Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 16 of 185
Found at i:4376371 original size:20 final size:21
Alignment explanation
Indices: 4376340--4376379 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
4376330 ATTCGTGTTT
4376340 TCGTGTTTTCAAAAAAAAATC
1 TCGTGTTTTCAAAAAAAAATC
4376361 TCGTG-TTTCAAAAAAAAAT
1 TCGTGTTTTCAAAAAAAAAT
4376380 AAAAAAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (21 bp):
TCGTGTTTTCAAAAAAAAATC
Found at i:4376385 original size:9 final size:9
Alignment explanation
Indices: 4376371--4376399 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
4376361 TCGTGTTTCA
4376371 AAAAAAAAT
1 AAAAAAAAT
4376380 AAAAAAAAT
1 AAAAAAAAT
4376389 AAAAAAAAT
1 AAAAAAAAT
4376398 AA
1 AA
4376400 TTCTCGTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:4376555 original size:17 final size:17
Alignment explanation
Indices: 4376487--4376904 Score: 194
Period size: 17 Copynumber: 24.3 Consensus size: 17
4376477 GTGTTTTTTG
4376487 AAAAATTTTCGTGTTTTC
1 AAAAATTTTCGTG-TTTC
4376505 AAAAATCTTT-GTGTTTTC
1 AAAAAT-TTTCGTG-TTTC
* * *
4376523 AAAAATTCTGGCGTTTC
1 AAAAATTTTCGTGTTTC
*
4376540 AAAAATTTTCGTGTTTAAA
1 AAAAATTTTCGTGTTT--C
*
4376559 AAAAATTTACGTGTTTTC
1 AAAAATTTTCGTG-TTTC
* *
4376577 ACAAATTTTTGTGTTTC
1 AAAAATTTTCGTGTTTC
* *
4376594 ACAAATTCTCGTGTTTTC
1 AAAAATTTTCGTG-TTTC
* *
4376612 AAAAA-CTCCAGTGTTTC
1 AAAAATTTTC-GTGTTTC
* * *
4376629 -AAAGTTTCCATGTTTTC
1 AAAAATTTTCGTG-TTTC
* * *
4376646 AAAAATTCTCGCGTTTA
1 AAAAATTTTCGTGTTTC
**
4376663 AAAAAAATTCGTGTTTC
1 AAAAATTTTCGTGTTTC
* **
4376680 AAAATATTCTCGCATTTC
1 AAAA-ATTTTCGTGTTTC
*
4376698 ---AATTTT--TGTTTT
1 AAAAATTTTCGTGTTTC
**
4376710 TTAAA---TCGTGTTTC
1 AAAAATTTTCGTGTTTC
* * *
4376724 AAAAAATGTCGTGTTTT
1 AAAAATTTTCGTGTTTC
4376741 AAAAATTTTCGTGTTTC
1 AAAAATTTTCGTGTTTC
* * * *
4376758 TAAAATTTCCCTGTTTT
1 AAAAATTTTCGTGTTTC
**
4376775 AAAAATTCCCGTGTTTC
1 AAAAATTTTCGTGTTTC
* * *
4376792 AAAAAAAAATGTCGTGTTTT
1 ---AAAAATTTTCGTGTTTC
* *
4376812 AAGAAAATTTCGTTTTTTC
1 AA-AAATTTTCG-TGTTTC
4376831 TAAAAATTTTCGTGTTTC
1 -AAAAATTTTCGTGTTTC
*
4376849 TAAAATTTTCGTGTTT-
1 AAAAATTTTCGTGTTTC
* *
4376865 ACAAATTCTCGTGTTTTC
1 AAAAATTTTCGTG-TTTC
* * *
4376883 AAAAATTCTCGTATTTT
1 AAAAATTTTCGTGTTTC
4376900 AAAAA
1 AAAAA
4376905 AAAAACTTTC
Statistics
Matches: 302, Mismatches: 71, Indels: 55
0.71 0.17 0.13
Matches are distributed among these distances:
12 4 0.01
14 12 0.04
15 3 0.01
16 15 0.05
17 141 0.47
18 82 0.27
19 27 0.09
20 18 0.06
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.44
Consensus pattern (17 bp):
AAAAATTTTCGTGTTTC
Found at i:4376573 original size:54 final size:53
Alignment explanation
Indices: 4376487--4376891 Score: 145
Period size: 54 Copynumber: 7.8 Consensus size: 53
4376477 GTGTTTTTTG
** *
4376487 AAAAATTTTCGTGTTTTCAAAAATCTTTGTGTTTTCAAAAATTCTGGCGTTTC
1 AAAAATTTTCGTGTTTAAAAAAATCTTCGTGTTTTCAAAAATTCTGGCGTTTC
* * * *
4376540 AAAAATTTTCGTGTTTAAAAAAAAT-TTACGTGTTTTCACAAATTTTTGTGTTTC
1 AAAAATTTTCGTGTTT-AAAAAAATCTT-CGTGTTTTCAAAAATTCTGGCGTTTC
* * ** * ** *
4376594 ACAAATTCTCGTGTTTTCAAAAA-CTCCAGTG-TTTCAAAGTTTCCAT-G-TTTTC
1 AAAAATTTTCGTGTTTAAAAAAATCTTC-GTGTTTTCAAAAATT-C-TGGCGTTTC
* * * * *
4376646 AAAAATTCTCGCGTTTAAAAAAA-ATTCGTG-TTTCAAAATATTCTCGCATTTC
1 AAAAATTTTCGTGTTTAAAAAAATCTTCGTGTTTTCAAAA-ATTCTGGCGTTTC
*** * * * * *
4376698 ---AATTTT--TGTTT-TTTAAA---TCGTG-TTTCAAAAAATGTCGTGTTTT
1 AAAAATTTTCGTGTTTAAAAAAATCTTCGTGTTTTCAAAAATTCTGGCGTTTC
** * ** *
4376741 AAAAATTTTCGTGTTT-CTAAAAT-TTCCCTGTTTT-AAAAATTCCCGTGTTTC
1 AAAAATTTTCGTGTTTAAAAAAATCTT-CGTGTTTTCAAAAATTCTGGCGTTTC
* * * * * * *
4376792 AAAAAAAAATGTCGTGTTTTAAGAAAAT-TTCGTTTTTTCTAAAAATTTTCGTGTTTC
1 ---AAAAATTTTCGTG-TTTAAAAAAATCTTCGTGTTTTC-AAAAATTCTGGCGTTTC
* * *
4376849 TAAAATTTTCGTGTTT-ACAAATTC-TCGTGTTTTCAAAAATTCT
1 AAAAATTTTCGTGTTTAAAAAAATCTTCGTGTTTTCAAAAATTCT
4376892 CGTATTTTAA
Statistics
Matches: 268, Mismatches: 58, Indels: 54
0.71 0.15 0.14
Matches are distributed among these distances:
43 8 0.03
44 13 0.05
46 9 0.03
47 4 0.01
48 9 0.03
49 5 0.02
50 2 0.01
51 36 0.13
52 57 0.21
53 31 0.12
54 63 0.24
55 9 0.03
56 7 0.03
57 15 0.06
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.44
Consensus pattern (53 bp):
AAAAATTTTCGTGTTTAAAAAAATCTTCGTGTTTTCAAAAATTCTGGCGTTTC
Found at i:4376626 original size:72 final size:72
Alignment explanation
Indices: 4376487--4376627 Score: 178
Period size: 72 Copynumber: 2.0 Consensus size: 72
4376477 GTGTTTTTTG
* * * *
4376487 AAAAATTTTCGTGTTTTCAAAAATCTTTGTGTTTTCAAAAATTCTGGCGTTTCAAAAATTTTCGT
1 AAAAATTTACGTGTTTTCAAAAATCTTTGTGTTTTCAAAAATTCTCGCGTTTCAAAAATCTCCGT
4376552 GTTTAAA
66 GTTTAAA
* * * *
4376559 AAAAATTTACGTGTTTTCACAAATTTTTGTG-TTTCACAAATTCTCGTGTTTTCAAAAA-CTCCA
1 AAAAATTTACGTGTTTTCAAAAATCTTTGTGTTTTCAAAAATTCTCGCG-TTTCAAAAATCTCC-
4376622 GTGTTT
64 GTGTTT
4376628 CAAAGTTTCC
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
71 16 0.27
72 43 0.73
ACGTcount: A:0.30, C:0.13, G:0.12, T:0.44
Consensus pattern (72 bp):
AAAAATTTACGTGTTTTCAAAAATCTTTGTGTTTTCAAAAATTCTCGCGTTTCAAAAATCTCCGT
GTTTAAA
Found at i:4376905 original size:18 final size:18
Alignment explanation
Indices: 4376867--4376905 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
4376857 TCGTGTTTAC
* *
4376867 AAATTCTCGTGTTTTCAA
1 AAATTCTCGTATTTTAAA
4376885 AAATTCTCGTATTTTAAA
1 AAATTCTCGTATTTTAAA
4376903 AAA
1 AAA
4376906 AAAACTTTCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.41
Consensus pattern (18 bp):
AAATTCTCGTATTTTAAA
Found at i:4382386 original size:11 final size:11
Alignment explanation
Indices: 4382370--4382395 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
4382360 TACTTATCTT
4382370 TTTTCTTATCA
1 TTTTCTTATCA
4382381 TTTTCTTATCA
1 TTTTCTTATCA
4382392 TTTT
1 TTTT
4382396 AACTTTTGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.69
Consensus pattern (11 bp):
TTTTCTTATCA
Found at i:4404268 original size:37 final size:37
Alignment explanation
Indices: 4404227--4404303 Score: 84
Period size: 37 Copynumber: 2.1 Consensus size: 37
4404217 ATTCCCTGGA
* * *
4404227 AAAAGAAGATAG-GGATGAACATGAGTGATTCTCTGCC
1 AAAAGAA-ATAGAAGATGAACATGAGTGATTCCCCGCC
* * *
4404264 AAAAGCAATCGAAGATGAATATGAGTGATTCCCCGCC
1 AAAAGAAATAGAAGATGAACATGAGTGATTCCCCGCC
4404301 AAA
1 AAA
4404304 TGCGGACGAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
36 3 0.09
37 30 0.91
ACGTcount: A:0.40, C:0.17, G:0.23, T:0.19
Consensus pattern (37 bp):
AAAAGAAATAGAAGATGAACATGAGTGATTCCCCGCC
Found at i:4404611 original size:21 final size:21
Alignment explanation
Indices: 4404572--4404611 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
4404562 AAATTTAATG
* *
4404572 TTAAAAAAATTTCTTAAATTA
1 TTAAAAAAATTTATAAAATTA
*
4404593 TTAAGAAAATTTATAAAAT
1 TTAAAAAAATTTATAAAAT
4404612 ATCAAAGTAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.40
Consensus pattern (21 bp):
TTAAAAAAATTTATAAAATTA
Found at i:4404849 original size:30 final size:32
Alignment explanation
Indices: 4404791--4404849 Score: 77
Period size: 30 Copynumber: 1.9 Consensus size: 32
4404781 TATTCTTGTT
*
4404791 TATATTCTTTACAAATTATTTTTGAATTTTGA
1 TATATTCTTTACAAATTATTTTTAAATTTTGA
* *
4404823 TATATTC-TTA-AATTTTTTTTTAAATTT
1 TATATTCTTTACAAATTATTTTTAAATTT
4404850 CAAGAATTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 14 0.58
31 3 0.12
32 7 0.29
ACGTcount: A:0.31, C:0.05, G:0.03, T:0.61
Consensus pattern (32 bp):
TATATTCTTTACAAATTATTTTTAAATTTTGA
Found at i:4406954 original size:18 final size:18
Alignment explanation
Indices: 4406933--4407042 Score: 96
Period size: 18 Copynumber: 6.1 Consensus size: 18
4406923 AGTCACTCTT
4406933 TAACAGTCAGTTATTCAG
1 TAACAGTCAGTTATTCAG
* * *
4406951 TAAC-GATAAATTATTTAG
1 TAACAG-TCAGTTATTCAG
* ** **
4406969 TAACAATCTTTTACACAG
1 TAACAGTCAGTTATTCAG
* *
4406987 TAGCAGTCAGTTATCCAG
1 TAACAGTCAGTTATTCAG
4407005 TAACAGTCAGTTATTCAG
1 TAACAGTCAGTTATTCAG
* *
4407023 TAGCAGTCAATTATTCAG
1 TAACAGTCAGTTATTCAG
4407041 TA
1 TA
4407043 CCTTTATTTA
Statistics
Matches: 70, Mismatches: 20, Indels: 4
0.74 0.21 0.04
Matches are distributed among these distances:
17 1 0.01
18 69 0.99
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (18 bp):
TAACAGTCAGTTATTCAG
Found at i:4407234 original size:51 final size:54
Alignment explanation
Indices: 4407130--4407244 Score: 148
Period size: 51 Copynumber: 2.2 Consensus size: 54
4407120 GTGTAACGGT
* * *
4407130 AACAGTAACAGTAACAATAGCGGTACATAGAGTACCTCATCGGAACAAATCCGG
1 AACAGTAACAATAACAATAGAGGTACATAGAGTACCTCATCGAAACAAATCCGG
* *
4407184 AACAGTAACAATAACAGTA-AGGTACA-A-AGTACCTC-TCCGAAACGAATCCGG
1 AACAGTAACAATAACAATAGAGGTACATAGAGTACCTCAT-CGAAACAAATCCGG
4407235 AACAGTAACA
1 AACAGTAACA
4407245 GTAAGGTGAC
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
50 1 0.02
51 30 0.55
52 1 0.02
53 6 0.11
54 17 0.31
ACGTcount: A:0.43, C:0.23, G:0.18, T:0.16
Consensus pattern (54 bp):
AACAGTAACAATAACAATAGAGGTACATAGAGTACCTCATCGAAACAAATCCGG
Found at i:4408535 original size:31 final size:32
Alignment explanation
Indices: 4408479--4408541 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
4408469 TACATTTGTC
*
4408479 ATAATTTAATTTATTTATTACATAAAAATCTT
1 ATAATATAATTTATTTATTACATAAAAATCTT
*
4408511 ATAATATAA-TTATTTAATTA-ATAAATATCTT
1 ATAATATAATTTATTT-ATTACATAAAAATCTT
4408542 TTACTTAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 16 0.57
32 12 0.43
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (32 bp):
ATAATATAATTTATTTATTACATAAAAATCTT
Found at i:4408549 original size:18 final size:19
Alignment explanation
Indices: 4408521--4408574 Score: 67
Period size: 18 Copynumber: 2.9 Consensus size: 19
4408511 ATAATATAAT
4408521 TATTTAATTAATAAATATC
1 TATTTAATTAATAAATATC
* *
4408540 T-TTTACTTAATAATTATC
1 TATTTAATTAATAAATATC
4408558 TATTTAA-TAATTAAATA
1 TATTTAATTAA-TAAATA
4408575 CAAGTATTAC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 19 0.66
19 10 0.34
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (19 bp):
TATTTAATTAATAAATATC
Found at i:4412998 original size:16 final size:18
Alignment explanation
Indices: 4412963--4413000 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
4412953 ATCCTTATTT
*
4412963 AAATCAAATACAATAGTA
1 AAATAAAATACAATAGTA
4412981 AAATAAAATA-AA-AGTA
1 AAATAAAATACAATAGTA
4412997 AAAT
1 AAAT
4413001 CCATATAGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 2 0.11
18 9 0.47
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.21
Consensus pattern (18 bp):
AAATAAAATACAATAGTA
Found at i:4417403 original size:28 final size:28
Alignment explanation
Indices: 4417363--4417441 Score: 95
Period size: 28 Copynumber: 2.8 Consensus size: 28
4417353 GCAATCAAAT
*
4417363 ATGGCACTCAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* *
4417391 ATGGCACTTAGTGTTCGAGATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* * **
4417419 ACGACACTTAGTGTGTGAAATAT
1 ATGGCACTTAGTGTACGAAATAT
4417442 CGAATGATTC
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (28 bp):
