Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold165
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: 1947055
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.31
Warning! 52078 characters in sequence are not A, C, G, or T
File 4 of 11
Found at i:841194 original size:52 final size:52
Alignment explanation
Indices: 841138--841258 Score: 215
Period size: 52 Copynumber: 2.3 Consensus size: 52
841128 CACTGATCTT
* *
841138 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAAGTTGCCCAGATGTATCGATACACTATAAAA
*
841190 TGTATCGATACATGCAGGCAAAGTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAAGTTGCCCAGATGTATCGATACACTATAAAA
841242 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
841259 ATAAATTTTC
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 66 1.00
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAAGTTGCCCAGATGTATCGATACACTATAAAA
Found at i:847423 original size:19 final size:19
Alignment explanation
Indices: 847379--847421 Score: 63
Period size: 17 Copynumber: 2.3 Consensus size: 19
847369 TCCTCTGCAA
847379 AAAAAAGAGACAAAAAAAC
1 AAAAAAGAGACAAAAAAAC
847398 AAAAAAGA-A-AAAAAAAC
1 AAAAAAGAGACAAAAAAAC
847415 AACAAAA
1 AA-AAAA
847422 AGGGTCCGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.43
18 5 0.22
19 8 0.35
ACGTcount: A:0.84, C:0.09, G:0.07, T:0.00
Consensus pattern (19 bp):
AAAAAAGAGACAAAAAAAC
Found at i:848491 original size:37 final size:37
Alignment explanation
Indices: 848450--848531 Score: 164
Period size: 37 Copynumber: 2.2 Consensus size: 37
848440 CACAATCATA
848450 CATTTGTGACATTCATAACATTTCATTTTGCATGATG
1 CATTTGTGACATTCATAACATTTCATTTTGCATGATG
848487 CATTTGTGACATTCATAACATTTCATTTTGCATGATG
1 CATTTGTGACATTCATAACATTTCATTTTGCATGATG
848524 CATTTGTG
1 CATTTGTG
848532 CTTCATCTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.26, C:0.16, G:0.15, T:0.44
Consensus pattern (37 bp):
CATTTGTGACATTCATAACATTTCATTTTGCATGATG
Found at i:849047 original size:28 final size:27
Alignment explanation
Indices: 848890--849257 Score: 274
Period size: 29 Copynumber: 12.9 Consensus size: 27
848880 GATATTCCTC
*
848890 ACCTTCCAAAGCCTACAAGTCAGTGGCA
1 ACCTT-CAAAGCCCACAAGTCAGTGGCA
* * *
848918 TCTTTTCAAAAGCCCATAAGTCAGTGGCA
1 AC-CTTC-AAAGCCCACAAGTCAGTGGCA
* * *
848947 CCCCTTTTCAAAGTCCACACGTCAGTGGCA
1 -ACC--TTCAAAGCCCACAAGTCAGTGGCA
*
848977 ACCTTTAGAAG-CCA-ATAGATC-GATGGCA
1 ACCTTCA-AAGCCCACA-AG-TCAG-TGGCA
* *
849005 CCCCTTTCAAAGCCCACAAGTTAGTGGCA
1 -ACC-TTCAAAGCCCACAAGTCAGTGGCA
* *
849034 ACCTTCAGAAGCCCATAAGTTAGTGGCA
1 ACCTTCA-AAGCCCACAAGTCAGTGGCA
*
849062 ACCTTCAGAAGCCCACAAGTCGGTGGCA
1 ACCTTCA-AAGCCCACAAGTCAGTGGCA
* *
849090 CCCCATTCAAAGCCCACAAGCCAGTGGCA
1 -ACC-TTCAAAGCCCACAAGTCAGTGGCA
*
849119 ACCTTCAAAAGCCCACAAGTTAGTGGCA
1 ACCTTC-AAAGCCCACAAGTCAGTGGCA
* *
849147 TCTTTTCAAAAGCCCACAAGTCAGTGGCA
1 AC-CTTC-AAAGCCCACAAGTCAGTGGCA
* * * * *
849176 TCTTTTCAAAAGCCCATAAGTTAATGGCA
1 AC-CTTC-AAAGCCCACAAGTCAGTGGCA
* *
849205 CCCTTTTCAAAGTCCACAAGTCAGTGGCA
1 ACC--TTCAAAGCCCACAAGTCAGTGGCA
849234 ACCTTCAGAAGCCCACAAGTCAGT
1 ACCTTCA-AAGCCCACAAGTCAGT
849258 AGCACCCCTT
Statistics
Matches: 278, Mismatches: 40, Indels: 44
0.77 0.11 0.12
Matches are distributed among these distances:
26 1 0.00
27 19 0.07
28 95 0.34
29 124 0.45
30 35 0.13
31 4 0.01
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.21
Consensus pattern (27 bp):
ACCTTCAAAGCCCACAAGTCAGTGGCA
Found at i:849061 original size:57 final size:55
Alignment explanation
Indices: 848890--849257 Score: 280
Period size: 57 Copynumber: 6.4 Consensus size: 55
848880 GATATTCCTC
* * * * *
848890 ACCTTCCAAAGCCTACAAGTCAGTGGCATCTTTTCAAAAGCCCATAAGTCAGTGGCA
1 ACCTTTCAAAGCCCACAAGTCAGTGGCAAC-CTTC-AAAGCCCACAAGTCAGTGGCA
* * * *
848947 CCCCTTTTCAAAGTCCACACGTCAGTGGCAACCTTTAGAAG-CCA-ATAGATC-GATGGCA
1 -ACC-TTTCAAAGCCCACAAGTCAGTGGCAACCTTCA-AAGCCCACA-AG-TCAG-TGGCA
* * * *
849005 CCCCTTTCAAAGCCCACAAGTTAGTGGCAACCTTCAGAAGCCCATAAGTTAGTGGCA
1 -ACCTTTCAAAGCCCACAAGTCAGTGGCAACCTTCA-AAGCCCACAAGTCAGTGGCA
* * *
849062 ACC-TTCAGAAGCCCACAAGTCGGTGGCACCCCATTCAAAGCCCACAAGCCAGTGGCA
1 ACCTTTCA-AAGCCCACAAGTCAGTGGCA-ACC-TTCAAAGCCCACAAGTCAGTGGCA
* * *
849119 ACC-TTCAAAAGCCCACAAGTTAGTGGCATCTTTTCAAAAGCCCACAAGTCAGTGGCA
1 ACCTTTC-AAAGCCCACAAGTCAGTGGCAAC-CTTC-AAAGCCCACAAGTCAGTGGCA
* * * * * * *
849176 TCTTTTCAAAAGCCCATAAGTTAATGGCACCCTTTTCAAAGTCCACAAGTCAGTGGCA
1 ACCTTTC-AAAGCCCACAAGTCAGTGGCAACC--TTCAAAGCCCACAAGTCAGTGGCA
849234 ACC-TTCAGAAGCCCACAAGTCAGT
1 ACCTTTCA-AAGCCCACAAGTCAGT
849258 AGCACCCCTT
Statistics
Matches: 255, Mismatches: 37, Indels: 37
0.78 0.11 0.11
Matches are distributed among these distances:
55 4 0.02
56 26 0.10
57 125 0.49
58 74 0.29
59 26 0.10
ACGTcount: A:0.31, C:0.30, G:0.18, T:0.21
Consensus pattern (55 bp):
ACCTTTCAAAGCCCACAAGTCAGTGGCAACCTTCAAAGCCCACAAGTCAGTGGCA
Found at i:849273 original size:57 final size:57
Alignment explanation
Indices: 849013--849274 Score: 305
Period size: 57 Copynumber: 4.6 Consensus size: 57
849003 CACCCCTTTC
* * *
849013 AAAGCCCACAAGTTAGTGGCA-ACC-TTCAGAAGCCCATAAGTTAGTGGCAACCTTCA
1 AAAGCCCACAAGTTAGTGGCACCCCTTTCA-AAGCCCACAAGTCAGTGGCAACCTTCA
* ** * *
849069 GAAGCCCACAAGTCGGTGGCACCCCATTCAAAGCCCACAAGCCAGTGGCAACCTTCA
1 AAAGCCCACAAGTTAGTGGCACCCCTTTCAAAGCCCACAAGTCAGTGGCAACCTTCA
* * * *
849126 AAAGCCCACAAGTTAGTGGCA-TCTTTTCAAAAGCCCACAAGTCAGTGGCATCTTTTCA
1 AAAGCCCACAAGTTAGTGGCACCCCTTTC-AAAGCCCACAAGTCAGTGGCAAC-CTTCA
* * * *
849184 AAAGCCCATAAGTTAATGGCACCCTTTTCAAAGTCCACAAGTCAGTGGCAACCTTCA
1 AAAGCCCACAAGTTAGTGGCACCCCTTTCAAAGCCCACAAGTCAGTGGCAACCTTCA
* * *
849241 GAAGCCCACAAGTCAGTAGCACCCCTTTCAAAGC
1 AAAGCCCACAAGTTAGTGGCACCCCTTTCAAAGC
849275 ATCTTCACCT
Statistics
Matches: 172, Mismatches: 29, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
56 22 0.13
57 96 0.56
58 48 0.28
59 6 0.03
ACGTcount: A:0.32, C:0.30, G:0.18, T:0.19
Consensus pattern (57 bp):
AAAGCCCACAAGTTAGTGGCACCCCTTTCAAAGCCCACAAGTCAGTGGCAACCTTCA
Found at i:849344 original size:49 final size:49
Alignment explanation
Indices: 849272--849422 Score: 194
Period size: 49 Copynumber: 3.0 Consensus size: 49
849262 CCCCTTTCAA
*
849272 AGCATCTTCACCTCTAAACCCAATGTTGCTGGCCTTGAATCAGCACATT
1 AGCATCTTCACCTCTAAACCCAATGTCGCTGGCCTTGAATCAGCACATT
849321 AGCATCTTCACCTCTAAACCCAATGTCGCTGGCCTTGAATCAGCACATT
1 AGCATCTTCACCTCTAAACCCAATGTCGCTGGCCTTGAATCAGCACATT
* * * ** * * *
849370 GGCATTCTTCTCATCTTCAAGTCTAATGTCGCTGACCGTGAATCAGCACATT
1 AGCA-TCTTCACCTC-T-AAACCCAATGTCGCTGGCCTTGAATCAGCACATT
849422 A
1 A
849423 ACATTCTTTA
Statistics
Matches: 89, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
49 51 0.57
50 8 0.09
51 1 0.01
52 29 0.33
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.29
Consensus pattern (49 bp):
AGCATCTTCACCTCTAAACCCAATGTCGCTGGCCTTGAATCAGCACATT
Found at i:849418 original size:52 final size:51
Alignment explanation
Indices: 849293--849477 Score: 153
Period size: 52 Copynumber: 3.6 Consensus size: 51
849283 CTCTAAACCC
* * * * * * *
849293 AATGTTGCTGGCCTTGAATCAGCACATTAGCA-TCTTCACCTC-T-AAACCC
1 AATGTCGCTGACC-TGAATCAGCACATTGGCATTCTTTACATCTTCAAGCCT
* *
849342 AATGTCGCTGGCCTTGAATCAGCACATTGGCATTCTTCT-CATCTTCAAGTCT
1 AATGTCGCTGACC-TGAATCAGCACATTGGCATTCTT-TACATCTTCAAGCCT
** *
849394 AATGTCGCTGACCGTGAATCAGCACATTAACATTCTTTACATCTTTAAGCCT
1 AATGTCGCTGACC-TGAATCAGCACATTGGCATTCTTTACATCTTCAAGCCT
* * * *
849446 AATATCACTGGTCCTGAATCAGCATATTGGCA
1 AATGTCGCT-GACCTGAATCAGCACATTGGCA
849478 CCTTTATCAC
Statistics
Matches: 111, Mismatches: 19, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
49 30 0.27
50 7 0.06
51 2 0.02
52 69 0.62
53 3 0.03
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.31
Consensus pattern (51 bp):
AATGTCGCTGACCTGAATCAGCACATTGGCATTCTTTACATCTTCAAGCCT
Found at i:850098 original size:19 final size:21
Alignment explanation
Indices: 850052--850105 Score: 76
Period size: 19 Copynumber: 2.7 Consensus size: 21
850042 TTTCAACAAT
850052 TTGTATCGATACAAATAGTAA
1 TTGTATCGATACAAATAGTAA
* *
850073 ATGTATCGATACATA-AGT-A
1 TTGTATCGATACAAATAGTAA
850092 TTGTATCGATACAA
1 TTGTATCGATACAA
850106 TGTATCAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
19 13 0.45
20 3 0.10
21 13 0.45
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (21 bp):
TTGTATCGATACAAATAGTAA
Found at i:850183 original size:13 final size:13
Alignment explanation
Indices: 850165--850191 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
850155 CATTATTCAA
850165 TATATCGATACAT
1 TATATCGATACAT
850178 TATATCGATACAT
1 TATATCGATACAT
850191 T
1 T
850192 GATCTTTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (13 bp):
TATATCGATACAT
Found at i:854693 original size:18 final size:18
Alignment explanation
Indices: 854670--854704 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
854660 TTTGTTTTCG
* *
854670 TAAAATTTAATTTTATAT
1 TAAAATTAAAATTTATAT
854688 TAAAATTAAAATTTATA
1 TAAAATTAAAATTTATA
854705 AATTTAAACT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TAAAATTAAAATTTATAT
Found at i:856750 original size:13 final size:13
Alignment explanation
Indices: 856734--856776 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
856724 TCAAAAATCT
856734 TTTAAATTTTTTA
1 TTTAAATTTTTTA
* *
856747 TTTAAATAATTGTA
1 TTTAAAT-TTTTTA
*
856761 TCTAAATTTTTTA
1 TTTAAATTTTTTA
856774 TTT
1 TTT
856777 TTTACAGTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
13 13 0.57
14 10 0.43
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (13 bp):
TTTAAATTTTTTA
Found at i:861181 original size:2 final size:2
Alignment explanation
Indices: 861168--861211 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
861158 AATTATGTGC
*
861168 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
861210 AT
1 AT
861212 TAAATACCCT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:863963 original size:20 final size:20
Alignment explanation
Indices: 863940--864012 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
863930 ACAATTCAAA
863940 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
863960 GTATCGATACATGAAAAAAAT
1 GTATCGATACATG-TTGCAAT
863981 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
864001 GTATCGATACAT
1 GTATCGATACAT
864013 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:0.37, C:0.14, G:0.18, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:863983 original size:21 final size:21
Alignment explanation
Indices: 863957--864033 Score: 95
Period size: 21 Copynumber: 3.7 Consensus size: 21
863947 TACATGTTGC
863957 AATGTATCGATACATGAAAAA
1 AATGTATCGATACATGAAAAA
****
863978 AATGTATCGATACATG-TTGC
1 AATGTATCGATACATGAAAAA
863998 AATGTATCGATACAT-AAAAA
1 AATGTATCGATACATGAAAAA
864018 AGATGTATCGATACAT
1 A-ATGTATCGATACAT
864034 TTCTTGGCAG
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.29
Consensus pattern (21 bp):
AATGTATCGATACATGAAAAA
Found at i:863991 original size:41 final size:41
Alignment explanation
Indices: 863940--864033 Score: 172
Period size: 41 Copynumber: 2.3 Consensus size: 41
863930 ACAATTCAAA
863940 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAA-AT
1 GTATCGATACATGTTGCAATGTATCGATACAT-AAAAAAGAT
863981 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
864022 GTATCGATACAT
1 GTATCGATACAT
864034 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
40 6 0.12
41 46 0.88
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:864090 original size:13 final size:13
Alignment explanation
Indices: 864072--864097 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
864062 TACAGCAAGT
864072 ATGTATCGATACA
1 ATGTATCGATACA
864085 ATGTATCGATACA
1 ATGTATCGATACA
