Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold180
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: 544442
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.32
Warning! 40629 characters in sequence are not A, C, G, or T
File 1 of 4
Found at i:8790 original size:21 final size:19
Alignment explanation
Indices: 8744--8797 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
8734 TAGCGATACA
8744 TTGTATCGATACAACACTT
1 TTGTATCGATACAACACTT
* *
8763 ATGTATCGATACAATTACTGT
1 TTGTATCGATACAA-CACT-T
*
8784 TTGTATCAATACAA
1 TTGTATCGATACAA
8798 ATTGTTGAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 13 0.45
20 3 0.10
21 13 0.45
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.37
Consensus pattern (19 bp):
TTGTATCGATACAACACTT
Found at i:13301 original size:77 final size:77
Alignment explanation
Indices: 13174--13328 Score: 310
Period size: 77 Copynumber: 2.0 Consensus size: 77
13164 AGGAAACTAA
13174 ATTTACCCCAAGATTGAAGTGTCAATTTGATAAAAAGCTTAAATCCAAGCTAATCCTCATTGATT
1 ATTTACCCCAAGATTGAAGTGTCAATTTGATAAAAAGCTTAAATCCAAGCTAATCCTCATTGATT
13239 GAGGCTAGCTTG
66 GAGGCTAGCTTG
13251 ATTTACCCCAAGATTGAAGTGTCAATTTGATAAAAAGCTTAAATCCAAGCTAATCCTCATTGATT
1 ATTTACCCCAAGATTGAAGTGTCAATTTGATAAAAAGCTTAAATCCAAGCTAATCCTCATTGATT
13316 GAGGCTAGCTTG
66 GAGGCTAGCTTG
13328 A
1 A
13329 ACTTAACTTG
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 78 1.00
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (77 bp):
ATTTACCCCAAGATTGAAGTGTCAATTTGATAAAAAGCTTAAATCCAAGCTAATCCTCATTGATT
GAGGCTAGCTTG
Found at i:14413 original size:52 final size:52
Alignment explanation
Indices: 14343--14463 Score: 215
Period size: 52 Copynumber: 2.3 Consensus size: 52
14333 GAAAATTTAT
*
14343 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
* *
14395 TTGCATGTATCGATACATTTGATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
14447 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
14464 AAGATCGGTG
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:14476 original size:52 final size:52
Alignment explanation
Indices: 14343--14483 Score: 196
Period size: 52 Copynumber: 2.7 Consensus size: 52
14333 GAAAATTTAT
*
14343 CTGCATGTATCGATACATTTA-ATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TAAGATAGTGTATCGATACATCTGGGCAAATTTGC
* ** *
14395 TTGCATGTATCGATACATTTGATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGC
*
14447 CTGCATGTATCGATACA-AAGATCGGTGTATCGATACA
1 CTGCATGTATCGATACATAAGAT-AGTGTATCGATACA
14484 ATGTATCGAT
Statistics
Matches: 79, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
51 5 0.06
52 74 0.94
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (52 bp):
CTGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:14490 original size:13 final size:13
Alignment explanation
Indices: 14472--14496 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14462 CAAAGATCGG
14472 TGTATCGATACAA
1 TGTATCGATACAA
14485 TGTATCGATACA
1 TGTATCGATACA
14497 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:14577 original size:13 final size:13
Alignment explanation
Indices: 14559--14583 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14549 ACAAAAAATA
14559 TGTATCGATACAT
1 TGTATCGATACAT
14572 TGTATCGATACA
1 TGTATCGATACA
14584 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:14579 original size:32 final size:33
Alignment explanation
Indices: 14538--14603 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 33
14528 AGTAGCTTAA
14538 ATTGTATCGATACAA-AAAATATGTATCGATAC
1 ATTGTATCGATACAACAAAATATGTATCGATAC
***
14570 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAACAAAATATGTATCGATAC
14603 A
1 A
14604 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.39, C:0.14, G:0.12, T:0.35
Consensus pattern (33 bp):
ATTGTATCGATACAACAAAATATGTATCGATAC
Found at i:15672 original size:49 final size:49
Alignment explanation
Indices: 15463--16303 Score: 1141
Period size: 49 Copynumber: 17.7 Consensus size: 49
15453 AAAAGGATGT
* *
15463 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
*
15515 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
15558 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTG-AGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
15606 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
15655 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
15704 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
15753 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
15802 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
15851 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
15900 CGATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
15943 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
15992 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
16041 CAATATGCTGATTCAAGGTCAGCTATATTGGGCTT----A--AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
16084 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
16133 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
16176 CAATGTGCTGATTCAAGGCCAGCTATATTGGGCTT----A--AAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
16219 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
16268 CAATATGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 CAATATGCTGATTCAAGGCCAGCTACATTGGACTTA
16304 GAAGGGTTGC
Statistics
Matches: 714, Mismatches: 50, Indels: 53
0.87 0.06 0.06
Matches are distributed among these distances:
43 196 0.27
45 3 0.00
47 3 0.00
48 48 0.07
49 432 0.61
52 32 0.04
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (49 bp):
CAATATGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
Found at i:16347 original size:33 final size:33
Alignment explanation
Indices: 16303--16423 Score: 210
Period size: 33 Copynumber: 3.7 Consensus size: 33
16293 TATTGGGCTT
16303 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
*
16336 AGAATGGTTGCCACCGACTTGTGTGGGCTTT-G
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
16368 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
16401 AAGAA-GGTTGCCACCGACTTGTG
1 -AGAAGGGTTGCCACCGACTTGTG
16424 GACTTAAAAG
Statistics
Matches: 84, Mismatches: 2, Indels: 4
0.93 0.02 0.04
Matches are distributed among these distances:
32 31 0.37
33 49 0.58
34 4 0.05
ACGTcount: A:0.19, C:0.19, G:0.35, T:0.27
Consensus pattern (33 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
Found at i:16384 original size:65 final size:63
Alignment explanation
Indices: 16296--16423 Score: 222
Period size: 65 Copynumber: 2.0 Consensus size: 63
16286 CCAGCTATAT
16296 TGGGCTTAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG-AGAATGGTTGCCACCGACTTGTG
1 TGGGCTTAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAGAA-GGTTGCCACCGACTTGTG
16359 TGGGCTTTGAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAGAAGGTTGCCACCGACTTGTG
1 TGGGC-TT-AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAGAAGGTTGCCACCGACTTGTG
16424 GACTTAAAAG
Statistics
Matches: 62, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
63 5 0.08
64 2 0.03
65 51 0.82
66 4 0.06
ACGTcount: A:0.18, C:0.19, G:0.35, T:0.28
Consensus pattern (63 bp):
TGGGCTTAGAAGGGTTGCCACCGACTTGTGTGGGCTTTAGAAGAAGGTTGCCACCGACTTGTG
Found at i:16480 original size:37 final size:35
Alignment explanation
Indices: 16409--16692 Score: 331
Period size: 33 Copynumber: 8.3 Consensus size: 35
16399 AGAAGAAGGT
* * *
16409 TGCCACCGACTTGTGGAC-TTAAAAGG-AAAAGAG
1 TGCCACGGAGTTGTGGGCTTTAAAAGGAAAAAGAG
*
16442 TGCCACGTAGTTGTGGGCTTTGAAAAGGGAAAAAGAG
1 TGCCACGGAGTTGTGGGCTTT-AAAA-GGAAAAAGAG
*
16479 TGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAG-G
1 TGCCACGGAGTTGTGGGCTTTAAAAGGAAAAAGAG
16513 TGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAG
1 TGCCACGGAGTTGTGGGCTTT-AAAA-GGAAAAAGAG
** *
16550 TGCCATAGAGTTGTGGGCTTTAAAAAGAAAAA-AG
1 TGCCACGGAGTTGTGGGCTTTAAAAGGAAAAAGAG
* * *
16584 TGCCATGGAGTTGTGGAC-TTAAAAGGAACAAG-G
1 TGCCACGGAGTTGTGGGCTTTAAAAGGAAAAAGAG
16617 TGCCACGGAGTTGTGGGCTTT-AAA-GAAAAA-A-
1 TGCCACGGAGTTGTGGGCTTTAAAAGGAAAAAGAG
*
16648 TGCCACTGAGTTGTGGGCTTTGAAAA-GAAAAAG-G
1 TGCCACGGAGTTGTGGGCTTT-AAAAGGAAAAAGAG
16682 TGCCACGGAGT
1 TGCCACGGAGT
16693 CATGGACTTT
Statistics
Matches: 218, Mismatches: 19, Indels: 27
0.83 0.07 0.10
Matches are distributed among these distances:
31 20 0.09
32 5 0.02
33 54 0.25
34 54 0.25
35 21 0.10
36 17 0.08
37 47 0.22
ACGTcount: A:0.34, C:0.13, G:0.32, T:0.21
Consensus pattern (35 bp):
TGCCACGGAGTTGTGGGCTTTAAAAGGAAAAAGAG
Found at i:16516 original size:71 final size:69
Alignment explanation
Indices: 16404--16692 Score: 351
Period size: 71 Copynumber: 4.2 Consensus size: 69
16394 GCTTTAGAAG
* * * * *
16404 AAGGTTGCCACCGACTTGTGGAC-TT-AAAAGGAAAAGAGTGCCACGTAGTTGTGGGCTTTGAAA
1 AAGG-TGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAG-GTGCCACGGAGTTGTGGGCTTTGAAA
16467 AGGGAAA
64 A-GGAAA
16474 AAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
1 AAG-GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
16539 GGGAAA
65 -GGAAA
** * * *
16545 AAGAGTGCCATAGAGTTGTGGGCTTTAAAAAGAAAAAAGTGCCATGGAGTTGTGGAC-TT-AAAA
1 AAG-GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA
*
16608 GGAAC
65 GGAAA
* *
16613 AAGGTGCCACGGAGTTGTGGGCTTT--AAAGAAAAA-ATGCCACTGAGTTGTGGGCTTTGAAAA-
1 AAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAG
16674 GAAA
66 GAAA
16678 AAGGTGCCACGGAGT
1 AAGGTGCCACGGAGT
16693 CATGGACTTT
Statistics
Matches: 196, Mismatches: 18, Indels: 15
0.86 0.08 0.07
Matches are distributed among these distances:
64 15 0.08
65 29 0.15
66 4 0.02
67 20 0.10
68 7 0.04
69 4 0.02
70 20 0.10
71 87 0.44
72 10 0.05
ACGTcount: A:0.34, C:0.12, G:0.32, T:0.21
Consensus pattern (69 bp):
AAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAG
GAAA
Found at i:16707 original size:31 final size:32
Alignment explanation
Indices: 16399--16704 Score: 236
Period size: 34 Copynumber: 9.0 Consensus size: 32
16389 TGTGGGCTTT
* * * *
16399 AGAAGAAGGTTGCCACCGACTTGTGGACTTAAA
1 AGAAAAAGG-TGCCACGGAGTTGTGGACTTTAA
* * *
16432 AGGAAAAGAGTGCCACGTAGTTGTGGGCTTTGAAA
1 AGAAAAAG-GTGCCACGGAGTTGTGGACTTT--AA
*
16467 AGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA
1 A--GAAAAAG-GTGCCACGGAGTTGTGGACTTT--AA
*
16504 AGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAA
1 AGAAAAAGGTGCCACGGAGTTGTGGACTTT--AA
** *
16538 AGGGAAAAAGAGTGCCATAGAGTTGTGGGCTTTAAAA
1 A--GAAAAAG-GTGCCACGGAGTTGTGGACTTT--AA
* * *
16575 AGAAAAAAGTGCCATGGAGTTGTGGACTTAAA
1 AGAAAAAGGTGCCACGGAGTTGTGGACTTTAA
* *
16607 AGGAACAAGGTGCCACGGAGTTGTGGGCTTTAA
1 A-GAAAAAGGTGCCACGGAGTTGTGGACTTTAA
* * *
