Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold139
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: 1720190
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
Warning! 4798 characters in sequence are not A, C, G, or T
File 6 of 11
Found at i:857148 original size:56 final size:56
Alignment explanation
Indices: 857040--857680 Score: 353
Period size: 56 Copynumber: 11.2 Consensus size: 56
857030 CACCAGCTTG
* * * * *
857040 TGTGGGCTTTAGAGAAAGG-TGCCACCAACTTGTGTGGGTTTAAAAGGATGCCACTAACT
1 TGTGGGCTTT--A-AAAGGATGCCACTAACTTGTG-GGCTTTGAAAGGGTGCCACTGACT
* * *
857099 TGTGTGCTTTAAAAGGATGCCACTAACTTGTGGACTTTGAAAGGGTGCCATTGACT
1 TGTGGGCTTTAAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACT
* * * * * ** * **
857155 TATGGGCTTTGAAATGAAGCCACTAACTTGTAGAATTTGAAATGAAGCCACTGACT
1 TGTGGGCTTTAAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACT
* * * * * * * *
857211 TGTTGGCTTTGAAAGGGTGCCATTGACTAGTGGGCTTTGGAAGGGTGCCACTAACT
1 TGTGGGCTTTAAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACT
* * * * * * **
857267 CGTAGGCTTTGAAAAAAAGATACCACCAACTTGTGTGGGCTTTGAAAAGGTGCCGTTGACT
1 TGTGGGCTTT---AAAAGGATGCCACTAAC-T-TGTGGGCTTTGAAAGGGTGCCACTGACT
** * * ** **** * *
857328 TGTTAGTTTTGCAAA-GATGCCACTAACTCATTAAATTTGAAAGGATGCCACTTACT
1 TGTGGGCTTT-AAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACT
* * * ** * * * * *
857384 TATGGGCTTT----GAATGCCACTGACTTGTGCCCCTTAAAAGGATGCCACTAACA
1 TGTGGGCTTTAAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACT
** * * * **
857436 TGTGGGCTTTGAAAAGG-TGCCACCGACTTATGGGCTTTAAAAAGGTGTAACT-AGCTT
1 TGTGGGCTTT-AAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGA-C-T
* * * * *
857493 GTGTGGGCTTTAGAAGAGGGCTGCCATTGACTTGTGGGCTTTGAAAAGGTGCCATTGACT
1 -TGTGGGCTTTA-AA-A-GGATGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACT
* * * * *
857553 TATGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTGACG
1 TGTGGGCTTTAAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACT
* * * * *
857609 TGTAGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAAAGGTGACACTGACA
1 TGTGGGCTTTAAAAGGATGCCACTAACTTGTGGGCTTTG-AAAGGGTGCCACTGACT
857666 TGTGGGCTTTGAAAA
1 TGTGGGCTTT-AAAA
857681 AGGTGTCGTA
Statistics
Matches: 443, Mismatches: 117, Indels: 45
0.73 0.19 0.07
Matches are distributed among these distances:
52 38 0.09
55 1 0.00
56 240 0.54
57 43 0.10
58 27 0.06
59 32 0.07
60 4 0.01
61 57 0.13
62 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (56 bp):
TGTGGGCTTTAAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACT
Found at i:857178 original size:84 final size:83
Alignment explanation
Indices: 857040--857679 Score: 420
Period size: 84 Copynumber: 7.5 Consensus size: 83
857030 CACCAGCTTG
** * *
857040 TGTGGGCTTTAGAGAAAGGTGCCACCAACTTGTGTGGGTTTAAAAGGATGCCACTAACTTGTGTG
1 TGTGGGCTTT-GA-AAAGGTGCCACTGACTTGTG-GGCTTTGAAAGGATGCCACTAACTTGTG-G
857105 CTTTAAAAGGATGCCACTAACT
62 CTTTAAAAGGATGCCACTAACT
* * * * * * **
857127 TGTGGACTTTGAAAGGGTGCCATTGACTTATGGGCTTTGAAATGAAGCCACTAACTTGTAGAATT
1 TGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGT-GGCTT
* * * *
857192 TGAAATGAAGCCACTGACT
65 TAAAAGGATGCCACTAACT
* * * * * * *
857211 TGTTGGCTTTGAAAGGGTGCCATTGACTAGTGGGCTTTGGAAGGGTGCCACTAACTCGTAGGCTT
1 TGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGT-GGCTT
* * *
857276 TGAAAAAAAGATACCACCAACTT
65 T---AAAAGGATGCCACTAAC-T
** ** * **
857299 GTGTGGGCTTTGAAAAGGTGCCGTTGACTTGTTAGTTTTGCAAA-GATGCCACTAACTCAT-TAA
1 -TGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTG-AAAGGATGCCACTAACT--TGTGG
* * *
857362 ATTTGAAAGGATGCCACTTACT
62 CTTTAAAAGGATGCCACTAACT
* ** * * *
857384 TATGGGCTTTG--AA--TGCCACTGACTTGTGCCCCTTAAAAGGATGCCACTAACATGTGGGCTT
1 TGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGT-GGCTT
**
857445 TGAAAAGG-TGCCACCGACT
65 T-AAAAGGATGCCACTAACT
* * ** * * *
857464 TATGGGCTTTAAAAAGGTGTAACT-AGCTTGTGTGGGCTTTAGAAGAGGGCTGCCATTGACTTGT
1 TGTGGGCTTTGAAAAGGTGCCACTGA-C-T-TGTGGGCTTT-GAA-A-GGATGCCACTAACTTGT
* *
857528 GGGCTTTGAAAAGG-TGCCATTGACT
60 -GGCTTT-AAAAGGATGCCACTAACT
* * *
857553 TATGGGCTTTG-AAAGGATGCCACTGACTTGTGGGCTTTGAAAAGG-TGCCACTGACGTGTAGGC
1 TGTGGGCTTTGAAAAGG-TGCCACTGACTTGTGGGCTTTG-AAAGGATGCCACTAACTTGT-GGC
*
857616 TTTGAAAGGATGCCACTAACT
63 TTTAAAAGGATGCCACTAACT
* *
857637 TGTGGGCTTTGAAAAAGGTGACACTGACATGTGGGCTTTGAAA
1 TGTGGGCTTTG-AAAAGGTGCCACTGACTTGTGGGCTTTGAAA
857680 AAGGTGTCGT
Statistics
Matches: 432, Mismatches: 92, Indels: 61
0.74 0.16 0.10
Matches are distributed among these distances:
78 1 0.00
79 4 0.01
80 48 0.11
81 5 0.01
82 4 0.01
83 6 0.01
84 151 0.35
85 40 0.09
86 28 0.06
87 34 0.08
88 8 0.02
89 99 0.23
90 4 0.01
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (83 bp):
TGTGGGCTTTGAAAAGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGCTTT
AAAAGGATGCCACTAACT
Found at i:857541 original size:89 final size:84
Alignment explanation
Indices: 857363--857685 Score: 279
Period size: 89 Copynumber: 3.8 Consensus size: 84
857353 ACTCATTAAA
* * * ** *
857363 TTTG-AAAGGATGCCACTTACTTATGGGCTTT--GAA--TGCCACTGACTTGTGCCCCTT-AAAA
1 TTTGAAAAGG-TGCCACTGACTTATGGGCTTTAAAAAGGTGCAACTGACTTGTGGGCTTTGAAAA
* *
857422 GGATGCCACTAACATGTGGGC
65 GG-TGCCACTGACGTGTGGGC
* *
857443 TTTGAAAAGGTGCCACCGACTTATGGGCTTTAAAAAGGTGTAACT-AGCTTGTGTGGGCTTTAGA
1 TTTGAAAAGGTGCCACTGACTTATGGGCTTTAAAAAGGTGCAACTGA-C-T-TGTGGGCTTT-GA
* * *
857507 AGAGGGCTGCCATTGACTTGTGGGC
62 A-AAGG-TGCCACTGACGTGTGGGC
* * *
857532 TTTGAAAAGGTGCCATTGACTTATGGGCTTT-GAAAGGATGCCACTGACTTGTGGGCTTTGAAAA
1 TTTGAAAAGGTGCCACTGACTTATGGGCTTTAAAAAGG-TGCAACTGACTTGTGGGCTTTGAAAA
*
857596 GGTGCCACTGACGTGTAGGC
65 GGTGCCACTGACGTGTGGGC
* * *
857616 TTTG-AAAGGATGCCACTAACTTGTGGGCTTTGAAAAAGGTG-ACACTGACATGTGGGCTTTGAA
1 TTTGAAAAGG-TGCCACTGACTTATGGGCTTT-AAAAAGGTGCA-ACTGACTTGTGGGCTTTG-A
857679 AAAGGTG
62 AAAGGTG
857686 TCGTATTGAC
Statistics
Matches: 197, Mismatches: 28, Indels: 30
0.77 0.11 0.12
Matches are distributed among these distances:
80 23 0.12
81 5 0.03
82 2 0.01
83 6 0.03
84 43 0.22
85 23 0.12
86 23 0.12
87 10 0.05
88 8 0.04
89 53 0.27
90 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.28
Consensus pattern (84 bp):
TTTGAAAAGGTGCCACTGACTTATGGGCTTTAAAAAGGTGCAACTGACTTGTGGGCTTTGAAAAG
GTGCCACTGACGTGTGGGC
Found at i:857730 original size:25 final size:23
Alignment explanation
Indices: 857699--857761 Score: 72
Period size: 25 Copynumber: 2.6 Consensus size: 23
857689 TATTGACAAA
*
857699 AAATTCTTGACAAAGTTTTTGACT
1 AAATTCTTGACAAAGTTCTTGA-T
*
857723 AACATTCTCGACAAAAGTTCTTGAT
1 AA-ATTCTTGAC-AAAGTTCTTGAT
*
857748 AATTTCTTGACAAA
1 AAATTCTTGACAAA
857762 TGGCAAATTG
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
23 3 0.09
24 9 0.27
25 11 0.33
26 10 0.30
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (23 bp):
AAATTCTTGACAAAGTTCTTGAT
Found at i:872290 original size:20 final size:20
Alignment explanation
Indices: 872265--872339 Score: 96
Period size: 20 Copynumber: 3.8 Consensus size: 20
872255 AAAGAAATAG
872265 AATGTATCGATACATTGAAA
1 AATGTATCGATACATTGAAA
* * *
872285 AATGTATCGATGCATTCATA
1 AATGTATCGATACATTGAAA
* *
872305 CATGTATCGTTACATTGAAA
1 AATGTATCGATACATTGAAA
*
872325 AATGTATTGATACAT
1 AATGTATCGATACAT
872340 CTAGGTAAAA
Statistics
Matches: 44, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTGAAA
Found at i:881964 original size:79 final size:78
Alignment explanation
Indices: 881852--882100 Score: 320
Period size: 79 Copynumber: 3.1 Consensus size: 78
881842 AGATAAAAAT
*
881852 GAGGTTGGAGTACCCTCCTCAGAAATAACGGGGTTGGAGTA-CCCCTAATGATGGAAAATTGATG
1 GAGGTTGGAGTATCC-CCTCAGAAATAACGGGGTTGGAGTATCCCC-AATG-TGGAAAATTGATG
* *
881916 TTTTGGAAATAAAATC
63 TTTTAGAAATAAAACC
* **
881932 GGGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCAATGGTGGAAAATCAATGTT
1 GAGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCAAT-GTGGAAAATTGATGTT
881997 TTAGAAATAAAACC
65 TTAGAAATAAAACC
* * * * *
882011 AAGGTTGGAGTATCCCCTCAGAAATAAAGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATATT
1 GAGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCC-AATGTGGAAAATTGATGTT
* *
882076 TTAAAAATAAAGCC
65 TTAGAAATAAAACC
*
882090 GGGGTTGGAGT
1 GAGGTTGGAGT
882101 GTCGCAACGT
Statistics
Matches: 148, Mismatches: 18, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
79 128 0.86
80 20 0.14
ACGTcount: A:0.33, C:0.14, G:0.27, T:0.26
Consensus pattern (78 bp):
GAGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCAATGTGGAAAATTGATGTTT
TAGAAATAAAACC
Found at i:886283 original size:52 final size:52
Alignment explanation
Indices: 886124--886413 Score: 380
Period size: 52 Copynumber: 5.7 Consensus size: 52
886114 TGTTAAAGAT
* * * *
886124 GCCAATATGCTGATTTAAGGCCAGTGACT-TTGGACTTAAAGGTG---AAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGA-TATTGGACTTAAAGATGACAAAGGC
* * *
886173 GCTAATATGCTGATTCAAGGCCAGCGACATTGGA-TTAAAGATAACAAAGGC
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGC
*
886224 GCCAATATACTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGC
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGC
*
886276 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATG---AAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGC
* ** * *
886325 GCGAATGCGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGACAAAGGC
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGC
*
886377 GCCAATATGCTGATTCAAGGCCAGCAATATTGGACTT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT
886414 GTGCCAATGT
Statistics
Matches: 208, Mismatches: 25, Indels: 13
0.85 0.10 0.05
Matches are distributed among these distances:
48 7 0.03
49 72 0.35
51 35 0.17
52 94 0.45
ACGTcount: A:0.33, C:0.18, G:0.25, T:0.23
Consensus pattern (52 bp):
GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGACAAAGGC
Found at i:886431 original size:39 final size:39
Alignment explanation
Indices: 886377--886673 Score: 207
Period size: 48 Copynumber: 6.9 Consensus size: 39
886367 TGACAAAGGC
*
886377 GCCAATATGCTGATTCAAGGCCAGCAATATTGGACTTGT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGT
* * *
886416 GCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT---------GT
** *
886464 ATCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTGT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGT
* * * *
886503 GCCAATGTGCTGATTCAAGGCCAGTGACATTGGTCTTAGAGACAAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT---------GT
*
886551 GCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTGT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGT
* * * *
886590 GCCAATGTGCTGATTCACGGCCAGCGACATTGGTCTTAAAGATAAGGT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGAC-T-----T---GT
886638 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACT
1 GCCAATATGCTGATTCAAGGCCAGCGATATTGGACT
886674 CAAGATGGTA
Statistics
Matches: 204, Mismatches: 27, Indels: 46
0.74 0.10 0.17
Matches are distributed among these distances:
39 99 0.49
40 1 0.00
45 1 0.00
47 1 0.00
48 102 0.50
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (39 bp):
GCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTGT
Found at i:886502 original size:87 final size:87
Alignment explanation
Indices: 886323--886670 Score: 543
Period size: 87 Copynumber: 4.0 Consensus size: 87
886313 AAAGATGAAG
* * * * *
886323 GTGCGAATGCGCTGATTCAAGGCCAACGACATTGGACTTAAAGATGACAAAGGCGCCAATATGCT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT-AA-A-GAC-AAGGTGCCAATATGCT
* *
886388 GATTCAAGGCCAGCAATATTGGACTT
62 GATTCAAGGCCAGCGATATTGGGCTT
**
886414 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTATCAATATGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
886479 CAAGGCCAGCGATATTGGGCTT
66 CAAGGCCAGCGATATTGGGCTT
* *
886501 GTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGTCTTAGAGACAAGGTGCCAATATGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
886566 CAAGGCCAGCGATATTGGGCTT
66 CAAGGCCAGCGATATTGGGCTT
* *
886588 GTGCCAATGTGCTGATTCACGGCCAGCGACATTGGTCTTAAAGATAAGGTGCCAATATGCTGATT
1 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
886653 CAAGGCCAGCGATATTGG
66 CAAGGCCAGCGATATTGG
886671 ACTCAAGATG
Statistics
Matches: 240, Mismatches: 17, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
87 199 0.83
88 3 0.01
89 1 0.00
90 2 0.01
91 35 0.15
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (87 bp):
GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGACAAGGTGCCAATATGCTGATT
CAAGGCCAGCGATATTGGGCTT
Found at i:886572 original size:48 final size:47
Alignment explanation
Indices: 886501--886726 Score: 243
Period size: 48 Copynumber: 4.9 Consensus size: 47
886491 TATTGGGCTT
* * * *
886501 GTGCCAATGTGCTGATTCAAGGCCAGTGACATTGGTCTTAGAGACAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAGAGA-AAG
*
886549 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTT--------
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAGAGAAAG
* * * * *
886588 GTGCCAATGTGCTGATTCACGGCCAGCGACATTGGTCTTAAAGATAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAGAGA-AAG
*
886636 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTCAAGATGGTAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACT-TAGA--G-AAAG
886687 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTA
886727 AAGGTGGCAC
Statistics
Matches: 150, Mismatches: 15, Indels: 24
0.79 0.08 0.13
Matches are distributed among these distances:
39 35 0.23
48 69 0.46
49 2 0.01
50 1 0.01
51 42 0.28
52 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.26
Consensus pattern (47 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAGAGAAAG
Found at i:886702 original size:51 final size:48
Alignment explanation
Indices: 886588--886729 Score: 194
Period size: 51 Copynumber: 2.9 Consensus size: 48
886578 TATTGGGCTT
* * * * *
886588 GTGCCAATGTGCTGATTCACGGCCAGCGACATTGGTCTTAAAGATAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTCAAAGATAAG
*
886636 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTCAAGATGGTAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTCAA-A-GAT-AAG
*
886687 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAG
1 GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTCAAAG
886730 GTGGCACGGA
Statistics
Matches: 84, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
48 36 0.43
49 2 0.02
50 3 0.04
51 43 0.51
ACGTcount: A:0.30, C:0.19, G:0.27, T:0.25
Consensus pattern (48 bp):
GTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTCAAAGATAAG
Found at i:886920 original size:27 final size:27
Alignment explanation
Indices: 886890--887042 Score: 90
Period size: 27 Copynumber: 5.1 Consensus size: 27
886880 ACTTAAAAGG
886890 AAAAAGATGCCATGGAGTTGTGGACTT
1 AAAAAGATGCCATGGAGTTGTGGACTT
* * * **
886917 AAAAGGGTGCCGTAAAGTTGTGGACTT
1 AAAAAGATGCCATGGAGTTGTGGACTT
* *
886944 AAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
1 ------AAAAAGA-TGCCATGGAGTTGTGGAC-TT
*
886979 AAAAAGAAAAAGGTGCCACGGAGTTGTGGACTT
1 AAAAAG----A--TGCCATGGAGTTGTGGACTT
* *
887012 AAAAGGGTGCCATGGAGTTGTGGACTT
1 AAAAAGATGCCATGGAGTTGTGGACTT
887039 AAAA
1 AAAA
887043 GGAAAAAGAG
Statistics
Matches: 97, Mismatches: 16, Indels: 26
0.70 0.12 0.19
Matches are distributed among these distances:
27 45 0.46
29 6 0.06
33 13 0.13
34 31 0.32
35 2 0.02
ACGTcount: A:0.35, C:0.11, G:0.32, T:0.22
Consensus pattern (27 bp):
AAAAAGATGCCATGGAGTTGTGGACTT
Found at i:886946 original size:60 final size:62
Alignment explanation
Indices: 886863--886982 Score: 190
Period size: 60 Copynumber: 2.0 Consensus size: 62
886853 AAAGAACAAC
** *
886863 GTGCCGTGGAGTTGTGGACTTAAAAGGAAAAAGA-TGCCATGGAGTTGTGGAC-TTAAAAGG
1 GTGCCGTAAAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTTAAAAGG
*
886923 GTGCCGTAAAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA
1 GTGCCGTAAAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTTAAAA
886983 AGAAAAAGGT
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
60 32 0.59
61 16 0.30
62 6 0.11
ACGTcount: A:0.33, C:0.11, G:0.33, T:0.23
Consensus pattern (62 bp):
GTGCCGTAAAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGACTTTAAAAGG
Found at i:886961 original size:34 final size:34
Alignment explanation
Indices: 886932--887206 Score: 253
Period size: 34 Copynumber: 8.5 Consensus size: 34
886922 GGTGCCGTAA
*
886932 AGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGG
1 AGTTGTGGACTTAAAAGGAAAAAGAGTGCCATGG
* * *
886966 AGTTGTGGGCTTTAAAAAGAAAAAG-GTGCCACGG
1 AGTTGTGGAC-TTAAAAGGAAAAAGAGTGCCATGG
887000 AGTTGTGGACTTAAAA-G-----G-GTGCCATGG
1 AGTTGTGGACTTAAAAGGAAAAAGAGTGCCATGG
*
887027 AGTTGTGGACTTAAAAGGAAAAAGAGTGCAATGG
