Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167904.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_17, 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: 21107920
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
Warning! 100000 characters in sequence are not A, C, G, or T
File 75 of 121
Found at i:12904689 original size:106 final size:104
Alignment explanation
Indices: 12904321--12904795 Score: 508
Period size: 106 Copynumber: 4.5 Consensus size: 104
12904311 AAATGCAATA
** * * * * * * *
12904321 TTTAACTTGATGGCAATTGATTT-ATAAGTATTTATTATGGGAATAGCAATTAGTGCATTTTTTT
1 TTTAACTTGATGGCTTTTAATTTAATGAGTATTTATTATGGGTATGGCAATTACTACATTTCTTT
*
12904385 AAACAAAAACATAGTATTTGGCATTTAATTATTTTTTATCTG
66 -AACAGAAACATAGTATTTGGCATTTAA-T-TTTTTTATCTG
* * * *
12904427 TTTGACTTGATGGCTTTTGATTTAATGAGCATTTATTATGGGTATGGCAATTACTGC-TCTTCTT
1 TTTAACTTGATGGCTTTTAATTTAATGAGTATTTATTATGGGTATGGCAATTACTACAT-TTC-T
* *
12904491 TTAACATAAACATAGTATTTGGCTTTTAA-TTTTTTATCTG
64 TTAACAGAAACATAGTATTTGGCATTTAATTTTTTTATCTG
* * **
12904531 TTTAACTTGATGGTTTTTTATTTAATGAGCGTTTATTATGGGTATGGCAATTACTACATTTCTTT
1 TTTAACTTGATGGCTTTTAATTTAATGAGTATTTATTATGGGTATGGCAATTACTACATTTCTTT
* *
12904596 GAACAGAAACATAGTATTTGGCATTTCATTTTACTTT-TGTG
66 -AACAGAAACATAGTATTTGGCATTTAATTTT--TTTATCTG
* * * *
12904637 TTTGACTTTATGGCTTTTAATTTAATGAGTATTTATTATGGGTATGGAAATTACTATATTTCTTT
1 TTTAACTTGATGGCTTTTAATTTAATGAGTATTTATTATGGGTATGGCAATTACTACATTTCTTT
* ** * * *
12904702 AGATAGAAATGTAGTGTTTGGCATTTAAATTTTTTTCTATG
66 A-ACAGAAACATAGTATTTGGCATTT-AATTTTTTTATCTG
* * * *
12904743 TTTAACTTGATGGCTTTTAATTTACTAAGTATTTATTATGGGTTTGTCAATTA
1 TTTAACTTGATGGCTTTTAATTTAATGAGTATTTATTATGGGTATGGCAATTA
12904796 TTGCGTTTCT
Statistics
Matches: 317, Mismatches: 41, Indels: 22
0.83 0.11 0.06
Matches are distributed among these distances:
103 3 0.01
104 90 0.28
105 8 0.03
106 150 0.47
107 63 0.20
108 3 0.01
ACGTcount: A:0.27, C:0.09, G:0.16, T:0.48
Consensus pattern (104 bp):
TTTAACTTGATGGCTTTTAATTTAATGAGTATTTATTATGGGTATGGCAATTACTACATTTCTTT
AACAGAAACATAGTATTTGGCATTTAATTTTTTTATCTG
Found at i:12907761 original size:20 final size:20
Alignment explanation
Indices: 12907736--12907777 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
12907726 TTGTTATTTG
*
12907736 TAATTAATATTTATTTGATT
1 TAATTAATATTTATTTAATT
*
12907756 TAATTAATATTTGTTTAATT
1 TAATTAATATTTATTTAATT
12907776 TA
1 TA
12907778 TTTATTAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.60
Consensus pattern (20 bp):
TAATTAATATTTATTTAATT
Found at i:12908818 original size:40 final size:40
Alignment explanation
Indices: 12908771--12908881 Score: 195
Period size: 40 Copynumber: 2.8 Consensus size: 40
12908761 AGAGTATTTT
*
12908771 TAGCCAATAGATTGATAACTGACATCACCATTAGTATTCC
1 TAGCCAATAGATTAATAACTGACATCACCATTAGTATTCC
* *
12908811 TAGCCAATAGATTAATAATTGACATCACCATTTGTATTCC
1 TAGCCAATAGATTAATAACTGACATCACCATTAGTATTCC
12908851 TAGCCAATAGATTAATAACTGACATCACCAT
1 TAGCCAATAGATTAATAACTGACATCACCAT
12908882 CATCTTTCTT
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 67 1.00
ACGTcount: A:0.37, C:0.22, G:0.11, T:0.31
Consensus pattern (40 bp):
TAGCCAATAGATTAATAACTGACATCACCATTAGTATTCC
Found at i:12916190 original size:47 final size:46
Alignment explanation
Indices: 12916137--12916281 Score: 189
Period size: 43 Copynumber: 3.2 Consensus size: 46
12916127 AGGCATGAAA
12916137 AATAATTTAAACACACTTAAACAAGAATTAAAAATAGAATAAAGCCT
1 AATAATTTAAACACACTTAAACAAGAATTAAAAATA-AATAAAGCCT
*
12916184 AATAATTTAAAGACACTTAAACAAGAATT--AAA-AAATAAAGCCT
1 AATAATTTAAACACACTTAAACAAGAATTAAAAATAAATAAAGCCT
12916227 AATAATTTAAACACA-TTCAAA-AAGGAACTTAAAAAT--A-AAAGCCT
1 AATAATTTAAACACACTT-AAACAA-GAA-TTAAAAATAAATAAAGCCT
12916271 AATAATTTAAA
1 AATAATTTAAA
12916282 AGCAAAAAAT
Statistics
Matches: 90, Mismatches: 2, Indels: 15
0.84 0.02 0.14
Matches are distributed among these distances:
42 4 0.04
43 30 0.33
44 21 0.23
45 4 0.04
46 3 0.03
47 28 0.31
ACGTcount: A:0.58, C:0.12, G:0.06, T:0.24
Consensus pattern (46 bp):
AATAATTTAAACACACTTAAACAAGAATTAAAAATAAATAAAGCCT
Found at i:12916274 original size:44 final size:44
Alignment explanation
Indices: 12916137--12916281 Score: 199
Period size: 47 Copynumber: 3.2 Consensus size: 44
12916127 AGGCATGAAA
12916137 AATAATTTAAACACACTTAAACAAGAATTAAAAATAGAATAAAGCCT
1 AATAATTTAAACACACTTAAACAAGAATTAAAAAT---ATAAAGCCT
*
12916184 AATAATTTAAAGACACTTAAACAAGAATTAAAAA-ATAAAGCCT
1 AATAATTTAAACACACTTAAACAAGAATTAAAAATATAAAGCCT
12916227 AATAATTTAAACACA-TTCAAA-AAGGAACTTAAAAATA-AAAGCCT
1 AATAATTTAAACACACTT-AAACAA-GAA-TTAAAAATATAAAGCCT
12916271 AATAATTTAAA
1 AATAATTTAAA
12916282 AGCAAAAAAT
Statistics
Matches: 92, Mismatches: 2, Indels: 11
0.88 0.02 0.10
Matches are distributed among these distances:
42 4 0.04
43 29 0.32
44 25 0.27
45 1 0.01
47 33 0.36
ACGTcount: A:0.58, C:0.12, G:0.06, T:0.24
Consensus pattern (44 bp):
AATAATTTAAACACACTTAAACAAGAATTAAAAATATAAAGCCT
Found at i:12917070 original size:16 final size:17
Alignment explanation
Indices: 12917041--12917077 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
12917031 CTGGGCAGAA
12917041 AAAT-TAAAGAGCAAG-
1 AAATATAAAGAGCAAGT
*
12917056 AAATATAAAGGGCAAGT
1 AAATATAAAGAGCAAGT
12917073 AAATA
1 AAATA
12917078 AACACAATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 4 0.21
16 10 0.53
17 5 0.26
ACGTcount: A:0.59, C:0.05, G:0.19, T:0.16
Consensus pattern (17 bp):
AAATATAAAGAGCAAGT
Found at i:12918450 original size:19 final size:19
Alignment explanation
Indices: 12918426--12918464 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
12918416 ATAATCAAGC
*
12918426 AAAATTAAATCAAGTAAGT
1 AAAATTAAACCAAGTAAGT
* *
12918445 AAAATTCAACCAATTAAGT
1 AAAATTAAACCAAGTAAGT
12918464 A
1 A
12918465 CATGATGATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.56, C:0.10, G:0.08, T:0.26
Consensus pattern (19 bp):
AAAATTAAACCAAGTAAGT
Found at i:12918676 original size:9 final size:9
Alignment explanation
Indices: 12918642--12918683 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
12918632 CACTTTATTG
12918642 CTTTTTCTTT
1 CTTTTT-TTT
12918652 -TTTTTTTT
1 CTTTTTTTT
* *
12918660 CGTGTTTTT
1 CTTTTTTTT
12918669 CTTTTTTTT
1 CTTTTTTTT
12918678 CTTTTT
1 CTTTTT
12918684 CTTTTGTAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
8 3 0.11
9 24 0.89
ACGTcount: A:0.00, C:0.12, G:0.05, T:0.83
Consensus pattern (9 bp):
CTTTTTTTT
Found at i:12928856 original size:28 final size:28
Alignment explanation
Indices: 12928816--12928871 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
12928806 GGTACAAAGT
12928816 AAATTCAAGCAAAAACAATCCATGGTAC
1 AAATTCAAGCAAAAACAATCCATGGTAC
*
12928844 AAATTCAAGCAAAAACAATCTATGGTAC
1 AAATTCAAGCAAAAACAATCCATGGTAC
12928872 CTTGATAGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.50, C:0.20, G:0.11, T:0.20
Consensus pattern (28 bp):
AAATTCAAGCAAAAACAATCCATGGTAC
Found at i:12937445 original size:30 final size:30
Alignment explanation
Indices: 12937374--12937448 Score: 84
Period size: 30 Copynumber: 2.5 Consensus size: 30
12937364 TTATATCTTA
12937374 TTATATCTAAATAAACCTTCAAATTTTAAT
1 TTATATCTAAATAAACCTTCAAATTTTAAT
* *
12937404 TT-TCATTTAAATAAACACTT-AACA-TTTGAT
1 TTAT-ATCTAAATAAAC-CTTCAA-ATTTTAAT
12937434 TTATATCTAAATAAA
1 TTATATCTAAATAAA
12937449 TTATTAAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
29 1 0.03
30 32 0.84
31 5 0.13
ACGTcount: A:0.44, C:0.12, G:0.01, T:0.43
Consensus pattern (30 bp):
TTATATCTAAATAAACCTTCAAATTTTAAT
Found at i:12942056 original size:18 final size:18
Alignment explanation
Indices: 12942033--12942068 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
12942023 CATTCCTATT
12942033 AATTTTGTAAATTTGCAG
1 AATTTTGTAAATTTGCAG
12942051 AATTTTGTAAATTTGCAG
1 AATTTTGTAAATTTGCAG
12942069 GTATCCAGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.06, G:0.17, T:0.44
Consensus pattern (18 bp):
AATTTTGTAAATTTGCAG
Found at i:12946167 original size:14 final size:13
Alignment explanation
Indices: 12946143--12946178 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
12946133 TGTTGATATG
*
12946143 ATTTTTTAAAAAT
1 ATTTTTTAAAAAA
12946156 ATTTTTTAAAAAA
1 ATTTTTTAAAAAA
*
12946169 ATTTATTAAA
1 ATTTTTTAAA
12946179 TCTTTCAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
ATTTTTTAAAAAA
Found at i:12946270 original size:16 final size:16
Alignment explanation
Indices: 12946249--12946279 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12946239 TTGGAAAATA
12946249 TTTTTTTGAAAACTTT
1 TTTTTTTGAAAACTTT
*
12946265 TTTTTTTGTAAACTT
1 TTTTTTTGAAAACTT
12946280 AAAAGAACAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.23, C:0.06, G:0.06, T:0.65
Consensus pattern (16 bp):
TTTTTTTGAAAACTTT
Found at i:12946406 original size:20 final size:21
Alignment explanation
Indices: 12946334--12946413 Score: 67
Period size: 20 Copynumber: 4.0 Consensus size: 21
12946324 TCATGCCACT
**
12946334 AATATCATAAAATAATAAT-A
1 AATATCATGTAATAATAATAA
* * *
12946354 CATGTCATATAATAATAATAA
1 AATATCATGTAATAATAATAA
* *
12946375 AATATTATGTAATAAT-ATGA
1 AATATCATGTAATAATAATAA
*
12946395 ATTATCATGTAATAA-AATA
1 AATATCATGTAATAATAATA
12946414 CAATCACGTA
Statistics
Matches: 47, Mismatches: 11, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
20 34 0.72
21 13 0.28
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (21 bp):
AATATCATGTAATAATAATAA
Found at i:12946524 original size:24 final size:23
Alignment explanation
Indices: 12946467--12946524 Score: 64
Period size: 24 Copynumber: 2.5 Consensus size: 23
12946457 AAACAAAATG
12946467 ATATA-TATAATTATACAAATAA
1 ATATATTATAATTATACAAATAA
* * *
12946489 ATGTATTAATAATTATACAATTGA
1 ATATATT-ATAATTATACAAATAA
12946513 ATATAATTATAA
1 ATAT-ATTATAA
12946525 AAATAAAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
22 4 0.14
23 1 0.03
24 21 0.72
25 3 0.10
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.40
Consensus pattern (23 bp):
ATATATTATAATTATACAAATAA
Found at i:12946610 original size:17 final size:17
Alignment explanation