864098 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:868179 original size:15 final size:15
Alignment explanation
Indices: 868159--868189 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
868149 TAAAAATGTC
*
868159 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
868174 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
868189 C
1 C
868190 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:870280 original size:13 final size:13
Alignment explanation
Indices: 870262--870300 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
870252 ACATTTTTCC
870262 TTGTATCGATACA
1 TTGTATCGATACA
870275 TTGTATCGATACA
1 TTGTATCGATACA
*
870288 CTGTATCGATACA
1 TTGTATCGATACA
870301 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:872128 original size:31 final size:31
Alignment explanation
Indices: 872093--872153 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
872083 AATTTTGATA
872093 TGAATTACTTGATTAAGGGGGAGATTTTTTT
1 TGAATTACTTGATTAAGGGGGAGATTTTTTT
872124 TGAATTACTTGATTAAGGGGGAGATTTTTT
1 TGAATTACTTGATTAAGGGGGAGATTTTTT
872154 AATAAACGGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.26, C:0.03, G:0.26, T:0.44
Consensus pattern (31 bp):
TGAATTACTTGATTAAGGGGGAGATTTTTTT
Found at i:872797 original size:20 final size:20
Alignment explanation
Indices: 872774--872846 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
872764 ACAATTCAAA
872774 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
872794 GTATCGATACATGAAAAAAAT
1 GTATCGATACATG-TTGCAAT
872815 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
872835 GTATCGATACAT
1 GTATCGATACAT
872847 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:0.37, C:0.14, G:0.18, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:872817 original size:21 final size:21
Alignment explanation
Indices: 872791--872867 Score: 95
Period size: 21 Copynumber: 3.7 Consensus size: 21
872781 TACATGTTGC
872791 AATGTATCGATACATGAAAAA
1 AATGTATCGATACATGAAAAA
****
872812 AATGTATCGATACATG-TTGC
1 AATGTATCGATACATGAAAAA
872832 AATGTATCGATACAT-AAAAA
1 AATGTATCGATACATGAAAAA
872852 AGATGTATCGATACAT
1 A-ATGTATCGATACAT
872868 TTCTTGGCAG
Statistics
Matches: 46, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
20 16 0.35
21 30 0.65
ACGTcount: A:0.44, C:0.12, G:0.16, T:0.29
Consensus pattern (21 bp):
AATGTATCGATACATGAAAAA
Found at i:872825 original size:41 final size:41
Alignment explanation
Indices: 872774--872867 Score: 172
Period size: 41 Copynumber: 2.3 Consensus size: 41
872764 ACAATTCAAA
872774 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAA-AT
1 GTATCGATACATGTTGCAATGTATCGATACAT-AAAAAAGAT
872815 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
872856 GTATCGATACAT
1 GTATCGATACAT
872868 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
40 6 0.12
41 46 0.88
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:872924 original size:13 final size:13
Alignment explanation
Indices: 872906--872931 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
872896 TACAGCAAGT
872906 ATGTATCGATACA
1 ATGTATCGATACA
872919 ATGTATCGATACA
1 ATGTATCGATACA
872932 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:875900 original size:28 final size:28
Alignment explanation
Indices: 875867--875935 Score: 102
Period size: 28 Copynumber: 2.5 Consensus size: 28
875857 ATAAAAACGA
875867 GGTTGGAGTATCCCCTTGGAAATAATAG
1 GGTTGGAGTATCCCCTTGGAAATAATAG
* ** *
875895 GGTTGGAGTATCCCCTTGGAGATGGTGG
1 GGTTGGAGTATCCCCTTGGAAATAATAG
875923 GGTTGGAGTATCC
1 GGTTGGAGTATCC
875936 AGAGATGAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.20, C:0.14, G:0.36, T:0.29
Consensus pattern (28 bp):
GGTTGGAGTATCCCCTTGGAAATAATAG
Found at i:878431 original size:52 final size:52
Alignment explanation
Indices: 878388--878516 Score: 163
Period size: 51 Copynumber: 2.5 Consensus size: 52
878378 AATAGTCTGT
* * *
878388 ATGTATCAGTACATTGAAGAATGTATC-ATATATTTAAGTCAAAAACCTAGA
1 ATGTATCAATACAATGAAGAATGTATCGATAGATTTAAGTCAAAAACCTAGA
* * *
878439 ATGTATCAATGCAATGAATAATGTATCGATAGATTTAGGTC-AAAACCTAGA
1 ATGTATCAATACAATGAAGAATGTATCGATAGATTTAAGTCAAAAACCTAGA
* * *
878490 ATGTATCGATATAATGAAAAATGTATC
1 ATGTATCAATACAATGAAGAATGTATC
878517 AAGACATTTT
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
51 56 0.84
52 11 0.16
ACGTcount: A:0.43, C:0.11, G:0.16, T:0.31
Consensus pattern (52 bp):
ATGTATCAATACAATGAAGAATGTATCGATAGATTTAAGTCAAAAACCTAGA
Found at i:878610 original size:20 final size:21
Alignment explanation
Indices: 878581--878633 Score: 90
Period size: 20 Copynumber: 2.6 Consensus size: 21
878571 ATTTCAGACA
878581 TGTATCGATACATTCACTTAT
1 TGTATCGATACATTCACTTAT
*
878602 T-TATTGATACATTCACTTAT
1 TGTATCGATACATTCACTTAT
878622 TGTATCGATACA
1 TGTATCGATACA
878634 AATTGTAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 19 0.66
21 10 0.34
ACGTcount: A:0.30, C:0.17, G:0.09, T:0.43
Consensus pattern (21 bp):
TGTATCGATACATTCACTTAT
Found at i:887350 original size:49 final size:49
Alignment explanation
Indices: 887278--887374 Score: 151
Period size: 49 Copynumber: 2.0 Consensus size: 49
887268 TGGCAGAAGC
*
887278 CCAATATCGTTGGCCTTAGATCAGCACATTGGCACCTTCATCTTTAAGT
1 CCAATATCGTTGGCCTTAGATCAGCACATTAGCACCTTCATCTTTAAGT
* *
887327 CCAATGTCGTTGGCCTT-GAATCAGCACATTAGCACCTTTATCTTTAAG
1 CCAATATCGTTGGCCTTAG-ATCAGCACATTAGCACCTTCATCTTTAAG
887375 ATCGATATCG
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
48 1 0.02
49 43 0.98
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (49 bp):
CCAATATCGTTGGCCTTAGATCAGCACATTAGCACCTTCATCTTTAAGT
Found at i:887392 original size:49 final size:49
Alignment explanation
Indices: 887278--887396 Score: 134
Period size: 49 Copynumber: 2.4 Consensus size: 49
887268 TGGCAGAAGC
* * *
887278 CCAATATCGTTGGCCTT-AGATCAGCACATTGGCACCTTCATCTTTAAGT
1 CCAATATCGCTAGCCTTGA-ATCAGCACATTAGCACCTTCATCTTTAAGT
* * * *
887327 CCAATGTCGTTGGCCTTGAATCAGCACATTAGCACCTTTATCTTTAAGAT
1 CCAATATCGCTAGCCTTGAATCAGCACATTAGCACCTTCATCTTTAAG-T
*
887377 -CGATATCGCTAGCCTTGAAT
1 CCAATATCGCTAGCCTTGAAT
887397 TAGCTTATTG
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
49 59 0.97
50 2 0.03
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (49 bp):
CCAATATCGCTAGCCTTGAATCAGCACATTAGCACCTTCATCTTTAAGT
Found at i:887558 original size:52 final size:52
Alignment explanation
Indices: 887446--887588 Score: 171
Period size: 52 Copynumber: 2.8 Consensus size: 52
887436 GCTGGCCATT
887446 AATCAGCACATTGGCATTCTTCTCATCTTCAAGCCTAATGTCGCTAGCCTTG
1 AATCAGCACATTGGCATTCTTCTCATCTTCAAGCCTAATGTCGCTAGCCTTG
* * * * *
887498 ATTAAGCACATTGGCATTCTTCTCATCTTCAAGTCTAATGTCG-TTGGCTGTG
1 AATCAGCACATTGGCATTCTTCTCATCTTCAAGCCTAATGTCGCTAGCCT-TG
* * * * * *
887550 AATCAGCACGTTGTCTTTTTTCTTATCTTTAAGCCTAAT
1 AATCAGCACATTGGCATTCTTCTCATCTTCAAGCCTAAT
887589 ATTGGCACCT
Statistics
Matches: 76, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
51 4 0.05
52 72 0.95
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.38
Consensus pattern (52 bp):
AATCAGCACATTGGCATTCTTCTCATCTTCAAGCCTAATGTCGCTAGCCTTG
Found at i:890584 original size:20 final size:20
Alignment explanation
Indices: 890561--890633 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
890551 ACAATTCAAA
890561 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
890581 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
890602 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
890622 GTATCGATACAT
1 GTATCGATACAT
890634 AAAAAAGTTG
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:890605 original size:21 final size:21
Alignment explanation
Indices: 890579--890654 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
890569 ACATGTTGCA
890579 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
890600 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
890620 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
*
890641 TTGTATCGATACAT
1 ATGTATCGATACAT
890655 TTCTTGGCAG
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:890612 original size:41 final size:41
Alignment explanation
Indices: 890561--890654 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
890551 ACAATTCAAA
*
890561 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
*
890602 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGTT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
890643 GTATCGATACAT
1 GTATCGATACAT
890655 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:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:890710 original size:13 final size:13
Alignment explanation
Indices: 890692--890718 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
890682 ATACAGCAAG
890692 AATGTATCGATAC
1 AATGTATCGATAC
890705 AATGTATCGATAC
1 AATGTATCGATAC
890718 A
1 A
890719 CAAAAAATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:890716 original size:32 final size:33
Alignment explanation
Indices: 890675--890738 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
890665 TAGCCAAACT
*
890675 TGTATCGATACAGC-AAGAA-TGTATCGATACAA
1 TGTATCGATACA-CAAAAAATTGTATCGATACAA
890707 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
890739 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 1 0.03
32 16 0.55
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.27
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:894801 original size:15 final size:15
Alignment explanation
Indices: 894781--894811 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
894771 TAAAAATGTC
*
894781 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
894796 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
894811 C
1 C
894812 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:896904 original size:13 final size:13
Alignment explanation
Indices: 896886--896924 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
896876 ATATTTTTCT
896886 TTGTATCGATACA
1 TTGTATCGATACA
896899 TTGTATCGATACA
1 TTGTATCGATACA
*
896912 CTGTATCGATACA
1 TTGTATCGATACA
896925 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:899390 original size:20 final size:20
Alignment explanation
Indices: 899367--899439 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
899357 ACAATTCAAA
899367 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
899387 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
899408 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
899428 GTATCGATACAT
1 GTATCGATACAT
899440 AAAAAAGTTG
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:899411 original size:21 final size:21
Alignment explanation
Indices: 899385--899460 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
899375 ACATGTTGCA
899385 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
899406 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
899426 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
*
899447 TTGTATCGATACAT
1 ATGTATCGATACAT
899461 TTCTTGGCAG
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:899418 original size:41 final size:41
Alignment explanation
Indices: 899367--899460 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
899357 ACAATTCAAA
*
899367 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
*
899408 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGTT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
899449 GTATCGATACAT
1 GTATCGATACAT
899461 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:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:899516 original size:13 final size:13
Alignment explanation
Indices: 899498--899524 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
899488 ATACAGCAAG
899498 AATGTATCGATAC
1 AATGTATCGATAC