ATGGCACTTAGTGTACGAAATATTGAGA
Found at i:4417882 original size:21 final size:22
Alignment explanation
Indices: 4417851--4417891 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
4417841 GAATGTATTG
*
4417851 TGATGTATGTGGAAATGAAATA
1 TGATGTATGTGCAAATGAAATA
*
4417873 TGAT-TATGTGCTAATGAAA
1 TGATGTATGTGCAAATGAAA
4417892 CATAAATGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.39, C:0.02, G:0.24, T:0.34
Consensus pattern (22 bp):
TGATGTATGTGCAAATGAAATA
Found at i:4420380 original size:32 final size:32
Alignment explanation
Indices: 4420339--4420405 Score: 125
Period size: 32 Copynumber: 2.1 Consensus size: 32
4420329 AAAATAAAAC
4420339 AAAAAAAAAATCAAAGACTAACAGGGAAATTT
1 AAAAAAAAAATCAAAGACTAACAGGGAAATTT
*
4420371 AAAAAAAAAATGAAAGACTAACAGGGAAATTT
1 AAAAAAAAAATCAAAGACTAACAGGGAAATTT
4420403 AAA
1 AAA
4420406 GAAATTTGTT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.64, C:0.07, G:0.13, T:0.15
Consensus pattern (32 bp):
AAAAAAAAAATCAAAGACTAACAGGGAAATTT
Found at i:4421382 original size:20 final size:20
Alignment explanation
Indices: 4421344--4421382 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4421334 TTTAGAAATC
* *
4421344 ATACCAAAAATTACGAGTAA
1 ATACCAAAAAATACAAGTAA
*
4421364 ATACCAAAAAATATAAGTA
1 ATACCAAAAAATACAAGTA
4421383 TGTATAAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.59, C:0.13, G:0.08, T:0.21
Consensus pattern (20 bp):
ATACCAAAAAATACAAGTAA
Found at i:4421487 original size:20 final size:24
Alignment explanation
Indices: 4421450--4421497 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 24
4421440 TATTCCCTAT
*
4421450 TTTTTTTTAGCATACCCTTAT-AA
1 TTTTTTTTAGCATACCCTAATAAA
4421473 TTTTTTTTA-C-T-CCCTAATAAA
1 TTTTTTTTAGCATACCCTAATAAA
4421494 TTTT
1 TTTT
4421498 GATTTTGGTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 6 0.26
21 7 0.30
22 1 0.04
23 9 0.39
ACGTcount: A:0.25, C:0.17, G:0.02, T:0.56
Consensus pattern (24 bp):
TTTTTTTTAGCATACCCTAATAAA
Found at i:4421600 original size:21 final size:21
Alignment explanation
Indices: 4421555--4421601 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
4421545 GTATGCTTTT
* * * *
4421555 AAAATTAATTTTTTGTTTGAG
1 AAAATCAATTTTTTGTATAAA
4421576 AAAATCAATTTTTTGTATAAA
1 AAAATCAATTTTTTGTATAAA
4421597 AAAAT
1 AAAAT
4421602 TTGTACAATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.45, C:0.02, G:0.09, T:0.45
Consensus pattern (21 bp):
AAAATCAATTTTTTGTATAAA
Found at i:4422229 original size:20 final size:21
Alignment explanation
Indices: 4422206--4422287 Score: 71
Period size: 20 Copynumber: 4.0 Consensus size: 21
4422196 TATATAAACA
4422206 AATACCAAAAATTATA-AGAG
1 AATACCAAAAATTATATAGAG
* * *
4422226 AATA-CAAAAAGTATATATAA
1 AATACCAAAAATTATATAGAG
* * * *
4422246 AATATCAAAAATCAT-GAGAT
1 AATACCAAAAATTATATAGAG
*
4422266 TATACCAAAAATTATATAGAG
1 AATACCAAAAATTATATAGAG
4422287 A
1 A
4422288 TGCAAAATAT
Statistics
Matches: 45, Mismatches: 14, Indels: 5
0.70 0.22 0.08
Matches are distributed among these distances:
19 10 0.22
20 24 0.53
21 11 0.24
ACGTcount: A:0.59, C:0.09, G:0.09, T:0.24
Consensus pattern (21 bp):
AATACCAAAAATTATATAGAG
Found at i:4424378 original size:29 final size:29
Alignment explanation
Indices: 4424336--4424394 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
4424326 TGTTAAATCC
*
4424336 AAGATGATGAAATCACATGGAACCTCTCT
1 AAGATGATGAAATCACATGGAACCGCTCT
*
4424365 AAGATGATGAAATCACATGGCACCGCTCT
1 AAGATGATGAAATCACATGGAACCGCTCT
4424394 A
1 A
4424395 GAAAGAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (29 bp):
AAGATGATGAAATCACATGGAACCGCTCT
Found at i:4431323 original size:7 final size:7
Alignment explanation
Indices: 4431293--4431340 Score: 60
Period size: 7 Copynumber: 6.3 Consensus size: 7
4431283 CCAAAAGTTA
4431293 TATTTAT
1 TATTTAT
4431300 TATCTTAT
1 TAT-TTAT
4431308 TATCTTTTAT
1 TA---TTTAT
4431318 TATTTAT
1 TATTTAT
4431325 TATTTAT
1 TATTTAT
4431332 TATTTAT
1 TATTTAT
4431339 TA
1 TA
4431341 GTCTATTGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
7 24 0.65
8 6 0.16
10 6 0.16
11 1 0.03
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (7 bp):
TATTTAT
Found at i:4437107 original size:23 final size:23
Alignment explanation
Indices: 4437054--4437151 Score: 63
Period size: 23 Copynumber: 4.3 Consensus size: 23
4437044 AAAATCGATA
*
4437054 ATTTGCACCAGAGTGCCACTGTT
1 ATTTGCACCAGAGTGCCACTGTC
* * * * *
4437077 ATTCGCACGAGCGTGCTATTGTC
1 ATTTGCACCAGAGTGCCACTGTC
* *
4437100 ATTTGCA-CTGAAGTGCCACTATC
1 ATTTGCACCAG-AGTGCCACTGTC
* * * * *
4437123 ACTTGCATCATAGTGTCACTATC
1 ATTTGCACCAGAGTGCCACTGTC
4437146 ATTTGC
1 ATTTGC
4437152 GCACATAAAA
Statistics
Matches: 55, Mismatches: 18, Indels: 4
0.71 0.23 0.05
Matches are distributed among these distances:
22 1 0.02
23 53 0.96
24 1 0.02
ACGTcount: A:0.22, C:0.26, G:0.19, T:0.33
Consensus pattern (23 bp):
ATTTGCACCAGAGTGCCACTGTC
Found at i:4440080 original size:15 final size:15
Alignment explanation
Indices: 4440060--4440089 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
4440050 ATGCTAATAG
4440060 GTATAATGATTTTTT
1 GTATAATGATTTTTT
4440075 GTATAATGATTTTTT
1 GTATAATGATTTTTT
4440090 TGACCTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.13, T:0.60
Consensus pattern (15 bp):
GTATAATGATTTTTT
Found at i:4440288 original size:9 final size:9
Alignment explanation
Indices: 4440276--4440352 Score: 52
Period size: 9 Copynumber: 8.4 Consensus size: 9
4440266 AGTAAAAACT
4440276 ATTTTTATA
1 ATTTTTATA
4440285 ATTTTTAAATA
1 ATTTTT--ATA
* *
4440296 ATTTTAATG
1 ATTTTTATA
4440305 ATTTTT-T-
1 ATTTTTATA
*
4440312 ATTTTTAAA
1 ATTTTTATA
4440321 ATATTTT-TA
1 AT-TTTTATA
*
4440330 TATTTTTTTA
1 -ATTTTTATA
*
4440340 ATTTTTAAA
1 ATTTTTATA
4440349 ATTT
1 ATTT
4440353 AATCGAATCC
Statistics
Matches: 54, Mismatches: 7, Indels: 14
0.72 0.09 0.19
Matches are distributed among these distances:
7 6 0.11
8 1 0.02
9 31 0.57
10 8 0.15
11 8 0.15
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.65
Consensus pattern (9 bp):
ATTTTTATA
Found at i:4440326 original size:27 final size:28
Alignment explanation
Indices: 4440275--4440350 Score: 95
Period size: 27 Copynumber: 2.7 Consensus size: 28
4440265 TAGTAAAAAC
4440275 TATTTTTATAATTTTT-AAATAATTTTAA
1 TATTTTT-TAATTTTTAAAATAATTTTAA
*
4440303 TGATTTTTT-ATTTTTAAAAT-ATTTTTA
1 T-ATTTTTTAATTTTTAAAATAATTTTAA
4440330 TATTTTTTTAATTTTTAAAAT
1 TA-TTTTTTAATTTTTAAAAT
4440351 TTAATCGAAT
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
26 1 0.02
27 19 0.44
28 17 0.40
29 6 0.14
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.64
Consensus pattern (28 bp):
TATTTTTTAATTTTTAAAATAATTTTAA
Found at i:4442465 original size:32 final size:32
Alignment explanation
Indices: 4442423--4442486 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
4442413 AGCAGCAACT
*
4442423 CTTTCTCTGACAAAGAAGAGATCTAATTCCAC
1 CTTTCCCTGACAAAGAAGAGATCTAATTCCAC
4442455 CTTTCCCTGACAAAGAAGAGATCTAATTCCAC
1 CTTTCCCTGACAAAGAAGAGATCTAATTCCAC
4442487 ATGTTTGAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.34, C:0.27, G:0.12, T:0.27
Consensus pattern (32 bp):
CTTTCCCTGACAAAGAAGAGATCTAATTCCAC
Found at i:4446746 original size:16 final size:17
Alignment explanation
Indices: 4446673--4446737 Score: 78
Period size: 17 Copynumber: 3.8 Consensus size: 17
4446663 TAATTCTTCT
* *
4446673 TGTTTCAAAAATTTTCA
1 TGTTTCAAAAATTTCCG
4446690 TGTCTTC-AAAATTTCACG
1 TGT-TTCAAAAATTTC-CG
*
4446708 TGCTTCAAAAATTTCCG
1 TGTTTCAAAAATTTCCG
4446725 TGTTTCAAAAATT
1 TGTTTCAAAAATT
4446738 CGTGTTTTCG
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
17 27 0.66
18 14 0.34
ACGTcount: A:0.32, C:0.17, G:0.09, T:0.42
Consensus pattern (17 bp):
TGTTTCAAAAATTTCCG
Found at i:4446790 original size:9 final size:9
Alignment explanation
Indices: 4446776--4446801 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
4446766 TTGTGTTTCA
4446776 AAAAAAAAT
1 AAAAAAAAT
4446785 AAAAAAAAT
1 AAAAAAAAT
4446794 AAAAAAAA
1 AAAAAAAA
4446802 ACGAACTGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (9 bp):
AAAAAAAAT
Found at i:4450018 original size:60 final size:60
Alignment explanation
Indices: 4449945--4450130 Score: 363
Period size: 60 Copynumber: 3.1 Consensus size: 60
4449935 CATCCTATAT
4449945 TCTCAATCCTCAATTTTCAATTTATTTCTAATTTTCTCAAATTTTATACTTTGTTTTACA
1 TCTCAATCCTCAATTTTCAATTTATTTCTAATTTTCTCAAATTTTATACTTTGTTTTACA
4450005 TCTCAATCCTCAATTTTCAATTTATTTCTAATTTTCTCAAATTTTATACTTTGTTTTACA
1 TCTCAATCCTCAATTTTCAATTTATTTCTAATTTTCTCAAATTTTATACTTTGTTTTACA
*
4450065 TCTCAATCCTCAATTTTCAATTTATTTCTAATTTTCTCAAATTGTATACTTTGTTTTACA
1 TCTCAATCCTCAATTTTCAATTTATTTCTAATTTTCTCAAATTTTATACTTTGTTTTACA
4450125 TCTCAA
1 TCTCAA
4450131 ATGTACAATT
Statistics
Matches: 125, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
60 125 1.00
ACGTcount: A:0.27, C:0.19, G:0.02, T:0.52
Consensus pattern (60 bp):
TCTCAATCCTCAATTTTCAATTTATTTCTAATTTTCTCAAATTTTATACTTTGTTTTACA
Found at i:4455554 original size:3 final size:3
Alignment explanation
Indices: 4455546--4455573 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
4455536 ATATTACTAG
4455546 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
4455574 AATAAAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:4461772 original size:54 final size:54
Alignment explanation
Indices: 4461690--4461814 Score: 189
Period size: 54 Copynumber: 2.3 Consensus size: 54
4461680 GAATGACCAA
*
4461690 CTCACTTTACAATG-GAAATTATTGGTTGTTGGTGGAGGTTTAGTGACAACAAGC
1 CTCACTTTCCAA-GAGAAATTATTGGTTGTTGGTGGAGGTTTAGTGACAACAAGC
* * *
4461744 CTCACTTTCCAAGAGAAATTGTTGGTTGTTTGTGGAGGTTTAGTGGCAACAAGC
1 CTCACTTTCCAAGAGAAATTATTGGTTGTTGGTGGAGGTTTAGTGACAACAAGC
*
4461798 CTCACTTTCTAAGAGAA
1 CTCACTTTCCAAGAGAA
4461815 GTTTCTAGTT
Statistics
Matches: 65, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
53 1 0.02
54 64 0.98
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (54 bp):
CTCACTTTCCAAGAGAAATTATTGGTTGTTGGTGGAGGTTTAGTGACAACAAGC
Found at i:4461837 original size:54 final size:54
Alignment explanation
Indices: 4461690--4461848 Score: 155
Period size: 54 Copynumber: 2.9 Consensus size: 54
4461680 GAATGACCAA
* * * *
4461690 CTCACTTTACAATG-GAAATTATTGGTTGT-TGGTGGAGGTTTAGTGACAACAAGC
1 CTCACTTTCCAA-GAGAAATTGTTAGTTGTAT-GTGAAGGTTTAGTGACAACAAGC
* * * *
4461744 CTCACTTTCCAAGAGAAATTGTTGGTTGTTTGTGGAGGTTTAGTGGCAACAAGC
1 CTCACTTTCCAAGAGAAATTGTTAGTTGTATGTGAAGGTTTAGTGACAACAAGC
* * *
4461798 CTCACTTTCTAAGAGAAGTT-TCTAGTTGTCAT-TGAAGGTTCAGTGACAACA
1 CTCACTTTCCAAGAGAAATTGT-TAGTTGT-ATGTGAAGGTTTAGTGACAACA
4461849 GGCACAAACA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
53 2 0.02
54 87 0.96
55 2 0.02
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (54 bp):
CTCACTTTCCAAGAGAAATTGTTAGTTGTATGTGAAGGTTTAGTGACAACAAGC
Found at i:4464966 original size:21 final size:21
Alignment explanation
Indices: 4464928--4464967 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
4464918 TTTATTAAGT
