Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold339
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: 1314099
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.34
File 7 of 9
Found at i:902934 original size:19 final size:20
Alignment explanation
Indices: 902890--902942 Score: 81
Period size: 19 Copynumber: 2.7 Consensus size: 20
902880 CTGCCAGTTT
**
902890 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGAA
902910 CATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGAA
902929 CATGTATCGATACA
1 CATGTATCGATACA
902943 TCTGGGTGTG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:907540 original size:89 final size:89
Alignment explanation
Indices: 907328--907604 Score: 332
Period size: 88 Copynumber: 3.1 Consensus size: 89
907318 AAATATAGTT
* * *
907328 GAGTTTCCCCAAGGATAAAATTATATGAA-ACAAAATTTTAAATTTTTGTTAGAA-T-AGGGCTG
1 GAGTTTCCCCAAGAATAAAATTATATGAAGA-AAAA-TTTGAATTTTTGTTAGAACTGA-GGTTG
* * *
907390 GTGTATCCCCTTGAAAG-AAT-GGGATG
63 GAGTAT-CCCTTCAGAGTAATGGGGATG
* *
907416 GAGTTTTCCCAAGAATAAAATTATATGAAGAAAAATTTGAATTTTTATTAGAACTGAGGTTGGAG
1 GAGTTTCCCCAAGAATAAAATTATATGAAGAAAAATTTGAATTTTTGTTAGAACTGAGGTTGGAG
*
907481 TATCCCTTCAGAGTAGTGGGGATG
66 TATCCCTTCAGAGTAATGGGGATG
* * * * *
907505 GAGTTTCCCCAAGAATAAAATTAGACGAAGTAAAATTCGAATTTTTGTTAGAACAG-GGTTGGAG
1 GAGTTTCCCCAAGAATAAAATTATATGAAGAAAAATTTGAATTTTTGTTAGAACTGAGGTTGGAG
* *
907569 TATCCTTTCAGAATAATGGGGATG
66 TATCCCTTCAGAGTAATGGGGATG
907593 GAGTTTCCCCAA
1 GAGTTTCCCCAA
907605 AATTGAAATT
Statistics
Matches: 165, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
87 24 0.15
88 84 0.51
89 57 0.35
ACGTcount: A:0.35, C:0.12, G:0.23, T:0.31
Consensus pattern (89 bp):
GAGTTTCCCCAAGAATAAAATTATATGAAGAAAAATTTGAATTTTTGTTAGAACTGAGGTTGGAG
TATCCCTTCAGAGTAATGGGGATG
Found at i:911894 original size:13 final size:13
Alignment explanation
Indices: 911876--911900 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
911866 CATTTTATGG
911876 TGTATCGATACAA
1 TGTATCGATACAA
911889 TGTATCGATACA
1 TGTATCGATACA
911901 TATTGTGTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:911916 original size:32 final size:33
Alignment explanation
Indices: 911853--911920 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 33
911843 CGTTATAAGC
*
911853 CAATGTATCGATACATTTTATGGTGTATCGATA
1 CAATGTATCGATACATATTATGGTGTATCGATA
*
911886 CAATGTATCGATACATATTGT-GTGTATCGATA
1 CAATGTATCGATACATATTATGGTGTATCGATA
911918 CAA
1 CAA
911921 GTTTGGCTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 14 0.42
33 19 0.58
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (33 bp):
CAATGTATCGATACATATTATGGTGTATCGATA
Found at i:911999 original size:20 final size:21
Alignment explanation
Indices: 911952--912004 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
911942 GCCAATGACT
*
911952 TGTATCGATACATTCTTTTCA
1 TGTATCGATACATTCTGTTCA
*
911973 AGTATCGATACATT-TGGTT-A
1 TGTATCGATACATTCT-GTTCA
911993 TGTATCGATACA
1 TGTATCGATACA
912005 ATGTATCGAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 13 0.46
21 15 0.54
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (21 bp):
TGTATCGATACATTCTGTTCA
Found at i:912010 original size:13 final size:13
Alignment explanation
Indices: 911992--912020 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
911982 ACATTTGGTT
911992 ATGTATCGATACA
1 ATGTATCGATACA
912005 ATGTATCGATACA
1 ATGTATCGATACA
912018 ATG
1 ATG
912021 CAATCTGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:912031 original size:20 final size:20
Alignment explanation
Indices: 912006--912056 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
911996 ATCGATACAA
*
912006 TGTATCGATACAATGCAATC
1 TGTATCGATACAATGAAATC
* * *
912026 TGTATCGATACATTTAAATG
1 TGTATCGATACAATGAAATC
912046 TGTATCGATAC
1 TGTATCGATAC
912057 TTTTTTGGGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (20 bp):
TGTATCGATACAATGAAATC
Found at i:912614 original size:22 final size:21
Alignment explanation
Indices: 912572--912615 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
912562 TTTTCTTTTC
*
912572 TCTCCCCCTTAATCAAAAATT
1 TCTCCCCCTTAATAAAAAATT
*
912593 TCTCCCCCTTAGTAAAATAATT
1 TCTCCCCCTTAATAAAA-AATT
912615 T
1 T
912616 GACAGTTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.32, C:0.30, G:0.02, T:0.36
Consensus pattern (21 bp):
TCTCCCCCTTAATAAAAAATT
Found at i:914301 original size:20 final size:20
Alignment explanation
Indices: 914272--914312 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
914262 TGTTTTTGAT
914272 GATGATTTTG-ATGAAAAAC
1 GATGATTTTGAATGAAAAAC
914291 GATGTATTTTGAAATGAAAAAC
1 GATG-ATTTTG-AATGAAAAAC
914313 AAGAAATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 6 0.32
22 9 0.47
ACGTcount: A:0.44, C:0.05, G:0.20, T:0.32
Consensus pattern (20 bp):
GATGATTTTGAATGAAAAAC
Found at i:920777 original size:20 final size:20
Alignment explanation
Indices: 920754--920804 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
920744 CATTTGGTTA
*
920754 TGTATCGATACAATGCAATC
1 TGTATCGATACAATGAAATC
* * *
920774 TGTATCGATACATTTAAATG
1 TGTATCGATACAATGAAATC
920794 TGTATCGATAC
1 TGTATCGATAC
920805 TTTTTAGGGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (20 bp):
TGTATCGATACAATGAAATC
Found at i:921165 original size:27 final size:27
Alignment explanation
Indices: 921134--921216 Score: 148
Period size: 27 Copynumber: 3.1 Consensus size: 27
921124 CCCCTAAAGG
*
921134 ACTTAAAAAGGATTTTAAAAGGGTTGA
1 ACTTAAAAAGGATTTTAAAAGGGATGA
*
921161 ACTTAAAAAGGATTTTAAAATGGATGA
1 ACTTAAAAAGGATTTTAAAAGGGATGA
921188 ACTTAAAAAGGATTTTAAAAGGGATGA
1 ACTTAAAAAGGATTTTAAAAGGGATGA
921215 AC
1 AC
921217 CTATCCTAAA
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.47, C:0.05, G:0.20, T:0.28
Consensus pattern (27 bp):
ACTTAAAAAGGATTTTAAAAGGGATGA
Found at i:922498 original size:13 final size:13
Alignment explanation
Indices: 922480--922505 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
922470 CAATTTTTTG
922480 TGTATCGATACAT
1 TGTATCGATACAT
922493 TGTATCGATACAT
1 TGTATCGATACAT
922506 ACTTGCTGTA
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:925059 original size:13 final size:13
Alignment explanation
Indices: 925041--925079 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
925031 ATAATCACCC
*
925041 TGTATCGATACAG
1 TGTATCGATACAA
925054 TGTATCGATACAA
1 TGTATCGATACAA
925067 TGTATCGATACAA
1 TGTATCGATACAA
925080 AGAAAAATGT
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:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:925090 original size:20 final size:20
Alignment explanation
Indices: 925065--925143 Score: 77
Period size: 20 Copynumber: 3.7 Consensus size: 20
925055 GTATCGATAC
925065 AATGTATCGATACAAAGAAA
1 AATGTATCGATACAAAGAAA
*
925085 AATGTATCGATACATAGAATTTCCA
1 AATGTATCGATACAAAGAA-----A
* *
925110 GATGTATCGATACACAGAAA
1 AATGTATCGATACAAAGAAA
*
925130 CATGTATCGATACA
1 AATGTATCGATACA
925144 TTTTGGACAT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
20 32 0.64
25 18 0.36
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.25
Consensus pattern (20 bp):
AATGTATCGATACAAAGAAA
Found at i:927178 original size:15 final size:15
Alignment explanation
Indices: 927158--927188 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
927148 ATTTTGTTTG
*
927158 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
927173 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
927188 G
1 G
927189 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:929021 original size:21 final size:21
Alignment explanation
Indices: 928992--929036 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
928982 AAGTTTTCAT
*
928992 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
929012 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
929034 TTT
1 TTT
929037 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:931271 original size:13 final size:13
Alignment explanation
Indices: 931253--931278 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
931243 CAATTTTTTG
931253 TGTATCGATACAT
1 TGTATCGATACAT
931266 TGTATCGATACAT
1 TGTATCGATACAT
931279 ACTTGCTGTA
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:933082 original size:22 final size:23
Alignment explanation
Indices: 933046--933098 Score: 63
Period size: 22 Copynumber: 2.3 Consensus size: 23
933036 TAAGCTTTTT
* *
933046 TTCTTTGCTTTTGCTTGTTGTTTC
1 TTCTTT-CTTTTGCTTGCTATTTC
933070 TTCTTTC-TTTGCTTGCTATTTC
1 TTCTTTCTTTTGCTTGCTATTTC
*
933092 TTTTTTC
1 TTCTTTC
933099 CTCACTTGCT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 19 0.73
23 1 0.04
24 6 0.23
ACGTcount: A:0.02, C:0.19, G:0.11, T:0.68
Consensus pattern (23 bp):
TTCTTTCTTTTGCTTGCTATTTC
Found at i:933450 original size:38 final size:37
Alignment explanation
Indices: 933408--933483 Score: 89
Period size: 38 Copynumber: 2.0 Consensus size: 37
933398 TTCTCCTTAC
* *
933408 TTCTTCGTATACTTTGTTGAACACAGAATTCTTTTTCT
1 TTCTTCGTATACTTTGCTGAA-ACAGAATTCCTTTTCT
* * * *
933446 TTCTTCTTATGCTTTGCTGAAATAGCATTCCTTTTCT
1 TTCTTCGTATACTTTGCTGAAACAGAATTCCTTTTCT
933483 T
1 T
933484 CTACTTCTTT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
37 14 0.44
38 18 0.56
ACGTcount: A:0.18, C:0.20, G:0.11, T:0.51
Consensus pattern (37 bp):
TTCTTCGTATACTTTGCTGAAACAGAATTCCTTTTCT
Found at i:933509 original size:84 final size:84
Alignment explanation
Indices: 933360--933525 Score: 203
Period size: 84 Copynumber: 2.0 Consensus size: 84
933350 TTTCTCCTCC
* * * *
933360 CTTTCATCTTATGCTTTGTTGAAACAGCATTGCTTTTCTTCTCCTTACTTCTTCGTATACTTTGT
1 CTTTCATCTTATGCTTTGCTGAAACAGCATTCCTTTTCTTCTACTTACTTCTTCGCATACTTTGT
933425 TGAACACAGAATT-CTTTTT
66 TGAA-ACAGAATTGCTTTTT
* * * *
933444 CTTTCTTCTTATGCTTTGCTGAAATAGCATTCCTTTTCTTCTACTT-CTTTTGTTCGCATGC-TT
1 CTTTCATCTTATGCTTTGCTGAAACAGCATTCCTTTTCTTCTACTTAC--TTCTTCGCATACTTT
*
933507 GTTGAAATAGAATTGCTTT
64 GTTGAAACAGAATTGCTTT
933526 GCTGCCAATT
Statistics
Matches: 70, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
83 8 0.11
84 53 0.76
85 9 0.13
ACGTcount: A:0.18, C:0.20, G:0.12, T:0.49
Consensus pattern (84 bp):
CTTTCATCTTATGCTTTGCTGAAACAGCATTCCTTTTCTTCTACTTACTTCTTCGCATACTTTGT
TGAAACAGAATTGCTTTTT
Found at i:934125 original size:12 final size:12
Alignment explanation
Indices: 934108--934147 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
934098 CTCCATGCTC
934108 ATGCATGAAAGT
1 ATGCATGAAAGT
**
934120 ATGCATGAAAAC
1 ATGCATGAAAGT
934132 ATGCATGAAATGT
1 ATGCATGAAA-GT
934145 ATG
1 ATG
934148 ATTTTTGTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
12 20 0.87
13 3 0.13
ACGTcount: A:0.42, C:0.10, G:0.23, T:0.25
Consensus pattern (12 bp):
ATGCATGAAAGT
Found at i:939879 original size:73 final size:73
Alignment explanation
Indices: 939693--940413 Score: 610
Period size: 73 Copynumber: 9.9 Consensus size: 73
939683 GCAGAACATT
** * * * * *
939693 TTTTCTTACCTA-C-CAAAGCATACATAAGCTAGTGGCACCTATCTACCTTTAGTCCTCATAGAG
1 TTTTCTTACCTACCACAAAGCCCACACAAGTTGGTGGCACCTATCTACCTCTAGTCCTCAAAGAG
* *
939756 TAAGACAT-T
66 CAAG--ATGC
*** * * * *
939765 TTTTCTTACCTATTGCAAAGCTCACACAAGTCGGAGACACCTATCTACCTCTAGTCCTCAAAGAG
1 TTTTCTTACCTACCACAAAGCCCACACAAGTTGGTGGCACCTATCTACCTCTAGTCCTCAAAGAG
939830 CAAGATGC
66 CAAGATGC
* *
939838 TTTTCTTACCTACCACAAAACCCACACAAGTTGGTGGCACCTATCTACCTCCAGTCCTCAAAGAG
1 TTTTCTTACCTACCACAAAGCCCACACAAGTTGGTGGCACCTATCTACCTCTAGTCCTCAAAGAG
* *
939903 -TAGAATAC
66 CAAG-ATGC
* * * * * * * *
939911 TTTTCTTACTTACCATAAAGCCCACATAAGCTGATGCCAACTATCTACCTCCAGTCCTCAAAGAG
1 TTTTCTTACCTACCACAAAGCCCACACAAGTTGGTGGCACCTATCTACCTCTAGTCCTCAAAGAG
