Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001051.1 Hibiscus syriacus cultivar Beakdansim tig00002081_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: 104372
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:5542 original size:109 final size:110
Alignment explanation
Indices: 5352--5553 Score: 273
Period size: 109 Copynumber: 1.8 Consensus size: 110
5342 AATTCTGATG
** * ***
5352 ATAACAAAATAGGTTAATTGTTTTATTTGTTATCAAATTTTATCAACATATTAGGTAGTTCATAA
1 ATAACAAAATAGGTTAATTGACTTATTTGTTATCAAATATTATCAACATATTAGGTAACGCATAA
*
5417 AATATTACCAAAGTTTAAGATGATGGGGGACTTAGAAATTCGAAA
66 AATACTACCAAAGTTTAAGATGATGGGGGACTTAGAAATTCGAAA
* * *
5462 ATAACAAAATAGGTTAATT-ACTTATTTAGTTAT-TAATATTATTAACATATTAGGTAACGCCTA
1 ATAACAAAATAGGTTAATTGACTTATTT-GTTATCAAATATTATCAACATATTAGGTAACGCATA
* *
5525 AAATGCTACCAAAGTTTAAGCTGATGGGG
65 AAATACTACCAAAGTTTAAGATGATGGGG
5554 CCTTCGAATA
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
109 55 0.70
110 24 0.30
ACGTcount: A:0.40, C:0.09, G:0.15, T:0.36
Consensus pattern (110 bp):
ATAACAAAATAGGTTAATTGACTTATTTGTTATCAAATATTATCAACATATTAGGTAACGCATAA
AATACTACCAAAGTTTAAGATGATGGGGGACTTAGAAATTCGAAA
Found at i:6247 original size:23 final size:23
Alignment explanation
Indices: 6218--6268 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
6208 ATAGTACACT
* *
6218 TATTTAACGTAATAGGTAGCGCC
1 TATTTAACATAATAGGTAGCGCA
* *
6241 TATTTAACATAATTGGTAGTGCA
1 TATTTAACATAATAGGTAGCGCA
6264 TATTT
1 TATTT
6269 TATTTTACTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.39
Consensus pattern (23 bp):
TATTTAACATAATAGGTAGCGCA
Found at i:6355 original size:72 final size:74
Alignment explanation
Indices: 6264--6616 Score: 453
Period size: 72 Copynumber: 4.8 Consensus size: 74
6254 TGGTAGTGCA
* * * * *
6264 TATTTTATTTTACTGTTTACATTATTATTAACCTTTAAACAAATCGGTAGCTAGTTTAACGTAAT
1 TATTTTATTTTACTATTTACATTATTAATAACCTTTAAACAAACCGGTAGGTAGTTTAACGTAAA
6329 AGGTAG-T-
66 AGGTAGCTC
* * * * *
6336 TATTTTATTTTACTATTTACATTATTATTAACCTTTAAACAAACTGATAGTTAGTTTAACGTAAC
1 TATTTTATTTTACTATTTACATTATTAATAACCTTTAAACAAACCGGTAGGTAGTTTAACGTAAA
6401 AGGTAGC-C
66 AGGTAGCTC
* * * * *
6409 TATTTTATTTTACCATTTACATTATTAGTAACTTTTAAACAAATCGGTAGGTAATTTAACGTAAA
1 TATTTTATTTTACTATTTACATTATTAATAACCTTTAAACAAACCGGTAGGTAGTTTAACGTAAA
*
6474 AGGTAGTGTC
66 AGGTAG-CTC
* *
6484 TATTTTATTTTACTATTTACATTATTAATAACCATTAAACAAACCGGTA-GTATTTTAACGTAAA
1 TATTTTATTTTACTATTTACATTATTAATAACCTTTAAACAAACCGGTAGGTAGTTTAACGTAAA
*
6548 ATGTAGCTCC
66 AGGTAGCT-C
** * *
6558 TATTTTATTTTACCGTTTACATTATTAATAAACTTCAAACAAACCGGTAGGTAGTTTAA
1 TATTTTATTTTACTATTTACATTATTAATAACCTTTAAACAAACCGGTAGGTAGTTTAA
6617 TATAATAAGT
Statistics
Matches: 245, Mismatches: 30, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
72 65 0.27
73 63 0.26
74 64 0.26
75 53 0.22
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.42
Consensus pattern (74 bp):
TATTTTATTTTACTATTTACATTATTAATAACCTTTAAACAAACCGGTAGGTAGTTTAACGTAAA
AGGTAGCTC
Found at i:6446 original size:145 final size:146
Alignment explanation
Indices: 6264--6616 Score: 487
Period size: 145 Copynumber: 2.4 Consensus size: 146
6254 TGGTAGTGCA
* * * *
6264 TATTTTATTTTACTGTTTACATTATTATTAACCTTTAAACAAATCGGTAGCTAGTTTAACGTAAT
1 TATTTTATTTTACCGTTTACATTATTAATAA-CTTTAAACAAATCGGTAGGTAGTTTAACGTAAA
* * *
6329 AGGTA-GT-TATTTTATTTTACTATTTACATTATTATTAACCTTTAAACAAACTGATAGTTAGTT
65 AGGTAGGTCTATTTTATTTTACTATTTACATTATTAATAACCATTAAACAAACCGATAG-TAGTT
*
6392 TAACGTAACAGGTAG-CC
129 TAACGTAAAAGGTAGCCC
* * *
6409 TATTTTATTTTACCATTTACATTATTAGTAACTTTTAAACAAATCGGTAGGTAATTTAACGTAAA
1 TATTTTATTTTACCGTTTACATTATTAATAAC-TTTAAACAAATCGGTAGGTAGTTTAACGTAAA
* *
6474 AGGTAGTGTCTATTTTATTTTACTATTTACATTATTAATAACCATTAAACAAACCGGTAGTATTT
65 AGGTAG-GTCTATTTTATTTTACTATTTACATTATTAATAACCATTAAACAAACCGATAGTAGTT
*
6539 TAACGTAAAATGTAGCTCC
129 TAACGTAAAAGGTAGC-CC
* *
6558 TATTTTATTTTACCGTTTACATTATTAATAAACTTCAAACAAACCGGTAGGTAGTTTAA
1 TATTTTATTTTACCGTTTACATTATTAAT-AACTTTAAACAAATCGGTAGGTAGTTTAA
6617 TATAATAAGT
Statistics
Matches: 183, Mismatches: 18, Indels: 10
0.87 0.09 0.05
Matches are distributed among these distances:
144 1 0.01
145 62 0.34
147 19 0.10
148 46 0.25
149 52 0.28
150 3 0.02
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.42
Consensus pattern (146 bp):
TATTTTATTTTACCGTTTACATTATTAATAACTTTAAACAAATCGGTAGGTAGTTTAACGTAAAA
GGTAGGTCTATTTTATTTTACTATTTACATTATTAATAACCATTAAACAAACCGATAGTAGTTTA
ACGTAAAAGGTAGCCC
Found at i:6636 original size:149 final size:146
Alignment explanation
Indices: 6264--6644 Score: 482
Period size: 149 Copynumber: 2.6 Consensus size: 146
6254 TGGTAGTGCA
* * * *
6264 TATTTTATTTTACTGTTTACATTATTATTAACCTTTAAACAAATCGGTAGCTAGTTTAACGTAAT
1 TATTTTATTTTACCGTTTACATTATTAATAAACTTTAAACAAATCGGTAGGTAGTTTAACGTAAT
* * * * *
6329 AGGTA-GTTATTTTATTTTACTATTTACATTATTATTAACCTTTAAACAAACTGATAGTTAGTTT
66 AAGTATGCTATTTTATTTTACTATTTACATTATTAATAACCATTAAACAAACCGATAGTTAGTTT
*
6393 AACGTAACAGGTAGCC
131 AACGTAAAAGGTAGCC
* * *
6409 TATTTTATTTTACCATTTACATTATTAGT-AACTTTTAAACAAATCGGTAGGTAATTTAACGTAA
1 TATTTTATTTTACCGTTTACATTATTAATAAAC-TTTAAACAAATCGGTAGGTAGTTTAACGTAA
*
6473 -AAGGTAGTGTCTATTTTATTTTACTATTTACATTATTAATAACCATTAAACAAACCGGTAG-TA
65 TAA-GTA-TG-CTATTTTATTTTACTATTTACATTATTAATAACCATTAAACAAACCGATAGTTA
* *
6536 TTTTAACGTAAAATGTAGCTCC
127 GTTTAACGTAAAAGGTAG--CC
* * **
6558 TATTTTATTTTACCGTTTACATTATTAATAAACTTCAAACAAACCGGTAGGTAGTTTAATATAAT
1 TATTTTATTTTACCGTTTACATTATTAATAAACTTTAAACAAATCGGTAGGTAGTTTAACGTAAT
6623 AAGTATCGCCTATTTTATTTTA
66 AAGTAT-G-CTATTTTATTTTA
6645 ATCGGTTAAA
Statistics
Matches: 203, Mismatches: 23, Indels: 16
0.84 0.10 0.07
Matches are distributed among these distances:
144 3 0.01
145 58 0.29
147 18 0.09
148 47 0.23
149 72 0.35
150 5 0.02
ACGTcount: A:0.34, C:0.13, G:0.10, T:0.43
Consensus pattern (146 bp):
TATTTTATTTTACCGTTTACATTATTAATAAACTTTAAACAAATCGGTAGGTAGTTTAACGTAAT
AAGTATGCTATTTTATTTTACTATTTACATTATTAATAACCATTAAACAAACCGATAGTTAGTTT
AACGTAAAAGGTAGCC
Found at i:7839 original size:21 final size:20
Alignment explanation
Indices: 7792--7846 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
7782 TGCATGCTGA
*
7792 AGATGCATGCTGGTACGTTG
1 AGATGCATGCTGGTACATTG
7812 AGATGCATGCTGGTACATTG
1 AGATGCATGCTGGTACATTG
*
7832 AGGATGCATGATGGT
1 A-GATGCATGCTGGT
7847 GCGCTCGTGC
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 20 0.62
21 12 0.38
ACGTcount: A:0.24, C:0.13, G:0.35, T:0.29
Consensus pattern (20 bp):
AGATGCATGCTGGTACATTG
Found at i:8990 original size:290 final size:288
Alignment explanation
Indices: 8470--9048 Score: 1007
Period size: 290 Copynumber: 2.0 Consensus size: 288
8460 GCTTCCACAG
*
8470 TTCGTTGGTGCTAAAACGTCTACCCAGGTATGGAACAAGGTCTTGCAGTTCTTTGCTAATCGCTC
1 TTCGTTGGTGCTAAAACGTCTACCCAGGTATGGAACAAGGTCTTGCAGTTCTTTGCTAATCACTC
*
8535 TGCCACTGCCATTATGAGCTTGCATTACAAGCTCCAATCCCTCAAGAAAGGAGAAGATAGCATGA
66 TGCCACTGCCATTATGAGCTTGCATTACAAGCTCCAATCACTCAAGAAAGGAGAAGATAGCATGA
8600 GAACTTATCTCACAAAAGTAAAAGAGATTAGTGATGCACTGAATTCTTGTGGAAGTCCAGTATCA
131 GAACTTATCTCACAAAAGTAAAAGAGATTAGTGATGCACTGAATTCTTGTGGAAGTCCAGTATCA
*
8665 GTAGCTGAGCATGTGGCAAGTATTCTCAAAGGCCTTACAAGGGAATATCAACCATTCATAGCAGT
196 GTAGCTGAGCATGTGGCAAGTATTCTAAAAGGCCTTACAAGGGAATATCAACCATTCATAGCAGT
*
8730 TATATCTGCCATGCGTGACTCACTGTCACT
261 TATA--TGCCATGCGTGACACACTGTCACT
* * *
8760 TTCGTTGGTGCTGAAATGTC-AGCCCAGGTATGGAACAAGGTCTTGCATTTCTTTGCTAATCACT
1 TTCGTTGGTGCTAAAACGTCTA-CCCAGGTATGGAACAAGGTCTTGCAGTTCTTTGCTAATCACT
* * *
8824 CTGCCATTGCCATTATGAGCTTGCATTACAAGCTCCAATCACTCAAGAAATGAGGAGATAGCATG
65 CTGCCACTGCCATTATGAGCTTGCATTACAAGCTCCAATCACTCAAGAAAGGAGAAGATAGCATG
*
8889 AGAACTTATCTCACAAAAGTAAAAGAGATTATTGATGCACTGAATTCTTGTGGAAGTCCAGTATC
130 AGAACTTATCTCACAAAAGTAAAAGAGATTAGTGATGCACTGAATTCTTGTGGAAGTCCAGTATC
* *
8954 AGTAGTTGAGCATGTGGCAAGTATTCTAAAAGGCCTTACAAGGGAATATCAACCCTTCATAGCAG
195 AGTAGCTGAGCATGTGGCAAGTATTCTAAAAGGCCTTACAAGGGAATATCAACCATTCATAGCAG
9019 TTATATGCCATGCGTGACACACTGTCACT
260 TTATATGCCATGCGTGACACACTGTCACT
9048 T
1 T
9049 GATAACATAT