* * *
4464928 TAAATTTAAATTATTTTTTTA
1 TAAATTAAAATAAGTTTTTTA
4464949 TAAATTAAAATAAGTTTTT
1 TAAATTAAAATAAGTTTTT
4464968 GTCTTTATAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (21 bp):
TAAATTAAAATAAGTTTTTTA
Found at i:4466868 original size:38 final size:40
Alignment explanation
Indices: 4466817--4466899 Score: 134
Period size: 38 Copynumber: 2.1 Consensus size: 40
4466807 ATCATATGCA
4466817 TTTAATAATTTTATATTTC-AAAAA-AATAATATAATAGT
1 TTTAATAATTTTATATTTCAAAAAATAATAATATAATAGT
* *
4466855 TTTAATAATTTTATATTTCAAAAAATAATAATTTCATAGT
1 TTTAATAATTTTATATTTCAAAAAATAATAATATAATAGT
4466895 TTTAA
1 TTTAA
4466900 AATCATTTGA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
38 19 0.46
39 5 0.12
40 17 0.41
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (40 bp):
TTTAATAATTTTATATTTCAAAAAATAATAATATAATAGT
Found at i:4466901 original size:23 final size:23
Alignment explanation
Indices: 4466857--4466901 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
4466847 ATAATAGTTT
*
4466857 TAATAATTTTATATTTCAAAAAA
1 TAATAATTTCATATTTCAAAAAA
*
4466880 TAATAATTTCATAGTTTTAAAA
1 TAATAATTTCATA-TTTCAAAA
4466902 TCATTTGATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (23 bp):
TAATAATTTCATATTTCAAAAAA
Found at i:4470627 original size:49 final size:50
Alignment explanation
Indices: 4470522--4470697 Score: 264
Period size: 50 Copynumber: 3.5 Consensus size: 50
4470512 CCATGGCAAC
* *
4470522 AAGTGATAAGTGATAGCTTCGGCTACACTTATTTGATCAAGGAAAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
4470572 AAGTGATAAGTAATAGCTTCGGCTACA-TTATCTGATCAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
*
4470621 AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* * *
4470671 CAAGTGAAAAGTGGTAGCTTCTGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
4470698 CTGATCAGTG
Statistics
Matches: 114, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
49 44 0.39
50 47 0.41
51 23 0.20
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.27
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:4470711 original size:31 final size:31
Alignment explanation
Indices: 4470673--4470790 Score: 173
Period size: 31 Copynumber: 3.8 Consensus size: 31
4470663 ACAAATGACA
*
4470673 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
**
4470704 AGTGAAAAGTGGTAGCTTCGGCTATATGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
4470735 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
4470766 AGTGAATAGTGGTAGCTTCAGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
4470791 ATGTGACAAG
Statistics
Matches: 76, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 76 1.00
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:4470862 original size:47 final size:46
Alignment explanation
Indices: 4470809--4470980 Score: 173
Period size: 47 Copynumber: 3.7 Consensus size: 46
4470799 AGTGATTTCT
* * *
4470809 GTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCTAC
1 GTATAAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGATAC
* * * * * *
4470855 TGTATAAGACCATATCTTGGAAATGGCATCAGTGAGATATGTGATTC
1 -GTATAAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGATAC
* * * *
4470902 GTGTAAGACCATAGCTGGGCTATGGCGTCGATATGTGATATGTGATTAC
1 GTATAAGACCATAGCTGGGATATGGCATCG--GTGTGATATGTGA-TAC
* *
4470951 GTGTAAGACCATAGCTGGGCTATGGCATCG
1 GTATAAGACCATAGCTGGGATATGGCATCG
4470981 ATAGATGAAT
Statistics
Matches: 104, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
46 23 0.22
47 39 0.38
48 11 0.11
49 31 0.30
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (46 bp):
GTATAAGACCATAGCTGGGATATGGCATCGGTGTGATATGTGATAC
Found at i:4475523 original size:11 final size:11
Alignment explanation
Indices: 4475507--4475554 Score: 60
Period size: 11 Copynumber: 4.2 Consensus size: 11
4475497 ATTAGATAAA
4475507 TAATATTTTAT
1 TAATATTTTAT
4475518 TAATATTTTAAT
1 TAATATTTT-AT
* *
4475530 GAGATATTTTAC
1 TA-ATATTTTAT
4475542 TAATATTTTAT
1 TAATATTTTAT
4475553 TA
1 TA
4475555 TAAATAACTA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
11 19 0.61
12 5 0.16
13 7 0.23
ACGTcount: A:0.38, C:0.02, G:0.04, T:0.56
Consensus pattern (11 bp):
TAATATTTTAT
Found at i:4478249 original size:33 final size:33
Alignment explanation
Indices: 4478230--4478358 Score: 208
Period size: 33 Copynumber: 3.9 Consensus size: 33
4478220 TTATGTACAC
*
4478230 TTTGTGTATACCATATGAAAAGGAAAGGTATAC
1 TTTGTGTATACCATATGAAAAGGAAAGGTATAA
*
4478263 TTTGTGTATACCATATGAATAGGAAAGGTA-AA
1 TTTGTGTATACCATATGAAAAGGAAAGGTATAA
4478295 TGTTGTGTATACCATATGAAAAGGAAAGGTATAA
1 T-TTGTGTATACCATATGAAAAGGAAAGGTATAA
4478329 TTTGTGTATACCACT-TGAAAAGGAAAGGTA
1 TTTGTGTATACCA-TATGAAAAGGAAAGGTA
4478359 CACTATATGT
Statistics
Matches: 90, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
32 2 0.02
33 84 0.93
34 4 0.04
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.30
Consensus pattern (33 bp):
TTTGTGTATACCATATGAAAAGGAAAGGTATAA
Found at i:4478382 original size:32 final size:32
Alignment explanation
Indices: 4478209--4478383 Score: 110
Period size: 33 Copynumber: 5.3 Consensus size: 32
4478199 AAATGGTACA
** * * *
4478209 ACTTGAAAAGGTTATGTACACTTTGTGTATAC
1 ACTTGAAAAGGAAAGGTACAATATGTGTATAC
* * *
4478241 -CATATGAAAAGGAAAGGTATACTTTGTGTATAC
1 AC-T-TGAAAAGGAAAGGTACAATATGTGTATAC
* *
4478274 -CATATGAATAGGAAAGGTA-AATGTTGTGTATAC
1 AC-T-TGAAAAGGAAAGGTACAAT-ATGTGTATAC
* *
4478307 -CATATGAAAAGGAAAGGTATAATTTGTGTATACC
1 AC-T-TGAAAAGGAAAGGTACAATATGTGTATA-C
4478341 ACTTGAAAAGGAAAGGTACACTATATGTGTA-A-
1 ACTTGAAAAGGAAAGGTACA--ATATGTGTATAC
4478373 ACTTGAAAAGG
1 ACTTGAAAAGG
4478384 TTAATGTGCA
Statistics
Matches: 126, Mismatches: 9, Indels: 16
0.83 0.06 0.11
Matches are distributed among these distances:
31 1 0.01
32 14 0.11
33 96 0.76
34 6 0.05
35 9 0.07
ACGTcount: A:0.39, C:0.09, G:0.22, T:0.30
Consensus pattern (32 bp):
ACTTGAAAAGGAAAGGTACAATATGTGTATAC
Found at i:4478429 original size:33 final size:33
Alignment explanation
Indices: 4478343--4478429 Score: 81
Period size: 33 Copynumber: 2.7 Consensus size: 33
4478333 TGTATACCAC
* * * * *
4478343 TTGAAAAGG-AAAGGTACACTATATGTGTAAAC
1 TTGAAAAGGTTAATGTACACTTTAAGTGTAAAA
*
4478375 TTGAAAAGGTTAATGTGCACTTTAAGTGTACAAA
1 TTGAAAAGGTTAATGTACACTTTAAGTGTA-AAA
4478409 TTGAAAAAGG-T-ATGTACACTT
1 TTG-AAAAGGTTAATGTACACTT
4478430 CGTGTGTAAC
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
32 9 0.20
33 24 0.53
34 6 0.13
35 6 0.13
ACGTcount: A:0.40, C:0.09, G:0.21, T:0.30
Consensus pattern (33 bp):
TTGAAAAGGTTAATGTACACTTTAAGTGTAAAA
Found at i:4478470 original size:33 final size:33
Alignment explanation
Indices: 4478367--4478483 Score: 103
Period size: 33 Copynumber: 3.5 Consensus size: 33
4478357 TACACTATAT
* **
4478367 GTGTA-AACTTGAAAAGGTTAATGTGCACTTTAA
1 GTGTACAACTTGAAAAGG-GAATGTGCACTTCGA
* * * * *
4478400 GTGTACAAATTGAAAAAGGTATGTACACTTCGT
1 GTGTACAACTTGAAAAGGGAATGTGCACTTCGA
*
4478433 GTGTA-ACACTTGAAAAGGGAATGTGCACCTCGA
1 GTGTACA-ACTTGAAAAGGGAATGTGCACTTCGA
* *
4478466 GTGTACGACTAGAAAAGG
1 GTGTACAACTTGAAAAGG
4478484 AAAAGTCCAT
Statistics
Matches: 65, Mismatches: 16, Indels: 6
0.75 0.18 0.07
Matches are distributed among these distances:
32 1 0.02
33 54 0.83
34 10 0.15
ACGTcount: A:0.36, C:0.13, G:0.25, T:0.26
Consensus pattern (33 bp):
GTGTACAACTTGAAAAGGGAATGTGCACTTCGA
Found at i:4483154 original size:39 final size:38
Alignment explanation
Indices: 4483109--4483226 Score: 182
Period size: 39 Copynumber: 3.0 Consensus size: 38
4483099 ATCAAACTCA
4483109 ACCCAATTACACAACCCAATAAAACTAAAACTAAAGTCT
1 ACCCAATTAC-CAACCCAATAAAACTAAAACTAAAGTCT
4483148 ACCCAATTACCCAACCCAATAAAACTAAAACTAAAGTCT
1 ACCCAATTA-CCAACCCAATAAAACTAAAACTAAAGTCT
* **
4483187 ACCCAATTACCAGCCCAATAAAAAAAAAAACTAAAGTCT
1 ACCCAATTACCAACCCAAT-AAAACTAAAACTAAAGTCT
4483226 A
1 A
4483227 ACTCTACGCC
Statistics
Matches: 74, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
38 9 0.12
39 64 0.86
40 1 0.01
ACGTcount: A:0.52, C:0.28, G:0.03, T:0.17
Consensus pattern (38 bp):
ACCCAATTACCAACCCAATAAAACTAAAACTAAAGTCT
Found at i:4483395 original size:37 final size:37
Alignment explanation
Indices: 4483345--4483431 Score: 126
Period size: 36 Copynumber: 2.4 Consensus size: 37
4483335 CTTACATTTC
4483345 ATTATGT-GTTAATTTC-AAGAATTATGTAATGTTTTTA
1 ATTATGTAG-TAATTTCAAAGAATT-TGTAATGTTTTTA
*
4483382 ATTATGTAGTAA-TTCAAAGACTTTGTAATGTTTTTA
1 ATTATGTAGTAATTTCAAAGAATTTGTAATGTTTTTA
4483418 ATTATGTAGTAATT
1 ATTATGTAGTAATT
4483432 CAATTTGGTT
Statistics
Matches: 46, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
36 28 0.61
37 17 0.37
38 1 0.02
ACGTcount: A:0.33, C:0.03, G:0.14, T:0.49
Consensus pattern (37 bp):
ATTATGTAGTAATTTCAAAGAATTTGTAATGTTTTTA
Found at i:4486707 original size:163 final size:161
Alignment explanation
Indices: 4486416--4486742 Score: 496
Period size: 163 Copynumber: 2.0 Consensus size: 161
4486406 TCAAAACCCA
* *
4486416 AATTGGATGGAAATGCTAATGTCTGCAATAGCATTGTTAACTCCCATATGGCATTCAGTTAATGG
1 AATTGGATGGAAATGCTAATGTCTGCAATAGCATTCTTAACTCCCATATGGCATTCAGTTAATAG
* * *
4486481 TGTGGCAAATGCATACAAATATGATTTCCTAACATGTCACCTACAGTCACAAAAT-ATTTTTTTT
66 TGTGGCAAACGCATACAAAGATAATTTCCTAACATGTCACCTACAGTCACAAAATAATTTTTTTT
4486545 AAAATAATCATTTAACTTATTCAAGTTTTAATT
131 AAAATAATCATTTAACTT-TTCAAG-TTTAATT
* *
4486578 AATTGGATGGAAAATGCTAATGT-TAGCAATAGCATTCTTAACTCCTATATGGCATTCGGTTAAT
1 AATTGGATGG-AAATGCTAATGTCT-GCAATAGCATTCTTAACTCCCATATGGCATTCAGTTAAT
** * *
4486642 AGTGTGGCAAACGCATACAAAGATAATTTGTTAATATGTCACCTACAGTCAGAAAATAATTTTTT
64 AGTGTGGCAAACGCATACAAAGATAATTTCCTAACATGTCACCTACAGTCACAAAATAATTTTTT
*
4486707 TTTAAATAATCATTTAACTTTTCAAGTTTAATT
129 TTAAAATAATCATTTAACTTTTCAAGTTTAATT
4486740 AAT
1 AAT
4486743 CAAACTTAGT
Statistics
Matches: 150, Mismatches: 12, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
162 21 0.14
163 103 0.69
164 26 0.17
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (161 bp):
AATTGGATGGAAATGCTAATGTCTGCAATAGCATTCTTAACTCCCATATGGCATTCAGTTAATAG
TGTGGCAAACGCATACAAAGATAATTTCCTAACATGTCACCTACAGTCACAAAATAATTTTTTTT
AAAATAATCATTTAACTTTTCAAGTTTAATT
Found at i:4492277 original size:89 final size:89
Alignment explanation
Indices: 4491924--4492261 Score: 631
Period size: 89 Copynumber: 3.8 Consensus size: 89
4491914 CCATCACATT
4491924 GCATTTCCTTATCACTTAATCAATTATTGTATTATTAACCCTATTAGCCAGACATGGACTCGGTA
1 GCATTTCCTTATCACTTAATCAATTATTGTATTATTAACCCTATTAGCCAGACATGGACTCGGTA
4491989 CGGATATACGGACCAGTCACCCCG
66 CGGATATACGGACCAGTCACCCCG
4492013 GCATTTCCTTATCACTTAATCAATTATTGTATTATTAACCCTATTAGCCAGACATGGACTCGGTA
1 GCATTTCCTTATCACTTAATCAATTATTGTATTATTAACCCTATTAGCCAGACATGGACTCGGTA
4492078 CGGATATACGGACCAGTCACCCCG
66 CGGATATACGGACCAGTCACCCCG
4492102 GCATTTCCTTATCACTTAATCAATTATTGTATTATTAACCCTATTAGCCAGACATGGACTCGGTA
1 GCATTTCCTTATCACTTAATCAATTATTGTATTATTAACCCTATTAGCCAGACATGGACTCGGTA
4492167 CGGATATACGGACCAGTCACCCCG
66 CGGATATACGGACCAGTCACCCCG
* * * * *
4492191 GCATTTCCTTATCACTTAATCAATTATTGTATTATTAACCTTATTAACCAAACATAGACTCAGTA
