Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001630.1 Hibiscus syriacus cultivar Beakdansim tig00003244_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 75498
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Found at i:1853 original size:448 final size:446
Alignment explanation
Indices: 1081--2417 Score: 2325
Period size: 448 Copynumber: 3.0 Consensus size: 446
1071 GAGCATCTTG
*
1081 TAACTCATTAAAATATTTTGAATTTAATCTATTTAAGTTAGAAGATACCTTTGGCTCTGTGAGAT
1 TAACTCATTAAAATATTTTGAATTTAATCTATTTAAGTTAGAAGATACCTTTGGCTCTGTGAGAG
1146 CTAATAGAGACATCACCTTTATTGGTTCTTCTTCTTCCTTGTCTCTATAGATATCCTCAAGCTTA
66 CTAATAGAGACATCACCTTTATTGGTTCTTCTTCTTCCTTGTCTCTATA-ATATCCTCAAGCTTA
1211 TCCCACATCTCCTTGGCATTTGAACAAGAAGAAACTCCTGTATACATTAGGATCAATTGCACAAC
130 TCCCACATCTCCTTGGCATTTGAACAAGAAGAAACTCCTGTATACATTAGGATCAATTG--CAAC
* *
1276 AAAACATGTGCATAGCCTTTGTA-TTTGTTGAGCTTTCTTATGTTCTTGATTACT-C-CTTCTTT
193 ACAACATGTGCATAGCCTTTGTATTTTGTTGAGCTTTCTTACGTTCTTGATTACTCCACTTCTTT
1338 GCCTTCTTCGTAGGACAAAAATATCCTTTCTCGATCATCATCCAAGCTTCCATATCAAATCCTTG
258 GCCTTCTTCGTAGGACAAAAATATCCTTTCTCGATCATCATCCAAGCTTCCATATCAAATCCTTG
*
1403 GATAAATATCATCATAAACTTCTTCCAACGATGATAATTTCTTCCATTGAAATGTGGAGACACAT
323 GATAAATATCATCATAAACTTCTTCCAACGATGATAATTTCTTCCATTGAAGTGTGGAGACACAT
* *
1468 CAATTGGTCTGGATTCTTCCATGGGGAATTAATCGAAAGTGGACACCATCTTTATCGATT
388 CAATTGGTCTGGATTCTTCCAT-GGGAATGAACCGAAAGTGGACACCATCTTTATCGATT
*
1528 TAACTCATTAAAATATTTGGAATTTAATCTATTTAAGTTAGAAAGATACCTTTGGCTCTGTGAGA
1 TAACTCATTAAAATATTTTGAATTTAATCTATTTAAGTTAG-AAGATACCTTTGGCTCTGTGAGA
1593 GCTAATAGAGACATCACCTTTATTGGTTCTTCTTCTTCCTTGTCTCTAT-ATATCCTCAAGCTTA
65 GCTAATAGAGACATCACCTTTATTGGTTCTTCTTCTTCCTTGTCTCTATAATATCCTCAAGCTTA
* *
1657 TCCCACATCTCCTT-GCATTTGAACAAGAAGAAACTCCTATATATACATTAGGATC-ATTGTATA
130 TCCCACATCTCCTTGGCATTTGAACAAGAAGAAACTCC--TGTATACATTAGGATCAATTGCA-A
1720 CACAACATGTGCATAGCCTTTGTATTTTTGTTGAGCTTTCTT-CGTTCTTGATTACTCCACTTCT
192 CACAACATGTGCATAGCCTTTGTA-TTTTGTTGAGCTTTCTTACGTTCTTGATTACTCCACTTCT
1784 TTGCCTTCTTCGTAGGACAAAAATATCCTTTCTCGATCATCATCCAAGCTTCCATATCAAATCCT
256 TTGCCTTCTTCGTAGGACAAAAATATCCTTTCTCGATCATCATCCAAGCTTCCATATCAAATCCT
1849 TGGATAAATATCATCATAAA---CTTCCAACGATGATAATTTCTTCCATTGAAGTGTGGAGACAC
321 TGGATAAATATCATCATAAACTTCTTCCAACGATGATAATTTCTTCCATTGAAGTGTGGAGACAC
1911 ATCAATTGGTCTGGATTCTTCCATGGGAATGAACCGAAAGTGGACACCATCTTTATCGATT
386 ATCAATTGGTCTGGATTCTTCCATGGGAATGAACCGAAAGTGGACACCATCTTTATCGATT
1972 TAACTCATTAAAATATTTTGAATTTAATCTATTTAAGTTAGAAGATACCTTTGGCTCTGTGAGAG
1 TAACTCATTAAAATATTTTGAATTTAATCTATTTAAGTTAGAAGATACCTTTGGCTCTGTGAGAG
2037 CTAATAGAGACATCACCTTTATTGGTT-TTCTTCTTCCTTGTCTCTATAGATATCCTCAAGCTTA
66 CTAATAGAGACATCACCTTTATTGGTTCTTCTTCTTCCTTGTCTCTATA-ATATCCTCAAGCTTA
2101 TCCCACATCTCCTTGGCA-TTGAAC-AGAAGAAACTCCTGTATACATTAGGATCAATTGCAACAC
130 TCCCACATCTCCTTGGCATTTGAACAAGAAGAAACTCCTGTATACATTAGGATCAATTGCAACAC
*
2164 AACATGTGC-TAG-CTTTGTATTTTGTTGAGCTTTCTTCCGTTCTTGATTACTCCACTTCTTTGC
195 AACATGTGCATAGCCTTTGTATTTTGTTGAGCTTTCTTACGTTCTTGATTACTCCACTTCTTTGC
*
2227 CTTCTTCGTAAGACAAAAATA--CTTTCTCGATCATCATCCAAGCTTCCATATCAAATCCTTGGA
260 CTTCTTCGTAGGACAAAAATATCCTTTCTCGATCATCATCCAAGCTTCCATATCAAATCCTTGGA
2290 TAAATATCATCATAAACTTCTTCCAACGATGATAA-TTCTTCCATTGAAGTGTGTGGAGACACAT
325 TAAATATCATCATAAACTTCTTCCAACGATGATAATTTCTTCCATTGAA--GTGTGGAGACACAT
*
2354 CAATTGGTCTGGATTCTTCCA-GGGAATGAACCGGAAGTGGACACCATCTTTATCGATT
388 CAATTGGTCTGGATTCTTCCATGGGAATGAACCGAAAGTGGACACCATCTTTATCGATT
2412 TAACTC
1 TAACTC
2418 TTCTCGAATC
Statistics
Matches: 858, Mismatches: 14, Indels: 43
0.94 0.02 0.05
Matches are distributed among these distances:
437 58 0.07
438 17 0.02
439 66 0.08
440 61 0.07
441 63 0.07
442 25 0.03
443 63 0.07
444 111 0.13
445 115 0.13
446 46 0.05
447 72 0.08
448 161 0.19
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (446 bp):
TAACTCATTAAAATATTTTGAATTTAATCTATTTAAGTTAGAAGATACCTTTGGCTCTGTGAGAG
CTAATAGAGACATCACCTTTATTGGTTCTTCTTCTTCCTTGTCTCTATAATATCCTCAAGCTTAT
CCCACATCTCCTTGGCATTTGAACAAGAAGAAACTCCTGTATACATTAGGATCAATTGCAACACA
ACATGTGCATAGCCTTTGTATTTTGTTGAGCTTTCTTACGTTCTTGATTACTCCACTTCTTTGCC
TTCTTCGTAGGACAAAAATATCCTTTCTCGATCATCATCCAAGCTTCCATATCAAATCCTTGGAT
AAATATCATCATAAACTTCTTCCAACGATGATAATTTCTTCCATTGAAGTGTGGAGACACATCAA
TTGGTCTGGATTCTTCCATGGGAATGAACCGAAAGTGGACACCATCTTTATCGATT
Found at i:4240 original size:16 final size:16
Alignment explanation
Indices: 4219--4251 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
4209 CCCATTTATC
*
4219 ATTTTAAAACACACTT
1 ATTTTAAAACAAACTT
4235 ATTTTAAAACAAACTT
1 ATTTTAAAACAAACTT
4251 A
1 A
4252 AAACCACTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.36
Consensus pattern (16 bp):
ATTTTAAAACAAACTT
Found at i:6350 original size:20 final size:20
Alignment explanation
Indices: 6313--6351 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
6303 AGATTGAGTG
* * *
6313 GATTTTGATGTTGTTTGCAC
1 GATTTTAATGATGATTGCAC
6333 GATTTTAATGATGATTGCA
1 GATTTTAATGATGATTGCA
6352 AGTTTAGGAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (20 bp):
GATTTTAATGATGATTGCAC
Found at i:6575 original size:20 final size:20
Alignment explanation
Indices: 6550--6589 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
6540 TTCCCCTTCA
*
6550 AAGGGGGAATCGGTTCCCTC
1 AAGGGGGAATCGATTCCCTC
*
6570 AAGGGGGGATCGATTCCCTC
1 AAGGGGGAATCGATTCCCTC
6590 TGCACCAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.20, C:0.25, G:0.35, T:0.20
Consensus pattern (20 bp):
AAGGGGGAATCGATTCCCTC
Found at i:12877 original size:20 final size:21
Alignment explanation
Indices: 12835--12874 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
12825 AATCTTACAT
*
12835 GGGGGTATCGGTACCCTCTTG
1 GGGGGTATCGGTACCATCTTG
12856 GGGGGTATCGGTACCATCT
1 GGGGGTATCGGTACCATCT
12875 GGGCAATCTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.12, C:0.23, G:0.38, T:0.28
Consensus pattern (21 bp):
GGGGGTATCGGTACCATCTTG
Found at i:25336 original size:59 final size:59
Alignment explanation
Indices: 25237--25363 Score: 148
Period size: 59 Copynumber: 2.2 Consensus size: 59
25227 CAGCAGGCTG
** * * *
25237 CATATTCGGGAATACACTAAAGGATACCTAGTGTATATGGT-GAGCACGACCTTATGTGT
1 CATATTCGGGAATACACTAAAGGATACCTAGTACAGATGGTGGA-CACGACCCTATATGT
* ** *
25296 CATATTCGGGACTGTACTTAAGGATACCTAGTACAGATGGTGGACACGACCCTATATGT
1 CATATTCGGGAATACACTAAAGGATACCTAGTACAGATGGTGGACACGACCCTATATGT
*
25355 CATACTCGG
1 CATATTCGG
25364 TATTGCTTTA
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
59 55 0.96
60 2 0.04
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.28
Consensus pattern (59 bp):
CATATTCGGGAATACACTAAAGGATACCTAGTACAGATGGTGGACACGACCCTATATGT
Found at i:25538 original size:45 final size:45
Alignment explanation
Indices: 25474--25745 Score: 463
Period size: 45 Copynumber: 6.0 Consensus size: 45
25464 GTAACCATGC
*
25474 AAATAAGCTTACAAGCTTATGGAATAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
*
25519 AAATAAGCTTACGGGCTTATGGAATAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
*
25564 AAATAAGCTTACGAGCTTAGGGAATAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
*
25609 AAATAAGCTTACGAGCTTATGAAATAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
*
25654 AAATAATCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
* * *
25699 AAATAAGCTTAGGAGCTTGTGAGAATAAATGGTTAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATG-GAATAAATGGTAAGTATATTGGTA
25745 A
1 A
25746 GAAATGTTAT
Statistics
Matches: 214, Mismatches: 12, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
45 190 0.89
46 24 0.11
ACGTcount: A:0.40, C:0.06, G:0.22, T:0.31
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGAATAAATGGTAAGTATATTGGTA
Found at i:25657 original size:24 final size:24
Alignment explanation
Indices: 25630--25704 Score: 63
Period size: 24 Copynumber: 3.2 Consensus size: 24
25620 CGAGCTTATG
25630 AAATAAATGGTAAGTATATTGGTA
1 AAATAAATGGTAAGTATATTGGTA
**
25654 AAAT-AATCTTACGAGCT-TA-TGG--
1 AAATAAATGGTA--AG-TATATTGGTA
25676 -AATAAATGGTAAGTATATTGGTA
1 AAATAAATGGTAAGTATATTGGTA
25699 AAATAA
1 AAATAA
25705 GCTTAGGAGC
Statistics
Matches: 38, Mismatches: 4, Indels: 18
0.63 0.07 0.30
Matches are distributed among these distances:
19 1 0.03
20 4 0.11
21 6 0.16
22 5 0.13
23 5 0.13
24 12 0.32
25 4 0.11
26 1 0.03
ACGTcount: A:0.45, C:0.04, G:0.19, T:0.32
Consensus pattern (24 bp):
AAATAAATGGTAAGTATATTGGTA
Found at i:26174 original size:21 final size:21
Alignment explanation
Indices: 26148--26188 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
26138 CCGAAATTAC
26148 TGTAGCAATGCATCGATACAT
1 TGTAGCAATGCATCGATACAT
*
26169 TGTAGCACTGCATCGATACA
1 TGTAGCAATGCATCGATACA
26189 CATTTTAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.27
Consensus pattern (21 bp):
TGTAGCAATGCATCGATACAT
Found at i:28592 original size:12 final size:12
Alignment explanation
Indices: 28575--28701 Score: 81
Period size: 12 Copynumber: 10.9 Consensus size: 12
28565 ATAAGAGCTA
28575 AAAAAAAGAAAG
1 AAAAAAAGAAAG
28587 -AAAAAAGAAAG
1 AAAAAAAGAAAG
28598 AAAAAAAGAAAG
1 AAAAAAAGAAAG
* *
28610 CATAAAACAGAAGG
1 -A-AAAAAAGAAAG
*
28624 AAAAAAA-AGA-
1 AAAAAAAGAAAG
* *
28634 AAAAAAATAAAT
1 AAAAAAAGAAAG
28646 AAAAAGAA-AAAG
1 AAAAA-AAGAAAG
*
28658 AAAACGAAG-AAG
1 AAAA-AAAGAAAG
*
28670 -AAAAAA-ATAG
1 AAAAAAAGAAAG
* *
28680 AAAAAAATAGA-
1 AAAAAAAGAAAG
28691 AAAAAAAGAAA
1 AAAAAAAGAAA
28702 CAATAATGAT
Statistics
Matches: 91, Mismatches: 13, Indels: 23
0.72 0.10 0.18
Matches are distributed among these distances:
10 11 0.12
11 32 0.35
12 35 0.38
13 4 0.04
14 9 0.10
ACGTcount: A:0.80, C:0.02, G:0.14, T:0.04
Consensus pattern (12 bp):
AAAAAAAGAAAG
Found at i:28597 original size:15 final size:13
Alignment explanation
Indices: 28574--28686 Score: 68
Period size: 14 Copynumber: 8.2 Consensus size: 13
28564 CATAAGAGCT
28574 AAAAAAAAGAAAGA
1 AAAAAAAAGAAA-A
28588 AAAAAGAAAG-AAA
1 AAAAA-AAAGAAAA
* *
28601 AAAAGAAAGCATAA
1 AAAAAAAAG-AAAA
* * *
28615 AACAGAAGGAAAA
1 AAAAAAAAGAAAA
28628 AAAAGAAAA-AAAA
1 AAAA-AAAAGAAAA
28641 TAAATAAAAAGAAAA
1 -AAA-AAAAAGAAAA
* *
28656 AGAAAACGAAGAAGA
1 A-AAAA-AAAGAAAA
*
28671 AAAAAATAGAAAA
1 AAAAAAAAGAAAA
28684 AAA
1 AAA
28687 TAGAAAAAAA
Statistics
Matches: 77, Mismatches: 13, Indels: 19
0.71 0.12 0.17
Matches are distributed among these distances:
12 4 0.05
13 23 0.30
14 32 0.42
15 18 0.23
ACGTcount: A:0.80, C:0.03, G:0.14, T:0.04
Consensus pattern (13 bp):
AAAAAAAAGAAAA
Found at i:28601 original size:10 final size:10
Alignment explanation
Indices: 28577--28701 Score: 73
Period size: 10 Copynumber: 11.9 Consensus size: 10
28567 AAGAGCTAAA
28577 AAAAAGAAAG
1 AAAAAGAAAG
28587 AAAAAAGAAAG
1 -AAAAAGAAAG
28598 AAAAAAAGAAAG
1 --AAAAAGAAAG
*
28610 CATAAAACAGAAGG
1 ---AAAA-AGAAAG
28624 AAAAA-AAAG
1 AAAAAGAAAG
*
28633 AAAAA-AAAT
1 AAAAAGAAAG
28642 AAATAA-AAAG
