Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1371
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: 46357
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Found at i:5231 original size:6 final size:6
Alignment explanation
Indices: 5209--5250 Score: 66
Period size: 6 Copynumber: 6.7 Consensus size: 6
5199 AAATGCAAAA
5209 TATTATT TATGTTT TATTTT TATTTT TATTTT TATTTT TATT
1 TATT-TT TAT-TTT TATTTT TATTTT TATTTT TATTTT TATT
5251 ATTGAAATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
6 25 0.74
7 8 0.24
8 1 0.03
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (6 bp):
TATTTT
Found at i:5243 original size:18 final size:20
Alignment explanation
Indices: 5209--5253 Score: 76
Period size: 18 Copynumber: 2.4 Consensus size: 20
5199 AAATGCAAAA
5209 TATTATTTATGTTTTATTTT
1 TATTATTTATGTTTTATTTT
5229 TATT-TTTAT-TTTTATTTT
1 TATTATTTATGTTTTATTTT
5247 TATTATT
1 TATTATT
5254 GAAATTTTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.54
19 7 0.29
20 4 0.17
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (20 bp):
TATTATTTATGTTTTATTTT
Found at i:6454 original size:1 final size:1
Alignment explanation
Indices: 6448--6498 Score: 93
Period size: 1 Copynumber: 51.0 Consensus size: 1
6438 AAAACCAAAA
*
6448 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTGTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
6499 GGTTTGGGGG
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
1 48 1.00
ACGTcount: A:0.00, C:0.00, G:0.02, T:0.98
Consensus pattern (1 bp):
T
Found at i:6504 original size:26 final size:26
Alignment explanation
Indices: 6453--6504 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
6443 CAAAATTTTT
**
6453 TTTTTTTTTTTTTTTTTTTTTTTTTG
1 TTTTTTTTTTTTTTTTTTTTGGTTTG
6479 TTTTTTTTTTTTTTTTTTTTGGTTTG
1 TTTTTTTTTTTTTTTTTTTTGGTTTG
6505 GGGGGTTGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (26 bp):
TTTTTTTTTTTTTTTTTTTTGGTTTG
Found at i:6524 original size:17 final size:17
Alignment explanation
Indices: 6504--6609 Score: 85
Period size: 18 Copynumber: 6.2 Consensus size: 17
6494 TTTTTGGTTT
*
6504 GGGGGGTTGGGGGGGTTG
1 GGGGGGGTGGGGGGG-TG
6522 GGGGGGGT-GGGGGG-G
1 GGGGGGGTGGGGGGGTG
6537 GGGGGGG-GGGGGGGTG
1 GGGGGGGTGGGGGGGTG
*
6553 GGGGTGGGGGGGGGGGTG
1 GGGG-GGGTGGGGGGGTG
* * **
6571 GGGTGGTTGGTTGTTGGTGG
1 GGGGGGGTGG--GGGGGT-G
6591 GGGGGGGTGGGGGGG-G
1 GGGGGGGTGGGGGGGTG
6607 GGG
1 GGG
6610 TGTACGTGCC
Statistics
Matches: 71, Mismatches: 10, Indels: 16
0.73 0.10 0.16
Matches are distributed among these distances:
15 14 0.20
16 9 0.13
17 13 0.18
18 22 0.31
19 4 0.06
20 9 0.13
ACGTcount: A:0.00, C:0.00, G:0.84, T:0.16
Consensus pattern (17 bp):
GGGGGGGTGGGGGGGTG
Found at i:6525 original size:1 final size:1
Alignment explanation
Indices: 6521--6573 Score: 70
Period size: 1 Copynumber: 53.0 Consensus size: 1
6511 TGGGGGGGTT
* * * *
6521 GGGGGGGGTGGGGGGGGGGGGGGGGGGGGGTGGGGGTGGGGGGGGGGGTGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG
6574 TGGTTGGTTG
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.00, C:0.00, G:0.92, T:0.08
Consensus pattern (1 bp):
G
Found at i:6525 original size:18 final size:16
Alignment explanation
Indices: 6503--6576 Score: 75
Period size: 15 Copynumber: 4.7 Consensus size: 16
6493 TTTTTTGGTT
*
6503 TGGGGGGTTGGGGGGG
1 TGGGGGGGTGGGGGGG
6519 TTGGGGGGGGTGGGGGGG
1 -T-GGGGGGGTGGGGGGG
6537 -GGGGGGG-GGGGGGG
1 TGGGGGGGTGGGGGGG
6551 TGGGGGTGG-GGGGGGG
1 TGGGGG-GGTGGGGGGG
*
6567 -GGTGGGGTGG
1 TGGGGGGGTGG
6577 TTGGTTGTTG
Statistics
Matches: 51, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
14 9 0.18
15 18 0.35
16 9 0.18
17 1 0.02
18 14 0.27
ACGTcount: A:0.00, C:0.00, G:0.86, T:0.14
Consensus pattern (16 bp):
TGGGGGGGTGGGGGGG
Found at i:6533 original size:7 final size:7
Alignment explanation
Indices: 6523--6609 Score: 58
Period size: 7 Copynumber: 12.7 Consensus size: 7
6513 GGGGGGTTGG
6523 GGGGGGT
1 GGGGGGT
6530 GGGGGG-
1 GGGGGGT
*
6536 GGGGGGG
1 GGGGGGT
*
6543 GGGGGGG
1 GGGGGGT
6550 GTGGGGGT
1 G-GGGGGT
6558 -GGGGG-
1 GGGGGGT
6563 GGGGGGT
1 GGGGGGT
6570 GGGGTGGTT
1 GGGG-GG-T
** *
6579 GGTTGTT
1 GGGGGGT
*
6586 GGTGGG-
1 GGGGGGT
6592 GGGGGGT
1 GGGGGGT
6599 GGGGGG-
1 GGGGGGT
6605 GGGGG
1 GGGGG
6610 TGTACGTGCC
Statistics
Matches: 66, Mismatches: 7, Indels: 15
0.75 0.08 0.17
Matches are distributed among these distances:
6 26 0.39
7 29 0.44
8 8 0.12
9 3 0.05
ACGTcount: A:0.00, C:0.00, G:0.85, T:0.15
Consensus pattern (7 bp):
GGGGGGT
Found at i:6566 original size:10 final size:10
Alignment explanation
Indices: 6512--6607 Score: 90
Period size: 10 Copynumber: 9.7 Consensus size: 10
6502 TTGGGGGGTT
*
6512 GGGGGGGTTG
1 GGGGGGGTGG
6522 GGGGGGGTGG
1 GGGGGGGTGG
6532 GGGGGGG-GG
1 GGGGGGGTGG
6541 GGGGGGG-GG
1 GGGGGGGTGG
*
6550 GTGGGGGTGG
1 GGGGGGGTGG
6560 GGGGGGG-GG
1 GGGGGGGTGG
*
6569 TGGGGTGGTTGG
1 -GGGG-GGGTGG
** **
6581 TTGTTGGTGG
1 GGGGGGGTGG
6591 GGGGGGGTGG
1 GGGGGGGTGG
6601 GGGGGGG
1 GGGGGGG
6608 GGTGTACGTG
Statistics
Matches: 69, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
9 19 0.28
10 45 0.65
11 3 0.04
12 2 0.03
ACGTcount: A:0.00, C:0.00, G:0.84, T:0.16
Consensus pattern (10 bp):
GGGGGGGTGG
Found at i:12821 original size:2 final size:2
Alignment explanation
Indices: 12814--12866 Score: 106
Period size: 2 Copynumber: 26.5 Consensus size: 2
12804 CTTTGAAAGA
