Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold163
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: 1887244
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.31
Warning! 142876 characters in sequence are not A, C, G, or T
File 4 of 7
Found at i:904534 original size:31 final size:31
Alignment explanation
Indices: 904499--904560 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
904489 TCGGTGCCTT
904499 AGAGAATGTAACAACCCGTTTTTTAATAGTA
1 AGAGAATGTAACAACCCGTTTTTTAATAGTA
904530 AGAGAATGTAACAACCCGTTTTTTAATAGTA
1 AGAGAATGTAACAACCCGTTTTTTAATAGTA
904561 TCAGAAACAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (31 bp):
AGAGAATGTAACAACCCGTTTTTTAATAGTA
Found at i:906028 original size:46 final size:45
Alignment explanation
Indices: 905906--906033 Score: 123
Period size: 46 Copynumber: 2.8 Consensus size: 45
905896 ATATGTTGTA
* * * * *
905906 TAGGTTCAACCCTAACGGGTGACCAGACATTATTATCTAATTCGTG
1 TAGGTTCAACTCTAACAGGTGACCAG-CACTATTATCCAATTCATG
* ** *
905952 TAGGTTCAA-TCCTAATAACTAACCAGGCACTATTATCCAATTCATG
1 TAGGTTCAACT-CTAACAGGTGACCA-GCACTATTATCCAATTCATG
*
905998 TAGGTTCAACTCTAACCGGTGACCGAGCACTATTAT
1 TAGGTTCAACTCTAACAGGTGACC-AGCACTATTAT
906034 TCGATTCGTG
Statistics
Matches: 64, Mismatches: 14, Indels: 8
0.74 0.16 0.09
Matches are distributed among these distances:
46 61 0.95
47 3 0.05
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.30
Consensus pattern (45 bp):
TAGGTTCAACTCTAACAGGTGACCAGCACTATTATCCAATTCATG
Found at i:907585 original size:17 final size:17
Alignment explanation
Indices: 907560--907602 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
907550 TGTGGTTAAT
* * *
907560 TAAAATAAATAAAAAAC
1 TAAATTAAACAAAAAAA
907577 TAAATTAAACAAAAAAA
1 TAAATTAAACAAAAAAA
907594 TATAATTAA
1 TA-AATTAA
907603 TATTTCTTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 16 0.73
18 6 0.27
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (17 bp):
TAAATTAAACAAAAAAA
Found at i:908424 original size:29 final size:31
Alignment explanation
Indices: 908391--908452 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 31
908381 ATTCATGCAC
* *
908391 CATATTAGATATTTT-T-AAAATATAAATAA
1 CATATTAAATATTTTATGAAAATACAAATAA
*
908420 CATATTAAATATTTTATGAAAATACAGATAA
1 CATATTAAATATTTTATGAAAATACAAATAA
908451 CA
1 CA
908453 AATATTAAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
29 14 0.50
30 1 0.04
31 13 0.46
ACGTcount: A:0.52, C:0.06, G:0.05, T:0.37
Consensus pattern (31 bp):
CATATTAAATATTTTATGAAAATACAAATAA
Found at i:909091 original size:23 final size:25
Alignment explanation
Indices: 909065--909133 Score: 83
Period size: 24 Copynumber: 2.9 Consensus size: 25
909055 TATGTGAACT
909065 TTTAAAAATTATAAAAATTA-AT-A
1 TTTAAAAATTATAAAAATTATATAA
*
909088 TTTAAAAAATCATAAAAA-TATATAA
1 TTT-AAAAATTATAAAAATTATATAA
*
909113 TCTAAAAA-TATAAAAATTATA
1 TTTAAAAATTATAAAAATTATA
909134 AATAATGGAA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
23 12 0.31
24 24 0.62
25 3 0.08
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (25 bp):
TTTAAAAATTATAAAAATTATATAA
Found at i:909120 original size:15 final size:16
Alignment explanation
Indices: 909095--909124 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
909085 ATATTTAAAA
909095 AATCATAAAAATATAT
1 AATCATAAAAATATAT
909111 AATC-TAAAAATATA
1 AATCATAAAAATATA
909125 AAAATTATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (16 bp):
AATCATAAAAATATAT
Found at i:910679 original size:17 final size:18
Alignment explanation
Indices: 910657--910698 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 18
910647 GTAAAAATGA
*
910657 TATTTTTAATTTTTTAG-
1 TATTTTTAATCTTTTAGT
910674 TA-TTTT-ATCTTTTAGT
1 TATTTTTAATCTTTTAGT
910690 TATTTTTAA
1 TATTTTTAA
910699 ATAACTCTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 5
0.78 0.04 0.19
Matches are distributed among these distances:
15 8 0.38
16 6 0.29
17 6 0.29
18 1 0.05
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.69
Consensus pattern (18 bp):
TATTTTTAATCTTTTAGT
Found at i:910903 original size:15 final size:16
Alignment explanation
Indices: 910880--910915 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
910870 GCGCAATTTT
910880 TTTTATTTTTTTATA-
1 TTTTATTTTTTTATAG
*
910895 TTTTGTTTTTTTATAG
1 TTTTATTTTTTTATAG
910911 TTTTA
1 TTTTA
910916 GACTAATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.78
Consensus pattern (16 bp):
TTTTATTTTTTTATAG
Found at i:912499 original size:3 final size:3
Alignment explanation
Indices: 912491--912558 Score: 91
Period size: 3 Copynumber: 21.3 Consensus size: 3
912481 TAAGTAAATG
912491 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ACTA ATTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA A-TA
*
912538 GTTA CATA ATA ATA ATA ATA A
1 -ATA -ATA ATA ATA ATA ATA A
912559 GGGACTAAAT
Statistics
Matches: 59, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
3 50 0.85
4 9 0.15
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:913836 original size:3 final size:3
Alignment explanation
Indices: 913828--913858 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
913818 TTGTATGTAG
*
913828 AAT AAT AAT AAT AAT AGT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
913859 TAGAAACAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:914693 original size:43 final size:43
Alignment explanation
Indices: 914646--914964 Score: 177
Period size: 43 Copynumber: 7.3 Consensus size: 43
914636 CATTGTAACT
914646 TCAGGGAGATAGGATAGTATCTTCGATCTGCTCCGCTGTAATC
1 TCAGGGAGATAGGATAGTATCTTCGATCTGCTCCGCTGTAATC
* * * * * * *
914689 TCAGGGAGATAAGAT-CTCTTGCTTCAATCTGCACCACTGTAACC
1 TCAGGGAGATAGGATAGT-AT-CTTCGATCTGCTCCGCTGTAATC
* * * * * *
914733 TCAGGGAGAT-GAGATCTGAAATTCTTCGGTCTACTCCACTGTAACC
1 TCAGGGAGATAG-GAT-AG-TA-TCTTCGATCTGCTCCGCTGTAATC
* * * * * *
914779 CCAGGGAGATAAGACA-TGA--TGCGATCTACTCTGCTGTAA-C
1 TCAGGGAGATAGGATAGT-ATCTTCGATCTGCTCCGCTGTAATC
* * ** ** ** **
914819 TTCAGAGAGATAAGATCCTTTAT-TTTAATCCACTCTACTGTAA-C
1 -TCAGGGAGATAGGAT--AGTATCTTCGATCTGCTCCGCTGTAATC
* * *
914863 TTCAGGGAGATAGGATAGTGTCTTCGATCTGCTCTGCTGCAATC
1 -TCAGGGAGATAGGATAGTATCTTCGATCTGCTCCGCTGTAATC
* *
914907 TCAGGGAGATAGAATAGTGTCTTCGATCTGCTCCGCTGTAATC
1 TCAGGGAGATAGGATAGTATCTTCGATCTGCTCCGCTGTAATC
914950 TCAGGGAGATAGGAT
1 TCAGGGAGATAGGAT
914965 CTCTAATATT
Statistics
Matches: 212, Mismatches: 48, Indels: 32
0.73 0.16 0.11
Matches are distributed among these distances:
40 1 0.00
41 28 0.13
42 3 0.01
43 84 0.40
44 65 0.31
46 30 0.14
47 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (43 bp):
TCAGGGAGATAGGATAGTATCTTCGATCTGCTCCGCTGTAATC
Found at i:914729 original size:44 final size:44
Alignment explanation
Indices: 914666--914749 Score: 123
Period size: 44 Copynumber: 1.9 Consensus size: 44
914656 AGGATAGTAT
* * * *
914666 CTTCGATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTCTTG
1 CTTCAATCTGCACCACTGTAACCTCAGGGAGATAAGATCTCTTG
*
914710 CTTCAATCTGCACCACTGTAACCTCAGGGAGATGAGATCT
1 CTTCAATCTGCACCACTGTAACCTCAGGGAGATAAGATCT
914750 GAAATTCTTC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 35 1.00
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (44 bp):
CTTCAATCTGCACCACTGTAACCTCAGGGAGATAAGATCTCTTG
Found at i:914730 original size:87 final size:85
Alignment explanation
Indices: 914544--914742 Score: 206
Period size: 87 Copynumber: 2.3 Consensus size: 85
914534 GTGGTTTTAG
*
914544 TCTGCTCCACTGTAACTTCAGGGAGATAAGACTAGATGAGATCTGCTCTACTACATCTTCAGAGA
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGACTAGATGAGATCTGCTCCACTACATCTTCAGAGA
* * *
914609 GATAAGATCTTTTGTTTTAA
66 GATAAGATCTCTTGCTTCAA
* * * * ** *
914629 TCCGCTTCATTGTAACTTCAGGGAGATAGGA-TAGTATCTTCGATCTGCTCCGCTGTA-ATC-TC
1 TCTGCTCCACTGTAACTTCAGGGAGATAAGACTAG-A--TGAGATCTGCTCCAC--TACATCTTC
*
914691 AGGGAGATAAGATCTCTTGCTTCAA
61 AGAGAGATAAGATCTCTTGCTTCAA
* *
914716 TCTGCACCACTGTAACCTCAGGGAGAT
1 TCTGCTCCACTGTAACTTCAGGGAGAT
914743 GAGATCTGAA
Statistics
Matches: 92, Mismatches: 17, Indels: 8
0.79 0.15 0.07
Matches are distributed among these distances:
84 3 0.03
85 28 0.30
87 56 0.61
88 3 0.03
89 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.31
Consensus pattern (85 bp):
TCTGCTCCACTGTAACTTCAGGGAGATAAGACTAGATGAGATCTGCTCCACTACATCTTCAGAGA
GATAAGATCTCTTGCTTCAA
Found at i:931716 original size:3 final size:3
Alignment explanation
Indices: 931708--931738 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
931698 NNNNNNNNNN
*
931708 AAT AAT AAT AAT AAT AGT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