1 AAA-AAGAAAG
28652 AAAAAGAAAACG
1 AAAAAG-AAA-G
*
28664 AAGAAGAAA-
1 AAAAAGAAAG
28673 AAAATAGAAA-
1 AAAA-AGAAAG
28683 AAAATAGAAA-
1 AAAA-AGAAAG
28693 AAAAAGAAA
1 AAAAAGAAA
28702 CAATAATGAT
Statistics
Matches: 99, Mismatches: 7, Indels: 18
0.80 0.06 0.15
Matches are distributed among these distances:
9 24 0.24
10 28 0.28
11 20 0.20
12 17 0.17
13 5 0.05
14 5 0.05
ACGTcount: A:0.79, C:0.02, G:0.14, T:0.04
Consensus pattern (10 bp):
AAAAAGAAAG
Found at i:28616 original size:26 final size:24
Alignment explanation
Indices: 28574--28701 Score: 101
Period size: 22 Copynumber: 5.5 Consensus size: 24
28564 CATAAGAGCT
28574 AAAAAAAAGAAAGAAAAAAGAAAG
1 AAAAAAAAGAAAGAAAAAAGAAAG
*
28598 -AAAAAAAGAAAGCATAAAACAGAAGG
1 AAAAAAAAGAAAG-A-AAAA-AGAAAG
* *
28624 AAAAAAAAG-AA-AAAAAATAAAT
1 AAAAAAAAGAAAGAAAAAAGAAAG
* *
28646 AAAAAGAA-AAAG-AAAACG-AAG
1 AAAAAAAAGAAAGAAAAAAGAAAG
* *
28667 AAGAAAAAA-ATAGAAAAAA-ATAG
1 AA-AAAAAAGAAAGAAAAAAGAAAG
28690 AAAAAAAAGAAA
1 AAAAAAAAGAAA
28702 CAATAATGAT
Statistics
Matches: 81, Mismatches: 13, Indels: 21
0.70 0.11 0.18
Matches are distributed among these distances:
21 4 0.05
22 30 0.37
23 26 0.32
24 2 0.02
25 4 0.05
26 7 0.09
27 8 0.10
ACGTcount: A:0.80, C:0.02, G:0.14, T:0.04
Consensus pattern (24 bp):
AAAAAAAAGAAAGAAAAAAGAAAG
Found at i:28650 original size:47 final size:45
Alignment explanation
Indices: 28577--28701 Score: 130
Period size: 46 Copynumber: 2.7 Consensus size: 45
28567 AAGAGCTAAA
* * *
28577 AAAAAGAAAGAAAAAAGAA-AGAAAAAAAGAAAGCATAAAACAGAAG-G
1 AAAAA-AAAGAAAAAA-AATAAAAAAAAAGAAA-AAGAAAAC-GAAGAG
*
28624 AAAAAAAAGAAAAAAAATAAATAAAAAGAAAAAGAAAACGAAGAAG
1 AAAAAAAAGAAAAAAAATAAAAAAAAAGAAAAAGAAAACGAAG-AG
28670 AAAAAAATAG-AAAAAAATAGAAAAAAAAGAAA
1 AAAAAAA-AGAAAAAAAATA-AAAAAAAAGAAA
28702 CAATAATGAT
Statistics
Matches: 68, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
44 4 0.06
45 8 0.12
46 38 0.56
47 18 0.26
ACGTcount: A:0.79, C:0.02, G:0.14, T:0.04
Consensus pattern (45 bp):
AAAAAAAAGAAAAAAAATAAAAAAAAAGAAAAAGAAAACGAAGAG
Found at i:34398 original size:55 final size:55
Alignment explanation
Indices: 34291--34495 Score: 155
Period size: 55 Copynumber: 3.7 Consensus size: 55
34281 TGAACGAGTT
*
34291 AAACATTACAATCTTATTCAATCTTCCATCCTTGAATGTAACAACATAGATAAAA
1 AAACATTACAATCTTATTCAAACTTCCATCCTTGAATGTAACAACATAGATAAAA
* * * ** * * * **
34346 AAACATTACAATGTTATTCAAACTTGCATCTTTTCATTTAACAACTTGGATAAGT
1 AAACATTACAATCTTATTCAAACTTCCATCCTTGAATGTAACAACATAGATAAAA
* * * * * * *
34401 AAGCTTTAAAATGC-TATTCAAACTACAATCCTTGAATGTAACAAC-TTGAAAATAA
1 AAACATTACAAT-CTTATTCAAACTTCCATCCTTGAATGTAACAACATAGATAA-AA
* * **
34456 TTAAACATTA-AATGTTATTCAAACTGCCATATTTGAATGT
1 --AAACATTACAATCTTATTCAAACTTCCATCCTTGAATGT
34496 TAAAACTTTG
Statistics
Matches: 112, Mismatches: 33, Indels: 9
0.73 0.21 0.06
Matches are distributed among these distances:
54 5 0.04
55 77 0.69
56 24 0.21
57 6 0.05
ACGTcount: A:0.41, C:0.17, G:0.08, T:0.34
Consensus pattern (55 bp):
AAACATTACAATCTTATTCAAACTTCCATCCTTGAATGTAACAACATAGATAAAA
Found at i:34492 original size:56 final size:56
Alignment explanation
Indices: 34228--34769 Score: 293
Period size: 56 Copynumber: 9.6 Consensus size: 56
34218 TACAGCTTAG
* * ** *
34228 ATAAGTTAAACATTACAATGTTATTTATTA-TTCCATCCTTGACTGTAACAACTTGAA
1 ATAA-TTAAACATTACAATGTTATTCA-AACTTCCATATTTGAATGTAACAACTTGAA
** * * * ** * *
34285 CGAGTTAAACATTACAATCTTATTCAATCTTCCATCCTTGAATGTAACAACAT-AG
1 ATAATTAAACATTACAATGTTATTCAAACTTCCATATTTGAATGTAACAACTTGAA
** * * ** * *
34340 ATAAAAAAACATTACAATGTTATTCAAACTTGCATCTTTTCATTTAACAACTTG-G
1 ATAATTAAACATTACAATGTTATTCAAACTTCCATATTTGAATGTAACAACTTGAA
* * * * * * * **
34395 ATAAGTAAGCTTTAAAATGCTATTCAAACTACAATCCTTGAATGTAACAACTTGAAA
1 ATAATTAAACATTACAATGTTATTCAAACTTCCATATTTGAATGTAACAACTTG-AA
*
34452 ATAATTAAACATTA-AATGTTATTCAAACTGCCATATTTGAATGTTAA-AACTTTG-A
1 ATAATTAAACATTACAATGTTATTCAAACTTCCATATTTGAATG-TAACAAC-TTGAA
*** * * * * *
34507 GGCATTAAGACATTATAA-GACTATTCAAACTTCCAATTTTTGAATATAACAACTTG-G
1 ATAATTAA-ACATTACAATG-TTATTCAAACTTCC-ATATTTGAATGTAACAACTTGAA
* * ** *
34564 ATAAGTTAATGCATTACAAAGTTATTCAAACACCCATCA-TTGAATGTAACAACTT-AG
1 ATAA-TTAA-ACATTACAATGTTATTCAAACTTCCAT-ATTTGAATGTAACAACTTGAA
* * * * * * *
34621 ATAAGTGAAGACATTACAACGCTATTCCAACTTCCA-ATTTTGAATGCAACAAATT-AG
1 ATAA-TTAA-ACATTACAATGTTATTCAAACTTCCATA-TTTGAATGTAACAACTTGAA
* * * *
34678 ATAATTTCAA-TTCTACAATGTTATTAAAACTTCCATATTTGAATGTAACAACTTG-G
1 ATAA-TTAAACAT-TACAATGTTATTCAAACTTCCATATTTGAATGTAACAACTTGAA
* * * *
34734 GTAAGTTAAACATTACAAAGCTATTCAAACATCCAT
1 ATAA-TTAAACATTACAATGTTATTCAAACTTCCAT
34770 CTGTAATAAC
Statistics
Matches: 372, Mismatches: 92, Indels: 43
0.73 0.18 0.08
Matches are distributed among these distances:
55 91 0.24
56 137 0.37
57 109 0.29
58 34 0.09
59 1 0.00
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.34
Consensus pattern (56 bp):
ATAATTAAACATTACAATGTTATTCAAACTTCCATATTTGAATGTAACAACTTGAA
Found at i:34618 original size:115 final size:114
Alignment explanation
Indices: 34305--34768 Score: 339
Period size: 113 Copynumber: 4.1 Consensus size: 114
34295 ATTACAATCT
* ** * * * *
34305 TATTCAATCTTCC-ATCCTTGAATGTAACAACATAGATAA-AAAAACATTACAATGTTATTCAAA
1 TATTCAAACTTCCAATTTTTGAATGTAACAACTTGGATAATTAATACATTACAATGTTATTCAAA
** * ** * * * * * *
34368 CTTGCATCTTTTCATTTAACAACTTGGATAAGT-AAG-CTTTAAAATGC
66 CTCCCATATTTGAATGTAACAACTTAGAGAAGTGAAGACATTACAACGC
* ** *
34415 TATTCAAAC-TACAATCCTTGAATGTAACAACTTGAAAATAATTAA-ACATTA-AATGTTATTCA
1 TATTCAAACTTCCAATTTTTGAATGTAACAACTTG--GATAATTAATACATTACAATGTTATTCA
* * * * *
34477 AACTGCCATATTTGAATGTTAA-AACTTTGAGGCA-TTAAGACATTATAA-GAC
64 AACTCCCATATTTGAATG-TAACAACTTAGA-GAAGTGAAGACATTACAACG-C
* * *
34528 TATTCAAACTTCCAATTTTTGAATATAACAACTTGGATAAGTTAATGCATTACAAAGTTATTCAA
1 TATTCAAACTTCCAATTTTTGAATGTAACAACTTGGATAA-TTAATACATTACAATGTTATTCAA
* *
34593 ACACCCATCA-TTGAATGTAACAACTTAGATAAGTGAAGACATTACAACGC
65 ACTCCCAT-ATTTGAATGTAACAACTTAGAGAAGTGAAGACATTACAACGC
* * * * * *
34643 TATTCCAACTTCCAA-TTTTGAATGCAACAAATTAGATAATTTCAATTC--TACAATGTTATTAA
1 TATTCAAACTTCCAATTTTTGAATGTAACAACTTGGATAA-TT-AATACATTACAATGTTATTCA
* * * *
34705 AACTTCCATATTTGAATGTAACAACTT-GGGTAAGTTAA-ACATTACAAAGC
64 AACTCCCATATTTGAATGTAACAACTTAGAG-AAGTGAAGACATTACAACGC
*
34755 TATTCAAACATCCA
1 TATTCAAACTTCCA
34769 TCTGTAATAA
Statistics
Matches: 286, Mismatches: 48, Indels: 38
0.77 0.13 0.10
Matches are distributed among these distances:
109 2 0.01
110 27 0.09
111 31 0.11
112 47 0.16
113 63 0.22
114 52 0.18
115 62 0.22
116 2 0.01
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.33
Consensus pattern (114 bp):
TATTCAAACTTCCAATTTTTGAATGTAACAACTTGGATAATTAATACATTACAATGTTATTCAAA
CTCCCATATTTGAATGTAACAACTTAGAGAAGTGAAGACATTACAACGC
Found at i:34624 original size:57 final size:55
Alignment explanation
Indices: 34384--34769 Score: 180
Period size: 57 Copynumber: 6.9 Consensus size: 55
34374 TCTTTTCATT
* * * *
34384 TAACAACTTGGATAAG-TAAGCTTTA-AAATGCTATTCAAACTA-CAATCCTTGAATG
1 TAACAACTTAGATAAGTTAAGCATTACAAA-GCTATTCAAAC-ACCCAT-ATTGAATG
* * * * **
34439 TAACAACTTGAAAATAA-TTAAACATTA-AATGTTATTCAAACTGCCATATTTGAATG
1 TAACAACTT--AGATAAGTTAAGCATTACAAAGCTATTCAAACACCCATA-TTGAATG
* ** * * * * *
34495 TTAA-AACTTTGAGGCA-TTAAGACATTA-TAAGACTATTCAAACTTCCAATTTTTGAATA
1 -TAACAACTTAGA-TAAGTTAAG-CATTACAAAG-CTATTCAAAC-ACCCA-TATTGAATG
* *
34553 TAACAACTTGGATAAGTTAATGCATTACAAAGTTATTCAAACACCCATCATTGAATG
1 TAACAACTTAGATAAGTTAA-GCATTACAAAGCTATTCAAACACCCAT-ATTGAATG
* * * * * *
34610 TAACAACTTAGATAAGTGAAGACATTACAACGCTATTCCAACTTCCAATTTTGAATG
1 TAACAACTTAGATAAGTTAAG-CATTACAAAGCTATTCAAAC-ACCCATATTGAATG
* * * * * * * **
34667 CAACAAATTAGATAATTTCAA--TTCTACAATGTTATTAAAACTTCCATATTTGAATG
1 TAACAACTTAGATAAGTT-AAGCAT-TACAAAGCTATTCAAACACCCATA-TTGAATG
* * * *
34723 TAACAACTTGGGTAAGTTAAACATTACAAAGCTATTCAAACATCCAT
1 TAACAACTTAGATAAGTTAAGCATTACAAAGCTATTCAAACACCCAT
34770 CTGTAATAAC
Statistics
Matches: 248, Mismatches: 60, Indels: 45
0.70 0.17 0.13
Matches are distributed among these distances:
54 1 0.00
55 21 0.08
56 86 0.35
57 95 0.38
58 40 0.16
59 5 0.02
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.32
Consensus pattern (55 bp):
TAACAACTTAGATAAGTTAAGCATTACAAAGCTATTCAAACACCCATATTGAATG
Found at i:35241 original size:56 final size:57
Alignment explanation
Indices: 35073--35254 Score: 183
Period size: 56 Copynumber: 3.2 Consensus size: 57
35063 TTTTAGTGTA
* * * * **
35073 AACAACTTGGATAAGTTAAACATTACGACTTTATTCAAACTTCCATCATA-GAATGC
1 AACAACTTGGATAAATTAAACATTACAACATTATTCAAACTTCCATCATATCAATAT
* * * * *
35129 AACAAATTGAATAAATTAAACATTACAACATTATTCAAACTTCAATCTTTTC-ATAT
1 AACAACTTGGATAAATTAAACATTACAACATTATTCAAACTTCCATCATATCAATAT
* **
35185 AACAACTTGGATAACTTAAAC-TCTACAACGCTATTCAAACTTCCAT-ATATCAATAT
1 AACAACTTGGATAAATTAAACAT-TACAACATTATTCAAACTTCCATCATATCAATAT
* *
35241 AAAAACTTAGATAA
1 AACAACTTGGATAA
35255 GTTGTACTCT
Statistics
Matches: 102, Mismatches: 21, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
55 4 0.04
56 98 0.96
ACGTcount: A:0.44, C:0.19, G:0.06, T:0.31
Consensus pattern (57 bp):
AACAACTTGGATAAATTAAACATTACAACATTATTCAAACTTCCATCATATCAATAT
Found at i:35612 original size:56 final size:56
Alignment explanation
Indices: 35400--36734 Score: 811
Period size: 56 Copynumber: 23.9 Consensus size: 56
35390 ACAAGGAAAT
* * * *
35400 GTTATTCAAA-TATCAATATTTGAATGTAACAACTTGGATAAGTTAAAC-TTCATAAA
1 GTTATTCAAACT-TCCATCTTTGAATGTAACAACTTGGATAAGTTAAACATT-ACAAC
* * * * *
35456 GATATTAAAACTTCCAGGC-TTGAATGTAACAACTTGGATAGGTTAAGACATTATAAC
1 GTTATTCAAACTTCCA-TCTTTGAATGTAACAACTTGGATAAGTTAA-ACATTACAAC
* * * * *
35513 -TCTATTTAAACTTACAT-TTT---TTTAAACGATGACTTGGATAAGTTAAATATTACAAT
1 GT-TATTCAAACTTCCATCTTTGAATGT-AAC-A--ACTTGGATAAGTTAAACATTACAAC
* * * *
35569 GTTATTCAAACTTCCATCTTTGAATGTAACAACTTTGTTAAGTTAAACTTTAAAAC
1 GTTATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAAGTTAAACATTACAAC
* * * * * * * *
35625 ATTATAT-AAACTTCTATATTTGAATATAATAACTTTGATAAGTTGAATATTACAAC
1 GTTAT-TCAAACTTCCATCTTTGAATGTAACAACTTGGATAAGTTAAACATTACAAC
* * * * * * * * *
35681 GCTCTTCAAACTTTCATCTTTGAATATGACAACTTTGATAAATTGAAC-TCTACAAT
1 GTTATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAAGTTAAACAT-TACAAC
** * * * * * ** *
35737 ACTATTCAAGCTTCCATCATTGAACGTAATAACTTGAATAAAATAAACATTACAAT
1 GTTATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAAGTTAAACATTACAAC
* * * * * * *
35793 GTTATTCGAACATGCATCTTTCAATGTAACCACTTGG----GTTAAGC-TCTATAAC
1 GTTATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAAGTTAAACAT-TACAAC
* * * * ** * * *
35845 GCTATT-AAGTCTTCAATCCTTGAATGTAACAACTTAAAAATATTTAAACATTATAAC
1 GTTATTCAA-ACTTCCATCTTTGAATGTAACAACTTGGATA-AGTTAAACATTACAAC
* * * * * * * * *
35902 ATTATTCAAACTACAATCTTTGGATGTGAA-AACGTGGTTATGTTTAGACATCACAAC
1 GTTATTCAAACTTCCATCTTTGAATGT-AACAACTTGGATAAG-TTAAACATTACAAC