* *
939976 CAAAATGT
66 CAAGATGC
* ** * * * *
939984 TTTTTTTACCTACCACAAAGCCCACACAAGCAGG-GGCACTTATCTACCTCCAGTCCTCAAATAA
1 TTTTCTTACCTACCACAAAGCCCACACAAGTTGGTGGCACCTATCTACCTCTAGTCCTCAAAGAG
*
940048 CAATATGC
66 CAAGATGC
* * * *
940056 TTTT-TGTACCTACCACAAAGCCCACACAAGCTGGTGGCACCTATCTACTTCTAGTTCTCAAATA
1 TTTTCT-TACCTACCACAAAGCCCACACAAGTTGGTGGCACCTATCTACCTCTAGTCCTCAAAGA
**
940120 GCAAGACAC
65 GCAAGATGC
* * * *
940129 TTTTCTTACCTACCATAAAGCCCACACAAGTTGGTAGCACTTAACTACCTCTAGTCCTCAAAGAG
1 TTTTCTTACCTACCACAAAGCCCACACAAGTTGGTGGCACCTATCTACCTCTAGTCCTCAAAGAG
* *
940194 TAGGATGC
66 CAAGATGC
* * * * * * ** * * * *
940202 TTTTTTTTACCTACCGCAAAGCACACACAAGCTAGAGGCATTTATCTACTTCAAGTCCTTAAAAA
1 -TTTTCTTACCTACCACAAAGCCCACACAAGTTGGTGGCACCTATCTACCTCTAGTCCTCAAAGA
* *
940267 GCAGGATGT
65 GCAAGATGC
* * * * * *
940276 TTTTCTTACCTACCATAAAGCCTATACAAGTTGGTGGCACCTATCTACCTCCAGTCCTTAAAGAA
1 TTTTCTTACCTACCACAAAGCCCACACAAGTTGGTGGCACCTATCTACCTCTAGTCCTCAAAGAG
* * **
940341 TAGGATAT
66 CAAGATGC
*** * * * * *
940349 TTTTCTTACCTATTGCAAAGCCCACATAAGTTGTTAGCACCAATCTACCT-TAGTCCACAAAGAG
1 TTTTCTTACCTACCACAAAGCCCACACAAGTTGGTGGCACCTATCTACCTCTAGTCCTCAAAGAG
940413 C
66 C
940414 TGGACTCCTT
Statistics
Matches: 522, Mismatches: 118, Indels: 18
0.79 0.18 0.03
Matches are distributed among these distances:
71 1 0.00
72 88 0.17
73 331 0.63
74 102 0.20
ACGTcount: A:0.31, C:0.28, G:0.13, T:0.28
Consensus pattern (73 bp):
TTTTCTTACCTACCACAAAGCCCACACAAGTTGGTGGCACCTATCTACCTCTAGTCCTCAAAGAG
CAAGATGC
Found at i:940071 original size:218 final size:215
Alignment explanation
Indices: 939693--940412 Score: 709
Period size: 218 Copynumber: 3.3 Consensus size: 215
939683 GCAGAACATT
** * * *
939693 TTTTCTTACCTACC--AAAGCATACATAAGCT-AGTGGCACCTATCTACCTTTAGTCCTCATAGA
1 TTTTCTTACCTACCATAAAGCCCACATAAGCTGA-T-GCAACTATCTACCTCTAGTCCTCAAAGA
* ** * * * *
939755 GTAAGACAT-TTTTTCTTACCTATTGCAAAGCTCACACAAGTC-GGAGACACCTATCTACCTCTA
64 GTAA-A-ATGTTTTTTTTACCTACCGCAAAGCACACACAAG-CAGG-GGCACTTATCTACCTCAA
* *
939818 GTCCTCAAAGAGCAAGATGCTTTTCTTACCTACCACAAAACCCACACAAGTTGGTGGCACCTATC
125 GTCCTCAAA-AACAAGATGCTTTT-TTACCTACCACAAAGCCCACACAAGTTGGTGGCACCTATC
939883 TACCTCCAGTCCTCAAAGAGTAGAATAC
188 TACCTCCAGTCCTCAAAGAGTAGAATAC
* *
939911 TTTTCTTACTTACCATAAAGCCCACATAAGCTGATGCCAACTATCTACCTCCAGTCCTCAAAGAG
1 TTTTCTTACCTACCATAAAGCCCACATAAGCTGATG-CAACTATCTACCTCTAGTCCTCAAAGAG
* * * *
939976 CAAAATGTTTTTTTTACCTACCACAAAGCCCACACAAGCAGGGGCACTTATCTACCTCCAGTCCT
65 TAAAATGTTTTTTTTACCTACCGCAAAGCACACACAAGCAGGGGCACTTATCTACCTCAAGTCCT
* * *
940041 CAAATAACAATATGCTTTTTGTACCTACCACAAAGCCCACACAAGCTGGTGGCACCTATCTACTT
130 CAAA-AACAAGATGCTTTTT-TACCTACCACAAAGCCCACACAAGTTGGTGGCACCTATCTACCT
* * * * *
940106 CTAGTTCTCAAATAGCA-AGACAC
193 CCAGTCCTCAAAGAGTAGA-ATAC
* * * *
940129 TTTTCTTACCTACCATAAAGCCCACACAAGTTGGTAGC-ACTTAACTACCTCTAGTCCTCAAAGA
1 TTTTCTTACCTACCATAAAGCCCACATAAGCTGAT-GCAAC-TATCTACCTCTAGTCCTCAAAGA
** * * *
940193 GTAGGATGCTTTTTTTTACCTACCGCAAAGCACACACAAGCTAGAGGCATTTATCTACTTCAAGT
64 GTAAAATG-TTTTTTTTACCTACCGCAAAGCACACACAAGC-AGGGGCACTTATCTACCTCAAGT
* * * * * *
940258 CCTTAAAAAGCAGGATGTTTTTCTTACCTACCATAAAGCCTATACAAGTTGGTGGCACCTATCTA
127 CCTCAAAAA-CAAGATGCTTTT-TTACCTACCACAAAGCCCACACAAGTTGGTGGCACCTATCTA
* * * *
940323 CCTCCAGTCCTTAAAGAATAGGATAT
190 CCTCCAGTCCTCAAAGAGTAGAATAC
**** * * * * *
940349 TTTTCTTACCTATTGCAAAGCCCACATAAGTTGTTAGCACCAATCTACCT-TAGTCCACAAAGAG
1 TTTTCTTACCTACCATAAAGCCCACATAAGCTGAT-GCAACTATCTACCTCTAGTCCTCAAAGAG
940413 CTGGACTCCT
Statistics
Matches: 416, Mismatches: 70, Indels: 31
0.80 0.14 0.06
Matches are distributed among these distances:
217 4 0.01
218 167 0.40
219 76 0.18
220 166 0.40
221 3 0.01
ACGTcount: A:0.31, C:0.28, G:0.13, T:0.28
Consensus pattern (215 bp):
TTTTCTTACCTACCATAAAGCCCACATAAGCTGATGCAACTATCTACCTCTAGTCCTCAAAGAGT
AAAATGTTTTTTTTACCTACCGCAAAGCACACACAAGCAGGGGCACTTATCTACCTCAAGTCCTC
AAAAACAAGATGCTTTTTTACCTACCACAAAGCCCACACAAGTTGGTGGCACCTATCTACCTCCA
GTCCTCAAAGAGTAGAATAC
Found at i:940087 original size:145 final size:145
Alignment explanation
Indices: 939805--940340 Score: 585
Period size: 145 Copynumber: 3.7 Consensus size: 145
939795 TCGGAGACAC
*
939805 CTATCTACCTCTAGTCCTCAAAGAGCAAGATGCTTTTCTTACCTACCACAAAACCCACACAAGTT
1 CTATCTACCTCTAGTCCTCAAAGAGCAAGATGCTTTTCTTACCTACCACAAAGCCCACACAAGTT
* * *
939870 GGTGGCACCTATCTACCTCCAGTCCTCAAAGAGTAGAATA--CTTTTCTTACTTACCATAAAGCC
66 GGTGGCACCTATCTACCTCCAGTCCTCAAAGA--ACAATATGCTTTT-TTACCTACCACAAAGCC
* *
939933 CACATAAGCTGATGCCAA
128 CACACAAGCTGATGGCAA
* * * * **
939951 CTATCTACCTCCAGTCCTCAAAGAGCAAAATGTTTTTTTTACCTACCACAAAGCCCACACAAGCA
1 CTATCTACCTCTAGTCCTCAAAGAGCAAGATGCTTTTCTTACCTACCACAAAGCCCACACAAGTT
* *
940016 GG-GGCACTTATCTACCTCCAGTCCTCAAATAACAATATGCTTTTTGTACCTACCACAAAGCCCA
66 GGTGGCACCTATCTACCTCCAGTCCTCAAAGAACAATATGCTTTTT-TACCTACCACAAAGCCCA
* *
940080 CACAAGCTGGTGGCAC
130 CACAAGCTGATGGCAA
* * * ** *
940096 CTATCTACTTCTAGTTCTCAAATAGCAAGACACTTTTCTTACCTACCATAAAGCCCACACAAGTT
1 CTATCTACCTCTAGTCCTCAAAGAGCAAGATGCTTTTCTTACCTACCACAAAGCCCACACAAGTT
* * * * ** ** * *
940161 GGTAGCACTTAACTACCTCTAGTCCTCAAAGAGTAGGATGCTTTTTTTTACCTACCGCAAAGCAC
66 GGTGGCACCTATCTACCTCCAGTCCTCAAAGAACAATATGC--TTTTTTACCTACCACAAAGCCC
*
940226 ACACAAGCTAGA-GGCAT
129 ACACAAGCT-GATGGCAA
* * * * * * * * * *
940243 TTATCTACTTCAAGTCCTTAAAAAGCAGGATGTTTTTCTTACCTACCATAAAGCCTATACAAGTT
1 CTATCTACCTCTAGTCCTCAAAGAGCAAGATGCTTTTCTTACCTACCACAAAGCCCACACAAGTT
*
940308 GGTGGCACCTATCTACCTCCAGTCCTTAAAGAA
66 GGTGGCACCTATCTACCTCCAGTCCTCAAAGAA
940341 TAGGATATTT
Statistics
Matches: 326, Mismatches: 57, Indels: 13
0.82 0.14 0.03
Matches are distributed among these distances:
143 5 0.02
144 1 0.00
145 115 0.35
146 90 0.28
147 109 0.33
148 6 0.02
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (145 bp):
CTATCTACCTCTAGTCCTCAAAGAGCAAGATGCTTTTCTTACCTACCACAAAGCCCACACAAGTT
GGTGGCACCTATCTACCTCCAGTCCTCAAAGAACAATATGCTTTTTTACCTACCACAAAGCCCAC
ACAAGCTGATGGCAA
Found at i:940280 original size:147 final size:146
Alignment explanation
Indices: 939692--940413 Score: 663
Period size: 147 Copynumber: 5.0 Consensus size: 146
939682 AGCAGAACAT
** * * * ** *
939692 TTTTTCTTACCTA-C-CAAAGCATACATAAGCTAGTGGCACCTATCTACCTTTAGTCCTCATAGA
1 TTTTTCTTACCTACCACAAAGCCCACACAAGTTGGTGGCACCTATCTACCTCCAGTCCTCAAAGA
* ** * *
939755 GTAAGA-CATTTTTTCTTACCTATTGCAAAGCTCACACAAG-TCGGAGACACCTATCTACCTCTA
66 GTAGGATC-TTTTTT-TTACCTACCGCAAAGCCCACACAAGCT-GGAGGCACCTATCTACCTCTA
939818 GTCCTCAAAGAGCAAGATG
128 GTCCTCAAAGAGCAAGATG
* *
939837 CTTTTCTTACCTACCACAAAACCCACACAAGTTGGTGGCACCTATCTACCTCCAGTCCTCAAAGA
1 TTTTTCTTACCTACCACAAAGCCCACACAAGTTGGTGGCACCTATCTACCTCCAGTCCTCAAAGA
* * * ** * * * *
939902 GTAGAATAC-TTTTCTTACTTACCATAAAGCCCACATAAGCT-GATGCCAACTATCTACCTCCAG
66 GTAGGAT-CTTTTTTTTACCTACCGCAAAGCCCACACAAGCTGGA-GGCACCTATCTACCTCTAG
*
939965 TCCTCAAAGAGCAAAATG
129 TCCTCAAAGAGCAAGATG
* ** * *
939983 TTTTTTTTACCTACCACAAAGCCCACACAAGCAGG-GGCACTTATCTACCTCCAGTCCTCAAATA
1 TTTTTCTTACCTACCACAAAGCCCACACAAGTTGGTGGCACCTATCTACCTCCAGTCCTCAAAGA
** ** * * * *
940047 ACAATATGC-TTTTTGTACCTACCACAAAGCCCACACAAGCTGGTGGCACCTATCTACTTCTAGT
66 GTAGGAT-CTTTTTTTTACCTACCGCAAAGCCCACACAAGCTGGAGGCACCTATCTACCTCTAGT
* * **
940111 TCTCAAATAGCAAGACA
130 CCTCAAAGAGCAAGATG
* * * * * *
940128 CTTTTCTTACCTACCATAAAGCCCACACAAGTTGGTAGCACTTAACTACCTCTAGTCCTCAAAGA
1 TTTTTCTTACCTACCACAAAGCCCACACAAGTTGGTGGCACCTATCTACCTCCAGTCCTCAAAGA
* * ** * *
940193 GTAGGATGCTTTTTTTTACCTACCGCAAAGCACACACAAGCTAGAGGCATTTATCTACTTCAAGT
66 GTAGGAT-CTTTTTTTTACCTACCGCAAAGCCCACACAAGCTGGAGGCACCTATCTACCTCTAGT
* * *
940258 CCTTAAAAAGCAGGATG
130 CCTCAAAGAGCAAGATG
* * * *
940275 TTTTTCTTACCTACCATAAAGCCTATACAAGTTGGTGGCACCTATCTACCTCCAGTCCTTAAAGA
1 TTTTTCTTACCTACCACAAAGCCCACACAAGTTGGTGGCACCTATCTACCTCCAGTCCTCAAAGA
* * * ** * * * *
940340 ATAGGATATTTTTCTTACCTATTGCAAAGCCCACATAAGTTGTTA-GCACCAATCTACCT-TAGT
66 GTAGGATCTTTTTTTTACCTACCGCAAAGCCCACACAAGCTG-GAGGCACCTATCTACCTCTAGT
*
940403 CCACAAAGAGC
130 CCTCAAAGAGC
940414 TGGACTCCTT
Statistics
Matches: 463, Mismatches: 104, Indels: 20
0.79 0.18 0.03
Matches are distributed among these distances:
145 141 0.30
146 150 0.32
147 171 0.37
149 1 0.00
ACGTcount: A:0.31, C:0.28, G:0.13, T:0.28
Consensus pattern (146 bp):
TTTTTCTTACCTACCACAAAGCCCACACAAGTTGGTGGCACCTATCTACCTCCAGTCCTCAAAGA
GTAGGATCTTTTTTTTACCTACCGCAAAGCCCACACAAGCTGGAGGCACCTATCTACCTCTAGTC
CTCAAAGAGCAAGATG
Found at i:941895 original size:21 final size:21
Alignment explanation
Indices: 941870--941909 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
941860 CAAAAACCCT
*
941870 TCCAAAAACTTACATTTCCTA
1 TCCAAAAACCTACATTTCCTA
*
941891 TCCAAAAACCTGCATTTCC
1 TCCAAAAACCTACATTTCC
941910 ACCCTTATTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.35, C:0.33, G:0.03, T:0.30
Consensus pattern (21 bp):
TCCAAAAACCTACATTTCCTA
Found at i:943818 original size:33 final size:33
Alignment explanation
Indices: 943776--943840 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
943766 CTGGAAGCAA
*
943776 TGTATCGATACAAT-TCATCATGTATTGATACAT
1 TGTATCGATACAATAT-ACCATGTATTGATACAT
943809 TGTATCGATACAATATACCATGTATTGATACA
1 TGTATCGATACAATATACCATGTATTGATACA
943841 AACAGTGGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.37
Consensus pattern (33 bp):
TGTATCGATACAATATACCATGTATTGATACAT
Found at i:943897 original size:20 final size:20
Alignment explanation
Indices: 943868--943924 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 20
943858 TACTGCCAGT
*
943868 TTCATATATCGATACAATTG
1 TTCATGTATCGATACAATTG
943888 TTCATGTATCGATACAA-TG
1 TTCATGTATCGATACAATTG
**
943907 AACATGTATCGATACAAT
1 TTCATGTATCGATACAAT
943925 GTATCGATAC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (20 bp):
TTCATGTATCGATACAATTG
Found at i:943928 original size:13 final size:13
Alignment explanation
Indices: 943910--943936 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
943900 TACAATGAAC
943910 ATGTATCGATACA
1 ATGTATCGATACA
943923 ATGTATCGATACA
1 ATGTATCGATACA
943936 A
1 A
943937 AGCATAATGT
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):
ATGTATCGATACA
Found at i:944027 original size:71 final size:71
Alignment explanation
Indices: 943939--944097 Score: 291
Period size: 71 Copynumber: 2.2 Consensus size: 71
943929 CGATACAAAG
*
943939 CATAATGTATCGATACATTTAGGTGTGTATCGATACATTCAAGGGGTTTGACCTTTGTAGCTTAA
1 CATAATGTATCGATACATCTAGGTGTGTATCGATACATTCAAGGGGTTTGACCTTTGTAGCTTAA
944004 GTCAAC
66 GTCAAC
* *
944010 CATAATGTATCGATACATCTGGGTGTGTATCGATACATTCAAGGGTTTTGACCTTTGTAGCTTAA
1 CATAATGTATCGATACATCTAGGTGTGTATCGATACATTCAAGGGGTTTGACCTTTGTAGCTTAA
944075 GTCAAC
66 GTCAAC
944081 CATAATGTATCGATACA
1 CATAATGTATCGATACA
944098 AATACCTATG
Statistics
Matches: 85, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 85 1.00
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (71 bp):
CATAATGTATCGATACATCTAGGTGTGTATCGATACATTCAAGGGGTTTGACCTTTGTAGCTTAA
GTCAAC
Found at i:944110 original size:71 final size:71
Alignment explanation
Indices: 943939--944115 Score: 282
Period size: 71 Copynumber: 2.5 Consensus size: 71
943929 CGATACAAAG
*
943939 CATAATGTATCGATACATTTAGGTGTGTATCGATACATTCAAGGGGTTTGACCTTTGTAGCTTAA
1 CATAATGTATCGATACATATAGGTGTGTATCGATACATTCAAGGGGTTTGACCTTTGTAGCTTAA
944004 GTCAAC
66 GTCAAC
* * *
944010 CATAATGTATCGATACATCTGGGTGTGTATCGATACATTCAAGGGTTTTGACCTTTGTAGCTTAA
1 CATAATGTATCGATACATATAGGTGTGTATCGATACATTCAAGGGGTTTGACCTTTGTAGCTTAA
944075 GTCAAC
66 GTCAAC
* ** *
944081 CATAATGTATCGATACAAATACCTATGTATCGATA
1 CATAATGTATCGATACATATAGGTGTGTATCGATA
944116 TTTTGAAGTA
Statistics