931739 TAGAAACAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:937205 original size:132 final size:132
Alignment explanation
Indices: 937063--938057 Score: 1172
Period size: 132 Copynumber: 7.5 Consensus size: 132
937053 GAGATAAAAA
* * *
937063 TACTAGCTTCAATGTACTCCACTGTAACCAC-AGGGAGGTAAAATTCACCATCTTTGATCTGCTC
1 TACTGGCTTCAATGTACTCCACTGTAACCACGA-GGAGGTAAAATTCGCCATCTTCGATCTGCTC
* *
937127 CACTACTGCTTGGGGAGACAAGATCTGAAATCTTTAATCTATTCCACTGCTGCCCAGGGAAGTAG
65 CACTACTGCTTGGGGAGGCAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAG
937192 AAT
130 AAT
* * * * * *
937195 TACTGGCTTCAATGTACTCCACTGTAACCACAATGAGGTAAAATCCGCCGTCTTTGATCTGCTCA
1 TACTGGCTTCAATGTACTCCACTGTAACCACGAGGAGGTAAAATTCGCCATCTTCGATCTGCTCC
* * * * *
937260 ACTACTGCCTAGGGAGGTAATATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGG-AGATAG
66 ACTACTGCTTGGGGAGGCAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAG-TAG
937324 AAT
130 AAT
* * * * *
937327 TACTGGCCTCAATGTACTCCACTGTAACCTC-AGGGAGGTAAAATCCGCCATATTTGATCTGCTC
1 TACTGGCTTCAATGTACTCCACTGTAACCACGA-GGAGGTAAAATTCGCCATCTTCGATCTGCTC
* * * * *
937391 CACTACTGCCTAGGGAGACAAGATCTAAAATCCTCAATCTATTCCACTGCTGCCCAGGGAAGTAG
65 CACTACTGCTTGGGGAGGCAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAG
937456 AAAT
130 -AAT
* * *
937460 T-CTGGCTTCAATGTACTCCACTGTAACCACGATGAGGTAAAATTCACCATCTTTGATCTGCTCC
1 TACTGGCTTCAATGTACTCCACTGTAACCACGAGGAGGTAAAATTCGCCATCTTCGATCTGCTCC
* * * *
937524 ACTACCGCTTAGGGAGACAAGATCTAAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGA
66 ACTACTGCTTGGGGAGGCAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGA
937589 AT
131 AT
* *
937591 TACTGGCTTCAATGTACTCCACTGTAACCTC-AGGGAGGTAAAATTTGCCATCTTCGATCTG-T-
1 TACTGGCTTCAATGTACTCCACTGTAACCACGA-GGAGGTAAAATTCGCCATCTTCGATCTGCTC
** * * * ** * *
937653 -TTTGCTGTCTATGTAGGAAGGCAAGACCTGCTATCTTCAAACTATTCCACTGCTGCCCAGAGAA
65 CACTACTG-CT-TG--GGGAGGCAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAA
937717 GTAGAAT
126 GTAGAAT
* * * * *
937724 TACCGGCTTCAATGTACTCCACTGTAACCACGATGAGGTAAAATTCACCATCTTCGATCTGATTC
1 TACTGGCTTCAATGTACTCCACTGTAACCACGAGGAGGTAAAATTCGCCATCTTCGATCTGCTCC
* ** * * *
937789 -GTTGTCCATGCAGGAAGGCAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTA
66 ACTACTGCTTG--GGGAGGCAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTA
937853 GAAT
129 GAAT
*
937857 TACTGGCTTCAATGTACTCCACTGTAACCACGAGGAGGTAAAA-TCTGCCATCTTCGACCTGCT-
1 TACTGGCTTCAATGTACTCCACTGTAACCACGAGGAGGTAAAATTC-GCCATCTTCGATCTGCTC
* * * * *
937920 --TTGCTGTCTATGCAGGAAGGCAAGATCTGAAATCTTCAAACTATTCCACTGCTGCCTAGGGAA
65 CACTACTG-CT-TG--GGGAGGCAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAA
937983 GTAGAAT
126 GTAGAAT
* *
937990 TACCGGCTTCAATGTACTCCACTGTAACCACGAGGAGGTAAAA-TCTGCCATCTTCGATCTGCTT
1 TACTGGCTTCAATGTACTCCACTGTAACCACGAGGAGGTAAAATTC-GCCATCTTCGATCTGCTC
938054 CACT
65 CACT
938058 GTCTATGCAA
Statistics
Matches: 758, Mismatches: 83, Indels: 40
0.86 0.09 0.05
Matches are distributed among these distances:
129 3 0.00
130 2 0.00
131 12 0.02
132 397 0.52
133 338 0.45
134 3 0.00
135 2 0.00
136 1 0.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (132 bp):
TACTGGCTTCAATGTACTCCACTGTAACCACGAGGAGGTAAAATTCGCCATCTTCGATCTGCTCC
ACTACTGCTTGGGGAGGCAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAGA
AT
Found at i:937733 original size:133 final size:133
Alignment explanation
Indices: 937063--938091 Score: 1189
Period size: 133 Copynumber: 7.8 Consensus size: 133
937053 GAGATAAAAA
* * * *
937063 TACTAGCTTCAATGTACTCCACTGTAACCAC-AGGGAGGTAAAATTCACCATCTTTGATCTGCTC
1 TACTGGCTTCAATGTACTCCACTGTAACCACGA-GGAGGTAAAATCCGCCATCTTCGATCTGCTC
* * * *
937127 CACTACTGCT-TG--GGGAGACAAGATCTGAAATCTTTAATCTATTCCACTGCTGCCCAGGGAAG
65 CACT-GT-CTATGTAGGAAGGCAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAG
937189 TAGAAT
128 TAGAAT
* * * * *
937195 TACTGGCTTCAATGTACTCCACTGTAACCACAATGAGGTAAAATCCGCCGTCTTTGATCTGCTCA
1 TACTGGCTTCAATGTACTCCACTGTAACCACGAGGAGGTAAAATCCGCCATCTTCGATCTGCTCC
* *** * * * *
937260 ACT-ACTGCCTAGGGAGGTAATATCTGTAATCTTCAATCTATTCCACTGCTGCCCAGGG-AGATA
66 ACTGTCTATGTAGGAAGGCAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAG-TA
937323 GAAT
130 GAAT
* * * *
937327 TACTGGCCTCAATGTACTCCACTGTAACCTC-AGGGAGGTAAAATCCGCCATATTTGATCTGCTC
1 TACTGGCTTCAATGTACTCCACTGTAACCACGA-GGAGGTAAAATCCGCCATCTTCGATCTGCTC
* *** * * * *
937391 CACT-ACTGCCTAGGGAGACAAGATCTAAAATCCTCAATCTATTCCACTGCTGCCCAGGGAAGTA
65 CACTGTCTATGTAGGAAGGCAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTA
937455 GAAAT
130 G-AAT
* * * *
937460 T-CTGGCTTCAATGTACTCCACTGTAACCACGATGAGGTAAAATTCACCATCTTTGATCTGCTCC
1 TACTGGCTTCAATGTACTCCACTGTAACCACGAGGAGGTAAAATCCGCCATCTTCGATCTGCTCC
** ** * * *
937524 ACTACCGCT-TAGGGAGACAAGATCTAAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAG
66 ACTGTCTATGTAGGAAGGCAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAG
937588 AAT
131 AAT
* ** * *
937591 TACTGGCTTCAATGTACTCCACTGTAACCTC-AGGGAGGTAAAATTTGCCATCTTCGATCTGTTT
1 TACTGGCTTCAATGTACTCCACTGTAACCACGA-GGAGGTAAAATCCGCCATCTTCGATCTGCTC
** * ** * *
937655 TGCTGTCTATGTAGGAAGGCAAGACCTGCTATCTTCAAACTATTCCACTGCTGCCCAGAGAAGTA
65 CACTGTCTATGTAGGAAGGCAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTA
937720 GAAT
130 GAAT
* * * * * *
937724 TACCGGCTTCAATGTACTCCACTGTAACCACGATGAGGTAAAATTCACCATCTTCGATCTGATTC
1 TACTGGCTTCAATGTACTCCACTGTAACCACGAGGAGGTAAAATCCGCCATCTTCGATCTGCTCC
** * *
937789 GTTGTCCATGCAGGAAGGCAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAG
66 ACTGTCTATGTAGGAAGGCAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAG
937854 AAT
131 AAT
* * **
937857 TACTGGCTTCAATGTACTCCACTGTAACCACGAGGAGGTAAAATCTGCCATCTTCGACCTGCTTT
1 TACTGGCTTCAATGTACTCCACTGTAACCACGAGGAGGTAAAATCCGCCATCTTCGATCTGCTCC
* * * *
937922 GCTGTCTATGCAGGAAGGCAAGATCTGAAATCTTCAAACTATTCCACTGCTGCCTAGGGAAGTAG
66 ACTGTCTATGTAGGAAGGCAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAG
937987 AAT
131 AAT
* * *
937990 TACCGGCTTCAATGTACTCCACTGTAACCACGAGGAGGTAAAATCTGCCATCTTCGATCTGCTTC
1 TACTGGCTTCAATGTACTCCACTGTAACCACGAGGAGGTAAAATCCGCCATCTTCGATCTGCTCC
* * **
938055 ACTGTCTATGCAAGAAGGCAAGATCTGCTATCTTCAA
66 ACTGTCTATGTAGGAAGGCAAGATCTGAAATCTTCAA
938092 CCTGCTCCGC
Statistics
Matches: 791, Mismatches: 92, Indels: 27
0.87 0.10 0.03
Matches are distributed among these distances:
129 2 0.00
131 8 0.01
132 389 0.49
133 391 0.49
134 1 0.00
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.28
Consensus pattern (133 bp):
TACTGGCTTCAATGTACTCCACTGTAACCACGAGGAGGTAAAATCCGCCATCTTCGATCTGCTCC
ACTGTCTATGTAGGAAGGCAAGATCTGAAATCTTCAATCTATTCCACTGCTGCCCAGGGAAGTAG
AAT
Found at i:939411 original size:14 final size:14
Alignment explanation
Indices: 939392--939435 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
939382 TTAGCCTCTC
939392 CATTTTTACTTTTT
1 CATTTTTACTTTTT
*
939406 CATTTTT-CAGTTTT
1 CATTTTTAC-TTTTT
*
939420 CATTTTCACTTTTT
1 CATTTTTACTTTTT
939434 CA
1 CA
939436 CATCACCTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
13 1 0.04
14 23 0.92
15 1 0.04
ACGTcount: A:0.16, C:0.18, G:0.02, T:0.64
Consensus pattern (14 bp):
CATTTTTACTTTTT
Found at i:942313 original size:19 final size:20
Alignment explanation
Indices: 942289--942328 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
942279 AACAGTATCC
* *
942289 AATGCATATG-ATGTAATGA
1 AATGCAAATGCATGAAATGA
942308 AATGCAAATGCATGAAATGA
1 AATGCAAATGCATGAAATGA
942328 A
1 A
942329 TGAAAAAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.47, C:0.07, G:0.20, T:0.25
Consensus pattern (20 bp):
AATGCAAATGCATGAAATGA
Found at i:953885 original size:40 final size:38
Alignment explanation
Indices: 953807--953885 Score: 95
Period size: 38 Copynumber: 2.0 Consensus size: 38
953797 GAATTTTCCT
* * *
953807 ATAAAAAATTAATATTTCATATAATTTTACCATATTAA
1 ATAAAAAATGAAAATTTCATATAATTATACCATATTAA
* *
953845 ATAAAAAATGAAAATTTGAGTATATATTATATCATATTAA
1 ATAAAAAATGAAAATTTCA-TATA-ATTATACCATATTAA
953885 A
1 A
953886 CAGATACTCG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
38 16 0.47
39 4 0.12
40 14 0.41
ACGTcount: A:0.52, C:0.05, G:0.04, T:0.39
Consensus pattern (38 bp):
ATAAAAAATGAAAATTTCATATAATTATACCATATTAA
Found at i:956111 original size:17 final size:17
Alignment explanation
Indices: 956091--956126 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
956081 TTAAACTTTG
*
956091 CTTTGCTTTTCTTTTTC
1 CTTTGATTTTCTTTTTC
*
956108 CTTTTATTTTCTTTTTC
1 CTTTGATTTTCTTTTTC
956125 CT
1 CT
