Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001465.1 Hibiscus syriacus cultivar Beakdansim tig00002840_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: 11160956
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 48 of 55
Found at i:9655063 original size:33 final size:33
Alignment explanation
Indices: 9655021--9655348 Score: 224
Period size: 33 Copynumber: 9.5 Consensus size: 33
9655011 TGCGTTTATA
9655021 ATTTCGCATTGCGATTATCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTATCTCGTTGCGATTTTC
*
9655054 ATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC
1 ATTTCGCATTGCGA--TT-ATCTCG--TTGCGATTTTC
*
9655090 -TTTCG--TTGCGATTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGA-TT-ATCTCG--TTGCGATTTTC
* *
9655124 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTA
1 ATTTCGCATTGCGA--TT-ATCTCG--TTGCGATTTTC
* *
9655162 ATTTCGCATTGCGATTCTGTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTATCTCGTTGCGATTTTC
*
9655195 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTC
1 ATTTCGCATTGCGA--TT-ATCTCG--TTGCGATT-T-TC
* * * * *
9655235 GTTGCG-ATTTTC-ATT-TCGCATTGCGATTTTC
1 ATTTCGCA-TTGCGATTATCTCGTTGCGATTTTC
* *
9655266 ATTTCACATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTATCTCGTTGCGATTTTC
* *
9655299 ATTTCCGCATTGCGATTTTCAT-GTTGGGATTTTC
1 ATTT-CGCATTGCGATTATC-TCGTTGCGATTTTC
*
9655333 ATTTCGCGTTGCGATT
1 ATTTCGCATTGCGATT
9655349 GTATTTTCCG
Statistics
Matches: 248, Mismatches: 23, Indels: 48
0.78 0.07 0.15
Matches are distributed among these distances:
31 8 0.03
32 23 0.09
33 81 0.33
34 31 0.12
35 21 0.08
36 14 0.06
37 8 0.03
38 50 0.20
39 3 0.01
40 9 0.04
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.46
Consensus pattern (33 bp):
ATTTCGCATTGCGATTATCTCGTTGCGATTTTC
Found at i:9655067 original size:19 final size:19
Alignment explanation
Indices: 9655043--9655348 Score: 358
Period size: 19 Copynumber: 17.4 Consensus size: 19
9655033 GATTATCTCG
9655043 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
9655062 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
9655081 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
9655095 TTGCGA-TTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
9655113 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
9655132 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
9655151 TTGCGATTTTAATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
9655170 TTGCGA--TTC-TGTCG--
1 TTGCGATTTTCATTTCGCA
9655184 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
9655203 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
9655222 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
9655236 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
9655255 TTGCGATTTTCATTTCACA
1 TTGCGATTTTCATTTCGCA
*
9655274 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
9655288 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
9655308 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
9655322 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
9655341 TTGCGATT
1 TTGCGATT
9655349 GTATTTTCCG
Statistics
Matches: 249, Mismatches: 12, Indels: 52
0.80 0.04 0.17
Matches are distributed among these distances:
14 35 0.14
15 3 0.01
16 32 0.13
17 22 0.09
18 9 0.04
19 136 0.55
20 12 0.05
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:9655287 original size:52 final size:52
Alignment explanation
Indices: 9655043--9655320 Score: 370
Period size: 52 Copynumber: 5.2 Consensus size: 52
9655033 GATTATCTCG
*
9655043 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCA
*
9655095 TTGCGA-TTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCA
* *
9655151 TTGCGATTTTAATTTCGCATTGCGATTCTGTCGTTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
9655203 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
*
9655255 TTGCGATTTTCATTTCACATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCA
9655308 TTGCGATTTTCAT
1 TTGCGATTTTCAT
9655321 GTTGGGATTT
Statistics
Matches: 214, Mismatches: 5, Indels: 13
0.92 0.02 0.06
Matches are distributed among these distances:
51 37 0.17
52 122 0.57
53 20 0.09
54 9 0.04
55 3 0.01
56 6 0.03
57 17 0.08
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.47
Consensus pattern (52 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCA
Found at i:9657648 original size:12 final size:12
Alignment explanation
Indices: 9657631--9657655 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9657621 TCTTCGGGGA
9657631 CTTTTTCTTCTT
1 CTTTTTCTTCTT
9657643 CTTTTTCTTCTT
1 CTTTTTCTTCTT
9657655 C
1 C
9657656 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:9657864 original size:24 final size:24
Alignment explanation
Indices: 9657830--9657876 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
9657820 CTGAAACATC
9657830 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
9657854 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
9657877 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:9658587 original size:20 final size:20
Alignment explanation
Indices: 9658559--9658908 Score: 456
Period size: 20 Copynumber: 17.5 Consensus size: 20
9658549 AAATTTCAGT
* * * *
9658559 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
9658579 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
9658599 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
9658619 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
9658639 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
9658659 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
9658679 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
9658699 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
9658719 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
9658739 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
*
9658759 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATACGC
9658779 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
9658799 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
9658819 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
9658839 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
9658859 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
9658879 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
9658899 GTTGCGATTT
1 GTTGCGATTT
9658909 TCATATTCGC
Statistics
Matches: 295, Mismatches: 28, Indels: 14
0.88 0.08 0.04
Matches are distributed among these distances:
19 5 0.02
20 285 0.97
21 5 0.02
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.34
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:9658917 original size:20 final size:20
Alignment explanation
Indices: 9658876--9658927 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
9658866 TTTACGGATA
* *
9658876 CGCGTTGCGATTTATGTGTT
1 CGCGTTGCGATTTATATATT
9658896 CGCGTTGCGATTT-TCATATT
1 CGCGTTGCGATTTAT-ATATT
*
9658916 CGCGTTACGATT
1 CGCGTTGCGATT
9658928 ATGGAAAATC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 1 0.04
20 27 0.96
ACGTcount: A:0.13, C:0.19, G:0.25, T:0.42
Consensus pattern (20 bp):
CGCGTTGCGATTTATATATT
Found at i:9660583 original size:19 final size:20
Alignment explanation
Indices: 9660549--9660597 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
9660539 AATATATTTG
*
9660549 CAAATTCTATAAAAAA-GTGA
1 CAAATT-TAAAAAAAATGTGA
9660569 CAAATTTAAAAAAAATGTGA
1 CAAATTTAAAAAAAATGTGA
9660589 -AAGATTTAA
1 CAA-ATTTAA
9660598 CTCCTAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 10 0.38
20 16 0.62
ACGTcount: A:0.57, C:0.06, G:0.10, T:0.27
Consensus pattern (20 bp):
CAAATTTAAAAAAAATGTGA
Found at i:9661254 original size:34 final size:31
Alignment explanation
Indices: 9661190--9661252 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
9661180 GCATTCACTA
9661190 GATGATCCGAGTTTAAAATCTTGTTGTTGTT
1 GATGATCCGAGTTTAAAATCTTGTTGTTGTT
*
9661221 GATGATCCGAGTTTAAAATCTTCTTGTTGTT
1 GATGATCCGAGTTTAAAATCTTGTTGTTGTT
9661252 G
1 G
9661253 TTTGGAATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.22, C:0.11, G:0.22, T:0.44
Consensus pattern (31 bp):
GATGATCCGAGTTTAAAATCTTGTTGTTGTT
Found at i:9661780 original size:13 final size:13
Alignment explanation
Indices: 9661762--9661787 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
9661752 TAATAAAATA
9661762 TTAAATTAATTAT
1 TTAAATTAATTAT
9661775 TTAAATTAATTAT
1 TTAAATTAATTAT
9661788 ACTTTCATCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TTAAATTAATTAT
Found at i:9662262 original size:16 final size:16
Alignment explanation
Indices: 9662241--9662279 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
9662231 GATATTACTC
* *
9662241 GACCTGTTTTCAACCT
1 GACCTGTTATCAACAT
*
9662257 GACCTGTTATGAACAT
1 GACCTGTTATCAACAT
9662273 GACCTGT
1 GACCTGT
9662280 AGTTAACTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.33
Consensus pattern (16 bp):
GACCTGTTATCAACAT
Found at i:9662469 original size:38 final size:39
Alignment explanation
Indices: 9662426--9662502 Score: 113
Period size: 38 Copynumber: 2.0 Consensus size: 39
9662416 TTACTTTTTG
*
9662426 AAATTT-AGTTTTTATATTAATTATAATT-TGTATATTAT
1 AAATTTGA-TTTTTATATTAATTATAATTCTATATATTAT
*
9662464 AAATTTGATTTTTATATTAATTCTAATTCTATATATTAT
1 AAATTTGATTTTTATATTAATTATAATTCTATATATTAT
9662503 TTATAATTCT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
38 25 0.71
39 10 0.29
ACGTcount: A:0.36, C:0.03, G:0.04, T:0.57
Consensus pattern (39 bp):
AAATTTGATTTTTATATTAATTATAATTCTATATATTAT
Found at i:9662500 original size:19 final size:18
Alignment explanation
Indices: 9662437--9662519 Score: 71
Period size: 19 Copynumber: 4.4 Consensus size: 18
9662427 AATTTAGTTT
9662437 TTATATTAATTATAATT-
1 TTATATTAATTATAATTC
* *
9662454 TGTATATTATAAATT-TGATTT
1 T-TATA-T-T-AATTATAATTC
*
9662475 TTATATTAATTCTAATTC
1 TTATATTAATTATAATTC
*
9662493 TATATATTATTTATAATTC
1 T-TATATTAATTATAATTC
9662512 TTATATTA
1 TTATATTA
9662520 TAAATTTTAT
Statistics
Matches: 54, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
17 5 0.09
18 17 0.31
19 18 0.33
20 9 0.17
21 5 0.09
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (18 bp):
TTATATTAATTATAATTC
Found at i:9662511 original size:25 final size:27
Alignment explanation
Indices: 9662439--9662536 Score: 76
Period size: 27 Copynumber: 3.5 Consensus size: 27
9662429 TTTAGTTTTT
*
9662439 ATATTAATTATAATT-TGTATATTATAA
1 ATATTATTTATAATTCT-TATATTATAA
* * *
9662466 ATTTGATTTTTATATTAATTC-TA-ATTCTAT
1 A--T-ATTATT-TA-TAATTCTTATATTATAA
9662496 ATATTATTTATAATTCTTATATTATAA
