Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, 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: 33276047
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 139000 characters in sequence are not A, C, G, or T
File 26 of 190
Found at i:4385775 original size:18 final size:16
Alignment explanation
Indices: 4385748--4385786 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 16
4385738 TTACTTATAA
*
4385748 AAAATTTTT-TTCTT-
1 AAAATTTTTCTTTTTC
4385762 AAAATTTTTCTTTTTC
1 AAAATTTTTCTTTTTC
4385778 AAAATTTTT
1 AAAATTTTT
4385787 TAATATTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.41
15 4 0.18
16 9 0.41
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.62
Consensus pattern (16 bp):
AAAATTTTTCTTTTTC
Found at i:4385836 original size:29 final size:29
Alignment explanation
Indices: 4385799--4385857 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
4385789 ATATTTTAAG
** *
4385799 TAATATCTAATTAATATTCAATAAATTTA
1 TAATATCTAACAAATATTAAATAAATTTA
* *
4385828 TAATCTCTAACAAATTTTAAATAAATTTA
1 TAATATCTAACAAATATTAAATAAATTTA
4385857 T
1 T
4385858 TACGAAATTT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.44
Consensus pattern (29 bp):
TAATATCTAACAAATATTAAATAAATTTA
Found at i:4391559 original size:10 final size:10
Alignment explanation
Indices: 4391544--4391577 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
4391534 GATGCAGACA
*
4391544 CACACACACT
1 CACACACATT
*
4391554 CACACAGATT
1 CACACACATT
4391564 CACACACATT
1 CACACACATT
4391574 CACA
1 CACA
4391578 AATACTTCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.41, C:0.41, G:0.03, T:0.15
Consensus pattern (10 bp):
CACACACATT
Found at i:4395534 original size:5 final size:5
Alignment explanation
Indices: 4395524--4395548 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
4395514 AATAATTATA
4395524 AAATT AAATT AAATT AAATT AAATT
1 AAATT AAATT AAATT AAATT AAATT
4395549 CTGAATTCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
AAATT
Found at i:4398978 original size:55 final size:54
Alignment explanation
Indices: 4398894--4398999 Score: 167
Period size: 55 Copynumber: 1.9 Consensus size: 54
4398884 CCTGGAAGAA
* *
4398894 AGAATCTAATTGACTTTGTTCATATAAAACTGAACGCAAAGTCAATCCTTTAGAT
1 AGAATCTAATTGACGTTGCTCATATAAAACTGAACGCAAAGTCAAT-CTTTAGAT
* *
4398949 AGAATCTAATTGACGTTGCTCATATAAAACTGAAGGCAGAGTCAATCTTTA
1 AGAATCTAATTGACGTTGCTCATATAAAACTGAACGCAAAGTCAATCTTTA
4399000 CATCAAAGGC
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
54 5 0.11
55 42 0.89
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (54 bp):
AGAATCTAATTGACGTTGCTCATATAAAACTGAACGCAAAGTCAATCTTTAGAT
Found at i:4400542 original size:25 final size:25
Alignment explanation
Indices: 4400507--4400557 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
4400497 ACAATTATGC
* *
4400507 ATTCATTAATTGTAAGGTTTGTAGA
1 ATTCATAAATTGTAAGGATTGTAGA
4400532 ATTCATAAATTGTAAGGATTGTAGA
1 ATTCATAAATTGTAAGGATTGTAGA
4400557 A
1 A
4400558 GTTAGGGTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.04, G:0.20, T:0.39
Consensus pattern (25 bp):
ATTCATAAATTGTAAGGATTGTAGA
Found at i:4401611 original size:4 final size:4
Alignment explanation
Indices: 4401602--4401663 Score: 61
Period size: 4 Copynumber: 15.5 Consensus size: 4
4401592 AGGCATCAGA
* * * * *
4401602 ATAT ATAT ATAT ATAT ATAT ATAT ATAT GTAT GTAT GTAT GTAT GTAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
* *
4401650 GTAT ATAT GTAT AT
1 ATAT ATAT ATAT AT
4401664 TCCCAGAAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 54 1.00
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (4 bp):
ATAT
Found at i:4401617 original size:12 final size:12
Alignment explanation
Indices: 4401602--4401663 Score: 70
Period size: 12 Copynumber: 5.2 Consensus size: 12
4401592 AGGCATCAGA
*
4401602 ATATATATATAT
1 ATATATATGTAT
*
4401614 ATATATATATAT
1 ATATATATGTAT
*
4401626 ATATGTATGTAT
1 ATATATATGTAT
* *
4401638 GTATGTATGTAT
1 ATATATATGTAT
*
4401650 GTATATATGTAT
1 ATATATATGTAT
4401662 AT
1 AT
4401664 TCCCAGAAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 45 1.00
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (12 bp):
ATATATATGTAT
Found at i:4405869 original size:3 final size:3
Alignment explanation
Indices: 4405861--4405900 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
4405851 ACGACTACCT
*
4405861 CCA CCA CCA CCA CCA CCA CCA CCA CCG CCA CCA CCA CCA C
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA C
4405901 TACTGCCACC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.30, C:0.68, G:0.03, T:0.00
Consensus pattern (3 bp):
CCA
Found at i:4406002 original size:6 final size:6
Alignment explanation
Indices: 4405991--4406016 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
4405981 CTAACCCTAG
4405991 CTCTAT CTCTAT CTCTAT CTCTAT CT
1 CTCTAT CTCTAT CTCTAT CTCTAT CT
4406017 TCCCGTACAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.35, G:0.00, T:0.50
Consensus pattern (6 bp):
CTCTAT
Found at i:4407350 original size:12 final size:12
Alignment explanation
Indices: 4407326--4407368 Score: 63
Period size: 12 Copynumber: 3.8 Consensus size: 12
4407316 ATTAATTTTT
4407326 TATTTATAT--A
1 TATTTATATAAA
4407336 TATTTATATAAA
1 TATTTATATAAA
*
4407348 TATTTATTTAAA
1 TATTTATATAAA
4407360 TATTTATAT
1 TATTTATAT
4407369 TTAAAAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
10 9 0.31
12 20 0.69
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (12 bp):
TATTTATATAAA
Found at i:4407387 original size:22 final size:23
Alignment explanation
Indices: 4407362--4407408 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
4407352 TATTTAAATA
4407362 TTTATA-TTTAAAAAATAATATT
1 TTTATATTTTAAAAAATAATATT
4407384 TTTATATTTTAAAAAATAATATT
1 TTTATATTTTAAAAAATAATATT
4407407 TT
1 TT
4407409 ATTAATTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 6 0.25
23 18 0.75
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
TTTATATTTTAAAAAATAATATT
Found at i:4407409 original size:22 final size:21
Alignment explanation
Indices: 4407358--4407410 Score: 81
Period size: 23 Copynumber: 2.5 Consensus size: 21
4407348 TATTTATTTA
4407358 AATA-TTTATATTTAAAAAAT
1 AATATTTTATATTTAAAAAAT
4407378 AATATTTTTATATTTTAAAAAAT
1 AATA-TTTTATA-TTTAAAAAAT
4407401 AATATTTTAT
1 AATATTTTAT
4407411 TAATTTCTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 4 0.13
22 12 0.40
23 14 0.47
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
AATATTTTATATTTAAAAAAT
Found at i:4409362 original size:28 final size:29
Alignment explanation
Indices: 4409300--4409367 Score: 68
Period size: 28 Copynumber: 2.4 Consensus size: 29
4409290 TATCATCTAT
*
4409300 TTAAAAATTCAATTAAGTCAAAATAAAAA
1 TTAAAAATTTAATTAAGTCAAAATAAAAA
* * * *
4409329 AT-AAAATTTAATTAA-TTATAATAAATA
1 TTAAAAATTTAATTAAGTCAAAATAAAAA
*
4409356 TTAAAAAGTTAA
1 TTAAAAATTTAA
4409368 ATGATTATTG
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
27 10 0.32
28 20 0.65
29 1 0.03
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (29 bp):
TTAAAAATTTAATTAAGTCAAAATAAAAA
Found at i:4413628 original size:64 final size:63
Alignment explanation
Indices: 4413519--4413644 Score: 218
Period size: 64 Copynumber: 2.0 Consensus size: 63
4413509 CCCTATTCCT
*
4413519 GTACTGCGGTCTCCTTTGTATAAATATATATATATATATATATAATTCA-GATTGTTATAGCCC
1 GTACTGCGGTCTCCTTTGTATAAATATATATATATATATAAATAATT-AGGATTGTTATAGCCC
4413582 GTACTGCGGTCTCCTTTGTATAAAATATATATATATATATAAATAATTAGGATTGTTATAGCC
1 GTACTGCGGTCTCCTTTGTAT-AAATATATATATATATATAAATAATTAGGATTGTTATAGCC
4413645 ATTAGTTGCA
Statistics
Matches: 60, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
63 22 0.37
64 38 0.63
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.40
Consensus pattern (63 bp):
GTACTGCGGTCTCCTTTGTATAAATATATATATATATATAAATAATTAGGATTGTTATAGCCC
Found at i:4414946 original size:2 final size:2
Alignment explanation
Indices: 4414939--4414994 Score: 58
Period size: 2 Copynumber: 28.0 Consensus size: 2
4414929 GGATTCAAGA
* * * * *
4414939 AT AT AT AT AT AT AT AT AT AT AT AT AG AT AG AT AG AT AG AT AC
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
4414981 AC AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
4414995 CTACAAATAT
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.04, G:0.07, T:0.39
Consensus pattern (2 bp):
AT
Found at i:4415552 original size:21 final size:21
Alignment explanation
Indices: 4415518--4415557 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
4415508 AAAGGAGGAA
* *
4415518 GAAGACATTGATGAAGAAGAT
1 GAAGACAATAATGAAGAAGAT
*
4415539 GAAGACAATAATGATGAAG
1 GAAGACAATAATGAAGAAG
4415558 TATTCTGAAC
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:0.50, C:0.05, G:0.28, T:0.17
Consensus pattern (21 bp):
GAAGACAATAATGAAGAAGAT
Found at i:4417599 original size:18 final size:18
Alignment explanation
Indices: 4417578--4417656 Score: 59
Period size: 19 Copynumber: 4.2 Consensus size: 18
4417568 AAACAAAATA
*
4417578 AAAAATCTTAAATATTTT
1 AAAAATCTAAAATATTTT
* * *
4417596 AAAAAATATAAAAAATTAT
1 -AAAAATCTAAAATATTTT
*
4417615 AAAAGTCTAAAATATTTT
1 AAAAATCTAAAATATTTT
* * *
4417633 CAAAACTATAAAAAATATTT
1 -AAAAATCTAAAATAT-TTT
4417653 AAAA
1 AAAA
4417657 TAAAAATTTT
Statistics
Matches: 47, Mismatches: 11, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
18 14 0.30
19 30 0.64
20 3 0.06
ACGTcount: A:0.61, C:0.05, G:0.01, T:0.33
Consensus pattern (18 bp):
AAAAATCTAAAATATTTT
Found at i:4417643 original size:37 final size:37
Alignment explanation
Indices: 4417553--4417648 Score: 113
Period size: 37 Copynumber: 2.6 Consensus size: 37
4417543 ATACTAAGAA
* * *
4417553 ATTTTAAATAAATGTAAACAAAATA-AAAAATCTTAAAT
1 ATTTTAAA-AAATATAAA-AAATTATAAAAATCTAAAAT
*
4417591 ATTTTAAAAAATATAAAAAATTATAAAAGTCTAAAAT
1 ATTTTAAAAAATATAAAAAATTATAAAAATCTAAAAT
* *
4417628 ATTTTCAAAACTATAAAAAAT
1 ATTTTAAAAAATATAAAAAAT
4417649 ATTTAAAATA
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
36 5 0.10
37 38 0.75
38 8 0.16
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.32
Consensus pattern (37 bp):
