Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold407
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: 4418299
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 127125 characters in sequence are not A, C, G, or T
File 4 of 28
Found at i:564718 original size:92 final size:95
Alignment explanation
Indices: 564538--564776 Score: 306
Period size: 92 Copynumber: 2.5 Consensus size: 95
564528 GGCGTCTCCT
* * * * * *
564538 TTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTGCCTTTAAGTCCAATATCGC
1 TTTAAGTCCAATGTAGCTAGCCTTGAATCAGCACATT-G-A-CAT-CCTTTAAGTCCAATATAGC
564603 TGGCCTTAAATCAGCATATTGGCACC-TT-CATA
62 TGGCCTTAAATCAGCATATTGGCACCTTTCCATA
*
564635 TTTAAGTCCAATGTAGCT-GACCTTGAATCAGCACATTGGCA-CCTTTAAGTCCAATATAGCTGG
1 TTTAAGTCCAATGTAGCTAG-CCTTGAATCAGCACATTGACATCCTTTAAGTCCAATATAGCTGG
* *
564698 CCTTGAATCAGCATATTGGCACCTTTTCCATC
65 CCTTAAATCAGCATATTGGCACC-TTTCCATA
*
564730 TTTAAGTTCAATGTAGCTAGCCTTGAATCAGCACATTGACATCCTTT
1 TTTAAGTCCAATGTAGCTAGCCTTGAATCAGCACATTGACATCCTTT
564777 TTCTCATCTT
Statistics
Matches: 126, Mismatches: 10, Indels: 13
0.85 0.07 0.09
Matches are distributed among these distances:
92 43 0.34
94 3 0.02
95 40 0.32
96 8 0.06
97 32 0.25
ACGTcount: A:0.27, C:0.25, G:0.16, T:0.32
Consensus pattern (95 bp):
TTTAAGTCCAATGTAGCTAGCCTTGAATCAGCACATTGACATCCTTTAAGTCCAATATAGCTGGC
CTTAAATCAGCATATTGGCACCTTTCCATA
Found at i:564755 original size:52 final size:55
Alignment explanation
Indices: 564677--564798 Score: 169
Period size: 52 Copynumber: 2.3 Consensus size: 55
564667 ACATTGGCAC
* * *
564677 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTTC-CAT
1 CTTTAAGTCCAATATAGCTAGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
* *
564729 CTTTAAGTTCAATGTAGCTAGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTAGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
*
564784 CTTTAAGCCCAATAT
1 CTTTAAGTCCAATAT
564799 CATTGGCCGT
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
52 37 0.63
53 2 0.03
54 5 0.08
55 15 0.25
ACGTcount: A:0.26, C:0.25, G:0.13, T:0.36
Consensus pattern (55 bp):
CTTTAAGTCCAATATAGCTAGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
Found at i:570477 original size:20 final size:20
Alignment explanation
Indices: 570433--570486 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
570423 ATTTCAACGA
570433 TTTGTATCGATACATAAAGT
1 TTTGTATCGATACATAAAGT
* ***
570453 GTTGTATCGATACATATTTT
1 TTTGTATCGATACATAAAGT
570473 TTTGTATCGATACA
1 TTTGTATCGATACA
570487 ATTCAAGCTA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.30, C:0.11, G:0.15, T:0.44
Consensus pattern (20 bp):
TTTGTATCGATACATAAAGT
Found at i:570547 original size:13 final size:13
Alignment explanation
Indices: 570529--570553 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
570519 ATCACTTAAA
570529 TGTATCGATACAT
1 TGTATCGATACAT
570542 TGTATCGATACA
1 TGTATCGATACA
570554 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:570609 original size:52 final size:52
Alignment explanation
Indices: 570542--570690 Score: 228
Period size: 52 Copynumber: 2.9 Consensus size: 52
570532 ATCGATACAT
570542 TGTATCGATACACTGATCTTTGTATCGATACATGCAGGCAAATTTGCCCAGA
1 TGTATCGATACACTGATCTTTGTATCGATACATGCAGGCAAATTTGCCCAGA
* *
570594 TGTATCGATATACTGATCTTTGTATCGATACATGCAGGCAAACTTGCCCAGA
1 TGTATCGATACACTGATCTTTGTATCGATACATGCAGGCAAATTTGCCCAGA
* ***
570646 TGTATCGATACA-TTATAAAATGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACACTGAT-CTTTGTATCGATACATGCAGGCAAATTT
570691 TCATATTTCG
Statistics
Matches: 88, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
51 3 0.03
52 85 0.97
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.32
Consensus pattern (52 bp):
TGTATCGATACACTGATCTTTGTATCGATACATGCAGGCAAATTTGCCCAGA
Found at i:575614 original size:10 final size:10
Alignment explanation
Indices: 575599--575640 Score: 57
Period size: 11 Copynumber: 3.9 Consensus size: 10
575589 TTCTTTTTAA
575599 AAAAAAAAAC
1 AAAAAAAAAC
575609 AAAAAAAAAC
1 AAAAAAAAAC
575619 AAAAAACAAAAC
1 -AAAAA-AAAAC
575631 AAAGAAAAAA
1 AAA-AAAAAA
575641 AAGAGAGAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
10 10 0.34
11 12 0.41
12 7 0.24
ACGTcount: A:0.88, C:0.10, G:0.02, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:575622 original size:17 final size:17
Alignment explanation
Indices: 575597--575642 Score: 67
Period size: 17 Copynumber: 2.6 Consensus size: 17
575587 CCTTCTTTTT
575597 AAAAAAAAAAACAAAA-
1 AAAAAAAAAAACAAAAC
575613 AAAAACAAAAAACAAAAC
1 AAAAA-AAAAAACAAAAC
575631 AAAGAAAAAAAA
1 AAA-AAAAAAAA
575643 GAGAGAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
16 5 0.19
17 11 0.41
18 9 0.33
19 2 0.07
ACGTcount: A:0.89, C:0.09, G:0.02, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAACAAAAC
Found at i:575622 original size:22 final size:23
Alignment explanation
Indices: 575597--575640 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
575587 CCTTCTTTTT
575597 AAAAAAAAAAACAAA-AAAAAAC
1 AAAAAAAAAAACAAAGAAAAAAC
*
575619 AAAAAACAAAACAAAGAAAAAA
1 AAAAAAAAAAACAAAGAAAAAA
575641 AAGAGAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.89, C:0.09, G:0.02, T:0.00
Consensus pattern (23 bp):
AAAAAAAAAAACAAAGAAAAAAC
Found at i:575644 original size:9 final size:9
Alignment explanation
Indices: 575600--575642 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
575590 TCTTTTTAAA
575600 AAAAAAAAC
1 AAAAAAAAC
575609 AAAAAAAA-
1 AAAAAAAAC
*
575617 ACAAAAAAC
1 AAAAAAAAC
* *
575626 AAAACAAAG
1 AAAAAAAAC
575635 AAAAAAAA
1 AAAAAAAA
575643 GAGAGAAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
8 7 0.25
9 21 0.75
ACGTcount: A:0.88, C:0.09, G:0.02, T:0.00
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:576786 original size:94 final size:95
Alignment explanation
Indices: 576613--576801 Score: 274
Period size: 94 Copynumber: 1.9 Consensus size: 95
576603 ATATAAACTT
* *
576613 TCTCCTTTCATTTTTCAGTCCTCAAAGAGCAGGATGCCTTCGCCTTTTAAAGCCCACACAAGTTG
1 TCTCCTTTCACTTTTCAGTCCTCAAAGAGCAGGA-----TCGCCTTTCAAAGCCCACACAAGTTG
576678 GTGGCACTTCCTAGTCCTCAAAGAGCAGGACGCTC
61 GTGGCACTTCCTAGTCCTCAAAGAGCAGGACGCTC
576713 TCTCCTTTCACCTTTT-AGTCCTCAAAGAGCAGGA-CGCCTTTCAAAGCCCACACAAGTTGGTGG
1 TCTCCTTTCA-CTTTTCAGTCCTCAAAGAGCAGGATCGCCTTTCAAAGCCCACACAAGTTGGTGG
* *
576776 CATTTTCTAGTCCTCAAAGAGCAGGA
65 CACTTCCTAGTCCTCAAAGAGCAGGA
576802 TGCCTTTTCC
Statistics
Matches: 84, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
94 52 0.62
100 28 0.33
101 4 0.05
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (95 bp):
TCTCCTTTCACTTTTCAGTCCTCAAAGAGCAGGATCGCCTTTCAAAGCCCACACAAGTTGGTGGC
ACTTCCTAGTCCTCAAAGAGCAGGACGCTC
Found at i:577173 original size:61 final size:61
Alignment explanation
Indices: 576725--577169 Score: 533
Period size: 61 Copynumber: 7.5 Consensus size: 61
576715 TCCTTTCACC
576725 TTTTAGTCCTCAAAGAGCAGGACG------CCTTTCAAAGCCCACACAAGTTGGTGGCA-T
1 TTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACT
* * *
576779 TTTCTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTCAAAGTCCACATAAGTTGGTGGCACT
1 TTT-TAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACT
* * *
576841 TTTCAGTCCTCAAAGAGCATGACTCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA-T
1 TTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACT
* * *
576901 TTTCCAGTCCTCAAAGAGCAGGA---C---ACCTTTCAAAGCCCACACAAGCTGGTGGCAC-
1 TTT-TAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACT
* * * * * *
576956 CTTCAGTCCTCAAAGAGCAGGACGTCTTTTCCTTTTAAAGCCCACACATGTTGGTGGCACC
1 TTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACT
* * * * ** * *
577017 CTTTAGTCCTCAAAGAACAGGAAGCCTTTTCCTTTCGAAGCCCACATGAGTTGGTAGCACC
1 TTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACT
* * *
577078 TTTTAGTCCTCAAAGAGCAGGATGCCTTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACT
1 TTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACT
577139 TTTTAGTCCTCAAAGAGCAGGACGCCTTTTC
1 TTTTAGTCCTCAAAGAGCAGGACGCCTTTTC
577170 TTTTTCTCCT
Statistics
Matches: 338, Mismatches: 36, Indels: 27
0.84 0.09 0.07
Matches are distributed among these distances:
54 22 0.07
55 50 0.15
57 1 0.00
58 1 0.00
60 31 0.09
61 229 0.68
62 4 0.01
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.28
Consensus pattern (61 bp):
TTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACT
Found at i:577293 original size:85 final size:84
Alignment explanation
Indices: 577139--577929 Score: 827
Period size: 85 Copynumber: 9.3 Consensus size: 84
577129 TGGTGGCACT
*
577139 TTTTAGTCCTCAAAGAGCAGGACGCC--TTTTCTTTTTCTCCTTTGTCCTCAAAGAGCAGGACAC
1 TTTT-GTCCTCAAAGAGCAGGATGCCTTTTTTCTTTTT-TCCTTTGTCCTCAAAGAGCAGGACAC
577202 ATTTCATTTCCTTCTTTTCCC
64 ATTTCATTTCCTTCTTTTCCC
* **
577223 TTTTGTCCTCAAAGAGCAGGATGCCTTTTGTTCTTTTTTCCTTTGTCCTCAAAGAGTAGGATGCA
1 TTTTGTCCTCAAAGAGCAGGATGCCTTTT-TTCTTTTTTCCTTTGTCCTCAAAGAGCAGGACACA
*
577288 CTTCATTTCCTTCTTTTCCC
65 TTTCATTTCCTTCTTTTCCC
* * * *
577308 TTTTTAGTCCTCAAAGAGGAGGATGTC-TTTTCCTTTTCTCCTTTGTCCTCAAAGAGCAGGACAC
1 -TTTT-GTCCTCAAAGAGCAGGATGCCTTTTTTCTTTTTTCCTTTGTCCTCAAAGAGCAGGACAC
*
577372 ATTTCATTTCCTTCTTTCCCC
64 ATTTCATTTCCTTCTTTTCCC
* *
577393 TTTTGTCCTCAAAGAGCAAGATGCCTTTTTTTTTTCTTTTTTCCTTTGTCCTCAAAAAGCAGGAC
1 TTTTGTCCTCAAAGAGCAGGATGCC----TTTTTTCTTTTTTCCTTTGTCCTCAAAGAGCAGGAC
* *
577458 ACACTTCATTTCCTTATTTTCCC
62 ACATTTCATTTCCTTCTTTTCCC
** * *
577481 TTTTTAGTCCTCAAAGAGCAATATGCC-TTTTCCTTTTCTCCTTTGTCCTCAAAGAGCAGGACAC
1 -TTTT-GTCCTCAAAGAGCAGGATGCCTTTTTTCTTTTTTCCTTTGTCCTCAAAGAGCAGGACAC
*
577545 ATTTCGTTTCCTTCTTTTCCC
64 ATTTCATTTCCTTCTTTTCCC
* * *
577566 TTTTTAGTCCTCAAAGAGCAAGACGCC--TTTTCTTTTTCTCCTTTGTCCTCAAATAGCAGGACA
1 -TTTT-GTCCTCAAAGAGCAGGATGCCTTTTTTCTTTTT-TCCTTTGTCCTCAAAGAGCAGGACA
* * *
577629 AATTTCGTTTCCTTCTTTTCCT
63 CATTTCATTTCCTTCTTTTCCC
* * * *
577651 TTTTATCCTCAAAGAGGAGGATGCCTTTTTTTTCTTTTTTCCTTTGTCCTCAAAGAGCAGTACGC
1 TTTTGTCCTCAAAGAGCAGGATGCC--TTTTTTCTTTTTTCCTTTGTCCTCAAAGAGCAGGACAC
*
577716 ACTTCATTTCCTTCTTTTCCC
64 ATTTCATTTCCTTCTTTTCCC
* * * * * * *
577737 TTCTAGTTCTCAAAGAGCAGGACGCACTTTATTCTCTTTTTTCCTTTATCCTAAAAAAGAAGGAC
1 TT-TTGTCCTCAAAGAGCAGGATGC-CTTT-TT-TCTTTTTTCCTTTGTCCTCAAAGAGCAGGAC
*
577802 ACATTTAATTTCC-T-TTTT-CC
62 ACATTTCATTTCCTTCTTTTCCC
* * * * * * *
577822 -TTTGTCTTCAAAGGGCAAGATGCATTTTATTTTCTTTTTTTCCTTTATCCTCAAGGAGCAAGAC
1 TTTTGTCCTCAAAGAGCAGGATGC--CTT-TTTTC-TTTTTTCCTTTGTCCTCAAAGAGCAGGAC
* *
577886 CCATTTCA-TT-CTCCTTTT-CC
62 ACATTTCATTTCCTTCTTTTCCC
* *
577906 -TATATCCTCAAAGAGCAGGATGCC
1 TTTTGTCCTCAAAGAGCAGGATGCC
577930 CCTTTCCTTT
Statistics
Matches: 598, Mismatches: 83, Indels: 54
0.81 0.11 0.07
Matches are distributed among these distances:
82 1 0.00
83 75 0.13
84 79 0.13
85 217 0.36
86 64 0.11
87 49 0.08
88 89 0.15
89 4 0.01
90 20 0.03
ACGTcount: A:0.20, C:0.26, G:0.13, T:0.41
Consensus pattern (84 bp):
TTTTGTCCTCAAAGAGCAGGATGCCTTTTTTCTTTTTTCCTTTGTCCTCAAAGAGCAGGACACAT
TTCATTTCCTTCTTTTCCC
Found at i:577468 original size:258 final size:255
Alignment explanation
Indices: 577165--577816 Score: 883
Period size: 258 Copynumber: 2.5 Consensus size: 255
577155 GCAGGACGCC
*
577165 TTTTCTTTTTCTCCTTTGTCCTCAAAGAGCAGGACACATTTCATTTCCTTCTTTTCCCTTTTGTC
1 TTTTCTTTTT-TCCTTTGTCCTCAAAGAGCAGGACACACTTCATTTCCTTCTTTTCCCTTTTGTC
* **
577230 CTCAAAGAGCAGGATGCCTTTTGTTCTTTTTTCCTTTGTCCTCAAAGAGTAGGATGCACTTCATT
65 CTCAAAGAGCAGGATGCCTTTT-TTCTTTTTTCCTTTGTCCTCAAAGAGCAGGACACACTTCATT
* * * *
577295 TCCTTCTTTTCCCTTTTTAGTCCTCAAAGAGGAGGATGTCTTTTCCTTTTCTCCTTTGTCCTCAA
129 TCCTTCTTTTCCCTTTTTAGTCCTCAAAGAGCAAGACGCCTTTTCCTTTTCTCCTTTGTCCTCAA
* *
577360 AGAGCAGGACACATTTCATTTCCTTCTTTCCCCTTTTGTCCTCAAAGAGCAAGATGCCTTTTTT
194 AGAGCAGGACAAATTTCATTTCCTTCTTTCCCCTTTTATCCTCAAAGAGCAAGATGCC--TTTT
* *
577424 TTTTCTTTTTTCCTTTGTCCTCAAAAAGCAGGACACACTTCATTTCCTTATTTTCCCTTTTTAGT
1 TTTTCTTTTTTCCTTTGTCCTCAAAGAGCAGGACACACTTCATTTCCTTCTTTTCCC-TTTT-GT
** * * * *
577489 CCTCAAAGAGCAATATGCC-TTTTCCTTTTCTCCTTTGTCCTCAAAGAGCAGGACACATTTCGTT
64 CCTCAAAGAGCAGGATGCCTTTTTTCTTTTTTCCTTTGTCCTCAAAGAGCAGGACACACTTCATT
*
577553 TCCTTCTTTTCCCTTTTTAGTCCTCAAAGAGCAAGACGCCTTTTCTTTTTCTCCTTTGTCCTCAA
129 TCCTTCTTTTCCCTTTTTAGTCCTCAAAGAGCAAGACGCCTTTTCCTTTTCTCCTTTGTCCTCAA
* * * * * *
577618 ATAGCAGGACAAATTTCGTTTCCTTCTTTTCCTTTTTATCCTCAAAGAGGAGGATGCCTTTT
194 AGAGCAGGACAAATTTCATTTCCTTCTTTCCCCTTTTATCCTCAAAGAGCAAGATGCCTTTT
* * * *
577680 TTTTCTTTTTTCCTTTGTCCTCAAAGAGCAGTACGCACTTCATTTCCTTCTTTTCCCTTCTAGTT
1 TTTTCTTTTTTCCTTTGTCCTCAAAGAGCAGGACACACTTCATTTCCTTCTTTTCCCTT-TTGTC
* * * * * * *
577745 CTCAAAGAGCAGGACGCACTTTATTCTCTTTTTTCCTTTATCCTAAAAAAGAAGGACACATTTAA
65 CTCAAAGAGCAGGATGC-CTTT-TT-TCTTTTTTCCTTTGTCCTCAAAGAGCAGGACACACTTCA
577810 TTTCCTT
127 TTTCCTT
577817 TTTCCTTTGT
Statistics
Matches: 344, Mismatches: 42, Indels: 14
0.86 0.10 0.04
Matches are distributed among these distances:
255 18 0.05
256 59 0.17
257 2 0.01
258 191 0.56
259 55 0.16
260 19 0.06
ACGTcount: A:0.20, C:0.26, G:0.12, T:0.42
Consensus pattern (255 bp):
TTTTCTTTTTTCCTTTGTCCTCAAAGAGCAGGACACACTTCATTTCCTTCTTTTCCCTTTTGTCC
TCAAAGAGCAGGATGCCTTTTTTCTTTTTTCCTTTGTCCTCAAAGAGCAGGACACACTTCATTTC