Matches: 97, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
71 97 1.00
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.34
Consensus pattern (71 bp):
CATAATGTATCGATACATATAGGTGTGTATCGATACATTCAAGGGGTTTGACCTTTGTAGCTTAA
GTCAAC
Found at i:946566 original size:19 final size:19
Alignment explanation
Indices: 946542--946629 Score: 93
Period size: 19 Copynumber: 4.9 Consensus size: 19
946532 TTTCAACGAT
946542 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
946561 TTGTATCGATACAATACA-TG
1 TTGTATCGATAC-ATA-AGTG
946581 TTGTATCGATAC---A---
1 TTGTATCGATACATAAGTG
*
946594 TTGTATCGATACATAAGTT
1 TTGTATCGATACATAAGTG
946613 TTGTATCGATACA-AAGT
1 TTGTATCGATACATAAGT
946630 ATCGCTACGA
Statistics
Matches: 61, Mismatches: 0, Indels: 17
0.78 0.00 0.22
Matches are distributed among these distances:
13 12 0.20
15 1 0.02
16 1 0.02
18 4 0.07
19 25 0.41
20 17 0.28
21 1 0.02
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:946594 original size:15 final size:14
Alignment explanation
Indices: 946574--946607 Score: 52
Period size: 13 Copynumber: 2.4 Consensus size: 14
946564 TATCGATACA
946574 ATACATGTTGTATCG
1 ATACAT-TTGTATCG
946589 ATACA-TTGTATCG
1 ATACATTTGTATCG
946602 ATACAT
1 ATACAT
946608 AAGTTTTGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 13 0.72
15 5 0.28
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (14 bp):
ATACATTTGTATCG
Found at i:946599 original size:13 final size:13
Alignment explanation
Indices: 946581--946607 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
946571 ACAATACATG
946581 TTGTATCGATACA
1 TTGTATCGATACA
946594 TTGTATCGATACA
1 TTGTATCGATACA
946607 T
1 T
946608 AAGTTTTGTA
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:946622 original size:32 final size:33
Alignment explanation
Indices: 946561--946625 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 33
946551 TACATAAGTG
946561 TTGTATCGATACAATACATGTTGTATCGATACA
1 TTGTATCGATACAATACATGTTGTATCGATACA
*
946594 TTGTATCGATAC-ATA-AGTTTTGTATCGATACA
1 TTGTATCGATACAATACA-TGTTGTATCGATACA
946626 AAGTATCGCT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 1 0.03
32 17 0.57
33 12 0.40
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.38
Consensus pattern (33 bp):
TTGTATCGATACAATACATGTTGTATCGATACA
Found at i:946632 original size:32 final size:33
Alignment explanation
Indices: 946563--946633 Score: 92
Period size: 32 Copynumber: 2.2 Consensus size: 33
946553 CATAAGTGTT
**
946563 GTATCGATACAATACATGTTGTATCGATACATT
1 GTATCGATACAATACATGTTGTATCGATACAAA
*
946596 GTATCGATAC-ATA-AGTTTTGTATCGATACAAA
1 GTATCGATACAATACA-TGTTGTATCGATACAAA
946628 GTATCG
1 GTATCG
946634 CTACGAAGCT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
31 1 0.03
32 23 0.68
33 10 0.29
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.35
Consensus pattern (33 bp):
GTATCGATACAATACATGTTGTATCGATACAAA
Found at i:946765 original size:52 final size:52
Alignment explanation
Indices: 946701--946812 Score: 206
Period size: 52 Copynumber: 2.2 Consensus size: 52
946691 TGTATCGATG
*
946701 CAGGCAAATTTGCCCAGATGTATCGATACACTATGAAATGTATCGATACATA
1 CAGGCAAATTTGCCCAGATGTATCGATAAACTATGAAATGTATCGATACATA
*
946753 CAGGCAAATTTGCCCAGATGTATCGATAAACTATGAAATGTATCGATACATG
1 CAGGCAAATTTGCCCAGATGTATCGATAAACTATGAAATGTATCGATACATA
946805 CAGGCAAA
1 CAGGCAAA
946813 ATTTCATATT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 58 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.25
Consensus pattern (52 bp):
CAGGCAAATTTGCCCAGATGTATCGATAAACTATGAAATGTATCGATACATA
Found at i:950772 original size:51 final size:51
Alignment explanation
Indices: 950703--951050 Score: 299
Period size: 51 Copynumber: 6.8 Consensus size: 51
950693 TTTTCTACTT
** * * * *
950703 AGTGCTAGCTCGTGTGGACTTAGACTATATAGGGCTTGACCTCCTTATATA
1 AGTGCTAGCTAATATGGACTTTGACTCTATAAGGCTTGACCTCCTTATATA
* * * *
950754 AGTGGTAGCTAATATGGACTTTGACTTTATAAGGCTTGACCTCTTTATACA
1 AGTGCTAGCTAATATGGACTTTGACTCTATAAGGCTTGACCTCCTTATATA
* * * * *
950805 AGTGTTAGTTAATATGGACTTTGACTCTATAGGGCTTGACCTCCCTATGTA
1 AGTGCTAGCTAATATGGACTTTGACTCTATAAGGCTTGACCTCCTTATATA
* * *
950856 AATGCTAGCTAATGTGGACTTTGACTAC-ATAAGACTTGACCTCCTTATATA
1 AGTGCTAGCTAATATGGACTTTGACT-CTATAAGGCTTGACCTCCTTATATA
* * * ** * *
950907 AGTGCTAGCTAATGTAGAATTTGACTCTATTGGGCTTAACCT-CTAGATATA
1 AGTGCTAGCTAATATGGACTTTGACTCTATAAGGCTTGACCTCCT-TATATA
* * * *
950958 GGTGCCAGCTAATATGGA-TTTAGACTCTATAAGGCTT-ACCCTCCCTATACA
1 AGTGCTAGCTAATATGGACTTT-GACTCTATAAGGCTTGA-CCTCCTTATATA
* * * * * * * *
951009 AGTGCCAACTAATGTTGAATTTGACTTTATAGGGCTTAACCT
1 AGTGCTAGCTAATATGGACTTTGACTCTATAAGGCTTGACCT
951051 TCCTACACAA
Statistics
Matches: 241, Mismatches: 48, Indels: 16
0.79 0.16 0.05
Matches are distributed among these distances:
50 7 0.03
51 228 0.95
52 6 0.02
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (51 bp):
AGTGCTAGCTAATATGGACTTTGACTCTATAAGGCTTGACCTCCTTATATA
Found at i:950984 original size:153 final size:153
Alignment explanation
Indices: 950705--951005 Score: 372
Period size: 153 Copynumber: 2.0 Consensus size: 153
950695 TTCTACTTAG
** * * * * *
950705 TGCTAGCTCGTGTGGACTTAGACTATATAGGGCTTGACCTCCTTATATAAGTGGTAGCTAATATG
1 TGCTAGCTAATGTGGACTTAGACTACATAAGACTTGACCTCCTTATATAAGTGCTAGCTAATATA
* * * ** ** *
950770 GACTTTGACTTTATAAGGCTTGACCTCTTTATACAAGTGTTAGTTAATATGGACTTTGACTCTAT
66 GAATTTGACTCTATAAGGCTTAACCTCTAGATACAAGTGCCAGCTAATATGGACTTTGACTCTAT
*
950835 AGGGCTTGA-CCTCCCTATGTAAA
131 AAGGCTT-ACCCTCCCTATGTAAA
* *
950858 TGCTAGCTAATGTGGACTTTGACTACATAAGACTTGACCTCCTTATATAAGTGCTAGCTAATGTA
1 TGCTAGCTAATGTGGACTTAGACTACATAAGACTTGACCTCCTTATATAAGTGCTAGCTAATATA
** * *
950923 GAATTTGACTCTATTGGGCTTAACCTCTAGATATAGGTGCCAGCTAATATGGA-TTTAGACTCTA
66 GAATTTGACTCTATAAGGCTTAACCTCTAGATACAAGTGCCAGCTAATATGGACTTT-GACTCTA
950987 TAAGGCTTACCCTCCCTAT
130 TAAGGCTTACCCTCCCTAT
951006 ACAAGTGCCA
Statistics
Matches: 124, Mismatches: 22, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
152 4 0.03
153 120 0.97
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.35
Consensus pattern (153 bp):
TGCTAGCTAATGTGGACTTAGACTACATAAGACTTGACCTCCTTATATAAGTGCTAGCTAATATA
GAATTTGACTCTATAAGGCTTAACCTCTAGATACAAGTGCCAGCTAATATGGACTTTGACTCTAT
AAGGCTTACCCTCCCTATGTAAA
Found at i:951061 original size:51 final size:50
Alignment explanation
Indices: 950923--951101 Score: 173
Period size: 51 Copynumber: 3.5 Consensus size: 50
950913 AGCTAATGTA
* * * * *
950923 GAATTTGACTCTATTGGGCTTAACC-T-CTAGATATAGGTGCCAGCTAATAT
1 GAATTTGACTCTATAGGGCTTAACCTTCCTACACA-A-GTGCCAACTAATTT
* * * * *
950973 GGATTTAGACTCTATAAGGCTTACCCTCCCTATACAAGTGCCAACTAATGTT
1 GAATTT-GACTCTATAGGGCTTAACCTTCCTACACAAGTGCCAACTAAT-TT
* *
951025 GAATTTGACTTTATAGGGCTTAACCTTCCTACACAAGTGCCAACTAGTTT
1 GAATTTGACTCTATAGGGCTTAACCTTCCTACACAAGTGCCAACTAATTT
* *
951075 GGATTTTAACTCTATAGGGCTTAACCT
1 -GAATTTGACTCTATAGGGCTTAACCT
951102 CTTGAAAGCT
Statistics
Matches: 105, Mismatches: 19, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
50 7 0.07
51 86 0.82
52 7 0.07
53 5 0.05
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (50 bp):
GAATTTGACTCTATAGGGCTTAACCTTCCTACACAAGTGCCAACTAATTT
Found at i:951063 original size:153 final size:153
Alignment explanation
Indices: 950814--951103 Score: 325
Period size: 153 Copynumber: 1.9 Consensus size: 153
950804 AAGTGTTAGT
* ** * * *
950814 TAATATGGACTTTGACTCTATAGGGCTTGACCTCCCTATGTAAATGCTAGCTAATGTGGACTTTG
1 TAATATGGACTTTGACTCTATAAGGCTTGACCTCCCTATACAAATGCCAACTAATGTGGAATTTG
* * * * * * *
950879 ACTACATAAGACTTGACCTCCTTATATAAGTGCTAGCTAATGTAGAATTTGACTCTATTGGGCTT
66 ACTACATAAGACTTAACCTCCTTACACAAGTGCCAACTAATGTAGAATTTAACTCTATAGGGCTT
950944 AACCTCTAGATATAGGTGCCAGC
131 AACCTCTAGATATAGGTGCCAGC
* *
950967 TAATATGGA-TTTAGACTCTATAAGGCTT-ACCCTCCCTATACAAGTGCCAACTAATGTTGAATT
1 TAATATGGACTTT-GACTCTATAAGGCTTGA-CCTCCCTATACAAATGCCAACTAATGTGGAATT
** * * * * * *
951030 TGACTTTATAGGGCTTAACCTTCC-TACACAAGTGCCAACTAGTTTGGATTTTAACTCTATAGGG
64 TGACTACATAAGACTTAACC-TCCTTACACAAGTGCCAACTAATGTAGAATTTAACTCTATAGGG
951094 CTTAACCTCT
128 CTTAACCTCT
951104 TGAAAGCTTA
Statistics
Matches: 111, Mismatches: 23, Indels: 6
0.79 0.16 0.04
Matches are distributed among these distances:
152 4 0.04
153 104 0.94
154 3 0.03
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.34
Consensus pattern (153 bp):
TAATATGGACTTTGACTCTATAAGGCTTGACCTCCCTATACAAATGCCAACTAATGTGGAATTTG
ACTACATAAGACTTAACCTCCTTACACAAGTGCCAACTAATGTAGAATTTAACTCTATAGGGCTT
AACCTCTAGATATAGGTGCCAGC
Found at i:951065 original size:102 final size:101
Alignment explanation
Indices: 950725--951102 Score: 350
Period size: 102 Copynumber: 3.7 Consensus size: 101
950715 TGTGGACTTA
* * ** *
950725 GACTATATAGGGCTTGACCTCCTTATATAAGTGGTAGCTAATATGGACTTTGACTTTATAAGGCT
1 GACTCTATAGGGCTTAACCTCC-TATATAAGTGCCAGCTAATATGGACTTTGACTCTATAAGGCT
* * * * * *
950790 TGACCTCTTTATACAAGTGTTAGTTAATATGGACTTT
65 TGACCTCCTTATACAAGTGCTAGCTAATGTAGAATTT
* * * * * *
950827 GACTCTATAGGGCTTGACCTCCCTATGTAAATGCTAGCTAATGTGGACTTTGACTAC-ATAAGAC
1 GACTCTATAGGGCTTAACCT-CCTATATAAGTGCCAGCTAATATGGACTTTGACT-CTATAAGGC
*
950891 TTGACCTCCTTATATAAGTGCTAGCTAATGTAGAATTT
64 TTGACCTCCTTATACAAGTGCTAGCTAATGTAGAATTT
* *
950929 GACTCTATTGGGCTTAACCT-CTAGATATAGGTGCCAGCTAATATGGA-TTTAGACTCTATAAGG
1 GACTCTATAGGGCTTAACCTCCT--ATATAAGTGCCAGCTAATATGGACTTT-GACTCTATAAGG
* * * *
950992 CTT-ACCCTCCCTATACAAGTGCCAACTAATGTTGAATTT
63 CTTGA-CCTCCTTATACAAGTGCTAGCTAATGTAGAATTT
* * * * * * * * *
951031 GACTTTATAGGGCTTAACCTTCCTACACAAGTGCCAACTAGTTTGGATTTTAACTCTATAGGGCT
1 GACTCTATAGGGCTTAACC-TCCTATATAAGTGCCAGCTAATATGGACTTTGACTCTATAAGGCT
*
951096 TAACCTC
65 TGACCTC
951103 TTGAAAGCTT
Statistics
Matches: 228, Mismatches: 37, Indels: 22
0.79 0.13 0.08
Matches are distributed among these distances:
100 2 0.01
101 5 0.02
102 212 0.93
103 7 0.03
104 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (101 bp):
GACTCTATAGGGCTTAACCTCCTATATAAGTGCCAGCTAATATGGACTTTGACTCTATAAGGCTT
GACCTCCTTATACAAGTGCTAGCTAATGTAGAATTT
Found at i:951868 original size:13 final size:13
Alignment explanation
Indices: 951850--951875 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
951840 CAATTTTTTG
951850 TGTATCGATACAT
1 TGTATCGATACAT
951863 TGTATCGATACAT
1 TGTATCGATACAT
951876 ACTTGCTGTA
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:951960 original size:20 final size:20
Alignment explanation
Indices: 951935--952007 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
951925 CATCCTTTTT
951935 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
951955 ATGTATCGATACATTTTTTTC
1 ATGTATCGATACA-TTGCAAC
951976 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
951996 ATGTATCGATAC
1 ATGTATCGATAC
952008 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:0.18, G:0.14, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:951980 original size:21 final size:21
Alignment explanation
Indices: 951914--951990 Score: 86
Period size: 21 Copynumber: 3.7 Consensus size: 21
951904 CTGCCAAGAA
*
951914 ATGTATCGATACATCCTTTTT-
1 ATGTATCGATACAT-TTTTTTC
****
951935 ATGTATCGATACA-TTGCAAC
1 ATGTATCGATACATTTTTTTC
951955 ATGTATCGATACATTTTTTTC
1 ATGTATCGATACATTTTTTTC
951976 ATGTATCGATACATT
1 ATGTATCGATACATT
951991 GCAACATGTA
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
19 1 0.02
20 13 0.29
21 31 0.69
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.43
Consensus pattern (21 bp):
ATGTATCGATACATTTTTTTC
Found at i:951980 original size:41 final size:41
Alignment explanation
Indices: 951914--952007 Score: 163
Period size: 41 Copynumber: 2.3 Consensus size: 41
951904 CTGCCAAGAA
951914 ATGTATCGATACATCCTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCCTTTTTATGTATCGATACATTGCAAC
*
951955 ATGTATCGATACAT-TTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCCTTTTT-ATGTATCGATACATTGCAAC
951996 ATGTATCGATAC
1 ATGTATCGATAC
952008 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
40 5 0.10
41 46 0.90
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCCTTTTTATGTATCGATACATTGCAAC
Found at i:952613 original size:48 final size:48
Alignment explanation
Indices: 952558--952653 Score: 192
Period size: 48 Copynumber: 2.0 Consensus size: 48
952548 AAATTTTACG
952558 AATTTGTACATTCTCCCCCTTAATAAGGTAATTCACGCATTCTCTCCT
1 AATTTGTACATTCTCCCCCTTAATAAGGTAATTCACGCATTCTCTCCT
952606 AATTTGTACATTCTCCCCCTTAATAAGGTAATTCACGCATTCTCTCCT
1 AATTTGTACATTCTCCCCCTTAATAAGGTAATTCACGCATTCTCTCCT
952654 TTATCTCCCC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.25, C:0.29, G:0.08, T:0.38
Consensus pattern (48 bp):
AATTTGTACATTCTCCCCCTTAATAAGGTAATTCACGCATTCTCTCCT
Found at i:954512 original size:13 final size:13
Alignment explanation
Indices: 954494--954532 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
954484 ATAATCACCC
*
954494 TGTATCGATACAG
1 TGTATCGATACAA
954507 TGTATCGATACAA
1 TGTATCGATACAA
954520 TGTATCGATACAA
1 TGTATCGATACAA
954533 GGAAAAATGT
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:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:956631 original size:15 final size:15
Alignment explanation
Indices: 956611--956641 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
956601 ATTTCGTTTG
*
956611 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
956626 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
956641 G
1 G
956642 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:960722 original size:13 final size:13
Alignment explanation
Indices: 960704--960729 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
960694 CAATTTTTTG
960704 TGTATCGATACAT
1 TGTATCGATACAT
960717 TGTATCGATACAT
1 TGTATCGATACAT
960730 ACTTGCTGTA
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:960814 original size:20 final size:20
Alignment explanation
Indices: 960789--960861 Score: 92
Period size: 20 Copynumber: 3.6 Consensus size: 20
960779 CATCCTTTTT
960789 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
960809 ATGTATCGATACATTTTTTTC
1 ATGTATCGATACA-TTGCAAC
*
960830 ATGTATCGATATATTGCAAC
1 ATGTATCGATACATTGCAAC
960850 ATGTATCGATAC
1 ATGTATCGATAC
960862 TTTGAATTGT
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
20 27 0.64
21 15 0.36
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:960834 original size:21 final size:21
Alignment explanation
Indices: 960768--960840 Score: 78
Period size: 21 Copynumber: 3.5 Consensus size: 21
960758 CTGCCAAGAA
*
960768 ATGTATCGATACATCCTTTTT-
1 ATGTATCGATACAT-TTTTTTC
****
960789 ATGTATCGATACA-TTGCAAC
1 ATGTATCGATACATTTTTTTC
960809 ATGTATCGATACATTTTTTTC
1 ATGTATCGATACATTTTTTTC
960830 ATGTATCGATA
1 ATGTATCGATA
960841 TATTGCAACA
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
19 1 0.02
20 13 0.32
21 27 0.66
ACGTcount: A:0.29, C:0.16, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATTTTTTTC
Found at i:960834 original size:41 final size:41
Alignment explanation
Indices: 960768--960861 Score: 154
Period size: 41 Copynumber: 2.3 Consensus size: 41
960758 CTGCCAAGAA
960768 ATGTATCGATACATCCTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCCTTTTTATGTATCGATACATTGCAAC
* *
960809 ATGTATCGATACAT-TTTTTTCATGTATCGATATATTGCAAC
1 ATGTATCGATACATCCTTTTT-ATGTATCGATACATTGCAAC
960850 ATGTATCGATAC
1 ATGTATCGATAC
960862 TTTGAATTGT
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
40 5 0.10
41 45 0.90
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (41 bp):
ATGTATCGATACATCCTTTTTATGTATCGATACATTGCAAC
Found at i:961228 original size:51 final size:51
Alignment explanation
Indices: 961152--961374 Score: 225
Period size: 51 Copynumber: 4.4 Consensus size: 51
961142 AGATCCTAAC
* * * *
961152 ACCTCTCTATAC-AGCTACTAGCTAATATGGATTTTAACTCTATAAAGCTTG
1 ACCTCCCTATACAAG-TGCTAGCTAATATGGACTTTAACTCTATAAGGCTTG
*
961203 ACCTCCCTATAGAAGTGCTAGCTAATATGGACTTTAACTCTATAAGGCTTG
1 ACCTCCCTATACAAGTGCTAGCTAATATGGACTTTAACTCTATAAGGCTTG
* * * * *
961254 CCCTCCCTATATAAATGCTAACTAATATGGACTTTAACTCTATAGGGCTTG
1 ACCTCCCTATACAAGTGCTAGCTAATATGGACTTTAACTCTATAAGGCTTG
** * ** * * * *
961305 ACCTTTCTATACAGGTGCTAGCTAAT-TCAAACTTTGACTCTGTAGGGCTTA
1 ACCTCCCTATACAAGTGCTAGCTAATAT-GGACTTTAACTCTATAAGGCTTG
* *
961356 ACCTCCTTATAAAAGTGCT
1 ACCTCCCTATACAAGTGCT
961375 CAATGTGGAT
Statistics
Matches: 143, Mismatches: 27, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
50 1 0.01
51 140 0.98
52 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (51 bp):
ACCTCCCTATACAAGTGCTAGCTAATATGGACTTTAACTCTATAAGGCTTG
Found at i:962575 original size:24 final size:25
Alignment explanation
Indices: 962538--962589 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
962528 TCTCCTCAGG
*
962538 CTTGGTTTCGGTTAGGGTTTAGTGA
1 CTTGGATTCGGTTAGGGTTTAGTGA
* *
962563 CTTGGATT-GGTTATGGTTTGGTGA
1 CTTGGATTCGGTTAGGGTTTAGTGA
962587 CTT
1 CTT
962590 AGTCAAGGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 17 0.71
25 7 0.29
ACGTcount: A:0.12, C:0.08, G:0.35, T:0.46
Consensus pattern (25 bp):
CTTGGATTCGGTTAGGGTTTAGTGA
Found at i:968937 original size:13 final size:13
Alignment explanation
Indices: 968919--968945 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
968909 TACAATGAAC
968919 ATGTATCGATACA
1 ATGTATCGATACA
968932 ATGTATCGATACA
1 ATGTATCGATACA
968945 A
1 A
968946 AGCATAATGT
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):
ATGTATCGATACA
Found at i:971825 original size:79 final size:78
Alignment explanation
Indices: 971704--972233 Score: 444
Period size: 79 Copynumber: 6.7 Consensus size: 78
971694 TCATTCATAT
* * * * * * * *
971704 TTTTACTTCTAAAATACTGATTTTCCACCAT-TGGGGTACTCCAACCCCATTATTTTCGAGTGGA
1 TTTTATTTCCAAAATAC-AATTTTTCACCATCAGGGATACTCCAACCCCGTTATTTTCGAGGGGA
971768 TACTCCAACCCCGA
65 TACTCCAACCCCGA
* ** **
971782 TTTTATTTTCAAAATACCAATTTTTCATAATCAGGGATACTCCAACCCTATTA-TTTCTGAGGGG
1 TTTTATTTCCAAAATA-CAATTTTTCACCATCAGGGATACTCCAACCCCGTTATTTTC-GAGGGG
** *
971846 ATACTCCAACCTTGG
64 ATACTCCAACCCCGA
* * * *
971861 TTTTATTTCCAAAATATCGATTTTCCACCATTAGGGATACTCCAACCTCGTTATTTTCGAGGGGA
1 TTTTATTTCCAAAATA-CAATTTTTCACCATCAGGGATACTCCAACCCCGTTATTTTCGAGGGGA
*
971926 TACTCCAACCCCAA
65 TACTCCAACCCCGA
* * * * *
971940 TTTTATTT-CTAAA-ACATTGATTTTCTACAATCGGGGATACTCCAACCCCGTTA-TTTCTAAGG
1 TTTTATTTCCAAAATACAAT--TTTTC-ACCATCAGGGATACTCCAACCCCGTTATTTTC-GAGG
*
972002 GGATACTCCAACCCCGG
62 GGATACTCCAACCCCGA
* * ** * * *
972019 TATTATTTCCAAAACATTATTTTTCACCATTAAGGATACTCCAACCCCGTTATTTTTGAGGGGAT
1 TTTTATTTCCAAAATACAATTTTTCACCATCAGGGATACTCCAACCCCGTTATTTTCGAGGGGAT
*
972084 ACTCCAATCCCGA
66 ACTCCAACCCCGA
* * * * * * * *
972097 TTTTATTTCTAAGACACCGATTTTTCACCATC-GAGAATACTCGAACCCTGTTATTTTCGAGGAG
1 TTTTATTTCCAAAATA-CAATTTTTCACCATCAG-GGATACTCCAACCCCGTTATTTTCGAGGGG
*
972161 ATAGTCCAACCCCGA
64 ATACTCCAACCCCGA
* * * ** * *
972176 TTTTGTTTCCAAAATATCAACTTTTAACCATC-GGAGATTTTCTAACCCCGTTTTTTTC
1 TTTTATTTCCAAAATA-CAATTTTTCACCATCAGG-GATACTCCAACCCCGTTATTTTC
972234 TCCAAAATAT
Statistics
Matches: 358, Mismatches: 80, Indels: 27
0.77 0.17 0.06
Matches are distributed among these distances:
76 2 0.01
77 1 0.00
78 93 0.26
79 252 0.70
80 8 0.02
81 2 0.01
ACGTcount: A:0.27, C:0.25, G:0.13, T:0.35
Consensus pattern (78 bp):
TTTTATTTCCAAAATACAATTTTTCACCATCAGGGATACTCCAACCCCGTTATTTTCGAGGGGAT
ACTCCAACCCCGA
Found at i:972105 original size:157 final size:158
Alignment explanation
Indices: 971722--972189 Score: 554
Period size: 157 Copynumber: 3.0 Consensus size: 158
971712 CTAAAATACT
* * *
971722 GATTTTCCACCATT-GGGGTACTCCAACCCCATTATTTTCGAGTGGATACTCCAACCCCGATTTT
1 GATTTTCCACCATTAGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTT
* * * *
971786 ATTTTCAAAATACCAAT--TTTTC-ATAATCAGGGATACTCCAACCCTATTATTTCTGAGGGGAT
66 A-TTTCTAAA-A-CAATGATTTTCTACAATCGGGGATACTCCAACCCTGTTATTTCTGAGGGGAT
** *
971848 ACTCCAACCTTGGTTTTATTTCCAAAATATC
128 ACTCCAACCCCGGTTTTATTTCCAAAACATC
* *
971879 GATTTTCCACCATTAGGGATACTCCAACCTCGTTATTTTCGAGGGGATACTCCAACCCCAATTTT
1 GATTTTCCACCATTAGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTT
* * *
971944 ATTTCTAAAACATTGATTTTCTACAATCGGGGATACTCCAACCCCGTTATTTCTAAGGGGATACT
66 ATTTCTAAAACAATGATTTTCTACAATCGGGGATACTCCAACCCTGTTATTTCTGAGGGGATACT
*
972009 CCAACCCCGGTATTATTTCCAAAACAT-
131 CCAACCCCGGTTTTATTTCCAAAACATC
* * * * *
972036 TATTTTTCACCATTAAGGATACTCCAACCCCGTTATTTTTGAGGGGATACTCCAATCCCGATTTT
1 GATTTTCCACCATTAGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTT
* ** * * * * *
972101 ATTTCTAAGACACCGATTTT-TCACCATCGAGAATACTCGAACCCTGTTATTT-TCGAGGAGATA
66 ATTTCTAAAACAATGATTTTCT-ACAATCGGGGATACTCCAACCCTGTTATTTCT-GAGGGGATA
* * *
972164 GTCCAACCCCGATTTTGTTTCCAAAA
129 CTCCAACCCCGGTTTTATTTCCAAAA
972190 TATCAACTTT
Statistics
Matches: 268, Mismatches: 37, Indels: 12
0.85 0.12 0.04
Matches are distributed among these distances:
155 3 0.01
156 3 0.01
157 155 0.58
158 107 0.40
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.34
Consensus pattern (158 bp):
GATTTTCCACCATTAGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTT
ATTTCTAAAACAATGATTTTCTACAATCGGGGATACTCCAACCCTGTTATTTCTGAGGGGATACT
CCAACCCCGGTTTTATTTCCAAAACATC
Found at i:972152 original size:236 final size:236
Alignment explanation
Indices: 971704--972189 Score: 559
Period size: 236 Copynumber: 2.1 Consensus size: 236
971694 TCATTCATAT
* * * * * *
971704 TTTTACTTCTAAAATACTGATTTTCCACCATTGGGGTACTCCAACCCCATTATTTTCGAGTGGAT
1 TTTTATTTCTAAAACACTGATTTTCCACAATCGGGGTACTCCAACCCCATTATTTTCAAGGGGAT
* * * * * *
971769 ACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATCAGGGATACTCCAACCCTATT
66 ACTCCAACCCCGATATTATTTCCAAAACACCAATTTTTCACAATCAAGGATACTCCAACCCCATT
* * * * * *
971834 ATTTCTGAGGGGATACTCCAACCTTGGTTTTATTTCCAAAATATCGATTTTCCACCATTAGGGAT
131 ATTTCTGAGGGGATACTCCAACCTCGATTTTATTTCCAAAACACCGATTTTCCACCATGAGGAAT
*
971899 ACTCCAACCTCGTTATTTTCGAGGGGATACTCCAACCCCAA
196 ACTCCAACCTCGTTATTTTCGAGGAGATACTCCAACCCCAA
* * *
971940 TTTTATTTCTAAAACATTGATTTTCTACAATCGGGGATACTCCAACCCCGTTA-TTTCTAAGGGG
1 TTTTATTTCTAAAACACTGATTTTCCACAATCGGGG-TACTCCAACCCCATTATTTTC-AAGGGG
* ** * * *
972004 ATACTCCAACCCCGGTATTATTTCCAAAACA-TTATTTTTCACCATTAAGGATACTCCAACCCCG
64 ATACTCCAACCCCGATATTATTTCCAAAACACCAATTTTTCACAATCAAGGATACTCCAACCCCA
* * * *
972068 TTATTTTTGAGGGGATACTCCAATCC-CGATTTTATTTCTAAGACACCGATTTTTCACCATCGA-
129 TTATTTCTGAGGGGATACTCCAA-CCTCGATTTTATTTCCAAAACACCGATTTTCCACCAT-GAG
* * *
972131 GAATACTCGAACC-CTGTTATTTTCGAGGAGATAGTCCAACCCCGA
192 GAATACTCCAACCTC-GTTATTTTCGAGGAGATACTCCAACCCCAA
* *
972176 TTTTGTTTCCAAAA
1 TTTTATTTCTAAAA
972190 TATCAACTTT
Statistics
Matches: 208, Mismatches: 37, Indels: 10
0.82 0.15 0.04
Matches are distributed among these distances:
235 1 0.00
236 158 0.76
237 49 0.24
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (236 bp):
TTTTATTTCTAAAACACTGATTTTCCACAATCGGGGTACTCCAACCCCATTATTTTCAAGGGGAT
ACTCCAACCCCGATATTATTTCCAAAACACCAATTTTTCACAATCAAGGATACTCCAACCCCATT
ATTTCTGAGGGGATACTCCAACCTCGATTTTATTTCCAAAACACCGATTTTCCACCATGAGGAAT
ACTCCAACCTCGTTATTTTCGAGGAGATACTCCAACCCCAA
Found at i:972232 original size:157 final size:156
Alignment explanation
Indices: 971723--972233 Score: 530
Period size: 158 Copynumber: 3.2 Consensus size: 156
971713 TAAAATACTG
* * *
971723 ATTTTCCACCATTGG-GGTACTCCAACCCCATTATTTTCGAGTGGATACTCCAACCCCGATTTTA