* * * *
35959 GCTATTCAAACTTCCATTTTTGAATATAATAACTTGGATAAGTTAATACATTACAAC
1 GTTATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAAGTTAA-ACATTACAAC
* * * ** * *
36016 GTTATTCAGACATCAATAATTGAATATAACAACTTAGATAAGTTAAGACATTACAAC
1 GTTATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAAGTTAA-ACATTACAAC
* * * * * *
36073 GCTATTCCAACTTCCATTTTTG-ATGTAACAACTTGGATAATTTCAAC-TCTACATC
1 GTTATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAAGTTAAACAT-TACAAC
* * * * * *
36128 GATATTCAAACTTCC-TTTTTGAATGTAACAAGTTGTATATGTTAAGACATTATAAC
1 GTTATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAAGTTAA-ACATTACAAC
* * * * *
36184 GCTATTTAAACTTCCATTTTTGAATGTGACAACTTGGATAAGTTAAACATTACAAT
1 GTTATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAAGTTAAACATTACAAC
* * * * *
36240 GTTATGCAAACTTCCATCTTTGAATGTCACAGCTTGGATAAGTTAAACATTAGAAT
1 GTTATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAAGTTAAACATTACAAC
* * * **
36296 GTTATTTAGAC-TCTCATCTTTGAATGTAACAATTTGGATAAGTTAAACCCTACAAC
1 GTTATTCAAACTTC-CATCTTTGAATGTAACAACTTGGATAAGTTAAACATTACAAC
* * * * *
36352 GTTATTCAAACTTCCGTCTTTAAATGTAACAACTTGGACAAGTTAGGACATTAAAAC
1 GTTATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAAGTTA-AACATTACAAC
** * * * ** *
36409 ACTATCCAAACTTCCATATTTGAATGTAACAACTTGGATAATTTAAGATGTTACGAC
1 GTTATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAAGTTAA-ACATTACAAC
* *** * * * * * *
36466 GCTAATTTGTA-TTCAAT-TTTCATAAGTATCAA-TGTGGTTAAGTTAAACATTAAAAC
1 G-TTATTCAAACTTCCATCTTTGA-ATGTAACAACT-TGGATAAGTTAAACATTACAAC
* * * * * * ** * *
36522 TTTATTTAAACTTCAATCTTTGAATATAATAAATTATATAAGTTGAACATTACAAA
1 GTTATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAAGTTAAACATTACAAC
* * * * * *
36578 GCTT-TTCAAACTTTCATCTTTGAGTATGACAACTTGGATAAATTAAAC-TCTACAAT
1 G-TTATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAAGTTAAACAT-TACAAC
** * * * * *
36634 ACTATTCAAACTTCCATCTTTGAATGAAACGACTTAGATAAGTTAAACATTTCATC
1 GTTATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAAGTTAAACATTACAAC
* *
36690 GTTATTAAAACTTACATCTTTGAATGT---AACTTGGATAAGTTAAAC
1 GTTATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAAGTTAAAC
36735 TCTTTAGTTC
Statistics
Matches: 968, Mismatches: 260, Indels: 105
0.73 0.20 0.08
Matches are distributed among these distances:
51 2 0.00
52 32 0.03
53 18 0.02
54 10 0.01
55 51 0.05
56 545 0.56
57 294 0.30
58 11 0.01
59 3 0.00
60 2 0.00
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (56 bp):
GTTATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAAGTTAAACATTACAAC
Found at i:37410 original size:56 final size:58
Alignment explanation
Indices: 37201--37568 Score: 184
Period size: 56 Copynumber: 6.6 Consensus size: 58
37191 TAAGACTTTG
* * * * *
37201 CAACGTTATTCAAACATC-AATGTTTGAATGTACCAA-CTTGGATAAGTTACAC-TCTA
1 CAACGTTATTCAAACTTCTCATCTTTGAATGTACAAATCTTGGATAAGTTAAACAT-TA
* * * * * ** * * *
37257 TAAAGATATTCAAACTTC-CATATTTAAATGTAGTAA-CATGGATAGGCTAAGACATTA
1 CAACGTTATTCAAACTTCTCATCTTTGAATGTACAAATCTTGGATAAGTTAA-ACATTA
** * * * * *
37314 TGACGCTATTTAAAGTTC-CAT-TTTTAACGTGAC-AA-CTTGGATAAGTTAAACATTA
1 CAACGTTATTCAAACTTCTCATCTTTGAATGT-ACAAATCTTGGATAAGTTAAACATTA
* *
37369 CAACGTTATTCAAACTTC-CATCTTTGTATGT-CATATCTTGGATAAGTTAAACATTA
1 CAACGTTATTCAAACTTCTCATCTTTGAATGTACAAATCTTGGATAAGTTAAACATTA
* * * * **
37425 GAATGATATTCAAA-TTCTGATCTTTGAATGTAACAAAT-TT-GATAAGTTAAACCCTA
1 CAACGTTATTCAAACTTCTCATCTTTGAATGT-ACAAATCTTGGATAAGTTAAACATTA
* * * *
37481 CATCGTTTTTCAAACTTCT-GTC-TTGAATGTGACAACATC----AAAATGTTAAGACATTA
1 CAACGTTATTCAAACTTCTCATCTTTGAATGT-ACAA-ATCTTGGATAA-GTTAA-ACATTA
* * *
37537 CAATGCTATTCAAACTTC-CATATTTGAATGTA
1 CAACGTTATTCAAACTTCTCATCTTTGAATGTA
37569 AGAACTTAGA
Statistics
Matches: 239, Mismatches: 57, Indels: 32
0.73 0.17 0.10
Matches are distributed among these distances:
54 4 0.02
55 43 0.18
56 152 0.64
57 35 0.15
58 5 0.02
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.35
Consensus pattern (58 bp):
CAACGTTATTCAAACTTCTCATCTTTGAATGTACAAATCTTGGATAAGTTAAACATTA
Found at i:38609 original size:56 final size:54
Alignment explanation
Indices: 38523--38648 Score: 130
Period size: 55 Copynumber: 2.3 Consensus size: 54
38513 AAAACTTATT
* * * * *
38523 AACTTCAATC-TTGAATATAAAACTTAGATAAGTTGAACAT-TACAACGCTCTTCA
1 AACTTCCATCTTTGAATATAAAACTTAGATAAATTAAAC-TCT-CAACACTATTCA
* * * *
38577 AACTTTCGTCTTTGAATATGATAACTTGGATAAATTAAACTCTCAACACTATTCA
1 AACTTCCATCTTTGAATAT-AAAACTTAGATAAATTAAACTCTCAACACTATTCA
38632 AACTTCCATCTTTGAAT
1 AACTTCCATCTTTGAAT
38649 GTAACGATTT
Statistics
Matches: 58, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
54 7 0.12
55 34 0.59
56 17 0.29
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.35
Consensus pattern (54 bp):
AACTTCCATCTTTGAATATAAAACTTAGATAAATTAAACTCTCAACACTATTCA
Found at i:39091 original size:56 final size:56
Alignment explanation
Indices: 39026--39151 Score: 148
Period size: 56 Copynumber: 2.2 Consensus size: 56
39016 AACAAATTGG
* * * *
39026 ATAACTTAAACTCTATAA-TGTTATTTAAACTTCCATCTTTCG-ATATAAAAACTTGA
1 ATAAGTTAAACTCTACAACT-TTATTTAAACTCCCATATTT-GAATATAAAAACTTGA
* * * *
39082 ATAAGTTAAATTCTACAACTTTATTTAAACTCCCATATTTGAATGTAACAACTTGT
1 ATAAGTTAAACTCTACAACTTTATTTAAACTCCCATATTTGAATATAAAAACTTGA
39138 ATAAGTTAAACTCT
1 ATAAGTTAAACTCT
39152 TTAGTCCACA
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
55 1 0.02
56 57 0.97
57 1 0.02
ACGTcount: A:0.39, C:0.16, G:0.06, T:0.39
Consensus pattern (56 bp):
ATAAGTTAAACTCTACAACTTTATTTAAACTCCCATATTTGAATATAAAAACTTGA
Found at i:40048 original size:57 final size:56
Alignment explanation
Indices: 39249--40725 Score: 589
Period size: 56 Copynumber: 26.7 Consensus size: 56
39239 TCTACAAATA
* * * * *
39249 TATTCAAA-TTCCA-CATTTGAATATAACAACTTGGATAGGCTAAGACA-TATAACGC
1 TATTCAAACTTCCATC-TTTGAATGTAACAACTTGGATAAGTTAA-ACATTACAACGT
* * * *
39304 TATTTAAACTTCCAT-TTTGAATGTGACAACTTGGATAAGTT--A-ATTGCAACAT
1 TATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAAGTTAAACATTACAACGT
* * * * * *
39356 TATTCAAGCTTCCATCTTTGAATGTCATAGCTTGGATAAGTTAAACATTACAATGA
1 TATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAAGTTAAACATTACAACGT
* * ** * **
39412 TATTCAAA-ATCTCAACTTTGAATGTAACAAAATAGATAAGTTAAACCCTACAACGT
1 TATTCAAACTTC-CATCTTTGAATGTAACAACTTGGATAAGTTAAACATTACAACGT
* * * ** ** * * *
39468 TTTTCAAACTTTCGTC-TTGAATGCGACAACTTCAAAAAGTTAAGACATTTCAACAT
1 TATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAAGTTAA-ACATTACAACGT
* * * * * * *
39524 TATACAAACTTCCATATTTGAATATAACAACTTTGATAATTTAAGACGTTACGACGCT
1 TATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAAGTTAA-ACATTACAACG-T
* * ** * * * * * *
39582 AATT-TATGTTCAAT-TTTGTATGTAACAACTTGGTTAAGTTAAACTTTAAAACAT
1 TATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAAGTTAAACATTACAACGT
* * * * * * *
39636 TATTTAAACTTACATCTTTCAA--TAATAACTTGGACAAGTTAAAAATTACAACGC
1 TATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAAGTTAAACATTACAACGT
* * * * * * * **
39690 TCTTCAAACTTTCATCTTTGAATATGACAACTTTGATAA-TTGATC-TCTACAACAC
1 TATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAAGTTAAACAT-TACAACGT
* * * * * * *** *
39745 TATTCAAATTTCCATCATTAAATCT-ATAACTT-GAAAAAAAATAACATTACAATGT
1 TATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAAGTTA-AACATTACAACGT
* * * * * * * *
39800 TATTCGAATTTGCATATTT-CATGTAACCACTTGGATTAAGCT---CTATAAC-AC--
1 TATTCAAACTTCCATCTTTGAATGTAACAACTTGGA-TAAGTTAAAC-ATTACAACGT
* * * * * * * ** *
39851 TATTCAATCTACAATCCTTGAATGTAACAACTT-GAAAATATTTAACATTGTAACAT
1 TATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAA-GTTAAACATTACAACGT
* * * ** * * **
39907 TATTCAAACTACCATCTTTGGATGTGAA-AA-TGTGTATGTGTTAGA-ATTAGAACAC
1 TATTCAAACTTCCATCTTTGAATGT-AACAACT-TGGATAAGTTAAACATTACAACGT
* *
39962 TATTCAAACTTCCATTTTTG-A--TAACAACTTGGATAAGTTAATACATTACAACAT
1 TATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAAGTTAA-ACATTACAACGT
* * ** * * * * *
40016 TATTCAAACATACATAATTGAATGTAACAACTTAGCTAAGTTAAGACACTACAATGC
1 TATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAAGTTAA-ACATTACAACGT
* * * * * **
40073 TATTCCAACTTCCATTTTTGAATGTAACAACTTGGATAATTTCAAC-TCTACATCAC
1 TATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAAGTTAAACAT-TACAACGT
* * * * *
40129 TATTCAAACTTCCATTTTTGAAAGTAACAACTTGGATAGGATAAGACATTATC-ACGC
1 TATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAAGTTAA-ACATTA-CAACGT
* * * * * * * * *
40186 TATTTAAACTTACAT-TATTAAATATGACAAATTGGATGAGTTAAATATTACAACAT
1 TATTCAAACTTCCATCT-TTGAATGTAACAACTTGGATAAGTTAAACATTACAACGT
* ** * * * *
40242 TATTAAAAAATCCATCTTTGAATATCACAACTT-AATAAGTTAAACATTACAATGT
1 TATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAAGTTAAACATTACAACGT
* * * * *
40297 TATTTAAAC-TCTCATCTTTCAAAGTAACAAATTGGATAAGTTAAA-ACCTACAACGT
1 TATTCAAACTTC-CATCTTTGAATGTAACAACTTGGATAAGTTAAACA-TTACAACGT
* * * * * *
40353 TGTTCAAACTTTCGTCTTTAAATGTAACAACTTGGATAATTTAAGACGTTACAACGCT
1 TATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAAGTTAA-ACATTACAACG-T
* * * * * * * * * *
40411 AATT--TA--T--ATTTTTCACATGTATCAAATTCGTTAAGTTAAA-ATTTAAAACTT
1 TATTCAAACTTCCATCTTTGA-ATGTAACAACTTGGATAAGTTAAACA-TTACAACGT
* ** * * * * *
40462 TATTTAAACTTTAATCTTTGAATATAATAACTTAGATAAGTTGAACATTACAACGC
1 TATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAAGTTAAACATTACAACGT
* * * * * * ** * * * *
40518 TCTTCAAGCTTTCATCTTTGAATATGACAACATAAATAAATCGAGACATTA-AACCT
1 TATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAAGT-TAAACATTACAACGT
* * * * * * **
40574 CCT-TTTAAACTTCCATTTTTTAATGTAACAACTTGGTTAAGTTAAATATTACTATAT
1 --TATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAAGTTAAACATTACAACGT
* * * * * *
40631 TATTCAAACTTTCATCATAGAATGCAACAAATTGGATAAGTTAAACATTACAACAT
1 TATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAAGTTAAACATTACAACGT
* * *
40687 TATTCAAAATTCTATCTTTGCATGTAACAACTTGGATAA
1 TATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAA
40726 CATATTCCAT
Statistics
Matches: 1022, Mismatches: 330, Indels: 139
0.69 0.22 0.09
Matches are distributed among these distances:
50 2 0.00
51 21 0.02
52 52 0.05
53 52 0.05
54 91 0.09
55 191 0.19
56 413 0.40
57 191 0.19
58 9 0.01
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.35
Consensus pattern (56 bp):
TATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAAGTTAAACATTACAACGT
Found at i:40174 original size:113 final size:111
Alignment explanation
Indices: 39961--40306 Score: 256
Period size: 113 Copynumber: 3.1 Consensus size: 111
39951 AATTAGAACA
*
39961 CTATTCAAACTTCCATTTTTGATAACAACTTGGATAAGTTAATACATTACAACATTATTCAAACA
1 CTATTCAAACTTCCATTTTTGATAACAACTTGGATAAGTTAATACATTACAACACTATTCAAACA
* * *
40026 TACATAATTGAATGTAACAACTTAGCTAAGTTAAGACACTACAATG
66 TACATAATTGAAAGTAACAACTTAGATAAGATAAGACACTACAATG
* * * *