Indices: 12946585--12946641 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
12946575 AATATATATT
* *
12946585 AAAATATAAATATAAAA
1 AAAACATAAAAATAAAA
12946602 AAAACATAAAAATAAAA
1 AAAACATAAAAATAAAA
* **
12946619 CAAGAAAATAAAAGCAAAA
1 -AA-AACATAAAAATAAAA
12946638 AAAA
1 AAAA
12946642 AATCAAAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
17 17 0.52
18 4 0.12
19 12 0.36
ACGTcount: A:0.79, C:0.05, G:0.04, T:0.12
Consensus pattern (17 bp):
AAAACATAAAAATAAAA
Found at i:12946618 original size:13 final size:12
Alignment explanation
Indices: 12946598--12946651 Score: 58
Period size: 13 Copynumber: 4.3 Consensus size: 12
12946588 ATATAAATAT
12946598 AAAA-AAAACATA
1 AAAATAAAACA-A
12946610 AAAATAAAACAA
1 AAAATAAAACAA
12946622 GAAAATAAAAGCAA
1 -AAAATAAAA-CAA
12946636 AAAA-AAAATCAA
1 AAAATAAAA-CAA
12946648 AAAA
1 AAAA
12946652 AGAAAAAGCA
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
12 16 0.42
13 19 0.50
14 3 0.08
ACGTcount: A:0.81, C:0.07, G:0.04, T:0.07
Consensus pattern (12 bp):
AAAATAAAACAA
Found at i:12946629 original size:19 final size:18
Alignment explanation
Indices: 12946585--12946649 Score: 53
Period size: 19 Copynumber: 3.5 Consensus size: 18
12946575 AATATATATT
12946585 AAAATATAAATATAAAAAA
1 AAAATA-AAATATAAAAAA
*
12946604 AACATAAAA-ATAAAACAA
1 AAAATAAAATATAAAA-AA
**
12946622 GAAAATAAAA-GCAAAAAA
1 -AAAATAAAATATAAAAAA
12946640 AAAATCAAAA
1 AAAAT-AAAA
12946650 AAAGAAAAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
17 11 0.28
18 11 0.28
19 17 0.44
ACGTcount: A:0.78, C:0.06, G:0.03, T:0.12
Consensus pattern (18 bp):
AAAATAAAATATAAAAAA
Found at i:12946639 original size:27 final size:27
Alignment explanation
Indices: 12946600--12946664 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
12946590 ATAAATATAA
* * *
12946600 AAAAAACATAAAAATAAAACAAGAAAA-
1 AAAAAGCA-AAAAAAAAAACAAAAAAAG
* *
12946627 TAAAAGCAAAAAAAAAATCAAAAAAAG
1 AAAAAGCAAAAAAAAAAACAAAAAAAG
12946654 AAAAAGCAAAA
1 AAAAAGCAAAA
12946665 CCTACAAAAC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
26 15 0.48
27 16 0.52
ACGTcount: A:0.80, C:0.08, G:0.06, T:0.06
Consensus pattern (27 bp):
AAAAAGCAAAAAAAAAAACAAAAAAAG
Found at i:12947589 original size:15 final size:15
Alignment explanation
Indices: 12947558--12947599 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
12947548 TTATTTTTTA
* *
12947558 AAATAAGTAAA-ATT
1 AAATAAATAAATAAT
12947572 AAATAAATAAATAAT
1 AAATAAATAAATAAT
12947587 AAATAAATCAAAT
1 AAATAAAT-AAAT
12947600 TAAAATTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 10 0.42
15 10 0.42
16 4 0.17
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.26
Consensus pattern (15 bp):
AAATAAATAAATAAT
Found at i:12947605 original size:15 final size:14
Alignment explanation
Indices: 12947555--12947627 Score: 53
Period size: 15 Copynumber: 5.1 Consensus size: 14
12947545 TTTTTATTTT
*
12947555 TTAAAATAAGTAAAA
1 TTAAAATAAAT-AAA
12947570 TT-AAATAAATAAA
1 TTAAAATAAATAAA
*
12947583 TAATAAATAAATCAAA
1 TTA-AAATAAAT-AAA
*
12947599 TTAAAAT-TA-AAA
1 TTAAAATAAATAAA
*
12947611 TTAAAATTAAAAAAA
1 TTAAAA-TAAATAAA
12947626 TT
1 TT
12947628 TTTTGAGCCC
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
12 9 0.19
13 5 0.11
14 9 0.19
15 19 0.40
16 5 0.11
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.30
Consensus pattern (14 bp):
TTAAAATAAATAAA
Found at i:12947607 original size:6 final size:6
Alignment explanation
Indices: 12947596--12947622 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
12947586 TAAATAAATC
12947596 AAATTA AAATTA AAATTA AAATTA AAA
1 AAATTA AAATTA AAATTA AAATTA AAA
12947623 AAATTTTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (6 bp):
AAATTA
Found at i:12949400 original size:2 final size:2
Alignment explanation
Indices: 12949393--12949424 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
12949383 TTGTATGATC
12949393 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
12949425 GAACACTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:12950741 original size:110 final size:110
Alignment explanation
Indices: 12950565--12950766 Score: 379
Period size: 110 Copynumber: 1.8 Consensus size: 110
12950555 TATATTAATT
*
12950565 TTTTAGACATTGCTATAAGTTTGAAAATTTCATAGAAACATGAATTTTTCAACAAAAAACACATG
1 TTTTAGACATTGCTACAAGTTTGAAAATTTCATAGAAACATGAATTTTTCAACAAAAAACACATG
12950630 CAATTACCT-TTCGAAAAGAGGATGAAAGAACCCTTAAATGATTTC
66 CAATTACCTCTT-GAAAAGAGGATGAAAGAACCCTTAAATGATTTC
12950675 TTTTAGACATTGCTACAAGTTTGAAAATTTCATAGAAACATGAATTTTTCAACAAAAAACACATG
1 TTTTAGACATTGCTACAAGTTTGAAAATTTCATAGAAACATGAATTTTTCAACAAAAAACACATG
12950740 CAATTACCTCTTGAAAAGAGGATGAAA
66 CAATTACCTCTTGAAAAGAGGATGAAA
12950767 ACTTGAAGAT
Statistics
Matches: 90, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
110 88 0.98
111 2 0.02
ACGTcount: A:0.43, C:0.14, G:0.13, T:0.30
Consensus pattern (110 bp):
TTTTAGACATTGCTACAAGTTTGAAAATTTCATAGAAACATGAATTTTTCAACAAAAAACACATG
CAATTACCTCTTGAAAAGAGGATGAAAGAACCCTTAAATGATTTC
Found at i:12951838 original size:51 final size:51
Alignment explanation
Indices: 12951778--12951880 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
12951768 AGAGTGTGGG
12951778 ATCATTAATTCCAGTAATTAGGGTTCAAACCTTAATAGCCTCAAATACCAA
1 ATCATTAATTCCAGTAATTAGGGTTCAAACCTTAATAGCCTCAAATACCAA
12951829 ATCATTAATTCCAGTAATTAGGGTTCAAACCTTAATAGCCTCAAATACCAA
1 ATCATTAATTCCAGTAATTAGGGTTCAAACCTTAATAGCCTCAAATACCAA
12951880 A
1 A
12951881 GACTAGCACA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (51 bp):
ATCATTAATTCCAGTAATTAGGGTTCAAACCTTAATAGCCTCAAATACCAA
Found at i:12953313 original size:2 final size:2
Alignment explanation
Indices: 12953308--12953335 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
12953298 ACACACACAC
12953308 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
12953336 GAACAATCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12954810 original size:20 final size:20
Alignment explanation
Indices: 12954773--12954813 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
12954763 TTACTATAAT
**
12954773 TAAATAAAAAAGTTTTGAAA
1 TAAATAAAAAAGAATTGAAA
*
12954793 TAAATAAAAATGAATTGAAA
1 TAAATAAAAAAGAATTGAAA
12954813 T
1 T
12954814 TCGTAAATTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.10, T:0.29
Consensus pattern (20 bp):
TAAATAAAAAAGAATTGAAA
Found at i:12956866 original size:168 final size:168
Alignment explanation
Indices: 12956588--12956924 Score: 647
Period size: 168 Copynumber: 2.0 Consensus size: 168
12956578 AGATCACAAT
*
12956588 TTATCACCTCAATCATACACAAATTTTTAGCTCAAATTTCACATAAAAAAATCTCCAAACAACTA
1 TTATCACCTCAATCATACACAAACTTTTAGCTCAAATTTCACATAAAAAAATCTCCAAACAACTA
12956653 AGTTTAACTTTCAATACAACCAAGTAATCAACTGTCAATCACAACTAACATTCAAATTTATAAAT
66 AGTTTAACTTTCAATACAACCAAGTAATCAACTGTCAATCACAACTAACATTCAAATTTATAAAT
*
12956718 AACAATCAAAATAACAAATTTCTTCACTTCAAAAAGCA
131 AACAATCAAAATAACAAATTTCTTCACTGCAAAAAGCA
12956756 TTATCACCTCAATCATACACAAACTTTTAGCTCAAATTTCACATAAAAAAATCTCCAAACAACTA
1 TTATCACCTCAATCATACACAAACTTTTAGCTCAAATTTCACATAAAAAAATCTCCAAACAACTA
*
12956821 AGTTTAACTTTCAATACAACCAAGTAATCAATTGTCAATCACAACTAACATTCAAATTTATAAAT
66 AGTTTAACTTTCAATACAACCAAGTAATCAACTGTCAATCACAACTAACATTCAAATTTATAAAT
12956886 AACAATCAAAATAACAAATTTCTTCACTGCAAAAAGCA
131 AACAATCAAAATAACAAATTTCTTCACTGCAAAAAGCA
12956924 T
1 T
12956925 CAAACATATT
Statistics
Matches: 166, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
168 166 1.00
ACGTcount: A:0.46, C:0.22, G:0.03, T:0.28
Consensus pattern (168 bp):
TTATCACCTCAATCATACACAAACTTTTAGCTCAAATTTCACATAAAAAAATCTCCAAACAACTA
AGTTTAACTTTCAATACAACCAAGTAATCAACTGTCAATCACAACTAACATTCAAATTTATAAAT
AACAATCAAAATAACAAATTTCTTCACTGCAAAAAGCA
Found at i:12961474 original size:27 final size:27
Alignment explanation
Indices: 12961444--12961553 Score: 168
Period size: 27 Copynumber: 4.1 Consensus size: 27
12961434 AGCATTCGCA
* **
12961444 TAAGAAAAAATTAAGAATTACACTAAT
1 TAAGAAAAAAGTAAGAATTATGCTAAT
*
12961471 TAAGAAAAAAGTAAGAATTATGTTAAT
1 TAAGAAAAAAGTAAGAATTATGCTAAT
*
12961498 TAAG-AGAAAGTAAGAATTATGCTAAT
1 TAAGAAAAAAGTAAGAATTATGCTAAT
12961524 TAAGAAAAAAGTAAGAATTATGCTAAT
1 TAAGAAAAAAGTAAGAATTATGCTAAT
12961551 TAA
1 TAA
12961554 ACTTACTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
26 24 0.32
27 51 0.68
ACGTcount: A:0.55, C:0.04, G:0.14, T:0.27
Consensus pattern (27 bp):
TAAGAAAAAAGTAAGAATTATGCTAAT
Found at i:12961673 original size:28 final size:28
Alignment explanation
Indices: 12961635--12961688 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
12961625 TCTAACCCTA
12961635 AAACCTAAACCT-ACCTAAAACCCTAATG
1 AAACCTAAACCTAACCT-AAACCCTAATG
*
12961663 AAACCTTAACCTAACCTAAACCCTAA
1 AAACCTAAACCTAACCTAAACCCTAA
12961689 CCTAGCCAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 20 0.83
29 4 0.17
ACGTcount: A:0.46, C:0.33, G:0.02, T:0.19
Consensus pattern (28 bp):
AAACCTAAACCTAACCTAAACCCTAATG
Found at i:12961683 original size:17 final size:16
Alignment explanation
Indices: 12961663--12961701 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
12961653 AACCCTAATG
12961663 AAACCTTAACCTAACC
1 AAACCTTAACCTAACC
* *
12961679 TAAACCCTAACCTAGCC
1 -AAACCTTAACCTAACC
12961696 AAACCT
1 AAACCT
12961702 AAATCCCTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.41, C:0.38, G:0.03, T:0.18
Consensus pattern (16 bp):
AAACCTTAACCTAACC
Found at i:12961934 original size:21 final size:21
Alignment explanation
Indices: 12961895--12961934 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
12961885 GTTGTCACAT
*
12961895 TTCATACATTTGATTTTGTGA
1 TTCATACATTTGATCTTGTGA
12961916 TTCATATCATTT-ATCTTGT
1 TTCATA-CATTTGATCTTGT
12961935 TGCACTTATG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.23, C:0.12, G:0.10, T:0.55
Consensus pattern (21 bp):
TTCATACATTTGATCTTGTGA
Found at i:12965072 original size:49 final size:47
Alignment explanation
Indices: 12965006--12965231 Score: 229
Period size: 49 Copynumber: 4.6 Consensus size: 47
12964996 AAAAGGCTTA
*
12965006 TCTCAGCAGAGGCTCAACAACTTTAAAATCTCACCTTAGAAAAAGCTCC
1 TCTCAGCAGAGGCTCAACAACTTTAAAATCT-ATCTT-GAAAAAGCTCC