Statistics
Matches: 275, Mismatches: 13, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
288 24 0.09
289 1 0.00
290 250 0.91
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (288 bp):
TTCGTTGGTGCTAAAACGTCTACCCAGGTATGGAACAAGGTCTTGCAGTTCTTTGCTAATCACTC
TGCCACTGCCATTATGAGCTTGCATTACAAGCTCCAATCACTCAAGAAAGGAGAAGATAGCATGA
GAACTTATCTCACAAAAGTAAAAGAGATTAGTGATGCACTGAATTCTTGTGGAAGTCCAGTATCA
GTAGCTGAGCATGTGGCAAGTATTCTAAAAGGCCTTACAAGGGAATATCAACCATTCATAGCAGT
TATATGCCATGCGTGACACACTGTCACT
Found at i:12530 original size:21 final size:21
Alignment explanation
Indices: 12500--12542 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
12490 GTTGGAGTAT
*
12500 GTTGAAGATGCATGTTGGTAC
1 GTTGAAGATGCATGCTGGTAC
*
12521 GTTGAGGATGCATGCTGGTAC
1 GTTGAAGATGCATGCTGGTAC
12542 G
1 G
12543 CTCGTGCATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.21, C:0.12, G:0.37, T:0.30
Consensus pattern (21 bp):
GTTGAAGATGCATGCTGGTAC
Found at i:14696 original size:18 final size:18
Alignment explanation
Indices: 14643--14696 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
14633 TGCCGCCACT
14643 ACATGCAACACCGACACC
1 ACATGCAACACCGACACC
* * *
14661 ACAT-CCACGTCCGCCACC
1 ACATGCAAC-ACCGACACC
*
14679 ACATGCAACACCGTCACC
1 ACATGCAACACCGACACC
14697 TCCGTTATAT
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
17 3 0.11
18 22 0.79
19 3 0.11
ACGTcount: A:0.31, C:0.48, G:0.11, T:0.09
Consensus pattern (18 bp):
ACATGCAACACCGACACC
Found at i:17170 original size:2 final size:2
Alignment explanation
Indices: 17163--17205 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
17153 AAGATTATGA
17163 AT AT AT AT 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 AT AT AT AT
17205 A
1 A
17206 GGTAAAATGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:18333 original size:2 final size:2
Alignment explanation
Indices: 18326--18369 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
18316 TTTTAACATC
18326 AT AT AT AT 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 AT AT AT AT
18368 AT
1 AT
18370 TGTTTTTTAC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22456 original size:95 final size:95
Alignment explanation
Indices: 22345--22593 Score: 342
Period size: 95 Copynumber: 2.7 Consensus size: 95
22335 AAATTATAAT
22345 ATTATATATATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCC-GACTTT
1 ATTATA-ATATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCAG-CTTT
22409 ATGGATAAGATTCAGCTAGCCTGATAAAGGTG
64 ATGGATAAGATTCAGCTAGCCTGATAAAGGTG
* * *
22441 ATTATAATATACAATAAAGCTTGAGTTGTCCTTCTAGAGCAATTGGTTAAACGCCTCAGCTTTAT
1 ATTATAATATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCAGCTTTAT
*
22506 GGATAATATTCAGCTAGCCTGATAAAGGTG
66 GGATAAGATTCAGCTAGCCTGATAAAGGTG
* *
22536 --T-T--TAT--AAT--A--TTGAGTTGTCCCTCTAGAGCAATTGGTTAAACACCCCAGCTTTAT
1 ATTATAATATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCAGCTTTAT
22590 GGAT
66 GGAT
22594 CCAACTAGCC
Statistics
Matches: 145, Mismatches: 7, Indels: 14
0.87 0.04 0.08
Matches are distributed among these distances:
84 46 0.32
86 1 0.01
88 3 0.02
90 3 0.02
92 1 0.01
93 1 0.01
95 83 0.57
96 7 0.05
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (95 bp):
ATTATAATATACAATAAAGCTTGAGTTGTCCCTCTAAAGCAATTGGTTAAACGCCCCAGCTTTAT
GGATAAGATTCAGCTAGCCTGATAAAGGTG
Found at i:23513 original size:80 final size:80
Alignment explanation
Indices: 23312--24962 Score: 2282
Period size: 80 Copynumber: 20.4 Consensus size: 80
23302 ACCTCCAACA
* *
23312 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAACATAGCTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
* * *
23377 GAAGAGCTATTTGCCAAC
66 GAAGGGTTATCTG-C--C
* * * * *
23395 AAAAAACCTTTGAGTTCGATTACACTCATCTCAAAGGCACATCATTTGCAGTATAACTCAAGGCA
1 -AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCA
*
23460 AGAAGGGTTATCTTCC
65 AGAAGGGTTATCTGCC
*
23476 AAAGACCTTCGAGTTCGATTACACTCACCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
*
23541 GAATGGTTATCTGCC
66 GAAGGGTTATCTGCC
* *
23556 AAAGACCTTCAAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
* **
23621 GAATGACTATCTGCC
66 GAAGGGTTATCTGCC
* * * * *
23636 AAAGACCTTTGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAACATAGCTAAAGGTAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
* *
23701 GAAGGGCTATTTGCCAAC
66 GAAGGGTTATCTG-C--C
* * * *
23719 AAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCATTTACAGTATAGCTCGAGGCA
1 -AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCA
23784 AGAA-GGTATATCTGCC
65 AGAAGGGT-TATCTGCC
* * *
23800 AAAGACCTTCGAGTTCGATTACACTCAGCGCAAAGGTACATCATTTGTAGCATAGCTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
23865 GAAGGGTTATCTGCC
66 GAAGGGTTATCTGCC
*
23880 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCGTTTGCAGCATAGCTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
*
23945 GAAGGGCTATCTGCC
66 GAAGGGTTATCTGCC
* *
23960 AAAGACCTTCGAATTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
* * *
24025 GATGGGCTATATGCC
66 GAAGGGTTATCTGCC
* * * *
24040 AAAGACATTCGAGTTTGATTACACTCATCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGAAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
* * * *
24105 GAAAGGATATATACC
66 GAAGGGTTATCTGCC
* * *
24120 AAAGACCTTCGAGTTCGATTACACGT-AGCTTAAAGGCACATCATTTGCAGCATAACTCAAGGAA
1 AAAGACCTTCGAGTTCGATTACAC-TCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCA
* *
24184 AGAAAGGTTATCTACC
65 AGAAGGGTTATCTGCC
* * **
24200 AAAGACCTTCGAGTTTGATTATACTCAGCTCAAAGGCACATCATTTGCAATATAGCTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
*
24265 GAAGGGTTATTTGCCAAC
66 GAAGGGTTATCTG-C--C
* *
24283 AAAGGAACTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAGCTCAAGGCA
1 AAA-GACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCA
* **
24348 AGAAGGGATATCTATC
65 AGAAGGGTTATCTGCC
* * *
24364 AAATACCTTCAAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCGTAGCTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
* *
24429 GAAGGGCTATCTACC
66 GAAGGGTTATCTGCC
* * *
24444 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAACAAAGCTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
* *
24509 GAAGGGTTATTTTCCAAC
66 GAAGGGTTA-TCTGC--C
*
24527 AAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAACATAGCTCAAGGCA
1 -AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCA
* *
24592 AGAAGAGCTATCTGCC
65 AGAAGGGTTATCTGCC
* *
24608 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGACACATCATTTGCAACATAGCTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
24673 GAAGGGTTATCTGCC
66 GAAGGGTTATCTGCC
*
24688 AAAGACCTTCGAGTTCGATTACACTCAACTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
*
24753 GAAGGGCTATCTGCC
66 GAAGGGTTATCTGCC
* * *
24768 AAAGA-CTGTCGAGTTTGATTACACTCAGCTCAAAGGCACATCATTTGTAGCATAGCTCAAGGTA
1 AAAGACCT-TCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCA
24832 AGAAGGGTTATCTGCCAAC
65 AGAAGGGTTATCTG-C--C
* *
24851 AAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCGCATCATTTGCAGCATAACTCAAGGCA
1 -AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCA
*
24916 AGAAGGGTTATCTGCT
65 AGAAGGGTTATCTGCC
* * *
24932 AAACACCTTCGAGTTCGATTCCATTCAGCTC
1 AAAGACCTTCGAGTTCGATTACACTCAGCTC
24963 GATGACACAT
Statistics
Matches: 1406, Mismatches: 139, Indels: 48
0.88 0.09 0.03
Matches are distributed among these distances:
79 3 0.00
80 1030 0.73
81 17 0.01
83 15 0.01
84 339 0.24
85 2 0.00
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (80 bp):
AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
GAAGGGTTATCTGCC
Found at i:24974 original size:244 final size:240
Alignment explanation
Indices: 23312--24962 Score: 2291
Period size: 244 Copynumber: 6.8 Consensus size: 240
23302 ACCTCCAACA
* *
23312 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAACATAGCTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
* * * * *
23377 GAAGAGCTATTTGCCAACAAAAAACCTTTGAGTTCGATTACACTCATCTCAAAGGCACATCATTT