ATTTTAAAAAATATAAAAAATTATAAAAATCTAAAAT
Found at i:4417735 original size:19 final size:20
Alignment explanation
Indices: 4417694--4417736 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
4417684 ATAAAAATCG
*
4417694 AAAAATCTAAAATTTTTGGA
1 AAAAATCTAAAATTTTTGAA
4417714 AAAAATCTAAAATTTTT-AA
1 AAAAATCTAAAATTTTTGAA
4417733 AAAA
1 AAAA
4417737 TTGTGAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.58, C:0.05, G:0.05, T:0.33
Consensus pattern (20 bp):
AAAAATCTAAAATTTTTGAA
Found at i:4417828 original size:28 final size:30
Alignment explanation
Indices: 4417796--4417850 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 30
4417786 ACAAAAATTT
*
4417796 AAAAAT-AATAAAATTTTAATAAAAATCCA
1 AAAAATGAATAAAATTTTAAAAAAAATCCA
*
4417825 AAAAATGAA-AAAATTTAAAAAAAAAT
1 AAAAATGAATAAAATTTTAAAAAAAAT
4417851 TTTGAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
29 21 0.91
30 2 0.09
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.24
Consensus pattern (30 bp):
AAAAATGAATAAAATTTTAAAAAAAATCCA
Found at i:4417849 original size:12 final size:14
Alignment explanation
Indices: 4417832--4417863 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
4417822 CCAAAAAATG
4417832 AAAAAA-TTT-AAA
1 AAAAAATTTTGAAA
4417844 AAAAAATTTTGAAA
1 AAAAAATTTTGAAA
4417858 AAAAAA
1 AAAAAA
4417864 ACCCTTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.33
13 3 0.17
14 9 0.50
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (14 bp):
AAAAAATTTTGAAA
Found at i:4417964 original size:25 final size:26
Alignment explanation
Indices: 4417911--4417970 Score: 72
Period size: 25 Copynumber: 2.4 Consensus size: 26
4417901 AAAAAGTTCC
* *
4417911 AAAATTC--AATAAAAATATAAAATT
1 AAAATTCTTAATAAAAATAAAAAATA
*
4417935 GAAATT-TTAATAAAAATAAAAAATA
1 AAAATTCTTAATAAAAATAAAAAATA
4417960 AAAATTCTTAA
1 AAAATTCTTAA
4417971 AACTAAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
24 5 0.17
25 20 0.69
26 4 0.14
ACGTcount: A:0.65, C:0.03, G:0.02, T:0.30
Consensus pattern (26 bp):
AAAATTCTTAATAAAAATAAAAAATA
Found at i:4418104 original size:18 final size:19
Alignment explanation
Indices: 4418083--4418126 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 19
4418073 TGAATAATAT
4418083 TTAAAAAATTTA-GAAAAA
1 TTAAAAAATTTATGAAAAA
**
4418101 TT-AAAAATTTATGAATGA
1 TTAAAAAATTTATGAAAAA
4418119 TTAAAAAA
1 TTAAAAAA
4418127 AAAAATCCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 9 0.41
18 8 0.36
19 5 0.23
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (19 bp):
TTAAAAAATTTATGAAAAA
Found at i:4418108 original size:17 final size:18
Alignment explanation
Indices: 4418086--4418125 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
4418076 ATAATATTTA
4418086 AAAAATTTA-GAAAAATT
1 AAAAATTTATGAAAAATT
**
4418103 AAAAATTTATGAATGATT
1 AAAAATTTATGAAAAATT
4418121 AAAAA
1 AAAAA
4418126 AAAAAATCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.30
Consensus pattern (18 bp):
AAAAATTTATGAAAAATT
Found at i:4418236 original size:18 final size:17
Alignment explanation
Indices: 4418215--4418274 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 17
4418205 TTTTTTTTAT
*
4418215 TTTTTGAAATTTTCAAA
1 TTTTTAAAATTTTCAAA
*
4418232 CTTTTTAAAATTTTAAAATA
1 -TTTTTAAAATTTT-CAA-A
*
4418252 TTTTTTAATATTTTCAAA
1 -TTTTTAAAATTTTCAAA
4418270 TTTTT
1 TTTTT
4418275 CCAAAAATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
17 5 0.14
18 13 0.37
19 4 0.11
20 13 0.37
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (17 bp):
TTTTTAAAATTTTCAAA
Found at i:4418236 original size:27 final size:29
Alignment explanation
Indices: 4418177--4418246 Score: 72
Period size: 27 Copynumber: 2.5 Consensus size: 29
4418167 GATCTTTTTA
* * *
4418177 TTTTTTAATTTTTATTAACATTTTCAGAT
1 TTTTTTAATTTTTATGAACATTTTCAAAC
*
4418206 TTTTTTTATTTTT-TGAA-ATTTTCAAAC
1 TTTTTTAATTTTTATGAACATTTTCAAAC
* *
4418233 TTTTTAAAATTTTA
1 TTTTTTAATTTTTA
4418247 AAATATTTTT
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
27 18 0.55
28 3 0.09
29 12 0.36
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.63
Consensus pattern (29 bp):
TTTTTTAATTTTTATGAACATTTTCAAAC
Found at i:4418505 original size:16 final size:17
Alignment explanation
Indices: 4418464--4418516 Score: 54
Period size: 16 Copynumber: 3.1 Consensus size: 17
4418454 AAAATATTTC
*
4418464 ATATATTTATCTTTTTATA
1 ATAT-TTTAT-TTTTTTTA
4418483 ATATTTTATTTTTTTTA
1 ATATTTTATTTTTTTTA
**
4418500 AT-TTTTAAATTTTTTA
1 ATATTTTATTTTTTTTA
4418516 A
1 A
4418517 ATCTTTGAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
16 13 0.42
17 9 0.29
18 5 0.16
19 4 0.13
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (17 bp):
ATATTTTATTTTTTTTA
Found at i:4422818 original size:18 final size:18
Alignment explanation
Indices: 4422769--4422823 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 18
4422759 AAATTTTTAA
4422769 AAAGTTATATAATTTTTT-
1 AAAGTT-TATAATTTTTTG
*
4422787 AAAATTT-T-ATTTTTTG
1 AAAGTTTATAATTTTTTG
4422803 AAAGTTTATAATTTTTTG
1 AAAGTTTATAATTTTTTG
4422821 AAA
1 AAA
4422824 ATTAATTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
15 7 0.22
16 7 0.22
17 2 0.06
18 16 0.50
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (18 bp):
AAAGTTTATAATTTTTTG
Found at i:4422829 original size:15 final size:15
Alignment explanation
Indices: 4422778--4422833 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
4422768 AAAAGTTATA
4422778 TAATTTTTT-AAAATT
1 TAATTTTTTGAAAA-T
* *
4422793 TTATTTTTTGAAAGTTT
1 TAATTTTTTGAAA--AT
4422810 ATAATTTTTTGAAAAT
1 -TAATTTTTTGAAAAT
4422826 TAATTTTT
1 TAATTTTT
4422834 AAAAATTTAT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
15 16 0.48
16 4 0.12
17 1 0.03
18 12 0.36
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (15 bp):
TAATTTTTTGAAAAT
Found at i:4422832 original size:33 final size:34
Alignment explanation
Indices: 4422760--4422843 Score: 109
Period size: 33 Copynumber: 2.5 Consensus size: 34
4422750 TGTTCAGAAA
4422760 AATTTTTAAAAAGTTATATAATTTTTTAAAATTT
1 AATTTTTAAAAAGTTATATAATTTTTTAAAATTT
* **
4422794 TATTTTTTGAAAGTT-TATAATTTTTTGAAAA-TT
1 AATTTTTAAAAAGTTATATAATTTTTT-AAAATTT
*
4422827 AATTTTTAAAAATTTAT
1 AATTTTTAAAAAGTTAT
4422844 GTAAAAAAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
33 24 0.59
34 17 0.41
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (34 bp):
AATTTTTAAAAAGTTATATAATTTTTTAAAATTT
Found at i:4431033 original size:19 final size:19
Alignment explanation
Indices: 4431005--4431048 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
4430995 AAAAATAACC
* *
4431005 AAATTGATTTCATTAATTA
1 AAATTTATTTCATTAATAA
**
4431024 AAATTTATTTTTTTAATAA
1 AAATTTATTTCATTAATAA
4431043 AAATTT
1 AAATTT
4431049 TTTAAAATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (19 bp):
AAATTTATTTCATTAATAA
Found at i:4449052 original size:95 final size:96
Alignment explanation
Indices: 4448920--4449110 Score: 366
Period size: 95 Copynumber: 2.0 Consensus size: 96
4448910 TATATGTATG
4448920 AGGGCATGCTTAAACTCAAATATTATTAATAAGAATAAAAATATTATTTCTGCTTACATGGTTGA
1 AGGGCATGCTTAAACTCAAATATTATTAATAAGAATAAAAATATTATTTCTGCTTACATGGTTGA
4448985 ATTTTTATATTTATGGCATTATAGATTAGGT
66 ATTTTTATATTTATGGCATTATAGATTAGGT
*
4449016 AGGGCATGCTTAAACTC-AATATTATTAATAAGAATAAAAATGTTATTTCTGCTTACATGGTTGA
1 AGGGCATGCTTAAACTCAAATATTATTAATAAGAATAAAAATATTATTTCTGCTTACATGGTTGA
4449080 ATTTTTATATTTATGGCATTATAGATTAGGT
66 ATTTTTATATTTATGGCATTATAGATTAGGT
4449111 CATTTAAATT
Statistics
Matches: 94, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
95 77 0.82
96 17 0.18
ACGTcount: A:0.36, C:0.08, G:0.15, T:0.41
Consensus pattern (96 bp):
AGGGCATGCTTAAACTCAAATATTATTAATAAGAATAAAAATATTATTTCTGCTTACATGGTTGA
ATTTTTATATTTATGGCATTATAGATTAGGT
Found at i:4449990 original size:61 final size:61
Alignment explanation
Indices: 4449867--4449991 Score: 223
Period size: 62 Copynumber: 2.0 Consensus size: 61
4449857 AGGTTCATGG
*
4449867 TTATTGAACCAAATGATTCAATTTCAGTTAAGACTATTATTAAATCAAGAGATGTAATTTT
1 TTATTGAACCAAATGATTCAATTTCAGTTAACACTATTATTAAATCAAGAGATGTAATTTT
*
4449928 TTATTGAACCAAATGATTTAATTTTCAGTTAACACTATTATTAAATCAAGAGATGTAATTTT
1 TTATTGAACCAAATGATTCAA-TTTCAGTTAACACTATTATTAAATCAAGAGATGTAATTTT
4449990 TT
1 TT
4449992 GTAAAAACAT
Statistics
Matches: 61, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
61 20 0.33
62 41 0.67
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.42
Consensus pattern (61 bp):
TTATTGAACCAAATGATTCAATTTCAGTTAACACTATTATTAAATCAAGAGATGTAATTTT
Found at i:4452728 original size:24 final size:24
Alignment explanation
Indices: 4452667--4452730 Score: 92
Period size: 24 Copynumber: 2.7 Consensus size: 24
4452657 TTTTAATTGT
* *
4452667 TTAAAAATAGATAATTTTTCTCTA
1 TTAAAAATAGATAGTTTTTATCTA
* *
4452691 TTCAAAACAGATAGTTTTTATCTA
1 TTAAAAATAGATAGTTTTTATCTA
4452715 TTAAAAATAGATAGTT
1 TTAAAAATAGATAGTT
4452731 ATGTATGTAG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (24 bp):
TTAAAAATAGATAGTTTTTATCTA
Found at i:4456822 original size:16 final size:16
Alignment explanation
Indices: 4456689--4456823 Score: 69
Period size: 16 Copynumber: 8.4 Consensus size: 16
4456679 AATTAATTGC
* *
4456689 ATTTTCTTGTAATTTT
1 ATTTTCATGTAATTTA
* *
4456705 ATTTGTTATGCAATTTA
1 ATTT-TCATGTAATTTA
*
4456722 ATTTT-ATGTTATTTA
1 ATTTTCATGTAATTTA
* *
4456737 A-TTTCATACTTTTATTTA
1 ATTTTC--A-TGTAATTTA
* *
4456755 CTTTTAATGTAATTTA
1 ATTTTCATGTAATTTA
* * *
4456771 TTTTTCATGCACTTTA
1 ATTTTCATGTAATTTA
* *
4456787 AATTT-ATGTAATTTG
1 ATTTTCATGTAATTTA
* *
4456802 CTTTTCATGTATTTTA
1 ATTTTCATGTAATTTA
4456818 ATTTTC
1 ATTTTC
4456824 TTACAATTTA
Statistics
Matches: 87, Mismatches: 25, Indels: 14
0.69 0.20 0.11
Matches are distributed among these distances:
14 3 0.03
15 19 0.22
16 40 0.46
17 14 0.16
18 8 0.09
19 3 0.03
ACGTcount: A:0.25, C:0.08, G:0.07, T:0.60
Consensus pattern (16 bp):
ATTTTCATGTAATTTA
Found at i:4457059 original size:7 final size:7
Alignment explanation
Indices: 4457034--4457067 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
4457024 TTTCACCAAC
4457034 TAAATAA
1 TAAATAA
4457041 TAAA-AA
1 TAAATAA
4457047 TAAATAA