** * * *
12965055 TCTCAATAGAGGTTCAACAACTTTAAAATCTATCTTGAAAAAAGTTTC
1 TCTCAGCAGAGGCTCAACAACTTTAAAATCTATCTTG-AAAAAGCTCC
* *
12965103 TCTCAGCAGAGGCTCCACAACTTTAAAAATTTTATCTTGAAAATAGCTCC
1 TCTCAGCAGAGGCTCAACAACTTT-AAAA-TCTATCTTGAAAA-AGCTCC
* *
12965153 TCTCAGCAGAGGTTCAACAA-TTTAAAAAAATTTTAATCTTGAAAAAAGCTCC
1 TCTCAGCAGAGGCTCAACAACTTT---AAAA-TCT-ATCTTG-AAAAAGCTCC
* *
12965205 TCTTAGTAGAGGCTCAACAACTTTAAA
1 TCTCAGCAGAGGCTCAACAACTTTAAA
12965232 TTAAACCATT
Statistics
Matches: 150, Mismatches: 18, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
47 1 0.01
48 32 0.21
49 39 0.26
50 33 0.22
51 9 0.06
52 29 0.19
53 7 0.05
ACGTcount: A:0.38, C:0.21, G:0.12, T:0.29
Consensus pattern (47 bp):
TCTCAGCAGAGGCTCAACAACTTTAAAATCTATCTTGAAAAAGCTCC
Found at i:12965206 original size:52 final size:50
Alignment explanation
Indices: 12965006--12965231 Score: 255
Period size: 50 Copynumber: 4.5 Consensus size: 50
12964996 AAAAGGCTTA
* * *
12965006 TCTCAGCAGAGGCTCAACAACTTT-AAAATCTCACCTT-AGAAAAAGCTCC
1 TCTCAGCAGAGGCTCAACAACTTTAAAAATTTTATCTTGA-AAAAAGCTCC
** * * * *
12965055 TCTCAATAGAGGTTCAACAACTTT-AAAA-TCTATCTTGAAAAAAGTTTC
1 TCTCAGCAGAGGCTCAACAACTTTAAAAATTTTATCTTGAAAAAAGCTCC
* *
12965103 TCTCAGCAGAGGCTCCACAACTTTAAAAATTTTATCTTGAAAATAGCTCC
1 TCTCAGCAGAGGCTCAACAACTTTAAAAATTTTATCTTGAAAAAAGCTCC
*
12965153 TCTCAGCAGAGGTTCAACAA-TTTAAAAAAATTTTAATCTTGAAAAAAGCTCC
1 TCTCAGCAGAGGCTCAACAACTTT--AAAAATTTT-ATCTTGAAAAAAGCTCC
* *
12965205 TCTTAGTAGAGGCTCAACAACTTTAAA
1 TCTCAGCAGAGGCTCAACAACTTTAAA
12965232 TTAAACCATT
Statistics
Matches: 147, Mismatches: 23, Indels: 12
0.81 0.13 0.07
Matches are distributed among these distances:
48 32 0.22
49 33 0.22
50 34 0.23
51 12 0.08
52 33 0.22
53 3 0.02
ACGTcount: A:0.38, C:0.21, G:0.12, T:0.29
Consensus pattern (50 bp):
TCTCAGCAGAGGCTCAACAACTTTAAAAATTTTATCTTGAAAAAAGCTCC
Found at i:12965460 original size:48 final size:48
Alignment explanation
Indices: 12965360--12965460 Score: 125
Period size: 48 Copynumber: 2.1 Consensus size: 48
12965350 ATCATCGAGA
* * *
12965360 AAATGCAATTCAAGCTTTAATACTCAGATATCACTATCGAGGAAATGC
1 AAATGCAATTCAAACTTTAATACTCAGATATCACTATCCAAGAAATGC
* *
12965408 AAATGCAAATTCAAACTTTAA-ACTCGGATATCACTA-CCAAGAATATGT
1 AAATGC-AATTCAAACTTTAATACTCAGATATCACTATCCAAGAA-ATGC
12965456 AAATG
1 AAATG
12965461 ACTTCGAATA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
47 5 0.11
48 28 0.61
49 13 0.28
ACGTcount: A:0.43, C:0.18, G:0.13, T:0.27
Consensus pattern (48 bp):
AAATGCAATTCAAACTTTAATACTCAGATATCACTATCCAAGAAATGC
Found at i:12965563 original size:147 final size:147
Alignment explanation
Indices: 12965286--12965620 Score: 428
Period size: 147 Copynumber: 2.3 Consensus size: 147
12965276 AAATAATCTT
* * * * *
12965286 GGATGTCACCACCAAGAATATGCAAATGACTTCAAATATCATCACCGAAGGAAACTCGAATATTA
1 GGATATCACTACCAAGAATATGCAAATGACTTCAAATATCATCACCAAAGGAAACTCAAATATCA
* *
12965351 TCATCGAGAAAATGCAATTCAAGCTTTAATACTCAGATATCACTATCGAGGAAATGCAAATGCAA
66 TCATCAAGAAAATGCAATTCAAGCTTTAATACTCAGATATCACCATCGAGGAAATGCAAATGCAA
12965416 ATTCAAACTTTAAACTC
131 ATTCAAACTTTAAACTC
* * * *
12965433 GGATATCACTACCAAGAATATGTAAATGACTTCGAATATC-TCCACTAAAGGAAACTTAAATATC
1 GGATATCACTACCAAGAATATGCAAATGACTTCAAATATCAT-CACCAAAGGAAACTCAAATATC
* * *
12965497 A-CTATCAAGAAAATGTAATTCAAGCTTTAATACTCGGATATCACCA-CTGA-GAGAATGTAAAT
65 ATC-ATCAAGAAAATGCAATTCAAGCTTTAATACTCAGATATCACCATC-GAGGA-AATGCAAAT
12965559 GCAAATTCAAACTTTAAACTC
127 GCAAATTCAAACTTTAAACTC
* * * *
12965580 AGATATCA-TCATCGAGAATATGCAAATGACTTCAGATATCA
1 GGATATCACT-ACCAAGAATATGCAAATGACTTCAAATATCA
12965621 CTACCGAGAG
Statistics
Matches: 162, Mismatches: 20, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
146 6 0.04
147 156 0.96
ACGTcount: A:0.42, C:0.19, G:0.13, T:0.26
Consensus pattern (147 bp):
GGATATCACTACCAAGAATATGCAAATGACTTCAAATATCATCACCAAAGGAAACTCAAATATCA
TCATCAAGAAAATGCAATTCAAGCTTTAATACTCAGATATCACCATCGAGGAAATGCAAATGCAA
ATTCAAACTTTAAACTC
Found at i:12965629 original size:33 final size:33
Alignment explanation
Indices: 12965578--12965640 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
12965568 AACTTTAAAC
*
12965578 TCAGATATCATCATCGAGA-ATATGCAAATGACT
1 TCAGATATCATCACCGAGAGA-ATGCAAATGACT
12965611 TCAGATATCA-CTACCGAGAGAATGCAAATG
1 TCAGATATCATC-ACCGAGAGAATGCAAATG
12965641 CAAATTCAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
32 1 0.04
33 25 0.93
34 1 0.04
ACGTcount: A:0.40, C:0.19, G:0.17, T:0.24
Consensus pattern (33 bp):
TCAGATATCATCACCGAGAGAATGCAAATGACT
Found at i:12965630 original size:81 final size:81
Alignment explanation
Indices: 12965533--12965708 Score: 244
Period size: 81 Copynumber: 2.2 Consensus size: 81
12965523 TTAATACTCG
* * * * *
12965533 GATATCACCACTGAGAGAATGTAAATGCAAATTCAAACTTTAAACTCAGATATCATCATCGAGAA
1 GATATCACCACCGAGAGAATGCAAATGCAAATTCAAACTTTAAACTCAAATATCACCACCGAGAA
* *
12965598 TATGCAAATGACTTCA
66 GATACAAATGACTTCA
* *
12965614 GATATCACTACCGAGAGAATGCAAATGCAAATTCAAATTTTAAACTCAAATATCACCACCGAGAA
1 GATATCACCACCGAGAGAATGCAAATGCAAATTCAAACTTTAAACTCAAATATCACCACCGAGAA
**
12965679 GATACAAATGACTTTG
66 GATACAAATGACTTCA
*
12965695 GATATCGCCACCGA
1 GATATCACCACCGA
12965709 AGGAAGCTCG
Statistics
Matches: 82, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 82 1.00
ACGTcount: A:0.41, C:0.20, G:0.14, T:0.24
Consensus pattern (81 bp):
GATATCACCACCGAGAGAATGCAAATGCAAATTCAAACTTTAAACTCAAATATCACCACCGAGAA
GATACAAATGACTTCA
Found at i:12965780 original size:228 final size:228
Alignment explanation
Indices: 12965383--12965873 Score: 666
Period size: 228 Copynumber: 2.2 Consensus size: 228
12965373 GCTTTAATAC
** *
12965383 TCAGATATCACTATCGAG-GAAATGCAAATGCAAATTCAAACTTTAAACTCGGATATCACTACCA
1 TCAGATATCACTATCGAGAG-AATGCAAATGCAAATTCAAACTTTAAACTCAAATATCACCACCA
* ** * * * * *
12965447 AGAATATGTAAATGACTTCGAATATCTCCACTAAAGGAAACTTAAATATCACTATCAAGAAAATG
65 AGAAGATACAAATGACTTCGAATATCGCCACCAAAGGAAACTCAAATATCACCATCAAAAAAATG
* * *
12965512 TAATTCAAGCTTTAATACTCGGATATCACCACTGAGAGAATGTAAATGCAAATTCAAACTTTAAA
130 CAATTCAAGCTTTAATACTCGAATATCACCACTGAGAGAATGCAAATGCAAATTCAAACTTTAAA
* *
12965577 CTC-AGATATCATCATCGAGAATATGCAAATGACT
195 CTCGA-ATATCACCATCGAGAAGATGCAAATGACT
* * *
12965611 TCAGATATCACTACCGAGAGAATGCAAATGCAAATTCAAATTTTAAACTCAAATATCACCACCGA
1 TCAGATATCACTATCGAGAGAATGCAAATGCAAATTCAAACTTTAAACTCAAATATCACCACCAA
* * * * *
12965676 GAAGATACAAATGACTTTGGATATCGCCACCGAAGGAAGCTCGAATATCACCATCAAAAAAATGC
66 GAAGATACAAATGACTTCGAATATCGCCACCAAAGGAAACTCAAATATCACCATCAAAAAAATGC
12965741 AATTCAAGCTTTAATACTCGAATATCACCA-TCGAGAGAATGCAAATGCAAATTCAAACTTTAAA
131 AATTCAAGCTTTAATACTCGAATATCACCACT-GAGAGAATGCAAATGCAAATTCAAACTTTAAA
12965805 CTCGAATATCACCATCGAGAAGATGCAAATGACT
195 CTCGAATATCACCATCGAGAAGATGCAAATGACT
** * * *
12965839 TTGGATATCACCATCGAGAAAATGC-AATTCAAATT
1 TCAGATATCACTATCGAGAGAATGCAAATGCAAATT
12965874 TTGATACTCG
Statistics
Matches: 230, Mismatches: 30, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
227 10 0.04
228 218 0.95
229 2 0.01
ACGTcount: A:0.42, C:0.20, G:0.13, T:0.25
Consensus pattern (228 bp):
TCAGATATCACTATCGAGAGAATGCAAATGCAAATTCAAACTTTAAACTCAAATATCACCACCAA
GAAGATACAAATGACTTCGAATATCGCCACCAAAGGAAACTCAAATATCACCATCAAAAAAATGC
AATTCAAGCTTTAATACTCGAATATCACCACTGAGAGAATGCAAATGCAAATTCAAACTTTAAAC
TCGAATATCACCATCGAGAAGATGCAAATGACT
Found at i:12965782 original size:42 final size:40
Alignment explanation
Indices: 12965715--12965949 Score: 110
Period size: 48 Copynumber: 5.5 Consensus size: 40
12965705 CCGAAGGAAG
* * *
12965715 CTCGAATATCACCATCAAAAAAATGCAATTCAAGCTTTAATA
1 CTCGAATATCACCATC-GAGAAATGCAATTCAAACTTTAA-A
12965757 CTCGAATATCACCATCGAGAGAATGCAAATGCAAATTCAAACTTTAAA
1 CTCGAATATCACCATC----G-A-G-AAATGC-AATTCAAACTTTAAA
* *
12965805 CTCGAATATCACCATCGAGAAGATGCAAAT--GAC-TT---
1 CTCGAATATCACCATCGAGAA-ATGCAATTCAAACTTTAAA
* * *
12965840 -T-GGATATCACCATCGAGAAAATGCAATTCAAATTTTGATA
1 CTCGAATATCACCATCGAG-AAATGCAATTCAAACTTT-AAA
* *
12965880 CTCGGATATCACCACTGAGAGAATGCAAATGCAAATTCAAACTTTAAA
1 CTCGAATATCACCA-T---CG-A-G-AAATGC-AATTCAAACTTTAAA
*
12965928 CTCAAATATCACCA-CTGAGAAA
1 CTCGAATATCACCATC-GAGAAA
12965950 GATGCAAATG
Statistics
Matches: 151, Mismatches: 16, Indels: 53
0.69 0.07 0.24
Matches are distributed among these distances:
33 22 0.15
34 3 0.02
35 1 0.01
36 2 0.01
38 2 0.01
39 2 0.01
41 9 0.06
42 33 0.22
43 3 0.02
44 2 0.01
45 1 0.01
46 2 0.01
47 1 0.01
48 44 0.29
49 24 0.16
ACGTcount: A:0.42, C:0.21, G:0.13, T:0.24
Consensus pattern (40 bp):
CTCGAATATCACCATCGAGAAATGCAATTCAAACTTTAAA
Found at i:12965808 original size:48 final size:48
Alignment explanation
Indices: 12965735--12965835 Score: 161
Period size: 48 Copynumber: 2.1 Consensus size: 48
12965725 ACCATCAAAA
*
12965735 AAATGCAATTCAAGCTTTAATACTCGAATATCACCATCGAG-AGAATGC
1 AAATGCAATTCAAACTTTAATACTCGAATATCACCATCGAGAAG-ATGC
12965783 AAATGCAAATTCAAACTTTAA-ACTCGAATATCACCATCGAGAAGATGC
1 AAATGC-AATTCAAACTTTAATACTCGAATATCACCATCGAGAAGATGC
12965831 AAATG
1 AAATG
12965836 ACTTTGGATA
Statistics
Matches: 50, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
48 35 0.70
49 15 0.30
ACGTcount: A:0.43, C:0.20, G:0.14, T:0.24
Consensus pattern (48 bp):
AAATGCAATTCAAACTTTAATACTCGAATATCACCATCGAGAAGATGC
Found at i:12965937 original size:48 final size:49
Alignment explanation
Indices: 12965858--12965959 Score: 136
Period size: 48 Copynumber: 2.1 Consensus size: 49
12965848 ACCATCGAGA
* * ** *
12965858 AAATGCAATTCAAATTTTGATACTCGGATATCACCACTGAGAGA-ATGC
1 AAATGCAATTCAAACTTTGAAACTCAAATATCACCACTGAGAAAGATGC
12965906 AAATGCAAATTCAAACTTT-AAACTCAAATATCACCACTGAGAAAGATGC
1 AAATGC-AATTCAAACTTTGAAACTCAAATATCACCACTGAGAAAGATGC
12965955 AAATG
1 AAATG
12965960 ACTTCGGATA
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
48 27 0.57
49 20 0.43
ACGTcount: A:0.43, C:0.19, G:0.14, T:0.25
Consensus pattern (49 bp):
AAATGCAATTCAAACTTTGAAACTCAAATATCACCACTGAGAAAGATGC
Found at i:12965939 original size:123 final size:124
Alignment explanation
Indices: 12965720--12965971 Score: 393
Period size: 123 Copynumber: 2.0 Consensus size: 124
12965710 GGAAGCTCGA
*