899511 AATGTATCGATAC
1 AATGTATCGATAC
899524 A
1 A
899525 CAAAAAATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:899522 original size:32 final size:33
Alignment explanation
Indices: 899481--899544 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 33
899471 TAGCCAAACT
*
899481 TGTATCGATACAGC-AAGAA-TGTATCGATACAA
1 TGTATCGATACA-CAAAAAATTGTATCGATACAA
899513 TGTATCGATACACAAAAAATTGTATCGATACA
1 TGTATCGATACACAAAAAATTGTATCGATACA
899545 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 1 0.03
32 16 0.55
33 12 0.41
ACGTcount: A:0.42, C:0.16, G:0.16, T:0.27
Consensus pattern (33 bp):
TGTATCGATACACAAAAAATTGTATCGATACAA
Found at i:901759 original size:66 final size:66
Alignment explanation
Indices: 901598--901785 Score: 198
Period size: 66 Copynumber: 2.8 Consensus size: 66
901588 GAAAGGTTGG
* * * * * ** * *
901598 CTAGGGTGGAACCTAAGTCGAAA-AGAAGTTGACCAAGGTGAAATCAATAAAGTCAACTAAAAGT
1 CTAGGATGAAACCTAAGTCAAAATAG-GGTTGACAAAGGCAAAACCAATAAAGTCAACTAAAAAT
901662 GA
65 GA
* * * * * *
901664 TTAGGGTGAAACCTAAGTCAAAATGGGGTTGACTAGGGCAAAACTAATAAAGTCAACTAAAAATG
1 CTAGGATGAAACCTAAGTCAAAATAGGGTTGACAAAGGCAAAACCAATAAAGTCAACTAAAAATG
901729 A
66 A
* * *
901730 CTAGGATGAAACCTAAGTCGAAATAGGGTTGACAAAGGCAAGACCAAGAAAGTCAA
1 CTAGGATGAAACCTAAGTCAAAATAGGGTTGACAAAGGCAAAACCAATAAAGTCAA
901786 TAAGTTTAAG
Statistics
Matches: 100, Mismatches: 21, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
66 99 0.99
67 1 0.01
ACGTcount: A:0.44, C:0.14, G:0.24, T:0.18
Consensus pattern (66 bp):
CTAGGATGAAACCTAAGTCAAAATAGGGTTGACAAAGGCAAAACCAATAAAGTCAACTAAAAATG
A
Found at i:902116 original size:66 final size:66
Alignment explanation
Indices: 901988--902129 Score: 178
Period size: 66 Copynumber: 2.2 Consensus size: 66
901978 CAAAATCGAC
* * *** *
901988 AAGTCAACAAAAGGTATCTAGGGTGAAACCAAAGTTGAAAAGAAGTTAACCAAGGTAGAACCAAT
1 AAGTCAACAAAAAGTAACTAGGGTGAAACCAAAGTTGAAAAGAAGTTAACCAAAACAAAACCAAT
902053 A
66 A
* * *
902054 AAGTCAA-ATAAAAGTAACTAGGGTGAAACCTAAGTTGAAAAGAGGTTAACTAAAACAAAACCAA
1 AAGTCAACA-AAAAGTAACTAGGGTGAAACCAAAGTTGAAAAGAAGTTAACCAAAACAAAACCAA
902118 TA
65 TA
*
902120 AAATCAACAA
1 AAGTCAACAA
902130 GTTTAAAGGG
Statistics
Matches: 64, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
65 1 0.02
66 62 0.97
67 1 0.02
ACGTcount: A:0.52, C:0.13, G:0.18, T:0.17
Consensus pattern (66 bp):
AAGTCAACAAAAAGTAACTAGGGTGAAACCAAAGTTGAAAAGAAGTTAACCAAAACAAAACCAAT
A
Found at i:902224 original size:172 final size:169
Alignment explanation
Indices: 901666--902232 Score: 522
Period size: 172 Copynumber: 3.3 Consensus size: 169
901656 AAAAGTGATT
* ** * * * *
901666 AGGGTGAAACCTAAGTC-AAAATGGGGTTGACTAGGGCAAAACTAATAAAGTCAACTAAAAATGA
1 AGGGTAAAACCTAAGTCGAAAA-GAAGTTAACTAGGG-TAAACCAATAAAGTCAACTAAAAGTGA
* * * * *
901730 CTAGGATGAAACCTAAGTCGAAATAG-GGTTGAC-AAAGGCAAGACCAAGAAAGTCAATAAGTTT
64 CTAGGGTGAAACCTAAGTAGAAA-AGAGGTTGACTAAA-GCAAAACCAATAAAGTCAACAAGTTT
* * * * *
901793 AAGGGATTGATCGGGATGATATTGATGAGTCAACAAAGGTTAACC
127 AAGGGATTGATCGAGACGAAATCGATAAGTCAACAAAGG-T-ACC
* * *
901838 AGGGCAAAACCTAAGTCGAAAAGAAGTTAACTAGGGCAAAACCAATAAAGTTAACT--AAGTGAC
1 AGGGTAAAACCTAAGTCGAAAAGAAGTTAACTAGGG-TAAACCAATAAAGTCAACTAAAAGTGAC
* **
901901 TAGGGTGAAACCTAAGTCAGAAAAGA--TTGACTAAGGGGAAACCAATAAAGTCAACAAGTTTAA
65 TAGGGTGAAACCTAAGT-AGAAAAGAGGTTGACTAAAGCAAAACCAATAAAGTCAACAAGTTTAA
* * * * *
901964 GGGCTTAATCGAGACAAAATCGACAAGTCAACAAAAGGTATCT
129 GGGATTGATCGAGACGAAATCGATAAGTCAAC-AAAGGTA-CC
* * * * * * *
902007 AGGGTGAAACCAAAGTTGAAAAGAAGTTAACCAAGGTAGAACCAATAAAGTCAAATAAAAGTAAC
1 AGGGTAAAACCTAAGTCGAAAAGAAGTTAACTAGGGTA-AACCAATAAAGTCAACTAAAAGTGAC
* * * *
902072 TAGGGTGAAACCTAAGTTGAAAAGAGGTTAACTAAAACAAAACCAATAAAATCAACAAGTTTAAA
65 TAGGGTGAAACCTAAGTAGAAAAGAGGTTGACTAAAGCAAAACCAATAAAGTCAACAAGTTT-AA
*
902137 GGG-TTGA-CTGAGACGAAATCAATAAGTCAACAAATGGTGACC
129 GGGATTGATC-GAGACGAAATCGATAAGTCAACAAA-GGT-ACC
* * * * *
902179 AGGGTAAAACTTAAGTCGAAAAGAAATTGATTAGGGTGAAACCAATAACGTCAA
1 AGGGTAAAACCTAAGTCGAAAAGAAGTTAACTAGGGT-AAACCAATAAAGTCAA
902233 TAAGTTTAAA
Statistics
Matches: 321, Mismatches: 58, Indels: 32
0.78 0.14 0.08
Matches are distributed among these distances:
168 2 0.01
169 98 0.31
170 38 0.12
171 31 0.10
172 141 0.44
173 11 0.03
ACGTcount: A:0.46, C:0.14, G:0.22, T:0.19
Consensus pattern (169 bp):
AGGGTAAAACCTAAGTCGAAAAGAAGTTAACTAGGGTAAACCAATAAAGTCAACTAAAAGTGACT
AGGGTGAAACCTAAGTAGAAAAGAGGTTGACTAAAGCAAAACCAATAAAGTCAACAAGTTTAAGG
GATTGATCGAGACGAAATCGATAAGTCAACAAAGGTACC
Found at i:902341 original size:40 final size:40
Alignment explanation
Indices: 902291--902600 Score: 226
Period size: 40 Copynumber: 7.8 Consensus size: 40
902281 GACTATGATG
* * *
902291 AAATTGACAAGTCAACAAGTTAAAGAGGTTGACCGAGACA
1 AAATCGACAAGTCAACAAGTTAAAAAGGTTGACCGAGATA
* * *
902331 AAACCAACAAGTCAACAAGTTAAAAAGGTTGACCGAGATG
1 AAATCGACAAGTCAACAAGTTAAAAAGGTTGACCGAGATA
* * * * * * * *
902371 AAATCAACAGGTTAATAAGTTAAAAAAGTTGACCAAAATG
1 AAATCGACAAGTCAACAAGTTAAAAAGGTTGACCGAGATA
* * * * * * *
902411 AAACCGATAAGTTAACAAGTTAAATAGATTGATC-AGGATT
1 AAATCGACAAGTCAACAAGTTAAAAAGGTTGACCGA-GATA
* * *
902451 AAATCGATAAGTCAACAAGTTAAAAAGGTTGATCAAGATA
1 AAATCGACAAGTCAACAAGTTAAAAAGGTTGACCGAGATA
* * * * * * * * *
902491 ACATTGATAAGTCAATACGTTAAAGAGGTTCACCGGGACA
1 AAATCGACAAGTCAACAAGTTAAAAAGGTTGACCGAGATA
* * * * * *
902531 AAATTGACAAGTTAACAAGTTAAAGATGTTGACCGGGATG
1 AAATCGACAAGTCAACAAGTTAAAAAGGTTGACCGAGATA
* * *
902571 AAACCAATAAGTCAACAAGTTAAAAAGGTT
1 AAATCGACAAGTCAACAAGTTAAAAAGGTT
902601 AAGTAACATT
Statistics
Matches: 213, Mismatches: 55, Indels: 4
0.78 0.20 0.01
Matches are distributed among these distances:
39 1 0.00
40 211 0.99
41 1 0.00
ACGTcount: A:0.46, C:0.13, G:0.19, T:0.22
Consensus pattern (40 bp):
AAATCGACAAGTCAACAAGTTAAAAAGGTTGACCGAGATA
Found at i:902428 original size:80 final size:80
Alignment explanation
Indices: 902291--902600 Score: 255
Period size: 80 Copynumber: 3.9 Consensus size: 80
902281 GACTATGATG
* * * * * ** * *
902291 AAATTGACAAGTCAACAAGTTAAAGAGGTTGACCGAGACAAAACCAACAAGTCAACAAGTTAAAA
1 AAATCGACAAGTTAACAAGTTAAAAAAGTTGACCAAGATGAAACCGATAAGTCAACAAGTTAAAA
*
902356 AGGTTGACCGAGATG
66 AGGTTGACCGAGATA
* * * * * *
902371 AAATCAACAGGTTAATAAGTTAAAAAAGTTGACCAAAATGAAACCGATAAGTTAACAAGTTAAAT
1 AAATCGACAAGTTAACAAGTTAAAAAAGTTGACCAAGATGAAACCGATAAGTCAACAAGTTAAAA
* * *
902436 AGATTGATC-AGGATT
66 AGGTTGACCGA-GATA
* * * * ** * *
902451 AAATCGATAAGTCAACAAGTTAAAAAGGTTGATCAAGAT-AACATTGATAAGTCAATACGTTAAA
1 AAATCGACAAGTTAACAAGTTAAAAAAGTTGACCAAGATGAA-ACCGATAAGTCAACAAGTTAAA
* * * *
902515 GAGGTTCACCGGGACA
65 AAGGTTGACCGAGATA
* * * ** *
902531 AAATTGACAAGTTAACAAGTTAAAGATGTTGACCGGGATGAAACCAATAAGTCAACAAGTTAAAA
1 AAATCGACAAGTTAACAAGTTAAAAAAGTTGACCAAGATGAAACCGATAAGTCAACAAGTTAAAA
902596 AGGTT
66 AGGTT
902601 AAGTAACATT
Statistics
Matches: 174, Mismatches: 52, Indels: 8
0.74 0.22 0.03
Matches are distributed among these distances:
79 3 0.02
80 169 0.97
81 2 0.01
ACGTcount: A:0.46, C:0.13, G:0.19, T:0.22
Consensus pattern (80 bp):
AAATCGACAAGTTAACAAGTTAAAAAAGTTGACCAAGATGAAACCGATAAGTCAACAAGTTAAAA
AGGTTGACCGAGATA
Found at i:902513 original size:120 final size:120
Alignment explanation
Indices: 902296--902600 Score: 292
Period size: 120 Copynumber: 2.5 Consensus size: 120
902286 TGATGAAATT
* * ** *
902296 GACAAGTCAACAAGTTAAAGAGGTTGACC-GAGACAAAACCAACAAGTCAACAAGTTAAAAAGGT
1 GACAAGTTAACAAGTTAAAGATGTTGACCAG-GATGAAACCAATAAGTCAACAAGTTAAAAAGGT
* * * * **
902360 TGACCGAGATGAAATCAACAGGTTAATAAGTTAAAAAAGTTGACCAAAATGAAACC
65 TGACCAAGATGAAATCAACAAGTCAATAAGTTAAAAAAGTTCACCAAAACAAAACC
* * * * * *
902416 GATAAGTTAACAAGTTAAATA-GATTGATCAGGATTAAATCGATAAGTCAACAAGTTAAAAAGGT
1 GACAAGTTAACAAGTTAAAGATG-TTGACCAGGATGAAACCAATAAGTCAACAAGTTAAAAAGGT
* ** * * * * *** **
902480 TGATCAAGAT-AACATTGATAAGTCAATACGTTAAAGAGGTTCACCGGGACAAAATT
65 TGACCAAGATGAA-ATCAACAAGTCAATAAGTTAAAAAAGTTCACCAAAACAAAACC
*
902536 GACAAGTTAACAAGTTAAAGATGTTGACCGGGATGAAACCAATAAGTCAACAAGTTAAAAAGGTT
1 GACAAGTTAACAAGTTAAAGATGTTGACCAGGATGAAACCAATAAGTCAACAAGTTAAAAAGGTT
902601 AAGTAACATT
Statistics
Matches: 147, Mismatches: 34, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
119 3 0.02
120 142 0.97
121 2 0.01
ACGTcount: A:0.46, C:0.13, G:0.20, T:0.21
Consensus pattern (120 bp):
GACAAGTTAACAAGTTAAAGATGTTGACCAGGATGAAACCAATAAGTCAACAAGTTAAAAAGGTT
GACCAAGATGAAATCAACAAGTCAATAAGTTAAAAAAGTTCACCAAAACAAAACC
Found at i:906411 original size:40 final size:40
Alignment explanation
Indices: 906317--906630 Score: 254
Period size: 40 Copynumber: 7.8 Consensus size: 40
906307 GGGTGACTAT
**
906317 GATGAAATTGACAAGTCAACAAGTTAAAGTGGTTGATCGA
1 GATGAAATTGACAAGTCAACAAGTTAAAAAGGTTGATCGA
** *** *
906357 GACAAAACCAACAAGTCAACAAGTTAAAAAGGTTGACCGA
1 GATGAAATTGACAAGTCAACAAGTTAAAAAGGTTGATCGA
* * * *
906397 GATGAAATTGACAAGTCAATAAGTTAAAAAAGTTGACCAA
1 GATGAAATTGACAAGTCAACAAGTTAAAAAGGTTGATCGA
* * * * * *
906437 AATGAAACTGATAAGTTAACAAGTTAAACAGATTGATC-A
1 GATGAAATTGACAAGTCAACAAGTTAAAAAGGTTGATCGA
* * * **
906476 GGATGAAATCGATATGTCAACAAGTTAAAAAGGTTGATTAA
1 -GATGAAATTGACAAGTCAACAAGTTAAAAAGGTTGATCGA
* * * * * *
906517 GAT-AACATTGATAAGTCAATACGTTAAAGAGGTTCATCGG
1 GATGAA-ATTGACAAGTCAACAAGTTAAAAAGGTTGATCGA
** * * *
906557 GACAAAATTGACAAGTTAACAAGTTAAAGAGGTTGACCGA
1 GATGAAATTGACAAGTCAACAAGTTAAAAAGGTTGATCGA
*** *
906597 GATGAAACCAATAAGTCAACAAGTTAAAAAGGTT
1 GATGAAATTGACAAGTCAACAAGTTAAAAAGGTT
906631 AAGTAACATT
Statistics
Matches: 212, Mismatches: 58, Indels: 8
0.76 0.21 0.03
Matches are distributed among these distances:
39 3 0.01
40 206 0.97
41 3 0.01
ACGTcount: A:0.46, C:0.12, G:0.20, T:0.23
Consensus pattern (40 bp):
GATGAAATTGACAAGTCAACAAGTTAAAAAGGTTGATCGA
Found at i:906458 original size:80 final size:80
Alignment explanation
Indices: 906317--906630 Score: 290
Period size: 80 Copynumber: 3.9 Consensus size: 80
906307 GGGTGACTAT
** * * ** ** *
906317 GATGAAATTGACAAGTCAACAAGTTAAAGTGGTTGATCGAGACAAAACCAACAAGTCAACAAGTT
1 GATGAAATTGACAAGTCAACAAGTTAAAAAGGTTGACCAAGATGAAACTGATAAGTCAACAAGTT
*
906382 AAAAAGGTTGACCGA
66 AAAAAGGTTGATCGA
* * * *
906397 GATGAAATTGACAAGTCAATAAGTTAAAAAAGTTGACCAAAATGAAACTGATAAGTTAACAAGTT
1 GATGAAATTGACAAGTCAACAAGTTAAAAAGGTTGACCAAGATGAAACTGATAAGTCAACAAGTT
* *
906462 AAACAGATTGATC-A
66 AAAAAGGTTGATCGA
* * * ** * * *
906476 GGATGAAATCGATATGTCAACAAGTTAAAAAGGTTGATTAAGAT-AACATTGATAAGTCAATACG
1 -GATGAAATTGACAAGTCAACAAGTTAAAAAGGTTGACCAAGATGAA-ACTGATAAGTCAACAAG
* * *
906540 TTAAAGAGGTTCATCGG
64 TTAAAAAGGTTGATCGA
** * * * **
906557 GACAAAATTGACAAGTTAACAAGTTAAAGAGGTTGACCGAGATGAAACCAATAAGTCAACAAGTT
1 GATGAAATTGACAAGTCAACAAGTTAAAAAGGTTGACCAAGATGAAACTGATAAGTCAACAAGTT
906622 AAAAAGGTT
66 AAAAAGGTT
906631 AAGTAACATT
Statistics
Matches: 182, Mismatches: 48, Indels: 8
0.76 0.20 0.03
Matches are distributed among these distances:
79 3 0.02
80 177 0.97
81 2 0.01
ACGTcount: A:0.46, C:0.12, G:0.20, T:0.23
Consensus pattern (80 bp):
GATGAAATTGACAAGTCAACAAGTTAAAAAGGTTGACCAAGATGAAACTGATAAGTCAACAAGTT
AAAAAGGTTGATCGA
Found at i:906499 original size:120 final size:120
Alignment explanation
Indices: 906325--906630 Score: 303
Period size: 120 Copynumber: 2.5 Consensus size: 120
906315 ATGATGAAAT
* ** * ** *
906325 TGACAAGTCAACAAGTTAAAGTGGTTGATC-GAGACAAAACCAACAAGTCAACAAGTTAAAAAGG
1 TGACAAGTTAACAAGTTAAACAGATTGA-CAGAGATGAAACCAATAAGTCAACAAGTTAAAAAGG
* * **
906389 TTGACCGAGATGAA-ATTGACAAGTCAATAAGTTAAAAAAGTTGACCAAAATGAAAC
65 TTGACCAAGAT-AACATTGACAAGTCAATAAGTTAAAAAAGTTCACCAAAACAAAAC
* * * *
906445 TGATAAGTTAACAAGTTAAACAGATTGATCAG-GATGAAATCGATATGTCAACAAGTTAAAAAGG
1 TGACAAGTTAACAAGTTAAACAGATTGA-CAGAGATGAAACCAATAAGTCAACAAGTTAAAAAGG
