Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 ID=Chr11-JGI_221_v2.0
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: 62681010
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1052928 characters in sequence are not A, C, G, or T
File 117 of 210
Found at i:34784368 original size:30 final size:30
Alignment explanation
Indices: 34784333--34784400 Score: 73
Period size: 30 Copynumber: 2.3 Consensus size: 30
34784323 AAAGAAGGAT
* *
34784333 CGAGATCGAGAAAGGGAAAGGGAAAGAGAA
1 CGAGATCGAGAAAGAGAAAGAGAAAGAGAA
* ** *
34784363 CGAGATAGAGAGCGAGATAGAGAAAGAGAA
1 CGAGATCGAGAAAGAGAAAGAGAAAGAGAA
*
34784393 AGAGATCG
1 CGAGATCG
34784401 CTTTAGTAGA
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.49, C:0.07, G:0.38, T:0.06
Consensus pattern (30 bp):
CGAGATCGAGAAAGAGAAAGAGAAAGAGAA
Found at i:34784372 original size:12 final size:12
Alignment explanation
Indices: 34784357--34784397 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
34784347 GGAAAGGGAA
34784357 AGAGAACGAGAT
1 AGAGAACGAGAT
*
34784369 AGAGAGCGAGAT
1 AGAGAACGAGAT
* *
34784381 AGAGAAAGAGAA
1 AGAGAACGAGAT
34784393 AGAGA
1 AGAGA
34784398 TCGCTTTAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.54, C:0.05, G:0.37, T:0.05
Consensus pattern (12 bp):
AGAGAACGAGAT
Found at i:34784397 original size:18 final size:19
Alignment explanation
Indices: 34784348--34784398 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 19
34784338 TCGAGAAAGG
*
34784348 GAAAGGGAAAGAGA-ACGA
1 GAAAGAGAAAGAGATACGA
* **
34784366 GATAGAGAGCGAGATA-GA
1 GAAAGAGAAAGAGATACGA
34784384 GAAAGAGAAAGAGAT
1 GAAAGAGAAAGAGAT
34784399 CGCTTTAGTA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
18 24 0.96
19 1 0.04
ACGTcount: A:0.53, C:0.04, G:0.37, T:0.06
Consensus pattern (19 bp):
GAAAGAGAAAGAGATACGA
Found at i:34793401 original size:17 final size:18
Alignment explanation
Indices: 34793375--34793409 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
34793365 CGATTAATAT
*
34793375 AAATTTAAAAAAT-TAAA
1 AAATTAAAAAAATATAAA
34793392 AAATTAAAAAAATATAAA
1 AAATTAAAAAAATATAAA
34793410 CTAATAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (18 bp):
AAATTAAAAAAATATAAA
Found at i:34795384 original size:16 final size:17
Alignment explanation
Indices: 34795351--34795392 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
34795341 TTATTATAAC
34795351 TTTTAAAAATTAAAA-T
1 TTTTAAAAATTAAAATT
* * *
34795367 TTTTAAAAGTTTAGATT
1 TTTTAAAAATTAAAATT
34795384 TTTTAAAAA
1 TTTTAAAAA
34795393 AAATTAAGTA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 12 0.57
17 9 0.43
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (17 bp):
TTTTAAAAATTAAAATT
Found at i:34795784 original size:22 final size:22
Alignment explanation
Indices: 34795748--34795791 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
34795738 GATAATAATA
34795748 TTTAAAAATTCAA-TTAAAATT
1 TTTAAAAATTCAATTTAAAATT
*
34795769 TTTAAAGAATTTAATTTAAAATT
1 TTTAAA-AATTCAATTTAAAATT
34795792 AGAGTCATAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 6 0.30
22 6 0.30
23 8 0.40
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (22 bp):
TTTAAAAATTCAATTTAAAATT
Found at i:34796469 original size:23 final size:21
Alignment explanation
Indices: 34796430--34796487 Score: 55
Period size: 23 Copynumber: 2.6 Consensus size: 21
34796420 GGATTAAAGC
*
34796430 TTAATTAATTATGATTAAGTAAA
1 TTAATTAATTATAATT-A-TAAA
34796453 TTAATTAAGTT-TAATTATAAA
1 TTAATTAA-TTATAATTATAAA
*
34796474 TTAATCTAACTATA
1 TTAAT-TAATTATA
34796488 TAAATCAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
21 10 0.33
22 6 0.20
23 12 0.40
24 2 0.07
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (21 bp):
TTAATTAATTATAATTATAAA
Found at i:34797918 original size:25 final size:25
Alignment explanation
Indices: 34797862--34797935 Score: 78
Period size: 25 Copynumber: 3.0 Consensus size: 25
34797852 TTACTGATTG
34797862 CAGCTCGTAAGAGCTTACCGATTCT
1 CAGCTCGTAAGAGCTTACCGATTCT
* * **
34797887 CAACTCGTATGAGCTTATTGATT-T
1 CAGCTCGTAAGAGCTTACCGATTCT
* *
34797911 ACAGCTCGTGAGAGCATACCGATTC
1 -CAGCTCGTAAGAGCTTACCGATTC
34797936 ATAGTTCGTA
Statistics
Matches: 37, Mismatches: 10, Indels: 3
0.74 0.20 0.06
Matches are distributed among these distances:
24 1 0.03
25 36 0.97
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (25 bp):
CAGCTCGTAAGAGCTTACCGATTCT
Found at i:34798142 original size:30 final size:30
Alignment explanation
Indices: 34798103--34798164 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
34798093 TACATGAAAT
34798103 ACATGGAAAT-GAT-ATTACATGATATATTGAA
1 ACATGGAAATGGATGA-TACATG-TATA-TGAA
34798134 ACAT-GAAATGGATGATACATGTATATGAA
1 ACATGGAAATGGATGATACATGTATATGAA
34798163 AC
1 AC
34798165 TTGCTTAGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
29 6 0.21
30 9 0.31
31 13 0.45
32 1 0.03
ACGTcount: A:0.45, C:0.08, G:0.18, T:0.29
Consensus pattern (30 bp):
ACATGGAAATGGATGATACATGTATATGAA
Found at i:34810274 original size:11 final size:11
Alignment explanation
Indices: 34810243--34810288 Score: 65
Period size: 11 Copynumber: 4.1 Consensus size: 11
34810233 CTGCTGTATG
34810243 TTTGAGAACAC
1 TTTGAGAACAC
**
34810254 TCAGGAGAACAC
1 T-TTGAGAACAC
34810266 TTTGAGAACAC
1 TTTGAGAACAC
34810277 TTTGAGAACAC
1 TTTGAGAACAC
34810288 T
1 T
34810289 CAGGAGTCAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
11 21 0.70
12 9 0.30
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.24
Consensus pattern (11 bp):
TTTGAGAACAC
Found at i:34819638 original size:25 final size:25
Alignment explanation
Indices: 34819609--34819689 Score: 76
Period size: 25 Copynumber: 3.2 Consensus size: 25
34819599 TATAAATTGC
*
34819609 ATGCTCATACGAGCTGTGAATCAGT
1 ATGCTCATACGAGCTGTAAATCAGT
** *
34819634 ATGCTCATTTGAGCTG-AAGATTAGT
1 ATGCTCATACGAGCTGTAA-ATCAGT
* *
34819659 ATGCTC-TCACGAGCTATAAATCGGT
1 ATGCTCAT-ACGAGCTGTAAATCAGT
34819684 ATGCTC
1 ATGCTC
34819690 TCACGGGACT
Statistics
Matches: 44, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
24 2 0.05
25 40 0.91
26 2 0.05
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (25 bp):
ATGCTCATACGAGCTGTAAATCAGT
Found at i:34823245 original size:18 final size:19
Alignment explanation
Indices: 34823222--34823257 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
34823212 ATTGGACATT
34823222 TTTAACTA-CATTAGTTTA
1 TTTAACTATCATTAGTTTA
*
34823240 TTTAACTATCTTTAGTTT
1 TTTAACTATCATTAGTTT
34823258 TCTACAGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.28, C:0.11, G:0.06, T:0.56
Consensus pattern (19 bp):
TTTAACTATCATTAGTTTA
Found at i:34832914 original size:25 final size:25
Alignment explanation
Indices: 34832875--34832924 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
34832865 CCGTACATGT
34832875 ATGCTCAAACAAGCTGTGAATCAGA
1 ATGCTCAAACAAGCTGTGAATCAGA
* * *
34832900 ATGCTCATACGAGCTGTGGATCAGA
1 ATGCTCAAACAAGCTGTGAATCAGA
34832925 TCGTAGCTAC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.34, C:0.20, G:0.24, T:0.22
Consensus pattern (25 bp):
ATGCTCAAACAAGCTGTGAATCAGA
Found at i:34835415 original size:25 final size:25
Alignment explanation
Indices: 34835387--34835444 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
34835377 AGCTCTTATA
* *
34835387 AGCTTACTATTATTCAGCTCGGAGG
1 AGCTTACCATTATTCAGCTCAGAGG
**
34835412 AGCTTACCATTATTTGGCTCAGAGG
1 AGCTTACCATTATTCAGCTCAGAGG
34835437 AGCTTACC
1 AGCTTACC
34835445 GTTTACATCT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.31
Consensus pattern (25 bp):
AGCTTACCATTATTCAGCTCAGAGG
Found at i:34851483 original size:12 final size:11
Alignment explanation
Indices: 34851464--34851496 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
34851454 GGTAAATTCA
34851464 TTAAAAATAAC
1 TTAAAAATAAC
34851475 TTAAAAA-ATAC
1 TTAAAAATA-AC
34851486 TTAAAAATAAC
1 TTAAAAATAAC
34851497 AACTAATACT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 1 0.05
11 18 0.90
12 1 0.05
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.27
Consensus pattern (11 bp):
TTAAAAATAAC
Found at i:34858602 original size:15 final size:16
Alignment explanation
Indices: 34858582--34858611 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34858572 TGGTGCCTTG
34858582 TTGAT-ATGTGTTAAT
1 TTGATAATGTGTTAAT
34858597 TTGATAATGTGTTAA
1 TTGATAATGTGTTAA
34858612 AGCAGGTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.30, C:0.00, G:0.20, T:0.50
Consensus pattern (16 bp):
TTGATAATGTGTTAAT
Found at i:34866582 original size:23 final size:23
Alignment explanation
Indices: 34866540--34866584 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
34866530 TTTCTTACTT
*
34866540 TAGTAATTTTCGGGGCATTACAG
1 TAGTAATTTTCGGGACATTACAG
*
34866563 TAGTAATTTTCGGGATATTACA
1 TAGTAATTTTCGGGACATTACA
34866585 TTTCCTACTC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.29, C:0.11, G:0.22, T:0.38
Consensus pattern (23 bp):
TAGTAATTTTCGGGACATTACAG
Found at i:34868185 original size:50 final size:50
Alignment explanation
Indices: 34868061--34868697 Score: 832
Period size: 50 Copynumber: 12.7 Consensus size: 50
34868051 AATAATAACA
* * ** * * *
34868061 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGAGATGTTTCCTATAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCT-CGG
* * * ** * **
34868110 TGCCAATGCCATATCCCAGATATGGTCTTACATAGGAGTTCTCATATCAA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * *
34868160 TGCCCATGCCATGTCCCAAACATGGTCTTAC-GGGTGACCTCTCATCTCGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGG-GACCTCTCATCTCGG
*
34868210 TGCCAACGCCATGTCCCAGACATGGTCTTACA-GGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
34868259 TGCCAATGCCATGCCCCAGACATGGTCTTACATGGGACCTCTCATCTAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
34868309 TGCCAATGCCATGTCCCAGACATGGTCTTACATAGGACCTCTTATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * *
34868359 TGTCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* ** * * *
34868409 TTCCAACACCATGTCCCAGACTTGGTCTTACATTGGACTTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
34868459 TGCCAATGCCATGTCCCAGACATTGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
34868509 TGCCAATGCCATGTCCCGGACATGGTCTTACATGGGACCTTTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
34868559 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
34868609 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC---GG
34868665 TGCCAATGCCATGTCCCAGACATGGTCTTACAT
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAT
34868698 TGGCTCACAT
Statistics
Matches: 520, Mismatches: 57, Indels: 15
0.88 0.10 0.03
Matches are distributed among these distances:
48 1 0.00
49 83 0.16
50 398 0.77
53 4 0.01
56 34 0.07
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.27
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:34880020 original size:23 final size:23
Alignment explanation
Indices: 34879989--34880036 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
34879979 ACCTACTTTC
* *
34879989 TTACTGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
34880012 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
34880035 TT
1 TT
34880037 GCATAGAGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.25, C:0.08, G:0.23, T:0.44
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:34884429 original size:22 final size:23
Alignment explanation
Indices: 34884382--34884429 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
34884372 GAAAATTCTG
* *
34884382 CCAGTAAAAATGTAGACAAGTTA
1 CCAGTAAAAATGTAGACAAATCA
*
34884405 CCAGTAAAAATGT-GATAAATCA
1 CCAGTAAAAATGTAGACAAATCA
34884427 CCA
1 CCA
34884430 TTCCCCTCGG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.48, C:0.17, G:0.15, T:0.21
Consensus pattern (23 bp):
CCAGTAAAAATGTAGACAAATCA
Found at i:34899129 original size:40 final size:39