1 GCATTTCCTTATCACTTAATCAATTATTGTATTATTAACCCTATTAGCCAGACATGGACTCGGTA
4492256 CGGATA
66 CGGATA
4492262 CTCGAATTCG
Statistics
Matches: 244, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
89 244 1.00
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.32
Consensus pattern (89 bp):
GCATTTCCTTATCACTTAATCAATTATTGTATTATTAACCCTATTAGCCAGACATGGACTCGGTA
CGGATATACGGACCAGTCACCCCG
Found at i:4493695 original size:105 final size:105
Alignment explanation
Indices: 4493513--4494039 Score: 1027
Period size: 105 Copynumber: 5.0 Consensus size: 105
4493503 GGAGGTCGAA
* *
4493513 TAAAAATAGAGTATTTGTTTTATTCCAAATTTGTGTGAGGCAAATTTTTGAGAGTAGAGTGATTC
1 TAAAAATAGAGTATTTGTTTTATTCCAAATTTTTGTGAGGCAAATTTTTGATAGTAGAGTGATTC
4493578 TTCTCTTACTATTTAGTTTGGAGTTTGTTACTTTCGAGGG
66 TTCTCTTACTATTTAGTTTGGAGTTTGTTACTTTCGAGGG
4493618 TAAAAATAGAGTATTTGTTTTATTCCAAATTTTTGTGAGGCAAATTTTTGATAGTAGAGTGATTC
1 TAAAAATAGAGTATTTGTTTTATTCCAAATTTTTGTGAGGCAAATTTTTGATAGTAGAGTGATTC
4493683 TTCTCTTACTATTTAGTTTGGAGTTTGTTACTTTCGAGGG
66 TTCTCTTACTATTTAGTTTGGAGTTTGTTACTTTCGAGGG
4493723 TAAAAATAGAGTATTTGTTTTATTCCAAATTTTTGTGAGGCAAATTTTTGATAGTAGAGTGATTC
1 TAAAAATAGAGTATTTGTTTTATTCCAAATTTTTGTGAGGCAAATTTTTGATAGTAGAGTGATTC
4493788 TTCTCTTACTATTTAGTTTGGAGTTTGTTACTTTCGAGGG
66 TTCTCTTACTATTTAGTTTGGAGTTTGTTACTTTCGAGGG
4493828 TAAAAATAGAGTATTTGTTTTATTCCAAATTTTTGTGAGGCAAATTTTTGATAGTAGAGTGATTC
1 TAAAAATAGAGTATTTGTTTTATTCCAAATTTTTGTGAGGCAAATTTTTGATAGTAGAGTGATTC
4493893 TTCTCTTACTATTTAGTTTGGAGTTTGTTACTTTCGAGGG
66 TTCTCTTACTATTTAGTTTGGAGTTTGTTACTTTCGAGGG
4493933 TAAAAATAGAGTATTTGTTTTATTCCAAATTTTTGTGAGGCAAATTTTTGATAGTAGAGTGATTC
1 TAAAAATAGAGTATTTGTTTTATTCCAAATTTTTGTGAGGCAAATTTTTGATAGTAGAGTGATTC
*
4493998 TTCTCTTACTATTTAGTTTGGAGTTTGTTACTTTTGAGGG
66 TTCTCTTACTATTTAGTTTGGAGTTTGTTACTTTCGAGGG
4494038 TA
1 TA
4494040 TTTCGGAGTT
Statistics
Matches: 419, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
105 419 1.00
ACGTcount: A:0.26, C:0.08, G:0.20, T:0.46
Consensus pattern (105 bp):
TAAAAATAGAGTATTTGTTTTATTCCAAATTTTTGTGAGGCAAATTTTTGATAGTAGAGTGATTC
TTCTCTTACTATTTAGTTTGGAGTTTGTTACTTTCGAGGG
Found at i:4494927 original size:44 final size:45
Alignment explanation
Indices: 4494879--4494966 Score: 133
Period size: 45 Copynumber: 2.0 Consensus size: 45
4494869 CGACTTTAAC
* **
4494879 GTGGGTTCTTTAACATC-TTCATTAAAACTTCCAACTTTGCCATT
1 GTGGGTTCTTTAAAATCTTTCACGAAAACTTCCAACTTTGCCATT
*
4494923 GTGGGTTCTTTAAAATCTTTTACGAAAACTTCCAACTTTGCCAT
1 GTGGGTTCTTTAAAATCTTTCACGAAAACTTCCAACTTTGCCAT
4494967 GGGTTTCCCT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
44 16 0.41
45 23 0.59
ACGTcount: A:0.26, C:0.22, G:0.12, T:0.40
Consensus pattern (45 bp):
GTGGGTTCTTTAAAATCTTTCACGAAAACTTCCAACTTTGCCATT
Found at i:4498718 original size:107 final size:107
Alignment explanation
Indices: 4498519--4498731 Score: 340
Period size: 107 Copynumber: 2.0 Consensus size: 107
4498509 AGAGTGCTTG
4498519 TTGAACATAAAAGTGTGCTCTGAACTATGGATTCATATGTTATGAGGCCCCATGCAATGGAAATA
1 TTGAACATAAAAGTGTGCTCTGAACTATGGATTCATATGTTATGAGGCCCCATGCAATGGAAATA
*
4498584 TGAAATTGCTCATATTTTCCCCTCTTAGTAAACCTTAGATGA
66 TGAAATTGCTAATATTTTCCCCTCTTAGTAAACCTTAGATGA
* * * *
4498626 TTGAGCATGAAAGTTTGCTCTGAATTATGGATTCATATGTTATGAGTG-CCCATGCAATGGAAAT
1 TTGAACATAAAAGTGTGCTCTGAACTATGGATTCATATGTTATGAG-GCCCCATGCAATGGAAAT
*
4498690 ATGAAATTGCTAATATTTTTTCCC-CTTAGTAAACCTTAGATG
65 ATGAAATTGCTAATA-TTTTCCCCTCTTAGTAAACCTTAGATG
4498732 TATTACATGC
Statistics
Matches: 98, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
107 90 0.92
108 8 0.08
ACGTcount: A:0.31, C:0.16, G:0.18, T:0.35
Consensus pattern (107 bp):
TTGAACATAAAAGTGTGCTCTGAACTATGGATTCATATGTTATGAGGCCCCATGCAATGGAAATA
TGAAATTGCTAATATTTTCCCCTCTTAGTAAACCTTAGATGA
Found at i:4506316 original size:59 final size:59
Alignment explanation
Indices: 4506223--4506423 Score: 174
Period size: 59 Copynumber: 3.4 Consensus size: 59
4506213 CCCTATATAG
* ** * * *
4506223 CACTTGTTCCCAAGTCCAAGCAAC-TTGTATTCAAACCCTATGCATTCATTCTATTCTAA
1 CACTTGTTCCCTAGTCCAAGCAACACAG-ACTCAAACTCTTTGCATTCATTCTATTCTAA
* ** * * *
4506282 CACTTGTTCCCTAGTCCAAGCAACACAGGCTCAAACTCTTTGCCCTCATTTTTTTCTAG
1 CACTTGTTCCCTAGTCCAAGCAACACAGACTCAAACTCTTTGCATTCATTCTATTCTAA
* * * * * *
4506341 CACTTGTTCACAAGTCCTAGCAACACATACTCAAACTCTTTGCATTTGA-TCTATTCCAA
1 CACTTGTTCCCTAGTCCAAGCAACACAGACTCAAACTCTTTGCA-TTCATTCTATTCTAA
* *
4506400 GACTTGTT-CCTAAGGCCAAGCAAC
1 CACTTGTTCCCT-AGTCCAAGCAAC
4506424 TAGAATGTCT
Statistics
Matches: 110, Mismatches: 29, Indels: 6
0.76 0.20 0.04
Matches are distributed among these distances:
58 1 0.01
59 106 0.96
60 3 0.03
ACGTcount: A:0.27, C:0.30, G:0.11, T:0.32
Consensus pattern (59 bp):
CACTTGTTCCCTAGTCCAAGCAACACAGACTCAAACTCTTTGCATTCATTCTATTCTAA
Found at i:4512406 original size:45 final size:45
Alignment explanation
Indices: 4512356--4512450 Score: 129
Period size: 46 Copynumber: 2.1 Consensus size: 45
4512346 TTGTTGATCA
* *
4512356 TACAAAATTCTTT-AAAAAATTTTAACTCTGTCACCTTGCTAATT
1 TACAAAATTCTTTCAAAAAACTTTAACCCTGTCACCTTGCTAATT
* * *
4512400 TCACAAAATTCTTTCAAAAAACTTTAACCCTTTGACCTTGCTCATT
1 T-ACAAAATTCTTTCAAAAAACTTTAACCCTGTCACCTTGCTAATT
4512446 TACAA
1 TACAA
4512451 CAAATTAGGT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
44 1 0.02
45 16 0.36
46 27 0.61
ACGTcount: A:0.36, C:0.22, G:0.04, T:0.38
Consensus pattern (45 bp):
TACAAAATTCTTTCAAAAAACTTTAACCCTGTCACCTTGCTAATT
Found at i:4522899 original size:45 final size:45
Alignment explanation
Indices: 4522843--4522939 Score: 140
Period size: 45 Copynumber: 2.2 Consensus size: 45
4522833 GCTTCAGAAG
* *
4522843 TGGCTCCAATGGTGTTCTTTGAGTGTTTCCTTCGATCTTATCTGA
1 TGGCTCCAATGGTGTTCCTTGAGTGTTTCCTTCGATCTGATCTGA
* * * *
4522888 TGGCTCTAATGGTGTTCCTTGAGTGTTTTCTTTGATCTGCTCTGA
1 TGGCTCCAATGGTGTTCCTTGAGTGTTTCCTTCGATCTGATCTGA
4522933 TGGCTCC
1 TGGCTCC
4522940 CCTGTCTCTT
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.11, C:0.21, G:0.24, T:0.44
Consensus pattern (45 bp):
TGGCTCCAATGGTGTTCCTTGAGTGTTTCCTTCGATCTGATCTGA
Found at i:4523101 original size:30 final size:30
Alignment explanation
Indices: 4523050--4523113 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
4523040 CACGGGCTGG
* * *
4523050 CACAGGGGCGTGTGTCCAGCCTATGTGTCT
1 CACAGGGGCATGTGCCCAGCCTATGTGGCT
*
4523080 CACATGGGCATGTGCCCAGCCTATGTGGCT
1 CACAGGGGCATGTGCCCAGCCTATGTGGCT
4523110 CACA
1 CACA
4523114 AAATCTGCCG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.17, C:0.30, G:0.30, T:0.23
Consensus pattern (30 bp):
CACAGGGGCATGTGCCCAGCCTATGTGGCT
Found at i:4524939 original size:6 final size:6
Alignment explanation
Indices: 4524928--4524996 Score: 75
Period size: 6 Copynumber: 11.0 Consensus size: 6
4524918 GTTTAAGAAC
*
4524928 ATAAAA ATAAAA TAGCTAAAA ATAAAA ATAAAA ATAAAA ATAAAA CTAAAA
1 ATAAAA ATAAAA -A--TAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA
* * *
4524979 CTAAAA CTAAAA CTAAAA
1 ATAAAA ATAAAA ATAAAA
4524997 GGAAAATAAA
Statistics
Matches: 59, Mismatches: 1, Indels: 6
0.89 0.02 0.09
Matches are distributed among these distances:
6 52 0.88
7 1 0.02
8 1 0.02
9 5 0.08
ACGTcount: A:0.74, C:0.07, G:0.01, T:0.17
Consensus pattern (6 bp):
ATAAAA
Found at i:4525002 original size:18 final size:17
Alignment explanation
Indices: 4524964--4525006 Score: 59
Period size: 18 Copynumber: 2.5 Consensus size: 17
4524954 AATAAAAATA
*
4524964 AAAATAAAACTAAAACT
1 AAAATAAAACTAAAACG
*
4524981 AAAACTAAAACTAAAAGG
1 AAAA-TAAAACTAAAACG
4524999 AAAATAAA
1 AAAATAAA
4525007 TAAACTCAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 8 0.35
18 15 0.65
ACGTcount: A:0.72, C:0.09, G:0.05, T:0.14
Consensus pattern (17 bp):
AAAATAAAACTAAAACG
Found at i:4526693 original size:20 final size:20
Alignment explanation
Indices: 4526668--4526713 Score: 67
Period size: 20 Copynumber: 2.3 Consensus size: 20
4526658 TGAGTTATTT
4526668 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
*
4526688 AAGTAAGAGAGTAAGTAAAG
1 AAGTAAGAGAGTAAGTAAAC
4526708 AAGTAA
1 AAGTAA
4526714 AGATCAAGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 1 0.04
20 23 0.96
ACGTcount: A:0.57, C:0.04, G:0.24, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:4530478 original size:27 final size:27
Alignment explanation
Indices: 4530448--4530502 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
4530438 GTCCAGGCCG
*
4530448 TGTGGACCATTTTAGGACTTATAACCT
1 TGTGAACCATTTTAGGACTTATAACCT
* *
4530475 TGTGAACCATTTTAGGCCTTGTAACCT
1 TGTGAACCATTTTAGGACTTATAACCT
4530502 T
1 T
4530503 CGAAAATTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.38
Consensus pattern (27 bp):
TGTGAACCATTTTAGGACTTATAACCT
Found at i:4535583 original size:51 final size:51
Alignment explanation
Indices: 4535495--4535694 Score: 242
Period size: 51 Copynumber: 3.9 Consensus size: 51
4535485 CCCTTATGAT
* *
4535495 CAATGCTATCCGGTACACATAGTAGCCTACACTTAGTACTACACATGTGAC
1 CAATACTATCCGGTACACATAGTAGCCTACACATAGTACTACACATGTGAC
* * * * *
4535546 CAATACCATCCGGTACACATAGTAGCCTGCACATAGTACTACATACGTAAC
1 CAATACTATCCGGTACACATAGTAGCCTACACATAGTACTACACATGTGAC
* * *
4535597 CAA-AGCTATCCGGTACACATAGTAGCTTGCACTTAGTACTACACATGTGAC
1 CAATA-CTATCCGGTACACATAGTAGCCTACACATAGTACTACACATGTGAC
*** *
4535648 C-ATAACTATCTTATACTCATAGTAGCCTACACATAGTACTACACATG
1 CAAT-ACTATCCGGTACACATAGTAGCCTACACATAGTACTACACATG
4535695 AGTTCTCATG
Statistics
Matches: 126, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
50 2 0.02
51 123 0.98
52 1 0.01
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.26
Consensus pattern (51 bp):
CAATACTATCCGGTACACATAGTAGCCTACACATAGTACTACACATGTGAC
Found at i:4535675 original size:102 final size:102
Alignment explanation
Indices: 4535499--4535690 Score: 296
Period size: 102 Copynumber: 1.9 Consensus size: 102
4535489 TATGATCAAT
*
4535499 GCTATCCGGTACACATAGTAGCCTACACTTAGTACTACACATGTGACCAATACCATCCGGTACAC
1 GCTATCCGGTACACATAGTAGCCTACACTTAGTACTACACATGTGACCAATACCATCCGATACAC
*
4535564 ATAGTAGCCTGCACATAGTACTACATACGTAACCAAA
66 ATAGTAGCCTACACATAGTACTACATACGTAACCAAA
* * * ** *
4535601 GCTATCCGGTACACATAGTAGCTTGCACTTAGTACTACACATGTGACC-ATAACTATCTTATACT
1 GCTATCCGGTACACATAGTAGCCTACACTTAGTACTACACATGTGACCAAT-ACCATCCGATACA
4535665 CATAGTAGCCTACACATAGTACTACA
65 CATAGTAGCCTACACATAGTACTACA
4535691 CATGAGTTCT
Statistics
Matches: 81, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
101 2 0.02
102 79 0.98
ACGTcount: A:0.33, C:0.27, G:0.14, T:0.26
Consensus pattern (102 bp):
GCTATCCGGTACACATAGTAGCCTACACTTAGTACTACACATGTGACCAATACCATCCGATACAC
ATAGTAGCCTACACATAGTACTACATACGTAACCAAA
Found at i:4540967 original size:25 final size:25
Alignment explanation
Indices: 4540939--4540986 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
4540929 TCTCTCTCTC
* *
4540939 GAGCCATATAACGGGAATCTCATGT
1 GAGCCATATAACAGGAAGCTCATGT
*
4540964 GAGCCATGTAACAGGAAGCTCAT
1 GAGCCATATAACAGGAAGCTCAT
4540987 AAAGGCTATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (25 bp):
GAGCCATATAACAGGAAGCTCATGT
Found at i:4541201 original size:13 final size:13