** * * * * * *** *
906509 TTGATTAAGATAACATTGATAAGTCAATACGTTAAAGAGGTTCATCGGGACAAAAT
65 TTGACCAAGATAACATTGACAAGTCAATAAGTTAAAAAAGTTCACCAAAACAAAAC
* * *
906565 TGACAAGTTAACAAGTTAAAGAGGTTGACCGAGATGAAACCAATAAGTCAACAAGTTAAAAAGGT
1 TGACAAGTTAACAAGTTAAACAGATTGACAGAGATGAAACCAATAAGTCAACAAGTTAAAAAGGT
906630 T
66 T
906631 AAGTAACATT
Statistics
Matches: 150, Mismatches: 33, Indels: 6
0.79 0.17 0.03
Matches are distributed among these distances:
119 4 0.03
120 145 0.97
121 1 0.01
ACGTcount: A:0.45, C:0.12, G:0.20, T:0.23
Consensus pattern (120 bp):
TGACAAGTTAACAAGTTAAACAGATTGACAGAGATGAAACCAATAAGTCAACAAGTTAAAAAGGT
TGACCAAGATAACATTGACAAGTCAATAAGTTAAAAAAGTTCACCAAAACAAAAC
Found at i:913424 original size:12 final size:12
Alignment explanation
Indices: 913390--913428 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
913380 CATGAAATAA
913390 CCAACCCCAA-G
1 CCAACCCCAATG
* *
913401 CTAACCCAAATG
1 CCAACCCCAATG
913413 CCAACCCCAATG
1 CCAACCCCAATG
913425 CCAA
1 CCAA
913429 TAATGCACCA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
11 8 0.35
12 15 0.65
ACGTcount: A:0.38, C:0.46, G:0.08, T:0.08
Consensus pattern (12 bp):
CCAACCCCAATG
Found at i:915904 original size:32 final size:32
Alignment explanation
Indices: 915867--916019 Score: 124
Period size: 32 Copynumber: 4.9 Consensus size: 32
915857 ATCTCTTCTC
*
915867 TAAGTCTACAACTTCGTGGCACCTTTTTCTTT
1 TAAGTCCACAACTTCGTGGCACCTTTTTCTTT
915899 TAAGTCCACAAC-TCTGTGGCACC-----CTTT
1 TAAGTCCACAACTTC-GTGGCACCTTTTTCTTT
*
915926 TAAGTCCACAAC-TC-TAAGGCAACTTTTTCTTT
1 TAAGTCCACAACTTCGT--GGCACCTTTTTCTTT
* * * * *
915958 TCAAAGCCCACAACTCCTTGGCATCTTTTCCTTT
1 T--AAGTCCACAACTTCGTGGCACCTTTTTCTTT
* *
915992 TAAGTCCACAACTCCGTGGTACCTTTTT
1 TAAGTCCACAACTTCGTGGCACCTTTTT
916020 AAGTCCACAA
Statistics
Matches: 98, Mismatches: 11, Indels: 24
0.74 0.08 0.18
Matches are distributed among these distances:
25 1 0.01
27 23 0.23
31 2 0.02
32 46 0.47
34 24 0.24
35 1 0.01
36 1 0.01
ACGTcount: A:0.22, C:0.29, G:0.12, T:0.37
Consensus pattern (32 bp):
TAAGTCCACAACTTCGTGGCACCTTTTTCTTT
Found at i:915937 original size:59 final size:62
Alignment explanation
Indices: 915853--916019 Score: 159
Period size: 59 Copynumber: 2.7 Consensus size: 62
915843 CACGATTCAG
* *
915853 TGGCATCT-CTTCTCTAAGTCTACAACTTCGTGGCACCTTTTTCTTTT-AAGTCCACAACT-CT
1 TGGCATCTCCTT-T-TAAGTCCACAACTTCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCT
*
915914 GTGGCA-C-CCTTTTAAGTCCACAAC-TC-TAAGGCAACTTTTTCTTTTCAAAGCCCACAACTCC
1 -TGGCATCTCCTTTTAAGTCCACAACTTCGT--GGCACCTTTTTCTTTT-AAAGCCCACAACTCC
915975 T
62 T
* *
915976 TGGCATCTTTTCCTTTTAAGTCCACAACTCCGTGGTACCTTTTT
1 TGGCATC---TCCTTTTAAGTCCACAACTTCGTGGCACCTTTTT
916020 AAGTCCACAA
Statistics
Matches: 86, Mismatches: 6, Indels: 22
0.75 0.05 0.19
Matches are distributed among these distances:
57 1 0.01
58 2 0.02
59 26 0.30
60 1 0.01
61 20 0.23
62 8 0.09
66 26 0.30
67 1 0.01
68 1 0.01
ACGTcount: A:0.21, C:0.30, G:0.12, T:0.37
Consensus pattern (62 bp):
TGGCATCTCCTTTTAAGTCCACAACTTCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCT
Found at i:915946 original size:27 final size:27
Alignment explanation
Indices: 915895--915946 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
915885 GCACCTTTTT
**
915895 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCTAAGGCACC
915922 CTTTTAAGTCCACAACTCTAAGGCA
1 CTTTTAAGTCCACAACTCTAAGGCA
915947 ACTTTTTCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.27, C:0.31, G:0.13, T:0.29
Consensus pattern (27 bp):
CTTTTAAGTCCACAACTCTAAGGCACC
Found at i:915953 original size:27 final size:27
Alignment explanation
Indices: 915895--915953 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
915885 GCACCTTTTT
** *
915895 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGTCCACAACTCTAAGGCAAC
915922 CTTTTAAGTCCACAACTCTAAGGCAAC
1 CTTTTAAGTCCACAACTCTAAGGCAAC
*
915949 TTTTT
1 CTTTT
915954 CTTTTCAAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.25, C:0.29, G:0.12, T:0.34
Consensus pattern (27 bp):
CTTTTAAGTCCACAACTCTAAGGCAAC
Found at i:915986 original size:34 final size:32
Alignment explanation
Indices: 915921--916006 Score: 93
Period size: 34 Copynumber: 2.6 Consensus size: 32
915911 TCTGTGGCAC
* *
915921 CCTTTTAAGTCCACAACT-CTAAGGCAACTTTT
1 CCTTTTAAGCCCACAACTCCT-TGGCAACTTTT
* *
915953 TCTTTTCAAAGCCCACAACTCCTTGGCATCTTTT
1 CCTTTT--AAGCCCACAACTCCTTGGCAACTTTT
*
915987 CCTTTTAAGTCCACAACTCC
1 CCTTTTAAGCCCACAACTCC
916007 GTGGTACCTT
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
32 18 0.40
34 25 0.56
35 2 0.04
ACGTcount: A:0.24, C:0.33, G:0.08, T:0.35
Consensus pattern (32 bp):
CCTTTTAAGCCCACAACTCCTTGGCAACTTTT
Found at i:916081 original size:32 final size:32
Alignment explanation
Indices: 916039--916230 Score: 183
Period size: 32 Copynumber: 6.0 Consensus size: 32
916029 ACTCCATGAC
*
916039 ACCCTCTTCTAAAGCCTACACAAGTTGGTGGCA
1 ACCCT-TTCTAAAGCCCACACAAGTTGGTGGCA
* * *
916072 ACCCTTTCTAAAGCCCACACAAATTAGTGACA
1 ACCCTTTCTAAAGCCCACACAAGTTGGTGGCA
* * *
916104 A-CCTCTTCAAAAGCCCACCCAAGTCGGTGGCA
1 ACCCT-TTCTAAAGCCCACACAAGTTGGTGGCA
* * *
916136 ACCCCTTC-AAAGCCCATAAAAGTTGGTGGCA
1 ACCCTTTCTAAAGCCCACACAAGTTGGTGGCA
* *
916167 ACCC-TTCTTAAAGCCCACATAAGTTGGCGGCA
1 ACCCTTTC-TAAAGCCCACACAAGTTGGTGGCA
* * * * *
916199 ACCCTCTCAAAAGCTCACATAAGTTAGTGGCA
1 ACCCTTTCTAAAGCCCACACAAGTTGGTGGCA
916231 TCTCCTTCTA
Statistics
Matches: 131, Mismatches: 23, Indels: 11
0.79 0.14 0.07
Matches are distributed among these distances:
30 3 0.02
31 26 0.20
32 93 0.71
33 9 0.07
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.21
Consensus pattern (32 bp):
ACCCTTTCTAAAGCCCACACAAGTTGGTGGCA
Found at i:916182 original size:63 final size:64
Alignment explanation
Indices: 916035--916202 Score: 198
Period size: 63 Copynumber: 2.6 Consensus size: 64
916025 CACAACTCCA
* * *
916035 TGACACCCTCTTCTAAAGCCTACACAAGTTGGTGGCAACCCTTTCTAAAGCCCACACAAATTAG
1 TGACAACCTCTTCTAAAGCCCACACAAGTTGGTGGCAACCCCTTCTAAAGCCCACACAAATTAG
* * * * *
916099 TGACAACCTCTTCAAAAGCCCACCCAAGTCGGTGGCAACCCCTTC-AAAGCCCATA-AAAGTTGG
1 TGACAACCTCTTCTAAAGCCCACACAAGTTGGTGGCAACCCCTTCTAAAGCCCACACAAA-TTAG
* * *
916162 TGGCAACC-CTTCTTAAAGCCCACATAAGTTGGCGGCAACCC
1 TGACAACCTCTTC-TAAAGCCCACACAAGTTGGTGGCAACCC
916203 TCTCAAAAGC
Statistics
Matches: 88, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
62 7 0.08
63 42 0.48
64 39 0.44
ACGTcount: A:0.30, C:0.33, G:0.17, T:0.20
Consensus pattern (64 bp):
TGACAACCTCTTCTAAAGCCCACACAAGTTGGTGGCAACCCCTTCTAAAGCCCACACAAATTAG
Found at i:916364 original size:52 final size:52
Alignment explanation
Indices: 916279--916378 Score: 119
Period size: 52 Copynumber: 1.9 Consensus size: 52
916269 ACATTGGAAC
* * * * * *
916279 CTTTAAGTCCAATATCGCTAGCCTTAAATTAGCATATTGATGCCTTTACCAT
1 CTTTAAGTCCAATACCACTAGCCTTAAAGTAGCACATTAACGCCTTTACCAT
* * *
916331 CTTTAAGTCCAATGCCACTGGCCTTGAAGTAGCACATTAACGCCTTTA
1 CTTTAAGTCCAATACCACTAGCCTTAAAGTAGCACATTAACGCCTTTA
916379 AGCCCAATAT
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
52 39 1.00
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (52 bp):
CTTTAAGTCCAATACCACTAGCCTTAAAGTAGCACATTAACGCCTTTACCAT
Found at i:916422 original size:95 final size:94
Alignment explanation
Indices: 916278--916453 Score: 237
Period size: 95 Copynumber: 1.9 Consensus size: 94
916268 CACATTGGAA
* * * *
916278 CCTTTAAGTCCAATATCGCTAGCCTTAAATTAGCATATTGATGCCTTTACCATCTTTAAGTCCAA
1 CCTTTAAGCCCAATATCACTAGCCTTAAATCAACATATTGA-GCCTTTACCATCTTTAAGTCCAA
916343 TGCCACTGGCCTTGAAGTAGCACATTAACG
65 TGCCACTGGCCTTGAAGTAGCACATTAACG
* * *
916373 CCTTTAAGCCCAATATCACTGGCCTTGAATCAACATATTG-GCACTTTTACCATCTTTAAGTCTA
1 CCTTTAAGCCCAATATCACTAGCCTTAAATCAACATATTGAGC-C-TTTACCATCTTTAAGTCCA
* *
916437 ATGTCACTGGCTTTGAA
64 ATGCCACTGGCCTTGAA
916454 TCAGCATGTT
Statistics
Matches: 70, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
93 2 0.03
94 1 0.01
95 67 0.96
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (94 bp):
CCTTTAAGCCCAATATCACTAGCCTTAAATCAACATATTGAGCCTTTACCATCTTTAAGTCCAAT
GCCACTGGCCTTGAAGTAGCACATTAACG
Found at i:916453 original size:52 final size:50
Alignment explanation
Indices: 916374--916722 Score: 236
Period size: 52 Copynumber: 6.8 Consensus size: 50
916364 ACATTAACGC
* * * *
916374 CTTTAAGCCCAATATCACTGGCCTTGAATCAACATATTGGCACTTTTACCAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCA-TTTT-CCAT
* * * * * *
916426 CTTTAAGTCTAATGTCACTGGCTTTGAATCAGCATGTTAGCACCTTTACCAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCA--TTTTCCAT
* * * * *
916478 TTTTAAGTCCAATGTTGCTGGCCTTTAATCAGCACATTGGCACTTT-CAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCATTTTCCAT
* * * * * *
916527 CTTTAAGTCCGATATCGCTGGCTTTAAACCAGCATATTGGCATCTTTAACAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCAT-TTT-CCAT
* * * *
916579 -TCCTAAGCCCAATGTCGCTGGCCTTAAATCAGCACATTGGCATTCTTCTCAT
1 CT-TTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCATT-TTC-CAT
* * * * * * *
916631 CTTCAGGTCTAATGTCGTTGGCCATGAATCAGCACATTGACATTCTTCACAT
1 CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCATT-TTC-CAT
* ** * *
916683 CTTTAAG-CCTAATATCATTGGCCTTGAATCAACGTATTGG
1 CTTTAAGTCC-AATGTCGCTGGCCTTGAATCAGCATATTGG
916723 TACCTTTATC
Statistics
Matches: 232, Mismatches: 56, Indels: 18
0.76 0.18 0.06
Matches are distributed among these distances:
49 37 0.16
50 5 0.02
51 3 0.01
52 182 0.78
53 5 0.02
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.34
Consensus pattern (50 bp):
CTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCATTTTCCAT
Found at i:916591 original size:101 final size:103
Alignment explanation
Indices: 916377--916620 Score: 285
Period size: 101 Copynumber: 2.4 Consensus size: 103
916367 TTAACGCCTT
* * * * * * *
916377 TAAGCCCAATATCACTGGCCTTGAATCAACATATTGGCACTTTTACCATCTTTAAGTCTAATGTC
1 TAAGCCCAATGTCGCTGGCCTTAAATCAGCACATTGGCACTTTTA-CATCTTTAAGTCCAATATC
* * * * **
916442 ACTGGCTTTGAATCAGCATGTTAGCACCTTTACCATTTT
65 ACTGGCTTTAAACCAGCATATTAGCACCTTTAACATTCC
* * * * *
916481 TAAGTCCAATGTTGCTGGCCTTTAATCAGCACATTGGCAC-TTT-CATCTTTAAGTCCGATATCG
1 TAAGCCCAATGTCGCTGGCCTTAAATCAGCACATTGGCACTTTTACATCTTTAAGTCCAATATCA
* *
916544 CTGGCTTTAAACCAGCATATTGGCATCTTTAACATTCC
66 CTGGCTTTAAACCAGCATATTAGCACCTTTAACATTCC
916582 TAAGCCCAATGTCGCTGGCCTTAAATCAGCACATTGGCA
1 TAAGCCCAATGTCGCTGGCCTTAAATCAGCACATTGGCA
916621 TTCTTCTCAT
Statistics
Matches: 118, Mismatches: 22, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
101 82 0.69
103 3 0.03
104 33 0.28
ACGTcount: A:0.26, C:0.25, G:0.16, T:0.33
Consensus pattern (103 bp):
TAAGCCCAATGTCGCTGGCCTTAAATCAGCACATTGGCACTTTTACATCTTTAAGTCCAATATCA
CTGGCTTTAAACCAGCATATTAGCACCTTTAACATTCC
Found at i:920563 original size:27 final size:27
Alignment explanation
Indices: 920510--920565 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 27
920500 CAAGTTTAAA
* **
920510 AATGGGGTTGGAGTATCCCCTCGGAAT
1 AATGGAGTTGGAGTATCCCCGAGGAAT
*
920537 AATGGAGTTGGAGTATCCCCGATGAAT
1 AATGGAGTTGGAGTATCCCCGAGGAAT
920564 AA
1 AA
920566 AATTTAATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.25
Consensus pattern (27 bp):
AATGGAGTTGGAGTATCCCCGAGGAAT
Found at i:922832 original size:13 final size:13
Alignment explanation
Indices: 922814--922838 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
922804 ACAAAACTTA
922814 TGTATCGATACAT
1 TGTATCGATACAT
922827 TGTATCGATACA
1 TGTATCGATACA
922839 AATTGTAAAA
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:923625 original size:52 final size:52
Alignment explanation
Indices: 923549--923953 Score: 257
Period size: 52 Copynumber: 7.7 Consensus size: 52
923539 GTGGGAAATG
* * * *
923549 TGCCAATATGCTGATTCAAGGCCAGCAATATTGGGCTTAAAGATACAAAGAA