40072 CTATTCCAACTTCCATTTTTGAATGTAACAACTTGGATAATTTCA-AC-TCTACATCACTATTCA
1 CTATTCAAACTTCCATTTTTG-A--TAACAACTTGGATAAGTTAATACAT-TACAACACTATTCA
* * ** * * * *
40135 AACTTCCATTTTTGAAAGTAACAACTTGGATAGGATAAGACATTATC-ACG
62 AACATACATAATTGAAAGTAACAACTTAGATAAGATAAGACACTA-CAATG
* * ** * * * * *
40185 CTATTTAAACTTACATTATTAAATATGACAAATTGGATGAGTTAA-ATATTACAACATTATTAAA
1 CTATTCAAACTTCCATT-TTTGATA--ACAACTTGGATAAGTTAATACATTACAACACTATTCAA
* * ** * * *
40249 AAATCCATCTTTGAATA-TCACAACTTA-ATAAGTTAA-ACATTACAATG
63 ACATACATAATTGAA-AGTAACAACTTAGATAAGATAAGACACTACAATG
* *
40296 TTATTTAAACT
1 CTATTCAAACT
40307 CTCATCTTTC
Statistics
Matches: 186, Mismatches: 38, Indels: 22
0.76 0.15 0.09
Matches are distributed among these distances:
110 1 0.01
111 40 0.22
112 9 0.05
113 113 0.61
114 23 0.12
ACGTcount: A:0.40, C:0.16, G:0.09, T:0.35
Consensus pattern (111 bp):
CTATTCAAACTTCCATTTTTGATAACAACTTGGATAAGTTAATACATTACAACACTATTCAAACA
TACATAATTGAAAGTAACAACTTAGATAAGATAAGACACTACAATG
Found at i:41005 original size:57 final size:57
Alignment explanation
Indices: 40902--41062 Score: 146
Period size: 57 Copynumber: 2.8 Consensus size: 57
40892 AATTAATATT
* * * * *
40902 TGAATTTAACAACTTGAATAAGTTAAAC-TCTATAAAGATATTTAAACATCCATAT-A
1 TGAATGTAACAACATGGATAAGCTAAACAT-TATAACGATATTTAAACATCCATATGA
* * * * *
40958 TGAATGTAACAACATGGATAGGCTAAGACATTATAACGATGTTTAAACTTCCATTTGT
1 TGAATGTAACAACATGGATAAGCTAA-ACATTATAACGATATTTAAACATCCATATGA
* * * * * *
41016 TTAATGTGACAATATGGATAAGTTAAACATTATAACGTTATTCAAAC
1 TGAATGTAACAACATGGATAAGCTAAACATTATAACGATATTTAAAC
41063 TTCTATCTTT
Statistics
Matches: 84, Mismatches: 18, Indels: 5
0.79 0.17 0.05
Matches are distributed among these distances:
56 21 0.25
57 41 0.49
58 22 0.26
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.34
Consensus pattern (57 bp):
TGAATGTAACAACATGGATAAGCTAAACATTATAACGATATTTAAACATCCATATGA
Found at i:41098 original size:56 final size:56
Alignment explanation
Indices: 40900--42163 Score: 587
Period size: 56 Copynumber: 22.7 Consensus size: 56
40890 AAAATTAATA
* * * * * * * *
40900 TTTGAATTTAACAACTTGAATAAGTTAAAC-TCTATAAAGATATTTAAACATCCATA
1 TTTGAATGTAACAACTTGGATAAGTTAAACAT-TACAACGTTATTCAAACTTCCATC
* * * * * * * * *
40956 TATGAATGTAACAACATGGATAGGCTAAGACATTATAACGATGTTTAAACTTCCATT
1 TTTGAATGTAACAACTTGGATAAGTTAA-ACATTACAACGTTATTCAAACTTCCATC
* * * *
41013 TGTTTAATGTGACAA-TATGGATAAGTTAAACATTATAACGTTATTCAAACTTCTATC
1 T-TTGAATGTAACAACT-TGGATAAGTTAAACATTACAACGTTATTCAAACTTCCATC
* * * *** * *
41070 TTTGAATGTCACAAATTGGATAAGTTAAACAGTACAATAATATTCAGACTT-TA-C
1 TTTGAATGTAACAACTTGGATAAGTTAAACATTACAACGTTATTCAAACTTCCATC
* * * ** * * *
41124 CTTGAATGTAACAAATTGGTTAAGTTAAACCCTGCAAAGTTTTTCAAACTT-C-T-
1 TTTGAATGTAACAACTTGGATAAGTTAAACATTACAACGTTATTCAAACTTCCATC
* * * ** * * *
41177 TTATTAATATGACAACTTAAAAAAGTTAAGACATTATAACGTTATTCAAACTTCCATA
1 TT-TGAATGTAACAACTTGGATAAGTTAA-ACATTACAACGTTATTCAAACTTCCATC
* * * * * * *
41235 TTTGAATGTAACAACTTGGATAATTTAAGACATTGCGACGCTAATTTATA-TTCAAAT-
1 TTTGAATGTAACAACTTGGATAAGTTAA-ACATTACAACG-TTATTCAAACTTC-CATC
* * * * * *
41292 TTT-ATATGTAACAATTTGGTTAAGTTAAACTTTAAAATGTTATTTAAACTTCCATC
1 TTTGA-ATGTAACAACTTGGATAAGTTAAACATTACAACGTTATTCAAACTTCCATC
** * * * * * * *
41348 TTTTCATATGATAACTTGGATAAGTTAAAAATTACAACGCTCTTCAAACTTTCATC
1 TTTGAATGTAACAACTTGGATAAGTTAAACATTACAACGTTATTCAAACTTCCATC
* * * * * * * * ** *
41404 TTTGAATATGATAAATTTGATAAATTGATC-TCTACAACACTATTCAAACATCCATC
1 TTTGAATGTAACAACTTGGATAAGTTAAACAT-TACAACGTTATTCAAACTTCCATC
* * * ** * * * * *
41460 ATTGAATCTAACAACTTGAATAAAATAAACATTAGAATGTTATTCGAATTTTCATC
1 TTTGAATGTAACAACTTGGATAAGTTAAACATTACAACGTTATTCAAACTTCCATC
* * * * * * *
41516 TTTCAATGTAACCACTTGGATTAAGCT---CTATAAC-AC--TATTCAATCTACAATC
1 TTTGAATGTAACAACTTGGA-TAAGTTAAAC-ATTACAACGTTATTCAAACTTCCATC
* * * * * * * *
41568 CTTGAATGTAACAACTTGAAAATATTTAAACATTATAACATTATTCAAACTACCATA
1 TTTGAATGTAACAACTTGGATA-AGTTAAACATTACAACGTTATTCAAACTTCCATC
** * * * * * *
41625 TTT-AGATGTGAA-AA-TGTGGATGTGTTAGACATCAGAACGCTATTCAAACTTCTATT
1 TTTGA-ATGT-AACAACT-TGGATAAGTTAAACATTACAACGTTATTCAAACTTCCATC
* * *
41681 TTTGAATATAACAACTTGGATAAGTTAATACATTACAACGTTATTCAAACATCCATA
1 TTTGAATGTAACAACTTGGATAAGTTAA-ACATTACAACGTTATTCAAACTTCCATC
* ** * * *** * * *
41738 ATTGAATGTAACAACTCAGATAAGTTCAGACACTACAATACTATTCCAACTTGCATT
1 TTTGAATGTAACAACTTGGATAAGTT-AAACATTACAACGTTATTCAAACTTCCATC
* * * * *
41795 TTTGAATGTAACAACTTGGATAATTTCAAC-TCTACATCGCTATTCAAAGTTCCAT-
1 TTTGAATGTAACAACTTGGATAAGTTAAACAT-TACAACGTTATTCAAACTTCCATC
** * * * * *
41850 TTATGAATGTAATGACTTGGACAGGTTAAGACATTATAACGCTATTTAAACTTCCAT-
1 TT-TGAATGTAACAACTTGGATAAGTTAA-ACATTACAACGTTATTCAAACTTCCATC
* * * *
41907 TATTGAATATGACAACTTGGATAAGTTAAATATTACAACGTTATTCAAACATCCATC
1 T-TTGAATGTAACAACTTGGATAAGTTAAACATTACAACGTTATTCAAACTTCCATC
* * * *
41964 TTTGAATGTCACAACTT-GATAAG-TAAACATTACAATGTTATTTAGAC-TCTCATC
1 TTTGAATGTAACAACTTGGATAAGTTAAACATTACAACGTTATTCAAACTTC-CATC
* * ** * * *
42018 TTTCAATGTAACAAATTGGATAAGTTAAACCCTACAACTTTGTTCAAACATT-CGTC
1 TTTGAATGTAACAACTTGGATAAGTTAAACATTACAACGTTATTCAAAC-TTCCATC
* * * ** * * * *
42074 CTTAAATGTAATAACTT-G-TCCG----CCATTACAACGCTATTTAAACTTCCATA
1 TTTGAATGTAACAACTTGGATAAGTTAAACATTACAACGTTATTCAAACTTCCATC
* * *
42124 TTTGAATGTAACAACTTTGATAATTTAAGACGTTACAACG
1 TTTGAATGTAACAACTTGGATAAGTTAA-ACATTACAACG
42164 CTAATTTATA
Statistics
Matches: 889, Mismatches: 264, Indels: 109
0.70 0.21 0.09
Matches are distributed among these distances:
49 2 0.00
50 30 0.03
51 2 0.00
52 29 0.03
53 3 0.00
54 104 0.12
55 52 0.06
56 358 0.40
57 272 0.31
58 37 0.04
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (56 bp):
TTTGAATGTAACAACTTGGATAAGTTAAACATTACAACGTTATTCAAACTTCCATC
Found at i:41952 original size:113 final size:113
Alignment explanation
Indices: 41651--42046 Score: 338
Period size: 113 Copynumber: 3.5 Consensus size: 113
41641 TGGATGTGTT
* * * *
41651 AGACATCAGAACGCTATTCAAACTTCTATTTTTGAATATAACAACTTGGATAAGTTAATACATTA
1 AGACATTACAACGCTATTCAAACTTCCATTTTTGAATATAACAACTTGGATAAGTTAA-ATATTA
* * *
41716 CAACGTTATTCAAACATCCA-TAATTGAATGTAACAACTCAGATAAGTTC
65 CAACGTTATTCAAACATCCATTTA-TGAATGTAACAACTCAGACAAGTTA
* ** * * * * * *
41765 AGACACTACAATACTATTCCAACTTGCATTTTTGAATGTAACAACTTGGATAATTTCAACT-CTA
1 AGACATTACAACGCTATTCAAACTTCCATTTTTGAATATAACAACTTGGATAAGTT-AAATATTA
* * ** ** ** *
41829 CATCGCTATTCAAAGTTCCATTTATGAATGTAATGACTTGGACAGGTTA
65 CAACGTTATTCAAACATCCATTTATGAATGTAACAACTCAGACAAGTTA
* * * *
41878 AGACATTATAACGCTATTTAAACTTCCATTATTGAATATGACAACTTGGATAAGTTAAATATTAC
1 AGACATTACAACGCTATTCAAACTTCCATTTTTGAATATAACAACTTGGATAAGTTAAATATTAC
* * *
41943 AACGTTATTCAAACATCCATCTT-TGAATGTCACAACT-TGATAAG-TA
66 AACGTTATTCAAACATCCAT-TTATGAATGTAACAACTCAGACAAGTTA
* * * * * * * *
41989 A-ACATTACAATGTTATTTAGAC-TCTCATCTTTCAATGTAACAAATTGGATAAGTTAAA
1 AGACATTACAACGCTATTCAAACTTC-CATTTTTGAATATAACAACTTGGATAAGTTAAA
42047 CCCTACAACT
Statistics
Matches: 219, Mismatches: 58, Indels: 14
0.75 0.20 0.05
Matches are distributed among these distances:
109 2 0.01
110 44 0.20
111 3 0.01
112 7 0.03
113 111 0.51
114 50 0.23
115 2 0.01
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.34
Consensus pattern (113 bp):
AGACATTACAACGCTATTCAAACTTCCATTTTTGAATATAACAACTTGGATAAGTTAAATATTAC
AACGTTATTCAAACATCCATTTATGAATGTAACAACTCAGACAAGTTA
Found at i:43950 original size:6 final size:6
Alignment explanation
Indices: 43939--43967 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
43929 CTCAAAAAGG
43939 AAGAAA AAG-AA AAGAAA AAGAAA AAGAAA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA
43968 GAAAGTTGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.23
6 17 0.77
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:43950 original size:25 final size:23
Alignment explanation
Indices: 43904--43950 Score: 58
Period size: 25 Copynumber: 2.0 Consensus size: 23
43894 AAAATCAAAA
**
43904 CACTCAAAAGAAGAAATTGAAAG
1 CACTCAAAAGAAGAAAAAGAAAG
43927 CACTCAAAAAGGAAGAAAAAGAAA
1 CACTC-AAAA-GAAGAAAAAGAAA
43951 AGAAAAAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 4 0.20
25 11 0.55
ACGTcount: A:0.62, C:0.13, G:0.17, T:0.09
Consensus pattern (23 bp):
CACTCAAAAGAAGAAAAAGAAAG
Found at i:43953 original size:11 final size:11
Alignment explanation
Indices: 43939--43971 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
43929 CTCAAAAAGG
43939 AAGAAAAAGAA
1 AAGAAAAAGAA
43950 AAGAAAAAGAA
1 AAGAAAAAGAA
*
43961 AA-AGAAAGAA
1 AAGAAAAAGAA
43971 A
1 A
43972 GTTGAAGCAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 8 0.38
11 13 0.62
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (11 bp):
AAGAAAAAGAA
Found at i:43961 original size:17 final size:16
Alignment explanation
Indices: 43939--43971 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
43929 CTCAAAAAGG
43939 AAGAAAAAGAAAAGAAA
1 AAGAAAAAG-AAAGAAA
43956 AAGAAAAAGAAAGAAA
1 AAGAAAAAGAAAGAAA
43972 GTTGAAGCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (16 bp):
AAGAAAAAGAAAGAAA
Found at i:44526 original size:37 final size:37
Alignment explanation
Indices: 44476--44549 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
44466 AATTGGAGCC
44476 TTTACATGATTGTATGGATCAATTTAAAGCATCCTTA
1 TTTACATGATTGTATGGATCAATTTAAAGCATCCTTA
44513 TTTACATGATTGTATGGATCAATTTAAAGCATCCTTA
1 TTTACATGATTGTATGGATCAATTTAAAGCATCCTTA
44550 GGCAACTGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.41
Consensus pattern (37 bp):
TTTACATGATTGTATGGATCAATTTAAAGCATCCTTA
Found at i:48128 original size:23 final size:24
Alignment explanation
Indices: 48093--48146 Score: 83
Period size: 23 Copynumber: 2.3 Consensus size: 24
48083 ATATCCAGCA
48093 AAGAAAATCAAAGCACTC-AAAAG
1 AAGAAAATCAAAGCACTCAAAAAG
* *
48116 AAGAAATTGAAAGCACTCAAAAAG
1 AAGAAAATCAAAGCACTCAAAAAG
48140 AAGAAAA
1 AAGAAAA
48147 AGAAAAGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 16 0.59
24 11 0.41
ACGTcount: A:0.63, C:0.13, G:0.15, T:0.09
Consensus pattern (24 bp):
AAGAAAATCAAAGCACTCAAAAAG
Found at i:48151 original size:6 final size:6
Alignment explanation
Indices: 48140--48174 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
48130 ACTCAAAAAG
48140 AAGAAA AAG-AA AAGAAA AAGAAA AAGAAA AAGAAA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA
48175 GAAAGTTGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.18
6 23 0.82
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:48154 original size:11 final size:11
Alignment explanation
Indices: 48140--48178 Score: 62
Period size: 12 Copynumber: 3.5 Consensus size: 11
48130 ACTCAAAAAG
48140 AAGAAAAAGAA
1 AAGAAAAAGAA
48151 AAGAAAAAGAAA
1 AAGAAAAAG-AA
48163 AAGAAAAAG-A
1 AAGAAAAAGAA
48173 AAGAAA
1 AAGAAA
48179 GTTGAATCAC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 7 0.26
11 9 0.33
12 11 0.41
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (11 bp):
AAGAAAAAGAA