Alignment explanation
Indices: 34899022--34899129 Score: 108
Period size: 40 Copynumber: 2.7 Consensus size: 39
34899012 AAAATTGAGA
* * *
34899022 ATTAGTGGCGCTTTTTGAGAAACGCCGCTAAAGATCGAGC
1 ATTAGCGGCGCTTTTAGA-AAACGCCGCTAAAGATCAAGC
* * * *
34899062 AATAGCTGCGCTTTCTATAAAACGCCGCTAAAGGTCAAGC
1 ATTAGCGGCGCTTT-TAGAAAACGCCGCTAAAGATCAAGC
* *
34899102 ATTAGCGGCGCTTTATGGAAAATGCCGC
1 ATTAGCGGCGCTTT-TAGAAAACGCCGC
34899130 AAAAAAGTTG
Statistics
Matches: 54, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
40 52 0.96
41 2 0.04
ACGTcount: A:0.29, C:0.22, G:0.25, T:0.24
Consensus pattern (39 bp):
ATTAGCGGCGCTTTTAGAAAACGCCGCTAAAGATCAAGC
Found at i:34899387 original size:22 final size:22
Alignment explanation
Indices: 34899348--34899392 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
34899338 TATTTTAGAC
* * * *
34899348 TTTATAGTTTAGGGTTTATGGT
1 TTTAGAGTTTAAGATTTAGGGT
34899370 TTTAGAGTTTAAGATTTAGGGT
1 TTTAGAGTTTAAGATTTAGGGT
34899392 T
1 T
34899393 AGTATTTAAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.22, C:0.00, G:0.27, T:0.51
Consensus pattern (22 bp):
TTTAGAGTTTAAGATTTAGGGT
Found at i:34899567 original size:7 final size:7
Alignment explanation
Indices: 34899557--34899905 Score: 107
Period size: 7 Copynumber: 48.7 Consensus size: 7
34899547 GTAATATATA
34899557 TTTAGGG
1 TTTAGGG
34899564 TTTAGGG
1 TTTAGGG
*
34899571 TGTA-GG
1 TTTAGGG
*
34899577 TTTATGG
1 TTTAGGG
34899584 TTT-GGG
1 TTTAGGG
*
34899590 ATTTAAGG
1 -TTTAGGG
*
34899598 TTTAGGA
1 TTTAGGG
34899605 TTTAGGG
1 TTTAGGG
* *
34899612 TTTATGA
1 TTTAGGG
*
34899619 TTTAGTG
1 TTTAGGG
* **
34899626 TTAAGAACA
1 TTTAG--GG
*
34899635 TTTAGTG
1 TTTAGGG
*
34899642 TTTACGG
1 TTTAGGG
*
34899649 TGTA-GG
1 TTTAGGG
*
34899655 TTTATGG
1 TTTAGGG
*
34899662 TTTAGTG
1 TTTAGGG
*
34899669 TTTAGTG
1 TTTAGGG
*
34899676 TTTTGGG
1 TTTAGGG
34899683 TTTAGGG
1 TTTAGGG
* *
34899690 ATTAAGG
1 TTTAGGG
*
34899697 TTTATGG
1 TTTAGGG
*
34899704 TTTAAAGG
1 TTT-AGGG
34899712 -TTAGGGG
1 TTTA-GGG
34899719 TTTAGGG
1 TTTAGGG
*
34899726 ATTAGGG
1 TTTAGGG
* ***
34899733 GTTATTA
1 TTTAGGG
*
34899740 TTTATGG
1 TTTAGGG
*
34899747 TTTAGAG
1 TTTAGGG
34899754 TTTAGGGG
1 TTTA-GGG
* ***
34899762 AGTTACTAT
1 -TTTA-GGG
*
34899771 TTTAGAG
1 TTTAGGG
*
34899778 TTTATGG
1 TTTAGGG
*
34899785 ATTATGGG
1 TTTA-GGG
34899793 TTTAGGG
1 TTTAGGG
** *
34899800 AATATGG
1 TTTAGGG
* *
34899807 ATTATGG
1 TTTAGGG
** *
34899814 TTTTTGA
1 TTTAGGG
34899821 TTTAAGGG
1 TTT-AGGG
*
34899829 -TTGGGG
1 TTTAGGG
*
34899835 TTTAAGG
1 TTTAGGG
34899842 TTTAAGGG
1 TTT-AGGG
34899850 -TTAGGGG
1 TTTA-GGG
34899857 TTTAGGG
1 TTTAGGG
*
34899864 TTTAAGG
1 TTTAGGG
34899871 TTTAGGGG
1 TTTA-GGG
*
34899879 TTAAGGG
1 TTTAGGG
34899886 TTTAGGGG
1 TTTA-GGG
34899894 TTTAGGG
1 TTTAGGG
34899901 TTTAG
1 TTTAG
34899906 ATTAATTAGT
Statistics
Matches: 248, Mismatches: 75, Indels: 38
0.69 0.21 0.11
Matches are distributed among these distances:
6 17 0.07
7 187 0.75
8 37 0.15
9 7 0.03
ACGTcount: A:0.21, C:0.01, G:0.35, T:0.44
Consensus pattern (7 bp):
TTTAGGG
Found at i:34899859 original size:22 final size:22
Alignment explanation
Indices: 34899821--34899904 Score: 102
Period size: 22 Copynumber: 3.9 Consensus size: 22
34899811 TGGTTTTTGA
34899821 TTTAAGGGTT-GGGGTTTAAGG
1 TTTAAGGGTTAGGGGTTTAAGG
*
34899842 TTTAAGGGTTAGGGGTTTAGGG
1 TTTAAGGGTTAGGGGTTTAAGG
*
34899864 TTTAAGGTTTAGGGG-TTAAGGG
1 TTTAAGGGTTAGGGGTTTAA-GG
*
34899886 TTTAGGGGTTTA-GGGTTTA
1 TTTAAGGG-TTAGGGGTTTA
34899905 GATTAATTAG
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
21 13 0.24
22 35 0.65
23 6 0.11
ACGTcount: A:0.19, C:0.00, G:0.42, T:0.39
Consensus pattern (22 bp):
TTTAAGGGTTAGGGGTTTAAGG
Found at i:34899903 original size:15 final size:15
Alignment explanation
Indices: 34899831--34899905 Score: 91
Period size: 15 Copynumber: 5.1 Consensus size: 15
34899821 TTTAAGGGTT
*
34899831 GGGGTTTAAGGTTTA
1 GGGGTTTAGGGTTTA
*
34899846 AGGG-TTAGGGGTTTA
1 GGGGTTTA-GGGTTTA
*
34899861 -GGGTTTAAGGTTTA
1 GGGGTTTAGGGTTTA
*
34899875 GGGGTTAAGGGTTTA
1 GGGGTTTAGGGTTTA
34899890 GGGGTTTAGGGTTTA
1 GGGGTTTAGGGTTTA
34899905 G
1 G
34899906 ATTAATTAGT
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
14 12 0.24
15 39 0.76
ACGTcount: A:0.19, C:0.00, G:0.44, T:0.37
Consensus pattern (15 bp):
GGGGTTTAGGGTTTA
Found at i:34900579 original size:125 final size:118
Alignment explanation
Indices: 34900366--34900693 Score: 406
Period size: 125 Copynumber: 2.7 Consensus size: 118
34900356 GTTTATGAGA
* * * *
34900366 AAAACGCCGCAAAAGGAAAGCAATAGCGGCATTTGGACCAAAAAATTCCACAACTATGTATTAAA
1 AAAACGCCGCAAAAGGTAAGCAATAGCGGCGTTTGGACCAAAAAATGCCGCAACTATGTATTAAA
* *
34900431 ATTTCTTAAAACGGTGCCATTTCACTACAAGAATTTAATGTTTTAGTGGCGTTTTTGCT
66 ATTTCTCAAAACGGTGCCGTTTCACTACAAGAATTTAATGTTTTAGTGGCG----T--T
* * *
34900490 GAAAATGCCGCAAAAGGTAAGCAATAGCGGTGTTTGGACCAAAAAACGCCGCAACTATGTATTAA
1 -AAAACGCCGCAAAAGGTAAGCAATAGCGGCGTTTGGACCAAAAAATGCCGCAACTATGTATTAA
* * * *
34900555 AAATTCTCAAAACGGTGCCGTTTCACTATAGGAATTTAATTTTTTAGTGGCGTT
65 AATTTCTCAAAACGGTGCCGTTTCACTACAAGAATTTAATGTTTTAGTGGCGTT
* * * * * *
34900609 -AAACGCCACAAAACGTAAGCAATAGCAGCGTTTGGACCAAAAAATGTCGTAATTATGTATTAAA
1 AAAACGCCGCAAAAGGTAAGCAATAGCGGCGTTTGGACCAAAAAATGCCGCAACTATGTATTAAA
*
34900673 ATTTCTCAAAACGGCGCCGTT
66 ATTTCTCAAAACGGTGCCGTT
34900694 GCAATACTAT
Statistics
Matches: 179, Mismatches: 24, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
117 74 0.41
119 1 0.01
121 1 0.01
125 103 0.58
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (118 bp):
AAAACGCCGCAAAAGGTAAGCAATAGCGGCGTTTGGACCAAAAAATGCCGCAACTATGTATTAAA
ATTTCTCAAAACGGTGCCGTTTCACTACAAGAATTTAATGTTTTAGTGGCGTT
Found at i:34904753 original size:9 final size:9
Alignment explanation
Indices: 34904736--34904817 Score: 58
Period size: 9 Copynumber: 9.1 Consensus size: 9
34904726 AAATTAATAG
*
34904736 ATAATTTAC
1 ATAACTTAC
34904745 ATAACTTAC
1 ATAACTTAC
* *
34904754 ATAA-ATAT
1 ATAACTTAC
* *
34904762 ATATCATATC
1 ATAACTTA-C
* *
34904772 AAAATTTAC
1 ATAACTTAC
*
34904781 ATAACTTAT
1 ATAACTTAC
*
34904790 ATAATTTAC
1 ATAACTTAC
*
34904799 ATAACTCAC
1 ATAACTTAC
34904808 ATAACTTAC
1 ATAACTTAC
34904817 A
1 A
34904818 CAGACGTGGT
Statistics
Matches: 54, Mismatches: 17, Indels: 4
0.72 0.23 0.05
Matches are distributed among these distances:
8 5 0.09
9 45 0.83
10 4 0.07
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.37
Consensus pattern (9 bp):
ATAACTTAC
Found at i:34905875 original size:9 final size:9
Alignment explanation
Indices: 34905836--34905941 Score: 85
Period size: 9 Copynumber: 11.8 Consensus size: 9
34905826 CCTTTAATCT
34905836 TAACTTA-A
1 TAACTTACA
*
34905844 TAACTTATA
1 TAACTTACA
*
34905853 TATATCATATCA
1 TA-A-CTTA-CA
34905865 TAACTTACA
1 TAACTTACA
*
34905874 TAACTCACA
1 TAACTTACA
34905883 TAACTTACA
1 TAACTTACA
34905892 TAACTTACA
1 TAACTTACA
34905901 TAA--TACA
1 TAACTTACA
* *
34905908 TAA-ATATA
1 TAACTTACA
* *
34905916 TATCATATCA
1 TAACTTA-CA
34905926 TAACTTACA
1 TAACTTACA
34905935 TAACTTA
1 TAACTTA
34905942 ATTATACTTG
Statistics
Matches: 81, Mismatches: 10, Indels: 13
0.78 0.10 0.12
Matches are distributed among these distances:
7 7 0.09
8 12 0.15
9 45 0.56
10 10 0.12
11 4 0.05
12 3 0.04
ACGTcount: A:0.46, C:0.18, G:0.00, T:0.36
Consensus pattern (9 bp):
TAACTTACA
Found at i:34905908 original size:34 final size:34
Alignment explanation
Indices: 34905870--34905937 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
34905860 TATCATAACT
* *
34905870 TACATAACTCACATAACTTA-CATAACTTACATAA
1 TACATAAAT-ACATAACATATCATAACTTACATAA
* *
34905904 TACATAAATATATATCATATCATAACTTACATAA
1 TACATAAATACATAACATATCATAACTTACATAA
34905938 CTTAATTATA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 7 0.24
34 22 0.76
ACGTcount: A:0.49, C:0.19, G:0.00, T:0.32
Consensus pattern (34 bp):
TACATAAATACATAACATATCATAACTTACATAA
Found at i:34911800 original size:43 final size:43
Alignment explanation
Indices: 34911753--34911914 Score: 198
Period size: 43 Copynumber: 3.8 Consensus size: 43
34911743 GAACGATACT
* * * *
34911753 TTTAGTGACGTTTGTGAAAAAAGTGTCGCTAAAGGTCATGTTA
1 TTTAGCGACGTTTGTGAAAAAAGCGCCGCTAAAGGTCATGTTC
* ** * *
34911796 TTTAGTGGTGTTTGTGAAAAAGGCGCCGTTAAAGGTCATGTTC
1 TTTAGCGACGTTTGTGAAAAAAGCGCCGCTAAAGGTCATGTTC
* * *
34911839 TTTAGCGGCGTTTGTTATAAAAGCGCCGCTAAAGGTCATGTTC
1 TTTAGCGACGTTTGTGAAAAAAGCGCCGCTAAAGGTCATGTTC
* *
34911882 TTTAGCGACGTTTGTGATAAATGCGCCGCTAAA
1 TTTAGCGACGTTTGTGAAAAAAGCGCCGCTAAA
34911915 AAATATGGCC
Statistics
Matches: 103, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 103 1.00
ACGTcount: A:0.26, C:0.14, G:0.27, T:0.33
Consensus pattern (43 bp):
TTTAGCGACGTTTGTGAAAAAAGCGCCGCTAAAGGTCATGTTC
Found at i:34911928 original size:43 final size:43
Alignment explanation
Indices: 34911805--34911931 Score: 114
Period size: 43 Copynumber: 3.0 Consensus size: 43
34911795 ATTTAGTGGT
* ** ** *
34911805 GTTTGTGA-AAAAGGCGCCGTTAAAGGTCATGTTCTTTAGCGGC
1 GTTTGTGATAAAA-GCGCCGCTAAAAATCATGGCCTTTAGCGAC
* ** **
34911848 GTTTGTTATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGAC
1 GTTTGTGATAAAAGCGCCGCTAAAAATCATGGCCTTTAGCGAC
*
34911891 GTTTGTGATAAATGCGCCGCTAAAAAAT-ATGGCCTTTAGCG
1 GTTTGTGATAAAAGCGCCGCT-AAAAATCATGGCCTTTAGCG
34911932 GTGCTTGTAA
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
43 65 0.89
44 8 0.11
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (43 bp):
GTTTGTGATAAAAGCGCCGCTAAAAATCATGGCCTTTAGCGAC
Found at i:34911928 original size:86 final size:86
Alignment explanation
Indices: 34911761--34911932 Score: 193
Period size: 86 Copynumber: 2.0 Consensus size: 86
34911751 CTTTTAGTGA
* * * ** *
34911761 CGTTTGTGAAAAAAGTGTCGCTAAAGGTCATGTTATTTAGTGGTGTTTGTGAAAAAGGCGCCGTT
1 CGTTTGTGAAAAAAGCGCCGCTAAAGGTCATGTTATTTAGCGACGTTTGTGAAAAAGGCGCCGTA
** **
34911826 AAAGGTCATGTTCTTTAGCGG
66 AAAAATCATGGCCTTTAGCGG
* * * * *
34911847 CGTTTGTTATAAAAGCGCCGCTAAAGGTCATGTTCTTTAGCGACGTTTGTGATAAATGCGCCGCT
1 CGTTTGTGAAAAAAGCGCCGCTAAAGGTCATGTTATTTAGCGACGTTTGTGAAAAAGGCGCCG-T
34911912 AAAAAAT-ATGGCCTTTAGCGG
65 AAAAAATCATGGCCTTTAGCGG
34911933 TGCTTGTAAC
Statistics
Matches: 70, Mismatches: 15, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
86 65 0.93
87 5 0.07
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.32
Consensus pattern (86 bp):
CGTTTGTGAAAAAAGCGCCGCTAAAGGTCATGTTATTTAGCGACGTTTGTGAAAAAGGCGCCGTA
AAAAATCATGGCCTTTAGCGG
Found at i:34913045 original size:27 final size:27
Alignment explanation
Indices: 34912964--34913101 Score: 147
Period size: 27 Copynumber: 5.1 Consensus size: 27
34912954 ACAAACAATC
* *
34912964 ATTTTACCCTTCGA-GGGTATTTCGATA
1 ATTTTACCCTT-TATGGGTATTTCGGTA
34912991 ATTTTACCC-TT-TGGGATATTTCGGTA
1 ATTTTACCCTTTATGGG-TATTTCGGTA
*
34913017 ATTTTACCCTTTATGCGTATTTCGGTA
1 ATTTTACCCTTTATGGGTATTTCGGTA
* * **
34913044 ATTTTACCCTTCAAGGGTATTTTAGTA
1 ATTTTACCCTTTATGGGTATTTCGGTA
** *
34913071 ATTTTACCCTTTGGGGGTATTTCGGTC
1 ATTTTACCCTTTATGGGTATTTCGGTA
34913098 ATTT
1 ATTT
34913102 AACAATCTTT
Statistics
Matches: 93, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
25 3 0.03
26 19 0.20
27 68 0.73
28 3 0.03
ACGTcount: A:0.20, C:0.17, G:0.18, T:0.46
Consensus pattern (27 bp):
ATTTTACCCTTTATGGGTATTTCGGTA
Found at i:34913091 original size:54 final size:53
Alignment explanation
Indices: 34912964--34913101 Score: 163
Period size: 54 Copynumber: 2.6 Consensus size: 53
34912954 ACAAACAATC
* * * *
34912964 ATTTTACCCTTCGAGGGTATTTCGATAATTTTACCCTTTGGGATATTTCGGTA
1 ATTTTACCCTTTGAGGGTATTTCGGTAATTTTACCCTTAGGGATATTTCAGTA
* *
34913017 ATTTTACCCTTT-ATGCGTATTTCGGTAATTTTACCCTTCAAGGG-TATTTTAGTA
1 ATTTTACCCTTTGA-GGGTATTTCGGTAATTTTACCCTT--AGGGATATTTCAGTA
* *
34913071 ATTTTACCCTTTGGGGGTATTTCGGTCATTT
1 ATTTTACCCTTTGAGGGTATTTCGGTAATTT
34913102 AACAATCTTT
Statistics
Matches: 72, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