1 TAAATAA
*
4457054 TCAATAA
1 TAAATAA
4457061 TAAATAA
1 TAAATAA
4457068 AATACTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 6 0.25
7 18 0.75
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (7 bp):
TAAATAA
Found at i:4457301 original size:120 final size:120
Alignment explanation
Indices: 4457159--4457401 Score: 425
Period size: 120 Copynumber: 2.0 Consensus size: 120
4457149 TCAATGTCGA
*
4457159 AATGAAATTCATAGCCTATTTAATATGTAAAAAATTTACA-AATAAAATGAAATGTCTAAAATTG
1 AATGAAATTCATAGCCTATTTAATATGTAAAAAATTTA-AGAACAAAATGAAATGTCTAAAATTG
4457223 TTTTTATTATTGATTGTGTATTTGAGTTTGTTGGATTTGTTGATTATAGGTTACTT
65 TTTTTATTATTGATTGTGTATTTGAGTTTGTTGGATTTGTTGATTATAGGTTACTT
* * *
4457279 AATGAAATTCGTAGCCTATTTAATATGTAAAAAATTTAAGAACAAAATGAAATGTTTACAATTGT
1 AATGAAATTCATAGCCTATTTAATATGTAAAAAATTTAAGAACAAAATGAAATGTCTAAAATTGT
*
4457344 TTTTATTATTGATTTTGTATTTGAGTTTGTTGGATTTGTTGATTATAGGTTACTT
66 TTTTATTATTGATTGTGTATTTGAGTTTGTTGGATTTGTTGATTATAGGTTACTT
4457399 AAT
1 AAT
4457402 TTAATTTTTA
Statistics
Matches: 117, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
119 1 0.01
120 116 0.99
ACGTcount: A:0.35, C:0.05, G:0.15, T:0.45
Consensus pattern (120 bp):
AATGAAATTCATAGCCTATTTAATATGTAAAAAATTTAAGAACAAAATGAAATGTCTAAAATTGT
TTTTATTATTGATTGTGTATTTGAGTTTGTTGGATTTGTTGATTATAGGTTACTT
Found at i:4457444 original size:18 final size:19
Alignment explanation
Indices: 4457423--4457464 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
4457413 GTTTTTGTCA
*
4457423 TTTTTAAAGT-TTTTTTAT
1 TTTTTAAACTATTTTTTAT
*
4457441 TTTTT-ATCTATTTTTTAT
1 TTTTTAAACTATTTTTTAT
4457459 TTTTTA
1 TTTTTA
4457465 TATTACAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 2 0.10
18 18 0.90
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.76
Consensus pattern (19 bp):
TTTTTAAACTATTTTTTAT
Found at i:4457887 original size:14 final size:15
Alignment explanation
Indices: 4457868--4457902 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
4457858 ACATAACAAA
4457868 AATTTTG-TCACATC
1 AATTTTGATCACATC
*
4457882 AATTTTGATCACATG
1 AATTTTGATCACATC
4457897 AATTTT
1 AATTTT
4457903 ATACGTCAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.37
15 12 0.63
ACGTcount: A:0.31, C:0.14, G:0.09, T:0.46
Consensus pattern (15 bp):
AATTTTGATCACATC
Found at i:4458332 original size:17 final size:19
Alignment explanation
Indices: 4458300--4458341 Score: 61
Period size: 17 Copynumber: 2.3 Consensus size: 19
4458290 ATTTTAAAAT
4458300 ATATTTATAGAATAATAAA
1 ATATTTATAGAATAATAAA
*
4458319 ATATTTA-A-AATAATATA
1 ATATTTATAGAATAATAAA
4458336 ATATTT
1 ATATTT
4458342 TTATTCCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 14 0.64
18 1 0.05
19 7 0.32
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (19 bp):
ATATTTATAGAATAATAAA
Found at i:4458873 original size:18 final size:17
Alignment explanation
Indices: 4458852--4458924 Score: 56
Period size: 18 Copynumber: 4.0 Consensus size: 17
4458842 AAATATTAGT
4458852 AATATTTATTTTATAATA
1 AATATTT-TTTTATAATA
* **
4458870 AATATTATTAAATTAATA
1 AATATTTTTTTA-TAATA
*
4458888 AATATATTTGTTGATAGATA
1 AATAT-TTT-TTTATA-ATA
*
4458908 AATATATTTTTATAATA
1 AATATTTTTTTATAATA
4458925 TAAATTGTTC
Statistics
Matches: 43, Mismatches: 8, Indels: 9
0.72 0.13 0.15
Matches are distributed among these distances:
17 6 0.14
18 21 0.49
19 6 0.14
20 10 0.23
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (17 bp):
AATATTTTTTTATAATA
Found at i:4461215 original size:3 final size:3
Alignment explanation
Indices: 4461207--4461273 Score: 107
Period size: 3 Copynumber: 22.3 Consensus size: 3
4461197 ATATATATAT
4461207 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
4461255 TTG TTA TTG TTA TTG TTA T
1 TTA TTA TTA TTA TTA TTA T
4461274 GCATAAATTG
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:4471383 original size:24 final size:24
Alignment explanation
Indices: 4471356--4471402 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
4471346 GAATTATATA
4471356 TGTG-GAAAAACTAAGAAATAAAAC
1 TGTGTGAAAAACTAA-AAATAAAAC
* *
4471380 TGTGTGGAAAACTAAAAGTAAAA
1 TGTGTGAAAAACTAAAAATAAAA
4471403 TTGAATGTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.55, C:0.06, G:0.19, T:0.19
Consensus pattern (24 bp):
TGTGTGAAAAACTAAAAATAAAAC
Found at i:4471566 original size:22 final size:22
Alignment explanation
Indices: 4471541--4471606 Score: 96
Period size: 22 Copynumber: 3.0 Consensus size: 22
4471531 TTTTCTGTTC
*
4471541 TTAATTTTAGAGATACAAATGT
1 TTAATTCTAGAGATACAAATGT
* **
4471563 TTAATTCCAGAGATACAAATAC
1 TTAATTCTAGAGATACAAATGT
4471585 TTAATTCTAGAGATACAAATGT
1 TTAATTCTAGAGATACAAATGT
4471607 AAATGTATAG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.42, C:0.11, G:0.12, T:0.35
Consensus pattern (22 bp):
TTAATTCTAGAGATACAAATGT
Found at i:4473187 original size:12 final size:12
Alignment explanation
Indices: 4473170--4473201 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
4473160 ATTTCTCATT
4473170 GGATAATGCCTC
1 GGATAATGCCTC
4473182 GGATAATGCCTC
1 GGATAATGCCTC
*
4473194 AGATAATG
1 GGATAATG
4473202 TAGTTGGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (12 bp):
GGATAATGCCTC
Found at i:4475615 original size:22 final size:22
Alignment explanation
Indices: 4475587--4475630 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
4475577 ATTTTTTGTC
* *
4475587 CTTAATTTTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
4475609 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
4475631 TAAATATACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.34
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:4489475 original size:432 final size:432
Alignment explanation
Indices: 4488667--4489537 Score: 1688
Period size: 432 Copynumber: 2.0 Consensus size: 432
4488657 CAAATTCTCC
*
4488667 TCTACCATTATGAAGAATGTCTAACCACAGGGACTTATGATAATCATTTTACTCCTTCAATCGAA
1 TCTACCATTATGAAGAATGTCTAACCACAAGGACTTATGATAATCATTTTACTCCTTCAATCGAA
4488732 TACAACCATTTGTTTCAAGGAAAGGCCACCTCTATCACTTGTCAAAGACCATTGCCTCATTTCTC
66 TACAACCATTTGTTTCAAGGAAAGGCCACCTCTATCACTTGTCAAAGACCATTGCCTCATTTCTC
4488797 CAATTGAGCTTTCATTTTCCTTCAAACCTTTCCCCAACCGTTTTTTCTGTCTAGAAACTAAAAAC
131 CAATTGAGCTTTCATTTTCCTTCAAACCTTTCCCCAACCGTTTTTTCTGTCTAGAAACTAAAAAC
4488862 TCCAAATTCTCCTACAACACCTTATTCCCCATATCACTCCATAATTCATTCTTATGCTTCCTACT
196 TCCAAATTCTCCTACAACACCTTATTCCCCATATCACTCCATAATTCATTCTTATGCTTCCTACT
*
4488927 TTCCCACTTGCTTCTGGTTACACCCTTATCATCTAAATGGAGAATCCAATATTTCTTTCACAAAT
261 TTCCCACTTGCTTCCGGTTACACCCTTATCATCTAAATGGAGAATCCAATATTTCTTTCACAAAT
*
4488992 ATGAATGTACTTATGTCACGGGTCGAGACTTAAGCTCTGAACCCACGCGGCTCCGGGACCCAGGC
326 ATGAATGTACTTATGTCACGGGTCGAGACTTAAGCTCCGAACCCACGCGGCTCCGGGACCCAGGC
4489057 ATCTACTCATCCTGCGTCCCAGATCAACCTAACCGCCATGGT
391 ATCTACTCATCCTGCGTCCCAGATCAACCTAACCGCCATGGT
4489099 TCTACCATTATGAAGAATGTCTAACCACAAGGACTTATGATAATCATTTTACTCCTTCAATCGAA
1 TCTACCATTATGAAGAATGTCTAACCACAAGGACTTATGATAATCATTTTACTCCTTCAATCGAA
4489164 TACAACCATTTGTTTCAAGGAAAGGCCACCTCTATCACTTGTCAAAGACCATTGCCTCATTTCTC
66 TACAACCATTTGTTTCAAGGAAAGGCCACCTCTATCACTTGTCAAAGACCATTGCCTCATTTCTC
*
4489229 CAATTGAGCTTTCATTTTCCTTCAAACCTTTTCCCAACCGTTTTTTCTGTCTAGAAACTAAAAAC
131 CAATTGAGCTTTCATTTTCCTTCAAACCTTTCCCCAACCGTTTTTTCTGTCTAGAAACTAAAAAC
4489294 TCCAAATTCTCCTACAACACCTTATTCCCCATATCACTCCATAATTCATTCTTATGCTTCCTACT
196 TCCAAATTCTCCTACAACACCTTATTCCCCATATCACTCCATAATTCATTCTTATGCTTCCTACT
4489359 TTCCCACTTGCTTCCGGTTACACCCTTATCATCTAAATGGAGAATCCAATATTTCTTTCACAAAT
261 TTCCCACTTGCTTCCGGTTACACCCTTATCATCTAAATGGAGAATCCAATATTTCTTTCACAAAT
*
4489424 ATGAATGTACTTATGTCACGGGTCGAGACTTAAGCTCCGAACCCGCGCGGCTCCGGGACCCAGGC
326 ATGAATGTACTTATGTCACGGGTCGAGACTTAAGCTCCGAACCCACGCGGCTCCGGGACCCAGGC
4489489 ATCTACTCATCCTGCGTCCCAGATCAACCTAACCGCCATGGT
391 ATCTACTCATCCTGCGTCCCAGATCAACCTAACCGCCATGGT
4489531 TCATACC
1 TC-TACC
4489538 CTTGTGAGGT
Statistics
Matches: 433, Mismatches: 5, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
432 429 0.99
433 4 0.01
ACGTcount: A:0.27, C:0.29, G:0.12, T:0.31
Consensus pattern (432 bp):
TCTACCATTATGAAGAATGTCTAACCACAAGGACTTATGATAATCATTTTACTCCTTCAATCGAA
TACAACCATTTGTTTCAAGGAAAGGCCACCTCTATCACTTGTCAAAGACCATTGCCTCATTTCTC
CAATTGAGCTTTCATTTTCCTTCAAACCTTTCCCCAACCGTTTTTTCTGTCTAGAAACTAAAAAC
TCCAAATTCTCCTACAACACCTTATTCCCCATATCACTCCATAATTCATTCTTATGCTTCCTACT
TTCCCACTTGCTTCCGGTTACACCCTTATCATCTAAATGGAGAATCCAATATTTCTTTCACAAAT
ATGAATGTACTTATGTCACGGGTCGAGACTTAAGCTCCGAACCCACGCGGCTCCGGGACCCAGGC
ATCTACTCATCCTGCGTCCCAGATCAACCTAACCGCCATGGT
Found at i:4493105 original size:21 final size:20
Alignment explanation
Indices: 4493059--4493105 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 20
4493049 CTTCCTCAAC
4493059 CTCTCCTCTTCTTCCCTTTT
1 CTCTCCTCTTCTTCCCTTTT
4493079 CT-TCCTC-TCTTCCGCTTCTT
1 CTCTCCTCTTCTTCC-CTT-TT
*
4493099 GTCTCCT
1 CTCTCCT
4493106 GGCAAGTGCC
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 6 0.26
19 8 0.35
20 5 0.22
21 4 0.17
ACGTcount: A:0.00, C:0.45, G:0.04, T:0.51
Consensus pattern (20 bp):
CTCTCCTCTTCTTCCCTTTT
Found at i:4493298 original size:12 final size:12
Alignment explanation
Indices: 4493268--4493310 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
4493258 CAGCAGCTGC
*
4493268 CTTCTTCTCCTT
1 CTTCTTTTCCTT
4493280 -TTCCTTTTCCTT
1 CTT-CTTTTCCTT
*
4493292 CTTCTTTTTCTT
1 CTTCTTTTCCTT
4493304 CTTCTTT
1 CTTCTTT
4493311 GCTGCGGCAG
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 2 0.07
12 23 0.85
13 2 0.07
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (12 bp):
CTTCTTTTCCTT
Found at i:4494428 original size:309 final size:304
Alignment explanation
Indices: 4493829--4494428 Score: 733
Period size: 309 Copynumber: 2.0 Consensus size: 304
4493819 CACTAGAGGA
* * * *
4493829 ATTACCACTCTTCTTAGAAGACTTTGATGACTTCTTTTTCTTATCCAAGAGAGGAAATGAAGGAA
1 ATTACCACTCTTCTTAGAAGACTTGGATGACTTCTTTTTCTTATCCAAGAAAGAAAACGAAGGAA
* * *
4493894 TATCTTCTTCCTCATCCTCTTTCTCACCCTCTTCGTTATCAAGCTCATCAAGTGCAGCGGCTGCA
66 TATCTTCTTCCTCATCCTCTTTCTCACCCTCTTCGTCATCAAGCTCATCAAGTGCAGCCGCAGCA
*
4493959 AACGAACTTCCACCCTTCTTCCCCCCCTTGGACTTCTTCTTTTTCCCTGTAAAAGCTTTAGCAAG