12965720 ATATCACCATCAAAAAAATGCAATTCAAGCTTTAATACTCGAATATCACCATCGAGAGAATGCAA
1 ATATCACCATCAAAAAAATGCAATTCAAACTTTAATACTCGAATATCACCATCGAGAGAATGCAA
* *
12965785 ATGCAAATTCAAACTTTAAACTCGAATATCACCA-TCGAG-AAGATGCAAATGACTTTGG
66 ATGCAAATTCAAACTTTAAACTCAAATATCACCACT-GAGAAAGATGCAAATGACTTCGG
* * * * *
12965843 ATATCACCATCGAGAAAATGCAATTCAAATTTTGATACTCGGATATCACCA-CTGAGAGAATGCA
1 ATATCACCATCAAAAAAATGCAATTCAAACTTTAATACTCGAATATCACCATC-GAGAGAATGCA
12965907 AATGCAAATTCAAACTTTAAACTCAAATATCACCACTGAGAAAGATGCAAATGACTTCGG
65 AATGCAAATTCAAACTTTAAACTCAAATATCACCACTGAGAAAGATGCAAATGACTTCGG
12965967 ATATC
1 ATATC
12965972 GCCCACCAAA
Statistics
Matches: 118, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
122 1 0.01
123 93 0.79
124 24 0.20
ACGTcount: A:0.42, C:0.20, G:0.13, T:0.25
Consensus pattern (124 bp):
ATATCACCATCAAAAAAATGCAATTCAAACTTTAATACTCGAATATCACCATCGAGAGAATGCAA
ATGCAAATTCAAACTTTAAACTCAAATATCACCACTGAGAAAGATGCAAATGACTTCGG
Found at i:12966442 original size:35 final size:35
Alignment explanation
Indices: 12966400--12966487 Score: 149
Period size: 35 Copynumber: 2.5 Consensus size: 35
12966390 ATGAGGATGC
12966400 AAATACAAATATCTTTTCCTAAAATGATGCACATG
1 AAATACAAATATCTTTTCCTAAAATGATGCACATG
* *
12966435 AAATACAAATGTCTTTTCTTAAAATGATGCACATG
1 AAATACAAATATCTTTTCCTAAAATGATGCACATG
*
12966470 AAATGCAAATATCTTTTC
1 AAATACAAATATCTTTTC
12966488 AAAAAATACC
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 49 1.00
ACGTcount: A:0.41, C:0.16, G:0.09, T:0.34
Consensus pattern (35 bp):
AAATACAAATATCTTTTCCTAAAATGATGCACATG
Found at i:12972308 original size:26 final size:26
Alignment explanation
Indices: 12972268--12972320 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
12972258 TAATGCACAC
* *
12972268 ATTTTTTTTATTTAAAAATTTTATTA
1 ATTTTTATTAATTAAAAATTTTATTA
* *
12972294 ATTTTTATTAATTAATAATTTTTTTA
1 ATTTTTATTAATTAAAAATTTTATTA
12972320 A
1 A
12972321 AACTTTGAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (26 bp):
ATTTTTATTAATTAAAAATTTTATTA
Found at i:12974320 original size:41 final size:42
Alignment explanation
Indices: 12974274--12974377 Score: 129
Period size: 42 Copynumber: 2.5 Consensus size: 42
12974264 TTGTGTATCA
* * *
12974274 TTAACTTTAGTTGTGAATTTAGAGTCCTA-TACTATGAATCG
1 TTAACTTTAGTTGTGAATTCAGAGTCCTACAACCATGAATCG
* * * * *
12974315 TTAACTCTAATTATGAATTCAGAGTCTTACAACCGTGAATCG
1 TTAACTTTAGTTGTGAATTCAGAGTCCTACAACCATGAATCG
12974357 TTAACTTTAGTTGTGAATTCA
1 TTAACTTTAGTTGTGAATTCA
12974378 AGCTTTTCAA
Statistics
Matches: 51, Mismatches: 11, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
41 24 0.47
42 27 0.53
ACGTcount: A:0.31, C:0.14, G:0.15, T:0.39
Consensus pattern (42 bp):
TTAACTTTAGTTGTGAATTCAGAGTCCTACAACCATGAATCG
Found at i:12974435 original size:62 final size:61
Alignment explanation
Indices: 12974360--12974498 Score: 181
Period size: 62 Copynumber: 2.2 Consensus size: 61
12974350 TGAATCGTTA
* *
12974360 ACTTTAGTTGTGAATTCAAGCT-TTTCAATTGTAAATCATTGAATCTGATATGAATATAGAG
1 ACTTTAGTTGTGAATTCAAGCTCATGCAATTGTAAATCATTG-ATCTGATATGAATATAGAG
* * * *
12974421 ACTTCTAGTTGTGAATTCAAGGTCATGCAATTGTAAATCATTGATTTGATGTGAATCTAGAG
1 ACTT-TAGTTGTGAATTCAAGCTCATGCAATTGTAAATCATTGATCTGATATGAATATAGAG
*
12974483 ACCTTAAGTTGTGAAT
1 A-CTTTAGTTGTGAAT
12974499 CCAGAGTCTA
Statistics
Matches: 68, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
61 4 0.06
62 44 0.65
63 20 0.29
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (61 bp):
ACTTTAGTTGTGAATTCAAGCTCATGCAATTGTAAATCATTGATCTGATATGAATATAGAG
Found at i:12974659 original size:63 final size:63
Alignment explanation
Indices: 12974582--12974800 Score: 231
Period size: 63 Copynumber: 3.5 Consensus size: 63
12974572 TTAAATCTGA
* *
12974582 TATGAATCTAGAGTCCTACAACTATGAATAGTTGAACCTGATATGAATCCAGAGACCTTTAGC
1 TATGAATCTAGAGTCCTACAACTATGAATAGTTGAATCTGATATGAATCCAGAGACCTTTAGT
* * * * ** * * * * * *
12974645 TATAAATCTAGAGTCTTACAATTGTGAACCGTTGAATCTAATATAAATCTAGAGACATATAAT
1 TATGAATCTAGAGTCCTACAACTATGAATAGTTGAATCTGATATGAATCCAGAGACCTTTAGT
* * * * * * * *
12974708 TGTGAATCTAGAGTCTTACAACTATGAATCGTTGAATTTGATGTGAACCCAAAGCCCTTTAGT
1 TATGAATCTAGAGTCCTACAACTATGAATAGTTGAATCTGATATGAATCCAGAGACCTTTAGT
*
12974771 TATGAATCTAGAATCCTACAACTATGAATA
1 TATGAATCTAGAGTCCTACAACTATGAATA
12974801 ATAAACTCTA
Statistics
Matches: 122, Mismatches: 34, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
63 122 1.00
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.32
Consensus pattern (63 bp):
TATGAATCTAGAGTCCTACAACTATGAATAGTTGAATCTGATATGAATCCAGAGACCTTTAGT
Found at i:12976935 original size:52 final size:52
Alignment explanation
Indices: 12976867--12976970 Score: 154
Period size: 52 Copynumber: 2.0 Consensus size: 52
12976857 TGGCAAGAAT
* * *
12976867 ACTTGTAAAAGAAGAATTCTAAAAGGAAAAAGATTCTTAATAGGCAAGTTTG
1 ACTTGCAAAAGAAGAATTCTAAAAGAAAAAAGATTCTTAATAAGCAAGTTTG
* * *
12976919 ACTTGCAAAAGAAGAATTCTAAGAGAAAAAATATTTTTAATAAGCAAGTTTG
1 ACTTGCAAAAGAAGAATTCTAAAAGAAAAAAGATTCTTAATAAGCAAGTTTG
12976971 TATGCTTATA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
52 46 1.00
ACGTcount: A:0.47, C:0.08, G:0.17, T:0.28
Consensus pattern (52 bp):
ACTTGCAAAAGAAGAATTCTAAAAGAAAAAAGATTCTTAATAAGCAAGTTTG
Found at i:12978691 original size:23 final size:22
Alignment explanation
Indices: 12978641--12978691 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 22
12978631 ATAGAAATAT
*
12978641 TAAATTTTAGAAATAATAAAAA
1 TAAATTTTAGAAATAAAAAAAA
12978663 TAAAATTTT-GAAATAAAAATAAGA
1 T-AAATTTTAGAAATAAAAA-AA-A
12978687 TAAAT
1 TAAAT
12978692 CCAATGATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
22 10 0.40
23 13 0.52
24 2 0.08
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.31
Consensus pattern (22 bp):
TAAATTTTAGAAATAAAAAAAA
Found at i:12981018 original size:21 final size:21
Alignment explanation
Indices: 12980988--12981055 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 21
12980978 AGGGGCATAC
12980988 AAAAAA-AAAAAAAAAAGAA-
1 AAAAAAGAAAAAAAAAAGAAG
*
12981007 AAGAAAAGAAAAGAAAAAGAAG
1 AA-AAAAGAAAAAAAAAAGAAG
** * *
12981029 AAAAAAGAGGAAAAAAACAAC
1 AAAAAAGAAAAAAAAAAGAAG
12981050 AAAAAA
1 AAAAAA
12981056 ATGATTATGA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
19 2 0.05
20 4 0.10
21 32 0.80
22 2 0.05
ACGTcount: A:0.84, C:0.03, G:0.13, T:0.00
Consensus pattern (21 bp):
AAAAAAGAAAAAAAAAAGAAG
Found at i:12981035 original size:10 final size:10
Alignment explanation
Indices: 12980988--12981056 Score: 68
Period size: 11 Copynumber: 6.5 Consensus size: 10
12980978 AGGGGCATAC
12980988 AAAAAAA-AA
1 AAAAAAAGAA
12980997 AAAAAAAGAA
1 AAAAAAAGAA
*
12981007 AAGAAAAGAA
1 AAAAAAAGAA
12981017 AAGAAAAAGAA
1 AA-AAAAAGAA
12981028 GAAAAAAGAGGAA
1 -AAAAAA-A-GAA
*
12981041 AAAAACAACAA
1 AAAAA-AAGAA
12981052 AAAAA
1 AAAAA
12981057 TGATTATGAC
Statistics
Matches: 51, Mismatches: 3, Indels: 10
0.80 0.05 0.16
Matches are distributed among these distances:
9 7 0.14
10 13 0.25
11 18 0.35
12 9 0.18
13 4 0.08
ACGTcount: A:0.84, C:0.03, G:0.13, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:12981041 original size:24 final size:24
Alignment explanation
Indices: 12980991--12981045 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
12980981 GGCATACAAA
12980991 AAAAAAAAAAAAAGAAAAGAAAAG
1 AAAAAAAAAAAAAGAAAAGAAAAG
* * *
12981015 AAAAGAAAAAGAAGAAAA-AAGAG
1 AAAAAAAAAAAAAGAAAAGAAAAG
*
12981038 GAAAAAAA
1 AAAAAAAA
12981046 CAACAAAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
23 10 0.38
24 16 0.62
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (24 bp):
AAAAAAAAAAAAAGAAAAGAAAAG
Found at i:12983592 original size:25 final size:26
Alignment explanation
Indices: 12983556--12983610 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 26
12983546 TCTAAAGAAA
* *
12983556 TTCAAAATCAATACATTTGTA-CATT
1 TTCAAAAGCAATACATTTGTATAATT
12983581 TTCAAAAGCAATACATTTGTATAATT
1 TTCAAAAGCAATACATTTGTATAATT
12983607 TTCA
1 TTCA
12983611 TTAAAATATC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 20 0.74
26 7 0.26
ACGTcount: A:0.40, C:0.15, G:0.05, T:0.40
Consensus pattern (26 bp):
TTCAAAAGCAATACATTTGTATAATT
Found at i:12985188 original size:12 final size:12
Alignment explanation
Indices: 12985173--12985203 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
12985163 TCATTTAATT
12985173 TAGGGTTAGGTG
1 TAGGGTTAGGTG
*
12985185 TAGGGTTAGGTT
1 TAGGGTTAGGTG
12985197 TAGGGTT
1 TAGGGTT
12985204 TAGGCCAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.45, T:0.39
Consensus pattern (12 bp):
TAGGGTTAGGTG
Found at i:12987070 original size:19 final size:19
Alignment explanation
Indices: 12987046--12987098 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 19
12987036 TAGGGAGTTT
12987046 TTTTTTTAATTTTTTTTAC
1 TTTTTTTAATTTTTTTTAC
** **
12987065 TTTTTTGGATTTTTTGAAC
1 TTTTTTTAATTTTTTTTAC
12987084 --TTTTTAATTTTTTTT
1 TTTTTTTAATTTTTTTT
12987099 GGATTATTTA
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
17 11 0.42
19 15 0.58
ACGTcount: A:0.15, C:0.04, G:0.06, T:0.75
Consensus pattern (19 bp):
TTTTTTTAATTTTTTTTAC
Found at i:12987116 original size:25 final size:27
Alignment explanation
Indices: 12987065--12987123 Score: 77
Period size: 25 Copynumber: 2.2 Consensus size: 27
12987055 TTTTTTTTAC
* *
12987065 TTTTTTGGATTTTTTGAACTTTTTAATT
1 TTTTTTGGATTATTT-AACTTTCTAATT
12987093 TTTTTTGGATTATTT-A-TTTCTAATT
1 TTTTTTGGATTATTTAACTTTCTAATT
12987118 TTTTTT
1 TTTTTT
12987124 TATTTTTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 14 0.48
26 1 0.03
28 14 0.48
ACGTcount: A:0.17, C:0.03, G:0.08, T:0.71
Consensus pattern (27 bp):
TTTTTTGGATTATTTAACTTTCTAATT
Found at i:12987358 original size:40 final size:41
Alignment explanation
Indices: 12987290--12987369 Score: 99
Period size: 40 Copynumber: 2.0 Consensus size: 41
12987280 TTTGCATTAA
* * **
12987290 AGTCAATGATTCACAATTGTAGGAC-TTTTATTCACATCAG
1 AGTCAAAGATTCACAACTAAAGGACTTTTTATTCACATCAG
* *
12987330 AGTCAAAGATTCACAACTAAAGGTCTTTTTATTCATATCA
1 AGTCAAAGATTCACAACTAAAGGACTTTTTATTCACATCA
12987370 AATTTGAAGG
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
40 20 0.61
