Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 88 of 325
Found at i:25396632 original size:15 final size:15
Alignment explanation
Indices: 25396609--25396639 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
25396599 GACTTTTTAT
*
25396609 TCTGCTATCTGTATA
1 TCTGATATCTGTATA
25396624 TCTGATATCTGTATA
1 TCTGATATCTGTATA
25396639 T
1 T
25396640 AAGCATGCTG
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:0.23, C:0.16, G:0.13, T:0.48
Consensus pattern (15 bp):
TCTGATATCTGTATA
Found at i:25400076 original size:26 final size:26
Alignment explanation
Indices: 25400047--25400154 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
25400037 TGGTACAAAT
*
25400047 TGATAACGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
25400073 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
25400099 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
25400125 TGACAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
25400151 TGAT
1 TGAT
25400155 GGGCATTTCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.32, C:0.09, G:0.24, T:0.34
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:25413460 original size:23 final size:22
Alignment explanation
Indices: 25413434--25413476 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
25413424 AAAAAGTAAA
25413434 AAGAAGAACACAAGAA-AAAAACC
1 AAGAAGAA-AC-AGAACAAAAACC
25413457 AAGAAGAAACAGAACAAAAA
1 AAGAAGAAACAGAACAAAAA
25413477 ATAACGTGCC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.21
22 7 0.37
23 8 0.42
ACGTcount: A:0.72, C:0.14, G:0.14, T:0.00
Consensus pattern (22 bp):
AAGAAGAAACAGAACAAAAACC
Found at i:25417632 original size:39 final size:40
Alignment explanation
Indices: 25417574--25417674 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 40
25417564 AAATTGAATG
* *
25417574 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * * *
25417613 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
25417653 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
25417675 GCATTCGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 29 0.55
40 24 0.45
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:25417667 original size:40 final size:40
Alignment explanation
Indices: 25417574--25417756 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
25417564 AAATTGAATG
* * * * *
25417574 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
25417613 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
25417653 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
25417693 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
25417733 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
25417757 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
39 32 0.26
40 87 0.72
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:25425720 original size:39 final size:40
Alignment explanation
Indices: 25425662--25425762 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 40
25425652 AAATTGAATG
* *
25425662 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * * *
25425701 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
25425741 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
25425763 GCATTCGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 29 0.55
40 24 0.45
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:25425755 original size:40 final size:40
Alignment explanation
Indices: 25425662--25425844 Score: 181
Period size: 40 Copynumber: 4.6 Consensus size: 40
25425652 AAATTGAATG
* * * * *
25425662 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
25425701 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
25425741 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
25425781 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* * *
25425821 ATATCCGGGTTAAGTCCCGTAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
25425845 CTTGGTGCGG
Statistics
Matches: 121, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
39 32 0.26
40 87 0.72
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:25427578 original size:29 final size:29
Alignment explanation
Indices: 25427483--25427646 Score: 159
Period size: 29 Copynumber: 5.6 Consensus size: 29
25427473 TTCGTAACTG
* * * *
25427483 TCCCTTTTCATATTCGATGGTCGAAA-CCA
1 TCCCTTTTCATAATCGATAG-CCAAAGCTA
* * *** *
25427512 TCCCTTTTCATTAATCGATGGTCGTCGCCA
1 TCCCTTTTCA-TAATCGATAGCCAAAGCTA
*
25427542 TCCCTTTTCATAATCGATAGCCAAAACTA
1 TCCCTTTTCATAATCGATAGCCAAAGCTA
** * *
25427571 TCATTTTTCATAATCAATAGCCGAAGCTA
1 TCCCTTTTCATAATCGATAGCCAAAGCTA
25427600 TCCCTTTTCATAATCGATAGCCAAAGCTA
1 TCCCTTTTCATAATCGATAGCCAAAGCTA
*
25427629 TCCCTTTTCATATTCGAT
1 TCCCTTTTCATAATCGAT
25427647 GGTCGTCACC
Statistics
Matches: 110, Mismatches: 23, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
29 88 0.80
30 22 0.20
ACGTcount: A:0.27, C:0.27, G:0.11, T:0.35
Consensus pattern (29 bp):
TCCCTTTTCATAATCGATAGCCAAAGCTA
Found at i:25427661 original size:58 final size:58
Alignment explanation
Indices: 25427483--25427697 Score: 218
Period size: 58 Copynumber: 3.7 Consensus size: 58
25427473 TTCGTAACTG
* * * * *
25427483 TCCCTTTTCATATTCGATGGTCGAAA-CCATCCCTTTTCATTAATCGATGGTCGTCGCCA
1 TCCCTTTTCATAATCGATAG-CCAAAGCTATCCCTTTTCA-TAATCGATGGTCGTCACCA
* ** * * * * *
25427542 TCCCTTTTCATAATCGATAGCCAAAACTATCATTTTTCATAATCAATAGCCG-AAGCTA
1 TCCCTTTTCATAATCGATAGCCAAAGCTATCCCTTTTCATAATCGATGGTCGTCA-CCA
*
25427600 TCCCTTTTCATAATCGATAGCCAAAGCTATCCCTTTTCATATTCGATGGTCGTCACCA
1 TCCCTTTTCATAATCGATAGCCAAAGCTATCCCTTTTCATAATCGATGGTCGTCACCA
* * ** *
25427658 TCCCTTTTCATAATTGACAATCAAAGCTATTCCTTTTCAT
1 TCCCTTTTCATAATCGATAGCCAAAGCTATCCCTTTTCAT
25427698 TGGTCGATGA
Statistics
Matches: 127, Mismatches: 26, Indels: 7
0.79 0.16 0.04
Matches are distributed among these distances:
58 98 0.77
59 29 0.23
ACGTcount: A:0.27, C:0.27, G:0.11, T:0.36
Consensus pattern (58 bp):
TCCCTTTTCATAATCGATAGCCAAAGCTATCCCTTTTCATAATCGATGGTCGTCACCA
Found at i:25447638 original size:17 final size:17
Alignment explanation
Indices: 25447612--25447646 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
25447602 ATTTAACATA
25447612 AATGTCATGACTAAGTT
1 AATGTCATGACTAAGTT
*
25447629 AATGTTATGACTAAGTT
1 AATGTCATGACTAAGTT
25447646 A
1 A
25447647 TCATTTAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.37, C:0.09, G:0.17, T:0.37
Consensus pattern (17 bp):
AATGTCATGACTAAGTT
Found at i:25451564 original size:53 final size:53
Alignment explanation
Indices: 25451423--25451573 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
25451413 ACAAGTGTGC
* **
25451423 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
25451476 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
25451529 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
25451574 ACCGTGTAAG
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:25459062 original size:53 final size:53
Alignment explanation
Indices: 25458921--25459071 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
25458911 ACAAGTGTGC
* **
25458921 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
25458974 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
25459027 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
25459072 ACCGTGTAAG
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:25461656 original size:20 final size:20
Alignment explanation
Indices: 25461631--25461670 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
25461621 AGAGAATGAT
25461631 TAATATGGATGTAAGTGAGA
1 TAATATGGATGTAAGTGAGA
25461651 TAATATGGATGTAAGTGAGA
1 TAATATGGATGTAAGTGAGA
25461671 GGAGTTTAAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.00, G:0.30, T:0.30
Consensus pattern (20 bp):
TAATATGGATGTAAGTGAGA
Found at i:25462713 original size:50 final size:50
Alignment explanation
Indices: 25462652--25462754 Score: 161
Period size: 50 Copynumber: 2.1 Consensus size: 50
25462642 ACATACGCGA
* * * * *
25462652 AAAATAAATTATGTAACAAATACATTTATTAAAAATTTGATATAAATAAT
1 AAAACAAATTATATAACAAATACATTAATAAAAAAATTGATATAAATAAT
25462702 AAAACAAATTATATAACAAATACATTAATAAAAAAATTGATATAAATAAT
1 AAAACAAATTATATAACAAATACATTAATAAAAAAATTGATATAAATAAT
25462752 AAA
1 AAA
25462755 TAATACTTTG
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.31
Consensus pattern (50 bp):
AAAACAAATTATATAACAAATACATTAATAAAAAAATTGATATAAATAAT
Found at i:25475691 original size:5 final size:5
Alignment explanation
Indices: 25475681--25475716 Score: 72
Period size: 5 Copynumber: 7.2 Consensus size: 5
25475671 TATTTGTTTA
25475681 TATAT TATAT TATAT TATAT TATAT TATAT TATAT T
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT T
25475717 TAAGGGGTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:25476836 original size:13 final size:13
Alignment explanation
Indices: 25476818--25476844 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
25476808 CAAGTAGTGA
25476818 TCTTGATGATTTT
1 TCTTGATGATTTT
25476831 TCTTGATGATTTT
1 TCTTGATGATTTT
25476844 T
1 T
25476845 GTACTTTTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.07, G:0.15, T:0.63
Consensus pattern (13 bp):
TCTTGATGATTTT
Found at i:25493433 original size:58 final size:57
Alignment explanation
Indices: 25493369--25493498 Score: 217
Period size: 58 Copynumber: 2.3 Consensus size: 57
25493359 TTATTTCTTC
25493369 AAATTAATTTGTTTTTAATTTTGAAAAATTTACAAAATTGCCATCAATTATAAGCTAA
1 AAATTAATTTGTTTTTAATTTTGAAAAATTTACAAAATTGCCATCAATTATAAGCT-A
* *
25493427 AAATTAATTTATTTTTAATTTTGCAAAATTTACAAAATTGCCATCAATTATAAGCTA
1 AAATTAATTTGTTTTTAATTTTGAAAAATTTACAAAATTGCCATCAATTATAAGCTA
*
25493484 AACTTAA-TTGTTTTT
1 AAATTAATTTGTTTTT
25493499 GTTTCTATTA
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
56 7 0.10
57 7 0.10
58 54 0.79
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.44
Consensus pattern (57 bp):
AAATTAATTTGTTTTTAATTTTGAAAAATTTACAAAATTGCCATCAATTATAAGCTA
Found at i:25496248 original size:28 final size:28
Alignment explanation
Indices: 25496212--25496265 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
25496202 CAAATATTCG
* * *
25496212 TTATGATTTGAATACTAATATTAATATA
1 TTATAATTTAAATAATAATATTAATATA
*
25496240 TTATAATTTAAATAATATTATTAATA
1 TTATAATTTAAATAATAATATTAATA
25496266 ATTTCTTACA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (28 bp):
TTATAATTTAAATAATAATATTAATATA
Found at i:25497140 original size:25 final size:29
Alignment explanation
Indices: 25497087--25497141 Score: 80
Period size: 26 Copynumber: 2.0 Consensus size: 29
25497077 GGTAAATCAA
*
25497087 TATTTACAACATAATTTTATAATATTTTT
1 TATTTACAACATAAATTTATAATATTTTT
25497116 TATTTA-AA-ATAAATTTA-AATATTTTT
1 TATTTACAACATAAATTTATAATATTTTT