1 ATATTATTTATAATTCTTATATTATAA
*
9662523 ATTTTATTTATAAT
1 ATATTATTTATAAT
9662537 CACTAAATTA
Statistics
Matches: 55, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
25 6 0.11
26 4 0.07
27 24 0.44
28 1 0.02
29 1 0.02
30 10 0.18
31 4 0.07
32 5 0.09
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (27 bp):
ATATTATTTATAATTCTTATATTATAA
Found at i:9662533 original size:13 final size:14
Alignment explanation
Indices: 9662499--9662535 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
9662489 ATTCTATATA
9662499 TTATTTAT-AATTC
1 TTATTTATAAATTC
9662512 TTATATTATAAATT-
1 TTAT-TTATAAATTC
9662526 TTATTTATAA
1 TTATTTATAA
9662536 TCACTAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 10 0.45
14 8 0.36
15 4 0.18
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (14 bp):
TTATTTATAAATTC
Found at i:9665416 original size:62 final size:61
Alignment explanation
Indices: 9665290--9665425 Score: 184
Period size: 62 Copynumber: 2.2 Consensus size: 61
9665280 TTTAAAAGTA
* * *
9665290 TTCAATTTAGTCCAAATTTAATGATATAATATATTAATTTAAGCTTCATATTTTAACTTCT
1 TTCAATTTAATCCAAATTTAATGATATAATATATTAATTTAAGCTTCATATTTAAAATTCT
* * *
9665351 TTCAATTTAATCCAAATTTTGATGTTATAATTTATTAATTTAAGCTTCATATTTAAAAATT-T
1 TTCAATTTAATCCAAA-TTTAATGATATAATATATTAATTTAAGCTTCATATTT-AAAATTCT
*
9665413 TTCAATTTGATCC
1 TTCAATTTAATCC
9665426 TTATATATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
61 15 0.23
62 47 0.71
63 4 0.06
ACGTcount: A:0.35, C:0.11, G:0.05, T:0.49
Consensus pattern (61 bp):
TTCAATTTAATCCAAATTTAATGATATAATATATTAATTTAAGCTTCATATTTAAAATTCT
Found at i:9665533 original size:51 final size:51
Alignment explanation
Indices: 9665478--9665676 Score: 217
Period size: 51 Copynumber: 3.9 Consensus size: 51
9665468 AATAAATTAA
*
9665478 TATATAGTTTATATATACTAATGAACTATATAATATATAGTTTATATGTAC
1 TATATAGTTTATATATACTAATGAACTATATAATATATAGTTTATATATAC
9665529 TATATAGTTTATATATACTAATGAACTATATAATATATAGTTTATATATAC
1 TATATAGTTTATATATACTAATGAACTATATAATATATAGTTTATATATAC
* * * ** * *
9665580 TAATGAACTA-TATATAATGTA-TAATTTAA--ATATACCATATAGTCTATATATAT
1 T-AT--A-TAGTTTAT-ATATACTAA-TGAACTATATAATATATAGTTTATATATAC
* * *
9665633 TATATAGTTTATATATACAAATAAACTATATAATATATACTTTA
1 TATATAGTTTATATATACTAATGAACTATATAATATATAGTTTA
9665677 GGGTTTAGGG
Statistics
Matches: 122, Mismatches: 16, Indels: 20
0.77 0.10 0.13
Matches are distributed among these distances:
49 9 0.07
50 7 0.06
51 64 0.52
52 4 0.03
53 21 0.17
54 8 0.07
55 9 0.07
ACGTcount: A:0.44, C:0.07, G:0.06, T:0.44
Consensus pattern (51 bp):
TATATAGTTTATATATACTAATGAACTATATAATATATAGTTTATATATAC
Found at i:9665534 original size:18 final size:18
Alignment explanation
Indices: 9665478--9665650 Score: 123
Period size: 18 Copynumber: 10.0 Consensus size: 18
9665468 AATAAATTAA
9665478 TATATAGTTTATATATAC
1 TATATAGTTTATATATAC
* *
9665496 TA-AT-G--AACTATATAA
1 TATATAGTTTA-TATATAC
*
9665511 TATATAGTTTATATGTAC
1 TATATAGTTTATATATAC
9665529 TATATAGTTTATATATAC
1 TATATAGTTTATATATAC
* *
9665547 TA-AT-G--AACTATATAA
1 TATATAGTTTA-TATATAC
9665562 TATATAGTTTATATATAC
1 TATATAGTTTATATATAC
** *
9665580 TA-AT-GAACTATATATAA
1 TATATAG-TTTATATATAC
* * *
9665597 TGTATAATTTAAATATAC
1 TATATAGTTTATATATAC
* * *
9665615 CATATAGTCTATATATAT
1 TATATAGTTTATATATAC
9665633 TATATAGTTTATATATAC
1 TATATAGTTTATATATAC
9665651 AAATAAACTA
Statistics
Matches: 114, Mismatches: 28, Indels: 26
0.68 0.17 0.15
Matches are distributed among these distances:
14 2 0.02
15 16 0.14
16 7 0.06
17 17 0.15
18 70 0.61
19 2 0.02
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.45
Consensus pattern (18 bp):
TATATAGTTTATATATAC
Found at i:9665560 original size:17 final size:17
Alignment explanation
Indices: 9665538--9665595 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 17
9665528 CTATATAGTT
9665538 TATATATACTAATGAAC
1 TATATATACTAATGAAC
**
9665555 TATATA-A-TATAT-AGTT
1 TATATATACTA-ATGA-AC
9665571 TATATATACTAATGAAC
1 TATATATACTAATGAAC
9665588 TATATATA
1 TATATATA
9665596 ATGTATAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
15 3 0.09
16 9 0.28
17 17 0.53
18 3 0.09
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.41
Consensus pattern (17 bp):
TATATATACTAATGAAC
Found at i:9665563 original size:84 final size:85
Alignment explanation
Indices: 9665475--9665631 Score: 244
Period size: 86 Copynumber: 1.8 Consensus size: 85
9665465 ATTAATAAAT
* * * * *
9665475 TAATATATAGTTTATATATACTAATGAAC-TATATAATATATAGTTTATATGTACTATATAGTTT
1 TAATATATAGTTTATATATACTAATGAACATATATAATATATAATTTAAATATACCATATAGTCT
9665539 ATATATACTAATGAACTATA
66 ATATATACTAATGAACTATA
*
9665559 TAATATATAGTTTATATATACTAATGAACTATATATAATGTATAATTTAAATATACCATATAGTC
1 TAATATATAGTTTATATATACTAATGAAC-ATATATAATATATAATTTAAATATACCATATAGTC
9665624 TATATATA
65 TATATATA
9665632 TTATATAGTT
Statistics
Matches: 65, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
84 29 0.45
86 36 0.55
ACGTcount: A:0.44, C:0.06, G:0.06, T:0.43
Consensus pattern (85 bp):
TAATATATAGTTTATATATACTAATGAACATATATAATATATAATTTAAATATACCATATAGTCT
ATATATACTAATGAACTATA
Found at i:9665571 original size:33 final size:33
Alignment explanation
Indices: 9665529--9665676 Score: 163
Period size: 33 Copynumber: 4.3 Consensus size: 33
9665519 TTATATGTAC
9665529 TATATAGTTTATATATACTAATGAACTATATAA
1 TATATAGTTTATATATACTAATGAACTATATAA
9665562 TATATAGTTTATATATACTAATGAACTATATATAA
1 TATATAGTTTATATATACTAATGAAC--TATATAA
* * * * *
9665597 TGTATAATTTAAATATACCATAT-AGTCTATATATA
1 TATATAGTTTATATATACTA-ATGA-ACTATATA-A
* *
9665632 TTATATAGTTTATATATACAAATAAACTATATAA
1 -TATATAGTTTATATATACTAATGAACTATATAA
*
9665666 TATATACTTTA
1 TATATAGTTTA
9665677 GGGTTTAGGG
Statistics
Matches: 97, Mismatches: 11, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
33 36 0.37
34 7 0.07
35 34 0.35
36 20 0.21
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (33 bp):
TATATAGTTTATATATACTAATGAACTATATAA
Found at i:9665736 original size:34 final size:36
Alignment explanation
Indices: 9665698--9665766 Score: 97
Period size: 34 Copynumber: 2.0 Consensus size: 36
9665688 TTAGGATTTT
*
9665698 TATATATAGTTCATATGTA-AAT-TATACTATATAG
1 TATATATAGTTCATATATATAATATATACTATATAG
* *
9665732 TATATATAGTTTATATATATAATATATAGTATATA
1 TATATATAGTTCATATATATAATATATACTATATA
9665767 AATATAAACT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
34 17 0.57
35 3 0.10
36 10 0.33
ACGTcount: A:0.43, C:0.03, G:0.07, T:0.46
Consensus pattern (36 bp):
TATATATAGTTCATATATATAATATATACTATATAG
Found at i:9665737 original size:2 final size:2
Alignment explanation
Indices: 9665720--9665847 Score: 53
Period size: 2 Copynumber: 59.0 Consensus size: 2
9665710 ATATGTAAAT
*
9665720 TA TA CTA TA TA GTA TA TA TA GTT TA TA TA TA TA -A TA TA TA GTA
1 TA TA -TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA
* * * ** * *
9665763 TA TA AA TA TA AA CTA TA GTA TA TA TT TA TA GG TCA TA TG TA AA
1 TA TA TA TA TA TA -TA TA -TA TA TA TA TA TA TA T-A TA TA TA TA
*
9665806 CTA TA TA GTA TA TA AA TA TCA -A CTA TA GTA TA TA TA TA TA TA
1 -TA TA TA -TA TA TA TA TA T-A TA -TA TA -TA TA TA TA TA TA TA
9665848 GGTCATATGT
Statistics
Matches: 94, Mismatches: 18, Indels: 28
0.67 0.13 0.20
Matches are distributed among these distances:
1 2 0.02
2 74 0.79
3 18 0.19
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.42
Consensus pattern (2 bp):
TA
Found at i:9665739 original size:9 final size:9
Alignment explanation
Indices: 9665725--9665766 Score: 50
Period size: 9 Copynumber: 4.4 Consensus size: 9
9665715 TAAATTATAC
9665725 TATATAGTA
1 TATATAGTA
9665734 TATATAGTTTA
1 TATATAG--TA
9665745 TATATA-TAA
1 TATATAGT-A
9665754 TATATAGTA
1 TATATAGTA
9665763 TATA
1 TATA
9665767 AATATAAACT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
8 1 0.03
9 19 0.66
10 1 0.03
11 8 0.28
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.48
Consensus pattern (9 bp):
TATATAGTA
Found at i:9665750 original size:20 final size:20
Alignment explanation
Indices: 9665720--9665792 Score: 78
Period size: 20 Copynumber: 3.6 Consensus size: 20
9665710 ATATGTAAAT
9665720 TATACTATATAGT-ATATATAG
1 TATA-TATATA-TAATATATAG
*
9665741 TTTATATATATAATATATAG
1 TATATATATATAATATATAG
*
9665761 TATATAAATATAA-ACTATAG
1 TATATATATATAATA-TATAG
*
9665781 TATATATTTATA
1 TATATATATATA
9665793 GGTCATATGT
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
19 2 0.04
20 40 0.89
21 3 0.07
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (20 bp):
TATATATATATAATATATAG
Found at i:9665809 original size:31 final size:31
Alignment explanation
Indices: 9665771--9665900 Score: 109
Period size: 31 Copynumber: 4.4 Consensus size: 31
9665761 TATATAAATA
9665771 TAAACTATAGTATATATTTATAGGTCATATG
1 TAAACTATAGTATATATTTATAGGTCATATG
9665802 TAAACTATA-TAGTATA--TA-A----ATA--
1 TAAACTATAGTA-TATATTTATAGGTCATATG
*
9665824 TCAACTATAGTATATATATATATAGGTCATATG
1 TAAACTATAGTATATAT-T-TATAGGTCATATG
* * *
9665857 TAAACTATATAGTTTATATATATAGTTCATATG
1 TAAAC--TATAGTATATATTTATAGGTCATATG
9665890 TAAACTATAGT
1 TAAACTATAGT
9665901 TCATATGTAA
Statistics
Matches: 79, Mismatches: 5, Indels: 30
0.69 0.04 0.26
Matches are distributed among these distances:
22 12 0.15
23 2 0.03
24 3 0.04
26 2 0.03
27 1 0.01
28 1 0.01
29 2 0.03
30 2 0.03
31 22 0.28
33 21 0.27
35 11 0.14
ACGTcount: A:0.42, C:0.07, G:0.10, T:0.41
Consensus pattern (31 bp):
TAAACTATAGTATATATTTATAGGTCATATG
Found at i:9665813 original size:33 final size:33
Alignment explanation
Indices: 9665776--9665898 Score: 126
Period size: 33 Copynumber: 4.1 Consensus size: 33
9665766 AAATATAAAC
*
9665776 TATAGTATATATTTATAGGTCATATGTAAACTA
1 TATAGTATATATATATAGGTCATATGTAAACTA
9665809 TATAGTATATA-A-ATA--TC-------AACTA
1 TATAGTATATATATATAGGTCATATGTAAACTA
9665831 TAGTA-TATATATATATAGGTCATATGTAAACTA
1 TA-TAGTATATATATATAGGTCATATGTAAACTA
* *
9665864 TATAGTTTATATATATAGTTCATATGTAAACTA
1 TATAGTATATATATATAGGTCATATGTAAACTA
9665897 TA
1 TA
9665899 GTTCATATGT
Statistics
Matches: 74, Mismatches: 3, Indels: 26
0.72 0.03 0.25
Matches are distributed among these distances:
22 13 0.18
23 3 0.04
24 3 0.04
26 2 0.03
29 2 0.03
31 3 0.04
32 2 0.03
33 46 0.62
ACGTcount: A:0.42, C:0.07, G:0.10, T:0.41
Consensus pattern (33 bp):
TATAGTATATATATATAGGTCATATGTAAACTA
Found at i:9665832 original size:22 final size:22
Alignment explanation
Indices: 9665804--9665846 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
9665794 GTCATATGTA
9665804 AACTATA-TAGTATATAAATATC
1 AACTATAGTA-TATATAAATATC
*
9665826 AACTATAGTATATATATATAT