16640 AGAAAAA-ATGCCACTGAGTTGTGGGCTTTGAAA
1 AGAAAAAGGTGCCACGGAGTTGTGGACTTT--AA
**
16673 AGAAAAAGGTGCCACGGAGTCATGGACTTTAA
1 AGAAAAAGGTGCCACGGAGTTGTGGACTTTAA
16705 GAAGGTATTT
Statistics
Matches: 230, Mismatches: 31, Indels: 25
0.80 0.11 0.09
Matches are distributed among these distances:
31 20 0.09
32 10 0.04
33 58 0.25
34 63 0.27
35 16 0.07
36 7 0.03
37 56 0.24
ACGTcount: A:0.35, C:0.12, G:0.32, T:0.21
Consensus pattern (32 bp):
AGAAAAAGGTGCCACGGAGTTGTGGACTTTAA
Found at i:25006 original size:52 final size:52
Alignment explanation
Indices: 24936--25056 Score: 215
Period size: 52 Copynumber: 2.3 Consensus size: 52
24926 GAAAATTTAT
*
24936 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
* *
24988 TTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
25040 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
25057 AAGATCGGTG
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 65 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:25069 original size:52 final size:52
Alignment explanation
Indices: 24936--25076 Score: 187
Period size: 52 Copynumber: 2.7 Consensus size: 52
24926 GAAAATTTAT
*
24936 CTGCATGTATCGATACATTTA-ATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TAAGATAGTGTATCGATACATCTGGGCAAATTTGC
* *** *
24988 TTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGC
*
25040 CTGCATGTATCGATACA-AAGATCGGTGTATCGATACA
1 CTGCATGTATCGATACATAAGAT-AGTGTATCGATACA
25077 ATGTATCGAT
Statistics
Matches: 78, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
51 4 0.05
52 74 0.95
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (52 bp):
CTGCATGTATCGATACATAAGATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:25083 original size:13 final size:13
Alignment explanation
Indices: 25065--25089 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25055 CAAAGATCGG
25065 TGTATCGATACAA
1 TGTATCGATACAA
25078 TGTATCGATACA
1 TGTATCGATACA
25090 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:25149 original size:13 final size:13
Alignment explanation
Indices: 25131--25157 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
25121 AGTAGCTTAA
25131 ATTGTATCGATAC
1 ATTGTATCGATAC
25144 ATTGTATCGATAC
1 ATTGTATCGATAC
25157 A
1 A
25158 ACATTTTATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (13 bp):
ATTGTATCGATAC
Found at i:26895 original size:2 final size:2
Alignment explanation
Indices: 26888--26917 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
26878 AGAATAGAAT
26888 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
26918 CATACATACG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:30844 original size:2 final size:2
Alignment explanation
Indices: 30837--30865 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
30827 TTTATTGTAA
30837 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
30866 ACGACGTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:31406 original size:16 final size:16
Alignment explanation
Indices: 31387--31425 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
31377 AAAAACTAAA
31387 TATTTTTAAAAAAATT
1 TATTTTTAAAAAAATT
*
31403 TATTTAT-AAAAAATT
1 TATTTTTAAAAAAATT
*
31418 TACTTTTA
1 TATTTTTA
31426 CTTAGCACCA
Statistics
Matches: 19, Mismatches: 3, Indels: 2
0.79 0.12 0.08
Matches are distributed among these distances:
15 13 0.68
16 6 0.32
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (16 bp):
TATTTTTAAAAAAATT
Found at i:32886 original size:213 final size:215
Alignment explanation
Indices: 32515--32948 Score: 633
Period size: 213 Copynumber: 2.0 Consensus size: 215
32505 TCTTCTCAAC
* * * *
32515 AATTTCAGCTGTTGAGGTAGAGCCTACAGTCTTTTCTTCGGCTTGCTTCGAGGTTGTTGCAATGG
1 AATTTCAGCTGTAGAGGTAGAGCCTACACTCTTTTCTTCGGCTTGCTTCGAGGTAGGTGCAATGG
* * *
32580 CTGCAGCAGCTTTTTTTTGTGTTTCTTCTTGTAGCTTTGATGGCTGCAAGGTCCCAACCTTTGGA
66 C-GCAGCAGCTTTCTTTTGTGCTTCTTCTTGTAGCTTTGATGGCTGCAAGCTCCCAACCTTTGGA
* * *
32645 GGAGCATTTTGTTGAGGACCCATTTCCACCGTTGATGCTTTAGGCTGATCATCAGTCATGGCTTT
130 GGAGCAATTTGTTGAGGACCCATTTCCACCATTGATGCTTCAGGCTGATCATCAGTCATGGCTTT
* *
32710 CTGGGGGGTTTGGGGAGGCGG
195 CTGAGGGGTTTGAGGAGGCGG
* *
32731 AATTTCAGCTGTAGAGGTAGAGCCTGCACTCTTTTCTTCGGCTTGC-TCTATGGTAGGTGCAAT-
1 AATTTCAGCTGTAGAGGTAGAGCCTACACTCTTTTCTTCGGCTTGCTTCGA-GGTAGGTGCAATG
* *
32794 G-GCAGCAGCTTTCTTTTGTGCTTCTTCTTGTAGCTTTGGTGGCTGCAAAGCT-TCAACCTTTGG
65 GCGCAGCAGCTTTCTTTTGTGCTTCTTCTTGTAGCTTTGATGGCTGC-AAGCTCCCAACCTTTGG
* *
32857 AGGAGCAATTTGTTGAGGACCCCTTTCCACCATTGATGCTTCAGGCTGATCATCAGTTATGGCTT
129 AGGAGCAATTTGTTGAGGACCCATTTCCACCATTGATGCTTCAGGCTGATCATCAGTCATGGCTT
* *
32922 TTTGAGGGGTTTGAGGAGGCTG
194 TCTGAGGGGTTTGAGGAGGCGG
32944 AATTT
1 AATTT
32949 TGTCGTCTTT
Statistics
Matches: 196, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
213 135 0.69
214 4 0.02
215 4 0.02
216 53 0.27
ACGTcount: A:0.17, C:0.20, G:0.28, T:0.36
Consensus pattern (215 bp):
AATTTCAGCTGTAGAGGTAGAGCCTACACTCTTTTCTTCGGCTTGCTTCGAGGTAGGTGCAATGG
CGCAGCAGCTTTCTTTTGTGCTTCTTCTTGTAGCTTTGATGGCTGCAAGCTCCCAACCTTTGGAG
GAGCAATTTGTTGAGGACCCATTTCCACCATTGATGCTTCAGGCTGATCATCAGTCATGGCTTTC
TGAGGGGTTTGAGGAGGCGG
Found at i:34745 original size:26 final size:26
Alignment explanation
Indices: 34691--34758 Score: 68
Period size: 26 Copynumber: 2.6 Consensus size: 26
34681 GAATTAAAGA
*
34691 TAAATTTAAAAT-ATTTAATATACACT
1 TAAA-TTAAAATAATTTAATATAAACT
*
34717 TAAATTAAAATAATTTAATA-AGAATT
1 TAAATTAAAATAATTTAATATA-AACT
*
34743 TAATTTAATAATAATT
1 TAAATTAA-AATAATT
34759 AAAGATAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
25 8 0.22
26 21 0.58
27 7 0.19
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (26 bp):
TAAATTAAAATAATTTAATATAAACT
Found at i:34748 original size:16 final size:16
Alignment explanation
Indices: 34727--34758 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
34717 TAAATTAAAA
34727 TAATTTAATAAGAATT
1 TAATTTAATAAGAATT
*
34743 TAATTTAATAATAATT
1 TAATTTAATAAGAATT
34759 AAAGATAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (16 bp):
TAATTTAATAAGAATT
Found at i:34980 original size:28 final size:28
Alignment explanation
Indices: 34946--35018 Score: 121
Period size: 28 Copynumber: 2.6 Consensus size: 28
34936 ACCTTAAAAA
34946 GCTAAGTGGATGTTTTCAAATAAAAAGG
1 GCTAAGTGGATGTTTTCAAATAAAAAGG
* *
34974 GCTAAGTGGATGTTTTTAAATCAAAAGG
1 GCTAAGTGGATGTTTTCAAATAAAAAGG
35002 GCTAAGTGGAT-TTTTCA
1 GCTAAGTGGATGTTTTCA
35019 TTAAACCTCA
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 5 0.12
28 37 0.88
ACGTcount: A:0.34, C:0.08, G:0.25, T:0.33
Consensus pattern (28 bp):
GCTAAGTGGATGTTTTCAAATAAAAAGG
Found at i:35775 original size:21 final size:22
Alignment explanation
Indices: 35751--35792 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
35741 GAATGTGTCG
35751 AAATCTATATATAAT-ATGTAA
1 AAATCTATATATAATAATGTAA
*
35772 AAATTTATATATAATAATGTA
1 AAATCTATATATAATAATGTA
35793 TTCTAACGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.52, C:0.02, G:0.05, T:0.40
Consensus pattern (22 bp):
AAATCTATATATAATAATGTAA
Found at i:36047 original size:31 final size:31
Alignment explanation
Indices: 35981--36049 Score: 79
Period size: 31 Copynumber: 2.2 Consensus size: 31
35971 AGCAATTTTG
*
35981 AACACAATAAGAATATGAAAAAAATAATAAA
1 AACACAATAACAATATGAAAAAAATAATAAA
* *
36012 AACACAAT-ACAATAT-AAAATAATACTAACA
1 AACACAATAACAATATGAAAAAAATAATAA-A
36042 CAACACAA
1 -AACACAA
36050 ATATTATTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 11 0.33
30 7 0.21
31 15 0.45
ACGTcount: A:0.67, C:0.14, G:0.03, T:0.16
Consensus pattern (31 bp):
AACACAATAACAATATGAAAAAAATAATAAA
Found at i:38497 original size:20 final size:19
Alignment explanation
Indices: 38471--38543 Score: 74
Period size: 20 Copynumber: 3.7 Consensus size: 19
38461 CTGCCAGTTT
**
38471 CATGTATCGATACAATTGTG
1 CATGTATCGATACAA-TGAA
*
38491 TATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
* *
38510 CATGTATCGATACAAAGCAT
1 CATGTATCGATACAATG-AA
*
38530 GATGTATCGATACA
1 CATGTATCGATACA
38544 TTGGAATACG
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
19 17 0.38
20 28 0.62
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:38535 original size:39 final size:40
Alignment explanation
Indices: 38471--38561 Score: 107
Period size: 39 Copynumber: 2.3 Consensus size: 40
38461 CTGCCAGTTT
*
38471 CATGTATCGATACAATTGTGTATGTATCGATACAAT-GAA
1 CATGTATCGATACAATAGTGTATGTATCGATACAATGGAA
*
38510 CATGTATCGATACAA-AGCATG-ATGTATCGATACATTGGAA
1 CATGTATCGATACAATAG--TGTATGTATCGATACAATGGAA
* *
38550 TACGTATCGATA
1 CATGTATCGATA
38562 TTTTCAAGGG
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
38 1 0.02
39 29 0.64
40 15 0.33
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.31
Consensus pattern (40 bp):
CATGTATCGATACAATAGTGTATGTATCGATACAATGGAA
Found at i:40926 original size:31 final size:31
Alignment explanation
Indices: 40888--40962 Score: 80
Period size: 31 Copynumber: 2.4 Consensus size: 31
40878 GTTGATGATT
* *
40888 TTGATGAAAAATG-AAATGTTTTGAAGTAAAA
1 TTGATGAAAAATGAAAAAGATTTGAAG-AAAA
** *
40919 TTGATGAAATTTGAAAAAGATTTGAAGAAAT
1 TTGATGAAAAATGAAAAAGATTTGAAGAAAA
40950 TTGATGAACAAAT
1 TTGATGAA-AAAT
40963 CGTTAGGGTT
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
31 22 0.63
32 13 0.37
ACGTcount: A:0.48, C:0.01, G:0.19, T:0.32
Consensus pattern (31 bp):
TTGATGAAAAATGAAAAAGATTTGAAGAAAA
Found at i:44975 original size:15 final size:15
Alignment explanation
Indices: 44957--44991 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
44947 TGAGTCAACT
44957 TCATCATTATCATCA
1 TCATCATTATCATCA
*
44972 TCATCATTATCTTCA
1 TCATCATTATCATCA
44987 TCATC
1 TCATC
44992 TTTGATGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.43
Consensus pattern (15 bp):
TCATCATTATCATCA
Found at i:46620 original size:33 final size:33
Alignment explanation
Indices: 46578--46641 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
46568 TTTGGGACAA
*
46578 TGTATCGATACAAT-TATTCATGTATCGATACAT
1 TGTATCGATACAATGT-GTCATGTATCGATACAT
*
46611 TGTATCGATATAATGTGTCATGTATCGATAC
1 TGTATCGATACAATGTGTCATGTATCGATAC
46642 TAACAGTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 27 0.96
34 1 0.04
ACGTcount: A:0.31, C:0.14, G:0.16, T:0.39
Consensus pattern (33 bp):
TGTATCGATACAATGTGTCATGTATCGATACAT
Found at i:47121 original size:58 final size:58
Alignment explanation
Indices: 47059--47176 Score: 130
Period size: 58 Copynumber: 2.0 Consensus size: 58
47049 ATCATCTTTT
* * * *
47059 ATAAAACTACATCTAAGTCCCTAAATCATAGAAAATAA-TCTAAATGACAACAATATTC
1 ATAAAACTACACCAAAGTCCATAAATCATAGAAAATAACT-TAAATGACAACAAAATTC
* * * * * *
47117 ATAAAATTGCACCAAAGTCTATAAATTATGGAAAATAACTTAAATGACATCAAAATTC