Found at i:48162 original size:17 final size:16
Alignment explanation
Indices: 48134--48178 Score: 63
Period size: 17 Copynumber: 2.8 Consensus size: 16
48124 GAAAGCACTC
*
48134 AAAAAGAAGAAAAAGA
1 AAAAAAAAGAAAAAGA
48150 AAAGAAAAAGAAAAAGA
1 AAA-AAAAAGAAAAAGA
*
48167 AAAAGAAAGAAA
1 AAAAAAAAGAAA
48179 GTTGAATCAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
16 11 0.42
17 15 0.58
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (16 bp):
AAAAAAAAGAAAAAGA
Found at i:50119 original size:6 final size:6
Alignment explanation
Indices: 50108--50142 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
50098 CTCAAAAAGG
50108 AAGAAA AAG-AA AAGAAA AAGAAA AAGAAA AAGAAA
1 AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA AAGAAA
50143 GAAAGTTGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.18
6 23 0.82
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:50122 original size:11 final size:11
Alignment explanation
Indices: 50108--50146 Score: 62
Period size: 12 Copynumber: 3.5 Consensus size: 11
50098 CTCAAAAAGG
50108 AAGAAAAAGAA
1 AAGAAAAAGAA
50119 AAGAAAAAGAAA
1 AAGAAAAAG-AA
50131 AAGAAAAAG-A
1 AAGAAAAAGAA
50141 AAGAAA
1 AAGAAA
50147 GTTGAAGCAC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 7 0.26
11 9 0.33
12 11 0.41
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (11 bp):
AAGAAAAAGAA
Found at i:50130 original size:17 final size:16
Alignment explanation
Indices: 50108--50146 Score: 60
Period size: 17 Copynumber: 2.4 Consensus size: 16
50098 CTCAAAAAGG
50108 AAGAAAAAGAAAAGAAA
1 AAGAAAAAGAAAA-AAA
*
50125 AAGAAAAAGAAAAAGA
1 AAGAAAAAGAAAAAAA
50141 AAGAAA
1 AAGAAA
50147 GTTGAAGCAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 8 0.38
17 13 0.62
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (16 bp):
AAGAAAAAGAAAAAAA
Found at i:57116 original size:57 final size:56
Alignment explanation
Indices: 56989--57412 Score: 290
Period size: 57 Copynumber: 7.5 Consensus size: 56
56979 GGGTATGACA
* * ** * * *
56989 GTAACAACTTGAGAATATTTAA-ACATTATAACATTATTCAAACTACCATATTTGGAT
1 GTAACAACTTG-G-ATAGTTAATACATTACAACGCTATTCAAACTTCCATTTTTGAAT
* * * *
57046 GTGAA-AGCATGGATATGTTTAA-ACATTACAACGCTATTCAAACTTTCATTCTTGAAT
1 GT-AACAACTTGGATA-G-TTAATACATTACAACGCTATTCAAACTTCCATTTTTGAAT
* * ** **
57103 AG-AACAACTTGGATAAGTTAATACATTACAACGTTATTCAAACATGTATAATTGAAT
1 -GTAACAACTTGGAT-AGTTAATACATTACAACGCTATTCAAACTTCCATTTTTGAAT
* * * *
57160 GTAACTACTTAGATAAGTTAATACATTACAATGCTATTCCAACTTCCATTTTTGAAT
1 GTAACAACTTGGAT-AGTTAATACATTACAACGCTATTCAAACTTCCATTTTTGAAT
* * ** *
57217 GTAACAACATGGATAATTTAA-AC-TCCCCATA-GCTATTCAAACTTCCATTTTTTAAT
1 GTAACAACTTGGAT-AGTTAATACAT-TACA-ACGCTATTCAAACTTCCATTTTTGAAT
* * * * *
57273 GTAACAACTTGGATAGGTTAAGACATTATAACGCTATTTAAACTTCAATTTTTTAAT
1 GTAACAACTTGGATA-GTTAATACATTACAACGCTATTCAAACTTCCATTTTTGAAT
* * * * * * * *
57330 GTGACAACTTGGATAAATTAA-ACATTAAAATGTTTTTCAAACATCCATCTTTGAAT
1 GTAACAACTTGGAT-AGTTAATACATTACAACGCTATTCAAACTTCCATTTTTGAAT
* *
57386 GTCACAGCTTGGATAAGTTAA-ACATTA
1 GTAACAACTTGGAT-AGTTAATACATTA
57413 AATGTTATTA
Statistics
Matches: 294, Mismatches: 58, Indels: 31
0.77 0.15 0.08
Matches are distributed among these distances:
55 5 0.02
56 103 0.35
57 180 0.61
58 6 0.02
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.35
Consensus pattern (56 bp):
GTAACAACTTGGATAGTTAATACATTACAACGCTATTCAAACTTCCATTTTTGAAT
Found at i:57369 original size:113 final size:111
Alignment explanation
Indices: 56989--57412 Score: 363
Period size: 113 Copynumber: 3.7 Consensus size: 111
56979 GGGTATGACA
* * ** *
56989 GTAACAACTTGAGA-ATATTTAAACATTATAACATTATTCAAAC-TACCATATTTGGATGTGAA-
1 GTAACAACTTG-GATA-AATTAAACATTACAATGTTATTCAAACAT-CCATATTTGAATGT-AAC
* * * *
57051 AGCATGGATATGTTTAAACATTACAACGCTATTCAAACTTTCATTCTTGAAT
62 AACTTGGATAAG-TTAAACATTACAACGCTATTCAAAC-TTCATTTTTGAAT
* * ** * *
57103 AG-AACAACTTGGATAAGTTAATACATTACAACGTTATTCAAACATGTATAATTGAATGTAACTA
1 -GTAACAACTTGGATAAATTAA-ACATTACAATGTTATTCAAACATCCATATTTGAATGTAACAA
* * *
57167 CTTAGATAAGTTAATACATTACAATGCTATTCCAACTTCCATTTTTGAAT
64 CTTGGATAAGTTAA-ACATTACAACGCTATTCAAACTT-CATTTTTGAAT
* * ** * * * * *
57217 GTAACAACATGGATAATTTAAAC-TCCCCATAGCTATTCAAACTTCCATTTTTTAATGTAACAAC
1 GTAACAACTTGGATAAATTAAACATTACAAT-GTTATTCAAACATCCATATTTGAATGTAACAAC
* * * *
57281 TTGGATAGGTTAAGACATTATAACGCTATTTAAACTTCAATTTTTTAAT
65 TTGGATAAGTTAA-ACATTACAACGCTATTCAAACTTC-ATTTTTGAAT
* * * * * *
57330 GTGACAACTTGGATAAATTAAACATTAAAATGTTTTTCAAACATCCATCTTTGAATGTCACAGCT
1 GTAACAACTTGGATAAATTAAACATTACAATGTTATTCAAACATCCATATTTGAATGTAACAACT
57395 TGGATAAGTTAAACATTA
66 TGGATAAGTTAAACATTA
57413 AATGTTATTA
Statistics
Matches: 247, Mismatches: 52, Indels: 23
0.77 0.16 0.07
Matches are distributed among these distances:
112 10 0.04
113 140 0.57
114 95 0.38
115 2 0.01
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.35
Consensus pattern (111 bp):
GTAACAACTTGGATAAATTAAACATTACAATGTTATTCAAACATCCATATTTGAATGTAACAACT
TGGATAAGTTAAACATTACAACGCTATTCAAACTTCATTTTTGAAT
Found at i:61844 original size:57 final size:56
Alignment explanation
Indices: 61667--61913 Score: 189
Period size: 56 Copynumber: 4.4 Consensus size: 56
61657 TCATATATAT
* * * ** * *
61667 CAACTTGGTTAAGTTAAACTTTAAAACTGTATTTAAACTT-CAATCTTTGAATATAA
1 CAACTTGGATAAGTTAAACTCTACAACACTATTAAAACTTACAA-CTTTGAATGTAA
* ** * * * * * * * *
61723 TAACTTATATAAATTGAACAT-TACAACGCTCTTCAAACTTTCAGCTTTGAATATGAA
1 CAACTTGGATAAGTTAAAC-TCTACAACACTATTAAAACTTACAACTTTGAATGT-AA
* *
61780 -AACTTGGATAAATTAAACTCTACAACACTATTCAAAACTTCCAACTTTGAATGTAA
1 CAACTTGGATAAGTTAAACTCTACAACACTATT-AAAACTTACAACTTTGAATGTAA
* * * *
61836 CGAA-TTGGATAAGTTAAACAT-TATATCATTATTAAAACTTACATCTTTGAATGTAA
1 C-AACTTGGATAAGTTAAAC-TCTACAACACTATTAAAACTTACAACTTTGAATGTAA
61892 CAACTTGGATAAGTTAAACTCT
1 CAACTTGGATAAGTTAAACTCT
61914 TTAGTTCATA
Statistics
Matches: 154, Mismatches: 27, Indels: 20
0.77 0.13 0.10
Matches are distributed among these distances:
55 4 0.03
56 102 0.66
57 45 0.29
58 3 0.02
ACGTcount: A:0.40, C:0.15, G:0.09, T:0.35
Consensus pattern (56 bp):
CAACTTGGATAAGTTAAACTCTACAACACTATTAAAACTTACAACTTTGAATGTAA
Found at i:62284 original size:56 final size:56
Alignment explanation
Indices: 62159--62344 Score: 144
Period size: 56 Copynumber: 3.3 Consensus size: 56
62149 ATGATACAAA
** * * **
62159 TTGAATAAGTTAAACAT-TACAACATTAT-TCAAACTTCCATTTTTTC-ATGTAGTAAC
1 TTGAATAAGTTAAAC-TCTACAACGCTATGT-AAACTTCCA-TATTTCAATATAAAAAC
* * * * * *
62215 TTGGATAACTTAAACTCTATAACGCTATGTAAACTTCCATCTTTCAGTATAAAAAT
1 TTGAATAAGTTAAACTCTACAACGCTATGTAAACTTCCATATTTCAATATAAAAAC
* * * * * * *
62271 TTGAATAAGTTAAATTCTACAACTCTCTTTAAACTTCCATATTTGAATGTAACAAC
1 TTGAATAAGTTAAACTCTACAACGCTATGTAAACTTCCATATTTCAATATAAAAAC
*
62327 TTGTATAAGTTAAACTCT
1 TTGAATAAGTTAAACTCT
62345 TTAGTTCATA
Statistics
Matches: 101, Mismatches: 26, Indels: 6
0.76 0.20 0.05
Matches are distributed among these distances:
55 6 0.06
56 94 0.93
57 1 0.01
ACGTcount: A:0.37, C:0.17, G:0.08, T:0.38
Consensus pattern (56 bp):
TTGAATAAGTTAAACTCTACAACGCTATGTAAACTTCCATATTTCAATATAAAAAC
Found at i:63228 original size:57 final size:56
Alignment explanation
Indices: 62488--65250 Score: 1330
Period size: 56 Copynumber: 49.3 Consensus size: 56
62478 ATGGTCTCAG
* * **
62488 ACATTATAACACTATTTAAACTTCCATTTTTGAATGCGACAACTTGGATAAGTTAA
1 ACATTACAACACTATTCAAACTTCCATTTTTGAATGTAACAACTTGGATAAGTTAA
*** * * *
62544 ACATTACAATGTTATTCAAACTTCCATCTTTGAATGTCACATCTTGGATAAGTTAA
1 ACATTACAACACTATTCAAACTTCCATTTTTGAATGTAACAACTTGGATAAGTTAA
* * * * * * *
62600 ACATTACAATGA-AATTCAGAC-TCTGATATTTGAATGTAATAAATTGGATAAGTTAA
1 ACATTACAA-CACTATTCAAACTTC-CATTTTTGAATGTAACAACTTGGATAAGTTAA
** * * * * * * * * *
62656 ACCCTACAACATTTTTCAAACTTCTA-TCTTGAATGTGACAATTTTGAAAAGTTATG
1 ACATTACAACACTATTCAAACTTCCATTTTTGAATGTAACAACTTGGATAAGTTA-A
* * * ** * *
62712 ACATTACAACTCTTTTCAAACTTCAACATTTCAATGTAACAACTTGGATAATTTAA
1 ACATTACAACACTATTCAAACTTCCATTTTTGAATGTAACAACTTGGATAAGTTAA
** * * * * * * *
62768 GATGTTCCGACACTAATTTAAA-TTCAATTTTTGTATGTAACAACTTGGTTAACTTAA
1 -ACATTACAACACT-ATTCAAACTTCCATTTTTGAATGTAACAACTTGGATAAGTTAA
* * * * * * * *
62825 ACTTTAAAACATTATTTAAACTTCCATCTTTGAATATAATAACTTGCATAAGTTGAA
1 ACATTACAACACTATTCAAACTTCCATTTTTGAATGTAACAACTTGGATAAGTT-AA
* * * * * * *
62882 A-ATTACAACGCTCTTCAAACTTTCAACTTTCGATATG--ACAACTTGGATAAATTGA
1 ACATTACAACACTATTCAAAC-TTCCATTTTTGA-ATGTAACAACTTGGATAAGTTAA
* * * **
62937 A-TTCTACAACACTATTCAAACTTCAATTATTGAATGTAACAACTT-GACTAAAATAA
1 ACAT-TACAACACTATTCAAACTTCCATTTTTGAATGTAACAACTTGGA-TAAGTTAA
* * *** * * * * *
62993 ATAATACAATGTTATTCGAACTTACATCTTTT-AACGTAACCACTTGTATAAGTTAA
1 ACATTACAACACTATTCAAACTTCCAT-TTTTGAATGTAACAACTTGGATAAGTTAA
* * * *** ** * *
63049 GC-TCTATAACACTATTCAATCTAAAATCCTTGAATGTAACAACTT-GAAATATTTAA
1 ACAT-TACAACACTATTCAAACTTCCATTTTTGAATGTAACAACTTGGATA-AGTTAA
* * * * * * * ** *
63105 ACGTTATAACA-TTTTCAAACTACCATCTTTGGACGTGAA-AACATT-GATATCTTTAG
1 ACATTACAACACTATTCAAACTTCCATTTTTGAATGT-AACAAC-TTGGATA-AGTTAA
* * *
63161 ACATTACAACACTCTTCAAACATCCATTTTTGAATATAA-ATACTTGGATAAGTTAA
1 ACATTACAACACTATTCAAACTTCCATTTTTGAATGTAACA-ACTTGGATAAGTTAA
* * ** *
63217 TACATTACAACATTATTCAAACATCCATAATTGAATGTAACAACTTAGATAAGTTAA
1 -ACATTACAACACTATTCAAACTTCCATTTTTGAATGTAACAACTTGGATAAGTTAA
* ** * * *
63274 GATATTACAACGTTATTCTAACTTCCATTTTTAAATGTAACAACTTGGATAATTTAA
1 -ACATTACAACACTATTCAAACTTCCATTTTTGAATGTAACAACTTGGATAAGTTAA
*** * * *
63331 AC-TCTGA-ATTGCTTTTCAAACTTCCATTTTTAAATGTAACAACTTGGATAGGTTAAA
1 ACAT-T-ACAACACTATTCAAACTTCCATTTTTGAATGTAACAACTTGGATAAGTT-AA
* * ** * *
63388 ACATTATAACACTATTTAAACTTTAATTTTTGAATGTGACAACTTAGATAAGTTAA
1 ACATTACAACACTATTCAAACTTCCATTTTTGAATGTAACAACTTGGATAAGTTAA
** * * * *
63444 ACATTACAACGTTATTCAAACTTCCATCTTTGAAAGTCACAGCTTGGATAAGTTAA
1 ACATTACAACACTATTCAAACTTCCATTTTTGAATGTAACAACTTGGATAAGTTAA
* * * * * *
63500 ACATTACAA-AGTTATTCATAC-TCTAATCTTTGAATGTAACAAATTCGATAAGTTAA
1 ACATTACAACA-CTATTCAAACTTC-CATTTTTGAATGTAACAACTTGGATAAGTTAA
** * * * * * * *
63556 ACCCTACAATATTTTTCAAACTTCC-GTCTTGAATG-AGACAACTTCGAAAAGTTAA
1 ACATTACAACACTATTCAAACTTCCATTTTTGAATGTA-ACAACTTGGATAAGTTAA
* * * * *
63611 GACATTACAACGA-TATTCAAACTTCAATATTTCAATGAAAC-A-TTGGATAATTTAA
1 -ACATTACAAC-ACTATTCAAACTTCCATTTTTGAATGTAACAACTTGGATAAGTTAA
* * ** * * * * * *
63666 GACGTTACGATGCTAATTTATA-TTCAATTTTAGTATGTAACAACTTGGTTAAGTTAA
1 -ACATTACAACACT-ATTCAAACTTCCATTTTTGAATGTAACAACTTGGATAAGTTAA
* * * * * ** *
63723 ACTTTAAAACATTATTTAAAGTTCCATATTTT-AAAATAATAACTTGGATAAGTTTAA
1 ACATTACAACACTATTCAAACTTCCAT-TTTTGAATGTAACAACTTGGATAAG-TTAA
* ** * * * * * *
63780 A-ATTACAACACTCTTCAAACTTTAATCTTTGGATATGACAACTTGGATAAATTGA
1 ACATTACAACACTATTCAAACTTCCATTTTTGAATGTAACAACTTGGATAAGTTAA
* * * **
63835 A-TTCTACAACACTATTCAAACTTCCATTATTGAATGTAACAACTTGAATAAAATAA
1 ACAT-TACAACACTATTCAAACTTCCATTTTTGAATGTAACAACTTGGATAAGTTAA