66 GAAGGGCTATCTG-C--C-AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTT
* * * *
23442 GCAGTATAACTCAAGGCAAGAAGGGTTATCTTCCAAAGACCTTCGAGTTCGATTACACTCACCTC
127 GCAGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTC
*
23507 AAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAATGGTTATCTGCC
192 AAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATCTGCC
* *
23556 AAAGACCTTCAAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
* * * * *
23621 GAATGACTATCTGCCAAAGACCTTTGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAA
66 GAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAG
* * * *
23686 CATAGCTAAAGGTAAGAAGGGCTATTTGCCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTC
131 CATAGCTCAAGGCAAGAAGGGTTATCTG-C--C-AAAGACCTTCGAGTTCGATTACACTCAGCTC
* * * *
23751 AAAGGCATATCATTTACAGTATAGCTCGAGGCAAGAA-GGTATATCTGCC
192 AAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGT-TATCTGCC
* * *
23800 AAAGACCTTCGAGTTCGATTACACTCAGCGCAAAGGTACATCATTTGTAGCATAGCTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
* *
23865 GAAGGGTTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCGTTTGCAG
66 GAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAG
* *
23930 CATAGCTCAAGGCAAGAAGGGCTATCTGCCAAAGACCTTCGAATTCGATTACACTCAGCTCAAAG
131 CATAGCTCAAGGCAAGAAGGGTTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAG
* * * *
23995 GCACATCATTTGCAGCATAACTCAAGGCAAGATGGGCTATATGCC
196 GCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATCTGCC
* * * *
24040 AAAGACATTCGAGTTTGATTACACTCATCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGAAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
* * * * *
24105 GAAAGGATATATACCAAAGACCTTCGAGTTCGATTACACGT-AGCTTAAAGGCACATCATTTGCA
66 GAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACAC-TCAGCTCAAAGGCACATCATTTGCA
* * * * * *
24169 GCATAACTCAAGGAAAGAAAGGTTATCTACCAAAGACCTTCGAGTTTGATTATACTCAGCTCAAA
130 GCATAGCTCAAGGCAAGAAGGGTTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAA
** *
24234 GGCACATCATTTGCAATATAGCTCAAGGCAAGAAGGGTTATTTGCCAAC
195 GGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATCTG-C--C
* *
24283 AAAGGAACTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAGCTCAAGGCA
1 AAA-GACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCA
* ** * *
24348 AGAAGGGATATCTATCAAATACCTTCAAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCA
65 AGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCA
* * *
24413 GCGTAGCTCAAGGCAAGAAGGGCTATCTACCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAA
130 GCATAGCTCAAGGCAAGAAGGGTTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAA
* * * * *
24478 GGCACATCATTTACAACAAAGCTCAAGGCAAGAAGGGTTATTTTCCAAC
195 GGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGTTA-TCTGC--C
*
24527 AAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAACATAGCTCAAGGCA
1 -AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCA
* *
24592 AGAAGAGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGACACATCATTTGCA
65 AGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCA
* *
24657 ACATAGCTCAAGGCAAGAAGGGTTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAACTCAAA
130 GCATAGCTCAAGGCAAGAAGGGTTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAA
*
24722 GGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCC
195 GGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATCTGCC
* * *
24768 AAAGA-CTGTCGAGTTTGATTACACTCAGCTCAAAGGCACATCATTTGTAGCATAGCTCAAGGTA
1 AAAGACCT-TCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCA
* *
24832 AGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCGCATCATT
65 AGAAGGGCTATCTG-C--C-AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATT
* * * * *
24897 TGCAGCATAACTCAAGGCAAGAAGGGTTATCTGCTAAACACCTTCGAGTTCGATTCCATTCAGCT
126 TGCAGCATAGCTCAAGGCAAGAAGGGTTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCT
24962 C
191 C
24963 GATGACACAT
Statistics
Matches: 1254, Mismatches: 134, Indels: 38
0.88 0.09 0.03
Matches are distributed among these distances:
239 2 0.00
240 413 0.33
241 9 0.01
243 15 0.01
244 809 0.65
245 6 0.00
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (240 bp):
AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAA
GAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAG
CATAGCTCAAGGCAAGAAGGGTTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAG
GCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATCTGCC
Found at i:24974 original size:324 final size:321
Alignment explanation
Indices: 23312--24962 Score: 2331
Period size: 324 Copynumber: 5.1 Consensus size: 321
23302 ACCTCCAACA
23312 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAACATAGCTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAACATAGCTCAAGGCAA
* * * * *
23377 GAAGAGCTATTTGCCAACAAAAAACCTTTGAGTTCGATTACACTCATCTCAAAGGCACATCATTT
66 GAAGGGCTATCTG-C--C-AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTT
* * * * *
23442 GCAGTATAACTCAAGGCAAGAAGGGTTATCTTCCAAAGACCTTCGAGTTCGATTACACTCACCTC
127 GCAGCATAGCTCAAGGCAAGAAGGGATATCTACCAAAGACCTTCGAGTTCGATTACACTCAGCTC
* *
23507 AAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAATGGTTATCTGC-CAAAGACCTTCAAGTT
192 AAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATCTGCACAAAGACCTTCGAGTT
* * *
23571 CGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCAAGAATGACTATCTGCC
257 CGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCC
* * *
23636 AAAGACCTTTGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAACATAGCTAAAGGTAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAACATAGCTCAAGGCAA
* *
23701 GAAGGGCTATTTGCCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCATATCATTT
66 GAAGGGCTATCTG-C--C-AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTT
* * * * * *
23766 ACAGTATAGCTCGAGGCAAGAAGGTATATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCGC
127 GCAGCATAGCTCAAGGCAAGAAGGGATATCTACCAAAGACCTTCGAGTTCGATTACACTCAGCTC
* *
23831 AAAGGTACATCATTTGTAGCATAGCTCAAGGCAAGAAGGGTTATCTGC-CAAAGACCTTCGAGTT
192 AAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATCTGCACAAAGACCTTCGAGTT
*
23895 CGATTACACTCAGCTCAAAGGCACATCGTTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCC
257 CGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCC
* * * *
23960 AAAGACCTTCGAATTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAACTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAACATAGCTCAAGGCAA
* * * * *
24025 GATGGGCTATATGCCAAAGACATTCGAGTTTGATTACACTCATCTCAAAGGCACATCATTTGCAG
66 GAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAG
* * * *
24090 CATAGCTCAAGGAAAGAAAGGATATATACCAAAGACCTTCGAGTTCGATTACACGT-AGCTTAAA
131 CATAGCTCAAGGCAAGAAGGGATATCTACCAAAGACCTTCGAGTTCGATTACAC-TCAGCTCAAA
* * * * *
24154 GGCACATCATTTGCAGCATAACTCAAGGAAAGAAAGGTTATCTAC-CAAAGACCTTCGAGTTTGA
195 GGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATCTGCACAAAGACCTTCGAGTTCGA
* ** * *
24218 TTATACTCAGCTCAAAGGCACATCATTTGCAATATAGCTCAAGGCAAGAAGGGTTATTTGCCAAC
260 TTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTG-C--C
* *
24283 AAAGGAACTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAGCATAGCTCAAGGCA
1 AAA-GACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAACATAGCTCAAGGCA
* ** * *
24348 AGAAGGGATATCTATCAAATACCTTCAAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCA
65 AGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCA
* *
24413 GCGTAGCTCAAGGCAAGAAGGGCTATCTACCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAA
130 GCATAGCTCAAGGCAAGAAGGGATATCTACCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAA
* * * * *
24478 GGCACATCATTTACAACAAAGCTCAAGGCAAGAAGGGTTATTTTCCAACAAAAGACCTTCGAGTT
195 GGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGTTA-TCTGC-AC-AAAGACCTTCGAGTT
* *
24543 CGATTACACTCAGCTCAAAGGCACATCATTTGCAACATAGCTCAAGGCAAGAAGAGCTATCTGCC
257 CGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCC
* *
24608 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGACACATCATTTGCAACATAGCTCAAGGCAA