Alignment explanation
Indices: 4541183--4541212 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
4541173 CAGTGACGAT
4541183 TTATTTGAAATGG
1 TTATTTGAAATGG
4541196 TTATTTGAAATGG
1 TTATTTGAAATGG
4541209 TTAT
1 TTAT
4541213 GGGATCATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (13 bp):
TTATTTGAAATGG
Found at i:4543318 original size:34 final size:34
Alignment explanation
Indices: 4543272--4543373 Score: 123
Period size: 34 Copynumber: 3.0 Consensus size: 34
4543262 TTCTGGATCA
* *
4543272 ATTATCTCATACGAGCATTTGGTGTGCTAGATGG
1 ATTAGCTCATACGAGTATTTGGTGTGCTAGATGG
* * * * *
4543306 ATTAGGTTATACGAGTATTTAGTGTGTTGGATGG
1 ATTAGCTCATACGAGTATTTGGTGTGCTAGATGG
* *
4543340 ATTAGCTCATACGAGTATCTGGTGTGCTAAATGG
1 ATTAGCTCATACGAGTATTTGGTGTGCTAGATGG
4543374 TTAATCGTGT
Statistics
Matches: 54, Mismatches: 14, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
34 54 1.00
ACGTcount: A:0.25, C:0.11, G:0.28, T:0.36
Consensus pattern (34 bp):
ATTAGCTCATACGAGTATTTGGTGTGCTAGATGG
Found at i:4548223 original size:10 final size:10
Alignment explanation
Indices: 4548208--4548233 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
4548198 CTTACTGATC
4548208 TGTTAGTATT
1 TGTTAGTATT
4548218 TGTTAGTATT
1 TGTTAGTATT
4548228 TGTTAG
1 TGTTAG
4548234 CACTTAATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.19, C:0.00, G:0.23, T:0.58
Consensus pattern (10 bp):
TGTTAGTATT
Found at i:4549488 original size:20 final size:20
Alignment explanation
Indices: 4549463--4549501 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
4549453 AATATTTTTC
4549463 GTAAATCATTTTCCAGAAAA
1 GTAAATCATTTTCCAGAAAA
4549483 GTAAATCATTTTCCAGAAA
1 GTAAATCATTTTCCAGAAA
4549502 TCATTTTACG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.31
Consensus pattern (20 bp):
GTAAATCATTTTCCAGAAAA
Found at i:4549504 original size:14 final size:14
Alignment explanation
Indices: 4549485--4549524 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
4549475 CCAGAAAAGT
*
4549485 AAATCATTTTCCAG
1 AAATCATTTTACAG
*
4549499 AAATCATTTTACGG
1 AAATCATTTTACAG
*
4549513 AAAACATTTTAC
1 AAATCATTTTAC
4549525 TGGCAAACAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.40, C:0.17, G:0.07, T:0.35
Consensus pattern (14 bp):
AAATCATTTTACAG
Found at i:4550364 original size:15 final size:14
Alignment explanation
Indices: 4550338--4550384 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
4550328 TAATTAGGGA
*
4550338 TTAATTAATTAAGT
1 TTAATTAATTAAGC
4550352 TTAATTAACTTAAGC
1 TTAATTAA-TTAAGC
* *
4550367 TTAACTAATTAACC
1 TTAATTAATTAAGC
4550381 TTAA
1 TTAA
4550385 GAAAATTTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 17 0.59
15 12 0.41
ACGTcount: A:0.43, C:0.11, G:0.04, T:0.43
Consensus pattern (14 bp):
TTAATTAATTAAGC
Found at i:4557112 original size:30 final size:28
Alignment explanation
Indices: 4557040--4557115 Score: 84
Period size: 30 Copynumber: 2.6 Consensus size: 28
4557030 AAAAGCATCT
* *
4557040 AAAATAGTAGCAAAATGAACAATAAAAC
1 AAAATAGTAGCAATATAAACAATAAAAC
4557068 AAAAGTTA-TA-CAATATCAAACAATAACAAC
1 AAAA--TAGTAGCAATAT-AAACAATAA-AAC
4557098 AAAATAGTAGCAATATAA
1 AAAATAGTAGCAATATAA
4557116 TAACAAAATG
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
28 11 0.28
29 14 0.35
30 15 0.38
ACGTcount: A:0.62, C:0.12, G:0.08, T:0.18
Consensus pattern (28 bp):
AAAATAGTAGCAATATAAACAATAAAAC
Found at i:4570271 original size:7 final size:7
Alignment explanation
Indices: 4570259--4570296 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
4570249 GGATTTCAAA
4570259 AAAAATG
1 AAAAATG
4570266 AAAAATG
1 AAAAATG
*
4570273 -AGAATG
1 AAAAATG
4570279 AAAAAATG
1 -AAAAATG
4570287 AAAAATG
1 AAAAATG
4570294 AAA
1 AAA
4570297 GAGTAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
6 5 0.19
7 17 0.63
8 5 0.19
ACGTcount: A:0.71, C:0.00, G:0.16, T:0.13
Consensus pattern (7 bp):
AAAAATG
Found at i:4571807 original size:43 final size:43
Alignment explanation
Indices: 4571758--4571894 Score: 111
Period size: 43 Copynumber: 3.2 Consensus size: 43
4571748 GATAGTAGAT
*
4571758 CTTGCCTTCCTGTGTTAACAGCGAAGCAGATCGAAAACAAAGC
1 CTTGCCTTCCTGTGTTAACAGCGAAGCAGATCAAAAACAAAGC
* * * * * * *
4571801 CTTGCC-TCCATCGT-TT-GCAGTGGAA-CTGGTTAAAAAAAACAGAT
1 CTTGCCTTCC-T-GTGTTAACAG-CGAAGCAGATCAAAAACAA-AG-C
* *
4571845 CTTGCCTTCCTGTGTTAACAACGAAGCAGATCAAAAACGAAGC
1 CTTGCCTTCCTGTGTTAACAGCGAAGCAGATCAAAAACAAAGC
4571888 CTTGCCT
1 CTTGCCT
4571895 CCATCGTTTG
Statistics
Matches: 68, Mismatches: 17, Indels: 18
0.66 0.17 0.17
Matches are distributed among these distances:
42 15 0.22
43 23 0.34
44 16 0.24
45 14 0.21
ACGTcount: A:0.31, C:0.25, G:0.20, T:0.24
Consensus pattern (43 bp):
CTTGCCTTCCTGTGTTAACAGCGAAGCAGATCAAAAACAAAGC
Found at i:4571959 original size:87 final size:87
Alignment explanation
Indices: 4571524--4571935 Score: 608
Period size: 87 Copynumber: 4.7 Consensus size: 87
4571514 AGATCAGTGA
4571524 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
* * *
4571589 CTTTCTGCGTTAGCAGCGAAGC
66 CTTCCTGTGTTAACAGCGAAGC
* * * *
4571611 AGATTGGAAACGAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGACAGCAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
* * *
4571676 TTTCCTGCGTTAACAGTGAAGC
66 CTTCCTGTGTTAACAGCGAAGC
*
4571698 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGTAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
4571763 CTTCCTGTGTTAACAGCGAAGC
66 CTTCCTGTGTTAACAGCGAAGC
* * * * * *
4571785 AGATCGAAAACAAAGCCTTGCCTCCATCGTTTGCAGTGGAACTGGTTAAAAAAAACAGATCTTGC
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
*
4571850 CTTCCTGTGTTAACAACGAAGC
66 CTTCCTGTGTTAACAGCGAAGC
* * * * * *
4571872 AGATCAAAAACGAAGCCTTGCCTCCATCGTTTGCAGTGGAGCTGATTAAAGATAACAGATCTTG
1 AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTG
4571936 TCATCATGTG
Statistics
Matches: 295, Mismatches: 30, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
87 295 1.00
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.25
Consensus pattern (87 bp):
AGATCGAAAACAAAGCCTTGCCTCCATCGGTTGTAGTGGAGCTGGTTAAAGATAGCAGATCTTGC
CTTCCTGTGTTAACAGCGAAGC
Found at i:4572258 original size:44 final size:44
Alignment explanation
Indices: 4572147--4572265 Score: 141
Period size: 44 Copynumber: 2.7 Consensus size: 44
4572137 TCACATCGGG
* * *
4572147 TCTTATCTCCCTGAAGTTGCAGCGGAGTAGACTAAGAAAACAAG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAAACAAA
* ** * *
4572191 TCTTATCCCCCTGAAGTCACAGTGGGGCAGACTGAAG-AAGCAAA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGAAAACAAA
*
4572235 TCTTATCTCCCTGAGGTTGCAGTGGAGCAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
4572266 TTGGATTCGA
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
44 58 0.95
45 3 0.05
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.23
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGAAAACAAA
Found at i:4572534 original size:22 final size:22
Alignment explanation
Indices: 4572492--4572536 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
4572482 TTGCCCGGGC
4572492 CCAAATCAAAAAAATAAATAAAA
1 CCAAATCAAAAAAAT-AATAAAA
*
4572515 CCAAATGAAAAACAAT-ATAAAA
1 CCAAATCAAAAA-AATAATAAAA
4572537 AATATATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 6 0.30
23 11 0.55
24 3 0.15
ACGTcount: A:0.71, C:0.13, G:0.02, T:0.13
Consensus pattern (22 bp):
CCAAATCAAAAAAATAATAAAA
Found at i:4575428 original size:18 final size:18
Alignment explanation
Indices: 4575410--4575443 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4575400 GATTTAGAGT
4575410 TTAAAATT-TTTAATTAG
1 TTAAAATTATTTAATTAG
*
4575427 TTAAATTTATTTAATTA
1 TTAAAATTATTTAATTA
4575444 AAAATCTATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (18 bp):
TTAAAATTATTTAATTAG
Found at i:4575653 original size:22 final size:22
Alignment explanation
Indices: 4575623--4575666 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
4575613 TACACCAAAA
* *
4575623 TAGGTCTTTAGCGGCGTTTTTT
1 TAGGCCTTTAGCGGCGCTTTTT
4575645 TAGGCCTTTAGCGGCGCTTTTT
1 TAGGCCTTTAGCGGCGCTTTTT
4575667 AACGCCACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.09, C:0.18, G:0.27, T:0.45
Consensus pattern (22 bp):
TAGGCCTTTAGCGGCGCTTTTT
Found at i:4575820 original size:42 final size:42
Alignment explanation
Indices: 4575760--4575898 Score: 244
Period size: 42 Copynumber: 3.3 Consensus size: 42
4575750 TTACAAACAA
* *
4575760 AAACGCCGCTAAAGACCATTTTCTTTAGCGGCGCTTAGAAAG
1 AAACGCCGCTAAAAACCATGTTCTTTAGCGGCGCTTAGAAAG
4575802 AAACGCCGCTAAAAACCATGTTCTTTAGCGGCGCTTAGAAAG
1 AAACGCCGCTAAAAACCATGTTCTTTAGCGGCGCTTAGAAAG
4575844 AAACGCCGCTAAAAACCATGTTCTTTAGCGGCGCTTAGAGAA-
1 AAACGCCGCTAAAAACCATGTTCTTTAGCGGCGCTTAGA-AAG
4575886 AAACGCCGCTAAA
1 AAACGCCGCTAAA
4575899 GATGCGCTGC
Statistics
Matches: 94, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
42 92 0.98
43 2 0.02
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.21
Consensus pattern (42 bp):
AAACGCCGCTAAAAACCATGTTCTTTAGCGGCGCTTAGAAAG
Found at i:4576322 original size:21 final size:20
Alignment explanation
Indices: 4576295--4576353 Score: 82
Period size: 21 Copynumber: 2.9 Consensus size: 20
4576285 TTTTTGCTTT
*
4576295 GCTCTGCTTCTCTCGCTGCA
1 GCTCTGCTTCCCTCGCTGCA
*
4576315 GCCTCTGCTTCCCTTGCTGCA
1 G-CTCTGCTTCCCTCGCTGCA
4576336 GCTGCTGCTTCCCTCGCT
1 GCT-CTGCTTCCCTCGCT
4576354 ACCGCATTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 3 0.09
21 31 0.91
ACGTcount: A:0.03, C:0.42, G:0.20, T:0.34
Consensus pattern (20 bp):
GCTCTGCTTCCCTCGCTGCA
Found at i:4581958 original size:27 final size:27
Alignment explanation
Indices: 4581920--4581985 Score: 132
Period size: 27 Copynumber: 2.4 Consensus size: 27
4581910 TGTAAGTTAA
4581920 TATGTAAGTTATTTAATTTATGTAAGT
1 TATGTAAGTTATTTAATTTATGTAAGT
4581947 TATGTAAGTTATTTAATTTATGTAAGT
1 TATGTAAGTTATTTAATTTATGTAAGT
4581974 TATGTAAGTTAT
1 TATGTAAGTTAT
4581986 GTAAGATATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.15, T:0.52
Consensus pattern (27 bp):
TATGTAAGTTATTTAATTTATGTAAGT
Found at i:4581990 original size:9 final size:9
Alignment explanation
Indices: 4581816--4582021 Score: 119
Period size: 9 Copynumber: 21.4 Consensus size: 9
4581806 TTAAAACGCC
*
4581816 AGTTATTTA
1 AGTTATGTA
* *
4581825 ATTTGTGTA
1 AGTTATGTA
*
4581834 ATTTATGTA
1 AGTTATGTA
4581843 AGTTATGTA
1 AGTTATGTA
*
4581852 AGATATTATGTT
1 AG---TTATGTA
4581864 A-TTATGTA
1 AGTTATGTA
*
4581872 AGTTATGCA
1 AGTTATGTA
*
4581881 AGTTTATATATA
1 AG--T-TATGTA
*
4581893 AGCTTGTAGATA
1 AG-TTAT-G-TA
*
4581905 ACTTATGTA
1 AGTTATGTA
4581914 AGTTAATATGTA
1 AG-T--TATGTA
*
4581926 AGTTATTTA
1 AGTTATGTA
*
4581935 ATTTATGTA
1 AGTTATGTA
4581944 AGTTATGTA
1 AGTTATGTA
*
4581953 AGTTATTTA
1 AGTTATGTA
*
4581962 ATTTATGTA
1 AGTTATGTA
4581971 AGTTATGTA
1 AGTTATGTA
4581980 AGTTATGTA
1 AGTTATGTA
*
4581989 AGATAT-TA
1 AGTTATGTA
*
4581997 TGTTACTGAGTA
1 AGTTA-T--GTA
*
4582009 AGTTATGCA
1 AGTTATGTA
4582018 AGTT
1 AGTT
4582022 TATATATAAA
Statistics
Matches: 152, Mismatches: 29, Indels: 32