1 AACTATAGTATATATAAATAT
9665847 AGGTCATATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.49, C:0.07, G:0.05, T:0.40
Consensus pattern (22 bp):
AACTATAGTATATATAAATATC
Found at i:9665900 original size:18 final size:18
Alignment explanation
Indices: 9665877--9665953 Score: 82
Period size: 18 Copynumber: 3.9 Consensus size: 18
9665867 AGTTTATATA
9665877 TATAGTTCATATGTAAAC
1 TATAGTTCATATGTAAAC
9665895 TATAGTTCATATGTAAATATTAAC
1 TATAGTTCATATG----TA--AAC
*
9665919 TATAGTTTATATGTAAAC
1 TATAGTTCATATGTAAAC
*
9665937 TATAGTTCATATATAAA
1 TATAGTTCATATGTAAA
9665954 TATCAACCTT
Statistics
Matches: 50, Mismatches: 3, Indels: 12
0.77 0.05 0.18
Matches are distributed among these distances:
18 31 0.62
20 2 0.04
22 2 0.04
24 15 0.30
ACGTcount: A:0.42, C:0.08, G:0.09, T:0.42
Consensus pattern (18 bp):
TATAGTTCATATGTAAAC
Found at i:9665936 original size:42 final size:42
Alignment explanation
Indices: 9665877--9665956 Score: 142
Period size: 42 Copynumber: 1.9 Consensus size: 42
9665867 AGTTTATATA
*
9665877 TATAGTTCATATGTAAACTATAGTTCATATGTAAATATTAAC
1 TATAGTTCATATGTAAACTATAGTTCATATATAAATATTAAC
*
9665919 TATAGTTTATATGTAAACTATAGTTCATATATAAATAT
1 TATAGTTCATATGTAAACTATAGTTCATATATAAATAT
9665957 CAACCTTAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.42
Consensus pattern (42 bp):
TATAGTTCATATGTAAACTATAGTTCATATATAAATATTAAC
Found at i:9665972 original size:42 final size:42
Alignment explanation
Indices: 9665877--9665972 Score: 133
Period size: 42 Copynumber: 2.3 Consensus size: 42
9665867 AGTTTATATA
* *
9665877 TATAGT-TCATATGTAAACTATAGTTCATATGTAAATATTAAC
1 TATAGTAT-ATATGTAAACTATAGTTCATATATAAATATCAAC
*
9665919 TATAGTTTATATGTAAACTATAGTTCATATATAAATATCAACC
1 TATAGTATATATGTAAACTATAGTTCATATATAAATATCAA-C
9665962 T-TAGTATATAT
1 TATAGTATATAT
9665973 ATATATTTAT
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
42 46 0.94
43 3 0.06
ACGTcount: A:0.41, C:0.09, G:0.08, T:0.42
Consensus pattern (42 bp):
TATAGTATATATGTAAACTATAGTTCATATATAAATATCAAC
Found at i:9666019 original size:31 final size:32
Alignment explanation
Indices: 9665981--9666065 Score: 102
Period size: 33 Copynumber: 2.7 Consensus size: 32
9665971 ATATATATTT
*
9665981 ATATATATAGT-TCAT-ATGTAAACTATAGTTC
1 ATATATATAGTAT-ATAATATAAACTATAGTTC
*
9666012 ATATATATAGTATATAAATATAAACTATAGTTT
1 ATATATATAGTATAT-AATATAAACTATAGTTC
* *
9666045 ATATAAATAGTATAAAATATA
1 ATATATATAGTATATAATATA
9666066 GTATATAAAT
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
31 13 0.28
32 7 0.15
33 27 0.57
ACGTcount: A:0.48, C:0.05, G:0.07, T:0.40
Consensus pattern (32 bp):
ATATATATAGTATATAATATAAACTATAGTTC
Found at i:9666025 original size:18 final size:17
Alignment explanation
Indices: 9665871--9666025 Score: 57
Period size: 18 Copynumber: 8.6 Consensus size: 17
9665861 CTATATAGTT
9665871 TATATATATAGTTCATA
1 TATATATATAGTTCATA
* *
9665888 TGTAAACTATAGTTCATA
1 TATATA-TATAGTTCATA
*
9665906 TGTAAATATTAACTATAGTTTATA
1 --T--ATA-T-A-TATAGTTCATA
* *
9665930 TGTAAACTATAGTTCATA
1 TATATA-TATAGTTCATA
* ** *
9665948 TATAAATATCA-ACCTTA
1 TATATATAT-AGTTCATA
*
9665965 GTATATATATA--T-ATT
1 -TATATATATAGTTCATA
9665980 TATATATATAGTTCATA
1 TATATATATAGTTCATA
* *
9665997 TGTAAACTATAGTTCATA
1 TATATA-TATAGTTCATA
9666015 TATATAGTATA
1 TATATA-TATA
9666026 TAAATATAAA
Statistics
Matches: 103, Mismatches: 22, Indels: 25
0.69 0.15 0.17
Matches are distributed among these distances:
14 10 0.10
15 1 0.01
16 1 0.01
17 17 0.17
18 56 0.54
20 3 0.03
22 3 0.03
24 12 0.12
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.43
Consensus pattern (17 bp):
TATATATATAGTTCATA
Found at i:9666036 original size:33 final size:32
Alignment explanation
Indices: 9665999--9666065 Score: 107
Period size: 33 Copynumber: 2.1 Consensus size: 32
9665989 AGTTCATATG
*
9665999 TAAACTATAGTTCATATATATAGTATATAAATA
1 TAAACTATAGTTCATATAAATAGTATA-AAATA
*
9666032 TAAACTATAGTTTATATAAATAGTATAAAATA
1 TAAACTATAGTTCATATAAATAGTATAAAATA
9666064 TA
1 TA
9666066 GTATATAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 7 0.22
33 25 0.78
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.39
Consensus pattern (32 bp):
TAAACTATAGTTCATATAAATAGTATAAAATA
Found at i:9666068 original size:12 final size:12
Alignment explanation
Indices: 9666051--9666101 Score: 52
Period size: 13 Copynumber: 4.2 Consensus size: 12
9666041 GTTTATATAA
9666051 ATAGTATAAAAT
1 ATAGTATAAAAT
9666063 ATAGTATATAAAT
1 ATAGTATA-AAAT
* *
9666076 ATAAATATAAATT
1 AT-AGTATAAAAT
9666089 ATA-TAT-AAAT
1 ATAGTATAAAAT
9666099 ATA
1 ATA
9666102 AATATAAACC
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
10 6 0.18
11 3 0.09
12 9 0.26
13 11 0.32
14 5 0.15
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (12 bp):
ATAGTATAAAAT
Found at i:9666087 original size:25 final size:25
Alignment explanation
Indices: 9666023--9666109 Score: 103
Period size: 23 Copynumber: 3.5 Consensus size: 25
9666013 TATATATAGT
9666023 ATATAAATATAAACTATAGTTTATATAA
1 ATATAAATATAAA-TATAG--TATATAA
9666051 ATAGT--ATA-AAATATAGTATATAA
1 ATA-TAAATATAAATATAGTATATAA
9666074 ATATAAATATAAAT-TA-TATATAA
1 ATATAAATATAAATATAGTATATAA
9666097 ATATAAATATAAA
1 ATATAAATATAAA
9666110 CCTTAAATTC
Statistics
Matches: 55, Mismatches: 0, Indels: 13
0.81 0.00 0.19
Matches are distributed among these distances:
22 1 0.02
23 30 0.55
24 5 0.09
25 9 0.16
26 3 0.05
27 3 0.05
28 3 0.05
29 1 0.02
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.37
Consensus pattern (25 bp):
ATATAAATATAAATATAGTATATAA
Found at i:9666108 original size:6 final size:6
Alignment explanation
Indices: 9666068--9666109 Score: 68
Period size: 6 Copynumber: 7.2 Consensus size: 6
9666058 AAAATATAGT
*
9666068 ATATAA ATATAA ATATAA AT-TAT ATATAA ATATAA ATATAA A
1 ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA ATATAA A
9666110 CCTTAAATTC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
5 4 0.12
6 29 0.88
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (6 bp):
ATATAA
Found at i:9666330 original size:19 final size:18
Alignment explanation
Indices: 9666230--9666330 Score: 51
Period size: 20 Copynumber: 5.2 Consensus size: 18
9666220 TAGTATATAA
* *
9666230 ATATAAATTGTATAGTTT
1 ATATAAACTATATAGTTT
* *
9666248 ATATAATTCATATATAATTTAT
1 ATATAA-AC-TATAT-AGTT-T
*
9666270 ATATAAACTATGTAGTTT
1 ATATAAACTATATAGTTT
* *
9666288 ATATATAGT-TCAATAGTTTAT
1 ATATAAACTAT--ATAG-TT-T
9666309 ATATAAACTATATAGTATT
1 ATATAAACTATATAGT-TT
9666328 ATA
1 ATA
9666331 GTTTATACAT
Statistics
Matches: 61, Mismatches: 12, Indels: 19
0.66 0.13 0.21
Matches are distributed among these distances:
17 1 0.02
18 14 0.23
19 11 0.18
20 15 0.25
21 12 0.20
22 8 0.13
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.47
Consensus pattern (18 bp):
ATATAAACTATATAGTTT
Found at i:9666350 original size:39 final size:39
Alignment explanation
Indices: 9666148--9666330 Score: 92
Period size: 39 Copynumber: 4.7 Consensus size: 39
9666138 CCATATATAC
* ** *
9666148 TATATATATAAATTATATAAATTATAT-TAATA-AACT-G
1 TATATATATAAACTATATAGTTTATATATAGTACAA-TAG
* * * *
9666185 TATAATTTATACAA-TATATATTTTTTATA-ATTAC-ATAG
1 TAT-ATATATA-AACTATATAGTTTATATATAGTACAATAG
* * * * *
9666223 TATATAAATATAAATTGTATAGTTTATATA-ATTCATATATAA
1 TATAT--ATATAAACTATATAGTTTATATATAGT-ACA-ATAG
* * *
9666265 TTTATATATAAACTATGTAGTTTATATATAGTTCAATAG
1 TATATATATAAACTATATAGTTTATATATAGTACAATAG
*
9666304 TTTATATATAAACTATATAGTATTATA
1 TATATATATAAACTATATAGT-TTATA
9666331 GTTTATACAT
Statistics
Matches: 113, Mismatches: 20, Indels: 23
0.72 0.13 0.15
Matches are distributed among these distances:
37 6 0.05
38 27 0.24
39 44 0.39
40 27 0.24
41 2 0.02
42 7 0.06
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.46
Consensus pattern (39 bp):
TATATATATAAACTATATAGTTTATATATAGTACAATAG
Found at i:9666364 original size:27 final size:28
Alignment explanation
Indices: 9666287--9666377 Score: 89
Period size: 28 Copynumber: 3.3 Consensus size: 28
9666277 CTATGTAGTT
* * *
9666287 TATATATAGT-TCAATAGTTTATATATAA
1 TATATATAGTAT-TATACTTTATACATAA
* **
9666315 -ACTATATAGTATTATAGTTTATACATGG
1 TA-TATATAGTATTATACTTTATACATAA
9666343 TATATATAGT-TTATACTTTATACATAA
1 TATATATAGTATTATACTTTATACATAA
9666370 TATATATA
1 TATATATA
9666378 AACTATATAG
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
27 23 0.43
28 28 0.53
29 2 0.04
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.46
Consensus pattern (28 bp):
TATATATAGTATTATACTTTATACATAA
Found at i:9666384 original size:27 final size:27
Alignment explanation
Indices: 9666327--9666384 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
9666317 TATATAGTAT
* ** ***
9666327 TATAGTTTATACATGGTATATATAGTT
1 TATACTTTATACATAATATATATAAAC
9666354 TATACTTTATACATAATATATATAAAC
1 TATACTTTATACATAATATATATAAAC
9666381 TATA
1 TATA
9666385 TAGTTTATAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.45
Consensus pattern (27 bp):
TATACTTTATACATAATATATATAAAC
Found at i:9666494 original size:2 final size:2
Alignment explanation
Indices: 9666369--9666480 Score: 113
Period size: 2 Copynumber: 55.5 Consensus size: 2
9666359 TTTATACATA
* * * *
9666369 AT AT AT AT AA ACT AT AT AGT TT AT AT AT AT A- AT AC AT AT AC AT
1 AT AT AT AT AT A-T AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT
* *
9666412 -T AT AT AT AA ACT AT AT AGT TT AT AT -T AT AT AT AT AT AT AT AT
1 AT AT AT AT AT A-T AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT
9666454 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
9666481 GTTGTTTAAT
Statistics
Matches: 91, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
1 3 0.03
2 84 0.92
3 4 0.04
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (2 bp):
AT
Found at i:9666947 original size:215 final size:214
Alignment explanation
Indices: 9666481--9667160 Score: 993
Period size: 215 Copynumber: 3.2 Consensus size: 214
9666471 TATATATATA
*
9666481 GTTGTTTAATATATTTAAATTTTTATTTGTAATTTTATATTTGTTCAATTTAGTCCTCCAAATTT
1 GTTGTTTAATATATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTT
* *
9666546 TATTTGCA-CCTAAAATGGACCCATAC------TTATTTCTATTTTAAATTGGCCCATAAC-TTT
66 TATTTGCATCC-GAAATTGACCCATACTTATTATTATTTCTATTTTAAATTGGCCCATAACTTTT
*
9666603 TAAATGGGTATAATTTAGTAC-TTTTTGTATTAATTT-AACCTCAAAATTTAAAATTATTTCGAT
130 TAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACCTCACAATTTAAAATTATTTCGAT
9666666 TTGAT-CC-C-T---T-TGT
195 TTGATCCCTCATCAATGTGT
*
9666679 GTTGTTTAATATATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTTCAAATTT
1 GTTGTTTAATATATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTT
9666744 TATTTGCATCCGAAATTGACCCATACTTATTAGTTATTTCTATTTTAAATTGGCCCATAACTTTT
66 TATTTGCATCCGAAATTGACCCATACTTATTA-TTATTTCTATTTTAAATTGGCCCATAACTTTT
*
9666809 TAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACATCACAATTTAAAATTATTTCGAT
130 TAAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACCTCACAATTTAAAATTATTTCGAT
9666874 TTGATCCCTCATCAATGTGT
195 TTGATCCCTCATCAATGTGT
* * * * *
9666894 GTTGTTTAATTTATTTATATTTATATTTTTAATTTCATATTTGTTCTATTTAGTCCTCCAAATTT
1 GTTGTTTAATATATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTT
** ** * * * *
9666959 TATCAGCATATGAAATTGATCCATACTTATTACTTAATTCTATTTTTTAATTGG-ACATAACTTT
66 TATTTGCATCCGAAATTGACCCATACTTATTA-TTATTTCTA-TTTTAAATTGGCCCATAACTTT
*
9667023 TTAAATGGGTATAATTTAGTA-TTTATTTGTATTAATTTCAACCTCACAATTTAAAATTATTTTG
129 TTAAATGGGTATAATTTAGTACTTT-TTTGTATTAATTTCAACCTCACAATTTAAAATTATTTCG
9667087 ATTTGATCCCTCATCAATGTGT
193 ATTTGATCCCTCATCAATGTGT
*
9667109 GTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTA
1 GTTGTTTAATATATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTA
9667161 ATTCTTAAAT
Statistics
Matches: 435, Mismatches: 27, Indels: 23
0.90 0.06 0.05
Matches are distributed among these distances:
198 84 0.19
199 2 0.00
205 28 0.06
206 24 0.06
207 15 0.03
208 30 0.07
209 2 0.00
210 1 0.00
211 1 0.00
214 4 0.01
215 234 0.54
216 10 0.02
ACGTcount: A:0.29, C:0.12, G:0.09, T:0.50
Consensus pattern (214 bp):
GTTGTTTAATATATTTAAATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTCCTCCAAATTT
TATTTGCATCCGAAATTGACCCATACTTATTATTATTTCTATTTTAAATTGGCCCATAACTTTTT
AAATGGGTATAATTTAGTACTTTTTTGTATTAATTTCAACCTCACAATTTAAAATTATTTCGATT
TGATCCCTCATCAATGTGT
Found at i:9674433 original size:3 final size:3
Alignment explanation
Indices: 9674419--9674470 Score: 56
Period size: 3 Copynumber: 18.3 Consensus size: 3
9674409 AATATAAATG
* * *
9674419 TAA TAT TAA TAA TAA T-A TAA TAA TAT TAA TGA -AA TAA TAA TAA T-A
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
9674464 TAA TAA T
1 TAA TAA T
9674471 TATTATTACT
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
2 5 0.12
3 35 0.88
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:9674448 original size:14 final size:14
Alignment explanation
Indices: 9674425--9674470 Score: 67
Period size: 14 Copynumber: 3.3 Consensus size: 14
9674415 AATGTAATAT
9674425 TAATAATAATATAA
1 TAATAATAATATAA
*
9674439 TAATATTAATGA-AA
1 TAATAATAAT-ATAA
9674453 TAATAATAATATAA
1 TAATAATAATATAA
9674467 TAAT
1 TAAT
9674471 TATTATTACT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 1 0.04
14 26 0.93
15 1 0.04
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (14 bp):
TAATAATAATATAA
Found at i:9674895 original size:134 final size:134
Alignment explanation
Indices: 9674672--9675009 Score: 462
Period size: 134 Copynumber: 2.5 Consensus size: 134
9674662 GTTTGGGTCG
* * *
9674672 TCTAAGGGTGACACGGTTCCTACATGATG-AGAAAATCTGGTCAGGGGATGACACGGCTCATACG
1 TCTAAGGGTGACACGGCTCCTACATGATGAAG-AGATCTGGTCAGGGGATGACACAGCTCATACG
* * * * *
9674736 TGATGAAGAGTTCTGGCCATCTTTAGGAATGGTGATAACTCGGTTCCTACGCGATGAGGGCGGCT
65 TGATGAAGAGTTCTGGCCATCTTTAGAAAGGGCGATAACACGGTTCCTACGCGATGAGGACGGCT
9674801 GATTA
130 GATTA
* * *
9674806 TCTATGGGTGACACGGCTCCTACGTGATGAAGAGATCTGGTCAGGGGATGACAAAGCTCATACGT
1 TCTAAGGGTGACACGGCTCCTACATGATGAAGAGATCTGGTCAGGGGATGACACAGCTCATACGT
* * * *
9674871 GATGAAGAGTTCTGGTCATTTTTAGAAAGGGCGATAACACGGTTCCTACGTGATGAGGACGTCTG
66 GATGAAGAGTTCTGGCCATCTTTAGAAAGGGCGATAACACGGTTCCTACGCGATGAGGACGGCTG
9674936 ATTA
131 ATTA
* * * * * * *
9674940 TCTAGGGGTAACACGACTCCTACACGATAAAGAGATCTGGTCAGGGGATGACACTGCTCCTACGT
1 TCTAAGGGTGACACGGCTCCTACATGATGAAGAGATCTGGTCAGGGGATGACACAGCTCATACGT
9675005 GATGA
66 GATGA
9675010 GGACGGTTGG
Statistics
Matches: 179, Mismatches: 24, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
134 177 0.99
135 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.25
Consensus pattern (134 bp):
TCTAAGGGTGACACGGCTCCTACATGATGAAGAGATCTGGTCAGGGGATGACACAGCTCATACGT
GATGAAGAGTTCTGGCCATCTTTAGAAAGGGCGATAACACGGTTCCTACGCGATGAGGACGGCTG
ATTA
Found at i:9675078 original size:28 final size:28
Alignment explanation
Indices: 9675055--9675117 Score: 92
Period size: 28 Copynumber: 2.2 Consensus size: 28
9675045 GGGAAACCGT
9675055 CTCAAAGATTTGTGTCAAAAGAAACAGA
1 CTCAAAGATTTGTGTCAAAAGAAACAGA
* *
9675083 CTCAAAGATTTGTTTCAAGAA-AAACATA
1 CTCAAAGATTTGTGTCAA-AAGAAACAGA
9675111 CTCAAAG
1 CTCAAAG
9675118 GTGATGTGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 30 0.94
29 2 0.06
ACGTcount: A:0.46, C:0.16, G:0.14, T:0.24
Consensus pattern (28 bp):
CTCAAAGATTTGTGTCAAAAGAAACAGA
Found at i:9675301 original size:32 final size:33
Alignment explanation
Indices: 9675261--9675386 Score: 112
Period size: 38 Copynumber: 3.6 Consensus size: 33
9675251 CGTTGTTTTG
9675261 AGAGAAACAAACTCAAAGATGT-TTTTGTTTCA
1 AGAGAAACAAACTCAAAGATGTATTTTGTTTCA
* * *
9675293 AGAAAAACACACTCAAAGATTTTGTTTGTTTTGTTTCA
1 AGAGAAACAAACTCAAAGA---TG--TATTTTGTTTCA
*
9675331 AGGGAAACAAACTCAAAGATGGTAAATTTTGTTTTCA
1 AGAGAAACAAACTCAAAGAT-GT--ATTTTG-TTTCA
*
9675368 A-AGAAACAAACTTAAAGAT
1 AGAGAAACAAACTCAAAGAT
9675387 TTTTTTCTCA
Statistics
Matches: 76, Mismatches: 8, Indels: 16
0.76 0.08 0.16
Matches are distributed among these distances:
32 17 0.22
34 1 0.01
35 3 0.04
36 22 0.29
37 7 0.09
38 26 0.34
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (33 bp):
AGAGAAACAAACTCAAAGATGTATTTTGTTTCA
Found at i:9675611 original size:28 final size:27
Alignment explanation
Indices: 9675539--9675646 Score: 83
Period size: 28 Copynumber: 3.8 Consensus size: 27
9675529 TCAAGAGAGA
* * *
9675539 CAAA-ATTTGTTTTTGAAGAAATAGACT
1 CAAAGATTT-TTTTTAAAGAAACAAACT
*
9675566 CAAAGATGGTTTTGTTAAGAGAAACAAACT
1 CAAAGAT--TTTTTTTAA-AGAAACAAACT
* *
9675596 CAAAGATTTTTTTTAAAAAGAACAGACT
1 CAAAGATTTTTTTTAAAGA-AACAAACT
**
9675624 CAAAGATTTGTTTCAAAAGAAAC
1 CAAAGATTT-TTTTTAAAGAAAC
9675647 TGTCTCAAGA
Statistics
Matches: 65, Mismatches: 10, Indels: 11
0.76 0.12 0.13
Matches are distributed among these distances:
27 6 0.09
28 29 0.45
29 12 0.18
30 18 0.28
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.31
Consensus pattern (27 bp):
CAAAGATTTTTTTTAAAGAAACAAACT
Found at i:9675683 original size:92 final size:88
Alignment explanation
Indices: 9675580--9675788 Score: 251
Period size: 89 Copynumber: 2.3 Consensus size: 88
9675570 GATGGTTTTG
*
9675580 TTAAGAGAAACAAACTCAAAGATTTTTTTT-AAAA-AGAACAGACTCAAAGATTTGTTTCAAAAG
1 TTAAGAGAAACAGACTCAAAGATTTTTTTTCAAAATA-AAC-GACTCAAAGATTT-TTTC--AAG
9675643 AAACTGTCTCAAGAGAGACAAAAATTGTT
61 AAACTGTCTCAAGAGAGA-AAAAATTGTT
* * *
9675672 TTAAGAGAAACAGGCTCAAAGATTTTTTTTTCAAAATAAACGACTCAAAGATTTTTTCACGAAAT
1 TTAAGAGAAACAGACTCAAAGA-TTTTTTTTCAAAATAAACGACTCAAAGATTTTTTCAAGAAAC
* **
9675737 TGTCTCAAGAGATAAAACTTTGTT
65 TGTCTCAAGAGAGAAAAAATTGTT
* * *
9675761 TCAAAAGAAACAGACTCAAAGAGTTTTT
1 TTAAGAGAAACAGACTCAAAGATTTTTT
9675789 ACGAAATTGT
Statistics
Matches: 103, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
88 5 0.05
89 27 0.26
90 18 0.17
92 24 0.23
93 21 0.20
94 7 0.07
95 1 0.01
ACGTcount: A:0.44, C:0.13, G:0.14, T:0.30
Consensus pattern (88 bp):
TTAAGAGAAACAGACTCAAAGATTTTTTTTCAAAATAAACGACTCAAAGATTTTTTCAAGAAACT
GTCTCAAGAGAGAAAAAATTGTT
Found at i:9675795 original size:59 final size:60
Alignment explanation
Indices: 9675700--9675849 Score: 209
Period size: 59 Copynumber: 2.5 Consensus size: 60
9675690 AAGATTTTTT
* * * *
9675700 TTTCAAAATAAAC-GACTCAAAGATTTTTTCACGAAATTGTC-TCA-AGAGATAAAACTTTG
1 TTTCAAAAGAAACAGACTCAAAGA-TTTTT-ACGAAATTGTCTTAAGAGAGACAAAACTTTA
9675759 TTTCAAAAGAAACAGACTCAAAGAGTTTTTACGAAATTGTCTTAAGAGAGACAAAACTTTA
1 TTTCAAAAGAAACAGACTCAAAGA-TTTTTACGAAATTGTCTTAAGAGAGACAAAACTTTA
9675820 TTTCAAAAGAAACA-ACTCAAAGATTTTTAC
1 TTTCAAAAGAAACAGACTCAAAGATTTTTAC
9675850 TCAAAAGGAA
Statistics
Matches: 83, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
59 30 0.36
60 26 0.31
61 27 0.33
ACGTcount: A:0.43, C:0.15, G:0.12, T:0.30
Consensus pattern (60 bp):
TTTCAAAAGAAACAGACTCAAAGATTTTTACGAAATTGTCTTAAGAGAGACAAAACTTTA
Found at i:9675881 original size:28 final size:26
Alignment explanation
Indices: 9675820--9675888 Score: 84
Period size: 28 Copynumber: 2.5 Consensus size: 26
9675810 CAAAACTTTA
9675820 TTTCAAAAGAAACAACTCAAAGATTT
1 TTTCAAAAGAAACAACTCAAAGATTT
*
9675846 TTACTCAAAAGGAACATACTCAAAGATTT
1 TT--TCAAAAGAAACA-ACTCAAAGATTT
*
9675875 GTTTCAAGAGAAAC
1 -TTTCAAAAGAAAC
9675889 TATCTCAAGA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
26 2 0.06
28 20 0.56
29 12 0.33
30 2 0.06
ACGTcount: A:0.46, C:0.16, G:0.12, T:0.26
Consensus pattern (26 bp):
TTTCAAAAGAAACAACTCAAAGATTT
Found at i:9675896 original size:28 final size:26
Alignment explanation
Indices: 9675820--9675896 Score: 82
Period size: 28 Copynumber: 2.8 Consensus size: 26
9675810 CAAAACTTTA
*
9675820 TTTCAAAAGAAACAACTCAAAGATTT
1 TTTCAAAAGAAACATCTCAAAGATTT
*
9675846 TTACTCAAAAGGAACATACTCAAAGATTT
1 TT--TCAAAAGAAACAT-CTCAAAGATTT
*
9675875 GTTTCAAGAGAAACTATCTCAA
1 -TTTCAAAAGAAAC-ATCTCAA
9675897 GAGAGACAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
26 2 0.05
28 25 0.60
29 13 0.31
30 2 0.05
ACGTcount: A:0.45, C:0.17, G:0.10, T:0.27
Consensus pattern (26 bp):
TTTCAAAAGAAACATCTCAAAGATTT
Found at i:9676339 original size:35 final size:36
Alignment explanation
Indices: 9676248--9676384 Score: 129
Period size: 36 Copynumber: 3.8 Consensus size: 36
9676238 TATTTCAAAG
*
9676248 GAAAAATGTCTCAAGCGAGACAAAATTT-ATTTTTCA
1 GAAAACTGTCTCAAGCGAGACAAAATTTGA-TTTTCA
* *
9676284 -AGAAATTGTCTC-AGATGAGACAAAATTTGATTTT-A
1 GA-AAACTGTCTCAAG-CGAGACAAAATTTGATTTTCA
* *
9676319 GAAAACTGTCTCAAGCGAGACAATATTTGTTTTTCA
1 GAAAACTGTCTCAAGCGAGACAAAATTTGATTTTCA
* * *
9676355 AAAGAAGCTGTCTCTAGCGAGACAACATTT
1 GAA-AA-CTGTCTCAAGCGAGACAAAATTT
9676385 TGTTTCGAGA
Statistics
Matches: 84, Mismatches: 9, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
35 29 0.35
36 31 0.37
37 3 0.04
38 21 0.25
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.31
Consensus pattern (36 bp):
GAAAACTGTCTCAAGCGAGACAAAATTTGATTTTCA
Found at i:9676705 original size:2 final size:2
Alignment explanation
Indices: 9676698--9676904 Score: 400
Period size: 2 Copynumber: 104.5 Consensus size: 2
9676688 CATACATGTA
9676698 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
9676740 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
9676782 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T-