1 AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAACATAGCTCAAGGCAA
* *
24673 GAAGGGTTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAACTCAAAGGCACATCATTTGCAG
66 GAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAG
* * *
24738 CATAGCTCAAGGCAAGAAGGGCTATCTGCCAAAGA-CTGTCGAGTTTGATTACACTCAGCTCAAA
131 CATAGCTCAAGGCAAGAAGGGATATCTACCAAAGACCT-TCGAGTTCGATTACACTCAGCTCAAA
* *
24802 GGCACATCATTTGTAGCATAGCTCAAGGTAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTT
195 GGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATCTG-C-AC-AAAGACCTTCGAGTT
* * * *
24867 CGATTACACTCAGCTCAAAGGCGCATCATTTGCAGCATAACTCAAGGCAAGAAGGGTTATCTGCT
257 CGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCC
* * *
24932 AAACACCTTCGAGTTCGATTCCATTCAGCTC
1 AAAGACCTTCGAGTTCGATTACACTCAGCTC
24963 GATGACACAT
Statistics
Matches: 1192, Mismatches: 123, Indels: 24
0.89 0.09 0.02
Matches are distributed among these distances:
320 209 0.18
321 3 0.00
323 10 0.01
324 889 0.75
325 7 0.01
327 2 0.00
328 72 0.06
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (321 bp):
AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTACAACATAGCTCAAGGCAA
GAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAG
CATAGCTCAAGGCAAGAAGGGATATCTACCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAG
GCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGTTATCTGCACAAAGACCTTCGAGTTCGAT
TACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGCC
Found at i:26474 original size:29 final size:30
Alignment explanation
Indices: 26396--26477 Score: 80
Period size: 30 Copynumber: 2.8 Consensus size: 30
26386 TTAATTCTAG
* *
26396 TTTAGACCCTTAA-ATTTCTATTTTTGATAT
1 TTTAGTCCTTTAACATTT-TATTTTTGATAT
* * *
26426 TTTAGTTCTTTAACCTTTTATTTTTGCTAT
1 TTTAGTCCTTTAACATTTTATTTTTGATAT
26456 TTGT-GTCCTTT-ACATTTTATTT
1 TT-TAGTCCTTTAACATTTTATTT
26478 GTTTATTTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
29 10 0.23
30 29 0.67
31 4 0.09
ACGTcount: A:0.20, C:0.13, G:0.07, T:0.60
Consensus pattern (30 bp):
TTTAGTCCTTTAACATTTTATTTTTGATAT
Found at i:27317 original size:21 final size:22
Alignment explanation
Indices: 27292--27332 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
27282 TTTTATACTT
27292 AATTTTA-TATATTTATTTACG
1 AATTTTATTATATTTATTTACG
*
27313 AATTTTATTATTTTTATTTA
1 AATTTTATTATATTTATTTA
27333 AAGTTAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.63
Consensus pattern (22 bp):
AATTTTATTATATTTATTTACG
Found at i:30895 original size:16 final size:17
Alignment explanation
Indices: 30874--30911 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
30864 GTCGTTTTAG
30874 TTAAAAAAAATATT-TT
1 TTAAAAAAAATATTGTT
* *
30890 TTAAAAACAATGTTGTT
1 TTAAAAAAAATATTGTT
30907 TTAAA
1 TTAAA
30912 TGTCGTTAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 12 0.63
17 7 0.37
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (17 bp):
TTAAAAAAAATATTGTT
Found at i:31333 original size:20 final size:19
Alignment explanation
Indices: 31284--31335 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 19
31274 TTTTTATTTA
* *
31284 TAATATCATATTTTAAATTT
1 TAATATCTTA-TTTAAAATT
*
31304 TAA-ATATTATTTAATAATT
1 TAATATCTTATTTAA-AATT
31323 TAATATCTTATTT
1 TAATATCTTATTT
31336 TATTAAATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
18 5 0.19
19 10 0.38
20 11 0.42
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (19 bp):
TAATATCTTATTTAAAATT
Found at i:39457 original size:40 final size:40
Alignment explanation
Indices: 39402--39482 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
39392 CGCTTTTAAA
39402 ATGACTAGAAACCACTTGTAGTTGGTTCTAATTTGAATGG
1 ATGACTAGAAACCACTTGTAGTTGGTTCTAATTTGAATGG
39442 ATGACTAGAAACCACTTGTAGTTGGTTCTAATTTGAATGG
1 ATGACTAGAAACCACTTGTAGTTGGTTCTAATTTGAATGG
39482 A
1 A
39483 GGGGGTGTTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.31, C:0.12, G:0.22, T:0.35
Consensus pattern (40 bp):
ATGACTAGAAACCACTTGTAGTTGGTTCTAATTTGAATGG
Found at i:42117 original size:26 final size:26
Alignment explanation
Indices: 42088--42139 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
42078 AACTAATAAG
42088 TTTAACTA-TAAAGATATACTGAAACT
1 TTTAA-TATTAAAGATATACTGAAACT
*
42114 TTTAATATTAAAGGTATACTGAAACT
1 TTTAATATTAAAGATATACTGAAACT
42140 CGATCTCGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 2 0.08
26 22 0.92
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.37
Consensus pattern (26 bp):
TTTAATATTAAAGATATACTGAAACT
Found at i:42491 original size:15 final size:15
Alignment explanation
Indices: 42470--42521 Score: 77
Period size: 15 Copynumber: 3.5 Consensus size: 15
42460 TGAGACATTA
42470 CCCGCCCCGCATCTG
1 CCCGCCCCGCATCTG
* *
42485 ACCGCCCCGCATCCG
1 CCCGCCCCGCATCTG
*
42500 CCCGTCCCGCATCTG
1 CCCGCCCCGCATCTG
42515 CCCGCCC
1 CCCGCCC
42522 AGCTAAATAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
15 31 1.00
ACGTcount: A:0.08, C:0.62, G:0.19, T:0.12
Consensus pattern (15 bp):
CCCGCCCCGCATCTG
Found at i:46978 original size:74 final size:73
Alignment explanation
Indices: 46888--47144 Score: 392
Period size: 74 Copynumber: 3.5 Consensus size: 73
46878 TAACCTAATT
46888 TGAGCATTATCATTATCAAAATTGAGCATTATCAAGAAATGACAATTTTGATAATATTTACAATG
1 TGAGCATTATCATTATCAAAATTGAGCATTATCAAGAAATGACAATTTTGA-AATATTTACAATG
46953 CTAGTTGAA
65 CTAGTTGAA
* * * *
46962 TGAGCATTATCATTATCAAAATTGAGTATTTTCAAGAAATGGCAATTTTGAACATATTTAAAATG
1 TGAGCATTATCATTATCAAAATTGAGCATTATCAAGAAATGACAATTTTGAA-ATATTTACAATG
47027 CTAGTTGAA
65 CTAGTTGAA
* *
47036 TGAGCATTATCATTATCAAAATTGAGCATTGTCAAGAAATGACAATTTTGAGCATATTTACAATG
1 TGAGCATTATCATTATCAAAATTGAGCATTATCAAGAAATGACAATTTTGA-AATATTTACAATG
47101 CTAGTTGAA
65 CTAGTTGAA
*
47110 TGAGCATTATCTAATACTC--AATTGAGCATTATCAA
1 TGAGCATTATC-ATTA-TCAAAATTGAGCATTATCAA
47145 CACTATCGTC
Statistics
Matches: 168, Mismatches: 11, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
73 1 0.01
74 162 0.96
75 3 0.02
76 2 0.01
ACGTcount: A:0.39, C:0.12, G:0.14, T:0.35
Consensus pattern (73 bp):
TGAGCATTATCATTATCAAAATTGAGCATTATCAAGAAATGACAATTTTGAAATATTTACAATGC
TAGTTGAA
Found at i:48302 original size:13 final size:13
Alignment explanation
Indices: 48284--48321 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
48274 AATCTTAGAG
48284 ACAACTTTGAGAA
1 ACAACTTTGAGAA
*
48297 ACAACTTTGAGAG
1 ACAACTTTGAGAA
48310 ACAACTTTGAGA
1 ACAACTTTGAGA
48322 CATAATTCAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.42, C:0.16, G:0.18, T:0.24
Consensus pattern (13 bp):
ACAACTTTGAGAA
Found at i:48323 original size:11 final size:11
Alignment explanation
Indices: 48281--48323 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 11
48271 CACAATCTTA
48281 GAGACAACTTT
1 GAGACAACTTT
48292 GAGAAACAACTTT
1 GAG--ACAACTTT
48305 GAGAGACAACTTT
1 --GAGACAACTTT
48318 GAGACA
1 GAGACA
48324 TAATTCACAA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
11 9 0.32
13 16 0.57
15 3 0.11
ACGTcount: A:0.42, C:0.16, G:0.21, T:0.21
Consensus pattern (11 bp):
GAGACAACTTT
Found at i:58003 original size:18 final size:18
Alignment explanation
Indices: 57980--58014 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
57970 TTCCATCCGG
*
57980 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
57998 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
58015 GTCCTTTCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:59339 original size:18 final size:18
Alignment explanation
Indices: 59316--59356 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
59306 CAATGGTCAA
59316 CGGGTCGGATAAACGGGT
1 CGGGTCGGATAAACGGGT
*
59334 CGGGTCGGGTAAACGGGT
1 CGGGTCGGATAAACGGGT
59352 CGGGT
1 CGGGT
59357 TGTGACCGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.17, C:0.17, G:0.49, T:0.17
Consensus pattern (18 bp):
CGGGTCGGATAAACGGGT
Found at i:60337 original size:22 final size:21
Alignment explanation
Indices: 60295--60334 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
60285 GAGTTTATTT
* *