1 ATTTT-CACCA-TGGAGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTA
* * * *
971787 TTT-TCAAAATACCAATTTTTCATAATC-AGGGATACTCCAACCCTATTATTTCTGAGGGGATAC
64 TTTCT-AAAACACCGATTTTTCACAATCGA-GGATACTCCAACCCTGTTATTTCTGAGGGGATAC
** *
971850 TCCAACCTTGGTTTTATTTCCAAAATATCG
127 TCCAACCCCGGTTTTATTTCCAAAATATCA
* *
971880 ATTTTCCACCATTAGG-GATACTCCAACCTCGTTATTTTCGAGGGGATACTCCAACCCCAATTTT
1 ATTTT-CACCA-T-GGAGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTT
** * * *
971944 ATTTCTAAAACATTGA-TTTTCTACAATCGGGGATACTCCAACCCCGTTATTTCTAAGGGGATAC
63 ATTTCTAAAACACCGATTTTTC-ACAATCGAGGATACTCCAACCCTGTTATTTCTGAGGGGATAC
* * *
972008 TCCAACCCCGGTATTATTTCCAAAACATTA
127 TCCAACCCCGGTTTTATTTCCAAAATATCA
* ** * *
972038 TTTTTCACCATTAAGGATACTCCAACCCCGTTATTTTTGAGGGGATACTCCAATCCCGATTTTAT
1 ATTTTCACCATGGA-GATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTAT
* * * * * *
972103 TTCTAAGACACCGATTTTTCACCATCGAGAATACTCGAACCCTGTTATTT-TCGAGGAGATAGTC
65 TTCTAAAACACCGATTTTTCACAATCGAGGATACTCCAACCCTGTTATTTCT-GAGGGGATACTC
* *
972167 CAACCCCGATTTTGTTTCCAAAATATCA
129 CAACCCCGGTTTTATTTCCAAAATATCA
* ** * *
972195 ACTTTTAACCATCGGAGATTTTCTAACCCCGTTTTTTTC
1 A-TTTTCACCAT-GGAGATACTCCAACCCCGTTATTTTC
972234 TCCAAAATAT
Statistics
Matches: 292, Mismatches: 52, Indels: 19
0.80 0.14 0.05
Matches are distributed among these distances:
156 2 0.01
157 137 0.47
158 151 0.52
159 2 0.01
ACGTcount: A:0.27, C:0.25, G:0.13, T:0.34
Consensus pattern (156 bp):
ATTTTCACCATGGAGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGATTTTATT
TCTAAAACACCGATTTTTCACAATCGAGGATACTCCAACCCTGTTATTTCTGAGGGGATACTCCA
ACCCCGGTTTTATTTCCAAAATATCA
Found at i:984617 original size:108 final size:108
Alignment explanation
Indices: 984494--984692 Score: 292
Period size: 108 Copynumber: 1.8 Consensus size: 108
984484 CAAAAAAGTG
* * * *
984494 GCTTGAGTGACCGAACCTCTTTTCCTCAGACCAAGTCAAAAAACTAGATCATAGCCTAATCAACT
1 GCTTAAGTGACCGAACCTCTTTTCCTCAGACAAAGTCAAAAAACCAAATCATAGCCTAATCAACT
*
984559 CCATAATGGCCAACCTCA-TCGATTCTAAAAACCAGAAAAGGCA
66 CCACAATGGCCAACCTCACT-GATTCTAAAAACCAGAAAAGGCA
* * * * *
984602 GCTTAAGTGATCGAACCTTTTTTCCTCAGACAAAGTTAGAACACCAAATCATAGCCTAATCAACT
1 GCTTAAGTGACCGAACCTCTTTTCCTCAGACAAAGTCAAAAAACCAAATCATAGCCTAATCAACT
984667 CCACAATGGCCAACCTCACTGATTCT
66 CCACAATGGCCAACCTCACTGATTCT
984693 CACCCGCATT
Statistics
Matches: 80, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
108 79 0.99
109 1 0.01
ACGTcount: A:0.35, C:0.28, G:0.13, T:0.24
Consensus pattern (108 bp):
GCTTAAGTGACCGAACCTCTTTTCCTCAGACAAAGTCAAAAAACCAAATCATAGCCTAATCAACT
CCACAATGGCCAACCTCACTGATTCTAAAAACCAGAAAAGGCA
Found at i:985640 original size:62 final size:62
Alignment explanation
Indices: 985565--986057 Score: 539
Period size: 61 Copynumber: 8.0 Consensus size: 62
985555 GTAGGATGCT
* *
985565 TTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACGTT
1 TTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACGTC
* * * * * *
985627 TTTTTCCTTTTAAAGCCCACACAAGTTGATGGCACTTTCCAATCCTCAAAGAGTAGAATG-C
1 TTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACGTC
* * * * * *
985688 CTTTTACTTTTAAAGCCCACACAAATTGGTGGCACTTTCCAGTCCTCAAAGAGTAGGAC-AC
1 TTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACGTC
* * * * *
985749 ATTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAAAGCAGAACGCC
1 TTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACGTC
* *
985811 TTTTT-CTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTTAAAGAGCAGGACGT-
1 TTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACGTC
* * * * *
985871 TTTTTCCTTTTAAAGCTCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCATGAC-AC
1 TTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACGTC
* ** * * * *
985932 TTTCTCCTTGACAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCCCAAAGAGCAAGACATTTT
1 TTTTTCCTT-TTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGAC---GT
985997 CC
62 -C
* * * * **
985999 TTTTTCCTTCTGAAA-CCTACACAAGTTGCTGGTACCTTTTAGTCCTCAAAGAGCAGGAC
1 TTTTTCCTT-TTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGAC
986058 ACACTTCGTT
Statistics
Matches: 367, Mismatches: 54, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
60 5 0.01
61 212 0.58
62 100 0.27
66 38 0.10
67 12 0.03
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (62 bp):
TTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACGTC
Found at i:986175 original size:42 final size:41
Alignment explanation
Indices: 986040--986222 Score: 215
Period size: 41 Copynumber: 4.4 Consensus size: 41
986030 GTACCTTTTA
* *
986040 GTCCTCAAAGAGCAGGACACACTTCGTTTCCTTTT-CCTTT
1 GTCCTCAAAGAGCAGGACGCACTTCATTTCCTTTTCCCTTT
* *
986080 GTCCTCAAAGAGTAGGGCGCACTTCATTTCCTTTTCCCTTT
1 GTCCTCAAAGAGCAGGACGCACTTCATTTCCTTTTCCCTTT
* * * *
986121 GTCCTCAAAGAGCAGGATGCACTTTATTTCGTTTTCTCATTT
1 GTCCTCAAAGAGCAGGACGCACTTCATTTCCTTTTC-CCTTT
* * * *
986163 GTCCTCAAAGAGCAAGACACACTTAATTTCCTTATTTTCCTTT
1 GTCCTCAAAGAGCAGGACGCACTTCATTTCC-T-TTTCCCTTT
*
986206 ATCCTCAAAGAGCAGGA
1 GTCCTCAAAGAGCAGGA
986223 TGTACTCCTT
Statistics
Matches: 120, Mismatches: 19, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
40 31 0.26
41 36 0.30
42 30 0.25
43 20 0.17
44 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.35
Consensus pattern (41 bp):
GTCCTCAAAGAGCAGGACGCACTTCATTTCCTTTTCCCTTT
Found at i:987024 original size:50 final size:51
Alignment explanation
Indices: 986944--987053 Score: 150
Period size: 50 Copynumber: 2.2 Consensus size: 51
986934 TTCCACAATT
* * * *
986944 TGTATTGATCCATTCTTCATTGTATTGATACATTCT-GGGTTTTACCCAGA
1 TGTATCGATCCATTATTCATTATATCGATACATTCTAGGGTTTTACCCAGA
* *
986994 TGTATCGATCCATTATTCATTATATCGATACGTTCTAGGTTTTTACCCAGA
1 TGTATCGATCCATTATTCATTATATCGATACATTCTAGGGTTTTACCCAGA
*
987045 TGCATCGAT
1 TGTATCGAT
987054 ACGTTTCTTA
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
50 31 0.60
51 21 0.40
ACGTcount: A:0.24, C:0.19, G:0.15, T:0.42
Consensus pattern (51 bp):
TGTATCGATCCATTATTCATTATATCGATACATTCTAGGGTTTTACCCAGA
Found at i:987071 original size:51 final size:50
Alignment explanation
Indices: 986954--987079 Score: 128
Period size: 51 Copynumber: 2.5 Consensus size: 50
986944 TGTATTGATC
* * * * *
986954 CATTCTTCATTGTATTGATACATTCTGGGTTTTACCCAGATGTATCGATC
1 CATTATTCAATGTATCGATACATTCTGGGTTTTACCCAGATGCATCGATA
* * * *
987004 CATTATTCATTATATCGATACGTTCTAGGTTTTTACCCAGATGCATCGATA
1 CATTATTCAATGTATCGATACATTCT-GGGTTTTACCCAGATGCATCGATA
* *
987055 CGTT-TCTTAATGTATCGATACATTC
1 CATTAT-TCAATGTATCGATACATTC
987080 AGGCATTTTT
Statistics
Matches: 62, Mismatches: 12, Indels: 3
0.81 0.16 0.04
Matches are distributed among these distances:
50 23 0.37
51 39 0.63
ACGTcount: A:0.25, C:0.20, G:0.14, T:0.41
Consensus pattern (50 bp):
CATTATTCAATGTATCGATACATTCTGGGTTTTACCCAGATGCATCGATA
Found at i:989550 original size:79 final size:79
Alignment explanation
Indices: 989417--989939 Score: 429
Period size: 79 Copynumber: 6.6 Consensus size: 79
989407 TCATTCAAGT
** * * * *
989417 TTTTACTTTT-AAAATACCGATTTTCCACCATCGAGGG-TACTCTAACCCCATTATTTCCGAGGG
1 TTTTA-TTTTCAAAATACTAATTTTCCACAATCG-GGGATACTCCAACCCCGTTATTTTCGAGGG
*
989480 AATACTCTAACCCC-A
64 AATACTCCAACCCCGA
* * *
989495 GTTTTATTTTCAAAATACTAATTTTCCACAATTGGGGATACTCCAACCTCGTTATTTTTGA-GGA
1 -TTTTATTTTCAAAATACTAATTTTCCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGA
* *
989559 GATATTCCAACCCCGG
65 -ATACTCCAACCCCGA
* * * * *
989575 CTTTA-TTTCTAAAATA-TCGATTTTCTACAATCGGGGATACTCCAACCCCATTATTTCCGAGGG
1 TTTTATTTTC-AAAATACT-AATTTTCCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGG
* * *
989638 GATACTCCAACCCTGG
64 AATACTCCAACCCCGA
* * * * ** **
989654 CTTTATTTCCAAAACA-TCAATTTTCCACAATTGGGGATACTCCAACCCCGTTATTTTTTAAGAC
1 TTTTATTTTCAAAATACT-AATTTTCCACAATCGGGGATACTCCAACCCCGTTA-TTTTCGAGGG
989718 AATACTCCAACCCCGA
64 AATACTCCAACCCCGA
* * * * * *
989734 TTTTA-TTTCTAAAACATTAATTTTTCACCATCGGGGATACTCCAATCCTGTTATTTTCGAGGGA
1 TTTTATTTTC-AAAATACTAATTTTCCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGA
*
989798 ATACTCTAACCCCGA
65 ATACTCCAACCCCGA
* * ** * * * *
989813 TTTTA-TTTCTAAGACACCGATTTTTCACCATCGGGGATACTCCAACTCCGTTATTTTCAAGGGA
1 TTTTATTTTC-AAAATACTAATTTTCCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGA
989877 ATACTCCAACCCCGA
65 ATACTCCAACCCCGA
* * * * *
989892 TTTTGTTTCCAAAATA-TAGACTTTT-CACCATCGAGGATTCTCCAACCC
1 TTTTATTTTCAAAATACTA-A-TTTTCCACAATCGGGGATACTCCAACCC
989940 TTTTTTTCTC
Statistics
Matches: 363, Mismatches: 67, Indels: 28
0.79 0.15 0.06
Matches are distributed among these distances:
78 15 0.04
79 277 0.76
80 70 0.19
81 1 0.00
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (79 bp):
TTTTATTTTCAAAATACTAATTTTCCACAATCGGGGATACTCCAACCCCGTTATTTTCGAGGGAA
TACTCCAACCCCGA
Found at i:989937 original size:238 final size:238
Alignment explanation
Indices: 989436--989939 Score: 547
Period size: 238 Copynumber: 2.1 Consensus size: 238
989426 TAAAATACCG
* * * * *** ** *
989436 ATTTTCCACCATCGAGGGTACTCTAACCCCATTA-TTTCCGAGGGAATACTCTAACCCCAGTTTT
1 ATTTTCCACAATCGAGGATACTCCAACCCCGTTATTTTTTAAGACAATACTCCAACCCCAGTTTT
* * * *
989500 ATTTTCAAAATACTAATTTTCCACAATTGGGGATACTCCAACCTCGTTATTTTTGAGGAGATATT
66 ATTTTCAAAACACTAATTTTCCACAATCGGGGATACTCCAACCTCGTTATTTTCGAGGAGATACT
* * *
989565 CCAACCCCGGCTTTATTTCTAAAATATCGATTTTCTACAATCGGGGATACTCCAACCCCATTATT
131 CCAACCCCGACTTTATTTCTAAAACACCGATTTTCTACAATCGGGGATACTCCAACCCCATTATT
* * * *
989630 TCCGAGGGGATACTCCAACCCTGGCTTTATTTCCAAAACATCA
196 TCCAAGGGAATACTCCAACCCCGACTTTATTTCCAAAACATCA
* *
989673 ATTTTCCACAATTGGGGATACTCCAACCCCGTTATTTTTTAAGACAATACTCCAACCCC-GATTT
1 ATTTTCCACAATCGAGGATACTCCAACCCCGTTATTTTTTAAGACAATACTCCAACCCCAG-TTT
* * *
989737 TA-TTTCTAAAACATTAATTTTTCACCATCGGGGATACTCCAATCCT-GTTATTTTCGAGG-GAA
65 TATTTTC-AAAACACTAATTTTCCACAATCGGGGATACTCCAA-CCTCGTTATTTTCGAGGAG-A
* * * * * *
989799 TACTCTAACCCCGATTTTATTTCTAAGACACCGATTTT-TCACCATCGGGGATACTCCAACTCCG
127 TACTCCAACCCCGACTTTATTTCTAAAACACCGATTTTCT-ACAATCGGGGATACTCCAACCCCA
* * * *
989863 TTATTTTCAAGGGAATACTCCAACCCCGATTTTGTTTCCAAAATAT-A
191 TTATTTCCAAGGGAATACTCCAACCCCGACTTTATTTCCAAAACATCA
* *
989910 GACTTTT-CACCATCGAGGATTCTCCAACCC
1 -A-TTTTCCACAATCGAGGATACTCCAACCC
989940 TTTTTTTCTC
Statistics
Matches: 219, Mismatches: 40, Indels: 15
0.80 0.15 0.05
Matches are distributed among these distances:
237 36 0.16
238 176 0.80
239 7 0.03
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (238 bp):
ATTTTCCACAATCGAGGATACTCCAACCCCGTTATTTTTTAAGACAATACTCCAACCCCAGTTTT
ATTTTCAAAACACTAATTTTCCACAATCGGGGATACTCCAACCTCGTTATTTTCGAGGAGATACT
CCAACCCCGACTTTATTTCTAAAACACCGATTTTCTACAATCGGGGATACTCCAACCCCATTATT
TCCAAGGGAATACTCCAACCCCGACTTTATTTCCAAAACATCA
Found at i:991686 original size:23 final size:23
Alignment explanation
Indices: 991660--991705 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
991650 ACTCTTCATA
991660 AGCATTGATAGCTTTAGTACCAG
1 AGCATTGATAGCTTTAGTACCAG
991683 AGCATTGATAGCTTTAGTACCAG
1 AGCATTGATAGCTTTAGTACCAG
991706 CATTCAGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.30
Consensus pattern (23 bp):
AGCATTGATAGCTTTAGTACCAG
Found at i:993863 original size:20 final size:21
Alignment explanation
Indices: 993823--993894 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 21
993813 CAATAATTTT
* *
993823 TATCAATACAATAAG-GCAATG
1 TATCGATAC-ATAAGTGAAATG
993844 TATCGATACATAAGTG-AATG
1 TATCGATACATAAGTGAAATG
***
993864 TATCGATACATGCTTGAAATG
1 TATCGATACATAAGTGAAATG
993885 TATCGATACA
1 TATCGATACA
993895 AGACCATGTA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
20 22 0.49