52 1 0.01
53 33 0.46
54 35 0.49
55 3 0.04
ACGTcount: A:0.20, C:0.17, G:0.18, T:0.46
Consensus pattern (53 bp):
ATTTTACCCTTTGAGGGTATTTCGGTAATTTTACCCTTAGGGATATTTCAGTA
Found at i:34916586 original size:131 final size:131
Alignment explanation
Indices: 34916352--34916612 Score: 513
Period size: 131 Copynumber: 2.0 Consensus size: 131
34916342 CAAAATTACT
34916352 ATTTTGCCCCTAAACTTTTGATTTCTTTACAATTTAGTGCTAAACTCATAAAAATGCAAATTCAT
1 ATTTTGCCCCTAAACTTTTGATTTCTTTACAATTTAGTGCTAAACTCATAAAAATGCAAATTCAT
34916417 GCAATTGAATTTCAACCCATGGTAGCCAAATATCATATAGGTCCCTAGCAAGCCTTATATTTCAT
66 GCAATTGAATTTCAACCCATGGTAGCCAAATATCATATAGGTCCCTAGCAAGCCTTATATTTCAT
34916482 A
131 A
34916483 ATTTTGCCCCTAAACTTTTGATTTCTTTACAATTTAGTGCTAAACTCATAAAAATGCAAATTCAT
1 ATTTTGCCCCTAAACTTTTGATTTCTTTACAATTTAGTGCTAAACTCATAAAAATGCAAATTCAT
*
34916548 GCAATTGAATTTCAACCCATGGTAGGCAAATATCATATAGGTCCCTAGCAAGCCTTATATTTCAT
66 GCAATTGAATTTCAACCCATGGTAGCCAAATATCATATAGGTCCCTAGCAAGCCTTATATTTCAT
34916613 TTATTTCATA
Statistics
Matches: 129, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
131 129 1.00
ACGTcount: A:0.33, C:0.20, G:0.11, T:0.35
Consensus pattern (131 bp):
ATTTTGCCCCTAAACTTTTGATTTCTTTACAATTTAGTGCTAAACTCATAAAAATGCAAATTCAT
GCAATTGAATTTCAACCCATGGTAGCCAAATATCATATAGGTCCCTAGCAAGCCTTATATTTCAT
A
Found at i:34927346 original size:49 final size:50
Alignment explanation
Indices: 34927220--34927348 Score: 147
Period size: 49 Copynumber: 2.6 Consensus size: 50
34927210 GGTCCCCCGA
* *
34927220 AAGACCATGTCTAGGACATGGCATGGGCATCGATATGAAAACTCCCATGT
1 AAGACCATGTCTAGGACATGGCATTGGCATAGATATGAAAACTCCCATGT
* * * *
34927270 AAGACCATATCTAGGATATGGAATTGGCAGTAGA-A-G-AAACATCTCATGT
1 AAGACCATGTCTAGGACATGGCATTGGCA-TAGATATGAAAAC-TCCCATGT
* *
34927319 AAGACCATGTCTGGGACATGGCTTTGGCAT
1 AAGACCATGTCTAGGACATGGCATTGGCAT
34927349 GTTATTATCT
Statistics
Matches: 66, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
48 5 0.08
49 32 0.48
50 26 0.39
51 3 0.05
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.24
Consensus pattern (50 bp):
AAGACCATGTCTAGGACATGGCATTGGCATAGATATGAAAACTCCCATGT
Found at i:34928343 original size:50 final size:49
Alignment explanation
Indices: 34928224--34928410 Score: 148
Period size: 50 Copynumber: 3.8 Consensus size: 49
34928214 TCATTGAGAT
** **
34928224 TATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGTGTTGGCACTGA
1 TATGAGAACTCCCATGTAAGACCATGTCTGGGACATGGAATTGGCAC-GA
* ** * * *
34928274 GATGACAGGTCTCCC--GTAAGACCATGTCTGAGACATGGCATGGGCACCGA
1 TATG--AGAACTCCCATGTAAGACCATGTCTGGGACATGGAATTGGCA-CGA
* *
34928324 TATGAGAACTCCCATGTAAGACCATATCTGGGATATGGAATTGGCA-G-
1 TATGAGAACTCCCATGTAAGACCATGTCTGGGACATGGAATTGGCACGA
** * *
34928371 TACAAGAAACATCCCATGTAAGACCATGTCTAGGTCATGG
1 TATGAG-AAC-TCCCATGTAAGACCATGTCTGGGACATGG
34928411 CTTTGGCATG
Statistics
Matches: 108, Mismatches: 22, Indels: 15
0.74 0.15 0.10
Matches are distributed among these distances:
47 4 0.04
48 11 0.10
49 25 0.23
50 61 0.56
51 1 0.01
52 6 0.06
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (49 bp):
TATGAGAACTCCCATGTAAGACCATGTCTGGGACATGGAATTGGCACGA
Found at i:34931833 original size:28 final size:28
Alignment explanation
Indices: 34931800--34931916 Score: 175
Period size: 28 Copynumber: 4.2 Consensus size: 28
34931790 GTGACAGTAT
34931800 AGTGTGGGCCTTAGCCCAATACAATAAC
1 AGTGTGGGCCTTAGCCCAATACAATAAC
* *
34931828 AGTGTGGGCCTTAGCCCAATATAGTAAC
1 AGTGTGGGCCTTAGCCCAATACAATAAC
*
34931856 AGTGTGGGCCTTAGCCCAATACAGA-ATC
1 AGTGTGGGCCTTAGCCCAATACA-ATAAC
34931884 AGTGTGGGCCTTAGCCCAATA-AAGTAAC
1 AGTGTGGGCCTTAGCCCAATACAA-TAAC
34931912 AGTGT
1 AGTGT
34931917 AGTGCAATAA
Statistics
Matches: 80, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
26 1 0.01
27 1 0.01
28 78 0.98
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.23
Consensus pattern (28 bp):
AGTGTGGGCCTTAGCCCAATACAATAAC
Found at i:34931874 original size:56 final size:56
Alignment explanation
Indices: 34931800--34931916 Score: 200
Period size: 56 Copynumber: 2.1 Consensus size: 56
34931790 GTGACAGTAT
*
34931800 AGTGTGGGCCTTAGCCCAATACA-ATAACAGTGTGGGCCTTAGCCCAATATAGTAAC
1 AGTGTGGGCCTTAGCCCAATACAGA-AACAGTGTGGGCCTTAGCCCAATAAAGTAAC
*
34931856 AGTGTGGGCCTTAGCCCAATACAGAATCAGTGTGGGCCTTAGCCCAATAAAGTAAC
1 AGTGTGGGCCTTAGCCCAATACAGAAACAGTGTGGGCCTTAGCCCAATAAAGTAAC
34931912 AGTGT
1 AGTGT
34931917 AGTGCAATAA
Statistics
Matches: 58, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
56 57 0.98
57 1 0.02
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.23
Consensus pattern (56 bp):
AGTGTGGGCCTTAGCCCAATACAGAAACAGTGTGGGCCTTAGCCCAATAAAGTAAC
Found at i:34932095 original size:26 final size:26
Alignment explanation
Indices: 34932017--34932097 Score: 101
Period size: 26 Copynumber: 3.1 Consensus size: 26
34932007 AACACACCAA
*
34932017 TATCGCAGCAAAGCTGCC-GTTAATAG
1 TATCGCAGCAAAGCTGCCAG-TAACAG
* * * *
34932043 CATCACAGCAGAGCTGCCAGTATCAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
34932069 TATCGCAGCAAAGCTGCCAGTAACAG
1 TATCGCAGCAAAGCTGCCAGTAACAG
34932095 TAT
1 TAT
34932098 ATGTGGCAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
26 44 0.98
27 1 0.02
ACGTcount: A:0.32, C:0.26, G:0.22, T:0.20
Consensus pattern (26 bp):
TATCGCAGCAAAGCTGCCAGTAACAG
Found at i:34932351 original size:27 final size:26
Alignment explanation
Indices: 34932304--34932632 Score: 354
Period size: 27 Copynumber: 12.2 Consensus size: 26
34932294 GGCCATAACA
** *
34932304 GTCATTTTATCTCCTA-GGGGTATAACA
1 GTCATTTTA-C-CCTATGGGGTATTTCG
34932331 GTCATTTTACCCTATGCGGGTATTTCG
1 GTCATTTTACCCTATG-GGGTATTTCG
* *
34932358 GTCATTTTACTCTATAGGGGTATTTTG
1 GTCATTTTACCCTAT-GGGGTATTTCG
* *
34932385 GTTATTTTACCCTATGGGGGTATTTTG
1 GTCATTTTACCCTAT-GGGGTATTTCG
*
34932412 GTCATTTTACCCTATGGGGGTATTTCA
1 GTCATTTTACCCTAT-GGGGTATTTCG
*
34932439 GTCATTTTACCTTATGAGGGTATTTCG
1 GTCATTTTACCCTATG-GGGTATTTCG
* *
34932466 GTCATTTTACTCTATAGGGGTATTTTG
1 GTCATTTTACCCTAT-GGGGTATTTCG
*
34932493 GTCATTTTACCCTATGGGGGTATTTCA
1 GTCATTTTACCCTAT-GGGGTATTTCG
*
34932520 ATCATTTTACCCTATGGTGGTATTTCG
1 GTCATTTTACCCTATGG-GGTATTTCG
*
34932547 GTCATTTTACCTTATAGGGGTATTTCG
1 GTCATTTTACCCTAT-GGGGTATTTCG
* ** *
34932574 ATCATTTTACCCTACCAGGGTATTTCA
1 GTCATTTTACCCTA-TGGGGTATTTCG
* *
34932601 ATCATTTTACCCTATAGGGGTATTTTG
1 GTCATTTTACCCTAT-GGGGTATTTCG
34932628 GTCAT
1 GTCAT
34932633 AAAACTGTAA
Statistics
Matches: 259, Mismatches: 34, Indels: 18
0.83 0.11 0.06
Matches are distributed among these distances:
25 4 0.02
26 5 0.02
27 246 0.95
28 4 0.02
ACGTcount: A:0.19, C:0.17, G:0.21, T:0.43
Consensus pattern (26 bp):
GTCATTTTACCCTATGGGGTATTTCG
Found at i:34932443 original size:81 final size:81
Alignment explanation
Indices: 34932331--34932632 Score: 419
Period size: 81 Copynumber: 3.7 Consensus size: 81
34932321 GGGTATAACA
* ** * * *
34932331 GTCATTTTACCCTATGCGGGTATTTCGGTCATTTTACTCTATAGGGGTATTTTGGTTATTTTACC
1 GTCATTTTACCCTATGGGGGTATTTCAATCATTTTACCCTATAGGGGTATTTCGGTCATTTTACC
*
34932396 CTATGGGGGTATTTTG
66 CTATAGGGGTATTTTG
* *
34932412 GTCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCTTAT-GAGGGTATTTCGGTCATTTTAC
1 GTCATTTTACCCTATGGGGGTATTTCAATCATTTTACCCTATAG-GGGTATTTCGGTCATTTTAC
*
34932476 TCTATAGGGGTATTTTG
65 CCTATAGGGGTATTTTG
34932493 GTCATTTTACCCTATGGGGGTATTTCAATCATTTTACCCTAT-GGTGGTATTTCGGTCATTTTAC
1 GTCATTTTACCCTATGGGGGTATTTCAATCATTTTACCCTATAGG-GGTATTTCGGTCATTTTAC
* *
34932557 CTTATAGGGGTATTTCG
65 CCTATAGGGGTATTTTG
* *** *
34932574 ATCATTTTACCCTACCAGGGTATTTCAATCATTTTACCCTATAGGGGTATTTTGGTCAT
1 GTCATTTTACCCTATGGGGGTATTTCAATCATTTTACCCTATAGGGGTATTTCGGTCAT
34932633 AAAACTGTAA
Statistics
Matches: 200, Mismatches: 18, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
80 2 0.01
81 196 0.98
82 2 0.01
ACGTcount: A:0.19, C:0.17, G:0.21, T:0.44
Consensus pattern (81 bp):
GTCATTTTACCCTATGGGGGTATTTCAATCATTTTACCCTATAGGGGTATTTCGGTCATTTTACC
CTATAGGGGTATTTTG
Found at i:34932829 original size:20 final size:20
Alignment explanation
Indices: 34932804--34932845 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
34932794 TTGAGCCCAC
34932804 ACGGCCCAACATGGCCCATT
1 ACGGCCCAACATGGCCCATT
*
34932824 ACGGCCCAACATGGCCCCTT
1 ACGGCCCAACATGGCCCATT
34932844 AC
1 AC
34932846 TGCCTAAGCC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.24, C:0.43, G:0.19, T:0.14
Consensus pattern (20 bp):
ACGGCCCAACATGGCCCATT
Found at i:34933900 original size:449 final size:447
Alignment explanation
Indices: 34933062--34934411 Score: 2360
Period size: 449 Copynumber: 3.0 Consensus size: 447
34933052 ATTCCGAAAA
* * *
34933062 TCAATTATCATCACATCTTTGGTTCCCAGGCAATGTGCCAATCAACCTCGACCACCACCAGTTAG
1 TCAATTATCATCGCACCCTTGGTTCCCAGGCAATGTGCCAATCAACCTCGACCACCACCAGTTAG
* * * * *
34933127 GAATGGAAGCAATGCAGGTTGGAGAAAGCGACGAAAACCTTGAAAACCTCGCCGATGTTCCATTG
66 GAATGGAAGCAATGCAGGTTGGAGAAAGCGACGAAAACCTTAAAAACCTCACCGATCTCCCATCG
*
34933192 AGAACAATGAAAAAATGAGATGATATATAGCTCTCCACAACAACAACCTCCCTAAATCCCAATAT
131 AGAACAA-GGAAAAATGAGATGATATATAGCTCTCCACAACAACAACCTCCC-AAATCCCAATAT
* *
34933257 TCTCTCCTCAAATCTCTCCAAATATCCCTCCTCAATTCTCTCCATGACCCATTCAAACTCCATTT
194 TCTCTCCTCAAATCTCTCCAAATATCCCTCATCAATTCTCTCTATGACCCATTCAAACTCCATTT
* *
34933322 AGCAGTATTTCAATCCAACTCTACCACCCACACAGCTCAAGCAGCAAAATAAATACTCCATTGCA
259 AGCAGTATTTCAATCCAACTCTACCACCCACATAGCTCAAGCAGCAAAATAAATACTCCATTGCG
34933387 CAACCGAGGACTTGAACCTCCAGTTACACAACACGCCACCTTGCCACTAGACCACAAGCTATTTT
324 CAACCGAGGACTTGAACCTCCAGTTACACAACACGCCACCTTGCCACTAGACCACAAGCTATTTT
*
34933452 TGTGTCATATTTTAACCACAATAATTTAAGAACCTATTATCTAGATCCAAGGATTTAAT
389 TGTGTCATATTTTAACCACAATAATTTAAGAACCTACTATCTAGATCCAAGGATTTAAT
* *
34933511 TCAATTATCATCGCACCCTTGGTTCCCATGCAATGTGCCAATCAACCTCGACCACAACCAGTTAG
1 TCAATTATCATCGCACCCTTGGTTCCCAGGCAATGTGCCAATCAACCTCGACCACCACCAGTTAG
34933576 GAATGGAAGCAATGCAGGTTGGAGAAAGCGACGAAAACCTTAAAAACCTCACCGATCTCCCATCG
66 GAATGGAAGCAATGCAGGTTGGAGAAAGCGACGAAAACCTTAAAAACCTCACCGATCTCCCATCG
* *
34933641 AGAACAAGGAAAGAATGAGATGATATACAGCTCTCCACAACAATAACCTCCTCAAATCCCAATAT
131 AGAACAAGGAAA-AATGAGATGATATATAGCTCTCCACAACAACAACCTCC-CAAATCCCAATAT
*
34933706 TCTCTCCTCAAATCTCTCCAAATATCCCTCATCAATTCTCTCTATGACCCATTAAAACTCCATTT
194 TCTCTCCTCAAATCTCTCCAAATATCCCTCATCAATTCTCTCTATGACCCATTCAAACTCCATTT
34933771 AGCAGTATTTCAATCCAACTCTACCACCCACATAGCTCAAGCAGCAAAATAAATACTCCATTGCG
259 AGCAGTATTTCAATCCAACTCTACCACCCACATAGCTCAAGCAGCAAAATAAATACTCCATTGCG
34933836 CAACCGAGGACTTGAACCTCCAGTTACACAACACGCCACCTTGCCACTAGACCACAAGCTATTTT
324 CAACCGAGGACTTGAACCTCCAGTTACACAACACGCCACCTTGCCACTAGACCACAAGCTATTTT
34933901 TGTGTCATATTTTAACCACAATAATTTAAGAACCTACTATCTAGATCCAAGGATTTAAT
389 TGTGTCATATTTTAACCACAATAATTTAAGAACCTACTATCTAGATCCAAGGATTTAAT
*
34933960 TCAATTATCATCGTACCCTTGGTTCCCAGGCAATGTGCCAATCAACCTCGACCACCACCAGTTAG
1 TCAATTATCATCGCACCCTTGGTTCCCAGGCAATGTGCCAATCAACCTCGACCACCACCAGTTAG
*
34934025 GAATGGATGCAATGCAGGTTGGAGAAAGCGACGAAAACCTTAAAAACCTCACCGATCTCCCATCG
66 GAATGGAAGCAATGCAGGTTGGAGAAAGCGACGAAAACCTTAAAAACCTCACCGATCTCCCATCG
34934090 AGAACAAGGAACAAATGAGATGATATATAGCTCTCCACAACAACAACCTCCCCAAATCCCAATAT
131 AGAACAAGGAA-AAATGAGATGATATATAGCTCTCCACAACAACAACCT-CCCAAATCCCAATAT
34934155 TCTCTCCTCAAATCTCTCCAAATATCCCTCATCAATTCTCTCTATGACCCATTCAAACTCCATTT
194 TCTCTCCTCAAATCTCTCCAAATATCCCTCATCAATTCTCTCTATGACCCATTCAAACTCCATTT
* * *
34934220 AGCAGTATTTCAATCCAAATCTACCATCCACATAGCTCAAGCAGCAAAATAAATACTCTATTGCG
259 AGCAGTATTTCAATCCAACTCTACCACCCACATAGCTCAAGCAGCAAAATAAATACTCCATTGCG
* * * *
34934285 CAACCGAGGACTTGAACCTTCAGTTACA-AACACGCCACCTTGCCATTAGACCTAGAAACTATTT
324 CAACCGAGGACTTGAACCTCCAGTTACACAACACGCCACCTTGCCACTAGACC-ACAAGCTATTT
* *
34934349 TTGTGTCATAATTGAACCACAATAATTTAAGAACCTACTATCTAGATCCAAGGATTTAAT
388 TTGTGTCATATTTTAACCACAATAATTTAAGAACCTACTATCTAGATCCAAGGATTTAAT
34934409 TCA
1 TCA
34934412 CTTAAAAAAA
Statistics