* *** * * * * *
63891 GCATTACAATGTTATTCAAGCTTGCATCTTTAAATGTAACCACTTGGATAAGTT-A
1 ACATTACAACACTATTCAAACTTCCATTTTTGAATGTAACAACTTGGATAAGTTAA
* * * * * ** * * * *
63946 AGATCTATAACGCTATTCAATC-TACAGTCCTTGAATTTAACAACTTGAAAATATTTAA
1 ACAT-TACAACACTATTCAAACTTCCA-TTTTTGAATGTAACAACTTGGATA-AGTTAA
* * ** * * * *
64004 ACATTATAACATTATTCAAACTAAC-TTCTTTGGATGTGAA-AACGTGGATATGTTTAG
1 ACATTACAACACTATTCAAACTTCCATT-TTTGAATGT-AACAACTTGGATAAG-TTAA
*
64061 ACATTACAACACTATTC-AA-----A----TGAATATAACAACTTGGATAAGTTAA
1 ACATTACAACACTATTCAAACTTCCATTTTTGAATGTAACAACTTGGATAAGTTAA
* * * * ** ** * *
64107 TACATTACAATATTATGCAAACATCCATAATTGAATGTAATGACGTAGATAAGTTAA
1 -ACATTACAACACTATTCAAACTTCCATTTTTGAATGTAACAACTTGGATAAGTTAA
* * * * * * *
64164 GACATTACAAC-GTAAATCCAACTTTCATTTTTGAATGTAGCAACTTGGATAATTTCA
1 -ACATTACAACACT-ATTCAAACTTCCATTTTTGAATGTAACAACTTGGATAAGTTAA
* * * * *
64221 AC-TCTACATCGCTATTCAAAGTTCCATTTTTTAATGTAACAACTTGGATAGGTTAA
1 ACAT-TACAACACTATTCAAACTTCCATTTTTGAATGTAACAACTTGGATAAGTTAA
* * ** * *
64277 GACATTATAACACTATTTAAACTTTAATTTTTGAATGTGACAACTTTGATAA-TTAA
1 -ACATTACAACACTATTCAAACTTCCATTTTTGAATGTAACAACTTGGATAAGTTAA
*** * * * * *
64333 ACATTACAATGTTATTCAAACTTCTATATTTGAATGTCACAGCTTGGGTAAGTTAA
1 ACATTACAACACTATTCAAACTTCCATTTTTGAATGTAACAACTTGGATAAGTTAA
** * ** * *
64389 ACATTACAATGCTATTCAGAC-TCTCAGATTTGAATGTAACAAATTGGATAAATTAA
1 ACATTACAACACTATTCAAACTTC-CATTTTTGAATGTAACAACTTGGATAAGTTAA
** *** * * * * * *
64445 ACCCTACAATGTTATTC-AACTT-TATATCTTTAAATGTAACAACATGGACAACTTAGG
1 ACATTACAACACTATTCAAACTTCCAT-T-TTTGAATGTAACAACTTGGATAAGTTA-A
* * * * *
64502 GCATTACAACGCTATTCAAACTTCCATATTTGAATGTAACAACTTGGATAATTTTAG
1 ACATTACAACACTATTCAAACTTCCATTTTTGAATGTAACAACTTGGATAA-GTTAA
* * * * * * **
64559 ACATTACGACACTAATTTATA-TTCAATTTTTGTATGTATCAACTT-TTTAAAGTTAA
1 ACATTACAACACT-ATTCAAACTTCCATTTTTGAATGTAACAACTTGGAT-AAGTTAA
** * ** * * * * * * *
64615 ATTTTAAAACTTTATTTAAACTTCAATATTTGAATATAATAACTTAGATAAGTTGA
1 ACATTACAACACTATTCAAACTTCCATTTTTGAATGTAACAACTTGGATAAGTTAA
* * * * * * *
64671 ACATTACAACACTCTTCAAACTTTCATCTTTGAATATGACAACTTGGATAAATTGA
1 ACATTACAACACTATTCAAACTTCCATTTTTGAATGTAACAACTTGGATAAGTTAA
* * * **
64727 AC-TCTACAACACAATTCGAACTAT-CATTTTTGAATGTGACAACTTCAATAAGTTAA
1 ACAT-TACAACACTATTCAAACT-TCCATTTTTGAATGTAACAACTTGGATAAGTTAA
*** ** * * *
64783 ACATTACAATGTTATTTGAACTTGCATCTTTT-AATGTAACCACTTGGATAAGTTGA
1 ACATTACAACACTATTCAAACTTCCAT-TTTTGAATGTAACAACTTGGATAAGTTAA
* * * * * * * * *
64839 GC-TCTATAACACTATTCAATA-TACAATCTTTGAAAGTAACAACTTGAAAATATTTAA
1 ACAT-TACAACACTATTCAA-ACTTCCATTTTTGAATGTAACAACTTGGATA-AGTTAA
*** * * * * * * *
64896 ACATTATTGCATTATTCAAACTACCATCTTTGGATGTGAA-AAATTGGATATGTTTAG
1 ACATTACAACACTATTCAAACTTCCATTTTTGAATGT-AACAACTTGGATAAG-TTAA
* * * *
64953 ACATTA-AACGCTATTCAAACTTGCATTTTTTAATATAACAACTTGGATAAGTTAAA
1 ACATTACAACACTATTCAAACTTCCATTTTTGAATGTAACAACTTGGATAAGTT-AA
* ** * ** *
65009 ACATTATAACGTTATTCAAACATCCATAATTGAATGTAACAACTTAGATAAGTTAA
1 ACATTACAACACTATTCAAACTTCCATTTTTGAATGTAACAACTTGGATAAGTTAA
* ** * * * * *
65065 TACATTACAACACTATTCCAGGTTCCATTTTTTGAATATAATAACCTGGATAATTTCA
1 -ACATTACAACACTATTCAAACTTCCA-TTTTTGAATGTAACAACTTGGATAAGTTAA
* * * *
65123 AC-TCTACATCGCTATTCAAACTTCCATTTTTCAATGTAAAAACTTGGATAAGTT-A
1 ACAT-TACAACACTATTCAAACTTCCATTTTTGAATGTAACAACTTGGATAAGTTAA
* * * * *
65178 ACATTACAA-AGATATTCAAACTTCTATATTTGAATGTAATAACTT-GATCATGTTAA
1 ACATTACAACA-CTATTCAAACTTCCATTTTTGAATGTAACAACTTGGAT-AAGTTAA
65234 TACATTACAACACTATT
1 -ACATTACAACACTATT
65251 AAATGTAACA
Statistics
Matches: 2018, Mismatches: 571, Indels: 235
0.71 0.20 0.08
Matches are distributed among these distances:
46 5 0.00
47 29 0.01
48 2 0.00
53 1 0.00
54 8 0.00
55 249 0.12
56 1041 0.52
57 623 0.31
58 58 0.03
59 2 0.00
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.36
Consensus pattern (56 bp):
ACATTACAACACTATTCAAACTTCCATTTTTGAATGTAACAACTTGGATAAGTTAA
Found at i:65233 original size:55 final size:57
Alignment explanation
Indices: 64908--65243 Score: 193
Period size: 57 Copynumber: 5.9 Consensus size: 57
64898 ATTATTGCAT
* * ** * * * * *
64908 TATTCAAACTACCATCTTTGGATGTGAAAAA-TTGGATATGTTTAGACATTA-AACGC
1 TATTCAAACTTCCATATTTCAATGT-AAAAACTTGGATAAGTTAATACATTACAAAGA
* * * * * * * * *
64964 TATTCAAACTTGCATTTTTTAATATAACAACTTGGATAAGTTAAAACATTATAACGT
1 TATTCAAACTTCCATATTTCAATGTAAAAACTTGGATAAGTTAATACATTACAAAGA
* * * * * *
65021 TATTCAAACATCCATAATTGAATGTAACAACTTAGATAAGTTAATACATTACAACA-C
1 TATTCAAACTTCCATATTTCAATGTAAAAACTTGGATAAGTTAATACATTACAA-AGA
* ** * * * * * * * ** *
65078 TATTCCAGGTTCCATTTTTTGAATATAATAACCTGGATAATTTCA-AC-TCTACATCGC
1 TATTCAAACTTCCA-TATTTCAATGTAAAAACTTGGATAAGTTAATACAT-TACAAAGA
*
65135 TATTCAAACTTCCATTTTTCAATGTAAAAACTTGGATAAGTT-A-ACATTACAAAGA
1 TATTCAAACTTCCATATTTCAATGTAAAAACTTGGATAAGTTAATACATTACAAAGA
* * * *
65190 TATTCAAACTTCTATATTTGAATGTAATAACTT-GATCATGTTAATACATTACAA
1 TATTCAAACTTCCATATTTCAATGTAAAAACTTGGAT-AAGTTAATACATTACAA
65244 CACTATTAAA
Statistics
Matches: 218, Mismatches: 52, Indels: 19
0.75 0.18 0.07
Matches are distributed among these distances:
54 3 0.01
55 45 0.21
56 62 0.28
57 86 0.39
58 22 0.10
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.36
Consensus pattern (57 bp):
TATTCAAACTTCCATATTTCAATGTAAAAACTTGGATAAGTTAATACATTACAAAGA
Found at i:65330 original size:97 final size:96
Alignment explanation
Indices: 65155--65339 Score: 225
Period size: 97 Copynumber: 1.9 Consensus size: 96
65145 TCCATTTTTC
* * *
65155 AATGTAAAAACTTGGATAAGTTAACATTACAAAGATATTCAAACTTCTATATTTGAATGTAATAA
1 AATGTAAAAACTTGGATAAGTTAACATTACAAAGATATTCAAACTTCCATATTTGAAAGTAACAA
*
65220 CTTGATCATGTTAATACATTACAACACTATTA
66 CTTGATCAAGTTAA-ACATTACAACACTATTA
* * *
65252 AATGTAACAAA-TTGGATAAGTTAAACATTACAATA-TTATTTAAACTTCCAT-TTTGAAAGTGA
1 AATGTAA-AAACTTGGATAAGTT-AACATTACAA-AGATATTCAAACTTCCATATTTGAAAGTAA
*
65314 CAACTTTGAT-AAGTTAAATATTACAA
63 CAAC-TTGATCAAGTTAAACATTACAA
65340 TGTTATTAAA
Statistics
Matches: 76, Mismatches: 8, Indels: 9
0.82 0.09 0.10
Matches are distributed among these distances:
96 8 0.11
97 36 0.47
98 31 0.41
99 1 0.01
ACGTcount: A:0.44, C:0.11, G:0.10, T:0.35
Consensus pattern (96 bp):
AATGTAAAAACTTGGATAAGTTAACATTACAAAGATATTCAAACTTCCATATTTGAAAGTAACAA
CTTGATCAAGTTAAACATTACAACACTATTA
Found at i:65386 original size:56 final size:55
Alignment explanation
Indices: 65252--65388 Score: 177
Period size: 55 Copynumber: 2.5 Consensus size: 55
65242 AACACTATTA
* * *
65252 AATGTAACAAATTGGATAAGTTAAACATTACAATATTATTTAAACTTCCATTTTG
1 AATGTAACAACTTGGATAAGTTAAACATTACAATATTATTTAAACATACATTTTG
* * * * *
65307 AAAGTGACAACTTTGATAAGTTAAATATTACAATGTTA-TTAAATCATACATGTTTG
1 AATGTAACAACTTGGATAAGTTAAACATTACAATATTATTTAAA-CATACAT-TTTG
65363 AATGTAACAACTTGGATAAGTTAAAC
1 AATGTAACAACTTGGATAAGTTAAAC
65389 TCTTTAGTTG
Statistics
Matches: 68, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
54 5 0.07
55 37 0.54
56 26 0.38
ACGTcount: A:0.42, C:0.10, G:0.12, T:0.36
Consensus pattern (55 bp):
AATGTAACAACTTGGATAAGTTAAACATTACAATATTATTTAAACATACATTTTG
Found at i:65495 original size:57 final size:55
Alignment explanation
Indices: 65422--65754 Score: 156
Period size: 56 Copynumber: 5.9 Consensus size: 55
65412 TGTTTTGTTA
* *
65422 AGACATTACAACGCTATTCAAACTTCCATCTTTTAGTATAAAAACTTGGATAAATT
1 AGACATTACAAAGCTATTCAAACTTCCATCTTTTAATATAAAAACTT-GATAAATT
* * * * * **
65478 GAGACATTAAAAAGCTATTTAAACTTCTAGT-TTTTAATGTAACAACTTGATATGTT
1 -AGACATTACAAAGCTATTCAAACTTCCA-TCTTTTAATATAAAAACTTGATAAATT
* * * ** * **
65534 AAACATTACAAGGTTATTCAAACTTCCATCTCATAATGTAATAAA-TTGGATAAGCT
1 AGACATTACAAAGCTATTCAAACTTCCATCTTTTAATATAA-AAACTT-GATAAATT
* * * * * * * *
65590 AAACATTACAACA-TTATTCAAACTTACATATTTTCATGTAACAACTTGAATAACTT
1 AGACATTACAA-AGCTATTCAAACTTCCATCTTTTAATATAAAAACTTG-ATAAATT
* ** * * * * * * *
65646 AAAC-TCTATTATGCCATTTAAACTTCCATCTTTCAGTATAAAAACTTTAATAAGTT
1 AGACAT-TACAAAGCTATTCAAACTTCCATCTTTTAATATAAAAAC-TTGATAAATT
* * * * *
65702 A-A-ATTCTACAACGCTATTTAAACTTCCATCTTTGAATGTAACAACTTCGATAA
1 AGACA-T-TACAAAGCTATTCAAACTTCCATCTTTTAATATAAAAACTT-GATAA
65755 GTTAAACTCT
Statistics
Matches: 210, Mismatches: 53, Indels: 27
0.72 0.18 0.09
Matches are distributed among these distances:
54 1 0.00
55 40 0.19
56 128 0.61
57 40 0.19
58 1 0.00
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.36
Consensus pattern (55 bp):
AGACATTACAAAGCTATTCAAACTTCCATCTTTTAATATAAAAACTTGATAAATT
Found at i:65669 original size:56 final size:55
Alignment explanation
Indices: 65494--65764 Score: 163
Period size: 56 Copynumber: 4.9 Consensus size: 55
65484 TTAAAAAGCT
* * * * **
65494 ATTTAAACTTCTAGTTTTTAATGTAACAACTTG-ATATGTTAAACAT-TACAAGGTT
1 ATTTAAACTTCCA-TTTTTCATGTAACAACTTGAATAAGTTAAAC-TCTACAACGCC
* ** * * * * * ***
65549 ATTCAAACTTCCATCTCATAATGTAATAAATTGGATAAGCTAAACAT-TACAACATT
1 ATTTAAACTTCCAT-TTTTCATGTAACAACTTGAATAAGTTAAAC-TCTACAACGCC
* * * ** *
65605 ATTCAAACTTACATATTTTCATGTAACAACTTGAATAACTTAAACTCTATTATGCC
1 ATTTAAACTTCCAT-TTTTCATGTAACAACTTGAATAAGTTAAACTCTACAACGCC
* * * * * *
65661 ATTTAAACTTCCATCTTTCAGTATAAAAACTTTAATAAGTTAAATTCTACAACGCT
1 ATTTAAACTTCCATTTTTCA-TGTAACAACTTGAATAAGTTAAACTCTACAACGCC
**
65717 ATTTAAACTTCCATCTTTGAATGTAACAACTTCG-ATAAGTTAAACTCT
1 ATTTAAACTTCCAT-TTTTCATGTAACAACTT-GAATAAGTTAAACTCT
65765 TTAGTCTGTA
Statistics
Matches: 165, Mismatches: 45, Indels: 11
0.75 0.20 0.05
Matches are distributed among these distances:
54 1 0.01
55 31 0.19
56 130 0.79
57 3 0.02
ACGTcount: A:0.38, C:0.17, G:0.07, T:0.37
Consensus pattern (55 bp):
ATTTAAACTTCCATTTTTCATGTAACAACTTGAATAAGTTAAACTCTACAACGCC
Found at i:65836 original size:92 final size:93
Alignment explanation
Indices: 65708--66041 Score: 429
Period size: 92 Copynumber: 3.6 Consensus size: 93
65698 AGTTAAATTC
* * * * * *
65708 TACAACGCTATTTAAACTTCCATCTTTGAATGTAACAACTTCGATAAGTTAAACTCTTTAGTCTG
1 TACAACGCTATTCAAACATCAATATTTGAATGTAACAACTTGGATAAGTTAAACTCTTTAGTTTG
* * * * *
65773 TAAACGTCAAAGTGTTTTGTTCATAAAT
66 TAAACATCAAAGTATTTTGTTAAGACAT
* * * *
65801 TACAATGCTATTCAAA-TTCCATATTTGAGTGTAACAACTTGGATAAGTTAAACTCTTTAGTTTG
1 TACAACGCTATTCAAACATCAATATTTGAATGTAACAACTTGGATAAGTTAAACTCTTTAGTTTG
* *
65865 TAAACATCAAAGTATATTATTAAGACAT
66 TAAACATCAAAGTATTTTGTTAAGACAT
* ** *
65893 TGCAACGCTATT-AAACATCAATATTTGAATGTAACAACTTGGATATTTTAAACTCTTTAGTTTT
1 TACAACGCTATTCAAACATCAATATTTGAATGTAACAACTTGGATAAGTTAAACTCTTTAGTTTG
65957 TAAACATCAAAGTATTTTGTTAAGACAT
66 TAAACATCAAAGTATTTTGTTAAGACAT
* * * *
65985 TGCAACGCTATTCAAACATCAATCTTCGAATGTAAAAACTTGGATAAGTTAAACTCT
1 TACAACGCTATTCAAACATCAATATTTGAATGTAACAACTTGGATAAGTTAAACTCT
66042 ATATGGATAT
Statistics
Matches: 211, Mismatches: 28, Indels: 4
0.87 0.12 0.02
Matches are distributed among these distances:
91 3 0.01
92 155 0.73
93 53 0.25
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.37
Consensus pattern (93 bp):
TACAACGCTATTCAAACATCAATATTTGAATGTAACAACTTGGATAAGTTAAACTCTTTAGTTTG