12814 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
12856 AT AT AT AT AT A
1 AT AT AT AT AT A
12867 GTCCGTAATG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:13432 original size:2 final size:2
Alignment explanation
Indices: 13425--13463 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
13415 CCCTTCTTTT
* * *
13425 TA TA TA TA TA TA TA TA TA TA TG TA TA TA CA TA TG TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
13464 GTATGTACAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.49
Consensus pattern (2 bp):
TA
Found at i:13442 original size:12 final size:12
Alignment explanation
Indices: 13425--13463 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
13415 CCCTTCTTTT
*
13425 TATATATATATA
1 TATATATATGTA
13437 TATATATATGTA
1 TATATATATGTA
*
13449 TATACATATGTA
1 TATATATATGTA
13461 TAT
1 TAT
13464 GTATGTACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.49
Consensus pattern (12 bp):
TATATATATGTA
Found at i:13468 original size:10 final size:10
Alignment explanation
Indices: 13427--13470 Score: 52
Period size: 10 Copynumber: 4.2 Consensus size: 10
13417 CTTCTTTTTA
*
13427 TATATATATA
1 TATATATATG
13437 TATATATATG
1 TATATATATG
13447 TATATACATATG
1 TATAT--ATATG
*
13459 TATATGTATG
1 TATATATATG
13469 TA
1 TA
13471 CATAAAATTC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 20 0.67
12 10 0.33
ACGTcount: A:0.41, C:0.02, G:0.09, T:0.48
Consensus pattern (10 bp):
TATATATATG
Found at i:13472 original size:18 final size:18
Alignment explanation
Indices: 13429--13474 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
13419 TCTTTTTATA
*
13429 TATATATATATATATATG
1 TATATACATATATATATG
*
13447 TATATACATATGTATATG
1 TATATACATATATATATG
*
13465 TATGTACATA
1 TATATACATA
13475 AAATTCATGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.41, C:0.04, G:0.09, T:0.46
Consensus pattern (18 bp):
TATATACATATATATATG
Found at i:14218 original size:2 final size:2
Alignment explanation
Indices: 14211--14243 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
14201 AGTTAAAAAG
*
14211 TA TA TA TA TA TA TA TA TA TA CA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
14244 TGTTAATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:16272 original size:20 final size:20
Alignment explanation
Indices: 16229--16272 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
16219 TCAAAATTGT
* *
16229 ATACTAACTAGTATGGACTG
1 ATACTAACTAGTATGAACTA
*
16249 ATACTAACTAGTATTAACTA
1 ATACTAACTAGTATGAACTA
16269 ATAC
1 ATAC
16273 AAGTTGATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.41, C:0.16, G:0.11, T:0.32
Consensus pattern (20 bp):
ATACTAACTAGTATGAACTA
Found at i:17292 original size:27 final size:26
Alignment explanation
Indices: 17241--17292 Score: 61
Period size: 27 Copynumber: 1.9 Consensus size: 26
17231 TGAAAAACAG
*
17241 GGTTGGAGTATCTCCTCGGAGAAATGA
1 GGTTGGAGTA-CTCCTCGGAAAAATGA
17268 GGTTGGAGTA-TCCTCGATGAAAAAT
1 GGTTGGAGTACTCCTCG--GAAAAAT
17293 AAGATTCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
25 6 0.27
27 16 0.73
ACGTcount: A:0.29, C:0.13, G:0.31, T:0.27
Consensus pattern (26 bp):
GGTTGGAGTACTCCTCGGAAAAATGA
Found at i:20256 original size:52 final size:52
Alignment explanation
Indices: 20184--20698 Score: 216
Period size: 52 Copynumber: 9.8 Consensus size: 52
20174 AAAGAATGAT
* * *
20184 AAAGGTGCTAATATGCTGATTCAAAGCTAGTGATATTGGGCTTAAAGAGGAC
1 AAAGGTGCTAATATGCTGATTCAAAGCTAGCGACATTGGACTTAAAGAGGAC
* * * *
20236 GAAGGTGCTAATGTGTTGATTCAAGGCTAGCGACATTGGACTTAAAGAGGAC
1 AAAGGTGCTAATATGCTGATTCAAAGCTAGCGACATTGGACTTAAAGAGGAC
* * * * * * * * *
20288 AAAGGCGTTAGTATGCTGATTTAAGGCCAGCGATATTAGACTT-AAGAAAGA-
1 AAAGGTGCTAATATGCTGATTCAAAGCTAGCGACATTGGACTTAAAG-AGGAC
* * * * * * * *
20339 AAACAGTGCCAATGTGCTGATTCAAGGCCAGCGACATTAGACTTGAAGATGAC
1 AAA-GGTGCTAATATGCTGATTCAAAGCTAGCGACATTGGACTTAAAGAGGAC
* * * * * * ** * * *
20392 AAATGCGTTAATATACTGATTCAAGGCCAATGATATTGGACTTAAGAAAAGA-
1 AAAGGTGCTAATATGCTGATTCAAAGCTAGCGACATTGGACTTAA-AGAGGAC
* * * * * *
20444 AAA-GTGCTAATATGTTGATTCAAAGTTAACGACATTAGACTCAAAGATGCAAAGAATGAT
1 AAAGGTGCTAATATGCTGATTCAAAGCTAGCGACATTGGACT------T--AAAG-AGGAC
* * ** * * * * *
20504 AAAGGTGCTAATATGATGAGTCACGGCCAGCGATATTAGACTGAAAGATGAC
1 AAAGGTGCTAATATGCTGATTCAAAGCTAGCGACATTGGACTTAAAGAGGAC
* * * * * * * * *
20556 AAAAGTGCCAATATGCTTATTCAAAAC-CGATGATATTGGACTT-AAGAAAGAA
1 AAAGGTGCTAATATGCTGATTCAAAGCTAG-CGACATTGGACTTAAAG-AGGAC
* * * * *
20608 AAAGGTGCTAATATGTTGATTTAAGGCCAGCGACATTGGACTTAAAGATGG-T
1 AAAGGTGCTAATATGCTGATTCAAAGCTAGCGACATTGGACTTAAAGA-GGAC
* * * * * *
20660 AAAGGTTCCAATATACTTATTCAAGGCTAGCGATATTGG
1 AAAGGTGCTAATATGCTGATTCAAAGCTAGCGACATTGG
20699 GTTTATGCCA
Statistics
Matches: 346, Mismatches: 96, Indels: 42
0.71 0.20 0.09
Matches are distributed among these distances:
51 38 0.11
52 249 0.72
53 19 0.05
57 1 0.00
58 1 0.00
59 5 0.01
60 3 0.01
61 30 0.09
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.26
Consensus pattern (52 bp):
AAAGGTGCTAATATGCTGATTCAAAGCTAGCGACATTGGACTTAAAGAGGAC
Found at i:20364 original size:104 final size:103
Alignment explanation
Indices: 20240--20490 Score: 315
Period size: 104 Copynumber: 2.4 Consensus size: 103
20230 GAGGACGAAG
* * *
20240 GTGCTAATGTGTTGATTCAAGGCTAGCGACATTGGACTTAAAGAGGACAAAGGCGTTAGTATGCT
1 GTGCTAATGTGTTGATTCAAGGCTAGCGACATTAGACTTAAAGAGGACAAAGGCGTTAATATACT
* *
20305 GATTTAAGGCCAGCGATATTAGACTTAAG-AAAGAAAACA