CTTCTTTTCCCTTTTTAGTCCTCAAAGAGCAAGACGCCTTTTCCTTTTCTCCTTTGTCCTCAAAG
AGCAGGACAAATTTCATTTCCTTCTTTCCCCTTTTATCCTCAAAGAGCAAGATGCCTTTT
Found at i:577857 original size:258 final size:257
Alignment explanation
Indices: 577137--577929 Score: 878
Period size: 258 Copynumber: 3.1 Consensus size: 257
577127 GTTGGTGGCA
*
577137 CTTTTTAGTCCTCAAAGAGCAGGACGCC----TTTTCTTTTTCTCCTTTGTCCTCAAAGAGCAGG
1 CTTTTTA-TCCTCAAAGAGCAGGATGCCTTTTTTTTCTTTTT-TCCTTTGTCCTCAAAGAGCAGG
* *
577198 ACACATTTCATTTCCTTCTTTTCCCTTTTGTCCTCAAAGAGCAGGATGCCTTTTGT-TCTTTTTT
64 ACACACTTCATTTCCTTCTTTTCCCTTTAGTCCTCAAAGAGCAGGATGCCTTTT-TCTCTTTTTT
* ** *
577262 CCTTTGTCCTCAAAGAGTAGGATGCACTTCATTTCCTTCTTTTCCCTTTTTAGTCCTCAAAGAGG
128 CCTTTGTCCTCAAAGAGAAGGACACATTTCATTTCCTTCTTTTCCC-TTTTAGTCCTCAAAG-GG
* *
577327 --AG-G-ATGTCTTTTCCTTTTCTCCTTTGTCCTCAAAGAGCAGGACACATTTCATTTCCTTCTT
191 CAAGAGCAT-TCTTTTCTTTTTCTCCTTTGTCCTCAAAGAGCAGGACAAATTTCATTTCCTTCTT
577388 TCC
255 TCC
* * * *
577391 CCTTTTGTCCTCAAAGAGCAAGATGCCTTTTTTTTTTCTTTTTTCCTTTGTCCTCAAAAAGCAGG
1 CTTTTTATCCTCAAAGAGCAGGATGCC--TTTTTTTTCTTTTTTCCTTTGTCCTCAAAGAGCAGG
* ** *
577456 ACACACTTCATTTCCTTATTTTCCCTTTTTAGTCCTCAAAGAGCAATATGCC-TTTTC-CTTTTC
64 ACACACTTCATTTCCTTCTTTTCCC--TTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTCTTTTT
* * *
577519 TCCTTTGTCCTCAAAGAGCAGGACACATTTCGTTTCCTTCTTTTCCCTTTTTAGTCCTCAAAGAG
127 TCCTTTGTCCTCAAAGAGAAGGACACATTTCATTTCCTTCTTTTCCC-TTTTAGTCCTCAAAGGG
* *
577584 CAAGACGC---CTTTTCTTTTTCTCCTTTGTCCTCAAATAGCAGGACAAATTTCGTTTCCTTCTT
191 CAAGA-GCATTCTTTTCTTTTTCTCCTTTGTCCTCAAAGAGCAGGACAAATTTCATTTCCTTCTT
*
577646 TTC
255 TCC
* *
577649 CTTTTTATCCTCAAAGAGGAGGATGCCTTTTTTTTCTTTTTTCCTTTGTCCTCAAAGAGCAGTAC
1 CTTTTTATCCTCAAAGAGCAGGATGCCTTTTTTTTCTTTTTTCCTTTGTCCTCAAAGAGCAGGAC
* * *
577714 GCACTTCATTTCCTTCTTTTCCCTTCTAGTTCTCAAAGAGCAGGACGCACTTTATTCTCTTTTTT
66 ACACTTCATTTCCTTCTTTTCCCTT-TAGTCCTCAAAGAGCAGGATGC-CTTT-TTCTCTTTTTT
* * * * *
577779 CCTTTATCCTAAAAAAGAAGGACACATTTAATTTCC-T-TTTT-CC-TTT-GTCTTCAAAGGGCA
128 CCTTTGTCCTCAAAGAGAAGGACACATTTCATTTCCTTCTTTTCCCTTTTAGTCCTCAAAGGGCA
* * * * * **
577839 AGATGCATTTTATTTTCTTTTTTTCCTTTATCCTCAAGGAGCAAGACCCATTTCATTCTCC-T-T
193 AGA-GCA--TTCTTTTCTTTTTCTCCTTTGTCCTCAAAGAGCAGGACAAATTTCATT-TCCTTCT
577902 TT-C
254 TTCC
*
577905 C--TATATCCTCAAAGAGCAGGATGCC
1 CTTTTTATCCTCAAAGAGCAGGATGCC
577930 CCTTTCCTTT
Statistics
Matches: 459, Mismatches: 55, Indels: 50
0.81 0.10 0.09
Matches are distributed among these distances:
253 35 0.08
254 32 0.07
255 18 0.04
256 62 0.14
257 10 0.02
258 225 0.49
259 54 0.12
260 22 0.05
261 1 0.00
ACGTcount: A:0.20, C:0.26, G:0.13, T:0.41
Consensus pattern (257 bp):
CTTTTTATCCTCAAAGAGCAGGATGCCTTTTTTTTCTTTTTTCCTTTGTCCTCAAAGAGCAGGAC
ACACTTCATTTCCTTCTTTTCCCTTTAGTCCTCAAAGAGCAGGATGCCTTTTTCTCTTTTTTCCT
TTGTCCTCAAAGAGAAGGACACATTTCATTTCCTTCTTTTCCCTTTTAGTCCTCAAAGGGCAAGA
GCATTCTTTTCTTTTTCTCCTTTGTCCTCAAAGAGCAGGACAAATTTCATTTCCTTCTTTCC
Found at i:578588 original size:13 final size:13
Alignment explanation
Indices: 578570--578595 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
578560 GTTCATTGTA
578570 GTATCGATACATT
1 GTATCGATACATT
578583 GTATCGATACATT
1 GTATCGATACATT
578596 CTGGGTTTAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:581092 original size:130 final size:129
Alignment explanation
Indices: 580928--581207 Score: 364
Period size: 130 Copynumber: 2.1 Consensus size: 129
580918 ATTTTTCATC
** *
580928 TCGGGGATACTCCAAACCCGATTTTATTTCCAAAACGTCAATTTTTCATAATCGGGGATACTCCA
1 TCGGGGATACTCC-AACCCGATTTTATTTCCAAAACACCAATTTTTCACAATCGGGGATACTCCA
* * ** *
580993 ATCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTGTTTCTAAAACA-CTAATTTTTCACA
65 ACCCCGTTATTTCAGAGGGGATACTCCAACCCCGGCCTTATTTCTAAAACATC-AATTTTTCACA
581057 A
129 A
* * *
581058 TCGGGGATACTCCAACTCTGATTTTATTTTCAAAACACCAATTTTTCACAATCGGGGATACTCTA
1 TCGGGGATACTCCAAC-CCGATTTTATTTCCAAAACACCAATTTTTCACAATCGGGGATACTCCA
** * *
581123 ACCCCGTTATTTCATCGGGGATACTCCAACCCCGGCCTTATTTCTAAAGCATCGATTTTTCACAA
65 ACCCCGTTATTTCAGAGGGGATACTCCAACCCCGGCCTTATTTCTAAAACATCAATTTTTCACAA
* *
581188 TCGAGGATAATCCAAGCCCG
1 TCGGGGATACTCCAA-CCCG
581208 TTATTTTTGA
Statistics
Matches: 129, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
129 3 0.02
130 124 0.96
131 2 0.02
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.31
Consensus pattern (129 bp):
TCGGGGATACTCCAACCCGATTTTATTTCCAAAACACCAATTTTTCACAATCGGGGATACTCCAA
CCCCGTTATTTCAGAGGGGATACTCCAACCCCGGCCTTATTTCTAAAACATCAATTTTTCACAA
Found at i:581093 original size:51 final size:51
Alignment explanation
Indices: 581009--581128 Score: 170
Period size: 51 Copynumber: 2.4 Consensus size: 51
580999 TTATTTCCGA
* *
581009 GGGGATACTCCAACCCCGGTTTTGTTTCTAAAACACTAATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTGTTTCTAAAACACCAATTTTTCACAATC
* * *
581060 GGGGATACTCCAACTCTGATTTTATTT-TCAAAACACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTGTTTCT-AAAACACCAATTTTTCACAATC
*
581111 GGGGATACTCTAACCCCG
1 GGGGATACTCCAACCCCG
581129 TTATTTCATC
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
50 1 0.02
51 59 0.98
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTGTTTCTAAAACACCAATTTTTCACAATC
Found at i:581140 original size:79 final size:80
Alignment explanation
Indices: 581060--581357 Score: 309
Period size: 79 Copynumber: 3.8 Consensus size: 80
581050 TTTCACAATC
* * * *
581060 GGGGATACTCCAACTCTGATTTTATTTTCAAAACACCAATTTTTCACAATCGGGGATACTCTAAC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAACACCGATTTTTCACAATCGGGGATACTCCAAC
*
581125 CCCGTTATTTCAT-C
66 CCCGTTATTTCATGA
*** * * * *
581139 GGGGATACTCCAACCCCGGCCTTA-TTTCTAAAGCATCGATTTTTCACAATCGAGGATAATCCAA
1 GGGGATACTCCAACCCCGATTTTATTTTC-AAAACACCGATTTTTCACAATCGGGGATACTCCAA
* *
581203 GCCCGTTATTT-TTGA
65 CCCCGTTATTTCATGA
* * * * *
581218 GGGGATACTCCAAGCCTGATTTTATTTTCAAAACACTGA-TTTTCTATAATCAGGGATACTCCAA
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAACACCGATTTTTC-ACAATCGGGGATACTCCAA
*
581282 CCCTGTTATTTC-TGA
65 CCCCGTTATTTCATGA
* * * * * *
581297 GGGGATACTCTAACCCCGATTTTATTTCCAAAACATCGATTTTCCATAATCGGAGATACTC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAACACCGATTTTTCACAATCGGGGATACTC
581358 TGGCCCCGTT
Statistics
Matches: 176, Mismatches: 37, Indels: 12
0.78 0.16 0.05
Matches are distributed among these distances:
78 10 0.06
79 158 0.90
80 8 0.05
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (80 bp):
GGGGATACTCCAACCCCGATTTTATTTTCAAAACACCGATTTTTCACAATCGGGGATACTCCAAC
CCCGTTATTTCATGA
Found at i:581367 original size:158 final size:158
Alignment explanation
Indices: 581060--581348 Score: 395
Period size: 158 Copynumber: 1.8 Consensus size: 158
581050 TTTCACAATC
* *
581060 GGGGATACTCCAACTCTGATTTTATTTTCAAAACACCAATTTTTCACAATCGGGGATACTCTAAC
1 GGGGATACTCCAACTCTGATTTTATTTTCAAAACACCAATTTTTCACAATCAGGGATACTCCAAC
* * * * *
581125 CCCGTTATTTCATCGGGGATACTCCAACCCCGGCCTTATTTCTAAAGCATCGATTTTTCACAATC
66 CCCGTTATTTCATAGGGGATACTCCAACCCCGACCTTATTTCCAAAACATCGATTTTCCACAATC
581190 GAGGATAATCCAAGCCCGTTATTTTTGA
131 GAGGATAATCCAAGCCCGTTATTTTTGA
** *
581218 GGGGATACTCCAAGC-CTGATTTTATTTTCAAAACACTGA-TTTTCTATAATCAGGGATACTCCA
1 GGGGATACTCCAA-CTCTGATTTTATTTTCAAAACACCAATTTTTC-ACAATCAGGGATACTCCA
* * ** *
581281 ACCCTGTTATTTC-TGAGGGGATACTCTAACCCCGATTTTATTTCCAAAACATCGATTTTCCATA
64 ACCCCGTTATTTCAT-AGGGGATACTCCAACCCCGACCTTATTTCCAAAACATCGATTTTCCACA
581345 ATCG
128 ATCG
581349 GAGATACTCT
Statistics
Matches: 113, Mismatches: 15, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
157 6 0.05
158 106 0.94
159 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.33
Consensus pattern (158 bp):
GGGGATACTCCAACTCTGATTTTATTTTCAAAACACCAATTTTTCACAATCAGGGATACTCCAAC
CCCGTTATTTCATAGGGGATACTCCAACCCCGACCTTATTTCCAAAACATCGATTTTCCACAATC
GAGGATAATCCAAGCCCGTTATTTTTGA
Found at i:583915 original size:19 final size:18
Alignment explanation
Indices: 583890--583986 Score: 97
Period size: 19 Copynumber: 5.8 Consensus size: 18
583880 ATTTCAACGA
583890 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
583908 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
583924 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
583940 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
583956 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
583972 TTTTGTATCGATACA
1 -TTTGTATCGATACA
583987 ATGTATCGCT
Statistics
Matches: 66, Mismatches: 0, Indels: 25
0.73 0.00 0.27
Matches are distributed among these distances:
13 22 0.33
15 4 0.06
17 4 0.06
18 1 0.02
19 35 0.53
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:583928 original size:32 final size:32
Alignment explanation
Indices: 583892--583994 Score: 197
Period size: 32 Copynumber: 3.2 Consensus size: 32
583882 TTCAACGATT
583892 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
583924 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
583956 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
583988 TGTATCG
1 TGTATCG
583995 CTACGAAGCT
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
32 70 1.00
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:583929 original size:13 final size:13
Alignment explanation
Indices: 583911--583967 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
583901 ACATAAGTGT
583911 TGTATCGATACAA
1 TGTATCGATACAA
583924 TGTATCGATACATAA
1 TGTATCGATAC--AA
583939 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
583956 TGTATCGATACA
1 TGTATCGATACA
583968 TAAGTTTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:584057 original size:13 final size:13
Alignment explanation
Indices: 584039--584063 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
584029 ATTACTCAAA
584039 TGTATCGATACAT
1 TGTATCGATACAT
584052 TGTATCGATACA
1 TGTATCGATACA
584064 ATGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:587767 original size:20 final size:20
Alignment explanation
Indices: 587742--587825 Score: 69
Period size: 20 Copynumber: 3.7 Consensus size: 20
587732 AATTAACTAG
587742 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATTGAAAA
*
587762 ATGTATCTATACATATGGGTAGAAAATA
1 ATGTATCGATAC--AT---T-G-AAA-A
587790 GAATGTATCGATACATTGAAAA
1 --ATGTATCGATACATTGAAAA
587812 ATGTATCGATACAT
1 ATGTATCGATACAT
587826 CTGGGTAAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 20
0.70 0.03 0.27
Matches are distributed among these distances:
20 25 0.48
22 3 0.06
23 3 0.06
24 1 0.02
25 2 0.04
26 1 0.02
27 3 0.06
28 3 0.06
30 11 0.21
ACGTcount: A:0.43, C:0.10, G:0.17, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACATTGAAAA
Found at i:587798 original size:50 final size:50
Alignment explanation
Indices: 587742--587856 Score: 194
Period size: 50 Copynumber: 2.3 Consensus size: 50
587732 AATTAACTAG
* *
587742 ATGTATCGATACATTGAAAAATGTATCTATACATATGGGTAGAAAATAGA
1 ATGTATCGATACATTGAAAAATGTATCGATACATATGGGTAAAAAATAGA
*
587792 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAAATAGA
1 ATGTATCGATACATTGAAAAATGTATCGATACATATGGGTAAAAAATAGA
*
587842 ATGTATCAATACATT
1 ATGTATCGATACATT
587857 TACTGTTCAT
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
50 61 1.00
ACGTcount: A:0.43, C:0.10, G:0.17, T:0.30
Consensus pattern (50 bp):
ATGTATCGATACATTGAAAAATGTATCGATACATATGGGTAAAAAATAGA
Found at i:588939 original size:31 final size:32
Alignment explanation
Indices: 588896--588983 Score: 103
Period size: 31 Copynumber: 2.8 Consensus size: 32
588886 AGAAAGTTGT
*
588896 CACCAACTTGTGTGGGCTTTAGAAAG-G-TAGC
1 CACCGACTTGTGTGGGCTTTA-AAAGAGATAGC
**
588927 CACCGACTTGTGTGGGCTTTAAAAGAGATTTC
1 CACCGACTTGTGTGGGCTTTAAAAGAGATAGC
588959 CACCGAC-T-TGTGGGCTTTGAAAAGA
1 CACCGACTTGTGTGGGCTTT-AAAAGA
588984 TGCTACTGAC
Statistics
Matches: 51, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
30 14 0.27
31 28 0.55
32 9 0.18
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.27
Consensus pattern (32 bp):
CACCGACTTGTGTGGGCTTTAAAAGAGATAGC
Found at i:589000 original size:28 final size:28
Alignment explanation
Indices: 588906--589264 Score: 312
Period size: 28 Copynumber: 12.5 Consensus size: 28
588896 CACCAACTTG
*
588906 TGTGGGCTTTAGAAAGG-TAGCCACCGACTT
1 TGTGGGCTTT-GAAAGGAT-GCCACTGAC-T
* * *
588936 GTGTGGGCTTTAAAAGAGATTTCCACCGACT
1 -TGTGGGCTTTGAAAG-GA-TGCCACTGACT
* *
588967 TGTGGGCTTTGAAAAGATGCTACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
** * *
588995 TGTGGGCTTTGAAAAAAGTACCACTAACT
1 TGTGGGCTTTGAAAGGA-TGCCACTGACT
*
589024 TGTGGGCTTTGAAAAAGGATGCCACTAACT
1 TGTGGGCTTTG--AAAGGATGCCACTGACT
*
589054 CGTGGGCTTTGAAAGGTAT--CACTGACT
1 TGTGGGCTTTGAAAGG-ATGCCACTGACT
* * *
589081 TGTGGGTTTTGAAAGGGTGCCATTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
589109 CGTGGGCTTTTGAAAGGATGCCATTGACT
1 TGTGGGC-TTTGAAAGGATGCCACTGACT
** * *
589138 CATGGGCTTTGAAAAGG-TGCCATTAACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
* *
589166 CGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
589194 TGTGGGCTTTCAAAGGGTACCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
589222 TATGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
589250 TGTGGGCTTTTGAAA
1 TGTGGGC-TTTGAAA
589265 AAGGGTCGTA
Statistics
