Copynumber: 4.2 Consensus size: 21
185650 TATTCGCATT
*
185660 GCGAATTAGGAAAATCGCAAC
1 GCGAATTTGGAAAATCGCAAC
*
185681 GCGAATTTGGGAAATCGCAAC
1 GCGAATTTGGAAAATCGCAAC
185702 GCGAATTTGGAAAATCGCAAC
1 GCGAATTTGGAAAATCGCAAC
* *
185723 GCGAATTTGGGAAATCGCAAT
1 GCGAATTTGGAAAATCGCAAC
185744 GCGA
1 GCGA
185748 TAGTCAGAAT
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 62 1.00
ACGTcount: A:0.36, C:0.18, G:0.27, T:0.18
Consensus pattern (21 bp):
GCGAATTTGGAAAATCGCAAC
Found at i:187610 original size:28 final size:28
Alignment explanation
Indices: 187570--187684 Score: 169
Period size: 28 Copynumber: 4.1 Consensus size: 28
187560 GAGAGTATCT
187570 GAGGCAATCCGAACGAGGGCATCCGAGC
1 GAGGCAATCCGAACGAGGGCATCCGAGC
187598 GAGGCAATCCGAACGAGGGCATCCGAGC
1 GAGGCAATCCGAACGAGGGCATCCGAGC
* *
187626 GAGGCCATCCGAACGAGGGCAACCGAGC
1 GAGGCAATCCGAACGAGGGCATCCGAGC
* * *
187654 GAGGCCAT-CTAACCGAGGGCATTCGAGC
1 GAGGCAATCCGAA-CGAGGGCATCCGAGC
187682 GAG
1 GAG
187685 CTATGCGAGG
Statistics
Matches: 81, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
27 3 0.04
28 78 0.96
ACGTcount: A:0.28, C:0.29, G:0.36, T:0.08
Consensus pattern (28 bp):
GAGGCAATCCGAACGAGGGCATCCGAGC
Found at i:187684 original size:14 final size:14
Alignment explanation
Indices: 187576--187684 Score: 112
Period size: 14 Copynumber: 7.8 Consensus size: 14
187566 ATCTGAGGCA
*
187576 ATCCGAACGAGGGC
1 ATCCGAGCGAGGGC
187590 ATCCGAGCGA-GGC
1 ATCCGAGCGAGGGC
*
187603 AATCCGAACGAGGGC
1 -ATCCGAGCGAGGGC
*
187618 ATCCGAGCGAGGCC
1 ATCCGAGCGAGGGC
*
187632 ATCCGAACGAGGGC
1 ATCCGAGCGAGGGC
* *
187646 AACCGAGCGAGGCC
1 ATCCGAGCGAGGGC
** *
187660 ATCTAACCGAGGGC
1 ATCCGAGCGAGGGC
*
187674 ATTCGAGCGAG
1 ATCCGAGCGAG
187685 CTATGCGAGG
Statistics
Matches: 75, Mismatches: 18, Indels: 4
0.77 0.19 0.04
Matches are distributed among these distances:
13 3 0.04
14 69 0.92
15 3 0.04
ACGTcount: A:0.28, C:0.29, G:0.35, T:0.08
Consensus pattern (14 bp):
ATCCGAGCGAGGGC
Found at i:188398 original size:30 final size:30
Alignment explanation
Indices: 188294--188398 Score: 140
Period size: 30 Copynumber: 3.5 Consensus size: 30
188284 TTTAGTTAAT
* *
188294 TAGTTTTTTAGTTGTAAATTATAATTAAA-AA
1 TAGTTTATTAGTTG-AAGTTAT-ATTAAAGAA
* *
188325 TCGTTTATTAGTTTAAGTTATATTAAAGAA
1 TAGTTTATTAGTTGAAGTTATATTAAAGAA
188355 TAGTTTATTAGTTGAAGTTATATTAAAGAA
1 TAGTTTATTAGTTGAAGTTATATTAAAGAA
*
188385 TAATTTATTAGTTG
1 TAGTTTATTAGTTG
188399 TTTAAGGGAA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
29 6 0.09
30 49 0.74
31 11 0.17
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.48
Consensus pattern (30 bp):
TAGTTTATTAGTTGAAGTTATATTAAAGAA
Found at i:188480 original size:15 final size:16
Alignment explanation
Indices: 188452--188485 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
188442 GTTTGTTACT
188452 TTATAAGTTTATTATA
1 TTATAAGTTTATTATA
188468 TTATAAG-TTATTATA
1 TTATAAGTTTATTATA
188483 TTA
1 TTA
188486 AATTTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 11 0.61
16 7 0.39
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (16 bp):
TTATAAGTTTATTATA
Done.