TAAACATCAAAGTATTTTGTTAAGACAT
Found at i:66114 original size:56 final size:56
Alignment explanation
Indices: 65975--69829 Score: 1324
Period size: 56 Copynumber: 68.2 Consensus size: 56
65965 AAAGTATTTT
* * * * * *
65975 GTTAAGACATTGCAACGCTATTCAAACATCAATCTTCGAATGTAAAAACTTGGATAA
1 GTTAA-ACATTACAACGTTATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAA
* ** * * * *
66032 GTTAAAC-TCTATATGGATATTAAAACTTCCATGTTTGAATGTAACAACATGGATAA
1 GTTAAACAT-TACAACGTTATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAA
* * * * *
66088 GTTAAACATTACAACGTTTTTCAAACTTTCATATTTGAATGTCACAACTTGGATAT
1 GTTAAACATTACAACGTTATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAA
* * * * * * *
66144 GCTAAACATTACAATGCTATTCAGA-TTCTCGTCTTTTAATGTAACAAATTGGATAA
1 GTTAAACATTACAACGTTATTCAAACTTC-CATCTTTGAATGTAACAACTTGGATAA
* * * * * *
66200 GTTAAACCCTT-CAATGTTATTCAAACTTCCATATTTGAATGCAACAAATAGGATAA
1 GTTAAA-CATTACAACGTTATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAA
* * * * * * **
66256 TTTAAGACATTACTATGCTTATTTATA-TT-CA-CTTTTTATATACAACAACTTGGATAA
1 GTTAA-ACATTACAACG-TTATTCAAACTTCCATC-TTTGA-ATGTAACAACTTGGATAA
* * * * * *
66313 GTTAAAC-TTTCAAATGTTATTTAAA-TTCCATCTTTGCATATAGCAACTTGGATAA
1 GTTAAACATTAC-AACGTTATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAA
* * * * * * **
66368 GTTGAACATTGTC-ACGCTCTTAAAACTTTCATCTTT-ACATAAAACAACTTGGATAA
1 GTTAAACATT-ACAACGTTATTCAAACTTCCATCTTTGA-ATGTAACAACTTGGATAA
* ** * * *
66424 ATTAAAC-TCTACAACACTATACAAACTTCCCTCTTTGAATGTAACAACTTGGATAT
1 GTTAAACAT-TACAACGTTATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAA
* * ** * * * * * * *
66480 GTTAAACATTACAATGTTTTTCATTCTTTCATATTTGAGTGCAATAACATGGACAA
1 GTTAAACATTACAACGTTATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAA
* * * * * *
66536 GATAAGCATTACAAAGTTATTCAATCTTCCATCTTTGAATATAACAAGTTGGATAAA
1 GTTAAACATTACAACGTTATTCAAACTTCCATCTTTGAATGTAACAACTTGGAT-AA
** * * ** * * *
66593 AATGAATA-TACAATATTATTGAAACTTGCATCTTTCAATGTAACAACTTGGATAA
1 GTTAAACATTACAACGTTATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAA
* * * * * * * * * * *
66648 -TTAAGCAATATAGCATTATTCAAAATAT-AATCCTTGAATATAACAACTTGAAAATA
1 GTTAAACATTACAACGTTATTCAAACT-TCCATCTTTGAATGTAACAACTTGGATA-A
* * ** * * * * * *
66704 GTTAAACATTACAACATCATTCAAACAACCATTTTTTAATGTGA-AA--TGAACAT
1 GTTAAACATTACAACGTTATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAA
* * * *
66757 GTTTAGACATTACAACGCTATTCAAACTTCCA-CTTTTGAATATAACAACTTGGATAG
1 G-TTAAACATTACAACGTTATTCAAACTTCCATC-TTTGAATGTAACAACTTGGATAA
* * * * * * * * *
66814 GTTTATACATTACAACATCATTTAAACATCCATCATTGAATGT-AGAACTTTGACAA
1 G-TTAAACATTACAACGTTATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAA
* * * * * * *
66870 CTTAAGACATTAAAACGCTATTCCAATTTCCATTTTTTGAATGCAACAACTTGGATAA
1 GTTAA-ACATTACAACGTTATTCAAACTTCCA-TCTTTGAATGTAACAACTTGGATAA
* * * * * * *
66928 TTTCAAC-TCTACAGCGTTATTCAAACTTCCATATTTGAATATAATAACTTGGGTAA
1 GTTAAACAT-TACAACGTTATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAA
* * * * *
66984 GTTAAACATTACAAAGCTATTCAAACTTCCA--TTT---T-TAATAACTTGCATAT
1 GTTAAACATTACAACGTTATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAA
* * ** ** ** * * *
67034 GATAATACATTACAACGCTATTCAATGTAACAAATTGGATAAGTTGAAC-A-TTGCA-ACGCTA
1 GTTAA-ACATTACAACGTTATTCAAACTTCCATCTTTGA-ATG-T-AACAACTTGGATA----A
* * *** * ** ** * * * ** *
67095 TTTAAAC-TTTCATTTTTGAATGTAACAACTAGCATAAGTTAAATATTACAACATTATTAAAA
1 GTTAAACATTACAACGTT--AT-TCA-AACTTCCAT-CTTTGAATGTAACAAC-TT-GGATAA
* * * * * ** * **
67157 CTTACATCTTGAATGTAACAA-ATT-GT-ATAAGTTAAACTCTTT-ATTTCGTAAACATCAAAAT
1 GTTA-AAC----AT-T-ACAACGTTATTCA-AACTTCCA-TCTTTGA-AT-GT--A-A-CAACTT
** *
67218 GTTTTA
51 GGATAA
* * * * *
67224 -TTATGACATTCCCACGCTATTCAAACTTCCA----TGAATGTAAAAACTTGGATAA
1 GTTA-AACATTACAACGTTATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAA
* * * * * *
67276 CTTAAA-TTCTACAACGCTATTCAAACTTCCATCTTTTAATATAACAACTTGAATAA
1 GTTAAACAT-TACAACGTTATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAA
* * * * * * ** * *
67332 ATTGAGACATTAAAAC-TCTATTTAAACTTCAATTTTTTCATGTAAAAAACCTGGATAA
1 GTT-AAACATTACAACGT-TATTCAAACTTCCATCTTTGAATGT-AACAACTTGGATAA
* * * * *
67390 GTTAAACATTACAATGTTATTCAAACTTCCATCTTAGAATGCAAAAAATTGGATAA
1 GTTAAACATTACAACGTTATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAA
* * * *
67446 GTTAAACAATGA-AACATTATTCAAACTTCCA-CATTTGCATGTAGCAACTTGGATAA
1 GTTAAAC-ATTACAACGTTATTCAAACTTCCATC-TTTGAATGTAACAACTTGGATAA
* * * * * * * * * *
67502 CTTCAAC-TCTATAACGCTATAT-AAACATCCATTTTTCAATATAAAAACTTGAATAA
1 GTTAAACAT-TACAACGTTAT-TCAAACTTCCATCTTTGAATGTAACAACTTGGATAA
* * * * * ** * * *
67558 GTTAAA-TTCTAGAATGCTATTTAAACTTCCATCGCTGAATGTAAGAAATAGGATAA
1 GTTAAACAT-TACAACGTTATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAA
* * * * ** * * *
67614 GTTAAGACATTATAAGGCTATTTAAACACCCATTTTTGAATGTGACAACTTAGATAA
1 GTTAA-ACATTACAACGTTATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAA
* ** **
67671 GTTAAACATTACAACGTTATTTTAAACTTCCATCTTTGAATGTCTCAACTTAAATAA
1 GTTAAACATTACAACGTTA-TTCAAACTTCCATCTTTGAATGTAACAACTTGGATAA
* * * * * *
67728 TTTAAACATTACAATGTTATTCAGAC-TCTCATATTTTAATGTAACAAATTGGATACA
1 GTTAAACATTACAACGTTATTCAAACTTC-CATCTTTGAATGTAACAACTTGGATA-A
* * * * *
67785 -TTAAACATTACAACGTTATTAAAACTTTCGTCTTTAAATGTAATAACTTGGATAA
1 GTTAAACATTACAACGTTATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAA
* * *
67840 GTTAAGACATTACAAC-TCTATTCAAACTTCCATATTTGAATCTAACAACTTTGATAA
1 GTTAA-ACATTACAACGT-TATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAA
* ** * * * * * * * *
67897 TTTAATACATTATGATGCTAATTTATA-TTCAATTTTTGTATGTAACAATTTGGATAA
1 GTTAA-ACATTACAACG-TTATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAA
* * * * * * * *
67954 GATAAACTTTAAAATGTTATTTAAACTTCTATCGTTGAATATAACAACTT-GATAA
1 GTTAAACATTACAACGTTATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAA
* * * * * * * *
68009 GTTGAACATTGCAACGCTCTTCAAACTTTCAACTTTGAATATGACAACTTGGATAA
1 GTTAAACATTACAACGTTATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAA
* * * *
68065 ATTAAAC-TCCACAAC-ATATTCAAACTTCCATC-TTGAATGTAACAACTTGGATAT
1 GTTAAACAT-TACAACGTTATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAA
* ** * ** * * **
68119 GTTAAACATT-GAATATATATTTATTCTTCAATCTTTGAGTGTAACAACTTATATAA
1 GTTAAACATTACAACGT-TATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAA
** * * * * *
68175 ACT-AA-ATTACAATGTAATTCAAACTTCCATGTTTCAGTGTAACAACTTGGATAA
1 GTTAAACATTACAACGTTATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAA
* * * * * * * * *
68229 ATTAAGACTATAAC-AC--TATTCAAA-TGCAATCCTTCAATGTAATAACATT-AAAATA
1 GTTAA-AC-ATTACAACGTTATTCAAACTTCCATCTTTGAATGTAACAAC-TTGGATA-A
* * * * *
68284 GTTAAACATTACAACGTTATACAATCTACCATCTTTGAATGTGAA-ATCTTGGATAT
1 GTTAAACATTACAACGTTATTCAAACTTCCATCTTTGAATGT-AACAACTTGGATAA
* * *** *
68340 GTTTAGACATTTCAATAATATTCAAACTTCCAT-TATTGAATATAA-AACTTGGATAA
1 G-TTAAACATTACAACGTTATTCAAACTTCCATCT-TTGAATGTAACAACTTGGATAA
** ** * * * *
68396 GTTAATATGTTACAGTGTTATTCAAACATCCATCATTGAATGTAACAAATTAGATAA
1 GTTAA-ACATTACAACGTTATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAA
* * ** * * * * *
68453 GTTATGACATTAGAACACTATTCCAACATCAATTTTTAAATGTAACAACTTGGATAA
1 GTTA-AACATTACAACGTTATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAA
* * * *
68510 ATTCAAC-TCTACAACGCTATTCAAACTTCCATCTTTGAATGTAACAACTTGGGTAA
1 GTTAAACAT-TACAACGTTATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAA
* * *
68566 GTTAAACATTACAATGCTATTCAAACTTCCATTCGATTTTTTAATGTAACAACTTGGATAA
1 GTTAAACATTACAACGTTATTCAAACTTCCA-TC----TTTGAATGTAACAACTTGGATAA
* * * * * *
68627 GTTAAA-ATTACAACGTTATTCAAACTACCATATTAGAATGTAATAATTTGTATAA
1 GTTAAACATTACAACGTTATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAA
* * * * ** *
68682 GTTAAACTTTACAACATTATTAAAACTTCCATGTTTTCATATAACAACTTGGATAA
1 GTTAAACATTACAACGTTATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAA
* * * ** * * * *
68738 CTTAAAC-TCTATAACGCTATTTTAACTTCCAT-TATTCAATATAACAACTTGAAAAA
1 GTTAAACAT-TACAACGTTATTCAAACTTCCATCT-TTGAATGTAACAACTTGGATAA
* * *** * *
68794 GTTAAATC-CTGCAATACTATTTAAACTTCTATCTTTGAATGTAACAACTTGGATAA
1 GTTAAA-CATTACAACGTTATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAA
* ** *** * * * ** * * ** *
68850 GCTAAATTGTTTAGTTCGTAAACGTCAAAGTGT-TTTGTTCAGAAAT-T-ACAATGCTTTTAAAA
1 GTTAAA--CATTACAACGT-TA-TTCAAACT-TCCATCTT-TG-AATGTAACAA--CTTGGATAA
* * ** * * * ** ** * * ***
68912 CTTCCAAC-TTTGAATGTAATAACTTGGATAAATTAAATTCTTTAGTTTGCAA-AAATCAAAGTA
1 GTT-AAACATTACAACGT--T-A-TT-CA-AACTTCCA-TCTTT-GAATGTAACAACTTGGA-TA
*
68975 TT
56 -A
* * * * * *
68977 TTTAAGACATTGCAACGCTATTCTAACATCAATCTTTGAATGTAACAACTTGGATAA
1 GTTAA-ACATTACAACGTTATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAA
* *** * *
69034 GTTAAAC-TCTATAAAAATATTCAAACTTCAATGTTTGAATGTAACAACTTGGATAA
1 GTTAAACAT-TACAACGTTATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAA
* * ** * * * * * *
69090 GTTAAAACATTATAGCACTGTT-TAACTTCTATTTTTGAATTTGACAACTTGGATAA
1 GTT-AAACATTACAACGTTATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAA
* * * * * *
69146 GTTAAACATTACAATGTTATTCAGAC-TCTCATATTTGAATATAACAAGTTGGATAT
1 GTTAAACATTACAACGTTATTCAAACTTC-CATCTTTGAATGTAACAACTTGGATAA
** * * * *
69202 GTTAAACCCTACAACATTATTCAAACGTCCATCTTTGAATGTAAAAACTTGGACAA
1 GTTAAACATTACAACGTTATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAA
* * * * * * * *
69258 GTTAAGGCATTACAATGCTATAC-AACATCCATATTTAAATGTAACAACGTGGATAA
1 GTTAA-ACATTACAACGTTATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAA
* * * * * * * * *
69314 TTTAAGACATTACGATGCTTATTTATA-TT-AACTTTTTGTATGTAACAACTTGAATAA
1 GTTAA-ACATTACAACG-TTATTCAAACTTCCA-TCTTTGAATGTAACAACTTGGATAA
* * * * * *
69371 GTTAAA-ATTTAAAATGTTATTTAAAGTT-CATATTTGAATATAACAACTTGGATAA
1 GTTAAACA-TTACAACGTTATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAA
* ** * * * * * *
69426 GTTAAACTTTACAACACTCTTAAAACTTTCA-CTTTAAATATGACAACTTGGATAA
1 GTTAAACATTACAACGTTATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAA
* *** * * * *
69481 ATTAAAC-TCTACAATACTATTCAAACTTTCAACTTTGAGTATAACAACTTGGATAA
1 GTTAAACAT-TACAACGTTATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAA
*
69537 GTTAAACATTACAACGTTATTCAATCTTCCATCTTTGAATGTAACAACTTGGATAA
1 GTTAAACATTACAACGTTATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAA
** * * * * * *
69593 AAT-AA-GTTACAATGTTATTC-AACTTGCATCTTTAAATGTAACGACTTGAATAA
1 GTTAAACATTACAACGTTATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAA
** * * * * * * * *
69646 GTT-AAGTTTATAATGCTATTCAAACTACAATCCTTGAATGTAACAACTTGAAAATA
1 GTTAAACATTACAACGTTATTCAAACTTCCATCTTTGAATGTAACAACTTGGATA-A
* * *
69702 GTTCAACATTACAACGTTATTCAAACTACCATCTTTGAATGTGAA-AATTTGGATATA
1 GTTAAACATTACAACGTTATTCAAACTTCCATCTTTGAATGT-AACAACTTGGATA-A
* * * * * *