0.71 0.14 0.15
Matches are distributed among these distances:
8 12 0.08
9 99 0.65
10 4 0.03
11 7 0.05
12 30 0.20
ACGTcount: A:0.34, C:0.02, G:0.17, T:0.47
Consensus pattern (9 bp):
AGTTATGTA
Found at i:4582062 original size:137 final size:137
Alignment explanation
Indices: 4581816--4582065 Score: 448
Period size: 137 Copynumber: 1.8 Consensus size: 137
4581806 TTAAAACGCC
* * *
4581816 AGTTATTTAATTTGTGTAATTTATGTAAGTTATGTAAGATATTATGTTATTATGTAAGTTATGCA
1 AGTTATTTAATTTATGTAAGTTATGTAAGTTATGTAAGATATTATGTTATGATGTAAGTTATGCA
*
4581881 AGTTTATATATAAGCTTGTAGATAACTTATGTAAGTTAATATGTAAGTTATTTAATTTATGTAAG
66 AGTTTATATATAAACTTGTAGATAACTTATGTAAGTTAATATGTAAGTTATTTAATTTATGTAAG
4581946 TTATGTA
131 TTATGTA
4581953 AGTTATTTAATTTATGTAAGTTATGTAAGTTATGTAAGATATTATGTTACTGA-GTAAGTTATGC
1 AGTTATTTAATTTATGTAAGTTATGTAAGTTATGTAAGATATTATGTTA-TGATGTAAGTTATGC
4582017 AAGTTTATATATAAACTTGTAGATAACTTATGTAAGTTAATATGTAAGT
65 AAGTTTATATATAAACTTGTAGATAACTTATGTAAGTTAATATGTAAGT
4582066 AATGTAAACT
Statistics
Matches: 108, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
137 106 0.98
138 2 0.02
ACGTcount: A:0.35, C:0.03, G:0.16, T:0.46
Consensus pattern (137 bp):
AGTTATTTAATTTATGTAAGTTATGTAAGTTATGTAAGATATTATGTTATGATGTAAGTTATGCA
AGTTTATATATAAACTTGTAGATAACTTATGTAAGTTAATATGTAAGTTATTTAATTTATGTAAG
TTATGTA
Found at i:4584247 original size:24 final size:24
Alignment explanation
Indices: 4584196--4584269 Score: 71
Period size: 24 Copynumber: 3.0 Consensus size: 24
4584186 TGGGGATTTC
* *
4584196 GGGAAATAAAATTGGGGAAATTGG
1 GGGAAAGAAAATTGGGGAAATTGA
*
4584220 GGGAAAGAAATATTTGGGAAATT-A
1 GGGAAAGAAA-ATTGGGGAAATTGA
*
4584244 GGGAAATG-AGATTGGGGAAATCTGA
1 GGGAAA-GAAAATTGGGGAAAT-TGA
4584269 G
1 G
4584270 TGGGGGGAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
23 10 0.24
24 17 0.41
25 14 0.34
ACGTcount: A:0.41, C:0.01, G:0.36, T:0.22
Consensus pattern (24 bp):
GGGAAAGAAAATTGGGGAAATTGA
Found at i:4584541 original size:116 final size:113
Alignment explanation
Indices: 4584383--4584681 Score: 340
Period size: 116 Copynumber: 2.6 Consensus size: 113
4584373 AAAATGCCAG
* * *
4584383 ATAAATACGACACCGTTTAGCAAACACTTAAAACATATTTGCGGCGTTTATTGACAAAACGCCAC
1 ATAAAAACGACAGCGTTTAGCAAACACTTAAAACATAATTGCGGCGTTTATTGA-AAAACGCCAC
** *
4584448 TAAAACAT-ACCTATTGC-G-GCATTTAACGA-AAAATGCCACTAATAACGCAAA
65 TAAAAC-TGAAATATTGCGGTGCA--TAA-GAGAAAACGCCACTAA-AACGC-AA
* *
4584499 ATAAAAACGACTGCGTTTAGCAAATACTTAAAACATAATTGCGGCGTTTATCAT-AAAAACGCCA
1 ATAAAAACGACAGCGTTTAGCAAACACTTAAAACATAATTGCGGCGTTTAT--TGAAAAACGCCA
* *
4584563 CAAAAACTGAAATTTTGCGGTGCATAAGAGAAAACGCCACTAAAACGCAA
64 CTAAAACTGAAATATTGCGGTGCATAAGAGAAAACGCCACTAAAACGCAA
* * * *
4584613 TTTAAAACGACAGTGTTTAGCAAAGACTTAAAACATAATTGCGGCGTTTA-TGAAGAAACGCCAC
1 ATAAAAACGACAGCGTTTAGCAAACACTTAAAACATAATTGCGGCGTTTATTGAA-AAACGCCAC
4584677 TAAAA
65 TAAAA
4584682 TGGAAACTAA
Statistics
Matches: 159, Mismatches: 16, Indels: 19
0.82 0.08 0.10
Matches are distributed among these distances:
111 1 0.01
112 2 0.01
113 13 0.08
114 47 0.30
115 8 0.05
116 82 0.52
117 2 0.01
118 4 0.03
ACGTcount: A:0.42, C:0.20, G:0.15, T:0.23
Consensus pattern (113 bp):
ATAAAAACGACAGCGTTTAGCAAACACTTAAAACATAATTGCGGCGTTTATTGAAAAACGCCACT
AAAACTGAAATATTGCGGTGCATAAGAGAAAACGCCACTAAAACGCAA
Found at i:4585039 original size:103 final size:102
Alignment explanation
Indices: 4584924--4585140 Score: 380
Period size: 103 Copynumber: 2.1 Consensus size: 102
4584914 TACCATAATT
4584924 CTAAACCCTAAAATATAAAATTTAAACCCTAAACCATATGCCCTCTTAACCCATATACCCTATGC
1 CTAAACCCTAAAATATAAAATTTAAACCCTAAACCATATGCCCTCTTAACCCATATACCCTATGC
4584989 CCGTATTAATCCCTAAACTCTAAGCTACTAGCTAAACC
66 CCGTATTAATCCCTAAACTCT-AGCTACTAGCTAAACC
* * *
4585027 CTAAACCTTAAAATATAAAATTTAAACCCTAAACCATATGCCTTCTTAACCTATATACCCTATGC
1 CTAAACCCTAAAATATAAAATTTAAACCCTAAACCATATGCCCTCTTAACCCATATACCCTATGC
*
4585092 CCGTATTAATCCCTAAACTCTAGCTACTAGCTAAACT
66 CCGTATTAATCCCTAAACTCTAGCTACTAGCTAAACC
*
4585129 CTAAACTCTAAA
1 CTAAACCCTAAA
4585141 CAATAAACCC
Statistics
Matches: 108, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
102 25 0.23
103 83 0.77
ACGTcount: A:0.38, C:0.29, G:0.05, T:0.28
Consensus pattern (102 bp):
CTAAACCCTAAAATATAAAATTTAAACCCTAAACCATATGCCCTCTTAACCCATATACCCTATGC
CCGTATTAATCCCTAAACTCTAGCTACTAGCTAAACC
Found at i:4585141 original size:14 final size:14
Alignment explanation
Indices: 4585122--4585203 Score: 58
Period size: 14 Copynumber: 5.9 Consensus size: 14
4585112 TAGCTACTAG
*
4585122 CTAAACTCTAAACT
1 CTAAACACTAAACT
* *
4585136 CTAAACAATAAACC
1 CTAAACACTAAACT
* * * *
4585150 CTAAGCCCTACACC
1 CTAAACACTAAACT
* *
4585164 CTACACCCTAAAC-
1 CTAAACACTAAACT
4585177 CATAAACACTAAACT
1 C-TAAACACTAAACT
*
4585192 CTTAACACTAAA
1 CTAAACACTAAA
4585204 TCATAAACTG
Statistics
Matches: 53, Mismatches: 13, Indels: 4
0.76 0.19 0.06
Matches are distributed among these distances:
13 1 0.02
14 51 0.96
15 1 0.02
ACGTcount: A:0.45, C:0.34, G:0.01, T:0.20
Consensus pattern (14 bp):
CTAAACACTAAACT
Found at i:4585317 original size:7 final size:7
Alignment explanation
Indices: 4585305--4585361 Score: 51
Period size: 8 Copynumber: 7.6 Consensus size: 7
4585295 CCTAAACCCC
4585305 TAAACCT
1 TAAACCT
4585312 TAAACCTT
1 TAAACC-T
4585320 TAAACCT
1 TAAACCT
4585327 TAAACCT
1 TAAACCT
* *
4585334 CTAAAGCA
1 -TAAACCT
*
4585342 TAAACCCC
1 TAAA-CCT
4585350 TAAACCCT
1 TAAA-CCT
4585358 TAAA
1 TAAA
4585362 TCATAAACTC
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
7 18 0.43
8 24 0.57
ACGTcount: A:0.44, C:0.30, G:0.02, T:0.25
Consensus pattern (7 bp):
TAAACCT
Found at i:4585317 original size:15 final size:15
Alignment explanation
Indices: 4585293--4585361 Score: 77
Period size: 15 Copynumber: 4.6 Consensus size: 15
4585283 CTAAGATGAT
4585293 AACC-TAAACCCCTA
1 AACCTTAAACCCCTA
**
4585307 AACCTTAAACCTTTA
1 AACCTTAAACCCCTA
*
4585322 AACCTTAAACCTCTA
1 AACCTTAAACCCCTA
* *
4585337 AAGCATAAACCCCTA
1 AACCTTAAACCCCTA
4585352 AACCCTTAAA
1 AA-CCTTAAA
4585362 TCATAAACTC
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
14 4 0.09
15 36 0.80
16 5 0.11
ACGTcount: A:0.43, C:0.33, G:0.01, T:0.22
Consensus pattern (15 bp):
AACCTTAAACCCCTA
Found at i:4585446 original size:22 final size:21
Alignment explanation
Indices: 4585381--4585448 Score: 73
Period size: 22 Copynumber: 3.1 Consensus size: 21
4585371 CTTGATTAAA
*
4585381 CCCTAAACCATAAGCCATTAAC
1 CCCTAAACCATAAGCC-CTAAC
* * *
4585403 CCATAGACCCTAAGCCCATAAC
1 CCCTAAACCATAAGCCC-TAAC
4585425 CCCTAAACCATAAGCTCCTAAC
1 CCCTAAACCATAAGC-CCTAAC
4585447 CC
1 CC
4585449 TTACACTAGA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
22 35 0.95
23 2 0.05
ACGTcount: A:0.37, C:0.41, G:0.06, T:0.16
Consensus pattern (21 bp):
CCCTAAACCATAAGCCCTAAC
Found at i:4585643 original size:10 final size:10
Alignment explanation
Indices: 4585628--4585652 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
4585618 TTTTAACAAA
4585628 TATTTTAAAC
1 TATTTTAAAC
4585638 TATTTTAAAC
1 TATTTTAAAC
4585648 TATTT
1 TATTT
4585653 GAGCATTAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (10 bp):
TATTTTAAAC
Found at i:4585825 original size:72 final size:73
Alignment explanation
Indices: 4585658--4586051 Score: 407
Period size: 73 Copynumber: 5.4 Consensus size: 73
4585648 TATTTGAGCA
* * * * **
4585658 TTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCCAAAAGATCAGAAAATGGCACCGTTATGCT
1 TTAGCGGCGCTTTCCCAAAAACGCCGCTAAATCCCCAAAAGCTCAGAAAACGGCATCGTTGGGCT
4585723 TAGGTTTT
66 TAGGTTTT
* * ** * * * * ** *
4585731 TTTGCGGCGCTTTTCCAAAAACGCCGCTGTATCCACGAAAGCTCAAAAAACGACATCGTTTCGTT
1 TTAGCGGCGCTTTCCCAAAAACGCCGCTAAATCCCCAAAAGCTCAGAAAACGGCATCGTTGGGCT
4585796 TAGG-TTT
66 TAGGTTTT
* * * ** *
4585803 TTAGCGGCGCTTTCCCAAAAACGCCGCTAAATCCCCAAAAGATCAGAAAACGACGTAATTGGGTT
1 TTAGCGGCGCTTTCCCAAAAACGCCGCTAAATCCCCAAAAGCTCAGAAAACGGCATCGTTGGGCT
4585868 TAGGTTTT
66 TAGGTTTT
* ** * * * * * * *
4585876 TTTGCGGCGCTTTCTTAAAAACACCACTATATCCACGAAAGCTCAAAAAACGGCATCATTGGGCT
1 TTAGCGGCGCTTTCCCAAAAACGCCGCTAAATCCCCAAAAGCTCAGAAAACGGCATCGTTGGGCT
4585941 TAGGTTTT
66 TAGGTTTT
* * *
4585949 TTTGCGGCGCTTTCTC-AAAACGCCGCTAAATCCCCAAAAGCTCAGAAAACGGCGTCGTTGGGCT
1 TTAGCGGCGCTTTCCCAAAAACGCCGCTAAATCCCCAAAAGCTCAGAAAACGGCATCGTTGGGCT
4586013 TAGG-TTT
66 TAGGTTTT
* * *
4586020 GTATGTGGCGCTTTCTCAAAAACGCCGCTAAA
1 TTA-GCGGCGCTTTCCCAAAAACGCCGCTAAA
4586052 GCCCTGATCT
Statistics
Matches: 264, Mismatches: 54, Indels: 6
0.81 0.17 0.02
Matches are distributed among these distances:
71 4 0.02
72 115 0.44
73 145 0.55
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (73 bp):
TTAGCGGCGCTTTCCCAAAAACGCCGCTAAATCCCCAAAAGCTCAGAAAACGGCATCGTTGGGCT
TAGGTTTT
Found at i:4585921 original size:145 final size:146
Alignment explanation
Indices: 4585658--4586042 Score: 494
Period size: 145 Copynumber: 2.7 Consensus size: 146
4585648 TATTTGAGCA
* * *
4585658 TTAGCGGCGCTTTCCCAAAAACGCCGCTAAAGCCCCAAAAGATCAGAAAATGGCACCGTTA-T--
1 TTAGCGGCGCTTTCCCAAAAACGCCGCTAAATCCCCAAAAGATCAGAAAA-CG-A-CGTAATTGG
* * *
4585720 GCTTAGGTTTTTTTGCGGCGCTTT-TCCAAAAACGCCGCTGTATCCACGAAAGCTCAAAAAACGA
63 GCTTAGGTTTTTTTGCGGCGCTTTCT-CAAAAACACCACTATATCCACGAAAGCTCAAAAAACGA
* * *
4585784 CATCGTTTCGTTTAGG-TTT
127 CATCATTGCGCTTAGGTTTT
*
4585803 TTAGCGGCGCTTTCCCAAAAACGCCGCTAAATCCCCAAAAGATCAGAAAACGACGTAATTGGGTT
1 TTAGCGGCGCTTTCCCAAAAACGCCGCTAAATCCCCAAAAGATCAGAAAACGACGTAATTGGGCT
* *
4585868 TAGGTTTTTTTGCGGCGCTTTCTTAAAAACACCACTATATCCACGAAAGCTCAAAAAACGGCATC
66 TAGGTTTTTTTGCGGCGCTTTCTCAAAAACACCACTATATCCACGAAAGCTCAAAAAACGACATC
*
4585933 ATTGGGCTTAGGTTTT
131 ATTGCGCTTAGGTTTT
* * * * **
4585949 TTTGCGGCGCTTTCTC-AAAACGCCGCTAAATCCCCAAAAGCTCAGAAAACGGCGTCGTTGGGCT
1 TTAGCGGCGCTTTCCCAAAAACGCCGCTAAATCCCCAAAAGATCAGAAAACGACGTAATTGGGCT
* * *
4586013 TAGGTTTGTATGTGGCGCTTTCTCAAAAAC
66 TAGGTTTTTTTGCGGCGCTTTCTCAAAAAC
4586043 GCCGCTAAAG
Statistics
Matches: 211, Mismatches: 24, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
142 4 0.02
143 2 0.01
144 1 0.00
145 186 0.88
146 18 0.09
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (146 bp):
TTAGCGGCGCTTTCCCAAAAACGCCGCTAAATCCCCAAAAGATCAGAAAACGACGTAATTGGGCT
TAGGTTTTTTTGCGGCGCTTTCTCAAAAACACCACTATATCCACGAAAGCTCAAAAAACGACATC
ATTGCGCTTAGGTTTT
Found at i:4586249 original size:12 final size:12
Alignment explanation
Indices: 4586232--4586257 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
4586222 TTTGGAAAAT
4586232 AAACGCCGCTAA
1 AAACGCCGCTAA
4586244 AAACGCCGCTAA
1 AAACGCCGCTAA
4586256 AA
1 AA
4586258 GCCTGTGTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAACGCCGCTAA
Found at i:4588231 original size:21 final size:22
Alignment explanation
Indices: 4588205--4588250 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
4588195 TGGCCAGTAT
*
4588205 AAATAACAAAAAAAATAGCA-A
1 AAATAACAAAAAAAACAGCAGA
*
4588226 AAATAACAACAAAAACAGCAGA
1 AAATAACAAAAAAAACAGCAGA
4588248 AAA
1 AAA
4588251 ATAAGAGCAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.74, C:0.13, G:0.07, T:0.07