21 23 0.51
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (21 bp):
TATCGATACATAAGTGAAATG
Found at i:993886 original size:21 final size:20
Alignment explanation
Indices: 993840--993894 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
993830 ACAATAAGGC
993840 AATGTATCGATACATAAGTG
1 AATGTATCGATACATAAGTG
***
993860 AATGTATCGATACATGCTTG
1 AATGTATCGATACATAAGTG
993880 AAATGTATCGATACA
1 -AATGTATCGATACA
993895 AGACCATGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
20 17 0.55
21 14 0.45
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (20 bp):
AATGTATCGATACATAAGTG
Found at i:993973 original size:41 final size:40
Alignment explanation
Indices: 993917--993995 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 40
993907 ATTCTAAAAG
*
993917 GAAAATGTATCGATACATTTTTTAAATGTATCGATACATAA
1 GAAAATGTATCGATACA-TTTCTAAATGTATCGATACATAA
* * * *
993958 GAAATTGTATTGATACATTTCTCATTGTATCGATACAT
1 GAAAATGTATCGATACATTTCTAAATGTATCGATACAT
993996 TCTAGGTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
40 18 0.55
41 15 0.45
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (40 bp):
GAAAATGTATCGATACATTTCTAAATGTATCGATACATAA
Found at i:1001819 original size:140 final size:139
Alignment explanation
Indices: 1001456--1001838 Score: 441
Period size: 140 Copynumber: 2.7 Consensus size: 139
1001446 ATAAATTTTG
* * * * *
1001456 AAAATCTCATTTTGTACCTTAATGGAGAACCA-AAAAGATAC-AAAAGGTTTAAAGATTTCTATA
1 AAAAT-TCATTTCGTACCTTAATGAAGAA-TAGAAAAGATACGAAAAGTTTTGAAGATTTCTATA
*
1001519 CCCCTACGGAAAACCATAAGAATATTAGAAATCTTAAAAAATTAAGAAAATAATTTTTTTAATTT
64 CCCCTACGGAAAACCATAGGAATATTAGAAATCTTAAAAAATTAAGAAAATAATTTTTTTAATTT
1001584 TTAATTCCTAA
129 TTAATTCCTAA
* * * *
1001595 AAAATTCATTTCATACCTTAATGAAGAATCGAAAAGATATGAAAAGTTTTGAAGATTTTTATACC
1 AAAATTCATTTCGTACCTTAATGAAGAATAGAAAAGATACGAAAAGTTTTGAAGATTTCTATACC
** * * * * *
1001660 CCTACGGAAAACTGTAGGAATA-TCGATATCTTGAAAAATTAATATAATAATTTTTATTTAATTT
66 CCTACGGAAAACCATAGGAATATTAGAAATCTTAAAAAATTAAGAAAATAA-TTTT-TTTAATTT
*
1001724 TTAATTTCTAA
129 TTAATTCCTAA
* *
1001735 AGAAA-TGATTTCGTACCTTAATGAAGAATAGAAAAGAGACGAAAAGTTTTGAAGATTTCTATAC
1 A-AAATTCATTTCGTACCTTAATGAAGAATAGAAAAGATACGAAAAGTTTTGAAGATTTCTATAC
* * * * * * *
1001799 TCTTACTGATAACCACAGGAATAATAGAAATATATAAAAA
65 CCCTACGGAAAACCATAGGAATATTAGAAATCT-TAAAAA
1001839 TAATTAATTT
Statistics
Matches: 202, Mismatches: 35, Indels: 11
0.81 0.14 0.04
Matches are distributed among these distances:
138 51 0.25
139 49 0.24
140 88 0.44
141 9 0.04
142 5 0.02
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.33
Consensus pattern (139 bp):
AAAATTCATTTCGTACCTTAATGAAGAATAGAAAAGATACGAAAAGTTTTGAAGATTTCTATACC
CCTACGGAAAACCATAGGAATATTAGAAATCTTAAAAAATTAAGAAAATAATTTTTTTAATTTTT
AATTCCTAA
Found at i:1013652 original size:22 final size:19
Alignment explanation
Indices: 1013612--1013657 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 19
1013602 AATTTAAAAT
*
1013612 AATTTAAACAAAAATATTA
1 AATTTAAAAAAAAATATTA
*
1013631 AATTTAAAAAATAA-ATT-
1 AATTTAAAAAAAAATATTA
1013648 AA-TTAAAAAA
1 AATTTAAAAAA
1013658 TAAAGCTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 8 0.32
17 2 0.08
18 3 0.12
19 12 0.48
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (19 bp):
AATTTAAAAAAAAATATTA
Found at i:1013818 original size:17 final size:17
Alignment explanation
Indices: 1013771--1013838 Score: 54
Period size: 17 Copynumber: 4.1 Consensus size: 17
1013761 TTATTTATAT
*
1013771 ATATATTATAAT-TTATA
1 ATATATAATAATATTA-A
*
1013788 TTATATAA-AA-ATTAA
1 ATATATAATAATATTAA
*
1013803 ATATATAATAATATTAC
1 ATATATAATAATATTAA
*
1013820 ATGTA-AATATATATTAA
1 ATATATAATA-ATATTAA
1013837 AT
1 AT
1013839 GTTAAATTGT
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
15 8 0.20
16 11 0.27
17 22 0.54
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.44
Consensus pattern (17 bp):
ATATATAATAATATTAA
Found at i:1013840 original size:17 final size:16
Alignment explanation
Indices: 1013798--1013845 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 16
1013788 TTATATAAAA
*
1013798 ATTAAATATATAATAAT
1 ATTAAATGTA-AATAAT
*
1013815 ATTACATGTAAATATAT
1 ATTAAATGTAAATA-AT
1013832 ATTAAATGTTAAAT
1 ATTAAATG-TAAAT
1013846 TGTTTATGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
16 4 0.15
17 17 0.65
18 5 0.19
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (16 bp):
ATTAAATGTAAATAAT
Found at i:1021146 original size:11 final size:11
Alignment explanation
Indices: 1021130--1021154 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1021120 TCCCTGTAAA
1021130 GTTTTAATTTT
1 GTTTTAATTTT
1021141 GTTTTAATTTT
1 GTTTTAATTTT
1021152 GTT
1 GTT
1021155 GATATCTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.00, G:0.12, T:0.72
Consensus pattern (11 bp):
GTTTTAATTTT
Found at i:1027595 original size:24 final size:24
Alignment explanation
Indices: 1027568--1027617 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
1027558 AGGAGAGTAG
*
1027568 GTGCTAAATAATGAGGATGAGTGA
1 GTGCTAAACAATGAGGATGAGTGA
1027592 GTGCTAAACAATGAGGATGAGTGA
1 GTGCTAAACAATGAGGATGAGTGA
1027616 GT
1 GT
1027618 CATATGATCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.36, C:0.06, G:0.34, T:0.24
Consensus pattern (24 bp):
GTGCTAAACAATGAGGATGAGTGA
Found at i:1029547 original size:13 final size:13
Alignment explanation
Indices: 1029529--1029553 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1029519 TGACATCAGT
1029529 GAAATGGGAAATG
1 GAAATGGGAAATG
1029542 GAAATGGGAAAT
1 GAAATGGGAAAT
1029554 TTGTTAGGGG
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:0.48, C:0.00, G:0.36, T:0.16
Consensus pattern (13 bp):
GAAATGGGAAATG
Found at i:1034190 original size:26 final size:26
Alignment explanation
Indices: 1034154--1034204 Score: 75
Period size: 26 Copynumber: 2.0 Consensus size: 26
1034144 GTTACAGGCT
* *
1034154 GTTTAATTGTAACTCTACTTTTACAC
1 GTTTAAATGTAACTCTACTTGTACAC
*
1034180 GTTTAAATGTAATTCTACTTGTACA
1 GTTTAAATGTAACTCTACTTGTACA
1034205 TGTTCTTTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.29, C:0.16, G:0.10, T:0.45
Consensus pattern (26 bp):
GTTTAAATGTAACTCTACTTGTACAC
Found at i:1038288 original size:2 final size:2
Alignment explanation
Indices: 1038276--1038308 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
1038266 GCAGGGAAGA
*
1038276 AG AG GG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1038309 ATTGGAATGG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1042605 original size:156 final size:154
Alignment explanation
Indices: 1042382--1042897 Score: 359
Period size: 156 Copynumber: 3.3 Consensus size: 154
1042372 TAAATTAAAA
* * *
1042382 AAAAAAATATGAAAATGCCCCTAGGAGGTACCTTCGACTTAGAAGTACCTGATATCCCTAAAAGA
1 AAAAAAATATGAAAATGCCCCTAGGAGATACCTTCGACATAAAAGTACCTGATATCCCTAAAAGA
* ** * * *
1042447 CTTCAAAAGGATTTTAAAAAGGACTGAATCTATCTTAAATACCCACCTTCGACATAAAAGCAGAC
66 CTT-AAAAAGATTAGAAAAAGGA-TGAACCTATCCTAAATACCCACCGTCGACATAAAAGCAGAC
1042512 CTAGTGACAACTTAGGACTCGATTCT
129 CTAGTGACAACTTAGGACTCGATTCT
* *
1042538 AAAAAATTAT-AAAATTGCCCCTA-GAGAATATCC-TCGACATAAAAGTACTTGATA-CCTCTAA
1 AAAAAAATATGAAAA-TGCCCCTAGGAG-ATA-CCTTCGACATAAAAGTACCTGATATCC-CTAA
* ** * * *
1042599 AGGACTTAAAAAGATTAGAAATGGGATGAACCTATCCTAAATGCCCACCGTCGGCATAAAAGCGG
62 AAGACTTAAAAAGATTAGAAAAAGGATGAACCTATCCTAAATACCCACCGTCGACATAAAAGCAG
* * * * * * * * *
1042664 A-CTCGGTAACGACCTAAGAGTTGGTTTT
127 ACCT-AGTGACAACTTAGGACTCGATTCT
* * * ** * * * * * * *
1042692 AAAAAATTACGAAAATACCTTTACGG-GTATACCTTTGACGTGAAAGTGTCCCGGTAACCCTAAA
1 AAAAAAATATGAAAATGCCCCTA-GGAG-ATACCTTCGACATAAAAGT-ACCTGATATCCCTAAA
* * * * * * *
1042756 GGACTTAAAAAGGATATAG--ATAGGGTGAACCTATCATAAATACCCACCTTCGGCATGAAAGCA
63 AGACTTAAAAA-GAT-TAGAAAAAGGATGAACCTATCCTAAATACCCACCGTCGACATAAAAGCA
* * *
1042819 GA-TTCAGGTGACAACCTAGGACTCGGTTCT
126 GACCT-A-GTGACAACTTAGGACTCGATTCT
* * * * *
1042849 AGAAAATTATGAAAAT-ACCCTAGGGGATACCTTTGACATAAAAGTACCT
1 AAAAAAATATGAAAATGCCCCTAGGAGATACCTTCGACATAAAAGTACCT
1042898 ACCTTAAAGG
Statistics
Matches: 283, Mismatches: 62, Indels: 32
0.75 0.16 0.08
Matches are distributed among these distances:
153 2 0.01
154 67 0.24
155 60 0.21
156 113 0.40
157 38 0.13
158 3 0.01
ACGTcount: A:0.38, C:0.20, G:0.18, T:0.24
Consensus pattern (154 bp):
AAAAAAATATGAAAATGCCCCTAGGAGATACCTTCGACATAAAAGTACCTGATATCCCTAAAAGA
CTTAAAAAGATTAGAAAAAGGATGAACCTATCCTAAATACCCACCGTCGACATAAAAGCAGACCT
AGTGACAACTTAGGACTCGATTCT
Found at i:1045318 original size:19 final size:20
Alignment explanation
Indices: 1045270--1045322 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 20
1045260 TTGTCAGTTT
**
1045270 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGAA
*
1045290 CATATATCGATACAA-TGAA
1 CATGTATCGATACAATTGAA
1045309 CATGTATCGATACA
1 CATGTATCGATACA
1045323 TTGTATCGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 15 0.52
20 14 0.48
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.30
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:1045329 original size:13 final size:13
Alignment explanation
Indices: 1045311--1045335 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1045301 ACAATGAACA
1045311 TGTATCGATACAT
1 TGTATCGATACAT
1045324 TGTATCGATACA
1 TGTATCGATACA
1045336 AAGCATAATG
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:1045352 original size:33 final size:32
Alignment explanation
Indices: 1045294--1045356 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 32
1045284 ATTGTCCATA
*
1045294 TATCGATACAATGAACATGTATCGATACATTG
1 TATCGATACAAAGAACATGTATCGATACATTG
1045326 TATCGATACAAAGCATA-ATGTATCGATACAT
1 TATCGATACAAAG-A-ACATGTATCGATACAT
1045357 CTGGGTGTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 12 0.43
33 15 0.54
34 1 0.04
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (32 bp):
TATCGATACAAAGAACATGTATCGATACATTG
Found at i:1047906 original size:20 final size:19
Alignment explanation
Indices: 1047878--1047915 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
1047868 AGGTTTTCCA
1047878 AATGAATCGATACATCTTTC
1 AATGAATCGATACA-CTTTC
*
1047898 AATGTATCGATACACTTT
1 AATGAATCGATACACTTT
1047916 GAAAAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.34, C:0.18, G:0.11, T:0.37
Consensus pattern (19 bp):
AATGAATCGATACACTTTC
Found at i:1051667 original size:3 final size:3
Alignment explanation
Indices: 1051659--1051691 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
1051649 TCGAGTCACT
*
1051659 ATC ATC ATC ATC ATC ATC ATC ATC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
1051692 GTTTTTGATG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.30, C:0.33, G:0.00, T:0.36
Consensus pattern (3 bp):
ATC
Found at i:1053303 original size:13 final size:13
Alignment explanation
Indices: 1053282--1053313 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
1053272 CCGTTTGAAG
1053282 CAATGTATCGATA
1 CAATGTATCGATA
*
1053295 CAATTTATCGATA
1 CAATGTATCGATA
1053308 CAATGT
1 CAATGT
1053314 GCAAATGTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1053385 original size:20 final size:20
Alignment explanation
Indices: 1053360--1053417 Score: 84
Period size: 19 Copynumber: 3.0 Consensus size: 20
1053350 CTGCCAATTT
*
1053360 CATGTATCGATACAATTGTC
1 CATGTATCGATACAATTGTA
*
1053380 CATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGTA
1053399 CATGTATCGATAC-ATTGTA
1 CATGTATCGATACAATTGTA
1053418 TCGATACGAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 1 0.03
19 18 0.53
20 15 0.44
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (20 bp):
CATGTATCGATACAATTGTA