131 AACGAACTTCCACCCTTCTTCCCCCCCTTGGACTTCTTCTTTTTCCCTCTAAAAGCTTTAGCAAG
** * * *
4494024 CACATCATCATCATCATCCTCAACTTTATTCTCTTCCTTTAAAGAGTCATCAACCACCTCCCCAT
196 CACATCATCATCATCATCCTCAACTTTACGCTCTTCATTTAAAGAATCATCAACCACCACCCCAT
* * ** *
4494089 CATCTTCTTCAGTAGCAATTGCATCAAAAGCAGACCCTCCAAACAT
261 CATCGTCATCA--AGCAAGGGCACCAAAAGCAGACCCTCCAAACAT
*
4494135 ATTACCACTCTTCTTAGAAGACTTGGATGACTTCTTTTTCTTATCCGAGAAAGAAAACGAAGGAA
1 ATTACCACTCTTCTTAGAAGACTTGGATGACTTCTTTTTCTTATCCAAGAAAGAAAACGAAGGAA
* * * *
4494200 TATCTTCTTCCTCAT-CTTTCTTCTCATCCTCTTTC-TCACTCGCATCGTCATCAAGTGCAGCCG
66 TATCTTCTTCCTCATCCTCT-TTCTCACCCTC-TTCGTCA-TC-AAGC-TCATCAAGTGCAGCCG
* * * **
4494263 CAGTAAACCG-ATTTCCACCCTTCTTTCCCCCCTTGGACTTCTTCTTTTTCCCTCTCGAAGCTTT
126 CAGCAAA-CGAACTTCCACCCTTCTTCCCCCCCTTGGACTTCTTCTTTTTCCCTCTAAAAGCTTT
* ** * * ** *
4494327 GGCGGGCACATCATCATCATTCTCCTCCTCAA-TTCTACGCTTTTCATTTAGGGAATCGTCAACC
190 AGCAAGCACATCATCATCA---TCATCCTCAACTT-TACGCTCTTCATTTAAAGAATCATCAACC
4494391 ACCACCCCATCATCGTCATC-AGCAAGGGCACCAAAAGC
251 ACCACCCCATCATCGTCATCAAGCAAGGGCACCAAAAGC
4494429 CGATCGTCCA
Statistics
Matches: 248, Mismatches: 36, Indels: 17
0.82 0.12 0.06
Matches are distributed among these distances:
305 3 0.01
306 87 0.35
307 5 0.02
308 2 0.01
309 100 0.40
310 2 0.01
311 2 0.01
312 47 0.19
ACGTcount: A:0.24, C:0.32, G:0.12, T:0.32
Consensus pattern (304 bp):
ATTACCACTCTTCTTAGAAGACTTGGATGACTTCTTTTTCTTATCCAAGAAAGAAAACGAAGGAA
TATCTTCTTCCTCATCCTCTTTCTCACCCTCTTCGTCATCAAGCTCATCAAGTGCAGCCGCAGCA
AACGAACTTCCACCCTTCTTCCCCCCCTTGGACTTCTTCTTTTTCCCTCTAAAAGCTTTAGCAAG
CACATCATCATCATCATCCTCAACTTTACGCTCTTCATTTAAAGAATCATCAACCACCACCCCAT
CATCGTCATCAAGCAAGGGCACCAAAAGCAGACCCTCCAAACAT
Found at i:4495358 original size:21 final size:21
Alignment explanation
Indices: 4495324--4495387 Score: 60
Period size: 20 Copynumber: 3.0 Consensus size: 21
4495314 TTAATATAAG
*
4495324 AAAATTAGATTAAAATTTTATA
1 AAAATTA-AATAAAATTTTATA
* *
4495346 AAAATTATAT-AAATTTAATA
1 AAAATTAAATAAAATTTTATA
*
4495366 AAAATAAAAATAAAA-TTTATA
1 AAAAT-TAAATAAAATTTTATA
4495387 A
1 A
4495388 TTTTATATTA
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
20 14 0.41
21 10 0.29
22 10 0.29
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (21 bp):
AAAATTAAATAAAATTTTATA
Found at i:4496030 original size:18 final size:17
Alignment explanation
Indices: 4495997--4496044 Score: 51
Period size: 21 Copynumber: 2.6 Consensus size: 17
4495987 TAATACATAT
4495997 TTTATTATTTATTAAAA
1 TTTATTATTTATTAAAA
*
4496014 TTTATATATTATATAAATAAA
1 TTTAT-TATT-TAT-TA-AAA
4496035 TTTATTATTT
1 TTTATTATTT
4496045 CATCTTTTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 5 0.19
18 4 0.15
19 4 0.15
20 5 0.19
21 8 0.31
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTATTATTTATTAAAA
Found at i:4496395 original size:21 final size:20
Alignment explanation
Indices: 4496371--4496409 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
4496361 TAAAATAATT
*
4496371 GATTTAAATTTCAAATCATAA
1 GATTTAAATCTC-AATCATAA
*
4496392 GATTTGAATCTCAATCAT
1 GATTTAAATCTCAATCAT
4496410 TGGATATCAC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.41, C:0.13, G:0.08, T:0.38
Consensus pattern (20 bp):
GATTTAAATCTCAATCATAA
Found at i:4497837 original size:20 final size:20
Alignment explanation
Indices: 4497812--4497850 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
4497802 AGGGGCCAAA
4497812 CAATTCAAGTTCAAAGCTAT
1 CAATTCAAGTTCAAAGCTAT
*
4497832 CAATTCAAGTTTAAAGCTA
1 CAATTCAAGTTCAAAGCTA
4497851 GTGTTGCTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.31
Consensus pattern (20 bp):
CAATTCAAGTTCAAAGCTAT
Found at i:4504848 original size:24 final size:24
Alignment explanation
Indices: 4504802--4504848 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
4504792 CACTCAAATT
*
4504802 AATGAAAAAAAATTATATTTTAAA
1 AATGAAAAAAAATTATATATTAAA
*
4504826 AATGAAATAAAATT-TATGATTAA
1 AATGAAAAAAAATTATAT-ATTAA
4504849 GGAAGTTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (24 bp):
AATGAAAAAAAATTATATATTAAA
Found at i:4509738 original size:21 final size:22
Alignment explanation
Indices: 4509704--4509752 Score: 73
Period size: 21 Copynumber: 2.3 Consensus size: 22
4509694 TTATCCATAC
4509704 TTTATTACTAAGTTAAAATTAA
1 TTTATTACTAAGTTAAAATTAA
**
4509726 TTTATTA-TAAGTTATCATTAA
1 TTTATTACTAAGTTAAAATTAA
4509747 TTTATT
1 TTTATT
4509753 GTTATCACTG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 18 0.72
22 7 0.28
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.53
Consensus pattern (22 bp):
TTTATTACTAAGTTAAAATTAA
Found at i:4509834 original size:22 final size:22
Alignment explanation
Indices: 4509785--4509834 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
4509775 ATTAGAACTG
* *
4509785 ATTTATCATTAAGTTATCAATA
1 ATTTATCACTAAGTTAACAATA
* * *
4509807 AATTATGACTAAGTTAACACTA
1 ATTTATCACTAAGTTAACAATA
4509829 ATTTAT
1 ATTTAT
4509835 TATTATAACT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.42, C:0.10, G:0.06, T:0.42
Consensus pattern (22 bp):
ATTTATCACTAAGTTAACAATA
Found at i:4509983 original size:22 final size:22
Alignment explanation
Indices: 4509943--4509984 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
4509933 TGACAACTAA
*
4509943 GTTATCATTGACTTATTATTTT
1 GTTATCAGTGACTTATTATTTT
* *
4509965 GTTATCAGTGATTTGTTATT
1 GTTATCAGTGACTTATTATT
4509985 AAATTATCAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.21, C:0.07, G:0.14, T:0.57
Consensus pattern (22 bp):
GTTATCAGTGACTTATTATTTT
Found at i:4510006 original size:22 final size:22
Alignment explanation
Indices: 4509966--4510114 Score: 106
Period size: 22 Copynumber: 6.8 Consensus size: 22
4509956 TATTATTTTG
* **
4509966 TTATCAGTGATTTGTTATTAAA
1 TTATCAATGATTTACTATTAAA
*
4509988 TTATCAATGATTTACTATTAAG
1 TTATCAATGATTTACTATTAAA
* *
4510010 TTATGAATGATTTACTACTAAA
1 TTATCAATGATTTACTATTAAA
** * *
4510032 TTATTGATAATTTATTA-TAAA
1 TTATCAATGATTTACTATTAAA
* **
4510053 GTTAT-AACTAATTTTTTA-TAAA
1 -TTATCAA-TGATTTACTATTAAA
*
4510075 GTTATCAATGATTTACTATAAAA
1 -TTATCAATGATTTACTATTAAA
* *
4510098 TTATCAACGATTAACTA
1 TTATCAATGATTTACTA
4510115 ATTTACTACT
Statistics
Matches: 104, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
21 5 0.05
22 94 0.90
23 5 0.05
ACGTcount: A:0.40, C:0.07, G:0.08, T:0.45
Consensus pattern (22 bp):
TTATCAATGATTTACTATTAAA
Found at i:4510013 original size:44 final size:43
Alignment explanation
Indices: 4509965--4510109 Score: 130
Period size: 44 Copynumber: 3.3 Consensus size: 43
4509955 TTATTATTTT
* * *
4509965 GTTATCAGTGATTTGTTATTAAATTATCAATGATTTACTATTAA
1 GTTATCAATGATTTATTA-TAAATTATCAATGATTTACTATAAA
* * ** * *
4510009 GTTATGAATGATTTACTACTAAATTATTGATAATTTATTATAAA
1 GTTATCAATGATTTATTA-TAAATTATCAATGATTTACTATAAA
* *
4510053 GTTAT-AACTAATTTTTTATAAAGTTATCAATGATTTACTATAAA
1 GTTATCAA-TGATTTATTATAAA-TTATCAATGATTTACTATAAA
* *
4510097 ATTATCAACGATT
1 GTTATCAATGATT
4510110 AACTAATTTA
Statistics
Matches: 78, Mismatches: 20, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
43 6 0.08
44 70 0.90
45 2 0.03
ACGTcount: A:0.39, C:0.07, G:0.09, T:0.46
Consensus pattern (43 bp):
GTTATCAATGATTTATTATAAATTATCAATGATTTACTATAAA
Found at i:4510592 original size:22 final size:22
Alignment explanation
Indices: 4510575--4510711 Score: 107
Period size: 22 Copynumber: 6.2 Consensus size: 22
4510565 TTTATCATTG
* *
4510575 ATTTACTATTAAATTAT-CATCA
1 ATTTACTATTAAGTTATAAAT-A
4510597 ATTTA-TCATTAAGTTATAAATA
1 ATTTACT-ATTAAGTTATAAATA
* *
4510619 ATTTACTACTAAGTTATAAATG
1 ATTTACTATTAAGTTATAAATA
* * * **
4510641 ATTTATTACTAAATTATTGATA
1 ATTTACTATTAAGTTATAAATA
* *
4510663 ATTTACTATTAAGTTATAGATG
1 ATTTACTATTAAGTTATAAATA
* * * *
4510685 ATTTATTATAAAGTTATTACTA
1 ATTTACTATTAAGTTATAAATA
4510707 ATTTA
1 ATTTA
4510712 GTAGAAATTT
Statistics
Matches: 92, Mismatches: 20, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
21 1 0.01
22 88 0.96
23 3 0.03
ACGTcount: A:0.41, C:0.07, G:0.06, T:0.47
Consensus pattern (22 bp):
ATTTACTATTAAGTTATAAATA
Found at i:4510691 original size:44 final size:43
Alignment explanation
Indices: 4510597--4510711 Score: 142
Period size: 44 Copynumber: 2.6 Consensus size: 43
4510587 ATTATCATCA
* * *
4510597 ATTTATCATTAAGTTATAAATAATTTACTACTAAGTTATAAATG
1 ATTTATTATAAAGTTAT-TATAATTTACTACTAAGTTATAAATG
* *
4510641 ATTTATTACTAAA-TTATTGATAATTTACTATTAAGTTATAGATG
1 ATTTATTA-TAAAGTTATT-ATAATTTACTACTAAGTTATAAATG
4510685 ATTTATTATAAAGTTATTACTAATTTA
1 ATTTATTATAAAGTTATTA-TAATTTA
4510712 GTAGAAATTT
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
43 5 0.08
44 54 0.87
45 3 0.05
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.47
Consensus pattern (43 bp):
ATTTATTATAAAGTTATTATAATTTACTACTAAGTTATAAATG
Found at i:4510699 original size:66 final size:65
Alignment explanation
Indices: 4510573--4510897 Score: 169
Period size: 66 Copynumber: 4.8 Consensus size: 65
4510563 TATTTATCAT
*
4510573 TGATTTACTATTAAATTA-TCATCAATTTA-TCATTAAGTTATAAATAATTTACTACTAAGTTAT
1 TGATTTACTA-TAAATTATTGAT-AATTTACT-ATTAAGTTATAAATAATTTACTACTAAGTTAT
4510636 AAA
63 AAA
* * * * *
4510639 TGATTTATTACTAAATTATTGATAATTTACTATTAAGTTATAGATGATTTATTA-TAAAGTTATT
1 TGATTTACTA-TAAATTATTGATAATTTACTATTAAGTTATAAATAATTTACTACT-AAGTTATA
*
4510703 AC
64 AA
* * * * * * *
4510705 TAATTTAGTAGAAATTTATTGATGATTTACTATGAAGTTGTTAAGAATTAACTAATTTACAACTA
1 TGATTTACTATAAA-TTATTGATAATTTACTATTAA---GTT----A-TAAATAATTTACTACTA
* * *
4510770 AATTATCAT
57 AGTTATAAA
* * * * *
4510779 TAATTTA-TAACTAAATTA-TCATTGATTTA-TAGTTAAGTTATCAATGATTTACTA-TAATGTT
1 TGATTTACT-A-TAAATTATTGA-TAATTTACTA-TTAAGTTATAAATAATTTACTACTAA-GTT
*
4510840 ATTAA
61 ATAAA
** * * *
4510845 TGATTTACTACTAAATTATCAATAATTTACTATTAAATTATTAATGATTTACT
1 TGATTTACTA-TAAATTATTGATAATTTACTATTAAGTTATAAATAATTTACT
4510898 TTATACTATT
Statistics
Matches: 201, Mismatches: 37, Indels: 42
0.72 0.13 0.15
Matches are distributed among these distances:
65 7 0.03
66 132 0.66
67 9 0.04
69 3 0.01
71 3 0.01
73 6 0.03
74 37 0.18
75 4 0.02
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.46
Consensus pattern (65 bp):
