Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold123
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: 1422801
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 1358 characters in sequence are not A, C, G, or T
File 3 of 9
Found at i:377579 original size:32 final size:33
Alignment explanation
Indices: 377525--377601 Score: 104
Period size: 32 Copynumber: 2.4 Consensus size: 33
377515 ATCGACTTGC
*
377525 GTGGGCTTT-AAAAATAGGTGCCACTAACTTAT
1 GTGGGCTTTGAAAAATAGGTGCCACCAACTTAT
* * *
377557 GTGGGCTTTGAAAAA-AGTTGCCACCGACTTGT
1 GTGGGCTTTGAAAAATAGGTGCCACCAACTTAT
377589 GTGGGCTTTGAAA
1 GTGGGCTTTGAAA
377602 GGGTATGCCA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
32 35 0.88
33 5 0.12
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (33 bp):
GTGGGCTTTGAAAAATAGGTGCCACCAACTTAT
Found at i:378567 original size:28 final size:28
Alignment explanation
Indices: 377556--378564 Score: 1230
Period size: 28 Copynumber: 35.5 Consensus size: 28
377546 CACTAACTTA
* * *
377556 TGTGGGCTTTGAAAAAAGTTGCCACCGACTT
1 TGTGGGCTTTG--AAAGGATGCCACTGAC-T
*
377587 GTGTGGGCTTTGAAAGGGTATGCCATTGACT
1 -TGTGGGCTTTGAAA-GG-ATGCCACTGACT
*
377618 TGTGGGTTTTGAAATGG-TGCCACTGACT
1 TGTGGGCTTTGAAA-GGATGCCACTGACT
* * *
377646 TGTTGGTTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
377674 TGTGGGCTTTGAAATGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
377702 TGTGCGCTTTGAAATGG-TGCCACTGACT
1 TGTGGGCTTTGAAA-GGATGCCACTGACT
*
377730 TGTGGGCTTTGAAATGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
377758 TATGGGCTTTGAAATGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
377786 TATGGGCTTT-AAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
377813 TGTGAGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
377841 TGCGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
** *
377869 TGTGAACTTTGAAAGGGTGCCA-TCGACT
1 TGTGGGCTTTGAAAGGATGCCACT-GACT
377897 TGTGGGCTTTGAAAGGGTATGCCACTGACT
1 TGTGGGCTTTGAAA-GG-ATGCCACTGACT
*
377927 TGTGGGCTTTGAAAAGGTATGCCACTAACT
1 TGTGGGCTTTG-AAAGG-ATGCCACTGACT
*
377957 TGTGGGCTTTGAAAAGGTATGCCACTAACT
1 TGTGGGCTTTG-AAAGG-ATGCCACTGACT
*
377987 TGTGGACTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
378015 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
378043 TGTGGGCTTTGAAAGTATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* **
378071 TGTGGGCTTTGAAAGGGTGCCACCAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
378099 TGTGGGCTTTGAAAAGGTATGCCACTGACT
1 TGTGGGCTTTG-AAAGG-ATGCCACTGACT
* *
378129 TGTGGGCTTTGAAATGG-TACCACTAACT
1 TGTGGGCTTTGAAA-GGATGCCACTGACT
* *
378157 TGTGGGGTTTGAAATGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
378185 TGCGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
378213 TGTGGGGTTTGAAAGTATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * * *
378241 TGT-GGATGTTAAAAGGGTGGCACCGACT
1 TGTGGGCT-TTGAAAGGATGCCACTGACT
* *
378269 TATAGGCTTTGAAAGGGTATGCCACTGACT
1 TGTGGGCTTTGAAA-GG-ATGCCACTGACT
*
378299 TGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
378327 TTTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
378355 TGTGGGCTTTGAAAGTATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
378383 TGTGGGCTTTGAAAAGG-TGCCA-TCGACT
1 TGTGGGCTTTG-AAAGGATGCCACT-GACT
*
378411 TGTGGGTTTTGAAAGAGTATGCCACTGACT
1 TGTGGGCTTTGAAAG-G-ATGCCACTGACT
*
378441 TGT-GGCTTTGAAAGGATGCTACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
378468 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
378496 TGTGTGCTTTG-AAGGTATGCCACTGACT
1 TGTGGGCTTTGAAAGG-ATGCCACTGACT
* *
378524 TGTGGGTTTTGAAAAGATGCCACTGAC-
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
378551 TATGGGCTTTGAAA
1 TGTGGGCTTTGAAA
378565 AAGGTCGTAT
Statistics
Matches: 863, Mismatches: 86, Indels: 61
0.85 0.09 0.06
Matches are distributed among these distances:
27 67 0.08
28 583 0.68
29 40 0.05
30 147 0.17
31 7 0.01
32 19 0.02
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGATGCCACTGACT
Found at i:378642 original size:14 final size:14
Alignment explanation
Indices: 378623--378660 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
378613 TCGATAGAAG
*
378623 TTCTTGACAATAAT
1 TTCTTGACAACAAT
*
378637 TTCTTGACAACCAT
1 TTCTTGACAACAAT
378651 TTCTTGACAA
1 TTCTTGACAA
378661 ATGGCGAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.32, C:0.21, G:0.08, T:0.39
Consensus pattern (14 bp):
TTCTTGACAACAAT
Found at i:379881 original size:23 final size:23
Alignment explanation
Indices: 379855--379911 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 23
379845 ACCTTTCTAA
379855 TTTTGTTTGTTTGTTTTTTGGTT
1 TTTTGTTTGTTTGTTTTTTGGTT
* *
379878 TTTTGTTTGGTTTTTTTTTTTGTT
1 TTTTGTTT-GTTTGTTTTTTGGTT
*
379902 TTTTTTTTGT
1 TTTTGTTTGT
379912 ATGAAGGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
23 10 0.33
24 20 0.67
ACGTcount: A:0.00, C:0.00, G:0.18, T:0.82
Consensus pattern (23 bp):
TTTTGTTTGTTTGTTTTTTGGTT
Found at i:379886 original size:12 final size:12
Alignment explanation
Indices: 379855--379910 Score: 62
Period size: 12 Copynumber: 4.8 Consensus size: 12
379845 ACCTTTCTAA
379855 TTTTGTTT-GTT
1 TTTTGTTTGGTT
379866 TGTTT-TTTGGTT
1 T-TTTGTTTGGTT
379878 TTTTGTTTGGTT
1 TTTTGTTTGGTT
* *
379890 TTTTTTTTTGTT
1 TTTTGTTTGGTT
*
379902 TTTTTTTTG
1 TTTTGTTTG
379911 TATGAAGGAT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
11 7 0.18
12 32 0.82
ACGTcount: A:0.00, C:0.00, G:0.18, T:0.82
Consensus pattern (12 bp):
TTTTGTTTGGTT
Found at i:381223 original size:13 final size:13
Alignment explanation
Indices: 381205--381230 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
381195 ACATAAGTGT
381205 TGTATCGATACAA
1 TGTATCGATACAA
381218 TGTATCGATACAA
1 TGTATCGATACAA
381231 AGCTACTCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:395427 original size:12 final size:11
Alignment explanation
Indices: 395410--395467 Score: 52
Period size: 10 Copynumber: 5.5 Consensus size: 11
395400 ATCCTCCGTA
*
395410 AAAAAAAGAGAC
1 AAAAAAACA-AC
395422 AAAAAAACAAC
1 AAAAAAACAAC
395433 -AAAAAACAA-
1 AAAAAAACAAC
395442 AAAGAAAA-AA-
1 AAA-AAAACAAC
*
395452 AATAAAACAAC
1 AAAAAAACAAC
395463 AAAAA
1 AAAAA
395468 GGGTCCGGAT
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
9 4 0.10
10 17 0.44
11 10 0.26
12 8 0.21
ACGTcount: A:0.83, C:0.10, G:0.05, T:0.02
Consensus pattern (11 bp):
AAAAAAACAAC
Found at i:395443 original size:15 final size:15
Alignment explanation
Indices: 395425--395467 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
395415 AAGAGACAAA
395425 AAAACAACAAAAAAC
1 AAAACAACAAAAAAC
* *
395440 AAAA-AGAAAAAAAAT
1 AAAACA-ACAAAAAAC
395455 AAAACAACAAAAA
1 AAAACAACAAAAA
395468 GGGTCCGGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
14 1 0.04
15 21 0.91
16 1 0.04
ACGTcount: A:0.84, C:0.12, G:0.02, T:0.02
Consensus pattern (15 bp):
AAAACAACAAAAAAC
Found at i:395449 original size:23 final size:23
Alignment explanation
Indices: 395423--395468 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
395413 AAAAGAGACA
*
395423 AAAAAACAAC-AAAAAACAAAAAG
1 AAAAAA-AACAAAACAACAAAAAG
*
395446 AAAAAAAATAAAACAACAAAAAG
1 AAAAAAAACAAAACAACAAAAAG
395469 GGTCCGGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 2 0.10
23 18 0.90
ACGTcount: A:0.83, C:0.11, G:0.04, T:0.02
Consensus pattern (23 bp):
AAAAAAAACAAAACAACAAAAAG
Found at i:396531 original size:37 final size:37
Alignment explanation
Indices: 396490--396574 Score: 161
Period size: 37 Copynumber: 2.3 Consensus size: 37
396480 TGCCATAATC
396490 ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
1 ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
*
396527 ATGCATTTATGACATTCATAACATTTCATTTTGCATG
1 ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
396564 ATGCATTTGTG
1 ATGCATTTGTG
396575 CTTCGTCTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.27, C:0.15, G:0.14, T:0.44
Consensus pattern (37 bp):
ATGCATTTGTGACATTCATAACATTTCATTTTGCATG
Found at i:396988 original size:29 final size:29
Alignment explanation
Indices: 396939--397719 Score: 656
Period size: 29 Copynumber: 27.3 Consensus size: 29
396929 CTCACCTTCC
* *
396939 AAAGCCCACAAGTTAGTGGCATCTTTTCA
1 AAAGCCCACAAGTCAGTGGCACCTTTTCA
* *
396968 AAAGCCCACAAATCAGCGGCACCTTTTTC-
1 AAAGCCCACAAGTCAGTGGCACC-TTTTCA
396997 AAAGCCCACAAGTCAGTGGCAACC--TTCA
1 AAAGCCCACAAGTCAGTGGC-ACCTTTTCA
* * * * *
397025 GAATCCCACAGGTCGGTGGCACCCCTTTC-
1 AAAGCCCACAAGTCAGTGGCA-CCTTTTCA
* *
397054 AAAGCCCACAAGTCAGTGGCACCCTATGC-
1 AAAGCCCACAAGTCAGTGGCA-CCTTTTCA
397083 AAAGCCCACAAGTCAGTGGCAACC--TTCA
1 AAAGCCCACAAGTCAGTGGC-ACCTTTTCA
* * *
397111 GAAGCCCACAAGTCGGTGGCACCCCTTTC-
1 AAAGCCCACAAGTCAGTGGCA-CCTTTTCA
* * *
397140 AAAGCCTACAAATTAGTGGCAACC--TTCA
1 AAAGCCCACAAGTCAGTGGC-ACCTTTTCA
* *
397168 AAAGCCCACAAGTCAGCGGCATCTTTTCA
1 AAAGCCCACAAGTCAGTGGCACCTTTTCA
*
397197 AAAGCCCACAAGTCAGTGGCATCTTTTCA
1 AAAGCCCACAAGTCAGTGGCACCTTTTCA
* *
397226 AAAGCCCATAAGTTAGTGGCACCCTTTTC-
1 AAAGCCCACAAGTCAGTGGCA-CCTTTTCA
397255 AAAGCCCACAAGTCAGTGGCAACC-TTT-A
1 AAAGCCCACAAGTCAGTGGC-ACCTTTTCA
* * * *
397283 GAAGCCCACAGGTCGGTGGCACCCCTTTC-
1 AAAGCCCACAAGTCAGTGGCA-CCTTTTCA
*
397312 AAAGCCCACAAGTCAGTGGCAAC--TTCA
1 AAAGCCCACAAGTCAGTGGCACCTTTTCA
* * *
397339 GAAGCCCACAAGTCGGTGGCACCCCTTTC-
1 AAAGCCCACAAGTCAGTGGCA-CCTTTTCA
* * *
397368 AAAGCCCATAAGTTAGTGGCAACC-TTT-G
1 AAAGCCCACAAGTCAGTGGC-ACCTTTTCA
* * *
397396 AAAGTCCAAAAGTCAGTGGCATCTTTTCA
1 AAAGCCCACAAGTCAGTGGCACCTTTTCA
* * *
397425 AAAGCCCACAGGTCGGTGGCACCCCTTTCA
1 AAAGCCCACAAGTCAGTGGCA-CCTTTTCA
397455 AAA-CCCACAAGTCAGTGGCACCCTTTTC-
1 AAAGCCCACAAGTCAGTGGCA-CCTTTTCA
*
397483 AAAGCCCACAGGTCAGTGGCAACC--TTCA
1 AAAGCCCACAAGTCAGTGGC-ACCTTTTCA
* *
397511 GAAGCCCACAAGTCAGTGGCACCCCTTTC-
1 AAAGCCCACAAGTCAGTGGCA-CCTTTTCA
*
397540 AAAGCCCAGAAGTCAGTGGCAACC--TTCA
1 AAAGCCCACAAGTCAGTGGC-ACCTTTTCA
*
397568 AAAGCCCACAAGTCAGTGGCATCTTTTCA
1 AAAGCCCACAAGTCAGTGGCACCTTTTCA
* * *
397597 AAAGCCCATAAGTTAGTGGCACATTTTC-
1 AAAGCCCACAAGTCAGTGGCACCTTTTCA
* *
397625 AAAGCTCACAAGTCCAATGGCAACC-TTT--
1 AAAGCCCACAAGT-CAGTGGC-ACCTTTTCA
*
397653 AAAGCCCACAAGGCAGTGGCAACC-TTT-A
1 AAAGCCCACAAGTCAGTGGC-ACCTTTTCA
* ** *
397681 AAAGCACACAAGTTGGT-GCAACCCTTTCA
1 AAAGCCCACAAGTCAGTGGC-ACCTTTTCA
397710 AAAGCCCACA
1 AAAGCCCACA
397720 CAAGTTGGTG
Statistics
Matches: 619, Mismatches: 88, Indels: 90
0.78 0.11 0.11
Matches are distributed among these distances:
26 3 0.00
27 62 0.10
28 181 0.29
29 330 0.53
30 43 0.07
ACGTcount: A:0.31, C:0.31, G:0.19, T:0.20
Consensus pattern (29 bp):
AAAGCCCACAAGTCAGTGGCACCTTTTCA
Found at i:397058 original size:57 final size:56
Alignment explanation
Indices: 396932--397719 Score: 781
Period size: 57 Copynumber: 13.8 Consensus size: 56
396922 GACATTCCTC
* * * * * *
396932 ACCTTCCAAAGCCCACAAGTTAGTGGCATCTTTTCAAAAGCCCACAAATCAGCGGC-
1 ACCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTC-AAAGCCCACAAGTCAGTGGCA
* * * *
396988 ACCTTTTTCAAAGCCCACAAGTCAGTGGCAACC-TTCAGAATCCCACAGGTCGGTGGCA
1 ACC--TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCA-AAGCCCACAAGTCAGTGGCA
* *
397046 CCCCTTTCAAAGCCCACAAGTCAGTGGCACCCTATGCAAAGCCCACAAGTCAGTGGCA
1 -ACCTTTCAAAGCCCACAAGTCAGTGGCACCCT-TTCAAAGCCCACAAGTCAGTGGCA
* * * *
397104 ACC-TTCAGAAGCCCACAAGTCGGTGGCACCCCTTTCAAAGCCTACAAATTAGTGGCA
1 ACCTTTCA-AAGCCCACAAGTCAGTGGCA-CCCTTTCAAAGCCCACAAGTCAGTGGCA
* * *
397161 ACC-TTCAAAAGCCCACAAGTCAGCGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCA
1 ACCTTTC-AAAGCCCACAAGTCAGTGGCACCCTTTC-AAAGCCCACAAGTCAGTGGCA
* * * *
397218 TCTTTTCAAAAGCCCATAAGTTAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCA
1 ACCTTTC-AAAGCCCACAAGTCAGTGGCACCC-TTTCAAAGCCCACAAGTCAGTGGCA
* *
397276 ACCTTT-AGAAGCCCACAGGTCGGTGGCACCCCTTTCAAAGCCCACAAGTCAGTGGCA
1 ACCTTTCA-AAGCCCACAAGTCAGTGGCA-CCCTTTCAAAGCCCACAAGTCAGTGGCA
* * *
397333 A-C-TTCAGAAGCCCACAAGTCGGTGGCACCCCTTTCAAAGCCCATAAGTTAGTGGCA
1 ACCTTTCA-AAGCCCACAAGTCAGTGGCA-CCCTTTCAAAGCCCACAAGTCAGTGGCA
* * * * * * *
397389 ACCTTTGAAAGTCCAAAAGTCAGTGGCATCTTTTCAAAAGCCCACAGGTCGGTGGCA
1 ACCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTC-AAAGCCCACAAGTCAGTGGCA
* * *
397446 CCCCTTTCAAAACCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAGGTCAGTGGCA
1 -ACCTTTCAAAGCCCACAAGTCAGTGGCACCC-TTTCAAAGCCCACAAGTCAGTGGCA
*
397504 ACC-TTCAGAAGCCCACAAGTCAGTGGCACCCCTTTCAAAGCCCAGAAGTCAGTGGCA
1 ACCTTTCA-AAGCCCACAAGTCAGTGGCA-CCCTTTCAAAGCCCACAAGTCAGTGGCA
* * * *
397561 ACC-TTCAAAAGCCCACAAGTCAGTGGCATCTTTTCAAAAGCCCATAAGTTAGTGGC-
1 ACCTTTC-AAAGCCCACAAGTCAGTGGCACCCTTTC-AAAGCCCACAAGTCAGTGGCA
* * * * *
397617 ACATTTTCAAAGCTCACAAGTCCAATGGCAACCTTT-AAAGCCCACAAGGCAGTGGCA
1 AC-CTTTCAAAGCCCACAAGT-CAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA
* * **
397674 ACCTTTAAAAGCACACAAGTTGGT-GCAACCCTTTCAAAAGCCCACA
1 ACCTTTCAAAGCCCACAAGTCAGTGGC-ACCCTTTC-AAAGCCCACA
397720 CAAGTTGGTG
Statistics
Matches: 615, Mismatches: 85, Indels: 63
0.81 0.11 0.08
Matches are distributed among these distances:
54 2 0.00
55 9 0.01
56 112 0.18
57 317 0.52
58 162 0.26
59 13 0.02
ACGTcount: A:0.30, C:0.31, G:0.19, T:0.20
Consensus pattern (56 bp):
ACCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCA
Found at i:397086 original size:86 final size:83
Alignment explanation
Indices: 396932--397719 Score: 667
Period size: 86 Copynumber: 9.2 Consensus size: 83
396922 GACATTCCTC
* * * * * *
396932 ACCTTCCAAAGCCCACAAGTTAGTGGCA-TCTTTTCAAAAGCCCACAAATCAGCGGCACCTTTTT
1 ACCTT-CAAAGCCCACAAGTCAGTGGCACCCCTTTC-AAAGCCCACAAGTCAGTGGCACC--CTT
396996 CAAAGCCCACAAGTCAGTGGCA
62 CAAAGCCCACAAGTCAGTGGCA
* * *
397018 ACCTTCAGAATCCCACAGGTCGGTGGCACCCCTTTCAAAGCCCACAAGTCAGTGGCACCCTATGC
1 ACCTTCA-AAGCCCACAAGTCAGTGGCACCCCTTTCAAAGCCCACAAGTCAGTGGCACCCT-T-C
397083 AAAGCCCACAAGTCAGTGGCA
63 AAAGCCCACAAGTCAGTGGCA
* * * * *
397104 ACCTTCAGAAGCCCACAAGTCGGTGGCACCCCTTTCAAAGCCTACAAATTAGTGGCAACCTTCAA
1 ACCTTCA-AAGCCCACAAGTCAGTGGCACCCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTC-A
*
397169 AAGCCCACAAGTCAGCGGCA
64 AAGCCCACAAGTCAGTGGCA
* * * * * *
397189 TCTTTTCAAAAGCCCACAAGTCAGTGGCA-TCTTTTCAAAAGCCCATAAGTTAGTGGCACCCTTT
1 AC-CTTC-AAAGCCCACAAGTCAGTGGCACCCCTTTC-AAAGCCCACAAGTCAGTGGCACCC--T
397253 TCAAAGCCCACAAGTCAGTGGCA
61 TCAAAGCCCACAAGTCAGTGGCA
* * * *
397276 ACCTTTAGAAGCCCACAGGTCGGTGGCACCCCTTTCAAAGCCCACAAGTCAGTGGCA-ACTTCAG
1 ACCTTCA-AAGCCCACAAGTCAGTGGCACCCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTCA-
*
397340 AAGCCCACAAGTCGGTGGCA
64 AAGCCCACAAGTCAGTGGCA
* * * * * * * **
397360 CCCCTTTCAAAGCCCATAAGTTAGTGGCA-ACCTTTGAAAGTCCAAAAGTCAGTGGCATCTTTTC
1 -ACC-TTCAAAGCCCACAAGTCAGTGGCACCCCTTTCAAAGCCCACAAGTCAGTGGCA-CCCTTC
* *
397424 AAAAGCCCACAGGTCGGTGGCA
63 -AAAGCCCACAAGTCAGTGGCA
* * * * *
397446 CCCCTTTCAAAACCCACAAGTCAGTGGCACCCTTTTCAAAGCCCACAGGTCAGTGGCAACCTTCA
1 -ACC-TTCAAAGCCCACAAGTCAGTGGCACCCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTCA
397511 GAAGCCCACAAGTCAGTGGCA
64 -AAGCCCACAAGTCAGTGGCA
* * * **
397532 CCCCTTTCAAAGCCCAGAAGTCAGTGGCA-ACC-TTCAAAAGCCCACAAGTCAGTGGCATCTTTT
1 -ACC-TTCAAAGCCCACAAGTCAGTGGCACCCCTTTC-AAAGCCCACAAGTCAGTGGCA-CCCTT
* *
397595 CAAAAGCCCATAAGTTAGTGGCA
62 C-AAAGCCCACAAGTCAGTGGCA
** * * * * * *
397618 CATTTTCAAAGCTCACAAGTCCAATGGCA-ACCTTT-AAAGCCCACAAGGCAGTGGCAACCTTTA
1 -ACCTTCAAAGCCCACAAGT-CAGTGGCACCCCTTTCAAAGCCCACAAGTCAGTGGC-ACCCTTC
* **
397681 AAAGCACACAAGTTGGT-GCA
63 AAAGCCCACAAGTCAGTGGCA
397701 ACCCTTTCAAAAGCCCACA
1 A-CC-TTC-AAAGCCCACA
397720 CAAGTTGGTG
Statistics
Matches: 584, Mismatches: 89, Indels: 59
0.80 0.12 0.08
Matches are distributed among these distances:
82 1 0.00
83 7 0.01
84 65 0.11
85 118 0.20
86 332 0.57
87 58 0.10
88 3 0.01
ACGTcount: A:0.30, C:0.31, G:0.19, T:0.20
Consensus pattern (83 bp):
ACCTTCAAAGCCCACAAGTCAGTGGCACCCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTCAAA
GCCCACAAGTCAGTGGCA
Found at i:397656 original size:28 final size:29
Alignment explanation
Indices: 397460--397693 Score: 99
Period size: 28 Copynumber: 8.2 Consensus size: 29
397450 TTTCAAAACC
* * * *
397460 CACAAGT-CAGTGGCACCCTTTTCAAAGCC
1 CACAAGTCCAATGGCAACC-TTTAAAAGCA
* * * * *
397489 CACAGGT-CAGTGGCAACCTTCAGAAGCC
1 CACAAGTCCAATGGCAACCTTTAAAAGCA
* * * *
397517 CACAAGT-CAGTGGCACCCCTTTCAAAGCC
1 CACAAGTCCAATGGCA-ACCTTTAAAAGCA
* * * *
397546 CAGAAGT-CAGTGGCAACCTTCAAAAGCC
1 CACAAGTCCAATGGCAACCTTTAAAAGCA
* * * *
397574 CACAAGT-CAGTGGCATCTTTTCAAAAGCC
1 CACAAGTCCAATGGCAACCTTT-AAAAGCA
* * * * * *
397603 CATAAGT-TAGTGGC-ACATTTTCAAAGCT
1 CACAAGTCCAATGGCAAC-CTTTAAAAGCA
*
397631 CACAAGTCCAATGGCAACCTTT-AAAGCC
1 CACAAGTCCAATGGCAACCTTTAAAAGCA
* *
397659 CACAAG-GCAGTGGCAACCTTTAAAAGCA
1 CACAAGTCCAATGGCAACCTTTAAAAGCA
397687 CACAAGT
1 CACAAGT
397694 TGGTGCAACC
Statistics
Matches: 167, Mismatches: 31, Indels: 14
0.79 0.15 0.07
Matches are distributed among these distances:
27 13 0.08
28 82 0.49
29 70 0.42
30 2 0.01
ACGTcount: A:0.32, C:0.29, G:0.19, T:0.19
Consensus pattern (29 bp):
CACAAGTCCAATGGCAACCTTTAAAAGCA
Found at i:397723 original size:31 final size:27
Alignment explanation
Indices: 397644--397729 Score: 84
Period size: 28 Copynumber: 3.0 Consensus size: 27
397634 AAGTCCAATG
* ***
397644 GCAACCTTT-AAAGCCCACAAGGCAGT
1 GCAACCTTTAAAAGCACACAAGTTGGT
397670 GGCAACCTTTAAAAGCACACAAGTTGGT
1 -GCAACCTTTAAAAGCACACAAGTTGGT
397698 GCAACCCTTTCAAAAGCCCACACAAGTTGGT
1 GCAA-CCTTT-AAAAG--CACACAAGTTGGT
397729 G
1 G
397730 GCATATTCTT
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
27 13 0.26
28 18 0.36
29 5 0.10
31 14 0.28
ACGTcount: A:0.34, C:0.28, G:0.20, T:0.19
Consensus pattern (27 bp):
GCAACCTTTAAAAGCACACAAGTTGGT
Found at i:397813 original size:49 final size:49
Alignment explanation
Indices: 397756--397972 Score: 299
Period size: 49 Copynumber: 4.4 Consensus size: 49
397746 CCAATATCAC
* * *
397756 TGGCCTTGAATCAGCATATTAGCACCTTCACCTTTAAATCTAATGTTGA
1 TGGCCTTGAATCAGCACATTAGCACCTTCACCTTTAAATCCAATGTTGT
* * * *
397805 TGGCCTTGAATCAAGCACATTAGCACCTTCATCTTTAAGTCCCATATTGT
1 TGGCCTTGAATC-AGCACATTAGCACCTTCACCTTTAAATCCAATGTTGT
* * *
397855 TGGCCTTGAATTAGCATATTAGCACCTTCACCTTTAAGTCCAATGTTGT
1 TGGCCTTGAATCAGCACATTAGCACCTTCACCTTTAAATCCAATGTTGT
* * * *
397904 TGGCCTTGAATCAGCACATTAGCACCTTCACCTCTAAACCCAATGTCGC
1 TGGCCTTGAATCAGCACATTAGCACCTTCACCTTTAAATCCAATGTTGT
397953 TGGCCTTGAATCAGCACATT
1 TGGCCTTGAATCAGCACATT
397973 GGCATTCTTC
Statistics
Matches: 148, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
49 107 0.72
50 41 0.28
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.32
Consensus pattern (49 bp):
TGGCCTTGAATCAGCACATTAGCACCTTCACCTTTAAATCCAATGTTGT
Found at i:397910 original size:99 final size:98
Alignment explanation
Indices: 397756--397968 Score: 313
Period size: 99 Copynumber: 2.2 Consensus size: 98
397746 CCAATATCAC
*
397756 TGGCCTTGAATCAGCATATTAGCACCTTCACCTTTAAATCTAATGTTGATGGCCTTGAATCAAGC
1 TGGCCTTGAATCAGCATATTAGCACCTTCACCTTTAAATCCAATGTTGATGGCCTTGAATC-AGC
397821 ACATTAGCACCTTCATCTTTAAGTCCCATATTGT
65 ACATTAGCACCTTCATCTTTAAGTCCCATATTGT
* * *
397855 TGGCCTTGAATTAGCATATTAGCACCTTCACCTTTAAGTCCAATGTTGTTGGCCTTGAATCAGCA
1 TGGCCTTGAATCAGCATATTAGCACCTTCACCTTTAAATCCAATGTTGATGGCCTTGAATCAGCA
* * * *
397920 CATTAGCACCTTCACCTCTAA-ACCCA-ATGTCGC
66 CATTAGCACCTTCATCTTTAAGTCCCATAT-T-GT
397953 TGGCCTTGAATCAGCA
1 TGGCCTTGAATCAGCA
397969 CATTGGCATT
Statistics
Matches: 103, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
96 2 0.02
97 5 0.05
98 39 0.38
99 57 0.55
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.32
Consensus pattern (98 bp):
TGGCCTTGAATCAGCATATTAGCACCTTCACCTTTAAATCCAATGTTGATGGCCTTGAATCAGCA
CATTAGCACCTTCATCTTTAAGTCCCATATTGT
Found at i:398067 original size:52 final size:51
Alignment explanation
Indices: 397942--398072 Score: 138
Period size: 52 Copynumber: 2.5 Consensus size: 51
397932 CACCTCTAAA
* *
397942 CCCAATGTCGCTGGCCTTGAATCAGCACATTGGCATTCTTCTCATCTTCAAG
1 CCCAATGTC-CTGGACTTGAATCAGCACATTGACATTCTTCTCATCTTCAAG
* * * * *
397994 TCTAATGTCGTTGACTGTGAATCAGCACATTGACATTCTT-TACATCTTTAAG
1 CCCAATGTCCTGGACT-TGAATCAGCACATTGACATTCTTCT-CATCTTCAAG
* *
398046 CCCAATATCACTGGTCTTGAATCAGCA
1 CCCAATGTC-CTGGACTTGAATCAGCA
398073 TATTAGGACC
Statistics
Matches: 63, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
51 5 0.08
52 54 0.86
53 4 0.06
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (51 bp):
CCCAATGTCCTGGACTTGAATCAGCACATTGACATTCTTCTCATCTTCAAG
Found at i:399365 original size:13 final size:13
Alignment explanation
Indices: 399347--399372 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
399337 ACATAAGTGT
399347 TGTATCGATACAA
1 TGTATCGATACAA
399360 TGTATCGATACAA
1 TGTATCGATACAA
399373 AGTTACTCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:411319 original size:15 final size:15
Alignment explanation
Indices: 411277--411324 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
411267 GGGGTGTATC
411277 GATGATTTTGTGGTG
1 GATGATTTTGTGGTG
* ** *
411292 GATAATTAGGTGGCG
1 GATGATTTTGTGGTG
411307 GATGATTTTGTGGTG
1 GATGATTTTGTGGTG
411322 GAT
1 GAT
411325 TTGGCAGAAT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.19, C:0.02, G:0.40, T:0.40
Consensus pattern (15 bp):
GATGATTTTGTGGTG
Found at i:415737 original size:20 final size:19
Alignment explanation
Indices: 415691--415746 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
415681 AAAACCCTTA
**
415691 AATGTATCGATACACAATTC
1 AATGTATCGATACA-TGTTC
*
415711 AAAGTATCGATACATGTTGC
1 AATGTATCGATACATGTT-C
415731 AATGTATCGATACATG
1 AATGTATCGATACATG
415747 AAAAAGATGT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 2 0.06
20 29 0.94
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (19 bp):
AATGTATCGATACATGTTC
Found at i:415823 original size:13 final size:13
Alignment explanation
Indices: 415805--415830 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
415795 TACAGCAAGT
415805 ATGTATCGATACA
1 ATGTATCGATACA
415818 ATGTATCGATACA
1 ATGTATCGATACA
415831 CAAAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:418091 original size:21 final size:21
Alignment explanation
Indices: 418058--418102 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
418048 TTGCAAGTTG
*
418058 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
418080 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
418100 AAA
1 AAA
418103 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:419926 original size:15 final size:15
Alignment explanation
Indices: 419906--419936 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
419896 TAAAAATGTC
*
419906 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
419921 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
419936 C
1 C
419937 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:422033 original size:13 final size:13
Alignment explanation
Indices: 422015--422040 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
422005 ACATTTTTCT
422015 TTGTATCGATACA
1 TTGTATCGATACA
422028 TTGTATCGATACA
1 TTGTATCGATACA
422041 GGGTGATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:422204 original size:20 final size:20
Alignment explanation
Indices: 422161--422207 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
422151 AAATCTTTTG
422161 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
422182 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
422202 CAAAAT
1 CAAAAT
422208 CAGCATCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 6 0.26
21 9 0.39
22 8 0.35
ACGTcount: A:0.32, C:0.19, G:0.04, T:0.45
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:424512 original size:20 final size:19
Alignment explanation
Indices: 424466--424521 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
424456 AAAACCCTTA
**
424466 AATGTATCGATACACAATTC
1 AATGTATCGATACA-TGTTC
*
424486 AAAGTATCGATACATGTTGC
1 AATGTATCGATACATGTT-C
424506 AATGTATCGATACATG
1 AATGTATCGATACATG
424522 AAAAAGATGT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 2 0.06
20 29 0.94
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (19 bp):
AATGTATCGATACATGTTC
Found at i:424598 original size:13 final size:13
Alignment explanation
Indices: 424580--424605 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
424570 TACAGCAAGT
424580 ATGTATCGATACA
1 ATGTATCGATACA
424593 ATGTATCGATACA
1 ATGTATCGATACA
424606 CAAAAAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:429776 original size:35 final size:35
Alignment explanation
Indices: 429736--429852 Score: 144
Period size: 35 Copynumber: 3.3 Consensus size: 35
429726 TTTGCTCTTT
* * * *
429736 ATCAAACTCTTTTCATCGTCGTTTGAATATAACTG
1 ATCAAACTCTTTCCATCATCGTTTGACTATATCTG
* * *
429771 ATCAAACTCTCTCCATTATCGTTTGACTGTATCTG
1 ATCAAACTCTTTCCATCATCGTTTGACTATATCTG
* *
429806 GTCAAACTCTTTCCATCAACGTTTGACTATATCTG
1 ATCAAACTCTTTCCATCATCGTTTGACTATATCTG
*
429841 GTCAAACTCTTT
1 ATCAAACTCTTT
429853 TTACTCTCTT
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
35 70 1.00
ACGTcount: A:0.26, C:0.24, G:0.11, T:0.39
Consensus pattern (35 bp):
ATCAAACTCTTTCCATCATCGTTTGACTATATCTG
Found at i:430006 original size:94 final size:93
Alignment explanation
Indices: 429838--430108 Score: 294
Period size: 94 Copynumber: 2.9 Consensus size: 93
429828 TTGACTATAT
* * * *
429838 CTGGTCAAACTCTTTTTACTCTCT-TTTGACTACATTAGTGTTAGTACTTGGTCAAACTCTTTTT
1 CTGGTCAAACTCTTTTTACTCT-TGTTTGACTATATTGGTGTTAGGACCTGGTCAAACTCTTTTT
* * *
429902 ACTCTCATTTGACTATATTAGCGTTAGGAC
65 ACCCT-ATTTGACTGTATTAGCGTTAAGAC
* * * * *
429932 CTGGTTAAACTCTTTTTACTCTTGCTTGATTGTATTGGTGTTAGGACCTAGTCAAACTCTTTTTA
1 CTGGTCAAACTCTTTTTACTCTTGTTTGACTATATTGGTGTTAGGACCTGGTCAAACTCTTTTTA
* *
429997 CCCATATTTGATTGTATTAGTGTTAAGAC
66 CCC-TATTTGACTGTATTAGCGTTAAGAC
* ** ** *
430026 CTGGTCGAACTCTTTCCAAC-CTTGTTTGACTATATTGGCATTAGGAACTGGTCAAACTCTTTTT
1 CTGGTCAAACTCTTT-TTACTCTTGTTTGACTATATTGGTGTTAGGACCTGGTCAAACTCTTTTT
*
430090 ACCCTTGTTTGACTGTATT
65 ACCC-TATTTGACTGTATT
430109 GGCTTTAGTC
Statistics