66 GATTCAAGGCCAACGATATTAGACTTAAGAAAAG-AAA-A
* * * * * *
20344 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTAGACTTGAAGATGACAAATGCGTTAATATACT
1 GTGCTAATGTGTTGATTCAAGGCTAGCGACATTAGACTTAAAGAGGACAAAGGCGTTAATATACT
* *
20409 GATTCAAGGCCAATGATATTGGACTTAAGAAAAGAAAA
66 GATTCAAGGCCAACGATATTAGACTTAAGAAAAGAAAA
* * * * *
20447 GTGCTAATATGTTGATTCAAAGTTAACGACATTAGACTCAAAGA
1 GTGCTAATGTGTTGATTCAAGGCTAGCGACATTAGACTTAAAGA
20491 TGCAAAGAAT
Statistics
Matches: 124, Mismatches: 22, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
103 36 0.29
104 84 0.68
105 4 0.03
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.25
Consensus pattern (103 bp):
GTGCTAATGTGTTGATTCAAGGCTAGCGACATTAGACTTAAAGAGGACAAAGGCGTTAATATACT
GATTCAAGGCCAACGATATTAGACTTAAGAAAAGAAAA
Found at i:20655 original size:104 final size:104
Alignment explanation
Indices: 20495--20683 Score: 252
Period size: 104 Copynumber: 1.8 Consensus size: 104
20485 CAAAGATGCA
* * * *
20495 AAGAATGATAAAGGTGCTAATATGATGAGTCACGGCCAGCGATATTAGACTGAAAGATGACAAAA
1 AAGAAAGAAAAAGGTGCTAATATGATGAGTCAAGGCCAGCGACATTAGACTGAAAGATGACAAAA
*
20560 GTGCCAATATGCTTATTCAAAACCGATGATATTGGACTT
66 GTGCCAATATACTTATTCAAAACCGATGATATTGGACTT
* * * * * ** *
20599 AAGAAAGAAAAAGGTGCTAATATGTTGATTTAAGGCCAGCGACATTGGACTTAAAGATGGTAAAG
1 AAGAAAGAAAAAGGTGCTAATATGATGAGTCAAGGCCAGCGACATTAGACTGAAAGATGACAAAA
*
20664 GTTCCAATATACTTATTCAA
66 GTGCCAATATACTTATTCAA
20684 GGCTAGCGAT
Statistics
Matches: 71, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
104 71 1.00
ACGTcount: A:0.39, C:0.13, G:0.22, T:0.26
Consensus pattern (104 bp):
AAGAAAGAAAAAGGTGCTAATATGATGAGTCAAGGCCAGCGACATTAGACTGAAAGATGACAAAA
GTGCCAATATACTTATTCAAAACCGATGATATTGGACTT
Found at i:20759 original size:38 final size:39
Alignment explanation
Indices: 20678--20763 Score: 138
Period size: 38 Copynumber: 2.2 Consensus size: 39
20668 CAATATACTT
* *
20678 ATTCAAGGCTAGCGATATTGGGTTTATGCCAATGTGCTG
1 ATTCAAGGCTAGCGATATTGGGATTATGCCAATGTGCTA
*
20717 ATTCAAGGCTAGCGATATT-GGATTGTGCCAATGTGCTA
1 ATTCAAGGCTAGCGATATTGGGATTATGCCAATGTGCTA
20755 ATTCAAGGC
1 ATTCAAGGC
20764 CAACGACATT
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
38 25 0.57
39 19 0.43
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (39 bp):
ATTCAAGGCTAGCGATATTGGGATTATGCCAATGTGCTA
Found at i:20855 original size:49 final size:49
Alignment explanation
Indices: 20741--20930 Score: 254
Period size: 49 Copynumber: 3.8 Consensus size: 49
20731 ATATTGGATT
* * * * **
20741 GTGCCAATGTGCTAATTCAAGGCCAACGACATTAGTCTTAAAAAAGAAAAAA
1 GTGCCAATGTGTTGATTCAAGGCCAACGACATTGGACTT---AAAGATGAAA
* * *
20793 GTGCCAATATGTTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAG
1 GTGCCAATGTGTTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAA
*
20842 GTGCCAATGTGTTGATTCAAGGCCATCGACATTGGACTTAAAGATGAAA
1 GTGCCAATGTGTTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAA
*
20891 GTGCCAATGTGTTGATTCAAGGCCAACGACATTGAACTTA
1 GTGCCAATGTGTTGATTCAAGGCCAACGACATTGGACTTA
20931 GAAAGAGATG
Statistics
Matches: 124, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
49 91 0.73
52 33 0.27
ACGTcount: A:0.35, C:0.17, G:0.23, T:0.25
Consensus pattern (49 bp):
GTGCCAATGTGTTGATTCAAGGCCAACGACATTGGACTTAAAGATGAAA
Found at i:21016 original size:31 final size:32
Alignment explanation
Indices: 20981--21082 Score: 102
Period size: 32 Copynumber: 3.2 Consensus size: 32
20971 CCAGCAACAT
*
20981 TGGGC-TTAGAAAGAGATGCCACCGACTTGTG
1 TGGGCTTTAGAAAGAGTTGCCACCGACTTGTG
* ** *
21012 TGGGCTTTTGAGAA-AGTTGCCATTGACTTATG
1 TGGGCTTTAGA-AAGAGTTGCCACCGACTTGTG
* * *
21044 TGGGCTTTAG-AAGGGTTGCCACCGACTGGTA
1 TGGGCTTTAGAAAGAGTTGCCACCGACTTGTG
21075 TGGGCTTT
1 TGGGCTTT
21083 CAAAGTGTGG
Statistics
Matches: 56, Mismatches: 12, Indels: 6
0.76 0.16 0.08
Matches are distributed among these distances:
30 2 0.04
31 25 0.45
32 27 0.48
33 2 0.04
ACGTcount: A:0.21, C:0.17, G:0.32, T:0.30
Consensus pattern (32 bp):
TGGGCTTTAGAAAGAGTTGCCACCGACTTGTG
Found at i:21129 original size:32 final size:32
Alignment explanation
Indices: 21087--21161 Score: 107
Period size: 32 Copynumber: 2.3 Consensus size: 32
21077 GGCTTTCAAA
21087 GTGTGGGCTTTGAAAAG-GGTTGCCACCAACTT
1 GTGTGGGCTTT-AAAAGAGGTTGCCACCAACTT
* *
21119 GTGTGAGCTTTAGAAGAGGTTGCCACCAACTT
1 GTGTGGGCTTTAAAAGAGGTTGCCACCAACTT
*
21151 GTATGGGCTTT
1 GTGTGGGCTTT
21162 TGAAGGAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
31 4 0.11
32 34 0.89
ACGTcount: A:0.21, C:0.17, G:0.31, T:0.31
Consensus pattern (32 bp):
GTGTGGGCTTTAAAAGAGGTTGCCACCAACTT
Found at i:21204 original size:27 final size:27
Alignment explanation
Indices: 21168--21224 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
21158 CTTTTGAAGG
*
21168 AAAATGTGCCACGAAGTTATGGACTAA
1 AAAAGGTGCCACGAAGTTATGGACTAA
* * *
21195 AAAAGGTGCCACGGAGTTGTGGACTTA
1 AAAAGGTGCCACGAAGTTATGGACTAA
21222 AAA
1 AAA
21225 GGAAAAATAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.39, C:0.14, G:0.26, T:0.21
Consensus pattern (27 bp):
AAAAGGTGCCACGAAGTTATGGACTAA
Found at i:21273 original size:35 final size:34
Alignment explanation
Indices: 21193--21295 Score: 149
Period size: 34 Copynumber: 3.0 Consensus size: 34
21183 GTTATGGACT
21193 AAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
1 AAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
21227 AAAAATA-GTGCCACGGAGTTGTAGG-CTTTGAAAA-G