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
9676823 TG TG TG TG TG TG TG TG -G TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
9676864 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
9676905 ATGTATGTAT
Statistics
Matches: 203, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
1 2 0.01
2 201 0.99
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:9678106 original size:10 final size:10
Alignment explanation
Indices: 9678081--9678119 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
9678071 GTCAAGGGAC
*
9678081 TCTTTGTCTT
1 TCTTTTTCTT
*
9678091 TTTTTTTCTT
1 TCTTTTTCTT
9678101 TCTTTTTCTT
1 TCTTTTTCTT
9678111 TGCTTTTTC
1 T-CTTTTTC
9678120 GTTTGCTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
10 18 0.72
11 7 0.28
ACGTcount: A:0.00, C:0.18, G:0.05, T:0.77
Consensus pattern (10 bp):
TCTTTTTCTT
Found at i:9678116 original size:11 final size:11
Alignment explanation
Indices: 9678093--9678149 Score: 62
Period size: 11 Copynumber: 4.9 Consensus size: 11
9678083 TTTGTCTTTT
9678093 TTTTTCTTT-C
1 TTTTTCTTTGC
9678103 TTTTTCTTTGC
1 TTTTTCTTTGC
9678114 TTTTTCGTTTGC
1 TTTTTC-TTTGC
*
9678126 TATTTTTCCTTTGA
1 --TTTTT-CTTTGC
9678140 TTTTTCTTTG
1 TTTTTCTTTG
9678150 TTTCTTTTTT
Statistics
Matches: 41, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
10 9 0.22
11 12 0.29
12 10 0.24
14 9 0.22
15 1 0.02
ACGTcount: A:0.04, C:0.16, G:0.09, T:0.72
Consensus pattern (11 bp):
TTTTTCTTTGC
Found at i:9678118 original size:12 final size:12
Alignment explanation
Indices: 9678092--9678188 Score: 67
Period size: 14 Copynumber: 7.7 Consensus size: 12
9678082 CTTTGTCTTT
9678092 TTTTTTCTTT-C
1 TTTTTTCTTTGC
9678103 -TTTTTCTTTGC
1 TTTTTTCTTTGC
9678114 -TTTTTCGTTTGC
1 TTTTTTC-TTTGC
9678126 TATTTTTCCTTTG-
1 T-TTTTT-CTTTGC
*
9678139 ATTTTTCTTTGTTTC
1 TTTTTTCTTTG---C
*
9678154 TTTTTTCTATTTGT
1 TTTTTTC--TTTGC
9678168 TTTTTTCTTTGC
1 TTTTTTCTTTGC
9678180 TCTTTTTCT
1 T-TTTTTCT
9678189 CTTTGTTTTG
Statistics
Matches: 70, Mismatches: 4, Indels: 22
0.73 0.04 0.23
Matches are distributed among these distances:
10 9 0.13
11 12 0.17
12 15 0.21
13 7 0.10
14 16 0.23
15 7 0.10
17 4 0.06
ACGTcount: A:0.03, C:0.15, G:0.07, T:0.74
Consensus pattern (12 bp):
TTTTTTCTTTGC
Found at i:9678132 original size:26 final size:24
Alignment explanation
Indices: 9678103--9678197 Score: 82
Period size: 26 Copynumber: 3.6 Consensus size: 24
9678093 TTTTTCTTTC
*
9678103 TTTTTCTTTGCTTTTTCGTTTGCTAT
1 TTTTTCTTTG-TTTTTC-TTTGCTCT
* *
9678129 TTTTCCTTTGATTTTTCTTTGTTTCT
1 TTTTTCTTTG-TTTTTCTTTG-CTCT
9678155 TTTTTCTATTTGTTTTTTTCTTTGCTCT
1 TTTTTC--TTTG--TTTTTCTTTGCTCT
9678183 TTTTCTCTTTGTTTT
1 TTTT-TCTTTGTTTT
9678198 GATTTGATCT
Statistics
Matches: 57, Mismatches: 7, Indels: 11
0.76 0.09 0.15
Matches are distributed among these distances:
25 8 0.14
26 22 0.39
27 4 0.07
28 11 0.19
29 12 0.21
ACGTcount: A:0.03, C:0.15, G:0.08, T:0.74
Consensus pattern (24 bp):
TTTTTCTTTGTTTTTCTTTGCTCT
Found at i:9678160 original size:15 final size:15
Alignment explanation
Indices: 9678140--9678196 Score: 57
Period size: 15 Copynumber: 3.9 Consensus size: 15
9678130 TTTCCTTTGA
9678140 TTTTTCTTTGTTTCT
1 TTTTTCTTTGTTTCT
*
9678155 TTTTTCTATT-TGT-T
1 TTTTTCT-TTGTTTCT
*
9678169 TTTTTCTTTG-CTCT
1 TTTTTCTTTGTTTCT
9678183 TTTTCTCTTTGTTT
1 TTTT-TCTTTGTTT
9678197 TGATTTGATC
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
13 3 0.09
14 13 0.38
15 15 0.44
16 3 0.09
ACGTcount: A:0.02, C:0.14, G:0.07, T:0.77
Consensus pattern (15 bp):
TTTTTCTTTGTTTCT
Found at i:9678187 original size:27 final size:27
Alignment explanation
Indices: 9678080--9678197 Score: 95
Period size: 27 Copynumber: 4.4 Consensus size: 27
9678070 AGTCAAGGGA
9678080 CTCTTTGTCTTTTTT-TTT-CT-TTCTTT
1 CTCTTTGT-TTTTTTCTTTGCTCTT-TTT
* * *
9678106 TTCTTTG-CTTTTTCGTTTGCTATTTTT
1 CTCTTTGTTTTTTTC-TTTGCTCTTTTT
* *
9678133 C-CTTTG-ATTTTTCTTTGTTTCTTTTTT
1 CTCTTTGTTTTTTTCTTTG-CTC-TTTTT
*
9678160 CTATTTGTTTTTTTCTTTGCTCTTTTT
1 CTCTTTGTTTTTTTCTTTGCTCTTTTT
9678187 CTCTTTGTTTT
1 CTCTTTGTTTT
9678198 GATTTGATCT
Statistics
Matches: 74, Mismatches: 10, Indels: 15
0.75 0.10 0.15
Matches are distributed among these distances:
24 5 0.07
25 4 0.05
26 21 0.28
27 26 0.35
28 8 0.11
29 10 0.14
ACGTcount: A:0.03, C:0.16, G:0.08, T:0.74
Consensus pattern (27 bp):
CTCTTTGTTTTTTTCTTTGCTCTTTTT
Found at i:9678823 original size:20 final size:20
Alignment explanation
Indices: 9678785--9678823 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
9678775 GGATAAATTC
*
9678785 AATGTTTCAATGTCACAAAG
1 AATGTTTCAAGGTCACAAAG
*
9678805 AATGTTTCAAGGTCTCAAA
1 AATGTTTCAAGGTCACAAA
9678824 AAGAGAGAAT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (20 bp):
AATGTTTCAAGGTCACAAAG
Found at i:9681740 original size:18 final size:18
Alignment explanation
Indices: 9681717--9681766 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
9681707 TGAAATGGAG
*
9681717 ATAATATAAATATATATA
1 ATAATACAAATATATATA
*
9681735 ATAATACATATATATATA
1 ATAATACAAATATATATA
*
9681753 TATATACACAAATA
1 -ATA-ATACAAATA
9681767 ATAAGGCGCA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
18 16 0.62
19 3 0.12
20 7 0.27
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (18 bp):
ATAATACAAATATATATA
Found at i:9682134 original size:30 final size:31
Alignment explanation
Indices: 9682100--9682157 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
9682090 TATGAGGGAT
*
9682100 TAAAAT-GATAAAAACATAAAC-TAAAGGGTC
1 TAAAATAGA-AAAAACAGAAACTTAAAGGGTC
*
9682130 TAAAATAGAAAAATCAGAAACTTAAAGG
1 TAAAATAGAAAAAACAGAAACTTAAAGG
9682158 ACTATAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 16 0.67
31 8 0.33
ACGTcount: A:0.59, C:0.09, G:0.14, T:0.19
Consensus pattern (31 bp):
TAAAATAGAAAAAACAGAAACTTAAAGGGTC
Found at i:9688642 original size:2 final size:2
Alignment explanation
Indices: 9688635--9688659 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9688625 ATAATTGAAT
9688635 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 T
9688660 TGAAAATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9688955 original size:41 final size:41
Alignment explanation
Indices: 9688901--9689074 Score: 303
Period size: 41 Copynumber: 4.2 Consensus size: 41
9688891 TTCGCAACGA
* *
9688901 ATGTAAATTGCATTGCGATTTTCCAATTTTGCAACGCGAAT
1 ATGTAAATCGCATTGCGATTTTCCAATTTCGCAACGCGAAT
9688942 ATGTAAATCGCATTGCGATTTTCCAATTTCGCAACGCGAAT
1 ATGTAAATCGCATTGCGATTTTCCAATTTCGCAACGCGAAT
9688983 ATGTAAATCGCATTGCGATTTTCCAATTTCGCAACGCGAAT
1 ATGTAAATCGCATTGCGATTTTCCAATTTCGCAACGCGAAT
* *
9689024 ATGTAAATCGCATTGCGATTTTCCAAATTCGCAACACGAAT
1 ATGTAAATCGCATTGCGATTTTCCAATTTCGCAACGCGAAT
*
9689065 CTGTAAATCG
1 ATGTAAATCG
9689075 TATCGCGAAT
Statistics
Matches: 128, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 128 1.00
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (41 bp):
ATGTAAATCGCATTGCGATTTTCCAATTTCGCAACGCGAAT
Found at i:9688973 original size:21 final size:20
Alignment explanation
Indices: 9688949--9689056 Score: 63
Period size: 21 Copynumber: 5.2 Consensus size: 20
9688939 AATATGTAAA
9688949 TCGCATTGCGATTTTCCAATT
1 TCGCATTGCGATTTTCCAA-T
** * * ** *
9688970 TCGCAACGCGAATATGTAAA
1 TCGCATTGCGATTTTCCAAT
9688990 TCGCATTGCGATTTTCCAATT
1 TCGCATTGCGATTTTCCAA-T
** * * ** *
9689011 TCGCAACGCGAATATGTAAA
1 TCGCATTGCGATTTTCCAAT
9689031 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCC-AAT
9689052 TCGCA
1 TCGCA
9689057 ACACGAATCT
Statistics
Matches: 57, Mismatches: 28, Indels: 4
0.64 0.31 0.04
Matches are distributed among these distances:
20 24 0.42
21 33 0.58
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (20 bp):
TCGCATTGCGATTTTCCAAT
Found at i:9689000 original size:20 final size:20
Alignment explanation
Indices: 9688935--9689096 Score: 90
Period size: 20 Copynumber: 8.0 Consensus size: 20
9688925 AATTTTGCAA
*
9688935 CGCGAATATGTAAATCGCAT
1 CGCGAATTTGTAAATCGCAT
* * ** * *
9688955 TGCGATTTTCCAATTTCGCAA
1 CGCGAATTTGTAA-ATCGCAT
*
9688976 CGCGAATATGTAAATCGCAT
1 CGCGAATTTGTAAATCGCAT
* * ** * *
9688996 TGCGATTTTCCAATTTCGCAA
1 CGCGAATTTGTAA-ATCGCAT
*
9689017 CGCGAATATGTAAATCGCAT
1 CGCGAATTTGTAAATCGCAT
* * ** *
9689037 TGCGATTTTCCAAATTCGCAA
1 CGCGAATTTGTAAA-TCGCAT
* * *
9689058 CACGAATCTGTAAATCGTAT
1 CGCGAATTTGTAAATCGCAT
9689078 CGCGAATTTGTAAATCGCA
1 CGCGAATTTGTAAATCGCA
9689097 ACACAGAAGT
Statistics
Matches: 94, Mismatches: 45, Indels: 6
0.65 0.31 0.04
Matches are distributed among these distances:
20 55 0.59
21 39 0.41
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (20 bp):
CGCGAATTTGTAAATCGCAT
Found at i:9689117 original size:20 final size:19
Alignment explanation
Indices: 9689092--9689149 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 19
9689082 AATTTGTAAA
9689092 TCGCAACACAGA-AGTCAAAT
1 TCGCAACAC-GATAGTC-AAT
*
9689112 TCGCAACGCGATAGTCAAT
1 TCGCAACACGATAGTCAAT
* *
9689131 TCGCAACGCGAAAGTCAAT
1 TCGCAACACGATAGTCAAT
9689150 GTTTTTACGC
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
19 23 0.66
20 12 0.34
ACGTcount: A:0.38, C:0.26, G:0.19, T:0.17
Consensus pattern (19 bp):
TCGCAACACGATAGTCAAT
Found at i:9689133 original size:19 final size:19
Alignment explanation
Indices: 9689103--9689149 Score: 76
Period size: 19 Copynumber: 2.4 Consensus size: 19
9689093 CGCAACACAG
9689103 AAGTCAAATTCGCAACGCGA
1 AAGTC-AATTCGCAACGCGA
*
9689123 TAGTCAATTCGCAACGCGA
1 AAGTCAATTCGCAACGCGA
9689142 AAGTCAAT
1 AAGTCAAT
9689150 GTTTTTACGC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 21 0.84
20 4 0.16
ACGTcount: A:0.38, C:0.23, G:0.19, T:0.19
Consensus pattern (19 bp):
AAGTCAATTCGCAACGCGA
Found at i:9689667 original size:19 final size:20
Alignment explanation
Indices: 9689645--9689686 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
9689635 AAAATCGCAA
*
9689645 TGCGATTTT-ATTTTCGCGT
1 TGCGATTTTCATTTTCGAGT
9689664 TGCGATTTTCATTTTCGAGT
1 TGCGATTTTCATTTTCGAGT
9689684 TGC
1 TGC
9689687 AAATTTAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.12, C:0.17, G:0.21, T:0.50
Consensus pattern (20 bp):
TGCGATTTTCATTTTCGAGT
Found at i:9691473 original size:21 final size:21
Alignment explanation
Indices: 9691449--9691498 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
9691439 TGGTGCATGG
9691449 CGTGATGAGGTTCGA-TCTTTA
1 CGTGATGAGGTT-GATTCTTTA
* *
9691470 CGTGGTGAGGTTGATTTTTTA
1 CGTGATGAGGTTGATTCTTTA
*
9691491 CGCGATGA
1 CGTGATGA
9691499 TAATGGTGCG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 2 0.08