Matches: 146, Mismatches: 28, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
93 1 0.01
94 142 0.97
95 3 0.02
ACGTcount: A:0.22, C:0.19, G:0.16, T:0.43
Consensus pattern (93 bp):
CTGGTCAAACTCTTTTTACTCTTGTTTGACTATATTGGTGTTAGGACCTGGTCAAACTCTTTTTA
CCCTATTTGACTGTATTAGCGTTAAGAC
Found at i:430111 original size:47 final size:47
Alignment explanation
Indices: 429838--430108 Score: 256
Period size: 47 Copynumber: 5.8 Consensus size: 47
429828 TTGACTATAT
* * * *
429838 CTGGTCAAACTCTTTTTACTCTCT-TTTGACTACATTAGTGTTAGTAC
1 CTGGTCAAACTCTTTTTACCCT-TGTTTGACTATATTAGCGTTAGGAC
* * **
429885 TTGGTCAAACTCTTTTTACTCTCATTTGACTATATTAGCGTTAGGAC
1 CTGGTCAAACTCTTTTTACCCTTGTTTGACTATATTAGCGTTAGGAC
* * * * * * *
429932 CTGGTTAAACTCTTTTTACTCTTGCTTGATTGTATTGGTGTTAGGAC
1 CTGGTCAAACTCTTTTTACCCTTGTTTGACTATATTAGCGTTAGGAC
* * * * * * *
429979 CTAGTCAAACTCTTTTTACCCATATTTGATTGTATTAGTGTTAAGAC
1 CTGGTCAAACTCTTTTTACCCTTGTTTGACTATATTAGCGTTAGGAC
* ** * * * *
430026 CTGGTCGAACTCTTTCCAACCTTGTTTGACTATATTGGCATTAGGAA
1 CTGGTCAAACTCTTTTTACCCTTGTTTGACTATATTAGCGTTAGGAC
*
430073 CTGGTCAAACTCTTTTTACCCTTGTTTGACTGTATT
1 CTGGTCAAACTCTTTTTACCCTTGTTTGACTATATT
430109 GGCTTTAGTC
Statistics
Matches: 182, Mismatches: 41, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
47 182 1.00
ACGTcount: A:0.22, C:0.19, G:0.16, T:0.43
Consensus pattern (47 bp):
CTGGTCAAACTCTTTTTACCCTTGTTTGACTATATTAGCGTTAGGAC
Found at i:433398 original size:56 final size:56
Alignment explanation
Indices: 433312--433424 Score: 208
Period size: 56 Copynumber: 2.0 Consensus size: 56
433302 GTTTTAGGCT
*
433312 AAAATGCAAACTTTGAAAAGTTTAAGGACTAGCTAGCAAAGTGAAATAAAATGGCA
1 AAAATGCAAACTTTGAAAAGTTTAAGGACTAGCTAGCAAAGTGAAACAAAATGGCA
*
433368 AAAATGCAGACTTTGAAAAGTTTAAGGACTAGCTAGCAAAGTGAAACAAAATGGCA
1 AAAATGCAAACTTTGAAAAGTTTAAGGACTAGCTAGCAAAGTGAAACAAAATGGCA
433424 A
1 A
433425 TTTCAAGCTT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.48, C:0.12, G:0.20, T:0.20
Consensus pattern (56 bp):
AAAATGCAAACTTTGAAAAGTTTAAGGACTAGCTAGCAAAGTGAAACAAAATGGCA
Found at i:434036 original size:141 final size:140
Alignment explanation
Indices: 433776--434042 Score: 396
Period size: 141 Copynumber: 1.9 Consensus size: 140
433766 ACTAAATAAG
* * *
433776 AATTATTATCTTAATTTTTTAAGATTTCTAATATTCCTATGGTGTTTCGTGGGGGTATAGAAATC
1 AATTATTATCTTAATTTTTCAAGATTTCTAATATTCCTATGGTGTTTCGTAGGGGCATAGAAATC
* * *
433841 TTCATAACTTTTTATATCTTTTCAGTTCTAGACTAAGGTACGAAAAGAATTTTTTGGAAATTAAA
66 TTCAAAACTTTTCATATCTTTTCAGTTCTACACTAAGGTACGAAAAGAATTTTTT-GAAATTAAA
433906 AATTAAACAAA
130 AATTAAACAAA
*
433917 AATTATTATCTTAATTTTTCAAGATTTTTAATATTCCTATGGT-TTTACGTAGGGGCATAGAAAT
1 AATTATTATCTTAATTTTTCAAGATTTCTAATATTCCTATGGTGTTT-CGTAGGGGCATAGAAAT
* *
433981 CTTCAAAACTTTTCGTATCTTTTCAGTTCTCCACTAAGGTACGAAATA-AGA-TTTTTGAAATT
65 CTTCAAAACTTTTCATATCTTTTCAGTTCTACACTAAGGTACGAAA-AGA-ATTTTTTGAAATT
434043 TATAACTTAT
Statistics
Matches: 114, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
140 9 0.08
141 103 0.90
142 2 0.02
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.42
Consensus pattern (140 bp):
AATTATTATCTTAATTTTTCAAGATTTCTAATATTCCTATGGTGTTTCGTAGGGGCATAGAAATC
TTCAAAACTTTTCATATCTTTTCAGTTCTACACTAAGGTACGAAAAGAATTTTTTGAAATTAAAA
ATTAAACAAA
Found at i:434301 original size:13 final size:13
Alignment explanation
Indices: 434283--434308 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
434273 TTCTACAATT
434283 TGTATCGATACAA
1 TGTATCGATACAA
434296 TGTATCGATACAA
1 TGTATCGATACAA
434309 AACCACCCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:439559 original size:30 final size:31
Alignment explanation
Indices: 439523--439587 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
439513 GAACAGTACT
*
439523 TGTATCGATATATTCT-ATTTTTTACCCAGA
1 TGTATCGATACATTCTGATTTTTTACCCAGA
* *
439553 TGTATCGATACATTTTGTTTTTTTACCCAGA
1 TGTATCGATACATTCTGATTTTTTACCCAGA
439584 TGTA
1 TGTA
439588 GTTAATTTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
30 14 0.45
31 17 0.55
ACGTcount: A:0.25, C:0.15, G:0.12, T:0.48
Consensus pattern (31 bp):
TGTATCGATACATTCTGATTTTTTACCCAGA
Found at i:445897 original size:13 final size:13
Alignment explanation
Indices: 445879--445904 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
445869 CAATTTTTTG
445879 TGTATCGATACAT
1 TGTATCGATACAT
445892 TGTATCGATACAT
1 TGTATCGATACAT
445905 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:448467 original size:13 final size:13
Alignment explanation
Indices: 448449--448486 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
448439 ATAATCACCT
448449 TGTATCGATACAG
1 TGTATCGATACAG
*
448462 TGTATCGATACAT
1 TGTATCGATACAG
448475 TGTATCGATACA
1 TGTATCGATACA
448487 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:448500 original size:20 final size:20
Alignment explanation
Indices: 448475--448551 Score: 66
Period size: 20 Copynumber: 3.6 Consensus size: 20
448465 ATCGATACAT
448475 TGTATCGATACAAAGAAAAA
1 TGTATCGATACAAAGAAAAA
* *
448495 TGTATCGATACATAGAATTTCCAGA
1 TGTATCGATACAAAGAA-----AAA
*
448520 TGTATCGATACACAA-AAACA
1 TGTATCGATACA-AAGAAAAA
448540 TGTATCGATACA
1 TGTATCGATACA
448552 TTTTGGACAT
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
20 30 0.64
25 16 0.34
26 1 0.02
ACGTcount: A:0.44, C:0.16, G:0.14, T:0.26
Consensus pattern (20 bp):
TGTATCGATACAAAGAAAAA
Found at i:452430 original size:21 final size:21
Alignment explanation
Indices: 452401--452445 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
452391 AAGTTTTCAT
*
452401 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
452421 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
452443 TTT
1 TTT
452446 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:454679 original size:13 final size:13
Alignment explanation
Indices: 454661--454686 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
454651 CAATTTTTTG
454661 TGTATCGATACAT
1 TGTATCGATACAT
454674 TGTATCGATACAT
1 TGTATCGATACAT
454687 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:454751 original size:21 final size:21
Alignment explanation
Indices: 454725--454800 Score: 109
Period size: 21 Copynumber: 3.7 Consensus size: 21
454715 CTGCCAAGAA
454725 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
****
454746 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
454766 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
454787 ATGTATCGATACAT
1 ATGTATCGATACAT
454801 TGCAACATGT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:454770 original size:20 final size:20
Alignment explanation
Indices: 454745--454818 Score: 103
Period size: 20 Copynumber: 3.6 Consensus size: 20
454735 ACATCTTTTT
454745 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
****
454765 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGCAA
454786 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
454806 CATGTATCGATAC
1 CATGTATCGATAC
454819 TTATTGTATC
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
20 29 0.64
21 16 0.36
ACGTcount: A:0.31, C:0.20, G:0.14, T:0.35
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:454782 original size:41 final size:41
Alignment explanation
Indices: 454725--454818 Score: 188
Period size: 41 Copynumber: 2.3 Consensus size: 41
454715 CTGCCAAGAA
454725 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
454766 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
454807 ATGTATCGATAC
1 ATGTATCGATAC
454819 TTATTGTATC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Found at i:457275 original size:13 final size:13
Alignment explanation
Indices: 457257--457295 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
457247 ATAATCACCC
*
457257 TGTATCGATACAG
1 TGTATCGATACAA
457270 TGTATCGATACAA
1 TGTATCGATACAA
457283 TGTATCGATACAA
1 TGTATCGATACAA
457296 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:457306 original size:20 final size:20
Alignment explanation
Indices: 457281--457359 Score: 68
Period size: 20 Copynumber: 3.7 Consensus size: 20
457271 GTATCGATAC
457281 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
* *
457301 AATGTATCGAAACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
* *
457326 GATGTATCGATACACAGAAA
1 AATGTATCGATACAAAGAAA
*
457346 CATGTATCGATACA
1 AATGTATCGATACA
457360 TTTTGGACAT
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
20 31 0.65
25 17 0.35
ACGTcount: A:0.46, C:0.15, G:0.15, T:0.24
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:461227 original size:21 final size:21
Alignment explanation
Indices: 461198--461242 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
461188 AAGTTTTCAT
*
461198 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
461218 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
461240 TTT
1 TTT
461243 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:463476 original size:13 final size:13
Alignment explanation
Indices: 463458--463483 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
463448 CAATTTTTTG
463458 TGTATCGATACAT
1 TGTATCGATACAT
463471 TGTATCGATACAT
1 TGTATCGATACAT
463484 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:463548 original size:21 final size:21
Alignment explanation
Indices: 463522--463597 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
463512 CTGCCAAGAA
463522 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
****
463543 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
463563 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
*
463584 ATGTATCAATACAT
1 ATGTATCGATACAT
463598 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 16 0.36
21 29 0.64
ACGTcount: A:0.30, C:0.18, G:0.11, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:463567 original size:20 final size:20
Alignment explanation
Indices: 463542--463615 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
463532 ACATCTTTTT
463542 CATGTATCGATACATTGCAA
1 CATGTATCGATACATTGCAA
****
463562 CATGTATCGATACATCTTTTT
1 CATGTATCGATACAT-TGCAA
*
463583 CATGTATCAATACATTGCAA
1 CATGTATCGATACATTGCAA
463603 CATGTATCGATAC
1 CATGTATCGATAC
463616 TTTGAATTGT
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
20 28 0.65
21 15 0.35
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.35
Consensus pattern (20 bp):
CATGTATCGATACATTGCAA
Found at i:463579 original size:41 final size:41
Alignment explanation
Indices: 463522--463615 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
463512 CTGCCAAGAA
*
463522 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCAATACATTGCAAC
463563 ATGTATCGATACATCTTTTTCATGTATCAATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCAATACATTGCAAC
463604 ATGTATCGATAC
1 ATGTATCGATAC
463616 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCAATACATTGCAAC
Found at i:468987 original size:19 final size:19
Alignment explanation
Indices: 468963--469012 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
468953 AAACCGTAAA
468963 TATATCGATACATAAGTGT
1 TATATCGATACATAAGTGT
*
468982 TATATCGATACATAAGTTT
1 TATATCGATACATAAGTGT
*
469001 TGTATCGATACA
1 TATATCGATACA
469013 ATGTATCGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (19 bp):
TATATCGATACATAAGTGT
Found at i:469062 original size:13 final size:13
Alignment explanation
Indices: 469044--469069 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
469034 GCCAAGGAAA
469044 TGTATCGATACAT
1 TGTATCGATACAT
469057 TGTATCGATACAT
1 TGTATCGATACAT
469070 CGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:471064 original size:18 final size:18
Alignment explanation
Indices: 471043--471079 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
471033 AATTTGTAAT
471043 TTTTTGATAACAAATGAG
1 TTTTTGATAACAAATGAG
471061 TTTTTGATAACAAATGAG
1 TTTTTGATAACAAATGAG
471079 T
1 T
471080 CCGGGATGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.38, C:0.05, G:0.16, T:0.41
Consensus pattern (18 bp):
TTTTTGATAACAAATGAG
Found at i:471514 original size:52 final size:52
Alignment explanation
Indices: 471452--471574 Score: 167
Period size: 52 Copynumber: 2.4 Consensus size: 52
471442 AATTGTTCAT
* * **
471452 AATCAGGGATACTCCAACCCCGATTTTATTT-TCAAAACACCAATTTTCCTTG
1 AATCGGGGATACTCCAACCCCGATTTTATTTCTAAAAACACCAATTTTCC-AC
* *
471504 AATCGGGGATACTCCAACTCCGATTTTATTTCTAAAAACACCAATTTTTCAC
1 AATCGGGGATACTCCAACCCCGATTTTATTTCTAAAAACACCAATTTTCCAC
*
471556 AATCGAGGATACTCCAACC
1 AATCGGGGATACTCCAACC
471575 TCGTTATTTC
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
52 46 0.74
53 16 0.26
ACGTcount: A:0.33, C:0.27, G:0.11, T:0.30
Consensus pattern (52 bp):
AATCGGGGATACTCCAACCCCGATTTTATTTCTAAAAACACCAATTTTCCAC
Found at i:475327 original size:19 final size:19
Alignment explanation
Indices: 475303--475347 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
475293 GACTCAATTA
475303 GAGATGGATCTCTACCTTC
1 GAGATGGATCTCTACCTTC
475322 GAGATGGATCTCTACCTTC
1 GAGATGGATCTCTACCTTC
475341 GAGATGG
1 GAGATGG
475348 CGAGGTAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (19 bp):