25497142 ATATCCTTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 9 0.36
27 8 0.32
28 2 0.08
29 6 0.24
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.55
Consensus pattern (29 bp):
TATTTACAACATAAATTTATAATATTTTT
Found at i:25498390 original size:195 final size:195
Alignment explanation
Indices: 25498051--25498448 Score: 769
Period size: 195 Copynumber: 2.0 Consensus size: 195
25498041 TGAAAAATTA
25498051 AACTTTGAAAAATTTTCGATTGTCTGTTACTGTTATGACATCATATCTTTTTATGAGCTTATCTT
1 AACTTTGAAAAATTTTCGATTGTCTGTTACTGTTATGACATCATATCTTTTTATGAGCTTATCTT
*
25498116 ATTTCATTTTTCCACATAACAACATTGCTTGTACCAAAATTTGAACTTAAACAAATTTTCAAAGA
66 ATTTCATTTTTCCACATAACAAAATTGCTTGTACCAAAATTTGAACTTAAACAAATTTTCAAAGA
*
25498181 TAATATCGAAAACCTTTAATTGACTTAGCGCAATCTAATGACTCTGTTTGAGGTGAATTATTATC
131 TAATATCAAAAACCTTTAATTGACTTAGCGCAATCTAATGACTCTGTTTGAGGTGAATTATTATC
*
25498246 AACTTTGAAAAATTTTCGATTGTCTGTTGCTGTTATGACATCATATCTTTTTATGAGCTTATCTT
1 AACTTTGAAAAATTTTCGATTGTCTGTTACTGTTATGACATCATATCTTTTTATGAGCTTATCTT
25498311 ATTTCATTTTTCCACATAACAAAATTGCTTGTACCAAAATTTGAACTTAAACAAATTTTCAAAGA
66 ATTTCATTTTTCCACATAACAAAATTGCTTGTACCAAAATTTGAACTTAAACAAATTTTCAAAGA
25498376 TAATATCAAAAACCTTTAATTGACTTAGCGCAATCTAATGACTCTGTTTGAGGTGAATTATTATC
131 TAATATCAAAAACCTTTAATTGACTTAGCGCAATCTAATGACTCTGTTTGAGGTGAATTATTATC
25498441 AACTTTGA
1 AACTTTGA
25498449 CTCGAATGCT
Statistics
Matches: 200, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
195 200 1.00
ACGTcount: A:0.33, C:0.16, G:0.11, T:0.40
Consensus pattern (195 bp):
AACTTTGAAAAATTTTCGATTGTCTGTTACTGTTATGACATCATATCTTTTTATGAGCTTATCTT
ATTTCATTTTTCCACATAACAAAATTGCTTGTACCAAAATTTGAACTTAAACAAATTTTCAAAGA
TAATATCAAAAACCTTTAATTGACTTAGCGCAATCTAATGACTCTGTTTGAGGTGAATTATTATC
Found at i:25498882 original size:68 final size:68
Alignment explanation
Indices: 25498668--25498892 Score: 199
Period size: 68 Copynumber: 3.3 Consensus size: 68
25498658 AACTACAAAC
* *
25498668 GAGCGTAGGTCCACTAGCTGTGTTGGAGCTACAAACTTAACTTTGCGAGCTCTTATAATATCAGC
1 GAGCGTAGGTCCACTAGCTGTGTTGGAGCTACGAACTTAACTCTGCGAGCTCTTATAATATCAGC
*
25498733 TAG
66 TAA
* * * ** * ** *
25498736 GAGCTTAGG-CCTACTAGCTACT-TTGGAGGTTGTGAACTTAAATC-GATAAAC-CTTTATGAA-
1 GAGCGTAGGTCC-ACTAGCT-GTGTTGGA-GCTACGAACTTAACTCTG-CGAGCTC-TTAT-AAT
* *
25498796 ATCAGTTGA
60 ATCAGCTAA
* *
25498805 GAGCGTAGGTCCACTAGCTGTGTTGGAGCTACGAGCTTAACTCTGCGAGCTCTTATAATGTCAGC
1 GAGCGTAGGTCCACTAGCTGTGTTGGAGCTACGAACTTAACTCTGCGAGCTCTTATAATATCAGC
25498870 TAA
66 TAA
* *
25498873 GAGCATAGGTCCGCTAGCTG
1 GAGCGTAGGTCCACTAGCTG
25498893 CTTTAGAGGT
Statistics
Matches: 117, Mismatches: 29, Indels: 22
0.70 0.17 0.13
Matches are distributed among these distances:
67 4 0.03
68 64 0.55
69 45 0.38
70 4 0.03
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.29
Consensus pattern (68 bp):
GAGCGTAGGTCCACTAGCTGTGTTGGAGCTACGAACTTAACTCTGCGAGCTCTTATAATATCAGC
TAA
Found at i:25498914 original size:137 final size:137
Alignment explanation
Indices: 25498668--25498915 Score: 374
Period size: 137 Copynumber: 1.8 Consensus size: 137
25498658 AACTACAAAC
*
25498668 GAGCGTAGGTCCACTAGCTGTGTTGGAGCTACAAACTTAACTTTGCGAGCTCTTATAATATCAGC
1 GAGCGTAGGTCCACTAGCTGTGTTGGAGCTACAAACTTAACTCTGCGAGCTCTTATAATATCAGC
* * * *
25498733 TAGGAGCTTAGGCCTACTAGCTACTTTGGAGGTTGTGAACTTAAATCGATAAACCTTTATGAAAT
66 TAAGAGCATAGGCCTACTAGCTACTTTAGAGGTTGTCAACTTAAATCGATAAACCTTTATGAAAT
25498798 CAGTTGA
131 CAGTTGA
* * *
25498805 GAGCGTAGGTCCACTAGCTGTGTTGGAGCTACGAGCTTAACTCTGCGAGCTCTTATAATGTCAGC
1 GAGCGTAGGTCCACTAGCTGTGTTGGAGCTACAAACTTAACTCTGCGAGCTCTTATAATATCAGC
* *
25498870 TAAGAGCATAGGTCC-GCTAGCTGCTTTAGAGGTTG-CAATCTTAAAT
66 TAAGAGCATAGG-CCTACTAGCTACTTTAGAGGTTGTCAA-CTTAAAT
25498916 GGGCAAACCT
Statistics
Matches: 99, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
136 2 0.02
137 95 0.96
138 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (137 bp):
GAGCGTAGGTCCACTAGCTGTGTTGGAGCTACAAACTTAACTCTGCGAGCTCTTATAATATCAGC
TAAGAGCATAGGCCTACTAGCTACTTTAGAGGTTGTCAACTTAAATCGATAAACCTTTATGAAAT
CAGTTGA
Found at i:25502466 original size:46 final size:48
Alignment explanation
Indices: 25502379--25502551 Score: 173
Period size: 46 Copynumber: 3.7 Consensus size: 48
25502369 ATATCTGTGC
* * *
25502379 CGATGCCATGTCCCAGACATGGTCTTACACTGAC--ACATCTCGTA-GC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACGTCTCG-AGGA
*
25502425 CGATG-CATGTCCCAGGCAT-GTCTTACACTGGCTTACGTCTCGAGGA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACGTCTCGAGGA
* * * * * *
25502471 TGATG-CATGTCCTAGACAT-GTCTTACACTAGCACT-CGTCTCAATGA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGC-TTACGTCTCGAGGA
*
25502517 CGATGCCATATCCCAGACATGGTCTTACACTGGCT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCT
25502552 CTCATAATAT
Statistics
Matches: 105, Mismatches: 16, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
44 12 0.11
45 14 0.13
46 54 0.51
47 13 0.12
48 12 0.11
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTTACGTCTCGAGGA
Found at i:25502544 original size:94 final size:92
Alignment explanation
Indices: 25502425--25502596 Score: 224
Period size: 94 Copynumber: 1.8 Consensus size: 92
25502415 ATCTCGTAGC
* * * *
25502425 CGATGCATGTCCCAGGCATGTCTTACACTGGCTTACGTC-T-CGA-GGATGATGCATGTCCTAGA
1 CGATGCATATCCCAGACATGTCTTACACTGGC-T-C-TCATAAGATGGACGATGCATGTCCTAGA
25502487 CATGTCTTACACTAGCACTCGTCTCAATGA
63 CATGTCTTACACTAGCACTCGTCTCAATGA
* *
25502517 CGATGCCATATCCCAGACATGGTCTTACACTGGCTCTCATAATATGGGCGATGCATGTCCTAGAC
1 CGATG-CATATCCCAGACAT-GTCTTACACTGGCTCTCATAAGATGGACGATGCATGTCCTAGAC
25502582 ATGTCTTACACTAGC
64 ATGTCTTACACTAGC
25502597 TCACACAAGT
Statistics
Matches: 69, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
91 2 0.03
92 7 0.10
93 14 0.20
94 46 0.67
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (92 bp):
CGATGCATATCCCAGACATGTCTTACACTGGCTCTCATAAGATGGACGATGCATGTCCTAGACAT
GTCTTACACTAGCACTCGTCTCAATGA
Found at i:25502583 original size:47 final size:44
Alignment explanation
Indices: 25502425--25502598 Score: 152
Period size: 46 Copynumber: 3.8 Consensus size: 44
25502415 ATCTCGTAGC
* * ** *
25502425 CGATGCATGTCCCAGGCATGTCTTACACTGGCTTACGTCTCGAGGA
1 CGATGCATGTCCTAGACATGTCTTACACTGGC-T-CGTCTAAATGA
* * *
25502471 TGATGCATGTCCTAGACATGTCTTACACTAGCACTCGTCTCAATGA
1 CGATGCATGTCCTAGACATGTCTTACACT-G-GCTCGTCTAAATGA
* * *
25502517 CGATGCCATATCCCAGACATGGTCTTACACTGGCTC-TCATAATATGGG
1 CGATG-CATGTCCTAGACAT-GTCTTACACTGGCTCGTC-TAA-AT-GA
*
25502565 CGATGCATGTCCTAGACATGTCTTACACTAGCTC
1 CGATGCATGTCCTAGACATGTCTTACACTGGCTC
25502599 ACACAAGTGA
Statistics
Matches: 106, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
45 2 0.02
46 58 0.55
47 29 0.27
48 17 0.16
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.28
Consensus pattern (44 bp):
CGATGCATGTCCTAGACATGTCTTACACTGGCTCGTCTAAATGA
Found at i:25516785 original size:13 final size:13
Alignment explanation
Indices: 25516767--25516792 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25516757 CTCGGTAGGA
25516767 ACACGCCCGTGTG
1 ACACGCCCGTGTG
25516780 ACACGCCCGTGTG
1 ACACGCCCGTGTG
25516793 CGATTGCTTA
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:0.15, C:0.38, G:0.31, T:0.15
Consensus pattern (13 bp):
ACACGCCCGTGTG
Found at i:25516919 original size:17 final size:17
Alignment explanation
Indices: 25516885--25516919 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
25516875 AAATTGACAT
* *
25516885 GGCTGTGTTGTTTGCCC
1 GGCTGTGTTGTCTACCC
25516902 GGCTGTGTTGTCTACCC
1 GGCTGTGTTGTCTACCC
25516919 G
1 G
25516920 TGTGAGGAGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.03, C:0.26, G:0.34, T:0.37
Consensus pattern (17 bp):
GGCTGTGTTGTCTACCC
Found at i:25521235 original size:92 final size:93
Alignment explanation
Indices: 25521123--25521295 Score: 233
Period size: 94 Copynumber: 1.9 Consensus size: 93
25521113 CATATATGTG
* * * *
25521123 CTGATACCATGTCCCAGACATGGTTTTATACTGACACATC-T-CGTAGCCGATGCATGTCCCAGA
1 CTGATACCATATCCCAGACATGGTCTTACACAGACAC-TCATACGTAGCCGATGCATGTCCCAGA
25521186 CATGTCTTACACTAGCACTCGTTTCAATT
65 CATGTCTTACACTAGCACTCGTTTCAATT
* * * * *
25521215 CTGATGCCATATCCCAGACATGGTCTTACACAGGCTCTCATAATGTGGCCGATGCATGTCCCAGA
1 CTGATACCATATCCCAGACATGGTCTTACACAGACACTCAT-ACGTAGCCGATGCATGTCCCAGA
25521280 CATGTCTTACACTAGC
65 CATGTCTTACACTAGC
25521296 TCACACAAGT
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
91 2 0.03
92 31 0.45
94 36 0.52
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (93 bp):
CTGATACCATATCCCAGACATGGTCTTACACAGACACTCATACGTAGCCGATGCATGTCCCAGAC
ATGTCTTACACTAGCACTCGTTTCAATT
Found at i:25526412 original size:43 final size:43
Alignment explanation
Indices: 25526336--25526443 Score: 135
Period size: 43 Copynumber: 2.5 Consensus size: 43
25526326 TCAAAGACTG
* * * *
25526336 GCACACATAGTGCATCATCGAATAAACCTAAGAAAATATACTA
1 GCACACATAGTGCATCATTGGAGAAACCAAAGAAAATATACTA
* * *
25526379 GCACACATAGTACATCATTGGAGAAATCAAAGAAAATATACTG
1 GCACACATAGTGCATCATTGGAGAAACCAAAGAAAATATACTA
* *
25526422 GCACATACAGTGCATCATTGGA
1 GCACACATAGTGCATCATTGGA
25526444 TGAACCGAAG
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.44, C:0.19, G:0.16, T:0.21
Consensus pattern (43 bp):
GCACACATAGTGCATCATTGGAGAAACCAAAGAAAATATACTA
Found at i:25529753 original size:19 final size:19
Alignment explanation
Indices: 25529729--25529809 Score: 67
Period size: 19 Copynumber: 4.0 Consensus size: 19
25529719 GATATGTCTT
*
25529729 TCAAAATAAAATAATAAAA
1 TCAAAATAAAAAAATAAAA
25529748 TCAAAATCAAAAGAAAAATAAAAA
1 TCAAAAT---AA-AAAAAT-AAAA
*
25529772 TAAAAATAAAATAAA-AAAA
1 TCAAAATAAAA-AAATAAAA
25529791 T-AAAACTAAAAAAATAAAA
1 TCAAAA-TAAAAAAATAAAA
25529810 AAAATAGGAG
Statistics
Matches: 52, Mismatches: 2, Indels: 16
0.74 0.03 0.23
Matches are distributed among these distances:
18 7 0.13
19 21 0.40
20 2 0.04
21 5 0.10
22 2 0.04
23 5 0.10
24 10 0.19
ACGTcount: A:0.78, C:0.05, G:0.01, T:0.16
Consensus pattern (19 bp):
TCAAAATAAAAAAATAAAA
Found at i:25529755 original size:6 final size:6
Alignment explanation
Indices: 25529731--25529815 Score: 68
Period size: 6 Copynumber: 14.0 Consensus size: 6
25529721 TATGTCTTTC
* * *
25529731 AAAAT- AAAATAA TAAAATC AAAATC AAAAGA AAAATA AAAATA AAAATA
1 AAAATA AAAAT-A -AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
* *
25529780 AAATAAA AAAATA AAACTA AAAA-A ATAAA-A AAAATA
1 AAA-ATA AAAATA AAAATA AAAATA A-AAATA AAAATA
25529816 GGAGGATTCA
Statistics
Matches: 66, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
5 10 0.15
6 46 0.70
7 5 0.08
8 5 0.08
ACGTcount: A:0.80, C:0.04, G:0.01, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:25529783 original size:43 final size:39