1 ATAAAACTACACCAAAGTCCATAAATCATAGAAAATAACTTAAATGACAACAAAATTC
47175 AT
1 AT
47177 GAAATAACAT
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
58 48 0.98
59 1 0.02
ACGTcount: A:0.50, C:0.16, G:0.07, T:0.27
Consensus pattern (58 bp):
ATAAAACTACACCAAAGTCCATAAATCATAGAAAATAACTTAAATGACAACAAAATTC
Found at i:47192 original size:58 final size:58
Alignment explanation
Indices: 47080--47209 Score: 131
Period size: 58 Copynumber: 2.3 Consensus size: 58
47070 TCTAAGTCCC
* ** *
47080 TAAATCATAGAAAATAATCTAAATGACAACAATATTCATAAAATTGCACCAAAGTCTA
1 TAAATCATAGAAAATAATCTAAATGACAACAAAATTCATAAAATAACACAAAAGTCTA
* * * * *
47138 TAAATTATGGAAAATAA-CTTAAATGACATCAAAATTCATGAAATAACATAAAAGTCCT-
1 TAAATCATAGAAAATAATC-TAAATGACAACAAAATTCATAAAATAACACAAAAGT-CTA
*
47196 TAAGTCAT-GAAAAT
1 TAAATCATAGAAAAT
47210 GACTAAAACG
Statistics
Matches: 59, Mismatches: 11, Indels: 5
0.79 0.15 0.07
Matches are distributed among these distances:
57 7 0.12
58 50 0.85
59 2 0.03
ACGTcount: A:0.52, C:0.13, G:0.08, T:0.27
Consensus pattern (58 bp):
TAAATCATAGAAAATAATCTAAATGACAACAAAATTCATAAAATAACACAAAAGTCTA
Found at i:47307 original size:58 final size:57
Alignment explanation
Indices: 47144--47335 Score: 174
Period size: 58 Copynumber: 3.3 Consensus size: 57
47134 TCTATAAATT
* * * *
47144 ATGGAAAATAACTTAAATGACATCAAAATTCATGAAATAACATAAAAGTCCTTAAGTC
1 ATGGAAAATGAC-TAAATGACATAAAAATACATGAAATAACATAAAAATCCTTAAGTC
* * * *
47202 AT-GAAAATGACTAAAACGACA-AAAAGACTATATGAAATATCACAAAAATCCTTAAGTC
1 ATGGAAAATGACT-AAATGACATAAAA-A-TACATGAAATAACATAAAAATCCTTAAGTC
* ** *
47260 ATGGAAAATGACTAAGATGACATAAAAATGCATGAAATGGCATAAAAAACC-TAAGTC
1 ATGGAAAATGACTAA-ATGACATAAAAATACATGAAATAACATAAAAATCCTTAAGTC
* * *
47317 TTGAAAAATAACATAAATG
1 ATGGAAAATGAC-TAAATG
47336 CTTGGAGTTG
Statistics
Matches: 109, Mismatches: 18, Indels: 15
0.77 0.13 0.11
Matches are distributed among these distances:
56 4 0.04
57 34 0.31
58 51 0.47
59 16 0.15
60 4 0.04
ACGTcount: A:0.52, C:0.13, G:0.12, T:0.22
Consensus pattern (57 bp):
ATGGAAAATGACTAAATGACATAAAAATACATGAAATAACATAAAAATCCTTAAGTC
Found at i:50656 original size:154 final size:154
Alignment explanation
Indices: 50484--50803 Score: 475
Period size: 154 Copynumber: 2.1 Consensus size: 154
50474 ACATATAATT
*
50484 TTTTTCCTTTACTTCTATATTTCTCTATATA-AACATATTAAAATATACATAAAA-GTAATTATT
1 TTTTTCCTTTCCTTCTATATTTCTCTATATAGAACATATTAAAATATACATAAAATG-AATTATT
* * *
50547 AGTGCATAAAAATTTATAATACTCTGAACACATGAAAAAAAATTAACACAAATACGAACATACGA
65 AGTACATAAAAATTTATAATACTCTG-A-ACATGAAAAAAAATTAACACAAATACGAAAATACAA
* *
50612 ATTTTTCTCTATCTC-TTTTTCTTTCC
128 AATTTTCTCTATCCCTTTTTTCTTTCC
* *
50638 TTTTTCCTTTCCTTCTATATTTCTTTATATATGAACATATTAAAATATATATAAAATGAATTATT
1 TTTTTCCTTTCCTTCTATATTTCTCTATATA-GAACATATTAAAATATACATAAAATGAATTATT
* * *
50703 AGTACATAAAAATTTATAATACTCTGAACGTGTAAAAAAATTAACACAAATATGAAAATACAAAA
65 AGTACATAAAAATTTATAATACTCTGAACATGAAAAAAAATTAACACAAATACGAAAATACAAAA
50768 TTTTCTCTATCCCTTTTTTCTTTCC
130 TTTTCTCTATCCCTTTTTTCTTTCC
*
50793 TTTTTCATTTC
1 TTTTTCCTTTC
50804 TAGTCTTTTC
Statistics
Matches: 150, Mismatches: 12, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
154 73 0.49
155 22 0.15
156 54 0.36
157 1 0.01
ACGTcount: A:0.38, C:0.15, G:0.04, T:0.42
Consensus pattern (154 bp):
TTTTTCCTTTCCTTCTATATTTCTCTATATAGAACATATTAAAATATACATAAAATGAATTATTA
GTACATAAAAATTTATAATACTCTGAACATGAAAAAAAATTAACACAAATACGAAAATACAAAAT
TTTCTCTATCCCTTTTTTCTTTCC
Found at i:53998 original size:36 final size:35
Alignment explanation
Indices: 53958--54068 Score: 89
Period size: 36 Copynumber: 3.1 Consensus size: 35
53948 ACAAAAGTTA
53958 TGACTCAACTTGGTTTTGAGAATCAAATTGTGGTAG
1 TGACTCAACTTGGTTTTGAGAATCAAA-TGTGGTAG
* * * *
53994 TGACTTAGCTTAGTTTTGA-AAGTCAAAATGTGGCAG
1 TGACTCAACTTGGTTTTGAGAA-TC-AAATGTGGTAG
** ** * *
54030 TGACAGATTTTGGTTTTAAGACTCAGAATGTGGTAG
1 TGACTCAACTTGGTTTTGAGAATCA-AATGTGGTAG
54066 TGA
1 TGA
54069 TAGATTTTGG
Statistics
Matches: 59, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
35 3 0.05
36 52 0.88
37 4 0.07
ACGTcount: A:0.29, C:0.10, G:0.26, T:0.35
Consensus pattern (35 bp):
TGACTCAACTTGGTTTTGAGAATCAAATGTGGTAG
Found at i:54986 original size:193 final size:193
Alignment explanation
Indices: 54657--55043 Score: 675
Period size: 193 Copynumber: 2.0 Consensus size: 193
54647 GCCTTCTTAA
* * * *
54657 TCAAAGTAAGATGACAAAATTTAATTAAAATAATCTATGGCATTATCAGATTTAACTTTCTTCAC
1 TCAAAGTAAGATGACAAAATCTAATTAAAATAATCCATGGAATTATCAGATCTAACTTTCTTCAC
54722 TTTTAACCCAAACTAGTTTTAGATCATGTTAAGAAATTTAGGAAAGATAGAACTCACATCAGATT
66 TTTTAACCCAAACTAGTTTTAGATCATGTTAAGAAATTTAGGAAAGATAGAACTCACATCAGATT
* * * *
54787 TGTGTTTAAGTGAATAGACTCTAGTTACCTTAGTGCAAAAATTATAAATGAGACAAACCATTT
131 TGTGTTTAAGTGAATAGACCCTAGTTACCCTAATGCAAAAATTATAAACGAGACAAACCATTT
* *
54850 TCAAAGTAGGATGACAAAATCTAATTAAAATAATCCATGGAATTATCAGGTCTAACTTTCTTCAC
1 TCAAAGTAAGATGACAAAATCTAATTAAAATAATCCATGGAATTATCAGATCTAACTTTCTTCAC
*
54915 TTTTACCCCAAACTAGTTTTAGATCATGTTAAGAAATTTAGGAAAGATAGAACTCACATCAGATT
66 TTTTAACCCAAACTAGTTTTAGATCATGTTAAGAAATTTAGGAAAGATAGAACTCACATCAGATT
54980 TGTGTTTAAGTGAATAGACCCTAGTTACCCTAATGCAAAAATTATAAACGAGACAAACCATTT
131 TGTGTTTAAGTGAATAGACCCTAGTTACCCTAATGCAAAAATTATAAACGAGACAAACCATTT
55043 T
1 T
55044 AAACAAGTCA
Statistics
Matches: 183, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
193 183 1.00
ACGTcount: A:0.40, C:0.15, G:0.13, T:0.32
Consensus pattern (193 bp):
TCAAAGTAAGATGACAAAATCTAATTAAAATAATCCATGGAATTATCAGATCTAACTTTCTTCAC
TTTTAACCCAAACTAGTTTTAGATCATGTTAAGAAATTTAGGAAAGATAGAACTCACATCAGATT
TGTGTTTAAGTGAATAGACCCTAGTTACCCTAATGCAAAAATTATAAACGAGACAAACCATTT
Found at i:57422 original size:31 final size:31
Alignment explanation
Indices: 57384--57449 Score: 123
Period size: 31 Copynumber: 2.1 Consensus size: 31
57374 AGATAACGGG
57384 ATTTGAGTATCCCCGATTATGAGAAATTAAT
1 ATTTGAGTATCCCCGATTATGAGAAATTAAT
*
57415 ATTTGAGTATCCTCGATTATGAGAAATTAAT
1 ATTTGAGTATCCCCGATTATGAGAAATTAAT
57446 ATTT
1 ATTT
57450 TAGAAATAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.39
Consensus pattern (31 bp):
ATTTGAGTATCCCCGATTATGAGAAATTAAT
Found at i:57526 original size:79 final size:81
Alignment explanation
Indices: 57419--57590 Score: 271
Period size: 80 Copynumber: 2.2 Consensus size: 81
57409 ATTAATATTT
*
57419 GAGTAT-CCTCGATTATGAGAAATTAATATTTTAGAAATAAAGCC-GGGGTTGGAGTATCCCCTC
1 GAGTATCCCTCGATTATGAGAAATCAATATTTTAGAAATAAAGCCGGGGGTTGGAGTATCCCCTC
* *
57482 GGAAATAACGGGGTCG
66 GAAAATAACAGGGTCG
*
57498 GAGTATCCCT-GATTATGAGAAATCAATATTTTAGGAATAAAGCCGGGGGTTGGAGTATCCCCTC
1 GAGTATCCCTCGATTATGAGAAATCAATATTTTAGAAATAAAGCCGGGGGTTGGAGTATCCCCTC
*
57562 GAAAATAACAGGGTTG
66 GAAAATAACAGGGTCG
57578 GAGTATCCC-CGAT
1 GAGTATCCCTCGAT
57591 GATTAACGGG
Statistics
Matches: 85, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
79 38 0.45
80 47 0.55
ACGTcount: A:0.31, C:0.16, G:0.26, T:0.26
Consensus pattern (81 bp):
GAGTATCCCTCGATTATGAGAAATCAATATTTTAGAAATAAAGCCGGGGGTTGGAGTATCCCCTC
GAAAATAACAGGGTCG
Found at i:57605 original size:27 final size:27
Alignment explanation
Indices: 57543--57617 Score: 98
Period size: 27 Copynumber: 2.7 Consensus size: 27
57533 AATAAAGCCG
57543 GGGGTTGGAGTATCCCCTCGA-AAATAAC
1 GGGGTTGGAGTAT-CCC-CGATAAATAAC
* * *
57571 AGGGTTGGAGTATCCCCGATGATTAAC
1 GGGGTTGGAGTATCCCCGATAAATAAC
57598 GGGGTTGGAGTATCCCCGAT
1 GGGGTTGGAGTATCCCCGAT
57618 TAAAAATTGA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 3 0.07
27 27 0.64
28 12 0.29
ACGTcount: A:0.24, C:0.20, G:0.32, T:0.24
Consensus pattern (27 bp):
GGGGTTGGAGTATCCCCGATAAATAAC
Found at i:57672 original size:103 final size:107
Alignment explanation
Indices: 57464--57693 Score: 272
Period size: 103 Copynumber: 2.2 Consensus size: 107
57454 AATAAAGCCG
*** *
57464 GGGTTGGAGTATCCCCTCGGAAATAACGGGGTCGGAGTATCCCTGATTATGAGAAATCAATATTT
1 GGGTTGGAGTATCCCCGATGAAATAACGGGGTCGGAGTATCCCCGATTA-GAGAAATCAATATTT
* *
57529 TAGGAATAAAGCCGGGGGTTGGAGTATCCCCTCGAAAATAACA
65 TAGAAATAAAACCGGGGGTTGGAGTATCCCCTCGAAAATAACA
* * ** *
57572 GGGTTGGAGTATCCCCGATG-ATTAACGGGGTTGGAGTATCCCCGATTA-A-AAATTGATGTTTT
1 GGGTTGGAGTATCCCCGATGAAATAACGGGGTCGGAGTATCCCCGATTAGAGAAATCAATATTTT
* *
57634 AGAAATAAAACC-GGGGTTGGAGTGTCCCCTC-AGAAATAACG
66 AGAAATAAAACCGGGGGTTGGAGTATCCCCTCGA-AAATAACA
* *
57675 GGGTTGAAATATCCCCGAT
1 GGGTTGGAGTATCCCCGAT
57694 TGTGAAAAGT
Statistics
Matches: 106, Mismatches: 15, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
102 1 0.01
103 42 0.40
104 20 0.19
105 1 0.01
107 25 0.24
108 17 0.16
ACGTcount: A:0.30, C:0.17, G:0.28, T:0.25
Consensus pattern (107 bp):
GGGTTGGAGTATCCCCGATGAAATAACGGGGTCGGAGTATCCCCGATTAGAGAAATCAATATTTT
AGAAATAAAACCGGGGGTTGGAGTATCCCCTCGAAAATAACA
Found at i:57741 original size:79 final size:76
Alignment explanation
Indices: 57594--57741 Score: 179
Period size: 79 Copynumber: 1.9 Consensus size: 76
57584 CCCCGATGAT
* * * * * * *
57594 TAACGGGGTTGGAGTATCCCCGATTAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTGT
1 TAACGGGGTTGAAATATCCCCGATTAAAAATCGATGCTTTAGAAATAAAACCAGAGTTGGAGTAT
57659 CCCCTCAGAAA
66 CCCCTCAGAAA
* * *
57670 TAACGGGGTTGAAATATCCCCGATTGTGAAAAGTCGATGCTTTGGAAATAAAATCAGAGTTGGAG
1 TAACGGGGTTGAAATATCCCCGA-T-T-AAAAATCGATGCTTTAGAAATAAAACCAGAGTTGGAG
57735 TATCCCC
63 TATCCCC
57742 GATTATGGAA
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
76 21 0.36
77 1 0.02
78 1 0.02
79 36 0.61
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (76 bp):
TAACGGGGTTGAAATATCCCCGATTAAAAATCGATGCTTTAGAAATAAAACCAGAGTTGGAGTAT
CCCCTCAGAAA
Found at i:57813 original size:51 final size:51
Alignment explanation
Indices: 57684--57843 Score: 175
Period size: 51 Copynumber: 3.1 Consensus size: 51
57674 GGGGTTGAAA
* * *
57684 TATCCCCGATT--GTGAAAAGTCGATGCTTTGGAAATAAAATCAGAGTTGGAG
1 TATCCCCGATTAAG-GAAAA-TGGATGTTTTGGAAATAAAATCCGAGTTGGAG
* * *
57735 TATCCCCGATTATGGAAAATGGGTGTTTTAGAAATAAAATCCGAGTTGGAG
1 TATCCCCGATTAAGGAAAATGGATGTTTTGGAAATAAAATCCGAGTTGGAG
* * *
57786 TATCCCCGATTAA-GAGAAATTGATGTTTTGGAAATGAAA-CCGGGATTGGAG
1 TATCCCCGATTAAGGA-AAATGGATGTTTTGGAAATAAAATCCGAG-TTGGAG
57837 TATCCCC
1 TATCCCC
57844 TCGGAAATAA
Statistics
Matches: 94, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
50 6 0.06
51 82 0.87
52 5 0.05
53 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (51 bp):
TATCCCCGATTAAGGAAAATGGATGTTTTGGAAATAAAATCCGAGTTGGAG
Found at i:57872 original size:78 final size:79
Alignment explanation
Indices: 57779--57952 Score: 237
Period size: 78 Copynumber: 2.2 Consensus size: 79
57769 TAAAATCCGA
** * * *
57779 GTTGGAGTATCCCCGATTAAGAGAAATTGATGTTTT-GGAAATGAAA-CCGGGATTGGAGTATCC
1 GTTGGAGTATCCCCGATTAAGAGAAATCAATATTTTAAG-AAT-AAAGCAGGGATTGGAGTATCC