956127 CTAGTTTGCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.03, C:0.22, G:0.03, T:0.72
Consensus pattern (17 bp):
CTTTGATTTTCTTTTTC
Found at i:957731 original size:9 final size:9
Alignment explanation
Indices: 957717--957741 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
957707 TGCAAATGCT
957717 ATAATAACA
1 ATAATAACA
957726 ATAATAACA
1 ATAATAACA
957735 ATAATAA
1 ATAATAA
957742 ATACATCATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (9 bp):
ATAATAACA
Found at i:959735 original size:45 final size:46
Alignment explanation
Indices: 959679--960452 Score: 391
Period size: 45 Copynumber: 17.7 Consensus size: 46
959669 TTGGCTTTAA
959679 TCTGCTCCACTGCAACTTCAGGAG-GATAAGATTTGCCATCTTCAG
1 TCTGCTCCACTGCAACTTCAGGAGAGATAAGATTTGCCATCTTCAG
* * * **
959724 TCTGCTTCACTGCAACTTCAGGAG-GACAAGACTTGCTTTGCTT-AG
1 TCTGCTCCACTGCAACTTCAGGAGAGATAAGATTTGCCAT-CTTCAG
* * ** *
959769 TCTGCTCCACTGTAACTTCA-GTGAGATAAGA----CCAGATGC-G
1 TCTGCTCCACTGCAACTTCAGGAGAGATAAGATTTGCCATCTTCAG
* * *** * *
959809 ATCTGCT-CTCTGCAACTTCA-GAGAGATAAGATCTGAGGT-TTTAA
1 -TCTGCTCCACTGCAACTTCAGGAGAGATAAGATTTGCCATCTTCAG
* * * * *
959853 TCTGCTCCAATGCAAATTCAGG-GAGATAGGATTATCGGC-T-TT-AA
1 TCTGCTCCACTGCAACTTCAGGAGAGATAAGATT-T-GCCATCTTCAG
959897 TCTGCTCCACTGCAACTTCAGG-GAGATAAGATTTGCCATCTTCAG
1 TCTGCTCCACTGCAACTTCAGGAGAGATAAGATTTGCCATCTTCAG
* ** *
959942 TCTGC-CTCACTGCAACTTCAGGAG-GATAAGACTTGCTTTGATT-AG
1 TCTGCTC-CACTGCAACTTCAGGAGAGATAAGATTTGCCAT-CTTCAG
* * * *
959987 TCTGCTCCACTGCAACTTCAGG-GAGATAAAACTAG--A--TGC-G
1 TCTGCTCCACTGCAACTTCAGGAGAGATAAGATTTGCCATCTTCAG
* * *** * *
960027 ATCTGCT-CTCTGCAACTTCA-GAGAGATAAGATCTGAGGT-TTTAA
1 -TCTGCTCCACTGCAACTTCAGGAGAGATAAGATTTGCCATCTTCAG
* * * * *
960071 TCCGCTCCAATGCAACTTCAGGA-ATATATA-ATTAT---ATGCTTTAA
1 TCTGCTCCACTGCAACTTCAGGAGAGATA-AGATT-TGCCAT-CTTCAG
960115 TCTGCTCCACTGCAACTTCAGG-GAGATAAGATTTGCCATCTTCAG
1 TCTGCTCCACTGCAACTTCAGGAGAGATAAGATTTGCCATCTTCAG
* * **
960160 TCTGC-CTCACTGCAAATTCAGGAG-GATAAGACTTGCTTTGCTT-AG
1 TCTGCTC-CACTGCAACTTCAGGAGAGATAAGATTTGCCAT-CTTCAG
* * *
960205 TCTGCTCCACTGCAACTTCAGG-GAGATAAGACTAG--A--TGC-G
1 TCTGCTCCACTGCAACTTCAGGAGAGATAAGATTTGCCATCTTCAG
* * *** * *
960245 ATCTGCT-CTCTGCAACTTCA-GAGAGATAAGATCTGAGGT-TTTAA
1 -TCTGCTCCACTGCAACTTCAGGAGAGATAAGATTTGCCATCTTCAG
* * * * ** *
960289 TCCGCTCCAATGCAACTTCAGGA-AGACAGGATTAT-CGGTCTT-AA
1 TCTGCTCCACTGCAACTTCAGGAGAGATAAGATT-TGCCATCTTCAG
960333 TCTGCTCCACTGCAACTTCAGG-GAGATAAGATTTGCCATCTTCAG
1 TCTGCTCCACTGCAACTTCAGGAGAGATAAGATTTGCCATCTTCAG
* * * *
960378 TCTGC-CTCACAGCAACTTTAGGAG-GATAAGACTTG-CTTACTT-AG
1 TCTGCTC-CACTGCAACTTCAGGAGAGATAAGATTTGCCAT-CTTCAG
* *
960422 TCTGCTCCATTGCAACTTCAAG-GAGATAAGA
1 TCTGCTCCACTGCAACTTCAGGAGAGATAAGA
960453 CTAGATGCGG
Statistics
Matches: 564, Mismatches: 102, Indels: 127
0.71 0.13 0.16
Matches are distributed among these distances:
39 2 0.00
40 70 0.12
41 19 0.03
42 3 0.01
43 25 0.04
44 192 0.34
45 237 0.42
46 16 0.03
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (46 bp):
TCTGCTCCACTGCAACTTCAGGAGAGATAAGATTTGCCATCTTCAG
Found at i:959978 original size:218 final size:218
Alignment explanation
Indices: 959590--960461 Score: 1417
Period size: 218 Copynumber: 4.0 Consensus size: 218
959580 TGATCTACCA
* * * * ** *
959590 ATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGAGGTTTTAATCCACTCCACTATAATTTCA
1 ATCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTGAGGTTTTAATCCGCTCCAATGCAACTTCA
* *
959655 GGGAGATAGGATTATTGGCTTTAATCTGCTCCACTGCAACTTCA-GGAGGATAAGATTTGCCATC
65 GGAAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGA-GATAAGATTTGCCATC
* * *
959719 TTCAGTCTGCTTCACTGCAACTTCAGGAGGACAAGACTTGCTTTGCTTAGTCTGCTCCACTGTAA
129 TTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTTGCTTAGTCTGCTCCACTGCAA
* *
959784 CTTCAGTGAGATAAGACCAGATGCG
194 CTTCAGGGAGATAAGACTAGATGCG
* *
959809 ATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGAGGTTTTAATCTGCTCCAATGCAAATTCAG
1 ATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGAGGTTTTAATCCGCTCCAATGCAACTTCAG
*
959874 GGAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTT
66 GAAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTT
*
959939 CAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTTGATTAGTCTGCTCCACTGCAACT
131 CAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTTGCTTAGTCTGCTCCACTGCAACT
*
960004 TCAGGGAGATAAAACTAGATGCG
196 TCAGGGAGATAAGACTAGATGCG
960027 ATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGAGGTTTTAATCCGCTCCAATGCAACTTCAG
1 ATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGAGGTTTTAATCCGCTCCAATGCAACTTCAG
* ** **
960092 GAATATATAATTATATGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTT
66 GAAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTT
*
960157 CAGTCTGCCTCACTGCAAATTCAGGAGGATAAGACTTGCTTTGCTTAGTCTGCTCCACTGCAACT
131 CAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTTGCTTAGTCTGCTCCACTGCAACT
960222 TCAGGGAGATAAGACTAGATGCG
196 TCAGGGAGATAAGACTAGATGCG
960245 ATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGAGGTTTTAATCCGCTCCAATGCAACTTCAG
1 ATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGAGGTTTTAATCCGCTCCAATGCAACTTCAG
*
960310 GAAGACAGGATTATCGG-TCTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCT
66 GAAGATAGGATTATCGGCT-TTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCT
* * * *
960374 TCAGTCTGCCTCACAGCAACTTTAGGAGGATAAGACTTGC-TTACTTAGTCTGCTCCATTGCAAC
130 TCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTTGCTTAGTCTGCTCCACTGCAAC
*
960438 TTCAAGGAGATAAGACTAGATGCG
195 TTCAGGGAGATAAGACTAGATGCG
960462 GTTTGTTATC
Statistics
Matches: 612, Mismatches: 39, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
217 46 0.08
218 556 0.91
219 10 0.02
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.29
Consensus pattern (218 bp):
ATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGAGGTTTTAATCCGCTCCAATGCAACTTCAG
GAAGATAGGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTT
CAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTTGCTTAGTCTGCTCCACTGCAACT
TCAGGGAGATAAGACTAGATGCG
Found at i:960045 original size:85 final size:88
Alignment explanation
Indices: 959897--960456 Score: 211
Period size: 89 Copynumber: 6.4 Consensus size: 88
959887 TCGGCTTTAA
* * *
959897 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAAACTAG-CATC-TCAGTCTGCCTCACTGCAACTTCA
959962 G-GAGGATAAGACTTGCTTTGATTAG
64 GAGA-GATAAGACTTGCTTTGATTAG
* *
959987 TCTGCTCCACTGCAACTTCAGGGAGATAAAACTAG-AT-GC-GATCTG-CTCTCTGCAACTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAAACTAGCATCTCAG-TCTGCCTCACTGCAACTTCAG
** *
960048 AGAGATAAGA-TCTGAGGTT--TTAA
65 AGAGATAAGACT-TG-CTTTGATTAG
* * * * * * * * *
960071 TCCGCTCCAATGCAACTTCAGGAATATATAATTA-TATGCTTTAATCTG-CTCCACTGCAACTTC
1 TCTGCTCCACTGCAACTTCAGGGAGATAAAACTAGCAT-C-TCAGTCTGCCT-CACTGCAACTTC
* * ** *
960134 AGGGAGATAAGATTTGCCAT-CTTCAG
63 AGAGAGATAAGACTTGCTTTGATT-AG
* * * * *
960160 TCTGC-CTCACTGCAAATTCA-GGAGGATAAGACTTGCTTTGCTTAGTCTG-CTCCACTGCAACT
1 TCTGCTC-CACTGCAACTTCAGGGA-GATAAAACTAGC-AT-CTCAGTCTGCCT-CACTGCAACT
* * * **
960222 TCAGGGAGATAAGACTAG--ATG-CGA-
61 TCAGAGAGATAAGACTTGCTTTGATTAG
* * * * * * * * *
960246 TCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTGAG-GTTTTAATCCG-CTCCAATGCAACTTC
1 TCTGCTCCACTGCAACTTCAGGGAGATAA-AACT-AGCATCTCAGTCTGCCT-CACTGCAACTTC
* * * ** * *
960308 AG-GAAGACAGGA-TT-ATCGGTCTTAA
63 AGAG-AGATAAGACTTGCTTTG-ATTAG
* * * * *
960333 TCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCTCACAGCAACTTTA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAAACTAG-CATC-TCAGTCTGCCTCACTGCAACTTCA
960398 G-GAGGATAAGACTTGC-TT-ACTTAG
64 GAGA-GATAAGACTTGCTTTGA-TTAG
* * *
960422 TCTGCTCCATTGCAACTTCAAGGAGATAAGACTAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAAACTAG
960457 ATGCGGTTTG
Statistics
Matches: 351, Mismatches: 82, Indels: 75
0.69 0.16 0.15
Matches are distributed among these distances:
83 2 0.01
84 63 0.18
85 42 0.12
86 20 0.06
87 16 0.05
88 55 0.16
89 78 0.22
90 72 0.21
91 3 0.01
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (88 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAAACTAGCATCTCAGTCTGCCTCACTGCAACTTCAGA
GAGATAAGACTTGCTTTGATTAG
Found at i:973112 original size:127 final size:127
Alignment explanation
Indices: 972886--973140 Score: 510
Period size: 127 Copynumber: 2.0 Consensus size: 127
972876 TTTGCCCCTC
972886 TGCATAAAAAACACGTGGATCCTGGGTCCGGGTCGGGTCGACGAGCGGATCCTCCCCTCAAAACG
1 TGCATAAAAAACACGTGGATCCTGGGTCCGGGTCGGGTCGACGAGCGGATCCTCCCCTCAAAACG