41 13 0.39
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.35
Consensus pattern (41 bp):
AGTCAAAGATTCACAACTAAAGGACTTTTTATTCACATCAG
Found at i:12987543 original size:41 final size:41
Alignment explanation
Indices: 12987497--12987676 Score: 173
Period size: 41 Copynumber: 4.4 Consensus size: 41
12987487 AGAAGGCTCG
* ** *
12987497 AGATTCACATTAGAGTCAATGATTCACAGTTATAGGACTTT
1 AGATTCACATTAGAGTTAACAATTCATAGTTATAGGACTTT
* * *
12987538 AGATTCACATCAGAGTTAACGATTCATAGTTATAAGACTTT
1 AGATTCACATTAGAGTTAACAATTCATAGTTATAGGACTTT
* * * *
12987579 GGATTCATATTAGAGTTAACAATTCATAGTTGTAGGACTCT
1 AGATTCACATTAGAGTTAACAATTCATAGTTATAGGACTTT
* * * * * *
12987620 GGATTCACAGCTAGAG-TAAGTAATTCGTAGTTGTAGGGCTTT
1 AGATTCACA-TTAGAGTTAA-CAATTCATAGTTATAGGACTTT
*
12987662 AGATTCATATTAGAG
1 AGATTCACATTAGAG
12987677 ATTTAAAGGC
Statistics
Matches: 116, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
41 86 0.74
42 30 0.26
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.34
Consensus pattern (41 bp):
AGATTCACATTAGAGTTAACAATTCATAGTTATAGGACTTT
Found at i:12988401 original size:30 final size:30
Alignment explanation
Indices: 12988342--12988401 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
12988332 ATTTTGACAA
* * *
12988342 GCAAAGCTTCATTCCTAACCACACAATTGG
1 GCAAAACTGCATTCCTAACCAAACAATTGG
* *
12988372 GCAAAACTGCATTCCTAGCCAAACGATTGG
1 GCAAAACTGCATTCCTAACCAAACAATTGG
12988402 ATACCTAGTA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.22
Consensus pattern (30 bp):
GCAAAACTGCATTCCTAACCAAACAATTGG
Found at i:12989347 original size:37 final size:37
Alignment explanation
Indices: 12989305--12989385 Score: 128
Period size: 37 Copynumber: 2.2 Consensus size: 37
12989295 ATATAATAAA
* *
12989305 ATAAAA-CATAAAATATCTTTATTTAATATTATTACAT
1 ATAAAATC-TAAAATATATTTACTTAATATTATTACAT
12989342 ATAAAATCTAAAATATATTTACTTAATATTATTACAT
1 ATAAAATCTAAAATATATTTACTTAATATTATTACAT
12989379 ATAAAAT
1 ATAAAAT
12989386 TTGTTACACA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
37 40 0.98
38 1 0.02
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (37 bp):
ATAAAATCTAAAATATATTTACTTAATATTATTACAT
Found at i:12989398 original size:16 final size:16
Alignment explanation
Indices: 12989373--12989403 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
12989363 CTTAATATTA
*
12989373 TTACATATAAAATTTG
1 TTACACATAAAATTTG
12989389 TTACACATAAAATTT
1 TTACACATAAAATTT
12989404 ACTTAATGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.10, G:0.03, T:0.42
Consensus pattern (16 bp):
TTACACATAAAATTTG
Found at i:12989405 original size:42 final size:38
Alignment explanation
Indices: 12989313--12989428 Score: 108
Period size: 37 Copynumber: 2.9 Consensus size: 38
12989303 AAATAAAACA
** *
12989313 TAAAATATCTTTATTTAATATTATTACATATAAAA-TC
1 TAAAATAAATTTACTTAATATTATTACATATAAAATTC
* *
12989350 TAAAATATATTTACTTAATATTATTACATATAAAATTTGT
1 TAAAATAAATTTACTTAATATTATTACATATAAAA-TT-C
* * *
12989390 TACACATAAAATTTACTTAATGTTATTACACATATAAAT
1 TA-AAAT-AAATTTACTTAATATTATTACATATA-AAAT
12989429 GTAGAAGGTC
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
37 33 0.50
39 1 0.02
40 2 0.03
41 3 0.05
42 24 0.36
43 3 0.05
ACGTcount: A:0.46, C:0.09, G:0.02, T:0.44
Consensus pattern (38 bp):
TAAAATAAATTTACTTAATATTATTACATATAAAATTC
Found at i:12989769 original size:22 final size:22
Alignment explanation
Indices: 12989744--12990008 Score: 96
Period size: 22 Copynumber: 12.0 Consensus size: 22
12989734 AAGTGATAAC
*
12989744 TAATAACTTAATAGTAAATCAA
1 TAATAACTTAGTAGTAAATCAA
* * *
12989766 TAATAACTTCA-TAATGAATTAA
1 TAATAACTT-AGTAGTAAATCAA
** * * * *
12989788 GGATAATTTAATAGTAAATTAG
1 TAATAACTTAGTAGTAAATCAA
* * *
12989810 TAATAATTTTGTAGTAGAT-AA
1 TAATAACTTAGTAGTAAATCAA
*
12989831 TTGAA-AACATAGTAGTAAATCAA
1 -T-AATAACTTAGTAGTAAATCAA
* * * * *
12989854 TTATAACATAGTTGTGAGTGC-A
1 TAATAACTTAGTAGTAAAT-CAA
*
12989876 TAATAACATAGTAGTAAATCACA
1 TAATAACTTAGTAGTAAATCA-A
* **
12989899 -AATAACTTAATAAAAAAT-AA
1 TAATAACTTAGTAGTAAATCAA
* * *
12989919 GTGATAAACTTAGT-GTTAATCAT
1 -TAAT-AACTTAGTAGTAAATCAA
* * *
12989942 TAATAATTTAGTACTGAATCAA
1 TAATAACTTAGTAGTAAATCAA
* * *
12989964 TGAA-AACTTAGTAATAAATTAG
1 T-AATAACTTAGTAGTAAATCAA
* *
12989986 TGATAACTTAATAGTAAATCAA
1 TAATAACTTAGTAGTAAATCAA
12990008 T
1 T
12990009 TTTTGTTTAA
Statistics
Matches: 175, Mismatches: 52, Indels: 32
0.68 0.20 0.12
Matches are distributed among these distances:
20 1 0.01
21 13 0.07
22 144 0.82
23 17 0.10
ACGTcount: A:0.48, C:0.07, G:0.11, T:0.34
Consensus pattern (22 bp):
TAATAACTTAGTAGTAAATCAA
Found at i:12989780 original size:51 final size:51
Alignment explanation
Indices: 12989695--12989793 Score: 130
Period size: 51 Copynumber: 1.9 Consensus size: 51
12989685 TAAAATTAGT
*
12989695 ATAACTTAATAGTAAATCACCAATAATATAATAATCAA-TAAGTGATAACTA
1 ATAACTTAATAGTAAATCAACAATAATATAATAATCAATTAAG-GATAACTA
* * *
12989746 ATAACTTAATAGTAAATCAATAATAACT-TCATAATGAATTAAGGATAA
1 ATAACTTAATAGTAAATCAACAATAA-TATAATAATCAATTAAGGATAA
12989794 TTTAATAGTA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
51 37 0.88
52 5 0.12
ACGTcount: A:0.53, C:0.10, G:0.07, T:0.30
Consensus pattern (51 bp):
ATAACTTAATAGTAAATCAACAATAATATAATAATCAATTAAGGATAACTA
Found at i:12990101 original size:22 final size:22
Alignment explanation
Indices: 12990073--12990325 Score: 111
Period size: 22 Copynumber: 11.2 Consensus size: 22
12990063 TAGAAGTAAA
12990073 TAAATAAATGATAACTTAGTAG
1 TAAATAAATGATAACTTAGTAG
12990095 TAAATAAATGATAACTTAGTAG
1 TAAATAAATGATAACTTAGTAG
* * * **
12990117 TTAATCATTGGA-AACTTAAAAG
1 TAAATAAAT-GATAACTTAGTAG
* * *
12990139 TAAATAAGTG-CAATTTAGTAG
1 TAAATAAATGATAACTTAGTAG
* * * *
12990160 TAAATCATTGATAACTCAATAG
1 TAAATAAATGATAACTTAGTAG
* *
12990182 TTAATTAGTGATAATTGACAACTTAATAG
1 -TAA--A-T-A-AA-TGATAACTTAGTAG
* * *
12990211 TAAAT-TATGGATAATTTAGAAG
1 TAAATAAAT-GATAACTTAGTAG
* *
12990233 TAAATCAATGATAATTTTA-TAG
1 TAAATAAATGATAA-CTTAGTAG
* * *
12990255 TAAATAATTAATAACTTAATAG
1 TAAATAAATGATAACTTAGTAG
* * *
12990277 TAAATCAATGACAACATAGT-G
1 TAAATAAATGATAACTTAGTAG
** * *
12990298 ATAAATGCATAATAACATAGTAG
1 -TAAATAAATGATAACTTAGTAG
12990321 TAAAT
1 TAAAT
12990326 TATTAATAAT
Statistics
Matches: 173, Mismatches: 42, Indels: 32
0.70 0.17 0.13
Matches are distributed among these distances:
21 21 0.12
22 120 0.69
23 12 0.07
25 2 0.01
26 2 0.01
28 4 0.02
29 12 0.07
ACGTcount: A:0.47, C:0.07, G:0.13, T:0.33
Consensus pattern (22 bp):
TAAATAAATGATAACTTAGTAG
Found at i:12990198 original size:29 final size:29
Alignment explanation
Indices: 12990166--12990226 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
12990156 GTAGTAAATC
* *
12990166 ATTGATAACTCAATAGTTAATTA-GTGATA
1 ATTGACAACTCAATAGTAAATTATG-GATA
*
12990195 ATTGACAACTTAATAGTAAATTATGGATA
1 ATTGACAACTCAATAGTAAATTATGGATA
12990224 ATT
1 ATT
12990227 TAGAAGTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 27 0.96
30 1 0.04
ACGTcount: A:0.43, C:0.07, G:0.13, T:0.38
Consensus pattern (29 bp):
ATTGACAACTCAATAGTAAATTATGGATA
Found at i:12990340 original size:22 final size:22
Alignment explanation
Indices: 12990201--12990347 Score: 75
Period size: 22 Copynumber: 6.7 Consensus size: 22
12990191 GATAATTGAC
* * **
12990201 AACTTAATAGTAAATTATGGAT
1 AACTTAGTAGTAAATCATTAAT
* * * *
12990223 AATTTAGAAGTAAATCAATGAT
1 AACTTAGTAGTAAATCATTAAT
* *
12990245 AATTTTA-TAGTAAATAATTAAT
1 AA-CTTAGTAGTAAATCATTAAT
* * * *
12990267 AACTTAATAGTAAATCAATGAC
1 AACTTAGTAGTAAATCATTAAT
*
12990289 AACATAGT-GATAAATGCA-TAAT
1 AACTTAGTAG-TAAAT-CATTAAT
* *
12990311 AACATAGTAGTAAATTATTAAT
1 AACTTAGTAGTAAATCATTAAT
* *
12990333 AATTTAGTAATAAAT
1 AACTTAGTAGTAAAT
12990348 TATCACTAGC
Statistics
Matches: 96, Mismatches: 23, Indels: 12
0.73 0.18 0.09
Matches are distributed among these distances:
21 5 0.05
22 84 0.88
23 7 0.07
ACGTcount: A:0.50, C:0.05, G:0.10, T:0.35
Consensus pattern (22 bp):
AACTTAGTAGTAAATCATTAAT
Found at i:12990348 original size:22 final size:22
Alignment explanation
Indices: 12990308--12990370 Score: 72
Period size: 22 Copynumber: 2.9 Consensus size: 22
12990298 ATAAATGCAT
* * *
12990308 AATAACATAGTAGTAAATTATT
1 AATAACTTAGTAATAAATTATC
*
12990330 AATAATTTAGTAATAAATTATC
1 AATAACTTAGTAATAAATTATC
* *
12990352 ACTAGCTTAGTAATAAATT
1 AATAACTTAGTAATAAATT
12990371 GATAATTTAG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.48, C:0.06, G:0.08, T:0.38
Consensus pattern (22 bp):
AATAACTTAGTAATAAATTATC
Found at i:12990656 original size:22 final size:22
Alignment explanation
Indices: 12990631--12990687 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 22
12990621 TTTCGTTGTA
*
12990631 AATCACTGATAACATAGTAGTT
1 AATCAATGATAACATAGTAGTT
* * * *
12990653 AATCAGTGATAGCTTAGTTGTT
1 AATCAATGATAACATAGTAGTT
*
12990675 AATTAATGATAAC
1 AATCAATGATAAC
12990688 TTTTTTTTCT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.35
Consensus pattern (22 bp):
AATCAATGATAACATAGTAGTT
Found at i:12991098 original size:22 final size:22
Alignment explanation
Indices: 12991073--12991120 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
12991063 AAATTAAAAT
12991073 TATATGAATATCATATGCACAA
1 TATATGAATATCATATGCACAA
*
12991095 TATATGAATATCATATGCATAA
1 TATATGAATATCATATGCACAA
12991117 TATA
1 TATA
12991121 CAAAGCAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.46, C:0.10, G:0.08, T:0.35
Consensus pattern (22 bp):
TATATGAATATCATATGCACAA
Found at i:12991591 original size:11 final size:11
Alignment explanation
Indices: 12991571--12991623 Score: 52
Period size: 11 Copynumber: 4.8 Consensus size: 11
12991561 TAGCGATGCC
12991571 AATAAATTAAT
1 AATAAATTAAT
*
12991582 AATAACTTAAT
1 AATAAATTAAT
*
12991593 AATAAATCAAT
1 AATAAATTAAT
** *
12991604 GTTAATTTAAT
1 AATAAATTAAT
*
12991615 AGTAAATTA
1 AATAAATTA
12991624 TCGATAACTA
Statistics
Matches: 32, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
11 32 1.00
ACGTcount: A:0.55, C:0.04, G:0.04, T:0.38
Consensus pattern (11 bp):
AATAAATTAAT
Found at i:12991597 original size:22 final size:22
Alignment explanation