57842 CCTCGGAAATAA-GGG
64 CCTCGGAAATAACGGG
* * *
57857 GTTGGAGTATCCCCGATTATGAGAAATCAATATTTTAAGAATAAAGCAGGGGTTGGAGTATCTCC
1 GTTGGAGTATCCCCGATTAAGAGAAATCAATATTTTAAGAATAAAGCAGGGATTGGAGTATCCCC
57922 TCGGAAATAACGGG
66 TCGGAAATAACGGG
57936 GTTGGAGTATCCCCGAT
1 GTTGGAGTATCCCCGAT
57953 GATTAAAAGG
Statistics
Matches: 85, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
77 3 0.04
78 61 0.72
79 21 0.25
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.26
Consensus pattern (79 bp):
GTTGGAGTATCCCCGATTAAGAGAAATCAATATTTTAAGAATAAAGCAGGGATTGGAGTATCCCC
TCGGAAATAACGGG
Found at i:57987 original size:27 final size:27
Alignment explanation
Indices: 57934--57987 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
57924 GGAAATAACG
*
57934 GGGTTGGAGTATCCCCGATGATTAAAA
1 GGGTTGGAGTATCCCCGATGATGAAAA
57961 GGGTTGGAGTATCCCCGATTG-TGAAAA
1 GGGTTGGAGTATCCCCGA-TGATGAAAA
57988 ATTTGTGCTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 23 0.92
28 2 0.08
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.26
Consensus pattern (27 bp):
GGGTTGGAGTATCCCCGATGATGAAAA
Found at i:58033 original size:53 final size:52
Alignment explanation
Indices: 57963--58092 Score: 165
Period size: 51 Copynumber: 2.5 Consensus size: 52
57953 GATTAAAAGG
* * *
57963 GTTGGAGTATCCCCGATTGTGA-AAAATTTGTGCTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAGAAAATTAGT--ATTTTGAAAATAAAATCGGA
* *
58016 GTTGGAGTATCCTCGATTAT-AGAAAATTAGTATTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAGAAAATTAGTATTTTGAAAATAAAATCGGA
*
58067 GTTGGAATATCCCCGATTGTGGAGAA
1 GTTGGAGTATCCCCGATTGT-GAGAA
58093 TTGAGAAACT
Statistics
Matches: 66, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
51 35 0.53
52 1 0.02
53 30 0.45
ACGTcount: A:0.33, C:0.11, G:0.24, T:0.32
Consensus pattern (52 bp):
GTTGGAGTATCCCCGATTGTGAGAAAATTAGTATTTTGAAAATAAAATCGGA
Found at i:60481 original size:21 final size:21
Alignment explanation
Indices: 60455--60494 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
60445 CAAAGATCGA
60455 TGTATCGATACATTTCCTTAG
1 TGTATCGATACATTTCCTTAG
60476 TGTATCGATACATTTCCTT
1 TGTATCGATACATTTCCTT
60495 GGCAGTAGCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.23, C:0.20, G:0.12, T:0.45
Consensus pattern (21 bp):
TGTATCGATACATTTCCTTAG
Found at i:60543 original size:19 final size:19
Alignment explanation
Indices: 60519--60613 Score: 79
Period size: 19 Copynumber: 5.6 Consensus size: 19
60509 AACGATACAT
*
60519 TGTATCGATACAAAACTTA
1 TGTATCGATACAACACTTA
60538 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
*
60551 TGTATCAATACAACACTTA
1 TGTATCGATACAACACTTA
*
60570 TGTATCGAT---ATA-TTA
1 TGTATCGATACAACACTTA
60585 --TATCGATACAACACTTA
1 TGTATCGATACAACACTTA
60602 TGTATCGATACA
1 TGTATCGATACA
60614 TTTTCTGTTT
Statistics
Matches: 59, Mismatches: 5, Indels: 24
0.67 0.06 0.27
Matches are distributed among these distances:
13 15 0.25
14 1 0.02
15 3 0.05
16 9 0.15
17 3 0.05
18 1 0.02
19 27 0.46
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.35
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:60552 original size:32 final size:32
Alignment explanation
Indices: 60511--60615 Score: 174
Period size: 32 Copynumber: 3.3 Consensus size: 32
60501 AGCTTCGTAA
*
60511 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
*
60543 CGATACATTGTATCAATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
* *
60575 CGATATATTATATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
60607 CGATACATT
1 CGATACATT
60616 TTCTGTTTGT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 67 1.00
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.35
Consensus pattern (32 bp):
CGATACATTGTATCGATACAACACTTATGTAT
Found at i:60680 original size:21 final size:21
Alignment explanation
Indices: 60654--60709 Score: 112
Period size: 21 Copynumber: 2.7 Consensus size: 21
60644 GTTGGGACCT
60654 TGTATCGATACATTCTACAAA
1 TGTATCGATACATTCTACAAA
60675 TGTATCGATACATTCTACAAA
1 TGTATCGATACATTCTACAAA
60696 TGTATCGATACATT
1 TGTATCGATACATT
60710 TGGATAAACA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTCTACAAA
Found at i:60854 original size:12 final size:12
Alignment explanation
Indices: 60837--60876 Score: 71
Period size: 12 Copynumber: 3.3 Consensus size: 12
60827 TCGAAAATTG
60837 GTCCCCATATAT
1 GTCCCCATATAT
60849 GTCCCCATATAT
1 GTCCCCATATAT
*
60861 GCCCCCATATAT
1 GTCCCCATATAT
60873 GTCC
1 GTCC
60877 AATCCTCCAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.23, C:0.38, G:0.10, T:0.30
Consensus pattern (12 bp):
GTCCCCATATAT
Found at i:61544 original size:43 final size:44
Alignment explanation
Indices: 61418--61585 Score: 181
Period size: 43 Copynumber: 3.9 Consensus size: 44
61408 CGAGGAAAAA
61418 AGAAA-AA-AAAATGAAA-TGTGTCCTGCTCTTTGAGGACTATAACGG
1 AGAAAGAAGAAAAT-AAAGTGTGTCCTGCTCTTTGAGGAC-A-AA-GG
* * *
61463 A-AAAGAAGGAAATAAAGAGCGTCCTGCTCTTTGAGGACAAAGG
1 AGAAAGAAGAAAATAAAGTGTGTCCTGCTCTTTGAGGACAAAGG
61506 AGAAA-AAGAAAATGAAA-TGTGTCCTGCTCTTTGAGGACAAA--
1 AGAAAGAAGAAAAT-AAAGTGTGTCCTGCTCTTTGAGGACAAAGG
* * *
61547 AGAAAGAGGAAAATAAAGTGAGTCATGCTCTTTGAGGAC
1 AGAAAGAAGAAAATAAAGTGTGTCCTGCTCTTTGAGGAC
61586 TACAAAGTGC
Statistics
Matches: 107, Mismatches: 9, Indels: 17
0.80 0.07 0.13
Matches are distributed among these distances:
41 8 0.07
42 26 0.24
43 32 0.30
44 11 0.10
45 7 0.07
46 23 0.21
ACGTcount: A:0.42, C:0.12, G:0.25, T:0.21
Consensus pattern (44 bp):
AGAAAGAAGAAAATAAAGTGTGTCCTGCTCTTTGAGGACAAAGG
Found at i:61576 original size:42 final size:43
Alignment explanation
Indices: 61437--61585 Score: 155
Period size: 42 Copynumber: 3.4 Consensus size: 43
61427 AATGAAATGT
* *
61437 GTCCTGCTCTTTGAGGACTATAACG-GAAAAGAAGG-AAATAAAGAGC
1 GTCCTGCTCTTTGAGGAC-A-AA-GAG-AAAG-AGGAAAATAAAGTGA
* *
61483 GTCCTGCTCTTTGAGGACAAAGGAGAAA-AAGAAAATGAAA-TGT
1 GTCCTGCTCTTTGAGGACAAA-GAGAAAGAGGAAAAT-AAAGTGA
61526 GTCCTGCTCTTTGAGGACAAA-AGAAAGAGGAAAATAAAGTGA
1 GTCCTGCTCTTTGAGGACAAAGAGAAAGAGGAAAATAAAGTGA
*
61568 GTCATGCTCTTTGAGGAC
1 GTCCTGCTCTTTGAGGAC
61586 TACAAAGTGC
Statistics
Matches: 91, Mismatches: 7, Indels: 14
0.81 0.06 0.12
Matches are distributed among these distances:
41 8 0.09
42 28 0.31
43 26 0.29
44 9 0.10
45 2 0.02
46 18 0.20
ACGTcount: A:0.38, C:0.14, G:0.26, T:0.21
Consensus pattern (43 bp):
GTCCTGCTCTTTGAGGACAAAGAGAAAGAGGAAAATAAAGTGA
Found at i:61583 original size:85 final size:88
Alignment explanation
Indices: 61418--61585 Score: 247
Period size: 85 Copynumber: 1.9 Consensus size: 88
61408 CGAGGAAAAA
* *
61418 AGAAAAAAAAATGAAATGTGTCCTGCTCTTTGAGGACTATAACGGAAAAGAAGGAAATAAAGAGC
1 AGAAAAAAAAATGAAATGTGTCCTGCTCTTTGAGGACTATAACAGAAAAGAAGGAAATAAAGAGA
*
61483 GTCCTGCTCTTTGAGGACAAAGG
66 GTCATGCTCTTTGAGGACAAAGG
*
61506 AGAAAAAGAAAATGAAATGTGTCCTGCTCTTTGAGGAC-A-AA-AG-AAAG-AGGAAAATAAAGT
1 AGAAAAA-AAAATGAAATGTGTCCTGCTCTTTGAGGACTATAACAGAAAAGAAGG-AAATAAAGA
61566 GAGTCATGCTCTTTGAGGAC
64 GAGTCATGCTCTTTGAGGAC
61586 TACAAAGTGC
Statistics
Matches: 74, Mismatches: 4, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
84 3 0.04
85 30 0.41
86 1 0.01
87 2 0.03
88 8 0.11
89 30 0.41
ACGTcount: A:0.42, C:0.12, G:0.25, T:0.21
Consensus pattern (88 bp):
AGAAAAAAAAATGAAATGTGTCCTGCTCTTTGAGGACTATAACAGAAAAGAAGGAAATAAAGAGA
GTCATGCTCTTTGAGGACAAAGG
Found at i:61644 original size:104 final size:100
Alignment explanation
Indices: 61526--61721 Score: 268
Period size: 101 Copynumber: 1.9 Consensus size: 100
61516 AATGAAATGT
* *
61526 GTCCTGCTCTTTGAGGACAAAAGAAAGAG-GAAAATAAAGTGAGTCATGCTCTTTGAGGACTACA
1 GTCCTGCTCTTTGAGGACAAAAG---G-GTGAAAAGAAAGAGAGTCATGCTCTTTGAGGACTACA
61590 AAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAGAAAGGC
62 AAGTGCCACCAACTTGTGTGGGCTTT-AAAAGAGAAAGGC
* * * * * *
61630 GTCCTGCTCTTTGAGGACTAAAGGGTGAAAAGAGAGAGCGTCCTGCTCTTTGAGGACTAGAAGGT
1 GTCCTGCTCTTTGAGGACAAAAGGGTGAAAAGAAAGAGAGTCATGCTCTTTGAGGACTACAAAGT
61695 GCCACCAACTTGTGTGGGCTTTAAAAG
66 GCCACCAACTTGTGTGGGCTTTAAAAG
61722 GCGTCCTGCT
Statistics
Matches: 83, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
100 6 0.07
101 55 0.66
104 22 0.27
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.23
Consensus pattern (100 bp):
GTCCTGCTCTTTGAGGACAAAAGGGTGAAAAGAAAGAGAGTCATGCTCTTTGAGGACTACAAAGT
GCCACCAACTTGTGTGGGCTTTAAAAGAGAAAGGC
Found at i:61676 original size:39 final size:41
Alignment explanation
Indices: 61615--61693 Score: 135
Period size: 39 Copynumber: 2.0 Consensus size: 41
61605 GTGTGGGCTT
61615 TGAAAAGAGAAAGGCGTCCTGCTCTTTGAGGACTA-AAGGG
1 TGAAAAGAGAAAGGCGTCCTGCTCTTTGAGGACTAGAAGGG
*
61655 TGAAAAGAGAGA-GCGTCCTGCTCTTTGAGGACTAGAAGG
1 TGAAAAGAGAAAGGCGTCCTGCTCTTTGAGGACTAGAAGG
61694 TGCCACCAAC
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
39 22 0.59
40 15 0.41
ACGTcount: A:0.32, C:0.15, G:0.33, T:0.20
Consensus pattern (41 bp):
TGAAAAGAGAAAGGCGTCCTGCTCTTTGAGGACTAGAAGGG
Found at i:61704 original size:101 final size:95
Alignment explanation
Indices: 61572--61748 Score: 266
Period size: 101 Copynumber: 1.8 Consensus size: 95
61562 AAGTGAGTCA
61572 TGCTCTTTGAGGACTACAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAGAAAGGCGTCCTGC
1 TGCTCTTTGAGGACTACAAAGTGCCACCAACTTGTGTGGGCTTT------A-AAAGGCGTCCTGC
61637 TCTTTGAGGACT-AAAGGGTGAAAAGAGAGAGCGTCC
59 TCTTTGAGGACTGAAAGGGTGAAAAGAGAGAGCGTCC
* *
61673 TGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGA
1 TGCTCTTTGAGGACTACAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGA
61738 GGACTGAAAGG
66 GGACTGAAAGG
61749 TGCCACTAAC
Statistics
Matches: 73, Mismatches: 2, Indels: 8
0.88 0.02 0.10
Matches are distributed among these distances:
94 25 0.34
95 6 0.08
101 42 0.58
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (95 bp):
TGCTCTTTGAGGACTACAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTTTGA
GGACTGAAAGGGTGAAAAGAGAGAGCGTCC
Found at i:61881 original size:116 final size:110
Alignment explanation
Indices: 61670--61912 Score: 335
Period size: 116 Copynumber: 2.2 Consensus size: 110
61660 AGAGAGAGCG
* *
61670 TCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCTT
1 TCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTAAAAAGGCGTCCTGCTCTT
* * **
61735 TGAGGACTGAAAGGTGCCACTAACTCGTGTGGGCTTTGAAAGGCA
66 TGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTCAAAAGGCA
*
61780 TCCTACTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCCTTAAAAGGAGAAGGCGTCT
1 TCCTACTCTTTGAGGACTA-GAAGGTGCCACCAACTTGTGTGGG-CTT--AA--A-AAGGCGTCC
* *
61844 TGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTCAAAAGGCA
59 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTCAAAAGGCA
61896 TCCTACTCTTTGAGGAC