Matches: 278, Mismatches: 37, Indels: 28
0.81 0.11 0.08
Matches are distributed among these distances:
26 1 0.00
27 26 0.09
28 128 0.46
29 61 0.22
30 37 0.13
31 16 0.06
32 8 0.03
33 1 0.00
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGATGCCACTGACT
Found at i:589035 original size:57 final size:57
Alignment explanation
Indices: 588938--589265 Score: 308
Period size: 57 Copynumber: 5.8 Consensus size: 57
588928 ACCGACTTGT
* * * * * *
588938 GTGGGCTTT-AAAAGAGATTTCCACCGACTTGTGGGCTTTGAAAAGATGCTACTGACTT
1 GTGGGCTTTGAAAAGAG--TGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTAACTC
* * *
588996 GTGGGCTTTGAAAAAAGTACCACTAACTTGTGGGCTTTGAAAAAGGATGCCACTAACTC
1 GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAAGG-TGCCACTAACTC
** * * * *
589055 GTGGGCTTTG-AAAG-GTATCACTGACTTGTGGGTTTTGAAAGGGTGCCATTGACTC
1 GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTAACTC
* * ** *
589110 GTGGGCTTTTGAAAGGA-TGCCATTGACTCATGGGCTTTGAAAAGGTGCCATTAACTC
1 GTGGGC-TTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTAACTC
* * * * *
589167 GTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGCTTTCAAAGGGTACCACTAACTT
1 GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTAACTC
* * *
589223 ATGGGCTTTGAAAGGA-TGCCACTAACTTGTGGGCTTTTGAAAA
1 GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGC-TTTGAAAA
589266 AGGGTCGTAT
Statistics
Matches: 221, Mismatches: 40, Indels: 19
0.79 0.14 0.07
Matches are distributed among these distances:
55 19 0.09
56 71 0.32
57 89 0.40
58 17 0.08
59 25 0.11
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (57 bp):
GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTAACTC
Found at i:589343 original size:14 final size:14
Alignment explanation
Indices: 589324--589361 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
589314 TCAATAAAAG
*
589324 TTCTTGACAATAAT
1 TTCTTGACAACAAT
*
589338 TTCTTGACAACCAT
1 TTCTTGACAACAAT
589352 TTCTTGACAA
1 TTCTTGACAA
589362 ATGGCGAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.32, C:0.21, G:0.08, T:0.39
Consensus pattern (14 bp):
TTCTTGACAACAAT
Found at i:593722 original size:56 final size:56
Alignment explanation
Indices: 593655--593761 Score: 196
Period size: 56 Copynumber: 1.9 Consensus size: 56
593645 GCTTTTGCTG
*
593655 GATTGGTTTGCATCCAGGCTTGATGGGAAGCTTATGGACCACTATATCAGCATCTA
1 GATTGGTTTGCATCCAGGCTTAATGGGAAGCTTATGGACCACTATATCAGCATCTA
*
593711 GATTGGTTTGCATCCAGGCTTAATGGTAAGCTTATGGACCACTATATCAGC
1 GATTGGTTTGCATCCAGGCTTAATGGGAAGCTTATGGACCACTATATCAGC
593762 GCCTAGTCTT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
56 49 1.00
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (56 bp):
GATTGGTTTGCATCCAGGCTTAATGGGAAGCTTATGGACCACTATATCAGCATCTA
Found at i:593841 original size:32 final size:32
Alignment explanation
Indices: 593800--593864 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
593790 CAAGCAAAGA
593800 TGTCTCGATATTCCTGAAGTAGGTTTATCAGC
1 TGTCTCGATATTCCTGAAGTAGGTTTATCAGC
593832 TGTCTCGATATTCCTGAAGTAGGTTTATCAGC
1 TGTCTCGATATTCCTGAAGTAGGTTTATCAGC
593864 T
1 T
593865 TGGTCCTAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.22, C:0.18, G:0.22, T:0.38
Consensus pattern (32 bp):
TGTCTCGATATTCCTGAAGTAGGTTTATCAGC
Found at i:596712 original size:97 final size:96
Alignment explanation
Indices: 596500--596688 Score: 245
Period size: 97 Copynumber: 2.0 Consensus size: 96
596490 CCCTTTGGAG
* * * *
596500 GAATGGGGTTGGAGTATCTCGATAATGATAATTTAGGTAAAAATATGATTTAAATCTTGACAAGT
1 GAATGGGGTTGGAGTATCTCGATAATAACAATTTAAGCAAAAATATGATTTAAATCTTGACAAGT
* * **
596565 TTAAAAATGCAGTTGGAGTATCCCCTCAAAA
66 TTAAAAAGGCAGATACAGTATCCCCTCAAAA
* * *
596596 GAATGGGGTTGGAGTATCTCTGATGATAACAATTTAAGCAAAAGTATGATTTAAATCTTGATAAG
1 GAATGGGGTTGGAGTATCTC-GATAATAACAATTTAAGCAAAAATATGATTTAAATCTTGACAAG
*
596661 TTTAAAAACGGGA-ATACAGTATCCCCTC
65 TTTAAAAA-GGCAGATACAGTATCCCCTC
596689 GGAAGGTAGG
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
96 20 0.25
97 57 0.72
98 2 0.03
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.31
Consensus pattern (96 bp):
GAATGGGGTTGGAGTATCTCGATAATAACAATTTAAGCAAAAATATGATTTAAATCTTGACAAGT
TTAAAAAGGCAGATACAGTATCCCCTCAAAA
Found at i:601311 original size:52 final size:51
Alignment explanation
Indices: 601249--601364 Score: 142
Period size: 52 Copynumber: 2.3 Consensus size: 51
601239 CTGCTTATAA
* * * * *
601249 GTATCGATACATTGAAGAATGTATCAATACATTTGGGTTAAAAACCCAGAAT
1 GTATCGATACAATAAAAAATGTATCAATACATTTAGG-TAAAAACCCAAAAT
* * *
601301 GTATCGATACAATAAAAAATGTATCGATATATTTAGGTCAAAACCCAAAAT
1 GTATCGATACAATAAAAAATGTATCAATACATTTAGGTAAAAACCCAAAAT
*
601352 ATATCGATACAAT
1 GTATCGATACAAT
601365 GAGAAATCTA
Statistics
Matches: 55, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
51 24 0.44
52 31 0.56
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.28
Consensus pattern (51 bp):
GTATCGATACAATAAAAAATGTATCAATACATTTAGGTAAAAACCCAAAAT
Found at i:601363 original size:51 final size:52
Alignment explanation
Indices: 601250--601381 Score: 158
Period size: 51 Copynumber: 2.6 Consensus size: 52
601240 TGCTTATAAG
* * * * * *
601250 TATCGATACATTGAAGAATGTATCAATACATTTGGGTTAAAAACCCAGAATG
1 TATCGATACAATGAAAAATGTATCGATACATTTAGGTTAAAAACCCAAAATA
* * *
601302 TATCGATACAATAAAAAATGTATCGATATATTTAGG-TCAAAACCCAAAATA
1 TATCGATACAATGAAAAATGTATCGATACATTTAGGTTAAAAACCCAAAATA
* *
601353 TATCGATACAATGAGAAATCTATCGATAC
1 TATCGATACAATGAAAAATGTATCGATAC
601382 GTTTTCTTTC
Statistics
Matches: 67, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
51 37 0.55
52 30 0.45
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.28
Consensus pattern (52 bp):
TATCGATACAATGAAAAATGTATCGATACATTTAGGTTAAAAACCCAAAATA
Found at i:601472 original size:20 final size:21
Alignment explanation
Indices: 601443--601495 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
601433 ATTGCAGACG
* * *
601443 TGTATCGATAGATTTACTTA-
1 TGTATTGATACATTCACTTAT
601463 TGTATTGATACATTCACTTAT
1 TGTATTGATACATTCACTTAT
*
601484 TATATTGATACA
1 TGTATTGATACA
601496 AATTGTAGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.45
Consensus pattern (21 bp):
TGTATTGATACATTCACTTAT
Found at i:602694 original size:20 final size:21
Alignment explanation
Indices: 602671--602722 Score: 88
Period size: 20 Copynumber: 2.5 Consensus size: 21
602661 TTTCAAGCAA
*
602671 GTATCAATACATTCACTTA-T
1 GTATCGATACATTCACTTATT
602691 GTATCGATACATTCACTTATT
1 GTATCGATACATTCACTTATT
602712 GTATCGATACA
1 GTATCGATACA
602723 AATTGTAGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 18 0.60
21 12 0.40
ACGTcount: A:0.33, C:0.19, G:0.10, T:0.38
Consensus pattern (21 bp):
GTATCGATACATTCACTTATT
Found at i:604400 original size:32 final size:33
Alignment explanation
Indices: 604345--604406 Score: 117
Period size: 32 Copynumber: 1.9 Consensus size: 33
604335 TTCAACGATT
604345 TGTATCGATACATAAAGTGTTGTATCGATATAA
1 TGTATCGATACATAAAGTGTTGTATCGATATAA
604378 TGTATCGATACAT-AAGTGTTGTATCGATA
1 TGTATCGATACATAAAGTGTTGTATCGATA
604407 CATAAGTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 16 0.55
33 13 0.45
ACGTcount: A:0.34, C:0.10, G:0.19, T:0.37
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATATAA
Found at i:604402 original size:19 final size:19
Alignment explanation
Indices: 604344--604427 Score: 108
Period size: 19 Copynumber: 4.7 Consensus size: 19
604334 TTTCAACGAT
604344 TTGTATCGATACATAAAGTG
1 TTGTATCGATACAT-AAGTG
604364 TTGTATCGAT--ATAA---
1 TTGTATCGATACATAAGTG
604378 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
*
604396 TTGTATCGATACATAAGTT
1 TTGTATCGATACATAAGTG
604415 TTGTATCGATACA
1 TTGTATCGATACA
604428 ATATAAGCTA
Statistics
Matches: 57, Mismatches: 1, Indels: 13
0.80 0.01 0.18
Matches are distributed among these distances:
13 9 0.16
15 4 0.07
17 2 0.04
18 2 0.04
19 30 0.53
20 10 0.18
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:604559 original size:52 final size:52
Alignment explanation
Indices: 604503--604631 Score: 240
Period size: 52 Copynumber: 2.5 Consensus size: 52
604493 CATTGATCTT
*
604503 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATTGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
604555 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
604607 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
604632 TCATATTTCG
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 75 1.00
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:613215 original size:20 final size:20
Alignment explanation
Indices: 613168--613240 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
613158 AAAAAGACAT
*
613168 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
613187 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
613208 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
613228 AATGTATCGATAC
1 AATGTATCGATAC
613241 CTCAGGGTAT
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
20 41 0.95
21 2 0.05
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:613236 original size:40 final size:39
Alignment explanation
Indices: 613165--613240 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 39
613155 GGTAAAAAGA
* *
613165 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
613204 CATACATGTATCGATATATTGAAAAATGTATCGATAC
1 CATA-ATGTATCGATACATTGAAAAATATATCGATAC
613241 CTCAGGGTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
39 4 0.12
40 28 0.88
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.34
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:614117 original size:29 final size:29
Alignment explanation
Indices: 613718--614954 Score: 1691
Period size: 28 Copynumber: 43.2 Consensus size: 29
613708 ACAGTGGTGA
* *
613718 TTTGAAAAGGGTTGCCATTGACTTGCATGGGC
1 TTTGAAAAGAG-TGCCACTGACTTG--TGGGC
* * * *
613750 -TTCAAAAGGGTGCCACTAACGTGCGTGGGC
1 TTTGAAAAGAGTGCCACTGAC-T-TGTGGGC
* * *
613780 TTTG-AAAGAATGCCACTAACTCGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
* *
613808 TTTGAAAGGA-TGCCATTGACTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
613836 TTTG-AAAGAGTGCCACTGACTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
* *
613864 TTTGAAAAG-GTACCACTGACTTGCGTGAGC
1 TTTGAAAAGAGTGCCACTGACTT--GTGGGC
613894 TTT-AAAAGGAGTGCCACTGACTTGTGTGGGC
1 TTTGAAAA-GAGTGCCACTGAC-T-TGTGGGC
* *
613925 TTT-AAAAGGGTGCCACTGACTTGCGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
*
613953 TTTG-AAAGAGTGCCACTGAATTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
* * *
613981 TTCGCAATG-GTGCCACTGACTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
* *
614009 TTCG-AAAGGGTGCCACTGACTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
* * *
614037 TCTG-AAAGGGTGCCACTAACTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
*
614065 TTTG-AAAGGGTGCCACTGACTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
* *
614093 TTTGAAAAGAGTGCCACTAATTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
614122 TTTGAAAAGAGTGCCACTGACTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
* *
614151 TTTGAAAGGAGTGCCACTAACTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
*
614180 TTTG-AAAGGGTGCCACTGACTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
*
614208 TTTGAAAAGAGTGCCACTGATTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
614237 TTTGAAAAGAGTGCCACTGACTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
* * *
614266 TTTGAAAGGAGTGCCACTAACTTATGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
* *
614295 TTTGAAAGGA-TGCCACTAACTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
*
614323 TTTGAAAGGAGTGCCACTGACTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
*
614352 TTTG-AAAGGGTGCCACTGACTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
*
614380 TTTG-AAAGGGTGCCACTGACTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
614408 TTTGAAAAGAGTGCCACTGACTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
*
614437 TTTG-AAAGGGTGCCACTGACTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
* *
614465 TTTG-AAAGGGTGCCACTAACTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
*
614493 TTTGAAAAGAGTGCCACTGATTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
614522 TTT-AAAAGAGTGCCACTGACTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
*
614550 TTTGAAAGGAGTGCCACTGACTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
* * *
614579 TTTG-AAAGGGTG-CATTGAGTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
*
614606 TTTG-AAAGGGTGCCACTGACTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
*
614634 TTTGAAAAGAGTGCCACTGATTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
614663 TTTGAAAAGAGTGCCACTGACTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
*
614692 TTTGAAAGGAGTGCCACTGACTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
*
614721 TTTG-AAAGGGTGCCACTGACTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
*
614749 TTTG-AAAGGGTGCCACTGACTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
614777 TTTGAAAAG-GTGCCACTGACTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
614805 TTTGAAAAGAGTGCCACTGACTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