Matches: 861, Mismatches: 35, Indels: 10
0.95 0.04 0.01
Matches are distributed among these distances:
448 27 0.03
449 830 0.96
450 4 0.00
ACGTcount: A:0.34, C:0.29, G:0.12, T:0.25
Consensus pattern (447 bp):
TCAATTATCATCGCACCCTTGGTTCCCAGGCAATGTGCCAATCAACCTCGACCACCACCAGTTAG
GAATGGAAGCAATGCAGGTTGGAGAAAGCGACGAAAACCTTAAAAACCTCACCGATCTCCCATCG
AGAACAAGGAAAAATGAGATGATATATAGCTCTCCACAACAACAACCTCCCAAATCCCAATATTC
TCTCCTCAAATCTCTCCAAATATCCCTCATCAATTCTCTCTATGACCCATTCAAACTCCATTTAG
CAGTATTTCAATCCAACTCTACCACCCACATAGCTCAAGCAGCAAAATAAATACTCCATTGCGCA
ACCGAGGACTTGAACCTCCAGTTACACAACACGCCACCTTGCCACTAGACCACAAGCTATTTTTG
TGTCATATTTTAACCACAATAATTTAAGAACCTACTATCTAGATCCAAGGATTTAAT
Found at i:34939158 original size:15 final size:16
Alignment explanation
Indices: 34939129--34939158 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34939119 CAAACATGCT
34939129 TTAACACATTATCAAA
1 TTAACACATTATCAAA
34939145 TTAACACA-TATCAA
1 TTAACACATTATCAA
34939159 CAACGCACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.50, C:0.20, G:0.00, T:0.30
Consensus pattern (16 bp):
TTAACACATTATCAAA
Found at i:34941640 original size:11 final size:11
Alignment explanation
Indices: 34941615--34941663 Score: 57
Period size: 11 Copynumber: 4.6 Consensus size: 11
34941605 AGAGAATGAT
34941615 GAATGA-TGA-
1 GAATGATTGAG
34941624 GAATGATTGAG
1 GAATGATTGAG
34941635 GAATGATTGAG
1 GAATGATTGAG
* *
34941646 GGATGCTTGAG
1 GAATGATTGAG
*
34941657 GGATGAT
1 GAATGAT
34941664 GAATGAAGGA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
9 6 0.17
10 3 0.09
11 26 0.74
ACGTcount: A:0.33, C:0.02, G:0.39, T:0.27
Consensus pattern (11 bp):
GAATGATTGAG
Found at i:34945954 original size:15 final size:16
Alignment explanation
Indices: 34945919--34945954 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
34945909 TTCTGCACCT
*
34945919 CCAAGAAAGGCATGAA
1 CCAAGAAAAGCATGAA
34945935 CCAAGAAAAGCATG-A
1 CCAAGAAAAGCATGAA
34945950 CCAAG
1 CCAAG
34945955 TTCGCTCCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 6 0.32
16 13 0.68
ACGTcount: A:0.50, C:0.22, G:0.22, T:0.06
Consensus pattern (16 bp):
CCAAGAAAAGCATGAA
Found at i:34948716 original size:12 final size:12
Alignment explanation
Indices: 34948699--34948732 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
34948689 CAACCCAAGG
34948699 GGAAGGGGAAGA
1 GGAAGGGGAAGA
*
34948711 GGAAGGGCAAGA
1 GGAAGGGGAAGA
34948723 GGAAAGGGGA
1 GG-AAGGGGA
34948733 GAAGAAGGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 13 0.68
13 6 0.32
ACGTcount: A:0.41, C:0.03, G:0.56, T:0.00
Consensus pattern (12 bp):
GGAAGGGGAAGA
Found at i:34954660 original size:100 final size:100
Alignment explanation
Indices: 34954535--34954721 Score: 329
Period size: 100 Copynumber: 1.9 Consensus size: 100
34954525 AAACAGCAAA
* * * *
34954535 CAAATTAACAATTAGATTGCGAAATCAATTGGAATTAGATTTAGGGATTTGGGACGGCAAGAAAA
1 CAAATTAACAATCAGATTGCCAAATCAATTGGAATTAGATCTAGGGATTTGGGACGGAAAGAAAA
*
34954600 GAGGGATTTTGTGAATCAAAACATTTTTTGTGAAT
66 GAAGGATTTTGTGAATCAAAACATTTTTTGTGAAT
34954635 CAAATTAACAATCAGATTGCCAAATCAATTGGAATTAGATCTAGGGATTTGGGACGGAAAGAAAA
1 CAAATTAACAATCAGATTGCCAAATCAATTGGAATTAGATCTAGGGATTTGGGACGGAAAGAAAA
34954700 GAAGGATTTTGTGAATCAAAAC
66 GAAGGATTTTGTGAATCAAAAC
34954722 GTATCTTGTT
Statistics
Matches: 82, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 82 1.00
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.28
Consensus pattern (100 bp):
CAAATTAACAATCAGATTGCCAAATCAATTGGAATTAGATCTAGGGATTTGGGACGGAAAGAAAA
GAAGGATTTTGTGAATCAAAACATTTTTTGTGAAT
Found at i:34959516 original size:51 final size:51
Alignment explanation
Indices: 34959384--34959673 Score: 288
Period size: 51 Copynumber: 5.7 Consensus size: 51
34959374 TATCATTTGA
* * *
34959384 TACACGTAATAGCCTTCACATAGTACTACACACGTGATC-AAG-TTTTACGG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTT-CAG
*
34959434 TTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCAG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCAG
* * * *
34959485 TACACATAGTAGCCTTCACTTAGTACTACACATGTGACC--ATCATTTATC-G
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGC-TTT-TCAG
* * * * *
34959535 ATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACGAAAGCTTCTCGG
1 -TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCAG
* * * * * * *
34959587 TACACATTGTAGCCTTCACTTAGTACTACACATGTGACCATCA-TTTATTGA-
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCA-AAGCTT-TTCAG
*
34959638 TACACGTAGTAGCCTTCACACAGTACTACACACGTG
1 TACACGTAGTAGCCTTCACATAGTACTACACACGTG
34959674 TTCATCGATA
Statistics
Matches: 196, Mismatches: 34, Indels: 19
0.79 0.14 0.08
Matches are distributed among these distances:
49 2 0.01
50 40 0.20
51 143 0.73
52 9 0.05
53 2 0.01
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (51 bp):
TACACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTTTTCAG
Found at i:34959563 original size:102 final size:102
Alignment explanation
Indices: 34959384--34959673 Score: 429
Period size: 102 Copynumber: 2.9 Consensus size: 102
34959374 TATCATTTGA
* * * * * *** *
34959384 TACACGTAATAGCCTTCACATAGTACTACACACGTGATCAAGTTTTA-CGGTTCACGTAGTAGCC
1 TACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAGTAGCC
* *
34959448 TTCACATAGTACTACACACGTGACCAAAGCTTTTCAG
66 TTCACACAGTACTACACACGTGACCAAAGCTTCTCAG
34959485 TACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAGTAGCC
1 TACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAGTAGCC
* *
34959550 TTCACACAGTACTACACACGTGACGAAAGCTTCTCGG
66 TTCACACAGTACTACACACGTGACCAAAGCTTCTCAG
* * *
34959587 TACACATTGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATTGATACACGTAGTAGCC
1 TACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAGTAGCC
34959652 TTCACACAGTACTACACACGTG
66 TTCACACAGTACTACACACGTG
34959674 TTCATCGATA
Statistics
Matches: 172, Mismatches: 16, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
101 39 0.23
102 133 0.77
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (102 bp):
TACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACGTAGTAGCC
TTCACACAGTACTACACACGTGACCAAAGCTTCTCAG
Found at i:34959655 original size:153 final size:152
Alignment explanation
Indices: 34959386--34959669 Score: 369
Period size: 153 Copynumber: 1.9 Consensus size: 152
34959376 TCATTTGATA
* * * *
34959386 CACGTAATAGCCTTCACATAGTACTACACACGTGATCAAGTTTTACGGTTCACGTAGTAGCCTTC
1 CACGTAATAGCCTTCACACAGTACTACACACGTGATCAAGTTCTACGGTACACATAGTAGCCTTC
**
34959451 ACATAGTACTACACACGTGACCAAAGCTTTTCAGTACACATAGTAGCCTTCACTTAGTACTACAC
66 ACATAGTACTACACACGTGACCAAAGCTTTTCAGTACACATAGTAGCCTTCACACAGTACTACAC
34959516 ATGTGACCATCATTTATCGATT
131 ATGTGACCATCATTTATCGATT
* *
34959538 CACGTAGTAGCCTTCACACAGTACTACACACGTGA-CGAAAGCTTCT-CGGTACACATTGTAGCC
1 CACGTAATAGCCTTCACACAGTACTACACACGTGATC--AAG-TTCTACGGTACACATAGTAGCC
* * * * * *
34959601 TTCACTTAGTACTACACATGTGACCATCA-TTTATTGA-TACACGTAGTAGCCTTCACACAGTAC
63 TTCACATAGTACTACACACGTGACCA-AAGCTT-TTCAGTACACATAGTAGCCTTCACACAGTAC
34959664 TACACA
126 TACACA
34959670 CGTGTTCATC
Statistics
Matches: 113, Mismatches: 14, Indels: 9
0.83 0.10 0.07
Matches are distributed among these distances:
151 1 0.01
152 33 0.29
153 72 0.64
154 7 0.06
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (152 bp):
CACGTAATAGCCTTCACACAGTACTACACACGTGATCAAGTTCTACGGTACACATAGTAGCCTTC
ACATAGTACTACACACGTGACCAAAGCTTTTCAGTACACATAGTAGCCTTCACACAGTACTACAC
ATGTGACCATCATTTATCGATT
Found at i:34964504 original size:40 final size:40
Alignment explanation
Indices: 34964434--34964676 Score: 351
Period size: 40 Copynumber: 6.1 Consensus size: 40
34964424 ATACTATTTG
* * * * * * *
34964434 ATTCAAGGTTACCAAAGTATAAACAAGGGCACGTAGGTGT
1 ATTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGC
* *
34964474 ATTTAGGGGTACCGAAGTACAAACAGGGGCAGGTATGTGC
1 ATTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGC
*
34964514 ATTCAGGGGTACCGAAGTACAAAAAGGGGCACGTATGTGC
1 ATTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGC
*
34964554 ATTCAGGGGTACCGAAATACAAACAGGGGCACGTATGTGC
1 ATTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGC
* * *
34964594 ATTTAGGGGTACCAAAGTACAAACAGGGGCACGCATGTGC
1 ATTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGC
*
34964634 ATTCAGGGGTACCGAAGTACAAACAGGGGCACGCATGTGC
1 ATTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGC
34964674 ATT
1 ATT
34964677 TAGACAATAA
Statistics
Matches: 183, Mismatches: 20, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 183 1.00
ACGTcount: A:0.33, C:0.18, G:0.30, T:0.19
Consensus pattern (40 bp):
ATTCAGGGGTACCGAAGTACAAACAGGGGCACGTATGTGC
Found at i:34964561 original size:20 final size:20
Alignment explanation
Indices: 34964497--34964642 Score: 62
Period size: 20 Copynumber: 7.3 Consensus size: 20
34964487 GAAGTACAAA
*
34964497 CAGGGGCAGGTATGTGCATT
1 CAGGGGCACGTATGTGCATT
* * * **
34964517 CAGGGGTACCG-AAGTACAAA
1 CAGGGGCA-CGTATGTGCATT
*
34964537 AAGGGGCACGTATGTGCATT
1 CAGGGGCACGTATGTGCATT
* ** * **
34964557 CAGGGGTACCG-AAATACAAA
1 CAGGGGCA-CGTATGTGCATT
34964577 CAGGGGCACGTATGTGCATT
1 CAGGGGCACGTATGTGCATT
* * ** * * **
34964597 TAGGGGTACCAAAGTACAAA
1 CAGGGGCACGTATGTGCATT
*
34964617 CAGGGGCACGCATGTGCATT
1 CAGGGGCACGTATGTGCATT
34964637 CAGGGG
1 CAGGGG
34964643 TACCGAAGTA
Statistics
Matches: 81, Mismatches: 41, Indels: 8
0.62 0.32 0.06
Matches are distributed among these distances:
19 4 0.05
20 74 0.91
21 3 0.04
ACGTcount: A:0.30, C:0.18, G:0.34, T:0.18
Consensus pattern (20 bp):
CAGGGGCACGTATGTGCATT
Found at i:34971262 original size:43 final size:41
Alignment explanation
Indices: 34971215--34971316 Score: 143
Period size: 41 Copynumber: 2.4 Consensus size: 41
34971205 TCCCAAACGT
34971215 GGTCTTACATGTAATCACATATCGATGCCACA-GTCCCAGACAG
1 GGTCTTACATGTAA-CACATA-CGATGCCA-ATGTCCCAGACAG
* * *
34971258 GGTCTTACATGAAACAAATACGATGCCAATGTCCCAGACAT
1 GGTCTTACATGTAACACATACGATGCCAATGTCCCAGACAG
34971299 GGTCTTACATGTAACACA
1 GGTCTTACATGTAACACA
34971317 AGTTGATGCC
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
40 1 0.02
41 34 0.64
42 5 0.09
43 13 0.25
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (41 bp):
GGTCTTACATGTAACACATACGATGCCAATGTCCCAGACAG
Found at i:34974903 original size:39 final size:39
Alignment explanation
Indices: 34974837--34975102 Score: 237
Period size: 40 Copynumber: 6.7 Consensus size: 39
34974827 ACAGTTACCA
* * * * *
34974837 AAGTAAAAATAAGGGCACATATATGCATTCAGGGTACTG
1 AAGTACAAACAAGGGCACGTATGTGCATTTAGGGTACTG
* * * *
34974876 AAGTACAAACAAAGGCATGTATGTGCATTTAGGGTATTA
1 AAGTACAAACAAGGGCACGTATGTGCATTTAGGGTACTG
* *
34974915 AAGTACAAACAGGGGCATGTATGTGCATTTAGGGGTACTG
1 AAGTACAAACAAGGGCACGTATGTGCATTTA-GGGTACTG
* * * *
34974955 AAATACAAACAGGGGCACGTATGTACATTTAGCAGTA-TCG
1 AAGTACAAACAAGGGCACGTATGTGCATTTAG-GGTACT-G
* * **
34974995 AAGTACAAGCAAGGGCACGTATGTGAATTTAGGGTACCA
1 AAGTACAAACAAGGGCACGTATGTGCATTTAGGGTACTG
* ** * * * *
34975034 AAATGTAAAGAGGGGCACGTATATGCATTTAGAGGTACCG
1 AAGTACAAACAAGGGCACGTATGTGCATTTAG-GGTACTG
* *
34975074 AAGTACAAACAGGGGCACGTATGTCCATT
1 AAGTACAAACAAGGGCACGTATGTGCATT
34975103 CAGACAATAA
Statistics
Matches: 182, Mismatches: 40, Indels: 9
0.79 0.17 0.04
Matches are distributed among these distances:
39 88 0.48
40 94 0.52
ACGTcount: A:0.36, C:0.14, G:0.26, T:0.23
Consensus pattern (39 bp):
AAGTACAAACAAGGGCACGTATGTGCATTTAGGGTACTG
Found at i:34974977 original size:79 final size:79
Alignment explanation
Indices: 34974849--34975102 Score: 278
Period size: 79 Copynumber: 3.2 Consensus size: 79
34974839 GTAAAAATAA
* * * * ** *
34974849 GGGCACATATATGCATTCAGGGTACTGAAGTACAAACAAAGGCATGTATGTGCATTTAG-GGTAT
1 GGGCACGTATGTGCATTTAGGGTACTGAAATACAAACAGGGGCACGTATGTGCATTTAGAGGTAT
**
34974913 TAAAGTACAAACAG
66 CGAAGTACAAACAG
* *
34974927 GGGCATGTATGTGCATTTAGGGGTACTGAAATACAAACAGGGGCACGTATGTACATTTAGCA-GT