GAGATGGATCTCTACCTTC
Found at i:484002 original size:16 final size:15
Alignment explanation
Indices: 483972--484017 Score: 67
Period size: 16 Copynumber: 3.1 Consensus size: 15
483962 CTTCTCTTCT
483972 AAAAAA-AAAAAAAA
1 AAAAAACAAAAAAAA
*
483986 AAACAACAAAAACAAA
1 AAAAAACAAAAA-AAA
484002 AAAAAACAAAAAAAA
1 AAAAAACAAAAAAAA
484017 A
1 A
484018 CAAAGAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
14 5 0.18
15 9 0.32
16 14 0.50
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (15 bp):
AAAAAACAAAAAAAA
Found at i:484002 original size:20 final size:21
Alignment explanation
Indices: 483972--484028 Score: 75
Period size: 19 Copynumber: 2.9 Consensus size: 21
483962 CTTCTCTTCT
483972 AAAAAAA-AAAAAAAAAAC-A
1 AAAAAAACAAAAAAAAAACAA
*
483991 ACAAAAAC-AAAAAAAAACAA
1 AAAAAAACAAAAAAAAAACAA
*
484011 AAAAAAACAAAGAAAAAA
1 AAAAAAACAAAAAAAAAA
484029 GAGAGAAAAG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 16 0.50
20 8 0.25
21 8 0.25
ACGTcount: A:0.89, C:0.09, G:0.02, T:0.00
Consensus pattern (21 bp):
AAAAAAACAAAAAAAAAACAA
Found at i:484043 original size:1 final size:1
Alignment explanation
Indices: 483972--484028 Score: 60
Period size: 1 Copynumber: 57.0 Consensus size: 1
483962 CTTCTCTTCT
* * * * * *
483972 AAAAAAAAAAAAAAAAACAACAAAAACAAAAAAAAACAAAAAAAAACAAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
484029 GAGAGAAAAG
Statistics
Matches: 44, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 44 1.00
ACGTcount: A:0.89, C:0.09, G:0.02, T:0.00
Consensus pattern (1 bp):
A
Found at i:485107 original size:61 final size:56
Alignment explanation
Indices: 484948--485435 Score: 544
Period size: 55 Copynumber: 8.5 Consensus size: 56
484938 CTCCTTCCAC
*
484948 TTTTCAGTCCTCAAAGAGCAGGACGC-CTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
1 TTTTCAGTCCTCAAAGAGCAGGATGCTCTTTTC----AAAGCCCACACAAGTTGGTGGCA
** *
485007 CCTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTTCAGTCCTCAAAGAGCAGGATG-C-TCT--TTTCAAAGCCCACACAAGTTGGTGGCA
* *
485067 TTTTCTAGTCCTTAAAGAGCAAGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTTC-AGTCCTCAAAGAGCAGGATGC----TCTTTTCAAAGCCCACACAAGTTGGTGGCA
485128 TTTTCCAGTCCTCAAAGAGCAGGATGC-C-TTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTT-CAGTCCTCAAAGAGCAGGATGCTCTTTTCAAAGCCCACACAAGTTGGTGGCA
485183 TTTTCTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTTC-AGTCCTCAAAGAGCAGGATGC----TCTTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
485244 CCTTTCAGTCCTCAAAGAGCAGGA--CACCTTTCAAAGCCCACACAAGTTGGTGGCA
1 -TTTTCAGTCCTCAAAGAGCAGGATGCTCTTTTCAAAGCCCACACAAGTTGGTGGCA
* ** *
485299 TTTTCCAGTCCTCAAAGAGTAGGACAC-CTCTT-AAAGCCCACACAAGTTGGTGGCA
1 TTTT-CAGTCCTCAAAGAGCAGGATGCTCTTTTCAAAGCCCACACAAGTTGGTGGCA
* * * *
485354 CCTTTCAGTCCTTAAAGAGCAGGACGC-C-TTTCAAAGCCCACACGAGTTGGTGGCA
1 -TTTTCAGTCCTCAAAGAGCAGGATGCTCTTTTCAAAGCCCACACAAGTTGGTGGCA
*
485409 CTTTTTAGTCCTCAAAGAGCAGGATGC
1 -TTTTCAGTCCTCAAAGAGCAGGATGC
485436 AACTTATTTT
Statistics
Matches: 380, Mismatches: 26, Indels: 50
0.83 0.06 0.11
Matches are distributed among these distances:
54 6 0.02
55 186 0.49
56 7 0.02
57 1 0.00
59 24 0.06
60 29 0.08
61 112 0.29
62 7 0.02
63 4 0.01
64 4 0.01
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.26
Consensus pattern (56 bp):
TTTTCAGTCCTCAAAGAGCAGGATGCTCTTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:485132 original size:28 final size:28
Alignment explanation
Indices: 485100--485187 Score: 74
Period size: 28 Copynumber: 3.2 Consensus size: 28
485090 ATGCTTTTTC
485100 TTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * **
485128 TTTTC-CAGTCCTCAAAGAGCAGGAT-GC-
1 TTTTCAAAGCCCACACA-AGTTGG-TGGCA
*
485155 CTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTTCAAAGCCCACACAAGTTGGTGGCA
485183 TTTTC
1 TTTTC
485188 TAGTCCTCAA
Statistics
Matches: 41, Mismatches: 14, Indels: 10
0.63 0.22 0.15
Matches are distributed among these distances:
26 1 0.02
27 17 0.41
28 22 0.54
29 1 0.02
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.27
Consensus pattern (28 bp):
TTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:485177 original size:116 final size:115
Alignment explanation
Indices: 484948--485435 Score: 697
Period size: 116 Copynumber: 4.2 Consensus size: 115
484938 CTCCTTCCAC
* *
484948 TTTTC-AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC-TT
1 TTTTCTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
485011 CAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCA
66 CAGTCCTCAAAGAGCAGGACG------CCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
485067 TTTTCTAGTCCTTAAAGAGCAAGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA-TTT
1 TTTTCTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCACCTT
*
485131 TCCAGTCCTCAAAGAGCAGGATGCCTTTCAAAGCCCACACAAGTTGGTGGCA
65 T-CAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
485183 TTTTCTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTT
1 TTTTCTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCACCTT
*
485248 TCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
65 TCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * ** *
485299 TTTTCCAGTCCTCAAAGAGTAGGA--C---ACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTT
1 TTTTCTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
* *
485359 CAGTCCTTAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCA
66 CAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
485409 CTTTT-TAGTCCTCAAAGAGCAGGATGC
1 -TTTTCTAGTCCTCAAAGAGCAGGATGC
485436 AACTTATTTT
Statistics
Matches: 340, Mismatches: 21, Indels: 23
0.89 0.05 0.06
Matches are distributed among these distances:
110 92 0.27
111 8 0.02
112 1 0.00
114 1 0.00
116 158 0.46
117 3 0.01
119 5 0.01
120 27 0.08
121 25 0.07
122 20 0.06
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.26
Consensus pattern (115 bp):
TTTTCTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
CAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:486321 original size:19 final size:19
Alignment explanation
Indices: 486297--486346 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
486287 AAACCGTAAA
486297 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
486316 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
*
486335 TGTATCTATACA
1 TGTATCGATACA
486347 ATGTATCGCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:488807 original size:52 final size:52
Alignment explanation
Indices: 488748--488873 Score: 173
Period size: 52 Copynumber: 2.4 Consensus size: 52
488738 GTAAATTGTT
*
488748 CATAATCGGGGATACTCCAACCCCGATTTTATTTTC-AAAACACCAATTTTC
1 CATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTC
* * * *
488799 CTTTAATCGGGGATACTCTAACTCCGATTTTATTTCCAAAAACACCAATTTTT
1 C-ATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTC
* *
488852 CACAATCGAGGATACTCCAACC
1 CATAATCGGGGATACTCCAACC
488874 TCGTTATTTT
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
51 1 0.02
52 47 0.75
53 15 0.24
ACGTcount: A:0.32, C:0.27, G:0.10, T:0.31
Consensus pattern (52 bp):
CATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACACCAATTTTC
Found at i:488977 original size:107 final size:108
Alignment explanation
Indices: 488807--489014 Score: 289
Period size: 107 Copynumber: 1.9 Consensus size: 108
488797 TCCTTTAATC
* * *
488807 GGGGATACTCTAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAA
1 GGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTCTCACAACCGAGGATACTCCAA
*
488872 CCTCGTTATTTT-ATCGGGGATACTCCAACCCCGTTACCTCCGA
66 CCTCGTTATTTTCA-AGGGGATACTCCAACCCCGTTACCTCCGA
* * * *
488915 GGGGATACTCCAA-TCCTGATTTTTTTTCC-TAATCATCAATTTCTCACAACC-AGAGATACTCC
1 GGGGATACTCCAACTCC-GATTTTATTTCCAAAAACACCAATTTCTCACAACCGAG-GATACTCC
488977 AACCTCGTTATTTTCAAGGGGATACTCCAACCCCGTTA
64 AACCTCGTTATTTTCAAGGGGATACTCCAACCCCGTTA
489015 TTATCTCCAA
Statistics
Matches: 89, Mismatches: 8, Indels: 7
0.86 0.08 0.07
Matches are distributed among these distances:
106 2 0.02
107 63 0.71
108 24 0.27
ACGTcount: A:0.27, C:0.28, G:0.13, T:0.31
Consensus pattern (108 bp):
GGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTCTCACAACCGAGGATACTCCAA
CCTCGTTATTTTCAAGGGGATACTCCAACCCCGTTACCTCCGA
Found at i:495050 original size:28 final size:28
Alignment explanation
Indices: 494975--495932 Score: 1058
Period size: 28 Copynumber: 33.5 Consensus size: 28
494965 TACGACCCTT
* * *
494975 TTTCAAAAGCCCACGAGTCAGCGGCATCC
1 TTTC-AAAGCCCACAAGTCAGTGGCACCC
**
495004 TTTCAAAAGCCCATGAGTCAGTGGCACCC
1 TTTC-AAAGCCCACAAGTCAGTGGCACCC
*
495033 TTTCAAAGCCCACAAGTCAATGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
495061 TTTTCAAAGCCCACAAGTTAGTGGCACCC
1 -TTTCAAAGCCCACAAGTCAGTGGCACCC
*
495090 TTTGAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * ** *
495118 TTTTAAAGCCCACAAGTTAGCAGCACCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
495146 TTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
495174 TTTCAAAGCCCACAAGTCAGTGGCATCA
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
495202 TTTCAAAGCCCACAAGTTAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
495230 TTTTCAAAGCCCACAAGTTATTGGCACCC
1 -TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
495259 TTTCAAAGCCCACAAGTTAGTGGCACCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * * *
495287 TTTCAAAGCCCACGAGTTACTGGCACCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
495315 TTTCAAAGCCCACAAGTTAGTGGCCCCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
495343 TTTTCAAAGCCCACAAGTCAGTGGAACCC
1 -TTTCAAAGCCCACAAGTCAGTGGCACCC
*
495372 TTTCCAAAGCCCACAAGTCAGTGGCATCC
1 TTT-CAAAGCCCACAAGTCAGTGGCACCC
*
495401 TTTCAAAGCCCACAAGTTAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
495429 TTTGAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
495457 TTTGAAAGCCCACCAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * * *
495485 TTTCAATGCCGACGAGTTAGTGGCACCCC
1 TTTCAAAGCCCACAAGTCAGTGGCA-CCC
* * *
495514 TTTCAAAGCCCACGAGTGAGTGGCACCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * * *
495542 TTTTAAAGCCCACGAGTGAGTGGTACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
495570 TTTCAAAGCCCACAAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
495598 TTTCAAAGCCCACAAGTTATTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
495626 TTTTCAAAGCCCACGAGTCAGTTGCATCC
1 -TTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
495655 TTTCAAAAGCCCACGAGTTAGTGGCATCC
1 TTTC-AAAGCCCACAAGTCAGTGGCACCC
* *
495684 TTTCAAAAGCCCACGAGTTAGTGGCACCC
1 TTTC-AAAGCCCACAAGTCAGTGGCACCC
** *
495713 TTTCAAAATCCACGAGTCAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
495741 TTTCAAAGCCCATAAGTCAGTGGTA-AC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* * *
495768 TTTCAAAACCCATGAA-TCAGTGGCATCCTT
1 TTTCAAAGCCCA-CAAGTCAGTGGCA-CC-C
**
495798 TTTCAAAGCCCACAAGTCAGTGGCACTT
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
* *
495826 TTTCAAAGCCCACAAGTCGGTGGCAACC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
*
495854 TCTTCTAAAGCCCACACAGGTCGGTGGCAACCC
1 T-TTC-AAAGCCCACA-A-GTCAGTGGC-ACCC
* * *
495887 -TTCTAAAGCCCACACACGTTAGTGCCAACC
1 TTTC-AAAGCCCACA-A-GTCAGTGGCACCC
495917 TTCTCTAAAGCCCACA
1 TT-TC-AAAGCCCACA
495933 TGAGTTGGTG
Statistics
Matches: 813, Mismatches: 97, Indels: 35
0.86 0.10 0.04
Matches are distributed among these distances:
27 20 0.02
28 469 0.58
29 242 0.30
30 33 0.04
31 24 0.03
32 22 0.03
33 3 0.00
ACGTcount: A:0.28, C:0.32, G:0.18, T:0.22
Consensus pattern (28 bp):
TTTCAAAGCCCACAAGTCAGTGGCACCC
Found at i:495109 original size:85 final size:85
Alignment explanation
Indices: 494969--495932 Score: 1059
Period size: 85 Copynumber: 11.2 Consensus size: 85
494959 CATCAATACG
* * * * **
494969 ACCCTTTTTCAAAAGCCCACGAGTCAGCGGCATCCTTTCAAAAGCCCATGAGTCAGTGGCACCCT
1 ACCC-TTTTC-AAAGCCCACAAGTTAGTGGCACCCTTTC-AAAGCCCACAAGTCAGTGGCACCCT
*
495034 TTCAAAGCCCACAAGTCAATGGC
63 TTCAAAGCCCACAAGTCAGTGGC
* *
495057 ACCCTTTTCAAAGCCCACAAGTTAGTGGCACCCTTTGAAAGCCCACAAGTCAGTGGCACCCTTTT
1 ACCCTTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTC
* **
495122 AAAGCCCACAAGTTAGCAGC
66 AAAGCCCACAAGTCAGTGGC
* * *
495142 A-CCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCATTTC
1 ACCCTTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTC
*
495206 AAAGCCCACAAGTTAGTGGC
66 AAAGCCCACAAGTCAGTGGC
* * *
495226 ACCCTTTTCAAAGCCCACAAGTTATTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACCTTTTC
1 ACCCTTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTC
* * *
495291 AAAGCCCACGAGTTACTGGC
66 AAAGCCCACAAGTCAGTGGC
* *
495311 A-CCTTTTCAAAGCCCACAAGTTAGTGGCCCCCTTTTCAAAGCCCACAAGTCAGTGGAACCCTTT
1 ACCCTTTTCAAAGCCCACAAGTTAGTGGCACCC-TTTCAAAGCCCACAAGTCAGTGGCACCCTTT
495375 CCAAAGCCCACAAGTCAGTGGC
65 -CAAAGCCCACAAGTCAGTGGC
* * *
495397 ATCC-TTTCAAAGCCCACAAGTTAGTGGCACCCTTTGAAAGCCCACAAGTCAGTGGCACCCTTTG
1 ACCCTTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTC
*
495461 AAAGCCCACCAGTCAGTGGC
66 AAAGCCCACAAGTCAGTGGC
* * * * * *
495481 ACCC-TTTCAATGCCGACGAGTTAGTGGCACCCCTTTCAAAGCCCACGAGTGAGTGGCACCTTTT
1 ACCCTTTTCAAAGCCCACAAGTTAGTGGCA-CCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTT
* * * *
495545 TAAAGCCCACGAGTGAGTGGT
65 CAAAGCCCACAAGTCAGTGGC
* * *
495566 ACCC-TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTATTGGCACCCTTTT
1 ACCCTTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCC-TTT
* *
495630 CAAAGCCCACGAGTCAGTTGC
65 CAAAGCCCACAAGTCAGTGGC
* * * * *
495651 ATCC-TTTCAAAAGCCCACGAGTTAGTGGCATCCTTTCAAAAGCCCACGAGTTAGTGGCACCCTT
1 ACCCTTTTC-AAAGCCCACAAGTTAGTGGCACCCTTTC-AAAGCCCACAAGTCAGTGGCACCCTT
** *
495715 TCAAAATCCACGAGTCAGTGGC
64 TCAAAGCCCACAAGTCAGTGGC
* * * * * * *
495737 ACCC-TTTCAAAGCCCATAAGTCAGTGGTA-ACTTTCAAAACCCATGAA-TCAGTGGCATCCTTT
1 ACCCTTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCA-CAAGTCAGTGGCA-CC-CT
495799 TTCAAAGCCCACAAGTCAGTGGC
63 TTCAAAGCCCACAAGTCAGTGGC
* ** * *
495822 A-CTTTTTCAAAGCCCACAAGTCGGTGGCAACCTCTTCTAAAGCCCACACAGGTCGGTGGCAACC
1 ACCCTTTTCAAAGCCCACAAGTTAGTGGCACCCT-TTC-AAAGCCCACA-A-GTCAGTGGC-ACC
* *
495886 C-TTCTAAAGCCCACACACGTTAGTGCC
61 CTTTC-AAAGCCCACA-A-GTCAGTGGC
* *
495913 AACCTTCTCTAAAGCCCACA
1 ACCCTTTTC-AAAGCCCACA
495933 TGAGTTGGTG
Statistics
Matches: 753, Mismatches: 99, Indels: 43
0.84 0.11 0.05
Matches are distributed among these distances:
83 15 0.02
84 186 0.25
85 336 0.45
86 124 0.16
87 33 0.04
88 15 0.02
89 10 0.01
90 10 0.01
91 9 0.01
92 5 0.01
93 10 0.01
ACGTcount: A:0.28, C:0.32, G:0.18, T:0.22
Consensus pattern (85 bp):
ACCCTTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTC
AAAGCCCACAAGTCAGTGGC
Found at i:495239 original size:113 final size:113
Alignment explanation
Indices: 494975--495932 Score: 1059
Period size: 113 Copynumber: 8.4 Consensus size: 113
494965 TACGACCCTT
* * * * **
494975 TTTCAAAAGCCCACGAGTCAGCGGCATCC-TTTCAAAAGCCCATGAGTCAGTGGCACCCTTTCAA
1 TTTC-AAAGCCCACAAGTTAGTGGCACCCTTTTC-AAAGCCCACAAGTCAGTGGCACCCTTTCAA
* *
495039 AGCCCACAAGTCAATGGCACCCTTTTCAAAGCCCACAAGTTAGTGGCACCC
64 AGCCCACAAGTCAGTGGCACCC-TTTCAAAGCCCACAAGTCAGTGGCACCC
* * * ** *
495090 TTTGAAAGCCCACAAGTCAGTGGCACCCTTTT-AAAGCCCACAAGTTAGCAGCACCTTTTCAAAG
1 TTTCAAAGCCCACAAGTTAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
* *
495154 CCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCATCA
66 CCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCC
* *
495202 TTTCAAAGCCCACAAGTTAGTGGCACCCTTTTCAAAGCCCACAAGTTATTGGCACCCTTTCAAAG
1 TTTCAAAGCCCACAAGTTAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
* * * * * *
495267 CCCACAAGTTAGTGGCACCTTTTCAAAGCCCACGAGTTACTGGCACCT
66 CCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCC
* *
495315 TTTCAAAGCCCACAAGTTAGTGGCCCCCTTTTCAAAGCCCACAAGTCAGTGGAACCCTTTCCAAA
1 TTTCAAAGCCCACAAGTTAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTT-CAAA
* *
495380 GCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCACCC
65 GCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCC
* * * * *
495429 TTTGAAAGCCCACAAGTCAGTGGCACCC-TTTGAAAGCCCACCAGTCAGTGGCACCCTTTCAATG
1 TTTCAAAGCCCACAAGTTAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
* * * * * *
495493 CCGACGAGTTAGTGGCACCCCTTTCAAAGCCCACGAGTGAGTGGCACCT
66 CCCACAAGTCAGTGGCA-CCCTTTCAAAGCCCACAAGTCAGTGGCACCC
* * * *
495542 TTTTAAAGCCCACGAGTGAGTGGTACCC-TTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
1 TTTCAAAGCCCACAAGTTAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
* * * * *
495606 CCCACAAGTTATTGGCACCCTTTTCAAAGCCCACGAGTCAGTTGCATCC
66 CCCACAAGTCAGTGGCACCC-TTTCAAAGCCCACAAGTCAGTGGCACCC
* * * *
495655 TTTCAAAAGCCCACGAGTTAGTGGCATCC-TTTCAAAAGCCCACGAGTTAGTGGCACCCTTTCAA
1 TTTC-AAAGCCCACAAGTTAGTGGCACCCTTTTC-AAAGCCCACAAGTCAGTGGCACCCTTTCAA
** * * * *
495719 AATCCACGAGTCAGTGGCACCCTTTCAAAGCCCATAAGTCAGTGGTA-AC
64 AGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCC
* * * * **
495768 TTTCAAAACCCATGAA-TCAGTGGCATCCTTTTTCAAAGCCCACAAGTCAGTGGCACTTTTTCAA
1 TTTCAAAGCCCA-CAAGTTAGTGGCA-CCCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAA
* * *
495832 AGCCCACAAGTCGGTGGCAACCTCTTCTAAAGCCCACACAGGTCGGTGGCAACCC
64 AGCCCACAAGTCAGTGGCACCCT-TTC-AAAGCCCACA-A-GTCAGTGGC-ACCC
* * *
495887 -TTCTAAAGCCCACACACGTTAGTGCCAACCTTCTCTAAAGCCCACA
1 TTTC-AAAGCCCACA-A-GTTAGTGGCACCCTTTTC-AAAGCCCACA
495933 TGAGTTGGTG
Statistics
Matches: 715, Mismatches: 107, Indels: 36
0.83 0.12 0.04
Matches are distributed among these distances:
112 91 0.13
113 374 0.52
114 146 0.20
115 60 0.08
116 1 0.00
117 7 0.01
118 5 0.01
119 9 0.01
120 5 0.01
121 17 0.02
ACGTcount: A:0.28, C:0.32, G:0.18, T:0.22
Consensus pattern (113 bp):
TTTCAAAGCCCACAAGTTAGTGGCACCCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAG
CCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTCAGTGGCACCC
Found at i:497048 original size:50 final size:51
Alignment explanation
Indices: 496994--497108 Score: 187
Period size: 51 Copynumber: 2.3 Consensus size: 51
496984 GAACAAGTAC
*
496994 ATGTATCGATTCATTCT-GTTTTCTACCCAGATGTATCGATACATTTTTCA
1 ATGTATCGATACATTCTAGTTTTCTACCCAGATGTATCGATACATTTTTCA
* * *
497044 ATGTATCGATACATTCTATTTTTTTACCTAGATGTATCGATACATTTTTCA
1 ATGTATCGATACATTCTAGTTTTCTACCCAGATGTATCGATACATTTTTCA
497095 ATGTATCGATACAT
1 ATGTATCGATACAT
497109 CTAATTAATT
Statistics
Matches: 60, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
50 16 0.27
51 44 0.73
ACGTcount: A:0.27, C:0.17, G:0.11, T:0.44
Consensus pattern (51 bp):
ATGTATCGATACATTCTAGTTTTCTACCCAGATGTATCGATACATTTTTCA
Found at i:497049 original size:20 final size:20
Alignment explanation
Indices: 497024--497108 Score: 71
Period size: 20 Copynumber: 3.7 Consensus size: 20
497014 TTCTACCCAG
497024 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
497044 ATGTATCGATACATTCTATTTTTTTACCTA
1 ATGTATCGAT--A--C-A--TTTTT--C-A
497074 GATGTATCGATACATTTTTCA
1 -ATGTATCGATACATTTTTCA
497095 ATGTATCGATACAT
1 ATGTATCGATACAT
497109 CTAATTAATT
Statistics
Matches: 54, Mismatches: 0, Indels: 22
0.71 0.00 0.29
Matches are distributed among these distances:
20 24 0.44
21 1 0.02
22 2 0.04
24 6 0.11
25 1 0.02
26 1 0.02
27 6 0.11
29 2 0.04
30 1 0.02
31 10 0.19
ACGTcount: A:0.29, C:0.15, G:0.11, T:0.45
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:501905 original size:31 final size:31
Alignment explanation
Indices: 501816--502260 Score: 473
Period size: 31 Copynumber: 14.2 Consensus size: 31
501806 GATAAATACA
* **
501816 TGGCAACCTTTCTCAAAGCCCACACAAGTCAA
1 TGGCAACCCTTCT-AAAGCCCACACAAGTCGG
* *
501848 TGGCAACCCTTCTAAAACCCATACAAGTC-G
1 TGGCAACCCTTCTAAAGCCCACACAAGTCGG
*
501878 TGGCAACCCTTCTCAAAGCCCACACAAGTCGA
1 TGGCAACCCTTCT-AAAGCCCACACAAGTCGG
* * *
501910 TGGCAACCTTTCTCAAAGCCCATACAAGTCAG
1 TGGCAACCCTTCT-AAAGCCCACACAAGTCGG
* *
501942 TGGCAACCCTTCTAAAGCCCACATAAGTCAG
1 TGGCAACCCTTCTAAAGCCCACACAAGTCGG
* ** *
501973 TAGCAA-CCTTGCTAAAATCCACACTAGTCGG
1 TGGCAACCCTT-CTAAAGCCCACACAAGTCGG
* * *
502004 TGGCAACCCTTCTAAAGTCCACACAAATTGG
1 TGGCAACCCTTCTAAAGCCCACACAAGTCGG
* * *
502035 TGGCGACCCTTCTAAAGTCCACAGAAGTCGG
1 TGGCAACCCTTCTAAAGCCCACACAAGTCGG
* * *
502066 TGGTAACCCTTCTAAAGCTCACACAAGTTGG
1 TGGCAACCCTTCTAAAGCCCACACAAGTCGG
* *
502097 TGGCAACCCTTTTAAAGCCCACACAAATCGG
1 TGGCAACCCTTCTAAAGCCCACACAAGTCGG
* *
502128 TGGCAACCCTTCTAAAACCCATACAAGTCGG
1 TGGCAACCCTTCTAAAGCCCACACAAGTCGG
*
502159 TGGCAATCATCC-TCTAAAGCCCACACAATTCGG
1 TGGCAA-C--CCTTCTAAAGCCCACACAAGTCGG
* * *
502192 TAGCAACCCTTCTAAAGCCTACACAAGTCGA
1 TGGCAACCCTTCTAAAGCCCACACAAGTCGG
* * *
502223 TGGTAACCTTTCTCAAAAGCCCACACAAGTCGA
1 TGGCAACCCTTCT--AAAGCCCACACAAGTCGG
502256 TGGCA
1 TGGCA
502261 TCTCTTTCTA
Statistics
Matches: 347, Mismatches: 56, Indels: 19
0.82 0.13 0.05
Matches are distributed among these distances:
30 19 0.05
31 224 0.65
32 58 0.17
33 44 0.13
34 2 0.01
ACGTcount: A:0.32, C:0.31, G:0.16, T:0.20
Consensus pattern (31 bp):
TGGCAACCCTTCTAAAGCCCACACAAGTCGG
Found at i:502451 original size:50 final size:52
Alignment explanation
Indices: 502326--502491 Score: 149
Period size: 52 Copynumber: 3.2 Consensus size: 52
502316 ATCTTCTTTT
* * * * *
502326 TTTAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCACATTTATTTTC
1 TTTAAGTCCAATATCGCTGACCTTGAATCAACACATTAGCACATCTATTGTC
** * *
502378 TTTAAACCCAATGTCGCTGACCTTGAATCAGCACATTAGCACA-CT-TTGTC
1 TTTAAGTCCAATATCGCTGACCTTGAATCAACACATTAGCACATCTATTGTC
* * * * * * *
502428 TTTAAGTCTAATATCGCTAACCTTGAATTAAGATATTAGCACTTTTTATT-TC
1 TTTAAGTCCAATATCGCTGACCTTGAATCAACACATTAGCAC-ATCTATTGTC
*
502480 TTTAACTCCAAT
1 TTTAAGTCCAAT
502492 TTCGTTGGCT
Statistics
Matches: 89, Mismatches: 22, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
50 37 0.42
51 1 0.01
52 49 0.55
53 2 0.02
ACGTcount: A:0.29, C:0.22, G:0.11, T:0.38
Consensus pattern (52 bp):
TTTAAGTCCAATATCGCTGACCTTGAATCAACACATTAGCACATCTATTGTC
Found at i:502506 original size:102 final size:101
Alignment explanation
Indices: 502326--502525 Score: 233
Period size: 102 Copynumber: 2.0 Consensus size: 101
502316 ATCTTCTTTT
** *
502326 TTTAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCACATTTATTTTCTTTAAACCCAATG
1 TTTAAGTCCAATATCGCTAACCTTGAATCAACATATTAGCACATTTATTTTCTTTAAACCCAATG
502391 TCGCTGACCTTGAATCAGCACATTAGCACACTTTGTC
66 TCGCTGACCTTGAATCAGCACATTAGCAC-CTTTGTC
* * * *
502428 TTTAAGTCTAATATCGCTAACCTTGAATTAAGATATTAGCAC-TTTTTATTTCTTT-AACTCCAA
1 TTTAAGTCCAATATCGCTAACCTTGAATCAACATATTAGCACATTTAT-TTTCTTTAAAC-CCAA
* * * * * * *
502491 TTTCGTTGGCTTTGAATTAGCATATTGGCACCTTT
64 TGTCGCTGACCTTGAATCAGCACATTAGCACCTTT
502526 ATCATTCCTT
Statistics
Matches: 82, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
101 11 0.13
102 71 0.87
ACGTcount: A:0.27, C:0.21, G:0.13, T:0.39
Consensus pattern (101 bp):
TTTAAGTCCAATATCGCTAACCTTGAATCAACATATTAGCACATTTATTTTCTTTAAACCCAATG
TCGCTGACCTTGAATCAGCACATTAGCACCTTTGTC
Found at i:502681 original size:113 final size:113
Alignment explanation
Indices: 502478--502704 Score: 273
Period size: 113 Copynumber: 2.0 Consensus size: 113
502468 ACTTTTTATT
* * * *
502478 TCTTTAACTCCAATTTCGTTGGCTTTGAATTAGCATATTGGCACCTTTATCATTCCTTTTATTTT
1 TCTTTAACTCCAATTTCGTTGGCTTTGAATCAGCATATTGACACCTTTATCATTCCTTTCATCTT
* * ** *
502543 TAAGTCTAATTTCATTAGCCTTGAATCAGCACATTGGCACCTTTGTCA
66 CAAGCCTAATACCATTAGCCTTGAATCAGCACATTGGCACCTTTATCA
502591 TCTTTAAGC-CCAATATT-GTTGGCTTTGAATCAGCATATTGACACCTTTATCATT-CTTCTCAT
1 TCTTTAA-CTCCAAT-TTCGTTGGCTTTGAATCAGCATATTGACACCTTTATCATTCCTT-TCAT
* * * *
502653 CTTCAAGCCTGATACCATT-GGCTGTGAATCAGTATATTGGCACCTTTATCA
63 CTTCAAGCCTAATACCATTAGCCT-TGAATCAGCACATTGGCACCTTTATCA
502704 T
1 T
502705 TCTTCACATC
Statistics
Matches: 97, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
112 6 0.06
113 88 0.91
114 3 0.03
ACGTcount: A:0.24, C:0.22, G:0.13, T:0.41
Consensus pattern (113 bp):
TCTTTAACTCCAATTTCGTTGGCTTTGAATCAGCATATTGACACCTTTATCATTCCTTTCATCTT
CAAGCCTAATACCATTAGCCTTGAATCAGCACATTGGCACCTTTATCA
Found at i:502744 original size:61 final size:61
Alignment explanation
Indices: 502618--502765 Score: 156
Period size: 61 Copynumber: 2.4 Consensus size: 61
502608 GTTGGCTTTG
* * * * *
502618 AATCAGCATATTGACACCTTTATCATTCTTCTCATCTTCAAGCCTGATACCATTGGCTGTG
1 AATCAGCATATTGGCACCTTTATCATTCTTCACATCTTCAAGCCTAATACCATTGCCTGTA
* * * ** *
502679 AATCAGTATATTGGCACCTTTATCATTCTTCACATCTTTAAGTCTAATGTCGTTGACCT-TA
1 AATCAGCATATTGGCACCTTTATCATTCTTCACATCTTCAAGCCTAATACCATTG-CCTGTA
*
502740 AATCAGCACATTGGCA-CTCTTATCAT
1 AATCAGCATATTGGCACCT-TTATCAT
502766 CCTTATCATT
Statistics
Matches: 72, Mismatches: 13, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
60 2 0.03
61 68 0.94
62 2 0.03
ACGTcount: A:0.26, C:0.24, G:0.12, T:0.37
Consensus pattern (61 bp):
AATCAGCATATTGGCACCTTTATCATTCTTCACATCTTCAAGCCTAATACCATTGCCTGTA
Found at i:503435 original size:20 final size:20
Alignment explanation
Indices: 503412--503466 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
503402 ACAATAAAGC
*
503412 AATGTATTGATACATAAGTG
1 AATGTATCGATACATAAGTG
503432 AATGTATCGATACATAAGTG
1 AATGTATCGATACATAAGTG
503452 AATGTATCGATACAT
1 AATGTATCGATACAT
503467 GCCTGAAATG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.40, C:0.09, G:0.18, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATAAGTG
Found at i:503563 original size:20 final size:21
Alignment explanation
Indices: 503509--503566 Score: 68
Period size: 20 Copynumber: 2.9 Consensus size: 21
503499 ATTCTACGAG
*
503509 AAAATTGTATCGATACATATA
1 AAAATTATATCGATACATATA
*
503530 TAAATGTAT-T-GATACATA-A
1 AAAAT-TATATCGATACATATA
503549 AAAATTATATCGATACAT
1 AAAATTATATCGATACAT
503567 TTCTCATTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
18 3 0.10
19 6 0.19
20 15 0.48
21 5 0.16
22 2 0.06
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.34
Consensus pattern (21 bp):
AAAATTATATCGATACATATA
Found at i:503580 original size:40 final size:40
Alignment explanation