1 AAAAA-AGGTGCCACGGAGTTGT-GGAC-TT-AAAAGG
21262 AAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
1 AAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
21296 GTACCACGGA
Statistics
Matches: 62, Mismatches: 0, Indels: 14
0.82 0.00 0.18
Matches are distributed among these distances:
33 4 0.06
34 27 0.44
35 27 0.44
36 4 0.06
ACGTcount: A:0.38, C:0.12, G:0.31, T:0.19
Consensus pattern (34 bp):
AAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGG
Found at i:21302 original size:27 final size:27
Alignment explanation
Indices: 21263--21322 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
21253 TTTGAAAAGA
* *
21263 AAAAAGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTACCACGGAGTTGTGGACTT
21290 AAAAGGGTACCACGGAGTTGTGGACTT
1 AAAAGGGTACCACGGAGTTGTGGACTT
21317 AAAAGG
1 AAAAGG
21323 TGCCATGAAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.20
Consensus pattern (27 bp):
AAAAGGGTACCACGGAGTTGTGGACTT
Found at i:21428 original size:34 final size:34
Alignment explanation
Indices: 21350--21478 Score: 136
Period size: 34 Copynumber: 3.8 Consensus size: 34
21340 CTTTGAGAAG
** * *
21350 AGATGCCACTAAGTCGTGGACTTAAAA-GAAGAA
1 AGATGCCACGGAGTTGTGGACTTAAAAGGAAAAA
*
21383 AGAGTGCCACGGAGTTGTGAACTTAAAAGGAAAAA
1 AGA-TGCCACGGAGTTGTGGACTTAAAAGGAAAAA
* * *
21418 AGATGCCACGGAGTTATGGGCTTTGAAAGG-AAAA
1 AGATGCCACGGAGTTGTGGAC-TTAAAAGGAAAAA
* *
21452 AGTTACCACGGAGTTGTGGACTTAAAA
1 AGATGCCACGGAGTTGTGGACTTAAAA
21479 TGTGCTATGA
Statistics
Matches: 79, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
33 8 0.10
34 56 0.71
35 15 0.19
ACGTcount: A:0.39, C:0.13, G:0.28, T:0.20
Consensus pattern (34 bp):
AGATGCCACGGAGTTGTGGACTTAAAAGGAAAAA
Found at i:21503 original size:158 final size:150
Alignment explanation
Indices: 21213--21573 Score: 429
Period size: 158 Copynumber: 2.3 Consensus size: 150
21203 CCACGGAGTT
* * *
21213 GTGGACTTAAAAGGAAAAATAGTGCCACGGAGTTGT-AGGCTTTGAAAAGAAAAAAGGTGCCACG
1 GTGGACTTAAAA-GAAAAAGAGTGCCACGGAGTTGTGA-AC-TTGAAAAGAAAAAAGATGCCACG
* *
21277 GAGTTGTGGACTTAAAAGGGTACCACGGAGTTGTGGACTTAAAAGGTGCCATGAAGTTTTGAGCT
63 GAGTTATGGACTTAAAAGGGTACCACGGAGTTGTGGACTTAAAAGGTGCCATGAAGTTGTGAGCT
21342 TTGAGAAGAGATGCCACTAAGTC
128 TTGAGAAGAGATGCCACTAAGTC
21365 GTGGACTTAAAAGAAGAAAGAGTGCCACGGAGTTGTGAACTT-AAAAGGAAAAAAGATGCCACGG
1 GTGGACTTAAAAGAA-AAAGAGTGCCACGGAGTTGTGAACTTGAAAA-GAAAAAAGATGCCACGG
* * * *
21429 AGTTATGGGCTTTGAAAGGAAAAAGTTACCACGGAGTTGTGGACTTAAAATGTGCTATGAAGTTG
64 AGTTATGGAC-TTAAAAGG-----G-TACCACGGAGTTGTGGACTTAAAAGGTGCCATGAAGTTG
* *
21494 TGGGCTTTGAGAAGAGATGCCACTGAGTC
122 TGAGCTTTGAGAAGAGATGCCACTAAGTC
** * * * * *
21523 GTGGACTTGGAAGAAAAAGAATGCCACTGAGTCGTGGACTTTGAGAAGAAA
1 GTGGACTTAAAAGAAAAAGAGTGCCACGGAGTTGTGAAC-TTGAAAAGAAA
21574 TGCCATTGAA
Statistics
Matches: 179, Mismatches: 18, Indels: 18
0.83 0.08 0.08
Matches are distributed among these distances:
150 4 0.02
151 29 0.16
152 39 0.22
153 1 0.01
157 21 0.12
158 82 0.46
159 3 0.02
ACGTcount: A:0.35, C:0.12, G:0.30, T:0.22
Consensus pattern (150 bp):
GTGGACTTAAAAGAAAAAGAGTGCCACGGAGTTGTGAACTTGAAAAGAAAAAAGATGCCACGGAG
TTATGGACTTAAAAGGGTACCACGGAGTTGTGGACTTAAAAGGTGCCATGAAGTTGTGAGCTTTG
AGAAGAGATGCCACTAAGTC
Found at i:21552 original size:33 final size:33
Alignment explanation
Indices: 21505--21813 Score: 187
Period size: 33 Copynumber: 8.9 Consensus size: 33
21495 GGGCTTTGAG
21505 AAGAGATGCCACTGAGTCGTGGACTTGGAAGAAA
1 AAGA-ATGCCACTGAGTCGTGGACTTGGAAGAAA
*
21539 AAGAATGCCACTGAGTCGTGGACTTTG-AG-AA
1 AAGAATGCCACTGAGTCGTGGACTTGGAAGAAA
* * * *
21570 GA-AATGCCATTGAATCATGGACTTTGGGAAGAAA
1 AAGAATGCCACTGAGTCGTGGAC-TT-GGAAGAAA
* *
21604 AA-AATGCCACTAAGTCGTGGACTTAGAAGAAA
1 AAGAATGCCACTGAGTCGTGGACTTGGAAGAAA
** * * *
21636 AAGGGTG-GACTTAGACAAAAGCTGCGACTGAGTTGTGGACTTAGAAGTA
1 AAGAATGCCACTGAGTC----G-TG-GAC-----T-TGGA---AGAA--A
*
21685 AAGGAATGCCACTAAGTCGTGGACTTGGAAGAAA
1 AA-GAATGCCACTGAGTCGTGGACTTGGAAGAAA
* ** *
21719 AAGGATGCCTTTGAGTTGTGGACTTGGAAGAAA
1 AAGAATGCCACTGAGTCGTGGACTTGGAAGAAA
* * *
21752 AAGAATACCACTAAGTCGTGGACTTGGAAGGAA
1 AAGAATGCCACTGAGTCGTGGACTTGGAAGAAA
* * *
21785 AAGGATGCCACTGAGACGTGAACTTGGAA
1 AAGAATGCCACTGAGTCGTGGACTTGGAA
21814 AAGAGATACC
Statistics
Matches: 211, Mismatches: 40, Indels: 49
0.70 0.13 0.16
Matches are distributed among these distances:
30 17 0.08
31 5 0.02
32 18 0.09
33 104 0.49
34 26 0.12
36 5 0.02
37 2 0.01
38 3 0.01
39 4 0.02
40 1 0.00
43 1 0.00
44 3 0.01
45 3 0.01
46 2 0.01
47 5 0.02
49 3 0.01
50 3 0.01
51 6 0.03
ACGTcount: A:0.36, C:0.14, G:0.29, T:0.21
Consensus pattern (33 bp):
AAGAATGCCACTGAGTCGTGGACTTGGAAGAAA
Found at i:21578 original size:30 final size:30
Alignment explanation
Indices: 21493--21635 Score: 128
Period size: 30 Copynumber: 4.6 Consensus size: 30
21483 CTATGAAGTT
* *
21493 GTGGGCTTTGAGAAGAGATGCCACTGAGTC
1 GTGGACTTTGAGAAGAAATGCCACTGAGTC
* *
21523 GTGGACTTGGAAGAAAAAGAATGCCACTGAGTC
1 GTGGACTTTG-AG-AAGA-AATGCCACTGAGTC
* *
21556 GTGGACTTTGAGAAGAAATGCCATTGAATC
1 GTGGACTTTGAGAAGAAATGCCACTGAGTC
* * *
21586 ATGGACTTTGGGAAGAAAAAAATGCCACTAAGTC
1 GTGGACTTT--G-AG-AAGAAATGCCACTGAGTC
21620 GTGGAC-TT-AGAAGAAA
1 GTGGACTTTGAGAAGAAA
21636 AAGGGTGGAC
Statistics
Matches: 91, Mismatches: 15, Indels: 16
0.75 0.12 0.13
Matches are distributed among these distances:
28 5 0.05
29 2 0.02
30 28 0.31
31 5 0.05
32 6 0.07
33 26 0.29
34 19 0.21
ACGTcount: A:0.35, C:0.14, G:0.29, T:0.22