1 TCCTACTCTTTGAGGAC
61913 AAAAAGGCAA
Statistics
Matches: 117, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
110 38 0.32
111 6 0.05
113 1 0.01
115 1 0.01
116 71 0.61
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (110 bp):
TCCTACTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTAAAAAGGCGTCCTGCTCTT
TGAGGACTAAAAGGTGCCACCAACTCGTGTGGGCTTCAAAAGGCA
Found at i:61919 original size:55 final size:55
Alignment explanation
Indices: 61670--61919 Score: 295
Period size: 55 Copynumber: 4.4 Consensus size: 55
61660 AGAGAGAGCG
* *
61670 TCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCG
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCA
* * * *
61725 TCCTGCTCTTTGAGGACTGAAAGGTGCCACTAACTCGTGTGGGCTTTGAAAGGCA
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCA
* * * *
61780 TCCTACTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCCTTAAAAGGAGAAGGCG
1 TCCTGCTCTTTGAGGACTA-AAAGGTGCCACCAACTTGTGTGGG-CTT--TA--A-AAGGCA
* * *
61841 TCTTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTCAAAAGGCA
1 TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCA
* *
61896 TCCTACTCTTTGAGGACAAAAAGG
1 TCCTGCTCTTTGAGGACTAAAAGG
61920 CAAAAGGAGG
Statistics
Matches: 164, Mismatches: 23, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
55 110 0.67
56 6 0.04
58 1 0.01
60 6 0.04
61 41 0.25
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCA
Found at i:62066 original size:271 final size:269
Alignment explanation
Indices: 61572--62437 Score: 1171
Period size: 271 Copynumber: 3.2 Consensus size: 269
61562 AAGTGAGTCA
*
61572 TGCTCTTTGAGGACTACAAA-GTGCCACCAACTTGTGTGGGCTTTGAAAAGAGAAAGGCGTCCTG
1 TGCTCTTTGAGGACTA-AAAGGTGCCACCAACTTGTGTGGGCTTT------A-AAAGGCATCCTG
* * * * *
61636 CTCTTTGAGGACTAAAGGGTGAAAA-GAGAGAGCGTCCTGCTCTTTGAGGACTAGAAGGTGCCAC
58 CTCTTTGAGGACAAAAAGG-CAAAAGGAGGGAGCGTCCTGCTCTTTGAGGACTGGAA-GTGCCAC
*
61700 CAACTTGTGTGGGCTTT------AAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACTAAC
121 CAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAAC
* * *
61759 TCGTGTGGGCTTTGAAAGGCATCCTACTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGC
185 TTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGC
* *
61824 CTTAAAAGGAGAAGGCGTCT
250 TTTAAAAGGAGAAGGCGTCC
* * *
61844 TGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTCAAAAGGCATCCTACTCTTTGA
1 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTGA
61909 GGACAAAAAGGCAAAAGGAGGGAGCGTCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTG
66 GGACAAAAAGGCAAAAGGAGGGAGCGTCCTGCTCTTTGAGGACT-GGAAGTGCCACCAACTTGTG
* *
61974 TGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGG
130 TGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACT-AAAGGTGCCACCAACTTGTGTGGG
*
62039 CTTTGAAAGGCGCCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
194 CTTTGAAAGGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
62104 AGAAGGCGTCC
259 AGAAGGCGTCC
* *
62115 TGCTCTTTGAGGACTAAAAAGTGCCACCAGCTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTGA
1 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTGA
* * * **
62180 GGACAAAAAGGCGAAAGGAGGGAGCGTCATGCTCTTTGAAGACTAGGAAGCACCACCAACTTGTG
66 GGACAAAAAGGCAAAAGGAGGGAGCGTCCTGCTCTTTGAGGACT-GGAAGTGCCACCAACTTGTG
* *
62245 TGGGCTTTAAAAGGAAGAGGTGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGC
130 TGGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGC
62310 TTTAAAAAGAAAAAAGGCGTCCTGCTCTTTGAGGACT--GAAGGTGCCACCAACTTGTGTGGGCT
195 TTT-----G---AAAGGCGTCCTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCT
* *
62373 TTAAAATGA-AAGGTGTCC
251 TTAAAAGGAGAAGGCGTCC
*
62391 TGCTCTTTGAGGACT-AAAGGTGCCACCAACTCGTGTGGGCTTTAAAA
1 TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAA
62438 AGAAAAAGGT
Statistics
Matches: 538, Mismatches: 38, Indels: 33
0.88 0.06 0.05
Matches are distributed among these distances:
264 4 0.01
265 77 0.14
266 4 0.01
270 27 0.05
271 278 0.52
272 38 0.07
275 30 0.06
276 26 0.05
277 30 0.06
278 24 0.04
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (269 bp):
TGCTCTTTGAGGACTAAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTGA
GGACAAAAAGGCAAAAGGAGGGAGCGTCCTGCTCTTTGAGGACTGGAAGTGCCACCAACTTGTGT
GGGCTTTAAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGTGCCACCAACTTGTGTGGGCT
TTGAAAGGCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAG
AAGGCGTCC
Found at i:62067 original size:155 final size:155
Alignment explanation
Indices: 61780--62067 Score: 477
Period size: 155 Copynumber: 1.9 Consensus size: 155
61770 TTGAAAGGCA
* * *
61780 TCCTACTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCCTTAAAAGGAGAAGGCGTCTT
1 TCCTACTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCCTTAAAAGGAAAAGGCATCCT
*
61845 GCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTCAAAAGGCATCCTACTCTTTGAG
66 GCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTCAAAAGGCACCCTACTCTTTGAG
61910 GACAAAAAGGCAAAAGGAGGGAGCG
131 GACAAAAAGGCAAAAGGAGGGAGCG
* * *
61935 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCT
1 TCCTACTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCCTTAAAAGGAAAAGGCATCCT
** * *
62000 GCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAGGCGCCCTGCTCTTTGAG
66 GCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTCAAAAGGCACCCTACTCTTTGAG
62065 GAC
131 GAC
62068 TAGGAAGTGC
Statistics
Matches: 122, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
155 122 1.00
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.24
Consensus pattern (155 bp):
TCCTACTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCCTTAAAAGGAAAAGGCATCCT
GCTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTCAAAAGGCACCCTACTCTTTGAG
GACAAAAAGGCAAAAGGAGGGAGCG
Found at i:62078 original size:55 final size:56
Alignment explanation
Indices: 61935--62183 Score: 297
Period size: 61 Copynumber: 4.3 Consensus size: 56
61925 GGAGGGAGCG
* *
61935 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
1 TCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTT---A-G-AAAGGCA
* *
61996 TCCTGCTCTTTGAGGACTA-AAAGGTGCCACCAGCTTGTGTGGGCTTT-GAAAGGCG
1 TCCTGCTCTTTGAGGACTAGAAA-GTGCCACCAACTTGTGTGGGCTTTAGAAAGGCA
* * *
62051 CCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCG
1 TCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTT---A-GA-AAGGCA
* *
62112 TCCTGCTCTTTGAGGACTAAAAAGTGCCACCAGCTTGTGTGGGCTTTA-AAAGGCA
1 TCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAGAAAGGCA
62167 TCCTGCTCTTTGAGGAC
1 TCCTGCTCTTTGAGGAC
62184 AAAAAGGCGA
Statistics
Matches: 168, Mismatches: 12, Indels: 22
0.83 0.06 0.11
Matches are distributed among these distances:
55 69 0.41
56 4 0.02
58 1 0.01
60 4 0.02
61 90 0.54
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (56 bp):
TCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAGAAAGGCA
Found at i:62140 original size:116 final size:116
Alignment explanation
Indices: 61936--62183 Score: 433
Period size: 116 Copynumber: 2.1 Consensus size: 116
61926 GAGGGAGCGT
*
61936 CCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTG
1 CCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTG
* * *
62001 CTCTTTGAGGACTAAAAGGTGCCACCAGCTTGTGTGGGCTTTGAAAGGCGC
66 CTCTTTGAGGACTAAAAAGTGCCACCAGCTTGTGTGGGCTTTAAAAGGCAC
* *
62052 CCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTG
1 CCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTG
*
62117 CTCTTTGAGGACTAAAAAGTGCCACCAGCTTGTGTGGGCTTTAAAAGGCAT
66 CTCTTTGAGGACTAAAAAGTGCCACCAGCTTGTGTGGGCTTTAAAAGGCAC
62168 CCTGCTCTTTGAGGAC
1 CCTGCTCTTTGAGGAC
62184 AAAAAGGCGA
Statistics
Matches: 125, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
116 125 1.00
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (116 bp):
CCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTG
CTCTTTGAGGACTAAAAAGTGCCACCAGCTTGTGTGGGCTTTAAAAGGCAC
Found at i:62353 original size:62 final size:62
Alignment explanation
Indices: 62232--62658 Score: 641
Period size: 62 Copynumber: 7.0 Consensus size: 62
62222 CTAGGAAGCA
* * *
62232 CCACCAACTTGTGTGGGCTTT-AAAAG-GAAGAGGTGTCCTGCTCTTTGAGGACTAAAGGTG
1 CCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAGGTGTCCTGCTCTTTGAGGACTGAAGGTG
*
62292 CCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAGGCGTCCTGCTCTTTGAGGACTGAAGGTG
1 CCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAGGTGTCCTGCTCTTTGAGGACTGAAGGTG
* *
62354 CCACCAACTTGTGTGGGCTTTAAAATG---AAAGGTGTCCTGCTCTTTGAGGACTAAAGGTG
1 CCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAGGTGTCCTGCTCTTTGAGGACTGAAGGTG
* *
62413 CCACCAACTCGTGTGGGCTTTAAAAAG-AAAAAGGTGTCCTGCTCTTTGAGGACTGGAGGTG
1 CCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAGGTGTCCTGCTCTTTGAGGACTGAAGGTG
** * * *
62474 CCACCGGCTTGTGTGGGCTTTGAAAAGAAAAAAGGTGTCCTACTCTTTGAGGACTAAAGGTG
1 CCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAGGTGTCCTGCTCTTTGAGGACTGAAGGTG
* * *
62536 CCACCAACTCGTGTGGGCTTTAAAAAGAAAAAAGGCGTCCTGCTCTTTGAGGACTGGAGGTG
1 CCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAGGTGTCCTGCTCTTTGAGGACTGAAGGTG
* *
62598 CCACCAACTTGTGTGGGCTTTGAAAAGAAAAAAGGTGTCCTGGTCTTTGAGGACTGGAAGG
1 CCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAGGTGTCCTGCTCTTTGAGGACT-GAAGG
62659 GCTAAAAGAG
Statistics
Matches: 330, Mismatches: 31, Indels: 9
0.89 0.08 0.02
Matches are distributed among these distances:
59 55 0.17
60 21 0.06
61 58 0.18
62 192 0.58
63 4 0.01
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (62 bp):
CCACCAACTTGTGTGGGCTTTAAAAAGAAAAAAGGTGTCCTGCTCTTTGAGGACTGAAGGTG
Found at i:62522 original size:182 final size:182
Alignment explanation
Indices: 62232--62655 Score: 643
Period size: 182 Copynumber: 2.3 Consensus size: 182
62222 CTAGGAAGCA
* * **
62232 CCACCAACTTGTGTGGGCTTTAAAAGGAAGAGGTGTCCTGCTCTTTGAGGACTAAAGGTGCCACC
1 CCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGTGTCCTGCTCTTTGAGGACTGGAGGTGCCACC
* *
62297 AACTTGTGTGGGCTTTAAAAAGAAAAAAGGCGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAAC
66 AACTTGTGTGGGCTTTAAAAAGAAAAAAGGCGTCCTACTCTTTGAGGACTAAAGGTGCCACCAAC
* * *
62362 TTGTGTGGGCTTTAAAATG-AAAGGTGTCCTGCTCTTTGAGGACTAAAGGTG
131 TCGTGTGGGCTTTAAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGTG
*
62413 CCACCAACTCGTGTGGGCTTTAAAAAGAAAAAGGTGTCCTGCTCTTTGAGGACTGGAGGTGCCAC
1 CCACCAACTTGTGTGGGCTTT-AAAAGAAAAAGGTGTCCTGCTCTTTGAGGACTGGAGGTGCCAC
** * *
62478 CGGCTTGTGTGGGCTTTGAAAAGAAAAAAGGTGTCCTACTCTTTGAGGACTAAAGGTGCCACCAA
65 CAACTTGTGTGGGCTTTAAAAAGAAAAAAGGCGTCCTACTCTTTGAGGACTAAAGGTGCCACCAA
**
62543 CTCGTGTGGGCTTTAAAAAGAAAAAAGGCGTCCTGCTCTTTGAGGACTGGAGGTG