1 GGGCACGTATGTGCATTTA-GGGTACTGAAATACAAACAGGGGCACGTATGTGCATTTAG-AGGT
* *
34974991 ATCGAAGTACAAGCAA
64 ATCGAAGTACAAACAG
* ** ** * * *
34975007 GGGCACGTATGTGAATTTAGGGTACCAAAATGTAAAGAGGGGCACGTATATGCATTTAGAGGTAC
1 GGGCACGTATGTGCATTTAGGGTACTGAAATACAAACAGGGGCACGTATGTGCATTTAGAGGTAT
34975072 CGAAGTACAAACAG
66 CGAAGTACAAACAG
*
34975086 GGGCACGTATGTCCATT
1 GGGCACGTATGTGCATT
34975103 CAGACAATAA
Statistics
Matches: 145, Mismatches: 27, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
78 16 0.11
79 98 0.68
80 31 0.21
ACGTcount: A:0.34, C:0.15, G:0.27, T:0.24
Consensus pattern (79 bp):
GGGCACGTATGTGCATTTAGGGTACTGAAATACAAACAGGGGCACGTATGTGCATTTAGAGGTAT
CGAAGTACAAACAG
Found at i:34975086 original size:119 final size:119
Alignment explanation
Indices: 34974875--34975102 Score: 312
Period size: 119 Copynumber: 1.9 Consensus size: 119
34974865 TCAGGGTACT
* * ** * * *
34974875 GAAGTACAAACAAAGGCATGTATGTGCATTTAGGGTATTAAAGTACAAACAGGGGCATGTATGTG
1 GAAGTACAAACAAAGGCACGTATGTGAATTTAGGGTACCAAAATACAAACAGGGGCACGTATATG
* *
34974940 CATTTAGGGGTACTGAAATACAAACAGGGGCACGTATGTACATTTAGCAGTATC
66 CATTTAGAGGTACCGAAATACAAACAGGGGCACGTATGTACATTTAGCAGTATC
* * ** *
34974994 GAAGTACAAGCAAGGGCACGTATGTGAATTTAGGGTACCAAAATGTAAAGAGGGGCACGTATATG
1 GAAGTACAAACAAAGGCACGTATGTGAATTTAGGGTACCAAAATACAAACAGGGGCACGTATATG
* *
34975059 CATTTAGAGGTACCGAAGTACAAACAGGGGCACGTATGTCCATT
66 CATTTAGAGGTACCGAAATACAAACAGGGGCACGTATGTACATT
34975103 CAGACAATAA
Statistics
Matches: 93, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
119 93 1.00
ACGTcount: A:0.35, C:0.14, G:0.27, T:0.23
Consensus pattern (119 bp):
GAAGTACAAACAAAGGCACGTATGTGAATTTAGGGTACCAAAATACAAACAGGGGCACGTATATG
CATTTAGAGGTACCGAAATACAAACAGGGGCACGTATGTACATTTAGCAGTATC
Found at i:34980480 original size:51 final size:49
Alignment explanation
Indices: 34980343--34980637 Score: 231
Period size: 51 Copynumber: 5.8 Consensus size: 49
34980333 ACTTTTATCA
* * *
34980343 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTAATC-AAGTT
1 TTCGGTACACGTAGTAGCCTTCAC-TAGTACTACACACGTGACCAAAGTT
* ** *
34980392 TTACGGTTCGTGTAGTAGCCTTCACATAGTACTACACACCTGACCAAAGCTT
1 TT-CGGTACACGTAGTAGCCTTCAC-TAGTACTACACACGTGACCAAAG-TT
* * *
34980444 TTCGGTACACATAGTAGCCTTCACTCAGTACTACACATGTGACCATTA-TT
1 TTCGGTACACGTAGTAGCCTTCACT-AGTACTACACACGTGACCA-AAGTT
* * * *
34980494 TATCGATTCACGTAGTAGCTTTCACACAGTACTACACACGTGACCAAAGCTT
1 T-TCGGTACACGTAGTAGCCTTCAC-TAGTACTACACACGTGACCAAAG-TT
* * * *
34980546 CTTC-GTACACATTGTAGCCTTCACTTAGTACTACACATGTGACCATCA-TT
1 -TTCGGTACACGTAGTAGCCTTCAC-TAGTACTACACACGTGACCA-AAGTT
** *
34980596 TATCTATTCACGTAGTAGCCTTTACAC-AGTACTACACACGTG
1 T-TCGGTACACGTAGTAGCC-TT-CACTAGTACTACACACGTG
34980638 TTCATCGATA
Statistics
Matches: 196, Mismatches: 35, Indels: 28
0.76 0.14 0.11
Matches are distributed among these distances:
49 3 0.02
50 44 0.22
51 133 0.68
52 12 0.06
53 4 0.02
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (49 bp):
TTCGGTACACGTAGTAGCCTTCACTAGTACTACACACGTGACCAAAGTT
Found at i:34980538 original size:102 final size:102
Alignment explanation
Indices: 34980343--34980637 Score: 375
Period size: 102 Copynumber: 2.9 Consensus size: 102
34980333 ACTTTTATCA
* * * * * * * **
34980343 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTAATCAAGT-TTTA-CGGTTCGTGTA
1 TTCGGTACACATAGTAGCCTTCAC-TAGTACTACACATGTGA-CCATTATTTATCGATTCACGTA
* * *
34980406 GTAGCCTTCACATAGTACTACACACCTGACCAAAGCTT-
64 GTAGCTTTCACACAGTACTACACACGTGACCAAAGCTTC
34980444 TTCGGTACACATAGTAGCCTTCACTCAGTACTACACATGTGACCATTATTTATCGATTCACGTAG
1 TTCGGTACACATAGTAGCCTTCACT-AGTACTACACATGTGACCATTATTTATCGATTCACGTAG
34980509 TAGCTTTCACACAGTACTACACACGTGACCAAAGCTTC
65 TAGCTTTCACACAGTACTACACACGTGACCAAAGCTTC
* * *
34980547 TTC-GTACACATTGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCTATTCACGTAG
1 TTCGGTACACATAGTAGCCTTCAC-TAGTACTACACATGTGACCATTATTTATCGATTCACGTAG
34980611 TAGCCTTT-ACACAGTACTACACACGTG
65 TAG-CTTTCACACAGTACTACACACGTG
34980638 TTCATCGATA
Statistics
Matches: 173, Mismatches: 15, Indels: 11
0.87 0.08 0.06
Matches are distributed among these distances:
100 4 0.02
101 40 0.23
102 121 0.70
103 8 0.05
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (102 bp):
TTCGGTACACATAGTAGCCTTCACTAGTACTACACATGTGACCATTATTTATCGATTCACGTAGT
AGCTTTCACACAGTACTACACACGTGACCAAAGCTTC
Found at i:34983504 original size:59 final size:59
Alignment explanation
Indices: 34983421--34983537 Score: 164
Period size: 59 Copynumber: 2.0 Consensus size: 59
34983411 TGAATATGCC
* * *
34983421 TTCAGGAGTACCGAAATACTAACAGGGGCACTTATGTGCATTTAGGGGTACCAAAGTAA
1 TTCAGGAGTACCGAAATACAAACAGGGGCACGTATGTGCATTCAGGGGTACCAAAGTAA
* * *
34983480 TTCAGGGGTA-CGAAAGTACAAACAGGGGCACGTATGTGCATTCAGGGTTACCGAAGTA
1 TTCAGGAGTACCGAAA-TACAAACAGGGGCACGTATGTGCATTCAGGGGTACCAAAGTA
34983538 CAAAAGGGGC
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
58 5 0.10
59 46 0.90
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.22
Consensus pattern (59 bp):
TTCAGGAGTACCGAAATACAAACAGGGGCACGTATGTGCATTCAGGGGTACCAAAGTAA
Found at i:34983507 original size:20 final size:19
Alignment explanation
Indices: 34983464--34983507 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
34983454 ATGTGCATTT
**
34983464 AGGGGTACCAAAGTAATTC
1 AGGGGTACCAAAGTAAAAC
*
34983483 AGGGGTACGAAAGTACAAAC
1 AGGGGTACCAAAGTA-AAAC
34983503 AGGGG
1 AGGGG
34983508 CACGTATGTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.39, C:0.14, G:0.34, T:0.14
Consensus pattern (19 bp):
AGGGGTACCAAAGTAAAAC
Found at i:34983557 original size:39 final size:40
Alignment explanation
Indices: 34983479--34983560 Score: 132
Period size: 39 Copynumber: 2.1 Consensus size: 40
34983469 TACCAAAGTA
34983479 ATTCAGGGGTACGAAAGTACAAACAGGGGCACGTATGTGC
1 ATTCAGGGGTACGAAAGTACAAACAGGGGCACGTATGTGC
*
34983519 ATTCAGGGTTACCG-AAGTACAAA-AGGGGCACGTATGTGC
1 ATTCAGGGGTA-CGAAAGTACAAACAGGGGCACGTATGTGC
34983558 ATT
1 ATT
34983561 TAGACAATAA
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
39 19 0.47
40 19 0.47
41 2 0.05
ACGTcount: A:0.32, C:0.17, G:0.30, T:0.21
Consensus pattern (40 bp):
ATTCAGGGGTACGAAAGTACAAACAGGGGCACGTATGTGC
Found at i:34987467 original size:46 final size:46
Alignment explanation
Indices: 34987416--34987508 Score: 132
Period size: 46 Copynumber: 2.0 Consensus size: 46
34987406 TAGTGTGGCA
* *
34987416 TTCATCATATACCAAGGTTCCTATCATCCTTTATAGTGGGTCAAGG
1 TTCATCATATACCAAGGTTCCTATCATCCTTGATAGTAGGTCAAGG
* * * *
34987462 TTCATCATATACGAGGGTTCCTATCATTCTTGATAGTAGGTCGAGG
1 TTCATCATATACCAAGGTTCCTATCATCCTTGATAGTAGGTCAAGG
34987508 T
1 T
34987509 CTTTTCTTTG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.35
Consensus pattern (46 bp):
TTCATCATATACCAAGGTTCCTATCATCCTTGATAGTAGGTCAAGG
Found at i:34993289 original size:50 final size:50
Alignment explanation
Indices: 34993174--34993463 Score: 400
Period size: 50 Copynumber: 5.8 Consensus size: 50
34993164 AATAACATGT
* * ** *
34993174 CAATGCCATGTTCCAGACATGGTCTTACATGGCATGTTCTCATATCGGTGC
1 CAATGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGGTGC
* **
34993225 CCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGC
1 CAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGC
* * * *
34993275 CAACGCCATCTCCCAGACATCGTCTTACATGGGACCTCTCATCTCAGTGC
1 CAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGC
*
34993325 CAATACCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGC
1 CAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGC
* *
34993375 CAATACCATGTCCTAGACATGGTCTTACATGGGACCTCTCATCTCGGTGC
1 CAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGC
* * * *
34993425 CAACGCCATGTCCCAGTCATGGTTTTACATGGGATCTCT
1 CAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
34993464 TTACCCAAAT
Statistics
Matches: 212, Mismatches: 27, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
50 183 0.86
51 29 0.14
ACGTcount: A:0.21, C:0.31, G:0.21, T:0.27
Consensus pattern (50 bp):
CAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGC
Found at i:34995678 original size:18 final size:18
Alignment explanation
Indices: 34995655--34995700 Score: 92
Period size: 18 Copynumber: 2.6 Consensus size: 18
34995645 GGAGACTACG
34995655 GAAAAAGAAAGAAAGCTT
1 GAAAAAGAAAGAAAGCTT
34995673 GAAAAAGAAAGAAAGCTT
1 GAAAAAGAAAGAAAGCTT
34995691 GAAAAAGAAA
1 GAAAAAGAAA
34995701 TGAGTAGAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.65, C:0.04, G:0.22, T:0.09
Consensus pattern (18 bp):
GAAAAAGAAAGAAAGCTT
Found at i:34998460 original size:46 final size:46
Alignment explanation
Indices: 34998367--34998460 Score: 152
Period size: 46 Copynumber: 2.0 Consensus size: 46
34998357 ATAGTGTGGC
* *
34998367 GTTCATCATATACCAAGGTTCCTATCATCCTTGATGGTGGGTCGAG
1 GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGATCGAG
* *
34998413 GTTCATCATATACCAAGGTTCCTATCATTCTTGATAGTGGATTGAG
1 GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGATCGAG
34998459 GT
1 GT
34998461 CTTTTCTTTG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.35
Consensus pattern (46 bp):
GTTCATCATATACCAAGGTTCCTATCATCCTTGATAGTGGATCGAG
Found at i:34999945 original size:10 final size:10
Alignment explanation
Indices: 34999932--34999987 Score: 62
Period size: 10 Copynumber: 5.6 Consensus size: 10
34999922 ATCTCACTTG
*
34999932 AGCTCAAGTC
1 AGCTCAATTC
34999942 AGCTC-ATTC
1 AGCTCAATTC
*
34999951 GAGCTCAAGTC
1 -AGCTCAATTC
34999962 AGCTC-ATTC
1 AGCTCAATTC
34999971 GAGCTCAATTC
1 -AGCTCAATTC
34999982 AGCTCA
1 AGCTCA
34999988 TTGAGCTCGT
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
9 6 0.15
10 26 0.67
11 7 0.18
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (10 bp):
AGCTCAATTC
Found at i:34999954 original size:20 final size:20
Alignment explanation
Indices: 34999931--34999995 Score: 114
Period size: 20 Copynumber: 3.3 Consensus size: 20
34999921 CATCTCACTT
34999931 GAGCTCAAGTCAGCTCATTC
1 GAGCTCAAGTCAGCTCATTC
34999951 GAGCTCAAGTCAGCTCATTC
1 GAGCTCAAGTCAGCTCATTC
*
34999971 GAGCTCAATTCAGCTCATT-
1 GAGCTCAAGTCAGCTCATTC
34999990 GAGCTC
1 GAGCTC
34999996 GTTATTAGCT
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
19 6 0.14
20 38 0.86
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (20 bp):
GAGCTCAAGTCAGCTCATTC
Found at i:35004398 original size:20 final size:20
Alignment explanation
Indices: 35004373--35004434 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
35004363 CTCACTTGAC
*
35004373 CTCAAGTTAGATCATTCGAG
1 CTCAAGTCAGATCATTCGAG
* *
35004393 CTCAAGTCAGCTCATTTGAG
1 CTCAAGTCAGATCATTCGAG
* *
35004413 C-CGAATTCAGCTCATT-GAG
1 CTC-AAGTCAGATCATTCGAG
35004432 CTC
1 CTC
35004435 GTTATTAGCT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
19 5 0.14
20 31 0.86
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (20 bp):
CTCAAGTCAGATCATTCGAG
Found at i:35008838 original size:18 final size:19
Alignment explanation
Indices: 35008815--35008856 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
35008805 AACCTATAAC
* *
35008815 AAATAAATAC-ACTAAGTT
1 AAATAAAGACTACTAAGTA
35008833 AAAT-AAGACTACTAAGTA
1 AAATAAAGACTACTAAGTA
35008851 AAATAA
1 AAATAA
35008857 CCAAACCAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 4 0.20
18 15 0.75
19 1 0.05
ACGTcount: A:0.60, C:0.10, G:0.07, T:0.24
Consensus pattern (19 bp):
AAATAAAGACTACTAAGTA
Found at i:35017335 original size:16 final size:16
Alignment explanation
Indices: 35017316--35017347 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
35017306 TTCGCATGCC
*
35017316 TTTTACATCACTTCAA
1 TTTTAAATCACTTCAA
35017332 TTTTAAATCACTTCAA
1 TTTTAAATCACTTCAA
35017348 ATAGATTTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.34, C:0.22, G:0.00, T:0.44
Consensus pattern (16 bp):
TTTTAAATCACTTCAA
Found at i:35019067 original size:20 final size:20
Alignment explanation
Indices: 35019009--35019077 Score: 66
Period size: 20 Copynumber: 3.5 Consensus size: 20