1 AGTTGTGGACTTAAAAGGAAAAAGAGTGCCATGG
* *
887061 AGTTGTGGGCTTAAAAGGAAAAAGAGTGCCATGC
1 AGTTGTGGACTTAAAAGGAAAAAGAGTGCCATGG
* * *
887095 AGTT-TGGGCTTTAAAAAGAAAAA-AGGTGCCACGG
1 AGTTGTGGAC-TTAAAAGGAAAAAGA-GTGCCATGG
*
887129 AGTTGTGGACTTAAAA-G-----G-GTGCCACGG
1 AGTTGTGGACTTAAAAGGAAAAAGAGTGCCATGG
* * ***
887156 AGTTATGGACTTAAAAGGAAAAAGA-TACCACAA
1 AGTTGTGGACTTAAAAGGAAAAAGAGTGCCATGG
887189 AGTTGTGGACTTAAAAGG
1 AGTTGTGGACTTAAAAGG
887207 GTACCACAAA
Statistics
Matches: 205, Mismatches: 17, Indels: 39
0.79 0.07 0.15
Matches are distributed among these distances:
27 49 0.24
28 2 0.01
32 1 0.00
33 37 0.18
34 99 0.48
35 17 0.08
ACGTcount: A:0.37, C:0.11, G:0.31, T:0.21
Consensus pattern (34 bp):
AGTTGTGGACTTAAAAGGAAAAAGAGTGCCATGG
Found at i:887002 original size:95 final size:95
Alignment explanation
Indices: 886719--887416 Score: 678
Period size: 95 Copynumber: 7.4 Consensus size: 95
886709 CCAGCGATAT
* * * * * *
886719 TGGACTT-AAA-GGTGGCACGGAGTTGTGGACTT-ATAGGAAAAAGAGATGCCACAGAGGTATGG
1 TGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAG-TGCCACGGAGTTGTGG
* * * * *
886781 GCTTGAAAGGGAAAAGGGTACCACGGAGTCG
65 GCTTTAAAAGGAAAAAGGTGCCACGGAGTTG
* * * * * **
886812 TGGACTTAAAAAGAAAATGTGCCAC-GAAGTTATGGACTTAAAAAGAACAA-CGTGCCGTGGAGT
1 TGGACTT-AAAAG----GGTGCCACAG-AGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGT
* * *
886875 TGTGGAC-TTAAAAGGAAAAAGATGCCATGGAGTTG
60 TGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGTTG
** *
886910 TGGACTTAAAAGGGTGCCGTAAAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGG
1 TGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGG
*
886975 CTTTAAAAAGAAAAAGGTGCCACGGAGTTG
66 CTTTAAAAGGAAAAAGGTGCCACGGAGTTG
** * *
887005 TGGACTTAAAAGGGTGCCATGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCAATGGAGTTGTGGG
1 TGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGG
* *
887070 C-TTAAAAGGAAAAAGAGTGCCATGCAGTT-
66 CTTTAAAAGGAAAAAG-GTGCCACGGAGTTG
* *
887099 TGGGCTTTAAAAAGAAAAAAGGTGCCACGGAGTTGTGGACTTAAAA-G-----G-GTGCCACGGA
1 TGGAC-TT-AAAAG------GGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGA
* * * * **
887157 GTTATGGAC-TTAAAAGGAAAAAGATACCACAAAGTTG
58 GTTGTGGGCTTTAAAAGGAAAAAGGTGCCACGGAGTTG
* * *
887194 TGGACTTAAAAGGGTACCACAAAGTTGTGGACTTAAAAGGAAACAA-A-TGCCACGGAGTTATGG
1 TGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAA-AAGAGTGCCACGGAGTTGTGG
*
887257 GCTTTAAAAAGAAAAAGGTGCCACGGAGTTG
65 GCTTTAAAAGGAAAAAGGTGCCACGGAGTTG
* *
887288 TGGACTTAAAAGGGTGCCACAGAGTTGTGGATTTAAAA-GAAAAAAAGGTGCCACGGAGTTGTGG
1 TGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGA-GTGCCACGGAGTTGTGG
* *
887352 GCTTTAAAAAGAAAAAGGTGCCATGGAGTTG
65 GCTTTAAAAGGAAAAAGGTGCCACGGAGTTG
887383 TGGACTTAAAAGGGTGCCACAGAGTTGTGGACTT
1 TGGACTTAAAAGGGTGCCACAGAGTTGTGGACTT
887417 TGAGAAGAGA
Statistics
Matches: 502, Mismatches: 69, Indels: 66
0.79 0.11 0.10
Matches are distributed among these distances:
87 23 0.05
88 1 0.00
92 2 0.00
93 59 0.12
94 101 0.20
95 213 0.42
96 6 0.01
97 5 0.01
98 28 0.06
99 13 0.03
100 18 0.04
101 8 0.02
102 25 0.05
ACGTcount: A:0.36, C:0.12, G:0.31, T:0.21
Consensus pattern (95 bp):
TGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACGGAGTTGTGGG
CTTTAAAAGGAAAAAGGTGCCACGGAGTTG
Found at i:887016 original size:61 final size:60
Alignment explanation
Indices: 886951--887416 Score: 354
Period size: 61 Copynumber: 7.5 Consensus size: 60
886941 CTTAAAAGGA
*
886951 AAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTT
1 AAAAGAGTGCCACGGAGTTGTGGAC-TTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTT
* * * * * *
887012 AAAAGGGTGCCATGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCAATGGAGTTGTGGGCTT
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAAGAAAAAG-GTGCCACGGAGTTGTGGACTT
* * *
887073 AAAAGGAAAAAGAGTGCCATGCAGTT-TGGGCTTTAAAAAGAAAAAAGGTGCCACGGAGTTGTGG
1 -------AAAAGAGTGCCACGGAGTTGTGGAC-TTAAAAAG-AAAAAGGTGCCACGGAGTTGTGG
887137 ACTT
57 ACTT
* * * * * **
887141 AAAAGGGTGCCACGGAGTTATGGACTTAAAAGGAAAAAGATACCACAAAGTTGTGGACTT
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTT
* * ** * * * *
887201 AAAAGGGTACCACAAAGTTGTGGACTTAAAAGGAAACAA-ATGCCACGGAGTTATGGGCTTT
1 AAAAGAGTGCCACGGAGTTGTGGACTTAAAAAGAAA-AAGGTGCCACGGAGTTGTGGAC-TT
* *
887262 AAAAAGAAAAAGGTGCCACGGAGTTGTGGACTT-AAAAG-----GGTGCCACAGAGTTGTGGATT
1 -AAAAG----A-GTGCCACGGAGTTGTGGACTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACT
887321 T
60 T
* *
887322 AAAAGAAAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAGGTGCCATGGAGTTGTGGA
1 AAAAG------A-GTGCCACGGAGTTGTGGAC-TTAAAAAGAAAAAGGTGCCACGGAGTTGTGGA
887387 CTT
58 CTT
* *
887390 AAAAGGGTGCCACAGAGTTGTGGACTT
1 AAAAGAGTGCCACGGAGTTGTGGACTT
887417 TGAGAAGAGA
Statistics
Matches: 327, Mismatches: 49, Indels: 59
0.75 0.11 0.14
Matches are distributed among these distances:
59 5 0.02
60 86 0.26
61 122 0.37
62 11 0.03
63 5 0.02
66 4 0.01
67 22 0.07
68 66 0.20
69 6 0.02
ACGTcount: A:0.36, C:0.12, G:0.31, T:0.21
Consensus pattern (60 bp):
AAAAGAGTGCCACGGAGTTGTGGACTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTT
Found at i:887043 original size:27 final size:27
Alignment explanation
Indices: 886985--887044 Score: 102
Period size: 27 Copynumber: 2.2 Consensus size: 27
886975 CTTTAAAAAG
*
886985 AAAAAGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
887012 AAAAGGGTGCCATGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
887039 AAAAGG
1 AAAAGG
887045 AAAAAGAGTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.32, C:0.12, G:0.35, T:0.22
Consensus pattern (27 bp):
AAAAGGGTGCCACGGAGTTGTGGACTT
Found at i:887152 original size:27 final size:27
Alignment explanation
Indices: 887114--887416 Score: 165
Period size: 27 Copynumber: 10.0 Consensus size: 27
887104 TTTAAAAAGA
*
887114 AAAAAGGTGCCACGGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
887141 AAAAGGGTGCCACGGAGTTATGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
* **
887168 AAAAGGAAAAAGATACCACAAAGTTGTGGACTT
1 AAAAGG-----G-TGCCACGGAGTTGTGGACTT
* **
887201 AAAAGGGTACCACAAAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
* * *
887228 AAAAGGAAACAAATGCCACGGAGTTATGGGCTTT
1 AAAAGG------GTGCCACGGAGTTGTGGAC-TT
887262 AAAAAGAAAAAGGTGCCACGGAGTTGTGGACTT
1 -AAAAG-----GGTGCCACGGAGTTGTGGACTT
* *
887295 AAAAGGGTGCCACAGAGTTGTGGATTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
*
887322 AAAAGAAAAAAAGGTGCCACGGAGTTGTGGGCTTT
1 AAAAG-------GGTGCCACGGAGTTGTGGAC-TT
*
887357 AAAAAGAAAAAGGTGCCATGGAGTTGTGGACTT
1 -AAAAG-----GGTGCCACGGAGTTGTGGACTT
*
887390 AAAAGGGTGCCACAGAGTTGTGGACTT
1 AAAAGGGTGCCACGGAGTTGTGGACTT
887417 TGAGAAGAGA
Statistics
Matches: 224, Mismatches: 24, Indels: 56
0.74 0.08 0.18
Matches are distributed among these distances:
27 102 0.46
28 1 0.00
32 11 0.05
33 39 0.17
34 58 0.26
35 7 0.03
36 5 0.02
40 1 0.00
ACGTcount: A:0.36, C:0.13, G:0.30, T:0.21
Consensus pattern (27 bp):
AAAAGGGTGCCACGGAGTTGTGGACTT
Found at i:887198 original size:33 final size:33
Alignment explanation
Indices: 887156--887300 Score: 124
Period size: 33 Copynumber: 4.5 Consensus size: 33
887146 GGTGCCACGG
*
887156 AGTTATGGACTTAAAAGGAAAAAGATACCACAA
1 AGTTGTGGACTTAAAAGGAAAAAGATACCACAA
887189 AGTTGTGGACTTAAAAGG-----G-TACCACAA
1 AGTTGTGGACTTAAAAGGAAAAAGATACCACAA
* **
887216 AGTTGTGGACTTAAAAGGAAACAA-ATGCCACGG
1 AGTTGTGGACTTAAAAGGAAA-AAGATACCACAA
* * * * * **
887249 AGTTATGGGCTTTAAAAAGAAAAAGGTGCCACGG
1 AGTTGTGGAC-TTAAAAGGAAAAAGATACCACAA
887283 AGTTGTGGACTTAAAAGG
1 AGTTGTGGACTTAAAAGG
887301 GTGCCACAGA
Statistics
Matches: 92, Mismatches: 11, Indels: 18
0.76 0.09 0.15
Matches are distributed among these distances:
27 26 0.28
28 1 0.01
33 39 0.42
34 26 0.28
ACGTcount: A:0.41, C:0.12, G:0.26, T:0.21
Consensus pattern (33 bp):
AGTTGTGGACTTAAAAGGAAAAAGATACCACAA
Found at i:887279 original size:34 final size:34
Alignment explanation
Indices: 887216--887393 Score: 171
Period size: 34 Copynumber: 5.5 Consensus size: 34
887206 GGTACCACAA
* * *
887216 AGTTGTGGAC-TTAAAAGGAAACAA-ATGCCACGG
1 AGTTGTGGGCTTTAAAAAGAAA-AAGGTGCCACGG
*
887249 AGTTATGGGCTTTAAAAAGAAAAAGGTGCCACGG
1 AGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGG
* *
887283 AGTTGTGGAC-TT-AAAAG-----GGTGCCACAG
1 AGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGG
* *
887310 AGTTGT-GGATTTAAAAGAAAAAAAGGTGCCACGG
1 AGTTGTGGGCTTTAAAA-AGAAAAAGGTGCCACGG
*
887344 AGTTGTGGGCTTTAAAAAGAAAAAGGTGCCATGG
1 AGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGG
*
887378 AGTTGTGGAC-TTAAAA
1 AGTTGTGGGCTTTAAAA
887394 GGGTGCCACA
Statistics
Matches: 119, Mismatches: 15, Indels: 22
0.76 0.10 0.14
Matches are distributed among these distances:
26 1 0.01
27 17 0.14
28 3 0.03
29 1 0.01
32 5 0.04
33 18 0.15
34 65 0.55
35 9 0.08
ACGTcount: A:0.37, C:0.11, G:0.30, T:0.22
Consensus pattern (34 bp):
AGTTGTGGGCTTTAAAAAGAAAAAGGTGCCACGG
Found at i:887440 original size:31 final size:31
Alignment explanation
Indices: 887397--887983 Score: 625
Period size: 31 Copynumber: 18.7 Consensus size: 31
887387 CTTAAAAGGG
* * *
887397 TGCCACAGAGTTGTGGACTTTG-AGAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
* *
887427 TTGCCACTAAGTTGTGGACTTTG-AGAAAAGAGA
1 -TGCCACTGAGTCGTGGACTTTGAAG-AAA-AGA
* *
887460 TGCCACTGAGTTGTGGACTTTG-AGAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
*
887490 TGCCACTGAGTCATGGACTTTGAAGAAAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAG--AAAAGA
*
887523 TGCCACTGAGTCGTGGACTTGGAAGAAAAGGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAA-GA
* * *
887555 TGCCACTGAGTCGTGGACTTAGTA-AAGAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
* *
887585 TGCCACTAAGTTGTGGACTTTGAAGAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
* *
887616 TGCCACTGAGTCGTGGACTTTG-GGAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
* *
887646 TGCCACTGAGTCATGGACTTTGAAGAAAGGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
**
887677 TGCCACTGAGTTATGGACTTTGAAGAAAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAG--AAAAGA
*
887710 TGCCACTGAGTCGTGGACTTGGAAGAAAAGGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAA-GA
*
887742 TGCCACTGAGTCGTGGACTTAGAA-AAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
*
887772 TGCCACTGAGTTGTGGACTTTGAAGAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
* * *
887803 TGTCACTGAGTCGTGGACTTTG-GGAAGAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
* * *
887833 TGCCATTGAGTCGTGGATTTTAAAGAAAAGA
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
* *
887864 TGCCACTGAGTCGTGGATTTTGGGAAGAGAAGGA
1 TGCCACTGAGTCGTGGACTTT--GAAGA-AAAGA
* ** *
887898 TGCCACTGAGTCATGGACTTAAAAGGAAAATA
1 TGCCACTGAGTCGTGGACTTTGAA-GAAAAGA
* * * *
887930 GTGCCA-TGGATTTGTGGACTTAGAA-AAGAGA
1 -TGCCACT-GAGTCGTGGACTTTGAAGAAAAGA
887961 TGCCACTGAGTCGTGGACTTTGA
1 TGCCACTGAGTCGTGGACTTTGA
887984 GAAGAAAGAT
Statistics
Matches: 474, Mismatches: 62, Indels: 41
0.82 0.11 0.07
Matches are distributed among these distances:
30 138 0.29
31 152 0.32
32 80 0.17
33 82 0.17
34 22 0.05
ACGTcount: A:0.32, C:0.14, G:0.30, T:0.24
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTGAAGAAAAGA
Found at i:887495 original size:249 final size:248
Alignment explanation
Indices: 887060--887542 Score: 568
Period size: 249 Copynumber: 1.9 Consensus size: 248
887050 GAGTGCAATG
* * *
887060 GAGTTGTGGGCTTAAAAGGAAAAAGAGTGCCATGCAGTTTGGGCTTTAAAAAGAAAAAAGGTGCC
1 GAGTTGTGGACTTAAAAGAAAAAAGAGTGCCACGCAGTTTGGGCTTTAAAAAGAAAAAAGGTGCC
*
887125 ACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTATGGACTTAAAAGGAAAAAGATACCACAAA
66 ACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTATGGACTTAAAAGGAAAAAGATACCACAAA
* *
887190 GTTGTGGACTTAAAAGGGTACCACAAAGTTGTGGACTTAAAAGGAAACAAATGCCACGGAGTTAT
131 GTTGTGGACTTAAAAGGATACCACAAAGTTGTGGACTTAAAAGGAAACAAATGCCACGGAGTCAT
* * *
887255 GGGCTTTAAAAAGAAAAAGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACA
196 GGACTTTAAAAA-AAAAAGATGCCACGGAGTCGTGGACTTAAAAGGGTGCCACA
* *
887309 GAGTTGTGGATTTAAAAGAAAAAA-AGGTGCCACGGAGTTGTGGGCTTTAAAAAG-AAAAAGGTG
1 GAGTTGTGGACTTAAAAGAAAAAAGA-GTGCCACGCAGTT-TGGGCTTTAAAAAGAAAAAAGGTG
* * ** * *
887372 CCATGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTT-TGA-G-AAGAGATTGCCAC
64 CCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTATGGACTTAAAAGGAAAAAGA-TACCAC
* * ** ** * *
887434 TAAGTTGTGGACTTTGAGAAAAGAGATGCCACTGAGTTGTGGACTT-TGA-G-AAGAGATGCCAC
128 AAAGTTGTGGAC-TT---AAAAG-GATACCACAAAGTTGTGGACTTAAAAGGAAACAAATGCCAC
* * * *
887496 TGAGTCATGGACTTTGAAGAAAAAAGATGCCACTGAGTCGTGGACTT
188 GGAGTCATGGACTTTAAAAAAAAAAGATGCCACGGAGTCGTGGACTT
887543 GGAAGAAAAG
Statistics
Matches: 197, Mismatches: 29, Indels: 17
0.81 0.12 0.07
Matches are distributed among these distances:
246 5 0.03
247 17 0.09
248 28 0.14
249 108 0.55
250 15 0.08
251 6 0.03
252 18 0.09
ACGTcount: A:0.35, C:0.13, G:0.30, T:0.22
Consensus pattern (248 bp):
GAGTTGTGGACTTAAAAGAAAAAAGAGTGCCACGCAGTTTGGGCTTTAAAAAGAAAAAAGGTGCC
ACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTATGGACTTAAAAGGAAAAAGATACCACAAA
GTTGTGGACTTAAAAGGATACCACAAAGTTGTGGACTTAAAAGGAAACAAATGCCACGGAGTCAT
GGACTTTAAAAAAAAAAGATGCCACGGAGTCGTGGACTTAAAAGGGTGCCACA
Found at i:887631 original size:61 final size:61
Alignment explanation
Indices: 887364--887983 Score: 633
Period size: 61 Copynumber: 10.0 Consensus size: 61
887354 TTTAAAAAGA
* * * * *
887364 AAAAGGTGCCA-TGGAGTTGTGGACTT--AAAAG-GGTGCCACAGAGTTGTGGACTTTG-AG
1 AAAAGATGCCACT-GAGTCGTGGACTTAGAAAAGAGATGCCACTGAGTCGTGGACTTTGAAG
* * * *
887421 AAGAGATTGCCACTAAGTTGTGGACTTTGAGAAAAGAGATGCCACTGAGTTGTGGACTTTG-AG
1 AAAAGA-TGCCACTGAGTCGTGGAC-TT-AGAAAAGAGATGCCACTGAGTCGTGGACTTTGAAG
* * * *
887484 AAGAGATGCCACTGAGTCATGGACTTTGAAGAAAAAAGATGCCACTGAGTCGTGGACTTGGAAG
1 AAAAGATGCCACTGAGTCGTGGAC-TT--AGAAAAGAGATGCCACTGAGTCGTGGACTTTGAAG
* * *
887548 AAAAGGATGCCACTGAGTCGTGGACTTAGTAAAGAGATGCCACTAAGTTGTGGACTTTGAAG
1 AAAA-GATGCCACTGAGTCGTGGACTTAGAAAAGAGATGCCACTGAGTCGTGGACTTTGAAG
* ** *
887610 AAAAGATGCCACTGAGTCGTGGACTTTGGGAAGAGATGCCACTGAGTCATGGACTTTGAAG
1 AAAAGATGCCACTGAGTCGTGGACTTAGAAAAGAGATGCCACTGAGTCGTGGACTTTGAAG
* ** * *
887671 AAAGGATGCCACTGAGTTATGGACTTTGAAGAAAAAAGATGCCACTGAGTCGTGGACTTGGAAG
1 AAAAGATGCCACTGAGTCGTGGAC-TT--AGAAAAGAGATGCCACTGAGTCGTGGACTTTGAAG
* *
887735 AAAAGGATGCCACTGAGTCGTGGACTTAGAAAAAAGATGCCACTGAGTTGTGGACTTTGAAG
1 AAAA-GATGCCACTGAGTCGTGGACTTAGAAAAGAGATGCCACTGAGTCGTGGACTTTGAAG
* * ** * * *
887797 AAAAGATGTCACTGAGTCGTGGACTTTGGGAAGAGATGCCATTGAGTCGTGGATTTTAAAG
1 AAAAGATGCCACTGAGTCGTGGACTTAGAAAAGAGATGCCACTGAGTCGTGGACTTTGAAG
* * * * **
887858 AAAAGATGCCACTGAGTCGTGGATTTTGGGAAGAGAAGGATGCCACTGAGTCATGGACTTAAAAG
1 AAAAGATGCCACTGAGTCGTGGA-CTT-AGAAAAG-A-GATGCCACTGAGTCGTGGACTTTGAA-
887923 G
61 G
* * *
887924 AAAATAGTGCCA-TGGATTTGTGGACTTAGAAAAGAGATGCCACTGAGTCGTGGACTTTGA
1 AAAAGA-TGCCACT-GAGTCGTGGACTTAGAAAAGAGATGCCACTGAGTCGTGGACTTTGA
887984 GAAGAAAGAT
Statistics
Matches: 475, Mismatches: 67, Indels: 36
0.82 0.12 0.06
Matches are distributed among these distances:
57 4 0.01
58 15 0.03
59 3 0.01
61 142 0.30
62 98 0.21
63 84 0.18
64 43 0.09
65 64 0.13
66 9 0.02
67 13 0.03
ACGTcount: A:0.32, C:0.14, G:0.30, T:0.24
Consensus pattern (61 bp):
AAAAGATGCCACTGAGTCGTGGACTTAGAAAAGAGATGCCACTGAGTCGTGGACTTTGAAG
Found at i:887654 original size:156 final size:153
Alignment explanation
Indices: 887390--887993 Score: 646
Period size: 156 Copynumber: 3.8 Consensus size: 153
887380 TTGTGGACTT
* * * * *
887390 AAAAGGGTGCCACAGAGTTGTGGACTTTGAGAAGAGATTGCCACTAAGTTGTGGACTTTGAGAA-
1 AAAAGGATGCCACTGAGTCGTGGACTTAGA-AAGAGA-TGCCACTAAGTCGTGGAC-TT-AGAAG
*
887454 AAGAGATGCCACTGAGTTGTGGACTTTGAGAAGAGATGCCACTGAGTCATGGACTTTGAAGAAAA
62 AAAAGATGCCACTGAGTTGTGGACTTTGAGAAGAGATGCCACTGAGTCATGGACTTTG-AG-AAA
*
887519 AAGATGCCACTGAGTCGTGGACTTGGAAG
125 AAGATGCCACTGAGTCGTGGACTTTGAAG
* *
887548 AAAAGGATGCCACTGAGTCGTGGACTTAGTAAAGAGATGCCACTAAGTTGTGGACTTTGAAGAAA
1 AAAAGGATGCCACTGAGTCGTGGACTTAG-AAAGAGATGCCACTAAGTCGTGGACTTAGAAGAAA
* * *
887613 AGATGCCACTGAGTCGTGGACTTTGGGAAGAGATGCCACTGAGTCATGGACTTTGA-AGAAAGGA
65 AGATGCCACTGAGTTGTGGACTTTGAGAAGAGATGCCACTGAGTCATGGACTTTGAGA-AAAAGA
**
887677 TGCCACTGAGTTATGGACTTTGAAG
129 TGCCACTGAGTCGTGGACTTTGAAG
* *
887702 AAAAAAGATGCCACTGAGTCGTGGACTTGGAAGAAA-AGGATGCCACTGAGTCGTGGACTTAGAA
1 -AAAAGGATGCCACTGAGTCGTGGACTT---AGAAAGA-GATGCCACTAAGTCGTGGACTTAGAA
* * * *
887766 -AAAAGATGCCACTGAGTTGTGGACTTTGAAGAAAAGATGTCACTGAGTCGTGGACTTTG-GGAA
61 GAAAAGATGCCACTGAGTTGTGGACTTTG-AGAAGAGATGCCACTGAGTCATGGACTTTGAGAAA
* * * *
887829 GAGATGCCATTGAGTCGTGGATTTTAAAG
125 AAGATGCCACTGAGTCGTGGACTTTGAAG
* * * * *