60295 TCATTTTTTTATTTTGAAACA
1 TCATTTTTATATTTTAAAACA
60316 TCATTTTTATATTTTAAAA
1 TCATTTTTATATTTTAAAA
60335 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.07, G:0.03, T:0.57
Consensus pattern (21 bp):
TCATTTTTATATTTTAAAACA
Found at i:62775 original size:3 final size:3
Alignment explanation
Indices: 62767--62799 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
62757 TTCGATTGTA
62767 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
62800 CTCGGATTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:63300 original size:13 final size:14
Alignment explanation
Indices: 63282--63310 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
63272 AAACATGTTA
63282 AATGGAAA-AAAAT
1 AATGGAAATAAAAT
63295 AATGGAAATAAAAT
1 AATGGAAATAAAAT
63309 AA
1 AA
63311 AGAAATGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.69, C:0.00, G:0.14, T:0.17
Consensus pattern (14 bp):
AATGGAAATAAAAT
Found at i:63315 original size:13 final size:14
Alignment explanation
Indices: 63286--63369 Score: 50
Period size: 14 Copynumber: 5.9 Consensus size: 14
63276 ATGTTAAATG
*
63286 GAAA-AAAATAATG
1 GAAATAAAATAATA
63299 GAAATAAAATAA-A
1 GAAATAAAATAATA
*
63312 GAAATGAAAAGAATA
1 GAAAT-AAAATAATA
* *
63327 -AGATAAAAATAAAA
1 GAAAT-AAAATAATA
63341 GTAAAATAAAATAATTA
1 G--AAATAAAATAA-TA
63358 -AAATAAAGATAA
1 GAAATAAA-ATAA
63370 AAATACATAT
Statistics
Matches: 55, Mismatches: 8, Indels: 14
0.71 0.10 0.18
Matches are distributed among these distances:
13 9 0.16
14 30 0.55
15 5 0.09
16 7 0.13
17 4 0.07
ACGTcount: A:0.71, C:0.00, G:0.11, T:0.18
Consensus pattern (14 bp):
GAAATAAAATAATA
Found at i:63543 original size:2 final size:2
Alignment explanation
Indices: 63536--63598 Score: 119
Period size: 2 Copynumber: 32.0 Consensus size: 2
63526 AAAACAATAA
63536 AT AT AT AT 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 AT AT AT AT
63578 AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
63599 GAAAGAGGGT
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 59 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:65445 original size:124 final size:124
Alignment explanation
Indices: 65225--65648 Score: 578
Period size: 124 Copynumber: 3.4 Consensus size: 124
65215 GCTCTTTTGC
* * * * * * *
65225 TGTGAAGTTGAGCTTTGAACTGAAGATCCTTCGTTGTGAAGTTGAAATCCAATCTAGAGATGGAT
1 TGTGAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAAT
* * ** * * * *
65290 GCTACTTATGGGCACAATATCTTTCGTCGTGAAGTTGAAATCGTGAATGACCCCTTCGT
66 GTTGCTGGTGGGCACGATATCATTCGTCGTGAAGTTGAAATCGTGGATGACCCATTCGT
* *
65349 TGTGAAGTTGATCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATATAAAGATGAAT
1 TGTGAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAAT
* * * *
65414 GTTGCTGGTGGGCATGATATCCTTCATCGTGAAGTTGAAATCGTGGATGGCCCATTCGT
66 GTTGCTGGTGGGCACGATATCATTCGTCGTGAAGTTGAAATCGTGGATGACCCATTCGT
65473 TGTGAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAAT
1 TGTGAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAAT
* * *
65538 GTTGCTGGTGGGAACGATATCATTCGCCGCGAAGTTGAAATCGTGGATGACCCATTCGT
66 GTTGCTGGTGGGCACGATATCATTCGTCGTGAAGTTGAAATCGTGGATGACCCATTCGT
* * ** * *
65597 TGTGAAGTTGAGCCTTGAATTGGATTTCATTTATCATGAAGTTAAAATCCAA
1 TGTGAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAA
65649 GTATTATTTC
Statistics
Matches: 265, Mismatches: 35, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
124 265 1.00
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (124 bp):
TGTGAAGTTGAGCCTTGAATTGGATATCCTTCGTCGTGAAGTTGAAATCCAATCTAAAGATGAAT
GTTGCTGGTGGGCACGATATCATTCGTCGTGAAGTTGAAATCGTGGATGACCCATTCGT
Found at i:69500 original size:12 final size:12
Alignment explanation
Indices: 69485--69516 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
69475 TGAATTGTTT
69485 CTTGATCTCTTC
1 CTTGATCTCTTC
69497 CTTGATCTCTTC
1 CTTGATCTCTTC
69509 CTTGATCT
1 CTTGATCT
69517 TAAGGAGCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.09, C:0.31, G:0.09, T:0.50
Consensus pattern (12 bp):
CTTGATCTCTTC
Found at i:71458 original size:17 final size:17
Alignment explanation
Indices: 71436--71468 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
71426 TTCTTTTGAA
71436 GTACTTACC-TGACATTC
1 GTACTT-CCATGACATTC
71453 GTACTTCCATGACATT
1 GTACTTCCATGACATT
71469 TGTCAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.24, C:0.27, G:0.12, T:0.36
Consensus pattern (17 bp):
GTACTTCCATGACATTC
Found at i:76712 original size:13 final size:13
Alignment explanation
Indices: 76689--76742 Score: 53
Period size: 13 Copynumber: 4.4 Consensus size: 13
76679 GAAACATGTG
76689 GAAAA-AAATAAT
1 GAAAATAAATAAT
*
76701 GAAAATAAATAAA
1 GAAAATAAATAAT
76714 GAAAAT-AA-AAT
1 GAAAATAAATAAT
*
76725 -AAAATAAAGAAAT
1 GAAAATAAA-TAAT
76738 GAAAA
1 GAAAA
76743 GAATAAGGTA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
10 5 0.14
11 4 0.11
12 7 0.20
13 15 0.43
14 4 0.11
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (13 bp):
GAAAATAAATAAT
Found at i:76839 original size:4 final size:4
Alignment explanation
Indices: 76830--76887 Score: 50
Period size: 4 Copynumber: 14.8 Consensus size: 4
76820 CACAAAAAGA
* * *
76830 AAAT AAAT AAAG AAAT AAAT AAACT AAAG AAA- ACA- AAAT -AAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAA-T AAAT AAAT AAAT AAAT AAAT AAAT
76876 AAAAT AAAT AAA
1 -AAAT AAAT AAA
76888 AGAAATGACA
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
3 7 0.16
4 30 0.67
5 8 0.18
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.17
Consensus pattern (4 bp):
AAAT
Found at i:76883 original size:9 final size:9
Alignment explanation
Indices: 76830--76893 Score: 53
Period size: 9 Copynumber: 7.4 Consensus size: 9
76820 CACAAAAAGA
76830 AAAT-AAAT
1 AAATAAAAT
*
76838 AAA-GAAAT
1 AAATAAAAT
*
76846 AAATAAACT
1 AAATAAAAT
* *
76855 AAAGAAAAC
1 AAATAAAAT
*
76864 AAA-ATAAT
1 AAATAAAAT
76872 AAATAAAAT
1 AAATAAAAT
*
76881 AAATAAAAG
1 AAATAAAAT
76890 AAAT
1 AAAT
76894 GACAATAATA
Statistics
Matches: 44, Mismatches: 9, Indels: 5
0.76 0.16 0.09
Matches are distributed among these distances:
8 16 0.36
9 28 0.64
ACGTcount: A:0.75, C:0.03, G:0.05, T:0.17
Consensus pattern (9 bp):
AAATAAAAT
Found at i:76887 original size:13 final size:13
Alignment explanation
Indices: 76703--76887 Score: 62
Period size: 13 Copynumber: 13.5 Consensus size: 13
76693 AAAATAATGA
76703 AAATAAATAAAGA-
1 AAATAAATAAA-AT
76716 AAATAAAATAAAAT
1 AAAT-AAATAAAAT
*
76730 AAAGAAATGAAAA-
1 AAATAAAT-AAAAT
* *
76743 GAATAAGGTAAAAAT
1 AAATAA-AT-AAAAT
76758 AAAAGTAAAATAAAGAT
1 -AAA-T-AAATAAA-AT
*
76775 AAA-AAATACATAT
1 AAATAAATA-AAAT
* *
76788 ATATAAAGGAAAAT
1 AAATAAA-TAAAAT
76802 AAA-AAATAAAGAT
1 AAATAAATAAA-AT
*
76815 AAGGACACAA-AAAGA-
1 AA--ATA-AATAAA-AT
*
76830 AAATAAAT-AAAG
1 AAATAAATAAAAT
*
76842 AAATAAATAAACT
1 AAATAAATAAAAT
* *
76855 AAAGAAAACAAAAT
1 AAA-TAAATAAAAT
76869 -AATAAATAAAAT
1 AAATAAATAAAAT
76881 AAATAAA
1 AAATAAA
76888 AGAAATGACA
Statistics
Matches: 129, Mismatches: 21, Indels: 44
0.66 0.11 0.23
Matches are distributed among these distances:
11 1 0.01
12 23 0.18
13 44 0.34
14 35 0.27
15 4 0.03
16 14 0.11
17 6 0.05
18 2 0.02
ACGTcount: A:0.72, C:0.03, G:0.09, T:0.16
Consensus pattern (13 bp):
AAATAAATAAAAT
Found at i:76996 original size:2 final size:2
Alignment explanation
Indices: 76991--77016 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
76981 AATAAAAGCA
76991 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
77017 GAAAAGAGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:79609 original size:117 final size:116
Alignment explanation
Indices: 79455--79818 Score: 482
Period size: 117 Copynumber: 3.1 Consensus size: 116
79445 TGGAACCTTT
* *
79455 TGTGCTAAAATGATAAGGAAATCATATTGAGTGTATAGATTTCCATATGAAGCACTGAGTGTGTT
1 TGTGCTAAAATGATAAGG-AATCATACTGAGTGTATAGATTTCCATATGAAGCACTGAGTGTGCT
79520 AAATGATAAGGAAATCATATTGAAAATATGGATTTCTAGATAGGGCATTTTA
65 AAATGATAAGGAAATCATATTGAAAATATGGATTTCTAGATAGGGCATTTTA
* *
79572 TGTGCTAAAATAATAAGGAATTCATACTGAGTGTATAGATTTCCATATGGAGCACTGAGTGTGCT