21 22 0.92
ACGTcount: A:0.18, C:0.12, G:0.32, T:0.38
Consensus pattern (21 bp):
CGTGATGAGGTTGATTCTTTA
Found at i:9693366 original size:14 final size:14
Alignment explanation
Indices: 9693347--9693383 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
9693337 TTTTGATTAA
9693347 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
9693361 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
*
9693375 TAGATTTGT
1 TTGATTTGT
9693384 TTAATTTGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.22, T:0.46
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:9693411 original size:75 final size:76
Alignment explanation
Indices: 9693304--9693449 Score: 188
Period size: 80 Copynumber: 1.9 Consensus size: 76
9693294 ATGAAAGTTT
* * *
9693304 ATTTGTTTAATTGATGAGGAAATAATATTTA-TTTT-TTGATTAATTGATTTGTAAAAGTTGATT
1 ATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTCTTGATTAATTGATTTGTAAAAGTTGAAT
9693367 TGTAAAAGTAG
66 TGTAAAAGTAG
* * *
9693378 ATTTGTTTAATTTGATGTGTAAATAAGAATTATTTTTTTGCTTGTTTAATTGATTTGTAAAAGTT
1 ATTTGTTTAA-TTGATGAGGAAATAAGAATTA--TTTTT-CTTGATTAATTGATTTGTAAAAGTT
9693443 GAATTGT
62 GAATTGT
9693450 TGTTTCTAAA
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
74 10 0.17
75 17 0.28
78 4 0.07
80 29 0.48
ACGTcount: A:0.32, C:0.01, G:0.17, T:0.50
Consensus pattern (76 bp):
ATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTCTTGATTAATTGATTTGTAAAAGTTGAAT
TGTAAAAGTAG
Found at i:9693621 original size:20 final size:20
Alignment explanation
Indices: 9693559--9693610 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
9693549 TCGCAACGTA
*
9693559 AAAGTCAAATTCACAGTGCG
1 AAAGCCAAATTCACAGTGCG
9693579 AAAGCCAAATTCACAGTGCG
1 AAAGCCAAATTCACAGTGCG
9693599 AAAGCCAAATTC
1 AAAGCCAAATTC
9693611 GCGTTGCGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.42, C:0.23, G:0.17, T:0.17
Consensus pattern (20 bp):
AAAGCCAAATTCACAGTGCG
Found at i:9695397 original size:26 final size:26
Alignment explanation
Indices: 9695361--9695421 Score: 113
Period size: 26 Copynumber: 2.3 Consensus size: 26
9695351 TAAGGAGATT
9695361 TGGGACAAGTTGGAGGTGACCCATGA
1 TGGGACAAGTTGGAGGTGACCCATGA
9695387 TGGGACAAGTTGGAGGTGACCCATGA
1 TGGGACAAGTTGGAGGTGACCCATGA
*
9695413 TGGAACAAG
1 TGGGACAAG
9695422 CCAAGTGAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.30, C:0.15, G:0.38, T:0.18
Consensus pattern (26 bp):
TGGGACAAGTTGGAGGTGACCCATGA
Found at i:9703594 original size:31 final size:32
Alignment explanation
Indices: 9703493--9703595 Score: 92
Period size: 31 Copynumber: 3.3 Consensus size: 32
9703483 AATTTAGTTC
* * *
9703493 AGGTT-GGGTTAAAATCGA-ATCGGTTGGTTTT
1 AGGTTCGGGTTAATATC-ATATAGGTTGGCTTT
* *
9703524 CGGTTCGGGTCAATATCATATCA-GTTGGCTTCT
1 AGGTTCGGGTTAATATCATAT-AGGTTGGCTT-T
9703557 A-G-TCGGGTTAATATCATATAGGTTGG-TTT
1 AGGTTCGGGTTAATATCATATAGGTTGGCTTT
9703586 AGGTTCGGGT
1 AGGTTCGGGT
9703596 CAACTACTAG
Statistics
Matches: 58, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
29 2 0.03
30 4 0.07
31 32 0.55
32 19 0.33
33 1 0.02
ACGTcount: A:0.20, C:0.12, G:0.30, T:0.38
Consensus pattern (32 bp):
AGGTTCGGGTTAATATCATATAGGTTGGCTTT
Found at i:9704668 original size:25 final size:26
Alignment explanation
Indices: 9704617--9704669 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
9704607 TTTTATTGAC
*
9704617 TTGCGAATAAAAGAGTAAAAATAGAG
1 TTGCAAATAAAAGAGTAAAAATAGAG
*
9704643 TTGCAAATAAAAGAG-CAAAATAGAG
1 TTGCAAATAAAAGAGTAAAAATAGAG
9704668 TT
1 TT
9704670 AGTTGTTGAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 11 0.44
26 14 0.56
ACGTcount: A:0.53, C:0.06, G:0.21, T:0.21
Consensus pattern (26 bp):
TTGCAAATAAAAGAGTAAAAATAGAG
Found at i:9705723 original size:16 final size:16
Alignment explanation
Indices: 9705684--9705737 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
9705674 ATATATGGAT
9705684 TTTCGGTTCGAA-TTAC
1 TTTCGGTTC-AAGTTAC
* *
9705700 TTTTGGTTCAAGTTAA
1 TTTCGGTTCAAGTTAC
**
9705716 TTTCGGTTTGAGTTAC
1 TTTCGGTTCAAGTTAC
9705732 TTTCGG
1 TTTCGG
9705738 ATCTGGTTAA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
15 2 0.06
16 29 0.94
ACGTcount: A:0.17, C:0.13, G:0.22, T:0.48
Consensus pattern (16 bp):
TTTCGGTTCAAGTTAC
Found at i:9705732 original size:32 final size:31
Alignment explanation
Indices: 9705684--9705784 Score: 85
Period size: 32 Copynumber: 3.2 Consensus size: 31
9705674 ATATATGGAT
* *
9705684 TTTCGGTTCGAATTACTTTTGGTTCAAGTTAA
1 TTTCGGTTTGAGTTACTTTTGGTTC-AGTTAA
* * *
9705716 TTTCGGTTTGAGTTACTTTCGGATCTGGTTAA
1 TTTCGGTTTGAGTTACTTTTGGTTC-AGTTAA
* ** * *
9705748 ATTCAATTTGGGTTGCTTTTGGTTCAGATTAA
1 TTTCGGTTTGAGTTACTTTTGGTTCAG-TTAA
9705780 TTTCG
1 TTTCG
9705785 ATTCGGGTTA
Statistics
Matches: 52, Mismatches: 16, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
31 1 0.02
32 51 0.98
ACGTcount: A:0.19, C:0.12, G:0.22, T:0.48
Consensus pattern (31 bp):
TTTCGGTTTGAGTTACTTTTGGTTCAGTTAA
Found at i:9706461 original size:26 final size:26
Alignment explanation
Indices: 9706429--9706485 Score: 105
Period size: 26 Copynumber: 2.2 Consensus size: 26
9706419 CTATTTTATG
9706429 AATTTGCAACATTGTGTCTGTATTTT
1 AATTTGCAACATTGTGTCTGTATTTT
*
9706455 AATTTGCAACATTTTGTCTGTATTTT
1 AATTTGCAACATTGTGTCTGTATTTT
9706481 AATTT
1 AATTT
9706486 TCAATAAAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.25, C:0.11, G:0.12, T:0.53
Consensus pattern (26 bp):
AATTTGCAACATTGTGTCTGTATTTT
Found at i:9710537 original size:7 final size:7
Alignment explanation
Indices: 9710527--9710554 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
9710517 TGCTAACTGC
9710527 TACCTGT
1 TACCTGT
9710534 TACCTGT
1 TACCTGT
9710541 TACCTGT
1 TACCTGT
9710548 TACCTGT
1 TACCTGT
9710555 GTTAACTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.14, C:0.29, G:0.14, T:0.43
Consensus pattern (7 bp):
TACCTGT
Found at i:9717968 original size:16 final size:17
Alignment explanation
Indices: 9717947--9717979 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
9717937 TGTAGTTTAA
*
9717947 AAAATTGAT-ATATTTT
1 AAAATTAATAATATTTT
9717963 AAAATTAATAATATTTT
1 AAAATTAATAATATTTT
9717980 TAAGTGTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (17 bp):
AAAATTAATAATATTTT
Found at i:9726802 original size:15 final size:16
Alignment explanation
Indices: 9726782--9726822 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
9726772 GTTTACTTCA
*
9726782 GAATGATT-AAGCGCT
1 GAATGATTCAAACGCT
*
9726797 GAATGATTCAAATGCT
1 GAATGATTCAAACGCT
9726813 GAATGATTCA
1 GAATGATTCA
9726823 GAGGCTATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (16 bp):
GAATGATTCAAACGCT
Found at i:9728468 original size:21 final size:21
Alignment explanation
Indices: 9728442--9728491 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
9728432 CTAAAATTAT
9728442 TGTAGCAGGGTATCGGTACAC
1 TGTAGCAGGGTATCGGTACAC
*
9728463 TGTAGCATGGTATCGGTACAC
1 TGTAGCAGGGTATCGGTACAC
9728484 TGTAGCAG
1 TGTAGCAG
9728492 TATCGATACA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (21 bp):
TGTAGCAGGGTATCGGTACAC
Found at i:9728496 original size:19 final size:20
Alignment explanation
Indices: 9728442--9728502 Score: 88
Period size: 21 Copynumber: 3.0 Consensus size: 20
9728432 CTAAAATTAT
9728442 TGTAGCAGGGTATCGGTACAC
1 TGTAGCA-GGTATCGGTACAC
9728463 TGTAGCATGGTATCGGTACAC
1 TGTAGCA-GGTATCGGTACAC
*
9728484 TGTAGCA-GTATCGATACAC
1 TGTAGCAGGTATCGGTACAC
9728503 CTTTTACATT
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.29
21 27 0.71
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (20 bp):
TGTAGCAGGTATCGGTACAC
Found at i:9728585 original size:19 final size:20
Alignment explanation
Indices: 9728542--9728587 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
9728532 TATTGTTCAT
*
9728542 TACTATTCACACAGTATCGA
1 TACTATTCACACAGTATCAA
*
9728562 TACTATTCATACAGTA-CAA
1 TACTATTCACACAGTATCAA
9728581 TACTATT
1 TACTATT
9728588 TATAAAAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.35
Consensus pattern (20 bp):
TACTATTCACACAGTATCAA
Found at i:9731286 original size:21 final size:22
Alignment explanation
Indices: 9731258--9731310 Score: 99
Period size: 21 Copynumber: 2.5 Consensus size: 22
9731248 TAAAAAGAGT
9731258 ATAAAATAATCCATAAGATAAA
1 ATAAAATAATCCATAAGATAAA
9731280 AT-AAATAATCCATAAGATAAA
1 ATAAAATAATCCATAAGATAAA
9731301 ATAAAATAAT
1 ATAAAATAAT
9731311 TTTTTACCGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
21 21 0.70
22 9 0.30
ACGTcount: A:0.64, C:0.08, G:0.04, T:0.25
Consensus pattern (22 bp):
ATAAAATAATCCATAAGATAAA
Found at i:9732238 original size:31 final size:31
Alignment explanation
Indices: 9732176--9732241 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
9732166 TTTATGAGTT
* *
9732176 AAATTGATATTTTATTTAAAGTTCAATGGTC
1 AAATTGATATTTTATATAAAGTTCAAGGGTC
* * *
9732207 AAATTGATATTTTGTATAAATTTTAAGGGTC
1 AAATTGATATTTTATATAAAGTTCAAGGGTC
9732238 AAAT
1 AAAT
9732242 CAGTTTTTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.38, C:0.05, G:0.14, T:0.44
Consensus pattern (31 bp):
AAATTGATATTTTATATAAAGTTCAAGGGTC
Found at i:9735739 original size:19 final size:19
Alignment explanation
Indices: 9735712--9735748 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
9735702 CTAACGTTTC
*
9735712 AAACTTTATATTTTTAGGG
1 AAACATTATATTTTTAGGG
9735731 AAACATTATATTTTTAGG
1 AAACATTATATTTTTAGG
9735749 TGCATGATCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.05, G:0.14, T:0.46
Consensus pattern (19 bp):
AAACATTATATTTTTAGGG
Found at i:9735960 original size:13 final size:13
Alignment explanation
Indices: 9735921--9735952 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
9735911 ACCGTTCGAC
9735921 GATGGCAAAGGCA
1 GATGGCAAAGGCA
9735934 GATGGCAAAGGCA
1 GATGGCAAAGGCA
9735947 GATGGC
1 GATGGC
9735953 GATGGCAGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.34, C:0.16, G:0.41, T:0.09
Consensus pattern (13 bp):
GATGGCAAAGGCA
Found at i:9737074 original size:21 final size:22
Alignment explanation
Indices: 9737048--9737110 Score: 94
Period size: 21 Copynumber: 2.9 Consensus size: 22
9737038 TCATGGCCCT
9737048 GGATGAGAAATTA-GGACTTAA
1 GGATGAGAAATTAGGGACTTAA
9737069 GGATGAGAAATTAGGGA-TTAA
1 GGATGAGAAATTAGGGACTTAA
*
9737090 GAATCGAGAAATTAGGGACTT
1 GGAT-GAGAAATTAGGGACTT
9737111 GGAAAATGAA
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
21 20 0.53
22 16 0.42
23 2 0.05
ACGTcount: A:0.41, C:0.05, G:0.30, T:0.24
Consensus pattern (22 bp):
GGATGAGAAATTAGGGACTTAA
Found at i:9737791 original size:24 final size:24