887858 AAAA-GATGCCACTGAGTCGTGGATTTTGGGAAGAGAAGGATGCCACTGAGTCATGGACTTAAAA
1 AAAAGGATGCCACTGAGTCGTGGA-CTT-AGAA-AG-A-GATGCCACTAAGTCGTGGACTTAGAA
* * * * *
887922 GGAAAATAGTGCCA-TGGATTTGTGGACTTAGAAAAGAGATGCCACTGAGTCGTGGACTTTGAGA
61 -GAAAAGA-TGCCACT-GAGTTGTGGACTTTGAGAAGAGATGCCACTGAGTCATGGACTTTGAGA
887986 AGAAAGAT
123 A-AAAGAT
887994 TTGAAGAATT
Statistics
Matches: 384, Mismatches: 42, Indels: 38
0.83 0.09 0.08
Matches are distributed among these distances:
153 4 0.01
154 47 0.12
155 36 0.09
156 135 0.35
157 70 0.18
158 66 0.17
159 21 0.05
160 5 0.01
ACGTcount: A:0.32, C:0.14, G:0.30, T:0.24
Consensus pattern (153 bp):
AAAAGGATGCCACTGAGTCGTGGACTTAGAAAGAGATGCCACTAAGTCGTGGACTTAGAAGAAAA
GATGCCACTGAGTTGTGGACTTTGAGAAGAGATGCCACTGAGTCATGGACTTTGAGAAAAAGATG
CCACTGAGTCGTGGACTTTGAAG
Found at i:887708 original size:187 final size:187
Alignment explanation
Indices: 887364--887983 Score: 796
Period size: 187 Copynumber: 3.3 Consensus size: 187
887354 TTTAAAAAGA
* *
887364 AAAAGG-TGCCATGGAGTTGTGGACTT--AAAAG-GGTGCCAC-AGAGTTGTGGACTTTG-AGAA
1 AAAAGGATGCCATGGAGTCGTGGACTTAGAAAAGAGATGCCACTA-AGTTGTGGACTTTGAAGAA
* * * * *
887423 GAGATTGCCACTAAGTTGTGGACTTTGAGAAAAGAGATGCCACTGAGTTGTGGACTTTG-AG-AA
65 AAGA-TGCCACTGAGTCGTGGACTTTG-G-GAAGAGATGCCACTGAGTCGTGGACTTTGAAGAAA
887486 GAGATGCCACTGAGTCATGGACTTTGAAGAAAAAAGATGCCACTGAGTCGTGGACTTGGAAG
127 G-GATGCCACTGAGTCATGGACTTTGAAGAAAAAAGATGCCACTGAGTCGTGGACTTGGAAG
*
887548 AAAAGGATGCCACT-GAGTCGTGGACTTAGTAAAGAGATGCCACTAAGTTGTGGACTTTGAAGAA
1 AAAAGGATGCCA-TGGAGTCGTGGACTTAGAAAAGAGATGCCACTAAGTTGTGGACTTTGAAGAA
*
887612 AAGATGCCACTGAGTCGTGGACTTTGGGAAGAGATGCCACTGAGTCATGGACTTTGAAGAAAGGA
65 AAGATGCCACTGAGTCGTGGACTTTGGGAAGAGATGCCACTGAGTCGTGGACTTTGAAGAAAGGA
*
887677 TGCCACTGAGTTATGGACTTTGAAGAAAAAAGATGCCACTGAGTCGTGGACTTGGAAG
130 TGCCACTGAGTCATGGACTTTGAAGAAAAAAGATGCCACTGAGTCGTGGACTTGGAAG
* *
887735 AAAAGGATGCCACT-GAGTCGTGGACTTAGAAAAAAGATGCCACTGAGTTGTGGACTTTGAAGAA
1 AAAAGGATGCCA-TGGAGTCGTGGACTTAGAAAAGAGATGCCACTAAGTTGTGGACTTTGAAGAA
* * * * *
887799 AAGATGTCACTGAGTCGTGGACTTTGGGAAGAGATGCCATTGAGTCGTGGATTTTAAAGAAAAGA
65 AAGATGCCACTGAGTCGTGGACTTTGGGAAGAGATGCCACTGAGTCGTGGACTTTGAAGAAAGGA
* * * * * **
887864 TGCCACTGAGTCGTGGATTTTGGGAAG-AGAAGGATGCCACTGAGTCATGGACTTAAAAGG
130 TGCCACTGAGTCATGGACTTT--GAAGAAAAAAGATGCCACTGAGTCGTGGACTTGGAA-G
* * * * *
887924 AAAA-TAGTGCCATGGATTTGTGGACTTAGAAAAGAGATGCCACTGAGTCGTGGACTTTGA
1 AAAAGGA-TGCCATGGAGTCGTGGACTTAGAAAAGAGATGCCACTAAGTTGTGGACTTTGA
887984 GAAGAAAGAT
Statistics
Matches: 390, Mismatches: 32, Indels: 23
0.88 0.07 0.05
Matches are distributed among these distances:
184 6 0.02
185 17 0.04
186 27 0.07
187 204 0.52
188 72 0.18
189 64 0.16
ACGTcount: A:0.32, C:0.14, G:0.30, T:0.24
Consensus pattern (187 bp):
AAAAGGATGCCATGGAGTCGTGGACTTAGAAAAGAGATGCCACTAAGTTGTGGACTTTGAAGAAA
AGATGCCACTGAGTCGTGGACTTTGGGAAGAGATGCCACTGAGTCGTGGACTTTGAAGAAAGGAT
GCCACTGAGTCATGGACTTTGAAGAAAAAAGATGCCACTGAGTCGTGGACTTGGAAG
Found at i:888684 original size:31 final size:26
Alignment explanation
Indices: 888641--888706 Score: 78
Period size: 31 Copynumber: 2.3 Consensus size: 26
888631 AAAGGCTTGC
*
888641 TTGACAATAAAGATGATATGGTTTGATTTAT
1 TTGACAAAAAAGAT-A-ATGGTTTG--TT-T
888672 TTGACAAAAAAGATAATGGTTTGTTT
1 TTGACAAAAAAGATAATGGTTTGTTT
888698 TTGACAAAA
1 TTGACAAAA
888707 TGGTTTAAGG
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
26 10 0.29
27 2 0.06
29 8 0.24
30 1 0.03
31 13 0.38
ACGTcount: A:0.39, C:0.05, G:0.18, T:0.38
Consensus pattern (26 bp):
TTGACAAAAAAGATAATGGTTTGTTT
Found at i:889289 original size:17 final size:16
Alignment explanation
Indices: 889269--889309 Score: 57
Period size: 15 Copynumber: 2.6 Consensus size: 16
889259 GCCTTTGCAC
889269 TTTTTTTTATGTGTTGT
1 TTTTTTTTAT-TGTTGT
*
889286 TTTTTTTT-TTGTTTT
1 TTTTTTTTATTGTTGT
889301 TTTTTTTTA
1 TTTTTTTTA
889310 CTTTTTCATC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 13 0.59
16 1 0.05
17 8 0.36
ACGTcount: A:0.05, C:0.00, G:0.10, T:0.85
Consensus pattern (16 bp):
TTTTTTTTATTGTTGT
Found at i:889297 original size:12 final size:12
Alignment explanation
Indices: 889282--889307 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
889272 TTTTTATGTG
889282 TTGTTTTTTTTT
1 TTGTTTTTTTTT
889294 TTGTTTTTTTTT
1 TTGTTTTTTTTT
889306 TT
1 TT
889308 TACTTTTTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (12 bp):
TTGTTTTTTTTT
Found at i:899959 original size:51 final size:52
Alignment explanation
Indices: 899901--900019 Score: 138
Period size: 51 Copynumber: 2.3 Consensus size: 52
899891 AATAACAGGA
* *
899901 TTGGAGTATCCCT-GAATGTGAAAAATT-A-GTTTTTTGAAAATAAAACTGGGG
1 TTGGAGTATCCCTCGAATGTGAAAAATTGATG-TTTTAG-AAATAAAACTGAGG
* * *
899952 TTGGAGTAT-CCTCGATTGTGACAAATTGATGTTTTAGAAATAAAGCTGAGG
1 TTGGAGTATCCCTCGAATGTGAAAAATTGATGTTTTAGAAATAAAACTGAGG
*
900003 TTGGAGTACCCCTCGAA
1 TTGGAGTATCCCTCGAA
900020 AATAACAGGG
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
50 3 0.05
51 41 0.72
52 12 0.21
53 1 0.02
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.32
Consensus pattern (52 bp):
TTGGAGTATCCCTCGAATGTGAAAAATTGATGTTTTAGAAATAAAACTGAGG
Found at i:900055 original size:129 final size:129
Alignment explanation
Indices: 899824--900074 Score: 288
Period size: 129 Copynumber: 1.9 Consensus size: 129
899814 GGTGTCTACA
* * ** *
899824 TGGAGTATCCCCAATTATGAAAAATCAATGTTTTAGAAATAAGGCAGGGGTTGAAGTTTCTCTCG
1 TGGAGTATCCCCAATTATGAAAAATCAATGTTTTAGAAATAAAGCAGAGGTTGAAGTACCCCTCG
* * * * *
899889 AAAATAACAGGATTGGAGTATCCCTGAATGTGAAAAATTAGTTTTTTGAAAATAAAACTGGGGT
66 AAAATAACAGGATTAGAGTATCCCCGAATGCGAAAAATCAGTGTTTTGAAAATAAAACTGGGGT
* * * * ** * *
899953 TGGAGTATCCTCGATTGTGACAAATTGATGTTTTAGAAATAAAGCTGAGGTTGGAGTACCCCTCG
1 TGGAGTATCCCCAATTATGAAAAATCAATGTTTTAGAAATAAAGCAGAGGTTGAAGTACCCCTCG
* * * *
900018 AAAATAACAGGGTTAGAGTATCCCCG-ATGGCGGAAAATCGGTGTTTTGGAAATAAAA
66 AAAATAACAGGATTAGAGTATCCCCGAAT-GCGAAAAATCAGTGTTTTGAAAATAAAA
900075 TCAAAGTAGG
Statistics
Matches: 99, Mismatches: 22, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
128 2 0.02
129 97 0.98
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (129 bp):
TGGAGTATCCCCAATTATGAAAAATCAATGTTTTAGAAATAAAGCAGAGGTTGAAGTACCCCTCG
AAAATAACAGGATTAGAGTATCCCCGAATGCGAAAAATCAGTGTTTTGAAAATAAAACTGGGGT
Found at i:900230 original size:79 final size:78
Alignment explanation
Indices: 899948--900232 Score: 286
Period size: 80 Copynumber: 3.6 Consensus size: 78
899938 AAATAAAACT
* * * *
899948 GGGGTTGGAGTATCCTCGATTGT-GACAAATTGATGTTTTAGAAATAAAG-CTGAGGTTGGAGTA
1 GGGGTTAGAGTATCCCCGATGGTGGA-AAATCGATGTTTTAGAAATAAAGTC-GAGGTTGGAGTA
* *
900011 CCCCTCGAAAATAAC
64 TCCCTCAAAAATAAC
* * * * * * * *
900026 AGGGTTAGAGTATCCCCGATGGCGGAAAATCGGTGTTTTGGAAATAAAATCAAAGTAGGAGTATC
1 GGGGTTAGAGTATCCCCGATGGTGGAAAATCGATGTTTTAGAAATAAAGTCGAGGTTGGAGTATC
*
900091 CCTTCAAAAAAAAAC
66 CC-TC-AAAAATAAC
* * * * *
900106 GGGGTTAGAGTATCCCCGATTGTGAAAAATCGATATTTTAAAAATAAAGTCGGGGTTGGAGTATC
1 GGGGTTAGAGTATCCCCGATGGTGGAAAATCGATGTTTTAGAAATAAAGTCGAGGTTGGAGTATC
*
900171 TCCTCAAAAATAAT
66 -CCTCAAAAATAAC
* * * *
900185 GGGGTTGGAGTATCCCCGATGGTGGAAAATTGGTGTTTTGGAAATAAA
1 GGGGTTAGAGTATCCCCGATGGTGGAAAATCGATGTTTTAGAAATAAA
900233 AACATCAATA
Statistics
Matches: 164, Mismatches: 38, Indels: 9
0.78 0.18 0.04
Matches are distributed among these distances:
78 49 0.30
79 52 0.32
80 61 0.37
81 2 0.01
ACGTcount: A:0.34, C:0.13, G:0.26, T:0.27
Consensus pattern (78 bp):
GGGGTTAGAGTATCCCCGATGGTGGAAAATCGATGTTTTAGAAATAAAGTCGAGGTTGGAGTATC
CCTCAAAAATAAC
Found at i:900231 original size:159 final size:159
Alignment explanation
Indices: 899937--900233 Score: 427
Period size: 159 Copynumber: 1.9 Consensus size: 159
899927 TAGTTTTTTG
* * * * * * *
899937 AAAATAAAACTGGGGTTGGAGTATCCTCGATTGTGACAAATTGATGTTTTAGAAATAAAGCTGAG
1 AAAAAAAAACTGGGGTTAGAGTATCCCCGATTGTGAAAAATCGATATTTTAAAAATAAAGCTGAG
*
900002 GTTGGAGTACCCCTCGAAAATAACAGGGTTAGAGTATCCCCGATGGCGGAAAATCGGTGTTTTGG
66 GTTGGAGTACCCCTCAAAAATAACAGGGTTAGAGTATCCCCGATGGCGGAAAATCGGTGTTTTGG
900067 AAATAAAATCAAAGTAGGAGTATCCCTTC
131 AAATAAAATCAAAGTAGGAGTATCCCTTC
*
900096 AAAAAAAAAC-GGGGTTAGAGTATCCCCGATTGTGAAAAATCGATATTTTAAAAATAAAG-TCGG
1 AAAAAAAAACTGGGGTTAGAGTATCCCCGATTGTGAAAAATCGATATTTTAAAAATAAAGCT-GA
* ** * * *
900159 GGTTGGAGTATCTCCTCAAAAATAATGGGGTTGGAGTATCCCCGATGGTGGAAAATTGGTGTTTT
65 GGTTGGAGTA-CCCCTCAAAAATAACAGGGTTAGAGTATCCCCGATGGCGGAAAATCGGTGTTTT
900224 GGAAATAAAA
129 GGAAATAAAA
900234 ACATCAATAA
Statistics
Matches: 121, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
157 1 0.01
158 54 0.45
159 66 0.55
ACGTcount: A:0.35, C:0.13, G:0.25, T:0.27
Consensus pattern (159 bp):
AAAAAAAAACTGGGGTTAGAGTATCCCCGATTGTGAAAAATCGATATTTTAAAAATAAAGCTGAG
GTTGGAGTACCCCTCAAAAATAACAGGGTTAGAGTATCCCCGATGGCGGAAAATCGGTGTTTTGG
AAATAAAATCAAAGTAGGAGTATCCCTTC
Found at i:905566 original size:9 final size:9
Alignment explanation
Indices: 905553--905637 Score: 64
Period size: 10 Copynumber: 8.8 Consensus size: 9
905543 AAATAATGAA
905553 AAAAATAAAC
1 AAAAA-AAAC
905563 AAAACGAAAAAC
1 AAAA--AA-AAC
905575 AAAAAAAAC
1 AAAAAAAAC
905584 -AAAAAAAC
1 AAAAAAAAC
*
905592 AAAAAGAAAA
1 AAAAA-AAAC
*
905602 AGAAAAAAAG
1 A-AAAAAAAC
*
905612 AGAAAAAAC
1 AAAAAAAAC
*
905621 AAAAAACAAG
1 AAAAAA-AAC
905631 AAAAAAA
1 AAAAAAA
905638 GGTGTAAAGG
Statistics
Matches: 62, Mismatches: 6, Indels: 15
0.75 0.07 0.18
Matches are distributed among these distances:
8 8 0.13
9 19 0.31
10 22 0.35
11 5 0.08
12 8 0.13
ACGTcount: A:0.84, C:0.08, G:0.07, T:0.01
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:905582 original size:16 final size:15
Alignment explanation
Indices: 905553--905635 Score: 78
Period size: 15 Copynumber: 5.3 Consensus size: 15
905543 AAATAATGAA
* *
905553 AAAAATAAACAAAACG
1 AAAAACAAA-AAAAAG
*
905569 AAAAACAAAAAAAAC
1 AAAAACAAAAAAAAG
*
905584 AAAAA-AACAAAAAG
1 AAAAACAAAAAAAAG
*
905598 AAAAAGAAAAAAAGAG
1 AAAAACAAAAAAA-AG
905614 AAAAAACAAAAAACAAG
1 -AAAAACAAAAAA-AAG
905631 AAAAA
1 AAAAA
905636 AAGGTGTAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
14 12 0.21
15 15 0.27
16 15 0.27
17 13 0.23
18 1 0.02
ACGTcount: A:0.83, C:0.08, G:0.07, T:0.01
Consensus pattern (15 bp):
AAAAACAAAAAAAAG
Found at i:905589 original size:17 final size:17
Alignment explanation
Indices: 905551--905636 Score: 70
Period size: 17 Copynumber: 4.9 Consensus size: 17
905541 AAAAATAATG
* *
905551 AAAAAAATAAACAAAAC
1 AAAAAAACAAAAAAAAC
*
905568 -GAAAAACAAAAAAAAC
1 AAAAAAACAAAAAAAAC
905584 AAAAAAACAAAAAGAAA-
1 AAAAAAACAAAAA-AAAC
*
905601 AAGAAAAAAAGAGAAAAAAC
1 AA-AAAAACA-A-AAAAAAC
905621 -AAAAAACAAGAAAAAA
1 AAAAAAACAA-AAAAAA
905637 AGGTGTAAAG
Statistics
Matches: 57, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
16 13 0.23
17 21 0.37
18 15 0.26
19 5 0.09
20 3 0.05
ACGTcount: A:0.84, C:0.08, G:0.07, T:0.01
Consensus pattern (17 bp):
AAAAAAACAAAAAAAAC
Found at i:905592 original size:29 final size:29
Alignment explanation
Indices: 905553--905625 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
905543 AAATAATGAA
*
905553 AAAAATAAACAAAACGAAAAACAAAAAAA-
1 AAAAA-AAACAAAAAGAAAAACAAAAAAAG
*
905582 ACAAAAAAACAAAAAGAAAAAGAAAAAAAG
1 A-AAAAAAACAAAAAGAAAAACAAAAAAAG
*
905612 AGAAAAAACAAAAA
1 AAAAAAAACAAAAA
905626 ACAAGAAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
29 34 0.87
30 5 0.13
ACGTcount: A:0.84, C:0.08, G:0.07, T:0.01
Consensus pattern (29 bp):
AAAAAAAACAAAAAGAAAAACAAAAAAAG
Found at i:907043 original size:66 final size:65
Alignment explanation
Indices: 906965--907234 Score: 293
Period size: 66 Copynumber: 4.2 Consensus size: 65
906955 CACTACTTAA
* *
906965 TGGCATCCTTTTTCTTCAAAGTCCATGACTCAGTGGCATCCTTTTTCTTCCTAA-CCCACGACTC
1 TGGCAT-CTTTTTCTTCCAAGTCCACGACTCAGTGGCATCCTTTTTCTTCC-AAGCCCACGACTC
907029 AG
64 AG
*
907031 TGGCATCATTTTTCTTCCAAGTCCACGACTCAGTGGCATCCTTTTTCTTCCAAGTCCACGACTCA
1 TGGCATC-TTTTTCTTCCAAGTCCACGACTCAGTGGCATCCTTTTTCTTCCAAGCCCACGACTCA
*
907096 A
65 G
* * * * *
907097 TGGCAT-TTTTT-TT-CAAGTCCACGACTTAGTGGCATCCTTTTTCTCCCAAAGCCCATGAATTA
1 TGGCATCTTTTTCTTCCAAGTCCACGACTCAGTGGCATCCTTTTTCTTCC-AAGCCCACGACTCA
907159 G
65 G
* * * ** * * *
907160 TGGCATC-TCTTC-TCCAAGTCCATGACTCAGTGGCACCCTTTTTCCTTTTAAGTCCACAACTCC
1 TGGCATCTTTTTCTTCCAAGTCCACGACTCAGTGGCATCCTTTTT-CTTCCAAGCCCACGACTCA
907223 G
65 G
907224 TGGCA-CTTTTT
1 TGGCATCTTTTT
907235 TAAGTCCATA
Statistics
Matches: 171, Mismatches: 25, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
62 32 0.19
63 23 0.13
64 48 0.28
65 5 0.03
66 63 0.37
ACGTcount: A:0.20, C:0.30, G:0.14, T:0.35
Consensus pattern (65 bp):
TGGCATCTTTTTCTTCCAAGTCCACGACTCAGTGGCATCCTTTTTCTTCCAAGCCCACGACTCAG
Found at i:907079 original size:99 final size:99
Alignment explanation
Indices: 906965--907203 Score: 287
Period size: 99 Copynumber: 2.5 Consensus size: 99
906955 CACTACTTAA
*
906965 TGGCATCCTTTTTCTTCAAAGTCCATGACTCAGTGGCATCCTTTTTCTTCCTAA-CCCACGACTC
1 TGGCATCCTTTTTCTTCCAAGTCCATGACTCAGTGGCATCCTTTTTCTT-C-AAGCCCACGACTC
* * *
907029 AGTGGCATCATTTTTCTTCC-AAGTCCACGACTCAG
64 AGTGGCATCATTTTTCTCCCAAAGCCCACGAATCAG
* * * *
907064 TGGCATCCTTTTTCTTCCAAGTCCACGACTCAATGGCAT--TTTTT-TTCAAGTCCACGACTTAG
1 TGGCATCCTTTTTCTTCCAAGTCCATGACTCAGTGGCATCCTTTTTCTTCAAGCCCACGACTCAG
* * *
907126 TGGCATCCTTTTTCTCCCAAAGCCCATGAATTAG
66 TGGCATCATTTTTCTCCCAAAGCCCACGAATCAG
* *
907160 TGGCAT-C-TCTTC-TCCAAGTCCATGACTCAGTGGCACCCTTTTTC
1 TGGCATCCTTTTTCTTCCAAGTCCATGACTCAGTGGCATCCTTTTTC
907204 CTTTTAAGTC
Statistics
Matches: 120, Mismatches: 15, Indels: 13
0.81 0.10 0.09
Matches are distributed among these distances:
93 21 0.17
94 6 0.05
95 33 0.28
96 19 0.16
97 5 0.04
99 36 0.30
ACGTcount: A:0.20, C:0.31, G:0.15, T:0.35
Consensus pattern (99 bp):
TGGCATCCTTTTTCTTCCAAGTCCATGACTCAGTGGCATCCTTTTTCTTCAAGCCCACGACTCAG
TGGCATCATTTTTCTCCCAAAGCCCACGAATCAG
Found at i:907115 original size:29 final size:32
Alignment explanation
Indices: 906965--907234 Score: 257
Period size: 33 Copynumber: 8.4 Consensus size: 32
906955 CACTACTTAA
* *
906965 TGGCATCCTTTTTCTTCAAAGTCCATGACTCAG
1 TGGCAT-CTTTTTCTTCCAAGTCCACGACTCAG
*
906998 TGGCATCCTTTTTCTTCCTAA-CCCACGACTCAG
1 TGGCAT-CTTTTTCTTCC-AAGTCCACGACTCAG
907031 TGGCATCATTTTTCTTCCAAGTCCACGACTCAG
1 TGGCATC-TTTTTCTTCCAAGTCCACGACTCAG
*
907064 TGGCATCCTTTTTCTTCCAAGTCCACGACTCAA
1 TGGCAT-CTTTTTCTTCCAAGTCCACGACTCAG
*
907097 TGGCAT-TTTTT-TT-CAAGTCCACGACTTAG
1 TGGCATCTTTTTCTTCCAAGTCCACGACTCAG
* * * * *
907126 TGGCATCCTTTTTCTCCCAAAGCCCATGAATTAG
1 TGGCAT-CTTTTTCTTCC-AAGTCCACGACTCAG
* *
907160 TGGCATC-TCTTC-TCCAAGTCCATGACTCAG
1 TGGCATCTTTTTCTTCCAAGTCCACGACTCAG
* ** * *
907190 TGGCACCCTTTTTCCTTTTAAGTCCACAACTCCG
1 TGGCA-TCTTTTT-CTTCCAAGTCCACGACTCAG
907224 TGGCA-CTTTTT
1 TGGCATCTTTTT
907235 TAAGTCCATA
Statistics
Matches: 201, Mismatches: 23, Indels: 27
0.80 0.09 0.11
Matches are distributed among these distances:
29 20 0.10
30 19 0.09
31 13 0.06
32 17 0.08
33 93 0.46
34 39 0.19
ACGTcount: A:0.20, C:0.30, G:0.14, T:0.35
Consensus pattern (32 bp):
TGGCATCTTTTTCTTCCAAGTCCACGACTCAG
Found at i:907240 original size:27 final size:27
Alignment explanation
Indices: 907205--907262 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
907195 CCCTTTTTCC
*
907205 TTTTAAGTCCACAACTCCGTGGCACTT
1 TTTTAAGTCCACAACTCCGTGGCACCT
* * *
907232 TTTTAAGTCCATAGCTTCGTGGCACCT
1 TTTTAAGTCCACAACTCCGTGGCACCT
907259 TTTT
1 TTTT
907263 CTTTTCAAAG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.19, C:0.26, G:0.16, T:0.40
Consensus pattern (27 bp):
TTTTAAGTCCACAACTCCGTGGCACCT
Found at i:907343 original size:27 final size:27
Alignment explanation
Indices: 907305--907418 Score: 104
Period size: 27 Copynumber: 4.0 Consensus size: 27
907295 TTTCCTCCAA
*
907305 AAGTCCACAACTCAATGGCACCCTTTT
1 AAGTCCACAACTCTATGGCACCCTTTT
907332 AAGTCCACAACTCTATGGCACCTTGTTCCTTTT
1 AAGTCCACAACTCTATGGCA-C-----CCTTTT
* * *
907365 AAGCCCACAACT-TCGTGGCACCATTTT
1 AAGTCCACAACTCT-ATGGCACCCTTTT
* *
907392 AAGTCCACAACTCTGTGGCACCTTTTT
1 AAGTCCACAACTCTATGGCACCCTTTT
907419 CTTTTCAAAG
Statistics
Matches: 73, Mismatches: 6, Indels: 16
0.77 0.06 0.17
Matches are distributed among these distances:
27 47 0.64
28 2 0.03
32 2 0.03
33 22 0.30
ACGTcount: A:0.25, C:0.32, G:0.13, T:0.31
Consensus pattern (27 bp):
AAGTCCACAACTCTATGGCACCCTTTT
Found at i:907375 original size:60 final size:60
Alignment explanation
Indices: 907304--907520 Score: 206
Period size: 68 Copynumber: 3.5 Consensus size: 60
907294 TTTTCCTCCA
* *
907304 AAAGTCCACAAC-TCAATGGCACCCTTTTAAGTCCACAACTCTATGGCACCTTGTTCCTTTT
1 AAAGCCCACAACTTC-ATGGCACCATTTTAAGTCCACAACTCTATGGCACCTT-TTCCTTTT
* * *
907365 -AAGCCCACAACTTCGTGGCACCATTTTAAGTCCACAACTCTGTGGCACCTTTTTCTTTT