1 TGTGCTAAAATGATAAGGAA-TCATACTGAGTGTATAGATTTCCATATGAAGCACTGAGTGTGCT
* *
79637 AAATGATAAGGAATTCATATTGAAAATATGGATTTCCAGATAGGGCATTTTA
65 AAATGATAAGGAAATCATATTGAAAATATGGATTTCTAGATAGGGCATTTTA
* * * * * * *
79689 TGTGCAAAAATGGTAAGGGAATCATACTGAGTGTAT-GTATTTCTAGATAAAGCACTAAGGGTGC
1 TGTGCTAAAATGATAA-GGAATCATACTGAGTGTATAG-ATTTCCATATGAAGCACTGAGTGTGC
* * ** *
79753 TACAAAGATAAGGAAATCATACT-AATGGTATGGATTT-TCACATAGGGCATTTTA
64 TA-AATGATAAGGAAATCATATTGAA-AATATGGATTTCT-AGATAGGGCATTTTA
79807 TGTGCTAAAATG
1 TGTGCTAAAATG
79819 GTAACAAAAT
Statistics
Matches: 218, Mismatches: 23, Indels: 11
0.87 0.09 0.04
Matches are distributed among these distances:
116 3 0.01
117 160 0.73
118 55 0.25
ACGTcount: A:0.37, C:0.10, G:0.22, T:0.32
Consensus pattern (116 bp):
TGTGCTAAAATGATAAGGAATCATACTGAGTGTATAGATTTCCATATGAAGCACTGAGTGTGCTA
AATGATAAGGAAATCATATTGAAAATATGGATTTCTAGATAGGGCATTTTA
Found at i:79635 original size:59 final size:59
Alignment explanation
Indices: 79455--79773 Score: 249
Period size: 59 Copynumber: 5.4 Consensus size: 59
79445 TGGAACCTTT
*
79455 TGTGCTAAAATGATAAGGAAATCATATTGAGTGTATAGATTTCCATATGAAGCACTGAG
1 TGTGCTAAAATGATAAGGAAATCATATTGAGTGTATAGATTTCCATATGGAGCACTGAG
* *** * * * * *
79514 TGTG-TTAAATGATAAGGAAATCATATTGAAAATATGGATTTCTAGATAGG-GCATTTTA-
1 TGTGCTAAAATGATAAGGAAATCATATTGAGTGTATAGATTTCCATAT-GGAGCA-CTGAG
* * *
79572 TGTGCTAAAATAATAAGGAATTCATACTGAGTGTATAGATTTCCATATGGAGCACTGAG
1 TGTGCTAAAATGATAAGGAAATCATATTGAGTGTATAGATTTCCATATGGAGCACTGAG
* *** * * * *
79631 TGTGCT-AAATGATAAGGAATTCATATTGAAAATATGGATTTCCAGATAGG-GCATTTTA-
1 TGTGCTAAAATGATAAGGAAATCATATTGAGTGTATAGATTTCCATAT-GGAGCA-CTGAG
* * * * * * ** *
79689 TGTGCAAAAATGGTAAGGGAATCATACTGAGTGTAT-GTATTTCTAGATAAAGCACTAAG
1 TGTGCTAAAATGATAAGGAAATCATATTGAGTGTATAG-ATTTCCATATGGAGCACTGAG
*
79748 GGTGCTACAAA-GATAAGGAAATCATA
1 TGTGCTA-AAATGATAAGGAAATCATA
79774 CTAATGGTAT
Statistics
Matches: 200, Mismatches: 48, Indels: 24
0.74 0.18 0.09
Matches are distributed among these distances:
58 92 0.46
59 105 0.52
60 3 0.01
ACGTcount: A:0.38, C:0.09, G:0.22, T:0.31
Consensus pattern (59 bp):
TGTGCTAAAATGATAAGGAAATCATATTGAGTGTATAGATTTCCATATGGAGCACTGAG
Found at i:79671 original size:58 final size:59
Alignment explanation
Indices: 79455--79674 Score: 232
Period size: 58 Copynumber: 3.8 Consensus size: 59
79445 TGGAACCTTT
*** *
79455 TGTGCTAAAATGATAAGGAAATCATATTGAGTGTATAGATTTCCATATGAAGCACTGAG
1 TGTGCTAAAATGATAAGGAAATCATATTGAAAATATAGATTTCCATATGGAGCACTGAG
* * * * * *
79514 TGTG-TTAAATGATAAGGAAATCATATTGAAAATATGGATTTCTAGATAGG-GCATTTTA-
1 TGTGCTAAAATGATAAGGAAATCATATTGAAAATATAGATTTCCATAT-GGAGCA-CTGAG
* * * ***
79572 TGTGCTAAAATAATAAGGAATTCATACTGAGTGTATAGATTTCCATATGGAGCACTGAG
1 TGTGCTAAAATGATAAGGAAATCATATTGAAAATATAGATTTCCATATGGAGCACTGAG
* *
79631 TGTGCT-AAATGATAAGGAATTCATATTGAAAATATGGATTTCCA
1 TGTGCTAAAATGATAAGGAAATCATATTGAAAATATAGATTTCCA
79675 GATAGGGCAT
Statistics
Matches: 128, Mismatches: 28, Indels: 11
0.77 0.17 0.07
Matches are distributed among these distances:
58 79 0.62
59 49 0.38
ACGTcount: A:0.37, C:0.09, G:0.21, T:0.33
Consensus pattern (59 bp):
TGTGCTAAAATGATAAGGAAATCATATTGAAAATATAGATTTCCATATGGAGCACTGAG
Found at i:79693 original size:58 final size:58
Alignment explanation
Indices: 79514--79693 Score: 211
Period size: 58 Copynumber: 3.1 Consensus size: 58
79504 AAGCACTGAG
* * *
79514 TGTGTTAAATGATAAGGAAATCATATTGAAAATATGGATTTCTAGATAGGGCATTTTA
1 TGTGCTAAATGATAAGGAATTCATATTGAAAATATGGATTTCCAGATAGGGCATTTTA
* * *** * * * *
79572 TGTGCTAAAATAATAAGGAATTCATACTGAGTGTATAGATTTCCATAT-GGAGCA-CTGA
1 TGTGCT-AAATGATAAGGAATTCATATTGAAAATATGGATTTCCAGATAGG-GCATTTTA
79630 GTGTGCTAAATGATAAGGAATTCATATTGAAAATATGGATTTCCAGATAGGGCATTTTA
1 -TGTGCTAAATGATAAGGAATTCATATTGAAAATATGGATTTCCAGATAGGGCATTTTA
79689 TGTGC
1 TGTGC
79694 AAAAATGGTA
Statistics
Matches: 96, Mismatches: 21, Indels: 10
0.76 0.17 0.08
Matches are distributed among these distances:
58 51 0.53
59 45 0.47
ACGTcount: A:0.36, C:0.09, G:0.22, T:0.34
Consensus pattern (58 bp):
TGTGCTAAATGATAAGGAATTCATATTGAAAATATGGATTTCCAGATAGGGCATTTTA
Found at i:79812 original size:59 final size:59
Alignment explanation
Indices: 79749--79878 Score: 147
Period size: 59 Copynumber: 2.2 Consensus size: 59
79739 AGCACTAAGG
** *
79749 GTGCTACAAA-GATAAGGAAATCATACTAATGGTATGGAT-TTTCACATAGGGCATTTTAT
1 GTGCTA-AAATGATAACAAAATCATACTAATGGTATGAATATTTCA-ATAGGGCATTTTAT
* * * **
79808 GTGCTAAAATGGTAACAAAATCATACTAATGGTATGAATATTTGAATAGGGCACTTCGT
1 GTGCTAAAATGATAACAAAATCATACTAATGGTATGAATATTTCAATAGGGCATTTTAT
*
79867 GTGGTAAAATGA
1 GTGCTAAAATGA
79879 AAGGGAAAGC
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
58 3 0.05
59 52 0.88
60 4 0.07
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.31
Consensus pattern (59 bp):
GTGCTAAAATGATAACAAAATCATACTAATGGTATGAATATTTCAATAGGGCATTTTAT
Found at i:80123 original size:45 final size:45
Alignment explanation
Indices: 80011--80152 Score: 214
Period size: 45 Copynumber: 3.2 Consensus size: 45
80001 AAATGAAGTT
* * *
80011 AATGGCAAGTATATTGGTAAAATAAGCTTACGAGCTTATGAAAT-
1 AATGGTAAGTATATTGGTAAAATAAGCTTACGAGTTTATGGAATA
* *
80055 AATAGTAAGTATATTGGTAAAATAAACTTACGAGTTTATGGAATA
1 AATGGTAAGTATATTGGTAAAATAAGCTTACGAGTTTATGGAATA
* *
80100 AATGGTAAGTATGTTGGTAAAATAAGCTTACGAGTTTATGGGATA
1 AATGGTAAGTATATTGGTAAAATAAGCTTACGAGTTTATGGAATA
80145 AATGGTAA
1 AATGGTAA
80153 ATTTATTGAT
Statistics
Matches: 88, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
44 39 0.44
45 49 0.56
ACGTcount: A:0.41, C:0.06, G:0.22, T:0.32
Consensus pattern (45 bp):
AATGGTAAGTATATTGGTAAAATAAGCTTACGAGTTTATGGAATA
Found at i:80569 original size:12 final size:12
Alignment explanation
Indices: 80552--80576 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
80542 TTTCTGGAAA
80552 TTACTGTAGCAG
1 TTACTGTAGCAG
80564 TTACTGTAGCAG
1 TTACTGTAGCAG
80576 T
1 T
80577 GCATCGATGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (12 bp):
TTACTGTAGCAG
Found at i:80592 original size:21 final size:21
Alignment explanation
Indices: 80566--80605 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
80556 TGTAGCAGTT
* *
80566 ACTGTAGCAGTGCATCGATGC
1 ACTGTAACAATGCATCGATGC
80587 ACTGTAACAATGCATCGAT
1 ACTGTAACAATGCATCGAT
80606 ACACAATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.23, G:0.23, T:0.25
Consensus pattern (21 bp):
ACTGTAACAATGCATCGATGC
Found at i:85290 original size:59 final size:58
Alignment explanation
Indices: 85226--85662 Score: 334
Period size: 59 Copynumber: 7.5 Consensus size: 58
85216 ATTACCGAAT
* *
85226 GGCACTTTGTGTGCTAAAATGATAAGGAAATCATACTGAGTGTATAGATTTCCATATG
1 GGCACTTTGTGTGCTAAAATGATAAGGAAATCATACTGAATGTATGGATTTCCATATG
** * ** *
85284 GAGCACTGAGTGTGCT-AAATGATAAGGAAATCATATTGAAAATATGGATTTCCAGATAG
1 G-GCACTTTGTGTGCTAAAATGATAAGGAAATCATACTGAATGTATGGATTTCCATAT-G
* * * * *
85343 GGCATTTTATGTGCTAAAATAATAAGGAAATCATACTGAGTGTATAGATTTCCATATG
1 GGCACTTTGTGTGCTAAAATGATAAGGAAATCATACTGAATGTATGGATTTCCATATG
** * * ** *
85401 GAGCACTGAGTGTGCT-AAATGATAAGGAATTCATATTGAAAATATGGATTTCCAGATAG
1 G-GCACTTTGTGTGCTAAAATGATAAGGAAATCATACTGAATGTATGGATTTCCATAT-G
* * * * * * * *
85460 GGCATTTTATGTGCTAAAATGGTAAGGGAATCATATTGAGTGTATGGATTTCCAAATAA
1 GGCACTTTGTGTGCTAAAATGATAAGGAAATCATACTGAATGTATGGATTTCCATAT-G
* ** *
85519 AGCACTAAGGGTGCTACAAA-GATAAGGAAATCATACT-AATGGTATGGATTTTCACATA-G
1 GGCACTTTGTGTGCTA-AAATGATAAGGAAATCATACTGAAT-GTATGGA-TTTC-CATATG
* * * ** **
85578 GGCATTTTATGTGCTAAAATGGTAACAAAATCATACT-AATGGTAT-GATTT-TTTGAATAG
1 GGCACTTTGTGTGCTAAAATGATAAGGAAATCATACTGAAT-GTATGGATTTCCAT--AT-G
*
85637 GGCACTTCGTGTGCTAAAATGA-AAGG
1 GGCACTTTGTGTGCTAAAATGATAAGG
85663 GGAAGCATAC
Statistics
Matches: 292, Mismatches: 72, Indels: 30
0.74 0.18 0.08
Matches are distributed among these distances:
55 1 0.00
57 4 0.01
58 100 0.34
59 177 0.61
60 7 0.02
61 3 0.01
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.31
Consensus pattern (58 bp):
GGCACTTTGTGTGCTAAAATGATAAGGAAATCATACTGAATGTATGGATTTCCATATG