Indices: 12991571--12991761 Score: 134
Period size: 22 Copynumber: 8.7 Consensus size: 22
12991561 TAGCGATGCC
* *
12991571 AATAAATTAATAATAACTTAAT
1 AATAAATTAATGATAATTTAAT
* *
12991593 AATAAATCAATGTTAATTTAAT
1 AATAAATTAATGATAATTTAAT
* *
12991615 AGTAAATT-ATCGATAA-CTAACT
1 AATAAATTAAT-GATAATTTAA-T
* * *
12991637 AGTAAATTATTGATAATTTAGT
1 AATAAATTAATGATAATTTAAT
* *
12991659 AATAAATTAGTGATAATTTAGT
1 AATAAATTAATGATAATTTAAT
* * *
12991681 AGTAAATTATTGATAATTTAAC
1 AATAAATTAATGATAATTTAAT
* * *
12991703 AATAAATGATTGATAACTTAAT
1 AATAAATTAATGATAATTTAAT
* * * *
12991725 AGTAAATTATTTATAAGTTAAT
1 AATAAATTAATGATAATTTAAT
** *
12991747 TGTAAATCAATGATA
1 AATAAATTAATGATA
12991762 TAACATAGTA
Statistics
Matches: 136, Mismatches: 29, Indels: 8
0.79 0.17 0.05
Matches are distributed among these distances:
21 5 0.04
22 128 0.94
23 3 0.02
ACGTcount: A:0.48, C:0.04, G:0.09, T:0.39
Consensus pattern (22 bp):
AATAAATTAATGATAATTTAAT
Found at i:12991732 original size:66 final size:66
Alignment explanation
Indices: 12991583--12991753 Score: 191
Period size: 66 Copynumber: 2.6 Consensus size: 66
12991573 TAAATTAATA
* * * *
12991583 ATAACTTAATAATAAATCAATGTTAATTTAATAGTAAATTATCGATAACTAACTAGTAAATTATT
1 ATAACTTAATAATAAATTAATGATAATTTAATAGTAAATTATCGATAACTAACTAATAAATGATT
12991648 G
66 G
* * * * * *
12991649 ATAATTTAGTAATAAATTAGTGATAATTTAGTAGTAAATTATTGATAATTTAAC-AATAAATGAT
1 ATAACTTAATAATAAATTAATGATAATTTAATAGTAAATTATCGATAA-CTAACTAATAAATGAT
12991713 TG
65 TG
* * * * *
12991715 ATAACTTAATAGTAAATTATTTATAAGTTAATTGTAAAT
1 ATAACTTAATAATAAATTAATGATAATTTAATAGTAAAT
12991754 CAATGATATA
Statistics
Matches: 86, Mismatches: 18, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
66 82 0.95
67 4 0.05
ACGTcount: A:0.46, C:0.04, G:0.09, T:0.40
Consensus pattern (66 bp):
ATAACTTAATAATAAATTAATGATAATTTAATAGTAAATTATCGATAACTAACTAATAAATGATT
G
Found at i:12991753 original size:44 final size:44
Alignment explanation
Indices: 12991571--12991746 Score: 192
Period size: 44 Copynumber: 4.0 Consensus size: 44
12991561 TAGCGATGCC
* * * * * *
12991571 AATAAATTAATAATAACTTAATAATAAATCAATGTTAATTTAAT
1 AATAAATTATTGATAACTTAATAGTAAATTATTGATAATTTAAT
* * *
12991615 AGTAAATTATCGATAAC-TAACTAGTAAATTATTGATAATTTAGT
1 AATAAATTATTGATAACTTAA-TAGTAAATTATTGATAATTTAAT
* * * *
12991659 AATAAATTAGTGATAATTTAGTAGTAAATTATTGATAATTTAAC
1 AATAAATTATTGATAACTTAATAGTAAATTATTGATAATTTAAT
* * *
12991703 AATAAATGATTGATAACTTAATAGTAAATTATTTATAAGTTAAT
1 AATAAATTATTGATAACTTAATAGTAAATTATTGATAATTTAAT
12991747 TGTAAATCAA
Statistics
Matches: 107, Mismatches: 23, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
43 3 0.03
44 102 0.95
45 2 0.02
ACGTcount: A:0.48, C:0.04, G:0.09, T:0.40
Consensus pattern (44 bp):
AATAAATTATTGATAACTTAATAGTAAATTATTGATAATTTAAT
Found at i:13003262 original size:3 final size:3
Alignment explanation
Indices: 13003254--13003310 Score: 78
Period size: 3 Copynumber: 18.7 Consensus size: 3
13003244 GAAATTTTAT
* * *
13003254 TTA TTA TTA TTTA TTG TTG CTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
13003300 TTA TTA TTA TT
1 TTA TTA TTA TT
13003311 CTTTGTGTTG
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
3 46 0.94
4 3 0.06
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:13005442 original size:13 final size:14
Alignment explanation
Indices: 13005403--13005444 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
13005393 AAAATATCAT
*
13005403 AATAAATCATGTAGA
1 AATAAATCATGCA-A
13005418 AATAAA-CATGCAA
1 AATAAATCATGCAA
13005431 AA-AAATCATGCAA
1 AATAAATCATGCAA
13005444 A
1 A
13005445 TATATGATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
12 3 0.12
13 11 0.44
14 5 0.20
15 6 0.24
ACGTcount: A:0.60, C:0.12, G:0.10, T:0.19
Consensus pattern (14 bp):
AATAAATCATGCAA
Found at i:13005492 original size:19 final size:18
Alignment explanation
Indices: 13005470--13005558 Score: 83
Period size: 19 Copynumber: 4.7 Consensus size: 18
13005460 GTATATAACA
13005470 AATCATGCAAATAATAAT
1 AATCATGCAAATAATAAT
*
13005488 GAATCATTCAAATATATTAAT
1 -AATCATGCAAATA-A-TAAT
13005509 AA-CTATGCAAATAATCAAT
1 AATC-ATGCAAATAAT-AAT
* *
13005528 AAACATGCATAT-ATATAT
1 AATCATGCAAATAATA-AT
13005546 AATCATGCAAATA
1 AATCATGCAAATA
13005559 TATGCAATTA
Statistics
Matches: 58, Mismatches: 5, Indels: 14
0.75 0.06 0.18
Matches are distributed among these distances:
17 1 0.02
18 15 0.26
19 26 0.45
20 12 0.21
21 4 0.07
ACGTcount: A:0.52, C:0.12, G:0.06, T:0.30
Consensus pattern (18 bp):
AATCATGCAAATAATAAT
Found at i:13005590 original size:17 final size:17
Alignment explanation
Indices: 13005555--13005604 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
13005545 TAATCATGCA
13005555 AATA-TATGCAATTAAATT
1 AATATTATGCAA--AAATT
13005573 AA-ATTCATGCAAAAATT
1 AATATT-ATGCAAAAATT
*
13005590 AATATTTTGCAAAAA
1 AATATTATGCAAAAA
13005605 AAAATTAGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
17 16 0.57
18 6 0.21
19 6 0.21
ACGTcount: A:0.52, C:0.08, G:0.06, T:0.34
Consensus pattern (17 bp):
AATATTATGCAAAAATT
Found at i:13005762 original size:17 final size:18
Alignment explanation
Indices: 13005742--13005779 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
13005732 AAAAACTAAA
13005742 AAATA-AAAAACAAAAAT
1 AAATAGAAAAACAAAAAT
* *
13005759 AAATAGAAAAAGAAAAGT
1 AAATAGAAAAACAAAAAT
13005777 AAA
1 AAA
13005780 AACCTGCAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.79, C:0.03, G:0.08, T:0.11
Consensus pattern (18 bp):
AAATAGAAAAACAAAAAT
Found at i:13006842 original size:6 final size:6
Alignment explanation
Indices: 13006831--13006937 Score: 81
Period size: 6 Copynumber: 17.5 Consensus size: 6
13006821 CCAAAATAAC
* * * * *
13006831 ATTAAA ATTAAA ATTAAA ATCAAA ATCAAA ATCAAA A-TCAA ATCAAA
1 ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA ATTAAA
* * * * * *
13006878 ATTAAA ATAAAAA ATTAAA ATCAAA ACTAAA ATTCAAA ATCAAA TTTGAA
1 ATTAAA AT-TAAA ATTAAA ATTAAA ATTAAA ATT-AAA ATTAAA ATTAAA
13006928 ATTCAAA ATT
1 ATT-AAA ATT
13006938 TTGGCCTTTT
Statistics
Matches: 79, Mismatches: 18, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
5 3 0.04
6 61 0.77
7 15 0.19
ACGTcount: A:0.64, C:0.09, G:0.01, T:0.26
Consensus pattern (6 bp):
ATTAAA
Found at i:13006848 original size:12 final size:12
Alignment explanation
Indices: 13006831--13006917 Score: 104
Period size: 12 Copynumber: 7.2 Consensus size: 12
13006821 CCAAAATAAC
*
13006831 ATTAAAATTAAA
1 ATTAAAATCAAA
13006843 ATTAAAATCAAA
1 ATTAAAATCAAA
*
13006855 ATCAAAATCAAA
1 ATTAAAATCAAA
*
13006867 A-TCAAATCAAA
1 ATTAAAATCAAA
*
13006878 ATTAAAATAAAAA
1 ATTAAAAT-CAAA
13006891 ATTAAAATCAAA
1 ATTAAAATCAAA
*
13006903 ACTAAAATTCAAA
1 ATTAAAA-TCAAA
13006916 AT
1 AT
13006918 CAAATTTGAA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
11 9 0.14
12 37 0.59
13 17 0.27
ACGTcount: A:0.67, C:0.09, G:0.00, T:0.24
Consensus pattern (12 bp):
ATTAAAATCAAA
Found at i:13006875 original size:5 final size:6
Alignment explanation
Indices: 13006834--13006921 Score: 90
Period size: 6 Copynumber: 14.5 Consensus size: 6
13006824 AAATAACATT
* * *
13006834 AAAATT AAAATT AAAATC AAAATC AAAATC AAAATC -AAATC AAAATT
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC
* *
13006881 AAAATAA AAAATT AAAATC AAAA-C TAAAATTC AAAATC AAA
1 AAAAT-C AAAATC AAAATC AAAATC -AAAA-TC AAAATC AAA
13006922 TTTGAAATTC
Statistics
Matches: 72, Mismatches: 5, Indels: 10
0.83 0.06 0.11
Matches are distributed among these distances:
5 6 0.08
6 56 0.78
7 9 0.12
8 1 0.01
ACGTcount: A:0.68, C:0.10, G:0.00, T:0.22
Consensus pattern (6 bp):
AAAATC
Found at i:13006916 original size:19 final size:18
Alignment explanation
Indices: 13006833--13006936 Score: 90
Period size: 19 Copynumber: 5.7 Consensus size: 18
13006823 AAAATAACAT
*
13006833 TAAAATT-AAAATTAAAA
1 TAAAATTCAAAATCAAAA
13006850 TCAAAA-TCAAAATCAAAA
1 T-AAAATTCAAAATCAAAA
* *
13006868 TCAAA-TCAAAATTAAAA
1 TAAAATTCAAAATCAAAA
13006885 TAAAAAATT-AAAATCAAAA
1 T--AAAATTCAAAATCAAAA
*
13006904 CTAAAATTCAAAATCAAATT
1 -TAAAATTCAAAATCAAA-A
*
13006924 TGAAATTCAAAAT
1 TAAAATTCAAAAT
13006937 TTTGGCCTTT
Statistics
Matches: 72, Mismatches: 7, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
17 17 0.24
18 20 0.28
19 33 0.46
20 2 0.03
ACGTcount: A:0.64, C:0.10, G:0.01, T:0.25
Consensus pattern (18 bp):
TAAAATTCAAAATCAAAA
Found at i:13011192 original size:21 final size:20
Alignment explanation
Indices: 13011150--13011192 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
13011140 TGAATTTTTA
*
13011150 GAAAAAGAAAATTTTGATTT
1 GAAAAAGAAAATTTTGAATT
13011170 GAAAAAG-AAATTTGATGAATT
1 GAAAAAGAAAATTT--TGAATT
13011191 GA
1 GA
13011193 TGAATGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 6 0.30
20 7 0.35
21 7 0.35
ACGTcount: A:0.51, C:0.00, G:0.19, T:0.30
Consensus pattern (20 bp):
GAAAAAGAAAATTTTGAATT
Found at i:13013877 original size:10 final size:10
Alignment explanation
Indices: 13013864--13013888 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
13013854 TGTTGAATAA
13013864 AATTGGTAAC
1 AATTGGTAAC
13013874 AATTGGTAAC
1 AATTGGTAAC
13013884 AATTG
1 AATTG
13013889 ATATCAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.40, C:0.08, G:0.20, T:0.32
Consensus pattern (10 bp):
AATTGGTAAC
Found at i:13014900 original size:18 final size:18
Alignment explanation
Indices: 13014858--13014904 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
13014848 CAAATTTATA
*
13014858 TTTAAGTTTTGTCATGTC
1 TTTAAGTTTTGTCATATC
***
13014876 AAAAAGTTTTGTCATATC
1 TTTAAGTTTTGTCATATC
13014894 TTTAAGTTTTG
1 TTTAAGTTTTG
13014905 GTACTAAATA
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.26, C:0.09, G:0.15, T:0.51
Consensus pattern (18 bp):
TTTAAGTTTTGTCATATC
Found at i:13017235 original size:15 final size:15
Alignment explanation
Indices: 13017215--13017245 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
13017205 AATGGAAGTA
13017215 ATTAAGATTCTTTTT
1 ATTAAGATTCTTTTT
13017230 ATTAAGATTCTTTTT
1 ATTAAGATTCTTTTT
13017245 A
1 A
13017246 CTAAAATTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.29, C:0.06, G:0.06, T:0.58