Indices: 503509--503586 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
503499 ATTCTACGAG
* *
503509 AAAATTGTATCGATACATATATAAATGTATTGATACATAA
1 AAAATTATATCGATACATATATAAATATATTGATACATAA
* * * *
503549 AAAATTATATCGATACATTTCTCATTATATTGATACAT
1 AAAATTATATCGATACATATATAAATATATTGATACAT
503587 TTTGGGTTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.44, C:0.10, G:0.08, T:0.38
Consensus pattern (40 bp):
AAAATTATATCGATACATATATAAATATATTGATACATAA
Found at i:507888 original size:153 final size:155
Alignment explanation
Indices: 507707--508075 Score: 386
Period size: 153 Copynumber: 2.4 Consensus size: 155
507697 TTTTTATGTT
** ** ** *
507707 CTTTAGGGCTATCAAGTACTTTGATGTCGAAGGTATCTTTTAAGGGTTTTTTTGTAATTTTTTAG
1 CTTTAGGGCTATCAAGTACTTTGATGTCGAAGGTATCCCTTAAGGGCATTTTCATAATTTTCTAG
* * * * *
507772 AACCAAGTCTTAGGTTATCA-AGAGGTCCGCTTTTATGCCAAAGGTGGATATTTAGGATAGGTTC
66 AACCAAGCCCTAGGTTATCATAG-GGTCCACTTTCATGCCAAAGGTGGATATTTAGGATAGGCTC
*
507836 A-TCCATCTAT-ATCCTTTTTAAATC
130 ACCCCATCTATAATCCTTTTTAAATC
* * *
507860 CTTTAGGGGTATCGAGTACTTTTATGTCGAAGGTATCCCTTAAGGGCATTTTCATAATTTTCTAG
1 CTTTAGGGCTATCAAGTACTTTGATGTCGAAGGTATCCCTTAAGGGCATTTTCATAATTTTCTAG
* * * * * * * *
507925 AATCGAGCCCTAGTTTGTCATCGGGTCCACTTTCATGCCGAATGTGGGTATTTAGGATAGGCTCA
66 AACCAAGCCCTAGGTTATCATAGGGTCCACTTTCATGCCAAAGGTGGATATTTAGGATAGGCTCA
*
507990 CCCCATCTATAATCCTTTTTAAGTC
131 CCCCATCTATAATCCTTTTTAAATC
* * * * * * ** *
508015 TTTTAGGGCTATTAGGCACTTTCACGTCGAAAATAT-CTTCTAAGGGCATTTTCATAATTTT
1 CTTTAGGGCTATCAAGTACTTTGATGTCGAAGGTATCCCT-TAAGGGCATTTTCATAATTTT
508076 TTAAGACTTC
Statistics
Matches: 176, Mismatches: 36, Indels: 6
0.81 0.17 0.03
Matches are distributed among these distances:
153 105 0.60
154 11 0.06
155 60 0.34
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (155 bp):
CTTTAGGGCTATCAAGTACTTTGATGTCGAAGGTATCCCTTAAGGGCATTTTCATAATTTTCTAG
AACCAAGCCCTAGGTTATCATAGGGTCCACTTTCATGCCAAAGGTGGATATTTAGGATAGGCTCA
CCCCATCTATAATCCTTTTTAAATC
Found at i:508060 original size:155 final size:153
Alignment explanation
Indices: 507795--508075 Score: 359
Period size: 155 Copynumber: 1.8 Consensus size: 153
507785 GTTATCAAGA
* * * *
507795 GGTCCGCTTTTATGCCAAAGGTGGATATTTAGGATAGGTTCATCCATCTATATCCTTTTTAAATC
1 GGTCCACTTTCATGCCAAAGGTGGATATTTAGGATAGGCTCACCCATCTATATCCTTTTTAAATC
* * * * * **
507860 CTTTAGGGGTATCGAGTACTTTTATGTCGAAGGTATCCCTTAAGGGCATTTTCATAATTTTCTAG
66 CTTTAGGGCTATAGAGCACTTTCACGTCGAAAATATCCCTTAAGGGCATTTTCATAATTTTCTAG
507925 AATCGAGCCCTAGTTTGTCATCG
131 AATCGAGCCCTAGTTTGTCATCG
* * * *
507948 GGTCCACTTTCATGCCGAATGTGGGTATTTAGGATAGGCTCACCCCATCTATAATCCTTTTTAAG
1 GGTCCACTTTCATGCCAAAGGTGGATATTTAGGATAGGCTCA-CCCATCTAT-ATCCTTTTTAAA
* *
508013 TCTTTTAGGGCTATTAG-GCACTTTCACGTCGAAAATAT-CTTCTAAGGGCATTTTCATAATTTT
64 TCCTTTAGGGCTA-TAGAGCACTTTCACGTCGAAAATATCCCT-TAAGGGCATTTTCATAATTTT
508076 TTAAGACTTC
Statistics
Matches: 107, Mismatches: 17, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
153 36 0.34
154 10 0.09
155 59 0.55
156 2 0.02
ACGTcount: A:0.24, C:0.19, G:0.19, T:0.38
Consensus pattern (153 bp):
GGTCCACTTTCATGCCAAAGGTGGATATTTAGGATAGGCTCACCCATCTATATCCTTTTTAAATC
CTTTAGGGCTATAGAGCACTTTCACGTCGAAAATATCCCTTAAGGGCATTTTCATAATTTTCTAG
AATCGAGCCCTAGTTTGTCATCG
Found at i:509433 original size:8 final size:8
Alignment explanation
Indices: 509420--509509 Score: 67
Period size: 8 Copynumber: 10.5 Consensus size: 8
509410 AGCCTATTCG
509420 TTTTTGTT
1 TTTTTGTT
509428 TTTTTGTT
1 TTTTTGTT
509436 GTTTTT-TT
1 -TTTTTGTT
*
509444 GTTTGTTGTCG
1 -TTT-TTGT-T
*
509455 TTTTGGTTT
1 TTTTTG-TT
509464 TTGTTTGTT
1 TT-TTTGTT
*
509473 TTTCTGTT
1 TTTTTGTT
509481 TTTTTGTT
1 TTTTTGTT
509489 TTTGTT-TT
1 TTT-TTGTT
509497 TTTTATGTT
1 TTTT-TGTT
509506 TTTT
1 TTTT
509510 AATTGATTTT
Statistics
Matches: 67, Mismatches: 6, Indels: 17
0.74 0.07 0.19
Matches are distributed among these distances:
7 1 0.01
8 35 0.52
9 23 0.34
10 8 0.12
ACGTcount: A:0.01, C:0.02, G:0.17, T:0.80
Consensus pattern (8 bp):
TTTTTGTT
Found at i:509439 original size:11 final size:11
Alignment explanation
Indices: 509423--509509 Score: 58
Period size: 11 Copynumber: 7.8 Consensus size: 11
509413 CTATTCGTTT
509423 TTGTTTTTTTG
1 TTGTTTTTTTG
509434 TTGTTTTTTTG
1 TTGTTTTTTTG
509445 TTTGTTGTCGTTTTG
1 -TTGTT-T--TTTTG
*
509460 --GTTTTTGT-
1 TTGTTTTTTTG
*
509468 TTGTTTTTCTG
1 TTGTTTTTTTG
*
509479 TT-TTTTTGTTT
1 TTGTTTTT-TTG
509490 TTGTTTTTTT-
1 TTGTTTTTTTG
509500 TATGTTTTTT
1 T-TGTTTTTT
509510 AATTGATTTT
Statistics
Matches: 62, Mismatches: 4, Indels: 20
0.72 0.05 0.23
Matches are distributed among these distances:
9 3 0.05
10 13 0.21
11 27 0.44
12 13 0.21
13 1 0.02
15 5 0.08
ACGTcount: A:0.01, C:0.02, G:0.17, T:0.79
Consensus pattern (11 bp):
TTGTTTTTTTG
Found at i:509450 original size:15 final size:14
Alignment explanation
Indices: 509419--509499 Score: 73
Period size: 14 Copynumber: 6.0 Consensus size: 14
509409 GAGCCTATTC
509419 GTTTTTGTTTTTTT
1 GTTTTTGTTTTTTT
509433 G---TTGTTTTTTT
1 GTTTTTGTTTTTTT
* *
509444 GTTTGTTGTCGTTTTG
1 GTTT-TTGT-TTTTTT
*
509460 GTTTTTG-TTTGTT
1 GTTTTTGTTTTTTT
*
509473 -TTTCTGTTTTTTT
1 GTTTTTGTTTTTTT
509486 GTTTTTGTTTTTTT
1 GTTTTTGTTTTTTT
509500 TATGTTTTTT
Statistics
Matches: 52, Mismatches: 8, Indels: 14
0.70 0.11 0.19
Matches are distributed among these distances:
11 11 0.21
12 5 0.10
13 8 0.15
14 13 0.25
15 7 0.13
16 8 0.15
ACGTcount: A:0.00, C:0.02, G:0.19, T:0.79
Consensus pattern (14 bp):
GTTTTTGTTTTTTT
Found at i:509452 original size:26 final size:25
Alignment explanation
Indices: 509419--509509 Score: 80
Period size: 26 Copynumber: 3.6 Consensus size: 25
509409 GAGCCTATTC
509419 GTTTT-TGTTTTTTTGTTGTTTTTTT
1 GTTTTATGTTTTTTTGTT-TTTTTTT
* * *
509444 GTTTGT-TGTCGTTTTGGTTTTTGTTT
1 GTTT-TATGT-TTTTTTGTTTTTTTTT
*
509470 GTTTTTCTGTTTTTTTGTTTTTGTTTT
1 G-TTTTATGTTTTTTTGTTTTT-TTTT
509497 -TTTTATGTTTTTT
1 GTTTTATGTTTTTT
509510 AATTGATTTT
Statistics
Matches: 54, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
25 16 0.30
26 22 0.41
27 16 0.30
ACGTcount: A:0.01, C:0.02, G:0.18, T:0.79
Consensus pattern (25 bp):
GTTTTATGTTTTTTTGTTTTTTTTT
Found at i:509507 original size:22 final size:22
Alignment explanation
Indices: 509454--509529 Score: 55
Period size: 22 Copynumber: 3.2 Consensus size: 22
509444 GTTTGTTGTC
*
509454 GTTTTGGTTTTTGTTTGTTTTTCT
1 GTTTT-GTTTTTGTTT-TTTTTAT
509478 GTTTTTTTGTTTTTGTTTTTTTTAT
1 G---TTTTGTTTTTGTTTTTTTTAT
* *
509503 GTTTT-TTAATTGATTTTTTTAT
1 GTTTTGTT-TTTGTTTTTTTTAT
*
509525 ATTTT
1 GTTTT
509530 TTTATTTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
21 2 0.05
22 20 0.45
24 1 0.02
25 7 0.16
26 10 0.23
27 4 0.09
ACGTcount: A:0.08, C:0.01, G:0.13, T:0.78
Consensus pattern (22 bp):
GTTTTGTTTTTGTTTTTTTTAT
Found at i:509528 original size:10 final size:10
Alignment explanation
Indices: 509494--509544 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
509484 TTGTTTTTGT
*
509494 TTTTTTTATG
1 TTTTTTTATA
*
509504 TTTTTTAATTGA
1 TTTTTTTA-T-A
509516 TTTTTTTATA
1 TTTTTTTATA
509526 TTTTTTTAT-
1 TTTTTTTATA
*
509535 TTTTTATATA
1 TTTTTTTATA
509545 AGATGCCATC
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
9 8 0.24
10 17 0.50
11 2 0.06
12 7 0.21
ACGTcount: A:0.20, C:0.00, G:0.04, T:0.76
Consensus pattern (10 bp):
TTTTTTTATA
Found at i:511870 original size:13 final size:13
Alignment explanation
Indices: 511852--511877 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
511842 CAATTTTTTG
511852 TGTATCGATACAT
1 TGTATCGATACAT
511865 TGTATCGATACAT
1 TGTATCGATACAT
511878 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:532225 original size:14 final size:14
Alignment explanation
Indices: 532179--532269 Score: 98
Period size: 14 Copynumber: 6.6 Consensus size: 14
532169 ATCCTCCACA
532179 AAAAAAAAACAAAC
1 AAAAAAAAACAAAC
* *
532193 AAACAAACA-AAAC
1 AAAAAAAAACAAAC
* *
532206 AAAAAAAAA-GAAG
1 AAAAAAAAACAAAC
532219 AAAAAAAAACAAAC
1 AAAAAAAAACAAAC
532233 AAAAAAAAACAAAC
1 AAAAAAAAACAAAC
532247 AAACAAAAAA-ACAAC
1 AAA-AAAAAACA-AAC
*
532262 AACAAAAA
1 AAAAAAAA
532270 GGGTCCGAAT
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
13 22 0.34
14 32 0.49
15 11 0.17
ACGTcount: A:0.84, C:0.14, G:0.02, T:0.00
Consensus pattern (14 bp):
AAAAAAAAACAAAC
Found at i:532229 original size:32 final size:32
Alignment explanation
Indices: 532182--532269 Score: 92
Period size: 32 Copynumber: 2.7 Consensus size: 32
532172 CTCCACAAAA
* *
532182 AAAAAACAAACAAACAAACAAAACAAAAAAAAAG
1 AAAAAA-AAACAAACAAACAAAA-AAAAACAAAC
*
532216 AAGAAAAAA-AAACAAACAAAAAAAAACAAAC
1 AAAAAAAAACAAACAAACAAAAAAAAACAAAC
532247 AAACAAAAAA-ACAAC-AACAAAAA
1 AAA-AAAAAACA-AACAAACAAAAA
532270 GGGTCCGAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
31 10 0.21
32 27 0.56
33 6 0.12
34 5 0.10
ACGTcount: A:0.83, C:0.15, G:0.02, T:0.00
Consensus pattern (32 bp):
AAAAAAAAACAAACAAACAAAAAAAAACAAAC
Found at i:532240 original size:18 final size:18
Alignment explanation
Indices: 532176--532267 Score: 98
Period size: 18 Copynumber: 5.1 Consensus size: 18
532166 GGCATCCTCC
532176 ACAAAAAAAAAACAAACAA
1 ACAAAAAAAAAA-AAACAA
532195 ACAAACAAAACAAAAAA-AA
1 ACAAA-AAAA-AAAAAACAA
* *
532214 A-GAAGAAAAAAAAACAA
1 ACAAAAAAAAAAAAACAA
*
532231 ACAAAAAAAAACAAACAA
1 ACAAAAAAAAAAAAACAA
* *
532249 ACAAAAAAACAACAACAA
1 ACAAAAAAAAAAAAACAA
532267 A
1 A
532268 AAGGGTCCGA
Statistics
Matches: 61, Mismatches: 8, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
16 6 0.10
17 6 0.10
18 31 0.51
19 8 0.13
20 7 0.11
21 3 0.05
ACGTcount: A:0.83, C:0.15, G:0.02, T:0.00
Consensus pattern (18 bp):
ACAAAAAAAAAAAAACAA
Found at i:532269 original size:1 final size:1
Alignment explanation
Indices: 532178--532257 Score: 52
Period size: 1 Copynumber: 80.0 Consensus size: 1
532168 CATCCTCCAC
* * * * * * * * * *
532178 AAAAAAAAAACAAACAAACAAACAAAACAAAAAAAAAGAAGAAAAAAAAACAAACAAAAAAAAAC
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
532243 AAACAAACAAAAAAA
1 AAAAAAAAAAAAAAA
532258 CAACAACAAA
Statistics
Matches: 55, Mismatches: 24, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
1 55 1.00
ACGTcount: A:0.85, C:0.12, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:533682 original size:28 final size:28
Alignment explanation
Indices: 533649--533812 Score: 197
Period size: 28 Copynumber: 5.8 Consensus size: 28
533639 CATCTTTTCC
533649 AAAGCCCACAAGTCAGTGGCAACCTTCA
1 AAAGCCCACAAGTCAGTGGCAACCTTCA
* *
533677 AAAGCCCATAAGTCAGTGGC-ACCTTTTCC
1 AAAGCCCACAAGTCAGTGGCAACC--TTCA
*
533706 AAAGCCCACAAGTCAGTGGCAACCTTTA
1 AAAGCCCACAAGTCAGTGGCAACCTTCA
* *
533734 AAAGCCCATAAGTCAGTGGCACCCTTTTTC-
1 AAAGCCCACAAGTCAGTGGCAACC---TTCA
* *
533764 AAAGCCCACAAATCAGTGGCAACCTTTA
1 AAAGCCCACAAGTCAGTGGCAACCTTCA
*
533792 AAAGCCCACAAGTCTGTGGCA
1 AAAGCCCACAAGTCAGTGGCA
533813 TCTTTTTCCT
Statistics
Matches: 115, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
27 5 0.04
28 62 0.54
29 22 0.19
30 24 0.21
31 2 0.02
ACGTcount: A:0.33, C:0.30, G:0.18, T:0.20
Consensus pattern (28 bp):
AAAGCCCACAAGTCAGTGGCAACCTTCA
Found at i:533788 original size:58 final size:57
Alignment explanation
Indices: 533635--533818 Score: 296
Period size: 57 Copynumber: 3.2 Consensus size: 57
533625 TTCGTTGGTT
* *
533635 GTGGCATCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTCAAAAGCCCATAAGTCA
1 GTGGCACCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCATAAGTCA
533692 GTGGCACCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCATAAGTCA
1 GTGGCACCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCATAAGTCA
* * * *
533749 GTGGCACCCTTTTTCAAAGCCCACAAATCAGTGGCAACCTTTAAAAGCCCACAAGTCT
1 GTGGCA-CCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCATAAGTCA
*
533807 GTGGCATCTTTT
1 GTGGCACCTTTT
533819 TCCTTTTAAT
Statistics
Matches: 119, Mismatches: 7, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
57 66 0.55
58 53 0.45
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.23
Consensus pattern (57 bp):
GTGGCACCTTTTCCAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCATAAGTCA
Found at i:533858 original size:32 final size:32
Alignment explanation
Indices: 533797--533882 Score: 111
Period size: 32 Copynumber: 2.7 Consensus size: 32
533787 CTTTAAAAGC
* * *
533797 CCACAAGTCTGTGGCATCTTTTTCCTTTTAA-T
1 CCACAACTCCGTGGCA-CCTTTTCCTTTTAAGT
*
533829 CCAACAACTCCGTGGCACCTTTTCTTTTTAAGT
1 CC-ACAACTCCGTGGCACCTTTTCCTTTTAAGT
533862 CCACAACTCCGTGGCACCTTT
1 CCACAACTCCGTGGCACCTTT
533883 AAGCCCAATA
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
32 33 0.69
33 15 0.31
ACGTcount: A:0.20, C:0.31, G:0.13, T:0.36
Consensus pattern (32 bp):
CCACAACTCCGTGGCACCTTTTCCTTTTAAGT
Found at i:533961 original size:35 final size:35
Alignment explanation
Indices: 533921--534030 Score: 134
Period size: 35 Copynumber: 3.2 Consensus size: 35
533911 CTTATTGGCA
*
533921 CCTTTTCTTTTTTAAGTCCACAACTCCGTGGCACT
1 CCTTTTCTTTTTTAAGCCCACAACTCCGTGGCACT
*
533956 CCTTTTCTTTTGTAAGCCCACAACTCCGTGGCACT