* *
614834 TTT-AAAAGGGTGCCACTAACTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
*
614862 TTTG-AAAGGGTGCCACTGACTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
*
614890 TTTGAAAAGAGTGCCACTGATTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
614919 TTTGAAAAGAGTGCCACTGACTTGTGGGC
1 TTTGAAAAGAGTGCCACTGACTTGTGGGC
614948 TTTGAAA
1 TTTGAAA
614955 GGGATGAACA
Statistics
Matches: 1101, Mismatches: 77, Indels: 57
0.89 0.06 0.05
Matches are distributed among these distances:
27 32 0.03
28 537 0.49
29 447 0.41
30 48 0.04
31 34 0.03
32 2 0.00
33 1 0.00
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.28
Consensus pattern (29 bp):
TTTGAAAAGAGTGCCACTGACTTGTGGGC
Found at i:614220 original size:57 final size:57
Alignment explanation
Indices: 613718--614954 Score: 1699
Period size: 57 Copynumber: 21.6 Consensus size: 57
613708 ACAGTGGTGA
* * * * *
613718 TTTGAAAAGGGTTGCCATTGACTTGCATGGGC-TTCAAAAGGGTGCCACTAACGTGCGTGGGC
1 TTTG-AAAGGG-TGCCACTGACTTG--TGGGCTTTGAAAAGAGTGCCACTGAC-T-TGTGGGC
** * * * *
613780 TTTGAAAGAATGCCACTAACTCGTGGGCTTTGAAAGGA-TGCCATTGACTTGTGGGC
1 TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGC
* * *
613836 TTTGAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAG-GTACCACTGACTTGCGTGAGC
1 TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTT--GTGGGC
* * *
613894 TTTAAAAGGAGTGCCACTGACTTGTGTGGGCTTT-AAAAGGGTGCCACTGACTTGCGGGC
1 TTTGAAAGG-GTGCCACTGAC-T-TGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGC
* * * * *
613953 TTTGAAAGAGTGCCACTGAATTGTGGGCTTCGCAATG-GTGCCACTGACTTGTGGGC
1 TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGC
* * * *
614009 TTCGAAAGGGTGCCACTGACTTGTGGGCTCTG-AAAGGGTGCCACTAACTTGTGGGC
1 TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGC
* *
614065 TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTAATTTGTGGGC
1 TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGC
* * *
614122 TTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTAACTTGTGGGC
1 TTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGC
*
614180 TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGC
1 TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGC
* * * *
614237 TTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTAACTTATGGGC
1 TTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGC
* * *
614295 TTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGC
1 TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGC
*
614352 TTTGAAAGGGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGC
1 TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGC
* *
614408 TTTGAAAAGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGC
1 TTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGC
* *
614465 TTTGAAAGGGTGCCACTAACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGC
1 TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGC
* * *
614522 TTTAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGC
1 TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGC
* * *
614579 TTTGAAAGGGTG-CATTGAGTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGC
1 TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGC
* *
614634 TTTGAAAAGAGTGCCACTGATTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGC
1 TTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGC
*
614692 TTTGAAAGGAGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGACTTGTGGGC
1 TTTGAAAGG-GTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGC
614749 TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAG-GTGCCACTGACTTGTGGGC
1 TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGC
* * *
614805 TTTGAAAAGAGTGCCACTGACTTGTGGGCTTT-AAAAGGGTGCCACTAACTTGTGGGC
1 TTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGC
*
614862 TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGATTTGTGGGC
1 TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGC
*
614919 TTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAA
1 TTTG-AAAGGGTGCCACTGACTTGTGGGCTTTGAAA
614955 GGGATGAACA
Statistics
Matches: 1059, Mismatches: 92, Indels: 52
0.88 0.08 0.04
Matches are distributed among these distances:
55 29 0.03
56 304 0.29
57 432 0.41
58 220 0.21
59 28 0.03
60 16 0.02
61 26 0.02
62 4 0.00
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.28
Consensus pattern (57 bp):
TTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGC
Found at i:616191 original size:12 final size:11
Alignment explanation
Indices: 616175--616250 Score: 68
Period size: 11 Copynumber: 6.9 Consensus size: 11
616165 TAGACCCTTC
616175 TATTTTTTTTG
1 TATTTTTTTTG
*
616186 CTATTTTTTCT-
1 -TATTTTTTTTG
616197 T-TTTTTTTTG
1 TATTTTTTTTG
*
616207 TTTTTTTGTTTTG
1 -TATTTT-TTTTG
616220 T-TTTTTTTTG
1 TATTTTTTTTG
*
616230 TGTTTTTTTTG
1 TATTTTTTTTG
*
616241 TGTTTTTTTT
1 TATTTTTTTT
616251 TGGGTGTAAA
Statistics
Matches: 57, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
9 7 0.12
10 7 0.12
11 24 0.42
12 14 0.25
13 5 0.09
ACGTcount: A:0.03, C:0.03, G:0.11, T:0.84
Consensus pattern (11 bp):
TATTTTTTTTG
Found at i:616193 original size:1 final size:1
Alignment explanation
Indices: 616189--616251 Score: 54
Period size: 1 Copynumber: 63.0 Consensus size: 1
616179 TTTTTTGCTA
* * * * * * * *
616189 TTTTTTCTTTTTTTTTTGTTTTTTTGTTTTGTTTTTTTTTGTGTTTTTTTTGTGTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
616252 GGGTGTAAAG
Statistics
Matches: 46, Mismatches: 16, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 46 1.00
ACGTcount: A:0.00, C:0.02, G:0.11, T:0.87
Consensus pattern (1 bp):
T
Found at i:616196 original size:21 final size:19
Alignment explanation
Indices: 616172--616249 Score: 63
Period size: 17 Copynumber: 4.1 Consensus size: 19
616162 ATCTAGACCC
616172 TTCTATTTTTTTTGCTATTTT
1 TTCTATTTTTTTTG-T-TTTT
*
616193 TTCTTTTTTTTTTGTTTTT
1 TTCTATTTTTTTTGTTTTT
* *
616212 TTGT-TTTGTTTT-TTTTT
1 TTCTATTTTTTTTGTTTTT
* *
616229 GTGT-TTTTTTTGTGTTTTT
1 TTCTATTTTTTT-TGTTTTT
616248 TT
1 TT
616250 TTGGGTGTAA
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
17 14 0.29
18 8 0.16
19 13 0.27
20 1 0.02
21 13 0.27
ACGTcount: A:0.03, C:0.04, G:0.10, T:0.83
Consensus pattern (19 bp):
TTCTATTTTTTTTGTTTTT
Found at i:616203 original size:11 final size:11
Alignment explanation
Indices: 616189--616251 Score: 81
Period size: 12 Copynumber: 5.5 Consensus size: 11
616179 TTTTTTGCTA
*
616189 TTTTTTCTTTT
1 TTTTTTGTTTT
616200 TTTTTTGTTTTT
1 TTTTTTG-TTTT
616212 TTGTTTTGTTTT
1 TT-TTTTGTTTT
616224 TTTTTGTGTTTT
1 TTTTT-TGTTTT
*
616236 TTTTGTGTTTT
1 TTTTTTGTTTT
616247 TTTTT
1 TTTTT
616252 GGGTGTAAAG
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
11 19 0.41
12 22 0.48
13 5 0.11
ACGTcount: A:0.00, C:0.02, G:0.11, T:0.87
Consensus pattern (11 bp):
TTTTTTGTTTT
Found at i:616223 original size:23 final size:23
Alignment explanation
Indices: 616189--616252 Score: 87
Period size: 23 Copynumber: 2.8 Consensus size: 23
616179 TTTTTTGCTA
*
616189 TTTTTTCT-TTTTTTTTTGT-TT
1 TTTTTTGTGTTTTTTTTTGTGTT
*
616210 TTTTGTTTTGTTTTTTTTTGTGTT
1 TTTT-TTGTGTTTTTTTTTGTGTT
616234 TTTTTTGTGTTTTTTTTTG
1 TTTTTTGTGTTTTTTTTTG
616253 GGTGTAAAGG
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.11
22 3 0.08
23 25 0.66
24 6 0.16
ACGTcount: A:0.00, C:0.02, G:0.12, T:0.86
Consensus pattern (23 bp):
TTTTTTGTGTTTTTTTTTGTGTT
Found at i:616251 original size:12 final size:12
Alignment explanation
Indices: 616196--616252 Score: 82
Period size: 11 Copynumber: 4.8 Consensus size: 12
616186 CTATTTTTTC
616196 TTTTTTTTT-TG
1 TTTTTTTTTGTG
*
616207 TTTTTTTGTTTTG
1 TTTTTTT-TTGTG
616220 TTTTTTTTTGTG
1 TTTTTTTTTGTG
616232 -TTTTTTTTGTG
1 TTTTTTTTTGTG
616243 TTTTTTTTTG
1 TTTTTTTTTG
616253 GGTGTAAAGG
Statistics
Matches: 42, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
11 18 0.43
12 15 0.36
13 9 0.21
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (12 bp):
TTTTTTTTTGTG
Found at i:616257 original size:25 final size:24
Alignment explanation
Indices: 616197--616252 Score: 89
Period size: 23 Copynumber: 2.4 Consensus size: 24
616187 TATTTTTTCT
*
616197 TTTTTTTTTGT-TTTTTTGTTTTG
1 TTTTTTTTTGTGTTTTTTGTTGTG
616220 TTTTTTTTTGTGTTTTTT-TTGTG
1 TTTTTTTTTGTGTTTTTTGTTGTG
616243 TTTTTTTTTG
1 TTTTTTTTTG
616253 GGTGTAAAGG
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 25 0.81
24 6 0.19
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (24 bp):
TTTTTTTTTGTGTTTTTTGTTGTG
Found at i:628274 original size:20 final size:20
Alignment explanation
Indices: 628227--628299 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
628217 AAAAAGACAT
*
628227 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
628246 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
628267 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
628287 AATGTATCGATAC
1 AATGTATCGATAC
628300 CTCAGGGTAT
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
20 41 0.95
21 2 0.05
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:628295 original size:40 final size:39
Alignment explanation
Indices: 628224--628299 Score: 107
Period size: 40 Copynumber: 1.9 Consensus size: 39
628214 GGTAAAAAGA
* *
628224 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
628263 CATACATGTATCGATATATTGAAAAATGTATCGATAC
1 CATA-ATGTATCGATACATTGAAAAATATATCGATAC
628300 CTCAGGGTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
39 4 0.12
40 28 0.88
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.34
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:630216 original size:20 final size:20
Alignment explanation
Indices: 630193--630265 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
630183 ACAATTCAAA
630193 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
630213 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
630234 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
630254 GTATCGATACAT
1 GTATCGATACAT
630266 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:630237 original size:21 final size:21
Alignment explanation
Indices: 630211--630286 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
630201 ACATGTTGCA
630211 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
630232 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
630252 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
630273 ATGTATCGATACAT
1 ATGTATCGATACAT
630287 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:630244 original size:41 final size:41
Alignment explanation
Indices: 630193--630286 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
630183 ACAATTCAAA
*
630193 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
630234 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
630275 GTATCGATACAT
1 GTATCGATACAT
630287 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:630343 original size:13 final size:13
Alignment explanation
Indices: 630325--630350 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
630315 TACAGCAAGT
630325 ATGTATCGATACA
1 ATGTATCGATACA
630338 ATGTATCGATACA
1 ATGTATCGATACA
630351 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:636535 original size:20 final size:21
Alignment explanation
Indices: 636456--636534 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 21
636446 AATGTCCAAA
*
636456 ATGTATCGATACATGTTTT-T
1 ATGTATCGATACATCTTTTCT
* *
636476 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACATCT----TTTCT
636501 ATGTATCGATACAT-TTTTCT
1 ATGTATCGATACATCTTTTCT
*
636521 TTGTATCGATACAT
1 ATGTATCGATACAT
636535 TGTATCGATA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
20 31 0.65
24 3 0.06
25 14 0.29
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTCT
Found at i:636539 original size:13 final size:13
Alignment explanation
Indices: 636521--636559 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
636511 ACATTTTTCT
636521 TTGTATCGATACA
1 TTGTATCGATACA
636534 TTGTATCGATACA
1 TTGTATCGATACA
*
636547 CTGTATCGATACA
1 TTGTATCGATACA
636560 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:638405 original size:53 final size:53
Alignment explanation
Indices: 638343--638449 Score: 205
Period size: 53 Copynumber: 2.0 Consensus size: 53
638333 AGTGCAAATA
*
638343 AATTTTGATATGAATCACTTGATTAAGGGGGAGATTTTTTAAATAAACGGGGG
1 AATTTTGATATGAATCACTTGATTAAGGGGGAGATTTTTTAAATAAACGAGGG
638396 AATTTTGATATGAATCACTTGATTAAGGGGGAGATTTTTTAAATAAACGAGGG
1 AATTTTGATATGAATCACTTGATTAAGGGGGAGATTTTTTAAATAAACGAGGG
638449 A
1 A
638450 GATAAAGGAG
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.36, C:0.06, G:0.25, T:0.34
Consensus pattern (53 bp):
AATTTTGATATGAATCACTTGATTAAGGGGGAGATTTTTTAAATAAACGAGGG
Found at i:639077 original size:20 final size:20
Alignment explanation
Indices: 639054--639126 Score: 92
Period size: 20 Copynumber: 3.6 Consensus size: 20
639044 ACAATTCAAA
639054 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
639074 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
639095 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
*
639115 GCATCGATACAT