1 AAAGCCCACAACTTCATGGCACCATTTTAAGTCCACAACTCTATGGCACCTTTTCCTTTT
* * * *
907424 CAAAGCCCAC-ACTTTCATGGCACCTTTTTTCCTCTATAGTCCACAACTCTGTGGTACCTTTTTC
1 -AAAGCCCACAAC-TTCATGGCACC---ATT--T-TA-AGTCCACAACTCTATGGCACCTTTTCC
907488 TTTT
57 TTTT
* *
907492 CAAAGCCCACAACTTCGTGGCACCTTTTT
1 -AAAGCCCACAACTTCATGGCACCATTTT
907521 TCCTCGAAAA
Statistics
Matches: 135, Mismatches: 9, Indels: 23
0.81 0.05 0.14
Matches are distributed among these distances:
59 7 0.05
60 46 0.34
61 20 0.15
62 1 0.01
63 1 0.01
64 2 0.01
65 3 0.02
66 1 0.01
67 2 0.01
68 50 0.37
69 2 0.01
ACGTcount: A:0.23, C:0.31, G:0.12, T:0.34
Consensus pattern (60 bp):
AAAGCCCACAACTTCATGGCACCATTTTAAGTCCACAACTCTATGGCACCTTTTCCTTTT
Found at i:907502 original size:68 final size:69
Alignment explanation
Indices: 907392--907554 Score: 249
Period size: 68 Copynumber: 2.4 Consensus size: 69
907382 GCACCATTTT
907392 AAGTCCACAACTCTGTGGCACCTTTTTCTTTTCAAAGCCCAC-ACTTTCATGGCACCTTTTTTCC
1 AAGTCCACAACTCTGTGGCACCTTTTTCTTTTCAAAGCCCACAAC-TTCATGGCACCTTTTTTCC
*
907456 TC-TA
65 TCGAA
* * *
907460 TAGTCCACAACTCTGTGGTACCTTTTTCTTTTCAAAGCCCACAACTTCGTGGCACCTTTTTTCCT
1 AAGTCCACAACTCTGTGGCACCTTTTTCTTTTCAAAGCCCACAACTTCATGGCACCTTTTTTCCT
907525 CGAA
66 CGAA
* *
907529 AAGTCTACAACTCCGTGGCACCTTTT
1 AAGTCCACAACTCTGTGGCACCTTTT
907555 AAGTCTATAA
Statistics
Matches: 85, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
68 60 0.71
69 25 0.29
ACGTcount: A:0.21, C:0.31, G:0.12, T:0.36
Consensus pattern (69 bp):
AAGTCCACAACTCTGTGGCACCTTTTTCTTTTCAAAGCCCACAACTTCATGGCACCTTTTTTCCT
CGAA
Found at i:907539 original size:35 final size:33
Alignment explanation
Indices: 907189--907554 Score: 143
Period size: 34 Copynumber: 11.4 Consensus size: 33
907179 CCATGACTCA
* ** *
907189 GTGGCACCCTTTTTCCTTTTAAGTCCACAACTCC
1 GTGGCACCTTTTTTCC-TCAAAGTCCACAACTTC
* *
907223 GTGGCA-C-TTTTT--T--AAGTCCATAGCTTC
1 GTGGCACCTTTTTTCCTCAAAGTCCACAACTTC
** *
907250 GTGGCACCTTTTTCTTTTCAAAG-CCTACAACTCC
1 GTGGCACCTTTTT-TCCTCAAAGTCC-ACAACTTC
* *
907284 GTAGCACTTTTTTTCCTCCAAAAGTCCACAAC-TC
1 GTGGCACCTTTTTTCCT-C-AAAGTCCACAACTTC
* *
907318 AATGGCACC--CTTT--T--AAGTCCACAAC-TC
1 -GTGGCACCTTTTTTCCTCAAAGTCCACAACTTC
* * ** *
907345 TATGGCACC-TTGTTCCTTTTAAGCCCACAACTTC
1 -GTGGCACCTTTTTTCC-TCAAAGTCCACAACTTC
*
907379 GTGGCACC--ATTT--T--AAGTCCACAAC-TC
1 GTGGCACCTTTTTTCCTCAAAGTCCACAACTTC
** *
907405 TGTGGCACCTTTTTCTTTTCAAAGCCCAC-ACTTTC
1 -GTGGCACCTTTTT-TCCTCAAAGTCCACAAC-TTC
* *
907440 ATGGCACCTTTTTTCCTCTATAGTCCACAAC-TC
1 GTGGCACCTTTTTTCCTC-AAAGTCCACAACTTC
* ** *
907473 TGTGGTACCTTTTTCTTTTCAAAGCCCACAACTTC
1 -GTGGCACCTTTTT-TCCTCAAAGTCCACAACTTC
* *
907508 GTGGCACCTTTTTTCCTCGAAAAGTCTACAACTCC
1 GTGGCACCTTTTTTCCTC--AAAGTCCACAACTTC
907543 GTGGCACCTTTT
1 GTGGCACCTTTT
907555 AAGTCTATAA
Statistics
Matches: 254, Mismatches: 42, Indels: 71
0.69 0.11 0.19
Matches are distributed among these distances:
26 2 0.01
27 56 0.22
28 3 0.01
29 8 0.03
30 2 0.01
31 2 0.01
32 9 0.04
33 35 0.14
34 88 0.35
35 47 0.19
36 2 0.01
ACGTcount: A:0.21, C:0.31, G:0.13, T:0.35
Consensus pattern (33 bp):
GTGGCACCTTTTTTCCTCAAAGTCCACAACTTC
Found at i:907566 original size:26 final size:26
Alignment explanation
Indices: 907529--907626 Score: 81
Period size: 33 Copynumber: 3.5 Consensus size: 26
907519 TTTCCTCGAA
907529 AAGTCTACAACTCCGTGGCACCTTTT
1 AAGTCTACAACTCCGTGGCACCTTTT
* * *
907555 AAGTCTATAACTCTGTGGTACCTTGTTCCTTTT
1 AAGTCTACAACTCCGTGG---C----ACCTTTT
907588 AAGT-TCACAACTCCGTGGCACTCTTTT
1 AAGTCT-ACAACTCCGTGGCAC-CTTTT
907615 AAGTCTACAACT
1 AAGTCTACAACT
907627 TTGTGGTGCC
Statistics
Matches: 56, Mismatches: 6, Indels: 19
0.69 0.07 0.23
Matches are distributed among these distances:
26 17 0.30
27 15 0.27
28 1 0.02
29 1 0.02
30 1 0.02
32 1 0.02
33 20 0.36
ACGTcount: A:0.23, C:0.27, G:0.14, T:0.36
Consensus pattern (26 bp):
AAGTCTACAACTCCGTGGCACCTTTT
Found at i:907598 original size:59 final size:59
Alignment explanation
Indices: 907535--907646 Score: 172
Period size: 60 Copynumber: 1.9 Consensus size: 59
907525 CGAAAAGTCT
*
907535 ACAACTCCGTGGCAC-CTTTTAAGTCTATAACTCTGTGGTACCTTGTTCCTTTTAAGTTC
1 ACAACTCCGTGGCACTCTTTTAAGTCTACAACTCTGTGGTACCTT-TTCCTTTTAAGTTC
* * *
907594 ACAACTCCGTGGCACTCTTTTAAGTCTACAACTTTGTGGTGCCTTTTTCTTTT
1 ACAACTCCGTGGCACTCTTTTAAGTCTACAACTCTGTGGTACCTTTTCCTTTT
907647 CAAAAGCCCA
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
59 22 0.46
60 26 0.54
ACGTcount: A:0.19, C:0.25, G:0.15, T:0.41
Consensus pattern (59 bp):
ACAACTCCGTGGCACTCTTTTAAGTCTACAACTCTGTGGTACCTTTTCCTTTTAAGTTC
Found at i:907644 original size:223 final size:225
Alignment explanation
Indices: 907250--907659 Score: 610
Period size: 223 Copynumber: 1.8 Consensus size: 225
907240 CCATAGCTTC
* *
907250 GTGGCACCTTTTTCTTTTCAAAGCCTACAACTCCGTAGCACTTTTTTTCCTCCAAAAGTCCACAA
1 GTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTAGCACCTTTTTTCCTCCAAAAGTCCACAA
*
907315 CTCAATGGCACCCTTTTAAGTCCACAACTCTATGGCACCTTGTTCCTTTTAAGCCCACAACTTCG
66 CTCAATGGCACCCTTTTAAGTCCACAACTCTATGGCACCTTGTTCCTTTTAAGCCCACAACTCCG
907380 TGGCACCATTTTAAGTCCACAACTCTGTGGCACCTTTTTCTTTTC-AAAGCCCACACTTTCATGG
131 TGGCACCATTTTAAGTCCACAACTCTGTGGCACCTTTTTCTTTTCAAAAGCCCACACTTTCATGG
907444 CACCTTTTTTCCTCTATAGTCCACAACTCT
196 CACCTTTTTTCCTCTATAGTCCACAACTCT
* * * * *
907474 GTGGTACCTTTTTCTTTTCAAAGCCCACAACTTCGTGGCACCTTTTTTCCTCGAAAAGTCTACAA
1 GTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTAGCACCTTTTTTCCTCCAAAAGTCCACAA
** * * * * **
907539 CTCCGTGGCA-CCTTTTAAGTCTATAACTCTGTGGTACCTTGTTCCTTTTAAGTTCACAACTCCG
66 CTCAATGGCACCCTTTTAAGTCCACAACTCTATGGCACCTTGTTCCTTTTAAGCCCACAACTCCG
* * **
907603 TGGCACTC-TTTTAAGTCTACAACTTTGTGGTGCCTTTTTCTTTTCAAAAGCCCACAC
131 TGGCAC-CATTTTAAGTCCACAACTCTGTGGCACCTTTTTCTTTTCAAAAGCCCACAC
907660 AAGTTGATGG
Statistics
Matches: 164, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
223 86 0.52
224 78 0.48
ACGTcount: A:0.22, C:0.30, G:0.13, T:0.35
Consensus pattern (225 bp):
GTGGCACCTTTTTCTTTTCAAAGCCCACAACTCCGTAGCACCTTTTTTCCTCCAAAAGTCCACAA
CTCAATGGCACCCTTTTAAGTCCACAACTCTATGGCACCTTGTTCCTTTTAAGCCCACAACTCCG
TGGCACCATTTTAAGTCCACAACTCTGTGGCACCTTTTTCTTTTCAAAAGCCCACACTTTCATGG
CACCTTTTTTCCTCTATAGTCCACAACTCT
Found at i:907721 original size:32 final size:33
Alignment explanation
Indices: 907646--907727 Score: 116
Period size: 33 Copynumber: 2.5 Consensus size: 33
907636 CTTTTTCTTT
*
907646 TCAAAAGCCCACACAAGTTGATGGCAACCCCTC
1 TCAAAAGCCCACACAAGTAGATGGCAACCCCTC
907679 TCAAAAGCCCACACAAGTCAG-TGGCAA-CCCT-
1 TCAAAAGCCCACACAAGT-AGATGGCAACCCCTC
907710 TACAAAAGCCCACACAAG
1 T-CAAAAGCCCACACAAG
907728 CTGGTGGCAT
Statistics
Matches: 46, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
31 1 0.02
32 20 0.43
33 24 0.52
34 1 0.02
ACGTcount: A:0.38, C:0.35, G:0.15, T:0.12
Consensus pattern (33 bp):
TCAAAAGCCCACACAAGTAGATGGCAACCCCTC
Found at i:907735 original size:32 final size:32
Alignment explanation
Indices: 907646--907736 Score: 114
Period size: 32 Copynumber: 2.8 Consensus size: 32
907636 CTTTTTCTTT
*
907646 TCAAAAGCCCACACAAGTTGATGGCAACCCCTC
1 TCAAAAGCCCACACAAG-TGGTGGCAACCCCTC
*
907679 TCAAAAGCCCACACAAGTCAGTGGCAA-CCCT-
1 TCAAAAGCCCACACAAGT-GGTGGCAACCCCTC
907710 TACAAAAGCCCACACAAGCTGGTGGCA
1 T-CAAAAGCCCACACAAG-TGGTGGCA
907737 TCTCCTTCTA
Statistics
Matches: 52, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
31 1 0.02
32 27 0.52
33 24 0.46
ACGTcount: A:0.35, C:0.34, G:0.18, T:0.13
Consensus pattern (32 bp):
TCAAAAGCCCACACAAGTGGTGGCAACCCCTC
Found at i:907815 original size:49 final size:48
Alignment explanation
Indices: 907745--908234 Score: 154
Period size: 52 Copynumber: 9.9 Consensus size: 48
907735 CATCTCCTTC
* *
907745 TAAGTCCAATGTCGCGGGCCTTGAATCAGCATATAGGCACCTTCATCTT
1 TAAG-CCAATGTCTCTGGCCTTGAATCAGCATATAGGCACCTTCATCTT
* * * * * *
907794 TAAGCCTAATGTCTCTAGCCTTGAATTAGCACATTGGCACCATCAACTT
1 TAAGCC-AATGTCTCTGGCCTTGAATCAGCATATAGGCACCTTCATCTT
* * * *
907843 TAAGTCCAATATCGCTGGCCTTGAATTAGCATATTA-GCACTTTTTTCATCTT
1 TAAG-CCAATGTCTCTGGCCTTGAATCAGCATA-TAGGCAC---CTTCATCTT
* * * * **
907895 TAAGTCGAATGTCGT-TGGCCTTGAATCAGCACATTA-CCACATTTTTCTTTCT
1 TAAG-CCAATGTC-TCTGGCCTTGAATCAGCATA-TAGGCACCTTCATC--T-T
* * *
907947 TAAGACCAATGTCGCTGGCCTTGAATCAGCACAT---TA-C--CA-C--
1 TAAG-CCAATGTCTCTGGCCTTGAATCAGCATATAGGCACCTTCATCTT
* * * * *
907987 -AAGCCTATAT-TGCTGGCATTGAATCAACATATTGGCACCTTTATCATCTT
1 TAAGCCAATGTCT-CTGGCCTTGAATCAGCATATAGGCACC--T-TCATCTT
* ** * *
908037 TAAGTCCAATGT-TATTGATCTTGAATCAGCA-ATTGGCACCTTCTTCTTT
1 TAAG-CCAATGTCT-CTGGCCTTGAATCAGCATATAGGCACCTTCATC-TT
* * *
908086 CTCAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGCCATCTT
1 -T-AAG-CCAATGTCTCTGGCCTTGAATCAGCATATAGGCACC-TT--CATCTT
* * * * *
908140 TAAGTCTAATG-CTGTTGTCCTTAAATCAGCACATTA-GCACCTTTGTCATCTT
1 TAAG-CCAATGTCT-CTGGCCTTGAATCAGCATA-TAGGCACC--T-TCATCTT
* * *
908192 TGAGGCCAATATCGT-TGGCCTTGAATCAGCATATTGGCACCTT
1 T-AAGCCAATGTC-TCTGGCCTTGAATCAGCATATAGGCACCTT
908235 TATCATTCTT
Statistics
Matches: 330, Mismatches: 69, Indels: 84
0.68 0.14 0.17
Matches are distributed among these distances:
38 22 0.07
39 3 0.01
41 1 0.00
42 1 0.00
45 1 0.00
47 2 0.01
48 7 0.02
49 77 0.23
50 5 0.02
51 40 0.12
52 155 0.47
53 9 0.03
54 4 0.01
55 3 0.01
ACGTcount: A:0.25, C:0.24, G:0.16, T:0.34
Consensus pattern (48 bp):
TAAGCCAATGTCTCTGGCCTTGAATCAGCATATAGGCACCTTCATCTT
Found at i:907914 original size:52 final size:51
Alignment explanation
Indices: 907840--907987 Score: 197
Period size: 52 Copynumber: 2.9 Consensus size: 51
907830 GCACCATCAA
* * * * *
907840 CTTTAAGTCCAATATCGCTGGCCTTGAATTAGCATATTAGCACTTTTTTCAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTACCACATTTTTC-T
* *
907892 CTTTAAGTCGAATGTCGTTGGCCTTGAATCAGCACATTACCACATTTTTCT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTACCACATTTTTCT
* *
907943 TTCTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTACCACA
1 CT-TTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTACCACA
907988 AGCCTATATT
Statistics
Matches: 84, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
51 2 0.02
52 82 0.98
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (51 bp):
CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTACCACATTTTTCT
Found at i:907920 original size:101 final size:98
Alignment explanation
Indices: 907745--907929 Score: 239
Period size: 101 Copynumber: 1.9 Consensus size: 98
907735 CATCTCCTTC
* *
907745 TAAGTCCAATGTCGCGGGCCTTGAATCAGCATATAGGCACCTTCATCTTTAAGCCTAATGTCTCT
1 TAAGTCCAATATCGCGGGCCTTGAATCAGCATATAGGCACCTTCATCTTTAAGCCGAATGTCTCT
*
907810 AGCCTTGAATTAGCACATTGGCACCATCAACTT
66 AGCCTTGAATCAGCACATTGGCACCATCAACTT
* * * *
907843 TAAGTCCAATATCGCTGGCCTTGAATTAGCATATTA-GCACTTTTTTCATCTTTAAGTCGAATGT
1 TAAGTCCAATATCGCGGGCCTTGAATCAGCATA-TAGGCAC---CTTCATCTTTAAGCCGAATGT
*
907907 CGT-TGGCCTTGAATCAGCACATT
62 C-TCTAGCCTTGAATCAGCACATT
907930 ACCACATTTT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
98 34 0.46
99 2 0.03
101 37 0.50
102 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (98 bp):
TAAGTCCAATATCGCGGGCCTTGAATCAGCATATAGGCACCTTCATCTTTAAGCCGAATGTCTCT
AGCCTTGAATCAGCACATTGGCACCATCAACTT
Found at i:908048 original size:142 final size:141
Alignment explanation
Indices: 907851--908118 Score: 356
Period size: 142 Copynumber: 1.9 Consensus size: 141
907841 TTTAAGTCCA
* * * * * * * *
907851 ATATCGCTGGCCTTGAATTAGCATATTAGCACTTTTTTCATCTTTAAGTCGAATGTCGTTGGCCT
1 ATATCGCTGGCATTGAATCAACATATTAGCACCTTTATCATCTTTAAGTCCAATGTCATTGACCT
* * *
907916 TGAATCAGCACATTACCACATTTTTCTTTCTTAAGACCAATGTCGCTGGCCTTGAATCAGCACAT
66 TGAATCAGCA-ATTACCACATTCTTCTTTCTCAAGACCAATATCGCTGGCCTTGAATCAGCACAT
907981 TACCACAAGCCT
130 TACCACAAGCCT
* * * *
907993 ATATTGCTGGCATTGAATCAACATATTGGCACCTTTATCATCTTTAAGTCCAATGTTATTGATCT
1 ATATCGCTGGCATTGAATCAACATATTAGCACCTTTATCATCTTTAAGTCCAATGTCATTGACCT
** * *
908058 TGAATCAGCAATTGGCACCTTCTTCTTTCTCAAGTCCAATATCGCTGGCCTTGAATCAGCA
66 TGAATCAGCAATTACCACATTCTTCTTTCTCAAGACCAATATCGCTGGCCTTGAATCAGCA
908119 TATTGGCACC
Statistics
Matches: 107, Mismatches: 19, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
141 44 0.41
142 63 0.59
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (141 bp):
ATATCGCTGGCATTGAATCAACATATTAGCACCTTTATCATCTTTAAGTCCAATGTCATTGACCT
TGAATCAGCAATTACCACATTCTTCTTTCTCAAGACCAATATCGCTGGCCTTGAATCAGCACATT
ACCACAAGCCT
Found at i:908167 original size:52 final size:52
Alignment explanation
Indices: 908000--908235 Score: 226
Period size: 52 Copynumber: 4.6 Consensus size: 52
907990 CCTATATTGC
* * ** * **
908000 TGGCATTGAATCAACATATTGGCACCTTTATCATCTTTAAGTCCAATGTTAT
1 TGGCCTTGAATCAGCATATTGGCACCTTTGCCATCTTTAAGTCCAATATCGT
** * ** * *
908052 TGATCTTGAATCAGCA-ATTGGCACCTTCTTCTTTC-TCAAGTCCAATATCGC
1 TGGCCTTGAATCAGCATATTGGCACCTT-TGCCATCTTTAAGTCCAATATCGT
* *
908103 TGGCCTTGAATCAGCATATTGGCACCTTTGCCATCTTTAAGTCTAAT-GCTGT
1 TGGCCTTGAATCAGCATATTGGCACCTTTGCCATCTTTAAGTCCAATATC-GT
* * * * * * *
908155 TGTCCTTAAATCAGCACATTAGCACCTTTGTCATCTTTGAGGCCAATATCGT
1 TGGCCTTGAATCAGCATATTGGCACCTTTGCCATCTTTAAGTCCAATATCGT
908207 TGGCCTTGAATCAGCATATTGGCACCTTT
1 TGGCCTTGAATCAGCATATTGGCACCTTT
908236 ATCATTCTTC
Statistics
Matches: 144, Mismatches: 35, Indels: 10
0.76 0.19 0.05
Matches are distributed among these distances:
51 41 0.28
52 102 0.71
53 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (52 bp):
TGGCCTTGAATCAGCATATTGGCACCTTTGCCATCTTTAAGTCCAATATCGT
Found at i:908225 original size:104 final size:103
Alignment explanation
Indices: 907993--908236 Score: 298
Period size: 103 Copynumber: 2.4 Consensus size: 103
907983 CCACAAGCCT
* * * * *
907993 ATATTGCTGGCATTGAATCAACATATTGGCACCTTTATCATCTTTAAGTCCAATGTTATTGATCT
1 ATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTACCATCTTTAAGTCCAATGCTATTGATCT
* * *
908058 TGAATCAGCAATTGGCACCTTCTTCTTTCTCAAGTCCA
66 TAAATCAGCAATTAGCACCTTCTTCTTTCTCAAGGCCA
* * *
908096 ATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGCCATCTTTAAGTCTAATGCTGTTG-TCC
1 ATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTACCATCTTTAAGTCCAATGCTATTGAT-C
*
908160 TTAAATCAGCACATTAGCACCTT-TGTCATCTT-T-GAGGCCA
65 TTAAATCAGCA-ATTAGCACCTTCT-TC-T-TTCTCAAGGCCA
*
908200 ATATCGTTGGCCTTGAATCAGCATATTGGCACCTTTA
1 ATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTA
908237 TCATTCTTCC
Statistics
Matches: 122, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
102 1 0.01
103 65 0.53
104 52 0.43
105 2 0.02
106 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (103 bp):
ATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTACCATCTTTAAGTCCAATGCTATTGATCT
TAAATCAGCAATTAGCACCTTCTTCTTTCTCAAGGCCA
Found at i:909052 original size:20 final size:21
Alignment explanation
Indices: 909000--909077 Score: 72
Period size: 20 Copynumber: 3.8 Consensus size: 21
908990 TGTATCAATA
**
909000 CAATGTATCGATACA-TGCTT
1 CAATGTATCGATACATTTATT
*
909020 CAAATTATATCGATACATTTA-T
1 C-AA-TGTATCGATACATTTATT
*
909042 CATTGTATCGATACA-TTATT
1 CAATGTATCGATACATTTATT
*
909062 CAATGTATTGATACAT
1 CAATGTATCGATACAT
909078 AAAGGCAAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
19 3 0.07
20 26 0.57
21 3 0.07
22 13 0.28
23 1 0.02
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (21 bp):
CAATGTATCGATACATTTATT
Found at i:921533 original size:18 final size:18
Alignment explanation
Indices: 921510--921553 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
921500 TGAAGACTAA
921510 TTAATTTTGATTAAGC-TG
1 TTAATTTT-ATTAAGCTTG
*
921528 TTAATTTTATTTAGCTTG
1 TTAATTTTATTAAGCTTG
*
921546 ATAATTTT
1 TTAATTTT
921554 TCATATTAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 6 0.26
18 17 0.74
ACGTcount: A:0.27, C:0.05, G:0.11, T:0.57
Consensus pattern (18 bp):
TTAATTTTATTAAGCTTG
Found at i:926638 original size:21 final size:20
Alignment explanation
Indices: 926605--926681 Score: 82
Period size: 21 Copynumber: 3.7 Consensus size: 20
926595 AACCCTTAAT
*
926605 TGTATCCATACAATCCTATCA
1 TGTATCAATACAATCCTA-CA
* * *
926626 TGTATTAACACAATCTTGACA
1 TGTATCAATACAATCCT-ACA
*
926647 TGTATCGATACAATCCTAACA
1 TGTATCAATACAATCCT-ACA
926668 TGTATCAATACAAT
1 TGTATCAATACAAT
926682 GAGCTGTAAT
Statistics
Matches: 45, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
21 44 0.98
22 1 0.02
ACGTcount: A:0.38, C:0.22, G:0.08, T:0.32
Consensus pattern (20 bp):
TGTATCAATACAATCCTACA
Found at i:929975 original size:11 final size:11
Alignment explanation
Indices: 929940--929975 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
929930 TGGAGTCATA
929940 TTTATTTATTAT
1 TTTATTT-TTAT
929952 TTTA-TTTTAT
1 TTTATTTTTAT
929962 TTTATTTTTAT
1 TTTATTTTTAT
929973 TTT
1 TTT
929976 CAAAAATTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 8 0.35