Alignment explanation
Indices: 25529731--25529810 Score: 106
Period size: 43 Copynumber: 1.9 Consensus size: 39
25529721 TATGTCTTTC
*
25529731 AAAATAAAATAATAAAATCAAAATCAAAAGAAAAATAAAAATA
1 AAAATAAAATAAAAAAAT-AAAA-C-AAA-AAAAATAAAAATA
*
25529774 AAAATAAAATAAAAAAATAAAACTAAAAAAATAAAAA
1 AAAATAAAATAAAAAAATAAAACAAAAAAAATAAAAA
25529811 AAATAGGAGG
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
39 11 0.31
40 2 0.06
41 1 0.03
42 4 0.11
43 17 0.49
ACGTcount: A:0.80, C:0.04, G:0.01, T:0.15
Consensus pattern (39 bp):
AAAATAAAATAAAAAAATAAAACAAAAAAAATAAAAATA
Found at i:25529800 original size:14 final size:13
Alignment explanation
Indices: 25529731--25529813 Score: 80
Period size: 14 Copynumber: 6.1 Consensus size: 13
25529721 TATGTCTTTC
*
25529731 AAAATAAAATAAT
1 AAAATAAAATAAA
25529744 AAAATCAAAATCAAAAGA
1 AAAAT-AAAAT---AA-A
*
25529762 AAAATAAAA-ATA
1 AAAATAAAATAAA
25529774 AAAATAAAATAAA
1 AAAATAAAATAAA
25529787 AAAATAAAACTAAA
1 AAAATAAAA-TAAA
25529801 AAAATAAAA-AAA
1 AAAATAAAATAAA
25529813 A
1 A
25529814 TAGGAGGATT
Statistics
Matches: 60, Mismatches: 3, Indels: 15
0.77 0.04 0.19
Matches are distributed among these distances:
12 14 0.23
13 17 0.28
14 18 0.30
17 6 0.10
18 5 0.08
ACGTcount: A:0.81, C:0.04, G:0.01, T:0.14
Consensus pattern (13 bp):
AAAATAAAATAAA
Found at i:25538686 original size:28 final size:28
Alignment explanation
Indices: 25538642--25538792 Score: 84
Period size: 28 Copynumber: 5.4 Consensus size: 28
25538632 ATTTTAAAAT
*
25538642 TATATATAATTATAAATAATAAGATAACAT-A
1 TATATATAA-TA-AAATAAGAA-ATAA-ATAA
*
25538673 -ATATATAATAAAATAAGAAATGAATAA
1 TATATATAATAAAATAAGAAATAAATAA
*** *
25538700 TATATATAATAAAATGATTTAATATATAA
1 TATATATAATAAAAT-AAGAAATAAATAA
* *
25538729 TA-AAAT-ATATAATAA-AATATAAATAA
1 TATATATAATAAAATAAGAA-ATAAATAA
* * *
25538755 TATA-ACAA-ATAATACATAAATAAA-AA
1 TATATATAATAAAATA-AGAAATAAATAA
25538781 TATATATAATAA
1 TATATATAATAA
25538793 TTTTTTAAAT
Statistics
Matches: 95, Mismatches: 15, Indels: 23
0.71 0.11 0.17
Matches are distributed among these distances:
25 1 0.01
26 25 0.26
27 21 0.22
28 28 0.29
29 12 0.13
30 8 0.08
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (28 bp):
TATATATAATAAAATAAGAAATAAATAA
Found at i:25538687 original size:12 final size:12
Alignment explanation
Indices: 25538672--25538754 Score: 61
Period size: 12 Copynumber: 7.0 Consensus size: 12
25538662 AAGATAACAT
25538672 AATATATAATAA
1 AATATATAATAA
*
25538684 AATAAGAAATGAATAA
1 AAT---ATAT-AATAA
*
25538700 TATATATAATAA
1 AATATATAATAA
25538712 AATGAT-T--T-A
1 AAT-ATATAATAA
25538721 A-TATATAATAA
1 AATATATAATAA
25538732 AATATATAATAA
1 AATATATAATAA
25538744 AATATA-AATAA
1 AATATATAATAA
25538755 TATAACAAAT
Statistics
Matches: 57, Mismatches: 4, Indels: 21
0.70 0.05 0.26
Matches are distributed among these distances:
7 2 0.04
8 2 0.04
9 2 0.04
10 2 0.04
11 7 0.12
12 27 0.47
13 5 0.09
15 3 0.05
16 7 0.12
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.33
Consensus pattern (12 bp):
AATATATAATAA
Found at i:25538791 original size:26 final size:26
Alignment explanation
Indices: 25538725--25538793 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 26
25538715 GATTTAATAT
* *
25538725 ATAATAAA-ATATATAATAAAATATAA
1 ATAA-AAATATATATAATAATACATAA
* *
25538751 AT-AATATA-ACA-AATAATACATAA
1 ATAAAAATATATATAATAATACATAA
25538774 ATAAAAATATATATAATAAT
1 ATAAAAATATATATAATAAT
25538794 TTTTTAAATG
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
23 12 0.36
24 9 0.27
25 4 0.12
26 8 0.24
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (26 bp):
ATAAAAATATATATAATAATACATAA
Found at i:25539072 original size:30 final size:30
Alignment explanation
Indices: 25539038--25539095 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
25539028 ATAATAGCCA
* *
25539038 TTAGGACTAAATTGAAACAAAAATAAAAGG
1 TTAGGACCAAATTAAAACAAAAATAAAAGG
* *
25539068 TTAGGGCCAAATTAAAATAAAAATAAAA
1 TTAGGACCAAATTAAAACAAAAATAAAA
25539096 TGAAATTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.59, C:0.07, G:0.14, T:0.21
Consensus pattern (30 bp):
TTAGGACCAAATTAAAACAAAAATAAAAGG
Found at i:25540479 original size:90 final size:90
Alignment explanation
Indices: 25540326--25540520 Score: 266
Period size: 90 Copynumber: 2.2 Consensus size: 90
25540316 ACCATGTTAA
* * * * *
25540326 TATCTTTGAGCTGTTCCCCGTCAAATACAGAGACGCCAAATCCGCTATCTTCGATCTGCTTCGAT
1 TATCTTCGATCTGCTCCCCGTCAAATACAAAGACGCCAAATCCGCTATCTTCAATCTGCTTCGAT
25540391 GTAAACACACAAATGTCAGATCTCC
66 GTAAACACACAAATGTCAGATCTCC
* * **
25540416 TATCTTCGATCTGCTCCCTGTCTAATACAAAGACGCCAAATTTG-TCATCTTCAATCTGCTTCGA
1 TATCTTCGATCTGCTCCCCGTCAAATACAAAGACGCCAAATCCGCT-ATCTTCAATCTGCTTCGA
* *
25540480 TGTAAACACACGAATGTCAGATCTGC
65 TGTAAACACACAAATGTCAGATCTCC
*
25540506 TATCTTCAATCTGCT
1 TATCTTCGATCTGCT
25540521 TCAATGTAAA
Statistics
Matches: 92, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
89 1 0.01
90 91 0.99
ACGTcount: A:0.27, C:0.28, G:0.14, T:0.31
Consensus pattern (90 bp):
TATCTTCGATCTGCTCCCCGTCAAATACAAAGACGCCAAATCCGCTATCTTCAATCTGCTTCGAT
GTAAACACACAAATGTCAGATCTCC
Found at i:25540531 original size:135 final size:135
Alignment explanation
Indices: 25540369--25540925 Score: 461
Period size: 135 Copynumber: 4.1 Consensus size: 135
25540359 CGCCAAATCC
* *
25540369 GCTATCTTCGATCTGCTTCGATGTAAACACACAAATGTCAGATCTCCTATCTTCGATCTGCTCC-
1 GCTATCTTCGATCTGCTTCAATGTAAACACACAAATGTCAGATCTCCTATCTTCAATCTGCTCCT
* *
25540433 CTGTCTAATACAAAGACGCCAAATTTGTCATCTTCAATCTGCTTCGATGTAAACACACGAATGTC
66 C-GTCTAATACAAAGACGCCAAATCTGTCATCTTCAATCTGCGTCGATGTAAACACACGAATGTC
25540498 AGATCT
130 AGATCT
* * *
25540504 GCTATCTTCAATCTGCTTCAATGTAAACACACGAATGTCAGATCTGCTATCTTCAATCTGCTCCT
1 GCTATCTTCGATCTGCTTCAATGTAAACACACAAATGTCAGATCTCCTATCTTCAATCTGCTCCT
* * *
25540569 CGTCTAATATAGAGACGCCAAATCTGTCATCTTCGATCTGCGTCGATGTAAACACACGAATGTCA
66 CGTCTAATACAAAGACGCCAAATCTGTCATCTTCAATCTGCGTCGATGTAAACACACGAATGTCA
25540634 GATCT
131 GATCT
* * * * * *** * * *
25540639 GCTATTTTCGATCTGCTCTC--TGTCTAATACAGAGACACCAAATCT-GTCATCTTCGATCTGCT
1 GCTATCTTCGATCTGCT-TCAATGT-AAACACACAAATGTCAGATCTCCT-ATCTTCAATCTGCT
* * * * * ** * *** * *
25540701 --TCGATGTAA-ACACATGAATGTCAGATCTG-CTATCTTTGATTTGC-TCCCCGTCTAATACA-
63 CCTCG-TCTAATACA-AAG-ACGCCAAATCTGTC-ATCTTCAATCTGCGTCGATGT-AAACACAC
* * *
25540760 GAGACGCCAAATCT
123 GA-ATGTCAGATCT
* * * * **
25540774 G-TCATCTTCGATTTGCTTCGATGTAAACACACGAATGTCAGATCTGCTATCTTTGATCTGCTCC
1 GCT-ATCTTCGATCTGCTTCAATGTAAACACACAAATGTCAGATCTCCTATCTTCAATCTGCTCC
* * * * * * * * *
25540838 CCGTCTAATACAGAGACGCCAAATCTATCATCTTCGATTTGCTTCAATGTAAATACACGGATGTC
65 TCGTCTAATACAAAGACGCCAAATCTGTCATCTTCAATCTGCGTCGATGTAAACACACGAATGTC
*
25540903 AAATCT
130 AGATCT
25540909 GCTATCTTCGATCTGCT
1 GCTATCTTCGATCTGCT
25540926 CCCCGTCTAA
Statistics
Matches: 331, Mismatches: 70, Indels: 42
0.75 0.16 0.09
Matches are distributed among these distances:
133 5 0.02
134 19 0.06
135 283 0.85
136 19 0.06
137 5 0.02
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (135 bp):
GCTATCTTCGATCTGCTTCAATGTAAACACACAAATGTCAGATCTCCTATCTTCAATCTGCTCCT
CGTCTAATACAAAGACGCCAAATCTGTCATCTTCAATCTGCGTCGATGTAAACACACGAATGTCA
GATCT
Found at i:25541153 original size:90 final size:90
Alignment explanation
Indices: 25540507--25541153 Score: 943
Period size: 90 Copynumber: 7.2 Consensus size: 90
25540497 CAGATCTGCT
* * *
25540507 ATCTTCAATCTGCTTCAATGTAAACACACGAATGTCAGATCTGCTATCTTCAATCTGCTCCTCGT
1 ATCTTCGATCTGCTTCAATGTAAACACACGAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGT
*
25540572 CTAATATAGAGACGCCAAATCTGTC
66 CTAATACAGAGACGCCAAATCTGTC
* * * * *
25540597 ATCTTCGATCTGCGTCGATGTAAACACACGAATGTCAGATCTGCTATTTTCGATCTGCTCTCTGT
1 ATCTTCGATCTGCTTCAATGTAAACACACGAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGT
*
25540662 CTAATACAGAGACACCAAATCTGTC
66 CTAATACAGAGACGCCAAATCTGTC
* * * *
25540687 ATCTTCGATCTGCTTCGATGTAAACACATGAATGTCAGATCTGCTATCTTTGATTTGCTCCCCGT
1 ATCTTCGATCTGCTTCAATGTAAACACACGAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGT
25540752 CTAATACAGAGACGCCAAATCTGTC
66 CTAATACAGAGACGCCAAATCTGTC
* * *
25540777 ATCTTCGATTTGCTTCGATGTAAACACACGAATGTCAGATCTGCTATCTTTGATCTGCTCCCCGT
1 ATCTTCGATCTGCTTCAATGTAAACACACGAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGT
*
25540842 CTAATACAGAGACGCCAAATCTATC
66 CTAATACAGAGACGCCAAATCTGTC
* * * *
25540867 ATCTTCGATTTGCTTCAATGTAAATACACGGATGTCAAATCTGCTATCTTCGATCTGCTCCCCGT
1 ATCTTCGATCTGCTTCAATGTAAACACACGAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGT
25540932 CTAATACAGAGACGCCAAATCTGTC
66 CTAATACAGAGACGCCAAATCTGTC
* * * * * * * *
25540957 ATCTTCAATCTACTTCGATGTAAACATACAAATGTCAGATCTGTTATCTTCAATCTGCTCCTCGT
1 ATCTTCGATCTGCTTCAATGTAAACACACGAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGT
* * *
25541022 CTAATACAAAGATGCCAAATCTATC
66 CTAATACAGAGACGCCAAATCTGTC
* * *
25541047 ATTTTTGATCTGCTTCAATGTAAACACACGAATGTTAGATCTGCTATCTTCGATCTGCTCCCCGT
1 ATCTTCGATCTGCTTCAATGTAAACACACGAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGT
* * *
25541112 CCAATACAGAGACACCAAATCTATC
66 CTAATACAGAGACGCCAAATCTGTC
25541137 ATCTTCGATCTGCTTCA
1 ATCTTCGATCTGCTTCA
25541154 GTGATCTACA
Statistics
Matches: 497, Mismatches: 60, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
90 497 1.00
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (90 bp):
ATCTTCGATCTGCTTCAATGTAAACACACGAATGTCAGATCTGCTATCTTCGATCTGCTCCCCGT
CTAATACAGAGACGCCAAATCTGTC
Found at i:25551552 original size:40 final size:40
Alignment explanation
Indices: 25551507--25551674 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
25551497 CGGAATATAA
25551507 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* *** * *
25551547 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
25551587 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * * *
25551627 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
25551667 CCGGATAT
1 CCGGATAT
25551675 CATTCAATTT
Statistics
Matches: 102, Mismatches: 25, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 101 0.99
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:25551657 original size:80 final size:80
Alignment explanation
Indices: 25551523--25551672 Score: 205
Period size: 80 Copynumber: 1.9 Consensus size: 80
25551513 ATAACCACGT
* *
25551523 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
25551588 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * * * *
25551603 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGGCTTAG
25551666 CCCGGAT
64 CCCGGAT
25551673 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
79 3 0.05
80 58 0.95