1 GTATCGATACAT
639127 AAAAAAGATG
Statistics
Matches: 43, Mismatches: 9, Indels: 2
0.80 0.17 0.04
Matches are distributed among these distances:
20 27 0.63
21 16 0.37
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.30
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:639098 original size:21 final size:21
Alignment explanation
Indices: 639072--639147 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
639062 ACATGTTGCA
639072 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
639093 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
* *
639113 ATGCATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
639134 ATGTATCGATACAT
1 ATGTATCGATACAT
639148 TTCTTGGCAG
Statistics
Matches: 43, Mismatches: 11, Indels: 2
0.77 0.20 0.04
Matches are distributed among these distances:
20 14 0.33
21 29 0.67
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.28
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:639105 original size:41 final size:41
Alignment explanation
Indices: 639054--639147 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
639044 ACAATTCAAA
* *
639054 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGCATCGATACATAAAAAAGAT
639095 GTATCGATACATGTTGCAATGCATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGCATCGATACATAAAAAAGAT
639136 GTATCGATACAT
1 GTATCGATACAT
639148 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.29
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGCATCGATACATAAAAAAGAT
Found at i:639204 original size:13 final size:13
Alignment explanation
Indices: 639186--639211 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
639176 TACAGCAAGT
639186 ATGTATCGATACA
1 ATGTATCGATACA
639199 ATGTATCGATACA
1 ATGTATCGATACA
639212 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:650117 original size:9 final size:9
Alignment explanation
Indices: 650103--650147 Score: 65
Period size: 9 Copynumber: 4.9 Consensus size: 9
650093 TCCTCCACAA
650103 AAAAAAAAC
1 AAAAAAAAC
650112 AAAAAAAAC
1 AAAAAAAAC
650121 AAAACAAAA-
1 AAAA-AAAAC
650130 AAACAAAAAC
1 AAA-AAAAAC
650140 AAAAAAAA
1 AAAAAAAA
650148 GGGGTCCGGA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
9 25 0.76
10 8 0.24
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:650124 original size:14 final size:14
Alignment explanation
Indices: 650101--650147 Score: 71
Period size: 13 Copynumber: 3.4 Consensus size: 14
650091 CGTCCTCCAC
650101 AAAAAA-AAAACAA
1 AAAAAACAAAACAA
650114 AAAAAACAAAAC-A
1 AAAAAACAAAACAA
650127 AAAAAACAAAAACAA
1 AAAAAAC-AAAACAA
650142 AAAAAA
1 AAAAAA
650148 GGGGTCCGGA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
13 14 0.45
14 10 0.32
15 7 0.23
ACGTcount: A:0.89, C:0.11, G:0.00, T:0.00
Consensus pattern (14 bp):
AAAAAACAAAACAA
Found at i:652079 original size:29 final size:30
Alignment explanation
Indices: 651528--652098 Score: 341
Period size: 29 Copynumber: 18.9 Consensus size: 30
651518 TCACCCTTCA
*
651528 AAAGTCCACAAGTCAGTGGCATAT-TCTTT--
1 AAAGCCCACAAGTCAGTGGCAT-TCT-TTTCC
* ** *
651557 AAAGCCCACAAGTTAGTGGCACCCTTTTCA
1 AAAGCCCACAAGTCAGTGGCATTCTTTTCC
* * *
651587 AAAGCCCACAAGTCAGTGGCA-ACCTTT-A
1 AAAGCCCACAAGTCAGTGGCATTCTTTTCC
* *
651615 AAAGCTCACAAGTCAGTGGCA-TCTTTTTC
1 AAAGCCCACAAGTCAGTGGCATTCTTTTCC
* *
651644 AAAGCCCACAAGTCAGTGGCATTTTTTTTTTCA
1 AAAGCCCACAAGTCAGTGGCA---TTCTTTTCC
* *
651677 AAAGCCCACAAGTCAGTGGCATTTTTTTTTTCA
1 AAAGCCCACAAGTCAGTGGCA---TTCTTTTCC
* *
651710 AAAGCCCACAAGTCAGTGGCA-AC-CTT-C
1 AAAGCCCACAAGTCAGTGGCATTCTTTTCC
* **
651737 AAAGCCCACAAATCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCATTCTTTTCC
* *
651767 GAAGACCACAAGTCAGTGGCA-TCTTTTCC
1 AAAGCCCACAAGTCAGTGGCATTCTTTTCC
* * * * *
651796 AAAGTCCACAACTCCGTGGCACTCTTTTTCTTTTG
1 AAAGCCCACAAGTCAGTGGCATTC-TTTTC----C
* * * * *
651831 TAAGCTCACAACTCTA-TAGCACTCTTTTTCTTTC
1 AAAGCCCACAAGTC-AGTGGCATTC-TTTTC---C
* ** *
651865 AAAGCCCACAAGTTAGTGGCACCCTTTTCA
1 AAAGCCCACAAGTCAGTGGCATTCTTTTCC
* * *
651895 AAAGCCCACAAGTCAGTGGCA-ACCTTT-A
1 AAAGCCCACAAGTCAGTGGCATTCTTTTCC
*
651923 AAAGCCCACAAGTCAGTGGCA-TCTTTTTC
1 AAAGCCCACAAGTCAGTGGCATTCTTTTCC
* * *
651952 AAAGCCCACAAGTTAGTGGCATTTTTTTTTTCA
1 AAAGCCCACAAGTCAGTGGCA---TTCTTTTCC
* *
651985 AAAGCCCACAAGTCAGTGGCA-AC-CTT-C
1 AAAGCCCACAAGTCAGTGGCATTCTTTTCC
* ** *
652012 AAAGCCCACAAATCAGTGGCACCCTTTTTC
1 AAAGCCCACAAGTCAGTGGCATTCTTTTCC
* *
652042 GAAGCCCACAAGTCGGTGGCA-TCTTTTCC
1 AAAGCCCACAAGTCAGTGGCATTCTTTTCC
* * * *
652071 AAAGTCCACAACTCCGTGGCACTCTTTT
1 AAAGCCCACAAGTCAGTGGCATTCTTTT
652099 TCTTTTGTAA
Statistics
Matches: 443, Mismatches: 71, Indels: 55
0.78 0.12 0.10
Matches are distributed among these distances:
27 40 0.09
28 60 0.14
29 119 0.27
30 86 0.19
31 5 0.01
33 90 0.20
34 19 0.04
35 24 0.05
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.27
Consensus pattern (30 bp):
AAAGCCCACAAGTCAGTGGCATTCTTTTCC
Found at i:652090 original size:119 final size:118
Alignment explanation
Indices: 651524--652103 Score: 333
Period size: 119 Copynumber: 4.8 Consensus size: 118
651514 TTCCTCACCC
* * * * * *
651524 TTCAAAAGTCCACAAGTCAGTGGCATATTCTTT-AAAGCCCACAAGTTAGTGGCACCCTTTTCAA
1 TTCAAAAGCCCACAAATCAGTGGCA-A-CCTTTAAAAGCCCACAAGTCAGTGGCA-TCTTTTCCA
* ** * * * *
651588 AAGCCCACAAGTCAGTGGCA----ACCTTTAAAAGCTCACAAGTCAGTGGCATCTTT
63 AAGCCCACAACTCAGTGGCATTTTTTCTTTCAAAGCCCACAAGTCAGTGGCAAC-CT
* *** *
651641 TTC-AAAGCCCACAAGTCAGTGGCATTTTTTTTTTCAAAAGCCCACAAGTCAGTGGCATTTTTTT
1 TTCAAAAGCCCACAAATCAGTGGCA----ACCTTT-AAAAGCCCACAAGTCAGTGGCA----TCT
* * * * * *
651705 TTTCAAAAGCCCACAAGTCAGTGGCA-----ACCTTCAAAGCCCACAAATCAGTGGCACCCTT
57 TTTCCAAAGCCCACAACTCAGTGGCATTTTTTCTTTCAAAGCCCACAAGTCAGTGGCAACC-T
** * * * * * * * *
651763 TTCCGAAGACCACAAGTCAGTGGCATCTTTTCCAAAGTCCACAACTCCGTGGCACTCTTTTTCTT
1 TTCAAAAGCCCACAAATCAGTGGCAACCTTT-AAAAGCCCACAAGTCAGTGGCA-TC-TTTTC--
** * * * *
651828 TTGTAAGCTCACAACTCTA-TAGCACTCTTTTTCTTTCAAAGCCCACAAGTTAGTGGCACCCTT
61 --CAAAGCCCACAACTC-AGTGGCA-T-TTTTTCTTTCAAAGCCCACAAGTCAGTGGCAACC-T
* *
651891 TTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAG
1 TTCAAAAGCCCACAAATCAGTGGCAACCTTTAAAAGCCCACAAGTCAGTGGCATCTTTTCCAAAG
* * *
651956 CCCACAAGTTAGTGGCATTTTTTTTTTCAAAAGCCCACAAGTCAGTGGCAACC-
66 CCCACAACTCAGTGGCATTTTTTCTTTC-AAAGCCCACAAGTCAGTGGCAACCT
* ** *
652009 TTC-AAAGCCCACAAATCAGTGGCACCCTTTTTCGAAGCCCACAAGTCGGTGGCATCTTTTCCAA
1 TTCAAAAGCCCACAAATCAGTGGCAACC--TTTAAAAGCCCACAAGTCAGTGGCATCTTTTCCAA
* *
652073 AGTCCACAACTCCGTGGCACTCTTTTTCTTT
64 AGCCCACAACTCAGTGGCA-T-TTTTTCTTT
652104 TGTAAGCTCA
Statistics
Matches: 372, Mismatches: 62, Indels: 54
0.76 0.13 0.11
Matches are distributed among these distances:
116 21 0.06
117 30 0.08
118 7 0.02
119 80 0.22
120 45 0.12
121 37 0.10
122 28 0.08
123 46 0.12
125 4 0.01
126 2 0.01
127 18 0.05
128 54 0.15
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (118 bp):
TTCAAAAGCCCACAAATCAGTGGCAACCTTTAAAAGCCCACAAGTCAGTGGCATCTTTTCCAAAG
CCCACAACTCAGTGGCATTTTTTCTTTCAAAGCCCACAAGTCAGTGGCAACCT
Found at i:652117 original size:35 final size:34
Alignment explanation
Indices: 652076--652168 Score: 107
Period size: 35 Copynumber: 2.7 Consensus size: 34
652066 TTTCCAAAGT
*
652076 CCACAACTCCGTGGCACTCTTTTTCTTTTGTAAGC
1 CCACAACTCAGTGGCACTCTTTTTCTTTT-TAAGC
* *
652111 TCACAACTCTA-TAGCACTCTTTTTCTTTTTAAGC
1 CCACAACTC-AGTGGCACTCTTTTTCTTTTTAAGC
* * *
652145 CCACAAGTTAGTGGCACCCTTTTT
1 CCACAACTCAGTGGCACTCTTTTT
652169 AAAAGCCCAC
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
33 1 0.02
34 22 0.46
35 25 0.52
ACGTcount: A:0.20, C:0.29, G:0.12, T:0.39
Consensus pattern (34 bp):
CCACAACTCAGTGGCACTCTTTTTCTTTTTAAGC
Found at i:652175 original size:275 final size:277
Alignment explanation
Indices: 651582--652214 Score: 1076
Period size: 275 Copynumber: 2.3 Consensus size: 277
651572 GTGGCACCCT
* * * * * *
651582 TTTCAAAAGCCCACAAGTCAGTGGCAACC--TTTAAAAGCTCACAAGTCAGTGGCATCTTTTTCA
1 TTTC-AAAGCCCACAAGTTAGTGGCACCCTTTTTAAAAGCCCACAAGTCAGTGGCAAC-CTTTAA
*
651645 AAGCCCACAAGTCAGTGGCATTTTTTTTTTCAAAAGCCCACAAGTCAGTGGCATTTTTTTTTTCA
64 AAGCCCACAAGTCAGTGGCA--TTCTTTTTCAAAAGCCCACAAGTCAGTGGCATTTTTTTTTTCA
651710 AAAGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAATCAGTGGCACCCTTTTCCGAAGACCA
127 AAAGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAATCAGTGGCACCCTTTTCCGAAGACCA
651775 CAAGTCAGTGGCATCTTTTCCAAAGTCCACAACTCCGTGGCACTCTTTTTCTTTTGTAAGCTCAC
192 CAAGTCAGTGGCATCTTTTCCAAAGTCCACAACTCCGTGGCACTCTTTTTCTTTTGTAAGCTCAC
651840 AACTCTATAGCACTCTTTTTC
257 AACTCTATAGCACTCTTTTTC
*
651861 TTTCAAAGCCCACAAGTTAGTGGCACCCTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAA
1 TTTCAAAGCCCACAAGTTAGTGGCACCCTTTTTAAAAGCCCACAAGTCAGTGGCAACCTTTAAAA
*
651926 GCCCACAAGTCAGTGGCA-TCTTTTTC-AAAGCCCACAAGTTAGTGGCATTTTTTTTTTCAAAAG
66 GCCCACAAGTCAGTGGCATTCTTTTTCAAAAGCCCACAAGTCAGTGGCATTTTTTTTTTCAAAAG
* *
651989 CCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAATCAGTGGCACCCTTTTTCGAAGCCCACAAG
131 CCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAATCAGTGGCACCCTTTTCCGAAGACCACAAG
*
652054 TCGGTGGCATCTTTTCCAAAGTCCACAACTCCGTGGCACTCTTTTTCTTTTGTAAGCTCACAACT
196 TCAGTGGCATCTTTTCCAAAGTCCACAACTCCGTGGCACTCTTTTTCTTTTGTAAGCTCACAACT
652119 CTATAGCACTCTTTTTC
261 CTATAGCACTCTTTTTC
**
652136 TTTTTAAGCCCACAAGTTAGTGGCACCCTTTTTAAAAGCCCACAAGTCAGTGGCAACCTTTAAAA
1 TTTCAAAGCCCACAAGTTAGTGGCACCCTTTTTAAAAGCCCACAAGTCAGTGGCAACCTTTAAAA
652201 GCCCACAAGTCAGT
66 GCCCACAAGTCAGT
652215 AGCAACCTTC
Statistics
Matches: 337, Mismatches: 15, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
275 256 0.76
276 7 0.02
278 22 0.07
279 28 0.08
280 24 0.07
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.28
Consensus pattern (277 bp):
TTTCAAAGCCCACAAGTTAGTGGCACCCTTTTTAAAAGCCCACAAGTCAGTGGCAACCTTTAAAA
GCCCACAAGTCAGTGGCATTCTTTTTCAAAAGCCCACAAGTCAGTGGCATTTTTTTTTTCAAAAG
CCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAATCAGTGGCACCCTTTTCCGAAGACCACAAG
TCAGTGGCATCTTTTCCAAAGTCCACAACTCCGTGGCACTCTTTTTCTTTTGTAAGCTCACAACT
CTATAGCACTCTTTTTC
Found at i:652197 original size:28 final size:28
Alignment explanation
Indices: 652141--652230 Score: 126
Period size: 28 Copynumber: 3.1 Consensus size: 28
652131 TTTTCTTTTT
* *
652141 AAGCCCACAAGTTAGTGGCACCCTTTTTAA
1 AAGCCCACAAGTCAGTGGCAACC--TTTAA
652171 AAGCCCACAAGTCAGTGGCAACCTTTAA
1 AAGCCCACAAGTCAGTGGCAACCTTTAA
* *
652199 AAGCCCACAAGTCAGTAGCAACCTTCAA
1 AAGCCCACAAGTCAGTGGCAACCTTTAA
652227 AAGC
1 AAGC
652231 GCATAAGTTG
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
28 35 0.62
30 21 0.38
ACGTcount: A:0.36, C:0.29, G:0.17, T:0.19
Consensus pattern (28 bp):
AAGCCCACAAGTCAGTGGCAACCTTTAA
Found at i:652238 original size:28 final size:28
Alignment explanation
Indices: 652141--652264 Score: 108
Period size: 28 Copynumber: 4.3 Consensus size: 28
652131 TTTTCTTTTT
* * * *
652141 AAGCCCACAAGTTAGTGGCACCCTTTTTAA
1 AAGCCCACAAGTCAGTAGCAACC--TTCAA
* *
652171 AAGCCCACAAGTCAGTGGCAACCTTTAA
1 AAGCCCACAAGTCAGTAGCAACCTTCAA
652199 AAGCCCACAAGTCAGTAGCAACCTTCAA
1 AAGCCCACAAGTCAGTAGCAACCTTCAA
* * *
652227 AAGCGCATAAGT-TG-ATGCAAACCTCTCAA
1 AAGCCCACAAGTCAGTA-GC-AACCT-TCAA
652256 AAGCCCACA
1 AAGCCCACA
652265 CAAGTTGGTG
Statistics
Matches: 82, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
26 1 0.01
27 3 0.04
28 46 0.56
29 11 0.13
30 21 0.26
ACGTcount: A:0.36, C:0.29, G:0.16, T:0.19
Consensus pattern (28 bp):
AAGCCCACAAGTCAGTAGCAACCTTCAA
Found at i:652442 original size:43 final size:43
Alignment explanation
Indices: 652381--652469 Score: 151
Period size: 43 Copynumber: 2.1 Consensus size: 43
652371 CACCTTCATA
*
652381 TTTAAGTCCAATGTAGCTGACCTTGAATCAGCACATTGGCACC
1 TTTAAGTCCAATATAGCTGACCTTGAATCAGCACATTGGCACC
* *
652424 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC
1 TTTAAGTCCAATATAGCTGACCTTGAATCAGCACATTGGCACC
652467 TTT
1 TTT
652470 TCCATCTTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (43 bp):
TTTAAGTCCAATATAGCTGACCTTGAATCAGCACATTGGCACC
Found at i:652464 original size:92 final size:95
Alignment explanation
Indices: 652284--652522 Score: 304
Period size: 92 Copynumber: 2.5 Consensus size: 95
652274 GGCGTCTCCT
* * * * * *
652284 TTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTGCCTTTAAGTCCAATATCGC
1 TTTAAGTCCAATGTAGCTGACCTTGAATCAGCACATT-G-A-CAT-CCTTTAAGTCCAATATAGC
652349 TGGCCTTAAATCAGCATATTGGCACC-TT-CATA
62 TGGCCTTAAATCAGCATATTGGCACCTTTCCATA
*
652381 TTTAAGTCCAATGTAGCTGACCTTGAATCAGCACATTGGCA-CCTTTAAGTCCAATATAGCTGGC
1 TTTAAGTCCAATGTAGCTGACCTTGAATCAGCACATTGACATCCTTTAAGTCCAATATAGCTGGC
* *
652445 CTTGAATCAGCATATTGGCACCTTTTCCATC
66 CTTAAATCAGCATATTGGCACC-TTTCCATA
* **
652476 TTTAAGTTCAATGTAGCTGGTCTTGAATCAGCACATTGACATCCTTT
1 TTTAAGTCCAATGTAGCTGACCTTGAATCAGCACATTGACATCCTTT
652523 TTCTCATCTT
Statistics
Matches: 125, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
92 43 0.34
94 3 0.02
95 40 0.32
96 6 0.05
97 33 0.26
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (95 bp):
TTTAAGTCCAATGTAGCTGACCTTGAATCAGCACATTGACATCCTTTAAGTCCAATATAGCTGGC
CTTAAATCAGCATATTGGCACCTTTCCATA
Found at i:652501 original size:52 final size:55
Alignment explanation
Indices: 652423--652643 Score: 180