972951 GCTCCGTTTTCAATTGGCTATTTACGCCAAAACTTAAACCAAATTTCATTTCCAAAATCCAT
66 GCTCCGTTTTCAATTGGCTATTTACGCCAAAACTTAAACCAAATTTCATTTCCAAAATCCAT
973013 TGCATAAAAAACACGTGGATCCTGGGTCCGGGTCGGGTCGACGAGCGGATCCTCCCCTCAAAACG
1 TGCATAAAAAACACGTGGATCCTGGGTCCGGGTCGGGTCGACGAGCGGATCCTCCCCTCAAAACG
973078 GCTCCGTTTTCAATTGGCTATTTACGCCAAAACTTAAACCAAATTTCATTTCCAAAATCCAT
66 GCTCCGTTTTCAATTGGCTATTTACGCCAAAACTTAAACCAAATTTCATTTCCAAAATCCAT
973140 T
1 T
973141 TAAAAAAAAA
Statistics
Matches: 128, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
127 128 1.00
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.25
Consensus pattern (127 bp):
TGCATAAAAAACACGTGGATCCTGGGTCCGGGTCGGGTCGACGAGCGGATCCTCCCCTCAAAACG
GCTCCGTTTTCAATTGGCTATTTACGCCAAAACTTAAACCAAATTTCATTTCCAAAATCCAT
Found at i:973858 original size:17 final size:17
Alignment explanation
Indices: 973826--973859 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
973816 CCTGAATCAA
*
973826 GTTTGGGCCACTATTTG
1 GTTTGGGCCACAATTTG
*
973843 GTTTGGGCCTCAATTTG
1 GTTTGGGCCACAATTTG
973860 TTTTTTTAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.12, C:0.18, G:0.29, T:0.41
Consensus pattern (17 bp):
GTTTGGGCCACAATTTG
Found at i:980303 original size:24 final size:24
Alignment explanation
Indices: 980267--980344 Score: 84
Period size: 24 Copynumber: 3.2 Consensus size: 24
980257 ATGGACATTC
980267 TTTTAAATCTATTATGTATAATTG
1 TTTTAAATCTATTATGTATAATTG
* * **
980291 TTTTAATTTTATTATGTATTGTTG
1 TTTTAAATCTATTATGTATAATTG
* * * *
980315 TTTTAAAGCTATTAGGTATTATTA
1 TTTTAAATCTATTATGTATAATTG
980339 TTTTAA
1 TTTTAA
980345 GTTATCTTAT
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.29, C:0.03, G:0.10, T:0.58
Consensus pattern (24 bp):
TTTTAAATCTATTATGTATAATTG
Found at i:983596 original size:21 final size:22
Alignment explanation
Indices: 983550--983596 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
983540 GAACTATTTC
* *
983550 ATCAGTATCATCACCAGTGATT
1 ATCAGTATCATCAACAGTGATA
983572 ATCA-TATCATCAACA-TAGATA
1 ATCAGTATCATCAACAGT-GATA
983593 ATCA
1 ATCA
983597 AGCATGTAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 1 0.05
21 17 0.77
22 4 0.18
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (22 bp):
ATCAGTATCATCAACAGTGATA
Found at i:1000240 original size:3 final size:3
Alignment explanation
Indices: 1000232--1000265 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
1000222 GAAAGAAATG
1000232 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1000266 ATTAAATTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:1008444 original size:13 final size:13
Alignment explanation
Indices: 1008367--1008446 Score: 52
Period size: 13 Copynumber: 6.1 Consensus size: 13
1008357 ATTATGTGTT
* *
1008367 AAATGGTAAAATG
1 AAATGGTTATATG
* *
1008380 AAATGTTTAGATG
1 AAATGGTTATATG
*
1008393 AAATGGTTATACG
1 AAATGGTTATATG
** *
1008406 AAATATTTTTATG
1 AAATGGTTATATG
* **
1008419 AAAATAGACATATG
1 -AAATGGTTATATG
1008433 AAATGGTTATATG
1 AAATGGTTATATG
1008446 A
1 A
1008447 TGTGTCTATA
Statistics
Matches: 49, Mismatches: 17, Indels: 2
0.72 0.25 0.03
Matches are distributed among these distances:
13 40 0.82
14 9 0.18
ACGTcount: A:0.45, C:0.03, G:0.19, T:0.34
Consensus pattern (13 bp):
AAATGGTTATATG
Found at i:1008469 original size:13 final size:13
Alignment explanation
Indices: 1008377--1008471 Score: 57
Period size: 13 Copynumber: 7.2 Consensus size: 13
1008367 AAATGGTAAA
*
1008377 ATGAAATGTTTAG
1 ATGAAATGTTTAT
*
1008390 ATGAAATGGTTAT
1 ATGAAATGTTTAT
* * *
1008403 ACGAAATATTTTT
1 ATGAAATGTTTAT
**
1008416 ATGAAAATAG-ACAT
1 ATG-AAAT-GTTTAT
*
1008430 ATGAAATGGTTAT
1 ATGAAATGTTTAT
** *
1008443 ATGATGTGTCTAT
1 ATGAAATGTTTAT
*
1008456 ATGAAATATTTAT
1 ATGAAATGTTTAT
1008469 ATG
1 ATG
1008472 GATATTGATA
Statistics
Matches: 58, Mismatches: 21, Indels: 6
0.68 0.25 0.07
Matches are distributed among these distances:
12 1 0.02
13 49 0.84
14 8 0.14
ACGTcount: A:0.40, C:0.03, G:0.18, T:0.39
Consensus pattern (13 bp):
ATGAAATGTTTAT
Found at i:1010336 original size:71 final size:71
Alignment explanation
Indices: 1010255--1010387 Score: 248
Period size: 71 Copynumber: 1.9 Consensus size: 71
1010245 ATGGTATTTT
* *
1010255 TTTTTTTGTTTTAAATGCATTTTGAATGGTTGATTTGGAAGGGTTGAATTGATACAAATGCTCAT
1 TTTTTTTGTTTTAAATGCATTTTAAATGGTTGATTTGGAAAGGTTGAATTGATACAAATGCTCAT
1010320 GGAATG
66 GGAATG
1010326 TTTTTTTGTTTTAAATGCATTTTAAATGGTTGATTTGGAAAGGTTGAATTGATACAAATGCT
1 TTTTTTTGTTTTAAATGCATTTTAAATGGTTGATTTGGAAAGGTTGAATTGATACAAATGCT
1010388 TAGGTAACTT
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
71 60 1.00
ACGTcount: A:0.28, C:0.05, G:0.22, T:0.45
Consensus pattern (71 bp):
TTTTTTTGTTTTAAATGCATTTTAAATGGTTGATTTGGAAAGGTTGAATTGATACAAATGCTCAT
GGAATG
Found at i:1011948 original size:71 final size:71
Alignment explanation
Indices: 1011710--1011965 Score: 246
Period size: 71 Copynumber: 3.6 Consensus size: 71
1011700 TTCAATGTTA
* ** * * * * * * *
1011710 CTCACTCAAGTTGTCGTTAATCCGTAACATGTGCTAGATCTCAGCCATCAATAAAGTATAATTCG
1 CTCACTCAAGCTGTCGAGAATCCGCAACTTATGTTAGATCTCAGTCATCAGTAAAATATAATTCG
*
1011775 ATGTTG
66 ATGCTG
* ** * ** *
1011781 CTCACTCAAGCTATCGAGAATATGCAGCTTATG-CCGAATCTCAGTCATC-GCTAAAATCTAATT
1 CTCACTCAAGCTGTCGAGAATCCGCAACTTATGTTAG-ATCTCAGTCATCAG-TAAAATATAATT
1011844 CGATGCTG
64 CGATGCTG
* *
1011852 CTCACTCAAGCTGTTGAGAACCCGCAACTTATGTTAGATCTCAGTCATCAGTAAAATATAATTCG
1 CTCACTCAAGCTGTCGAGAATCCGCAACTTATGTTAGATCTCAGTCATCAGTAAAATATAATTCG
1011917 ATGCTG
66 ATGCTG
* * * * * *
1011923 CTTACTCAAGTTGTCAAAAATCCGCAACATATGTTGGATCTCA
1 CTCACTCAAGCTGTCGAGAATCCGCAACTTATGTTAGATCTCA
1011966 ACAATCGAAT
Statistics
Matches: 147, Mismatches: 34, Indels: 8
0.78 0.18 0.04
Matches are distributed among these distances:
70 1 0.01
71 144 0.98
72 2 0.01
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.30
Consensus pattern (71 bp):
CTCACTCAAGCTGTCGAGAATCCGCAACTTATGTTAGATCTCAGTCATCAGTAAAATATAATTCG
ATGCTG
Found at i:1014503 original size:212 final size:213
Alignment explanation
Indices: 1014125--1014550 Score: 845
Period size: 212 Copynumber: 2.0 Consensus size: 213
1014115 AGAAAATATA
1014125 TTTTAAAAATAAAATAAATGACAAAATATAATGCAATTCAAATCATATATTATTTTTCTATATAA
1 TTTTAAAAATAAAATAAATGACAAAATATAATGCAATTCAAATCATATATTATTTTTCTATATAA
1014190 AAAATAAAAAATAAATAATTTCAAAATAATACAATTTATCTTTTATCATTAGATGGAAACAAAGT
66 AAAATAAAAAATAAATAATTTCAAAATAATACAATTTATCTTTTATCATTAGATGGAAACAAAGT
1014255 CAGTAAAGGATTTAAAAACAGTGAAGATAAAAAATCCGAATCATGACCGGATTGAGGTGGTGGAC
131 CAGTAAAGGATTTAAAAACAGTGAAGATAAAAAATCCGAATCATGACCGGATTGAGGTGGTGGAC
1014320 AACTCTGCCAACTATTAC
196 AACTCTGCCAACTATTAC
1014338 TTTTAAAAAT-AAATAAATGACAAAATATAATGCAATTCAAATCATATATTATTTTTCTATATAA
1 TTTTAAAAATAAAATAAATGACAAAATATAATGCAATTCAAATCATATATTATTTTTCTATATAA
1014402 AAAATAAAAAATAAATAATTTCAAAATAATACAATTTATCTTTTATCATTAGATGGAAACAAAGT
66 AAAATAAAAAATAAATAATTTCAAAATAATACAATTTATCTTTTATCATTAGATGGAAACAAAGT
1014467 CAGTAAAGGATTTAAAAACAGTGAAGATAAAAAATCCGAATCATGACCGGATTGAGGTGGTGGAC
131 CAGTAAAGGATTTAAAAACAGTGAAGATAAAAAATCCGAATCATGACCGGATTGAGGTGGTGGAC
1014532 AACTCTGCCAACTATTAC
196 AACTCTGCCAACTATTAC
1014550 T
1 T
1014551 ATTACTTAAA
Statistics
Matches: 213, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
212 203 0.95
213 10 0.05
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.30
Consensus pattern (213 bp):
TTTTAAAAATAAAATAAATGACAAAATATAATGCAATTCAAATCATATATTATTTTTCTATATAA
AAAATAAAAAATAAATAATTTCAAAATAATACAATTTATCTTTTATCATTAGATGGAAACAAAGT
CAGTAAAGGATTTAAAAACAGTGAAGATAAAAAATCCGAATCATGACCGGATTGAGGTGGTGGAC
AACTCTGCCAACTATTAC
Found at i:1037120 original size:28 final size:28
Alignment explanation
Indices: 1037080--1037145 Score: 96
Period size: 28 Copynumber: 2.4 Consensus size: 28
1037070 ATGGATGCAG
* *
1037080 AATCACATATGCAGAACTATAAATACGA
1 AATCATATATGCAAAACTATAAATACGA
*
1037108 AATCATATATGCAAAATTATAAATACGA
1 AATCATATATGCAAAACTATAAATACGA
*
1037136 AATTATATAT
1 AATCATATAT
1037146 ATTGATTTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.52, C:0.12, G:0.08, T:0.29
Consensus pattern (28 bp):
AATCATATATGCAAAACTATAAATACGA
Found at i:1037138 original size:14 final size:14
Alignment explanation
Indices: 1037097--1037142 Score: 56
Period size: 14 Copynumber: 3.3 Consensus size: 14
1037087 TATGCAGAAC
1037097 TATAAATACGAAAT
1 TATAAATACGAAAT
* * * *
1037111 CATATATGCAAAAT
1 TATAAATACGAAAT
1037125 TATAAATACGAAAT
1 TATAAATACGAAAT
1037139 TATA
1 TATA
1037143 TATATTGATT
Statistics
Matches: 24, Mismatches: 8, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.54, C:0.09, G:0.07, T:0.30