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:25559546 original size:40 final size:40
Alignment explanation
Indices: 25559501--25559667 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
25559491 CGGAATATAA
25559501 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* *** * *
25559541 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
25559581 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
*** * * * *
25559621 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
25559660 CCGGATAT
1 CCGGATAT
25559668 CATTCAATTT
Statistics
Matches: 102, Mismatches: 24, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
39 14 0.14
40 88 0.86
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:25559651 original size:80 final size:79
Alignment explanation
Indices: 25559517--25559665 Score: 203
Period size: 80 Copynumber: 1.9 Consensus size: 79
25559507 ATAACCACGT
*
25559517 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-CTTAGCC
25559582 CGGATGTAGCCACTA
65 CGGATGTAGCCACTA
* * * * *
25559597 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGCTTAGC
25559660 CCGGAT
64 CCGGAT
25559666 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
79 15 0.25
80 46 0.75
ACGTcount: A:0.21, C:0.28, G:0.24, T:0.27
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGCTTAGCCC
GGATGTAGCCACTA
Found at i:25561525 original size:53 final size:53
Alignment explanation
Indices: 25561384--25561534 Score: 214
Period size: 53 Copynumber: 2.8 Consensus size: 53
25561374 ATAAGTGCGA
* **
25561384 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
*
25561437 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
* *
25561490 CCGTATAAGACCAT-GTCTGGGATATGGCTTCGGTATGATATGTGA
1 CCGTATAAGACCATAG-CTGGGCTATGGCATCGGTAT-A-ATGTGA
25561535 ACCGTGTAAG
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
52 1 0.01
53 81 0.91
54 1 0.01
55 6 0.07
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.30
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGACT
Found at i:25568938 original size:53 final size:53
Alignment explanation
Indices: 25568871--25569004 Score: 207
Period size: 53 Copynumber: 2.5 Consensus size: 53
25568861 ATAAGTGCGA
* *
25568871 CCGTTTAAGACCATAGCTGGGCTATGGCATCGGTGCAATGTGATAATGTGACT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTACAATGTGATAATGTGACT
* *
25568924 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGCTATGGCATCGGTACAATGTGATAATGTGACT
*
25568977 CCGTATAAGACCAT-GTCTGGGATATGGC
1 CCGTATAAGACCATAG-CTGGGCTATGGC
25569005 TTCGATATGA
Statistics
Matches: 75, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
52 1 0.01
53 74 0.99
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGCTATGGCATCGGTACAATGTGATAATGTGACT
Found at i:25574493 original size:20 final size:20
Alignment explanation
Indices: 25574468--25574519 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
25574458 ATTATATATA
*
25574468 ATAATAAATAATAAGATAAC
1 ATAATAAATAATAAAATAAC
* *
25574488 ATAATATATAATAAAATAAG
1 ATAATAAATAATAAAATAAC
*
25574508 A-AATGAATAATA
1 ATAATAAATAATA
25574520 TATATAATAA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 9 0.33
20 18 0.67
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
ATAATAAATAATAAAATAAC
Found at i:25574505 original size:12 final size:12
Alignment explanation
Indices: 25574490--25574585 Score: 78
Period size: 12 Copynumber: 8.0 Consensus size: 12
25574480 AAGATAACAT
25574490 AATATATAATAA
1 AATATATAATAA
*
25574502 AATAAGAAATGAATAA
1 AAT---ATAT-AATAA
*
25574518 TATATATAATAA
1 AATATATAATAA
25574530 AATGAT-T--T-A
1 AAT-ATATAATAA
25574539 A-TATATAATAA
1 AATATATAATAA
25574550 AATATATAAATAA
1 AATATAT-AATAA
25574563 AATATATAATAA
1 AATATATAATAA
25574575 AATATA-AATAA
1 AATATATAATAA
25574586 TATAACAAAT
Statistics
Matches: 69, Mismatches: 4, Indels: 23
0.72 0.04 0.24
Matches are distributed among these distances:
7 2 0.03
8 2 0.03
9 2 0.03
10 2 0.03
11 7 0.10
12 27 0.39
13 17 0.25
15 3 0.04
16 7 0.10
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (12 bp):
AATATATAATAA
Found at i:25574526 original size:25 final size:25
Alignment explanation
Indices: 25574461--25574587 Score: 97
Period size: 25 Copynumber: 5.0 Consensus size: 25
25574451 TTTTAAAATT
*
25574461 ATATATAATAATAAATAATAAGATAACATA
1 ATATATAAT-A-AAATAA-AA-ATGA-ATA
25574491 ATATATAATAAAATAAGAAATGAATA
1 ATATATAATAAAATAA-AAATGAATA
*
25574517 ATATAT-AT--AAT-AAAATGATTTA
1 ATATATAATAAAATAAAAATGA-ATA
25574539 ATATATAATAAAATATATAAAT-AA-A
1 ATATATAATAAAATA-A-AAATGAATA
*
25574564 ATATATAATAAAATATAAAT-AATA
1 ATATATAATAAAATAAAAATGAATA
25574588 TAACAAATAA
Statistics
Matches: 84, Mismatches: 5, Indels: 22
0.76 0.05 0.20
Matches are distributed among these distances:
21 6 0.07
22 9 0.11
23 11 0.13
24 1 0.01
25 21 0.25
26 9 0.11
27 5 0.06
28 12 0.14
29 1 0.01
30 9 0.11
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.32
Consensus pattern (25 bp):
ATATATAATAAAATAAAAATGAATA
Found at i:25574555 original size:32 final size:29
Alignment explanation
Indices: 25574545--25574623 Score: 72
Period size: 30 Copynumber: 2.6 Consensus size: 29
25574535 TTTAATATAT
25574545 AATAAAATATATAAATAAAATATATAATAA
1 AATAAAATATAT-AATAAAATATATAATAA
*
25574575 AATATAAATAATATAA-CAAATA-ATACATAA
1 AATA-AAAT-ATATAATAAAATATATA-ATAA
*
25574605 ATAAAAATATATATAATAA
1 A-ATAAA-ATATATAATAA
25574624 TTTTTTTAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
29 3 0.08
30 22 0.55
31 11 0.28
32 4 0.10
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (29 bp):
AATAAAATATATAATAAAATATATAATAA
Found at i:25574579 original size:23 final size:23
Alignment explanation
Indices: 25574490--25574617 Score: 82
Period size: 23 Copynumber: 5.3 Consensus size: 23
25574480 AAGATAACAT
*
25574490 AATATATAATAAAATAAGAAATGAA
1 AATATATAATAAAAT-ATAAAT-AA
* * **
25574515 TAATATAT-ATAATAAAAT-GATTT
1 -AATATATAATAA-AATATAAATAA
25574538 AATATATAATAAAATATATAAATAA
1 AATATATAAT-AAA-ATATAAATAA
25574563 AATATATAATAAAATATAAATAA
1 AATATATAATAAAATATAAATAA
* * * *
25574586 TATA-ACAAATAATACATAAATAAA
1 AATATA-TAATAAAATATAAAT-AA
25574610 AATATATA
1 AATATATA
25574618 TAATAATTTT
Statistics
Matches: 79, Mismatches: 15, Indels: 18
0.71 0.13 0.16
Matches are distributed among these distances:
22 8 0.10
23 28 0.35
24 16 0.20
25 18 0.23
26 9 0.11
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (23 bp):
AATATATAATAAAATATAAATAA
Found at i:25574605 original size:30 final size:30
Alignment explanation
Indices: 25574516--25574620 Score: 81
Period size: 32 Copynumber: 3.4 Consensus size: 30
25574506 AGAAATGAAT
* * *
25574516 AATATATATAATAAAATGATTTAATATATAATA
1 AATATATATAA-CAAAT-ATATAATAAATAA-A
* *
25574549 AA-ATATATAAATAAAATATATAATAAAATATA
1 AATATATAT-AA-CAAATATATAAT-AAATAAA
25574581 AATA-ATATAACAAATA-ATACATAAATAAA
1 AATATATATAACAAATATATA-ATAAATAAA
25574610 AATATATATAA
1 AATATATATAA
25574621 TAATTTTTTT
Statistics
Matches: 62, Mismatches: 5, Indels: 13
0.77 0.06 0.16
Matches are distributed among these distances:
29 13 0.21
30 13 0.21
31 2 0.03
32 19 0.31
33 15 0.24
ACGTcount: A:0.65, C:0.02, G:0.01, T:0.32
Consensus pattern (30 bp):
AATATATATAACAAATATATAATAAATAAA
Found at i:25574699 original size:83 final size:82
Alignment explanation
Indices: 25574547--25574708 Score: 195
Period size: 83 Copynumber: 2.0 Consensus size: 82
25574537 TAATATATAA
25574547 TAAAATATATAAATAAAATATATAATAAAATATAAATAATATAACAAATAATACATAAATAAAAA
1 TAAAATATATAAATAAAATATATAATAAAATATAAATAATATAACAAATAATACATAAATAAAAA
*
25574612 TATATATAATAATTTTTT
66 TATATA-AAAAATTTTTT
* ** * **
25574630 TAAAATGTATAAATAATGTTTATAATAAAA-ATAAATGATATATAA-AACATTTTACATAAAT-A
1 TAAAATATATAAATAAAATATATAATAAAATATAAAT-A-ATATAACAA-ATAATACATAAATAA
*
25574692 AATTATATAAAAAATTT
63 AAATATATAAAAAATTT
25574709 AAAAAGGATT
Statistics
Matches: 68, Mismatches: 8, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
82 13 0.19
83 38 0.56
84 17 0.25
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (82 bp):
TAAAATATATAAATAAAATATATAATAAAATATAAATAATATAACAAATAATACATAAATAAAAA
TATATAAAAAATTTTTT
Found at i:25574909 original size:30 final size:30
Alignment explanation
Indices: 25574869--25574926 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
25574859 ATAGTAGCCA
*
25574869 TTAGGACTAAATTGAAACAAAAATAAAAGG
1 TTAGGACTAAATTAAAACAAAAATAAAAGG
* *
25574899 TTAGGGCTAAATTAAAATAAAAATAAAA
1 TTAGGACTAAATTAAAACAAAAATAAAA
25574927 TGAAATTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.59, C:0.05, G:0.14, T:0.22
Consensus pattern (30 bp):
TTAGGACTAAATTAAAACAAAAATAAAAGG
Found at i:25581505 original size:30 final size:30
Alignment explanation
Indices: 25581469--25581599 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
25581459 GACAAGATTG
* * * * *
25581469 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
25581499 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
25581527 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
25581557 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
25581586 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
25581600 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:25581560 original size:58 final size:58
Alignment explanation
Indices: 25581469--25581599 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
25581459 GACAAGATTG
* * * * * *
25581469 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
25581527 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
25581586 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
25581600 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:25589453 original size:30 final size:30
Alignment explanation
Indices: 25589417--25589547 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
25589407 GACAAGATTG
* * * * *
25589417 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
25589447 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
25589475 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
25589505 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
25589534 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
25589548 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:25589508 original size:58 final size:58
Alignment explanation
Indices: 25589417--25589547 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
25589407 GACAAGATTG
* * * * * *
25589417 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
25589475 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
25589534 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
25589548 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:25593090 original size:24 final size:24