35018999 AGATAAAATG
* *
35019009 CCAGAAATGTGGACAAGCCA
1 CCAGTAATGTGGACAAGCTA
* * ** * *
35019029 CTAGTATTGCAGACGAGCTG
1 CCAGTAATGTGGACAAGCTA
35019049 CCAGTAATGTGGACAAGCTA
1 CCAGTAATGTGGACAAGCTA
35019069 CCAGTAATG
1 CCAGTAATG
35019078 CAGATAAATT
Statistics
Matches: 35, Mismatches: 14, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.33, C:0.22, G:0.26, T:0.19
Consensus pattern (20 bp):
CCAGTAATGTGGACAAGCTA
Found at i:35019091 original size:40 final size:40
Alignment explanation
Indices: 35018976--35019111 Score: 137
Period size: 40 Copynumber: 3.4 Consensus size: 40
35018966 CACATCAATT
* ** * *
35018976 TGTGGATAAGCCACCAACAATACAGATAAAATGCCAGAAA
1 TGTGGACAAGCCACCAGTAATGCAGATAAAATGCCAGTAA
* * ** **
35019016 TGTGGACAAGCCACTAGTATTGCAGACGAGCTGCCAGTAA
1 TGTGGACAAGCCACCAGTAATGCAGATAAAATGCCAGTAA
* * * *
35019056 TGTGGACAAGCTACCAGTAATGCAGATAAATTGCCAATAT
1 TGTGGACAAGCCACCAGTAATGCAGATAAAATGCCAGTAA
35019096 TGTGGACAAGCCACCA
1 TGTGGACAAGCCACCA
35019112 AAATTGCAAA
Statistics
Matches: 75, Mismatches: 21, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
40 75 1.00
ACGTcount: A:0.38, C:0.21, G:0.22, T:0.19
Consensus pattern (40 bp):
TGTGGACAAGCCACCAGTAATGCAGATAAAATGCCAGTAA
Found at i:35019131 original size:40 final size:40
Alignment explanation
Indices: 35019014--35019131 Score: 112
Period size: 40 Copynumber: 3.0 Consensus size: 40
35019004 AAATGCCAGA
* ** * *
35019014 AATGTGGACAAGCCACTAGTATTGCAGACGAGCTGCCAGT
1 AATGTGGACAAGCCACCAAAATTGCAGACAAGCTGCCAAT
* * * **
35019054 AATGTGGACAAGCTACCAGTAA-TGCAGATAAATTGCCAAT
1 AATGTGGACAAGCCACCA-AAATTGCAGACAAGCTGCCAAT
* *
35019094 ATTGTGGACAAGCCACCAAAATTGCAAACAAGCTGCCA
1 AATGTGGACAAGCCACCAAAATTGCAGACAAGCTGCCA
35019132 GTACTTCTTC
Statistics
Matches: 60, Mismatches: 16, Indels: 4
0.75 0.20 0.05
Matches are distributed among these distances:
39 2 0.03
40 57 0.95
41 1 0.02
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.19
Consensus pattern (40 bp):
AATGTGGACAAGCCACCAAAATTGCAGACAAGCTGCCAAT
Found at i:35021073 original size:25 final size:25
Alignment explanation
Indices: 35021045--35021109 Score: 103
Period size: 25 Copynumber: 2.6 Consensus size: 25
35021035 TGACCTACAA
*
35021045 CTCGTGTGAGCATACTGATTTATAG
1 CTCGTGAGAGCATACTGATTTATAG
35021070 CTCGTGAGAGCATACTGATTTATAG
1 CTCGTGAGAGCATACTGATTTATAG
* *
35021095 CTCATGAGATCATAC
1 CTCGTGAGAGCATAC
35021110 CGATCTACAG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (25 bp):
CTCGTGAGAGCATACTGATTTATAG
Found at i:35021121 original size:25 final size:25
Alignment explanation
Indices: 35021052--35021135 Score: 71
Period size: 25 Copynumber: 3.4 Consensus size: 25
35021042 CAACTCGTGT
* * * *
35021052 GAGCATACTGATTTATAGCTCGTGA
1 GAGCATACCGATCTACAGCTCATGA
* * *
35021077 GAGCATACTGATTTATAGCTCATGA
1 GAGCATACCGATCTACAGCTCATGA
* *
35021102 GATCATACCGATCTACAGCTTCA-GT
1 GAGCATACCGATCTACAGC-TCATGA
35021127 GAGCATACC
1 GAGCATACC
35021136 AATTTACAAC
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
25 48 0.94
26 3 0.06
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (25 bp):
GAGCATACCGATCTACAGCTCATGA
Found at i:35023334 original size:27 final size:26
Alignment explanation
Indices: 35023293--35023612 Score: 361
Period size: 27 Copynumber: 11.8 Consensus size: 26
35023283 TCATCTACTA
* * *
35023293 GGGGTATATCAGTCATTTTACCATAT
1 GGGGTATTTCGGTCATTTTACCCTAT
*
35023319 GGGGATATTTCGGTCATTTTACCGTAT
1 GGGG-TATTTCGGTCATTTTACCCTAT
* *
35023346 AGGGTATTTCGGTTATTTTACCCTAT
1 GGGGTATTTCGGTCATTTTACCCTAT
*
35023372 AGGGGTATTTCAGTCATTTTACCCTAT
1 -GGGGTATTTCGGTCATTTTACCCTAT
* *
35023399 GGGAGTATTTCGGTCATTATTACCTTACG
1 GGG-GTATTTCGGTCATT-TTACCCTA-T
**
35023428 GGGGTATTTCTATCATTTTTACCCTAT
1 GGGGTATTTCGGTCA-TTTTACCCTAT
*
35023455 GGGGGTATTTCAGTCATTTTACCCTAT
1 -GGGGTATTTCGGTCATTTTACCCTAT
* *
35023482 GAGGGTATTTCGGTCATTTTATCATAT
1 G-GGGTATTTCGGTCATTTTACCCTAT
*
35023509 AGGGGTATTTCGGTCATTTTACCTTAT
1 -GGGGTATTTCGGTCATTTTACCCTAT
*
35023536 GGGGGTATTTCGATCATTTTACCCTAT
1 -GGGGTATTTCGGTCATTTTACCCTAT
*
35023563 CGGGGTATTTTGGTCATTTTACCCTAT
1 -GGGGTATTTCGGTCATTTTACCCTAT
* *
35023590 GAGGGTATTTCGATCATATTACC
1 G-GGGTATTTCGGTCATTTTACC
35023613 TATTTTGAGG
Statistics
Matches: 252, Mismatches: 32, Indels: 19
0.83 0.11 0.06
Matches are distributed among these distances:
26 29 0.12
27 180 0.71
28 38 0.15
29 5 0.02
ACGTcount: A:0.20, C:0.17, G:0.21, T:0.42
Consensus pattern (26 bp):
GGGGTATTTCGGTCATTTTACCCTAT
Found at i:35023553 original size:137 final size:134
Alignment explanation
Indices: 35023305--35023600 Score: 407
Period size: 137 Copynumber: 2.2 Consensus size: 134
35023295 GGTATATCAG
* * * * * *
35023305 TCATTTTACCATATGGGGATATTTCGGTCATTTTACCGTATAGGGTATTTCGGTTATTTTACCCT
1 TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATAGGGTATTTCGGTCATTTTACCAT
* *
35023370 ATAGGGGTATTTCAGTCATTTTACCCTATGGGAGTATTTCGGTCATTATTACCTTA-CGGGGGTA
66 ATAGGGGTATTTCAGTCATTTTACCCTATGGGAGTATTTCGATCATT-TTACCCTATC-GGGGTA
35023434 TTTCT-A
129 TTT-TGA
*
35023440 TCATTTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCGGTCATTTTATC
1 TCA-TTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTAT-AGGGTATTTCGGTCATTTTACC
* * *
35023505 ATATAGGGGTATTTCGGTCATTTTACCTTATGGGGGTATTTCGATCATTTTACCCTATCGGGGTA
64 ATATAGGGGTATTTCAGTCATTTTACCCTATGGGAGTATTTCGATCATTTTACCCTATCGGGGTA
*
35023570 TTTTGG
129 TTTTGA
*
35023576 TCATTTTACCCTATGAGGGTATTTC
1 TCATTTTACCCTATGGGGGTATTTC
35023601 GATCATATTA
Statistics
Matches: 143, Mismatches: 14, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
135 25 0.17
136 53 0.37
137 65 0.45
ACGTcount: A:0.20, C:0.17, G:0.21, T:0.43
Consensus pattern (134 bp):
TCATTTTACCCTATGGGGGTATTTCAGTCATTTTACCCTATAGGGTATTTCGGTCATTTTACCAT
ATAGGGGTATTTCAGTCATTTTACCCTATGGGAGTATTTCGATCATTTTACCCTATCGGGGTATT
TTGA
Found at i:35023569 original size:81 final size:80
Alignment explanation
Indices: 35023293--35023612 Score: 403
Period size: 81 Copynumber: 3.9 Consensus size: 80
35023283 TCATCTACTA
* * *
35023293 GGGGTATATCAGTCATTTTACCATATGGGGATATTTCGGTCATTTTACCGTATA-GGGTATTTCG
1 GGGGTATTTCAGTCATTTTACCCTATGGGG-TATTTCGGTCATTTTACCATATAGGGGTATTTCG
* * *
35023357 GTTATTTTACCCTATA
65 ATCATTTTACCCTATG
* **
35023373 GGGGTATTTCAGTCATTTTACCCTATGGGAGTATTTCGGTCATTATTACCTTACGGGGGTATTTC
1 GGGGTATTTCAGTCATTTTACCCTATGGG-GTATTTCGGTCATT-TTACCATATAGGGGTATTTC
*
35023438 TATCATTTTTACCCTATG
64 GATCA-TTTTACCCTATG
*
35023456 GGGGTATTTCAGTCATTTTACCCTATGAGGGTATTTCGGTCATTTTATCATATAGGGGTATTTCG
1 GGGGTATTTCAGTCATTTTACCCTATG-GGGTATTTCGGTCATTTTACCATATAGGGGTATTTCG
* *
35023521 GTCATTTTACCTTATG
65 ATCATTTTACCCTATG
* *
35023537 GGGGTATTTC-GATCATTTTACCCTATCGGGGTATTTTGGTCATTTTACCCTAT-GAGGGTATTT
1 GGGGTATTTCAG-TCATTTTACCCTAT-GGGGTATTTCGGTCATTTTACCATATAG-GGGTATTT
*
35023600 CGATCATATTACC
63 CGATCATTTTACC
35023613 TATTTTGAGG
Statistics
Matches: 211, Mismatches: 21, Indels: 15
0.85 0.09 0.06
Matches are distributed among these distances:
80 42 0.20
81 84 0.40
82 31 0.15
83 52 0.25
84 2 0.01
ACGTcount: A:0.20, C:0.17, G:0.21, T:0.42
Consensus pattern (80 bp):
GGGGTATTTCAGTCATTTTACCCTATGGGGTATTTCGGTCATTTTACCATATAGGGGTATTTCGA
TCATTTTACCCTATG
Found at i:35026174 original size:29 final size:29
Alignment explanation
Indices: 35026127--35026186 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
35026117 AACACACAAC
*
35026127 CAACCACCAGACCAACAGGCCCATTCGGA
1 CAACCACCAAACCAACAGGCCCATTCGGA
* * *
35026156 CAACCACCAAACTAGCAGGCCCATTCTGA
1 CAACCACCAAACCAACAGGCCCATTCGGA
35026185 CA
1 CA
35026187 CTAGAATATG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.35, C:0.40, G:0.15, T:0.10
Consensus pattern (29 bp):
CAACCACCAAACCAACAGGCCCATTCGGA
Found at i:35028489 original size:11 final size:11
Alignment explanation
Indices: 35028473--35028509 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
35028463 AAGAGAGAAT
*
35028473 GATGCTTGATG
1 GATGCTTGAGG
35028484 GATGCTTGAGG
1 GATGCTTGAGG
*
35028495 GATGATTGAGG
1 GATGCTTGAGG
35028506 GATG
1 GATG
35028510 ATGAATGAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.22, C:0.05, G:0.43, T:0.30
Consensus pattern (11 bp):
GATGCTTGAGG
Found at i:35032913 original size:18 final size:18
Alignment explanation
Indices: 35032890--35032926 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
35032880 CAAGAATGGC
35032890 TCCCATACTTTCTTATCA
1 TCCCATACTTTCTTATCA
35032908 TCCCATACTTTCTTATCA
1 TCCCATACTTTCTTATCA
35032926 T
1 T
35032927 TCATTGGGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.32, G:0.00, T:0.46
Consensus pattern (18 bp):
TCCCATACTTTCTTATCA
Found at i:35043860 original size:21 final size:21
Alignment explanation
Indices: 35043835--35043876 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
35043825 TTGGAAAAAG
35043835 GAGAG-AAAAAAGATAAGAGAA
1 GAGAGTAAAAAAGA-AAGAGAA
*
35043856 GAGAGTAAAAAGGAAAGAGAA
1 GAGAGTAAAAAAGAAAGAGAA
35043877 ACAAAATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.64, C:0.00, G:0.31, T:0.05
Consensus pattern (21 bp):
GAGAGTAAAAAAGAAAGAGAA
Found at i:35044889 original size:28 final size:28
Alignment explanation
Indices: 35044858--35044918 Score: 95
Period size: 28 Copynumber: 2.2 Consensus size: 28
35044848 GAGTTTTTGA
* *
35044858 TGTTAAATGATTAATTTGAAATATTATT
1 TGTTAAATGATAAATTTGAAATATTAGT
*
35044886 TGTTAAATGATAAATTTTAAATATTAGT
1 TGTTAAATGATAAATTTGAAATATTAGT
35044914 TGTTA
1 TGTTA
35044919 TTTAAAAGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.49
Consensus pattern (28 bp):
TGTTAAATGATAAATTTGAAATATTAGT
Found at i:35045190 original size:29 final size:29
Alignment explanation
Indices: 35045155--35045396 Score: 199
Period size: 29 Copynumber: 8.4 Consensus size: 29
35045145 TCATCGACCA
35045155 ATGAAAAGGGATAGCTTCGACTATCGATT
1 ATGAAAAGGGATAGCTTCGACTATCGATT
* * * * *
35045184 ATGAAAAGGGATAGTTTTG-GTCATTGAAT
1 ATGAAAAGGGATAGCTTCGACT-ATCGATT
* *
35045213 ATG-AAAGGGATAGCTTCGGCTATCGAAT
1 ATGAAAAGGGATAGCTTCGACTATCGATT
*
35045241 ATGAATAGGGATAGCTTCGACTATCGATT
1 ATGAAAAGGGATAGCTTCGACTATCGATT
* * * * *
35045270 ATGAAAAGGGAT-GGTGACGACCATCAACT
1 ATGAAAAGGGATAGCT-TCGACTATCGATT
* * * *
35045299 ATG-AAAGGGAT-GGTGACGACCATCGAAT
1 ATGAAAAGGGATAGCT-TCGACTATCGATT
** *
35045327 ATGAAAAGGGATAGCTTCGGTTGTCGATT
1 ATGAAAAGGGATAGCTTCGACTATCGATT
*
35045356 ATGAAAATGGATAGCTTC-AGCTATCGATT
1 ATGAAAAGGGATAGCTTCGA-CTATCGATT
**
35045385 ACAAAAAGGGAT
1 ATGAAAAGGGAT
35045397 GGTGGCGACC
Statistics
Matches: 172, Mismatches: 34, Indels: 14
0.78 0.15 0.06
Matches are distributed among these distances:
28 51 0.30
29 119 0.69
30 2 0.01
ACGTcount: A:0.35, C:0.12, G:0.27, T:0.26
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTCGACTATCGATT
Found at i:35045273 original size:57 final size:58
Alignment explanation
Indices: 35045155--35045396 Score: 192
Period size: 57 Copynumber: 4.2 Consensus size: 58
35045145 TCATCGACCA
* * * * *
35045155 ATGAAAAGGGATAGCTTCGACTATCGATTATGAAAAGGGATAGTTTTG-GTCATTGAAT
1 ATGAAAAGGGATAGCTTCGACTATCGAATATGAAAAGGGATAGCTTCGACT-ATCGAAT
* * *
35045213 ATG-AAAGGGATAGCTTCGGCTATCGAATATGAATAGGGATAGCTTCGACTATCGATT
1 ATGAAAAGGGATAGCTTCGACTATCGAATATGAAAAGGGATAGCTTCGACTATCGAAT
* * * * * *
35045270 ATGAAAAGGGAT-GGTGACGACCATC-AACTATG-AAAGGGAT-GGTGACGACCATCGAAT
1 ATGAAAAGGGATAGCT-TCGACTATCGAA-TATGAAAAGGGATAGCT-TCGACTATCGAAT
** * * * *
35045327 ATGAAAAGGGATAGCTTCGGTTGTCGATTATGAAAATGGATAGCTTC-AGCTATCGATT
1 ATGAAAAGGGATAGCTTCGACTATCGAATATGAAAAGGGATAGCTTCGA-CTATCGAAT
**
35045385 ACAAAAAGGGAT
1 ATGAAAAGGGAT
35045397 GGTGGCGACC
Statistics
Matches: 143, Mismatches: 31, Indels: 20
0.74 0.16 0.10
Matches are distributed among these distances:
56 2 0.01
57 89 0.62
58 50 0.35
59 2 0.01
ACGTcount: A:0.35, C:0.12, G:0.27, T:0.26
Consensus pattern (58 bp):
ATGAAAAGGGATAGCTTCGACTATCGAATATGAAAAGGGATAGCTTCGACTATCGAAT