Consensus pattern (15 bp):
ATTAAGATTCTTTTT
Found at i:13018260 original size:12 final size:12
Alignment explanation
Indices: 13018245--13018272 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
13018235 AATCATACCA
13018245 AAATCATGCAAT
1 AAATCATGCAAT
13018257 AAATCATGCAAT
1 AAATCATGCAAT
13018269 AAAT
1 AAAT
13018273 ATAAAATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.54, C:0.14, G:0.07, T:0.25
Consensus pattern (12 bp):
AAATCATGCAAT
Found at i:13018293 original size:42 final size:40
Alignment explanation
Indices: 13018198--13018283 Score: 106
Period size: 42 Copynumber: 2.1 Consensus size: 40
13018188 AATAGTTTTT
*
13018198 ATCATA-C-AAATCATGCAAAAATCTAGCAAATATAAAAA
1 ATCATACCAAAATCATGCAAAAATCTAGCAAAAATAAAAA
*
13018236 ATCATACCAAAATCATGCAATAAATC-ATGCAATAAATATAAA
1 ATCATACCAAAATCATGCAA-AAATCTA-GCAA-AAATAAAAA
13018278 ATCATA
1 ATCATA
13018284 TAACAATCAT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
38 6 0.15
39 1 0.02
40 12 0.29
41 9 0.22
42 13 0.32
ACGTcount: A:0.56, C:0.16, G:0.05, T:0.23
Consensus pattern (40 bp):
ATCATACCAAAATCATGCAAAAATCTAGCAAAAATAAAAA
Found at i:13018337 original size:14 final size:15
Alignment explanation
Indices: 13018308--13018340 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
13018298 AAACTATCAT
13018308 AATAAATCAAGCAAA
1 AATAAATCAAGCAAA
*
13018323 AATAAAT-ATGCAAA
1 AATAAATCAAGCAAA
13018337 AATA
1 AATA
13018341 TCATGTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.67, C:0.09, G:0.06, T:0.18
Consensus pattern (15 bp):
AATAAATCAAGCAAA
Found at i:13018398 original size:19 final size:19
Alignment explanation
Indices: 13018374--13018462 Score: 92
Period size: 19 Copynumber: 4.7 Consensus size: 19
13018364 GTATATAACA
13018374 AATCATGCAAATAA-AAAT
1 AATCATGCAAATAATAAAT
*
13018392 GAATCATGCAAATATATTAAT
1 -AATCATGCAAATA-ATAAAT
*
13018413 AATCATGCAAATAATCAAT
1 AATCATGCAAATAATAAAT
* * *
13018432 AAACATGTAAAT-ATATAT
1 AATCATGCAAATAATAAAT
*
13018450 AATTATGCAAATA
1 AATCATGCAAATA
13018463 TATGCAATTA
Statistics
Matches: 58, Mismatches: 9, Indels: 6
0.79 0.12 0.08
Matches are distributed among these distances:
18 13 0.22
19 28 0.48
20 14 0.24
21 3 0.05
ACGTcount: A:0.54, C:0.10, G:0.07, T:0.29
Consensus pattern (19 bp):
AATCATGCAAATAATAAAT
Found at i:13018480 original size:37 final size:39
Alignment explanation
Indices: 13018374--13018462 Score: 112
Period size: 39 Copynumber: 2.3 Consensus size: 39
13018364 GTATATAACA
* * *
13018374 AATCATGCAAATAA-AAATGAATCATGCAAATATATTAAT
1 AATCATGCAAATAATCAAT-AAACATGTAAATATATTAAT
13018413 AATCATGCAAATAATCAATAAACATGTAAATATA-T-AT
1 AATCATGCAAATAATCAATAAACATGTAAATATATTAAT
*
13018450 AATTATGCAAATA
1 AATCATGCAAATA
13018463 TATGCAATTA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
37 14 0.31
38 1 0.02
39 27 0.60
40 3 0.07
ACGTcount: A:0.54, C:0.10, G:0.07, T:0.29
Consensus pattern (39 bp):
AATCATGCAAATAATCAATAAACATGTAAATATATTAAT
Found at i:13018501 original size:17 final size:19
Alignment explanation
Indices: 13018458--13018509 Score: 67
Period size: 17 Copynumber: 2.9 Consensus size: 19
13018448 ATAATTATGC
13018458 AAATAT-ATGCAATTAAATT
1 AAATATCATGCAA-TAAATT
13018477 AAAT-TCATGCAA-AAA-T
1 AAATATCATGCAATAAATT
13018493 AAATATCATGCAATAAA
1 AAATATCATGCAATAAA
13018510 AAAAAACTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
16 5 0.17
17 11 0.37
18 4 0.13
19 10 0.33
ACGTcount: A:0.56, C:0.10, G:0.06, T:0.29
Consensus pattern (19 bp):
AAATATCATGCAATAAATT
Found at i:13018636 original size:15 final size:13
Alignment explanation
Indices: 13018598--13018683 Score: 70
Period size: 13 Copynumber: 6.8 Consensus size: 13
13018588 AATCAACAAT
* *
13018598 TAAAAATAATAAA
1 TAAAAACAAAAAA
13018611 TAAAAACAAAAAA
1 TAAAAACAAAAAA
* *
13018624 TAGAAACACAAAA
1 TAAAAACAAAAAA
**
13018637 T-AGGA-AAAAAA
1 TAAAAACAAAAAA
*
13018648 TAAAAA-ATAAAA
1 TAAAAACAAAAAA
*
13018660 TAAAAATAAAAAA
1 TAAAAACAAAAAA
*
13018673 TAAAAAGAAAA
1 TAAAAACAAAA
13018684 GCAAAAACCT
Statistics
Matches: 58, Mismatches: 13, Indels: 4
0.77 0.17 0.05
Matches are distributed among these distances:
11 6 0.10
12 14 0.24
13 38 0.66
ACGTcount: A:0.79, C:0.03, G:0.05, T:0.13
Consensus pattern (13 bp):
TAAAAACAAAAAA
Found at i:13018654 original size:7 final size:7
Alignment explanation
Indices: 13018642--13018678 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
13018632 CAAAATAGGA
13018642 AAAAAAT
1 AAAAAAT
13018649 AAAAAAT
1 AAAAAAT
13018656 --AAAAT
1 AAAAAAT
13018661 -AAAAAT
1 AAAAAAT
13018667 AAAAAAT
1 AAAAAAT
13018674 AAAAA
1 AAAAA
13018679 GAAAAGCAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 5 0.18
6 5 0.18
7 18 0.64
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
AAAAAAT
Found at i:13018683 original size:18 final size:18
Alignment explanation
Indices: 13018600--13018677 Score: 77
Period size: 18 Copynumber: 4.2 Consensus size: 18
13018590 TCAACAATTA
*
13018600 AAAATAATAAATAAAAACAA
1 AAAATAA-AAATAAAAA-AT
* * *
13018620 AAAATAGAAACACAAAAT
1 AAAATAAAAATAAAAAAT
*
13018638 AGGAA-AAAAATAAAAAAT
1 A-AAATAAAAATAAAAAAT
13018656 AAAATAAAAATAAAAAAT
1 AAAATAAAAATAAAAAAT
13018674 AAAA
1 AAAA
13018678 AGAAAAGCAA
Statistics
Matches: 47, Mismatches: 9, Indels: 6
0.76 0.15 0.10
Matches are distributed among these distances:
17 2 0.04
18 30 0.64
19 9 0.19
20 6 0.13
ACGTcount: A:0.79, C:0.04, G:0.04, T:0.13
Consensus pattern (18 bp):
AAAATAAAAATAAAAAAT
Found at i:13018689 original size:18 final size:18
Alignment explanation
Indices: 13018643--13018690 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
13018633 AAAATAGGAA
*
13018643 AAAAATAAAAAATAAAAT
1 AAAAAGAAAAAATAAAAT
*
13018661 AAAAATAAAAAATAAAA-
1 AAAAAGAAAAAATAAAAT
*
13018678 AGAAAAGCAAAAA
1 A-AAAAGAAAAAA
13018691 CCTACGATCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
17 1 0.04
18 26 0.96
ACGTcount: A:0.83, C:0.02, G:0.04, T:0.10
Consensus pattern (18 bp):
AAAAAGAAAAAATAAAAT
Found at i:13019728 original size:16 final size:16
Alignment explanation
Indices: 13019710--13019740 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
13019700 CCTTTGGATT
13019710 TTTTTATG-TTTTTTG
1 TTTTTATGCTTTTTTG
13019725 TTTTTATGCTTTTTTG
1 TTTTTATGCTTTTTTG
13019741 ACTTTTTGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.06, C:0.03, G:0.13, T:0.77
Consensus pattern (16 bp):
TTTTTATGCTTTTTTG
Found at i:13019792 original size:14 final size:13
Alignment explanation
Indices: 13019767--13019801 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
13019757 AACATCAAAG
*
13019767 TTAAAATAAAAAA
1 TTAAAATTAAAAA
13019780 TTAAAATTAAAAA
1 TTAAAATTAAAAA
13019793 TTGAAAATT
1 TT-AAAATT
13019802 TTGGGCTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 14 0.70
14 6 0.30
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (13 bp):
TTAAAATTAAAAA
Found at i:13025376 original size:4 final size:4
Alignment explanation
Indices: 13025367--13025411 Score: 63
Period size: 4 Copynumber: 11.2 Consensus size: 4
13025357 TGAGAGCACT
* * *
13025367 TATA TATA TATA TATA TATA TATA TTTA TACA TATA TATA CATA T
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA T
13025412 TGTGGATTTA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (4 bp):
TATA
Found at i:13025378 original size:6 final size:6
Alignment explanation
Indices: 13025367--13025411 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
13025357 TGAGAGCACT
* * *
13025367 TATATA TATATA TATATA TATATA TTTATA CATATA TATACA TAT
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TAT
13025412 TGTGGATTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (6 bp):
TATATA
Found at i:13025382 original size:10 final size:10
Alignment explanation
Indices: 13025367--13025411 Score: 63
Period size: 10 Copynumber: 4.5 Consensus size: 10
13025357 TGAGAGCACT
13025367 TATATATATA
1 TATATATATA
13025377 TATATATATA
1 TATATATATA
*
13025387 TATATTTATA
1 TATATATATA
*
13025397 CATATATATA
1 TATATATATA
*
13025407 CATAT
1 TATAT
13025412 TGTGGATTTA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 32 1.00
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (10 bp):
TATATATATA
Found at i:13027792 original size:17 final size:17
Alignment explanation
Indices: 13027772--13027804 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
13027762 TCTTTTAGAA
13027772 TTCTTCTTCTA-CAAGTC
1 TTCTTC-TCTATCAAGTC
13027789 TTCTTCTCTATCAAGT
1 TTCTTCTCTATCAAGT
13027805 AATATCTAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.18, C:0.27, G:0.06, T:0.48
Consensus pattern (17 bp):
TTCTTCTCTATCAAGTC
Found at i:13028704 original size:16 final size:16
Alignment explanation
Indices: 13028671--13028723 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
13028661 GCAGAGTACC
*
13028671 AAAA-ATTATATTTCAT
1 AAAATATTAT-TTTAAT
13028687 AAAATATTATTTTAAT
1 AAAATATTATTTTAAT
* * *
13028703 AAATTATTTTTTTAAA
1 AAAATATTATTTTAAT
13028719 AAAAT
1 AAAAT
13028724 TCAATTTTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
16 26 0.84
17 5 0.16
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
AAAATATTATTTTAAT
Found at i:13029589 original size:17 final size:20
Alignment explanation
Indices: 13029569--13029615 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 20
13029559 TTAATCAATC
13029569 TTTTATTTG-TTATTA-T-T
1 TTTTATTTGATTATTAGTAT
*
13029586 TTTT-TTAGATTATTAGTAT
1 TTTTATTTGATTATTAGTAT
13029605 TTTTATTTGAT
1 TTTTATTTGAT
13029616 AATTTAATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
16 3 0.12
17 10 0.42
18 1 0.04
19 5 0.21
20 5 0.21
ACGTcount: A:0.21, C:0.00, G:0.09, T:0.70
Consensus pattern (20 bp):
TTTTATTTGATTATTAGTAT
Found at i:13029745 original size:3 final size:3
Alignment explanation
Indices: 13029737--13029773 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
13029727 ATATTTTTAT
* *
13029737 TTA TTA TTA TTA TTA TTA TTA TTA TTG TCA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
13029774 ATTTGTGTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:13030659 original size:108 final size:108