11 11 0.48
12 4 0.17
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (11 bp):
TTTATTTTTAT
Found at i:930281 original size:7 final size:7
Alignment explanation
Indices: 930269--930302 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
930259 AAATAAAAAC
930269 AAATTTT
1 AAATTTT
930276 AAATTTT
1 AAATTTT
*
930283 AAATTGT
1 AAATTTT
*
930290 AAATTGT
1 AAATTTT
930297 AAATTT
1 AAATTT
930303 CTCCTAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (7 bp):
AAATTTT
Found at i:932851 original size:19 final size:19
Alignment explanation
Indices: 932806--932861 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
932796 CTGTCAGTTT
**
932806 CATGTATCGATACAATTGTG
1 CATGTATCGATACAA-TGAA
*
932826 TATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
932845 CATGTATCAATACAATG
1 CATGTATCGATACAATG
932862 TATCGATACA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:935216 original size:23 final size:24
Alignment explanation
Indices: 935173--935217 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
935163 GGTGAAAGAT
*
935173 TTGATGGAAAAAGAAGCGTTTTTG
1 TTGATGGAAAAAGAAACGTTTTTG
*
935197 TTGAT-GAAAAAGAAATGTTTT
1 TTGATGGAAAAAGAAACGTTTT
935218 GATGTAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.38, C:0.02, G:0.24, T:0.36
Consensus pattern (24 bp):
TTGATGGAAAAAGAAACGTTTTTG
Found at i:935251 original size:21 final size:20
Alignment explanation
Indices: 935223--935261 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
935213 GTTTTGATGT
*
935223 AAAATTGATGAAATTTGAAA
1 AAAATTGAAGAAATTTGAAA
935243 AAAATTTGAAGAAATTTGA
1 AAAA-TTGAAGAAATTTGA
935262 TGAATGAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.54, C:0.00, G:0.15, T:0.31
Consensus pattern (20 bp):
AAAATTGAAGAAATTTGAAA
Found at i:935404 original size:20 final size:20
Alignment explanation
Indices: 935379--935417 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
935369 ACATTGTATT
935379 AATACAATGTATCGATACAA
1 AATACAATGTATCGATACAA
*
935399 AATACATTGTATCGATACA
1 AATACAATGTATCGATACA
935418 TCTGGGTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.46, C:0.15, G:0.10, T:0.28
Consensus pattern (20 bp):
AATACAATGTATCGATACAA
Found at i:935417 original size:13 final size:13
Alignment explanation
Indices: 935359--935398 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
935349 ATAGTAACCC
935359 ATGTATCGATACA
1 ATGTATCGATACA
* **
935372 TTGTATTAATACA
1 ATGTATCGATACA
935385 ATGTATCGATACA
1 ATGTATCGATACA
935398 A
1 A
935399 AATACATTGT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:935458 original size:20 final size:21
Alignment explanation
Indices: 935428--935467 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
935418 TCTGGGTTTT
*
935428 TTCAGATGTATCGATACATCA
1 TTCAGATGTATCAATACATCA
935449 TTCA-ATGTATCAATACATC
1 TTCAGATGTATCAATACATC
935468 CCGAAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.35
Consensus pattern (21 bp):
TTCAGATGTATCAATACATCA
Found at i:936835 original size:16 final size:15
Alignment explanation
Indices: 936814--936844 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
936804 CAACATTTCC
936814 TCTATTAAAACTTTTT
1 TCTATTAAAA-TTTTT
936830 TCTATTAAAATTTTT
1 TCTATTAAAATTTTT
936845 GAAAGCCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.58
Consensus pattern (15 bp):
TCTATTAAAATTTTT
Found at i:938682 original size:14 final size:15
Alignment explanation
Indices: 938658--938686 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
938648 TCACATAATT
938658 GGTTAATGCTTAAGA
1 GGTTAATGCTTAAGA
938673 GGTT-ATGCTTAAGA
1 GGTTAATGCTTAAGA
938687 CCATTGACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.31, C:0.07, G:0.28, T:0.34
Consensus pattern (15 bp):
GGTTAATGCTTAAGA
Found at i:942461 original size:13 final size:13
Alignment explanation
Indices: 942443--942467 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
942433 TACAAAGATT
942443 AATGTATCGATAC
1 AATGTATCGATAC
942456 AATGTATCGATA
1 AATGTATCGATA
942468 TATTGAATAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:942479 original size:33 final size:33
Alignment explanation
Indices: 942424--942489 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
942414 AAATTCCCAG
* *
942424 ATGTATCGATACAAAGATTAATGTATCGATACA
1 ATGTATCGATACAAAGAATAATGTATCAATACA
* **
942457 ATGTATCGATATATTGAATAATGTATCAATACA
1 ATGTATCGATACAAAGAATAATGTATCAATACA
942490 TTTCCTTGGC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (33 bp):
ATGTATCGATACAAAGAATAATGTATCAATACA
Found at i:942566 original size:21 final size:19
Alignment explanation
Indices: 942514--942570 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
942504 TGCAGGGTAG
942514 CTTTTGTATCGATACAATA
1 CTTTTGTATCGATACAATA
* * *
942533 CTTATGAATCGATACATTTA
1 CTTTTGTATCGATACA-ATA
942553 CTGTTTGTATCGATACAA
1 CT-TTTGTATCGATACAA
942571 ATTGTTGAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
19 14 0.47
20 4 0.13
21 12 0.40
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (19 bp):
CTTTTGTATCGATACAATA
Found at i:943464 original size:49 final size:49
Alignment explanation
Indices: 943298--944061 Score: 649
Period size: 49 Copynumber: 15.9 Consensus size: 49
943288 CGAAAAATGA
* * ** * * *
943298 CAATGTGTTGATTCATGGCCAGCGACATTAAATTTAAAAAAGAA--TGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
** * * *
943345 CAATGTGCTGAGACAAGGCCAGCGACATTGGACTTAGGAATGTTAAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTA--AA-GATGAAGGTGC
* * * **
943397 CAATATGCTGATTCAAGGCCAACGATATCAGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * * *
943446 CATTGTGCTAATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * *
943495 CAATATGCTAATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGACT-C
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAG-GTGC
* *
943544 CAATGTGCTGATTCAAGGCCGGCGACATTAGACTTAAAGATGGTTAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT-G--AAGGTGC
* * *
943596 CAATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * * *
943645 CAATATGCTGAGTCAAGGCCAGTGATATTGGGC-T-----T--A--TGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * * *
943684 CAATGTGTTGATTCAAGGCTAGCAACATTGGTCTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * **
943733 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGACGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * *
943782 TAATGTGCTGATTCAAGGTCGGCGACATTGGACTTAAAGTTGGTTAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT-G--AAGGTGC
* * * * *
943834 CAATATGCTAATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * *
943883 CAATATGCTGAGTCAAGGCCAGCGATATTGTG-C-T-----T----GTGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTG-GACTTAAAGATGAAGGTGC
* *
943922 CAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGATGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * **
943971 CAATATGCTAATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGACGC
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
* * * *
944020 CAATGTGCTAATTCAAGGCCGGCAACATTAGACTTAAAGATG
1 CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATG
944062 GTTAAGGTGC
Statistics
Matches: 578, Mismatches: 104, Indels: 68
0.77 0.14 0.09
Matches are distributed among these distances:
38 1 0.00
39 60 0.10
40 2 0.00
41 1 0.00
43 2 0.00
45 2 0.00
47 30 0.05
48 2 0.00
49 358 0.62
50 8 0.01
51 3 0.01
52 109 0.19
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGC
Found at i:943721 original size:238 final size:238
Alignment explanation
Indices: 943443--944072 Score: 1089
Period size: 238 Copynumber: 2.6 Consensus size: 238
943433 AAGATGAAGG
* * *
943443 TGCCATTGTGCTAATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGATGCCAATATGCTAATT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGATGCCAATATGCTAATT
*
943508 CAAGGCCAGCGATATTGGACTTAAAGATGAAGACTCCAATGTGCTGATTCAAGGCCGGCGACATT
66 CAAGGCCAGCGATATTGGACTTAAAGATGAAGACGCCAATGTGCTGATTCAAGGCCGGCGACATT
* *
943573 AGACTTAAAGATGGTTAAGGTGCCAATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATG
131 AGACTTAAAGATGGTTAAGGTGCCAATATGCTAATTCAAGGCCAACGACATCGGTCTTAAAGATG
*
943638 AAGGTGCCAATATGCTGAGTCAAGGCCAGTGATATTGGGCTTA
196 AAGGTGCCAATATGCTGAGTCAAGGCCAGCGATATTGGGCTTA
* * * *
943681 TGCCAATGTGTTGATTCAAGGCTAGCAACATTGGTCTTAAAGATGAAGATGCCAATATGCTGATT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGATGCCAATATGCTAATT
* *
943746 CAAGGCCAGCGATATTGGACTTAAAGATGAAGACGCTAATGTGCTGATTCAAGGTCGGCGACATT
66 CAAGGCCAGCGATATTGGACTTAAAGATGAAGACGCCAATGTGCTGATTCAAGGCCGGCGACATT
* *
943811 GGACTTAAAGTTGGTTAAGGTGCCAATATGCTAATTCAAGGCCAACGACATCGGTCTTAAAGATG
131 AGACTTAAAGATGGTTAAGGTGCCAATATGCTAATTCAAGGCCAACGACATCGGTCTTAAAGATG
* *
943876 AAGGTGCCAATATGCTGAGTCAAGGCCAGCGATATTGTGCTTG
196 AAGGTGCCAATATGCTGAGTCAAGGCCAGCGATATTGGGCTTA
943919 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGATGCCAATATGCTAATT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGATGCCAATATGCTAATT
* *
943984 CAAGGCCAGCGATATTGGACTTAAAGATGAAGACGCCAATGTGCTAATTCAAGGCCGGCAACATT
66 CAAGGCCAGCGATATTGGACTTAAAGATGAAGACGCCAATGTGCTGATTCAAGGCCGGCGACATT
944049 AGACTTAAAGATGGTTAAGGTGCC
131 AGACTTAAAGATGGTTAAGGTGCC
944073 TGTAGACACC
Statistics
Matches: 365, Mismatches: 27, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
238 365 1.00
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.25
Consensus pattern (238 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGATGCCAATATGCTAATT
CAAGGCCAGCGATATTGGACTTAAAGATGAAGACGCCAATGTGCTGATTCAAGGCCGGCGACATT
AGACTTAAAGATGGTTAAGGTGCCAATATGCTAATTCAAGGCCAACGACATCGGTCTTAAAGATG
AAGGTGCCAATATGCTGAGTCAAGGCCAGCGATATTGGGCTTA
Found at i:943742 original size:88 final size:88
Alignment explanation
Indices: 943593--943768 Score: 271
Period size: 88 Copynumber: 2.0 Consensus size: 88
943583 ATGGTTAAGG
* *
943593 TGCCAATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGTGCCAATATGCTGAGT
1 TGCCAATGTGCTGATTCAAGGCCAACAACATCGGTCTTAAAGATGAAGATGCCAATATGCTGAGT
* *
943658 CAAGGCCAGTGATATTGGGCTTA
66 CAAGGCCAGCGATATTGGACTTA
* * * * *
943681 TGCCAATGTGTTGATTCAAGGCTAGCAACATTGGTCTTAAAGATGAAGATGCCAATATGCTGATT
1 TGCCAATGTGCTGATTCAAGGCCAACAACATCGGTCTTAAAGATGAAGATGCCAATATGCTGAGT
943746 CAAGGCCAGCGATATTGGACTTA
66 CAAGGCCAGCGATATTGGACTTA
943769 AAGATGAAGA
Statistics
Matches: 79, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
88 79 1.00
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.27
Consensus pattern (88 bp):
TGCCAATGTGCTGATTCAAGGCCAACAACATCGGTCTTAAAGATGAAGATGCCAATATGCTGAGT
CAAGGCCAGCGATATTGGACTTA
Found at i:943792 original size:137 final size:139
Alignment explanation
Indices: 943543--943799 Score: 338
Period size: 137 Copynumber: 1.9 Consensus size: 139
943533 GATGAAGACT
* * * *
943543 CCAATGTGCTGATTCAAGGCCGGCGACATTAGACTTAAAGATGGTTAAGGTGCCAATGTGCTGAT
1 CCAATGTGCTGATTCAAGGCCAGCAACATTAGACTTAAAGATGG-TAAGATGCCAATATGCTGAT
* **
943608 TCAAGGCCAACGACATCGGTCTTAAAGATGAAGGTGCCAATATGCTGAGTCAAGGCCAGTGATAT
65 TCAAGGCCAACGACATCGGACTTAAAGATGAAGACGCCAATATGCTGAGTCAAGGCCAGTGATAT
943673 TGGGCTTATG
130 TGGGCTTATG
* * * *
943683 CCAATGTGTTGATTCAAGGCTAGCAACATTGGTCTTAAAGAT-G-AAGATGCCAATATGCTGATT
1 CCAATGTGCTGATTCAAGGCCAGCAACATTAGACTTAAAGATGGTAAGATGCCAATATGCTGATT
* * * * * *
943746 CAAGGCCAGCGATATTGGACTTAAAGATGAAGACGCTAATGTGCTGATTCAAGG
66 CAAGGCCAACGACATCGGACTTAAAGATGAAGACGCCAATATGCTGAGTCAAGG
943800 TCGGCGACAT
Statistics
Matches: 100, Mismatches: 17, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
137 63 0.63
139 1 0.01
140 36 0.36
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (139 bp):
CCAATGTGCTGATTCAAGGCCAGCAACATTAGACTTAAAGATGGTAAGATGCCAATATGCTGATT
CAAGGCCAACGACATCGGACTTAAAGATGAAGACGCCAATATGCTGAGTCAAGGCCAGTGATATT
GGGCTTATG
Found at i:943833 original size:189 final size:188
Alignment explanation
Indices: 943491--943854 Score: 464
Period size: 189 Copynumber: 1.9 Consensus size: 188
943481 AAAGATGAAG
* * *
943491 ATGCCAATATGCTAATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGACTCCAATGTGCTGAT
1 ATGCCAATATGCTAATTCAAGGCCAGCAACATTGGACTTAAAGATGAAGACTCCAATATGCTGAT
* **
943556 TCAAGGCCGGCGACATTAGACTTAAAGATGGTTAAGGTGCCAATGTGCTGATTCAAGGCCAACGA
66 TCAAGGCCAGCGACATTAGACTTAAAGATGG-TAAGACGCCAATGTGCTGATTCAAGGCCAACGA
* *
943621 CATCGGTCTTAAAGATGAAGGTGCCAATATGCTGAGTCAAGGCCAGTGATATTGGGCTT
130 CATCGGACTTAAAGATGAAGGTGCCAATATGCTAAGTCAAGGCCAGTGATATTGGGCTT
* * * * *
943680 ATGCCAATGTGTTGATTCAAGGCTAGCAACATTGGTCTTAAAGATGAAGA-TGCCAATATGCTGA
1 ATGCCAATATGCTAATTCAAGGCCAGCAACATTGGACTTAAAGATGAAGACT-CCAATATGCTGA
* * * * **
943744 TTCAAGGCCAGCGATATTGGACTTAAAGAT-G-AAGACGCTAATGTGCTGATTCAAGGTCGGCGA
65 TTCAAGGCCAGCGACATTAGACTTAAAGATGGTAAGACGCCAATGTGCTGATTCAAGGCCAACGA
* * *
943807 CATTGGACTTAAAGTTGGTTAAGGTGCCAATATGCTAATTCAAGGCCA
130 CATCGGACTTAAAGAT-G--AAGGTGCCAATATGCTAAGTCAAGGCCA
943855 ACGACATCGG
Statistics
Matches: 149, Mismatches: 22, Indels: 8
0.83 0.12 0.04
Matches are distributed among these distances:
186 39 0.26
187 1 0.01
188 2 0.01
189 107 0.72
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.26
Consensus pattern (188 bp):
ATGCCAATATGCTAATTCAAGGCCAGCAACATTGGACTTAAAGATGAAGACTCCAATATGCTGAT
TCAAGGCCAGCGACATTAGACTTAAAGATGGTAAGACGCCAATGTGCTGATTCAAGGCCAACGAC
ATCGGACTTAAAGATGAAGGTGCCAATATGCTAAGTCAAGGCCAGTGATATTGGGCTT
Found at i:943979 original size:88 final size:88
Alignment explanation
Indices: 943830--944000 Score: 279
Period size: 88 Copynumber: 1.9 Consensus size: 88
943820 GTTGGTTAAG
* *
943830 GTGCCAATATGCTAATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGTGCCAATATGCTGAG
1 GTGCCAATATGCTAATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGATGCCAATATGCTAAG
943895 TCAAGGCCAGCGATATTGTGCTT
66 TCAAGGCCAGCGATATTGTGCTT
* * * * *
943918 GTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAGATGCCAATATGCTAAT
1 GTGCCAATATGCTAATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGATGCCAATATGCTAAG
943983 TCAAGGCCAGCGATATTG
66 TCAAGGCCAGCGATATTG
944001 GACTTAAAGA
Statistics
Matches: 76, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
88 76 1.00
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (88 bp):
GTGCCAATATGCTAATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGATGCCAATATGCTAAG
TCAAGGCCAGCGATATTGTGCTT
Found at i:944036 original size:137 final size:139
Alignment explanation
Indices: 943783--944039 Score: 365
Period size: 137 Copynumber: 1.9 Consensus size: 139
943773 TGAAGACGCT
* * * *
943783 AATGTGCTGATTCAAGGTCGGCGACATTGGACTTAAAGTTGGTTAAGGTGCCAATATGCTAATTC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGG-TAAGATGCCAATATGCTAATTC
* ** *
943848 AAGGCCAACGACATCGGTCTTAAAGATGAAGGTGCCAATATGCTGAGTCAAGGCCAGCGATATTG
65 AAGGCCAACGACATCGGACTTAAAGATGAAGACGCCAATATGCTAAGTCAAGGCCAGCGATATTG
943913 TGCTTGTGCC
130 TGCTTGTGCC
*
943923 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGAT-G-AAGATGCCAATATGCTAATTCA
1 AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGGTAAGATGCCAATATGCTAATTCA
* * * * *
943986 AGGCCAGCGATATTGGACTTAAAGATGAAGACGCCAATGTGCTAATTCAAGGCC
66 AGGCCAACGACATCGGACTTAAAGATGAAGACGCCAATATGCTAAGTCAAGGCC
944040 GGCAACATTA
Statistics
Matches: 103, Mismatches: 14, Indels: 3
0.86 0.12 0.03
Matches are distributed among these distances:
137 66 0.64
139 1 0.01
140 36 0.35
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (139 bp):
AATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGGTAAGATGCCAATATGCTAATTCA
AGGCCAACGACATCGGACTTAAAGATGAAGACGCCAATATGCTAAGTCAAGGCCAGCGATATTGT
GCTTGTGCC
Found at i:944212 original size:20 final size:21
Alignment explanation
Indices: 944177--944217 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
944167 CAAGGAAATG
944177 TATCGATACATTGTATCGATA
1 TATCGATACATTGTATCGATA
*
944198 TATCGAT-CTTTGTATCGATA
1 TATCGATACATTGTATCGATA
944218 CATCTAGGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (21 bp):
TATCGATACATTGTATCGATA
Found at i:946630 original size:52 final size:52
Alignment explanation
Indices: 946564--946697 Score: 166
Period size: 52 Copynumber: 2.6 Consensus size: 52
946554 TTAAGTTTCT
946564 CAATTGTT-CATAATCGGGGATACTCCAACCCCGATTTTA-TTCTC-AAAACAC
1 CAATT-TTCCATAATCGGGGATACTCCAACCCCGATTTTATTTC-CAAAAACAC
* **
946615 CAATTTTCCTTTAATCGGGGATACTCCAACTTCGATTTTATTTCCAAAAACAC
1 CAATTTTCC-ATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACAC
* * *
946668 CAATTTTTCACAATCGAGGATACTCCAACC
1 CAATTTTCCATAATCGGGGATACTCCAACC
946698 TCGTTACCCC
Statistics
Matches: 71, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
50 2 0.03
51 6 0.08
52 45 0.63
53 18 0.25
ACGTcount: A:0.31, C:0.27, G:0.10, T:0.31