Found at i:85441 original size:117 final size:117
Alignment explanation
Indices: 85226--85614 Score: 555
Period size: 117 Copynumber: 3.3 Consensus size: 117
85216 ATTACCGAAT
* *
85226 GGCACTTTGTGTGCTAAAATGATAAGGAAATCATACTGAGTGTATAGATTTCCATATGGAGCACT
1 GGCATTTTATGTGCTAAAATGATAAGGAAATCATACTGAGTGTATAGATTTCCATATGGAGCACT
85291 GAGTGTGCTAAATGATAAGGAAATCATATTGAAAATATGGATTTCCAGATAG
66 GAGTGTGCTAAATGATAAGGAAATCATATTGAAAATATGGATTTCCAGATAG
*
85343 GGCATTTTATGTGCTAAAATAATAAGGAAATCATACTGAGTGTATAGATTTCCATATGGAGCACT
1 GGCATTTTATGTGCTAAAATGATAAGGAAATCATACTGAGTGTATAGATTTCCATATGGAGCACT
*
85408 GAGTGTGCTAAATGATAAGGAATTCATATTGAAAATATGGATTTCCAGATAG
66 GAGTGTGCTAAATGATAAGGAAATCATATTGAAAATATGGATTTCCAGATAG
* * * * * **
85460 GGCATTTTATGTGCTAAAATGGTAAGGGAATCATATTGAGTGTATGGATTTCCAAATAAAGCACT
1 GGCATTTTATGTGCTAAAATGATAAGGAAATCATACTGAGTGTATAGATTTCCATATGGAGCACT
* * * * ** * *
85525 AAGGGTGCTACAAAGATAAGGAAATCATACT-AATGGTATGGATTTTCACATAG
66 GAGTGTGCTA-AATGATAAGGAAATCATATTGAA-AATATGGATTTCCAGATAG
* **
85578 GGCATTTTATGTGCTAAAATGGTAACAAAATCATACT
1 GGCATTTTATGTGCTAAAATGATAAGGAAATCATACT
85615 AATGGTATGA
Statistics
Matches: 245, Mismatches: 25, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
117 180 0.73
118 65 0.27
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.31
Consensus pattern (117 bp):
GGCATTTTATGTGCTAAAATGATAAGGAAATCATACTGAGTGTATAGATTTCCATATGGAGCACT
GAGTGTGCTAAATGATAAGGAAATCATATTGAAAATATGGATTTCCAGATAG
Found at i:85651 original size:118 final size:117
Alignment explanation
Indices: 85226--85662 Score: 463
Period size: 117 Copynumber: 3.7 Consensus size: 117
85216 ATTACCGAAT
* * * ** *
85226 GGCACTTTGTGTGCTAAAATGATAAGGAAATCATACTGAGTGTATAGATTTCCATAT-GGAGCAC
1 GGCATTTTATGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTTTAAATAGG-GCAC
*
85290 TGAGTGTGCTAAATGATAAGGAAATCATATTGAAAATATGGATTTCCAGATAG
65 TAAGTGTGCTAAATGATAAGGAAATCATATTGAAAATATGGATTTCCAGATAG
** ** *
85343 GGCATTTTATGTGCTAAAATAATAAGGAAATCATACTGAGTGTATAGATTTCCATAT-GGAGCAC
1 GGCATTTTATGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTTTAAATAGG-GCAC
* *
85407 TGAGTGTGCTAAATGATAAGGAATTCATATTGAAAATATGGATTTCCAGATAG
65 TAAGTGTGCTAAATGATAAGGAAATCATATTGAAAATATGGATTTCCAGATAG
* * * ** **
85460 GGCATTTTATGTGCTAAAATGGTAAGGGAATCATATTGAGTGTATGGATTTCCAAATAAAGCACT
1 GGCATTTTATGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTTTAAATAGGGCACT
* * * ** * *
85525 AAGGGTGCTACAAAGATAAGGAAATCATACT-AATGGTATGGATTTTCACATAG
66 AAGTGTGCTA-AATGATAAGGAAATCATATTGAA-AATATGGATTTCCAGATAG
** * *
85578 GGCATTTTATGTGCTAAAATGGTAACAAAATCATACT-AATGGTAT-GATTTTTTGAATAGGGCA
1 GGCATTTTATGTGCTAAAATGGTAAGGAAATCATACTGAGT-GTATAGA-TTTTTAAATAGGGCA
**
85641 CTTCGTGTGCTAAAATGA-AAGG
64 CTAAGTGTGCT-AAATGATAAGG
85663 GGAAGCATAC
Statistics
Matches: 279, Mismatches: 35, Indels: 12
0.86 0.11 0.04
Matches are distributed among these distances:
117 187 0.67
118 91 0.33
119 1 0.00
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.31
Consensus pattern (117 bp):
GGCATTTTATGTGCTAAAATGGTAAGGAAATCATACTGAGTGTATAGATTTTTAAATAGGGCACT
AAGTGTGCTAAATGATAAGGAAATCATATTGAAAATATGGATTTCCAGATAG
Found at i:85847 original size:44 final size:45
Alignment explanation
Indices: 85791--85931 Score: 203
Period size: 45 Copynumber: 3.2 Consensus size: 45
85781 AAATGAAGTT
*
85791 AATGGAAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAAT-
1 AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATA
* * *
85835 GATGGTAAGTATATTGGTAAAATAAACTTACGAGTTTATGGAATA
1 AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATA
* * * *
85880 AATGGTAAGTATGTTGGTAAAATAAGATTGCGAGCTTATGGGATA
1 AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATA
85925 AATGGTA
1 AATGGTA
85932 GATTTATTGA
Statistics
Matches: 85, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
44 40 0.47
45 45 0.53
ACGTcount: A:0.39, C:0.05, G:0.25, T:0.31
Consensus pattern (45 bp):
AATGGTAAGTATATTGGTAAAATAAGCTTACGAGCTTATGGAATA
Found at i:88874 original size:13 final size:13
Alignment explanation
Indices: 88856--88898 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
88846 AATCTTAGAG
88856 ACAACTTTGAGAA
1 ACAACTTTGAGAA
*
88869 ACAACTTAGA-AA
1 ACAACTTTGAGAA
*
88881 CACAACTTTGAGAC
1 -ACAACTTTGAGAA
88895 ACAA
1 ACAA
88899 TTCACAAAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
12 2 0.08
13 22 0.88
14 1 0.04
ACGTcount: A:0.49, C:0.21, G:0.12, T:0.19
Consensus pattern (13 bp):
ACAACTTTGAGAA
Found at i:89324 original size:3 final size:3
Alignment explanation
Indices: 89318--89409 Score: 69
Period size: 3 Copynumber: 30.3 Consensus size: 3
89308 GGAGGAGGTG
*** * * * * *
89318 GAA GAA GAA GAA GAA GAA GAA GAA TTT GTAA GGAG GAG GAG GAG GAG
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA G-AA -GAA GAA GAA GAA GAA
* *
89365 GAA GAA TAA GAA GAA GAA GAA GAA GAA GAA GAA GAA -AG GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
89410 GGAGTTAACG
Statistics
Matches: 74, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
2 1 0.01
3 71 0.96
4 1 0.01
5 1 0.01
ACGTcount: A:0.57, C:0.00, G:0.38, T:0.05
Consensus pattern (3 bp):
GAA
Found at i:89369 original size:41 final size:41
Alignment explanation
Indices: 89305--89382 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
89295 AAAATTGTTT
*
89305 TAAGGAGGAGGTGGAAGAAGAAGAAGAAGAAGAAGAATTTG
1 TAAGGAGGAGGAGGAAGAAGAAGAAGAAGAAGAAGAATTTG
* * *
89346 TAAGGAGGAGGAGGAGGAGGAAGAATAAGAAGAAGAA
1 TAAGGAGGAGGAGGAAGAAGAAGAAGAAGAAGAAGAA
89383 GAAGAAGAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.50, C:0.00, G:0.41, T:0.09
Consensus pattern (41 bp):
TAAGGAGGAGGAGGAAGAAGAAGAAGAAGAAGAAGAATTTG
Found at i:90993 original size:14 final size:14
Alignment explanation
Indices: 90974--91009 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
90964 ATTGTTTAAT
90974 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
90988 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
91002 TGATTTGT
1 TGATTTGT
91010 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:91124 original size:19 final size:19
Alignment explanation
Indices: 91100--91139 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
91090 GCATTATGTT
91100 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAATGC
*
91119 GAAATGAAAATCGCATTGC
1 GAAATGAAAATCGCAATGC
91138 GA
1 GA
91140 TTCTCTCGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.45, C:0.15, G:0.23, T:0.17
Consensus pattern (19 bp):
GAAATGAAAATCGCAATGC
Found at i:91188 original size:19 final size:19
Alignment explanation
Indices: 91148--91352 Score: 242
Period size: 19 Copynumber: 11.4 Consensus size: 19
91138 GATTCTCTCG
91148 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
91168 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
91187 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
91201 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
91220 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
*
91240 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
91254 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
91273 TTGCGATTATCATTTCGCA
1 TTGCGATTTTCATTTCGCA
91292 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
91312 TTGCGATTTTC--TT-G--
1 TTGCGATTTTCATTTCGCA
*
91326 TTGGGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
91345 TTGCGATT
1 TTGCGATT
91353 CTCTCGTTGC
Statistics
Matches: 160, Mismatches: 8, Indels: 35
0.79 0.04 0.17
Matches are distributed among these distances:
14 22 0.14
16 15 0.09
17 14 0.09
18 5 0.03
19 64 0.40
20 40 0.25
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:91224 original size:72 final size:70
Alignment explanation
Indices: 91148--91352 Score: 259
Period size: 72 Copynumber: 2.8 Consensus size: 70
91138 GATTCTCTCG
* * * *
91148 TTGCGATTTTCATTTCCGCATTGCGATTTTCATTTCGCA-TTGCGATTCTCTCGTTGCGATTTTC
1 TTGCGATTTTCATTTCCGCATTGCGATTTTCATTGCG-ATTTGC-ATT-TCGCATTGCGATTATC
91212 ATTTCGCA
63 ATTTCGCA
* *
91220 TTGCGATTTTCATTTCCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTATCA
1 TTGCGATTTTCATTTCCGCATTGCGATT-T-TCATTGCGATTTGCATTTCGCATTGCGATTATCA
91285 TTTCGCA
64 TTTCGCA
* * *
91292 TTGCGATTTTCATTTCCGCATTGCGATTTTCTTGTTGGGATTTTCATTTCGCATTGCGATT
1 TTGCGATTTTCATTTCCGCATTGCGATTTTC--ATTGCGATTTGCATTTCGCATTGCGATT
91353 CTCTCGTTGC
Statistics
Matches: 121, Mismatches: 7, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
70 2 0.02
71 1 0.01
72 104 0.86
73 5 0.04
74 9 0.07
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.46
Consensus pattern (70 bp):
TTGCGATTTTCATTTCCGCATTGCGATTTTCATTGCGATTTGCATTTCGCATTGCGATTATCATT
TCGCA
Found at i:91374 original size:33 final size:33
Alignment explanation
Indices: 91129--91366 Score: 221
Period size: 33 Copynumber: 6.8 Consensus size: 33
91119 GAAATGAAAA
91129 TCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATT
* *
91162 TCCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTT
1 T-CGCATTGCGA--TTC-TCTCG--TTGCGATT-T-TCATT
* * * *
91203 GCG-ATTTTC-ATT-TCGCATTGCGATTTTCATT
1 TCGCA-TTGCGATTCTCTCGTTGCGATTTTCATT
91234 TCCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 T-CGCATTGCGATTCTCTCGTTGCGATTTTCATT
*
91268 TCGCATTGCGATTATCATTTCGCATTGCGATTTTCATT
1 TCGCATTGCGA-T-TC-TCTCG--TTGCGATTTTCATT
* * *
91306 TCCGCATTGCGATTTTCTTGTTGGGATTTTCATT
1 T-CGCATTGCGATTCTCTCGTTGCGATTTTCATT
91340 TCGCATTGCGATTCTCTCGTTGCGATT
1 TCGCATTGCGATTCTCTCGTTGCGATT
91367 GTAATTTCCG
Statistics
Matches: 166, Mismatches: 20, Indels: 38
0.74 0.09 0.17
Matches are distributed among these distances:
31 4 0.02
32 6 0.04
33 46 0.28
34 43 0.26
35 4 0.02
36 10 0.06
37 7 0.04
38 16 0.10
39 20 0.12
40 6 0.04
41 4 0.02
ACGTcount: A:0.13, C:0.23, G:0.18, T:0.45
Consensus pattern (33 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:91381 original size:53 final size:52
Alignment explanation
Indices: 91129--91366 Score: 342
Period size: 53 Copynumber: 4.5 Consensus size: 52
91119 GAAATGAAAA
91129 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
91182 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
*
91234 TCCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTATCATT
1 T-CGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
* *
91287 TCGCATTGCGATTTTCATTTCCGCATTGCGATTTTC--TT-G--TTGGGATTTTCATT
1 TCGCATTGCGA--TTC-TCT-CG--TTGCGATTTTCATTTCGCATTGCGATTTTCATT
91340 TCGCATTGCGATTCTCTCGTTGCGATT
1 TCGCATTGCGATTCTCTCGTTGCGATT
91367 GTAATTTCCG
Statistics
Matches: 173, Mismatches: 5, Indels: 20
0.87 0.03 0.10
Matches are distributed among these distances:
47 8 0.05
49 2 0.01
50 2 0.01
51 3 0.02
52 29 0.17
53 108 0.62
54 3 0.02
55 3 0.02
56 4 0.02
58 11 0.06
ACGTcount: A:0.13, C:0.23, G:0.18, T:0.45
Consensus pattern (52 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATT
Found at i:93644 original size:24 final size:24
Alignment explanation
Indices: 93610--93656 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
93600 CTGAAACATC
93610 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
93634 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
93657 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:94366 original size:20 final size:20
Alignment explanation
Indices: 94338--94607 Score: 290
Period size: 20 Copynumber: 13.5 Consensus size: 20
94328 AAATTTCAGT
* * *
94338 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
94358 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
94378 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
94398 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
* *
94418 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATTCGC
**
94438 GTTGCGATTTACGGATTATC
1 GTTGCGATTTACGGATTCGC
*
94458 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
94478 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATTCGC
* *
94498 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
* * *
94518 GTTGCGATATACGGATACAC
1 GTTGCGATTTACGGATTCGC
*
94538 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATTCGC
*
94558 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATTCGC
* **
94578 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATTCGC
94598 GTTGCGATTT
1 GTTGCGATTT
94608 TGGAAAATCG
Statistics
Matches: 220, Mismatches: 28, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
20 219 1.00
21 1 0.00
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (20 bp):
GTTGCGATTTACGGATTCGC
Found at i:94624 original size:21 final size:21
Alignment explanation
Indices: 94594--94676 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
94584 ATTTTCATAT
*
94594 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
94615 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
94636 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
94657 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
94677 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:94667 original size:42 final size:43
Alignment explanation
Indices: 94574--94672 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
94564 ATTTATGTGT
* *
94574 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
94615 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
94657 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
94673 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:98479 original size:2 final size:2
Alignment explanation
Indices: 98472--98521 Score: 86
Period size: 2 Copynumber: 26.0 Consensus size: 2
98462 AATTGAGGAT
98472 TA TA TA TA TA TA TA TA TA T- 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 TA TA TA TA TA TA
98513 TA T- TA TA TA
1 TA TA TA TA TA
98522 AAGCACCAAC
Statistics
Matches: 46, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
1 2 0.04
2 44 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:98506 original size:25 final size:25
Alignment explanation
Indices: 98472--98521 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
98462 AATTGAGGAT
98472 TATATATATATATATATATTATATA
1 TATATATATATATATATATTATATA
98497 TATATATATATATATATATTATATA
1 TATATATATATATATATATTATATA
98522 AAGCACCAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (25 bp):
TATATATATATATATATATTATATA
Found at i:100614 original size:20 final size:20
Alignment explanation
Indices: 100589--100626 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
100579 ACTATGAAAT
*
100589 ATTAAAACAATTAAAACATA
1 ATTAAAACAATAAAAACATA
*
100609 ATTAAAATAATAAAAACA
1 ATTAAAACAATAAAAACA
100627 ACAAGTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (20 bp):
ATTAAAACAATAAAAACATA
Found at i:100638 original size:23 final size:20
Alignment explanation
Indices: 100612--100669 Score: 53
Period size: 24 Copynumber: 2.6 Consensus size: 20
100602 AAACATAATT
*
100612 AAAATAATAAAAACAACAAGTA
1 AAAAAAATAAAAACAAC-A-TA
100634 AAAAAAAGTAAAAAACAACATAA
1 AAAAAAA-T-AAAAACAACAT-A
100657 AATAAAAATAAAA
1 AA-AAAAATAAAA
100670 TATGAGGACC
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
22 11 0.35
23 6 0.19
24 14 0.45
ACGTcount: A:0.78, C:0.07, G:0.03, T:0.12
Consensus pattern (20 bp):
AAAAAAATAAAAACAACATA
Found at i:100647 original size:24 final size:23
Alignment explanation
Indices: 100620--100669 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 23
100610 TTAAAATAAT
*
100620 AAAAACAACAAGTAAAA-AAAAGTA
1 AAAAACAAC-A-TAAAATAAAAATA
100644 AAAAACAACATAAAATAAAAATA
1 AAAAACAACATAAAATAAAAATA
100667 AAA
1 AAA
100670 TATGAGGACC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 5 0.21
23 10 0.42
24 9 0.38
ACGTcount: A:0.78, C:0.08, G:0.04, T:0.10
Consensus pattern (23 bp):
AAAAACAACATAAAATAAAAATA
Found at i:103180 original size:21 final size:21
Alignment explanation
Indices: 103154--103193 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
103144 TTTCTTTTGA
103154 AAGAGATAACCTTACAATACC
1 AAGAGATAACCTTACAATACC
103175 AAGAGATAACCTTACAATA
1 AAGAGATAACCTTACAATA
103194 GAACACCTTT
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:0.50, C:0.20, G:0.10, T:0.20
Consensus pattern (21 bp):
AAGAGATAACCTTACAATACC
Done.