Period size: 52 Copynumber: 3.9 Consensus size: 55
652413 ACATTGGCAC
* *
652423 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
* * *
652475 CTTTAAGTTCAATGTAGCTGGTCTTGAATCAGCACATTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
* * * * * *
652530 CTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCACTTTTCTCATTTTC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATT-G-A-C---ATC-CTTTT-TC----TC
652595 AT
54 AT
* * *
652597 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-CCTTT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTT
652644 ATCTTAGAGC
Statistics
Matches: 133, Mismatches: 21, Indels: 23
0.75 0.12 0.13
Matches are distributed among these distances:
52 37 0.28
53 2 0.02
54 5 0.04
55 32 0.24
56 1 0.01
57 1 0.01
58 1 0.01
59 4 0.03
60 1 0.01
61 4 0.03
62 5 0.04
63 2 0.02
64 1 0.01
66 1 0.01
67 36 0.27
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (55 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCAT
Found at i:653426 original size:13 final size:13
Alignment explanation
Indices: 653408--653432 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
653398 CATAAAGTGT
653408 TGTATCGATACAA
1 TGTATCGATACAA
653421 TGTATCGATACA
1 TGTATCGATACA
653433 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:653430 original size:33 final size:33
Alignment explanation
Indices: 653388--653454 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
653378 TTCAACGATT
653388 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
653421 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
653454 T
1 T
653455 TCAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:653513 original size:13 final size:13
Alignment explanation
Indices: 653495--653519 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
653485 ATCACTTAAA
653495 TGTATCGATACAT
1 TGTATCGATACAT
653508 TGTATCGATACA
1 TGTATCGATACA
653520 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:659813 original size:20 final size:20
Alignment explanation
Indices: 659784--659838 Score: 65
Period size: 23 Copynumber: 2.6 Consensus size: 20
659774 GAGATGCTGG
* *
659784 ACATATTAAAAATGCTTGAA
1 ACATAATAAAAATGCATGAA
659804 ACATAATAAAAAAAATGCATGAA
1 ACATAAT---AAAAATGCATGAA
659827 ACATAATAAAAA
1 ACATAATAAAAA
659839 AATGCATGGT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
20 11 0.37
23 19 0.63
ACGTcount: A:0.62, C:0.09, G:0.07, T:0.22
Consensus pattern (20 bp):
ACATAATAAAAATGCATGAA
Found at i:659837 original size:22 final size:23
Alignment explanation
Indices: 659791--659846 Score: 96
Period size: 23 Copynumber: 2.5 Consensus size: 23
659781 TGGACATATT
*
659791 AAAAATGCTTGAAACATAATAAA
1 AAAAATGCATGAAACATAATAAA
659814 AAAAATGCATGAAACATAAT-AA
1 AAAAATGCATGAAACATAATAAA
659836 AAAAATGCATG
1 AAAAATGCATG
659847 GTCAAAGGCT
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 13 0.41
23 19 0.59
ACGTcount: A:0.61, C:0.09, G:0.11, T:0.20
Consensus pattern (23 bp):
AAAAATGCATGAAACATAATAAA
Found at i:660800 original size:17 final size:18
Alignment explanation
Indices: 660756--660809 Score: 74
Period size: 17 Copynumber: 2.9 Consensus size: 18
660746 AAAAAAGACA
660756 AAATGTATCGATACATTG
1 AAATGTATCGATACATTG
660774 AAGCATGTATCGATACATT-
1 AA--ATGTATCGATACATTG
*
660793 CAATGTATCGATACATT
1 AAATGTATCGATACATT
660810 TACGTAAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
17 15 0.45
18 2 0.06
19 1 0.03
20 15 0.45
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (18 bp):
AAATGTATCGATACATTG
Found at i:662095 original size:79 final size:79
Alignment explanation
Indices: 661975--662287 Score: 425
Period size: 79 Copynumber: 3.9 Consensus size: 79
661965 ATATTTCCCG
* * * * **
661975 ATGAGAAATTTAATATTTTGGAGATAGAA--CGGGGTTGGAGTATCCCGTTGAAAATAACGACGT
1 ATGAGAAA-TTAATATTTTAGAAATA-AAGCCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGT
*
662038 TGGAGTATCCCTGATT
64 TGGAGTATCCCCGATT
* * * * * *
662054 ATGAAAAATTGATGA-TTTAGAAATAAAACCGGGGTTGGAGTATCCTCTCGGAGATAACGGGGTT
1 ATGAGAAATTAAT-ATTTTAGAAATAAAGCCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTT
662118 GGAGTATCCCCGATT
65 GGAGTATCCCCGATT
*
662133 ATGAGAAATTAATATTTTAGAAATAAAGCCAGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTG
1 ATGAGAAATTAATATTTTAGAAATAAAGCCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTG
662198 GAGTATCCCCGATT
66 GAGTATCCCCGATT
* *
662212 ATGAGAAATCAATATTTTAGGAATAAAGCCGGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTT
1 ATGAGAAATTAATATTTTAGAAATAAAGCC-GGGGTTGGAGTATCCCCTCGAAAATAACGGGGTT
662277 GGAGTATCCCC
65 GGAGTATCCCC
662288 TATGATTAAT
Statistics
Matches: 207, Mismatches: 22, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
77 2 0.01
78 13 0.06
79 148 0.71
80 44 0.21
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.27
Consensus pattern (79 bp):
ATGAGAAATTAATATTTTAGAAATAAAGCCGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTG
GAGTATCCCCGATT
Found at i:662309 original size:27 final size:27
Alignment explanation
Indices: 662243--662320 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 27
662233 AATAAAGCCG
*
662243 GGGGTTGGAGTATCCCCTCGA-AAATAAC
1 GGGGTTGGAGTATCCCCT--ATGAATAAC
* *
662271 GGGGTTGGAGTATCCCCTATGATTAAT
1 GGGGTTGGAGTATCCCCTATGAATAAC
*
662298 GGGGTTGGAGTATCCCCGATGAA
1 GGGGTTGGAGTATCCCCTATGAA
662321 AAATTGATGT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
26 1 0.02
27 25 0.57
28 18 0.41
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.26
Consensus pattern (27 bp):
GGGGTTGGAGTATCCCCTATGAATAAC
Found at i:664832 original size:13 final size:13
Alignment explanation
Indices: 664810--664867 Score: 53
Period size: 13 Copynumber: 4.0 Consensus size: 13
664800 GGCAGTAGCT
*
664810 TTGTAGCGATACA
1 TTGTATCGATACA
664823 TTGTATCGATACATCA
1 TTGTATCGAT--A-CA
664839 CTTGTGTATCGATACA
1 --T-TGTATCGATACA
664855 TTGTATCGATACA
1 TTGTATCGATACA
664868 ACACTTGTGT
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 21 0.55
14 1 0.03
15 1 0.03
16 4 0.11
17 1 0.03
18 1 0.03
19 9 0.24
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:664848 original size:19 final size:19
Alignment explanation
Indices: 664824--664957 Score: 166
Period size: 19 Copynumber: 7.7 Consensus size: 19
664814 AGCGATACAT
*
664824 TGTATCGATACATCACTTG
1 TGTATCGATACAACACTTG
664843 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTG
664856 TGTATCGATACAACACTTG
1 TGTATCGATACAACACTTG
664875 TGTATCGATACAACACTTG
1 TGTATCGATACAACACTTG
664894 TGTATCGATACAACACTTG
1 TGTATCGATACAACACTTG
664913 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTG
*
664926 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTG
664945 TGTATCGATACAA
1 TGTATCGATACAA
664958 ATCGCTGAAA
Statistics
Matches: 102, Mismatches: 1, Indels: 24
0.80 0.01 0.19
Matches are distributed among these distances:
13 18 0.18
14 2 0.02
16 11 0.11
18 2 0.02
19 69 0.68
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (19 bp):
TGTATCGATACAACACTTG
Found at i:664857 original size:32 final size:32
Alignment explanation
Indices: 664811--664956 Score: 211
Period size: 32 Copynumber: 4.4 Consensus size: 32
664801 GCAGTAGCTT
* *
664811 TGTAGCGATACATTGTATCGATACATCACTTG
1 TGTATCGATACATTGTATCGATACAACACTTG
664843 TGTATCGATACATTGTATCGATACAACACTTG
1 TGTATCGATACATTGTATCGATACAACACTTG
664875 TGTATCGATACAACACTTGTGTATCGATACAACACTTG
1 TGTATCGAT---ACA--T-TGTATCGATACAACACTTG
*
664913 TGTATCGATACATTGTATCGATACAACACTTA
1 TGTATCGATACATTGTATCGATACAACACTTG
664945 TGTATCGATACA
1 TGTATCGATACA
664957 AATCGCTGAA
Statistics
Matches: 105, Mismatches: 3, Indels: 12
0.88 0.03 0.10
Matches are distributed among these distances:
32 69 0.66
33 1 0.01
35 6 0.06
37 1 0.01
38 28 0.27
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.34
Consensus pattern (32 bp):
TGTATCGATACATTGTATCGATACAACACTTG
Found at i:664905 original size:70 final size:70
Alignment explanation
Indices: 664824--664957 Score: 250
Period size: 70 Copynumber: 1.9 Consensus size: 70
664814 AGCGATACAT
* *
664824 TGTATCGATACATCACTTGTGTATCGATACATTGTATCGATACAACACTTGTGTATCGATACAAC
1 TGTATCGATACAACACTTGTGTATCGATACATTGTATCGATACAACACTTATGTATCGATACAAC
664889 ACTTG
66 ACTTG
664894 TGTATCGATACAACACTTGTGTATCGATACATTGTATCGATACAACACTTATGTATCGATACAA
1 TGTATCGATACAACACTTGTGTATCGATACATTGTATCGATACAACACTTATGTATCGATACAA
664958 ATCGCTGAAA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 62 1.00
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.34
Consensus pattern (70 bp):
TGTATCGATACAACACTTGTGTATCGATACATTGTATCGATACAACACTTATGTATCGATACAAC
ACTTG
Found at i:664931 original size:13 final size:13
Alignment explanation
Indices: 664913--664937 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
664903 ACAACACTTG
664913 TGTATCGATACAT
1 TGTATCGATACAT
664926 TGTATCGATACA
1 TGTATCGATACA
664938 ACACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:665020 original size:21 final size:22
Alignment explanation
Indices: 664994--665051 Score: 75
Period size: 21 Copynumber: 2.7 Consensus size: 22
664984 GTTGAGACCT
* *
664994 TGTATCGATACATTTGTA-GAA
1 TGTATCGATACATTTGCACAAA
*
665015 TGTATCGATACA-TTCCACAAA
1 TGTATCGATACATTTGCACAAA
665036 TGTATCGATACATTTG
1 TGTATCGATACATTTG
665052 GATAAAAGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
20 3 0.10
21 26 0.84
22 2 0.06
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.36
Consensus pattern (22 bp):
TGTATCGATACATTTGCACAAA
Found at i:666037 original size:28 final size:28
Alignment explanation
Indices: 665948--666550 Score: 667
Period size: 28 Copynumber: 20.7 Consensus size: 28
665938 CACTAACTTG
*
665948 TGTGGGCTTTGAAAAGAGTTGCCACCGACT
1 TGTGGGCTTTGAAAAG-G-TGCCACTGACT
*
665978 CGTGTGGGCTCTGAAAAAGGTGCCACTGACT
1 --TGTGGGCTTTG-AAAAGGTGCCACTGACT
* * *
666009 TGTGGTCTTTGAAATGGTGCCACTAACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
666037 TGTGGGCTTTG-AAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAAGG-TGCCACTGACT
666065 TGTGGGCTTT-AAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAA-GGTGCCACTGACT
666093 TGTGGGCTTTG-AAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAAGG-TGCCACTGACT
* *
666121 TGTGGGCTTTGAAAAGAGTTGCCACCGGCT
1 TGTGGGCTTTGAAAAG-G-TGCCACTGACT
* *
666151 CGTGGGCTTTGAAAAGATGCCACTGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
*
666179 TGTGGGCTTTGAAAAGAGTTGCCACCGACT
1 TGTGGGCTTTGAAAAG-G-TGCCACTGACT
666209 CATGTGGGCTTTG-AAAGTGTGCCACTGACT
1 --TGTGGGCTTTGAAAAG-GTGCCACTGACT
* * *
666239 TGTGGGCTTTGAAAGGGTGCCATTGAGT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
* *
666267 TGTGGGCTTTGAAAGGGTGTCACTGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
*
666295 TGTGGGCTTT-AAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAAGG-TGCCACTGACT
* *
666323 TGTGGGCTTTGAAAAGAGTTGTCACCGACT
1 TGTGGGCTTTGAAAAG-G-TGCCACTGACT
*
666353 CGTGTGGGCTTCGAAAAGAGTGCCACTGACT
1 --TGTGGGCTTTGAAAAG-GTGCCACTGACT
* *
666384 TGTGGGCTTTGAAAAGAGTTGTCACCGACT
1 TGTGGGCTTTGAAAAG-G-TGCCACTGACT
*
666414 CGTGTGGGCTTTGAAAAGAGTGCCACTAACT
1 --TGTGGGCTTTGAAAAG-GTGCCACTGACT
*
666445 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
* * **
666473 TGTGGGCTTTAAAAAGAGTTACCACTGGTT
1 TGTGGGCTTTGAAAAG-G-TGCCACTGACT
666503 TGTGGGCTTTGAAAAGGTGCCACTGACT
1 TGTGGGCTTTGAAAAGGTGCCACTGACT
*
666531 TGTGGGCTTTGAAAGGGTGC
1 TGTGGGCTTTGAAAAGGTGC
666551 TGCCACGGAG
Statistics
Matches: 493, Mismatches: 55, Indels: 50
0.82 0.09 0.08
Matches are distributed among these distances:
27 11 0.02
28 245 0.50
29 57 0.12
30 86 0.17
31 32 0.06
32 57 0.12
33 5 0.01
ACGTcount: A:0.22, C:0.18, G:0.32, T:0.29
Consensus pattern (28 bp):
TGTGGGCTTTGAAAAGGTGCCACTGACT
Found at i:666583 original size:27 final size:27
Alignment explanation
Indices: 666551--666898 Score: 452
Period size: 27 Copynumber: 12.7 Consensus size: 27
666541 GAAAGGGTGC
666551 TGCCACGGAGTTGTGGACTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGA
666578 TGCCACGGAGTTGTGGACTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGA
666605 TGCCACGGAG-TGATGGACTTTAAAA-GA
1 TGCCACGGAGTTG-TGGAC-TTAAAAGGA
*
666632 GTGCCACGGAGTTGTGGACTTAAAAGGG
1 -TGCCACGGAGTTGTGGACTTAAAAGGA
* **
666660 TGCCACAGAGTTGTAAACTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGA
* *
666687 TGCCACAGAGTGGTGGACTTTAAAAGGA
1 TGCCACGGAGTTGTGGAC-TTAAAAGGA
* *
666715 TGCCACGAAGTGGTGGACTTTAAAAGGA
1 TGCCACGGAGTTGTGGAC-TTAAAAGGA
* *
666743 TACCACGGAGTGGTGGACTTTAAAA-GA
1 TGCCACGGAGTTGTGGAC-TTAAAAGGA
*
666770 TGCC-TGGAGTTGTGGACTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGA
* *
666796 TGCCATGGAGTTGTGGACTTTAAAAGGG
1 TGCCACGGAGTTGTGGAC-TTAAAAGGA
666824 TGCCACGGAGTTGTGGACTTTAAAAGGA
1 TGCCACGGAGTTGTGGAC-TTAAAAGGA
*
666852 TGCCACGGAGTTTTGGACTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGA
* *
666879 TGCCATGGAGTTATGGACTT
1 TGCCACGGAGTTGTGGACTT
666899 TGAAAAGAAA
Statistics
Matches: 291, Mismatches: 21, Indels: 18
0.88 0.06 0.05
Matches are distributed among these distances:
25 6 0.02
26 19 0.07
27 133 0.46
28 131 0.45
29 2 0.01
ACGTcount: A:0.30, C:0.14, G:0.32, T:0.24