Consensus pattern (14 bp):
TATAAATACGAAAT
Found at i:1037171 original size:28 final size:28
Alignment explanation
Indices: 1037140--1037254 Score: 97
Period size: 28 Copynumber: 4.1 Consensus size: 28
1037130 ATACGAAATT
* *
1037140 ATATATATTGATTTATAAGTACTGATTC
1 ATATATATGGATTTATAAGTACAGATTC
** * **
1037168 ATATATGCGGACTCCT-AGATACAGATTC
1 ATATATATGGATTTATAAG-TACAGATTC
* *
1037196 ATATATATGGATTTATAAGTACGGAATC
1 ATATATATGGATTTATAAGTACAGATTC
* * * *
1037224 ATATATGTGGATTCATAAATACAGATAC
1 ATATATATGGATTTATAAGTACAGATTC
1037252 ATA
1 ATA
1037255 AGTACATATT
Statistics
Matches: 65, Mismatches: 20, Indels: 4
0.73 0.22 0.04
Matches are distributed among these distances:
27 2 0.03
28 61 0.94
29 2 0.03
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (28 bp):
ATATATATGGATTTATAAGTACAGATTC
Found at i:1037200 original size:56 final size:56
Alignment explanation
Indices: 1037140--1037254 Score: 158
Period size: 56 Copynumber: 2.1 Consensus size: 56
1037130 ATACGAAATT
* * * * * *
1037140 ATATATATTGATTTATAAGTACTGATTCATATATGCGGACTCCTAGATACAGATTC
1 ATATATATGGATTTATAAGTACGGAATCATATATGCGGACTCATAAATACAGATAC
* *
1037196 ATATATATGGATTTATAAGTACGGAATCATATATGTGGATTCATAAATACAGATAC
1 ATATATATGGATTTATAAGTACGGAATCATATATGCGGACTCATAAATACAGATAC
1037252 ATA
1 ATA
1037255 AGTACATATT
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
56 51 1.00
ACGTcount: A:0.38, C:0.11, G:0.15, T:0.36
Consensus pattern (56 bp):
ATATATATGGATTTATAAGTACGGAATCATATATGCGGACTCATAAATACAGATAC
Found at i:1037256 original size:42 final size:42
Alignment explanation
Indices: 1037210--1037291 Score: 110
Period size: 42 Copynumber: 2.0 Consensus size: 42
1037200 ATATGGATTT
* *
1037210 ATAAGTACGGAATCATATATGTGGATTCATAAATACAGATAC
1 ATAAGTACAGAATCATATATATGGATTCATAAATACAGATAC
* * * *
1037252 ATAAGTACATATTCTTATATATGGATTCATAGATACAGAT
1 ATAAGTACAGAATCATATATATGGATTCATAAATACAGAT
1037292 TCATGCCTGC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.41, C:0.11, G:0.15, T:0.33
Consensus pattern (42 bp):
ATAAGTACAGAATCATATATATGGATTCATAAATACAGATAC
Found at i:1037469 original size:37 final size:37
Alignment explanation
Indices: 1037423--1037493 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 37
1037413 AATTTGAAGT
* *
1037423 ATGAGGACAAGTTCAATAGACCGTAATAACTTGAAAC
1 ATGAGGACAAGTCCAACAGACCGTAATAACTTGAAAC
* * *
1037460 ATGATGACAAGTCCAACGGACCGTCATAACTTGA
1 ATGAGGACAAGTCCAACAGACCGTAATAACTTGA
1037494 GTATGCCCAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 29 1.00
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.21
Consensus pattern (37 bp):
ATGAGGACAAGTCCAACAGACCGTAATAACTTGAAAC
Found at i:1039879 original size:22 final size:22
Alignment explanation
Indices: 1039853--1039902 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
1039843 TTATCTAGAA
1039853 ATATGTTTATAA-G-TATTGTGAT
1 ATATGTTTA-AATGTTA-TGTGAT
*
1039875 ATATGCTTAAATGTTATGTGAT
1 ATATGTTTAAATGTTATGTGAT
1039897 ATATGT
1 ATATGT
1039903 GTAATGTGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 2 0.08
22 20 0.83
23 2 0.08
ACGTcount: A:0.32, C:0.02, G:0.18, T:0.48
Consensus pattern (22 bp):
ATATGTTTAAATGTTATGTGAT
Found at i:1041697 original size:26 final size:26
Alignment explanation
Indices: 1041656--1041716 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
1041646 AATTTTCTCG
* * *
1041656 AAATTTTACCGGGGGT-AAGATCGTTA
1 AAATTTTACCGAGGGTCAA-ATCATCA
*
1041682 AAATTTTACCTAGGGTCAAATCATCA
1 AAATTTTACCGAGGGTCAAATCATCA
1041708 AAATTTTAC
1 AAATTTTAC
1041717 TGGAGTAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 28 0.93
27 2 0.07
ACGTcount: A:0.36, C:0.15, G:0.16, T:0.33
Consensus pattern (26 bp):
AAATTTTACCGAGGGTCAAATCATCA
Found at i:1043970 original size:39 final size:39
Alignment explanation
Indices: 1043924--1044002 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
1043914 TTTAAAAGTA
*
1043924 TATATTATAATTAAATAAAAATGATTTTTGAAATTTAAG
1 TATATTATAATTAAATAAAAATGATTTTTCAAATTTAAG
1043963 TATATTATAATTAAATAAAAATGATTTTTCAAATTTAAG
1 TATATTATAATTAAATAAAAATGATTTTTCAAATTTAAG
1044002 T
1 T
1044003 TTTTTATCTT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.48, C:0.01, G:0.06, T:0.44
Consensus pattern (39 bp):
TATATTATAATTAAATAAAAATGATTTTTCAAATTTAAG
Found at i:1048752 original size:29 final size:29
Alignment explanation
Indices: 1048696--1048752 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
1048686 TTATGAAAGA
* * * *
1048696 GATGGAGAACTTGTTCGTTGAGAGTTCGC
1 GATGAAGAACTTGTTCATTAAGAATTCGC
*
1048725 GATGAAGAACTTGTTCATTAATAATTCG
1 GATGAAGAACTTGTTCATTAAGAATTCG
1048753 TGTCAAGATG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.33
Consensus pattern (29 bp):
GATGAAGAACTTGTTCATTAAGAATTCGC
Found at i:1052623 original size:44 final size:44
Alignment explanation
Indices: 1052539--1052655 Score: 130
Period size: 44 Copynumber: 2.7 Consensus size: 44
1052529 GCTCAGGCTA
**
1052539 CTCCGCTGCAACTTCAGGGAAATAAGA-CCTGCTTACTCAATCTG
1 CTCCGCTGCAACTTCAGGGAAATAAGATTATGCTTA-TCAATCTG
* *
1052583 CTTCGCTGCAACTTCAGGGAAATAAGATTATCGGTT-TCAATCTG
1 CTCCGCTGCAACTTCAGGGAAATAAGATTAT-GCTTATCAATCTG
* * * *
1052627 CTCCACTGCAACCTCATGGAAATGAGATT
1 CTCCGCTGCAACTTCAGGGAAATAAGATT
1052656 CGCCATCTTC
Statistics
Matches: 62, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
44 58 0.94
45 1 0.02
46 3 0.05
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (44 bp):
CTCCGCTGCAACTTCAGGGAAATAAGATTATGCTTATCAATCTG
Found at i:1075381 original size:109 final size:109
Alignment explanation
Indices: 1075161--1075480 Score: 364
Period size: 109 Copynumber: 2.9 Consensus size: 109
1075151 AAAATTCAAG
* *
1075161 AGGATATTTGACTATTTGGTTAAATGAG-AAATCGAAACCCCA-CACATT-AGTGCACG-TTCCT
1 AGGATATTTGGCTATTTGGTTGAATGAGAAAATCGAAA-CCCAGCACATTAAG-GCACGTTTCCT
* * * *
1075222 CAAATTTCCAAACGCAAAATATAGTCTTACTTTGAAAAATTTTTTGAA
64 CGAATTTCCAAACGCAAAATATTGCCTTA-TTTGAAAAA-TTTTTAAA
*
1075270 AGGATATTTGGCTATTTGGTTGAATGAGAAAAATTCGAAACCCAGCACATTAAGGCGCGTTTCCT
1 AGGATATTTGGCTATTTGGTTGAATGAG-AAAA-TCGAAACCCAGCACATTAAGGCACGTTTCCT
* *
1075335 CGAATTTCCAAACG-AAAACATTGCCTTATTTTAAAAA-TTTTAAA
64 CGAATTTCCAAACGCAAAATATTGCCTTATTTGAAAAATTTTTAAA
* * * * * * *
1075379 AGGATACTTAGTTATTTGGTTGAACGAGAAAATCGAAACCCAGCACACTAGGGCACGTTTTCTCG
1 AGGATATTTGGCTATTTGGTTGAATGAGAAAATCGAAACCCAGCACATTAAGGCACGTTTCCTCG
* * *
1075444 AATTTCTAAACGCTAAATATTGCCTCATTTAGAAAAA
66 AATTTCCAAACGCAAAATATTGCCTTATTT-GAAAAA
1075481 CTTTCCTTTT
Statistics
Matches: 181, Mismatches: 22, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
107 40 0.22
108 18 0.10
109 61 0.34
111 15 0.08
112 27 0.15
113 20 0.11
ACGTcount: A:0.36, C:0.17, G:0.16, T:0.31
Consensus pattern (109 bp):
AGGATATTTGGCTATTTGGTTGAATGAGAAAATCGAAACCCAGCACATTAAGGCACGTTTCCTCG
AATTTCCAAACGCAAAATATTGCCTTATTTGAAAAATTTTTAAA
Found at i:1075550 original size:21 final size:21
Alignment explanation
Indices: 1075506--1075551 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
1075496 GTATGGTGTT
* *
1075506 AATATGCATAATGGAATAATA
1 AATATGCATAATGGAACAAAA
1075527 AATATG-ATAATGTGAACAAAA
1 AATATGCATAATG-GAACAAAA
1075548 AATA
1 AATA
1075552 ATATGAGCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.57, C:0.04, G:0.13, T:0.26
Consensus pattern (21 bp):
AATATGCATAATGGAACAAAA
Found at i:1086060 original size:12 final size:12
Alignment explanation
Indices: 1086043--1086090 Score: 55
Period size: 12 Copynumber: 4.1 Consensus size: 12
1086033 TTTTAATAAT
1086043 ATTTAATATTAA
1 ATTTAATATTAA
*
1086055 ATTTAAT-CTAA
1 ATTTAATATTAA
*
1086066 TATTT-AGATTAA
1 -ATTTAATATTAA
1086078 ATTTAATATTAA
1 ATTTAATATTAA
1086090 A
1 A
1086091 GTGATTAAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
11 8 0.28
12 21 0.72
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (12 bp):
ATTTAATATTAA
Found at i:1086076 original size:23 final size:24
Alignment explanation
Indices: 1086039--1086084 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
1086029 ATTATTTTAA
*
1086039 TAATATTTAATATTAAATTTAATC
1 TAATATTTAAGATTAAATTTAATC
1086063 TAATATTT-AGATTAAATTTAAT
1 TAATATTTAAGATTAAATTTAAT
1086085 ATTAAAGTGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (24 bp):
TAATATTTAAGATTAAATTTAATC
Found at i:1100423 original size:125 final size:124
Alignment explanation
Indices: 1100189--1100565 Score: 533
Period size: 125 Copynumber: 3.0 Consensus size: 124
1100179 TTAGGATTTT
* * *
1100189 TAGGTCCTGGAAGAAATAATTTCGAGTTGACATTTCTGAGCAAATAGTATAAAATCGCTTTTACA