1 CCTTTTCTTTTTTAAGCCCACAACTCCGTGGCACT
** * * * *
533991 TTTTTTC-CTTTTAAGCCCATAAGTCAGTGGCAC-
1 CCTTTTCTTTTTTAAGCCCACAACTCCGTGGCACT
534024 CCTTTTC
1 CCTTTTC
534031 AAAAGCCCAC
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
33 5 0.08
34 21 0.33
35 38 0.59
ACGTcount: A:0.17, C:0.31, G:0.13, T:0.39
Consensus pattern (35 bp):
CCTTTTCTTTTTTAAGCCCACAACTCCGTGGCACT
Found at i:534038 original size:30 final size:28
Alignment explanation
Indices: 534003--534072 Score: 86
Period size: 30 Copynumber: 2.4 Consensus size: 28
533993 TTTTCCTTTT
* *
534003 AAGCCCATAAGTCAGTGGCACCCTTTTCAA
1 AAGCCCACAAGTCAGTGGCAACC--TTCAA
*
534033 AAGCCCACAAGTTAGTGGCAACCTTCAA
1 AAGCCCACAAGTCAGTGGCAACCTTCAA
*
534061 AAGCACACAAGT
1 AAGCCCACAAGT
534073 TGGTGGCGTC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
28 16 0.44
30 20 0.56
ACGTcount: A:0.36, C:0.29, G:0.17, T:0.19
Consensus pattern (28 bp):
AAGCCCACAAGTCAGTGGCAACCTTCAA
Found at i:534198 original size:101 final size:99
Alignment explanation
Indices: 534087--534691 Score: 582
Period size: 101 Copynumber: 6.3 Consensus size: 99
534077 GGCGTCTTCT
** *
534087 TTTAAGTCCAATATCGCTCACCTTGAATTAGCATATTGGCACCTTTGTCATCTTTAAGACCAATG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATC-TTAAGACCAATG
* **
534152 TCGCTAGTATTGAATCAGCACATTGGCATCTTCATC
65 TCGCTGGCCTTGAATCAGCACATTGGCA-CTTCATC
*
534188 TTTAAGTCCAATATCACTGGTCC-TGAATCAGCATATTGGCACC-TTGTC-TC-TAAGACCAATG
1 TTTAAGTCCAATATCGCTGG-CCTTGAATCAGCATATTGGCACCTTTGTCATCTTAAGACCAATG
534249 TCGCTGGCCTTGAATCAGCACATTGG-----CA--
65 TCGCTGGCCTTGAATCAGCACATTGGCACTTCATC
* * *
534277 --TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC-TTGTC-TC-TAAAACTAATGT
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTAAGACCAATGT
534337 CGCTGGCCTTGAATCAGCACATTGG-----CA--
66 CGCTGGCCTTGAATCAGCACATTGGCACTTCATC
* * * * *
534364 --TAAGCCCAATATCACTGGCCTTGAATTAGCATATTGGTACCTTTGTCATCTT-AGTCCAATGT
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTAAGACCAATGT
* *
534426 CGCTGGCCTTGAATCAGTACATTGGCACCTTCTTC
66 CGCTGGCCTTGAATCAGCACATTGGCA-CTTCATC
* * * ***
534461 TTTAAGTCCAATATCGTTGGCCTTGAATCAACACATTGGCACCTTAACCATCTTTAAGACCAATG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATC-TTAAGACCAATG
534526 TCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
65 TCGCTGGCCTTGAATCAGCACATTGGCA-CTTCATC
* * * * *** *
534562 TTTAAGTCCAATATTGTTGGCCTTGAATCAGCTTATTGGCATCTTTAAAATTTCTAAG-CCTAAT
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCT-TAAGACC-AAT
* * ** *
534626 GTTGCTAGCCTTGTCTCAGCACATTGGCA-TTCTTC
64 GTCGCTGGCCTTGAATCAGCACATTGGCACTTCATC
* * * *
534661 TTCAAGTCTAATGTCGCTGGCCATGAATCAG
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAG
534692 TACACTGTCA
Statistics
Matches: 433, Mismatches: 52, Indels: 40
0.82 0.10 0.08
Matches are distributed among these distances:
86 2 0.00
87 118 0.27
88 5 0.01
89 33 0.08
90 1 0.00
91 2 0.00
95 1 0.00
97 34 0.08
99 72 0.17
100 10 0.02
101 153 0.35
102 2 0.00
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.32
Consensus pattern (99 bp):
TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTAAGACCAATGT
CGCTGGCCTTGAATCAGCACATTGGCACTTCATC
Found at i:534215 original size:49 final size:49
Alignment explanation
Indices: 534087--534602 Score: 398
Period size: 49 Copynumber: 10.8 Consensus size: 49
534077 GGCGTCTTCT
* ** * *
534087 TTTAAGTCCAATATCGCTCACCTTGAATTAGCATATTGGCACCTTTGTCATC
1 TTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACC--T-TCATC
* * ** *
534139 TTTAAGACCAATGTCGCTAGTATTGAATCAGCACATTGGCATCTTCATC
1 TTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
* * * *
534188 TTTAAGTCCAATATCACTGGTCC-TGAATCAGCATATTGGCACCTT-GTC
1 TTTAAGACCAATATCGCTGG-CCTTGAATCAGCACATTGGCACCTTCATC
* *
534236 TCTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGG------CA--
1 TTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
* * *
534277 --TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-GTC
1 TTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
* * * *
534323 TCTAAAACTAATGTCGCTGGCCTTGAATCAGCACATTGG------CA--
1 TTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
* * * * *
534364 --TAAGCCCAATATCACTGGCCTTGAATTAGCATATTGGTACCTTTGTCATC
1 TTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACC--T-TCATC
* * * *
534414 -TT-AGTCCAATGTCGCTGGCCTTGAATCAGTACATTGGCACCTTCTTC
1 TTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
* * *
534461 TTTAAGTCCAATATCGTTGGCCTTGAATCAACACATTGGCACCTTAACCATC
1 TTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTT---CATC
*
534513 TTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
1 TTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
* * * **
534562 TTTAAGTCCAATATTGTTGGCCTTGAATCAGCTTATTGGCA
1 TTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA
534603 TCTTTAAAAT
Statistics
Matches: 369, Mismatches: 64, Indels: 65
0.74 0.13 0.13
Matches are distributed among these distances:
39 64 0.17
47 6 0.02
48 70 0.19
49 117 0.32
50 33 0.09
51 1 0.00
52 78 0.21
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.32
Consensus pattern (49 bp):
TTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
Found at i:534297 original size:39 final size:39
Alignment explanation
Indices: 534238--534400 Score: 157
Period size: 39 Copynumber: 3.9 Consensus size: 39
534228 ACCTTGTCTC
* *
534238 TAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
*
534277 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
* *
534316 CCT-TGTCTCTAAAACTAATGTCGCTGGCCTTGAATCAGCACATTGGCA
1 --TAAG-C-C-----C-AATATCGCTGGCCTTGAATCAGCACATTGGCA
* * *
534364 TAAGCCCAATATCACTGGCCTTGAATTAGCATATTGG
1 TAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGG
534401 TACCTTTGTC
Statistics
Matches: 102, Mismatches: 11, Indels: 22
0.76 0.08 0.16
Matches are distributed among these distances:
39 62 0.61
40 2 0.02
41 2 0.02
42 1 0.01
45 1 0.01
46 2 0.02
47 2 0.02
48 30 0.29
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (39 bp):
TAAGCCCAATATCGCTGGCCTTGAATCAGCACATTGGCA
Found at i:534341 original size:87 final size:87
Alignment explanation
Indices: 534190--534553 Score: 424
Period size: 87 Copynumber: 4.0 Consensus size: 87
534180 TCTTCATCTT
*
534190 TAAGTCCAATATCACTGGTCC-TGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCT
1 TAAGCCCAATATCACTGG-CCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCT
534254 GGCCTTGAATCAGCACATTGGCA
65 GGCCTTGAATCAGCACATTGGCA
* * *
534277 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAAACTAATGTCGCTG
1 TAAGCCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTG
534342 GCCTTGAATCAGCACATTGGCA
66 GCCTTGAATCAGCACATTGGCA
* * * *
534364 TAAGCCCAATATCACTGGCCTTGAATTAGCATATTGGTACCTTTGTCATCTTAGTCCAATGTCGC
1 TAAGCCCAATATCACTGGCCTTGAATCAGCATATTGGCACC-TTGTC-TCTAAGACCAATGTCGC
*
534429 TGGCCTTGAATCAGTACATTGGCA
64 TGGCCTTGAATCAGCACATTGGCA
* ** * * * *
534453 CCTTCTTCTTTAAGTCCAATATCGTTGGCCTTGAATCAACACATTGGCACCTTAACCATCTTTAA
1 ----------TAAGCCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTT----GTCTCTAA
534518 GACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
52 GACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
534554 CCTTCATCTT
Statistics
Matches: 236, Mismatches: 24, Indels: 20
0.84 0.09 0.07
Matches are distributed among these distances:
86 2 0.01
87 118 0.50
88 5 0.02
89 36 0.15
98 2 0.01
99 34 0.14
101 37 0.16
102 2 0.01
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (87 bp):
TAAGCCCAATATCACTGGCCTTGAATCAGCATATTGGCACCTTGTCTCTAAGACCAATGTCGCTG
GCCTTGAATCAGCACATTGGCA
Found at i:535559 original size:13 final size:13
Alignment explanation
Indices: 535541--535568 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
535531 ATTACTCAAA
535541 TGTATCGATACAT
1 TGTATCGATACAT
535554 TGTATCGATACAT
1 TGTATCGATACAT
535567 TG
1 TG
535569 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:538828 original size:22 final size:24
Alignment explanation
Indices: 538800--538853 Score: 67
Period size: 22 Copynumber: 2.3 Consensus size: 24
538790 GTGACTGTAC
*
538800 AAAAATAATAGAA-ATAAAT-AAT
1 AAAAATAAAAGAATATAAATCAAT
*
538822 AAAAATAAAAGAATATACATCAAT
1 AAAAATAAAAGAATATAAATCAAT
*
538846 CAAAATAA
1 AAAAATAA
538854 GTGATCCCTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
22 12 0.44
23 5 0.19
24 10 0.37
ACGTcount: A:0.70, C:0.06, G:0.04, T:0.20
Consensus pattern (24 bp):
AAAAATAAAAGAATATAAATCAAT
Found at i:541575 original size:158 final size:153
Alignment explanation
Indices: 541204--541587 Score: 375
Period size: 158 Copynumber: 2.5 Consensus size: 153
541194 GTTTTGTAGG
* * * * **
541204 AAAATTACGAAAATGCTCTTAGGCGATA-CTTCCGACATAAAAATACCCGATACCCCGAAAAGAC
1 AAAATTAC-AAAATACCCCTAGG-GATACCTT-CGACATAAAAGTACCCGATACCCATAAAAGAC
* * * *
541268 -TAAAAAGG-T--TTGA-AATGGAATGAACCTATCCTAACTACCCACCTTTGGCATAAAAGCGGA
63 TTAAAAAGGATAATAGATAA--G-ATGAACCTATCCTAAATACCCACCTTCGACATAAAAGCGGA
* * * *
541328 CCTAGTGACAACCTAAGACTTGATTTTTA
125 CCCAGTGACAACCTAAGACTCGATTCTAA
541357 AAAATTACAAAATACCCCTAGGGATACCTTCGACATAAAAGTACCCGATACCCATAAAAGACTTA
1 AAAATTACAAAATACCCCTAGGGATACCTTCGACATAAAAGTACCCGATACCCATAAAAGACTTA
* * *
541422 AAGAGGATAATAGATAAGATGAACCTATCCTAAATATCTACCTTCGACATAAAAGCGAAGAACCC
66 AAAAGGATAATAGATAAGATGAACCTATCCTAAATACCCACCTTCGACATAAAAGCG--G-ACCC
* * *
541487 GGTGATAACCTAGGACTCGATTCTAA
128 AGTGACAACCTAAGACTCGATTCTAA
* * * * * * * *
541513 AAAATTACTAGAATGCCTCTAAGGGATACCTTCGACTTAGAAGTGCTCGATACCCTTAAAAGACT
1 AAAATTAC-AAAATACCCCT-AGGGATACCTTCGACATAAAAGTACCCGATACCCATAAAAGACT
541578 TAAAAAGGAT
64 TAAAAAGGAT
541588 TTATAGATGT
Statistics
Matches: 191, Mismatches: 29, Indels: 17
0.81 0.12 0.07
Matches are distributed among these distances:
151 33 0.17
152 21 0.11
153 43 0.23
154 1 0.01
155 4 0.02
156 33 0.17
157 8 0.04
158 48 0.25
ACGTcount: A:0.40, C:0.21, G:0.16, T:0.23
Consensus pattern (153 bp):
AAAATTACAAAATACCCCTAGGGATACCTTCGACATAAAAGTACCCGATACCCATAAAAGACTTA
AAAAGGATAATAGATAAGATGAACCTATCCTAAATACCCACCTTCGACATAAAAGCGGACCCAGT
GACAACCTAAGACTCGATTCTAA
Found at i:543044 original size:24 final size:24
Alignment explanation
Indices: 542999--543043 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
542989 TTTTGCTATT
*
542999 TTTCTTGTTTTTTTCTCTTTTTTC
1 TTTCTTGTTTTTTCCTCTTTTTTC
543023 TTTCTT-TTTTTTCC-CTTTTTT
1 TTTCTTGTTTTTTCCTCTTTTTT
543044 TGCTGAGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 7 0.35
23 7 0.35
24 6 0.30
ACGTcount: A:0.00, C:0.18, G:0.02, T:0.80
Consensus pattern (24 bp):
TTTCTTGTTTTTTCCTCTTTTTTC
Found at i:544230 original size:332 final size:329
Alignment explanation
Indices: 543700--544327 Score: 902
Period size: 332 Copynumber: 1.9 Consensus size: 329
543690 ATTCCAAAGA
543700 AAAAAATCTAAAACCATGAAAATAAATGAATTTTTGAAAAATAATTTAATATAAAATAAATAATA
1 AAAAAATCTAAAACCATGAAAATAAATGAATTTTTGAAAAATAATTTAATATAAAATAAATAATA
* *** *
543765 ATATTTGATGGATTTTCGGAATTAAAAACCATGAAAAATCCCCCCAAAATAAATAACGAAATAGA
66 ATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCCCAAAATAAATAAC-AAATAGA
*** *
543830 AAACTCTGTTTTTTGGAAACAAAGGAATTTCAAGGAAAAAATCAAAAACTCATGAAAATGAATGC
130 AAACTCTGTTTTTCAAAAACAAAGAAATTTCAAGGAAAAAATCAAAAACTCATGAAAATGAATGC
* * * * *
543895 ATTTTTTAAAACTAATTTATTATGAAATAAGTAATAATATTTTATTAATTTTAAAAATTAAAAAC
195 ATTTTTTAAAAATAATTTATCATAAAATAAATAATAATATTTTATGAATTTTAAAAATTAAAAAC
* *
543960 TAAGAAAAATCCTCTCGAAAAAATTTACGAAGTAGAAAACTCTGTTTTTCGAAAATAGAAGAATT
260 TAAGAAAAAACC-CCCGAAAAAATTTACGAAGTAGAAAACTCTGTTTTTCGAAAATAGAAGAATT
544025 TCAAGG
324 TCAAGG
* * * *
544031 AAAAAATTTAAAAACCTATGAAAATGAATGAATTTTTTAAAACA-GATTTAATATAAAATAAATA
1 AAAAAATCT-AAAACC-ATGAAAATAAATGAATTTTTGAAAA-ATAATTTAATATAAAATAAATA
* * * ** * *
544095 ATAATATTTTATGAATTTTAAAAATTAAAAACCAAGAAAACTCTCCCTGAAATAAATTTA-AAGT
63 ATAATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCCCAAAATAAA-TAACAAAT
*
544159 AGAAAACTCTGTTTTTCAAAAAC-AAGAAAATTTCAAGGAAAAAATCAAAAACTTATGAAAATGA
127 AGAAAACTCTGTTTTTCAAAAACAAAG-AAATTTCAAGGAAAAAATCAAAAACTCATGAAAATGA
* *
544223 ATGCATTTTTTAAAAATGATTTATCATAAAATAAATAGTAATATTTTATGAATTTTAAAAATTAA
191 ATGCATTTTTTAAAAATAATTTATCATAAAATAAATAATAATATTTTATGAATTTTAAAAATTAA
544288 AAACTAAGAAAAAACCCCCGAAAAAATTTACGAAGTAGAA
256 AAACTAAGAAAAAACCCCCGAAAAAATTTACGAAGTAGAA
544328 TATTCTATAA
Statistics
Matches: 262, Mismatches: 30, Indels: 10
0.87 0.10 0.03
Matches are distributed among these distances:
331 34 0.13
332 137 0.52
333 88 0.34
334 3 0.01
ACGTcount: A:0.52, C:0.09, G:0.09, T:0.30
Consensus pattern (329 bp):
AAAAAATCTAAAACCATGAAAATAAATGAATTTTTGAAAAATAATTTAATATAAAATAAATAATA
ATATTTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCCCAAAATAAATAACAAATAGAA
AACTCTGTTTTTCAAAAACAAAGAAATTTCAAGGAAAAAATCAAAAACTCATGAAAATGAATGCA
TTTTTTAAAAATAATTTATCATAAAATAAATAATAATATTTTATGAATTTTAAAAATTAAAAACT
AAGAAAAAACCCCCGAAAAAATTTACGAAGTAGAAAACTCTGTTTTTCGAAAATAGAAGAATTTC
AAGG
Found at i:544347 original size:165 final size:165
Alignment explanation