Consensus pattern (22 bp):
AAATAACAAAAAAAACAGCAGA
Found at i:4592577 original size:4 final size:4
Alignment explanation
Indices: 4592568--4592593 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
4592558 GAAGGATGGG
4592568 TACA TACA TACA TACA TACA TACA TA
1 TACA TACA TACA TACA TACA TACA TA
4592594 ACACTAGTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.23, G:0.00, T:0.27
Consensus pattern (4 bp):
TACA
Found at i:4594443 original size:13 final size:13
Alignment explanation
Indices: 4594425--4594490 Score: 55
Period size: 13 Copynumber: 5.1 Consensus size: 13
4594415 AGTTTGGCAA
*
4594425 TACTTTTGAGAAG
1 TACTTTTGAAAAG
4594438 TACTTTTGAAAAG
1 TACTTTTGAAAAG
* *
4594451 T-GTTGTGGAAAAG
1 TACTT-TTGAAAAG
*
4594464 TGA-TTTTGAGAAG
1 T-ACTTTTGAAAAG
*
4594477 TGCTTTTGAAAAG
1 TACTTTTGAAAAG
4594490 T
1 T
4594491 TTGGTTTAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
12 2 0.05
13 38 0.90
14 2 0.05
ACGTcount: A:0.32, C:0.05, G:0.26, T:0.38
Consensus pattern (13 bp):
TACTTTTGAAAAG
Found at i:4594487 original size:26 final size:26
Alignment explanation
Indices: 4594427--4594490 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
4594417 TTTGGCAATA
*
4594427 CTTTTGAGAAGTACTTTTGAAAAGTG
1 CTTTTGAAAAGTACTTTTGAAAAGTG
* *
4594453 -TTGTGGAAAAGTGA-TTTTGAGAAGTG
1 CTT-TTGAAAAGT-ACTTTTGAAAAGTG
4594479 CTTTTGAAAAGT
1 CTTTTGAAAAGT
4594491 TTGGTTTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
25 2 0.06
26 26 0.84
27 3 0.10
ACGTcount: A:0.31, C:0.05, G:0.27, T:0.38
Consensus pattern (26 bp):
CTTTTGAAAAGTACTTTTGAAAAGTG
Found at i:4602286 original size:9 final size:9
Alignment explanation
Indices: 4602272--4602302 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
4602262 GTTAAACGAA
4602272 TCGAGTTAT
1 TCGAGTTAT
*
4602281 TCGAGTTAA
1 TCGAGTTAT
4602290 TCGAGTTAT
1 TCGAGTTAT
4602299 TCGA
1 TCGA
4602303 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:4602370 original size:9 final size:9
Alignment explanation
Indices: 4602353--4602389 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
4602343 TGAGTTTTCG
4602353 AATTCGAAT
1 AATTCGAAT
*
4602362 AACTCGAAT
1 AATTCGAAT
*
4602371 AATTCAAAT
1 AATTCGAAT
4602380 AATTCGAAT
1 AATTCGAAT
4602389 A
1 A
4602390 TCAAACTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:4602747 original size:19 final size:19
Alignment explanation
Indices: 4602715--4602751 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
4602705 TTTTTAATAT
4602715 TTTCCCTCCAAACTATTTAC
1 TTTCCCTCCAAACT-TTTAC
4602735 TTTCCCT-CAAACTTTTA
1 TTTCCCTCCAAACTTTTA
4602752 TTCTCCAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 6 0.35
20 7 0.41
ACGTcount: A:0.24, C:0.32, G:0.00, T:0.43
Consensus pattern (19 bp):
TTTCCCTCCAAACTTTTAC
Found at i:4603250 original size:43 final size:43
Alignment explanation
Indices: 4603203--4603304 Score: 134
Period size: 43 Copynumber: 2.4 Consensus size: 43
4603193 AAAGACATTG
* * *
4603203 ACCTTTAGCGACGCTTTTTCCACAAACG-TCGCTATAGCTCTAT
1 ACCTTTAGCGGCGCTTTTCCCACAAACGCT-GCTATAGCTCGAT
* * *
4603246 ACCTTTAGTGGCACTTTTCCCACAAACGCTGTTATAGCTCGAT
1 ACCTTTAGCGGCGCTTTTCCCACAAACGCTGCTATAGCTCGAT
4603289 ACCTTTAGCGGCGCTT
1 ACCTTTAGCGGCGCTT
4603305 CTCACAAAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
43 49 0.98
44 1 0.02
ACGTcount: A:0.22, C:0.29, G:0.17, T:0.32
Consensus pattern (43 bp):
ACCTTTAGCGGCGCTTTTCCCACAAACGCTGCTATAGCTCGAT
Found at i:4603316 original size:43 final size:43
Alignment explanation
Indices: 4603235--4603317 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
4603225 CAAACGTCGC
* * * * *
4603235 TATAGCTCTATACCTTTAGTGGCACTTTTCCCACAAACGCTGT
1 TATAGCTCGATACCTTTAGCGGCACTTCTCACAAAAACGCTGT
*
4603278 TATAGCTCGATACCTTTAGCGGCGCTTCTCACAAAAACGC
1 TATAGCTCGATACCTTTAGCGGCACTTCTCACAAAAACGC
4603318 CACTAAAAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.30
Consensus pattern (43 bp):
TATAGCTCGATACCTTTAGCGGCACTTCTCACAAAAACGCTGT
Found at i:4604904 original size:82 final size:82
Alignment explanation
Indices: 4604805--4605082 Score: 556
Period size: 82 Copynumber: 3.4 Consensus size: 82
4604795 TTTCGGGGGA
4604805 AATAGTTAGTACAATTTTAAACTTGAAATTAGTACAATTTTAAACTGGGGGAAATACAAGAATGC
1 AATAGTTAGTACAATTTTAAACTTGAAATTAGTACAATTTTAAACTGGGGGAAATACAAGAATGC
4604870 TTAGACCTAACATAAAG
66 TTAGACCTAACATAAAG
4604887 AATAGTTAGTACAATTTTAAACTTGAAATTAGTACAATTTTAAACTGGGGGAAATACAAGAATGC
1 AATAGTTAGTACAATTTTAAACTTGAAATTAGTACAATTTTAAACTGGGGGAAATACAAGAATGC
4604952 TTAGACCTAACATAAAG
66 TTAGACCTAACATAAAG
4604969 AATAGTTAGTACAATTTTAAACTTGAAATTAGTACAATTTTAAACTGGGGGAAATACAAGAATGC
1 AATAGTTAGTACAATTTTAAACTTGAAATTAGTACAATTTTAAACTGGGGGAAATACAAGAATGC
4605034 TTAGACCTAACATAAAG
66 TTAGACCTAACATAAAG
4605051 AATAGTTAGTACAATTTTAAACTTGAAATTAG
1 AATAGTTAGTACAATTTTAAACTTGAAATTAG
4605083 AAATATGAAT
Statistics
Matches: 196, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 196 1.00
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.30
Consensus pattern (82 bp):
AATAGTTAGTACAATTTTAAACTTGAAATTAGTACAATTTTAAACTGGGGGAAATACAAGAATGC
TTAGACCTAACATAAAG
Found at i:4608787 original size:19 final size:20
Alignment explanation
Indices: 4608759--4608801 Score: 61
Period size: 19 Copynumber: 2.2 Consensus size: 20
4608749 AAATTATAAA
*
4608759 TTTTAGTTTTTTTATTTCAT
1 TTTTAGTTTTTGTATTTCAT
*
4608779 TTTTA-TTTTTGTATTTTAT
1 TTTTAGTTTTTGTATTTCAT
4608798 TTTT
1 TTTT
4608802 TTCTTATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.14, C:0.02, G:0.05, T:0.79
Consensus pattern (20 bp):
TTTTAGTTTTTGTATTTCAT
Found at i:4610037 original size:14 final size:15
Alignment explanation
Indices: 4610020--4610052 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
4610010 CTTAAATCAG
4610020 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
4610034 AATCCCTAATTCCAT
1 AATCCCTAATTCCAT
4610049 AATC
1 AATC
4610053 TATAAACCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.36, C:0.33, G:0.00, T:0.30
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:4610540 original size:160 final size:161
Alignment explanation
Indices: 4610344--4610639 Score: 567
Period size: 160 Copynumber: 1.8 Consensus size: 161
4610334 TTATTTCTAC
*
4610344 GTGTCATTATTTCAAATTTATCCATTTTTAACAAATATTCAATTAAAAATAAATTGAATTTTAAT
1 GTGTCATTATTTCAAATTTATCCATTTTTAACAAATATTAAATTAAAAATAAATTGAATTTTAAT
4610409 TAATATAAATAAATTAAATAGTAAATAGACAGATAAAATGTTCTTGCGGCGCTTTTTCAAAAACG
66 TAATATAAATAAATTAAATAGTAAATAGACAGATAAAATGTTCTTGCGGCGCTTTTTCAAAAACG
4610474 CCGCCATTAATATAAATAAACAAATTAAATA
131 CCGCCATTAATATAAATAAACAAATTAAATA
*
4610505 GTGTCATTATTTCAAATTTATCTA-TTTTAACAAATATTAAATTAAAAATAAATTGAATTTTAAT
1 GTGTCATTATTTCAAATTTATCCATTTTTAACAAATATTAAATTAAAAATAAATTGAATTTTAAT
4610569 TAATATAAATAAATTAAATAGTAAATAGACAGATAAAATGTTCTTGCGGCGCTTTTTCAAAAACG
66 TAATATAAATAAATTAAATAGTAAATAGACAGATAAAATGTTCTTGCGGCGCTTTTTCAAAAACG
4610634 CCGCCA
131 CCGCCA
4610640 AAGATCTGAG
Statistics
Matches: 133, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
160 110 0.83
161 23 0.17
ACGTcount: A:0.44, C:0.11, G:0.09, T:0.36
Consensus pattern (161 bp):
GTGTCATTATTTCAAATTTATCCATTTTTAACAAATATTAAATTAAAAATAAATTGAATTTTAAT
TAATATAAATAAATTAAATAGTAAATAGACAGATAAAATGTTCTTGCGGCGCTTTTTCAAAAACG
CCGCCATTAATATAAATAAACAAATTAAATA
Found at i:4610863 original size:41 final size:41
Alignment explanation
Indices: 4610799--4610984 Score: 257
Period size: 41 Copynumber: 4.6 Consensus size: 41
4610789 AGCTCAGAAA
4610799 CTTTTACAAAAA-GCCGCTAAAGAACTGAGCATTAGCGGCG
1 CTTTTACAAAAACGCCGCTAAAGAACTGAGCATTAGCGGCG
*
4610839 CTTTTACAAAAACGCCGCTAAAGAACTGAGCATTAGTGGCG
1 CTTTTACAAAAACGCCGCTAAAGAACTGAGCATTAGCGGCG
* * * **
4610880 CTTCTCCAAAAATGCCGCTAAAGATTTGAGCATTAGCGGCG
1 CTTTTACAAAAACGCCGCTAAAGAACTGAGCATTAGCGGCG
* * * *
4610921 CTTCTCCATAAACGCCGCTAAAGATCTGAGCATTAGCGGCG
1 CTTTTACAAAAACGCCGCTAAAGAACTGAGCATTAGCGGCG
**
4610962 CTTTTTTAAAAACGCCGCTAAAG
1 CTTTTACAAAAACGCCGCTAAAG
4610985 CCTCGAAAGG
Statistics
Matches: 131, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
40 12 0.09
41 119 0.91
ACGTcount: A:0.32, C:0.24, G:0.21, T:0.23
Consensus pattern (41 bp):
CTTTTACAAAAACGCCGCTAAAGAACTGAGCATTAGCGGCG
Found at i:4611119 original size:41 final size:41
Alignment explanation
Indices: 4611062--4611212 Score: 221
Period size: 41 Copynumber: 3.7 Consensus size: 41
4611052 CTAATGCTCA
*
4611062 GCCGCTAAAGAACTGAGCATTAGCGGCGCTTTTACAAAAAC
1 GCCGCTAAAGAACTGAGCATTAGCGGCGCTTCTACAAAAAC
* * *
4611103 GCCGCTAAAGAACTGAGCATTAGTGGCGCTTCTCCAAAAAT
1 GCCGCTAAAGAACTGAGCATTAGCGGCGCTTCTACAAAAAC
** * *
4611144 GCCGCTAAAGATTTGAGCATTAGCGGCGCTTCTCCATAAAC
1 GCCGCTAAAGAACTGAGCATTAGCGGCGCTTCTACAAAAAC
*
4611185 GCCGCTAAAGATCTGAGCATTAGCGGCG
1 GCCGCTAAAGAACTGAGCATTAGCGGCG
4611213 TTTTACGTAA
Statistics
Matches: 100, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 100 1.00
ACGTcount: A:0.30, C:0.25, G:0.24, T:0.21
Consensus pattern (41 bp):
GCCGCTAAAGAACTGAGCATTAGCGGCGCTTCTACAAAAAC
Found at i:4612842 original size:11 final size:11
Alignment explanation
Indices: 4612826--4612881 Score: 69
Period size: 11 Copynumber: 5.2 Consensus size: 11
4612816 TCTTATCTAA
4612826 AATTTCCTCTC
1 AATTTCCTCTC
* *
4612837 AATTTCTTCTA
1 AATTTCCTCTC
4612848 AATTTCCTCTC
1 AATTTCCTCTC
*
4612859 AATTTGCTCTC
1 AATTTCCTCTC
*
4612870 AAATTCCT-TC
1 AATTTCCTCTC
4612880 AA
1 AA
4612882 AATTTCTCTC
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
10 4 0.11
11 34 0.89
ACGTcount: A:0.25, C:0.29, G:0.02, T:0.45
Consensus pattern (11 bp):
AATTTCCTCTC
Found at i:4612869 original size:33 final size:33
Alignment explanation
Indices: 4612826--4612891 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
4612816 TCTTATCTAA
* *
4612826 AATTTCCTCTC-AATTTCTTCTAAATTTCCTCTC
1 AATTTCCTCTCAAATTCCTTCAAAATTT-CTCTC
*
4612859 AATTTGCTCTCAAATTCCTTCAAAATTTCTCTC
1 AATTTCCTCTCAAATTCCTTCAAAATTTCTCTC
4612892 GAATCCATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 15 0.52
34 14 0.48
ACGTcount: A:0.24, C:0.29, G:0.02, T:0.45
Consensus pattern (33 bp):
AATTTCCTCTCAAATTCCTTCAAAATTTCTCTC
Found at i:4612948 original size:51 final size:51
Alignment explanation
Indices: 4612857--4612954 Score: 135
Period size: 51 Copynumber: 1.9 Consensus size: 51
4612847 AAATTTCCTC
*
4612857 TCAATTTGCTCTCAAATTCCTTCAAAATTTCTCTCGAATCCATATTTATTT
1 TCAATTTGCTCTCAAATTCCTTCAAAATTTCTCTCAAATCCATATTTATTT
* * * *
4612908 TCAATTTGCTCTCAAGTTCC-TCTTAAATTTCTCTTAAATCCCTATTT
1 TCAATTTGCTCTCAAATTCCTTC-AAAATTTCTCTCAAATCCATATTT
4612955 TTAAATAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
50 2 0.05
51 39 0.95
ACGTcount: A:0.26, C:0.24, G:0.04, T:0.46
Consensus pattern (51 bp):
TCAATTTGCTCTCAAATTCCTTCAAAATTTCTCTCAAATCCATATTTATTT
Found at i:4614842 original size:16 final size:16
Alignment explanation
Indices: 4614818--4614848 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4614808 TATGTACTGA
*
4614818 AAATTTAAATAAATAT
1 AAATATAAATAAATAT
4614834 AAATATAAATAAATA
1 AAATATAAATAAATA