TGATTTACTATAAATTATTGATAATTTACTATTAAGTTATAAATAATTTACTACTAAGTTATAAA
Found at i:4510729 original size:44 final size:44
Alignment explanation
Indices: 4510597--4510743 Score: 136
Period size: 44 Copynumber: 3.3 Consensus size: 44
4510587 ATTATCATCA
* * ** ** *
4510597 ATTTATCATTAAGTTATAAATAATTTACTACTAAGTTATAAATG
1 ATTTATTATAAAGTTATTGATAATTTACTAGAAAGTTATAGATG
**
4510641 ATTTATTACTAAA-TTATTGATAATTTACTATTAAGTTATAGATG
1 ATTTATTA-TAAAGTTATTGATAATTTACTAGAAAGTTATAGATG
* * *
4510685 ATTTATTATAAAGTTATT-ACTAATTTAGTAGAAATTTATTGATG
1 ATTTATTATAAAGTTATTGA-TAATTTACTAGAAAGTTATAGATG
* *
4510729 ATTTACTATGAAGTT
1 ATTTATTATAAAGTT
4510744 GTTAAGAATT
Statistics
Matches: 87, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
43 5 0.06
44 79 0.91
45 3 0.03
ACGTcount: A:0.39, C:0.05, G:0.10, T:0.46
Consensus pattern (44 bp):
ATTTATTATAAAGTTATTGATAATTTACTAGAAAGTTATAGATG
Found at i:4510732 original size:22 final size:22
Alignment explanation
Indices: 4510654--4510733 Score: 63
Period size: 22 Copynumber: 3.6 Consensus size: 22
4510644 TATTACTAAA
* * **
4510654 TTATTGATAATTTACTATTAAG
1 TTATTGATGATTTAGTAGAAAG
* * *
4510676 TTATAGATGATTTATTATAAAG
1 TTATTGATGATTTAGTAGAAAG
* *
4510698 TTATT-ACTAATTTAGTAGAAAT
1 TTATTGA-TGATTTAGTAGAAAG
4510720 TTATTGATGATTTA
1 TTATTGATGATTTA
4510734 CTATGAAGTT
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
21 1 0.02
22 44 0.96
23 1 0.02
ACGTcount: A:0.38, C:0.03, G:0.11, T:0.49
Consensus pattern (22 bp):
TTATTGATGATTTAGTAGAAAG
Found at i:4510783 original size:22 final size:22
Alignment explanation
Indices: 4510757--4510896 Score: 102
Period size: 22 Copynumber: 6.4 Consensus size: 22
4510747 AAGAATTAAC
*
4510757 TAATTTACAACTAAATTATCAT
1 TAATTTACAACTAAATTATCAA
* *
4510779 TAATTTATAACTAAATTATCAT
1 TAATTTACAACTAAATTATCAA
* * ** *
4510801 TGATTTATAGTTAAGTTATCAA
1 TAATTTACAACTAAATTATCAA
* * * *
4510823 TGATTTACTA-TAATGTTATTAA
1 TAATTTACAACTAA-ATTATCAA
* *
4510845 TGATTTACTACTAAATTATCAA
1 TAATTTACAACTAAATTATCAA
* * *
4510867 TAATTTACTATTAAATTATTAA
1 TAATTTACAACTAAATTATCAA
*
4510889 TGATTTAC
1 TAATTTAC
4510897 TTTATACTAT
Statistics
Matches: 100, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
21 3 0.03
22 94 0.94
23 3 0.03
ACGTcount: A:0.41, C:0.09, G:0.05, T:0.46
Consensus pattern (22 bp):
TAATTTACAACTAAATTATCAA
Found at i:4510873 original size:140 final size:140
Alignment explanation
Indices: 4510617--4510877 Score: 305
Period size: 140 Copynumber: 1.9 Consensus size: 140
4510607 AAGTTATAAA
* * * * *
4510617 TAATTTACTACTAAGTTATAAATGATTTATTACTAAATTATTGATAATTTACTATTAAGTTATAG
1 TAATTTACAACTAAATTATAAATAATTTATAACTAAATTATTCATAATTTACTATTAAGTTATAG
* * * ** *
4510682 ATGATTTATTATAAAGTTATTACTAATTTAGTAGAAATTTATTGATGATTTACTATGAAGTTGTT
66 ATGATTTACTATAAAGTTATTAATAATTTACTAGAAATTTATCAATAATTTACTATGAAGTTGTT
4510747 AAGAATTAAC
131 AAGAATTAAC
* * *
4510757 TAATTTACAACTAAATTATCATTAATTTATAACTAAATTA-TCATTGATTTA-TAGTTAAGTTAT
1 TAATTTACAACTAAATTATAAATAATTTATAACTAAATTATTCA-TAATTTACTA-TTAAGTTAT
* * *
4510820 CA-ATGATTTACTATAATGTTATTAATGATTTACTACTAAA-TTATCAATAATTTACTAT
64 -AGATGATTTACTATAAAGTTATTAATAATTTACTA-GAAATTTATCAATAATTTACTAT
4510878 TAAATTATTA
Statistics
Matches: 100, Mismatches: 17, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
139 4 0.04
140 92 0.92
141 4 0.04
ACGTcount: A:0.40, C:0.07, G:0.08, T:0.45
Consensus pattern (140 bp):
TAATTTACAACTAAATTATAAATAATTTATAACTAAATTATTCATAATTTACTATTAAGTTATAG
ATGATTTACTATAAAGTTATTAATAATTTACTAGAAATTTATCAATAATTTACTATGAAGTTGTT
AAGAATTAAC
Found at i:4510897 original size:22 final size:22
Alignment explanation
Indices: 4510801--4511304 Score: 196
Period size: 22 Copynumber: 22.9 Consensus size: 22
4510791 AAATTATCAT
*
4510801 TGATTTA-TAGTTAAGTTATCAA
1 TGATTTACTA-TTAAGTTATTAA
4510823 TGATTTACTA-TAATGTTATTAA
1 TGATTTACTATTAA-GTTATTAA
* * *
4510845 TGATTTACTACTAAATTATCAA
1 TGATTTACTATTAAGTTATTAA
* *
4510867 TAATTTACTATTAAATTATTAA
1 TGATTTACTATTAAGTTATTAA
*
4510889 TGATTTACT-TTATA-CTATT-A
1 TGATTTACTATTA-AGTTATTAA
* * * *
4510909 TGCATTTGCTACTATA-TTATCAT
1 TG-ATTTACTATTA-AGTTATTAA
* *
4510932 TGATTTACTATTGAGTT-TTAG
1 TGATTTACTATTAAGTTATTAA
* * * * *
4510953 TGATTAACTACTAAATTATCAT
1 TGATTTACTATTAAGTTATTAA
* ** *
4510975 TGATTTATTGCTAAGTTATTTA
1 TGATTTACTATTAAGTTATTAA
*
4510997 TGATTTACTGTTAAGTT-TATAA
1 TGATTTACTATTAAGTTAT-TAA
* * * * *
4511019 TTTAATTACTATGAAATTA-AAA
1 -TGATTTACTATTAAGTTATTAA
**
4511041 TAGATTTACTATTAAGTT-TTTT
1 T-GATTTACTATTAAGTTATTAA
* * *
4511063 TGTAATTTACTACTAAATT-TTCAT
1 TG--ATTTACTATTAAGTTATT-AA
* *
4511087 TGATTTACTATTAAATTATCAA
1 TGATTTACTATTAAGTTATTAA
* * * *
4511109 TGATTAACTTTTAAGTTATCAT
1 TGATTTACTATTAAGTTATTAA
* ** * *
4511131 TTATTTTTTTTATTAAGTTATCAT
1 TGA--TTTACTATTAAGTTATTAA
* * *
4511155 TGATTTACTACTATGCTATT-A
1 TGATTTACTATTAAGTTATTAA
* *
4511176 TGTATTTACAATTATGTTA-TAA
1 TG-ATTTACTATTAAGTTATTAA
*
4511198 TTGATTTACTA-TAGGTTATT-A
1 -TGATTTACTATTAAGTTATTAA
* * *
4511219 TGCATTTATTGTTATA-TTATTAT
1 TG-ATTTACTATTA-AGTTATTAA
*
4511242 TGATTTACTACTAAGTTATCT-A
1 TGATTTACTATTAAGTTAT-TAA
* * * *
4511264 TTATTTATTATTAAATTATTAT
1 TGATTTACTATTAAGTTATTAA
*
4511286 TGATATACTATTAAGTTAT
1 TGATTTACTATTAAGTTAT
4511305 CACTAATTTA
Statistics
Matches: 359, Mismatches: 92, Indels: 62
0.70 0.18 0.12
Matches are distributed among these distances:
20 5 0.01
21 53 0.15
22 241 0.67
23 40 0.11
24 20 0.06
ACGTcount: A:0.34, C:0.08, G:0.08, T:0.51
Consensus pattern (22 bp):
TGATTTACTATTAAGTTATTAA
Found at i:4511073 original size:45 final size:45
Alignment explanation
Indices: 4510998--4511100 Score: 104
Period size: 45 Copynumber: 2.3 Consensus size: 45
4510988 AGTTATTTAT
*
4510998 GATTTACTGTTAAGTTTATAATTTAATTACTA-TGAAATTAAAATA
1 GATTTACTATTAAGTTTATAATTTAATTACTACT-AAATTAAAATA
* *** *
4511043 GATTTACTATTAAGTTT-T-TTTGTAATTTACTACTAAATTTTCATT
1 GATTTACTATTAAGTTTATAATT-TAA-TTACTACTAAATTAAAATA
4511088 GATTTACTATTAA
1 GATTTACTATTAA
4511101 ATTATCAATG
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
43 2 0.04
44 4 0.08
45 42 0.86
46 1 0.02
ACGTcount: A:0.36, C:0.07, G:0.08, T:0.50
Consensus pattern (45 bp):
GATTTACTATTAAGTTTATAATTTAATTACTACTAAATTAAAATA
Found at i:4511112 original size:112 final size:106
Alignment explanation
Indices: 4510824--4511133 Score: 284
Period size: 112 Copynumber: 2.8 Consensus size: 106
4510814 AGTTATCAAT
* * * *
4510824 GATTTACTA-TAATGTTATTAATGATTTACTACTAAATTATCAATAATTTACTATTAAATTATTA
1 GATTTACTATTAA-GTT-TTAGTAATTTACTACTAAATTATCATTGATTTACTATTAAATTATTA
* * ** *
4510888 ATGATTTACTTTATACTATTATGCATTT-GCTACTATATTATCATT
64 ATGATTTACTTTA-AGT-TTAT-CATTTAACTACTATATTAAAATA
* * * * ** * *
4510933 GATTTACTATTGAGTTTTAGTGATTAACTACTAAATTATCATTGATTTATTGCTAAGTTATTTAT
1 GATTTACTATTAAGTTTTAGTAATTTACTACTAAATTATCATTGATTTACTATTAAATTATTAAT
* *
4510998 GATTTACTGTTAAGTTTATAATTTAATTACTATGAAATTAAAATA
66 GATTTACT-TTAAGTTTATCATTTAACTACTAT---ATTAAAATA
* * *
4511043 GATTTACTATTAAGTTTTTTTGTAATTTACTACTAAATTTTCATTGATTTACTATTAAATTATCA
1 GATTTACTATTAAG--TTTTAGTAATTTACTACTAAATTATCATTGATTTACTATTAAATTATTA
*
4511108 ATGATTAACTTTTAAG-TTATCATTTA
64 ATGATTTAC-TTTAAGTTTATCATTTA
4511134 TTTTTTTTAT
Statistics
Matches: 162, Mismatches: 30, Indels: 16
0.78 0.14 0.08
Matches are distributed among these distances:
106 4 0.02
107 10 0.06
108 50 0.31
109 15 0.09
110 21 0.13
111 9 0.06
112 52 0.32
113 1 0.01
ACGTcount: A:0.35, C:0.08, G:0.08, T:0.49
Consensus pattern (106 bp):
GATTTACTATTAAGTTTTAGTAATTTACTACTAAATTATCATTGATTTACTATTAAATTATTAAT
GATTTACTTTAAGTTTATCATTTAACTACTATATTAAAATA
Found at i:4511305 original size:44 final size:44
Alignment explanation
Indices: 4510759--4511329 Score: 186
Period size: 44 Copynumber: 12.9 Consensus size: 44
4510749 GAATTAACTA
* * * *
4510759 ATTTACAACTAAATTATC-ATTAATTTATAACTAAATTATCATTG
1 ATTTACTACTAAGTTATCTATT-ATTTATTATTAAATTATCATTG
* * * * * * *
4510803 ATTTA-TAGTTAAGTTATCAATGATTTACTA-TAATGTTATTAATG
1 ATTTACTA-CTAAGTTATCTATTATTTATTATTAA-ATTATCATTG
* * * * * *
4510847 ATTTACTACTAAATTATCAATAATTTACTATTAAATTATTAATG
1 ATTTACTACTAAGTTATCTATTATTTATTATTAAATTATCATTG
* * * ** * *
4510891 ATTTACT-TTATA-CTAT-TATGCATTTGCTACTATATTATCATTG
1 ATTTACTACTA-AGTTATCTAT-TATTTATTATTAAATTATCATTG
* * * * * *
4510934 ATTTACTATTGAGTT-T-TAGTGATTAACTACTAAATTATCATTG
1 ATTTACTACTAAGTTATCTA-TTATTTATTATTAAATTATCATTG
* * * * * * * * *
4510977 ATTTATTGCTAAGTTATTTATGATTTACTGTTAAGTTTATAATTT
1 ATTTACTACTAAGTTATCTATTATTTATTATTAA-ATTATCATTG
* * ** * * * **
4511022 AATTACTA-TGAAATTA-AAATAGATTTACTATTAAGTT-TTTTTG
1 ATTTACTACT-AAGTTATCTAT-TATTTATTATTAAATTATCATTG
* * * *
4511065 TAATTTACTACTAAATTTTC-ATTGATTTACTATTAAATTATCAATG
1 --ATTTACTACTAAGTTATCTATT-ATTTATTATTAAATTATCATTG
* ** * *
4511111 ATTAACTTTTAAGTTATC-ATTTATTTTTTTTATTAAGTTATCATTG
1 ATTTACTACTAAGTTATCTA-TTA--TTTATTATTAAATTATCATTG
* * ** ** *
4511157 ATTTACTACTATGCTAT-TATGTATTTACAATTATGTTATAATTG
1 ATTTACTACTAAGTTATCTAT-TATTTATTATTAAATTATCATTG
* * * * *
4511201 ATTTACTA-TAGGTTAT-TATGCATTTATTGTTATATTATTATTG
1 ATTTACTACTAAGTTATCTAT-TATTTATTATTAAATTATCATTG
*
4511244 ATTTACTACTAAGTTATCTATTATTTATTATTAAATTATTATTG
1 ATTTACTACTAAGTTATCTATTATTTATTATTAAATTATCATTG
* * *
4511288 ATATACTATTAAGTTATC-ACTAATTTATTATACTAAATTATC
1 ATTTACTACTAAGTTATCTA-TTATTTATTAT--TAAATTATC
4511330 GCTGATTAAC
Statistics
Matches: 404, Mismatches: 92, Indels: 60
0.73 0.17 0.11
Matches are distributed among these distances:
42 2 0.00
43 106 0.26
44 180 0.45
45 72 0.18
46 44 0.11
ACGTcount: A:0.35, C:0.08, G:0.07, T:0.50
Consensus pattern (44 bp):
ATTTACTACTAAGTTATCTATTATTTATTATTAAATTATCATTG
Found at i:4513060 original size:22 final size:22
Alignment explanation
Indices: 4513035--4513147 Score: 70
Period size: 22 Copynumber: 5.2 Consensus size: 22
4513025 AGTTATCACC
4513035 GATTTATTATTAAATTATTAAT
1 GATTTATTATTAAATTATTAAT
* * *
4513057 GATTTATTACTAAGTTATTGAT
1 GATTTATTATTAAATTATTAAT
*
4513079 AATTTA-TA-TAAAGTTA-TAACT
1 GATTTATTATTAAA-TTATTAA-T
* * * * *
4513100 AATTTTTTATGAAGTTATCAAT
1 GATTTATTATTAAATTATTAAT
* * * *
4513122 GAGTTACTATAAAATTATCAAT
1 GATTTATTATTAAATTATTAAT
4513144 GATT
1 GATT
4513148 AACTAATTTA