Indices: 543664--544327 Score: 781
Period size: 166 Copynumber: 4.0 Consensus size: 165
543654 CACGGAATAA
* * * * * *
543664 AAAACTC-GATTTTTCAAAAAAAAG-AGATTCCAAAGAAAAAAATCTAAAAC-CATGAAAATAAA
1 AAAACTCTG-TTTTTCAAAAACAAGAAAATTTC-AAGGAAAAAATCAAAAACTCATGAAAATGAA
* * * ***
543726 TGAATTTTTGAAAAATAATTTAATATAAAATAAATAATAATATTTGATGGATTTTCGGAATTAAA
64 TGAATTTTTTAAAAATAATTTAATATAAAATAAATAATAATATTTTATGAATTTTAAAAATTAAA
* * * * *
543791 AACCATGAAAAATCCCCCCAAAATAAATAACGAAATAG
129 AACCAAGAAAAATCCCCCGAAAA-AATTTACGAAGTAG
*** *
543829 AAAACTCTGTTTTTTGGAAACAA-AGGAATTTCAAGGAAAAAATCAAAAACTCATGAAAATGAAT
1 AAAACTCTGTTTTTCAAAAACAAGA-AAATTTCAAGGAAAAAATCAAAAACTCATGAAAATGAAT
* * * * * *
543893 GCATTTTTTAAAACTAATTTATTATGAAATAAGTAATAATATTTTATTAATTTTAAAAATTAAAA
65 GAATTTTTTAAAAATAATTTAATATAAAATAAATAATAATATTTTATGAATTTTAAAAATTAAAA
* *
543958 ACTAAGAAAAATCCTCTCGAAAAAATTTACGAAGTAG
130 ACCAAGAAAAATCC-CCCGAAAAAATTTACGAAGTAG
* * *
543995 AAAACTCTGTTTTTCGAAAA-TAGAAGAATTTCAAGGAAAAAATTTAAAAAC-CTATGAAAATGA
1 AAAACTCTGTTTTTCAAAAACAAGAA-AATTTCAAGGAAAAAA-TCAAAAACTC-ATGAAAATGA
*
544058 ATGAATTTTTTAAAACA-GATTTAATATAAAATAAATAATAATATTTTATGAATTTTAAAAATTA
63 ATGAATTTTTTAAAA-ATAATTTAATATAAAATAAATAATAATATTTTATGAATTTTAAAAATTA
* *
544122 AAAACCAAGAAAACTCTCCCTGAAATAAATTTA--AAGTAG
127 AAAACCAAGAAAAATC-CCCCGAAA-AAATTTACGAAGTAG
*
544161 AAAACTCTGTTTTTCAAAAACAAGAAAATTTCAAGGAAAAAATCAAAAACTTATGAAAATGAATG
1 AAAACTCTGTTTTTCAAAAACAAGAAAATTTCAAGGAAAAAATCAAAAACTCATGAAAATGAATG
* * *
544226 CATTTTTTAAAAATGATTT-ATCATAAAATAAATAGTAATATTTTATGAATTTTAAAAATTAAAA
66 AATTTTTTAAAAATAATTTAAT-ATAAAATAAATAATAATATTTTATGAATTTTAAAAATTAAAA
* *
544290 ACTAAGAAAAAACCCCCGAAAAAATTTACGAAGTAG
130 ACCAAGAAAAATCCCCCGAAAAAATTTACGAAGTAG
544326 AA
1 AA
544328 TATTCTATAA
Statistics
Matches: 426, Mismatches: 55, Indels: 36
0.82 0.11 0.07
Matches are distributed among these distances:
163 7 0.02
164 10 0.02
165 129 0.30
166 170 0.40
167 102 0.24
168 8 0.02
ACGTcount: A:0.52, C:0.09, G:0.09, T:0.30
Consensus pattern (165 bp):
AAAACTCTGTTTTTCAAAAACAAGAAAATTTCAAGGAAAAAATCAAAAACTCATGAAAATGAATG
AATTTTTTAAAAATAATTTAATATAAAATAAATAATAATATTTTATGAATTTTAAAAATTAAAAA
CCAAGAAAAATCCCCCGAAAAAATTTACGAAGTAG
Found at i:544370 original size:165 final size:163
Alignment explanation
Indices: 543698--544378 Score: 678
Period size: 165 Copynumber: 4.1 Consensus size: 163
543688 AGATTCCAAA
* * *
543698 GAAAAAAATCTAAAAC-CATGAAAATAAATGAATTTTTGAAAAATAATTTAATATAAAATAAATA
1 GAAAAAAATCAAAAACTCATGAAAATGAATGAATTTTTTAAAAATAATTTAATATAAAATAAATA
* * *** * * * * *
543762 ATAATATTTGATGGATTTTCGGAATTAAAAACCATGAAAAATCCCCCCAAAATAAATAACGAAAT
66 ATAATATTTTATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCCGAAAA-AATTTACGAAGT
** * *
543827 AGAAAACTCTGTTTTTTGGAAACA-AAGGAATTTCAA
130 AGAAAACTCTG-TTTTTAAAAACATGAGGAA-TTC-C
* * * * * *
543863 GGAAAAAATCAAAAACTCATGAAAATGAATGCATTTTTTAAAACTAATTTATTATGAAATAAGTA
1 GAAAAAAATCAAAAACTCATGAAAATGAATGAATTTTTTAAAAATAATTTAATATAAAATAAATA
* * *
543928 ATAATATTTTATTAATTTTAAAAATTAAAAACTAAGAAAAATCCTCTCGAAAAAATTTACGAAGT
66 ATAATATTTTATGAATTTTAAAAATTAAAAACCAAGAAAAATCC-CCCGAAAAAATTTACGAAGT
** * *
543993 AGAAAACTCTGTTTTTCGAAA-ATAGAAGAATTTCAAG
130 AGAAAACTCTGTTTTTAAAAACAT-GAGGAA-TTC--C
* * *
544030 GAAAAAATTTAAAAAC-CTATGAAAATGAATGAATTTTTTAAAACA-GATTTAATATAAAATAAA
1 GAAAAAAATCAAAAACTC-ATGAAAATGAATGAATTTTTTAAAA-ATAATTTAATATAAAATAAA
* *
544093 TAATAATATTTTATGAATTTTAAAAATTAAAAACCAAGAAAACTCTCCCTGAAATAAATTTA--A
64 TAATAATATTTTATGAATTTTAAAAATTAAAAACCAAGAAAAATC-CCCCGAAA-AAATTTACGA
* * *
544156 AGTAGAAAACTCTGTTTTTCAAAAACAAGA-AAATTTCAA
127 AGTAGAAAACTCTGTTTTT-AAAAACATGAGGAA-TTC-C
* * * *
544195 GGAAAAAATCAAAAACTTATGAAAATGAATGCATTTTTTAAAAATGATTT-ATCATAAAATAAAT
1 GAAAAAAATCAAAAACTCATGAAAATGAATGAATTTTTTAAAAATAATTTAAT-ATAAAATAAAT
* * *
544259 AGTAATATTTTATGAATTTTAAAAATTAAAAACTAAGAAAAAACCCCCGAAAAAATTTACGAAGT
65 AATAATATTTTATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCCGAAAAAATTTACGAAGT
* * * *
544324 AGAATATTCTATAATTTAAAAACATGAGGAATTCC
130 AGAAAACTCTGT-TTTTAAAAACATGAGGAATTCC
*
544359 GAAAGAAAATCAATAACTCA
1 GAAA-AAAATCAAAAACTCA
544379 AAAAAAAGAG
Statistics
Matches: 432, Mismatches: 65, Indels: 38
0.81 0.12 0.07
Matches are distributed among these distances:
163 7 0.02
164 14 0.03
165 155 0.36
166 137 0.32
167 110 0.25
168 9 0.02
ACGTcount: A:0.51, C:0.10, G:0.09, T:0.30
Consensus pattern (163 bp):
GAAAAAAATCAAAAACTCATGAAAATGAATGAATTTTTTAAAAATAATTTAATATAAAATAAATA
ATAATATTTTATGAATTTTAAAAATTAAAAACCAAGAAAAATCCCCCGAAAAAATTTACGAAGTA
GAAAACTCTGTTTTTAAAAACATGAGGAATTCC
Found at i:547064 original size:24 final size:25
Alignment explanation
Indices: 547018--547065 Score: 71
Period size: 24 Copynumber: 1.9 Consensus size: 25
547008 TAAAAACGAG
547018 GTTGGAGTATCCCCTTGAAAGAATGA
1 GTTGGAGTAT-CCCTTGAAAGAATGA
*
547044 GTTGGAGTAT-CCTTGATAGAAT
1 GTTGGAGTATCCCTTGAAAGAAT
547066 TTTGGTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 11 0.52
26 10 0.48
ACGTcount: A:0.29, C:0.12, G:0.27, T:0.31
Consensus pattern (25 bp):
GTTGGAGTATCCCTTGAAAGAATGA
Found at i:548246 original size:22 final size:22
Alignment explanation
Indices: 548218--548259 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
548208 TTTAAAATGA
*
548218 TTTAAA-CTCGATTAATTCAATT
1 TTTAAACCT-GATTAACTCAATT
548240 TTTAAACCTGATTAACTCAA
1 TTTAAACCTGATTAACTCAA
548260 ACCTAAACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.38, C:0.17, G:0.05, T:0.40
Consensus pattern (22 bp):
TTTAAACCTGATTAACTCAATT
Found at i:548421 original size:16 final size:16
Alignment explanation
Indices: 548369--548454 Score: 68
Period size: 16 Copynumber: 5.4 Consensus size: 16
548359 CCCAATTGAT
548369 CCGAACTCGAAATGAC
1 CCGAACTCGAAATGAC
* * * **
548385 TCAAACTCAAAACAAC
1 CCGAACTCGAAATGAC
*
548401 TCGAACTCGAAATGAC
1 CCGAACTCGAAATGAC
*
548417 CCGAA-TCCAAAGTGAC
1 CCGAACTCGAAA-TGAC
548433 CCGAA-TCCGAAATGAC
1 CCGAACT-CGAAATGAC
*
548449 CTGAAC
1 CCGAAC
548455 CCAAAATGAT
Statistics
Matches: 54, Mismatches: 13, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
15 5 0.09
16 45 0.83
17 4 0.07
ACGTcount: A:0.41, C:0.30, G:0.15, T:0.14
Consensus pattern (16 bp):
CCGAACTCGAAATGAC
Found at i:548461 original size:16 final size:16
Alignment explanation
Indices: 548410--548463 Score: 72
Period size: 16 Copynumber: 3.4 Consensus size: 16
548400 CTCGAACTCG
548410 AAATGACCCGAATCCA
1 AAATGACCCGAATCCA
* *
548426 AAGTGACCCGAATCCG
1 AAATGACCCGAATCCA
* *
548442 AAATGACCTGAACCCA
1 AAATGACCCGAATCCA
548458 AAATGA
1 AAATGA
548464 TCTAAACTCG
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.43, C:0.28, G:0.17, T:0.13
Consensus pattern (16 bp):
AAATGACCCGAATCCA
Found at i:548476 original size:32 final size:32
Alignment explanation
Indices: 548372--548476 Score: 77
Period size: 32 Copynumber: 3.3 Consensus size: 32
548362 AATTGATCCG
* * * ** * *
548372 AACTCGAAATGACTCAAACTCAAAACAACTCG
1 AACTCGAAATGACCCGAACCCAAAATGACCCA
* * *
548404 AACTCGAAATGACCCGAATCCAAAGTGACCCG
1 AACTCGAAATGACCCGAACCCAAAATGACCCA
* * *
548436 AA-TCCGAAATGACCTGAACCCAAAATGATCTA
1 AACT-CGAAATGACCCGAACCCAAAATGACCCA
548468 AACTCGAAA
1 AACTCGAAA
548477 ATAACTCGAA
Statistics
Matches: 57, Mismatches: 14, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
31 1 0.02
32 55 0.96
33 1 0.02
ACGTcount: A:0.44, C:0.28, G:0.13, T:0.15
Consensus pattern (32 bp):
AACTCGAAATGACCCGAACCCAAAATGACCCA
Found at i:549401 original size:2 final size:2
Alignment explanation
Indices: 549394--549431 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
549384 TCTTATATCA
549394 AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
549432 AGCTGCGGAC
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 34 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:549419 original size:17 final size:17
Alignment explanation
Indices: 549397--549430 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
549387 TATATCAATA
549397 TATATATATATATATAT
1 TATATATATATATATAT
549414 TATATATATATATATAT
1 TATATATATATATATAT
549431 AAGCTGCGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TATATATATATATATAT
Found at i:550507 original size:126 final size:126
Alignment explanation
Indices: 550347--550607 Score: 337
Period size: 126 Copynumber: 2.1 Consensus size: 126
550337 TGTTTCACTG
* ** *
550347 TCTCTGTCCCTATCCAACTGATCTCCATCATCTTCAG-GGGTTTGGATAACACTGTCTCCATAAT
1 TCTCTGTCCCTATCCAACTGATCTCCATCATCTTC-GCGAGTGCGGATAACACTGTCTCCACAAT
* * * * * *
550411 CATCTGGGTATCCCCCTTTG-TGCCGATGCCTTTTCCTTTTCTTGGTCTGACCATATAGATTT
65 CATCAGGATATCCCCCTTTGCT-CCGATGCCTTTTCCTCTCCCTGGTCTGACCATAGAGATTT
* * * * *
550473 TCTCTGTTCCTGTCCAACTGATCTCCATCATCTTCGCGAGTGCGGATACCACTGTCTCCGCAGTC
1 TCTCTGTCCCTATCCAACTGATCTCCATCATCTTCGCGAGTGCGGATAACACTGTCTCCACAATC
* *
550538 ATCAGGATATTCCCCTTTGCTCCGATGCCTTTTCCTCTCCCTGGTCTGACCATGGAGATTT
66 ATCAGGATATCCCCCTTTGCTCCGATGCCTTTTCCTCTCCCTGGTCTGACCATAGAGATTT
550599 TCTCTGTCC
1 TCTCTGTCC
550608 TCATAGACTC
Statistics
Matches: 115, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
125 1 0.01
126 113 0.98
127 1 0.01
ACGTcount: A:0.16, C:0.31, G:0.17, T:0.36
Consensus pattern (126 bp):
TCTCTGTCCCTATCCAACTGATCTCCATCATCTTCGCGAGTGCGGATAACACTGTCTCCACAATC
ATCAGGATATCCCCCTTTGCTCCGATGCCTTTTCCTCTCCCTGGTCTGACCATAGAGATTT
Found at i:550988 original size:138 final size:138
Alignment explanation
Indices: 550740--551003 Score: 312
Period size: 138 Copynumber: 1.9 Consensus size: 138
550730 TGAATAACCT
** * * * * *
550740 CCATCAGAACTGGAATGTTGGATTCTCTCACTGTTTTGATTCCGTTTTAGACTTGTGCTCTGTCT
1 CCATCAGAACTGGAATCATGGAATCTCTCACCGTTTTGATCCCATTTTAAACTTGTGCTCTGTCT
** * * * * * *
550805 ATCTGATCTTCCATCTAAAATTTTTGTTTGTTTTCTGTCAGTATTCCTGCTCATTTGACTGGCTG
66 ATCACATATTCCATCTAAAATTTTTCTTTGGTTTCTATAAGTATTCCTGCCCATTTGACTGGCTG
550870 AACAGCCA
131 AACAGCCA
** * *
550878 CCATCAGAACTGTTATCATGGAATCTCTCACCGTTTTGATCCCATTTTAAACTTGTGTTGTGTCT
1 CCATCAGAACTGGAATCATGGAATCTCTCACCGTTTTGATCCCATTTTAAACTTGTGCTCTGTCT
* * * * *
550943 ATCACATATTCCATCTGACATTTTTCTTTGGTTTCTATAATTATTCTTGCCCCTTTGACTG
66 ATCACATATTCCATCTAAAATTTTTCTTTGGTTTCTATAAGTATTCCTGCCCATTTGACTG
551004 TGACTGCTCT
Statistics
Matches: 102, Mismatches: 24, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
138 102 1.00
ACGTcount: A:0.20, C:0.22, G:0.15, T:0.43
Consensus pattern (138 bp):
CCATCAGAACTGGAATCATGGAATCTCTCACCGTTTTGATCCCATTTTAAACTTGTGCTCTGTCT
ATCACATATTCCATCTAAAATTTTTCTTTGGTTTCTATAAGTATTCCTGCCCATTTGACTGGCTG
AACAGCCA
Found at i:558674 original size:10 final size:11
Alignment explanation
Indices: 558658--558684 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
558648 TGCCAAAACC
558658 AGAAAAAAAAA
1 AGAAAAAAAAA
558669 AGAAAAAAAAA
1 AGAAAAAAAAA
558680 AGAAA
1 AGAAA
558685 GACATAGCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (11 bp):
AGAAAAAAAAA
Found at i:561769 original size:20 final size:20
Alignment explanation
Indices: 561741--561790 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
561731 TAATTCAAAA
*
561741 TATCGATACATAGGTATTTG
1 TATCAATACATAGGTATTTG
561761 TATCAATACATAGGTATTTG
1 TATCAATACATAGGTATTTG
561781 TATCAATACA
1 TATCAATACA
561791 CAAAGGTTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.36, C:0.12, G:0.14, T:0.38
Consensus pattern (20 bp):
TATCAATACATAGGTATTTG
Found at i:565142 original size:21 final size:21
Alignment explanation
Indices: 565116--565169 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
565106 ATAATGGTCT
*
565116 TGTATCGATACATTTCAGACA
1 TGTATCGATACATTTCACACA
* **
565137 TGTATCAATACA-TTCACTTA
1 TGTATCGATACATTTCACACA
565157 TGTATCGATACAT
1 TGTATCGATACAT
565170 CCACTTATTG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 16 0.59
21 11 0.41
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.37
Consensus pattern (21 bp):
TGTATCGATACATTTCACACA
Found at i:565183 original size:21 final size:20
Alignment explanation
Indices: 565136--565189 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
565126 CATTTCAGAC
* *
565136 ATGTATCAATACATTCACTT
1 ATGTATCGATACATCCACTT
565156 ATGTATCGATACATCCACTT
1 ATGTATCGATACATCCACTT
565176 ATTGTATCGATACA
1 A-TGTATCGATACA
565190 AATTGTTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 19 0.61
21 12 0.39
ACGTcount: A:0.33, C:0.20, G:0.09, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATCCACTT
Found at i:566689 original size:27 final size:27
Alignment explanation
Indices: 566617--566690 Score: 77
Period size: 27 Copynumber: 2.8 Consensus size: 27
566607 AAATTCATAT
566617 ATTTTAATCAAT-TTTTTAAAAAGATAA
1 ATTTTAAT-AATATTTTTAAAAAGATAA
*
566644 ATATTT--T-ATATTTTAAAAAAGA-AA
1 AT-TTTAATAATATTTTTAAAAAGATAA
566668 ATTTTAATAAATATTTTTAAAAA
1 ATTTTAAT-AATATTTTTAAAAA
566691 AGTAAAATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
23 3 0.08
24 6 0.15
25 12 0.31
26 1 0.03
27 14 0.36
28 3 0.08
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (27 bp):
ATTTTAATAATATTTTTAAAAAGATAA
Done.