Alignment explanation
Indices: 25593058--25593106 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
25593048 AATATGTGGA
*
25593058 CTTAGTCAATCTATCAACCACAAC
1 CTTACTCAATCTATCAACCACAAC
25593082 CTTACTCAATCTATCAACCACAAC
1 CTTACTCAATCTATCAACCACAAC
25593106 C
1 C
25593107 CAAATCGAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.37, C:0.37, G:0.02, T:0.24
Consensus pattern (24 bp):
CTTACTCAATCTATCAACCACAAC
Found at i:25595432 original size:40 final size:40
Alignment explanation
Indices: 25595373--25595514 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
25595363 AAATTGAATG
* * *
25595373 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
25595413 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
25595453 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
25595493 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
25595515 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:25595515 original size:40 final size:39
Alignment explanation
Indices: 25595412--25595540 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
25595402 TGCTGGAAAT
* * *
25595412 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
25595452 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
25595492 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
25595532 TATATCCGG
1 TATATCCGG
25595541 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:25602073 original size:40 final size:40
Alignment explanation
Indices: 25602007--25602173 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
25601997 AAATTGAATG
* * *
25602007 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
25602046 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
25602086 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
25602126 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
25602166 ATATCCGG
1 ATATCCGG
25602174 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:25614518 original size:24 final size:24
Alignment explanation
Indices: 25614491--25614536 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
25614481 GAATTTAACA
25614491 TTCAAAT-CAGCACACATAGTGCCT
1 TTCAAATAC-GCACACATAGTGCCT
* *
25614515 TTCAACTACGCACACGTAGTGC
1 TTCAAATACGCACACATAGTGC
25614537 TAGTATCGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 18 0.95
25 1 0.05
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.24
Consensus pattern (24 bp):
TTCAAATACGCACACATAGTGCCT
Found at i:25614614 original size:2 final size:2
Alignment explanation
Indices: 25614607--25614639 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
25614597 TTATAAATGC
*
25614607 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
25614640 ATCAATCTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:25624917 original size:29 final size:29
Alignment explanation
Indices: 25624885--25624991 Score: 108
Period size: 29 Copynumber: 3.7 Consensus size: 29
25624875 ATACCCTCCG
** *
25624885 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACATAGTGCCATATTTTTCC
* *
25624914 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACATAGTGCCATATTTTTCC
* * *
25624943 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACATAGTGCCATATTTTTCC
* *
25624972 AGCACGCACACTTAGTGCCA
1 AGCTCGCACACATAGTGCCA
25624992 ATCTCGTCAC
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
29 64 0.98
30 1 0.02
ACGTcount: A:0.23, C:0.31, G:0.16, T:0.30
Consensus pattern (29 bp):
AGCTCGCACACATAGTGCCATATTTTTCC
Found at i:25632850 original size:29 final size:29
Alignment explanation
Indices: 25632818--25632924 Score: 108
Period size: 29 Copynumber: 3.7 Consensus size: 29
25632808 ATACCCTCCG
** *
25632818 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACATAGTGCCATATTTTTCC
* *
25632847 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACATAGTGCCATATTTTTCC
* * *
25632876 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACATAGTGCCATATTTTTCC
* *
25632905 AGCACGCACACTTAGTGCCA
1 AGCTCGCACACATAGTGCCA
25632925 ATCTCGTCAC
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
29 64 0.98
30 1 0.02
ACGTcount: A:0.23, C:0.31, G:0.16, T:0.30
Consensus pattern (29 bp):
AGCTCGCACACATAGTGCCATATTTTTCC
Found at i:25635091 original size:17 final size:17
Alignment explanation
Indices: 25635071--25635112 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
25635061 TAAAGACAAA
25635071 TTTAAAAATAATAATAT
1 TTTAAAAATAATAATAT
* * *
25635088 TTTAAAAGTCATTATAT
1 TTTAAAAATAATAATAT
25635105 TTTAAAAA
1 TTTAAAAA
25635113 ATAAAGAGAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (17 bp):
TTTAAAAATAATAATAT
Found at i:25638916 original size:13 final size:13
Alignment explanation
Indices: 25638893--25638929 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
25638883 AATCCCACCC
25638893 CAAAA-ACAGATA
1 CAAAATACAGATA
25638905 CAAAATACAGATA
1 CAAAATACAGATA
*
25638918 C-AGATACAGATA
1 CAAAATACAGATA
25638930 TAACATGCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 15 0.65
13 8 0.35
ACGTcount: A:0.59, C:0.16, G:0.11, T:0.14
Consensus pattern (13 bp):
CAAAATACAGATA
Found at i:25640291 original size:22 final size:22
Alignment explanation
Indices: 25640266--25640312 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
25640256 GCAACAGTAA
* * *
25640266 GCCCTTTCTGGGATTAAGGTTT
1 GCCCTCTCTGGAACTAAGGTTT
25640288 GCCCTCTCTGGAACTAAGGTTT
1 GCCCTCTCTGGAACTAAGGTTT
25640310 GCC
1 GCC
25640313 GCTTCTCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.15, C:0.26, G:0.26, T:0.34
Consensus pattern (22 bp):
GCCCTCTCTGGAACTAAGGTTT
Found at i:25645558 original size:76 final size:76
Alignment explanation
Indices: 25645411--25645551 Score: 203
Period size: 76 Copynumber: 1.9 Consensus size: 76
25645401 GATAAATCAA
** * *
25645411 CAATGTTTTGCACCCAGTGCTAGTCGAATAAACCAACGATATCAAATGTGTGCCCAGCACTAGTC
1 CAATGTTTTGCACCCACCGCTAGTCGAATAAACCAACAATATCAAATGTGTGCCCAACACTAGTC
25645476 AGATAAACCGT
66 AGATAAACCGT
* * *
25645487 CAATGTTTTGCGCTCACCGCTAGTC-AATTAAACCGACAATATCAAATGTGTGCCCAACACTAGT
1 CAATGTTTTGCACCCACCGCTAGTCGAA-TAAACCAACAATATCAAATGTGTGCCCAACACTAGT
25645551 C
65 C
25645552 GAATAAATTG
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
75 2 0.04
76 55 0.96
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (76 bp):
CAATGTTTTGCACCCACCGCTAGTCGAATAAACCAACAATATCAAATGTGTGCCCAACACTAGTC
AGATAAACCGT
Found at i:25645586 original size:76 final size:76
Alignment explanation
Indices: 25645401--25645578 Score: 189
Period size: 76 Copynumber: 2.3 Consensus size: 76
25645391 GCACTACTTG
* * * * ** *
25645401 GATAAATCAACAATGTTTTGCACCCAGTGCTAGTCGAATAAACCAACGATATCAAATGTGTGCCC
1 GATAAACCGACAATGATTTGCGCCCACCGCTAGTCGAATAAACCAACAATATCAAATGTGTGCCC
*
25645466 AGCACTAGTCA
66 AACACTAGTCA
* * * *
25645477 GATAAACCGTCAATGTTTTGCGCTCACCGCTAGTC-AATTAAACCGACAATATCAAATGTGTGCC
1 GATAAACCGACAATGATTTGCGCCCACCGCTAGTCGAA-TAAACCAACAATATCAAATGTGTGCC
25645541 CAACACTAGTC-
65 CAACACTAGTCA
** *
25645552 GAATAAATTGACAATGATTTGTGCCCA
1 G-ATAAACCGACAATGATTTGCGCCCA
25645579 GCTCTAGTTA
Statistics
Matches: 84, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
75 3 0.04
76 81 0.96
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (76 bp):
GATAAACCGACAATGATTTGCGCCCACCGCTAGTCGAATAAACCAACAATATCAAATGTGTGCCC
AACACTAGTCA
Found at i:25648983 original size:16 final size:15
Alignment explanation
Indices: 25648957--25648988 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
25648947 ATGTCGTCAA
25648957 TTGTTCTTTCTTTTC
1 TTGTTCTTTCTTTTC
25648972 TTGTTACTTTCTTTTC
1 TTGTT-CTTTCTTTTC
25648988 T
1 T
25648989 AGTCAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.03, C:0.19, G:0.06, T:0.72
Consensus pattern (15 bp):
TTGTTCTTTCTTTTC
Found at i:25655878 original size:26 final size:26
Alignment explanation
Indices: 25655849--25655989 Score: 138
Period size: 27 Copynumber: 5.3 Consensus size: 26
25655839 ATCCCTATTT
* *
25655849 AAAATACTTTGGTTTACAAAATTACC
1 AAAATACCTTGGTTTATAAAATTACC
* * * *
25655875 AAAATACCCTGCTTTGTAAAATTACT
1 AAAATACCTTGGTTTATAAAATTACC
25655901 AAAATACCCTTGGTTTATAAAATTACC
1 AAAATA-CCTTGGTTTATAAAATTACC
* * * *
25655928 AAAATACCCCTAGTTTGTAAAATTATC
1 AAAATA-CCTTGGTTTATAAAATTACC
* * *
25655955 AAAATACCCCTAGTTTGTAAAATTACC
1 AAAATA-CCTTGGTTTATAAAATTACC
25655982 AAAATACC
1 AAAATACC
25655990 CCTAATTTGT
Statistics
Matches: 99, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
26 28 0.28
27 71 0.72
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.32
Consensus pattern (26 bp):
AAAATACCTTGGTTTATAAAATTACC
Found at i:25655931 original size:27 final size:27
Alignment explanation
Indices: 25655866--25656017 Score: 189
Period size: 27 Copynumber: 5.7 Consensus size: 27
25655856 TTTGGTTTAC
*
25655866 AAAATTACCAAAATA-CCCTGCTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * *
25655892 AAAATTACTAAAATACCCTTGGTTTAT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
25655919 AAAATTACCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* *
25655946 AAAATTATCAAAATACCCCTAGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
**
25655973 AAAATTACCAAAATACCCCTAATTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* **
25656000 GAAATTACTGAAATACCC
1 AAAATTACCAAAATACCC
25656018 TCGACCTGTA
Statistics
Matches: 111, Mismatches: 14, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
26 14 0.13
27 97 0.87
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.31
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGGTTTGT
Found at i:25655976 original size:54 final size:54
Alignment explanation
Indices: 25655860--25656017 Score: 214
Period size: 54 Copynumber: 2.9 Consensus size: 54
25655850 AAATACTTTG
* * *
25655860 GTTTACAAAATTACCAAAATA-CCCT-GCTTTGTAAAATTACTAAAATACCCTTG
1 GTTTATAAAATTACCAAAATACCCCTAG-TTTGTAAAATTACTAAAATACCCCTA
25655913 GTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTA-TCAAAATACCCCTA
1 GTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACT-AAAATACCCCTA
* * * *
25655967 GTTTGTAAAATTACCAAAATACCCCTAATTTGTGAAATTACTGAAATACCC
1 GTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCC
25656018 TCGACCTGTA
Statistics
Matches: 94, Mismatches: 7, Indels: 7
0.87 0.06 0.06
Matches are distributed among these distances:
53 21 0.22
54 71 0.76
55 2 0.02
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.32
Consensus pattern (54 bp):
GTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCCTA
Found at i:25656005 original size:81 final size:80
Alignment explanation
Indices: 25655866--25656071 Score: 209
Period size: 81 Copynumber: 2.5 Consensus size: 80
25655856 TTTGGTTTAC
* * * * **