69759 TTTAGACATTACAATGCTATTCAAA-TCTCCA-CTTTTAAATATAACAACTTGGATAA
1 GTTAAACATTACAACGTTATTCAAACT-TCCATC-TTTGAATGTAACAACTTGGATAA
*
69815 CTTAATACATTACAA
1 GTTAA-ACATTACAA
69830 TGTGTTGAAA
Statistics
Matches: 2780, Mismatches: 819, Indels: 398
0.70 0.20 0.10
Matches are distributed among these distances:
50 16 0.01
51 23 0.01
52 27 0.01
53 44 0.02
54 153 0.06
55 357 0.13
56 1256 0.45
57 623 0.22
58 66 0.02
59 19 0.01
60 50 0.02
61 40 0.01
62 31 0.01
63 17 0.01
64 20 0.01
65 14 0.01
66 11 0.00
67 2 0.00
68 3 0.00
69 6 0.00
70 2 0.00
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.36
Consensus pattern (56 bp):
GTTAAACATTACAACGTTATTCAAACTTCCATCTTTGAATGTAACAACTTGGATAA
Found at i:66959 original size:113 final size:115
Alignment explanation
Indices: 66681--67019 Score: 268
Period size: 113 Copynumber: 3.0 Consensus size: 115
66671 AATATAATCC
* * * * * * * * * *
66681 TTGAATATAACAACTTGAAAATAGTTAAACATTACAACATCATTCAAACAACCATTTTTTAATGT
1 TTGAATACAACAACTTGGATAGATTTATACATTACAACATCATTCAAACATCCATATTTGAATAT
* * ** * * *
66746 --GAA-ATGAACATGTTTAGACATTACAACGCTATTCAAACTTCCA-CTT
66 AAGAACTTGGACAACTTAAGACATTAAAACGCTATTCAAACTTCCATTTT
* * * *
66792 TTGAATATAACAACTTGGATAGGTTTATACATTACAACATCATTTAAACATCCATCA-TTGAATG
1 TTGAATACAACAACTTGGATAGATTTATACATTACAACATCATTCAAACATCCAT-ATTTGAATA
* * *
66856 T-AGAACTTTGACAACTTAAGACATTAAAACGCTATTCCAATTTCCATTTT
65 TAAGAACTTGGACAACTTAAGACATTAAAACGCTATTCAAACTTCCATTTT
* * * * *
66906 TTGAATGCAACAACTTGGATA-ATTTCA-AC-TCTACAGCGTTATTCAAACTTCCATATTTGAAT
1 TTGAATACAACAACTTGGATAGATTT-ATACAT-TACAACATCATTCAAACATCCATATTTGAAT
* ** *
66968 ATAATAACTTGGGTAAGTTAA-ACATTACAAA-GCTATTCAAACTTCCATTTT
64 ATAAGAACTTGGACAACTTAAGACATTA-AAACGCTATTCAAACTTCCATTTT
67019 T
1 T
67020 AATAACTTGC
Statistics
Matches: 183, Mismatches: 36, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
111 54 0.30
112 5 0.03
113 86 0.47
114 38 0.21
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.35
Consensus pattern (115 bp):
TTGAATACAACAACTTGGATAGATTTATACATTACAACATCATTCAAACATCCATATTTGAATAT
AAGAACTTGGACAACTTAAGACATTAAAACGCTATTCAAACTTCCATTTT
Found at i:67670 original size:57 final size:57
Alignment explanation
Indices: 67609--67908 Score: 169
Period size: 57 Copynumber: 5.3 Consensus size: 57
67599 TAAGAAATAG
* * * *
67609 GATAAGTTAAGACATTATAAGGCTA-TTTAAACACCCATTTTTGAATGTGACAACTTA
1 GATAAGTTAA-ACATTACAACGCTATTTTAAACACCCATCTTTGAATGTCACAACTTA
* ** *
67666 GATAAGTTAAACATTACAACGTTATTTTAAACTTCCATCTTTGAATGTCTCAACTTA
1 GATAAGTTAAACATTACAACGCTATTTTAAACACCCATCTTTGAATGTCACAACTTA
* * * * * * * * * * * * *
67723 AATAATTTAAACATTACAATGTTA-TTCAGACTCTCATATTTTAATGTAACAAATTG
1 GATAAGTTAAACATTACAACGCTATTTTAAACACCCATCTTTGAATGTCACAACTTA
* * *** * * * * *
67779 GATACA-TTAAACATTACAACGTTA-TTAAAACTTTCGTCTTTAAATGTAATAACTTG
1 GATA-AGTTAAACATTACAACGCTATTTTAAACACCCATCTTTGAATGTCACAACTTA
* * ** * * * *
67835 GATAAGTTAAGACATTACAACTCTA-TTCAAACTTCCATATTTGAATCTAACAACTTT
1 GATAAGTTAA-ACATTACAACGCTATTTTAAACACCCATCTTTGAATGTCACAACTTA
*
67892 GATAATTTAATACATTA
1 GATAAGTTAA-ACATTA
67909 TGATGCTAAT
Statistics
Matches: 196, Mismatches: 43, Indels: 8
0.79 0.17 0.03
Matches are distributed among these distances:
55 1 0.01
56 85 0.43
57 110 0.56
ACGTcount: A:0.39, C:0.15, G:0.09, T:0.37
Consensus pattern (57 bp):
GATAAGTTAAACATTACAACGCTATTTTAAACACCCATCTTTGAATGTCACAACTTA
Found at i:68481 original size:57 final size:56
Alignment explanation
Indices: 68414--68556 Score: 146
Period size: 57 Copynumber: 2.5 Consensus size: 56
68404 GTTACAGTGT
* * *
68414 TATTCAAACATCCATCATTGAATGTAACAAATTAGATAAGTT-ATGACAT-TAGAACAC
1 TATTCAAACATCCATCTTTGAATGTAACAAATTAGATAAATTCA--AC-TCTACAACAC
* * * * * * *
68471 TATTCCAACATCAATTTTTAAATGTAACAACTTGGATAAATTCAACTCTACAACGC
1 TATTCAAACATCCATCTTTGAATGTAACAAATTAGATAAATTCAACTCTACAACAC
*
68527 TATTCAAACTTCCATCTTTGAATGTAACAA
1 TATTCAAACATCCATCTTTGAATGTAACAA
68557 CTTGGGTAAG
Statistics
Matches: 69, Mismatches: 15, Indels: 5
0.78 0.17 0.06
Matches are distributed among these distances:
55 1 0.01
56 33 0.48
57 34 0.49
58 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (56 bp):
TATTCAAACATCCATCTTTGAATGTAACAAATTAGATAAATTCAACTCTACAACAC
Found at i:68669 original size:116 final size:116
Alignment explanation
Indices: 67257--68855 Score: 535
Period size: 113 Copynumber: 14.2 Consensus size: 116
67247 AACTTCCATG
* * * * * * * *
67257 AATGTAAAAACTTGGATAACTTAAA-TTCTACAACGCTATTCAAACTTCCATCTTTTAATATAAC
1 AATGTAACAACTTGGATAAGTTAAACAT-TACAACGTTATTCAAACTACCATATTTGAATGTAAC
* * * * * * *
67321 AACTTGAATAAATTGAGACATTAAAACTCTATTTAAACTT-CA---ATTTTTT
65 AACTTGGATAAGTT-AAACATTACAACACTATTCAAACTTCCATTCATTTTTA
* * * * * * * * *
67370 CATGTAAAAAACCTGGATAAGTTAAACATTACAATGTTATTCAAACTTCCATCTTAGAATGCAAA
1 AATGT-AACAACTTGGATAAGTTAAACATTACAACGTTATTCAAACTACCATATTTGAATGTAAC
* * * *
67435 AAATTGGATAAGTTAAACAATGA-AACATTATTCAAACTTCCA--CA--TTTG
65 AACTTGGATAAGTTAAAC-ATTACAACACTATTCAAACTTCCATTCATTTTTA
* * * * * * * * *
67483 CATGTAGCAACTTGGATAACTTCAAC-TCTATAACGCTATAT-AAAC-ATCCATTTTTCAATATA
1 AATGTAACAACTTGGATAAGTTAAACAT-TACAACGTTAT-TCAAACTA-CCATATTTGAATGTA
* * * * ** * ** *
67545 AAAACTTGAATAAGTTAAA-TTCTAGAATGCTATTTAAACTTCCA-TC---GCTG
63 ACAACTTGGATAAGTTAAACAT-TACAACACTATTCAAACTTCCATTCATTTTTA
* * * * * * * * *
67595 AATGTAAGAAATAGGATAAGTTAAGACATTATAAGGCTATTTAAAC-ACCCATTTTTGAATGTGA
1 AATGTAACAACTTGGATAAGTTAA-ACATTACAACGTTATTCAAACTA-CCATATTTGAATGTAA
* ** * *
67659 CAACTTAGATAAGTTAAACATTACAACGTTATTTTAAACTTCCA-TC---TTTG
64 CAACTTGGATAAGTTAAACATTACAACACTA-TTCAAACTTCCATTCATTTTTA
** ** * * * *
67709 AATGTCTCAACTTAAATAATTTAAACATTACAATGTTATTCAGACT-CTCATATTTTAATGTAAC
1 AATGTAACAACTTGGATAAGTTAAACATTACAACGTTATTCAAACTAC-CATATTTGAATGTAAC
* ** * * *
67773 AAATTGGATACA-TTAAACATTACAACGTTATTAAAAC-T---TTCGTCTTTA
65 AACTTGGATA-AGTTAAACATTACAACACTATTCAAACTTCCATTCATTTTTA
* * *
67821 AATGTAATAACTTGGATAAGTTAAGACATTACAAC-TCTATTCAAACTTCCATATTTGAATCTAA
1 AATGTAACAACTTGGATAAGTTAA-ACATTACAACGT-TATTCAAACTACCATATTTGAATGTAA
* * ** ** * * *
67885 CAACTTTGATAATTTAATACATTATGATGCTAATTTATA-TT-CA---ATTTTTG
64 CAACTTGGATAAGTTAA-ACATTACAACACT-ATTCAAACTTCCATTCATTTTTA
* * * * * * * * * ** *
67935 TATGTAACAATTTGGATAAGATAAACTTTAAAATGTTATTTAAACTTCTATCGTTGAATATAACA
1 AATGTAACAACTTGGATAAGTTAAACATTACAACGTTATTCAAACTACCATATTTGAATGTAACA
* * * * * * *
68000 ACTT-GATAAGTTGAACATTGCAACGCTCTTCAAACTTTCA---ACTTTGA
66 ACTTGGATAAGTTAAACATTACAACACTATTCAAACTTCCATTCATTTTTA
* * * * *
68047 ATATG--ACAACTTGGATAAATTAAAC-TCCACAAC-ATATTCAAACTTCCAT-CTTGAATGTAA
1 A-ATGTAACAACTTGGATAAGTTAAACAT-TACAACGTTATTCAAACTACCATATTTGAATGTAA
* * * * *
68107 CAACTTGGATATGTTAAACATTGA-ATATA-TATT--TA-TT-C-TTCAATCTTTG
64 CAACTTGGATAAGTTAAACATT-ACA-ACACTATTCAAACTTCCATTC-ATTTTTA
* ** ** * * * * * *
68156 AGTGTAACAACTTATATAAACT-AA-ATTACAATGTAATTCAAACTTCCATGTTTCAGTGTAACA
1 AATGTAACAACTTGGATAAGTTAAACATTACAACGTTATTCAAACTACCATATTTGAATGTAACA
* * * ** *
68219 ACTTGGATAAATTAAGAC--TATAACACTATTCAAA--TGCA---ATCCTTC
66 ACTTGGATAAGTTAA-ACATTACAACACTATTCAAACTTCCATTCATTTTTA
* * * * * *
68264 AATGTAATAACATT-AAAATAGTTAAACATTACAACGTTATACAATCTACCATCTTTGAATGTGA
1 AATGTAACAAC-TTGGATA-AGTTAAACATTACAACGTTATTCAAACTACCATATTTGAATGT-A
* * * * * * *
68328 A-ATCTTGGATATGTTTAGACATTTCAATAATATTCAAACTTCCATT-A---TTG
63 ACAACTTGGATAAG-TTAAACATTACAACACTATTCAAACTTCCATTCATTTTTA
* ** **
68378 AATATAA-AACTTGGATAAGTTAATATGTTACAGTGTTATTCAAAC-ATCCATCA-TTGAATGTA
1 AATGTAACAACTTGGATAAGTTAA-ACATTACAACGTTATTCAAACTA-CCAT-ATTTGAATGTA
* * * * * *
68440 ACAAATTAGATAAGTTATGACATTAGAACACTATTCCAACAT-CA---ATTTTTA
63 ACAACTTGGATAAGTTA-AACATTACAACACTATTCAAACTTCCATTCATTTTTA
* * * * *
68491 AATGTAACAACTTGGATAAATTCAAC-TCTACAACGCTATTCAAACTTCCATCTTTGAATGTAAC
1 AATGTAACAACTTGGATAAGTTAAACAT-TACAACGTTATTCAAACTACCATATTTGAATGTAAC
* ** *
68555 AACTTGGGTAAGTTAAACATTACAATGCTATTCAAACTTCCATTCGATTTTTT
65 AACTTGGATAAGTTAAACATTACAACACTATTCAAACTTCCATTC-ATTTTTA
* *
68608 AATGTAACAACTTGGATAAGTTAAA-ATTACAACGTTATTCAAACTACCATATTAGAATGTAATA
1 AATGTAACAACTTGGATAAGTTAAACATTACAACGTTATTCAAACTACCATATTTGAATGTAACA
* * * * * *
68672 ATTTGTATAAGTTAAACTTTACAACATTATTAAAACTTCCA-T--GTTTT-
66 ACTTGGATAAGTTAAACATTACAACACTATTCAAACTTCCATTCATTTTTA
* * * * * ** * * *
68719 CATATAACAACTTGGATAACTTAAAC-TCTATAACGCTATTTTAACTTCCAT-TATTCAATATAA
1 AATGTAACAACTTGGATAAGTTAAACAT-TACAACGTTATTCAAACTACCATAT-TTGAATGTAA
* * * * * * * *
68782 CAACTTGAAAAAGTTAAATC-CTGCAATACTATTTAAACTT-C--T-ATCTTTG
64 CAACTTGGATAAGTTAAA-CATTACAACACTATTCAAACTTCCATTCATTTTTA
*
68831 AATGTAACAACTTGGATAAGCTAAA
1 AATGTAACAACTTGGATAAGTTAAA
68856 TTGTTTAGTT
Statistics
Matches: 1117, Mismatches: 276, Indels: 187
0.71 0.17 0.12
Matches are distributed among these distances:
106 1 0.00
107 2 0.00
108 26 0.02
109 48 0.04
110 77 0.07
111 105 0.09
112 253 0.23
113 342 0.31
114 155 0.14
115 12 0.01
116 65 0.06
117 31 0.03
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.36
Consensus pattern (116 bp):
AATGTAACAACTTGGATAAGTTAAACATTACAACGTTATTCAAACTACCATATTTGAATGTAACA
ACTTGGATAAGTTAAACATTACAACACTATTCAAACTTCCATTCATTTTTA
Found at i:69039 original size:91 final size:94
Alignment explanation
Indices: 68824--69039 Score: 251
Period size: 91 Copynumber: 2.3 Consensus size: 94
68814 TTAAACTTCT
* * * ** *
68824 ATCTTTGAATGTAACAACTTGGATAAGCTAAATTGTTTAGTTCGTAAACGTCAAAGTGTTTTGTT
1 ATCTTTGAATGTAACAACTTGGATAAGTTAAATTCTTTAGTTCGCAAAAATCAAAGTGATTTGTT
* * * *
68889 CAGAAATTACAATGCTTTTAAAACTTCCA
66 AAGAAATTACAACGCTATTAAAACATCCA
* * *
68918 A-CTTTGAATGTAATAACTTGGATAAATTAAATTCTTTAGTTTGCAAAAATCAAAGT-ATTT-TT
1 ATCTTTGAATGTAACAACTTGGATAAGTTAAATTCTTTAGTTCGCAAAAATCAAAGTGATTTGTT
* * **
68980 AAGACATTGCAACGCTATTCTAACAT-CA
66 AAGAAATTACAACGCTATTAAAACATCCA
69008 ATCTTTGAATGTAACAACTTGGATAAGTTAAA
1 ATCTTTGAATGTAACAACTTGGATAAGTTAAA
69040 CTCTATAAAA
Statistics
Matches: 102, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
90 3 0.03
91 48 0.47
92 3 0.03
93 47 0.46
94 1 0.01
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (94 bp):
ATCTTTGAATGTAACAACTTGGATAAGTTAAATTCTTTAGTTCGCAAAAATCAAAGTGATTTGTT
AAGAAATTACAACGCTATTAAAACATCCA
Found at i:69768 original size:57 final size:57
Alignment explanation
Indices: 69660--69783 Score: 144
Period size: 57 Copynumber: 2.2 Consensus size: 57
69650 AGTTTATAAT
69660 GCTATTCAAACTACAATCCTTGAATGTAACAACTTGAAAATAGTTCAACATTACAAC
1 GCTATTCAAACTACAATCCTTGAATGTAACAACTTGAAAATAGTTCAACATTACAAC
* * * * * * * *
69717 GTTATTCAAACTACCATCTTTGAATGTGAA-AATTTGGATATA-TTTAGACATTACAAT
1 GCTATTCAAACTACAATCCTTGAATGT-AACAACTTGAAAATAGTTCA-ACATTACAAC
69774 GCTATTCAAA
1 GCTATTCAAA
69784 TCTCCACTTT
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
56 3 0.05
57 51 0.91
58 2 0.04
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.33
Consensus pattern (57 bp):
GCTATTCAAACTACAATCCTTGAATGTAACAACTTGAAAATAGTTCAACATTACAAC
Done.