Consensus pattern (52 bp):
CAATTTTCCATAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAAACAC
Found at i:946839 original size:79 final size:79
Alignment explanation
Indices: 946703--946912 Score: 228
Period size: 79 Copynumber: 2.7 Consensus size: 79
946693 CAACCTCGTT
** * * * *
946703 ACCCCGTTACCTCCGAAGGGATACTCCAACTCCGGCTTTATTTCCAAAATATTGATTTCTCATAA
1 ACCCCGTTATTTCCGAGGGGATACTCCAACTCCGACTTTATTTCCAAAATATCGATTTCTCACAA
**
946768 TTGGGGATACTCCA
66 CCGGGGATACTCCA
* * *
946782 ACCCCGTTATTTCCGAGGGGATACTCCAA-TCCCGATTTTATTTCC-TAATCATCGATTTTTCAC
1 ACCCCGTTATTTCCGAGGGGATACTCCAACT-CCGACTTTATTTCCAAAAT-ATCGATTTCTCAC
946845 AACCGGGGATACTCCA
64 AACCGGGGATACTCCA
* * * * *
946861 ACCCCGTTATTTTCAAGGGGATACTCCAAC-CCCATTATTATCTCCAAAATAT
1 ACCCCGTTATTTCCGAGGGGATACTCCAACTCCGACT-TTATTTCCAAAATAT
946913 TAAATTTCTC
Statistics
Matches: 110, Mismatches: 16, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
78 9 0.08
79 98 0.89
80 3 0.03
ACGTcount: A:0.27, C:0.29, G:0.14, T:0.31
Consensus pattern (79 bp):
ACCCCGTTATTTCCGAGGGGATACTCCAACTCCGACTTTATTTCCAAAATATCGATTTCTCACAA
CCGGGGATACTCCA
Found at i:953089 original size:21 final size:21
Alignment explanation
Indices: 953065--953141 Score: 102
Period size: 21 Copynumber: 3.7 Consensus size: 21
953055 AATTTATCCA
953065 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
953086 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
* * *
953107 AATGTATTGATACA-TTCTACA
1 AATGTATCGATACATTTGTA-G
953128 AATGTATCGATACA
1 AATGTATCGATACA
953142 GGGTCCCAAC
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
20 3 0.06
21 46 0.94
ACGTcount: A:0.35, C:0.12, G:0.17, T:0.36
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:953201 original size:19 final size:19
Alignment explanation
Indices: 953177--953231 Score: 101
Period size: 19 Copynumber: 2.9 Consensus size: 19
953167 AATTCAACAA
953177 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
953196 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
953215 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
953232 TTAGCTACTG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.40
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:955723 original size:51 final size:52
Alignment explanation
Indices: 955650--955749 Score: 157
Period size: 51 Copynumber: 1.9 Consensus size: 52
955640 TAATTCTCCG
* * * *
955650 TAATCGGGGATATTCCATCTCCGATTTTATTTTC-AAAACACTAATTTTCTA
1 TAATCGGGGATACTCCAGCTCCGATTTTATTTCCAAAAACACCAATTTTCTA
955701 TAATCGGGGATACTCCAGCTCCGATTTTATTTCCAAAAACACCAATTTT
1 TAATCGGGGATACTCCAGCTCCGATTTTATTTCCAAAAACACCAATTTT
955750 TTTCACAATC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
51 31 0.70
52 13 0.30
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.37
Consensus pattern (52 bp):
TAATCGGGGATACTCCAGCTCCGATTTTATTTCCAAAAACACCAATTTTCTA
Found at i:962487 original size:61 final size:61
Alignment explanation
Indices: 962085--964161 Score: 2175
Period size: 61 Copynumber: 35.4 Consensus size: 61
962075 CTTTTAGCCA
* * * * *
962085 TTCCTAGTCCTCAAAGAGCAGGACGCCTTCTTTCTTTTAAAGCCCACACAAGTTGGTGGCA-C
1 TTCC-AGTCCTCAAAGAGCAGGATGCTTTC-TCCTTTCAAAGCCCACACAAGTTGGTGGCATT
* * *
962147 TTCCTAGTCCTCAAAGAGCAGGACGC---CT-C-TT-AAAGCCCACACGAGTTGGTGGCACT
1 TTCC-AGTCCTCAAAGAGCAGGATGCTTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCATT
* ** *
962203 TCCCAGTCCTCAAAGAGCAGGA--C-ACCT-C-TT-AAAGCCCACACAAGTTGGTGGCA-C
1 TTCCAGTCCTCAAAGAGCAGGATGCTTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCATT
* * *
962257 TTCCTAATCCTCAAAGAGCAGGA-----T-ACC-TT-AAA-CCCACACAAGTTGGGGGCATT
1 TTCC-AGTCCTCAAAGAGCAGGATGCTTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCATT
** * *
962310 TTCCAGTCCTCAAAGAGCAGGA--C-ACCT-C-TT-AAAGCCCACATAAGTTGGTGGCA-C
1 TTCCAGTCCTCAAAGAGCAGGATGCTTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCATT
* * *
962364 TTCCTAATCCTCAAAGAGCAGGATAC---CT--TTT-AAAGCCCACACAAGTTGGTGGCACT
1 TTCC-AGTCCTCAAAGAGCAGGATGCTTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCATT
* *
962420 TCCCAGTCCTCAAAGAGCAGGATGCCTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCATT
1 TTCCAGTCCTCAAAGAGCAGGATGCTTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCATT
* **
962481 TTCCAGTCCTCAAAGAGCAGGATGC---CT--TTT-AAAGCCCACCCAAGTTGGTGGCACC
1 TTCCAGTCCTCAAAGAGCAGGATGCTTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCATT
* * *
962536 TT-CAGTCCTCAAAGAGCAAGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATT
1 TTCCAGTCCTCAAAGAGCAGGATGCTTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCATT
* * * **
962596 TTCCAGTCCTCAAAGAGCAGGACGCCTTT-T-CTTTTAAAGCCCACACAAGTTAGTGGCACC
1 TTCCAGTCCTCAAAGAGCAGGATG-CTTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCATT
* * *
962656 TT-CAGTCCTCAAAGAGCAGGACGCCTTCTTCTTTCAAAGCCCACACAAGTTGGTGGCATT
1 TTCCAGTCCTCAAAGAGCAGGATGCTTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCATT
* * *
962716 TTCCAATCCTCAAAGAGCAGGA------CACCTTTCAAAGCTCACACAAGTTGGTGGCATT
1 TTCCAGTCCTCAAAGAGCAGGATGCTTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCATT
* * * *
962771 TTCTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACATAAGTTGGTGGCATT
1 TTCCAGTCCTCAAAGAGCAGGATGCTTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCATT
* * *
962832 TTCTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATT
1 TTCCAGTCCTCAAAGAGCAGGATGCTTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCATT
* * * *
962893 TTCTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCATT
1 TTCCAGTCCTCAAAGAGCAGGATGCTTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCATT
* * * *
962954 TTCTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACTT
1 TTCCAGTCCTCAAAGAGCAGGATGCTTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCA-TT
* * * * * *
963016 TT-TAGTCCCCAAAGAGCA-GA-----ACACCTTTCAAAGCCTACACAAGTTGGCGGCATT
1 TTCCAGTCCTCAAAGAGCAGGATGCTTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCATT
* * * **
963070 TTCCAGTCCTCAAAGAGCAGGACGCCTTT-T-CTTTTAAAGCCCACACAAGTTAGTGGCACC
1 TTCCAGTCCTCAAAGAGCAGGATG-CTTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCATT
* * *
963130 TT-CAGTCCTCAAAGAGCAGGACGCCTTCTTCTTTCAAAGCCCACACAAGTTGGTGGCATT
1 TTCCAGTCCTCAAAGAGCAGGATGCTTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCATT
* * *
963190 TTCCAATCCTCAAAGAGCAGGA------CACCTTTCAAAGCTCACACAAGTTGGTGGCATT
1 TTCCAGTCCTCAAAGAGCAGGATGCTTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCATT
* * * *
963245 TTCTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACATAAGTTGGTGGCATT
1 TTCCAGTCCTCAAAGAGCAGGATGCTTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCATT
* * *
963306 TTCTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATT
1 TTCCAGTCCTCAAAGAGCAGGATGCTTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCATT
* * *
963367 TTCTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATT
1 TTCCAGTCCTCAAAGAGCAGGATGCTTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCATT
* * *
963428 TTCTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATT
1 TTCCAGTCCTCAAAGAGCAGGATGCTTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCATT
* * * *
963489 TTCTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACTT
1 TTCCAGTCCTCAAAGAGCAGGATGCTTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCA-TT
* * * * * * *
963551 TT-TAGTCCCCAAAGAGCA-GA-----ACACCTTTTAAAGCCCACCCAAGTTGGTGGCACCT
1 TTCCAGTCCTCAAAGAGCAGGATGCTTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCA-TT
* * *
963606 TT--AGTCCTCAAAGAGCAAGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATT
1 TTCCAGTCCTCAAAGAGCAGGATGCTTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCATT
* * * **
963665 TTCCAGTCCTCAAAGAGCAGGACGCCTTT-T-CTTTTAAAGCCCACACAAGTTAGTGGCACC
1 TTCCAGTCCTCAAAGAGCAGGATG-CTTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCATT
* * * *
963725 TT-CAGTCCTCAAAGAGCAGGACGCCTTCTTCTTTCAAAGCCCACACCAGTTGGTGGCATT
1 TTCCAGTCCTCAAAGAGCAGGATGCTTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCATT
* * *
963785 TTCCAATCCTCAAAGAGCAGGA------CACCTTTCAAAGCTCACACAAGTTGGTGGCATT
1 TTCCAGTCCTCAAAGAGCAGGATGCTTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCATT
* * * *
963840 TTCTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACATAAGTTGGTGGCATT
1 TTCCAGTCCTCAAAGAGCAGGATGCTTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCATT
* * *
963901 TTCTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATT
1 TTCCAGTCCTCAAAGAGCAGGATGCTTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCATT
* * *
963962 TTCTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATT
1 TTCCAGTCCTCAAAGAGCAGGATGCTTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCATT
* * * * *
964023 TTCTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAATGCCCACACAAGTTGGTGGTACCTT
1 TTCCAGTCCTCAAAGAGCAGGATGCTTTCTCCTTTCAAAGCCCACACAAGTTGGTGG--CATT
* * *
964086 TT--AGTCCTCAAAGAGTAGGA------CGCCTTTCAAAGCCCACACGAGTTGGTGGCACTT
1 TTCCAGTCCTCAAAGAGCAGGATGCTTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCA-TT
* *
964140 TT-TAGTCCTCAATGAGCAGGAT
1 TTCCAGTCCTCAAAGAGCAGGAT
964162 ACACTTTATT
Statistics
Matches: 1785, Mismatches: 150, Indels: 166
0.85 0.07 0.08
Matches are distributed among these distances:
52 35 0.02
53 12 0.01
54 56 0.03
55 446 0.25
56 13 0.01
57 3 0.00
58 14 0.01
59 73 0.04
60 220 0.12
61 866 0.49
62 42 0.02
63 5 0.00
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (61 bp):
TTCCAGTCCTCAAAGAGCAGGATGCTTTCTCCTTTCAAAGCCCACACAAGTTGGTGGCATT
Found at i:962907 original size:36 final size:36
Alignment explanation
Indices: 962866--962968 Score: 84
Period size: 36 Copynumber: 3.2 Consensus size: 36
962856 CTTTTTCTTT
962866 TCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCC
1 TCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCC
* * * *
962902 TCAAAG---A-GC-AG--GAT-GCTTTTTCT--T-T
1 TCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCC
*
962927 TTAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCC
1 TCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCC
962963 TCAAAG
1 TCAAAG
962969 AGCAGGATGC
Statistics
Matches: 46, Mismatches: 10, Indels: 22
0.59 0.13 0.28
Matches are distributed among these distances:
25 5 0.11
26 1 0.02
28 9 0.20
29 3 0.07
30 2 0.04
31 2 0.04
32 3 0.07
33 9 0.20
35 1 0.02
36 11 0.24
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.31
Consensus pattern (36 bp):
TCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCC
Found at i:963281 original size:474 final size:472
Alignment explanation
Indices: 962088--964160 Score: 2763
Period size: 474 Copynumber: 4.4 Consensus size: 472
962078 TTAGCCATTC
* * *
962088 CTAGTCCTCAAAGAGCAGGACGCCTTCTTTCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCT
1 CTAGTCCTCAAAGAGCAGGATG-CTTC--T-TTTCAAAGCCCACACAAGTTGGTGGCATTTTCC-
*
962152 AGTCCTCAAAGAGCAGGACGCC---TC--TTAAAGCCCACACGAGTTGGTGGCA-CTTCCCAGTC
61 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT--CAGTC
* *
962211 CTCAAAGAGCAGGACAC--C-TC-TT-AAAGCCCACACAAGTTGGTGGCA-CTTCCTAATCCTCA
124 CTCAAAGAGCAGGACGCTTCTTCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC-AATCCTCA
* * *
962270 AAGAGCAGGATACC-TT-AAA-CCCACACAAGTTGGGGGCATTTTCCAGTCCTCAAAGAGCAGGA
188 AAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGA
** * * * *
962332 --C---ACCTCTT-AAAGCCCACATAAGTTGGTGGCACTTCCTAATCCTCAAAGAGCAGGATAC-
253 TGCTTTTTCTTTTCAAAGCCCACATAAGTTGGTGGCATTTTCTAATCCTCAAAGAGCAGGATGCT
* * * * * *
962390 CTTTT-AAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGATGCCTTCTCCTT
318 CTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCTTTTTCTTT
*
962454 TCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGC-----CTTTT-AA
383 TCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAA
* **
962513 AGCCCACCCAAGTTGGTGGCACCTT
448 AGCCCACACAAGTTGGTGGCATTTT
*
962538 C-AGTCCTCAAAGAGCAAGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAG
1 CTAGTCCTCAAAGAGCAGGATGC---TTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAG
*
962602 TCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTAGTGGCACCTTCAGTCCTCA
63 TCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCA
962667 AAGAGCAGGACGCCTTCTTCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGA
128 AAGAGCAGGACG-CTTCTTCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGA
*
962732 GCAGGACACCTTTCAAAGCTCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCT
192 GCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCT
*
962797 TTTTCTTTTCAAAGCCCACATAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCTTTTT
257 TTTTCTTTTCAAAGCCCACATAAGTTGGTGGCATTTTCTAATCCTCAAAGAGCAGGATGC----T
962862 CTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCTTTTTCTTT
318 CTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCTTTTTCTTT
*
962927 TTAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAA
383 TCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAA
*
962992 AGCCCACACGAGTTGGTGGCACTTTT
448 AGCCCACACAAGTTGGTGGCA-TTTT
* * * * * *
963018 -TAGTCCCCAAAGAGCA-GA-AC-ACCTTTCAAAGCCTACACAAGTTGGCGGCATTTTCCAGTCC
1 CTAGTCCTCAAAGAGCAGGATGCTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCC
*
963079 TCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTAGTGGCACCTTCAGTCCTCAAAG
66 TCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAG
963144 AGCAGGACGCCTTCTTCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGCA
131 AGCAGGACG-CTTCTTCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGCA
*
963209 GGACACCTTTCAAAGCTCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCTTTT
195 GGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCTTTT
*
963274 TCTTTTCAAAGCCCACATAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCTTTTTCTT
260 TCTTTTCAAAGCCCACATAAGTTGGTGGCATTTTCTAATCCTCAAAGAGCAGGATGC----TCTT
963339 TTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCA
321 TTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCA
963404 AAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGC
386 AAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGC
963469 CCACACAAGTTGGTGGCATTTT
451 CCACACAAGTTGGTGGCATTTT
* *
963491 CTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACTTTT-TA
1 CTAGTCCTCAAAGAGCAGGATGC---TTCTTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCA
* * * * *
963555 GTCCCCAAAGAGCAGAAC-AC----CTTTTAAAGCCCACCCAAGTTGGTGGCACCTTTAGTCCTC
62 GTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTC
* * * *
963615 AAAGAGCAAGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAG
127 AAAGAGCAGGACGCTTCTTC-TTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAG
* * **
963680 AGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTAGTGGCACCTTC-AGTCCTCAAAGAGCAG
191 AGCAGGACACC-TTTC----AAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAG
* * ** *
963744 GACGCCTTCTTC-TTTCAAAGCCCACACCAGTTGGTGGCATTTTCCAATCCTCAAAGAGCAGGA-
251 GATG-CTTTTTCTTTTCAAAGCCCACATAAGTTGGTGGCATTTTCTAATCCTCAAAGAGCAGGAT
* * *
963807 -CACCTTTCAAAGCTCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCTTTTTC
315 GCTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCTTTTTC
*
963871 TTTTCAAAGCCCACATAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTT
380 TTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTT
963936 CAAAGCCCACACAAGTTGGTGGCATTTT
445 CAAAGCCCACACAAGTTGGTGGCATTTT
*
963964 CTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAG
1 CTAGTCCTCAAAGAGCAGGATGC---TTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAG
* * * * *
964029 TCCTCAAAGAGCAGGATGCTTTTTCTTTTCAATGCCCACACAAGTTGGTGGTACCTTTTAGTCCT
63 TCCTCAAAGAGCAGGACGCCTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCACC-TTCAGTCCT
* * * * *
964094 CAAAGAGTAGGACG---C--CTTTCAAAGCCCACACGAGTTGGTGGCACTTTT-TAGTCCTCAAT
126 CAAAGAGCAGGACGCTTCTTCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAATCCTCAAA
964153 GAGCAGGA
190 GAGCAGGA
964161 TACACTTTAT
Statistics
Matches: 1471, Mismatches: 88, Indels: 104
0.88 0.05 0.06
Matches are distributed among these distances:
448 49 0.03
449 23 0.02
450 1 0.00
451 5 0.00
452 20 0.01
453 24 0.02
454 3 0.00
455 1 0.00
456 2 0.00
457 2 0.00
458 44 0.03
459 6 0.00
460 3 0.00
461 40 0.03
463 1 0.00
466 4 0.00
467 46 0.03
472 9 0.01
473 332 0.23
474 507 0.34
475 108 0.07
476 5 0.00
477 1 0.00
478 11 0.01
479 112 0.08
480 108 0.07
481 4 0.00
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (472 bp):
CTAGTCCTCAAAGAGCAGGATGCTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCC
TCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAG
AGCAGGACGCTTCTTCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGCAG
GACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCTTTTT
CTTTTCAAAGCCCACATAAGTTGGTGGCATTTTCTAATCCTCAAAGAGCAGGATGCTCTTTTCAA
AGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCC
CACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACA
CAAGTTGGTGGCATTTT
Found at i:963369 original size:33 final size:33
Alignment explanation
Indices: 963332--963492 Score: 84
Period size: 33 Copynumber: 5.2 Consensus size: 33
963322 GCAGGATGCT
963332 TTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
* * * *
963365 TTTTCTAGTCCTCAAAG---A-GC-AG--GAT-GCT
1 TTTTCT--T-TTCAAAGCCCACACAAGTTGGTGGCA
963393 TTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
* * * *
963426 TTTTCTAGTCCTCAAAG---A-GC-AG--GAT-GCT
1 TTTTCT--T-TTCAAAGCCCACACAAGTTGGTGGCA
963454 TTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
963487 TTTTCT
1 TTTTCT
963493 AGTCCTCAAA
Statistics
Matches: 90, Mismatches: 16, Indels: 44
0.60 0.11 0.29
Matches are distributed among these distances:
25 12 0.13
26 2 0.02
28 18 0.20
29 6 0.07
30 4 0.04
31 4 0.04
32 6 0.07
33 24 0.27
35 2 0.02
36 12 0.13
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.35
Consensus pattern (33 bp):
TTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:963964 original size:33 final size:33
Alignment explanation
Indices: 963927--964026 Score: 81
Period size: 33 Copynumber: 3.2 Consensus size: 33
963917 GCAGGATGCT
963927 TTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
* * * *
963960 TTTTCTAGTCCTCAAAG---A-GC-AG--GAT-GCT
1 TTTTCT--T-TTCAAAGCCCACACAAGTTGGTGGCA
963988 TTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
964021 TTTTCT
1 TTTTCT
964027 AGTCCTCAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 22
0.62 0.10 0.28
Matches are distributed among these distances:
25 6 0.12
26 1 0.02
28 9 0.19
29 3 0.06
30 2 0.04
31 2 0.04
32 3 0.06
33 15 0.31
35 1 0.02
36 6 0.12
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.36
Consensus pattern (33 bp):
TTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:963976 original size:36 final size:36
Alignment explanation
Indices: 963935--964037 Score: 93
Period size: 36 Copynumber: 3.2 Consensus size: 36
963925 CTTTTTCTTT
963935 TCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCC
1 TCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCC
* * * *
963971 TCAAAG---A-GC-AG--GAT-GCTTTTTCT--T-T
1 TCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCC
963996 TCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCC
1 TCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCC
964032 TCAAAG
1 TCAAAG
964038 AGCAGGATGC
Statistics
Matches: 48, Mismatches: 8, Indels: 22
0.62 0.10 0.28
Matches are distributed among these distances:
25 6 0.12
26 1 0.02
28 9 0.19
29 3 0.06
30 2 0.04
31 2 0.04
32 3 0.06
33 9 0.19
35 1 0.02
36 12 0.25
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.30
Consensus pattern (36 bp):
TCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCC
Found at i:963997 original size:534 final size:532
Alignment explanation
Indices: 962085--964157 Score: 3037
Period size: 534 Copynumber: 3.9 Consensus size: 532
962075 CTTTTAGCCA
*
962085 TTCCTAGTCCTCAAAGAGCAGGACGCCTTCTTTCTTTTAAAGCCCACACAAGTTGGTGGCA-CTT
1 TTCC-AGTCCTCAAAGAGCAGGACGCC-T-TTTCTTTTAAAGCCCACACAAGTTAGTGGCACCTT
* * * *
962149 CCTAGTCCTCAAAGAGCAGGACGC-CTC-TT-AAAGCCCACACGAGTTGGTGGCACTTCCCAGTC
63 CC-AGTCCTCAAAGAGCAGGACGCTCTCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAATC
* * *
962211 CTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACTTCCTAATCCTCAAAGAG
127 CTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAG
* * *
962275 CAGGATAC-----C--TT-AAA-CCCACACAAGTTGGGGGCATTTTCCAGTCCTCAAAGAGCAGG
191 CAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGG
** * * * * * *
962331 A--C---ACCTCTT-AAAGCCCACATAAGTTGGTGGCACTTCCTAATCCTCAAAGAGCAGGATAC
256 ATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGC
* * * * *
962390 -----CTTTT-AAAGCCCACACAAGTTGGTGGCACTTCCCAGTCCTCAAAGAGCAGGATGCCTTC
321 TTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCTTTT
* * * * ** *
962449 TCCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGATGCCTTTTAA
386 TCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTT-TAGTCCCCAAAGAGCAGAACACCTTTCAA
* *
962513 AGCCCACCCAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAAGATGCTTTTTCTTTTCAAAGCCC
450 AGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAAGATGCTTTTTCTTTTCAAAGCCC
962578 ACACAAGTTGGTGGCATT
515 ACACAAGTTGGTGGCATT
962596 TTCCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTAGTGGCACCTT-CA
1 TTCCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTAGTGGCACCTTCCA
962660 GTCCTCAAAGAGCAGGACGCCTTCTTCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAATCC
66 GTCCTCAAAGAGCAGGACG-C-TC-TCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAATCC
*
962725 TCAAAGAGCAGGACACCTTTCAAAGCTCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCA
128 TCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCA
*
962790 GGATGCTTTTTCTTTTCAAAGCCCACATAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGAT
193 GGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGAT
962855 GCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCTT
258 GCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCTT
*
962920 TTTCTTTTTAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCTTTTTC
323 TTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCTTTTTC
*
962985 TTTTCAAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCCCAAAGAGCAGAACACCTTTCAAAGC
388 TTTTCAAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCCCAAAGAGCAGAACACCTTTCAAAGC
* * * * * *
963050 CTACACAAGTTGGCGGCA-TTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTT-AAAGCCCA
453 CCACACAAGTTGGTGGCACCTTT--AGTCCTCAAAGAGCAAGATGCTTTTTCTTTTCAAAGCCCA
* **
963113 CACAAGTTAGTGGCACC
516 CACAAGTTGGTGGCATT
* * **
963130 TT-CAGTCCTCAAAGAGCAGGACGCCTTCTTCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCC
1 TTCCAGTCCTCAAAGAGCAGGACGCCTT-TTCTTTTAAAGCCCACACAAGTTAGTGGCACCTTCC
* * * * *
963194 AATCCTCAAAGAGCAGGA--CAC-CTTTCAAAGCTCACACAAGTTGGTGGCATTTTCTAGTCCTC
65 AGTCCTCAAAGAGCAGGACGCTCTCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTC
* * *
963256 AAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACATAAGTTGGTGGCATTTTCTAGTCCTCAAAG
130 AAAGAGCAGGA--C----ACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAG
963321 AGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCA
189 AGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCA
963386 GGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGAT
254 GGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGAT
963451 GCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCTT
319 GCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCTT
* *
963516 TTTCTTTTCAAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCCCAAAGAGCAGAACACCTTTTA
384 TTTCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCCCAAAGAGCAGAACACCTTTCA
*
963581 AAGCCCACCCAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAAGATGCTTTTTCTTTTCAAAGCC
449 AAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAAGATGCTTTTTCTTTTCAAAGCC
963646 CACACAAGTTGGTGGCATT
514 CACACAAGTTGGTGGCATT
963665 TTCCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTAGTGGCACCTT-CA
1 TTCCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTAGTGGCACCTTCCA
*
963729 GTCCTCAAAGAGCAGGACGCCTTCTTCTTTCAAAGCCCACACCAGTTGGTGGCATTTTCCAATCC
66 GTCCTCAAAGAGCAGGACG-C-TC-TCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAATCC
*
963794 TCAAAGAGCAGGACACCTTTCAAAGCTCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCA
128 TCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCA
*
963859 GGATGCTTTTTCTTTTCAAAGCCCACATAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGAT
193 GGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGAT
963924 GCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCTT
258 GCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCTT
963989 TTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCTTTTTC
323 TTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCTTTTTC
* * * * * * *
964054 TTTTCAATGCCCACACAAGTTGGTGGTACCTTTTAGTCCTCAAAGAGTAGGACGCCTTTCAAAGC
388 TTTTCAAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCCCAAAGAGCAGAACACCTTTCAAAGC
* * *
964119 CCACACGAGTTGGTGGCACTTTTTAGTCCTCAATGAGCA
453 CCACACAAGTTGGTGGCAC-CTTTAGTCCTCAAAGAGCA
964158 GGATACACTT
Statistics
Matches: 1413, Mismatches: 99, Indels: 76
0.89 0.06 0.05
Matches are distributed among these distances:
507 20 0.01
508 32 0.02
509 4 0.00
510 23 0.02
511 6 0.00
512 4 0.00
513 93 0.07
518 1 0.00
520 2 0.00
521 3 0.00
522 40 0.03
524 1 0.00
527 4 0.00
528 45 0.03
529 49 0.03
531 2 0.00
532 1 0.00
533 32 0.02
534 532 0.38
535 440 0.31
536 28 0.02
537 1 0.00
538 2 0.00
540 48 0.03
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.28
Consensus pattern (532 bp):
TTCCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTAGTGGCACCTTCCA
GTCCTCAAAGAGCAGGACGCTCTCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCA
AAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGA
TGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCT
TTTTCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCTTTTT
CTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGATGCTTTTTCTTT
TCAAAGCCCACACAAGTTGGTGGCACTTTTTAGTCCCCAAAGAGCAGAACACCTTTCAAAGCCCA
CACAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAAGATGCTTTTTCTTTTCAAAGCCCACACAA
GTTGGTGGCATT
Found at i:964936 original size:19 final size:18
Alignment explanation
Indices: 964912--964977 Score: 79
Period size: 19 Copynumber: 3.8 Consensus size: 18
964902 ATTTGTAGAA
964912 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG-TT
964931 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
964944 TGTATCGATACATAAGTAT
1 TGTATCGATACATAAGT-T
964963 TGTATCGATACATAA
1 TGTATCGATACATAA
964978 TTAGCTACTG
Statistics
Matches: 41, Mismatches: 0, Indels: 12
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.27
15 2 0.05
17 2 0.05
19 26 0.63
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.36
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:964949 original size:13 final size:13
Alignment explanation
Indices: 964931--964955 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
964921 ACATAAGTTT
964931 TGTATCGATACAA
1 TGTATCGATACAA
964944 TGTATCGATACA
1 TGTATCGATACA
964956 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:964951 original size:32 final size:32
Alignment explanation
Indices: 964910--964974 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
964900 ACATTTGTAG
*
964910 AATGTATCGATACATAAGTTTTGTATCGATAC
1 AATGTATCGATACATAAGTATTGTATCGATAC
964942 AATGTATCGATACATAAGTATTGTATCGATAC
1 AATGTATCGATACATAAGTATTGTATCGATAC
964974 A
1 A
964975 TAATTAGCTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.35
Consensus pattern (32 bp):
AATGTATCGATACATAAGTATTGTATCGATAC
Found at i:965035 original size:13 final size:13
Alignment explanation
Indices: 965017--965042 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
965007 CATTTTTCTA
965017 TGTATCGATACAT
1 TGTATCGATACAT
965030 TGTATCGATACAT
1 TGTATCGATACAT
965043 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:965039 original size:33 final size:33
Alignment explanation
Indices: 964997--965063 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
964987 GCCAAGGAAA
***
964997 TGTATCGATACATTTTTCTATGTATCGATACAT
1 TGTATCGATACATGGATCTATGTATCGATACAT
*
965030 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTATGTATCGATACAT
965063 T
1 T
965064 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTATGTATCGATACAT
Found at i:967474 original size:51 final size:52
Alignment explanation
Indices: 967398--967496 Score: 155
Period size: 51 Copynumber: 1.9 Consensus size: 52
967388 AATTCTCCGC
* * * *
967398 AATCGGGGATATTCCATCTCCGATTTTATTTTC-AAAACACTAATTTTCTAT
1 AATCGGGGATACTCCAGCTCCGATTTTATTTCCAAAAACACCAATTTTCTAT
967449 AATCGGGGATACTCCAGCTCCGATTTTATTTCCAAAAACACCAATTTT
1 AATCGGGGATACTCCAGCTCCGATTTTATTTCCAAAAACACCAATTTT
967497 TTTCACAATC
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
51 30 0.70
52 13 0.30
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.36
Consensus pattern (52 bp):
AATCGGGGATACTCCAGCTCCGATTTTATTTCCAAAAACACCAATTTTCTAT
Found at i:967540 original size:28 final size:28
Alignment explanation
Indices: 967504--967580 Score: 93
Period size: 28 Copynumber: 2.8 Consensus size: 28
967494 TTTTTTCACA
* *
967504 ATCGAGGATACTCCAACCTCGTTA-TCTC
1 ATCGGGGATACTCCAACCCCGTTACT-TC
967532 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
967560 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
967581 GCTTTATTCC
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
28 42 0.98
29 1 0.02
ACGTcount: A:0.23, C:0.35, G:0.19, T:0.22
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:968995 original size:55 final size:55
Alignment explanation
Indices: 968901--969303 Score: 330
Period size: 55 Copynumber: 7.0 Consensus size: 55
968891 TTTTTTTTCT
* * *
968901 TTTTAAAGCCCACACAAGTTGGTGGCATCTTTCAATCCTCAAAGAGCAAGACGCC
1 TTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGACGCC
* * *
968956 TTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGTAGGACACCTTTTTTCC
1 TTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCA--AGA-C-----GCC
* ** *
969019 TTTTAAAGCCCACACAAGTTGGTGCCA-CTTCCCAGTCCTCAAAGAGCAGGACGCCTTCTCC
1 TTTTAAAGCCCACACAAGTTGGTGGCACCTT-TTAGTCCTCAAAGAGCAAGACG------CC
*
969080 TTTTAAAGCCCACACAAGTTGGTGGCACC-TTTAGTCCTCAAAGAGCAAGAAGCC
1 TTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGACGCC
* * * *
969134 TTTCAAAGCCCACACGAGTTGGT-G-ACATTTTCCAGTCCTCAAAGAGCAGGACGCC
1 TTTTAAAGCCCACACAAGTTGGTGGCACCTTTT--AGTCCTCAAAGAGCAAGACGCC
* * * * * * * *
969189 TTTCACAGCGCACACGAGTTGGTGGCA-CTTCTCAGTCCTCGAAGAGCAGGATGCCTTTTCC
1 TTTTAAAGCCCACACAAGTTGGTGGCACCTT-TTAGTCCTCAAAGAGCA--A-GAC---GCC
* *
969250 TTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGC
1 TTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGACGC
969304 TCTCTCTTTT
Statistics
Matches: 278, Mismatches: 41, Indels: 58
0.74 0.11 0.15
Matches are distributed among these distances:
52 2 0.01
53 4 0.01
54 23 0.08
55 100 0.36
56 3 0.01
57 4 0.01
58 5 0.02
60 19 0.07
61 69 0.25
62 7 0.03
63 42 0.15
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.25
Consensus pattern (55 bp):
TTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGACGCC
Found at i:969498 original size:210 final size:210
Alignment explanation
Indices: 969107--969507 Score: 580
Period size: 210 Copynumber: 1.9 Consensus size: 210
969097 GTTGGTGGCA
* *
969107 CCTTTAGTCCTCAAAGAGCAAGAAGCCTTTCAAAGCCCACACGAGTTGGTGACATTTTCCAGTCC
1 CCTTTAGTCCTCAAAGAGCAAGAAGCCTTTCAAAGCCCACACAAGTTGGTGACACTTTCCAGTCC
* * *
969172 TCAAAGAGCAGGACGCCTTTCACAGCGCACACGAGTTGGTGGCACTTCTCAGTCCTCGAAGAGCA
66 TCAAAAAGCAGGACGCCTTTCACAGCCCACACGAGTTGGTGGCACCTCTCAGTCCTCGAAGAGCA
*
969237 GGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGAC
131 GGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGAC
969302 GCTCTCTCTTTTCAC
196 GCTCTCTCTTTTCAC
* * *
969317 CCTTTAGTTCTCAAAGAGCAGGACA-CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGT
1 CCTTTAGTCCTCAAAGAGCAAGA-AGCCTTTCAAAGCCCACACAAGTTGGTGACA-CTTTCCAGT
* * *
969380 CCTCAAAAAGCAGGACGCTTTTTGA-AGCCCACATGAGTTGGTGGCACC-CTCCAGTCCTC-ATA
64 CCTCAAAAAGCAGGACGC-CTTTCACAGCCCACACGAGTTGGTGGCACCTCT-CAGTCCTCGA-A
* *
969442 GAGCAGGACGCCTTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACCTT-TAGTCCTCAAAGAG
126 GAGCAGGACGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAG
969506 CA
190 CA
969508 AGACACTTTT
Statistics
Matches: 171, Mismatches: 14, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
209 3 0.02
210 134 0.78
211 34 0.20
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (210 bp):
CCTTTAGTCCTCAAAGAGCAAGAAGCCTTTCAAAGCCCACACAAGTTGGTGACACTTTCCAGTCC
TCAAAAAGCAGGACGCCTTTCACAGCCCACACGAGTTGGTGGCACCTCTCAGTCCTCGAAGAGCA
GGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGAC
GCTCTCTCTTTTCAC
Found at i:969736 original size:61 final size:60
Alignment explanation
Indices: 969344--970731 Score: 1444
Period size: 55 Copynumber: 23.8 Consensus size: 60
969334 GCAGGACACC
*
969344 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAAAGCAGGACGC---T-T