130 CTCGTGTGGGCTTTAAAAAG--AAAAGGCGTCCTGCTCTTTGAGGACTAAAGGTG
*
62598 CCACCAACTTGTGTGGGCTTTGAAAAGAAAAAAGGTGTCCTGGTCTTTGAGGACTGGA
1 CCACCAACTTGTGTGGGCTTT-AAAAG-AAAAAGGTGTCCTGCTCTTTGAGGACTGGA
62656 AGGGCTAAAA
Statistics
Matches: 219, Mismatches: 19, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
181 20 0.09
182 116 0.53
185 54 0.25
186 29 0.13
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (182 bp):
CCACCAACTTGTGTGGGCTTTAAAAGAAAAAGGTGTCCTGCTCTTTGAGGACTGGAGGTGCCACC
AACTTGTGTGGGCTTTAAAAAGAAAAAAGGCGTCCTACTCTTTGAGGACTAAAGGTGCCACCAAC
TCGTGTGGGCTTTAAAAAGAAAAGGCGTCCTGCTCTTTGAGGACTAAAGGTG
Found at i:64013 original size:12 final size:12
Alignment explanation
Indices: 63996--64024 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
63986 TCTTTGTGTG
63996 TTTTTTGTTTTT
1 TTTTTTGTTTTT
64008 TTTTTTGTTTTT
1 TTTTTTGTTTTT
64020 TTTTT
1 TTTTT
64025 ACTTTTGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.07, T:0.93
Consensus pattern (12 bp):
TTTTTTGTTTTT
Found at i:64030 original size:18 final size:18
Alignment explanation
Indices: 63994--64049 Score: 51
Period size: 19 Copynumber: 3.1 Consensus size: 18
63984 TTTCTTTGTG
**
63994 TGTTTTTTGTTTTTTTTTT
1 TGTTTTTT-TTTTACTTTT
64013 TGTTTTTTTTTTAC-TTT
1 TGTTTTTTTTTTACTTTT
* *
64030 TGTTTGTGTGTTTACTTTT
1 TGTTT-TTTTTTTACTTTT
64049 T
1 T
64050 ACTTTTTCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
17 8 0.26
18 11 0.35
19 12 0.39
ACGTcount: A:0.04, C:0.04, G:0.12, T:0.80
Consensus pattern (18 bp):
TGTTTTTTTTTTACTTTT
Found at i:64030 original size:19 final size:19
Alignment explanation
Indices: 63984--64030 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 19
63974 CCTTTGCACC
*
63984 TTTCTTTGTGTGTTTTTTGT
1 TTTCTTT-TTTGTTTTTTGT
*
64004 TTTTTTTTTTGTTTTTT-T
1 TTTCTTTTTTGTTTTTTGT
64022 TTTACTTTT
1 TTT-CTTTT
64031 GTTTGTGTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 4 0.17
19 13 0.57
20 6 0.26
ACGTcount: A:0.02, C:0.04, G:0.11, T:0.83
Consensus pattern (19 bp):
TTTCTTTTTTGTTTTTTGT
Found at i:69114 original size:79 final size:79
Alignment explanation
Indices: 68926--69127 Score: 226
Period size: 79 Copynumber: 2.5 Consensus size: 79
68916 GTAATAATGG
* * ** *
68926 GGTTGGAGTATCCTCTTGAAAATAACGGGGTTGGAGTATCCCCGGTTGCGAAAAATCGATAAGTT
1 GGTTGGAGTATCCCCTCG-AAATAACGGGGTTGGAGTATCCCCAATTACGAAAAATCGATAAGTT
68991 AGGAAATAAAATCGA
65 AGGAAATAAAATCGA
* * * * * **
69006 GATTGGAGTATCCCCTCGGAAATAGCGGGGTTGGAGTATCCCTAATTATGAGAAATCGAT-TTTT
1 GGTTGGAGTATCCCCTC-GAAATAACGGGGTTGGAGTATCCCCAATTACGAAAAATCGATAAGTT
* * *
69070 TGGGAATAAAGTCGA
65 AGGAAATAAAATCGA
*
69085 GGTTGGAGTATCCCCTCGAAGGTAACGGGGTTGGAGTATCCCC
1 GGTTGGAGTATCCCCTCGAA-ATAACGGGGTTGGAGTATCCCC
69128 TCGGAGGTAA
Statistics
Matches: 101, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
78 3 0.03
79 49 0.49
80 48 0.48
81 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (79 bp):
GGTTGGAGTATCCCCTCGAAATAACGGGGTTGGAGTATCCCCAATTACGAAAAATCGATAAGTTA
GGAAATAAAATCGA
Found at i:69125 original size:28 final size:28
Alignment explanation
Indices: 69085--69181 Score: 126
Period size: 28 Copynumber: 3.5 Consensus size: 28
69075 ATAAAGTCGA
69085 GGTTGGAGTATCCCCTCGAAGGTAACGG
1 GGTTGGAGTATCCCCTCGAAGGTAACGG
*
69113 GGTTGGAGTATCCCCTCGGAGGTAACGG
1 GGTTGGAGTATCCCCTCGAAGGTAACGG
* * *
69141 AGTTGGAGTATCCCCGAT-GAA-ATAACGA
1 GGTTGGAGTATCCCC--TCGAAGGTAACGG
69169 GGTTGGAGTATCC
1 GGTTGGAGTATCC
69182 TCGATTGTGA
Statistics
Matches: 61, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
28 58 0.95
29 2 0.03
30 1 0.02
ACGTcount: A:0.24, C:0.20, G:0.34, T:0.23
Consensus pattern (28 bp):
GGTTGGAGTATCCCCTCGAAGGTAACGG
Found at i:69239 original size:52 final size:51
Alignment explanation
Indices: 69170--69552 Score: 232
Period size: 51 Copynumber: 7.6 Consensus size: 51
69160 AAATAACGAG
* *
69170 GTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTG-TTTTGGAAATAAAATCGGA
* * * *
69222 GTTGGAGTATCCCCGATTAAAGGAAAATTGGTATTTTGAAAATAAAATC-GA
1 GTTGGAGTATCCCCGATT-ATGAAAAATTGGTGTTTTGGAAATAAAATCGGA
* * * * * *
69273 GGTTGGAGTATCCCCAATTATGGAAAATTAGTGTTTTAGAAATAAAACCGGG
1 -GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAATCGGA
* *** * * * **
69325 GTTGGAGTATCCCCGATTATGAGAAATCAATATTTGGGGAATAAAGCCAGG-
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAATC-GGA
* * * * * * **
69376 GTTGGAGTATCCCC---T-TGAAGGTAA-CGG-G-GTTAG-AGT--ATTCCCA
1 GTTGGAGTATCCCCGATTATGAA--AAATTGGTGTTTTGGAAATAAAATCGGA
* * *
69419 GTTGGAGTATCCTCGATTGTGAAAATTTTGGTGTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAA-ATTGGTG-TTTTGGAAATAAAATCGGA
* * * * * *
69472 GTTCGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAACCGGG
1 GTTGGAGTATCCCCGATT-ATGAAAAATTGGTGTTTTGGAAATAAAATCGGA
* * *
69524 GTTAGAGTATCCCCAATTATGAACAATTG
1 GTTGGAGTATCCCCGATTATGAAAAATTG
69553 AGAAACTTAA
Statistics
Matches: 250, Mismatches: 61, Indels: 41
0.71 0.17 0.12
Matches are distributed among these distances:
43 15 0.06
45 3 0.01
46 3 0.01
47 9 0.04
48 3 0.01
49 2 0.01
50 3 0.01
51 88 0.35
52 84 0.34
53 36 0.14
54 4 0.02
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.30
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAATCGGA
Found at i:69319 original size:51 final size:50
Alignment explanation
Indices: 69166--69350 Score: 219
Period size: 52 Copynumber: 3.6 Consensus size: 50
69156 GATGAAATAA
* * *
69166 CGAGGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAAT
1 CGAGGTTGGAGTATCCCCGATTATGGAAAATTGGTG-TTTT-GAAATAAAAT
* *
69218 CG-GAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTATTTTGAAAATAAAAT
1 CGAG-GTTGGAGTATCCCCGATT-ATGGAAAATTGGTGTTTTG-AAATAAAAT
* * *
69270 CGAGGTTGGAGTATCCCCAATTATGGAAAATTAGTGTTTTAGAAATAAAAC
1 CGAGGTTGGAGTATCCCCGATTATGGAAAATTGGTGTTTT-GAAATAAAAT
*
69321 CGGGGTTGGAGTATCCCCGATTATGAGAAA
1 CGAGGTTGGAGTATCCCCGATTATG-GAAA
69351 TCAATATTTG
Statistics
Matches: 115, Mismatches: 12, Indels: 12
0.83 0.09 0.09
Matches are distributed among these distances:
51 48 0.42
52 56 0.49
53 11 0.10
ACGTcount: A:0.34, C:0.11, G:0.25, T:0.30
Consensus pattern (50 bp):
CGAGGTTGGAGTATCCCCGATTATGGAAAATTGGTGTTTTGAAATAAAAT
Found at i:71891 original size:13 final size:13
Alignment explanation
Indices: 71873--71898 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
71863 ACAAAGATCG
71873 ATGTATCGATACA
1 ATGTATCGATACA
71886 ATGTATCGATACA
1 ATGTATCGATACA
71899 TTTCCTTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:71909 original size:21 final size:21
Alignment explanation
Indices: 71885--71926 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
71875 GTATCGATAC
71885 AATGTATCGATACATTTCCTT
1 AATGTATCGATACATTTCCTT
*
71906 AATGTATCGATATATTTCCTT
1 AATGTATCGATACATTTCCTT
71927 GGCAGTAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.17, G:0.10, T:0.45
Consensus pattern (21 bp):
AATGTATCGATACATTTCCTT
Found at i:71975 original size:19 final size:19
Alignment explanation
Indices: 71951--72045 Score: 79
Period size: 19 Copynumber: 5.6 Consensus size: 19
71941 AGCAATACAT
*
71951 TGTATCGATACAAAACTTA
1 TGTATCGATACAACACTTA
71970 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
*
71983 TGTATTGATACAACACTTA
1 TGTATCGATACAACACTTA
*
72002 TGTATCGAT---ATA--T-
1 TGTATCGATACAACACTTA
72015 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
72034 TGTATCGATACA
1 TGTATCGATACA
72046 TTTTCTGTTT
Statistics
Matches: 59, Mismatches: 5, Indels: 24
0.67 0.06 0.27
Matches are distributed among these distances:
13 17 0.29
14 2 0.03
16 9 0.15
18 2 0.03
19 29 0.49
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.36
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:71986 original size:32 final size:32
Alignment explanation
Indices: 71945--72047 Score: 179
Period size: 32 Copynumber: 3.2 Consensus size: 32
71935 CTTCGTAGCA
*
71945 ATACATTGTATCGATACAAAACTTATGTATCG
1 ATACATTGTATCGATACAACACTTATGTATCG
*
71977 ATACATTGTATTGATACAACACTTATGTATCG
1 ATACATTGTATCGATACAACACTTATGTATCG
*
72009 ATATATTGTATCGATACAACACTTATGTATCG
1 ATACATTGTATCGATACAACACTTATGTATCG
72041 ATACATT
1 ATACATT
72048 TTCTGTTTGT
Statistics
Matches: 66, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 66 1.00
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.37
Consensus pattern (32 bp):
ATACATTGTATCGATACAACACTTATGTATCG
Found at i:72113 original size:21 final size:21
Alignment explanation
Indices: 72087--72175 Score: 142
Period size: 21 Copynumber: 4.2 Consensus size: 21
72077 TTGGGACCTT
72087 GTATCGATACATTCTACAAAC
1 GTATCGATACATTCTACAAAC
*
72108 GTATCGATGCATTCTACAAAC
1 GTATCGATACATTCTACAAAC
72129 GTATCGATACATTCTACAAAC
1 GTATCGATACATTCTACAAAC
* * *
72150 GTATCGATGCATTCTATAAAT
1 GTATCGATACATTCTACAAAC
72171 GTATC
1 GTATC
72176 AATAAATTTA
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 63 1.00
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.31
Consensus pattern (21 bp):
GTATCGATACATTCTACAAAC
Found at i:72146 original size:42 final size:42
Alignment explanation
Indices: 72087--72175 Score: 160
Period size: 42 Copynumber: 2.1 Consensus size: 42
72077 TTGGGACCTT
72087 GTATCGATACATTCTACAAACGTATCGATGCATTCTACAAAC
1 GTATCGATACATTCTACAAACGTATCGATGCATTCTACAAAC
* *
72129 GTATCGATACATTCTACAAACGTATCGATGCATTCTATAAAT
1 GTATCGATACATTCTACAAACGTATCGATGCATTCTACAAAC
72171 GTATC
1 GTATC
72176 AATAAATTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.31
Consensus pattern (42 bp):
GTATCGATACATTCTACAAACGTATCGATGCATTCTACAAAC
Found at i:75565 original size:13 final size:13
Alignment explanation
Indices: 75547--75598 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
75537 GGCTTCGTAG
75547 CGATACATTGTAT
1 CGATACATTGTAT
75560 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
75579 CGATACATTGTAT
1 CGATACATTGTAT
75592 CGATACA
1 CGATACA
75599 ACACTTATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 17 0.52
15 2 0.06
16 2 0.06
17 2 0.06
19 10 0.30
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:75579 original size:19 final size:18
Alignment explanation
Indices: 75555--75617 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
75545 AGCGATACAT
75555 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
75574 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
75587 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
75606 TGTATCGATACA
1 TGTATCGATACA
75618 TTTTCTGTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
16 2 0.05
18 1 0.03
19 23 0.61
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:75588 original size:32 final size:32
Alignment explanation
Indices: 75547--75619 Score: 137