Statistics
Matches: 69, Mismatches: 17, Indels: 10
0.72 0.18 0.10
Matches are distributed among these distances:
20 5 0.07
21 11 0.16
22 49 0.71
23 4 0.06
ACGTcount: A:0.40, C:0.04, G:0.09, T:0.47
Consensus pattern (22 bp):
GATTTATTATTAAATTATTAAT
Found at i:4513334 original size:22 final size:22
Alignment explanation
Indices: 4513308--4513386 Score: 77
Period size: 22 Copynumber: 3.5 Consensus size: 22
4513298 AATTAGCTAT
4513308 TAAGTTATCAATTATTTACTAC
1 TAAGTTATCAATTATTTACTAC
* *
4513330 TAAGTTATCAATTAAATTATTAC
1 TAAGTTATCAATT-ATTTACTAC
* ** * *
4513353 CAAGTTATTTATGATTTACTAT
1 TAAGTTATCAATTATTTACTAC
*
4513375 TAATTTATCAAT
1 TAAGTTATCAAT
4513387 AAATTACAAT
Statistics
Matches: 43, Mismatches: 13, Indels: 2
0.74 0.22 0.03
Matches are distributed among these distances:
22 27 0.63
23 16 0.37
ACGTcount: A:0.38, C:0.10, G:0.05, T:0.47
Consensus pattern (22 bp):
TAAGTTATCAATTATTTACTAC
Found at i:4513393 original size:22 final size:22
Alignment explanation
Indices: 4513298--4513393 Score: 75
Period size: 22 Copynumber: 4.3 Consensus size: 22
4513288 AACTTTTAAT
* *
4513298 AATTAGCTATTAAGTTATCAATT
1 AATTA-CTACTAAGTTATCAATA
*
4513321 ATTTACTACTAAGTTATCAATTA
1 AATTACTACTAAGTTATCAA-TA
* * ** *
4513344 AATTATTACCAAGTTATTTATG
1 AATTACTACTAAGTTATCAATA
* * *
4513366 ATTTACTATTAATTTATCAATA
1 AATTACTACTAAGTTATCAATA
4513388 AATTAC
1 AATTAC
4513394 AATATATGAT
Statistics
Matches: 54, Mismatches: 18, Indels: 3
0.72 0.24 0.04
Matches are distributed among these distances:
22 34 0.63
23 20 0.37
ACGTcount: A:0.40, C:0.10, G:0.05, T:0.45
Consensus pattern (22 bp):
AATTACTACTAAGTTATCAATA
Found at i:4513636 original size:22 final size:22
Alignment explanation
Indices: 4513611--4513711 Score: 80
Period size: 22 Copynumber: 4.6 Consensus size: 22
4513601 ATCGATTACA
** *
4513611 TATTACTATCTTATCATTGATT
1 TATTACTAAATTATCATTAATT
*
4513633 TATTATTAAATTATCATTAATT
1 TATTACTAAATTATCATTAATT
* * **
4513655 TATCACTAAGTTAT-AAAAGATT
1 TATTACTAAATTATCATTA-ATT
* **
4513677 TATTACTAAGTTAT-AAAAATT
1 TATTACTAAATTATCATTAATT
4513698 TATTACTAAATTAT
1 TATTACTAAATTAT
4513712 TGATAATTTA
Statistics
Matches: 67, Mismatches: 11, Indels: 3
0.83 0.14 0.04
Matches are distributed among these distances:
21 18 0.27
22 49 0.73
ACGTcount: A:0.41, C:0.08, G:0.04, T:0.48
Consensus pattern (22 bp):
TATTACTAAATTATCATTAATT
Found at i:4513724 original size:19 final size:21
Alignment explanation
Indices: 4513661--4513797 Score: 73
Period size: 22 Copynumber: 6.3 Consensus size: 21
4513651 AATTTATCAC
* *
4513661 TAAGTTATA-AAAGATTTATTA
1 TAAGTTATAGATA-ATTTACTA
* *
4513682 CTAAGTTATA-AAAATTTATTA
1 -TAAGTTATAGATAATTTACTA
* *
4513703 CTAAATTATTGATAATTTACTA
1 -TAAGTTATAGATAATTTACTA
*
4513725 TTAAGTTATAGATAATTTAGTA
1 -TAAGTTATAGATAATTTACTA
* *
4513747 TAAAGTTATTA-CTAATTTAGTA
1 T-AAGTTA-TAGATAATTTACTA
* * *
4513769 TAAATTTATTGATGATTTACTA
1 T-AAGTTATAGATAATTTACTA
4513791 TGAAGTT
1 T-AAGTT
4513798 TTTAATAATT
Statistics
Matches: 95, Mismatches: 16, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
21 18 0.19
22 75 0.79
23 2 0.02
ACGTcount: A:0.42, C:0.04, G:0.09, T:0.45
Consensus pattern (21 bp):
TAAGTTATAGATAATTTACTA
Found at i:4513733 original size:22 final size:22
Alignment explanation
Indices: 4513694--4513812 Score: 107
Period size: 22 Copynumber: 5.4 Consensus size: 22
4513684 AAGTTATAAA
*
4513694 AATTTATTACTAAA-TTATTGAT
1 AATTTACTA-TAAAGTTATTGAT
* *
4513716 AATTTACTATTAAGTTATAGAT
1 AATTTACTATAAAGTTATTGAT
*
4513738 AATTTAGTATAAAGTTATT-ACT
1 AATTTACTATAAAGTTATTGA-T
* *
4513760 AATTTAGTATAAATTTATTGAT
1 AATTTACTATAAAGTTATTGAT
* * * *
4513782 GATTTACTATGAAGTTTTTAAT
1 AATTTACTATAAAGTTATTGAT
*
4513804 AATTAACTA
1 AATTTACTA
4513813 ATTTAAAACT
Statistics
Matches: 79, Mismatches: 15, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
21 4 0.05
22 74 0.94
23 1 0.01
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.47
Consensus pattern (22 bp):
AATTTACTATAAAGTTATTGAT
Found at i:4513763 original size:44 final size:43
Alignment explanation
Indices: 4513674--4513812 Score: 111
Period size: 44 Copynumber: 3.2 Consensus size: 43
4513664 GTTATAAAAG
* * * *
4513674 ATTTATTACTAAGTTATA-AAAATTTATTACTAAA-TTATTGATA
1 ATTTACTATTAAGTTATAGATAATTTACTA-TAAAGTTATT-ATA
*
4513717 ATTTACTATTAAGTTATAGATAATTTAGTATAAAGTTATTACTA
1 ATTTACTATTAAGTTATAGATAATTTACTATAAAGTTATTA-TA
* * * * * * *
4513761 ATTTAGTATAAATTTATTGATGATTTACTATGAAGTTTTTAATA
1 ATTTACTATTAAGTTATAGATAATTTACTATAAAGTTATT-ATA
*
4513805 ATTAACTA
1 ATTTACTA
4513813 ATTTAAAACT
Statistics
Matches: 78, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
43 21 0.27
44 56 0.72
45 1 0.01
ACGTcount: A:0.41, C:0.04, G:0.08, T:0.47
Consensus pattern (43 bp):
ATTTACTATTAAGTTATAGATAATTTACTATAAAGTTATTATA
Found at i:4513837 original size:22 final size:22
Alignment explanation
Indices: 4513811--4513875 Score: 85
Period size: 22 Copynumber: 3.0 Consensus size: 22
4513801 AATAATTAAC
4513811 TAATTTAAAACTAAATTATCAT
1 TAATTTAAAACTAAATTATCAT
*
4513833 TAATTTATAACTAAATTATCAT
1 TAATTTAAAACTAAATTATCAT
* * * *
4513855 TGATTTACAGCTAAGTTATCA
1 TAATTTAAAACTAAATTATCA
4513876 ATGATTTACT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.43, C:0.11, G:0.05, T:0.42
Consensus pattern (22 bp):
TAATTTAAAACTAAATTATCAT
Found at i:4513880 original size:22 final size:22
Alignment explanation
Indices: 4513821--4513884 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
4513811 TAATTTAAAA
* * * *
4513821 CTAAATTATCATTAATTTATAA
1 CTAAATTATCAATGATTTACAG
*
4513843 CTAAATTATCATTGATTTACAG
1 CTAAATTATCAATGATTTACAG
*
4513865 CTAAGTTATCAATGATTTAC
1 CTAAATTATCAATGATTTAC
4513885 TATGACGTTA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.42
Consensus pattern (22 bp):
CTAAATTATCAATGATTTACAG
Found at i:4513928 original size:22 final size:22
Alignment explanation
Indices: 4513902--4514476 Score: 95
Period size: 22 Copynumber: 26.3 Consensus size: 22
4513892 TTATATTACT
*
4513902 AATTATTAATAATTTACTATTA
1 AATTATCAATAATTTACTATTA
4513924 AATTATCAATAATTTACTATATA
1 AATTATCAATAATTTACTAT-TA
* * *
4513947 ATATT-T---TGCATTTGCTACTA
1 A-ATTATCAAT-AATTTACTATTA
* * * * *
4513967 TATTATCATTGATTCACTATTG
1 AATTATCAATAATTTACTATTA
* * * * *
4513989 AATT-TTAGTGATTAACTACTA
1 AATTATCAATAATTTACTATTA
* * * **
4514010 AATTATCATTGATTTATTGCTA
1 AATTATCAATAATTTACTATTA
* ** * *
4514032 AGTTATTTATGATTTACTGTTA
1 AATTATCAATAATTTACTATTA
*
4514054 AGTTTAT-AATTTAA-TTACTATTA
1 A-ATTATCAA--TAATTTACTATTA
* * *
4514077 AAATA-AAATAGATTTATTATTA
1 AATTATCAATA-ATTTACTATTA
* *** *
4514099 AGTTATCTGCAATTTACTACTA
1 AATTATCAATAATTTACTATTA
* * *
4514121 AATTTTCATTGATTTACTATTA
1 AATTATCAATAATTTACTATTA
* *
4514143 AATTATCAATGATTAACTATTA
1 AATTATCAATAATTTACTATTA
* * **
4514165 AATTAT-TATTATTTTTTATTA
1 AATTATCAATAATTTACTATTA
** *
4514186 GGTTAT-AATTAATTTACTACTA
1 AATTATCAA-TAATTTACTATTA
*** * * *
4514208 TGCTAT-TATGCATTTACAATTA
1 AATTATCAAT-AATTTACTATTA
** * *
4514230 TGTTAT-ATTTGATTTACTATTA
1 AATTATCA-ATAATTTACTATTA
* * * *
4514252 AGTTCT-TATGCATTTACTATTA
1 AATTATCAAT-AATTTACTATTA
* * * * * *
4514274 TATTATTATTGATTTATTACTA
1 AATTATCAATAATTTACTATTA
* * *
4514296 AGTTATCAATTATTTATTATTA
1 AATTATCAATAATTTACTATTA
* * * * *
4514318 AATTATTATTGATATGCTATTA
1 AATTATCAATAATTTACTATTA
* *
4514340 AGTTATCACTAATTTACTATACTA
1 AATTATCAATAATTTACTAT--TA
* * *
4514364 AATTATCATTGATTAACTATTA
1 AATTATCAATAATTTACTATTA
* * *
4514386 ATTTATCGATGA-TTACTATTA
1 AATTATCAATAATTTACTATTA
* * * *
4514407 AGTTAT-ATTGATTTACT-TTT
1 AATTATCAATAATTTACTATTA
* *
4514427 AATTTTCAATTAA-TTACTACTA
1 AATTATCAA-TAATTTACTATTA
* *
4514449 AATTATCATTAATTTATTATTA
1 AATTATCAATAATTTACTATTA
*
4514471 AGTTAT
1 AATTAT
4514477 TTATGATTTA
Statistics
Matches: 396, Mismatches: 130, Indels: 54
0.68 0.22 0.09
Matches are distributed among these distances:
19 3 0.01
20 15 0.04
21 68 0.17
22 266 0.67
23 21 0.05
24 23 0.06
ACGTcount: A:0.36, C:0.08, G:0.06, T:0.50
Consensus pattern (22 bp):
AATTATCAATAATTTACTATTA
Found at i:4514298 original size:44 final size:44
Alignment explanation
Indices: 4514110--4514423 Score: 153
Period size: 44 Copynumber: 7.2 Consensus size: 44
4514100 GTTATCTGCA
* * * *
4514110 ATTTACTACTAAATT-TTCATTG-ATTTACTATTAAATTATCAATG
1 ATTTACTACTAAGTTATT-A-TGCATTTACTATTATATTATTATTG
* * * * ** ** * *
4514154 ATTAACTATTAAATTATTAT-TATTTTTTATTAGGTTATAATTA
1 ATTTACTACTAAGTTATTATGCATTTACTATTATATTATTATTG
* * * *
4514197 ATTTACTACTATGCTATTATGCATTTACAATTATGTTA-TATTTG
1 ATTTACTACTAAGTTATTATGCATTTACTATTATATTATTA-TTG
* *
4514241 ATTTACTATTAAGTTCTTATGCATTTACTATTATATTATTATTG
1 ATTTACTACTAAGTTATTATGCATTTACTATTATATTATTATTG
* * * * *
4514285 ATTTATTACTAAGTTATCAAT-TATTTATTATTAAATTATTATTG
1 ATTTACTACTAAGTTAT-TATGCATTTACTATTATATTATTATTG
* * * * * * *
4514329 ATATGCTATTAAGTTATCACT-AATTTACTATACTAAATTATCATTG
1 ATTTACTACTAAGTTATTA-TGCATTTACTAT--TATATTATTATTG
* * * *
4514375 ATTAACTATTAATTTATCGATG-A-TTACTATTA-AGTTA-TATTG
1 ATTTACTACTAAGTTAT-TATGCATTTACTATTATA-TTATTATTG
4514417 ATTTACT
1 ATTTACT
4514424 TTTAATTTTC
Statistics
Matches: 209, Mismatches: 49, Indels: 26
0.74 0.17 0.09
Matches are distributed among these distances:
42 11 0.05
43 38 0.18
44 119 0.57
45 13 0.06
46 27 0.13
47 1 0.00
ACGTcount: A:0.34, C:0.09, G:0.06, T:0.51
Consensus pattern (44 bp):
ATTTACTACTAAGTTATTATGCATTTACTATTATATTATTATTG
Found at i:4514814 original size:22 final size:22
Alignment explanation
Indices: 4514789--4514858 Score: 72
Period size: 22 Copynumber: 3.2 Consensus size: 22
4514779 ACTGAATCTT
*
4514789 ATTTACTATTAAATTATTATTA
1 ATTTACTATTAAATTATCATTA
* *
4514811 ATTTACGATTAAGTTATCACTT-
1 ATTTACTATTAAATTATCA-TTA
* *
4514833 ATTT-TTATTAAATTATCCTTA
1 ATTTACTATTAAATTATCATTA
4514854 ATTTA
1 ATTTA
4514859 TACAATTATG
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
20 2 0.05
21 14 0.37
22 20 0.53
23 2 0.05
ACGTcount: A:0.36, C:0.09, G:0.03, T:0.53
Consensus pattern (22 bp):
ATTTACTATTAAATTATCATTA
Found at i:4514975 original size:22 final size:22
Alignment explanation
Indices: 4514956--4515003 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