25655866 AAAATTACCAAAATACCCTGCTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATTACCAAA
1 AAAATTATCAAAATACCCTGATTTGTAAAATTACCAAAATACCCCTAATTTATAAAATTACCAAA
**
25655931 ATACCCCTAG-TTTGT
66 ATA-CCCTAGACCTGT
* * **
25655946 AAAATTATCAAAATACCCCT-AGTTTGTAAAATTACCAAAATACCCCTAATTTGTGAAATTACTG
1 AAAATTATCAAAATA-CCCTGA-TTTGTAAAATTACCAAAATACCCCTAATTTATAAAATTACCA
*
25656010 AAATACCCTCGACCTGT
64 AAATACCCTAGACCTGT
** * *
25656027 AAAATTATTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCC
1 AAAATTATCAAAATACCCT-GATTTGTAAAATTACCAAAATACCC
25656072 TCGATTTATA
Statistics
Matches: 104, Mismatches: 17, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
80 23 0.22
81 80 0.77
82 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.30
Consensus pattern (80 bp):
AAAATTATCAAAATACCCTGATTTGTAAAATTACCAAAATACCCCTAATTTATAAAATTACCAAA
ATACCCTAGACCTGT
Found at i:25656028 original size:54 final size:54
Alignment explanation
Indices: 25655866--25656078 Score: 209
Period size: 54 Copynumber: 4.0 Consensus size: 54
25655856 TTTGGTTTAC
** * * *
25655866 AAAATTACCAAAATA-CCCTGCTTTGTAAAATTACTAAAATACCCTTGGTTTAT
1 AAAATTACCAAAATACCCCTAATTTGTAAAATTACTAAAATACCCTCGATTTGT
* *
25655919 AAAATTACCAAAATACCCCTAGTTTGTAAAATTA-TCAAAATACCC-CTAGTTTGT
1 AAAATTACCAAAATACCCCTAATTTGTAAAATTACT-AAAATACCCTCGA-TTTGT
* * **
25655973 AAAATTACCAAAATACCCCTAATTTGTGAAATTACTGAAATACCCTCGACCTGT
1 AAAATTACCAAAATACCCCTAATTTGTAAAATTACTAAAATACCCTCGATTTGT
*** * * * *
25656027 AAAATTATTGAAATA-CCCTCGACTTGTAAAATTACCAAAGTACCCTCGATTT
1 AAAATTACCAAAATACCCCT-AATTTGTAAAATTACTAAAATACCCTCGATTT
25656079 ATAGAATTGC
Statistics
Matches: 131, Mismatches: 23, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
53 20 0.15
54 108 0.82
55 3 0.02
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.31
Consensus pattern (54 bp):
AAAATTACCAAAATACCCCTAATTTGTAAAATTACTAAAATACCCTCGATTTGT
Found at i:25656031 original size:27 final size:27
Alignment explanation
Indices: 25656001--25656075 Score: 107
Period size: 27 Copynumber: 2.8 Consensus size: 27
25655991 CTAATTTGTG
25656001 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACTGAAATACCCTCGACCTGTA
* *
25656028 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGACCTGTA
*
25656055 AAATTAC-CAAAGTACCCTCGA
1 AAATTACTGAAA-TACCCTCGA
25656076 TTTATAGAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 3 0.07
27 40 0.93
ACGTcount: A:0.39, C:0.24, G:0.11, T:0.27
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGACCTGTA
Found at i:25656351 original size:213 final size:214
Alignment explanation
Indices: 25656068--25656463 Score: 607
Period size: 213 Copynumber: 1.9 Consensus size: 214
25656058 TTACCAAAGT
* * * * **
25656068 ACCCTCGATTTATAGAATTGCCGTTTTACCCTCGATTTGTAAAATTACCGTTTTACCCTCGATTT
1 ACCCTCAATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTT
* *
25656133 ACAGAATTACCGTTTTACCCTTAG-TTTACAGAATTACTATTTTACCCTCGATTTATAGAATTAC
66 ACAGAATTACCGTTTCACCC-TAGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTAC
* *
25656197 CGTTTTACCCTTAATTTACATAATTACCATTTTACCCTCGATTTACAGAATTACCGTTTACCCTC
130 CGTTTTACCCTTAATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACCGTTTACCCTC
25656262 ATTTACAGAATTACCGTTTC
195 ATTTACAGAATTACCGTTTC
* *
25656282 ACCCTCAATTTACAGAATTACCATTTTACCC-CGATTTACATAATTATCGTTTTACCCTCGATTT
1 ACCCTCAATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTT
* *
25656346 ACAGAATTACCGTTTCACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACT
66 ACAGAATTACCGTTTCACCCTAGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACC
* ** *
25656411 GTTTTACCCTTGATTTACAAAATTACTGTTTTACCGTCGATTTACAAAATTAC
131 GTTTTACCCTTAATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTAC
25656464 TAAATACCCT
Statistics
Matches: 163, Mismatches: 18, Indels: 3
0.89 0.10 0.02
Matches are distributed among these distances:
212 2 0.01
213 134 0.82
214 27 0.17
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.39
Consensus pattern (214 bp):
ACCCTCAATTTACAGAATTACCATTTTACCCTCGATTTACAAAATTACCGTTTTACCCTCGATTT
ACAGAATTACCGTTTCACCCTAGATTTACAGAATTACCATTTTACCCTCGATTTATAGAATTACC
GTTTTACCCTTAATTTACAAAATTACCATTTTACCCTCGATTTACAAAATTACCGTTTACCCTCA
TTTACAGAATTACCGTTTC
Found at i:25656464 original size:27 final size:27
Alignment explanation
Indices: 25656067--25656463 Score: 514
Period size: 27 Copynumber: 14.8 Consensus size: 27
25656057 ATTACCAAAG
* *
25656067 TACCCTCGATTTATAGAATTGCCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
** *
25656094 TACCCTCGATTTGTAAAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
25656121 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* **
25656148 TACCCT-TAGTTTACAGAATTACTATTT
1 TACCCTCGA-TTTACAGAATTACCGTTT
*
25656175 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
** * *
25656202 TACCCTTAATTTACATAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
25656229 TACCCTCGATTTACAGAATTACCG-TT
1 TACCCTCGATTTACAGAATTACCGTTT
25656255 TACCCTC-ATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
25656281 CACCCTCAATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
25656308 TACCC-CGATTTACATAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
25656334 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
25656361 CACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
25656388 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
25656415 TACCCTTGATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
25656442 TACCGTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
25656464 TAAATACCCT
Statistics
Matches: 323, Mismatches: 42, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
25 16 0.05
26 40 0.12
27 266 0.82
28 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:25657725 original size:25 final size:25
Alignment explanation
Indices: 25657697--25657744 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
25657687 TTATACCATG
* * *
25657697 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
25657722 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
25657745 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:25657847 original size:20 final size:20
Alignment explanation
Indices: 25657787--25657847 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
25657777 ATAAATATGG
*
25657787 TATGTATGAGATGCACATGA
1 TATGTATGATATGCACATGA
*
25657807 CATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
25657827 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
25657847 T
1 T
25657848 GTAATCATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:25657924 original size:24 final size:24
Alignment explanation
Indices: 25657897--25658039 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
25657887 GAGGAAGTGA
25657897 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
25657921 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
25657945 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
25657968 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
25657992 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
25658016 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
25658040 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 77 0.69
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:25657990 original size:47 final size:47
Alignment explanation
Indices: 25657897--25658039 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 47
25657887 GAGGAAGTGA
25657897 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
25657945 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
25657992 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
25658040 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 43 0.49
48 34 0.39
49 11 0.12
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:25658013 original size:71 final size:72
Alignment explanation
Indices: 25657897--25658040 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
25657887 GAGGAAGTGA
*
25657897 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
25657960 CCAGTTAT
65 CCAGTTAT
** * *
25657968 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
25658033 CAGTTAT
66 CAGTTAT
25658040 A
1 A
25658041 TGATAAAGCA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 54 0.82
72 12 0.18
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:25661093 original size:26 final size:26
Alignment explanation
Indices: 25661064--25661204 Score: 138
Period size: 27 Copynumber: 5.3 Consensus size: 26
25661054 ATCCCTATTT
* *
25661064 AAAATACTTTGGTTTACAAAATTACC
1 AAAATACCTTGGTTTATAAAATTACC
* * * *
25661090 AAAATACCCTGCTTTGTAAAATTACT
1 AAAATACCTTGGTTTATAAAATTACC
25661116 AAAATACCCTTGGTTTATAAAATTACC
1 AAAATA-CCTTGGTTTATAAAATTACC
* * * *
25661143 AAAATACCCCTAGTTTGTAAAATTATC
1 AAAATA-CCTTGGTTTATAAAATTACC
* * *
25661170 AAAATACCCCTAGTTTGTAAAATTACC
1 AAAATA-CCTTGGTTTATAAAATTACC
25661197 AAAATACC
1 AAAATACC
25661205 CCTAATTTGT
Statistics
Matches: 99, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
26 28 0.28
27 71 0.72
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.32
Consensus pattern (26 bp):
AAAATACCTTGGTTTATAAAATTACC
Found at i:25661285 original size:27 final size:27
Alignment explanation
Indices: 25661081--25661330 Score: 204
Period size: 27 Copynumber: 9.3 Consensus size: 27
25661071 TTTGGTTTAC
*
25661081 AAAATTACCAAAATACCCT-GCTTTGT
1 AAAATTACCAAAATACCCTCGATTTGT
* * * *
25661107 AAAATTACTAAAATACCCTTGGTTTAT
1 AAAATTACCAAAATACCCTCGATTTGT
*
25661134 AAAATTACCAAAATACCC-CTAGTTTGT
1 AAAATTACCAAAATACCCTCGA-TTTGT
* *
25661161 AAAATTATCAAAATACCC-CTAGTTTGT
1 AAAATTACCAAAATACCCTCGA-TTTGT
*
25661188 AAAATTACCAAAATACCC-CTAATTTGT
1 AAAATTACCAAAATACCCTC-GATTTGT
* ** **
25661215 GAAATTACTGAAATACCCTCGACCTGT
1 AAAATTACCAAAATACCCTCGATTTGT
*** *
25661242 AAAATTATTGAAATACCCTCGACTTGT
1 AAAATTACCAAAATACCCTCGATTTGT
* *
25661269 AAAATTACCAAAGTA-CCTCGATTTAT
1 AAAATTACCAAAATACCCTCGATTTGT
* * ****
25661295 AGAATTGCCGTTTTACCCTCGATTTGT
1 AAAATTACCAAAATACCCTCGATTTGT
25661322 AAAATTACC
1 AAAATTACC
25661331 GTTTTACCCT
Statistics
Matches: 184, Mismatches: 35, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
26 36 0.20
27 146 0.79
28 2 0.01
ACGTcount: A:0.38, C:0.21, G:0.09, T:0.32
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTCGATTTGT
Found at i:25661680 original size:27 final size:27
Alignment explanation
Indices: 25661284--25661679 Score: 519
Period size: 27 Copynumber: 14.7 Consensus size: 27
25661274 TACCAAAGTA
* *
25661284 CCTCGATTTATAGAATTGCCGTTTTAC
1 CCTCGATTTACAGAATTACCGTTTTAC
** *
25661311 CCTCGATTTGTAAAATTACCGTTTTAC
1 CCTCGATTTACAGAATTACCGTTTTAC
25661338 CCTCGATTTACAGAATTACCGTTTTAC