Consensus pattern (27 bp):
TGCCACGGAGTTGTGGACTTAAAAGGA
Found at i:666636 original size:28 final size:28
Alignment explanation
Indices: 665992--666914 Score: 525
Period size: 28 Copynumber: 32.5 Consensus size: 28
665982 TGGGCTCTGA
* * *
665992 AAAAGG-TGCCACTGACTTGTGGTCTTT
1 AAAAGGATGCCACGGAGTTGTGGACTTT
* ** * *
666019 GAAATGG-TGCCACTAACTTGTGGGCTTT
1 -AAAAGGATGCCACGGAGTTGTGGACTTT
* * * *
666047 GAAAGGATGCCACTGACTTGTGGGCTTT
1 AAAAGGATGCCACGGAGTTGTGGACTTT
* * * *
666075 AAAAGGGTGCCACTGACTTGTGGGCTTT
1 AAAAGGATGCCACGGAGTTGTGGACTTT
* * * *
666103 GAAAGGATGCCACTGACTTGTGGGCTTT
1 AAAAGGATGCCACGGAGTTGTGGACTTT
* * * *
666131 GAAAAGAGTTGCCACCGG-CTCGTGGGCTTT
1 -AAAAG-GATGCCA-CGGAGTTGTGGACTTT
* * *
666161 GAAAA-GATGCCACTGACTTGTGGGCTTT
1 -AAAAGGATGCCACGGAGTTGTGGACTTT
* * * *
666189 GAAAAGAGTTGCCACCGACTCATGTGGGCTTT
1 -AAAAG-GATGCCACGGAGT--TGTGGACTTT
* * * *
666221 GAAAGTG-TGCCACTGACTTGTGGGCTTT
1 AAAAG-GATGCCACGGAGTTGTGGACTTT
* * ** *
666249 GAAAGGGTGCCATTGAGTTGTGGGCTTT
1 AAAAGGATGCCACGGAGTTGTGGACTTT
* * * * * *
666277 GAAAGGGTGTCACTGACTTGTGGGCTTT
1 AAAAGGATGCCACGGAGTTGTGGACTTT
** * *
666305 AAAAGGATGCCACTAACTTGTGGGCTTT
1 AAAAGGATGCCACGGAGTTGTGGACTTT
* * * * * *
666333 GAAAAGAGTTGTCACCGACTCGTGTGGGCTTCG
1 -AAAAG-GATGCCACGGAGT--TGTGGACTT-T
* * *
666366 AAAA-GAGTGCCACTGACTTGTGGGCTTT
1 AAAAGGA-TGCCACGGAGTTGTGGACTTT
* * * * *
666394 GAAAAGAGTTGTCACCGACTCGTGTGGGCTTT
1 -AAAAG-GATGCCACGGAGT--TGTGGACTTT
** * *
666426 GAAAA-GAGTGCCACTAACTTGTGGGCTTT
1 -AAAAGGA-TGCCACGGAGTTGTGGACTTT
* * * * *
666455 GAAAGGGTGCCACTGACTTGTGGGCTTT
1 AAAAGGATGCCACGGAGTTGTGGACTTT
* * * *
666483 AAAAAGAGTTACCACTGG-TTTGTGGGCTTT
1 -AAAAG-GATGCCAC-GGAGTTGTGGACTTT
* * *
666513 GAAAAGG-TGCCACTGACTTGTGGGCTTT
1 -AAAAGGATGCCACGGAGTTGTGGACTTT
* *
666541 GAAAGGGTGCTGCCACGGAGTTGTGGAC-TT
1 -AAA-AG-GATGCCACGGAGTTGTGGACTTT
666571 AAAAGGATGCCACGGAGTTGTGGAC-TT
1 AAAAGGATGCCACGGAGTTGTGGACTTT
666598 AAAAGGATGCCACGGAG-TGATGGACTTT
1 AAAAGGATGCCACGGAGTTG-TGGACTTT
666626 AAAA-GAGTGCCACGGAGTTGTGGAC-TT
1 AAAAGGA-TGCCACGGAGTTGTGGACTTT
* * **
666653 AAAAGGGTGCCACAGAGTTGTAAAC-TT
1 AAAAGGATGCCACGGAGTTGTGGACTTT
* *
666680 AAAAGGATGCCACAGAGTGGTGGACTTT
1 AAAAGGATGCCACGGAGTTGTGGACTTT
* *
666708 AAAAGGATGCCACGAAGTGGTGGACTTT
1 AAAAGGATGCCACGGAGTTGTGGACTTT
* *
666736 AAAAGGATACCACGGAGTGGTGGACTTT
1 AAAAGGATGCCACGGAGTTGTGGACTTT
*
666764 AAAA-GATGCC-TGGAGTTGTGGAC-TT
1 AAAAGGATGCCACGGAGTTGTGGACTTT
*
666789 AAAAGGATGCCATGGAGTTGTGGACTTT
1 AAAAGGATGCCACGGAGTTGTGGACTTT
*
666817 AAAAGGGTGCCACGGAGTTGTGGACTTT
1 AAAAGGATGCCACGGAGTTGTGGACTTT
*
666845 AAAAGGATGCCACGGAGTTTTGGAC-TT
1 AAAAGGATGCCACGGAGTTGTGGACTTT
* *
666872 AAAAGGATGCCATGGAGTTATGGACTTT
1 AAAAGGATGCCACGGAGTTGTGGACTTT
*
666900 GAAAAGAAATGCCAC
1 -AAAAG-GATGCCAC
666915 TGAATCGTGG
Statistics
Matches: 765, Mismatches: 88, Indels: 82
0.82 0.09 0.09
Matches are distributed among these distances:
25 6 0.01
26 19 0.02
27 140 0.18
28 378 0.49
29 49 0.06
30 94 0.12
31 41 0.05
32 38 0.05
ACGTcount: A:0.26, C:0.16, G:0.31, T:0.27
Consensus pattern (28 bp):
AAAAGGATGCCACGGAGTTGTGGACTTT
Found at i:666680 original size:109 final size:109
Alignment explanation
Indices: 666551--666898 Score: 488
Period size: 109 Copynumber: 3.2 Consensus size: 109
666541 GAAAGGGTGC
666551 TGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGAC-TTAAAAGGATGCCACGGAG
1 TGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAG
*
666615 TGATGGACTTTAAAA-GAGTGCCACGGAGTTGTGGACTTAAAAGGG
66 TG-TGGACTTTAAAAGGA-TGCCACGGAGTTGTGGACTTAAAAGGA
* ** * * *
666660 TGCCACAGAGTTGTAAACTTAAAAGGATGCCACAGAGTGGTGGACTTTAAAAGGATGCCACGAAG
1 TGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAG
* *
666725 TGGTGGACTTTAAAAGGATACCACGGAGTGGTGGACTTTAAAA-GA
66 T-GTGGACTTTAAAAGGATGCCACGGAGTTGTGGAC-TTAAAAGGA
* * *
666770 TGCC-TGGAGTTGTGGACTTAAAAGGATGCCATGGAGTTGTGGACTTTAAAAGGGTGCCACGGAG
1 TGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAG
*
666834 TTGTGGACTTTAAAAGGATGCCACGGAGTTTTGGACTTAAAAGGA
66 -TGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGA
* *
666879 TGCCATGGAGTTATGGACTT
1 TGCCACGGAGTTGTGGACTT
666899 TGAAAAGAAA
Statistics
Matches: 210, Mismatches: 22, Indels: 13
0.86 0.09 0.05
Matches are distributed among these distances:
108 6 0.03
109 128 0.61
110 67 0.32
111 9 0.04
ACGTcount: A:0.30, C:0.14, G:0.32, T:0.24
Consensus pattern (109 bp):
TGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGATGCCACGGAG
TGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGA
Found at i:669548 original size:21 final size:21
Alignment explanation
Indices: 669522--669563 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
669512 AGCTACTGTC
669522 AAGGAAATGTATCGATACATT
1 AAGGAAATGTATCGATACATT
*
669543 AAGGAAGTGTATCGATACATT
1 AAGGAAATGTATCGATACATT
669564 GTATCGATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.40, C:0.10, G:0.21, T:0.29
Consensus pattern (21 bp):
AAGGAAATGTATCGATACATT
Found at i:669568 original size:13 final size:13
Alignment explanation
Indices: 669550--669575 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
669540 ATTAAGGAAG
669550 TGTATCGATACAT
1 TGTATCGATACAT
669563 TGTATCGATACAT
1 TGTATCGATACAT
669576 CGATCTTTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:671678 original size:52 final size:53
Alignment explanation
Indices: 671615--672001 Score: 203
Period size: 52 Copynumber: 7.4 Consensus size: 53
671605 TCAAATGTTC
* *
671615 ATAATCCGGGATACTCGAACCCCGATTTTATTTTC-AAAACACCAATTTTCCT
1 ATAATCGGGGATACTCCAACCCCGATTTTATTTTCGAAAACACCAATTTTCCT
* * * * * *
671667 TTAATCGGGGATACTCGAACTCCGATTTTATTTCCAAAAACACCAATTTTTC-
1 ATAATCGGGGATACTCCAACCCCGATTTTATTTTCGAAAACACCAATTTTCCT
* * * * * * * *
671719 ACAATCGAGGATACTCCAACCTC-A--TTATTTCATCGGGGATACTCCAACCCCGTTACCT
1 ATAATCGGGGATACTCCAACCCCGATTTTATTT--TC--GAAAACACCAA----TTTTCCT
* * * * * ***
671777 CTGA--GGGGATACTCTC-ACCCC-AGCTTTA-TTTCCAAAATATTGA-TTT-CT
1 ATAATCGGGGATACTC-CAACCCCGA-TTTTATTTTCGAAAACACCAATTTTCCT
* * * *
671825 CATAATCGGGGATACTCTAACCCCGGTTTTA-TTTCTAAAACACTAATTTTCC-
1 -ATAATCGGGGATACTCCAACCCCGATTTTATTTTCGAAAACACCAATTTTCCT
* *
671877 ATAATCGGGGATACTCCAACCCCGGTTTTATCTTC-AAAACACCAATTTTCCT
1 ATAATCGGGGATACTCCAACCCCGATTTTATTTTCGAAAACACCAATTTTCCT
* * * ** * * *
671929 TTAATTGGGGATACTCCAACTCTAATTTTATTTCCAAAAACACCAATTTTTC-
1 ATAATCGGGGATACTCCAACCCCGATTTTATTTTCGAAAACACCAATTTTCCT
* *
671981 ACAATCGAGGATACTCCAACC
1 ATAATCGGGGATACTCCAACC
672002 TCGTTATTTC
Statistics
Matches: 252, Mismatches: 59, Indels: 48
0.70 0.16 0.13
Matches are distributed among these distances:
48 2 0.01
49 10 0.04
51 76 0.30
52 97 0.38
53 38 0.15
54 3 0.01
56 16 0.06
57 4 0.02
58 3 0.01
59 3 0.01
ACGTcount: A:0.30, C:0.27, G:0.12, T:0.32
Consensus pattern (53 bp):
ATAATCGGGGATACTCCAACCCCGATTTTATTTTCGAAAACACCAATTTTCCT
Found at i:671839 original size:51 final size:51
Alignment explanation
Indices: 671781--672001 Score: 185
Period size: 51 Copynumber: 4.3 Consensus size: 51
671771 TTACCTCTGA
* * * *
671781 GGGGATACTCTCACCCCAGCTTTATTTCCAAAATATTGA-TTTCTCATAATC
1 GGGGATACTCTAACCCCAGCTTTATTTCCAAAACACTAATTTTC-CATAATC
* * *
671832 GGGGATACTCTAACCCCGGTTTTATTTCTAAAACACTAATTTTCCATAATC
1 GGGGATACTCTAACCCCAGCTTTATTTCCAAAACACTAATTTTCCATAATC
* * * * * *
671883 GGGGATACTCCAACCCCGGTTTTATCTT-CAAAACACCAATTTTCCTTTAATT
1 GGGGATACTCTAACCCCAGCTTTAT-TTCCAAAACACTAATTTTCC-ATAATC
* * * ** * * *
671935 GGGGATACTCCAACTCTAATTTTATTTCCAAAAACACCAATTTTTCACAATC
1 GGGGATACTCTAACCCCAGCTTTATTTCC-AAAACACTAATTTTCCATAATC
* *
671987 GAGGATACTCCAACC
1 GGGGATACTCTAACC
672002 TCGTTATTTC
Statistics
Matches: 143, Mismatches: 22, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
51 80 0.56
52 48 0.34
53 15 0.10
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.33
Consensus pattern (51 bp):
GGGGATACTCTAACCCCAGCTTTATTTCCAAAACACTAATTTTCCATAATC
Found at i:672012 original size:31 final size:28
Alignment explanation
Indices: 671984--672060 Score: 95
Period size: 28 Copynumber: 2.8 Consensus size: 28
671974 ATTTTTCACA
*
671984 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGAGGATACTCCAACCCCGTTATTTC
**
672012 ATCGAGGATACTCCAACCCCGTTACCTC
1 ATCGAGGATACTCCAACCCCGTTATTTC
672040 --CGAGGGGATACTCCAACCCCG
1 ATCGA--GGATACTCCAACCCCG
672061 GCATTATTCC
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
26 3 0.07
28 41 0.93
ACGTcount: A:0.25, C:0.35, G:0.18, T:0.22
Consensus pattern (28 bp):
ATCGAGGATACTCCAACCCCGTTATTTC
Found at i:672079 original size:262 final size:261
Alignment explanation
Indices: 671614--672110 Score: 816
Period size: 262 Copynumber: 1.9 Consensus size: 261
671604 TTCAAATGTT
* *
671614 CATAATCCGGGATACTCGAACCCCGATTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGAT
1 CATAATCCGGGATACTCCAACCCCGATTTTATCTTCAAAACACCAATTTTCCTTTAATCGGGGAT
* *
671679 ACTCGAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCAT
66 ACTCCAACTCCAATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCAT
* * * *
671744 TATTTCATCGGGGATACTCCAACCCCGTTACCTCTGAGGGGATACTCTCACCCCAGCTTTATTTC
131 TATTTCATCGAGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCTCACCCCAGCATTATTCC
*
671809 CAAAATATTGATTTCTCATAATCGGGGATACTCTAACCCCGGTTTTATTTCTAAAACACTAATTT
196 CAAAATATTGATTTCTCATAAT-GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTT
671874 TC
260 TC
* * *
671876 CATAATCGGGGATACTCCAACCCCGGTTTTATCTTCAAAACACCAATTTTCCTTTAATTGGGGAT
1 CATAATCCGGGATACTCCAACCCCGATTTTATCTTCAAAACACCAATTTTCCTTTAATCGGGGAT
* *
671941 ACTCCAACTCTAATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCGT
66 ACTCCAACTCCAATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCAT
*
672006 TATTTCATCGAGGATACTCCAACCCCGTTACCTCCGAGGGGATACTC-CAACCCCGGCATTATTC
131 TATTTCATCGAGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCTC-ACCCCAGCATTATTC
* *
672070 CCAAAATATTGATTTCTCATACTTGGGATACTCCAACCCCG
195 CCAAAATATTGATTTCTCATAATGGGGATACTCCAACCCCG
672111 TTATTTCCAA
Statistics
Matches: 217, Mismatches: 17, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
261 17 0.08
262 200 0.92
ACGTcount: A:0.29, C:0.28, G:0.12, T:0.31
Consensus pattern (261 bp):
CATAATCCGGGATACTCCAACCCCGATTTTATCTTCAAAACACCAATTTTCCTTTAATCGGGGAT
ACTCCAACTCCAATTTTATTTCCAAAAACACCAATTTTTCACAATCGAGGATACTCCAACCTCAT
TATTTCATCGAGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCTCACCCCAGCATTATTCC
CAAAATATTGATTTCTCATAATGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTT
C
Found at i:672214 original size:28 final size:30
Alignment explanation
Indices: 672172--672231 Score: 88
Period size: 28 Copynumber: 2.0 Consensus size: 30
672162 TTTCACAACC
*
672172 AGGGATACTCTAACCCC-G-TTATTTTCAA
1 AGGGATACTCCAACCCCGGCTTATTTTCAA
672200 AGGGATACTCCAACCCCGGCTTTATTTTCAA
1 AGGGATACTCCAACCCCGGC-TTATTTTCAA
672231 A
1 A
672232 ATATTGATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 16 0.57
29 1 0.04
31 11 0.39
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (30 bp):
AGGGATACTCCAACCCCGGCTTATTTTCAA
Found at i:672247 original size:79 final size:79
Alignment explanation
Indices: 672017--672267 Score: 281
Period size: 79 Copynumber: 3.2 Consensus size: 79
672007 ATTTCATCGA
** * * **
672017 GGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCATTATTCCCAAAATATTGA
1 GGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCCCGGCTTTATTTTCAAAATATTGA
* **
672082 TTTCTCA-TACTTG
66 TTTCTCACAACCAG
* ** * **
672095 GGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAATCCCGATTTTATTTTC-TAATCATCA
1 GGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCCCGGCTTTATTTTCAAAAT-ATTG
*
672159 ATTTTTCACAACCAG
65 ATTTCTCACAACCAG
* * *
672174 GGATACTCTAACCCCGTTATTTTCAAAGGGATACTCCAACCCCGGCTTTATTTTCAAAATATTGA
1 GGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCCCGGCTTTATTTTCAAAATATTGA
* *
672239 TTTCTCACAATCGG
66 TTTCTCACAACCAG
*
672253 GGATACTCCAGCCCC
1 GGATACTCCAACCCC
672268 ATTGTTATCT
Statistics
Matches: 140, Mismatches: 30, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
77 3 0.02
78 55 0.39
79 79 0.56
80 3 0.02
ACGTcount: A:0.27, C:0.29, G:0.14, T:0.30
Consensus pattern (79 bp):
GGATACTCCAACCCCGTTATTTCCAAGGGGATACTCCAACCCCGGCTTTATTTTCAAAATATTGA
TTTCTCACAACCAG
Found at i:674489 original size:13 final size:13
Alignment explanation
Indices: 674471--674495 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
674461 CATAAAGTGT
674471 TGTATCGATACAA
1 TGTATCGATACAA
674484 TGTATCGATACA
1 TGTATCGATACA
674496 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:674493 original size:33 final size:33
Alignment explanation
Indices: 674451--674517 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
674441 TTCAACGATT
674451 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
674484 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
674517 T
1 T
674518 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:674576 original size:13 final size:13
Alignment explanation
Indices: 674558--674582 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
674548 ATCACTTAAA
674558 TGTATCGATACAT
1 TGTATCGATACAT
674571 TGTATCGATACA
1 TGTATCGATACA