Period size: 32 Copynumber: 2.3 Consensus size: 32
75537 GGCTTCGTAG
75547 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
75579 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
75611 CGATACATT
1 CGATACATT
75620 TTCTGTTTGT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.34
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:75646 original size:19 final size:19
Alignment explanation
Indices: 75586--75647 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
75576 TATCGATACA
75586 TTGTATCGATACAACACT-T
1 TTGTATCGATACAA-ACTGT
* **
75605 ATGTATCGATACATTTTCTGT
1 TTGTATCGATACA--AACTGT
75626 TTGTATCGATACAAACTGT
1 TTGTATCGATACAAACTGT
75645 TTG
1 TTG
75648 AAGTTCAAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
19 19 0.56
20 2 0.06
21 13 0.38
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.42
Consensus pattern (19 bp):
TTGTATCGATACAAACTGT
Found at i:77569 original size:16 final size:16
Alignment explanation
Indices: 77545--77624 Score: 65
Period size: 16 Copynumber: 5.0 Consensus size: 16
77535 ATCATTTTTT
77545 AGTTCAGGTCATTTCG
1 AGTTCAGGTCATTTCG
* *
77561 AGTTTAGGTTATTTC-
1 AGTTCAGGTCATTTCG
* *
77576 AGGTTTAGATCATTTC-
1 A-GTTCAGGTCATTTCG
*
77592 AGGTTCAAGTCATTTCG
1 A-GTTCAGGTCATTTCG
* *
77609 GGTTCGGGTCATTTCG
1 AGTTCAGGTCATTTCG
77625 GATTCGGAGT
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
15 1 0.02
16 51 0.98
ACGTcount: A:0.19, C:0.15, G:0.25, T:0.41
Consensus pattern (16 bp):
AGTTCAGGTCATTTCG
Found at i:77625 original size:16 final size:16
Alignment explanation
Indices: 77585--77631 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
77575 CAGGTTTAGA
* **
77585 TCATTTCAGGTTCAAG
1 TCATTTCGGGTTCGGG
77601 TCATTTCGGGTTCGGG
1 TCATTTCGGGTTCGGG
*
77617 TCATTTCGGATTCGG
1 TCATTTCGGGTTCGG
77632 AGTAATCGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.15, C:0.19, G:0.28, T:0.38
Consensus pattern (16 bp):
TCATTTCGGGTTCGGG
Found at i:77698 original size:53 final size:54
Alignment explanation
Indices: 77606--77730 Score: 128
Period size: 53 Copynumber: 2.3 Consensus size: 54
77596 TCAAGTCATT
** * * *
77606 TCGGGTTCGGGTCATTTCGGATTCGGAGTAATCGAGTTTAACACACGGGTT-AA
1 TCGGGTTCAAGTCATTTTGGATTCAGAGTAATCGAGTTTAACACACGAGTTAAA
* * **
77659 TCGGGTTCAAGTCATTTTGGATTCAG-GTCAATTGGGTTTAACATTCGAGTTAAA
1 TCGGGTTCAAGTCATTTTGGATTCAGAGT-AATCGAGTTTAACACACGAGTTAAA
**
77713 TCAAGTTCAAGTCATTTT
1 TCGGGTTCAAGTCATTTT
77731 AAGTTTAGGT
Statistics
Matches: 59, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
52 2 0.03
53 39 0.66
54 18 0.31
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (54 bp):
TCGGGTTCAAGTCATTTTGGATTCAGAGTAATCGAGTTTAACACACGAGTTAAA
Found at i:79289 original size:6 final size:7
Alignment explanation
Indices: 79276--79308 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
79266 TATATATACA
79276 TTATTTT
1 TTATTTT
79283 TTATTTT
1 TTATTTT
79290 TTATTTT
1 TTATTTT
79297 TTATTTT
1 TTATTTT
79304 TTATT
1 TTATT
79309 ATATGAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTATTTT
Found at i:85136 original size:40 final size:41
Alignment explanation
Indices: 85089--85170 Score: 121
Period size: 41 Copynumber: 2.0 Consensus size: 41
85079 ATTAAAGTAA
* * * *
85089 GTTGGTATACACTTTTTAC-TAAAATTGCACTGAATTAAGT
1 GTTGGTATAAACTCTTTACAAAAAATTACACTGAATTAAGT
85129 GTTGGTATAAACTCTTTACAAAAAATTACACTGAATTAAGT
1 GTTGGTATAAACTCTTTACAAAAAATTACACTGAATTAAGT
85170 G
1 G
85171 ATCTAACTTC
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
40 17 0.46
41 20 0.54
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (41 bp):
GTTGGTATAAACTCTTTACAAAAAATTACACTGAATTAAGT
Found at i:88356 original size:22 final size:22
Alignment explanation
Indices: 88328--88383 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
88318 GGTAAGCATG
88328 GATTAATTTGAATAGATTTAA-T
1 GATTAATTTGAATA-ATTTAACT
*
88350 GATTAATTTGATTAATTTAACTT
1 GATTAATTTGAATAATTTAAC-T
*
88373 GATTTATTTGA
1 GATTAATTTGA
88384 TTTTAAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
21 6 0.20
22 13 0.43
23 11 0.37
ACGTcount: A:0.36, C:0.02, G:0.12, T:0.50
Consensus pattern (22 bp):
GATTAATTTGAATAATTTAACT
Found at i:89278 original size:9 final size:9
Alignment explanation
Indices: 89266--89398 Score: 72
Period size: 9 Copynumber: 14.2 Consensus size: 9
89256 GAAAAATCAT
89266 AAAATAAAA
1 AAAATAAAA
89275 AAAATAATAA
1 AAAATAA-AA
*
89285 CATAATAATAA
1 -AAAATAA-AA
*
89296 AAAAT-CAA
1 AAAATAAAA
**
89304 AAAATTTAA
1 AAAATAAAA
*
89313 AAAAT-CAA
1 AAAATAAAA
* *
89321 GAAATTAAA
1 AAAATAAAA
89330 AAAATAAAA
1 AAAATAAAA
*
89339 AATCAATCAAA
1 AA--AATAAAA
*
89350 AAAATCATAA
1 AAAAT-AAAA
*
89360 GAAATCAAAA
1 AAAAT-AAAA
*
89370 ATAATAAAA
1 AAAATAAAA
*
89379 ATAATAAAA
1 AAAATAAAA
*
89388 ATAATAAAA
1 AAAATAAAA
89397 AA
1 AA
89399 TCAAAATTAT
Statistics
Matches: 100, Mismatches: 17, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
8 13 0.13
9 51 0.51
10 19 0.19
11 17 0.17
ACGTcount: A:0.74, C:0.05, G:0.02, T:0.19
Consensus pattern (9 bp):
AAAATAAAA
Found at i:89353 original size:55 final size:55
Alignment explanation
Indices: 89257--89402 Score: 140
Period size: 55 Copynumber: 2.6 Consensus size: 55
89247 ATTTGTTTGG
* * **
89257 AAAAATCATAAAATAAAAAAAATAATAACAT-AATAATAAAAAATCA-AA-AAATTTA
1 AAAAATCA-AAAATTAAAAAAATAA-AAAATCAAT-ATAAAAAATCATAAGAAATCAA
89312 AAAAATCAAGAAATTAAAAAAATAAAAAATCAATCA-AAAAAATCATAAGAAATCAA
1 AAAAATCAA-AAATTAAAAAAATAAAAAATCAAT-ATAAAAAATCATAAGAAATCAA
89368 AAATAAT-AAAAATAATAAAAATAATAAAAAATCAA
1 AAA-AATCAAAAAT--TAAAAA-AATAAAAAATCAA
89403 AATTATCAAA
Statistics
Matches: 78, Mismatches: 5, Indels: 13
0.81 0.05 0.14
Matches are distributed among these distances:
54 14 0.18
55 32 0.41
56 10 0.13
57 9 0.12
58 13 0.17
ACGTcount: A:0.73, C:0.06, G:0.01, T:0.19
Consensus pattern (55 bp):
AAAAATCAAAAATTAAAAAAATAAAAAATCAATATAAAAAATCATAAGAAATCAA
Found at i:89382 original size:23 final size:23
Alignment explanation
Indices: 89310--89387 Score: 70
Period size: 23 Copynumber: 3.3 Consensus size: 23
89300 TCAAAAAATT
*
89310 TAAAAAATCAAGAAATTAAAAAAA
1 TAAAAAATCAACAAA-TAAAAAAA
**
89334 TAAAAAATCAATCAAA-AAAATCA
1 TAAAAAATCAA-CAAATAAAAAAA
*
89357 TAAGAAATCAA-AAATAATAAAAA
1 TAAAAAATCAACAAATAA-AAAAA
89380 TAATAAAA
1 TAA-AAAA
89388 ATAATAAAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
21 3 0.07
22 2 0.05
23 21 0.49
24 14 0.33
25 3 0.07
ACGTcount: A:0.73, C:0.06, G:0.03, T:0.18
Consensus pattern (23 bp):
TAAAAAATCAACAAATAAAAAAA
Found at i:89404 original size:17 final size:17
Alignment explanation
Indices: 89257--89404 Score: 80
Period size: 17 Copynumber: 8.6 Consensus size: 17
89247 ATTTGTTTGG
89257 AAAAATCATAAAATAA-A
1 AAAAATCA-AAAATAATA
*
89274 AAAAATAATAACATAATAATA
1 AAAAAT--CAA-A-AATAATA
*
89295 AAAAATCAAAAA-ATTTA
1 AAAAATCAAAAATA-ATA
*
89312 AAAAATCAAGAAATTA-A
1 AAAAATCAA-AAATAATA
89329 AAAAAT--AAAA-AATCA
1 AAAAATCAAAAATAAT-A
** *
89344 ATCAA--AAAAATCATA
1 AAAAATCAAAAATAATA
*
89359 AGAAATCAAAAATAATAA
1 AAAAATCAAAAATAAT-A
89377 AAATAAT-AAAAATAATA
1 AAA-AATCAAAAATAATA
89394 AAAAATCAAAA
1 AAAAATCAAAA
89405 TTATCAAAAG
Statistics
Matches: 101, Mismatches: 13, Indels: 34
0.68 0.09 0.23
Matches are distributed among these distances:
13 1 0.01
14 3 0.03
15 13 0.13
16 6 0.06
17 42 0.42
18 17 0.17
19 7 0.07
20 5 0.05
21 7 0.07
ACGTcount: A:0.74, C:0.06, G:0.01, T:0.19
Consensus pattern (17 bp):
AAAAATCAAAAATAATA
Found at i:89493 original size:17 final size:17
Alignment explanation
Indices: 89471--89530 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
89461 TGATGAATGA
89471 ATGAAAGTTATAAAAGC
1 ATGAAAGTTATAAAAGC
* *
89488 ATGAAATGATGATGCAAAGC
1 ATGAAA-G-TTAT-AAAAGC
* *
89508 ATGAAAGTTGTGAAAGC
1 ATGAAAGTTATAAAAGC
89525 ATGAAA
1 ATGAAA
89531 TGATGATGCA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
17 17 0.49
18 3 0.09
19 4 0.11
20 11 0.31
ACGTcount: A:0.48, C:0.07, G:0.23, T:0.22
Consensus pattern (17 bp):
ATGAAAGTTATAAAAGC
Found at i:89508 original size:20 final size:19
Alignment explanation
Indices: 89483--89574 Score: 100
Period size: 20 Copynumber: 4.8 Consensus size: 19
89473 GAAAGTTATA
89483 AAAGCATGAAATGATGATG
1 AAAGCATGAAATGATGATG
*
89502 CAAAGCATGAAA-GTTG-TG
1 -AAAGCATGAAATGATGATG
89520 AAAGCATGAAATGATGATG
1 AAAGCATGAAATGATGATG
* *
89539 CAAAGCATGTAACG-TGGATG
1 -AAAGCATGAAATGAT-GATG
*
89559 AAAGTATGAAATGATG
1 AAAGCATGAAATGATG
89575 CAGCAAACAA
Statistics
Matches: 60, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
17 11 0.18
18 5 0.08
19 17 0.28
20 27 0.45
ACGTcount: A:0.43, C:0.08, G:0.27, T:0.22
Consensus pattern (19 bp):
AAAGCATGAAATGATGATG
Found at i:89516 original size:37 final size:37
Alignment explanation
Indices: 89471--89574 Score: 145
Period size: 37 Copynumber: 2.8 Consensus size: 37
89461 TGATGAATGA
*
89471 ATGAAAGTTATAAAAGCATGAAATGATGATGCAAAGC
1 ATGAAAGTTATGAAAGCATGAAATGATGATGCAAAGC
*
89508 ATGAAAGTTGTGAAAGCATGAAATGATGATGCAAAGC
1 ATGAAAGTTATGAAAGCATGAAATGATGATGCAAAGC
* * *
89545 ATGTAACGTGGATGAAAGTATGAAATGATG
1 ATG-AAAGT-TATGAAAGCATGAAATGATG
89575 CAGCAAACAA
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
37 38 0.64
38 4 0.07
39 17 0.29
ACGTcount: A:0.44, C:0.07, G:0.26, T:0.23
Consensus pattern (37 bp):
ATGAAAGTTATGAAAGCATGAAATGATGATGCAAAGC
Found at i:95017 original size:22 final size:22
Alignment explanation
Indices: 94989--95044 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
94979 TGGACATATT
*
94989 AAAAATGCATGAAACGTAATAA
1 AAAAATGCATGAAACATAATAA
95011 AAAAATGCATGAAACATAATAA
1 AAAAATGCATGAAACATAATAA
95033 AAAAATGCATGA
1 AAAAATGCATGA
95045 TCAAAGGCTA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.61, C:0.09, G:0.12, T:0.18
Consensus pattern (22 bp):
AAAAATGCATGAAACATAATAA
Found at i:96007 original size:20 final size:20
Alignment explanation
Indices: 95954--96025 Score: 63
Period size: 20 Copynumber: 3.6 Consensus size: 20
95944 AAAAAGACAT
* * * *
95954 AATGTATTGATACATTGAAG
1 AATGTATCGATATATTCAAA
* * *
95974 AATATATTGATATATTCATA
1 AATGTATCGATATATTCAAA
* *
95994 CATGTATCGATATATTGAAA
1 AATGTATCGATATATTCAAA
96014 AATGTATCGATA
1 AATGTATCGATA
96026 CATCTAGGTA
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.42, C:0.07, G:0.14, T:0.38
Consensus pattern (20 bp):
AATGTATCGATATATTCAAA
Found at i:96786 original size:17 final size:16
Alignment explanation
Indices: 96756--96790 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
96746 TTTTTAAATA
96756 TTAAAAATAAATATTT
1 TTAAAAATAAATATTT
*
96772 TTAAAAACTATATATTT
1 TTAAAAA-TAAATATTT
96789 TT
1 TT
96791 TAATCAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (16 bp):