Found at i:1056871 original size:52 final size:52
Alignment explanation
Indices: 1056723--1056851 Score: 249
Period size: 52 Copynumber: 2.5 Consensus size: 52
1056713 CGAAATATGA
1056723 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1056775 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
*
1056827 AAATTTTCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
1056852 AAAATCAGTG
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
52 76 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGC
Found at i:1056878 original size:13 final size:13
Alignment explanation
Indices: 1056860--1056884 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1056850 CAAAAATCAG
1056860 TGTATCGATACAA
1 TGTATCGATACAA
1056873 TGTATCGATACA
1 TGTATCGATACA
1056885 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1056963 original size:13 final size:13
Alignment explanation
Indices: 1056945--1056971 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1056935 TACAAAACTT
1056945 ATGTATCGATACA
1 ATGTATCGATACA
1056958 ATGTATCGATACA
1 ATGTATCGATACA
1056971 A
1 A
1056972 CACTTTATGT
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):
ATGTATCGATACA
Found at i:1056968 original size:32 final size:33
Alignment explanation
Indices: 1056927--1056991 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
1056917 TAGCTTAAAT
1056927 TGTATCGATACAAAAC-TTATGTATCGATACAA
1 TGTATCGATACAAAACTTTATGTATCGATACAA
*
1056959 TGTATCGATACAACACTTTATGTATCGATACAA
1 TGTATCGATACAAAACTTTATGTATCGATACAA
1056992 ATCGTTGAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 15 0.48
33 16 0.52
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.32
Consensus pattern (33 bp):
TGTATCGATACAAAACTTTATGTATCGATACAA
Found at i:1059245 original size:76 final size:77
Alignment explanation
Indices: 1059165--1059318 Score: 247
Period size: 77 Copynumber: 2.0 Consensus size: 77
1059155 ATGAATTCTT
* * *
1059165 CCCCTTTGTGAAACATCTATTTT-TTCATCTTTCTATTAGGACAAATCTATTCTCTCCCTTTTTG
1 CCCCTTTGTGAAACATCTATTTTCTCCACCTTTCTATTAGGACAAATATATTCTCTCCCTTTTTG
1059229 TTATTCATGCAA
66 TTATTCATGCAA
* * *
1059241 CCCCTTTGTGAAACATCTCTTTTCTCCCCCTTTCTATTAGGCCAAATATATTCTCTCCCTTTTTG
1 CCCCTTTGTGAAACATCTATTTTCTCCACCTTTCTATTAGGACAAATATATTCTCTCCCTTTTTG
1059306 TTATTCATGCAA
66 TTATTCATGCAA
1059318 C
1 C
1059319 TAATACCAAA
Statistics
Matches: 71, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
76 22 0.31
77 49 0.69
ACGTcount: A:0.21, C:0.27, G:0.08, T:0.44
Consensus pattern (77 bp):
CCCCTTTGTGAAACATCTATTTTCTCCACCTTTCTATTAGGACAAATATATTCTCTCCCTTTTTG
TTATTCATGCAA
Found at i:1069372 original size:20 final size:20
Alignment explanation
Indices: 1069347--1069418 Score: 90
Period size: 20 Copynumber: 3.6 Consensus size: 20
1069337 AAAAAGATAG
1069347 AATGTATCGATATATTGAAA
1 AATGTATCGATATATTGAAA
* * *
1069367 AATGTATTGATATATTCATA
1 AATGTATCGATATATTGAAA
* * *
1069387 CATGTATTGATACATTGAAA
1 AATGTATCGATATATTGAAA
1069407 AATGTATCGATA
1 AATGTATCGATA
1069419 CATCTGGGTA
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.42, C:0.07, G:0.14, T:0.38
Consensus pattern (20 bp):
AATGTATCGATATATTGAAA
Found at i:1069917 original size:19 final size:20
Alignment explanation
Indices: 1069895--1069947 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
1069885 ACAGATATAA
1069895 TGGATCGATACATGCTC-AT
1 TGGATCGATACATGCTCAAT
* *
1069914 TGGATCAATACATACTCAAT
1 TGGATCGATACATGCTCAAT
* *
1069934 TGTATAGATACATG
1 TGGATCGATACATG
1069948 AAATTGGCAG
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 15 0.56
20 12 0.44
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.32
Consensus pattern (20 bp):
TGGATCGATACATGCTCAAT
Found at i:1070001 original size:20 final size:20
Alignment explanation
Indices: 1069976--1070028 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
1069966 CTAAGTGAAA
*
1069976 TGTATCAATACATG-GGACAT
1 TGTATCGATACATGAGGA-AT
*
1069996 TGTATCGATATATGAGGAAT
1 TGTATCGATACATGAGGAAT
1070016 TGTATCGATACAT
1 TGTATCGATACAT
1070029 TATGCCCAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
20 26 0.90
21 3 0.10
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.34
Consensus pattern (20 bp):
TGTATCGATACATGAGGAAT
Found at i:1070607 original size:21 final size:22
Alignment explanation
Indices: 1070583--1070633 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
1070573 TATATCAATG
*
1070583 AATGTTTTAG-AGTTATAAA-CA
1 AATGTTTTAGAACTT-TAAATCA
*
1070604 AATGTTTTTGAACTTTAAATCA
1 AATGTTTTAGAACTTTAAATCA
1070626 AATGTTTT
1 AATGTTTT
1070634 TTAAGTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 13 0.50
22 13 0.50
ACGTcount: A:0.37, C:0.06, G:0.12, T:0.45
Consensus pattern (22 bp):
AATGTTTTAGAACTTTAAATCA
Found at i:1070645 original size:22 final size:22
Alignment explanation
Indices: 1070602--1070645 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
1070592 GAGTTATAAA
**
1070602 CAAATGTTTTTGAACTTTAAAT
1 CAAATGTTTTTGAACTAAAAAT
* *
1070624 CAAATGTTTTTTAAGTAAAAAT
1 CAAATGTTTTTGAACTAAAAAT
1070646 ACTTCGAAGT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Consensus pattern (22 bp):
CAAATGTTTTTGAACTAAAAAT
Found at i:1070812 original size:20 final size:19
Alignment explanation
Indices: 1070743--1070815 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 19
1070733 ACACACCTAG
*
1070743 ATGTATCGATACATTATGC
1 ATGTATCGATACATTGTGC
* *
1070762 TTTGTATCGATACA-TGTTC
1 -ATGTATCGATACATTGTGC
*
1070781 ATCGTATTGATACAATTGTGC
1 AT-GTATCGATAC-ATTGTGC
1070802 ATGTATCGATACAT
1 ATGTATCGATACAT
1070816 GAAACTAGCA
Statistics
Matches: 43, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
18 1 0.02
19 14 0.33
20 22 0.51
21 6 0.14
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.40
Consensus pattern (19 bp):
ATGTATCGATACATTGTGC
Found at i:1074402 original size:167 final size:163
Alignment explanation
Indices: 1073999--1074453 Score: 553
Period size: 167 Copynumber: 2.7 Consensus size: 163
1073989 GGATTTTAAA
* * * *
1073999 AAAAAATCTAAAACTCATGAAAATGAATGAATTTTTAAAAATTTATTTAAT-ATGAAATAAATAA
1 AAAAATTCAAAAACTCATGAAAATGAATGAATTTTTAAAAA-TAATTTACTAAT--AATAAATAA
* * *
1074063 TAATATTTGATGGATTTTAAAAATTAAAAACTATGAAAAT-TTTCCTTGAAAAAATTTACAGAAT
63 TAATATTTGATGAATTTTAAAAATTAAAAACTATGAAAATCTCTCC-CGAAAAAATTTACAGAAT
* ***
1074127 AAAAAACTCTATTTTTTGGAAATAGGGAATTTCAAGG
127 AAAAAACTCTATTTTTTGAAAATAAAAAATTTCAAGG
* * *
1074164 AAAAATTCAAAAACTCATGAAAATGAATAAATTTTCCAAAAATGATTTATCATAA-AATAAATAA
1 AAAAATTCAAAAACTCATGAAAATGAATGAATTTT-TAAAAATAATTTA-C-TAATAATAAATAA
*
1074228 TAATATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCTCTCCCGAAAAAATTTAC-GAAG
63 TAATATTTGATGAATTTTAAAAATTAAAAACTATG-AAAATCTCTCCCGAAAAAATTTACAGAA-
* *
1074292 TAAAAAACTTTGTTTTTTGAAAATAAAAAAATTTCAAGG
126 TAAAAAACTCTATTTTTTGAAAAT-AAAAAATTTCAAGG
1074331 AAAATATTCAAAAAC-CATGAAAATGAATGAATTTTTGAAAAATAATTTACTAATAATTAAATAA
1 AAAA-ATTCAAAAACTCATGAAAATGAATGAATTTTT-AAAAATAATTTACTAATAA-TAAATAA
** *
1074395 TAATATTTGATGAATTTTAAAAATTTTAAACCCTATGAAAATC-CTCTCGAAAAAATTTA
63 TAATATTTGATGAATTTTAAAAA--TTAAAAACTATGAAAATCTCTCCCGAAAAAATTTA
1074454 TGGAGAAGAA
Statistics
Matches: 253, Mismatches: 23, Indels: 26
0.84 0.08 0.09
Matches are distributed among these distances:
165 86 0.34
166 46 0.18
167 95 0.38
168 17 0.07
169 9 0.04
ACGTcount: A:0.51, C:0.08, G:0.08, T:0.33
Consensus pattern (163 bp):
AAAAATTCAAAAACTCATGAAAATGAATGAATTTTTAAAAATAATTTACTAATAATAAATAATAA
TATTTGATGAATTTTAAAAATTAAAAACTATGAAAATCTCTCCCGAAAAAATTTACAGAATAAAA
AACTCTATTTTTTGAAAATAAAAAATTTCAAGG
Found at i:1075875 original size:20 final size:20
Alignment explanation
Indices: 1075849--1075888 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
1075839 GAAAAAATCA
*
1075849 AAAAAAAAAAAGAGAAAAGAG
1 AAAAAAAGAAA-AGAAAAGAG
1075870 AAAAAAAGAAAAGAAAAGA
1 AAAAAAAGAAAAGAAAAGA
1075889 AAGGTTTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.82, C:0.00, G:0.17, T:0.00
Consensus pattern (20 bp):
AAAAAAAGAAAAGAAAAGAG
Found at i:1075993 original size:43 final size:43
Alignment explanation
Indices: 1075941--1076026 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 43
1075931 TCCTATTCTA
* *
1075941 TTTTTACTCATTTCTCTTTTCATCTTATGTGAGCTTGAGGATC
1 TTTTAACTCATTTCTCTTTTCATCTTATCTGAGCTTGAGGATC
*
1075984 TTTTAACTCATTTCTCTTTTCATCTTATCTGAGCTTGGGGATC
1 TTTTAACTCATTTCTCTTTTCATCTTATCTGAGCTTGAGGATC
1076027 CTAAGCATGC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.16, C:0.20, G:0.14, T:0.50
Consensus pattern (43 bp):
TTTTAACTCATTTCTCTTTTCATCTTATCTGAGCTTGAGGATC
Found at i:1076718 original size:51 final size:52
Alignment explanation
Indices: 1076637--1076759 Score: 167
Period size: 51 Copynumber: 2.4 Consensus size: 52
1076627 TCTGGAATGA
* * * * *
1076637 AAATGTATCAATACATTTTTTATTTTATCGATATATTTTG-GGTTTTGACCT
1 AAATGTATCGATACATTCTTCATTGTATCGATACATTTTGAGGTTTTGACCT
* *
1076688 AAATGTATCGATACGTTCTTCATTGTATCGATACATTTTGAGTTTTTGACCT
1 AAATGTATCGATACATTCTTCATTGTATCGATACATTTTGAGGTTTTGACCT
*
1076740 AAATGCATCGATACATTCTT
1 AAATGTATCGATACATTCTT
1076760 TGATAGACTT
Statistics
Matches: 62, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
51 34 0.55
52 28 0.45
ACGTcount: A:0.28, C:0.14, G:0.13, T:0.46
Consensus pattern (52 bp):
AAATGTATCGATACATTCTTCATTGTATCGATACATTTTGAGGTTTTGACCT
Found at i:1077242 original size:24 final size:23
Alignment explanation
Indices: 1077161--1077242 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 23
1077151 TGAAAAAGTC
*
1077161 ACATTTTTACCCAAATGTATCAAT
1 ACATTTTTACCC-AATGTATCGAT
1077185 ACATTTTT---CAATGTATCGAT
1 ACATTTTTACCCAATGTATCGAT
1077205 ACATCCTGTCTTTTACCCAGATGTATCGAT
1 ACA-----T-TTTTACCCA-ATGTATCGAT
1077235 ACATTTTT
1 ACATTTTT
1077243 CAATGTATCG
Statistics
Matches: 47, Mismatches: 1, Indels: 20
0.69 0.01 0.29
Matches are distributed among these distances:
20 13 0.28
21 1 0.02
24 12 0.26
25 2 0.04
26 4 0.09
29 2 0.04
30 13 0.28
ACGTcount: A:0.29, C:0.21, G:0.09, T:0.41
Consensus pattern (23 bp):
ACATTTTTACCCAATGTATCGAT
Found at i:1077250 original size:20 final size:20
Alignment explanation
Indices: 1077225--1077293 Score: 66
Period size: 20 Copynumber: 3.5 Consensus size: 20
1077215 TTTTACCCAG
1077225 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * * *
1077245 ATGTATCGGTGCATGTATGA
1 ATGTATCGATACATTTTTCA
** *
1077265 ATGTATTAATACATTCTTCA
1 ATGTATCGATACATTTTTCA
1077285 ATGTATCGA
1 ATGTATCGA
1077294 CGCATTCTGT
Statistics
Matches: 34, Mismatches: 15, Indels: 0
0.69 0.31 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.30, C:0.13, G:0.16, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:1077342 original size:91 final size:90
Alignment explanation
Indices: 1077174--1077343 Score: 286
Period size: 91 Copynumber: 1.9 Consensus size: 90
1077164 TTTTTACCCA
* *
1077174 AATGTATCAATACATTTTTCAATGTATCGATACATCCTGTCTTTTACCCAGATGTATCGATACAT
1 AATGTATCAATACATTCTTCAATGTATCGACACATCCTGTCTTTTACCCAGATGTATCGATACAT
1077239 TTTTCAATGTATCGGTGCATGTATG
66 TTTTCAATGTATCGGTGCATGTATG
* * *
1077264 AATGTATTAATACATTCTTCAATGTATCGACGCATTCTGTCTTTTTACCCAGATGTATCGATACA
1 AATGTATCAATACATTCTTCAATGTATCGACACATCCTGTC-TTTTACCCAGATGTATCGATACA
1077329 TTTTTCAATGTATCG
65 TTTTTCAATGTATCG
1077344 ATACATCTAG
Statistics
Matches: 74, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
90 36 0.49
91 38 0.51
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.41
Consensus pattern (90 bp):
AATGTATCAATACATTCTTCAATGTATCGACACATCCTGTCTTTTACCCAGATGTATCGATACAT
TTTTCAATGTATCGGTGCATGTATG
Found at i:1082684 original size:13 final size:13
Alignment explanation