1 TAGGTCCTAGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACA
* *
1100254 AGATGCTTTATGAGAAGAATTTGTTAAATCGCGCCCACGTGGACGCGCTTTTGCTACAG
66 AGATGCTTTATGAGAAGAATTTATAAAATCGCGCCCACGTGGACGCGCTTTTGCTACAG
* * * *
1100313 TAGGTCCT-GAAAAAATTATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTCAAG
1 TAGGTCCTAGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTAT-AAAATCGCTTCTA-
* * * *
1100377 CAGGATGCTATT-TCAGAAGAATTTCTAAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
64 CAAGATGCT-TTATGAGAAGAATTTATAAAATCGCGCCCACGTGGACGCGCTTTTGCTACAG
* *
1100438 TTGGTCCTAGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTTTAAAATCGCTTCTACC
1 TAGGTCCTAGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTA-C
* * * *
1100503 ATGATGCTTTATGAGAAGAATTTATGAAATTGCACCCACGTGGACGCGCTTTTGCTACAG
65 AAGATGCTTTATGAGAAGAATTTATAAAATCGCGCCCACGTGGACGCGCTTTTGCTACAG
1100563 TAG
1 TAG
1100566 CATGTTTGGG
Statistics
Matches: 222, Mismatches: 26, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
123 38 0.17
124 20 0.09
125 124 0.56
126 40 0.18
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.31
Consensus pattern (124 bp):
TAGGTCCTAGAAGAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTACA
AGATGCTTTATGAGAAGAATTTATAAAATCGCGCCCACGTGGACGCGCTTTTGCTACAG
Found at i:1103089 original size:30 final size:30
Alignment explanation
Indices: 1103054--1103110 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
1103044 CCTCGACTCT
*
1103054 AACTTTTTCAAAATTACAATTTTGCCCATA
1 AACTTTTACAAAATTACAATTTTGCCCATA
* *
1103084 AACTTTTACATAATTACATTTTTGCCC
1 AACTTTTACAAAATTACAATTTTGCCC
1103111 CAAGGCTCAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.33, C:0.21, G:0.04, T:0.42
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCATA
Found at i:1107369 original size:7 final size:7
Alignment explanation
Indices: 1107359--1107383 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
1107349 TTATATACAT
1107359 AATACTA
1 AATACTA
1107366 AATACTA
1 AATACTA
1107373 AATACTA
1 AATACTA
1107380 AATA
1 AATA
1107384 GCAATCAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:1107591 original size:20 final size:20
Alignment explanation
Indices: 1107554--1107591 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1107544 TTTATTTTTA
*
1107554 AAAATCTAAATAGTAATTAT
1 AAAATCTAAATAGAAATTAT
1107574 AAAATCTAATATA-AAATT
1 AAAATCTAA-ATAGAAATT
1107592 TACCTCGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAATCTAAATAGAAATTAT
Found at i:1108507 original size:43 final size:43
Alignment explanation
Indices: 1108454--1108633 Score: 299
Period size: 43 Copynumber: 4.2 Consensus size: 43
1108444 GAAAATAACA
* * *
1108454 CCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTTCCACAAACG
1 CCGCTAAAGACCATGACCTTTAGCGACGCTTTTCCCACAAACG
1108497 CCGCTAAAGACCATGACCTTTAGCGACGCTTTTCCCACAAACG
1 CCGCTAAAGACCATGACCTTTAGCGACGCTTTTCCCACAAACG
1108540 CCGCTAAAGACCATGACCTTTAGCGACGCTTTTCCCACAAACG
1 CCGCTAAAGACCATGACCTTTAGCGACGCTTTTCCCACAAACG
* *
1108583 CCGCTAAAGACCATGACCTTTAGC-AGCGCTTTTTCCATAAACG
1 CCGCTAAAGACCATGACCTTTAGCGA-CGCTTTTCCCACAAACG
1108626 CCGCTAAA
1 CCGCTAAA
1108634 AATATAACTT
Statistics
Matches: 131, Mismatches: 5, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
42 1 0.01
43 130 0.99
ACGTcount: A:0.28, C:0.33, G:0.17, T:0.22
Consensus pattern (43 bp):
CCGCTAAAGACCATGACCTTTAGCGACGCTTTTCCCACAAACG
Found at i:1108684 original size:22 final size:23
Alignment explanation
Indices: 1108656--1108705 Score: 68
Period size: 22 Copynumber: 2.2 Consensus size: 23
1108646 AAAAAATTTA
*
1108656 TTTTAATCAA-ATTATATTTAT-T
1 TTTTAATAAATATTATA-TTATGT
1108678 TTTTAATAAATATTATATTATGT
1 TTTTAATAAATATTATATTATGT
1108701 TTTTA
1 TTTTA
1108706 TTTTCTAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
22 13 0.52
23 12 0.48
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (23 bp):
TTTTAATAAATATTATATTATGT
Found at i:1108908 original size:115 final size:102
Alignment explanation
Indices: 1108783--1109000 Score: 301
Period size: 115 Copynumber: 2.0 Consensus size: 102
1108773 TTGTGAAAAT
1108783 TTTAACTTTAAAACTAAATATAAAAATTAATGAATTTAATTTTAGAATTTAAAATAATAAATTAA
1 TTTAACTTTAAAACTAAATATAAAAATTAATGAATTTAATTTTAGAATTTAAAATAATAAATTAA
*
1108848 TAACACAATTAAAATACAAAAGTTAAAGCTCAAGTTG
66 TAACACAATTAAAATACAAAAGTTAAAACTCAAGTTG
*
1108885 NNNNNNNNNNNNNTTTAACTTTAAAACTAAATATAAAAATTAATGAATTTAGTTTTAGAATTTAA
1 -------------TTTAACTTTAAAACTAAATATAAAAATTAATGAATTTAATTTTAGAATTTAA
1108950 AATAATAAATTAATAACACAATTAAAATACAAAAGTTAAAACTCAAGTTG
53 AATAATAAATTAATAACACAATTAAAATACAAAAGTTAAAACTCAAGTTG
1109000 T
1 T
1109001 CGTAAATATT
Statistics
Matches: 101, Mismatches: 2, Indels: 13
0.87 0.02 0.11
Matches are distributed among these distances:
102 1 0.01
115 100 0.99
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.33
Consensus pattern (102 bp):
TTTAACTTTAAAACTAAATATAAAAATTAATGAATTTAATTTTAGAATTTAAAATAATAAATTAA
TAACACAATTAAAATACAAAAGTTAAAACTCAAGTTG
Found at i:1109025 original size:115 final size:115
Alignment explanation
Indices: 1108791--1109025 Score: 290
Period size: 115 Copynumber: 2.0 Consensus size: 115
1108781 ATTTTAACTT
1108791 TAAAACTAAATATAAAAATTAATGAATTTAATTTTAGAATTTAAAATAATAAATTAATAACACAA
1 TAAAACTAAATATAAAAATTAATGAATTTAATTTTAGAATTTAAAATAATAAATTAATAACACAA
* *************** ***
1108856 TTAAAATACAAAAGTTAAAGCTCAAGTTGNNNNNNNNNNNNNTTTAACTT
66 TTAAAATACAAAAGTTAAAACTCAAGTTGTCGTAAATATTAAAGTAAAAA
*
1108906 TAAAACTAAATATAAAAATTAATGAATTTAGTTTTAGAATTTAAAATAATAAATTAATAACACAA
1 TAAAACTAAATATAAAAATTAATGAATTTAATTTTAGAATTTAAAATAATAAATTAATAACACAA
1108971 TTAAAATACAAAAGTTAAAACTCAAGTTGTCGTAAATATTAAAGTAAAAA
66 TTAAAATACAAAAGTTAAAACTCAAGTTGTCGTAAATATTAAAGTAAAAA
1109021 TAAAA
1 TAAAA
1109026 ATTTAGAATC
Statistics
Matches: 100, Mismatches: 20, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
115 100 1.00
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.31
Consensus pattern (115 bp):
TAAAACTAAATATAAAAATTAATGAATTTAATTTTAGAATTTAAAATAATAAATTAATAACACAA
TTAAAATACAAAAGTTAAAACTCAAGTTGTCGTAAATATTAAAGTAAAAA
Found at i:1113082 original size:41 final size:40
Alignment explanation
Indices: 1112971--1113082 Score: 143
Period size: 41 Copynumber: 2.7 Consensus size: 40
1112961 TTAGCGGCGT
* * *
1112971 GCTTTCTCAAAAACGCCGCTAAAGACACCAGCATTAGCGGC
1 GCTTT-TCCAAAACGCCGCTAAAGACCCCAGCATTAGCAGC
*
1113012 GCTTTTCCAAAGACGCCGCTAAAAACCCCAGCATTAGCAGC
1 GCTTTTCCAAA-ACGCCGCTAAAGACCCCAGCATTAGCAGC
* *
1113053 GCTTTTACGAAAACGCCGCTAAAGCCCCCA
1 GCTTTT-CCAAAACGCCGCTAAAGACCCCA
1113083 AAGGTAAGAA
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
40 5 0.08
41 53 0.85
42 4 0.06
ACGTcount: A:0.31, C:0.34, G:0.18, T:0.17
Consensus pattern (40 bp):
GCTTTTCCAAAACGCCGCTAAAGACCCCAGCATTAGCAGC
Found at i:1113170 original size:39 final size:40
Alignment explanation
Indices: 1113116--1113218 Score: 149
Period size: 40 Copynumber: 2.6 Consensus size: 40
1113106 GGCTTTGGTT
1113116 AACGCCGCTAATGCTC-ATTTTTAGCGGC-ATTTT-TTGAAA
1 AACGCCGCTAATGCTCGATTTTTAGCGGCGATTTTCTT--AA
* *
1113155 AACGCCGCTAATGCTCGATCTTTAGTGGCGATTTTCTTAA
1 AACGCCGCTAATGCTCGATTTTTAGCGGCGATTTTCTTAA
1113195 AACGCCGCTAATGCTCGATTTTTA
1 AACGCCGCTAATGCTCGATTTTTA
1113219 CCAGTATTTT
Statistics
Matches: 58, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
39 16 0.28
40 35 0.60
41 5 0.09
42 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.35
Consensus pattern (40 bp):
AACGCCGCTAATGCTCGATTTTTAGCGGCGATTTTCTTAA
Found at i:1113591 original size:11 final size:11
Alignment explanation
Indices: 1113577--1113631 Score: 60
Period size: 11 Copynumber: 4.9 Consensus size: 11
1113567 TTAAATATGG
1113577 ATTTGAGAGAA
1 ATTTGAGAGAA
*
1113588 ATTTG-GAAGGA
1 ATTTGAG-AGAA
1113599 ATTTGAGAGCAA
1 ATTTGAGAG-AA
1113611 A-TTGAGAGGAA
1 ATTTGAGA-GAA
1113622 ATTTGAGAGA
1 ATTTGAGAGA
1113632 GGATAAGTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
10 1 0.03
11 26 0.70
12 10 0.27
ACGTcount: A:0.42, C:0.02, G:0.31, T:0.25
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:1113624 original size:23 final size:22
Alignment explanation
Indices: 1113577--1113631 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
1113567 TTAAATATGG
1113577 ATTTGAGAGAAATTTGGAAGGA
1 ATTTGAGAGAAATTTGGAAGGA
1113599 ATTTGAGAGCAAA-TT-GAGAGGAA
1 ATTTGAGAG-AAATTTGGA-AGG-A
1113622 ATTTGAGAGA
1 ATTTGAGAGA
1113632 GGATAAGTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
21 2 0.07
22 15 0.50
23 13 0.43
ACGTcount: A:0.42, C:0.02, G:0.31, T:0.25
Consensus pattern (22 bp):