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCTTTTCT
* ** * * *
969400 TTT-GAAGCCCACATGAGTTGGTGGCACCCTCCAGTCCTCATAGAGCAGGACGCCTTTTTCT
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACG-C-TTTTCT
* * *
969461 TTTCAAAGCCCACACGAGTTGGTGGCACCTTT-AGTCCTCAAAGAGCAAGACACTTTTTTTCT
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGC---TTTTCT
* * * *
969523 TTTTAAAGCCCACACAAGTTGGTGGCACC-TCCAGTCCTCAAAGAGCAAGACACCTTTTCCT
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGAC-GCTTTT-CT
*
969584 TTT-AAAGCCCACACAAGTTGGTGGCACCTTT-AGTCCTCAAAAAGCAGGACGCCTTTTCT
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACG-CTTTTCT
* * * *
969643 TTTC-AAGTCCACACAAGTTGGTGGCACCTTTCAATCCTCAAAGAGCAAGATGCTTTTTCT
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGC-TTTTCT
**
969703 TTTCAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCT
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACG-CTTTTCT
* * * *
969764 TTT-AAAGCCCAGACAAGTTGGTGGCACC-TTCAATCCTCAAAGAGCAGGACGCCTTCTCC
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACG-CTTTTCT
** *
969823 TTTCAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCT
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGC-TTTTCT
* * *
969884 TTTCAAAGCCCACACAAATTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACAC----CT
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGACGCTTTTCT
* *
969940 CTT-AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCT
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGC-TTTTCT
* * * *
970000 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCCCAAAAAGCAGGACAC----C-
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCTTTTCT
* **
970055 TTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGA----TACCT
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGACGCTTTTCT
* * * * *
970111 CTT-AAAGCCCACACAAGTTGGTGGCACCTTTCAGCCCTTATAGAGCAGAACGC----C-
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCTTTTCT
* *
970165 TTTCAAAGCCCACACTAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACGC----C-
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGACGCTTTTCT
* * *
970220 TTTCAAAGCCTACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCCT
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGACG-CTTTTCT
* * * *
970281 TTGCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAAAGCAGGACGCCTTTCCT
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACG-CTTTTCT
** * *
970342 TTTCAAAGCCCACATGAGTTGGTGGCA-CTTTCTACTCCTCAAAGAGCAGGATGCTTTTTCT
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTC-AGTCCTCAAAGAGCAGGACGC-TTTTCT
* * *
970403 TTTCAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAAAGCAGGACAC----C-
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCTTTTCT
* *
970458 TCTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAGAGAGCAGGACGCTTTTTCT
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGC-TTTTCT
* * *
970519 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGTGCAGGACAC----C-
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCTTTTCT
* * * *
970574 TTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAATCCTCAAAGAGCAGCACAC----CT
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGACGCTTTTCT
* * *
970630 CTT-AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGTAGGATGC----C-
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCTTTTCT
* * *
970684 TTTCAAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCA
1 TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCA
970732 AGATGCACTT
Statistics
Matches: 1145, Mismatches: 126, Indels: 123
0.82 0.09 0.09
Matches are distributed among these distances:
54 13 0.01
55 435 0.38
56 25 0.02
59 63 0.06
60 139 0.12
61 385 0.34
62 84 0.07
63 1 0.00
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (60 bp):
TTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCTTTTCT
Found at i:970223 original size:27 final size:27
Alignment explanation
Indices: 970193--970279 Score: 70
Period size: 27 Copynumber: 3.2 Consensus size: 27
970183 TTGGTGGCAT
970193 TTTCCAGTCCTCAAAGAGCAGGACGCC
1 TTTCCAGTCCTCAAAGAGCAGGACGCC
* * ** ** *
970220 TTTCAAAG-CCTACACA-AGTTGGTGGCAT
1 TTTC-CAGTCCT-CAAAGAGCAGGACGC-C
970248 TTTCCAGTCCTCAAAGAGCAGGACGCC
1 TTTCCAGTCCTCAAAGAGCAGGACGCC
970275 TTTCC
1 TTTCC
970280 TTTGCAAAGC
Statistics
Matches: 41, Mismatches: 14, Indels: 10
0.63 0.22 0.15
Matches are distributed among these distances:
27 23 0.56
28 18 0.44
ACGTcount: A:0.25, C:0.30, G:0.21, T:0.24
Consensus pattern (27 bp):
TTTCCAGTCCTCAAAGAGCAGGACGCC
Found at i:970552 original size:29 final size:29
Alignment explanation
Indices: 970519--970600 Score: 93
Period size: 26 Copynumber: 2.9 Consensus size: 29
970509 CGCTTTTTCT
970519 TTTCAAAGCCCACACAAGTTGGTGGCACC
1 TTTCAAAGCCCACACAAGTTGGTGGCACC
**
970548 TTTC--AGTCCC-CA-AAG-TGCAGGACACC
1 TTTCAAAG-CCCACACAAGTTGGTGG-CACC
970574 TTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTCAAAGCCCACACAAGTTGGTGGCA
970601 TTTTCCAATC
Statistics
Matches: 42, Mismatches: 4, Indels: 14
0.70 0.07 0.23
Matches are distributed among these distances:
25 4 0.10
26 11 0.26
27 7 0.17
28 7 0.17
29 9 0.21
30 4 0.10
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (29 bp):
TTTCAAAGCCCACACAAGTTGGTGGCACC
Found at i:971570 original size:31 final size:32
Alignment explanation
Indices: 971529--971600 Score: 119
Period size: 31 Copynumber: 2.3 Consensus size: 32
971519 ACAAACAGAA
*
971529 AATGTCTCGATACATAAGTATTGTATCGAT-C
1 AATGTATCGATACATAAGTATTGTATCGATAC
*
971560 AATGTATCGATACATAAGTTTTGTATCGATAC
1 AATGTATCGATACATAAGTATTGTATCGATAC
971592 AATGTATCG
1 AATGTATCG
971601 CTACGAAGCT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
31 28 0.74
32 10 0.26
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.36
Consensus pattern (32 bp):
AATGTATCGATACATAAGTATTGTATCGATAC
Found at i:971643 original size:21 final size:21
Alignment explanation
Indices: 971617--971659 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
971607 AGCTACTGCC
971617 AAGGAAATGTATCGATACATT
1 AAGGAAATGTATCGATACATT
971638 AAGGAAATGTATCGATACATT
1 AAGGAAATGTATCGATACATT
971659 A
1 A
971660 TATCGATACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.19, T:0.28
Consensus pattern (21 bp):
AAGGAAATGTATCGATACATT
Found at i:974155 original size:52 final size:50
Alignment explanation
Indices: 974027--974159 Score: 160
Period size: 52 Copynumber: 2.6 Consensus size: 50
974017 TTAATTTTCT
* **
974027 CAATTTTTCATAATCGGGGATACTTAAAACTCGATTTTATTCTCAAAACAC
1 CAATTTTTCATAATCGAGGATAC-TCCAACTCGATTTTATTCTCAAAACAC
* *
974078 CAATTTTCCTTTAATCGAGGATACTCCAACTCCGATTTTATT-TCCAAAAACAC
1 CAATTTTTC-ATAATCGAGGATACTCCAACT-CGATTTTATTCT-C-AAAACAC
*
974131 CAATTTTTCACAATCGAGGATACTCCAAC
1 CAATTTTTCATAATCGAGGATACTCCAAC
974160 CTCGTTACCC
Statistics
Matches: 70, Mismatches: 8, Indels: 7
0.82 0.09 0.08
Matches are distributed among these distances:
51 14 0.20
52 41 0.59
53 15 0.21
ACGTcount: A:0.34, C:0.24, G:0.09, T:0.33
Consensus pattern (50 bp):
CAATTTTTCATAATCGAGGATACTCCAACTCGATTTTATTCTCAAAACAC
Found at i:974299 original size:79 final size:79
Alignment explanation
Indices: 974166--974357 Score: 233
Period size: 79 Copynumber: 2.4 Consensus size: 79
974156 CAACCTCGTT
** * *
974166 ACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATATTGATTTCTCATAA
1 ACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAATATTGATTTCTCACAA
** *
974231 TTGGGGATACTCCA
66 CCGAGGATACTCCA
* * * * *
974245 ACCCCGTTATTTCCGAGGGGATACTCCAATCCCGATTTTATTTCC-TAATAATTGATTTTTCACA
1 ACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAAT-ATTGATTTCTCACA
974309 ACCGAGGATACTCCA
65 ACCGAGGATACTCCA
* * *
974324 ACCCCGTTATTTTCAAGGGGATACACCAACCCCG
1 ACCCCGTTATTTCCGAGGGGATACTCCAACCCCG
974358 TTATTATCTC
Statistics
Matches: 96, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
78 3 0.03
79 93 0.97
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.29
Consensus pattern (79 bp):
ACCCCGTTATTTCCGAGGGGATACTCCAACCCCGACTTTATTCCCAAAATATTGATTTCTCACAA
CCGAGGATACTCCA
Found at i:975407 original size:34 final size:34
Alignment explanation
Indices: 975363--975678 Score: 231
Period size: 34 Copynumber: 9.8 Consensus size: 34
975353 TAGTGGACTC
* *
975363 GTGCCACGGAGTTATGGACTT-ACAGGAAAAAGG
1 GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGG
* *
975396 GATGCCACGGAGGTGT-GAGCTTAAAAGGGAAAAGG
1 G-TGCCACGGAGTTGTGGA-CTTAAAAGGAAAAAGG
* * *
975431 GTGCCACGGAGTCGTGGACTTAAAAAG-AAAA-T
1 GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGG
**
975463 GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAAA
1 GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGG
* * *
975497 GTGCCATGAAGTTGTGGGCTT-------AAAAGG
1 GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGG
* *
975524 GTGCCACGAAATTGTGGACTT-------AAAAGG
1 GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGG
* * *
975551 GTGCCACAGAGTTATGGACTTAAAAGGAAAGA-G
1 GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGG
* ** *
975584 ATGCCACAAAGTTGTGGACTTAAAAGGAAAAAGA
1 GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGG
* *
975618 GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAA-G
1 GTGCCACGGAGTTGTGGAC-TTAAAAGGAAAAAGG
** *
975652 GTGCCACACAATTGTGGACTTAAAAGG
1 GTGCCACGGAGTTGTGGACTTAAAAGG
975679 GTGCCATAGA
Statistics
Matches: 228, Mismatches: 40, Indels: 30
0.77 0.13 0.10
Matches are distributed among these distances:
27 45 0.20
32 25 0.11
33 47 0.21
34 86 0.38
35 25 0.11
ACGTcount: A:0.36, C:0.13, G:0.31, T:0.19
Consensus pattern (34 bp):
GTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGG
Found at i:975472 original size:32 final size:32
Alignment explanation
Indices: 975431--975493 Score: 108
Period size: 32 Copynumber: 2.0 Consensus size: 32
975421 AGGGAAAAGG
975431 GTGCCACGGAGTCGTGGACTTAAAAAGAAAAT
1 GTGCCACGGAGTCGTGGACTTAAAAAGAAAAT
* *
975463 GTGCCACGGAGTTGTGGACTTAAAAGGAAAA
1 GTGCCACGGAGTCGTGGACTTAAAAAGAAAA
975494 AAAGTGCCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.37, C:0.14, G:0.30, T:0.19
Consensus pattern (32 bp):
GTGCCACGGAGTCGTGGACTTAAAAAGAAAAT
Found at i:975529 original size:27 final size:27
Alignment explanation
Indices: 975497--975577 Score: 101
Period size: 27 Copynumber: 3.0 Consensus size: 27
975487 AGGAAAAAAA
* * *
975497 GTGCCATGAAGTTGTGGGCTTAAAAGG
1 GTGCCACGAAATTGTGGACTTAAAAGG
975524 GTGCCACGAAATTGTGGACTTAAAAGG
1 GTGCCACGAAATTGTGGACTTAAAAGG
* *
975551 GTGCCAC-AGAGTTATGGACTTAAAAGG
1 GTGCCACGA-AATTGTGGACTTAAAAGG
975578 AAAGAGATGC
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
26 1 0.02
27 47 0.98
ACGTcount: A:0.31, C:0.14, G:0.32, T:0.23
Consensus pattern (27 bp):
GTGCCACGAAATTGTGGACTTAAAAGG
Found at i:975684 original size:27 final size:27
Alignment explanation
Indices: 975646--975699 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
975636 CTTTAAAAAG
975646 AAAAAGGTGCCACACAATTGTGGACTT
1 AAAAAGGTGCCACACAATTGTGGACTT
* * * *
975673 AAAAGGGTGCCATAGAGTTGTGGACTT
1 AAAAAGGTGCCACACAATTGTGGACTT
975700 TGAGAAAAGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.33, C:0.15, G:0.28, T:0.24
Consensus pattern (27 bp):
AAAAAGGTGCCACACAATTGTGGACTT
Found at i:976163 original size:14 final size:14
Alignment explanation
Indices: 976127--976163 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
976117 TGAGCAGGTG
*
976127 AATGGTTCATGGAA
1 AATGGTTCGTGGAA
976141 AATGGTTCGTGGAA
1 AATGGTTCGTGGAA
976155 AATGGTTCG
1 AATGGTTCG
976164 GCTCATGGTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.30, C:0.08, G:0.32, T:0.30
Consensus pattern (14 bp):
AATGGTTCGTGGAA
Found at i:977353 original size:15 final size:15
Alignment explanation
Indices: 977335--977369 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
977325 CAAGTCAACT
977335 TCATCATTATCATCA
1 TCATCATTATCATCA
*
977350 TCATCATTATCTTCA
1 TCATCATTATCATCA
977365 TCATC
1 TCATC
977370 TTTGATGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.43
Consensus pattern (15 bp):
TCATCATTATCATCA
Found at i:981979 original size:13 final size:13
Alignment explanation
Indices: 981961--981986 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
981951 AAATTCCCAG
981961 ATGTATCGATACA
1 ATGTATCGATACA
981974 ATGTATCGATACA
1 ATGTATCGATACA
981987 TTGAATAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:982451 original size:13 final size:13
Alignment explanation
Indices: 982433--982457 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
982423 CAATTATTCA
982433 TGTATCGATACAT
1 TGTATCGATACAT
982446 TGTATCGATACA
1 TGTATCGATACA
982458 ATGTGCCATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:982455 original size:33 final size:33
Alignment explanation
Indices: 982413--982477 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
982403 TTTGGGACAA
**
982413 TGTATCGATACAAT-TATTCATGTATCGATACAT
1 TGTATCGATACAATGT-GCCATGTATCGATACAT
982446 TGTATCGATACAATGTGCCATGTATCGATACA
1 TGTATCGATACAATGTGCCATGTATCGATACA
982478 AACAGTGGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 28 0.97
34 1 0.03
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.35
Consensus pattern (33 bp):
TGTATCGATACAATGTGCCATGTATCGATACAT
Found at i:982575 original size:20 final size:20
Alignment explanation
Indices: 982550--982599 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
982540 AATGAACATG
982550 TATCGATACAAAGCATGATA
1 TATCGATACAAAGCATGATA
* * *
982570 TATCGATAGAAAGTATGATG
1 TATCGATACAAAGCATGATA
982590 TATCGATACA
1 TATCGATACA
982600 TCTGTATATG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.42, C:0.12, G:0.18, T:0.28
Consensus pattern (20 bp):
TATCGATACAAAGCATGATA
Found at i:984181 original size:291 final size:291
Alignment explanation
Indices: 983657--984243 Score: 1111
Period size: 291 Copynumber: 2.0 Consensus size: 291
983647 AGAAAAGCTT
983657 GTGTTCTACTATTAGGAAAAATTCAAGAATTTTATCCCAATTCATGTAAAATGAATTCAAAGAAC
1 GTGTTCTACTATTAGGAAAAATTCAAGAATTTTATCCCAATTCATGTAAAATGAATTCAAAGAAC
*
983722 ACATATTACCTAAAACATGGATTATTAAAAATGAAAAGATGAAATTTAAAATAAATTAAACGAAA
66 ACATATTACCCAAAACATGGATTATTAAAAATGAAAAGATGAAATTTAAAATAAATTAAACGAAA
*
983787 ATAAAATTAAAAAAATACAATACTTGCCATATTGTGAAAAATTAAAAAATAATTTACAAAATTCA
131 ATAAAATTAAAAAAACACAATACTTGCCATATTGTGAAAAATTAAAAAATAATTTACAAAATTCA
*
983852 CAATTTGACACTCTATGGTATAAAATGCTAATACGTATTTTCCTTTGAACATTTTTAATTTTTTA
196 CAATTTGACACTCTATGGTATAAAATGCTAATACGTATTTTCCTTTAAACATTTTTAATTTTTTA
*
983917 AGATATGTATCAGCATAAAAAAACCACACTA
261 AGATATGTATCAACATAAAAAAACCACACTA
983948 GTGTTCTACTATTAGGAAAAATTCAAGAATTTTATCCCAATTCATGTAAAATGAATTCAAAGAAC
1 GTGTTCTACTATTAGGAAAAATTCAAGAATTTTATCCCAATTCATGTAAAATGAATTCAAAGAAC
984013 ACATATTACCCAAAACATGGATTATTAAAAATGAAAAGATGAAATTTAAAATAAATTAAACGAAA
66 ACATATTACCCAAAACATGGATTATTAAAAATGAAAAGATGAAATTTAAAATAAATTAAACGAAA
*
984078 ATAAAATTAAAAAAACACAATACTTGCCATATTGTGAAAAATTAAAAAATAATTTATAAAATTCA
131 ATAAAATTAAAAAAACACAATACTTGCCATATTGTGAAAAATTAAAAAATAATTTACAAAATTCA
*
984143 CAATTTGACACTCTATGGTATAAAATGCTAATACGTATTTTCCTTTAAACATTTTTTATTTTTTA
196 CAATTTGACACTCTATGGTATAAAATGCTAATACGTATTTTCCTTTAAACATTTTTAATTTTTTA
*
984208 AGGTATGTATCAACATAAAAAAACCACACTA
261 AGATATGTATCAACATAAAAAAACCACACTA
984239 GTGTT
1 GTGTT
984244 GGTGAAATAT
Statistics
Matches: 289, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
291 289 1.00
ACGTcount: A:0.47, C:0.12, G:0.09, T:0.32
Consensus pattern (291 bp):
GTGTTCTACTATTAGGAAAAATTCAAGAATTTTATCCCAATTCATGTAAAATGAATTCAAAGAAC
ACATATTACCCAAAACATGGATTATTAAAAATGAAAAGATGAAATTTAAAATAAATTAAACGAAA
ATAAAATTAAAAAAACACAATACTTGCCATATTGTGAAAAATTAAAAAATAATTTACAAAATTCA
CAATTTGACACTCTATGGTATAAAATGCTAATACGTATTTTCCTTTAAACATTTTTAATTTTTTA
AGATATGTATCAACATAAAAAAACCACACTA
Found at i:984660 original size:21 final size:19
Alignment explanation
Indices: 984634--984687 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
984624 TTCAACAATT
984634 TGTATCGATACAAATAGTAAC
1 TGTATCGATACAAA-AGT-AC
* **
984655 TGTATCGATACATAAGTGT
1 TGTATCGATACAAAAGTAC
984674 TGTATCGATACAAA
1 TGTATCGATACAAA
984688 GCTACTGCCA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 13 0.45
20 3 0.10
21 13 0.45
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.31
Consensus pattern (19 bp):
TGTATCGATACAAAAGTAC
Found at i:984742 original size:13 final size:13
Alignment explanation
Indices: 984724--984751 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
984714 CATTACTCAA
984724 TGTATCGATACAT
1 TGTATCGATACAT
984737 TGTATCGATACAT
1 TGTATCGATACAT
984750 TG
1 TG
984752 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Done.