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGATAAAAAGAA
* * * * *
923601 TGTCAATGTGCTGATTCACGGCCAGCGACATTAGTCTTGAAGATAAAAAGAA
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGATAAAAAGAA
*
923653 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAGGAATG-T-TAAAG-A
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTA--AA-GATAAAAAGAA
** * * * * * *
923705 TGCCAATACGTTGATTCAAGGCCAGCGATATTGGACTTAAAGAT--GATG-G
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGATAAAAAGAA
* * * * * *
923754 TGCCAATGTGCTGATTCAAAGACAACAACATTGGACTTAAGGTTGATGAAGATGATA-AA
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAA---AGAT-AA-A--A-AGAA
* * * * * ***
923813 GGTGCCAATATGCTGATTCAAGGCCATCAATAGTGGGCTTAAAGATGCGAAGAA
1 --TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGATAAAAAGAA
* * * * * * * * *
923867 TGTCAATGTGCTGATTCACGACCAGCGACGTTAGACTTGAAGATGAGAAGAA
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGATAAAAAGAA
* *
923919 TACCAATGTGCTAATTCAAGGCCAGCGACATTGGG
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGG
923954 TTTAGAAGGA
Statistics
Matches: 268, Mismatches: 67, Indels: 36
0.72 0.18 0.10
Matches are distributed among these distances:
49 35 0.13
50 3 0.01
52 181 0.68
53 5 0.02
54 6 0.02
55 1 0.00
58 4 0.01
61 33 0.12
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (52 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGATAAAAAGAA
Found at i:923641 original size:113 final size:114
Alignment explanation
Indices: 923432--923644 Score: 270
Period size: 113 Copynumber: 1.9 Consensus size: 114
923422 GTGTTTTGTG
* * * ** *
923432 ATGTGCCAATGTGTAGATTTAAGGCCTGCAACACTGGACTTAAAGATGGTAAAGAGTGCCAATGT
1 ATGTGCCAATATGTAGATTCAAGGCCAGCAACACTGGACTTAAAGATGACAAAGAATGCCAATGT
* *
923497 GCTGATTCAAGGCCAGCGTCATTGGATTTGAAGATGATAAGGGTGGGAA
66 GCTGATTCAAGGCCAGCGACATTAGATTTGAAGATGATAAGGGTGGGAA
* * * *
923546 ATGTGCCAATATGCT-GATTCAAGGCCAGCAATATTGGGCTTAAAGAT-ACAAAGAATGTCAATG
1 ATGTGCCAATATG-TAGATTCAAGGCCAGCAACACTGGACTTAAAGATGACAAAGAATGCCAATG
*
923609 TGCTGATTCACGGCCAGCGACATTAG-TCTTGAAGAT
65 TGCTGATTCAAGGCCAGCGACATTAGAT-TTGAAGAT
923645 AAAAAGAATG
Statistics
Matches: 84, Mismatches: 13, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
112 1 0.01
113 43 0.51
114 39 0.46
115 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.26
Consensus pattern (114 bp):
ATGTGCCAATATGTAGATTCAAGGCCAGCAACACTGGACTTAAAGATGACAAAGAATGCCAATGT
GCTGATTCAAGGCCAGCGACATTAGATTTGAAGATGATAAGGGTGGGAA
Found at i:924002 original size:32 final size:31
Alignment explanation
Indices: 923966--924189 Score: 216
Period size: 32 Copynumber: 7.0 Consensus size: 31
923956 TAGAAGGAAA
*
923966 TGCCACCAACTTGTGTGGGTCTTTGAAAATGT
1 TGCCACCAACTTGTGTGGG-CTTTGAAAAGGT
* *
923998 TGCCACCGACTTGTGTGGGCTTTAAAAAAGGT
1 TGCCACCAACTTGTGTGGGCTTT-GAAAAGGT
* * * *
924030 TGCCGCCAACTTGTTTGGGCTTTAAAGAAAGT
1 TGCCACCAACTTGTGTGGGCTTTGAA-AAGGT
*
924062 TGCCACCAACTTATGTGGGCTTTTG-AAAGGCT
1 TGCCACCAACTTGTGTGGGC-TTTGAAAAGG-T
* * * * **
924094 AGCCAGCGACTTGTGTGGGCTTTGGAGGGGT
1 TGCCACCAACTTGTGTGGGCTTTGAAAAGGT
* *
924125 TACCACCGACTTGTGTGGGCTTTGAAGAAGGT
1 TGCCACCAACTTGTGTGGGCTTTGAA-AAGGT
* *
924157 TGCCACCAACTTGTGTGGTCTTTAGAGAAGGT
1 TGCCACCAACTTGTGTGGGCTTT-GAAAAGGT
924189 T
1 T
924190 TCTCCATTAG
Statistics
Matches: 157, Mismatches: 28, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
31 37 0.24
32 115 0.73
33 5 0.03
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.30
Consensus pattern (31 bp):
TGCCACCAACTTGTGTGGGCTTTGAAAAGGT
Found at i:924420 original size:28 final size:27
Alignment explanation
Indices: 924361--924437 Score: 93
Period size: 28 Copynumber: 2.8 Consensus size: 27
924351 TATACAGCAA
* *
924361 GTGCCACTGA-TTGTGGAATTCGAAAAG
1 GTGCCACTGACTTGTGGACTT-TAAAAG
*
924388 ATGCCACTGACTTGTGGACTTTAAAGAG
1 GTGCCACTGACTTGTGGACTTTAAA-AG
*
924416 GTGCCACTGACTAGTGGACTTT
1 GTGCCACTGACTTGTGGACTTT
924438 GAGGAGGGAT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
27 12 0.28
28 31 0.72
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (27 bp):
GTGCCACTGACTTGTGGACTTTAAAAG
Found at i:924519 original size:14 final size:13
Alignment explanation
Indices: 924453--924525 Score: 60
Period size: 13 Copynumber: 5.5 Consensus size: 13
924443 GGGATTTATG
*
924453 TTGACAAACATTTC
1 TTGACAAA-AGTTC
*
924467 TTGAC-GAAGTT-
1 TTGACAAAAGTTC
* *
924478 TCTGACACACGTTC
1 T-TGACAAAAGTTC
924492 TTGACAAAAGTTC
1 TTGACAAAAGTTC
*
924505 TTGACGAAAATTTC
1 TTGAC-AAAAGTTC
924519 TTGACAA
1 TTGACAA
924526 CAATTTTGTT
Statistics
Matches: 48, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
11 1 0.02
12 7 0.15
13 22 0.46
14 18 0.38
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Consensus pattern (13 bp):
TTGACAAAAGTTC
Found at i:924530 original size:14 final size:13
Alignment explanation
Indices: 924453--924531 Score: 70
Period size: 14 Copynumber: 5.9 Consensus size: 13
924443 GGGATTTATG
924453 TTGACAAACATTTC
1 TTGACAAA-ATTTC
* *
924467 TTGACGAAGTTTC
1 TTGACAAAATTTC
* **
924480 -TGACACACGTTC
1 TTGACAAAATTTC
*
924492 TTGACAAAAGTTC
1 TTGACAAAATTTC
924505 TTGACGAAAATTTC
1 TTGAC-AAAATTTC
924519 TTGACAACAATTT
1 TTGACAA-AATTT
924532 TGTTGACAAT
Statistics
Matches: 53, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
12 8 0.15
13 21 0.40
14 24 0.45
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (13 bp):
TTGACAAAATTTC
Found at i:929791 original size:20 final size:20
Alignment explanation
Indices: 929766--929838 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
929756 CAACTTTTTT
929766 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
929786 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
929807 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
929827 ATGTATCGATAC
1 ATGTATCGATAC
929839 TTTGAATTGT
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:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:929804 original size:41 final size:41
Alignment explanation
Indices: 929745--929838 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
929735 CTGCCAAGAA
*
929745 ATGTATCGATACAACTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
*
929786 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
929827 ATGTATCGATAC
1 ATGTATCGATAC
929839 TTTGAATTGT
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:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
Found at i:929820 original size:21 final size:21
Alignment explanation
Indices: 929745--929820 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
929735 CTGCCAAGAA
* *
929745 ATGTATCGATACAACTTTTTT
1 ATGTATCGATACATCTTTTTC
****
929766 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
929786 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
929807 ATGTATCGATACAT
1 ATGTATCGATACAT
929821 TGCAACATGT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:930498 original size:21 final size:21
Alignment explanation
Indices: 930474--930515 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
930464 ATCTCCCCCT
*
930474 TAATCAAGTAATTCACAACAA
1 TAATCAAGTAAATCACAACAA
930495 TAATCAAGTAAATCACAACAA
1 TAATCAAGTAAATCACAACAA
930516 AAATTTATTT
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:0.55, C:0.19, G:0.05, T:0.21
Consensus pattern (21 bp):
TAATCAAGTAAATCACAACAA
Found at i:932322 original size:13 final size:13
Alignment explanation
Indices: 932304--932341 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
932294 ATAATCACCC
932304 TGTATCGATACAG
1 TGTATCGATACAG
*
932317 TGTATCGATACAT
1 TGTATCGATACAG
932330 TGTATCGATACA
1 TGTATCGATACA
932342 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:932355 original size:20 final size:20
Alignment explanation
Indices: 932330--932406 Score: 73
Period size: 20 Copynumber: 3.6 Consensus size: 20
932320 ATCGATACAT
932330 TGTATCGATACAAAGAAAAA
1 TGTATCGATACAAAGAAAAA
* *
932350 TGTATCGATACATAGAATTTCCAGA
1 TGTATCGATACAAAGAA-----AAA
* *
932375 TGTATCGATACACAGAAACA
1 TGTATCGATACAAAGAAAAA
932395 TGTATCGATACA
1 TGTATCGATACA
932407 TTTTGGACAT
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
20 30 0.62
25 18 0.38
ACGTcount: A:0.43, C:0.16, G:0.16, T:0.26
Consensus pattern (20 bp):
TGTATCGATACAAAGAAAAA
Found at i:934435 original size:15 final size:15
Alignment explanation
Indices: 934415--934445 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
934405 ATTTCGTTTG
*
934415 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
934430 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
934445 G
1 G
934446 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:938526 original size:13 final size:13
Alignment explanation
Indices: 938508--938533 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
938498 CAATTTTTTG
938508 TGTATCGATACAT
1 TGTATCGATACAT
938521 TGTATCGATACAT
1 TGTATCGATACAT
938534 ACATGCTGTA
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:938618 original size:20 final size:20
Alignment explanation
Indices: 938593--938665 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
938583 CAACTTTTTT
938593 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
938613 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
938634 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
938654 ATGTATCGATAC
1 ATGTATCGATAC
938666 TTTGAATTGT
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:0.32, C:0.19, G:0.14, T:0.36
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:938631 original size:41 final size:41
Alignment explanation
Indices: 938572--938665 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
938562 CTGCCAAGAA
*
938572 ATGTATCGATACAACTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
*
938613 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
938654 ATGTATCGATAC
1 ATGTATCGATAC
938666 TTTGAATTGT
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:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (41 bp):
ATGTATCGATACAACTTTTTCATGTATCGATACATTGCAAC
Found at i:938647 original size:21 final size:21
Alignment explanation
Indices: 938572--938647 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
938562 CTGCCAAGAA
* *
938572 ATGTATCGATACAACTTTTTT
1 ATGTATCGATACATCTTTTTC
****
938593 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
938613 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
938634 ATGTATCGATACAT
1 ATGTATCGATACAT
938648 TGCAACATGT
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:940047 original size:13 final size:13
Alignment explanation
Indices: 940029--940056 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
940019 GATTAGATTA
940029 TTATTATTTTTCT
1 TTATTATTTTTCT
940042 TTATTATTTTTCT
1 TTATTATTTTTCT
940055 TT
1 TT
940057 TTTAAAACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (13 bp):
TTATTATTTTTCT
Found at i:942011 original size:20 final size:21
Alignment explanation
Indices: 941972--942012 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
941962 ACAACCCATG
* *
941972 TTCATGCATTTTGAGCTATGT
1 TTCACGCATTTTCAGCTATGT
941993 TTCACGCATTTTCAG-TATGT
1 TTCACGCATTTTCAGCTATGT
942013 CCAACACCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.20, C:0.17, G:0.17, T:0.46
Consensus pattern (21 bp):
TTCACGCATTTTCAGCTATGT
Found at i:948996 original size:27 final size:27
Alignment explanation
Indices: 948934--949011 Score: 113
Period size: 27 Copynumber: 2.9 Consensus size: 27
948924 AATAAAGCCG
*
948934 GGGGTTGGAGTATCCCCTCGA-AAATAAC
1 GGGGTTGGAGTAT-CCC-CGATGAATAAC
*
948962 GGGGTTGGAGTATCCCCGATGATTAAC
1 GGGGTTGGAGTATCCCCGATGAATAAC
948989 GGGGTTGGAGTATCCCCGATGAA