Alignment explanation
Indices: 9737762--9737833 Score: 99
Period size: 24 Copynumber: 3.0 Consensus size: 24
9737752 TTGCAAGCAC
*
9737762 CTGTGAATCAAACCAGGAATGAAG
1 CTGTGAATCAAATCAGGAATGAAG
*
9737786 CTGTGAATCAAATCAGGAATAAAG
1 CTGTGAATCAAATCAGGAATGAAG
* * *
9737810 TTGTGCATCAAATCAAGAATGAAG
1 CTGTGAATCAAATCAGGAATGAAG
9737834 GTAAGCAACC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.43, C:0.14, G:0.22, T:0.21
Consensus pattern (24 bp):
CTGTGAATCAAATCAGGAATGAAG
Found at i:9744507 original size:3 final size:3
Alignment explanation
Indices: 9744499--9744630 Score: 219
Period size: 3 Copynumber: 44.0 Consensus size: 3
9744489 TTTTTATCCA
9744499 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
9744547 TAT TAT CAT TAT TAA TAT TAA TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
9744595 TAT CAT TAT TAT TAT TAT TAT CAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
9744631 AATTTATATT
Statistics
Matches: 119, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 119 1.00
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:9757210 original size:14 final size:14
Alignment explanation
Indices: 9757191--9757280 Score: 103
Period size: 14 Copynumber: 6.2 Consensus size: 14
9757181 ATGCTTGAAG
9757191 AAAAAAAAGAAGAA
1 AAAAAAAAGAAGAA
9757205 AAAAAAAAGAAGAA
1 AAAAAAAAGAAGAA
9757219 AAAATATAGAA-AAGAA
1 AAAA-A-A-AAGAAGAA
*
9757235 AAAAAAAAGAAAGGA
1 AAAAAAAAG-AAGAA
*
9757250 AAAGAAAAGAAGAA
1 AAAAAAAAGAAGAA
9757264 AAAGAAAAAGAA-AA
1 AAA-AAAAAGAAGAA
9757278 AAA
1 AAA
9757281 GGGGTCAAGG
Statistics
Matches: 66, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
13 2 0.03
14 31 0.47
15 21 0.32
16 10 0.15
17 2 0.03
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (14 bp):
AAAAAAAAGAAGAA
Found at i:9757240 original size:20 final size:18
Alignment explanation
Indices: 9757188--9757280 Score: 73
Period size: 20 Copynumber: 4.8 Consensus size: 18
9757178 ATTATGCTTG
9757188 AAGAAAA-AAAAGAAGAAAA
1 AAGAAAAGAAAA-AA-AAAA
*
9757207 AA-AAAAGAAGAAAAAATA
1 AAGAAAAGAA-AAAAAAAA
*
9757225 TAGAAAAGAAAAAAAAAAGA
1 AAGAAAAG-AAAAAAAAA-A
*
9757245 AAGGAAAAGAAAAGAAGAAA
1 AA-GAAAAGAAAA-AAAAAA
9757265 AAGAAAAAGAAAAAAA
1 AAG-AAAAGAAAAAAA
9757281 GGGGTCAAGG
Statistics
Matches: 60, Mismatches: 6, Indels: 16
0.73 0.07 0.20
Matches are distributed among these distances:
18 8 0.13
19 20 0.33
20 22 0.37
21 10 0.17
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (18 bp):
AAGAAAAGAAAAAAAAAA
Found at i:9757272 original size:30 final size:27
Alignment explanation
Indices: 9757188--9757280 Score: 109
Period size: 30 Copynumber: 3.3 Consensus size: 27
9757178 ATTATGCTTG
9757188 AAGAAAAAAAAGAAGAAAAAAAAAAG-
1 AAGAAAAAAAAGAAGAAAAAAAAAAGA
9757214 AAGAAAAAATATAGAAAAGAAAAAAAAAAGA
1 AAGAAAAAA-A-AG--AAGAAAAAAAAAAGA
9757245 AAGGAAAAGAAAAGAAGAAAAAGAAAAAGA
1 AA-GAAAA-AAAAGAAGAAAAA-AAAAAGA
9757275 AA-AAAA
1 AAGAAAA
9757281 GGGGTCAAGG
Statistics
Matches: 59, Mismatches: 0, Indels: 14
0.81 0.00 0.19
Matches are distributed among these distances:
26 9 0.15
27 1 0.02
28 6 0.10
29 8 0.14
30 23 0.39
31 4 0.07
32 6 0.10
33 2 0.03
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (27 bp):
AAGAAAAAAAAGAAGAAAAAAAAAAGA
Found at i:9757629 original size:16 final size:16
Alignment explanation
Indices: 9757610--9757652 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 16
9757600 ATTTCAAGTG
*
9757610 CAATTTATTTGAGATT
1 CAATTTATTTGAAATT
9757626 CAATTTATTTTTGAAATT
1 CAATTTA--TTTGAAATT
9757644 CAATTTATT
1 CAATTTATT
9757653 CTTTTCTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 9 0.38
18 15 0.62
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.53
Consensus pattern (16 bp):
CAATTTATTTGAAATT
Found at i:9757644 original size:18 final size:18
Alignment explanation
Indices: 9757617--9757652 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
9757607 GTGCAATTTA
*
9757617 TTTGAGATTCAATTTATT
1 TTTGAAATTCAATTTATT
9757635 TTTGAAATTCAATTTATT
1 TTTGAAATTCAATTTATT
9757653 CTTTTCTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.06, G:0.08, T:0.56
Consensus pattern (18 bp):
TTTGAAATTCAATTTATT
Found at i:9758553 original size:50 final size:50
Alignment explanation
Indices: 9758478--9759133 Score: 687
Period size: 50 Copynumber: 12.8 Consensus size: 50
9758468 TGAATTTGCC
9758478 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
* *
9758528 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTAATTAGACAC
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
9758578 AATAGCATCTTCTGGAAGTGTTC-TTGAGTTATCTGATCTGATTAGACAG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
* * *
9758627 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
* * * * ** * *
9758677 AACCAATCAT-TGAATTTAGAAGATG-AATTT--GTTAAT-AGCATCT--TCTGGA-AG
1 AA--TAGCATCT---TCTGGAAG-TGTTCTTTGAGTT-ATCTG-ATCTGAT-TAGACAG
* ** * * ** *
9758728 --T-G-TTCTT-TGAGTTATCTGATCTGGTTTGGCAG--AACCAATCATTGAATTTAGAAGATGA
1 AATAGCATCTTCTG-G--AAGTG-T-T-CTTT-G-AGTTATCTGATC--TG-A-TTAGA-----C
9758786 ATTTG
49 A---G
9758791 CCAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
1 --AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
9758843 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
* *
9758893 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTAATTAGACAT
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
*
9758943 AATAGCATCTTCTGGAAGTGTGCTTTGAGTTATCTGATCTGATTAGACAG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
* *
9758993 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTAATTAGACAT
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
9759043 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
9759093 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
9759134 GTTTGGCAGA
Statistics
Matches: 513, Mismatches: 46, Indels: 94
0.79 0.07 0.14
Matches are distributed among these distances:
42 1 0.00
43 2 0.00
44 2 0.00
45 2 0.00
46 1 0.00
48 3 0.01
49 51 0.10
50 377 0.73
51 5 0.01
52 12 0.02
53 6 0.01
54 12 0.02
55 4 0.01
60 6 0.01
61 1 0.00
62 4 0.01
63 2 0.00
64 8 0.02
65 1 0.00
66 1 0.00
67 4 0.01
68 1 0.00
69 5 0.01
70 2 0.00
ACGTcount: A:0.27, C:0.14, G:0.21, T:0.38
Consensus pattern (50 bp):
AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAG
Found at i:9758844 original size:83 final size:83
Alignment explanation
Indices: 9758627--9758833 Score: 396
Period size: 83 Copynumber: 2.5 Consensus size: 83
9758617 GATTAGACAG
9758627 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAAT
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAAT
**
9758692 TTAGAAGATGAATTTGTT
66 TTAGAAGATGAATTTGCC
9758710 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAAT
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAAT
9758775 TTAGAAGATGAATTTGCC
66 TTAGAAGATGAATTTGCC
9758793 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
9758834 ATTAGACAGA
Statistics
Matches: 122, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
83 122 1.00
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.38
Consensus pattern (83 bp):
AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAAT
TTAGAAGATGAATTTGCC
Found at i:9759281 original size:133 final size:133
Alignment explanation
Indices: 9759043--9759349 Score: 596
Period size: 133 Copynumber: 2.3 Consensus size: 133
9759033 AATTAGACAT
9759043 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAGAATAGCATCTTCTGG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAGAATAGCATCTTCTGG
9759108 AAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATTTAGAAGATGAATTT
66 AAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATTTAGAAGATGAATTT
9759173 GCC
131 GCC
9759176 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAGAATAGCATCTTCTGG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAGAATAGCATCTTCTGG
9759241 AAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATTTAGAAGATGAATTT
66 AAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATTTAGAAGATGAATTT
**
9759306 GTT
131 GCC
9759309 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
9759350 GTTTGGTAAG
Statistics
Matches: 172, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
133 172 1.00
ACGTcount: A:0.26, C:0.14, G:0.22, T:0.38
Consensus pattern (133 bp):
AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAGAATAGCATCTTCTGG
AAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAGAACCAATCATTGAATTTAGAAGATGAATTT
GCC
Found at i:9760193 original size:110 final size:109
Alignment explanation
Indices: 9759977--9760400 Score: 658
Period size: 110 Copynumber: 3.8 Consensus size: 109
9759967 TTAGCAAAGA
9759977 TGAATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA
1 TGAAT-CATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA
9760042 GAAGGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACC
65 GAAGGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACC
*
9760087 TGAATC-TCATTTGGTGGATCATTTTTTCCAGAGAAAGTTCATAATGAGAAG-ACTCATCTGAAG
1 TGAATCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
9760150 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACC
66 AA-G--GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACC
9760197 TGAATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA
1 TGAAT-CATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAA
* *
9760262 GAAGGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCT
65 GAAGGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACC
* * * * *
9760307 TGAATTCATCATTTGATGGATCAAC-ATGCCAG-GTAAAGTTCATAATGAGAAGAATTCATCTGA
1 TGAA-TCATCATTTGGTGGATCATCTTTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGA
9760370 AGAAGGAAGAGAAAGTTCATAATGAGAAGAA
64 AGAAGG-A-AG-AAGTTCATAATGAGAAGAA
9760401 ACTCATCAAG
Statistics
Matches: 294, Mismatches: 9, Indels: 20
0.91 0.03 0.06
Matches are distributed among these distances:
107 14 0.05
108 46 0.16
109 40 0.14
110 112 0.38
111 4 0.01
112 64 0.22
113 14 0.05
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (109 bp):
TGAATCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAG
AAGGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTACC
Found at i:9760645 original size:3 final size:3
Alignment explanation
Indices: 9760637--9760772 Score: 199
Period size: 3 Copynumber: 46.7 Consensus size: 3
9760627 TTTTTATCCA
*
9760637 TAT TAT TAT TAT TAT TAA TAT TAT TAT TAT TAT TAT TA- TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
9760684 TAT TAT TAT CAT TAT TAA TAT TAT TAT TAT TAT TAT TAT TAT TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