Found at i:35045302 original size:86 final size:86
Alignment explanation
Indices: 35045155--35045369 Score: 254
Period size: 86 Copynumber: 2.5 Consensus size: 86
35045145 TCATCGACCA
*** ** *
35045155 ATGAAAAGGGATAGCTTCGACTATCGATTATGAAAAGGGATAGTTTTGGTCATTGAATATGAAAG
1 ATGAAAAGGGATAGCTTCGACTATCGATTATGAAAAGGGATAGTGACGACCATTCAATATGAAAG
* * *
35045220 GGATAGCT-TCGGCTATCGAAT
66 GGAT-GCTGACGACCATCGAAT
* *
35045241 ATGAATAGGGATAGCTTCGACTATCGATTATGAAAAGGGATGGTGACGACCA-TCAACTATGAAA
1 ATGAAAAGGGATAGCTTCGACTATCGATTATGAAAAGGGATAGTGACGACCATTCAA-TATGAAA
*
35045305 GGGATGGTGACGACCATCGAAT
65 GGGATGCTGACGACCATCGAAT
** * *
35045327 ATGAAAAGGGATAGCTTCGGTTGTCGATTATGAAAATGGATAG
1 ATGAAAAGGGATAGCTTCGACTATCGATTATGAAAAGGGATAG
35045370 CTTCAGCTAT
Statistics
Matches: 109, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
85 5 0.05
86 104 0.95
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.26
Consensus pattern (86 bp):
ATGAAAAGGGATAGCTTCGACTATCGATTATGAAAAGGGATAGTGACGACCATTCAATATGAAAG
GGATGCTGACGACCATCGAAT
Found at i:35045335 original size:115 final size:116
Alignment explanation
Indices: 35045209--35045455 Score: 347
Period size: 115 Copynumber: 2.1 Consensus size: 116
35045199 TTTGGTCATT
* *
35045209 GAATATG-AAAGGGATAGCTTCGGCTATCGAATATGAATAGGGATAGCTTC-GACTATCGATTAT
1 GAATATGAAAAGGGATAGCTTCGGCTATCGAATATGAAAAGGGATAGCTTCAG-CTATCGATTAC
* *
35045272 GAAAAGGGATGGTGACGACCATCAACTATG-AAAGGGATGGTGACGACCATC
65 AAAAAGGGATGGTGACGACCATCAACTATGAAAAGGGATGGTGACAACCATC
* * * *
35045323 GAATATGAAAAGGGATAGCTTCGGTTGTCGATTATGAAAATGGATAGCTTCAGCTATCGATTACA
1 GAATATGAAAAGGGATAGCTTCGGCTATCGAATATGAAAAGGGATAGCTTCAGCTATCGATTACA
* *
35045388 AAAAGGGATGGTGGCGACCATCAACTATGAAAAGGGTTGGTGACAACCATC
66 AAAAGGGATGGTGACGACCATCAACTATGAAAAGGGATGGTGACAACCATC
* *
35045439 GATTAATTAAAAGGGAT
1 GAAT-ATGAAAAGGGAT
35045456 GGTTTCAACC
Statistics
Matches: 117, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
114 7 0.06
115 76 0.65
116 23 0.20
117 11 0.09
ACGTcount: A:0.35, C:0.14, G:0.27, T:0.24
Consensus pattern (116 bp):
GAATATGAAAAGGGATAGCTTCGGCTATCGAATATGAAAAGGGATAGCTTCAGCTATCGATTACA
AAAAGGGATGGTGACGACCATCAACTATGAAAAGGGATGGTGACAACCATC
Found at i:35045421 original size:29 final size:29
Alignment explanation
Indices: 35045388--35045479 Score: 94
Period size: 29 Copynumber: 3.1 Consensus size: 29
35045378 ATCGATTACA
* * *
35045388 AAAAGGGATGGTGGCGACCATCAACTATG
1 AAAAGGGATGGTGACAACCATCAAATATG
* * * *
35045417 AAAAGGGTTGGTGACAACCATCGATTAATT
1 AAAAGGGATGGTGACAACCATCAAAT-ATG
**
35045447 AAAAGGGATGGTTTCAACCATCAAATATG
1 AAAAGGGATGGTGACAACCATCAAATATG
35045476 AAAA
1 AAAA
35045480 TGGTCGGTTA
Statistics
Matches: 50, Mismatches: 12, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
29 27 0.54
30 23 0.46
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (29 bp):
AAAAGGGATGGTGACAACCATCAAATATG
Found at i:35055433 original size:9 final size:9
Alignment explanation
Indices: 35055419--35055445 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
35055409 TATCATAGAC
35055419 TGTGACTAA
1 TGTGACTAA
35055428 TGTGACTAA
1 TGTGACTAA
35055437 TGTGACTAA
1 TGTGACTAA
35055446 ATGTAATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.11, G:0.22, T:0.33
Consensus pattern (9 bp):
TGTGACTAA
Found at i:35061059 original size:20 final size:19
Alignment explanation
Indices: 35061014--35061060 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
35061004 ACCAAAGTCT
35061014 AAACAGGGTACACAAGTGC
1 AAACAGGGTACACAAGTGC
**
35061033 ATTCAGGAGTAC-CGAAGTGC
1 AAACAGG-GTACAC-AAGTGC
35061053 AAACAGGG
1 AAACAGGG
35061061 CACGTACGTG
Statistics
Matches: 22, Mismatches: 4, Indels: 4
0.73 0.13 0.13
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.38, C:0.19, G:0.30, T:0.13
Consensus pattern (19 bp):
AAACAGGGTACACAAGTGC
Found at i:35063639 original size:37 final size:37
Alignment explanation
Indices: 35063588--35063667 Score: 115
Period size: 37 Copynumber: 2.2 Consensus size: 37
35063578 GCACACAAGC
* * *
35063588 AATCCAACCGAAAACATGCCAAATACTCATAAGATCT
1 AATCCAACCAAAAACACGCCAAATACTCATAAGACCT
* *
35063625 AATCCAACCAAAAACACGCCAAATGCTCGTAAGACCT
1 AATCCAACCAAAAACACGCCAAATACTCATAAGACCT
35063662 AATCCA
1 AATCCA
35063668 CCTGATAACA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.45, C:0.30, G:0.09, T:0.16
Consensus pattern (37 bp):
AATCCAACCAAAAACACGCCAAATACTCATAAGACCT
Found at i:35084094 original size:27 final size:27
Alignment explanation
Indices: 35084063--35084122 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
35084053 GGCCATATCA
*
35084063 GTCATTTCATCTCT-TAGGGGTATTTCG
1 GTCATTTCA-CCCTATAGGGGTATTTCG
* *
35084090 GTCATTTTACCCTATAGGGGTATTTTG
1 GTCATTTCACCCTATAGGGGTATTTCG
35084117 GTCATT
1 GTCATT
35084123 CATTGACCTC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 3 0.10
27 26 0.90
ACGTcount: A:0.17, C:0.17, G:0.22, T:0.45
Consensus pattern (27 bp):
GTCATTTCACCCTATAGGGGTATTTCG
Found at i:35084246 original size:27 final size:27
Alignment explanation
Indices: 35084215--35084327 Score: 226
Period size: 27 Copynumber: 4.2 Consensus size: 27
35084205 CCCATTACTC
35084215 GCCCAAGTGGGCCCACATGTTTGTGCG
1 GCCCAAGTGGGCCCACATGTTTGTGCG
35084242 GCCCAAGTGGGCCCACATGTTTGTGCG
1 GCCCAAGTGGGCCCACATGTTTGTGCG
35084269 GCCCAAGTGGGCCCACATGTTTGTGCG
1 GCCCAAGTGGGCCCACATGTTTGTGCG
35084296 GCCCAAGTGGGCCCACATGTTTGTGCG
1 GCCCAAGTGGGCCCACATGTTTGTGCG
35084323 GCCCA
1 GCCCA
35084328 TTCAGCCTAG
Statistics
Matches: 86, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 86 1.00
ACGTcount: A:0.15, C:0.31, G:0.33, T:0.21
Consensus pattern (27 bp):
GCCCAAGTGGGCCCACATGTTTGTGCG
Found at i:35089030 original size:42 final size:41
Alignment explanation
Indices: 35088942--35089050 Score: 132
Period size: 42 Copynumber: 2.6 Consensus size: 41
35088932 ACGCCACTGT
* *
35088942 CCCAGACA-GGTTCTTACACGTAACAAATACGATGCTAATGT
1 CCCAGACATGG-TCTTACACGTAACAAATACGATGCCAATGC
*
35088983 CCCAGACATGGTCTTAAACGTAACACAAGT-CGATGCCAATGC
1 CCCAGACATGGTCTTACACGTAACA-AA-TACGATGCCAATGC
*
35089025 CCCAGACGTGGTCTTACACGATAACA
1 CCCAGACATGGTCTTACACG-TAACA
35089051 TATATCAGAA
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
41 21 0.36
42 32 0.54
43 6 0.10
ACGTcount: A:0.33, C:0.28, G:0.18, T:0.21
Consensus pattern (41 bp):
CCCAGACATGGTCTTACACGTAACAAATACGATGCCAATGC
Found at i:35100602 original size:13 final size:13
Alignment explanation
Indices: 35100584--35100609 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
35100574 ACTCAAAAAT
35100584 TCCTTTCTTTAGG
1 TCCTTTCTTTAGG
35100597 TCCTTTCTTTAGG
1 TCCTTTCTTTAGG
35100610 CGTCCACATT
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:0.08, C:0.23, G:0.15, T:0.54
Consensus pattern (13 bp):
TCCTTTCTTTAGG
Found at i:35102110 original size:33 final size:33
Alignment explanation
Indices: 35102059--35102130 Score: 81
Period size: 33 Copynumber: 2.2 Consensus size: 33
35102049 ACAAGCAATG
* * * * *
35102059 ACAGTCTGGGTCTAAGCCCTATTCCGTAACAGT
1 ACAGTGTGGGCCTAAGCCCAATACAGTAACAGT
* *
35102092 ACAGTGTGGGCCTTAGCCCAATACAGTATCAGT
1 ACAGTGTGGGCCTAAGCCCAATACAGTAACAGT
35102125 ACAGTG
1 ACAGTG
35102131 CAATAATGCA
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.25
Consensus pattern (33 bp):
ACAGTGTGGGCCTAAGCCCAATACAGTAACAGT
Found at i:35102502 original size:27 final size:27
Alignment explanation
Indices: 35102472--35102585 Score: 119
Period size: 27 Copynumber: 4.2 Consensus size: 27
35102462 GGTATAACAC
35102472 TCATTTTACCCTATGTGGGTATTTTGA-
1 TCATTTTACCCTATG-GGGTATTTTGAG
* *
35102499 TCATTTTACCCTTTGGGGGTA-TTTCAG
1 TCATTTTACCCTAT-GGGGTATTTTGAG
*
35102526 TCATTTTACCCAATAGGGGTATTTT-AG
1 TCATTTTACCCTAT-GGGGTATTTTGAG
* *
35102553 TTATTTTACCCTATGAGGGTATTTCG-G
1 TCATTTTACCCTATG-GGGTATTTTGAG
35102580 TCATTT
1 TCATTT
35102586 ATTGACCTCT
Statistics
Matches: 73, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
26 5 0.07
27 64 0.88
28 4 0.05
ACGTcount: A:0.19, C:0.16, G:0.19, T:0.46
Consensus pattern (27 bp):
TCATTTTACCCTATGGGGTATTTTGAG
Found at i:35102530 original size:54 final size:54
Alignment explanation
Indices: 35102472--35102585 Score: 151
Period size: 54 Copynumber: 2.1 Consensus size: 54
35102462 GGTATAACAC
* * *
35102472 TCATTTTACCCTAT-GTGGGTATTTT-GATCATTTTACCCTTTGGGGGTATTTCAG
1 TCATTTTACCCAATAG-GGGTATTTTAG-TCATTTTACCCTATGAGGGTATTTCAG
* *
35102526 TCATTTTACCCAATAGGGGTATTTTAGTTATTTTACCCTATGAGGGTATTTCGG
1 TCATTTTACCCAATAGGGGTATTTTAGTCATTTTACCCTATGAGGGTATTTCAG
35102580 TCATTT
1 TCATTT
35102586 ATTGACCTCT
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
54 51 0.96
55 2 0.04
ACGTcount: A:0.19, C:0.16, G:0.19, T:0.46
Consensus pattern (54 bp):
TCATTTTACCCAATAGGGGTATTTTAGTCATTTTACCCTATGAGGGTATTTCAG
Found at i:35106611 original size:32 final size:33
Alignment explanation
Indices: 35106553--35106631 Score: 90
Period size: 33 Copynumber: 2.4 Consensus size: 33
35106543 ATACTGCATG
* *
35106553 ACTGCTACTGATACTATGATGTGCTAAGGCCCT
1 ACTGATACTGATACTATGATGGGCTAAGGCCCT
*
35106586 ACTGATACTG-TACTGA-GATGGGCTAAGGCCCAA
1 ACTGATACTGATACT-ATGATGGGCTAAGGCCC-T
*
35106619 ACTGTTACTGATA
1 ACTGATACTGATA
35106632 TTGAAAAAGA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
32 18 0.46
33 19 0.49
34 2 0.05
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.28
Consensus pattern (33 bp):
ACTGATACTGATACTATGATGGGCTAAGGCCCT
Found at i:35115834 original size:18 final size:20
Alignment explanation
Indices: 35115799--35115839 Score: 52
Period size: 19 Copynumber: 2.1 Consensus size: 20
35115789 AAAAAATTCT
35115799 AAAATATATTTTATTTA-TA
1 AAAATATATTTTATTTATTA
35115818 AAAATA-ATTGTTA-TTATTA
1 AAAATATATT-TTATTTATTA
35115837 AAA
1 AAA
35115840 GAAGTTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (20 bp):
AAAATATATTTTATTTATTA
Found at i:35116865 original size:20 final size:20
Alignment explanation
Indices: 35116836--35116874 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
35116826 ATTTAACCAT
35116836 TCAAATATCAAATT-AAATA
1 TCAAATATCAAATTCAAATA
35116855 TCAAATAATCAAATTCAAAT
1 TCAAAT-ATCAAATTCAAAT
35116875 GTCATTTGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 6 0.33
20 8 0.44
21 4 0.22
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.31
Consensus pattern (20 bp):
TCAAATATCAAATTCAAATA
Found at i:35126150 original size:27 final size:25
Alignment explanation
Indices: 35126104--35126163 Score: 75
Period size: 25 Copynumber: 2.3 Consensus size: 25
35126094 TTTTCTTTTT
35126104 AAATTTTATTAAAAATTTTAATGTA
1 AAATTTTATTAAAAATTTTAATGTA
* * *
35126129 CAATTTTTTTAAAAATAATTTAATTTA
1 AAATTTTATTAAAAAT--TTTAATGTA
35126156 AAATTTTA
1 AAATTTTA
35126164 AATATATTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
25 14 0.50
27 14 0.50
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.50
Consensus pattern (25 bp):
AAATTTTATTAAAAATTTTAATGTA
Found at i:35129223 original size:61 final size:61
Alignment explanation
Indices: 35129127--35129269 Score: 169
Period size: 61 Copynumber: 2.3 Consensus size: 61
35129117 TAATGTCATT
* * * *
35129127 CTGGATTGCCCGACAACAATGACTGCCATCCCAGGTTGCCTGAAAACAATGGCTTACCACA
1 CTGGATTGCTCGACAACGATGACTGCCATCCCAGGTTCCCCGAAAACAATGGCTTACCACA
* * * ** * * *
35129188 CTGGATTGCTTGACAACGATGATTGCCATCTCAGGTTCCCCGGTAGCAATTGCTTACCACC
1 CTGGATTGCTCGACAACGATGACTGCCATCCCAGGTTCCCCGAAAACAATGGCTTACCACA
*
35129249 CTGGATTGCTCGACAATGATG
1 CTGGATTGCTCGACAACGATG
35129270 GTTTCTTAAT
Statistics
Matches: 68, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
61 68 1.00
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (61 bp):
CTGGATTGCTCGACAACGATGACTGCCATCCCAGGTTCCCCGAAAACAATGGCTTACCACA
Found at i:35130298 original size:15 final size:14
Alignment explanation
Indices: 35130278--35130312 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
35130268 TTTACATTTC