1 GGGGTTGGAGTATCCCCGATGAA
949012 AAATTGATGT
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
26 3 0.07
27 30 0.65
28 13 0.28
ACGTcount: A:0.24, C:0.19, G:0.33, T:0.23
Consensus pattern (27 bp):
GGGGTTGGAGTATCCCCGATGAATAAC
Found at i:949062 original size:103 final size:104
Alignment explanation
Indices: 948848--949161 Score: 339
Period size: 103 Copynumber: 3.0 Consensus size: 104
948838 TTTTGGAGAT
* * * * *
948848 AATAACGGGGTTGGAGTATCCCCTTGA-AAATAACAGGGTTGGAGTATCCCCGATTATGAGAAAG
1 AATAACGGGGTTGGAGTATCCCC--GATGATTAACGGGGTTGGAGTATCCCCG---ATGAAAAAT
** * * *
948912 CAATATTTTAGGAATAAAGCCGGGGGTTGGAGTATCCCCTCGAA
61 TGATGTTTTAGAAATAAAACCGGGGGTTGGAGTATCCCCTCGAA
948956 AATAACGGGGTTGGAGTATCCCCGATGATTAACGGGGTTGGAGTATCCCCGATGAAAAATTGATG
1 AATAACGGGGTTGGAGTATCCCCGATGATTAACGGGGTTGGAGTATCCCCGATGAAAAATTGATG
*
949021 TTTTAGAAATAAAACC-GGGGTTGGAGTGTCCCCTC-AGA
66 TTTTAGAAATAAAACCGGGGGTTGGAGTATCCCCTCGA-A
* *
949059 AATAATGAGGTTGGAGTATCCCCGATGATTAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTG
1 AATAACGGGGTTGGAGTATCCCCGATGATTAACGGGGTTGGAGTATCCCCGA---TGAAAAATTG
* * * **
949124 GTGTTTTTTGGAAATAAAATC-GCAGTTGGAGTATCCCC
63 ATG--TTTTAGAAATAAAACCGGGGGTTGGAGTATCCCC
949162 GATTATAGAA
Statistics
Matches: 180, Mismatches: 19, Indels: 14
0.85 0.09 0.07
Matches are distributed among these distances:
102 1 0.01
103 69 0.38
104 23 0.13
106 14 0.08
107 22 0.12
108 51 0.28
ACGTcount: A:0.30, C:0.16, G:0.28, T:0.26
Consensus pattern (104 bp):
AATAACGGGGTTGGAGTATCCCCGATGATTAACGGGGTTGGAGTATCCCCGATGAAAAATTGATG
TTTTAGAAATAAAACCGGGGGTTGGAGTATCCCCTCGAA
Found at i:949210 original size:51 final size:52
Alignment explanation
Indices: 949095--949217 Score: 153
Period size: 51 Copynumber: 2.4 Consensus size: 52
949085 GATTAACGGG
* * *
949095 GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTTTGGAAATAAAATCGCA
1 GTTGGAGTATCCCCGATTATGAAAAATTAGTG-TTTTTGAAAATAAAATCGCA
*
949148 GTTGGAGTATCCCCGATTAT-AGAAAATTAGTG-TTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGA-AAAATTAGTGTTTTTGAAAATAAAATCGCA
*
949199 GTTGG-GATATCCCCAATTA
1 GTTGGAG-TATCCCCGATTA
949218 CGGAGAATTG
Statistics
Matches: 63, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
50 1 0.02
51 33 0.52
52 1 0.02
53 28 0.44
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.33
Consensus pattern (52 bp):
GTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTTGAAAATAAAATCGCA
Found at i:949667 original size:11 final size:12
Alignment explanation
Indices: 949644--949673 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
949634 GAATTTCATG
949644 AAAATATTGGGA
1 AAAATATTGGGA
*
949656 AAAATATTGGAA
1 AAAATATTGGGA
949668 AAAATA
1 AAAATA
949674 AAAAAAAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.17, T:0.23
Consensus pattern (12 bp):
AAAATATTGGGA
Found at i:951673 original size:12 final size:12
Alignment explanation
Indices: 951656--951680 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
951646 TACAACACTT
951656 ATGTATCGATAC
1 ATGTATCGATAC
951668 ATGTATCGATAC
1 ATGTATCGATAC
951680 A
1 A
951681 ATACTTATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (12 bp):
ATGTATCGATAC
Found at i:951676 original size:31 final size:32
Alignment explanation
Indices: 951625--951699 Score: 116
Period size: 31 Copynumber: 2.4 Consensus size: 32
951615 GCAGTAGCTT
*
951625 TGTAGCGATACATTGTATCGATACAACACTTA
1 TGTATCGATACATTGTATCGATACAACACTTA
*
951657 TGTATCGATACA-TGTATCGATACAATACTTA
1 TGTATCGATACATTGTATCGATACAACACTTA
*
951688 TTTATCGATACA
1 TGTATCGATACA
951700 AATCGCTGAA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
31 29 0.73
32 11 0.28
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATTGTATCGATACAACACTTA
Found at i:951763 original size:21 final size:21
Alignment explanation
Indices: 951756--951813 Score: 116
Period size: 21 Copynumber: 2.8 Consensus size: 21
951746 ACATTTGTAT
951756 AATGTATCGATACATTCCACA
1 AATGTATCGATACATTCCACA
951777 AATGTATCGATACATTCCACA
1 AATGTATCGATACATTCCACA
951798 AATGTATCGATACATT
1 AATGTATCGATACATT
951814 TGGATAAATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (21 bp):
AATGTATCGATACATTCCACA
Found at i:955207 original size:20 final size:22
Alignment explanation
Indices: 955171--955216 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
955161 ATATAATAAT
955171 AAATAAAAATCAAAAGT-AAAA
1 AAATAAAAATCAAAAGTCAAAA
*
955192 AAATAAACAT-AAAAGTCAAAA
1 AAATAAAAATCAAAAGTCAAAA
955213 AAAT
1 AAAT
955217 CATCATGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.74, C:0.07, G:0.04, T:0.15
Consensus pattern (22 bp):
AAATAAAAATCAAAAGTCAAAA
Found at i:955920 original size:18 final size:20
Alignment explanation
Indices: 955882--955934 Score: 58
Period size: 18 Copynumber: 2.7 Consensus size: 20
955872 AAGCAACTCC
*
955882 AGCTTCCACGA-CAGCAGT-
1 AGCTTCCACGAGCAGCAATA
955900 AGCTTCCACGAGCA-CAATA
1 AGCTTCCACGAGCAGCAATA
955919 GCAGCTTCCACGAGCA
1 --AGCTTCCACGAGCA
955935 ACCAGTAGCA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 14 0.47
19 2 0.07
21 14 0.47
ACGTcount: A:0.30, C:0.34, G:0.21, T:0.15
Consensus pattern (20 bp):
AGCTTCCACGAGCAGCAATA
Found at i:955966 original size:24 final size:24
Alignment explanation
Indices: 955938--956010 Score: 62
Period size: 24 Copynumber: 3.1 Consensus size: 24
955928 ACGAGCAACC
955938 AGTAGCAACTCCAGCTTCCACGGT
1 AGTAGCAACTCCAGCTTCCACGGT
* ** * *
955962 AGTAGCAGCTTCCA-CAAGCAAC--C
1 AGTAGCAAC-TCCAGC-TTCCACGGT
955985 AGTAGCAACTCCAGCTTCCACGGT
1 AGTAGCAACTCCAGCTTCCACGGT
956009 AG
1 AG
956011 CAGTAGGTTC
Statistics
Matches: 34, Mismatches: 10, Indels: 10
0.63 0.19 0.19
Matches are distributed among these distances:
22 7 0.21
23 9 0.26
24 11 0.32
25 7 0.21
ACGTcount: A:0.29, C:0.33, G:0.21, T:0.18
Consensus pattern (24 bp):
AGTAGCAACTCCAGCTTCCACGGT
Found at i:955966 original size:115 final size:113
Alignment explanation
Indices: 955831--956058 Score: 316
Period size: 115 Copynumber: 2.0 Consensus size: 113
955821 CTTGAGCCTC
* *
955831 CTCCAGCTTCCATGGCAGTAGTAGCTTCCACAAGCAACC-GAAAGCAACTCCAGCTTCCACGACA
1 CTCCAGCTTCCACGGCAGTAGCAGCTTCCACAAGCAACCAG-AAGCAACTCCAGCTTCCACGACA
*
955895 GCAGTAGCTTCCACGAGCACAATAGCAGC-TTCCACGAGCAACCAGTAGCAA
65 GCAGTAGCTTCCACGAGCA-AATAGCAGCACTCCACGAGC-A-CAGTAGCAA
* * **
955946 CTCCAGCTTCCACGGTAGTAGCAGCTTCCACAAGCAACCAGTAGCAACTCCAGCTTCCACGGTAG
1 CTCCAGCTTCCACGGCAGTAGCAGCTTCCACAAGCAACCAGAAGCAACTCCAGCTTCCACGACAG
* *
956011 CAGTAGGTTCCACGAGCAAATGGCAGCAACTCCACGAGCACAGTAGCA
66 CAGTAGCTTCCACGAGCAAATAGCAGC-ACTCCACGAGCACAGTAGCA
956059 GCTTCCACAA
Statistics
Matches: 101, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
114 16 0.16
115 75 0.74
116 10 0.10
ACGTcount: A:0.30, C:0.33, G:0.21, T:0.16
Consensus pattern (113 bp):
CTCCAGCTTCCACGGCAGTAGCAGCTTCCACAAGCAACCAGAAGCAACTCCAGCTTCCACGACAG
CAGTAGCTTCCACGAGCAAATAGCAGCACTCCACGAGCACAGTAGCAA
Found at i:955972 original size:68 final size:68
Alignment explanation
Indices: 955853--955981 Score: 179
Period size: 68 Copynumber: 1.9 Consensus size: 68
955843 TGGCAGTAGT
* *
955853 AGCTTCCACAAGCAACCGAAAGCAACTCCAGCTTCCACGACAGCAGTAGCTTCCACGAGCACAAT
1 AGCTTCCACAAGCAACCGAAAGCAACTCCAGCTTCCACGACAGCAGCAGCTTCCACAAGCACAAT
955918 AGC
66 AGC
* * ** *
955921 AGCTTCCACGAGCAACC-AGTAGCAACTCCAGCTTCCACGGTAGTAGCAGCTTCCACAAGCA
1 AGCTTCCACAAGCAACCGA-AAGCAACTCCAGCTTCCACGACAGCAGCAGCTTCCACAAGCA
955982 ACCAGTAGCA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
67 1 0.02
68 52 0.98
ACGTcount: A:0.32, C:0.35, G:0.19, T:0.15
Consensus pattern (68 bp):
AGCTTCCACAAGCAACCGAAAGCAACTCCAGCTTCCACGACAGCAGCAGCTTCCACAAGCACAAT
AGC
Found at i:955973 original size:47 final size:47
Alignment explanation
Indices: 955917--956134 Score: 212
Period size: 47 Copynumber: 4.7 Consensus size: 47
955907 ACGAGCACAA
955917 TAGCAGCTTCCACGAGCAACCAGTAGCAACTCCAGCTTCCACGGTAG
1 TAGCAGCTTCCACGAGCAACCAGTAGCAACTCCAGCTTCCACGGTAG
*
955964 TAGCAGCTTCCACAAGCAACCAGTAGCAACTCCAGCTTCCACGGTAG
1 TAGCAGCTTCCACGAGCAACCAGTAGCAACTCCAGCTTCCACGGTAG
* * * *** * ***
956011 CAGTAGGTTCCACGAGCAAATGGCAGCAACTCCA-CGAGCAC---AG
1 TAGCAGCTTCCACGAGCAACCAGTAGCAACTCCAGCTTCCACGGTAG
* * * * **
956054 TAGCAGCTTCCACAAGCAATCGGTAGCAACTTCAGCTTCCGTGGTAG
1 TAGCAGCTTCCACGAGCAACCAGTAGCAACTCCAGCTTCCACGGTAG
* * *
956101 TAGTAGCTTCC-CTGAGCAACCAGCAGCAATTCCA
1 TAGCAGCTTCCAC-GAGCAACCAGTAGCAACTCCA
956135 CGAGCAACCG
Statistics
Matches: 134, Mismatches: 32, Indels: 10
0.76 0.18 0.06
Matches are distributed among these distances:
43 28 0.21
44 2 0.01
46 5 0.04
47 99 0.74
ACGTcount: A:0.29, C:0.32, G:0.22, T:0.18
Consensus pattern (47 bp):
TAGCAGCTTCCACGAGCAACCAGTAGCAACTCCAGCTTCCACGGTAG
Found at i:956081 original size:90 final size:90
Alignment explanation
Indices: 955962--956140 Score: 243
Period size: 90 Copynumber: 2.0 Consensus size: 90
955952 CTTCCACGGT
*
955962 AGTAGCAGCTTCCACAAGCAACCAGTAGCAACTCCAGCTTCCACGGTAGCAGTAGGTTCCAC-GA
1 AGTAGCAGCTTCCACAAGCAACCAGTAGCAACTCCAGCTTCCACGGTAGCAGTAGCTTCC-CTGA
**
956026 GCAAATGGCAGCAACTCCACGAGCAC
65 GCAAACAGCAGCAACTCCACGAGCAC
* * * ** *
956052 AGTAGCAGCTTCCACAAGCAATCGGTAGCAACTTCAGCTTCCGTGGTAGTAGTAGCTTCCCTGAG
1 AGTAGCAGCTTCCACAAGCAACCAGTAGCAACTCCAGCTTCCACGGTAGCAGTAGCTTCCCTGAG
* *
956117 CAACCAGCAGCAATTCCACGAGCA
66 CAAACAGCAGCAACTCCACGAGCA
956141 ACCGGCAGCA
Statistics
Matches: 77, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
89 1 0.01
90 76 0.99
ACGTcount: A:0.30, C:0.31, G:0.22, T:0.17
Consensus pattern (90 bp):
AGTAGCAGCTTCCACAAGCAACCAGTAGCAACTCCAGCTTCCACGGTAGCAGTAGCTTCCCTGAG
CAAACAGCAGCAACTCCACGAGCAC
Found at i:956133 original size:22 final size:22
Alignment explanation
Indices: 956114--956156 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
956104 TAGCTTCCCT
956114 GAGCAACCAGCAGCAATTCCAC
1 GAGCAACCAGCAGCAATTCCAC
* *
956136 GAGCAACCGGCAGCAACTCCA
1 GAGCAACCAGCAGCAATTCCA
956157 TGAACACGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.35, C:0.37, G:0.21, T:0.07
Consensus pattern (22 bp):
GAGCAACCAGCAGCAATTCCAC
Found at i:969379 original size:42 final size:42
Alignment explanation
Indices: 969331--970392 Score: 944
Period size: 42 Copynumber: 25.0 Consensus size: 42
969321 CATTAAACTT
* * * * *
969331 CTGGAGACTTTCCTACCCTTAATCAGCCTATCGACTTTAACC
1 CTGGAGACTTTCCTACCCTTAGTCTGCCTGTCGGCTTTGACC
* * * * * **
969373 TTGGAGACTTTCTTTCCCTCAGTCTACCTGTCGATTTTGACC
1 CTGGAGACTTTCCTACCCTTAGTCTGCCTGTCGGCTTTGACC
* * * *
969415 CTGGAGACTGTCCTACCCTTAGTTTGCCTATTGGCTTTGACC
1 CTGGAGACTTTCCTACCCTTAGTCTGCCTGTCGGCTTTGACC
* * * * * *
969457 TTAGAGACTTTCCTATCCCTTATTTTACCTGTCGACTTTGACC
1 CTGGAGACTTTCCTA-CCCTTAGTCTGCCTGTCGGCTTTGACC
* *
969500 TTGGAGACTTTCCTACCCTTAGTCTGCCTATCGGCTTTGACC
1 CTGGAGACTTTCCTACCCTTAGTCTGCCTGTCGGCTTTGACC
* * * * *
969542 TTAGAGACTTTCCTATCCCTTATTTTGCCTGTCGACTTTGACC
1 CTGGAGACTTTCCTA-CCCTTAGTCTGCCTGTCGGCTTTGACC
*
969585 CTGGAGACTTTCCTACCCTTAGTCTGCCTATCGGCTTTGACC
1 CTGGAGACTTTCCTACCCTTAGTCTGCCTGTCGGCTTTGACC
* * * * * *
969627 TTAGAGACTTTCCTATCCCTTATTTTGCTTGTCGACTTTGACC
1 CTGGAGACTTTCCTA-CCCTTAGTCTGCCTGTCGGCTTTGACC
* * **
969670 CTGGAGACTTTCTTTCCCACAGTCTGCCTGTCGGCTTTGACC
1 CTGGAGACTTTCCTACCCTTAGTCTGCCTGTCGGCTTTGACC
* * *
969712 CTAGAGACGTTCCTACCCTTTAGTAGTCTGCCTGTCGGATTTGACC
1 CTGGAGACTTTCCTACCC--T--TAGTCTGCCTGTCGGCTTTGACC
* * * * *
969758 CTGGAAACTTTCATACTCTTAGTTTGCCTATCGGCTTTGACC
1 CTGGAGACTTTCCTACCCTTAGTCTGCCTGTCGGCTTTGACC
* * * * *
969800 TTGGAGACTTTCCTATCCCTTAGTCAGCCTATCAGCTTTAACC
1 CTGGAGACTTTCCTA-CCCTTAGTCTGCCTGTCGGCTTTGACC
* * * * * *
969843 CTGGAGACTTTCCTCTCCCTTAATCAGGCTGTCAGCTTCGACC
1 CTGGAGACTTTCCT-ACCCTTAGTCTGCCTGTCGGCTTTGACC
* * ** *
969886 CTGGAAACTTTCTTTTCCTTAGTCTGCTTGTCGGCTTTGACC