ATTTGAGAGAAATTTGGAAGGA
Found at i:1117361 original size:45 final size:45
Alignment explanation
Indices: 1117278--1117406 Score: 134
Period size: 45 Copynumber: 2.9 Consensus size: 45
1117268 CTATAAGCCT
* *
1117278 AAAATGAGTAAAACCATAGTTGAAAGGCACTATAGCATCA-GAATG
1 AAAATGAGTAAAACCATAGCTGAAAGACACTATAGCATCATG-ATG
* * * ** *
1117323 GAAATTAGTAAGACCATAGCTGAAAGATGCTATGGCATCATGATG
1 AAAATGAGTAAAACCATAGCTGAAAGACACTATAGCATCATGATG
* * * *
1117368 AAAATGAGTAAAACGATGGCTGAAAGACATTATGGCATC
1 AAAATGAGTAAAACCATAGCTGAAAGACACTATAGCATC
1117407 CTTTGATAGT
Statistics
Matches: 67, Mismatches: 16, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
45 66 0.99
46 1 0.01
ACGTcount: A:0.43, C:0.13, G:0.22, T:0.22
Consensus pattern (45 bp):
AAAATGAGTAAAACCATAGCTGAAAGACACTATAGCATCATGATG
Found at i:1117517 original size:27 final size:27
Alignment explanation
Indices: 1117484--1117596 Score: 118
Period size: 27 Copynumber: 4.2 Consensus size: 27
1117474 ACGACATCAT
* * * *
1117484 AGATAGTTTAATGGGATGTTAAATATG
1 AGATAGTTCAACGGGATGTTAAACACG
* *
1117511 AGATAGTTTAACGGGAAGTTAAACACG
1 AGATAGTTCAACGGGATGTTAAACACG
* * *
1117538 GGATAGTCCAACGGGATGTTAAACATG
1 AGATAGTTCAACGGGATGTTAAACACG
* * *
1117565 AGATAGTTCGATGAGATGTTAAACACG
1 AGATAGTTCAACGGGATGTTAAACACG
1117592 AGATA
1 AGATA
1117597 AACTAATAGG
Statistics
Matches: 71, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 71 1.00
ACGTcount: A:0.38, C:0.09, G:0.27, T:0.27
Consensus pattern (27 bp):
AGATAGTTCAACGGGATGTTAAACACG
Found at i:1117635 original size:54 final size:54
Alignment explanation
Indices: 1117556--1117679 Score: 142
Period size: 54 Copynumber: 2.3 Consensus size: 54
1117546 CAACGGGATG
* * * * * *
1117556 TTAAACATGAGATAGTTCGATGAGATGTTAAACACGAGATAAACTAA-TAGGACA
1 TTAAACACGGGATAATTCGACGAGATGTTAAACACAAAATAAACTAACT-GGACA
* * **
1117610 TTGAACACTGGATAATTCGACGAGATGTTAAACACAAAATAGTCTAACTGGACA
1 TTAAACACGGGATAATTCGACGAGATGTTAAACACAAAATAAACTAACTGGACA
1117664 TTAAACACGGGATAAT
1 TTAAACACGGGATAAT
1117680 CTGTTGAGAC
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
54 56 0.98
55 1 0.02
ACGTcount: A:0.43, C:0.14, G:0.19, T:0.24
Consensus pattern (54 bp):
TTAAACACGGGATAATTCGACGAGATGTTAAACACAAAATAAACTAACTGGACA
Found at i:1129033 original size:92 final size:94
Alignment explanation
Indices: 1128909--1129127 Score: 232
Period size: 92 Copynumber: 2.3 Consensus size: 94
1128899 TGTAGTACAT
* * ***
1128909 GTACTTTGAACTATTAATAT-TAGTTTTATTATGATACACATACTTTCATAAAATATTTAATCT-
1 GTAC-TTGAACTATCAATATGT-GTTTTATTATGATACACACACTTTCATAAAATACCCAATCTA
1128972 G-ATATATGTACTTTGAAAATGTCTAAT-A-TA
64 GCAT-T-TGTACTTTGAAAATGTCTAATAAGTA
* * * * ** * *
1129002 GTACTTGAACTATCAATATGTGATTTCTTATGGTATATGCACTTTCGTAAAATACCCAATGTAGC
1 GTACTTGAACTATCAATATGTGTTTTATTATGATACACACACTTTCATAAAATACCCAATCTAGC
1129067 ATTTGTACTTTGAAAATGTCTAATAATGTA
66 ATTTGTACTTTGAAAATGTCTAATAA-GTA
*
1129097 GTACTTGAACTATCAACATGTGTTTTATTAT
1 GTACTTGAACTATCAATATGTGTTTTATTAT
1129128 AGTATATAGA
Statistics
Matches: 104, Mismatches: 16, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
92 64 0.62
93 8 0.08
94 2 0.02
95 30 0.29
ACGTcount: A:0.34, C:0.12, G:0.12, T:0.42
Consensus pattern (94 bp):
GTACTTGAACTATCAATATGTGTTTTATTATGATACACACACTTTCATAAAATACCCAATCTAGC
ATTTGTACTTTGAAAATGTCTAATAAGTA
Found at i:1129275 original size:20 final size:19
Alignment explanation
Indices: 1129237--1129282 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
1129227 TTATGTGAAA
1129237 AACTAAATAAAACAAAAAT
1 AACTAAATAAAACAAAAAT
*
1129256 AATTAAATTAAAA-AACAAAT
1 AACTAAA-TAAAACAA-AAAT
1129276 AACTAAA
1 AACTAAA
1129283 CATATTATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.72, C:0.09, G:0.00, T:0.20
Consensus pattern (19 bp):
AACTAAATAAAACAAAAAT
Found at i:1129965 original size:20 final size:21
Alignment explanation
Indices: 1129920--1129971 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
1129910 CTATATTATT
*
1129920 TAAAAAAA-TCCTAAATAAGTTG
1 TAAAAAAATTCCTAAATAA--TA
1129942 TAAAAAAATTCCTAAATAA-A
1 TAAAAAAATTCCTAAATAATA
1129962 TAAAAAAATT
1 TAAAAAAATT
1129972 AAAATTAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 10 0.36
22 8 0.29
23 10 0.36
ACGTcount: A:0.62, C:0.08, G:0.04, T:0.27
Consensus pattern (21 bp):
TAAAAAAATTCCTAAATAATA
Found at i:1129968 original size:22 final size:22
Alignment explanation
Indices: 1129921--1129969 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
1129911 TATATTATTT
* *
1129921 AAAAAAATCCTAAATAAGTTGTA
1 AAAAAAATCCTAAATAAGAT-AA
*
1129944 AAAAAATTCCTAAATAA-ATAA
1 AAAAAAATCCTAAATAAGATAA
1129965 AAAAA
1 AAAAA
1129970 TTAAAATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 6 0.26
22 1 0.04
23 16 0.70
ACGTcount: A:0.65, C:0.08, G:0.04, T:0.22
Consensus pattern (22 bp):
AAAAAAATCCTAAATAAGATAA
Found at i:1130224 original size:26 final size:26
Alignment explanation
Indices: 1130194--1130265 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 26
1130184 AATAATTCAT
1130194 AAATTATAAAAATAAAAAA-TACATCAA
1 AAATT-TAAAAATAAAAAAGTACAT-AA
* *
1130221 AATTTTAAAAATATAAAAAGTTCATAA
1 AAATTTAAAAATA-AAAAAGTACATAA
*
1130248 AAATTCAAAAA-AAAAAAG
1 AAATTTAAAAATAAAAAAG
1130266 GTATGAAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
25 6 0.15
26 9 0.23
27 20 0.51
28 4 0.10
ACGTcount: A:0.68, C:0.06, G:0.03, T:0.24
Consensus pattern (26 bp):
AAATTTAAAAATAAAAAAGTACATAA
Found at i:1130250 original size:28 final size:26
Alignment explanation
Indices: 1130194--1130264 Score: 74
Period size: 26 Copynumber: 2.7 Consensus size: 26
1130184 AATAATTCAT
*
1130194 AAATTATAAAAATAAAAAATACATCA
1 AAATTATAAAAATAAAAAATACATAA
* *
1130220 AAATTTTAAAAATATAAAAAGTTCATAA
1 AAATTATAAAAATA-AAAAA-TACATAA
*
1130248 AAATT-CAAAAA-AAAAAA
1 AAATTATAAAAATAAAAAA
1130265 GGTATGAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
25 5 0.13
26 14 0.36
27 10 0.26
28 10 0.26
ACGTcount: A:0.69, C:0.06, G:0.01, T:0.24
Consensus pattern (26 bp):
AAATTATAAAAATAAAAAATACATAA
Found at i:1144010 original size:20 final size:20
Alignment explanation
Indices: 1143985--1144037 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
1143975 AACTAAAGTA
1143985 AGCTAAAAATGAGCTCATTG
1 AGCTAAAAATGAGCTCATTG
* *
1144005 AGCTAAGAACGAGCTCATTG
1 AGCTAAAAATGAGCTCATTG
*
1144025 AGCTAAAATTGAG
1 AGCTAAAAATGAG
1144038 TTGAATTGAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.23
Consensus pattern (20 bp):
AGCTAAAAATGAGCTCATTG
Found at i:1145755 original size:12 final size:12
Alignment explanation
Indices: 1145738--1145762 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1145728 TTTCACTCGT
1145738 CTCTTTTTCAAA
1 CTCTTTTTCAAA
1145750 CTCTTTTTCAAA
1 CTCTTTTTCAAA
1145762 C
1 C
1145763 CCTCTCTTTT
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:0.24, C:0.28, G:0.00, T:0.48
Consensus pattern (12 bp):
CTCTTTTTCAAA
Found at i:1145931 original size:5 final size:5
Alignment explanation
Indices: 1145921--1145948 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
1145911 ATTTCTTGTA
1145921 TTTCT TTTCT TTTCT TTTCT TTTCT TTT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTT
1145949 TGTCTCGTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTCT
Found at i:1146903 original size:18 final size:18
Alignment explanation
Indices: 1146863--1146906 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
1146853 TCAATTCTTT
*
1146863 TTTTTTATACTTCGAAATT
1 TTTTTT-TACTTCGAAATC
* *
1146882 TTTTTTTACTTCGTACTC
1 TTTTTTTACTTCGAAATC
1146900 TTTTTTT
1 TTTTTTT
1146907 TCATAATTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.16, C:0.14, G:0.05, T:0.66
Consensus pattern (18 bp):
TTTTTTTACTTCGAAATC
Found at i:1153208 original size:19 final size:19
Alignment explanation
Indices: 1153162--1153215 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 19
1153152 ATAATTTAGC
1153162 ATTTTTAT-AT-ATTTTTA
1 ATTTTTATAATAATTTTTA
* *
1153179 AGATTTCATAATAATTTTTA
1 A-TTTTTATAATAATTTTTA
1153199 ATTTTTATAA-AATTTTT
1 ATTTTTATAATAATTTTT
1153216 GGAAAAAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
17 1 0.03
18 12 0.40
19 9 0.30
20 8 0.27
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (19 bp):
ATTTTTATAATAATTTTTA
Found at i:1156297 original size:19 final size:18
Alignment explanation
Indices: 1156265--1156307 Score: 70
Period size: 19 Copynumber: 2.4 Consensus size: 18
1156255 GATTACAAAA
1156265 GCATAT-ATTCTAAGATT
1 GCATATCATTCTAAGATT
1156282 GCATATCATATCTAAGATT
1 GCATATCAT-TCTAAGATT
1156301 GCATATC
1 GCATATC