Indices: 1082666--1082691 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1082656 AACTTCCTAG
1082666 ATGTATCGATACA
1 ATGTATCGATACA
1082679 ATGTATCGATACA
1 ATGTATCGATACA
1082692 TTGAAAAATG
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:1088246 original size:12 final size:12
Alignment explanation
Indices: 1088229--1088253 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1088219 TCCTTCGTAC
1088229 AAAAAAAAAACA
1 AAAAAAAAAACA
1088241 AAAAAAAAAACA
1 AAAAAAAAAACA
1088253 A
1 A
1088254 CAAATAAGGG
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:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (12 bp):
AAAAAAAAAACA
Found at i:1089472 original size:14 final size:14
Alignment explanation
Indices: 1089453--1089489 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
1089443 ATTCGCTATC
1089453 TGTCAAGAAATGGT
1 TGTCAAGAAATGGT
*
1089467 TGTCAAGAAATTGT
1 TGTCAAGAAATGGT
1089481 TGTCAAGAA
1 TGTCAAGAA
1089490 CTTTTCTCGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.38, C:0.08, G:0.24, T:0.30
Consensus pattern (14 bp):
TGTCAAGAAATGGT
Found at i:1089534 original size:26 final size:25
Alignment explanation
Indices: 1089469--1089534 Score: 62
Period size: 26 Copynumber: 2.6 Consensus size: 25
1089459 GAAATGGTTG
*
1089469 TCAAGAAATTGTTGTCAAGAACTTT
1 TCAAGAAATTTTTGTCAAGAACTTT
** *
1089494 TCTCGAGAATGTTTGTC-AGAAACTTT
1 TCAAGA-AATTTTTGTCAAG-AACTTT
1089520 ATCAAGAAATTTTTG
1 -TCAAGAAATTTTTG
1089535 CCAATACAAT
Statistics
Matches: 31, Mismatches: 7, Indels: 5
0.72 0.16 0.12
Matches are distributed among these distances:
25 6 0.19
26 21 0.68
27 4 0.13
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (25 bp):
TCAAGAAATTTTTGTCAAGAACTTT
Found at i:1089587 original size:28 final size:28
Alignment explanation
Indices: 1089547--1090211 Score: 537
Period size: 28 Copynumber: 23.6 Consensus size: 28
1089537 AATACAATCT
1089547 CTTTTCAAAGCCCACAAGTCAGTGGCAC
1 CTTTTCAAAGCCCACAAGTCAGTGGCAC
*
1089575 CTTTTCAAAGCCCACCAGAT-AGTGGCACCC
1 CTTTTCAAAGCCCACAAG-TCAGTGGCA--C
** * *
1089605 CTTTT-AAAGCCCATGAGTAAATGGCAC
1 CTTTTCAAAGCCCACAAGTCAGTGGCAC
* * *
1089632 TTTTTCAAAGCCCACCAGTCAGTGACAC
1 CTTTTCAAAGCCCACAAGTCAGTGGCAC
* * *
1089660 CCTTTCTAAGCCCACAAGTTAGTGGCATC
1 CTTTTCAAAGCCCACAAGTCAGTGGCA-C
* * *
1089689 C-TTCCAAAGCCCACGAGTTAGTGGCATC
1 CTTTTCAAAGCCCACAAGTCAGTGGCA-C
* * *
1089717 C-TTCCAAAGCCCACGAGTTAGTGGCATC
1 CTTTTCAAAGCCCACAAGTCAGTGGCA-C
* *
1089745 C-TTCCAAAGCCCACGAGTCAGTGGCATC
1 CTTTTCAAAGCCCACAAGTCAGTGGCA-C
* * *
1089773 C-TTTCAAAGCCCACAAGTCAGTAGTAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAC
* * *
1089800 CTATTCAAAGCCCACAAGTCGGTGGCAG
1 CTTTTCAAAGCCCACAAGTCAGTGGCAC
* * *
1089828 TTTTTCAAAGCCCACCAGTCAATGGCATC
1 CTTTTCAAAGCCCACAAGTCAGTGGCA-C
* * *
1089857 C-TTTCAAAGCCCATAAGTCAATGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAC
* * * *
1089884 ATCTTCAAAGCCCACAAGTCAGTGACAA
1 CTTTTCAAAGCCCACAAGTCAGTGGCAC
* *
1089912 TTTTTCAATGCCCACAAGTCAGTGGCA-
1 CTTTTCAAAGCCCACAAGTCAGTGGCAC
* * *
1089939 CTCTTTCTAAGCCCACAATTCAGTGGGATC
1 CT-TTTCAAAGCCCACAAGTCAGTGGCA-C
* *
1089969 C-TTTCAAAGCCCACGAGTCAGTGGCAT
1 CTTTTCAAAGCCCACAAGTCAGTGGCAC
* * *
1089996 CTTTCCAAAGCCCACGAGTTAGTGGCATC
1 CTTTTCAAAGCCCACAAGTCAGTGGCA-C
* * **
1090025 C-TTCCAAAGTCCAGGAGTCAGTGGCATC
1 CTTTTCAAAGCCCACAAGTCAGTGGCA-C
* * *
1090053 C-TTCCAAAGCCCACGAGTTAGTGGCATC
1 CTTTTCAAAGCCCACAAGTCAGTGGCA-C
** *
1090081 C-TTTCAAAGCCCATGAGTTAGTGGCAC
1 CTTTTCAAAGCCCACAAGTCAGTGGCAC
* *
1090108 CATTTCAAAGCCCACAAGTTAGTGGCAC
1 CTTTTCAAAGCCCACAAGTCAGTGGCAC
*
1090136 CTTTTCAAAGCCCACAAGTTAGTGGCATC
1 CTTTTCAAAGCCCACAAGTCAGTGGCA-C
* *
1090165 C-TTTCAAAGCCCACACAAGTCGGTGGCAA
1 CTTTTCAAAG-CC-CACAAGTCAGTGGCAC
1090194 CTTTCTCTAAAGCCCACA
1 CTTT-TC-AAAGCCCACA
1090212 CAAGTTGGTG
Statistics
Matches: 539, Mismatches: 77, Indels: 40
0.82 0.12 0.06
Matches are distributed among these distances:
27 10 0.02
28 470 0.87
29 25 0.05
30 26 0.05
31 4 0.01
32 4 0.01
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.23
Consensus pattern (28 bp):
CTTTTCAAAGCCCACAAGTCAGTGGCAC
Found at i:1089755 original size:84 final size:84
Alignment explanation
Indices: 1089549--1090179 Score: 625
Period size: 84 Copynumber: 7.5 Consensus size: 84
1089539 TACAATCTCT
* * * *
1089549 TTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACCAGATAGTGGCACCCCTTTTAAA
1 TTTCAAAGCCCACAAGTCAGTGGCATCC-TTTCAAAGCCCACAAGTTAGTGGCA-TCCTTTCAAA
** * * *
1089613 GCCCATGAGTAAATGGCA-CTT
64 GCCCACAAGTCAGTGGCATC-C
* * * * *
1089634 TTTCAAAGCCCACCAGTCAGTGACACCCTTTCTAAGCCCACAAGTTAGTGGCATCCTTCCAAAGC
1 TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGC
* *
1089699 CCACGAGTTAGTGGCATCC
66 CCACAAGTCAGTGGCATCC
* * * * * *
1089718 TTCCAAAGCCCACGAGTTAGTGGCATCCTTCCAAAGCCCACGAGTCAGTGGCATCCTTTCAAAGC
1 TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGC
* *
1089783 CCACAAGTCAGTAGTAT-C
66 CCACAAGTCAGTGGCATCC
* * * * *
1089801 TATTCAAAGCCCACAAGTCGGTGGCAGT-TTTTCAAAGCCCACCAGTCAATGGCATCCTTTCAAA
1 T-TTCAAAGCCCACAAGTCAGTGGCA-TCCTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAA
* * *
1089865 GCCCATAAGTCAATGGCAT-A
64 GCCCACAAGTCAGTGGCATCC
* * * * *
1089885 TCTTCAAAGCCCACAAGTCAGTGACAAT-TTTTCAATGCCCACAAGTCAGTGGCA-CTCTTTCTA
1 T-TTCAAAGCCCACAAGTCAGTGGC-ATCCTTTCAAAGCCCACAAGTTAGTGGCATC-CTTTCAA
* *
1089948 AGCCCACAATTCAGTGGGATCC
63 AGCCCACAAGTCAGTGGCATCC
* * *
1089970 TTTCAAAGCCCACGAGTCAGTGGCAT-CTTTCCAAAGCCCACGAGTTAGTGGCATCCTTCCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCATCCTTT-CAAAGCCCACAAGTTAGTGGCATCCTTTCAAAG
* **
1090034 TCCAGGAGTCAGTGGCATCC
65 CCCACAAGTCAGTGGCATCC
* * * **
1090054 TTCCAAAGCCCACGAGTTAGTGGCATCCTTTCAAAGCCCATGAGTTAGTGGCA-CCATTTCAAAG
1 TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATCC-TTTCAAAG
*
1090118 CCCACAAGTTAGTGGCA-CC
65 CCCACAAGTCAGTGGCATCC
*
1090137 TTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACA
1 -TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACA
1090180 CAAGTCGGTG
Statistics
Matches: 458, Mismatches: 76, Indels: 25
0.82 0.14 0.04
Matches are distributed among these distances:
83 12 0.03
84 390 0.85
85 54 0.12
86 2 0.00
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (84 bp):
TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGC
CCACAAGTCAGTGGCATCC
Found at i:1090179 original size:56 final size:56
Alignment explanation
Indices: 1089549--1090179 Score: 620
Period size: 56 Copynumber: 11.2 Consensus size: 56
1089539 TACAATCTCT
* * *
1089549 TTTCAAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACCAGAT-AGTGGCACCCC
1 TTTCAAAGCCCACAAGTTAGTGGCATCC-TTTCAAAGCCCACAAG-TCAGTGGCA-TCC
* ** * * * * * *
1089606 TTTTAAAGCCCATGAGTAAATGGCA-CTTTTTCAAAGCCCACCAGTCAGTGACACCC
1 TTTCAAAGCCCACAAGTTAGTGGCATC-CTTTCAAAGCCCACAAGTCAGTGGCATCC
* * * *
1089662 TTTCTAAGCCCACAAGTTAGTGGCATCCTTCCAAAGCCCACGAGTTAGTGGCATCC
1 TTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCC
* * * *
1089718 TTCCAAAGCCCACGAGTTAGTGGCATCCTTCCAAAGCCCACGAGTCAGTGGCATCC
1 TTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCC
* * * * *
1089774 TTTCAAAGCCCACAAGTCAGTAGTAT-CTATTCAAAGCCCACAAGTCGGTGGCAGT-T
1 TTTCAAAGCCCACAAGTTAGTGGCATCCT-TTCAAAGCCCACAAGTCAGTGGCA-TCC
* * * * * *
1089830 TTTCAAAGCCCACCAGTCAATGGCATCCTTTCAAAGCCCATAAGTCAATGGCAT-A
1 TTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCC
* * * *
1089885 TCTTCAAAGCCCACAAGTCAGTGACAAT-TTTTCAATGCCCACAAGTCAGTGGCA-CTC
1 T-TTCAAAGCCCACAAGTTAGTGGC-ATCCTTTCAAAGCCCACAAGTCAGTGGCATC-C
* * *
1089942 TTTCTAAGCCCACAA-TTCAGTGGGATCCTTTCAAAGCCCACGAGTCAGTGGCAT-C
1 TTTCAAAGCCCACAAGTT-AGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCC
* * * **
1089997 TTTCCAAAGCCCACGAGTTAGTGGCATCCTTCCAAAGTCCAGGAGTCAGTGGCATCC
1 TTT-CAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCC
* * ** *
1090054 TTCCAAAGCCCACGAGTTAGTGGCATCCTTTCAAAGCCCATGAGTTAGTGGCA-CC
1 TTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCC
*
1090109 ATTTCAAAGCCCACAAGTTAGTGGCA-CCTTTTCAAAGCCCACAAGTTAGTGGCATCC
1 -TTTCAAAGCCCACAAGTTAGTGGCATCC-TTTCAAAGCCCACAAGTCAGTGGCATCC
1090166 TTTCAAAGCCCACA
1 TTTCAAAGCCCACA
1090180 CAAGTCGGTG
Statistics
Matches: 485, Mismatches: 70, Indels: 39
0.82 0.12 0.07
Matches are distributed among these distances:
55 15 0.03
56 413 0.85
57 57 0.12
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (56 bp):
TTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCC
Found at i:1091013 original size:20 final size:20
Alignment explanation
Indices: 1090988--1091065 Score: 111
Period size: 20 Copynumber: 3.9 Consensus size: 20
1090978 CTTTTACCCA
1090988 AATGTATCGATACATTTTTC
1 AATGTATCGATACATTTTTC
* * *
1091008 AATGTATCGATACATGTATG
1 AATGTATCGATACATTTTTC
* *
1091028 AACGTATCGATACATTCTTC
1 AATGTATCGATACATTTTTC
1091048 AATGTATCGATACATTTT
1 AATGTATCGATACATTTT
1091066 GTCTTTTTAC
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (20 bp):
AATGTATCGATACATTTTTC
Found at i:1095435 original size:19 final size:20
Alignment explanation
Indices: 1095387--1095440 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
1095377 TTTCAACAAT
1095387 TTGTATCGATACAAATAGTA
1 TTGTATCGATACAAATAGTA
* * *
1095407 TCTATATCGATACATA-AGTG
1 T-TGTATCGATACAAATAGTA
1095427 TTGTATCGATACAA
1 TTGTATCGATACAA
1095441 TGTATCGCTA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 11 0.39
20 5 0.18
21 12 0.43
ACGTcount: A:0.37, C:0.13, G:0.15, T:0.35
Consensus pattern (20 bp):
TTGTATCGATACAAATAGTA
Found at i:1095509 original size:13 final size:13
Alignment explanation
Indices: 1095491--1095516 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1095481 CATTACTCAA
1095491 TGTATCGATACAT
1 TGTATCGATACAT
1095504 TGTATCGATACAT
1 TGTATCGATACAT
1095517 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1100190 original size:13 final size:13
Alignment explanation
Indices: 1100172--1100197 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1100162 CAATTTTTTG
1100172 TGTATCGATACAT
1 TGTATCGATACAT
1100185 TGTATCGATACAT
1 TGTATCGATACAT
1100198 ACTTGCTGTA
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:1100262 original size:21 final size:21
Alignment explanation
Indices: 1100236--1100311 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
1100226 CTACCAAGAA
*
1100236 ATGTATCGATACATCTTTTTT
1 ATGTATCGATACATCTTTTTC
****
1100257 ATGTATCGATACAT-TGCAAC
1 ATGTATCGATACATCTTTTTC
1100277 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACATCTTTTTC
1100298 ATGTATCGATACAT
1 ATGTATCGATACAT
1100312 TGCAACATGT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.42
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTTC
Found at i:1100282 original size:20 final size:20
Alignment explanation
Indices: 1100257--1100329 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1100247 CATCTTTTTT
1100257 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
1100277 ATGTATCGATACATCTTTTTC
1 ATGTATCGATACAT-TGCAAC
1100298 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
1100318 ATGTATCGATAC
1 ATGTATCGATAC
1100330 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:1100293 original size:41 final size:41
Alignment explanation
Indices: 1100236--1100329 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
1100226 CTACCAAGAA
*
1100236 ATGTATCGATACATCTTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1100277 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
1100318 ATGTATCGATAC
1 ATGTATCGATAC
1100330 TTTGAATTGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCTTTTTCATGTATCGATACATTGCAAC
Done.