1 CTGGAGACTTTCCTACCCTTAGTCTGCCTGTCGGCTTTGACC
*** *
969928 CTGGAGACTTTCCTACCCTTAGTCTTTTTTTCGG-TTTGACC
1 CTGGAGACTTTCCTACCCTTAGTCTGCCTGTCGGCTTTGACC
* * * *
969969 CTAGAGACTTTTCTACCCTTAGTCTGCCTATCGGTTTTGACC
1 CTGGAGACTTTCCTACCCTTAGTCTGCCTGTCGGCTTTGACC
* ** * ** *
970011 TTGGAGACTTTCCTACTTTTAGTTTGATTGTTGGCTTTGA-C
1 CTGGAGACTTTCCTACCCTTAGTCTGCCTGTCGGCTTTGACC
* *
970052 CTAGGAGA-TTTTCTATCCCTTAGTCTGCCTGTTGGCTTTGACC
1 CT-GGAGACTTTCCTA-CCCTTAGTCTGCCTGTCGGCTTTGACC
* * *
970095 CTAGAGACTTTCCTTCCCTTAGTCTGCATGTCGGCTTTGACC
1 CTGGAGACTTTCCTACCCTTAGTCTGCCTGTCGGCTTTGACC
* * *
970137 TTGGAGACTTTCCTACCCTCAGTCTGCCTATCGGCTTTGACC
1 CTGGAGACTTTCCTACCCTTAGTCTGCCTGTCGGCTTTGACC
* * * * *
970179 CTAGAGACTATCTTTCCCTTAGTCTGCCTGTCGACTTTGACC
1 CTGGAGACTTTCCTACCCTTAGTCTGCCTGTCGGCTTTGACC
* * * * * **
970221 TTGGAAACTTTTCTACCGTTAGTTTGCCTGTCAACTTTGACC
1 CTGGAGACTTTCCTACCCTTAGTCTGCCTGTCGGCTTTGACC
* * * **
970263 CTGGAGACTTTACTATCCCTAAAGTTTGCCTGTCAACTTTGACC
1 CTGGAGACTTTCCTA-CCCT-TAGTCTGCCTGTCGGCTTTGACC
* *
970307 CTGGAGACTTTCCTATCCCTCAGTCTGCCTATCGGCTTTGA-C
1 CTGGAGACTTTCCTA-CCCTTAGTCTGCCTGTCGGCTTTGACC
* * * * * *
970349 CTAGGAGACTTTTCTATCCTTCAATCTGCTTATCAGCTTTGACC
1 CT-GGAGACTTTCCTACCCTT-AGTCTGCCTGTCGGCTTTGACC
970393 TTACGACTTT
Statistics
Matches: 822, Mismatches: 179, Indels: 36
0.79 0.17 0.03
Matches are distributed among these distances:
41 43 0.05
42 472 0.57
43 230 0.28
44 43 0.05
46 34 0.04
ACGTcount: A:0.16, C:0.29, G:0.17, T:0.37
Consensus pattern (42 bp):
CTGGAGACTTTCCTACCCTTAGTCTGCCTGTCGGCTTTGACC
Found at i:969514 original size:85 final size:85
Alignment explanation
Indices: 969331--970395 Score: 984
Period size: 85 Copynumber: 12.5 Consensus size: 85
969321 CATTAAACTT
* * * * * * * *
969331 CTGGAGACTTTCCTACCCTTAATCAGCCTATCGACTTTAACCTTGGAGACTTT-CTTTCCCTCAG
1 CTGGAGACTTTCCTACCCTTAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTTCCTATCCCTTAG
* *
969395 TCTACCTGTCGATTTTGACC
66 TCTGCCTGTCGACTTTGACC
* * * * *
969415 CTGGAGACTGTCCTACCCTTAGTTTGCCTATTGGCTTTGACCTTAGAGACTTTCCTATCCCTTAT
1 CTGGAGACTTTCCTACCCTTAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTTCCTATCCCTTAG
* *
969480 TTTACCTGTCGACTTTGACC
66 TCTGCCTGTCGACTTTGACC
* * *
969500 TTGGAGACTTTCCTACCCTTAGTCTGCCTATCGGCTTTGACCTTAGAGACTTTCCTATCCCTTAT
1 CTGGAGACTTTCCTACCCTTAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTTCCTATCCCTTAG
*
969565 TTTGCCTGTCGACTTTGACC
66 TCTGCCTGTCGACTTTGACC
* *
969585 CTGGAGACTTTCCTACCCTTAGTCTGCCTATCGGCTTTGACCTTAGAGACTTTCCTATCCCTTAT
1 CTGGAGACTTTCCTACCCTTAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTTCCTATCCCTTAG
* *
969650 TTTGCTTGTCGACTTTGACC
66 TCTGCCTGTCGACTTTGACC
* * ** * *
969670 CTGGAGACTTTCTTTCCCACAGTCTGCCTGTCGGCTTTGACCCTAGAGACGTTCCTA-CCCTTTA
1 CTGGAGACTTTCCTACCCTTAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTTCCTATCCC--T-
969734 GTAGTCTGCCTGTCGGA-TTTGACC
63 -TAGTCTGCCTGTC-GACTTTGACC
* * * * * *
969758 CTGGAAACTTTCATACTCTTAGTTTGCCTATCGGCTTTGACCTTGGAGACTTTCCTATCCCTTAG
1 CTGGAGACTTTCCTACCCTTAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTTCCTATCCCTTAG
* * *
969823 TCAGCCTATC-AGCTTTAACC
66 TCTGCCTGTCGA-CTTTGACC
* * * * * * * * * * *
969843 CTGGAGACTTTCCTCTCCCTTAATCAGGCTGTCAGCTTCGACCCTGGAAACTTT-CTTTTCCTTA
1 CTGGAGACTTTCCT-ACCCTTAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTTCCTATCCCTTA
* *
969907 GTCTGCTTGTCGGCTTTGACC
65 GTCTGCCTGTCGACTTTGACC
*** * * *
969928 CTGGAGACTTTCCTACCCTTAGTCTTTTTTTCGG-TTTGACCCTAGAGACTTTTCTA-CCCTTAG
1 CTGGAGACTTTCCTACCCTTAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTTCCTATCCCTTAG
* **
969991 TCTGCCTATCGGTTTTGACC
66 TCTGCCTGTCGACTTTGACC
* ** * ** * *
970011 TTGGAGACTTTCCTACTTTTAGTTTGATTGTTGGCTTTGACC-TAGGAGA-TTTTCTATCCCTTA
1 CTGGAGACTTTCCTACCCTTAGTCTGCCTGTCGGCTTTGACCTTA-GAGACTTTCCTATCCCTTA
* *
970074 GTCTGCCTGTTGGCTTTGACC
65 GTCTGCCTGTCGACTTTGACC
* * * * *
970095 CTAGAGACTTTCCTTCCCTTAGTCTGCATGTCGGCTTTGACCTTGGAGACTTTCCTA-CCCTCAG
1 CTGGAGACTTTCCTACCCTTAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTTCCTATCCCTTAG
* *
970159 TCTGCCTATCGGCTTTGACC
66 TCTGCCTGTCGACTTTGACC
* * * * * * * * *
970179 CTAGAGACTATCTTTCCCTTAGTCTGCCTGTCGACTTTGACCTTGGAAACTTTTCTA-CCGTTAG
1 CTGGAGACTTTCCTACCCTTAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTTCCTATCCCTTAG
* *
970243 TTTGCCTGTCAACTTTGACC
66 TCTGCCTGTCGACTTTGACC
* * * ** * * *
970263 CTGGAGACTTTACTATCCCTAAAGTTTGCCTGTCAACTTTGACCCTGGAGACTTTCCTATCCCTC
1 CTGGAGACTTTCCTA-CCCT-TAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTTCCTATCCCTT
* *
970328 AGTCTGCCTATCGGCTTTGA-C
64 AGTCTGCCTGTCGACTTTGACC
* * * * * *
970349 CTAGGAGACTTTTCTATCCTTCAATCTGCTTATCAGCTTTGACCTTA
1 CT-GGAGACTTTCCTACCCTT-AGTCTGCCTGTCGGCTTTGACCTTA
970396 CGACTTTGAC
Statistics
Matches: 815, Mismatches: 144, Indels: 42
0.81 0.14 0.04
Matches are distributed among these distances:
83 74 0.09
84 240 0.29
85 316 0.39
86 85 0.10
87 32 0.04
88 63 0.08
89 5 0.01
ACGTcount: A:0.16, C:0.29, G:0.17, T:0.38
Consensus pattern (85 bp):
CTGGAGACTTTCCTACCCTTAGTCTGCCTGTCGGCTTTGACCTTAGAGACTTTCCTATCCCTTAG
TCTGCCTGTCGACTTTGACC
Found at i:971633 original size:47 final size:48
Alignment explanation
Indices: 971577--971752 Score: 135
Period size: 47 Copynumber: 3.9 Consensus size: 48
971567 CCACAGCAGC
*
971577 AGCAACTTCCACGAGCAACCGGCAACAACTCCAACTTCCATGGA-AAT
1 AGCAGCTTCCACGAGCAACCGGCAACAACTCCAACTTCCATGGACAAT
* * * * *
971624 AGTAGCTTCCACG-GTCATA---GCAGC--TTCC-A---CGA-GGACAGT
1 AGCAGCTTCCACGAG-CA-ACCGGCAACAACTCCAACTTCCATGGACAAT
* * *
971663 AGCAGCTTCCACAAGCAACCGGCAGCAACTCCAGCTTCCAT-GACAAT
1 AGCAGCTTCCACGAGCAACCGGCAACAACTCCAACTTCCATGGACAAT
* * *
971710 AGCAGCTTCCACGAGTAACCGACAACAACTCCAGCTTCCATGG
1 AGCAGCTTCCACGAGCAACCGGCAACAACTCCAACTTCCATGG
971753 TAGTAGAAAT
Statistics
Matches: 98, Mismatches: 16, Indels: 29
0.69 0.11 0.20
Matches are distributed among these distances:
38 4 0.04
39 17 0.17
40 1 0.01
41 5 0.05
42 1 0.01
43 6 0.06
45 4 0.04
46 1 0.01
47 57 0.58
48 2 0.02
ACGTcount: A:0.31, C:0.34, G:0.19, T:0.16
Consensus pattern (48 bp):
AGCAGCTTCCACGAGCAACCGGCAACAACTCCAACTTCCATGGACAAT
Found at i:971683 original size:86 final size:83
Alignment explanation
Indices: 971561--971722 Score: 227
Period size: 86 Copynumber: 1.9 Consensus size: 83
971551 AAGCCTCCTC
*
971561 CAGCTTCCACAGCAGCAGCAACTTCCACGAGCAACCGGCAACAACTCCAACTTCCATGGA-AATA
1 CAGCTTCCACAGCAGCAGCAACTTCCACAAGCAACCGGCAACAACTCCAACTTCCAT-GACAATA
*
971625 GTAGCTTCCACGGTCATAG
65 GCAGCTTCCACGGTCATAG
* * * *
971644 CAGCTTCCACGAGGACAGTAGCAGCTTCCACAAGCAACCGGCAGCAACTCCAGCTTCCATGACAA
1 CAGCTTCCAC-A-G-CAGCAGCAACTTCCACAAGCAACCGGCAACAACTCCAACTTCCATGACAA
971709 TAGCAGCTTCCACG
63 TAGCAGCTTCCACG
971723 AGTAACCGAC
Statistics
Matches: 69, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
83 10 0.14
84 1 0.01
85 3 0.04
86 55 0.80
ACGTcount: A:0.30, C:0.35, G:0.19, T:0.16
Consensus pattern (83 bp):
CAGCTTCCACAGCAGCAGCAACTTCCACAAGCAACCGGCAACAACTCCAACTTCCATGACAATAG
CAGCTTCCACGGTCATAG
Found at i:971832 original size:47 final size:47
Alignment explanation
Indices: 971660--971927 Score: 233
Period size: 47 Copynumber: 5.8 Consensus size: 47
971650 CCACGAGGAC
* * * **
971660 AGTAGCAGCTTCCACAAGCAACCGGCAGCAACTCCAGCTTCCATGAC
1 AGTAGCAGCTTCCACGAGCAACCGGTAGCAACTCCAGCTTCCACGGT
* * ** * *
971707 AATAGCAGCTTCCACGAGTAACCGACAACAACTCCAGCTTCCATGGT
1 AGTAGCAGCTTCCACGAGCAACCGGTAGCAACTCCAGCTTCCACGGT
* ** *
971754 AGTAGAAATTTCCATGAGCAACCGGCT-GCAAC-CCTAGCTTCCACGGT
1 AGTAGCAGCTTCCACGAGCAACCGG-TAGCAACTCC-AGCTTCCACGGT
* * ***
971801 AGCAGCAGCTTCCATGAGCAACCGGTAGCAACTCCA-CGAGCAC---
1 AGTAGCAGCTTCCACGAGCAACCGGTAGCAACTCCAGCTTCCACGGT
*
971844 AGTAGCAGCTTCCACGAGCAAACCAGTAGCAACTCCAGCTTCCACGGT
1 AGTAGCAGCTTCCACGAGC-AACCGGTAGCAACTCCAGCTTCCACGGT
* * * * *
971892 AGCAGCAACTTCCACGAACAACTGGTAGCAATTCCA
1 AGTAGCAGCTTCCACGAGCAACCGGTAGCAACTCCA
971928 AGAGCAACCA
Statistics
Matches: 176, Mismatches: 36, Indels: 18
0.77 0.16 0.08
Matches are distributed among these distances:
43 17 0.10
44 16 0.09
45 4 0.02
46 7 0.04
47 114 0.65
48 18 0.10
ACGTcount: A:0.31, C:0.33, G:0.20, T:0.17
Consensus pattern (47 bp):
AGTAGCAGCTTCCACGAGCAACCGGTAGCAACTCCAGCTTCCACGGT
Found at i:971836 original size:22 final size:22
Alignment explanation
Indices: 971811--971965 Score: 79
Period size: 22 Copynumber: 7.0 Consensus size: 22
971801 AGCAGCAGCT
*
971811 TCCATGAGCAACCGGTAGCAAC
1 TCCACGAGCAACCGGTAGCAAC
* *
971833 TCCACGAGC-A-CAGTAGCAGC
1 TCCACGAGCAACCGGTAGCAAC
*
971853 TTCCACGAGCAAACCAGTAGCAAC
1 -TCCACGAGC-AACCGGTAGCAAC
** *
971877 TCCA-GCTTCCA-CGGTAGCAGCAAC
1 TCCACG-AGCAACCGGT---AGCAAC
* * *
971901 TTCCACGAACAACTGGTAGCAAT
1 -TCCACGAGCAACCGGTAGCAAC
* * *
971924 TCCAAGAGCAACCAGCAGCAAC
1 TCCACGAGCAACCGGTAGCAAC
*
971946 TCCATGAGC-A-CGGTAGCAAC
1 TCCACGAGCAACCGGTAGCAAC
971966 AACAGCATTT
Statistics
Matches: 100, Mismatches: 22, Indels: 24
0.68 0.15 0.16
Matches are distributed among these distances:
20 16 0.16
21 14 0.14
22 34 0.34
23 11 0.11
24 15 0.15
25 6 0.06
26 4 0.04
ACGTcount: A:0.33, C:0.33, G:0.21, T:0.14
Consensus pattern (22 bp):
TCCACGAGCAACCGGTAGCAAC
Found at i:971859 original size:21 final size:22
Alignment explanation
Indices: 971804--971874 Score: 74
Period size: 21 Copynumber: 3.2 Consensus size: 22
971794 CCACGGTAGC
* *
971804 AGCAGCTTCCATGAGCAACCGGT
1 AGCAGCTTCCACGAGC-ACCAGT
*
971827 AGCAAC-TCCACGAGCA-CAGT
1 AGCAGCTTCCACGAGCACCAGT
971847 AGCAGCTTCCACGAGCAAACCAGT
1 AGCAGCTTCCACGAGC--ACCAGT
971871 AGCA
1 AGCA
971875 ACTCCAGCTT
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
20 8 0.20
21 10 0.25
22 8 0.20
23 6 0.15
24 8 0.20
ACGTcount: A:0.32, C:0.32, G:0.23, T:0.13
Consensus pattern (22 bp):
AGCAGCTTCCACGAGCACCAGT
Found at i:978533 original size:12 final size:12
Alignment explanation
Indices: 978516--978587 Score: 87
Period size: 11 Copynumber: 6.1 Consensus size: 12
978506 CCTCCTTCGT
978516 AAAAAAACAC-A
1 AAAAAAACACAA
*
978527 AAAAAAACAACAC
1 AAAAAAAC-ACAA
978540 AAAAAAA-ACAA
1 AAAAAAACACAA
*
978551 CAAAAAACA-AA
1 AAAAAAACACAA
978562 AAAAAACACACAA
1 AAAAAA-ACACAA
978575 AAAAAAACACAA
1 AAAAAAACACAA
978587 A
1 A
978588 CAAACAAAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
11 24 0.46
12 13 0.25
13 15 0.29
ACGTcount: A:0.82, C:0.18, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAAACACAA
Found at i:978538 original size:14 final size:13
Alignment explanation
Indices: 978516--978587 Score: 72
Period size: 14 Copynumber: 5.0 Consensus size: 13
978506 CCTCCTTCGT
978516 AAAAAAACACAAA
1 AAAAAAACACAAA
978529 AAAAACAACACAAA
1 AAAAA-AACACAAA
*
978543 AAAAACAACAAAAAACAA
1 AAAAA-AAC---ACA-AA
978561 AAAAAAACACACAA
1 AAAAAAACACA-AA
978575 AAAAAAACACAAA
1 AAAAAAACACAAA
978588 CAAACAAAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
13 7 0.13
14 33 0.63
17 5 0.10
18 7 0.13
ACGTcount: A:0.82, C:0.18, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAAACACAAA
Found at i:978564 original size:33 final size:33
Alignment explanation
Indices: 978517--978597 Score: 119
Period size: 34 Copynumber: 2.4 Consensus size: 33
978507 CTCCTTCGTA
978517 AAAAAACACAAAAAAAACA-ACACAAAAAAAACAAC
1 AAAAAACA-AAAAAAAACACACA-AAAAAAAAC-AC
978552 AAAAAACAAAAAAAAACACACAAAAAAAAACAC
1 AAAAAACAAAAAAAAACACACAAAAAAAAACAC
978585 AAACAAACAAAAA
1 AAA-AAACAAAAA
978598 GAGGGGAAGA
Statistics
Matches: 44, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
33 5 0.11
34 28 0.64
35 11 0.25
ACGTcount: A:0.81, C:0.19, G:0.00, T:0.00
Consensus pattern (33 bp):
AAAAAACAAAAAAAAACACACAAAAAAAAACAC
Found at i:979965 original size:28 final size:27
Alignment explanation
Indices: 979927--980005 Score: 77