4514946 TATAACTATC
*
4514956 TTATTAATTATTTACTACTAAA
1 TTATTAATTATATACTACTAAA
* * *
4514978 TTATTATTTATATACTATTAAG
1 TTATTAATTATATACTACTAAA
4515000 TTAT
1 TTAT
4515004 CCATAATATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.54
Consensus pattern (22 bp):
TTATTAATTATATACTACTAAA
Found at i:4516763 original size:23 final size:24
Alignment explanation
Indices: 4516736--4516787 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
4516726 ACTCTTTTGA
4516736 ATAATTTT-T-TGATAATTTAATTT
1 ATAATTTTGTATGA-AATTTAATTT
*
4516759 ATAATTTTGTATGAACTTTAATTT
1 ATAATTTTGTATGAAATTTAATTT
4516783 -TAATT
1 ATAATT
4516788 AATCTAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 13 0.50
24 10 0.38
25 3 0.12
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.58
Consensus pattern (24 bp):
ATAATTTTGTATGAAATTTAATTT
Found at i:4517522 original size:153 final size:153
Alignment explanation
Indices: 4517233--4517522 Score: 436
Period size: 153 Copynumber: 1.9 Consensus size: 153
4517223 TTTTTAATTG
*
4517233 ATTTAAATTTAAATAACTAACGAATAAAAGCTATATATTTAACAACAAATAATCTTTATTAAATA
1 ATTTAAATTTAAATAACTAACGAATAAAAACTATATATTTAACAACAAATAATCTTTATTAAATA
* * * * ** * *
4517298 AATAAAAAATGCTAGTAATTAAAATATAAATTTGTTATTTTTTAAAATTTATAAGGGTATTTATG
66 AATAAAAAATGCTAGAAATTAAAAGATAAATTTATTATTTTTTAAAATTCATAAAAGCATTGATG
*
4517363 TTATTCATTTTTAACACTTTTAA
131 TCATTCATTTTTAACACTTTTAA
* **
4517386 ATTTAAATTTAAATAACTAACTAATAAAAACTATATATTTAATGACAAATAATCTTTATTAAATA
1 ATTTAAATTTAAATAACTAACGAATAAAAACTATATATTTAACAACAAATAATCTTTATTAAATA
* * *
4517451 AATAAATAATGTTAGAAATTTAAAGATAAATTTATTATTTTTTAAAATTCATAAAAGCATTGATG
66 AATAAAAAATGCTAGAAATTAAAAGATAAATTTATTATTTTTTAAAATTCATAAAAGCATTGATG
4517516 TCATTCA
131 TCATTCA
4517523 CTTTAAATCT
Statistics
Matches: 121, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
153 121 1.00
ACGTcount: A:0.47, C:0.07, G:0.06, T:0.41
Consensus pattern (153 bp):
ATTTAAATTTAAATAACTAACGAATAAAAACTATATATTTAACAACAAATAATCTTTATTAAATA
AATAAAAAATGCTAGAAATTAAAAGATAAATTTATTATTTTTTAAAATTCATAAAAGCATTGATG
TCATTCATTTTTAACACTTTTAA
Found at i:4518084 original size:13 final size:13
Alignment explanation
Indices: 4518062--4518099 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
4518052 TAAATAAATT
4518062 TATT-ATTTAATA
1 TATTAATTTAATA
* *
4518074 TTTTAATTTAAGA
1 TATTAATTTAATA
4518087 TATTAATTTAATA
1 TATTAATTTAATA
4518100 AAAATATTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
12 3 0.14
13 18 0.86
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (13 bp):
TATTAATTTAATA
Found at i:4520275 original size:32 final size:32
Alignment explanation
Indices: 4520239--4520305 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
4520229 CAAGCAAACA
*
4520239 AGCCAACATTATCCCACATCAAGAAGCTAGAG
1 AGCCAACATTATCCCACATCAAGAAACTAGAG
*
4520271 AGCCAACATTATCCTACATCAAGAAACTAGAG
1 AGCCAACATTATCCCACATCAAGAAACTAGAG
4520303 AGC
1 AGC
4520306 TAATGGAACG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.42, C:0.27, G:0.15, T:0.16
Consensus pattern (32 bp):
AGCCAACATTATCCCACATCAAGAAACTAGAG
Found at i:4521652 original size:269 final size:270
Alignment explanation
Indices: 4521165--4521657 Score: 801
Period size: 269 Copynumber: 1.8 Consensus size: 270
4521155 TAATTTAAAA
* *
4521165 ATAATTTAAAAAACTAAATTGATTATATTTATGTTTTTATTATTAACCTTAAATCACTCTCAATT
1 ATAATTCAAAAAACTAAATTGATTATATTTATATTTTTATTATTAACCTTAAATCACTCTCAATT
* *
4521230 CAATTCATATTAAAAGTACTAAAAATTTAAAAATTTCTTAATTTGACAAATTAAATCAATCAATA
66 CAATGCATAGTAAAAGTACTAAAAATTTAAAAATTTCTTAATTTGACAAATTAAATCAATCAATA
*
4521295 TATAATTAATAAATTAATAAATACTATAATTACAATTATAAAATAGTTGATTCTCTAATCAATTA
131 TATAATTAATAAATTAATAAATACTACAATTACAATTATAAAATAGTTGATTCTCTAATCAATTA
4521360 TTTGATAAATTTATATTTGATTAAATATAGTGTTCAATAATTAATGTATTTTATCTGTAAATAAA
196 TTTGATAAATTTATATTTGATTAAATATAGTGTTCAATAATTAATGTATTTTATCTGTAAATAAA
4521425 TAAAGCAAGT
261 TAAAGCAAGT
* ** *
4521435 ATAATTCAAAAAACTAAATTGATTATATTTATATTTTTATTATTGATTTTACATCACTCTCAATT
1 ATAATTCAAAAAACTAAATTGATTATATTTATATTTTTATTATTAACCTTAAATCACTCTCAATT
* * * *
4521500 CAATGCATAGTAAAAGTA-TTAAAATTTTAAAATTTTTTAATTTGACAAATTAAATCAATTAATA
66 CAATGCATAGTAAAAGTACTAAAAATTTAAAAATTTCTTAATTTGACAAATTAAATCAATCAATA
* * * *
4521564 TATAATTAATAAATTAATAACTACTACAATTATAATTGTAAAATAGTTGATTCAT-TAATTAATT
131 TATAATTAATAAATTAATAAATACTACAATTACAATTATAAAATAGTTGATTC-TCTAATCAATT
*
4521628 ATTTGATACATTTATATTTGATTAAATATA
195 ATTTGATAAATTTATATTTGATTAAATATA
4521658 ATATCCATTT
Statistics
Matches: 204, Mismatches: 18, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
269 128 0.63
270 76 0.37
ACGTcount: A:0.45, C:0.08, G:0.05, T:0.43
Consensus pattern (270 bp):
ATAATTCAAAAAACTAAATTGATTATATTTATATTTTTATTATTAACCTTAAATCACTCTCAATT
CAATGCATAGTAAAAGTACTAAAAATTTAAAAATTTCTTAATTTGACAAATTAAATCAATCAATA
TATAATTAATAAATTAATAAATACTACAATTACAATTATAAAATAGTTGATTCTCTAATCAATTA
TTTGATAAATTTATATTTGATTAAATATAGTGTTCAATAATTAATGTATTTTATCTGTAAATAAA
TAAAGCAAGT
Found at i:4523027 original size:33 final size:32
Alignment explanation
Indices: 4522981--4523060 Score: 99
Period size: 33 Copynumber: 2.5 Consensus size: 32
4522971 TATGATTTCA
* * *
4522981 TTTGATTTTATTTGATAAAATACTAATGCACGT
1 TTTGATTTCATTTGATAAAACACTAATGCAC-C
*
4523014 TTTGATTTCATTTGATAAAACATTAATGCACC
1 TTTGATTTCATTTGATAAAACACTAATGCACC
*
4523046 TGT-ATTTCATTTGAT
1 TTTGATTTCATTTGAT
4523061 TTCATTTGTA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
31 12 0.29
32 2 0.05
33 28 0.67
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.46
Consensus pattern (32 bp):
TTTGATTTCATTTGATAAAACACTAATGCACC
Found at i:4526659 original size:2 final size:2
Alignment explanation
Indices: 4526654--4526679 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4526644 TTTTTATGAA
4526654 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
4526680 GTGCTTATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4527839 original size:29 final size:29
Alignment explanation
Indices: 4527807--4527863 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
4527797 ATTAAATAAA
*
4527807 TATT-TTAATAAAAATATTAATAAAATTTT
1 TATTATTAA-AAAAATATCAATAAAATTTT
* *
4527836 TATTATTAAATAAATATCAATCAAATTT
1 TATTATTAAAAAAATATCAATAAAATTT
4527864 AAATTATAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 20 0.83
30 4 0.17
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.46
Consensus pattern (29 bp):
TATTATTAAAAAAATATCAATAAAATTTT
Found at i:4527869 original size:29 final size:28
Alignment explanation
Indices: 4527818--4527876 Score: 73
Period size: 29 Copynumber: 2.1 Consensus size: 28
4527808 ATTTTAATAA
* **
4527818 AAATATTAATAAAATTTTTATTATTAAAT
1 AAATATCAATAAAATTTAAATTA-TAAAT
*
4527847 AAATATCAATCAAATTTAAATTATAAAT
1 AAATATCAATAAAATTTAAATTATAAAT
4527875 AA
1 AA
4527877 TATTTTTATA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 7 0.27
29 19 0.73
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (28 bp):
AAATATCAATAAAATTTAAATTATAAAT
Found at i:4538659 original size:20 final size:20
Alignment explanation
Indices: 4538597--4538650 Score: 53
Period size: 19 Copynumber: 2.9 Consensus size: 20
4538587 ATTTTTATAT
4538597 TAATATAAAT-T-TAAATATA
1 TAATATAAATATATAAA-ATA
*
4538616 TAAT-T-TATATATAAAATA
1 TAATATAAATATATAAAATA
*
4538634 TGATATAAATATATAAA
1 TAATATAAATATATAAA
4538651 TTTTAATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
17 2 0.07
18 8 0.29
19 9 0.32
20 9 0.32
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (20 bp):
TAATATAAATATATAAAATA
Found at i:4540856 original size:25 final size:28
Alignment explanation
Indices: 4540826--4540877 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
4540816 TCGAAGATTA
4540826 ATTTAT-AATT-TTA-ATTTAATATAAT
1 ATTTATAAATTATTATATTTAATATAAT
*
4540851 ATTTATAAATTATTATTTTTAATATAA
1 ATTTATAAATTATTATATTTAATATAA
4540878 ATCACATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 6 0.26
26 4 0.17
27 3 0.13
28 10 0.43
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (28 bp):
ATTTATAAATTATTATATTTAATATAAT
Found at i:4540929 original size:2 final size:2
Alignment explanation
Indices: 4540917--4540969 Score: 56
Period size: 2 Copynumber: 27.0 Consensus size: 2
4540907 ATTTTTATTA
* * *
4540917 AT AT A- AT AT AT AT AA AT AT A- AA ACT AA AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT
4540958 AT AT AT AT AT AT
1 AT AT AT AT AT AT
4540970 TCTGATCGAG
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
1 2 0.05
2 40 0.93
3 1 0.02
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (2 bp):
AT
Found at i:4542281 original size:18 final size:17
Alignment explanation
Indices: 4542242--4542290 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
4542232 TTTCTTACAT
*
4542242 TTTTTAATTATTTTATCC
1 TTTTT-ATTATTTTATCA
*
4542260 TTTTCTATTATTTTATTA
1 TTTT-TATTATTTTATCA
*
4542278 TTTTTACTATTTT
1 TTTTTATTATTTT
4542291 TTAATTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 8 0.30
18 18 0.67
19 1 0.04
ACGTcount: A:0.20, C:0.08, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTTTATTATTTTATCA
Found at i:4542374 original size:3 final size:3
Alignment explanation
Indices: 4542366--4542402 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
4542356 GTTAAAAACC
4542366 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -TT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
4542403 AAGGTTTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:4542472 original size:13 final size:13
Alignment explanation
Indices: 4542452--4542487 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
4542442 TAACCATATA
4542452 TTTCATTTTTTAT
1 TTTCATTTTTTAT
* *
4542465 TTTTATTTTTTGT
1 TTTCATTTTTTAT
4542478 TTTCATTTTT
1 TTTCATTTTT
4542488 AGTAATTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.11, C:0.06, G:0.03, T:0.81
Consensus pattern (13 bp):
TTTCATTTTTTAT
Found at i:4543636 original size:16 final size:16
Alignment explanation
Indices: 4543610--4543650 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
4543600 TTATTTTTTA
*
4543610 TTAATTATTATTATATT
1 TTAA-TATTATTATACT