Consensus pattern (30 bp):
GTGGACTTTGAGAAGAAATGCCACTGAGTC
Found at i:21743 original size:66 final size:66
Alignment explanation
Indices: 21664--21793 Score: 215
Period size: 66 Copynumber: 2.0 Consensus size: 66
21654 AAGCTGCGAC
* * *
21664 TGAGTTGTGGACTTAGAAGTAAAGGAATGCCACTAAGTCGTGGACTTGGAAGAAAAAGGATGCCT
1 TGAGTTGTGGACTTAGAAGAAAAAGAATACCACTAAGTCGTGGACTTGGAAGAAAAAGGATGCCT
21729 T
66 T
* *
21730 TGAGTTGTGGACTTGGAAGAAAAAGAATACCACTAAGTCGTGGACTTGGAAGGAAAAGGATGCC
1 TGAGTTGTGGACTTAGAAGAAAAAGAATACCACTAAGTCGTGGACTTGGAAGAAAAAGGATGCC
21794 ACTGAGACGT
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
66 59 1.00
ACGTcount: A:0.35, C:0.12, G:0.31, T:0.22
Consensus pattern (66 bp):
TGAGTTGTGGACTTAGAAGAAAAAGAATACCACTAAGTCGTGGACTTGGAAGAAAAAGGATGCCT
T
Found at i:23135 original size:13 final size:13
Alignment explanation
Indices: 23119--23162 Score: 74
Period size: 12 Copynumber: 3.5 Consensus size: 13
23109 TTCCTTTGCA
23119 TTTTTT-TGTTTT
1 TTTTTTGTGTTTT
23131 TTTTTTGTG-TTT
1 TTTTTTGTGTTTT
23143 TTTTTTGTGTTTT
1 TTTTTTGTGTTTT
23156 TTTTTTG
1 TTTTTTG
23163 CTTTTGCTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
12 18 0.60
13 12 0.40
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (13 bp):
TTTTTTGTGTTTT
Found at i:23173 original size:25 final size:25
Alignment explanation
Indices: 23120--23174 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
23110 TCCTTTGCAT
* **
23120 TTTTTTGTTTTTTTTTTGTGTTTTT
1 TTTTGTGTTTTTTTTTTGTGTTTGC
23145 TTTTGTGTTTTTTTTTTGCT-TTTGC
1 TTTTGTGTTTTTTTTTTG-TGTTTGC
23170 TTTTG
1 TTTTG
23175 ACTTTTTCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 25 0.96
26 1 0.04
ACGTcount: A:0.00, C:0.04, G:0.15, T:0.82
Consensus pattern (25 bp):
TTTTGTGTTTTTTTTTTGTGTTTGC
Found at i:30009 original size:19 final size:21
Alignment explanation
Indices: 29985--30030 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
29975 GAATGCATCG
29985 ATACAA-TG-AGCATGTATCA
1 ATACAATTGAAGCATGTATCA
*
30004 ATACAATTGTAAGCATGTATCG
1 ATACAATTG-AAGCATGTATCA
30026 ATACA
1 ATACA
30031 TTTAATAATG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 6 0.26
20 2 0.09
22 15 0.65
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.28
Consensus pattern (21 bp):
ATACAATTGAAGCATGTATCA
Found at i:30593 original size:12 final size:13
Alignment explanation
Indices: 30578--30607 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
30568 TAATTTTTTC
30578 TTTTTA-TTAATT
1 TTTTTACTTAATT
30590 TTTTTACTTAATT
1 TTTTTACTTAATT
30603 TTTTT
1 TTTTT
30608 TATGTTATTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTTACTTAATT
Found at i:30594 original size:18 final size:17
Alignment explanation
Indices: 30554--30593 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
30544 TTTACTTTTC
30554 TTTTTTATTTTTACTAA
1 TTTTTTATTTTTACTAA
* *
30571 TTTTTTCTTTTTATTAA
1 TTTTTTATTTTTACTAA
30588 TTTTTT
1 TTTTTT
30594 TACTTAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTTTATTTTTACTAA
Found at i:30621 original size:14 final size:13
Alignment explanation
Indices: 30575--30622 Score: 53
Period size: 14 Copynumber: 3.6 Consensus size: 13
30565 TACTAATTTT
30575 TTCTTTTTATTAA
1 TTCTTTTTATTAA
30588 TT-TTTTTACTTAA
1 TTCTTTTTA-TTAA
* *
30601 TTTTTTTTATGTTA
1 TTCTTTTTAT-TAA
30615 TTCTTTTT
1 TTCTTTTT
30623 TGTCTCTCTC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
12 6 0.20
13 9 0.30
14 15 0.50
ACGTcount: A:0.17, C:0.06, G:0.02, T:0.75
Consensus pattern (13 bp):
TTCTTTTTATTAA
Found at i:30699 original size:18 final size:17
Alignment explanation
Indices: 30662--30703 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
30652 GTTAGTGAAA
* *
30662 AATATAAAATTTTATTT
1 AATATAAAAATTTATAT
30679 AATATAATAAATTTATAT
1 AATATAA-AAATTTATAT
30697 AAT-TAAA
1 AATATAAA
30704 TAATAATTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 1 0.05
17 10 0.45
18 11 0.50
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AATATAAAAATTTATAT
Found at i:31537 original size:74 final size:74
Alignment explanation
Indices: 31405--31577 Score: 219
Period size: 74 Copynumber: 2.4 Consensus size: 74
31395 AGTTTGAAAG
* * *
31405 GATTACACAAGTTT-AATTTTTTAAAAGTATGATTTATTTTTATTTACAGAAATTTAAATTTATT
1 GATTATACAAGTTTAAATTTTTTAAAAGTATGACTTATTATTATTTACAGAAATTTAAATTTATT
*
31469 TTTTGGTAT
66 TTTTAGTAT
* * * * *
31478 GATTATACAAGTTTAAATTTTTTTAAGGTGTGACTTATTATTCTTTATA-AAAGTTTAAATTTAT
1 GATTATACAAGTTTAAATTTTTTAAAAGTATGACTTATTATTATTTACAGAAA-TTTAAATTTAT
31542 TTTTTAGTAT
65 TTTTTAGTAT
31552 GATTATA-AGAGTTTAAA-TTTTTAAAA
1 GATTATACA-AGTTTAAATTTTTTAAAA
31578 TCCAATTTAT
Statistics
Matches: 86, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
73 24 0.28
74 62 0.72
ACGTcount: A:0.35, C:0.03, G:0.10, T:0.51
Consensus pattern (74 bp):
GATTATACAAGTTTAAATTTTTTAAAAGTATGACTTATTATTATTTACAGAAATTTAAATTTATT
TTTTAGTAT
Found at i:34392 original size:14 final size:14
Alignment explanation
Indices: 34373--34406 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
34363 ATTAAAGGAA
*
34373 TATTAAATCTTGTG
1 TATTAAATCTTGTC
34387 TATTAAATCTTGTC
1 TATTAAATCTTGTC
34401 TATTAA
1 TATTAA
34407 TGTTATGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.32, C:0.09, G:0.09, T:0.50
Consensus pattern (14 bp):
TATTAAATCTTGTC
Found at i:34547 original size:18 final size:19
Alignment explanation
Indices: 34524--34577 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 19