Period size: 28 Copynumber: 2.9 Consensus size: 27
979917 GAATCTCTTC
*
979927 TCAAAGCCCACTAGTCAATGGCACCTCT
1 TCAAAGTCCAC-AGTCAATGGCACCTCT
* * * *
979955 TCAAAGTCCACAAGTCAGTGTCATCTTT
1 TCAAAGTCCAC-AGTCAATGGCACCTCT
* *
979983 TCGAAGTCCACAATCAATGGCAC
1 TCAAAGTCCACAGTCAATGGCAC
980006 TTGCTGTATA
Statistics
Matches: 40, Mismatches: 11, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.24
Consensus pattern (27 bp):
TCAAAGTCCACAGTCAATGGCACCTCT
Found at i:980250 original size:32 final size:32
Alignment explanation
Indices: 980185--980461 Score: 266
Period size: 32 Copynumber: 8.7 Consensus size: 32
980175 AACCTTCTTC
* *
980185 AAAGCCCACACAAAATGGTGGCAA-CCTTTCT
1 AAAGCCCACACAAGATGGTGGCAACCCTTTCA
*
980216 AAAGCCCACACAAGATGGTGGCAACCCTTTCT
1 AAAGCCCACACAAGATGGTGGCAACCCTTTCA
* * * *
980248 AAAGCCCATACAAGCTGGTGGCAA-TCTCTTAA
1 AAAGCCCACACAAGATGGTGGCAACCCT-TTCA
* * *
980280 AAAGCCCACACAAGTTAGTGGCAACCCCTTC-
1 AAAGCCCACACAAGATGGTGGCAACCCTTTCA
*
980311 AAAGCCCACACAAGTTGGTGGCAACCTCTTT-A
1 AAAGCCCACACAAGATGGTGGCAACC-CTTTCA
* * * *
980343 AAAGCCCACACAAGTTAGTGACAACCCCCTTC-
1 AAAGCCCACACAAGATGGTGGCAA-CCCTTTCA
* * *
980375 AAGGCCCACACAA-ACTGGTGGAAACCCTCTT-T
1 AAAGCCCACACAAGA-TGGTGGCAACCCT-TTCA
980407 AAAGCCCACACAAG-TCGGTGGCAACCCTTTCA
1 AAAGCCCACACAAGAT-GGTGGCAACCCTTTCA
980439 AAAGCCCACACAAG-TGGGTGGCA
1 AAAGCCCACACAAGAT-GGTGGCA
980462 CCTCTCTATA
Statistics
Matches: 206, Mismatches: 27, Indels: 25
0.80 0.10 0.10
Matches are distributed among these distances:
31 56 0.27
32 147 0.71
33 3 0.01
ACGTcount: A:0.33, C:0.31, G:0.18, T:0.18
Consensus pattern (32 bp):
AAAGCCCACACAAGATGGTGGCAACCCTTTCA
Found at i:980315 original size:63 final size:62
Alignment explanation
Indices: 980181--980475 Score: 326
Period size: 64 Copynumber: 4.7 Consensus size: 62
980171 GAAAAACCTT
** * * *
980181 CTTCAAAGCCCACACAAAATGGTGGCAACCT-TTCTAAAGCCCACACAAGATGGTGGCAACCC
1 CTTCAAAGCCCACACAAGCTGGTGGCAACCTCTT-AAAAGCCCACACAAGTTAGTGGCAACCC
* * *
980243 TTTCTAAAGCCCATACAAGCTGGTGGCAATCTCTTAAAAAGCCCACACAAGTTAGTGGCAACCC
1 CTTC-AAAGCCCACACAAGCTGGTGGCAACCTCTT-AAAAGCCCACACAAGTTAGTGGCAACCC
* *
980307 CTTCAAAGCCCACACAAGTTGGTGGCAACCTCTTTAAAAGCCCACACAAGTTAGTGACAACCCC
1 CTTCAAAGCCCACACAAGCTGGTGGCAACCTC-TTAAAAGCCCACACAAGTTAGTGGCAA-CCC
* * * * **
980371 CTTCAAGGCCCACACAAACTGGTGGAAACCCTCTTTAAAGCCCACACAAGTCGGTGGCAACCC
1 CTTCAAAGCCCACACAAGCTGGTGGCAA-CCTCTTAAAAGCCCACACAAGTTAGTGGCAACCC
* *
980434 TTTCAAAAGCCCACACAAG-TGGGTGGC-ACCTCTCTATAAGCC
1 CTTC-AAAGCCCACACAAGCT-GGTGGCAACCTCT-TAAAAGCC
980476 TAATGTCGCT
Statistics
Matches: 197, Mismatches: 28, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
62 8 0.04
63 86 0.44
64 99 0.50
65 4 0.02
ACGTcount: A:0.32, C:0.32, G:0.18, T:0.19
Consensus pattern (62 bp):
CTTCAAAGCCCACACAAGCTGGTGGCAACCTCTTAAAAGCCCACACAAGTTAGTGGCAACCC
Found at i:980599 original size:52 final size:52
Alignment explanation
Indices: 980513--981095 Score: 307
Period size: 52 Copynumber: 11.7 Consensus size: 52
980503 TTAGTACCTT
* * **
980513 AGTCCAATATCGCTGGCCTTGAATTAGCGTATTGGCACCTTTACCATCTTTA
1 AGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTACCATCTTTA
* *
980565 AATCCAATGTCGCTGGCCTTAAATCAGCACATTGGCACC-TT--CATCTTTA
1 AGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTACCATCTTTA
** * * * * * * * *
980614 AGTCTGATATTGCTGGCCTTGAATAAGCATATTAGCATCTTTAACAT-TCCTA
1 AGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTACCATCT-TTA
* * * * * * * *
980666 AGCCCACTGTCGATGGCCTTGAATCAACACATTAGCA--TTCTTCTTATCTTCA
1 AGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT-TAC-CATCTTTA
* * * *
980718 AGTCTAATGTCGTTGGCCTTGAATCAACACATAGGCA-CTTGTCAAACCATCTTTTTCAA
1 AGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT-T---ACCATC--TTT--A
* *
980777 AGTCCAATGTCGCTAGCCTAGAATCAGCACATTGG---C---A-CA--TTTA
1 AGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTACCATCTTTA
* * * * ** ** *
980820 AGTCCAATATCGCTAGCCTCGAATCAGCATATTGGTGCCTTTGTCACCTTTA
1 AGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTACCATCTTTA
* * * * **
980872 AGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCGCCTTTTTCATCTTTA
1 AGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTACCATCTTTA
* * *
980924 AGTCCAATGTCACTAGCCTTGAATCAACACATT-G-A-C---A-C--CTTTA
1 AGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTACCATCTTTA
* * * * *
980967 AGTCCAATATTGCTAGCCTTGAATCAGCATATTGGCACCTTTACCATCTCTA
1 AGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTACCATCTTTA
* * *
981019 AGCCCAACGTCGCTGGCCTTGAATCAGCACGTT-G-----TT---ATCTTTA
1 AGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTACCATCTTTA
* *
981062 AGCCCAACGTCGCTGGCCTTGAATCAGCACATTG
1 AGTCCAATGTCGCTGGCCTTGAATCAGCACATTG
981096 TTATCTTTAA
Statistics
Matches: 420, Mismatches: 77, Indels: 76
0.73 0.13 0.13
Matches are distributed among these distances:
43 104 0.25
44 1 0.00
45 5 0.01
46 4 0.01
49 41 0.10
50 8 0.02
51 6 0.01
52 210 0.50
53 4 0.01
55 3 0.01
56 1 0.00
57 3 0.01
59 30 0.07
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (52 bp):
AGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTTACCATCTTTA
Found at i:980837 original size:43 final size:43
Alignment explanation
Indices: 980776--981181 Score: 229
Period size: 43 Copynumber: 8.8 Consensus size: 43
980766 ATCTTTTTCA
* * * *
980776 AAGTCCAATGTCGCTAGCCTAGAATCAGCACATTGGCACATTT
1 AAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTT
*
980819 AAGTCCAATATCGCTAGCCTCGAATCAGCATATTGGTGCCTTTGTCACCTTT
1 AAGTCCAATATCGCTAGCCTTGAATCAGCATA-T--TG-----G-CACCTTT
*
980871 AAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCGCCTTTTTCATCTTT
1 AAGTCCAATATCGCTAGCCTTGAATCAGCATATT-G-G-------CACCTTT
* * * * *
980923 AAGTCCAATGTCACTAGCCTTGAATCAACACATTGACACCTTT
1 AAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTT
*
980966 AAGTCCAATATTGCTAGCCTTGAATCAGCATATTGGCACCTTT
1 AAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTT
* * ** ** *
981009 ACCA-TCTCTAAGCCCAACGTCGCTGGCCTTGAATCAGCACGTTGTTATCTTT
1 A--AGTC-C-AA----TA--TCGCTAGCCTTGAATCAGCATATTGGCACCTTT
* ** * * ** *
981061 AAGCCCAACGTCGCTGGCCTTGAATCAGCACATTGTTATCTTT
1 AAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTT
* ** * ** * *
981104 AAGCCCAACCTCGCTGGCCTTGAATCAAAACATTGGCTCCTTT
1 AAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTT
*
981147 AAGTCCAATATCGCTAGCTTTGAATCAGCATATTG
1 AAGTCCAATATCGCTAGCCTTGAATCAGCATATTG
981182 ACATCCTTAT
Statistics
Matches: 290, Mismatches: 46, Indels: 54
0.74 0.12 0.14
Matches are distributed among these distances:
43 168 0.58
44 3 0.01
45 2 0.01
46 5 0.02
49 3 0.01
50 4 0.01
51 4 0.01
52 101 0.35
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.31
Consensus pattern (43 bp):
AAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTT
Found at i:980963 original size:95 final size:94
Alignment explanation
Indices: 980864--981201 Score: 359
Period size: 95 Copynumber: 3.6 Consensus size: 94
980854 GTGCCTTTGT
* *
980864 CACCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCGCCTTTTTCATCTTTAAGTCC
1 CACCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCGCC-TTATCATCTTTAAGCCC
* * *
980929 AATGTCACTAGCCTTGAATCAACACATTGA
65 AACGTCGCTGGCCTTGAATCAACACATTGA
* * * *
980959 CACCTTTAAGTCCAATATTGCTAGCCTTGAATCAGCATATTGGCACCTTTACCATCTCTAAGCCC
1 CACCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCGCC-TTATCATCTTTAAGCCC
* * *
981024 AACGTCGCTGGCCTTGAATCAGCACGTTGT
65 AACGTCGCTGGCCTTGAATCAACACATTGA
* * * ** * *
981054 TATCTTTAAGCCCAACGTCGCTGGCCTTGAATCAGCACATT---G---T-T-ATCTTTAAGCCCA
1 CACCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCGCCTTATCATCTTTAAGCCCA
* * *
981111 ACCTCGCTGGCCTTGAATCAAAACATTGG
66 ACGTCGCTGGCCTTGAATCAACACATTGA
* * * *
981140 CTCCTTTAAGTCCAATATCGCTAGCTTTGAATCAGCATATTGACATCCTTATCATCTTTAAG
1 CACCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGC-GCCTTATCATCTTTAAG
981202 TCTAGTGTTG
Statistics
Matches: 196, Mismatches: 38, Indels: 18
0.78 0.15 0.07
Matches are distributed among these distances:
86 68 0.35
88 1 0.01
93 1 0.01
94 1 0.01
95 125 0.64
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.32
Consensus pattern (94 bp):
CACCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCGCCTTATCATCTTTAAGCCCA
ACGTCGCTGGCCTTGAATCAACACATTGA
Found at i:980967 original size:147 final size:147
Alignment explanation
Indices: 980776--981047 Score: 391
Period size: 147 Copynumber: 1.9 Consensus size: 147
980766 ATCTTTTTCA
* * *
980776 AAGTCCAATGTCGCTAGCCTAGAATCAGCACATTGGCACATTTAAGTCCAATATCGCTAGCCTCG
1 AAGTCCAATGTCACTAGCCTAGAATCAACACATTGACACATTTAAGTCCAATATCGCTAGCCTCG
** ** * * *
980841 AATCAGCATATTGGTGCCTTTGTCACCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTG
66 AATCAGCATATTGGCACCTTTACCACCTCTAAGCCCAACATCGCTAGCCTTGAATCAGCATATTG
980906 GCGCCTTTTTCATCTTT
131 GCGCCTTTTTCATCTTT
* * * *
980923 AAGTCCAATGTCACTAGCCTTGAATCAACACATTGACACCTTTAAGTCCAATATTGCTAGCCTTG
1 AAGTCCAATGTCACTAGCCTAGAATCAACACATTGACACATTTAAGTCCAATATCGCTAGCCTCG
* * *
980988 AATCAGCATATTGGCACCTTTACCATCTCTAAGCCCAACGTCGCTGGCCTTGAATCAGCA
66 AATCAGCATATTGGCACCTTTACCACCTCTAAGCCCAACATCGCTAGCCTTGAATCAGCA
981048 CGTTGTTATC
Statistics
Matches: 108, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
147 108 1.00
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.30
Consensus pattern (147 bp):
AAGTCCAATGTCACTAGCCTAGAATCAACACATTGACACATTTAAGTCCAATATCGCTAGCCTCG
AATCAGCATATTGGCACCTTTACCACCTCTAAGCCCAACATCGCTAGCCTTGAATCAGCATATTG
GCGCCTTTTTCATCTTT
Found at i:982865 original size:20 final size:21
Alignment explanation
Indices: 982826--982866 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
982816 ACAGCCCATG
982826 TTCATGCATTTTCAGCTATGT
1 TTCATGCATTTTCAGCTATGT
982847 TTCATGCAATTTT-AG-TATGT
1 TTCATGC-ATTTTCAGCTATGT
982867 CCAACACCTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.26
21 9 0.47
22 5 0.26
ACGTcount: A:0.22, C:0.15, G:0.15, T:0.49
Consensus pattern (21 bp):
TTCATGCATTTTCAGCTATGT
Found at i:986618 original size:13 final size:13
Alignment explanation
Indices: 986578--986629 Score: 62
Period size: 13 Copynumber: 4.5 Consensus size: 13
986568 CCGTTTGAAG
986578 CAATGTATCGATA
1 CAATGTATCGATA
986591 CAA--T-TC-AT-
1 CAATGTATCGATA
986599 C-ATGTATCGATA
1 CAATGTATCGATA
986611 CAATGTATCGATA
1 CAATGTATCGATA
986624 CAATGT
1 CAATGT
986630 GCCATGTATC
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
7 1 0.03
8 1 0.03
9 3 0.09
10 4 0.12
11 3 0.09
12 1 0.03
13 20 0.61
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:986620 original size:33 final size:33
Alignment explanation
Indices: 986578--986646 Score: 106
Period size: 33 Copynumber: 2.1 Consensus size: 33
986568 CCGTTTGAAG
986578 CAATGTATCGATACAAT-T-CATCATGTATCGATA
1 CAATGTATCGATACAATGTGC--CATGTATCGATA
986611 CAATGTATCGATACAATGTGCCATGTATCGATA
1 CAATGTATCGATACAATGTGCCATGTATCGATA
986644 CAA
1 CAA
986647 ACAGTGGTAG
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
33 32 0.94
34 1 0.03
35 1 0.03
ACGTcount: A:0.36, C:0.19, G:0.14, T:0.30
Consensus pattern (33 bp):
CAATGTATCGATACAATGTGCCATGTATCGATA
Found at i:989132 original size:22 final size:21
Alignment explanation
Indices: 989097--989146 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
989087 TTTGTTGATG
*
989097 ATTTTG-A-TGAAAAATGAAGT
1 ATTTTGAAGTGAAAAAT-AAGA
989117 ATTTTGAAGTGAAAAATAAGA
1 ATTTTGAAGTGAAAAATAAGA
*
989138 AATTTGAAG
1 ATTTTGAAG
989147 AAGATTTGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 6 0.23
21 12 0.46
22 8 0.31
ACGTcount: A:0.48, C:0.00, G:0.20, T:0.32
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAATAAGA
Done.