4614849 GATAACAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AAATATAAATAAATAT
Found at i:4617676 original size:23 final size:22
Alignment explanation
Indices: 4617580--4618674 Score: 943
Period size: 23 Copynumber: 49.8 Consensus size: 22
4617570 AATTTTAAAG
* * *
4617580 TTAAGGGTTAAGGGGTTTTAAG
1 TTAAGGGTTTAGGGTTTTTAAT
* * *
4617602 TTAAGGG-TTAAGGTTTTTTAG
1 TTAAGGGTTTAGGGTTTTTAAT
* *
4617623 TTGAGGG-TTAGGGTTTTTAAG
1 TTAAGGGTTTAGGGTTTTTAAT
*
4617644 TTAAGGGTTTAGGGTTTTTAAG
1 TTAAGGGTTTAGGGTTTTTAAT
* **
4617666 TAAATTAGTTTAGGGTTTTTAAAT
1 TTAA-GGGTTTAGGGTTTTT-AAT
4617690 TTAAGGGTTTAGGGTTTTTAAT
1 TTAAGGGTTTAGGGTTTTTAAT
* ** *
4617712 TAAATTAGTTTAGGGTTTTTAAG
1 TTAA-GGGTTTAGGGTTTTTAAT
*
4617735 TTAAGGGGTTAGGGTTTTTAAGT
1 TTAAGGGTTTAGGGTTTTTAA-T
4617758 TTAAGGGTTTAGGGTTTTTAAT
1 TTAAGGGTTTAGGGTTTTTAAT
* ** *
4617780 TAAATTAGTTTAGGG-TTTTAAG
1 TTAA-GGGTTTAGGGTTTTTAAT
*
4617802 TTAAGGGCTTAGGGTTTTTAACT
1 TTAAGGGTTTAGGGTTTTTAA-T
4617825 TTAAGGGTTTAGGGTTTTTAAT
1 TTAAGGGTTTAGGGTTTTTAAT
* *
4617847 TTAA-GGATTAGGGTTTTTAAG
1 TTAAGGGTTTAGGGTTTTTAAT
*
4617868 TTAAGGGTTTATGGTTTTTAATT
1 TTAAGGGTTTAGGGTTTTTAA-T
*
4617891 TTAAGGGTTTAGGGGTTTTAAT
1 TTAAGGGTTTAGGGTTTTTAAT
* *
4617913 TTAAGGG-TTAAGGTTTTTAAG
1 TTAAGGGTTTAGGGTTTTTAAT
*
4617934 TTAAGGGTTTAGGGTTTTTAAC
1 TTAAGGGTTTAGGGTTTTTAAT
* ** * *
4617956 TAAATTAGTTTAGAGTTTTTAAG
1 TTAA-GGGTTTAGGGTTTTTAAT
*
4617979 TTAAGGGGTTAGGGTTTTTAATT
1 TTAAGGGTTTAGGGTTTTTAA-T
*
4618002 TTAAGGGTTTAAGGTTTTTAAT
1 TTAAGGGTTTAGGGTTTTTAAT
* ** *
4618024 TAAATTAGTTTAGGGTTTTTAAG
1 TTAA-GGGTTTAGGGTTTTTAAT
** * *
4618047 TTAAGGGCCTATGGCTTTTAATT
1 TTAAGGGTTTAGGGTTTTTAA-T
4618070 TTAAGGGTTTAGGGTTTTTAAT
1 TTAAGGGTTTAGGGTTTTTAAT
* * *
4618092 TTAAGAG-TTAGGATTTTTAAG
1 TTAAGGGTTTAGGGTTTTTAAT
* *
4618113 TTAATGGTTTAGGGTTTTAAATT
1 TTAAGGGTTTAGGGTTTTTAA-T
*
4618136 TTAA-GGTTTAGGATTTTTAAT
1 TTAAGGGTTTAGGGTTTTTAAT
4618157 TTAAGGG-TTAGGGTTTTTAAGT
1 TTAAGGGTTTAGGGTTTTTAA-T
4618179 TT-AGGGTTTAGGGTTTTTAA-
1 TTAAGGGTTTAGGGTTTTTAAT
* *
4618199 TTAA---ATTAGGGTTTTTAAG
1 TTAAGGGTTTAGGGTTTTTAAT
4618218 TTAAGGGTTTAGGGTTTTTAATT
1 TTAAGGGTTTAGGGTTTTTAA-T
*
4618241 TTAAGGGTTTAGTGTTTTTAAT
1 TTAAGGGTTTAGGGTTTTTAAT
* *
4618263 TTAAGGG-TTAAGGTTTTTAAG
1 TTAAGGGTTTAGGGTTTTTAAT
*
4618284 TTAAGGGTTTAGTGTTTTTAAT
1 TTAAGGGTTTAGGGTTTTTAAT
* ** *
4618306 TAAATTAGTTTAGGGTTTTTAAG
1 TTAA-GGGTTTAGGGTTTTTAAT
*
4618329 TTAATGGTTTAGGGTTTTTAAT
1 TTAAGGGTTTAGGGTTTTTAAT
* ** * *
4618351 TAAATCAGTTTAGGTTTTTTATGT
1 TTAA-GGGTTTAGGGTTTTTA-AT
***
4618375 TTAAGGGTTTAAAATTTTTAAT
1 TTAAGGGTTTAGGGTTTTTAAT
* **
4618397 TAAATTAGTTTAGGGTTTTTAAGCT
1 TTAA-GGGTTTAGGGTTTTTAA--T
*
4618422 AAGGGTT-AGGGTTTAGGGTTTTTATT
1 -----TTAAGGGTTTAGGGTTTTTAAT
* * * ** *
4618448 TTTAAGGGTTTAGGTTTTTAAG
1 TTAAGGGTTTAGGGTTTTTAAT
4618470 TTAAGGGTTTAGGGTTTTTAATT
1 TTAAGGGTTTAGGGTTTTTAA-T
*
4618493 TTAAGGGTTTAGTGTTTTTAAT
1 TTAAGGGTTTAGGGTTTTTAAT
* *
4618515 TTAAGGG-TTAAGGTTTTTAAG
1 TTAAGGGTTTAGGGTTTTTAAT
*
4618536 TTAAGGGTTTA--G----TAAG
1 TTAAGGGTTTAGGGTTTTTAAT
4618552 TTAAGGGTTTAGGGTTTTTAATT
1 TTAAGGGTTTAGGGTTTTTAA-T
*
4618575 TTAAGGGTTTAGTGTTTTTAAT
1 TTAAGGGTTTAGGGTTTTTAAT
* *
4618597 TTAAGGG-TTAAGGTTTTTAAG
1 TTAAGGGTTTAGGGTTTTTAAT
*
4618618 TTAAGGGTTTA--G----TAAG
1 TTAAGGGTTTAGGGTTTTTAAT
4618634 TTAAGGGTTTAGGGTTTTTAATT
1 TTAAGGGTTTAGGGTTTTTAA-T
*
4618657 TTAAGAGTTTAGGGTTTT
1 TTAAGGGTTTAGGGTTTT
4618675 AAGTAATAAC
Statistics
Matches: 866, Mismatches: 151, Indels: 111
0.77 0.13 0.10
Matches are distributed among these distances:
16 30 0.03
18 15 0.02
19 4 0.00
20 4 0.00
21 173 0.20
22 298 0.34
23 315 0.36
24 9 0.01
25 1 0.00
26 1 0.00
28 14 0.02
29 1 0.00
30 1 0.00
ACGTcount: A:0.25, C:0.01, G:0.26, T:0.48
Consensus pattern (22 bp):
TTAAGGGTTTAGGGTTTTTAAT
Found at i:4617754 original size:45 final size:44
Alignment explanation
Indices: 4617532--4618678 Score: 1014
Period size: 45 Copynumber: 26.2 Consensus size: 44
4617522 ATCAAATAAA
* * ***
4617532 TTTAAGTTAAGGG-TTATGGTTTTTAAGTTTTA--GTTTAAAATT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAA-TTTAAGGGTTTAGGGTT
* * * * *
4617574 TTAAAGTTAAGGGTTAAGGGGTTTTAAGTTAAGGG-TTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAATTTAAGGGTTTAGGGTT
* * *
4617617 TTTTAGTTGAGGG-TTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAATTTAAGGGTTTAGGGTT
* **
4617660 TTTAAGTAAATTAGTTTAGGGTTTTTAAATTTAAGGGTTTAGGGTT
1 TTTAAGTTAA-GGGTTTAGGGTTTTT-AATTTAAGGGTTTAGGGTT
** * *
4617706 TTTAA-TTAAATTAGTTTAGGGTTTTTAAGTTAAGGGGTTAGGGTT
1 TTTAAGTT-AA-GGGTTTAGGGTTTTTAATTTAAGGGTTTAGGGTT
* **
4617751 TTTAAGTTTAAGGGTTTAGGGTTTTTAATTAAATTAGTTTAGGG-T
1 TTTAAG-TTAAGGGTTTAGGGTTTTTAATTTAA-GGGTTTAGGGTT
*
4617796 TTTAAGTTAAGGGCTTAGGGTTTTTAACTTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAA-TTTAAGGGTTTAGGGTT
* * * *
4617841 TTTAATTTAA-GGATTAGGGTTTTTAAGTTAAGGGTTTATGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAATTTAAGGGTTTAGGGTT
* * *
4617884 TTTAATTTTAAGGGTTTAGGGGTTTTAATTTAAGGG-TTAAGGTT
1 TTTAA-GTTAAGGGTTTAGGGTTTTTAATTTAAGGGTTTAGGGTT
* * ** *
4617928 TTTAAGTTAAGGGTTTAGGGTTTTTAACTAAATTAGTTTAGAGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAATTTAA-GGGTTTAGGGTT
* *
4617973 TTTAAGTTAAGGGGTTAGGGTTTTTAATTTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAA-TTTAAGGGTTTAGGGTT
** * ** * *
4618018 TTTAA-TTAAATTAGTTTAGGGTTTTTAAGTTAAGGGCCTATGGCT
1 TTTAAGTT-AA-GGGTTTAGGGTTTTTAATTTAAGGGTTTAGGGTT
* * *
4618063 TTTAATTTTAAGGGTTTAGGGTTTTTAATTTAAGAG-TTAGGATT
1 TTTAA-GTTAAGGGTTTAGGGTTTTTAATTTAAGGGTTTAGGGTT
* * *
4618107 TTTAAGTTAATGGTTTAGGGTTTTAAATTTTAA-GGTTTAGGATT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAA-TTTAAGGGTTTAGGGTT
*
4618151 TTTAATTTAAGGG-TTAGGGTTTTTAAGTTT-AGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAA-TTTAAGGGTTTAGGGTT
* *
4618194 TTTAA-TTAA---ATTAGGGTTTTTAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAATTTAAGGGTTTAGGGTT
* * *
4618234 TTTAATTTTAAGGGTTTAGTGTTTTTAATTTAAGGG-TTAAGGTT
1 TTTAA-GTTAAGGGTTTAGGGTTTTTAATTTAAGGGTTTAGGGTT
* * **
4618278 TTTAAGTTAAGGGTTTAGTGTTTTTAATTAAATTAGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAATTTAA-GGGTTTAGGGTT
* * ** *
4618323 TTTAAGTTAATGGTTTAGGGTTTTTAATTAAATCAGTTTAGGTTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAATTTAA-GGGTTTAGGGTT
* *** * **
4618368 TTTATGTTTAAGGGTTTAAAATTTTTAATTAAATTAGTTTAGGGTT
1 TTTAAG-TTAAGGGTTTAGGGTTTTTAATTTAA-GGGTTTAGGGTT
* *
4618414 TTTAAGCTAAGGGTTAGGGTTTAGGGTTTTTATTTTTAAGGGTTTA-GGTT
1 TTTAAG-T-----TAAGGGTTTAGGGTTTTTA-ATTTAAGGGTTTAGGGTT
*
4618464 TTTAAGTTAAGGGTTTAGGGTTTTTAATTTTAAGGGTTTAGTGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAA-TTTAAGGGTTTAGGGTT
* * *
4618509 TTTAATTTAAGGG-TTAAGGTTTTTAAGTTAAGGGTTTA--G--
1 TTTAAGTTAAGGGTTTAGGGTTTTTAATTTAAGGGTTTAGGGTT
*
4618548 --TAAGTTAAGGGTTTAGGGTTTTTAATTTTAAGGGTTTAGTGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAA-TTTAAGGGTTTAGGGTT
* * *
4618591 TTTAATTTAAGGG-TTAAGGTTTTTAAGTTAAGGGTTTA--G--
1 TTTAAGTTAAGGGTTTAGGGTTTTTAATTTAAGGGTTTAGGGTT
*
4618630 --TAAGTTAAGGGTTTAGGGTTTTTAATTTTAAGAGTTTAGGG-T
1 TTTAAGTTAAGGGTTTAGGGTTTTTAA-TTTAAGGGTTTAGGGTT
4618672 TTTAAGT
1 TTTAAGT
4618679 AATAACTCAA
Statistics
Matches: 918, Mismatches: 129, Indels: 114
0.79 0.11 0.10
Matches are distributed among these distances:
37 20 0.02
38 24 0.03
39 23 0.03
40 31 0.03
41 4 0.00
42 43 0.05
43 180 0.20
44 170 0.19
45 276 0.30
46 108 0.12
47 4 0.00
49 1 0.00
50 10 0.01
51 20 0.02
52 4 0.00
ACGTcount: A:0.26, C:0.01, G:0.25, T:0.48
Consensus pattern (44 bp):
TTTAAGTTAAGGGTTTAGGGTTTTTAATTTAAGGGTTTAGGGTT
Found at i:4618444 original size:51 final size:49
Alignment explanation
Indices: 4618287--4618486 Score: 143
Period size: 51 Copynumber: 4.1 Consensus size: 49
4618277 TTTTAAGTTA
* *
4618287 AGGGTTTAGTGTTTTTAATTAAATTAGTTTAGGGTTTTTAAGTTAA----T
1 AGGGTTTAGGGTTTTTAATTAAATCAGTTTA-GGTTTTTAAG-TAAGGGTT
* *
4618334 --GGTTTAGGGTTTTTAATTAAATCAGTTTAGGTTTTT---T-ATGTTT
1 AGGGTTTAGGGTTTTTAATTAAATCAGTTTAGGTTTTTAAGTAAGGGTT
*** *
4618377 AAGGGTTTAAAATTTTTAATTAAATTAGTTTAGGGTTTTTAAGCTAAGGGTT
1 -AGGGTTTAGGGTTTTTAATTAAATCAGTTTA-GGTTTTTAAG-TAAGGGTT
* * **
4618429 AGGGTTTAGGGTTTTTATTTTTAA-GGGTTTAGGTTTTTAAGTTAAGGGTTT
1 AGGGTTTAGGGTTTTTA-ATTAAATCAGTTTAGGTTTTTAAG-TAAGGG-TT
4618480 AGGGTTT
1 AGGGTTT
4618487 TTAATTTTAA
Statistics
Matches: 122, Mismatches: 16, Indels: 26
0.74 0.10 0.16
Matches are distributed among these distances:
39 1 0.01
40 1 0.01
43 1 0.01
44 7 0.06
45 27 0.22
46 25 0.20
47 7 0.06
50 16 0.13
51 29 0.24
52 8 0.07
ACGTcount: A:0.25, C:0.01, G:0.24, T:0.50
Consensus pattern (49 bp):
AGGGTTTAGGGTTTTTAATTAAATCAGTTTAGGTTTTTAAGTAAGGGTT
Found at i:4618522 original size:82 final size:82
Alignment explanation
Indices: 4618466--4618674 Score: 400
Period size: 82 Copynumber: 2.5 Consensus size: 82
4618456 TTTAGGTTTT
4618466 TAAGTTAAGGGTTTAGGGTTTTTAATTTTAAGGGTTTAGTGTTTTTAATTTAAGGGTTAAGGTTT
1 TAAGTTAAGGGTTTAGGGTTTTTAATTTTAAGGGTTTAGTGTTTTTAATTTAAGGGTTAAGGTTT
4618531 TTAAGTTAAGGGTTTAG
66 TTAAGTTAAGGGTTTAG
4618548 TAAGTTAAGGGTTTAGGGTTTTTAATTTTAAGGGTTTAGTGTTTTTAATTTAAGGGTTAAGGTTT
1 TAAGTTAAGGGTTTAGGGTTTTTAATTTTAAGGGTTTAGTGTTTTTAATTTAAGGGTTAAGGTTT
4618613 TTAAGTTAAGGGTTTAG
66 TTAAGTTAAGGGTTTAG
* *
4618630 TAAGTTAAGGGTTTAGGGTTTTTAATTTTAAGAGTTTAGGGTTTT
1 TAAGTTAAGGGTTTAGGGTTTTTAATTTTAAGGGTTTAGTGTTTT
4618675 AAGTAATAAC
Statistics
Matches: 125, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
82 125 1.00
ACGTcount: A:0.25, C:0.00, G:0.27, T:0.48
Consensus pattern (82 bp):
TAAGTTAAGGGTTTAGGGTTTTTAATTTTAAGGGTTTAGTGTTTTTAATTTAAGGGTTAAGGTTT
TTAAGTTAAGGGTTTAG
Found at i:4618540 original size:14 final size:15
Alignment explanation
Indices: 4618521--4618563 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
4618511 TAATTTAAGG
*
4618521 GTTAAGGTTT-TTAA
1 GTTAAGGTTTAGTAA
4618535 GTTAAGGGTTTAGTAA
1 GTTAA-GGTTTAGTAA
4618551 GTTAAGGGTTTAG
1 GTTAA-GGTTTAG
4618564 GGTTTTTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
14 5 0.19
15 5 0.19
16 16 0.62
ACGTcount: A:0.28, C:0.00, G:0.30, T:0.42
Consensus pattern (15 bp):
GTTAAGGTTTAGTAA
Found at i:4618551 original size:16 final size:16
Alignment explanation
Indices: 4618532--4618563 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
4618522 TTAAGGTTTT
4618532 TAAGTTAAGGGTTTAG
1 TAAGTTAAGGGTTTAG
4618548 TAAGTTAAGGGTTTAG
1 TAAGTTAAGGGTTTAG
4618564 GGTTTTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.31, T:0.38
Consensus pattern (16 bp):
TAAGTTAAGGGTTTAG
Found at i:4618622 original size:14 final size:15
Alignment explanation
Indices: 4618603--4618645 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
4618593 TAATTTAAGG
*
4618603 GTTAAGGTTT-TTAA
1 GTTAAGGTTTAGTAA
4618617 GTTAAGGGTTTAGTAA
1 GTTAA-GGTTTAGTAA
4618633 GTTAAGGGTTTAG
1 GTTAA-GGTTTAG
4618646 GGTTTTTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
14 5 0.19
15 5 0.19
16 16 0.62
ACGTcount: A:0.28, C:0.00, G:0.30, T:0.42
Consensus pattern (15 bp):
GTTAAGGTTTAGTAA
Done.