34514 GTTGCTTATG
34524 TTTCTATCATTTATATCT-
1 TTTCTATCATTTATATCTA
34542 TTTCTA-CA---ATATCTA
1 TTTCTATCATTTATATCTA
*
34557 TTTCTATTATTTATATC-A
1 TTTCTATCATTTATATCTA
34575 TTT
1 TTT
34578 ATATTATGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 10
0.73 0.02 0.24
Matches are distributed among these distances:
14 6 0.20
15 6 0.20
16 1 0.03
17 2 0.07
18 10 0.33
19 5 0.17
ACGTcount: A:0.26, C:0.15, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTCTATCATTTATATCTA
Found at i:34571 original size:62 final size:61
Alignment explanation
Indices: 34493--34647 Score: 154
Period size: 62 Copynumber: 2.5 Consensus size: 61
34483 TTATATTATG
* *
34493 TATTTCTATAACTTATATTATGTTGCTTATGTTTCTATCATTTATATC-TTTTCTACAATAT
1 TATTTCTATAATTTATATTATGTTACTTATGTTTCTATCATTTATATCATTTT-TACAATAT
* * * * * * *
34554 CTATTTCTATTATTTATATCAT-TTATATTATGTTTTTGTCATTTATATCATTTTTATAGTAT
1 -TATTTCTATAATTTATATTATGTTA-CTTATGTTTCTATCATTTATATCATTTTTACAATAT
* * *
34616 T-TTTTTATCATTTATATTATGTTACTAATGTT
1 TATTTCTATAATTTATATTATGTTACTTATGTT
34648 CATTATAAGA
Statistics
Matches: 76, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
60 22 0.29
61 6 0.08
62 44 0.58
63 4 0.05
ACGTcount: A:0.26, C:0.10, G:0.05, T:0.59
Consensus pattern (61 bp):
TATTTCTATAATTTATATTATGTTACTTATGTTTCTATCATTTATATCATTTTTACAATAT
Found at i:34598 original size:29 final size:30
Alignment explanation
Indices: 34520--34632 Score: 102
Period size: 31 Copynumber: 3.7 Consensus size: 30
34510 TTATGTTGCT
* * * *
34520 TATGTTTCTATCATTTATATCTTTTCTACAA
1 TATGTTTTTATCATTTATATCATTT-TATAG
* * *
34551 TATCTATTTCTATTATTTATATCA-TTTATAT
1 TATGT-TTT-TATCATTTATATCATTTTATAG
*
34582 TATGTTTTTGTCATTTATATCATTTTTATAG
1 TATGTTTTTATCATTTATATCA-TTTTATAG
*
34613 TATTTTTTTATCATTTATAT
1 TATGTTTTTATCATTTATAT
34633 TATGTTACTA
Statistics
Matches: 66, Mismatches: 12, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
29 12 0.18
30 3 0.05
31 35 0.53
32 4 0.06
33 12 0.18
ACGTcount: A:0.26, C:0.10, G:0.04, T:0.61
Consensus pattern (30 bp):
TATGTTTTTATCATTTATATCATTTTATAG
Found at i:35593 original size:49 final size:49
Alignment explanation
Indices: 35486--35614 Score: 197
Period size: 49 Copynumber: 2.6 Consensus size: 49
35476 CAATTTGTGT
* *
35486 CGATACATTATTCATTGTATCGATACATTCTGGGTTTTACCCAGATGTAT
1 CGATACATT-TTCATTGTATCGATACATTCTAGGTTTTACCCAGATGTAC
35536 CGATACATTGTTCATTGTATCGATACATTCTAGG-TTTACCCAGATGTAC
1 CGATACATT-TTCATTGTATCGATACATTCTAGGTTTTACCCAGATGTAC
*
35585 CGATACATTTTGCAATGTATCGATACATTC
1 CGATACATTTT-CATTGTATCGATACATTC
35615 AGGCATTTTT
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
48 2 0.03
49 40 0.54
50 32 0.43
ACGTcount: A:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (49 bp):
CGATACATTTTCATTGTATCGATACATTCTAGGTTTTACCCAGATGTAC
Found at i:37682 original size:28 final size:28
Alignment explanation
Indices: 37642--37713 Score: 99
Period size: 28 Copynumber: 2.6 Consensus size: 28
37632 GGAATAAAGC
** *
37642 CGGGGTTGGAGTATCCCCTCGGAAGTAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
37670 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGAGGAAATAA
*
37698 CGAGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
37714 TCGATTATGA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.24, C:0.19, G:0.35, T:0.22
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGAGGAAATAA
Found at i:37771 original size:52 final size:52
Alignment explanation
Indices: 37702--37975 Score: 288
Period size: 52 Copynumber: 5.3 Consensus size: 52
37692 AAATAACGAG
* *
37702 GTTGGAGTATCCTCGATTATGAAAAATTGGTATTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTAGTTTTGGAAATAAAATCGGA
* * * * *
37754 GTTGGAGTATCCCCGATTAAAGGAAAATTGG-CGTTTTGAAAATAAAACCAGGA
1 GTTGGAGTATCCCCGATT-ATGAAAAATTGGTAGTTTTGGAAATAAAATC-GGA
* *
37807 -TTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTAGTTTTGGAAATAAAATCGGA
* * * * * * *
37858 ATTGGAGTATCCCCGATTAAAGGAGAAATTGGT-GTTGTGAAAATAAAACCGGG
1 GTTGGAGTATCCCCGATT--ATGAAAAATTGGTAGTTTTGGAAATAAAATCGGA
* * * *
37911 GTTGGAGTATCCCCGATTATGAAAAATCGATA-TTTT-GAGAATAAAGTCGGG
1 GTTGGAGTATCCCCGATTATGAAAAATTGGTAGTTTTGGA-AATAAAATCGGA
37962 GTTGGAGTATCCCC
1 GTTGGAGTATCCCC
37976 TCAGAAATAA
Statistics
Matches: 183, Mismatches: 31, Indels: 17
0.79 0.13 0.07
Matches are distributed among these distances:
50 1 0.01
51 48 0.26
52 79 0.43
53 45 0.25
54 10 0.05
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (52 bp):
GTTGGAGTATCCCCGATTATGAAAAATTGGTAGTTTTGGAAATAAAATCGGA
Found at i:37834 original size:104 final size:105
Alignment explanation
Indices: 37703--37975 Score: 417
Period size: 104 Copynumber: 2.6 Consensus size: 105
37693 AATAACGAGG
*
37703 TTGGAGTATCCTCGATTATGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCC
1 TTGGAGTATCCCCGATTATGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCC
*
37768 GATTAAAGGA-AAATTGGCGTTTTGAAAATAAAACCAGGA
66 GATTAAAGGAGAAATTGGCGTTGTGAAAATAAAACCAGGA
* *
37807 TTGGAGTATCCCCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGGAATTGGAGTATCCCC
1 TTGGAGTATCCCCGATTATGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCC
* * *
37872 GATTAAAGGAGAAATTGGTGTTGTGAAAATAAAACCGGGG
66 GATTAAAGGAGAAATTGGCGTTGTGAAAATAAAACCAGGA
* * * *
37912 TTGGAGTATCCCCGATTATGAAAAATCGATA-TTTT-GAGAATAAAGTCGGGGTTGGAGTATCCC
1 TTGGAGTATCCCCGATTATGAAAAATTGGTATTTTTGGA-AATAAAATCGGAGTTGGAGTATCCC