674583 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:674647 original size:52 final size:52
Alignment explanation
Indices: 674591--674719 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
674581 CACTGATCTT
*
674591 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
**
674643 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
674695 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
674720 TCATATTTCG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:678879 original size:10 final size:10
Alignment explanation
Indices: 678864--678890 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
678854 CGCTAACTAA
678864 GTTTTTGTTT
1 GTTTTTGTTT
678874 GTTTTTGTTT
1 GTTTTTGTTT
678884 GTTTTTG
1 GTTTTTG
678891 CTTGATACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.22, T:0.78
Consensus pattern (10 bp):
GTTTTTGTTT
Found at i:688590 original size:1 final size:1
Alignment explanation
Indices: 688584--688710 Score: 83
Period size: 1 Copynumber: 127.0 Consensus size: 1
688574 GGCGTCCTCC
** * ***** *
688584 AAAAAAAAAAAAAAAAAAAAAAAAAAACGAAAAAAAAGAAAAACCCCCAAAAAAAAAACAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* ** * * * * * * *
688649 ACAAAAGGAAAAAAAAAACAAAAACAAAAACAATAAAAAAAAAACAAACAAAAACAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
688711 GGGGGTCCGG
Statistics
Matches: 99, Mismatches: 27, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 99 1.00
ACGTcount: A:0.85, C:0.11, G:0.03, T:0.01
Consensus pattern (1 bp):
A
Found at i:688660 original size:24 final size:23
Alignment explanation
Indices: 688584--688710 Score: 121
Period size: 23 Copynumber: 5.5 Consensus size: 23
688574 GGCGTCCTCC
* *
688584 AAAAAAAAAAAAAAAAAAAAAAA
1 AAAACAAAAAAAAAAAAAAAACA
* * * *
688607 AAAACGAAAAAAAAGAAAAACCC
1 AAAACAAAAAAAAAAAAAAAACA
** *
688630 CCAA-AAAAAAAACAAAAAAACA
1 AAAACAAAAAAAAAAAAAAAACA
** *
688652 AAAGGAAAAAAAAAACAAAAACA
1 AAAACAAAAAAAAAAAAAAAACA
*
688675 AAAACAATAAAAAAAAAACAAACA
1 AAAACAA-AAAAAAAAAAAAAACA
688699 AAAACAAAAAAA
1 AAAACAAAAAAA
688711 GGGGGTCCGG
Statistics
Matches: 80, Mismatches: 22, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
22 14 0.17
23 45 0.56
24 21 0.26
ACGTcount: A:0.85, C:0.11, G:0.03, T:0.01
Consensus pattern (23 bp):
AAAACAAAAAAAAAAAAAAAACA
Found at i:688663 original size:46 final size:44
Alignment explanation
Indices: 688588--688673 Score: 118
Period size: 44 Copynumber: 1.9 Consensus size: 44
688578 TCCTCCAAAA
*
688588 AAAAAAAAAAAAAAAAAAAAAAACGAAAAAAAAGAAAAACCCCC
1 AAAAAAAAAAAAAAAAAAAAAAACGAAAAAAAACAAAAACCCCC
* * *
688632 AAAAAAAAAACAAAAAAACAAAAGGAAAAAAAAAACAAAAAC
1 AAAAAAAAAAAAAAAAAAAAAAACG--AAAAAAAACAAAAAC
688674 AAAAACAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
44 22 0.61
46 14 0.39
ACGTcount: A:0.84, C:0.12, G:0.05, T:0.00
Consensus pattern (44 bp):
AAAAAAAAAAAAAAAAAAAAAAACGAAAAAAAACAAAAACCCCC
Found at i:690267 original size:33 final size:35
Alignment explanation
Indices: 690181--690715 Score: 487
Period size: 33 Copynumber: 15.9 Consensus size: 35
690171 GCATTTTTTC
* *
690181 TTCAAAGCCCACAACTTCGTGGCAC-C-TTTTCCT
1 TTCAAAGCCCACAACTCCGTGGCACTCTTTTTCTT
*
690214 TT-AAAGCCCACAACTCCGTGGCAC-CTTCTTCTT
1 TTCAAAGCCCACAACTCCGTGGCACTCTTTTTCTT
690247 TTCAAAGCCCA-AACTCCGTGGCACT-TTTTTCATCT
1 TTCAAAGCCCACAACTCCGTGGCACTCTTTTTC-T-T
* *
690282 TT--AAGTCCACAACTCTGTGGCAC-CTTTTTCTT
1 TTCAAAGCCCACAACTCCGTGGCACTCTTTTTCTT
* * *
690314 TTTAAAGCCCACAACTCTGTGGCACACTTTTTCTT
1 TTCAAAGCCCACAACTCCGTGGCACTCTTTTTCTT
* * *
690349 TTTAAAGCCCACAACTCTGTGGCACACTTTTTCTT
1 TTCAAAGCCCACAACTCCGTGGCACTCTTTTTCTT
* * *
690384 TTTAAAGCCCACAATTCTGTGGCACTCTTTTTCCCTT
1 TTCAAAGCCCACAACTCCGTGGCACTCTTTTT--CTT
* *
690421 TTCAAAGCCCACAACTCTGTGGCAC-CTTGTTC-T
1 TTCAAAGCCCACAACTCCGTGGCACTCTTTTTCTT
* *
690454 TTCTAAGCCCACAACTCCGTGGTAC-C-----CTT
1 TTCAAAGCCCACAACTCCGTGGCACTCTTTTTCTT
* * *
690483 TT--AAGTCCACGACTCCGTGGCACTC-TTTTCCT
1 TTCAAAGCCCACAACTCCGTGGCACTCTTTTTCTT
* *
690515 TT-AAAGCCCACAACTACGTGGCACTC-TTTTC-C
1 TTCAAAGCCCACAACTCCGTGGCACTCTTTTTCTT
* *
690547 TTCTAAGCCCACAACTCCGTGGCACTCTTTTTC-C
1 TTCAAAGCCCACAACTCCGTGGCACTCTTTTTCTT
* *
690581 TTCTAAGCCCACAACTCCGTGGCACTCTTTTTC-C
1 TTCAAAGCCCACAACTCCGTGGCACTCTTTTTCTT
*
690615 TTCTAAGCCCACAACTCCGTGGCACTCTTTTTTTTCCTT
1 TTCAAAGCCCACAACTCCGTGGCACTC---TTTTT-CTT
* * *
690654 TTTAAAGCCCACAACTCTGTGGCAC-CTTGTTCTT
1 TTCAAAGCCCACAACTCCGTGGCACTCTTTTTCTT
* * * *
690688 TT-TAAGTCCACAACTTCATGGCA-TCTTT
1 TTCAAAGCCCACAACTCCGTGGCACTCTTT
690716 CACCCTTTCT
Statistics
Matches: 439, Mismatches: 36, Indels: 54
0.83 0.07 0.10
Matches are distributed among these distances:
27 18 0.04
28 2 0.00
29 3 0.01
32 31 0.07
33 124 0.28
34 120 0.27
35 81 0.18
36 5 0.01
37 31 0.07
38 2 0.00
39 22 0.05
ACGTcount: A:0.20, C:0.33, G:0.12, T:0.35
Consensus pattern (35 bp):
TTCAAAGCCCACAACTCCGTGGCACTCTTTTTCTT
Found at i:690302 original size:34 final size:33
Alignment explanation
Indices: 690163--690702 Score: 403
Period size: 34 Copynumber: 16.1 Consensus size: 33
690153 AAAGTCCATG
* **
690163 ACTCAGTGGCA-TTTTTTCT-TCAAAGCCCACA
1 ACTCCGTGGCACTTTTTTCTCTTTAAGCCCACA
* *
690194 ACTTCGTGGCAC-CTTTTC-CTTTAAAGCCCACA
1 ACTCCGTGGCACTTTTTTCTCTTT-AAGCCCACA
* *
690226 ACTCCGTGGCACCTTCTTCT-TTTCAAAGCCCA-A
1 ACTCCGTGGCACTTTTTTCTCTTT--AAGCCCACA
*
690259 ACTCCGTGGCACTTTTTTCATCTTTAAGTCCACA
1 ACTCCGTGGCACTTTTTTC-TCTTTAAGCCCACA
* * *
690293 ACTCTGTGGCACCTTTTTCTTTTTAAAGCCCACA
1 ACTCCGTGGCACTTTTTTCTCTTT-AAGCCCACA
* * *
690327 ACTCTGTGGCACACTTTTTCTTTTTAAAGCCCACA
1 ACTCCGTGGCAC-TTTTTTCTCTTT-AAGCCCACA
* * *
690362 ACTCTGTGGCACACTTTTTCTTTTTAAAGCCCACA
1 ACTCCGTGGCAC-TTTTTTCTCTTT-AAGCCCACA
* * *
690397 ATTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACA
1 ACTCCGTGGCACT-TTTTTCTC-TTT--AAGCCCACA
* * *
690434 ACTCTGTGGCACCTTGTTCT-TTCTAAGCCCACA
1 ACTCCGTGGCACTTTTTTCTCTT-TAAGCCCACA
* * * *
690467 ACTCCGTGGTAC-----CCT-TTTAAGTCCACG
1 ACTCCGTGGCACTTTTTTCTCTTTAAGCCCACA
*
690494 ACTCCGTGGCACTCTTTTC-CTTTAAAGCCCACA
1 ACTCCGTGGCACTTTTTTCTCTTT-AAGCCCACA
* *
690527 ACTACGTGGCACTCTTTTC-CTTCTAAGCCCACA
1 ACTCCGTGGCACTTTTTTCTCTT-TAAGCCCACA
690560 ACTCCGTGGCACTCTTTTTC-CTTCTAAGCCCACA
1 ACTCCGTGGCACT-TTTTTCTCTT-TAAGCCCACA
690594 ACTCCGTGGCACTCTTTTTC-CTTCTAAGCCCACA
1 ACTCCGTGGCACT-TTTTTCTCTT-TAAGCCCACA
*
690628 ACTCCGTGGCACTCTTTTTTTTCCTTTTTAAAGCCCACA
1 ACTCCGTGGCA--C--TTTTTT-CTCTTT-AAGCCCACA
* * * * *
690667 ACTCTGTGGCACCTTGTTCTTTTTAAGTCCACA
1 ACTCCGTGGCACTTTTTTCTCTTTAAGCCCACA
690700 ACT
1 ACT
690703 TCATGGCATC
Statistics
Matches: 438, Mismatches: 40, Indels: 60
0.81 0.07 0.11
Matches are distributed among these distances:
27 19 0.04
28 4 0.01
31 15 0.03
32 24 0.05
33 114 0.26
34 120 0.27
35 82 0.19
36 9 0.02
37 27 0.06
38 3 0.01
39 21 0.05
ACGTcount: A:0.20, C:0.33, G:0.12, T:0.35
Consensus pattern (33 bp):
ACTCCGTGGCACTTTTTTCTCTTTAAGCCCACA
Found at i:690492 original size:27 final size:27
Alignment explanation
Indices: 690416--690511 Score: 75
Period size: 27 Copynumber: 3.3 Consensus size: 27
690406 CACTCTTTTT
*
690416 CCCTTTTCAAAGCCCACAACTCTGTGGCA
1 CCCTTTT--AAGCCCACAACTCCGTGGCA
*
690445 CCTTGTTCTTTCTAAGCCCACAACTCCGTGGTA
1 CC-----CTTT-TAAGCCCACAACTCCGTGGCA
* *
690478 CCCTTTTAAGTCCACGACTCCGTGGCA
1 CCCTTTTAAGCCCACAACTCCGTGGCA
*
690505 CTCTTTT
1 CCCTTTT
690512 CCTTTAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
27 24 0.44
28 4 0.07
29 2 0.04
33 20 0.36
34 4 0.07
35 1 0.02
ACGTcount: A:0.19, C:0.35, G:0.15, T:0.31
Consensus pattern (27 bp):
CCCTTTTAAGCCCACAACTCCGTGGCA
Found at i:690760 original size:33 final size:34
Alignment explanation
Indices: 690717--690802 Score: 131
Period size: 33 Copynumber: 2.6 Consensus size: 34
690707 GGCATCTTTC
690717 ACCCTT-TCTAAAGCCCACACAAGTCGATGGCAA
1 ACCCTTCTCTAAAGCCCACACAAGTCGATGGCAA
*
690750 A-CCTTCTCTAAAGCCCACACAAGTCGGTGGCAA
1 ACCCTTCTCTAAAGCCCACACAAGTCGATGGCAA
**
690783 ACCCTTCTGAAAAGCCCACA
1 ACCCTTCTCTAAAGCCCACA
690803 AGTCAGTGGC
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
32 4 0.08
33 28 0.58
34 16 0.33
ACGTcount: A:0.33, C:0.35, G:0.15, T:0.17
Consensus pattern (34 bp):
ACCCTTCTCTAAAGCCCACACAAGTCGATGGCAA
Found at i:690812 original size:32 final size:32
Alignment explanation
Indices: 690726--690832 Score: 112
Period size: 33 Copynumber: 3.3 Consensus size: 32
690716 CACCCTTTCT
*
690726 AAAGCCCACACAAGTCGATGGCAAACCTTCTCT
1 AAAGCCCACACAAGTCG-TGGCAAACCTTCTCA
*
690759 AAAGCCCACACAAGTCGGTGGCAAACCCTTCTGA
1 AAAGCCCACACAAGTC-GTGGCAAA-CCTTCTCA
* * *
690793 AAAG-CC-CACAAGTCAGTGGCATA-TTTTTCA
1 AAAGCCCACACAAGTC-GTGGCAAACCTTCTCA
690823 AAAGCCCACA
1 AAAGCCCACA
690833 AGTTTAAAAG
Statistics
Matches: 63, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
30 8 0.13
31 2 0.03
32 17 0.27
33 25 0.40
34 11 0.17
ACGTcount: A:0.35, C:0.31, G:0.17, T:0.18
Consensus pattern (32 bp):
AAAGCCCACACAAGTCGTGGCAAACCTTCTCA
Found at i:690917 original size:32 final size:31
Alignment explanation
Indices: 690839--690924 Score: 92
Period size: 27 Copynumber: 2.9 Consensus size: 31
690829 CACAAGTTTA
*
690839 AAAGCCCACAAGTCAGTGGCAA-CC--TT-C
1 AAAGCCCACAAATCAGTGGCAACCCTTTTCC
690866 AAAGCCCACAAATCAGTGGC-ACCCTTTTCC
1 AAAGCCCACAAATCAGTGGCAACCCTTTTCC
**
690896 AAAGCCCACACAAGTTGGTGGCAACCCTT
1 AAAGCCCACA-AA-TCAGTGGCAACCCTT
690925 CTAAGCCCAA
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
26 1 0.02
27 21 0.43
29 2 0.04
30 11 0.22
31 2 0.04
32 6 0.12
33 6 0.12
ACGTcount: A:0.31, C:0.34, G:0.17, T:0.17
Consensus pattern (31 bp):
AAAGCCCACAAATCAGTGGCAACCCTTTTCC
Found at i:690984 original size:49 final size:50
Alignment explanation
Indices: 690921--691125 Score: 189
Period size: 49 Copynumber: 4.0 Consensus size: 50
690911 TGGTGGCAAC
*
690921 CCTTCTAAGCCCAATATAGTTGGCCTTGAATCAGCATATTGGCACC-TTCA
1 CCTT-TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTCA
*
690971 CCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCA
1 CCTTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TTT-CA
** ** * * *
691023 TTTTTAAGGTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCA
1 CCTTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC---TT-TCA
* * * * *
691078 TCTTTAAGCCCAATATCGTTGGCCGTGAATC-GACATATTGGCATCTTT
1 CCTTTAAGCCCAATATAGCTGGCCTTGAATCAG-CATATTGGCACCTTT
691126 ATCACTTTTC
Statistics
Matches: 128, Mismatches: 19, Indels: 16
0.79 0.12 0.10
Matches are distributed among these distances:
49 39 0.30
50 5 0.04
51 4 0.03
52 38 0.30
53 2 0.02
54 2 0.02
55 37 0.29
56 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (50 bp):
CCTTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTCA
Found at i:691051 original size:52 final size:52
Alignment explanation
Indices: 690932--691125 Score: 200
Period size: 52 Copynumber: 3.7 Consensus size: 52
690922 CTTCTAAGCC
* *
690932 CAATATAGTTGGCCTTGAATCAGCATATTGGCACC--TT-CACCTTTAA-GT
1 CAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGGT
*
690980 CCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATTTTTAAGGT
1 -CAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGGT
* * * **
691033 CAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAGCC
1 CAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTTC-CATCTTTAAGGT
* * * *
691088 CAATATCGTTGGCCGTGAATC-GACATATTGGCATCTTT
1 CAATATAGCTGGCCTTGAATCAG-CATATTGGCACCTTT
691126 ATCACTTTTC
Statistics
Matches: 121, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
49 34 0.28
51 2 0.02
52 37 0.31
53 7 0.06
54 7 0.06
55 34 0.28
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.35
Consensus pattern (52 bp):
CAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGGT
Found at i:691930 original size:13 final size:13
Alignment explanation
Indices: 691912--691936 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
691902 CATAAAGTGT
691912 TGTATCGATACAA
1 TGTATCGATACAA
691925 TGTATCGATACA
1 TGTATCGATACA
691937 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:691934 original size:33 final size:33
Alignment explanation
Indices: 691892--691958 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
691882 TTCAACGATT
691892 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
691925 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
691958 T
1 T
691959 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:692017 original size:13 final size:13
Alignment explanation
Indices: 691999--692023 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
691989 ATCACTTAAA
691999 TGTATCGATACAT
1 TGTATCGATACAT
692012 TGTATCGATACA
1 TGTATCGATACA
692024 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:692088 original size:52 final size:52
Alignment explanation
Indices: 692032--692160 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
692022 CACTGATCTT
*
692032 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
**
692084 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTCAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
692136 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
692161 TCATATTTCG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Done.