*
4543627 TTAATATTATTGTACT
1 TTAATATTATTATACT
4543643 TTAATATT
1 TTAATATT
4543651 TAAAAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 18 0.82
17 4 0.18
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.61
Consensus pattern (16 bp):
TTAATATTATTATACT
Found at i:4546693 original size:21 final size:21
Alignment explanation
Indices: 4546669--4546712 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
4546659 TTCCTGTCAC
* *
4546669 TTTTAGCATTTGTTTTTTATT
1 TTTTAGCATTTATTTATTATT
**
4546690 TTTTATTATTTATTTATTATT
1 TTTTAGCATTTATTTATTATT
4546711 TT
1 TT
4546713 AGTTTTCTTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.18, C:0.02, G:0.05, T:0.75
Consensus pattern (21 bp):
TTTTAGCATTTATTTATTATT
Found at i:4546726 original size:21 final size:18
Alignment explanation
Indices: 4546681--4546729 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 18
4546671 TTAGCATTTG
4546681 TTTTTTATTTTTTATTAT
1 TTTTTTATTTTTTATTAT
* *
4546699 TTATTTATTATTTTAGTTTT
1 TTTTTTATT-TTTTA-TTAT
4546719 CTTTTTTATTT
1 -TTTTTTATTT
4546730 AAATATTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
18 8 0.32
19 5 0.20
20 4 0.16
21 8 0.32
ACGTcount: A:0.16, C:0.02, G:0.02, T:0.80
Consensus pattern (18 bp):
TTTTTTATTTTTTATTAT
Found at i:4546794 original size:12 final size:12
Alignment explanation
Indices: 4546755--4546805 Score: 59
Period size: 12 Copynumber: 4.2 Consensus size: 12
4546745 ACATCATTAT
4546755 AATTATTTAATA
1 AATTATTTAATA
*
4546767 AATCATTT-ATA
1 AATTATTTAATA
*
4546778 TAATTATTTAACA
1 -AATTATTTAATA
*
4546791 AATTAATTAATA
1 AATTATTTAATA
4546803 AAT
1 AAT
4546806 AAATAGCTAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
11 3 0.09
12 27 0.84
13 2 0.06
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (12 bp):
AATTATTTAATA
Found at i:4547408 original size:16 final size:16
Alignment explanation
Indices: 4547389--4547422 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
4547379 CTACAAAATG
*
4547389 AAAAGAAAGACACCGA
1 AAAAGAAAGACACAGA
4547405 AAAAGAAAGACACAGA
1 AAAAGAAAGACACAGA
4547421 AA
1 AA
4547423 TCGATCTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.68, C:0.15, G:0.18, T:0.00
Consensus pattern (16 bp):
AAAAGAAAGACACAGA
Found at i:4547764 original size:5 final size:5
Alignment explanation
Indices: 4547754--4547778 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
4547744 ATAAGATCAA
4547754 TTATT TTATT TTATT TTATT TTATT
1 TTATT TTATT TTATT TTATT TTATT
4547779 AATAAATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTATT
Found at i:4547777 original size:36 final size:32
Alignment explanation
Indices: 4547737--4547808 Score: 90
Period size: 36 Copynumber: 2.1 Consensus size: 32
4547727 AATAATGATA
*
4547737 TTTATTAATAAGATCAATTATTTTATTTTATTTTAT
1 TTTATTAATAA-AT-AATTATTTTA-TATA-TTTAT
*
4547773 TTTATTAATAAATAATTTTTTTATATATTTAT
1 TTTATTAATAAATAATTATTTTATATATTTAT
4547805 TTTA
1 TTTA
4547809 AAACAGAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
32 9 0.26
33 3 0.09
34 9 0.26
35 2 0.06
36 11 0.32
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.62
Consensus pattern (32 bp):
TTTATTAATAAATAATTATTTTATATATTTAT
Found at i:4548407 original size:17 final size:19
Alignment explanation
Indices: 4548382--4548416 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
4548372 AAAATCACAT
4548382 AATACAATACA-ATTTTTA
1 AATACAATACATATTTTTA
4548400 AATA-AATACATATTTTT
1 AATACAATACATATTTTT
4548417 TATAATTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.43
Consensus pattern (19 bp):
AATACAATACATATTTTTA
Found at i:4548925 original size:3 final size:3
Alignment explanation
Indices: 4548917--4548959 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
4548907 TTGTTTGTAA
4548917 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
4548960 TCTTTTCTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:4550202 original size:3 final size:3
Alignment explanation
Indices: 4550187--4550234 Score: 53
Period size: 3 Copynumber: 15.7 Consensus size: 3
4550177 AATATTAAAA
* *
4550187 AAT AAT AAA AAT AAT AAAT GAA- AAT AAT GAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT -AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT
4550233 AA
1 AA
4550235 AGTAAAAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
2 2 0.05
3 31 0.82
4 5 0.13
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:4552022 original size:16 final size:16
Alignment explanation
Indices: 4551995--4552034 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
4551985 CTATTTCTTT
*
4551995 AAAATAATAAAT-AAA
1 AAAATAAAAAATGAAA
4552010 AATAATAAAAAATGAAA
1 AA-AATAAAAAATGAAA
4552027 AAAATAAA
1 AAAATAAA
4552035 TTTTTATTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 2 0.09
16 15 0.68
17 5 0.23
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (16 bp):
AAAATAAAAAATGAAA
Found at i:4553537 original size:3 final size:3
Alignment explanation
Indices: 4553529--4553556 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
4553519 TAAGTTTTAA
4553529 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
4553557 TCCTTTCAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:4553679 original size:6 final size:7
Alignment explanation
Indices: 4553662--4553693 Score: 57
Period size: 7 Copynumber: 4.7 Consensus size: 7
4553652 TCTAACAAAA
4553662 AAAAACT
1 AAAAACT
4553669 AAAAACT
1 AAAAACT
4553676 AAAAACT
1 AAAAACT
4553683 -AAAACT
1 AAAAACT
4553689 AAAAA
1 AAAAA
4553694 AAAACAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.25
7 18 0.75
ACGTcount: A:0.75, C:0.12, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAAACT
Found at i:4553686 original size:13 final size:14
Alignment explanation
Indices: 4553662--4553693 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
4553652 TCTAACAAAA
4553662 AAAAACTAAAAACT
1 AAAAACTAAAAACT
4553676 AAAAACT-AAAACT
1 AAAAACTAAAAACT
4553689 AAAAA
1 AAAAA
4553694 AAAACAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.75, C:0.12, G:0.00, T:0.12
Consensus pattern (14 bp):
AAAAACTAAAAACT
Found at i:4558485 original size:84 final size:84
Alignment explanation
Indices: 4558320--4558488 Score: 187
Period size: 84 Copynumber: 2.0 Consensus size: 84
4558310 AAGTGTAGAT
* * * * *
4558320 ATTTGTAAGACCTTCAAGCATAATCTCTAAGTCCTTCGAACAAGATTCGTAAGTATTTTTAGCTA
1 ATTTATAAGACCTTCAAGCATAATCGCTAAATCCTTCGAACAAGATTCGTAAGTATTATGAGCTA
*
4558385 AATCTGTTCTCATGTTGAG
66 AATATGTTCTCATGTTGAG
* * ** * *
4558404 ATTTATAAGACCTTCGAGCATAATCGCTAAATCTTTC-AAGTGAGATTTGTAAGTCTTATGAGCT
1 ATTTATAAGACCTTCAAGCATAATCGCTAAATCCTTCGAA-CAAGATTCGTAAGTATTATGAGCT
* * *
4558468 GAATATGTTTTCGTGTTGAG
65 AAATATGTTCTCATGTTGAG
4558488 A
1 A
4558489 ATCATAAGTC
Statistics
Matches: 69, Mismatches: 15, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
83 2 0.03
84 67 0.97
ACGTcount: A:0.30, C:0.15, G:0.18, T:0.37
Consensus pattern (84 bp):
ATTTATAAGACCTTCAAGCATAATCGCTAAATCCTTCGAACAAGATTCGTAAGTATTATGAGCTA
AATATGTTCTCATGTTGAG
Found at i:4558918 original size:31 final size:32
Alignment explanation
Indices: 4558851--4558935 Score: 93
Period size: 31 Copynumber: 2.7 Consensus size: 32
4558841 TAAATCTAGT
* *
4558851 CATTTTTTACCTTGGCTTAGTCCTGTCATATT
1 CATTTTTTACCTTGGCTCAGTCCTGTCATATG
*
4558883 CATTTTTTACCTTGGCTCA-TTCTGATCA-ATG
1 CATTTTTTACCTTGGCTCAGTCCTG-TCATATG
** *
4558914 CATTTTCAACCTTGGTTCAGTC
1 CATTTTTTACCTTGGCTCAGTC
4558936 GGTCATCTTG
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
31 22 0.50
32 22 0.50
ACGTcount: A:0.18, C:0.24, G:0.13, T:0.46
Consensus pattern (32 bp):
CATTTTTTACCTTGGCTCAGTCCTGTCATATG
Found at i:4559429 original size:34 final size:34
Alignment explanation
Indices: 4559319--4559464 Score: 111
Period size: 34 Copynumber: 4.3 Consensus size: 34
4559309 TCATTGTTCT
* * * * * *
4559319 ACTTATGGTTCAATCCTAATCATTTTAATTTATCG
1 ACTTGTGGTTCAAACCTGATCATATCAATTT-TTG
** * *
4559354 ACTTGTGGTTC-AGTCTCGATCACAT-AATTTTTT
1 ACTTGTGGTTCAAACCT-GATCATATCAATTTTTG
* *
4559387 ACTTGTGGTT-AAATCCATGTTC-TTTCAATTTTTG
1 ACTTGTGGTTCAAA-CC-TGATCATATCAATTTTTG
*
4559421 ACTAGTGGTTCAAACCTGATCATATCAATTTTTG
1 ACTTGTGGTTCAAACCTGATCATATCAATTTTTG
4559455 ACTTGTGGTT
1 ACTTGTGGTT
4559465 TAGTTTTTGT
Statistics
Matches: 86, Mismatches: 18, Indels: 15
0.72 0.15 0.13
Matches are distributed among these distances:
33 17 0.20
34 50 0.58
35 19 0.22
ACGTcount: A:0.24, C:0.16, G:0.14, T:0.45
Consensus pattern (34 bp):
ACTTGTGGTTCAAACCTGATCATATCAATTTTTG
Found at i:4559598 original size:33 final size:33
Alignment explanation
Indices: 4559538--4559610 Score: 85
Period size: 33 Copynumber: 2.2 Consensus size: 33
4559528 GGTTCAATTA
*
4559538 AAGTCATTTTATTTTCAGACGTCAGTTT-AGTCC
1 AAGTCATTTCATTTTCAGACGTCAGTTTGA-TCC
* * * *
4559571 AAGTTATTTCATTTTCATACTTTAGTTTGATCC
1 AAGTCATTTCATTTTCAGACGTCAGTTTGATCC
4559604 AAGTCAT
1 AAGTCAT
4559611 ATTATTCCAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
33 32 0.97
34 1 0.03
ACGTcount: A:0.26, C:0.16, G:0.12, T:0.45
Consensus pattern (33 bp):
AAGTCATTTCATTTTCAGACGTCAGTTTGATCC
Found at i:4559860 original size:17 final size:16
Alignment explanation
Indices: 4559834--4559897 Score: 58
Period size: 16 Copynumber: 3.9 Consensus size: 16
4559824 AATTAAAATT
*
4559834 TTTTTTGTTTATTCTTA
1 TTTTTAGTTTATT-TTA
4559851 TTTTTAGTTTATTTTA
1 TTTTTAGTTTATTTTA
* *
4559867 ATTTTAATTT-TTATTA
1 TTTTTAGTTTATT-TTA
* *
4559883 TTTCTACTTTATTTT
1 TTTTTAGTTTATTTT
4559898 TTTCTTTCTT
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
15 2 0.05
16 23 0.59
17 14 0.36
ACGTcount: A:0.19, C:0.05, G:0.03, T:0.73
Consensus pattern (16 bp):
TTTTTAGTTTATTTTA
Found at i:4559871 original size:16 final size:17
Alignment explanation
Indices: 4559835--4559872 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
4559825 ATTAAAATTT
* *
4559835 TTTTTGTTTATTCTTAT
1 TTTTAGTTTATTCTTAA
4559852 TTTTAGTTTATT-TTAA
1 TTTTAGTTTATTCTTAA
4559868 TTTTA
1 TTTTA
4559873 ATTTTTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.18, C:0.03, G:0.05, T:0.74
Consensus pattern (17 bp):
TTTTAGTTTATTCTTAA
Done.