TTAAAAATAAATATTT
Found at i:100667 original size:40 final size:40
Alignment explanation
Indices: 100612--100692 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
100602 ACTAAGAAGC
100612 TAGACCTTAATTATAATCAGGTACAACTTAGTTTCAATAT
1 TAGACCTTAATTATAATCAGGTACAACTTAGTTTCAATAT
*
100652 TAGACCTTTATTATAATCAGGTACAACTTAGTTTCAATAT
1 TAGACCTTAATTATAATCAGGTACAACTTAGTTTCAATAT
100692 T
1 T
100693 TTTCTCAATG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.36, C:0.15, G:0.10, T:0.40
Consensus pattern (40 bp):
TAGACCTTAATTATAATCAGGTACAACTTAGTTTCAATAT
Found at i:102253 original size:25 final size:25
Alignment explanation
Indices: 102205--102253 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
102195 TGTCGTTTGT
**
102205 AATTTTTTTCATATATTTGTATTGC
1 AATTTTTTTCATATATTTACATTGC
*
102230 AATTTTTTTCATATGTTTACATTG
1 AATTTTTTTCATATATTTACATTG
102254 TTAAATTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.24, C:0.08, G:0.08, T:0.59
Consensus pattern (25 bp):
AATTTTTTTCATATATTTACATTGC
Found at i:103643 original size:3 final size:3
Alignment explanation
Indices: 103637--103674 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
103627 CATCATCATC
103637 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
103675 AAATGGGTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:103841 original size:15 final size:15
Alignment explanation
Indices: 103821--103854 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
103811 ACATCCTTCC
*
103821 TTTTAATTGTTTTCT
1 TTTTAATTGTTTTAT
*
103836 TTTTAATTTTTTTAT
1 TTTTAATTGTTTTAT
103851 TTTT
1 TTTT
103855 GAAATAAGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.03, G:0.03, T:0.79
Consensus pattern (15 bp):
TTTTAATTGTTTTAT
Found at i:104651 original size:38 final size:39
Alignment explanation
Indices: 104608--104686 Score: 133
Period size: 38 Copynumber: 2.1 Consensus size: 39
104598 TGTAAGAATT
*
104608 TTAGCAAAAGAATTAAATTAGAATAAGTAAAAAAA-AAA
1 TTAGCAAAAAAATTAAATTAGAATAAGTAAAAAAATAAA
*
104646 TTAGCAAAAAAATTATATTAGAATAAGTAAAAAAATAAA
1 TTAGCAAAAAAATTAAATTAGAATAAGTAAAAAAATAAA
104685 TT
1 TT
104687 CTAGACATCA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
38 33 0.87
39 5 0.13
ACGTcount: A:0.63, C:0.03, G:0.09, T:0.25
Consensus pattern (39 bp):
TTAGCAAAAAAATTAAATTAGAATAAGTAAAAAAATAAA
Found at i:105738 original size:17 final size:19
Alignment explanation
Indices: 105706--105743 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
105696 AATGTGCTAA
*
105706 AAATTCAAAGTTCTAA-TT
1 AAATACAAAGTTCTAACTT
105724 AAATACAAA-TTCTAACTT
1 AAATACAAAGTTCTAACTT
105742 AA
1 AA
105744 GCTATCTGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.50, C:0.13, G:0.03, T:0.34
Consensus pattern (19 bp):
AAATACAAAGTTCTAACTT
Found at i:106654 original size:15 final size:14
Alignment explanation
Indices: 106631--106706 Score: 61
Period size: 13 Copynumber: 5.4 Consensus size: 14
106621 TTTCACTTTT
106631 TTTTCTTTCTTTTCAA
1 TTTT-TTTCTTTTC-A
106647 TTTTTTTCATTTTTCA
1 TTTTTTTC--TTTTCA
*
106663 -TTTTTTCTCTT-A
1 TTTTTTTCTTTTCA
106675 TTTTTTAT-TTTTCA
1 TTTTTT-TCTTTTCA
*
106689 TTTTTAT-TTTTCA
1 TTTTTTTCTTTTCA
106702 TTTTT
1 TTTTT
106707 ATTTTTTTTT
Statistics
Matches: 52, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
12 1 0.02
13 23 0.44
14 7 0.13
15 11 0.21
16 5 0.10
17 5 0.10
ACGTcount: A:0.12, C:0.12, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTTTTCTTTTCA
Found at i:106666 original size:6 final size:7
Alignment explanation
Indices: 106649--106712 Score: 66
Period size: 7 Copynumber: 9.7 Consensus size: 7
106639 CTTTTCAATT
106649 TTTTTCA
1 TTTTTCA
106656 TTTTTCA
1 TTTTTCA
106663 TTTTT--
1 TTTTTCA
*
106668 TCTCTT-A
1 T-TTTTCA
*
106675 TTTTTTA
1 TTTTTCA
106682 TTTTTCA
1 TTTTTCA
106689 TTTTT-A
1 TTTTTCA
106695 TTTTTCA
1 TTTTTCA
106702 TTTTT-A
1 TTTTTCA
106708 TTTTT
1 TTTTT
106713 TTTTCAAAGC
Statistics
Matches: 50, Mismatches: 3, Indels: 9
0.81 0.05 0.15
Matches are distributed among these distances:
5 1 0.02
6 18 0.36
7 31 0.62
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.78
Consensus pattern (7 bp):
TTTTTCA
Found at i:106692 original size:13 final size:13
Alignment explanation
Indices: 106649--106712 Score: 78
Period size: 13 Copynumber: 4.8 Consensus size: 13
106639 CTTTTCAATT
106649 TTTTTCATTTTTCA
1 TTTTT-ATTTTTCA
*
106663 TTTTT-TCTCTT-A
1 TTTTTAT-TTTTCA
106675 TTTTTTATTTTTCA
1 -TTTTTATTTTTCA
106689 TTTTTATTTTTCA
1 TTTTTATTTTTCA
106702 TTTTTATTTTT
1 TTTTTATTTTT
106713 TTTTCAAAGC
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
12 2 0.05
13 35 0.80
14 7 0.16
ACGTcount: A:0.12, C:0.09, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTTTATTTTTCA
Found at i:111575 original size:21 final size:21
Alignment explanation
Indices: 111549--111588 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
111539 TTTTAGATTA
111549 AAAATTCAAAA-AAATAAAACC
1 AAAATT-AAAATAAATAAAACC
111570 AAAATTAAAATAAATAAAA
1 AAAATTAAAATAAATAAAA
111589 AACACAATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.75, C:0.07, G:0.00, T:0.17
Consensus pattern (21 bp):
AAAATTAAAATAAATAAAACC
Found at i:111613 original size:14 final size:15
Alignment explanation
Indices: 111594--111622 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
111584 TAAAAAACAC
111594 AATCAA-ATTATTAA
1 AATCAAGATTATTAA
111608 AATCAAGATTATTAA
1 AATCAAGATTATTAA
111623 TTTACACCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.55, C:0.07, G:0.03, T:0.34
Consensus pattern (15 bp):
AATCAAGATTATTAA
Found at i:112501 original size:2 final size:2
Alignment explanation
Indices: 112494--112527 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
112484 ATGTGTAATC
112494 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
112528 GAATTTAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:112964 original size:15 final size:16
Alignment explanation
Indices: 112936--112986 Score: 52
Period size: 15 Copynumber: 3.1 Consensus size: 16
112926 TACACACACG
112936 TATAATATTT-ATAT-T
1 TATAAT-TTTAATATAT
112951 TATAATTTTAATATAT
1 TATAATTTTAATATAT
112967 TAAATAATTATTAATATAT
1 T--ATAATT-TTAATATAT
112986 T
1 T
112987 TATATTAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
14 3 0.10
15 10 0.32
16 2 0.06
18 6 0.19
19 10 0.32
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TATAATTTTAATATAT
Found at i:113001 original size:14 final size:15
Alignment explanation
Indices: 112973--113014 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
112963 ATATTAAATA
* *
112973 ATTATTAATATATTT
1 ATTATTAAAAAATTT
112988 A-TATTAAAAAATTT
1 ATTATTAAAAAATTT
113002 ATTTATTAAAAAA
1 A-TTATTAAAAAA
113015 ATATAAAACA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 12 0.52
15 1 0.04
16 10 0.43
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATTAAAAAATTT
Found at i:113006 original size:18 final size:17
Alignment explanation
Indices: 112983--113016 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
112973 ATTATTAATA
*
112983 TATTTATATTAAAAAATT
1 TATTTAT-TAAAAAAATT
113001 TATTTATTAAAAAAAT
1 TATTTATTAAAAAAAT
113017 ATAAAACACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TATTTATTAAAAAAATT
Found at i:113592 original size:24 final size:25
Alignment explanation
Indices: 113546--113592 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
113536 AAATAATATT
* *
113546 AATTTAAAAATTATAAAATTATAGA
1 AATTTAAAAATTAAAAAAATATAGA
*
113571 AATTT-AAAGTTAAAAAAATATA
1 AATTTAAAAATTAAAAAAATATA
113593 TATGCCTATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 14 0.74
25 5 0.26
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (25 bp):
AATTTAAAAATTAAAAAAATATAGA
Found at i:127222 original size:32 final size:32
Alignment explanation
Indices: 127186--127247 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
127176 CTCGAATCTA
*
127186 AAATGACTCAAATTCAAAATGATTCAAATTCG
1 AAATGACTCAAACTCAAAATGATTCAAATTCG
* ** *
127218 AAATGATTTGAACTCAAAGTGATTCAAATT
1 AAATGACTCAAACTCAAAATGATTCAAATT
127248 TAAAATAATT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.45, C:0.13, G:0.11, T:0.31
Consensus pattern (32 bp):
AAATGACTCAAACTCAAAATGATTCAAATTCG
Found at i:127224 original size:16 final size:15
Alignment explanation
Indices: 127186--127247 Score: 61
Period size: 16 Copynumber: 3.9 Consensus size: 15
127176 CTCGAATCTA
*
127186 AAATGACTCAAATTC
1 AAATGATTCAAATTC
127201 AAAATGATTCAAATTC
1 -AAATGATTCAAATTC
** *
127217 GAAATGATTTGAACTC
1 -AAATGATTCAAATTC
127233 AAAGTGATTCAAATT
1 AAA-TGATTCAAATT
127248 TAAAATAATT
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
15 3 0.08
16 34 0.92
ACGTcount: A:0.45, C:0.13, G:0.11, T:0.31
Consensus pattern (15 bp):
AAATGATTCAAATTC
Found at i:127264 original size:16 final size:16
Alignment explanation
Indices: 127243--127306 Score: 71
Period size: 15 Copynumber: 4.0 Consensus size: 16
127233 AAAGTGATTC
127243 AAATTTAAAATAATTT
1 AAATTTAAAATAATTT
127259 AAATTTTAAAAT--TTT
1 AAA-TTTAAAATAATTT
*
127274 AAAATTTAAAATAACTT
1 -AAATTTAAAATAATTT
127291 -AATTTAAAATCAATTT
1 AAATTTAAAAT-AATTT
127307 GACTTACCTA
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
15 21 0.51
16 10 0.24
17 10 0.24
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (16 bp):
AAATTTAAAATAATTT
Found at i:130920 original size:8 final size:7
Alignment explanation
Indices: 130907--130950 Score: 52
Period size: 8 Copynumber: 5.7 Consensus size: 7
130897 TTCGATCTCA
130907 TTTCTTT
1 TTTCTTT
130914 CTTTCTTTT
1 -TTTC-TTT
130923 TTTCTTTT
1 TTTC-TTT
130931 TTTCTTT
1 TTTCTTT
130938 TTTCCTTT
1 TTT-CTTT
130946 TTTCT
1 TTTCT
130951 CTTGTTGCAG
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
7 8 0.24
8 23 0.68
9 3 0.09
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTCTTT
Found at i:130940 original size:15 final size:15
Alignment explanation
Indices: 130907--130950 Score: 61
Period size: 16 Copynumber: 2.8 Consensus size: 15
130897 TTCGATCTCA
130907 TTTCTTTCTTTCTTTT
1 TTTCTTT-TTTCTTTT
130923 TTTCTTTTTTTCTTTT
1 TTTC-TTTTTTCTTTT
*
130939 TTCCTTTTTTCT
1 TTTCTTTTTTCT
130951 CTTGTTGCAG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 8 0.31
16 15 0.58
17 3 0.12
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTCTTTTTTCTTTT
Found at i:132297 original size:12 final size:12
Alignment explanation
Indices: 132268--132302 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
132258 AATTAATATT
*
132268 TAAAAAATTTAA
1 TAAAATATTTAA
132280 -AAAATATTTAA
1 TAAAATATTTAA
132291 TAAAATATTTAA
1 TAAAATATTTAA
132303 AAGCTCATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
TAAAATATTTAA
Done.