37975 C
65 C
37976 TCAGAAATAA
Statistics
Matches: 154, Mismatches: 13, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
103 2 0.01
104 99 0.64
105 53 0.34
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (105 bp):
TTGGAGTATCCCCGATTATGAAAAATTGGTATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCC
GATTAAAGGAGAAATTGGCGTTGTGAAAATAAAACCAGGA
Found at i:38021 original size:27 final size:27
Alignment explanation
Indices: 37958--38060 Score: 154
Period size: 27 Copynumber: 3.8 Consensus size: 27
37948 AGAATAAAGT
* *
37958 CGGGGTTGGAGTATCCCCTCA-GAAATAA
1 CGGGGTTGGAGTATCCCC-GATG-ATTAA
37986 CGGGGTTGGAGTATCCCCGATGATTAA
1 CGGGGTTGGAGTATCCCCGATGATTAA
38013 CGGGGTTGGAGTATCCCCGATGATTAA
1 CGGGGTTGGAGTATCCCCGATGATTAA
*
38040 CGGGGTTGGAGTGTCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
38061 TGTGAAGAAA
Statistics
Matches: 71, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
27 52 0.73
28 19 0.27
ACGTcount: A:0.21, C:0.20, G:0.34, T:0.24
Consensus pattern (27 bp):
CGGGGTTGGAGTATCCCCGATGATTAA
Found at i:38112 original size:55 final size:51
Alignment explanation
Indices: 38044--38175 Score: 133
Period size: 51 Copynumber: 2.5 Consensus size: 51
38034 GATTAACGGG
* **
38044 GTTGGAGTGTCCCCGATTGTGAAGAAATTGGTGTTTTTTTGGAAA-TAAAATCGGA
1 GTTGGAGTATCCCCGATTGTG-AGAAATTAATG---TTTT-GAAAGTAAAATCGGA
*
38099 GTTGGAGTATCCCCGATTAT-AGAAAATTAATGTTTTGAAAGTAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAG-AAATTAATGTTTTGAAAGTAAAATCGGA
* *
38150 GTTGGAATATCCTCGATTGTGGAGAA
1 GTTGGAGTATCCCCGATTGT-GAGAA
38176 TTGAGCAACT
Statistics
Matches: 66, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
50 4 0.06
51 31 0.47
52 2 0.03
53 4 0.06
54 7 0.11
55 18 0.27
ACGTcount: A:0.31, C:0.10, G:0.27, T:0.33
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAGAAATTAATGTTTTGAAAGTAAAATCGGA
Found at i:40540 original size:13 final size:13
Alignment explanation
Indices: 40522--40547 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
40512 ACAAAGATCC
40522 ATGTATCGATACA
1 ATGTATCGATACA
40535 ATGTATCGATACA
1 ATGTATCGATACA
40548 CAGAAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:40543 original size:33 final size:33
Alignment explanation
Indices: 40501--40567 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
40491 AAAATTTCCA
***
40501 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
40534 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
40567 A
1 A
40568 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:40611 original size:19 final size:18
Alignment explanation
Indices: 40587--40654 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
40577 CAGTAGCTAA
40587 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
40606 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
40621 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
40638 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
40655 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:40627 original size:13 final size:13
Alignment explanation
Indices: 40609--40633 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
40599 ACAATACTTA
40609 TGTATCGATACAT
1 TGTATCGATACAT
40622 TGTATCGATACA
1 TGTATCGATACA
40634 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:40631 original size:32 final size:32
Alignment explanation
Indices: 40590--40652 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
40580 TAGCTAATTA
*
40590 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
40622 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
40653 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:40734 original size:21 final size:21
Alignment explanation
Indices: 40710--40766 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
40700 CATTTGTAGG
40710 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
40731 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
40752 ATGTATCGATACATT
1 ATGTATCGATACATT
40767 TAAATTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:40777 original size:1 final size:1
Alignment explanation
Indices: 40771--40818 Score: 69
Period size: 1 Copynumber: 48.0 Consensus size: 1
40761 TACATTTAAA
***
40771 TTTTTTTTTTTTTTTTTTTTTTTTTTTTCAATTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
40819 CAAACACTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.04, C:0.02, G:0.00, T:0.94
Consensus pattern (1 bp):
T
Found at i:40819 original size:20 final size:20
Alignment explanation
Indices: 40771--40821 Score: 81
Period size: 20 Copynumber: 2.7 Consensus size: 20
40761 TACATTTAAA
40771 TTTTTTTTTTT---TTTTTT
1 TTTTTTTTTTTCAATTTTTT
40788 TTTTTTTTTTTCAATTTTTT
1 TTTTTTTTTTTCAATTTTTT
40808 TTTTTTTTTTTCAA
1 TTTTTTTTTTTCAA
40822 ACACTTTATC
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
17 11 0.35
20 20 0.65
ACGTcount: A:0.08, C:0.04, G:0.00, T:0.88
Consensus pattern (20 bp):
TTTTTTTTTTTCAATTTTTT
Found at i:41499 original size:55 final size:55
Alignment explanation
Indices: 41415--42260 Score: 1237
Period size: 55 Copynumber: 15.3 Consensus size: 55
41405 ATAAATTGTA
* * * * * *
41415 TCCTGCTCATTGAGGAGTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
41470 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCCACTTGTGTGGGCTTTGAAAAGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
41525 TCCTGCTCTTTGGGGAATGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
*
41580 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
41635 TCCTGTTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
** *
41690 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
41745 TCCTGCTCTTTGAGGACT-AGAAGGCGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
*
41800 TCCTGCTCTTTGAGGACTGGAAAGGTGCCACCAACTTGTGTGGGCTTTGAGAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
41856 TCCTGCTCTTTGAGGATTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
41911 TCCTGCTCTTTGAGGACT-AGAAGGCGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGA-AAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
*
41966 TCCTGCTCTTTGAGGACTGGAAAGGTGCCACCAACTTGTGTGGGCTTTGAGAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
* *
42022 TCCTGCTCTTTGGGGACTGAAAAGGTGCCACCAACTTGTGTGGGCTTTGAGAGGTG
1 TCCTGCTCTTTGAGGACTG-AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
42078 TCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
* *
42133 TCCTGCTCGTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
*
42188 TCCTGCTCTTTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTT-AAGAGGTG
1 TCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAA-AGGTG
42243 TCCTGCTCTTTGAGGACT
1 TCCTGCTCTTTGAGGACT
42261 AAAAAGCGGA
Statistics
Matches: 736, Mismatches: 36, Indels: 38
0.91 0.04 0.05
Matches are distributed among these distances:
54 13 0.02
55 556 0.76
56 163 0.22
57 4 0.01
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.29
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTG
Found at i:41907 original size:166 final size:166
Alignment explanation
Indices: 41415--42261 Score: 1339
Period size: 166 Copynumber: 5.1 Consensus size: 166
41405 ATAAATTGTA
* * * * * *
41415 TCCTGCTCATTGAGGAGTAAAAAGTGCCACCAACTCGTGTGGGCTTTGAA-AGGCGTCCTGCTCT
1 TCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCT
* * * *
41479 TTGAGGACT-GAAAGGTGCCACCCACTTGTGTGGGCTTTGAAAAGTGTCCTGCTCTTTGGGGAAT
65 TTGAGGACTGGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACT
*
41543 GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTG
130 GAAAGGTGCCACCAACTTGTGTGGGCTTTGAGAGGTG
* ** *
41580 TCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGTTCT
1 TCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCT
*
41644 TTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACT
65 TTGAGGACTGGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACT
**
41708 GAAAAATGCCACCAACTTGTGTGGGCTTTGAGAGGTG
130 GAAAGGTGCCACCAACTTGTGTGGGCTTTGAGAGGTG
*
41745 TCCTGCTCTTTGAGGACTAGAAGGCGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTT
* *
41810 TGAGGACTGGAAAGGTGCCACCAACTTGTGTGGGCTTTGAGAGGTGTCCTGCTCTTTGAGGATTG
66 TGAGGACTGGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTG
41875 AAAGGTGCCACCAACTTGTGTGGGCTTTGAGAGGTG
131 AAAGGTGCCACCAACTTGTGTGGGCTTTGAGAGGTG
*
41911 TCCTGCTCTTTGAGGACTAGAAGGCGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTT
1 TCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTT
* *
41976 TGAGGACTGGAAAGGTGCCACCAACTTGTGTGGGCTTTGAGAGGTGTCCTGCTCTTTGGGGACTG
66 TGAGGACTGGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTG
42041 AAAAGGTGCCACCAACTTGTGTGGGCTTTGAGAGGTG
131 -AAAGGTGCCACCAACTTGTGTGGGCTTTGAGAGGTG
* *
42078 TCCTGCTCTTTGGGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCG
1 TCCTGCTCTTTGAGGACTAG-AAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCT
*
42142 TTGAGGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACT
65 TTGAGGACTGGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACT
* *
42206 GGAAA-ATGCCACCAACTTGTGTGGGCTTTAAGAGGTG
130 -GAAAGGTGCCACCAACTTGTGTGGGCTTTGAGAGGTG
42243 TCCTGCTCTTTGAGGACTA
1 TCCTGCTCTTTGAGGACTA
42262 AAAAGCGGAA
Statistics
Matches: 638, Mismatches: 37, Indels: 13
0.93 0.05 0.02
Matches are distributed among these distances:
164 2 0.00
165 261 0.41
166 265 0.42
167 110 0.17
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.29
Consensus pattern (166 bp):
TCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTT
TGAGGACTGGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTG
AAAGGTGCCACCAACTTGTGTGGGCTTTGAGAGGTG
Found at i:42102 original size:26 final size:26
Alignment explanation
Indices: 42017--42103 Score: 70
Period size: 29 Copynumber: 3.2 Consensus size: 26
42007 GGGCTTTGAG
42017 AGGTGTCCTGCTCTTTGGGGACTGAAA
1 AGGTGTCCTGCTCTTTGGGGACTG-AA
** * *
42044 AGGTG-CCACCAACTTGTGTGGG-CTTTGAG
1 AGGTGTCCTGC-TCTT-TG-GGGAC--TGAA
42073 AGGTGTCCTGCTCTTTGGGGACTGAA
1 AGGTGTCCTGCTCTTTGGGGACTGAA
42099 AGGTG
1 AGGTG
42104 CCACCAACTT
Statistics
Matches: 45, Mismatches: 8, Indels: 15
0.66 0.12 0.22
Matches are distributed among these distances:
26 11 0.24
27 11 0.24
28 6 0.13
29 12 0.27
30 5 0.11
ACGTcount: A:0.17, C:0.18, G:0.36, T:0.29
Consensus pattern (26 bp):
AGGTGTCCTGCTCTTTGGGGACTGAA
Found at i:43243 original size:1 final size:1
Alignment explanation
Indices: 43225--43299 Score: 96
Period size: 1 Copynumber: 75.0 Consensus size: 1
43215 CTTAAGTAGG
* * * * * *
43225 TTTTTTCTTTTCTCTTTTTTTTTTGTTTTTTTTGTTTTTTTTTTGTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
43290 TTTTTTTTTT
1 TTTTTTTTTT
43300 GAAGAGAAGG
Statistics
Matches: 62, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
1 62 1.00
ACGTcount: A:0.00, C:0.04, G:0.04, T:0.92
Consensus pattern (1 bp):
T
Done.