1 CCTCGATTTACAGAATTACCGTTTTAC
* **
25661365 CCT-TAGTTTACAGAATTACTATTTTAC
1 CCTCGA-TTTACAGAATTACCGTTTTAC
*
25661392 CCTCGATTTATAGAATTACCGTTTTAC
1 CCTCGATTTACAGAATTACCGTTTTAC
* *
25661419 CC-CTAATTTACATAATTACCGTTTTAC
1 CCTC-GATTTACAGAATTACCGTTTTAC
* *
25661446 CC-CGATTTACATAATTATCGTTTTAC
1 CCTCGATTTACAGAATTACCGTTTTAC
*
25661472 CCTCGATTTACAGAATTACCGTTTCAC
1 CCTCGATTTACAGAATTACCGTTTTAC
*
25661499 CCTCGATTTACAGAATTACCATTTTAC
1 CCTCGATTTACAGAATTACCGTTTTAC
* * *
25661526 CCCCGATTTACATAATTATCGTTTTAC
1 CCTCGATTTACAGAATTACCGTTTTAC
*
25661553 CCTCGATTTACAGAATTACCGTTTCAC
1 CCTCGATTTACAGAATTACCGTTTTAC
*
25661580 CCTCGATTTACAGAATTACCATTTTAC
1 CCTCGATTTACAGAATTACCGTTTTAC
* *
25661607 CCTCGATTTATAGAATTACTGTTTTAC
1 CCTCGATTTACAGAATTACCGTTTTAC
* * *
25661634 CCTTGATTTACAAAATTACTGTTTTAC
1 CCTCGATTTACAGAATTACCGTTTTAC
*
25661661 CCTCGATTTACAAAATTAC
1 CCTCGATTTACAGAATTAC
25661680 TAAAATACCC
Statistics
Matches: 325, Mismatches: 40, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
26 25 0.08
27 299 0.92
28 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.39
Consensus pattern (27 bp):
CCTCGATTTACAGAATTACCGTTTTAC
Found at i:25661716 original size:81 final size:81
Alignment explanation
Indices: 25661269--25661723 Score: 272
Period size: 81 Copynumber: 5.6 Consensus size: 81
25661259 CTCGACTTGT
* * *** **
25661269 AAAATTACCAAAGTA-CCTCGATTTATAGAATTGCCGTTTTACCCTCGATTTGTAAAATTACCGT
1 AAAATTACCAAAATACCCTCGATTTATAGAATTACCGCAATACCCTCGATTTACAAAATTACCGT
*
25661333 TTTACCCTCGATTTAC
66 TTCACCCTCGATTTAC
* **** * * ***** * *
25661349 AGAATTACCGTTTTACCCT-TAGTTTACAGAATTACTATTTTACCCTCGATTTATAGAATTACCG
1 AAAATTACCAAAATACCCTCGA-TTTATAGAATTACCGCAATACCCTCGATTTACAAAATTACCG
* *
25661413 TTTTACCC-CTAATTTAC
65 TTTCACCCTC-GATTTAC
* **** * * * *** *
25661430 ATAATTACCGTTTTACCC-CGATTTACATAATTATCGTTTTACCCTCGATTTACAGAATTACCGT
1 AAAATTACCAAAATACCCTCGATTTATAGAATTACCGCAATACCCTCGATTTACAAAATTACCGT
25661494 TTCACCCTCGATTTAC
66 TTCACCCTCGATTTAC
* *** * * * * *** *
25661510 AGAATTACCATTTTACCCCCGATTTACATAATTATCGTTTTACCCTCGATTTACAGAATTACCGT
1 AAAATTACCAAAATACCCTCGATTTATAGAATTACCGCAATACCCTCGATTTACAAAATTACCGT
25661575 TTCACCCTCGATTTAC
66 TTCACCCTCGATTTAC
* *** * *** * *
25661591 AGAATTACCATTTTACCCTCGATTTATAGAATTACTGTTTTACCCTTGATTTACAAAATTACTGT
1 AAAATTACCAAAATACCCTCGATTTATAGAATTACCGCAATACCCTCGATTTACAAAATTACCGT
*
25661656 TTTACCCTCGATTTAC
66 TTCACCCTCGATTTAC
* * * * *
25661672 AAAATTACTAAAATACCCTTGGTTTGT-GAAATTACCGCAATACCCTCAATTT
1 AAAATTACCAAAATACCCTCGATTTATAG-AATTACCGCAATACCCTCGATTT
25661724 GTAAAACTAC
Statistics
Matches: 321, Mismatches: 47, Indels: 13
0.84 0.12 0.03
Matches are distributed among these distances:
80 79 0.25
81 242 0.75
ACGTcount: A:0.29, C:0.24, G:0.09, T:0.38
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTCGATTTATAGAATTACCGCAATACCCTCGATTTACAAAATTACCGT
TTCACCCTCGATTTAC
Found at i:25662940 original size:25 final size:25
Alignment explanation
Indices: 25662912--25662959 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
25662902 TTATACCATG
* * *
25662912 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
25662937 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
25662960 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:25663062 original size:20 final size:20
Alignment explanation
Indices: 25663002--25663062 Score: 104
Period size: 20 Copynumber: 3.0 Consensus size: 20
25662992 ATAAATATGG
*
25663002 TATGTATGAGATGCACATGA
1 TATGTATGATATGCACATGA
*
25663022 CATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
25663042 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
25663062 T
1 T
25663063 GTAATCATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:25663139 original size:24 final size:24
Alignment explanation
Indices: 25663112--25663254 Score: 209
Period size: 24 Copynumber: 6.0 Consensus size: 24
25663102 GAGGAAGTGA
25663112 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
25663136 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
25663160 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
25663183 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
25663207 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
25663231 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
25663255 ATGATAAAGC
Statistics
Matches: 111, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
23 23 0.21
24 77 0.69
25 11 0.10
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:25663205 original size:47 final size:47
Alignment explanation
Indices: 25663112--25663254 Score: 207
Period size: 47 Copynumber: 3.0 Consensus size: 47
25663102 GAGGAAGTGA
25663112 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-AAAAGGGCTTATGCCCCAGTTATC
*
25663160 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
* * *
25663207 GAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTA-TAAAAG-GGCTTATGCC-CCAGTTAT
25663255 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
47 43 0.49
48 34 0.39
49 11 0.12
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAGGGCTTATGCCCCAGTTATC
Found at i:25663228 original size:71 final size:72
Alignment explanation
Indices: 25663112--25663255 Score: 220
Period size: 71 Copynumber: 2.0 Consensus size: 72
25663102 GAGGAAGTGA
*
25663112 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCT
25663175 CCAGTTAT
65 CCAGTTAT
** * *
25663183 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
25663248 CAGTTAT
66 CAGTTAT
25663255 A
1 A
25663256 TGATAAAGCA
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
71 54 0.82
72 12 0.18
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (72 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTC
CAGTTAT
Found at i:25672399 original size:68 final size:67
Alignment explanation
Indices: 25672327--25672476 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
25672317 CATCATGTGT
* * * *
25672327 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
25672389 ATGTAG
62 ATGTAG
** * *
25672395 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
25672460 AG
66 AG
25672462 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
25672477 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:25672432 original size:64 final size:64
Alignment explanation
Indices: 25672351--25672534 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
25672341 AGACATTATG
* *
25672351 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
25672415 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
25672480 AA
63 AA
* * * *
25672482 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
25672535 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:25676833 original size:68 final size:67
Alignment explanation
Indices: 25676761--25676910 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
25676751 CATCATGTGT
* * * *
25676761 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
25676823 ATGTAG
62 ATGTAG
** * *
25676829 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
25676894 AG
66 AG
25676896 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
25676911 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:25676866 original size:64 final size:64
Alignment explanation
Indices: 25676785--25676968 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
25676775 AGACATTATG
* *
25676785 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
25676849 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
25676914 AA
63 AA
* * * *
25676916 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
25676969 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:25680225 original size:5 final size:5
Alignment explanation
Indices: 25680215--25680257 Score: 68
Period size: 5 Copynumber: 8.4 Consensus size: 5
25680205 AAAACTCATA
*
25680215 AAAAT AAAAT AAGAT AAAAT AAAAT AAAAT AAAAT AAATAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA-AT AA
25680258 CTAGTTATAT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
5 31 0.89
6 4 0.11
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:25686419 original size:26 final size:26
Alignment explanation
Indices: 25686384--25686434 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
25686374 GAATTTACTG
* * *
25686384 AGTCAGATTGTGTTTGAATACACCTA
1 AGTCAAATTGTGTTCGAAAACACCTA
25686410 AGTCAAATTGTGTTCGAAAACACCT
1 AGTCAAATTGTGTTCGAAAACACCT
25686435 TCAATGATGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.31
Consensus pattern (26 bp):
AGTCAAATTGTGTTCGAAAACACCTA
Found at i:25689108 original size:93 final size:94
Alignment explanation
Indices: 25688947--25689129 Score: 325
Period size: 93 Copynumber: 2.0 Consensus size: 94
25688937 TTAATGTGTT
25688947 TGTGAATATAATTGATAGATTATTAAAGTTTTTAACTAGATATAAAATAACTACTTTTTTAGTG-
1 TGTGAATATAATTGATAGATTATTAAAGTTTTTAACTAGATATAAAATAACTACTTTTTTAGTGA
25689011 AAAAAAAACCACCCACTAAAAAAAAACTA
66 AAAAAAAACCACCCACTAAAAAAAAACTA
*
25689040 TGTGAATATAATTGATGGATTATTAAAGTTTTTAACTAGATATAAAATAACTA-TTTTTTAGTGA
1 TGTGAATATAATTGATAGATTATTAAAGTTTTTAACTAGATATAAAATAACTACTTTTTTAGTG-
*
25689104 AAAAAAAAACCACTCACTAAAAAAAA
65 AAAAAAAAACCACCCACTAAAAAAAA
25689130 CCTACTTTAT
Statistics
Matches: 86, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
92 10 0.12
93 52 0.60
94 24 0.28
ACGTcount: A:0.49, C:0.09, G:0.09, T:0.33
Consensus pattern (94 bp):
TGTGAATATAATTGATAGATTATTAAAGTTTTTAACTAGATATAAAATAACTACTTTTTTAGTGA
AAAAAAAACCACCCACTAAAAAAAAACTA
Found at i:25689213 original size:17 final size:16
Alignment explanation
Indices: 25689174--25689207 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
25689164 AATTTTTCCG
*
25689174 TATTTAAAAAAACAAT
1 TATTTTAAAAAACAAT
25689190 TATTTTAAAAAA-AAT
1 TATTTTAAAAAACAAT
25689205 TAT
1 TAT
25689208 GTTTTACTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (16 bp):
TATTTTAAAAAACAAT
Found at i:25690331 original size:19 final size:19
Alignment explanation
Indices: 25690307--25690344 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
25690297 AGTTAATAAA
25690307 AAATTTGATTACGGTGGGT
1 AAATTTGATTACGGTGGGT
*
25690326 AAATTTTATTACGGTGGGT
1 AAATTTGATTACGGTGGGT
25690345 GACAGTGGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.05, G:0.29, T:0.39
Consensus pattern (19 bp):
AAATTTGATTACGGTGGGT
Found at i:25692302 original size:41 final size:41
Alignment explanation
Indices: 25692200--25692362 Score: 285
Period size: 41 Copynumber: 4.0 Consensus size: 41
25692190 AAAATCGAAT
*
25692200 AGAT-TGAGCATTAGCGGCGTTTTTAACAAAGCGCCGCTAA
1 AGATCTGAGCATTAGCGGCGTTTTTAAGAAAGCGCCGCTAA
*
25692240 AGATC-GAGCATTAACGGCGTTTTTAAGAAAGCGCCGCTAA