Alignment explanation
Indices: 13030532--13030804 Score: 390
Period size: 108 Copynumber: 2.5 Consensus size: 108
13030522 TTTTTTTTTA
* *
13030532 TTCACCGCTTGCTTCCCTTTACATCTTTTGCTGCTGCCAGTTTCTTGGTATCCTGCTACTTCTCC
1 TTCACTGCTTGCTTTCCTTTAC-TCTTTTGCTGCTGCCAGTTTCTTGGTATCCTGCTACTTCTCC
13030597 ACTCCTTTCTTCTGCTCTCTTTTCTTCTGA-GTTTT-CTTGGTTC
65 ACTCCTTTCTTCTGCTCTCTTTTCTTCT-ACGTTTTCCTTGGTTC
* *
13030640 TTCACTGCTTGCTTTCCTTTACTGCTTTTACTGCTACCAGTTTCTTGGTATCCTGCTACTTCTCC
1 TTCACTGCTTGCTTTCCTTTACT-CTTTTGCTGCTGCCAGTTTCTTGGTATCCTGCTACTTCTCC
* * *
13030705 ACTCCTTTCTTCTGCTTTCTTTTCTTGTACGTTTTCCTTGGTTT
65 ACTCCTTTCTTCTGCTCTCTTTTCTTCTACGTTTTCCTTGGTTC
* * *
13030749 TTCACTGCTTGC-TTCGCTTTACCGCTTTTGTTGCTGCCAGTTTCTTGATATCCTGC
1 TTCACTGCTTGCTTTC-CTTTA-CTCTTTTGCTGCTGCCAGTTTCTTGGTATCCTGC
13030805 CTTTCCAGTT
Statistics
Matches: 148, Mismatches: 12, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
107 2 0.01
108 93 0.63
109 52 0.35
110 1 0.01
ACGTcount: A:0.08, C:0.30, G:0.14, T:0.49
Consensus pattern (108 bp):
TTCACTGCTTGCTTTCCTTTACTCTTTTGCTGCTGCCAGTTTCTTGGTATCCTGCTACTTCTCCA
CTCCTTTCTTCTGCTCTCTTTTCTTCTACGTTTTCCTTGGTTC
Found at i:13031757 original size:51 final size:51
Alignment explanation
Indices: 13031651--13031806 Score: 204
Period size: 51 Copynumber: 3.0 Consensus size: 51
13031641 TATAACCATA
* * * * *
13031651 CAAACTTGCCCATTAAGAATCCCTTTCCTCTTAGAATTCTTCTCCTGTAAAT
1 CAAACTTGCCTATTAAGAAT-CCTTTTCTCTTAGAATTCTTCTCTTGCAAGT
* *
13031703 CAAACTTGCCTATTAAGAATCCTTTTCTTTTAGAAATCTTCTCTTGCAAGT
1 CAAACTTGCCTATTAAGAATCCTTTTCTCTTAGAATTCTTCTCTTGCAAGT
* * *
13031754 CAAACTTACCTATTAAGAATTCTCTTTCTCTTAGAATTCTTCTTTTGCAAGT
1 CAAACTTGCCTATTAAGAATCCT-TTTCTCTTAGAATTCTTCTCTTGCAAGT
13031806 C
1 C
13031807 TTGTTGTCCA
Statistics
Matches: 91, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
51 46 0.51
52 45 0.49
ACGTcount: A:0.27, C:0.24, G:0.08, T:0.40
Consensus pattern (51 bp):
CAAACTTGCCTATTAAGAATCCTTTTCTCTTAGAATTCTTCTCTTGCAAGT
Found at i:13031802 original size:52 final size:52
Alignment explanation
Indices: 13031651--13031806 Score: 199
Period size: 52 Copynumber: 3.0 Consensus size: 52
13031641 TATAACCATA
* * * * *
13031651 CAAACTTGCCCATTAAGAA-TCCCTTTCCTCTTAGAATTCTTCTCCTGTAAAT
1 CAAACTTGCCTATTAAGAATTCTCTTT-CTCTTAGAATTCTTCTCTTGCAAGT
* * *
13031703 CAAACTTGCCTATTAAGAATCCT-TTTCTTTTAGAAATCTTCTCTTGCAAGT
1 CAAACTTGCCTATTAAGAATTCTCTTTCTCTTAGAATTCTTCTCTTGCAAGT
* *
13031754 CAAACTTACCTATTAAGAATTCTCTTTCTCTTAGAATTCTTCTTTTGCAAGT
1 CAAACTTGCCTATTAAGAATTCTCTTTCTCTTAGAATTCTTCTCTTGCAAGT
13031806 C
1 C
13031807 TTGTTGTCCA
Statistics
Matches: 89, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
51 41 0.46
52 47 0.53
53 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.08, T:0.40
Consensus pattern (52 bp):
CAAACTTGCCTATTAAGAATTCTCTTTCTCTTAGAATTCTTCTCTTGCAAGT
Found at i:13032109 original size:23 final size:25
Alignment explanation
Indices: 13032083--13032134 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
13032073 CCCATGTCTC
*
13032083 AAACC-AT-GCACTTCCCACATCTT
1 AAACCTATAGCACTTCCCACATCTG
* *
13032106 AAACCTTTAGCTCTTCCCACATCTG
1 AAACCTATAGCACTTCCCACATCTG
13032131 AAAC
1 AAAC
13032135 TTTTAGCTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 5 0.21
24 1 0.04
25 18 0.75
ACGTcount: A:0.31, C:0.37, G:0.06, T:0.27
Consensus pattern (25 bp):
AAACCTATAGCACTTCCCACATCTG
Found at i:13032122 original size:25 final size:25
Alignment explanation
Indices: 13032093--13032142 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
13032083 AAACCATGCA
*
13032093 CTTCCCACATCTTAAACCTTTAGCT
1 CTTCCCACATCTGAAACCTTTAGCT
*
13032118 CTTCCCACATCTGAAACTTTTAGCT
1 CTTCCCACATCTGAAACCTTTAGCT
13032143 TTTCTACGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.24, C:0.34, G:0.06, T:0.36
Consensus pattern (25 bp):
CTTCCCACATCTGAAACCTTTAGCT
Found at i:13032179 original size:25 final size:25
Alignment explanation
Indices: 13032141--13032213 Score: 92
Period size: 25 Copynumber: 2.9 Consensus size: 25
13032131 AAACTTTTAG
* *
13032141 CTTTTCTACGTCTTGAACCTTCGACT
1 CTTTTC-ACATCTTGAACCTTCAACT
*
13032167 CTTTTCACATCTTGAATCTTCAACT
1 CTTTTCACATCTTGAACCTTCAACT
* *
13032192 CTTCTCACATTTTGAACCTTCA
1 CTTTTCACATCTTGAACCTTCA
13032214 GCTTTGATAC
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
25 35 0.85
26 6 0.15
ACGTcount: A:0.21, C:0.30, G:0.07, T:0.42
Consensus pattern (25 bp):
CTTTTCACATCTTGAACCTTCAACT
Found at i:13032496 original size:29 final size:29
Alignment explanation
Indices: 13032454--13032519 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 29
13032444 CTGCCACTAG
*
13032454 GCCCTACACC-CCACCCTTCTGACCACAAT
1 GCCCTAC-CCTCCACCCCTCTGACCACAAT
* *
13032483 GCCTTACCCTCCACCCCTCTGACCACCAT
1 GCCCTACCCTCCACCCCTCTGACCACAAT
13032512 GCCCTACC
1 GCCCTACC
13032520 ACCCATCCTC
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 2 0.06
29 30 0.94
ACGTcount: A:0.20, C:0.55, G:0.08, T:0.18
Consensus pattern (29 bp):
GCCCTACCCTCCACCCCTCTGACCACAAT
Found at i:13035263 original size:12 final size:12
Alignment explanation
Indices: 13035246--13035272 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
13035236 AAAAAATCTC
13035246 AAAACACTAAAA
1 AAAACACTAAAA
13035258 AAAACACTAAAA
1 AAAACACTAAAA
13035270 AAA
1 AAA
13035273 TTTTAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.78, C:0.15, G:0.00, T:0.07
Consensus pattern (12 bp):
AAAACACTAAAA
Found at i:13045824 original size:48 final size:49
Alignment explanation
Indices: 13045768--13045894 Score: 134
Period size: 49 Copynumber: 2.6 Consensus size: 49
13045758 CTATTGAGAA
13045768 GAGC-TTTTCCAA-AAGAGA-TTTTAAAATCATTGAGACTCTGCTAAGAG
1 GAGCTTTTTCCAAGAAGA-ATTTTTAAAATCATTGAGACTCTGCTAAGAG
* ** * * *
13045815 GAGCTTTTTCCAAGATGAATTTTTAAAATTGTTGAGTCTCTGCTGAGAT
1 GAGCTTTTTCCAAGAAGAATTTTTAAAATCATTGAGACTCTGCTAAGAG
*
13045864 GAGCTTTTTTTCAAGATGAGAATTTTTAAAA
1 GAGC-TTTTTCCAAGA--AGAATTTTTAAAA
13045895 ATTGTTAAGC
Statistics
Matches: 66, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
47 4 0.06
48 9 0.14
49 31 0.47
50 10 0.15
52 12 0.18
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.37
Consensus pattern (49 bp):
GAGCTTTTTCCAAGAAGAATTTTTAAAATCATTGAGACTCTGCTAAGAG
Found at i:13045912 original size:53 final size:51
Alignment explanation
Indices: 13045724--13045965 Score: 225
Period size: 50 Copynumber: 4.9 Consensus size: 51
13045714 AAAAGGAAGC
* * ** *
13045724 TTTTTC-AGATGAG-A-TTTTAAAAGTTATTGAGCATCTATTGAGAAGAGC-
1 TTTTTCAAGATGAGAATTTTTAAAA-TTGTTGAGCCTCTGCTGAGATGAGCT
* * ** * * *
13045772 TTTTCCAA-AAGAG-A-TTTTAAAATCATTGAGACTCTGCTAAGAGGAGCT
1 TTTTTCAAGATGAGAATTTTTAAAATTGTTGAGCCTCTGCTGAGATGAGCT
* *
13045820 TTTTCCAAGAT--GAATTTTTAAAATTGTTGAGTCTCTGCTGAGATGAGCTT
1 TTTTTCAAGATGAGAATTTTTAAAATTGTTGAGCCTCTGCTGAGATGAGC-T
* * *
13045870 TTTTTCAAGATGAGAATTTTTAAAAATTGTTAAGCCTATGCTGAGATGAACT
1 TTTTTCAAGATGAGAATTTTT-AAAATTGTTGAGCCTCTGCTGAGATGAGCT
*
13045922 TTTTTCAAGATGA-AATTTTTAAAGTTGTTGAGCCTCTGCTGAGA
1 TTTTTCAAGATGAGAATTTTTAAAATTGTTGAGCCTCTGCTGAGA
13045966 GCAGTCTTTT
Statistics
Matches: 162, Mismatches: 23, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
47 19 0.12
48 27 0.17
49 30 0.19
50 32 0.20
51 7 0.04
52 22 0.14
53 25 0.15
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.38
Consensus pattern (51 bp):
TTTTTCAAGATGAGAATTTTTAAAATTGTTGAGCCTCTGCTGAGATGAGCT
Found at i:13045965 original size:50 final size:50
Alignment explanation
Indices: 13045786--13045965 Score: 227
Period size: 50 Copynumber: 3.6 Consensus size: 50
13045776 CCAAAAGAGA
** * * * *
13045786 TTTTAAAATCATTGAGACTCTGCTAAGAGGAGCTTTTTCCAAGATG-AAT
1 TTTTAAAATTGTTGAGCCTCTGCTGAGATGAGCTTTTTTCAAGATGAAAT
*
13045835 TTTTAAAATTGTTGAGTCTCTGCTGAGATGAGCTTTTTTTCAAGATGAGAAT
1 TTTTAAAATTGTTGAGCCTCTGCTGAGATGAGC-TTTTTTCAAGATGA-AAT
* * *
13045887 TTTTAAAAATTGTTAAGCCTATGCTGAGATGAACTTTTTTCAAGATGAAAT
1 TTTT-AAAATTGTTGAGCCTCTGCTGAGATGAGCTTTTTTCAAGATGAAAT
*
13045938 TTTTAAAGTTGTTGAGCCTCTGCTGAGA
1 TTTTAAAATTGTTGAGCCTCTGCTGAGA
13045966 GCAGTCTTTT
Statistics
Matches: 114, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
49 28 0.25
50 33 0.29
51 7 0.06
52 21 0.18
53 25 0.22
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.39
Consensus pattern (50 bp):
TTTTAAAATTGTTGAGCCTCTGCTGAGATGAGCTTTTTTCAAGATGAAAT
Found at i:13045976 original size:50 final size:50
Alignment explanation
Indices: 13045723--13046009 Score: 207
Period size: 50 Copynumber: 5.7 Consensus size: 50
13045713 GAAAAGGAAG
* * * ** *
13045723 CTTTTTC-AGATGAGA-TTTTAAAAGTTATTGAGCATCTATTGAGAAGAG-
1 CTTTTTCAAGATGAAATTTTTAAAA-TTGTTGAGCCTCTGCTGAGATGAGT
* * * ** * * *
13045771 CTTTTCCAA-AAGAGA-TTTTAAAATCATTGAGACTCTGCTAAGAGGAG-
1 CTTTTTCAAGATGAAATTTTTAAAATTGTTGAGCCTCTGCTGAGATGAGT
*
13045818 CTTTTTCCAAGATG-AATTTTTAAAATTGTTGAGTCTCTGCTGAGATGAGCT
1 CTTTTT-CAAGATGAAATTTTTAAAATTGTTGAGCCTCTGCTGAGATGAG-T
* * * *
13045869 TTTTTTCAAGATGAGAATTTTTAAAAATTGTTAAGCCTATGCTGAGATGA-A
1 CTTTTTCAAGATGA-AATTTTT-AAAATTGTTGAGCCTCTGCTGAGATGAGT
*
13045920 CTTTTTTCAAGATGAAATTTTTAAAGTTGTTGAGCCTCTGCTGAGA-GCAGT
1 C-TTTTTCAAGATGAAATTTTTAAAATTGTTGAGCCTCTGCTGAGATG-AGT
* * *
13045971 CTTTTTC-AGATTTTAAATTTTCAAAAGTTGTCGAGCCTC
1 CTTTTTCAAGA--TGAAATTTTTAAAA-TTGTTGAGCCTC
13046010 AAGTGAGAGG
Statistics
Matches: 193, Mismatches: 31, Indels: 26
0.77 0.12 0.10
Matches are distributed among these distances:
47 22 0.11
48 23 0.12
49 34 0.18
50 35 0.18
51 24 0.12
52 31 0.16
53 24 0.12
ACGTcount: A:0.30, C:0.13, G:0.19, T:0.38
Consensus pattern (50 bp):
CTTTTTCAAGATGAAATTTTTAAAATTGTTGAGCCTCTGCTGAGATGAGT
Found at i:13046241 original size:19 final size:19
Alignment explanation
Indices: 13046219--13046258 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
13046209 ATACAAAAAT
13046219 AATACC-AAAAATAATACAA
1 AATACCAAAAAAT-ATACAA
13046238 AATACCAAAAAATATACAA
1 AATACCAAAAAATATACAA
13046257 AA
1 AA
13046259 AAAATTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.70, C:0.15, G:0.00, T:0.15
Consensus pattern (19 bp):
AATACCAAAAAATATACAA
Done.