*
35130278 AATTTTAAATTTTAA
1 AATTTTAAA-ATTAA
35130293 AATTTTAAAATTAA
1 AATTTTAAAATTAA
35130307 AATTTT
1 AATTTT
35130313 CATACAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.53
15 9 0.47
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
AATTTTAAAATTAA
Found at i:35133898 original size:34 final size:33
Alignment explanation
Indices: 35133860--35133944 Score: 98
Period size: 34 Copynumber: 2.5 Consensus size: 33
35133850 GATACGTAGG
* *
35133860 TAACTACACTATACCAAATAGCTCAATAGAGTGA
1 TAACTACAC-ACACCAAATAGCTCAATAGAGCGA
* * *
35133894 TAACTACAACACACCAAATTGTTCGATAGAGCGA
1 TAACTAC-ACACACCAAATAGCTCAATAGAGCGA
35133928 TAACTACACCACACCAA
1 TAACTACA-CACACCAA
35133945 GGCATCGTAG
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
33 1 0.02
34 41 0.93
35 2 0.05
ACGTcount: A:0.44, C:0.26, G:0.11, T:0.20
Consensus pattern (33 bp):
TAACTACACACACCAAATAGCTCAATAGAGCGA
Found at i:35140591 original size:34 final size:34
Alignment explanation
Indices: 35140548--35140634 Score: 138
Period size: 34 Copynumber: 2.6 Consensus size: 34
35140538 TAGATACGTG
*
35140548 GATAACTACACCACACTAAATAGCTCAATAAAGT
1 GATAACTACACCACACCAAATAGCTCAATAAAGT
* * *
35140582 GATAACTACACCACACCAAATGGCTCGATAGAGT
1 GATAACTACACCACACCAAATAGCTCAATAAAGT
35140616 GATAACTACACCACACCAA
1 GATAACTACACCACACCAA
35140635 GGCACTATAG
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 49 1.00
ACGTcount: A:0.44, C:0.28, G:0.11, T:0.17
Consensus pattern (34 bp):
GATAACTACACCACACCAAATAGCTCAATAAAGT
Found at i:35148547 original size:31 final size:32
Alignment explanation
Indices: 35148499--35148565 Score: 75
Period size: 31 Copynumber: 2.1 Consensus size: 32
35148489 GAAACATAGT
* * **
35148499 TATAGACAATTTCCACAATAGTCACATA-TCA
1 TATAGACAATATCCACAACACACACATATTCA
35148530 TATAGACAAATAT-CACAACACACACATATTCA
1 TATAGAC-AATATCCACAACACACACATATTCA
35148562 TATA
1 TATA
35148566 TTATGATAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
31 19 0.63
32 11 0.37
ACGTcount: A:0.46, C:0.22, G:0.04, T:0.27
Consensus pattern (32 bp):
TATAGACAATATCCACAACACACACATATTCA
Found at i:35155709 original size:11 final size:11
Alignment explanation
Indices: 35155693--35155721 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
35155683 TTCCATAAGG
35155693 AATTACAATAT
1 AATTACAATAT
35155704 AATTACAATAT
1 AATTACAATAT
35155715 AATTACA
1 AATTACA
35155722 CTTTATCAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (11 bp):
AATTACAATAT
Found at i:35169137 original size:22 final size:22
Alignment explanation
Indices: 35169111--35169155 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
35169101 AGATCAACAC
35169111 AAATAT-AATCACATACATATCA
1 AAATATCAATCACA-ACATATCA
*
35169133 AAATATCAATCTCAACATATCA
1 AAATATCAATCACAACATATCA
35169155 A
1 A
35169156 TCATCATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 15 0.71
23 6 0.29
ACGTcount: A:0.53, C:0.20, G:0.00, T:0.27
Consensus pattern (22 bp):
AAATATCAATCACAACATATCA
Found at i:35175168 original size:13 final size:13
Alignment explanation
Indices: 35175150--35175187 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
35175140 TTGTGTGTCA
35175150 CACACGGCTGTGT
1 CACACGGCTGTGT
*
35175163 CACACGGCCGTGT
1 CACACGGCTGTGT
*
35175176 CTCA-GGCTGTGT
1 CACACGGCTGTGT
35175188 GGACATGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
12 7 0.32
13 15 0.68
ACGTcount: A:0.13, C:0.32, G:0.32, T:0.24
Consensus pattern (13 bp):
CACACGGCTGTGT
Found at i:35185573 original size:44 final size:44
Alignment explanation
Indices: 35185523--35185610 Score: 160
Period size: 44 Copynumber: 2.0 Consensus size: 44
35185513 TTCTTCATAT
35185523 ACTAGTACAGA-TCATAATTATTCACAATTCACAAAAATTCTATG
1 ACTAGTACA-ATTCATAATTATTCACAATTCACAAAAATTCTATG
35185567 ACTAGTACAATTCATAATTATTCACAATTCACAAAAATTCTATG
1 ACTAGTACAATTCATAATTATTCACAATTCACAAAAATTCTATG
35185611 TAAATTTTAA
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
43 1 0.02
44 42 0.98
ACGTcount: A:0.43, C:0.18, G:0.06, T:0.33
Consensus pattern (44 bp):
ACTAGTACAATTCATAATTATTCACAATTCACAAAAATTCTATG
Found at i:35194853 original size:446 final size:441
Alignment explanation
Indices: 35193965--35194859 Score: 1529
Period size: 446 Copynumber: 2.0 Consensus size: 441
35193955 AGAAACCAAA
* *
35193965 GATACAATAGTTCGGTCTGAAGCTTGAGCTCCTACCAAAGCTTATACAATCATTATAAGGAGGCC
1 GATA-AATAATTCGGTCTGAAGCTTGAGCTCCTACCAAAGCTTATACAATCATCATAAGGAGGCC
* *
35194030 TCAGCTCTTGATGTTATTGCTGGTACCTTTTCTATCTTTAATGTCACTGTGAATGCATTAATTGA
65 TCAGCTCTTGATGTTATTGCTAGTACCTTTTCTATCTTTAATGTCACTATGAATGCATTAATTGA
35194095 ACATGGGTCGACACATTCATATATATGTACTACGTTAGTAACAGAAAAAGTTTACCAGTTGAGTC
130 ACATGGGTCGACACATTCATATATATGTACTACGTTAGTAACAGAAAAAGTTTACCAGTTGAGTC
35194160 AACTAGTTATGTCATTCAAGTAACGAACCCATTAGGTTAAAGTGTAATAATTGATCTAGTTTGGA
195 AACTAGTTATGTCATTCAAGTAACGAACCCATTAGGTTAAAGTGTAATAATTGATCTAGTTTGGA
*
35194225 AATAATGTCCACTAAAAATTCAAGGCTATAACTTTCCCATTGATTTGATGTTATTGTCTTTTAAT
260 AATAATGTCCACTAAAAATTCAAGGCTATAACTTTCCCACTGATTTGATGTTATTGTCTTTTAAT
*
35194290 AAGTTTGACATTATTCTAGGAATGGATTGGTTGATGGTACACAATGTTGTAGTCAATTGCAAACA
325 AAGTTTGACATTATTCTAGGAATGGATTAGTTGATGGTACACAATGTTGTAGTCAATTGCAAACA
*
35194355 AAAATGAATTGATTTGGGCTATTAGAATGGTGAATTGATTTATGTTAAATCT
390 AAAACGAATTGATTTGGGCTATTAGAATGGTGAATTGATTTATGTTAAATCT
*
35194407 GATAAATAATTCGGTCTGAAGCTTGAGCTCCTACCAGAGCTTATACAATCCATGCATGCAAGGAG
1 GATAAATAATTCGGTCTGAAGCTTGAGCTCCTACCAAAGCTTATACAAT-CAT-CAT--AAGGAG
* * *
35194472 GCCTCAGCTCTTGATGTTATTGCTAGTACCTTTTCTATCTTTGATGTCACTATGTATGCATTGAT
62 GCCTCAGCTCTTGATGTTATTGCTAGTACCTTTTCTATCTTTAATGTCACTATGAATGCATTAAT
* * *
35194537 TGAACATGGGTCGACACATTTATATATTTGTACTACGTTAGTAACAGAAAAGATTTTACCAGTTG
127 TGAACATGGGTCGACACATTCATATATATGTACTACGTTAGTAACAGAAAA-AGTTTACCAGTTG
* * * *
35194602 AGTCAACTGGTTATGTCATTCAATTAACGAACCTATTAGGTTAAAGTGTCATAATTGATCTAGTT
191 AGTCAACTAGTTATGTCATTCAAGTAACGAACCCATTAGGTTAAAGTGTAATAATTGATCTAGTT
* *
35194667 TGGAAATAATGTCCACTGAAAATTCAAGGCTATAACTTTCCTACTGATTTGATGTTATTGTCTTT
256 TGGAAATAATGTCCACTAAAAATTCAAGGCTATAACTTTCCCACTGATTTGATGTTATTGTCTTT
** *
35194732 TAATGTGTTTGACATTATTCTAGGAATGGATTAGTTGATGGTACACAATGTTGTAGTGAATTGCA
321 TAATAAGTTTGACATTATTCTAGGAATGGATTAGTTGATGGTACACAATGTTGTAGTCAATTGCA
35194797 AACAAAAACGAATTGATTTGGGCTATTAGAATGGTGAATTGATTTATGTTAAATCT
386 AACAAAAACGAATTGATTTGGGCTATTAGAATGGTGAATTGATTTATGTTAAATCT
35194853 GATAAAT
1 GATAAAT
35194860 CTGATTGTGC
Statistics
Matches: 425, Mismatches: 23, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
441 43 0.10
442 7 0.02
443 2 0.00
445 115 0.27
446 258 0.61
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (441 bp):
GATAAATAATTCGGTCTGAAGCTTGAGCTCCTACCAAAGCTTATACAATCATCATAAGGAGGCCT
CAGCTCTTGATGTTATTGCTAGTACCTTTTCTATCTTTAATGTCACTATGAATGCATTAATTGAA
CATGGGTCGACACATTCATATATATGTACTACGTTAGTAACAGAAAAAGTTTACCAGTTGAGTCA
ACTAGTTATGTCATTCAAGTAACGAACCCATTAGGTTAAAGTGTAATAATTGATCTAGTTTGGAA
ATAATGTCCACTAAAAATTCAAGGCTATAACTTTCCCACTGATTTGATGTTATTGTCTTTTAATA
AGTTTGACATTATTCTAGGAATGGATTAGTTGATGGTACACAATGTTGTAGTCAATTGCAAACAA
AAACGAATTGATTTGGGCTATTAGAATGGTGAATTGATTTATGTTAAATCT
Found at i:35200374 original size:23 final size:24
Alignment explanation
Indices: 35200344--35200390 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
35200334 ATTAAAACCC
35200344 AAATAATTAATAAA-AT-ATTTTA
1 AAATAATTAATAAATATAATTTTA
*
35200366 AAATGAATTATTAAATATAATTTTA
1 AAAT-AATTAATAAATATAATTTTA
35200391 TATTTTATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 4 0.19
23 9 0.43
24 2 0.10
25 6 0.29
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (24 bp):
AAATAATTAATAAATATAATTTTA
Found at i:35201294 original size:28 final size:28
Alignment explanation
Indices: 35201257--35201429 Score: 206
Period size: 28 Copynumber: 6.2 Consensus size: 28
35201247 GTGACAGTAT
*
35201257 AGTGTGGGCCTTAGCCCAATACAGTAAC
1 AGTGTGGGCCTTAACCCAATACAGTAAC
* *
35201285 AGTGTAGGCCTTAGCCCAATACAGTAAC
1 AGTGTGGGCCTTAACCCAATACAGTAAC
*
35201313 AGTGTGGGCCTTAACCCAATATAGTAAC
1 AGTGTGGGCCTTAACCCAATACAGTAAC
* * * *
35201341 AATTTAGGCCTTAACCCAATACAGTAAT
1 AGTGTGGGCCTTAACCCAATACAGTAAC
* * *
35201369 AGTTTGGGCCTTAACCTAATACAGATTTAC
1 AGTGTGGGCCTTAACCCAATACAG--TAAC
*
35201399 --TGTGGGCCTTAGCCCAATACAGTAAC
1 AGTGTGGGCCTTAACCCAATACAGTAAC
35201425 AGTGT
1 AGTGT
35201430 AGTGCAATAA
Statistics
Matches: 123, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
26 3 0.02
28 118 0.96
30 2 0.02
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (28 bp):
AGTGTGGGCCTTAACCCAATACAGTAAC
Found at i:35201812 original size:27 final size:27
Alignment explanation
Indices: 35201792--35201939 Score: 219
Period size: 27 Copynumber: 5.5 Consensus size: 27
35201782 GGGTATAACA
*
35201792 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
35201819 GTCATTTTACCCTATAGGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
35201846 GTCATTTTACCCTATAGGGGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCG
* * * *
35201873 ATCATTTTATCCTCT-GGGGTATTTTG
1 GTCATTTTACCCTATAGGGGTATTTCG
35201899 GTCATTTTACCCTAT-GGGGCTATTTCG
1 GTCATTTTACCCTATAGGGG-TATTTCG
*
35201926 ATCATTTTACCCTA
1 GTCATTTTACCCTA
35201940 CTTTAAGGTC
Statistics
Matches: 110, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
26 26 0.24
27 84 0.76
ACGTcount: A:0.18, C:0.20, G:0.20, T:0.43
Consensus pattern (27 bp):
GTCATTTTACCCTATAGGGGTATTTCG
Found at i:35201923 original size:53 final size:53
Alignment explanation
Indices: 35201792--35201939 Score: 226
Period size: 53 Copynumber: 2.8 Consensus size: 53
35201782 GGGTATAACA
*
35201792 GTCATTTTACCCTATGGGGGTATTTCGGTCATTTTACCCTATAGGGGTATTTCG
1 GTCATTTTACCCTAT-GGGGTATTTCGATCATTTTACCCTATAGGGGTATTTCG
* * *
35201846 GTCATTTTACCCTATAGGGGTATTTCGATCATTTTATCCTCT-GGGGTATTTTG
1 GTCATTTTACCCTAT-GGGGTATTTCGATCATTTTACCCTATAGGGGTATTTCG
35201899 GTCATTTTACCCTATGGGGCTATTTCGATCATTTTACCCTA
1 GTCATTTTACCCTATGGGG-TATTTCGATCATTTTACCCTA
35201940 CTTTAAGGTC
Statistics
Matches: 86, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
52 4 0.05
53 44 0.51
54 38 0.44
ACGTcount: A:0.18, C:0.20, G:0.20, T:0.43
Consensus pattern (53 bp):
GTCATTTTACCCTATGGGGTATTTCGATCATTTTACCCTATAGGGGTATTTCG
Found at i:35203207 original size:28 final size:28
Alignment explanation
Indices: 35203174--35203395 Score: 257
Period size: 28 Copynumber: 7.9 Consensus size: 28
35203164 GTATAGTGTA
* *
35203174 GGCCTTAGCCCATTACAGTAACAGTGTG
1 GGCCTTAGCCCAATACAGTAACAATGTG
* *
35203202 GACCTTAGCCCAATACAGTAATAATGTG
1 GGCCTTAGCCCAATACAGTAACAATGTG
* ** *
35203230 GGTCTTAGCCTGATACAATAACAATGTG
1 GGCCTTAGCCCAATACAGTAACAATGTG
* *
35203258 GGCCTTAGCCCGATACAATAACAATGTG
1 GGCCTTAGCCCAATACAGTAACAATGTG
* *
35203286 GGCCTTAGCCCAATATAGTAACAATATG
1 GGCCTTAGCCCAATACAGTAACAATGTG
* * *
35203314 GGCCTTAGCCCAAAATAGTAACAATATG
1 GGCCTTAGCCCAATACAGTAACAATGTG
* *
35203342 GGCCTTAGCCCAATACA-AAATCAGTGTG
1 GGCCTTAGCCCAATACAGTAA-CAATGTG
* *
35203370 GGTCTTAGCCCAATAAAGTAACAATG
1 GGCCTTAGCCCAATACAGTAACAATG
35203396 CAGTGCAATA
Statistics
Matches: 166, Mismatches: 26, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
27 2 0.01
28 162 0.98
29 2 0.01
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (28 bp):
GGCCTTAGCCCAATACAGTAACAATGTG
Found at i:35203548 original size:25 final size:26
Alignment explanation
Indices: 35203497--35203576 Score: 117
Period size: 26 Copynumber: 3.1 Consensus size: 26
35203487 AACACACCAA
35203497 TATCGCAGCAAAGATGCCAGTAATAG
1 TATCGCAGCAAAGATGCCAGTAATAG
* *
35203523 TATCGCAACAAAGCTG-CAGTAATAG
1 TATCGCAGCAAAGATGCCAGTAATAG
* *
35203548 TATCGTAGCAAAGATGCCAGTAAAAG
1 TATCGCAGCAAAGATGCCAGTAATAG
35203574 TAT
1 TAT
35203577 ATGTGGCAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
25 22 0.47
26 25 0.53
ACGTcount: A:0.40, C:0.17, G:0.21, T:0.21
Consensus pattern (26 bp):
TATCGCAGCAAAGATGCCAGTAATAG
Done.