9760731 TAT TAT CA- TAT TAT TAT TA- TAT TAT CAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
9760773 ATTTATATTA
Statistics
Matches: 119, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
2 7 0.06
3 112 0.94
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:9765343 original size:23 final size:20
Alignment explanation
Indices: 9765317--9765373 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 20
9765307 GCATGGGTAG
*
9765317 TGCATCGATGTACATGTTAAGAA
1 TGCATCGATGCAC-TG-T-AGAA
*
9765340 TGCATCAATGCACTGTAGAA
1 TGCATCGATGCACTGTAGAA
9765360 TGCATCGATGCACT
1 TGCATCGATGCACT
9765374 TCAAGGGGAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 17 0.55
21 1 0.03
22 2 0.06
23 11 0.35
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (20 bp):
TGCATCGATGCACTGTAGAA
Found at i:9767422 original size:180 final size:179
Alignment explanation
Indices: 9767123--9767482 Score: 663
Period size: 180 Copynumber: 2.0 Consensus size: 179
9767113 TATATCCTGA
9767123 AAAGAGTAGGGTTACTTGGCATGAGTTTGTATATAATTGTGTCATCGATGTTGATAAGGGATATA
1 AAAGAGTAGGGTTACTTGGCATGAGTTTGTATATAATTGTGTCATCGATGTTGATAAGGGATATA
9767188 TTGATGTTATTGATGAGTTTAATAAATTAACTCAAACTACTTCTGTGGATGAGTATGAAGCTCAG
66 TTGATGTTATTGATGAGTTTAATAAATTAACTCAAACTACTTCTGTGGATGAGTATGAAGCTCAG
9767253 TTTGAGGAACTTC-ACGTTAT-TACTTCAGATTAATCCTGAATTAGGTG
131 TTTGAGGAACTTCAACGTTATCTACTTCAGATTAATCCTGAATTAGGTG
9767300 AAAGAGTAGGGTTACTTGGCATGAGTTTGTATATAATTTGTGTCATCGATTTGTTGATAAGGGAT
1 AAAGAGTAGGGTTACTTGGCATGAGTTTGTATATAA-TTGTGTCATCGA--TGTTGATAAGGGAT
9767365 ATATTGATGTTATTGATGAGTTTAATAAATTAACTC-AACTATCTTCTGTGGATGAGTATGAAGC
63 ATATTGATGTTATTGATGAGTTTAATAAATTAACTCAAACTA-CTTCTGTGGATGAGTATGAAGC
9767429 TCAGTTTGAGGAACTTCAACGTTATCTACTTCAGATTAATCCTGAATTAGGTG
127 TCAGTTTGAGGAACTTCAACGTTATCTACTTCAGATTAATCCTGAATTAGGTG
9767482 A
1 A
9767483 GGAGTATTTT
Statistics
Matches: 177, Mismatches: 0, Indels: 7
0.96 0.00 0.04
Matches are distributed among these distances:
177 36 0.20
178 12 0.07
179 5 0.03
180 89 0.50
181 7 0.04
182 28 0.16
ACGTcount: A:0.30, C:0.10, G:0.22, T:0.37
Consensus pattern (179 bp):
AAAGAGTAGGGTTACTTGGCATGAGTTTGTATATAATTGTGTCATCGATGTTGATAAGGGATATA
TTGATGTTATTGATGAGTTTAATAAATTAACTCAAACTACTTCTGTGGATGAGTATGAAGCTCAG
TTTGAGGAACTTCAACGTTATCTACTTCAGATTAATCCTGAATTAGGTG
Found at i:9772293 original size:14 final size:14
Alignment explanation
Indices: 9772274--9772303 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
9772264 TCAGTTGATT
9772274 GTGAGAAAGAACAA
1 GTGAGAAAGAACAA
9772288 GTGAGAAAGAACAA
1 GTGAGAAAGAACAA
9772302 GT
1 GT
9772304 CAACAACATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.53, C:0.07, G:0.30, T:0.10
Consensus pattern (14 bp):
GTGAGAAAGAACAA
Found at i:9772377 original size:28 final size:28
Alignment explanation
Indices: 9772345--9772403 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
9772335 TGTATATTTC
*
9772345 CTTGCTAATATATATGTTTTATTGCTTA
1 CTTGCTAATATATATGTTTTATTGATTA
* *
9772373 CTTGCTACTATATTTGTTTTATTGATTA
1 CTTGCTAATATATATGTTTTATTGATTA
9772401 CTT
1 CTT
9772404 TTAAATATGT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.22, C:0.12, G:0.10, T:0.56
Consensus pattern (28 bp):
CTTGCTAATATATATGTTTTATTGATTA
Found at i:9772592 original size:42 final size:42
Alignment explanation
Indices: 9772528--9772652 Score: 214
Period size: 42 Copynumber: 3.0 Consensus size: 42
9772518 CTTGTTAAAC
* *
9772528 CTTCTAATAATCCGATTAAAAATTTCAATGATTCACCTAATA
1 CTTCTAATAATCCTATTAAAAATTCCAATGATTCACCTAATA
* *
9772570 CTTCTAATAATTCTATTGAAAATTCCAATGATTCACCTAATA
1 CTTCTAATAATCCTATTAAAAATTCCAATGATTCACCTAATA
9772612 CTTCTAATAATCCTATTAAAAATTCCAATGATTCACCTAAT
1 CTTCTAATAATCCTATTAAAAATTCCAATGATTCACCTAAT
9772653 GATTCGGTTA
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 77 1.00
ACGTcount: A:0.39, C:0.20, G:0.04, T:0.37
Consensus pattern (42 bp):
CTTCTAATAATCCTATTAAAAATTCCAATGATTCACCTAATA
Found at i:9780460 original size:44 final size:44
Alignment explanation
Indices: 9780397--9780489 Score: 168
Period size: 44 Copynumber: 2.1 Consensus size: 44
9780387 GCAATAAAGC
* *
9780397 CAAGAGGCAAGAACCATCCCCAGTAGTTTCAGATGCTCTGGTCT
1 CAAGAGGCAAGAACCATCCCCAGTAGTTACAGAGGCTCTGGTCT
9780441 CAAGAGGCAAGAACCATCCCCAGTAGTTACAGAGGCTCTGGTCT
1 CAAGAGGCAAGAACCATCCCCAGTAGTTACAGAGGCTCTGGTCT
9780485 CAAGA
1 CAAGA
9780490 TCCACTGCCA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 47 1.00
ACGTcount: A:0.30, C:0.27, G:0.24, T:0.19
Consensus pattern (44 bp):
CAAGAGGCAAGAACCATCCCCAGTAGTTACAGAGGCTCTGGTCT
Found at i:9785227 original size:22 final size:22
Alignment explanation
Indices: 9785178--9785227 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
9785168 TGTAGTATAC
* *
9785178 TCAATTTAACATTCGAAGTTGT
1 TCAATTTAACATTCGAAATTAT
* *
9785200 TTAATTTAACCTTCGAAATTAT
1 TCAATTTAACATTCGAAATTAT
9785222 TCAATT
1 TCAATT
9785228 GCATCATTTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.34, C:0.14, G:0.08, T:0.44
Consensus pattern (22 bp):
TCAATTTAACATTCGAAATTAT
Found at i:9794145 original size:29 final size:31
Alignment explanation
Indices: 9794089--9794146 Score: 75
Period size: 29 Copynumber: 1.9 Consensus size: 31
9794079 GAAAATTTAT
* *
9794089 TTTTCTCTCATAAATTTCTATAAGTTCAAAA
1 TTTTCTCTCATAAATTTCTAAAAATTCAAAA
*
9794120 TTTTCTCTTA-AAATTT-TAAAAATTCAA
1 TTTTCTCTCATAAATTTCTAAAAATTCAA
9794147 GTTTGCCCTC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 9 0.38
30 6 0.25
31 9 0.38
ACGTcount: A:0.38, C:0.14, G:0.02, T:0.47
Consensus pattern (31 bp):
TTTTCTCTCATAAATTTCTAAAAATTCAAAA
Found at i:9805096 original size:146 final size:146
Alignment explanation
Indices: 9804832--9805132 Score: 539
Period size: 146 Copynumber: 2.1 Consensus size: 146
9804822 AAATCCTCAT
* *
9804832 TCCTTGTTCTGTTACAGTATTGAATGAAGAACTCCGCTTTTCAGTTGGTTTTCCTTCTATGGTTT
1 TCCTTGTTCTGTCACAGTATTGAATGAAGAACTCCGCTTTTCAGTTGGTTTTCCTTCTAGGGTTT
*
9804897 AAGCATTTTGAAACTCTAGTAGGATTCATAAGCTATAAAACCAAAACAATTAACAGTGTTCAATT
66 AAGCATTTTGAAACTCTAGTAGGATTCATAAACTATAAAACCAAAACAATTAACAGTGTTCAATT
9804962 GAACCTCATCAGTCGC
131 GAACCTCATCAGTCGC
* * *
9804978 TCCTTGTTCTGTCACAGTATTGAATGAAGAACTCTGTTTTTCAGTTGGTTTTTCTTCTAGGGTTT
1 TCCTTGTTCTGTCACAGTATTGAATGAAGAACTCCGCTTTTCAGTTGGTTTTCCTTCTAGGGTTT
9805043 AAGCATTTTGAAACTCTAGTAGGATTCATAAACTATAAAACCAAAACAATTAACAGTGTTCAATT
66 AAGCATTTTGAAACTCTAGTAGGATTCATAAACTATAAAACCAAAACAATTAACAGTGTTCAATT
9805108 GAACCTCATCAGTCGC
131 GAACCTCATCAGTCGC
*
9805124 TCCTCGTTC
1 TCCTTGTTC
9805133 GCTGCTTTCG
Statistics
Matches: 148, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
146 148 1.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.36
Consensus pattern (146 bp):
TCCTTGTTCTGTCACAGTATTGAATGAAGAACTCCGCTTTTCAGTTGGTTTTCCTTCTAGGGTTT
AAGCATTTTGAAACTCTAGTAGGATTCATAAACTATAAAACCAAAACAATTAACAGTGTTCAATT
GAACCTCATCAGTCGC
Found at i:9805410 original size:15 final size:16
Alignment explanation
Indices: 9805376--9805413 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
9805366 CTTATTTCAT
9805376 TTATT-TTTTAATTAA
1 TTATTGTTTTAATTAA
*
9805391 GTATTGTTTTAATT-A
1 TTATTGTTTTAATTAA
9805406 TTATTGTT
1 TTATTGTT
9805414 AAACCCATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.26, C:0.00, G:0.08, T:0.66
Consensus pattern (16 bp):
TTATTGTTTTAATTAA
Found at i:9805516 original size:22 final size:22
Alignment explanation
Indices: 9805491--9805537 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
9805481 GGTACATGTG
9805491 TAAGATATAAGGTCAGGATAAT
1 TAAGATATAAGGTCAGGATAAT
* *
9805513 TAAGATATAGGGTCATGATAAT
1 TAAGATATAAGGTCAGGATAAT
9805535 TAA
1 TAA
9805538 ATTGTATGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.45, C:0.04, G:0.21, T:0.30
Consensus pattern (22 bp):
TAAGATATAAGGTCAGGATAAT
Found at i:9808425 original size:20 final size:21
Alignment explanation
Indices: 9808389--9808427 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
9808379 AGTGTCGGGG
9808389 TTGTGATTTAGGATTTAGGGA
1 TTGTGATTTAGGATTTAGGGA
9808410 TTGTG-TTTAAGG-TTTAGG
1 TTGTGATTT-AGGATTTAGG
9808428 TATTACAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.21, C:0.00, G:0.33, T:0.46
Consensus pattern (21 bp):
TTGTGATTTAGGATTTAGGGA
Found at i:9808836 original size:17 final size:18
Alignment explanation
Indices: 9808792--9808838 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 18
9808782 TTTATATATA
9808792 TATTTTTATAAAATTTAG
1 TATTTTTATAAAATTTAG
*
9808810 -A--TTCATAAAATTT-G
1 TATTTTTATAAAATTTAG
9808824 TATTTTTATAAAATT
1 TATTTTTATAAAATT
9808839 GAAAAGATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 7
0.73 0.06 0.21
Matches are distributed among these distances:
14 1 0.04
15 12 0.50
17 11 0.46
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.53
Consensus pattern (18 bp):
TATTTTTATAAAATTTAG
Found at i:9822425 original size:41 final size:40
Alignment explanation
Indices: 9822374--9822458 Score: 107
Period size: 41 Copynumber: 2.1 Consensus size: 40
9822364 AATTACAATT
* * *
9822374 AATTCACAACATTAAGGTTTAAATTTCTGATCTTACAAGGA
1 AATTAACAACATGAAGGTTTAAATTTCTGATCTTA-AAAGA
* * *
9822415 AATTAACAACATGAATGTTTAAATTTTTTATCTTAAAAGA
1 AATTAACAACATGAAGGTTTAAATTTCTGATCTTAAAAGA
9822455 AATT
1 AATT
9822459 TAGTACCTCA
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
40 8 0.21
41 30 0.79
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.38
Consensus pattern (40 bp):
AATTAACAACATGAAGGTTTAAATTTCTGATCTTAAAAGA
Found at i:9826751 original size:36 final size:35
Alignment explanation
Indices: 9826704--9826774 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 35
9826694 AAAGTACACA
*
9826704 AGACATAACACCCCTAAACTATGTTCGAATGATCAT
1 AGACATAACACCCCTAAACTA-GTTCAAATGATCAT
9826740 AGACATAACACCCCTAAACTAGTTCAAATGATCAT
1 AGACATAACACCCCTAAACTAGTTCAAATGATCAT
9826775 TTTGATCATT
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 13 0.38
36 21 0.62
ACGTcount: A:0.41, C:0.25, G:0.10, T:0.24
Consensus pattern (35 bp):
AGACATAACACCCCTAAACTAGTTCAAATGATCAT
Found at i:9830736 original size:12 final size:14
Alignment explanation
Indices: 9830706--9830737 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
9830696 CTTTCCATGC
9830706 CCATTCTACAAATA
1 CCATTCTACAAATA
9830720 CCATTCT-CAAA-A
1 CCATTCTACAAATA
9830732 CCATTC
1 CCATTC
9830738 GAAACAAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.39
13 4 0.22
14 7 0.39
ACGTcount: A:0.38, C:0.34, G:0.00, T:0.28
Consensus pattern (14 bp):
CCATTCTACAAATA
Done.