1 AGATCTGAGCATTAGCGGCGTTTTTAAGAAAGCGCCGCTAA
*
25692280 AGATCTGAGCATTAGCGGCGTTTTTAGGAAAGCGCCGCTAA
1 AGATCTGAGCATTAGCGGCGTTTTTAAGAAAGCGCCGCTAA
25692321 AGATCTGAGCATTAGCGGCGTTTTTAAGAAAGCGCCGCTAA
1 AGATCTGAGCATTAGCGGCGTTTTTAAGAAAGCGCCGCTAA
25692362 A
1 A
25692363 AGATTAAGCA
Statistics
Matches: 116, Mismatches: 5, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
40 42 0.36
41 74 0.64
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (41 bp):
AGATCTGAGCATTAGCGGCGTTTTTAAGAAAGCGCCGCTAA
Found at i:25693012 original size:29 final size:29
Alignment explanation
Indices: 25692972--25693037 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 29
25692962 TTAAGGGTTG
*
25692972 GGGTTTAAGGGTTATGGGCTAGTGGTTAA
1 GGGTTTAAGGGTTATGGGCTAATGGTTAA
* * *
25693001 GGGTTTATGGGTTATGGGTTAATGGTTTA
1 GGGTTTAAGGGTTATGGGCTAATGGTTAA
*
25693030 GGGGTTAA
1 GGGTTTAA
25693038 TGCTTAGGGG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.20, C:0.02, G:0.41, T:0.38
Consensus pattern (29 bp):
GGGTTTAAGGGTTATGGGCTAATGGTTAA
Found at i:25693020 original size:22 final size:22
Alignment explanation
Indices: 25692995--25693036 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
25692985 ATGGGCTAGT
*
25692995 GGTTAAGGGTTTATGGGTTATG
1 GGTTAAGGGTTTAGGGGTTATG
*
25693017 GGTTAATGGTTTAGGGGTTA
1 GGTTAAGGGTTTAGGGGTTA
25693037 ATGCTTAGGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.19, C:0.00, G:0.40, T:0.40
Consensus pattern (22 bp):
GGTTAAGGGTTTAGGGGTTATG
Found at i:25693044 original size:14 final size:15
Alignment explanation
Indices: 25693001--25693049 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
25692991 TAGTGGTTAA
* * *
25693001 GGGTTTATGGGTTAT
1 GGGTTAATGGCTTAG
*
25693016 GGGTTAATGGTTTAG
1 GGGTTAATGGCTTAG
25693031 GGGTTAAT-GCTTAG
1 GGGTTAATGGCTTAG
25693045 GGGTT
1 GGGTT
25693050 TTTATTTTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
14 10 0.33
15 20 0.67
ACGTcount: A:0.16, C:0.02, G:0.41, T:0.41
Consensus pattern (15 bp):
GGGTTAATGGCTTAG
Found at i:25693301 original size:21 final size:21
Alignment explanation
Indices: 25693276--25693330 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
25693266 TAGGGTTTAG
25693276 AGTTTAAGG-TTATAGGGATAT
1 AGTTTAAGGTTTAT-GGGATAT
25693297 AGTTTAAGGTTTATGGGATAT
1 AGTTTAAGGTTTATGGGATAT
* *
25693318 ATTTTAGGGTTTA
1 AGTTTAAGGTTTA
25693331 AGGTTATAGG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
21 27 0.87
22 4 0.13
ACGTcount: A:0.29, C:0.00, G:0.27, T:0.44
Consensus pattern (21 bp):
AGTTTAAGGTTTATGGGATAT
Found at i:25693302 original size:28 final size:27
Alignment explanation
Indices: 25693270--25693364 Score: 85
Period size: 28 Copynumber: 3.6 Consensus size: 27
25693260 ATAGTTTAGG
25693270 GTTTAGAGTTTAAGGTTATAGGGATATA
1 GTTTA-AGTTTAAGGTTATAGGGATATA
*
25693298 GTTTAAG-----GTTTAT-GGGATATA
1 GTTTAAGTTTAAGGTTATAGGGATATA
* *
25693319 TTTTAGGGTTTAAGGTTATAGGGATATA
1 GTTTA-AGTTTAAGGTTATAGGGATATA
25693347 GTTTAATGGTTTAAGGTT
1 GTTTAA--GTTTAAGGTT
25693365 TACAGTTTTG
Statistics
Matches: 52, Mismatches: 6, Indels: 17
0.69 0.08 0.23
Matches are distributed among these distances:
21 12 0.23
22 6 0.12
27 7 0.13
28 17 0.33
29 10 0.19
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.43
Consensus pattern (27 bp):
GTTTAAGTTTAAGGTTATAGGGATATA
Found at i:25693492 original size:28 final size:29
Alignment explanation
Indices: 25693446--25693512 Score: 77
Period size: 28 Copynumber: 2.4 Consensus size: 29
25693436 AATTCATACA
* *
25693446 TTTTGTGG-TTAAGGCTTAGGGGTTATTG
1 TTTTGTGGTTTAAGGCTTAGGGGATATAG
*
25693474 TTTTGTGGTTTATGG-TTAGGGGATATAG
1 TTTTGTGGTTTAAGGCTTAGGGGATATAG
*
25693502 TTTAG-GGTTTA
1 TTTTGTGGTTTA
25693513 GGGGATATAC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
27 6 0.18
28 23 0.68
29 5 0.15
ACGTcount: A:0.16, C:0.01, G:0.34, T:0.48
Consensus pattern (29 bp):
TTTTGTGGTTTAAGGCTTAGGGGATATAG
Found at i:25693515 original size:21 final size:21
Alignment explanation
Indices: 25693481--25693533 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
25693471 TTGTTTTGTG
*
25693481 GTTTATGG-TTAGGGGATATA
1 GTTTAGGGTTTAGGGGATATA
25693501 GTTTAGGGTTTAGGGGATATA
1 GTTTAGGGTTTAGGGGATATA
*
25693522 CTTTAGGGTTTA
1 GTTTAGGGTTTA
25693534 AGGTTATAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 7 0.23
21 23 0.77
ACGTcount: A:0.23, C:0.02, G:0.34, T:0.42
Consensus pattern (21 bp):
GTTTAGGGTTTAGGGGATATA
Found at i:25693538 original size:28 final size:29
Alignment explanation
Indices: 25693501--25693570 Score: 90
Period size: 28 Copynumber: 2.4 Consensus size: 29
25693491 AGGGGATATA
*
25693501 GTTTAGGGTTTAGGGGATATACTTT-AGG
1 GTTTAAGGTTTAGGGGATATACTTTAAGG
* *
25693529 GTTTAAGGTTATA-GGGATATAGTTTAATG
1 GTTTAAGGTT-TAGGGGATATACTTTAAGG
25693558 GTTTAAGGTTTAG
1 GTTTAAGGTTTAG
25693571 AGTTTTGATT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
28 22 0.61
29 14 0.39
ACGTcount: A:0.26, C:0.01, G:0.31, T:0.41
Consensus pattern (29 bp):
GTTTAAGGTTTAGGGGATATACTTTAAGG
Found at i:25694069 original size:6 final size:6
Alignment explanation
Indices: 25694058--25694085 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
25694048 TGACTTTCTC
25694058 CCCTCT CCCTCT CCCTCT CCCTCT CCCT
1 CCCTCT CCCTCT CCCTCT CCCTCT CCCT
25694086 TTTTCTGTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.68, G:0.00, T:0.32
Consensus pattern (6 bp):
CCCTCT
Found at i:25695863 original size:14 final size:13
Alignment explanation
Indices: 25695840--25695869 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
25695830 ATTACTATAA
25695840 TAATTATATGAAG
1 TAATTATATGAAG
25695853 TAATATATATGAAG
1 TAAT-TATATGAAG
25695867 TAA
1 TAA
25695870 AATTATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (13 bp):
TAATTATATGAAG
Found at i:25697766 original size:9 final size:9
Alignment explanation
Indices: 25697739--25697905 Score: 145
Period size: 9 Copynumber: 17.6 Consensus size: 9
25697729 ATTGATCATT
*
25697739 ACTTAAATA
1 ACTTACATA
*
25697748 AATTACATA
1 ACTTACATA
*
25697757 ACTTAAATA
1 ACTTACATA
* *
25697766 ACTCATATA
1 ACTTACATA
25697775 ACTTACATA
1 ACTTACATA
*
25697784 ATTTACATAACA
1 ACTTACAT---A
25697796 ACTTACATA
1 ACTTACATA
*
25697805 ACTCACATA
1 ACTTACATA
25697814 ACTTACATA
1 ACTTACATA
*
25697823 ATTTACATAACA
1 ACTTACAT---A
25697835 ACTTACATA
1 ACTTACATA
*
25697844 ACTCACATA
1 ACTTACATA
25697853 ACTTACATA
1 ACTTACATA
*
25697862 ATTTACATA
1 ACTTACATA
*
25697871 ACTCACATA
1 ACTTACATA
*
25697880 ACGTACATAACA
1 ACTTACAT---A
25697892 ACTTACATA
1 ACTTACATA
25697901 ACTTA
1 ACTTA
25697906 ACTAATACAT
Statistics
Matches: 127, Mismatches: 22, Indels: 18
0.76 0.13 0.11
Matches are distributed among these distances:
9 103 0.81
12 24 0.19
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.31
Consensus pattern (9 bp):
ACTTACATA
Found at i:25697806 original size:48 final size:47
Alignment explanation
Indices: 25697750--25697906 Score: 170
Period size: 48 Copynumber: 3.3 Consensus size: 47
25697740 CTTAAATAAA
* * *
25697750 TTACATAACTTAAATAACTCATATAACTTACATAATTTACATAACAAC
1 TTACATAACTTAAATAACTTACATAACTTACATAA-CTACATAACAAC
* * * * * *
25697798 TTACATAACTCACATAACTTACATAATTTACATAACAACTTACATAAC
1 TTACATAACTTAAATAACTTACATAACTTACATAACTACATA-ACAAC
* * * *
25697846 TCACATAACTTACATAATTTACATAACTCACATAACGTACATAACAAC
1 TTACATAACTTAAATAACTTACATAACTTACATAAC-TACATAACAAC
25697894 TTACATAACTTAA
1 TTACATAACTTAA
25697907 CTAATACATG
Statistics
Matches: 88, Mismatches: 19, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
47 4 0.05
48 80 0.91
49 4 0.05
ACGTcount: A:0.46, C:0.22, G:0.01, T:0.31
Consensus pattern (47 bp):
TTACATAACTTAAATAACTTACATAACTTACATAACTACATAACAAC
Found at i:25697809 original size:39 final size:39
Alignment explanation
Indices: 25697756--25697872 Score: 216
Period size: 39 Copynumber: 3.0 Consensus size: 39
25697746 TAAATTACAT
* *
25697756 AACTTAAATAACTCATATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
25697795 AACTTACATAACTCACATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
25697834 AACTTACATAACTCACATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
25697873 TCACATAACG
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 76 1.00
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.32
Consensus pattern (39 bp):
AACTTACATAACTCACATAACTTACATAATTTACATAAC
Found at i:25697891 original size:57 final size:57
Alignment explanation
Indices: 25697739--25697903 Score: 183
Period size: 57 Copynumber: 2.9 Consensus size: 57
25697729 ATTGATCATT
* * * * *
25697739 ACTTAAATAAATTACATAACTTAAATAACT-CAT-ATAACTTACATAATTTACATAACA
1 ACTTACATAAATTACATAACTTACATAACTACATAACAACTTACATAACTCACAT-A-A
* * *
25697796 ACTTACATAACTCACATAACTTACATAATTTACATAACAACTTACATAACTCACAT-A
1 ACTTACATAAATTACATAACTTACATAA-CTACATAACAACTTACATAACTCACATAA
* *
25697853 ACTTACATAATTTACATAACTCACATAACGTACATAACAACTTACATAACT
1 ACTTACATAAATTACATAACTTACATAAC-TACATAACAACTTACATAACT
25697904 TAACTAATAC
Statistics
Matches: 92, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
57 71 0.77
58 1 0.01
59 3 0.03
60 17 0.18
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.31
Consensus pattern (57 bp):
ACTTACATAAATTACATAACTTACATAACTACATAACAACTTACATAACTCACATAA
Found at i:25697901 original size:39 final size:37
Alignment explanation
Indices: 25697739--25697890 Score: 193
Period size: 39 Copynumber: 4.1 Consensus size: 37
25697729 ATTGATCATT
* * * *
25697739 ACTTAAATAAATTACAT-AACTTAAATAACTCATATA
1 ACTTACATAATTTACATAAACTTACATAACTCACATA
25697775 ACTTACATAATTTACATAACAACTTACATAACTCACATA
1 ACTTACATAATTTACAT-A-AACTTACATAACTCACATA
25697814 ACTTACATAATTTACATAACAACTTACATAACTCACATA
1 ACTTACATAATTTACAT-A-AACTTACATAACTCACATA
*
25697853 ACTTACATAATTTACAT-AACTCACATAACGT-ACATA
1 ACTTACATAATTTACATAAACTTACATAAC-TCACATA
25697889 AC
1 AC
25697891 AACTTACATA
Statistics
Matches: 107, Mismatches: 5, Indels: 8
0.89 0.04 0.07
Matches are distributed among these distances:
36 33 0.31
37 1 0.01
39 73 0.68
ACGTcount: A:0.47, C:0.21, G:0.01, T:0.31
Consensus pattern (37 bp):
ACTTACATAATTTACATAAACTTACATAACTCACATA
Found at i:25703448 original size:20 final size:21
Alignment explanation
Indices: 25703423--25703469 Score: 78
Period size: 20 Copynumber: 2.3 Consensus size: 21
25703413 TCAACTTAGA
25703423 GCGGAGGCAGCAGCG-CGGAG
1 GCGGAGGCAGCAGCGACGGAG
*
25703443 GCGGAGGCAGCAGCGAGGGAG
1 GCGGAGGCAGCAGCGACGGAG
25703464 GCGGAG
1 GCGGAG
25703470 CAGAACAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 15 0.60
21 10 0.40
ACGTcount: A:0.21, C:0.21, G:0.57, T:0.00
Consensus pattern (21 bp):
GCGGAGGCAGCAGCGACGGAG
Done.