1156308 CTCAAAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 6 0.25
18 2 0.08
19 16 0.67
ACGTcount: A:0.35, C:0.16, G:0.12, T:0.37
Consensus pattern (18 bp):
GCATATCATTCTAAGATT
Found at i:1156588 original size:45 final size:44
Alignment explanation
Indices: 1156480--1156695 Score: 276
Period size: 45 Copynumber: 4.9 Consensus size: 44
1156470 TAGTGCCATC
**
1156480 TTTAGTCTGC-CTCACTGCAACTTCA-GGAGGATAAGACTTGCTTA
1 TTTAGTCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTGCCAA
1156524 TTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCAA
1 TTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCAA
1156568 TTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCAA
1 -TTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCAA
* * * **
1156613 TTTCAGTCTGCCCCACTGCAACTTCA-AGAGGATAGGACTTGCTTA
1 TTT-AGTCTGCTCCACTGCAACTTCAGGGA-GATAAGACTTGCCAA
* * *
1156658 CTTAGTATGCTCCACTGCAACTTCAGAGAGATAAGACT
1 TTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACT
1156696 AGATGCGATC
Statistics
Matches: 155, Mismatches: 11, Indels: 12
0.87 0.06 0.07
Matches are distributed among these distances:
44 69 0.45
45 86 0.55
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.29
Consensus pattern (44 bp):
TTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCAA
Found at i:1156663 original size:89 final size:89
Alignment explanation
Indices: 1156473--1156695 Score: 276
Period size: 89 Copynumber: 2.5 Consensus size: 89
1156463 TAGAAATTAG
** *
1156473 TGCC-ATCTTTAGTCTGC-CTCACTGCAACTTCA-GGAGGATAAGACTTGCTTATTTAGTCTGCT
1 TGCCAATC-TTAGTCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTGCCAATTTAGTCTGCC
*
1156535 CCACTGCAACTTCAGGGAGATAAGACT
63 CCACTGCAACTTCAGAGAGATAAGACT
*
1156562 TGCCAATTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCAATTTCAGTCTGCCCC
1 TGCCAATCTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCAATTT-AGTCTGCCCC
*
1156627 ACTGCAACTTCA-AGAGGATAGGACT
65 ACTGCAACTTCAGAGA-GATAAGACT
** * *
1156652 TGCTTA-CTTAGTATGCTCCACTGCAACTTCAGAGAGATAAGACT
1 TGCCAATCTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACT
1156696 AGATGCGATC
Statistics
Matches: 118, Mismatches: 11, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
89 79 0.67
90 39 0.33
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (89 bp):
TGCCAATCTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCAATTTAGTCTGCCCCA
CTGCAACTTCAGAGAGATAAGACT
Found at i:1156947 original size:210 final size:210
Alignment explanation
Indices: 1156706--1157340 Score: 757
Period size: 210 Copynumber: 3.0 Consensus size: 210
1156696 AGATGCGATC
*
1156706 TGCTCTCTGCAACTTCAGAGAGATAAGATCTGAGGTTTTAATCCGCTCCACTACAACTTCAGGGA
1 TGCTCTCTGCAACTTTAGAGAGATAAGATCTGAGGTTTTAATCCGCTCCACTACAACTTCAGGGA
1156771 GATAGGATTTACAATCTTCAACCTTCTCCATTGTTGCTCAGGGAGACAAGGCTTGGTGGCTTAAA
66 GATAGGATTTACAATCTTCAACCTTCTCCATTGTTGCTCAGGGAGACAAGGCTTGGTGGCTTAAA
1156836 TCTGCTTTCCACTATCTTGGAAAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGG
131 TCTGCTTTCCACTATCTTGGAAAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGG
***
1156901 GAGATAAGATCTNNN
196 GAGATAAGATCTAGA
* *
1156916 TGCTCTCTGCAACTTTAGAGAGATAAGATCTGAGGTTTTAATCCGCTCCAATGCAACTTCAGGGA
1 TGCTCTCTGCAACTTTAGAGAGATAAGATCTGAGGTTTTAATCCGCTCCACTACAACTTCAGGGA
** * * * * *** * * **** *
1156981 GATAGGA-TTATCGGT-TTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTC
66 GATAGGATTTA-CAATCTTCAACCTTCTCCATTGTTGC-TCAGGGAGACAAGGCTTGGTGGCTTA
* * * * * * * * *
1157044 AGTCTGC--CCCACTGCAACTTCAGG-AGGATAAGACTT-G-CTTACTTAG-TCTACTCCATTGC
129 AATCTGCTTTCCACT--ATCTT--GGAAAGATAAGA-TTCGCCAT-CTTCGATCTGCTCCACTAC
** *
1157103 AACATCAGGGAGATAAGA-CTAGA
188 TGC-TTAGGGAGATAAGATCTAGA
1157126 TGCGATCTACTTTCTGCAACTTTAGAGAGATAAGATCTGAGGTTTTAATCCGCTCCACTACAACT
1 T--G--CT-C--TCTGCAACTTTAGAGAGATAAGATCTGAGGTTTTAATCCGCTCCACTACAACT
1157191 TCAGGGAGATAGGATTTACAATCTTCAACCTTCTCCATTGTTGCTCAGGGAGACAAGGCTTGGTG
59 TCAGGGAGATAGGATTTACAATCTTCAACCTTCTCCATTGTTGCTCAGGGAGACAAGGCTTGGTG
1157256 GCTTAAATCTGCTTTCCACTATCTTGGAAAGATAAGATTCGCCATCTTCGATCTGCTCCACTACT
124 GCTTAAATCTGCTTTCCACTATCTTGGAAAGATAAGATTCGCCATCTTCGATCTGCTCCACTACT
1157321 GCTTAGGGAGATAAGATCTA
189 GCTTAGGGAGATAAGATCTA
1157341 CAATCTTCAA
Statistics
Matches: 336, Mismatches: 64, Indels: 43
0.76 0.14 0.10
Matches are distributed among these distances:
208 5 0.01
209 17 0.05
210 116 0.35
211 26 0.08
212 5 0.01
214 2 0.01
215 5 0.01
216 26 0.08
217 112 0.33
218 17 0.05
219 5 0.01
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (210 bp):
TGCTCTCTGCAACTTTAGAGAGATAAGATCTGAGGTTTTAATCCGCTCCACTACAACTTCAGGGA
GATAGGATTTACAATCTTCAACCTTCTCCATTGTTGCTCAGGGAGACAAGGCTTGGTGGCTTAAA
TCTGCTTTCCACTATCTTGGAAAGATAAGATTCGCCATCTTCGATCTGCTCCACTACTGCTTAGG
GAGATAAGATCTAGA
Found at i:1157064 original size:45 final size:44
Alignment explanation
Indices: 1157001--1157122 Score: 158
Period size: 45 Copynumber: 2.8 Consensus size: 44
1156991 TCGGTTTTAA
1157001 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCAT-CTTCAG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG-CATACTT-AG
* *
1157046 TCTGCCCCACTGCAACTTCA-GGAGGATAAGACTTGCTTACTTAG
1 TCTGCTCCACTGCAACTTCAGGGA-GATAAGACTTGCATACTTAG
* * *
1157090 TCTACTCCATTGCAACATCAGGGAGATAAGACT
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACT
1157123 AGATGCGATC
Statistics
Matches: 68, Mismatches: 6, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
44 32 0.47
45 36 0.53
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (44 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCATACTTAG
Found at i:1157111 original size:44 final size:45
Alignment explanation
Indices: 1157005--1157122 Score: 152
Period size: 44 Copynumber: 2.6 Consensus size: 45
1156995 TTTTAATCTG
*
1157005 CTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTA
* *
1157050 CCCCACTGCAACTTCA-GGAGGATAAGACTTG-CTTACTT-AGTCTA
1 CTCCACTGCAACTTCAGGGA-GATAAGACTTGCCAT-CTTCAGTCTA
* *
1157094 CTCCATTGCAACATCAGGGAGATAAGACT
1 CTCCACTGCAACTTCAGGGAGATAAGACT
1157123 AGATGCGATC
Statistics
Matches: 64, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
44 32 0.50
45 32 0.50
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.25
Consensus pattern (45 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTA
Found at i:1157329 original size:132 final size:133
Alignment explanation
Indices: 1157177--1157426 Score: 403
Period size: 132 Copynumber: 1.9 Consensus size: 133
1157167 GTTTTAATCC
* * * **
1157177 GCTCCACTACAACTTCAGGGAGATAGGATTTACAATCTTCAACCTTCTCCATTGTTGCTCAGGGA
1 GCTCCACTACAACTTCAGGGAGATAAGATCTACAATCTTCAACCTTCTCCACTACTGCTCAGGGA
*
1157242 GACAAGGCTTGGTGGCTTAAATCTGCTTTCCACTATCTTGGAAAGATAAGATTCGCCATCTTCGA
66 GACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCATCTTCGA
1157307 TCT
131 TCT
** * *
1157310 GCTCCACTACTGCTT-AGGGAGATAAGATCTACAATCTTCAACCTTCTCCGCTACTGCTGAGGGA
1 GCTCCACTACAACTTCAGGGAGATAAGATCTACAATCTTCAACCTTCTCCACTACTGCTCAGGGA
1157374 GACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATT
66 GACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATT
1157427 TGNNNNNNNN
Statistics
Matches: 107, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
132 94 0.88
133 13 0.12
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (133 bp):
GCTCCACTACAACTTCAGGGAGATAAGATCTACAATCTTCAACCTTCTCCACTACTGCTCAGGGA
GACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTCGCCATCTTCGA
TCT
Found at i:1169797 original size:273 final size:273
Alignment explanation
Indices: 1169305--1169822 Score: 874
Period size: 273 Copynumber: 1.9 Consensus size: 273
1169295 CAAAGTTGTC
* * *
1169305 TTCTTATAACAAAATCTGCACAATAGCACGATGTCAGAAATTCGCAGTGTGAACGACACAATTCT
1 TTCTTATAACAAAATCTGCACAACAGCACGATGTCAGAAATTCACAGTGCGAACGACACAATTCT
* * *
1169370 TTGCTGGGGTAATGTCTCTCTCGTTGAGTCAGCATAGCTTTGCCCATTTGAAGTCAAGTTTCCAT
66 TTGCCGGGGCAATGCCTCTCTCGTTGAGTCAGCATAGCTTTGCCCATTTGAAGTCAAGTTTCCAT
* *
1169435 CCCTTCAAGATGTTGCTGGATTTTATCCTGATTAAAGAGGAAGATCTAAAGTTTTCTGTCGTAGT
131 CCCTTCAAGATGTTGCTGGATTTTATCCTGATTAAAGAGGAAGATCCAAAGTTCTCTGTCGTAGT
*
1169500 TGCATCCCAAAAGGGCTCTATGAAAGAAATCTGGTACCAAAGAAGGTTTTTGTATGATCATACCA
196 TGCATCCCAAAAGGGCTCTATGAAAGAAATCTGGTACCAAAGAAAGTTTTTGTATGATCATACCA
1169565 GGGTATTCCTCGA
261 GGGTATTCCTCGA
* * * *
1169578 TTCTTATAATAAAATCTGCACAACAGCACGATGTCAGAAATTTACAGTGCGAACGACGCAATTTT
1 TTCTTATAACAAAATCTGCACAACAGCACGATGTCAGAAATTCACAGTGCGAACGACACAATTCT
* *
1169643 TTGCCGGGGCAATGCCTCTCTTGTTGAGTCAGCATAGCTTTGCCCATTTGAAGTCGAGTTTCCAT
66 TTGCCGGGGCAATGCCTCTCTCGTTGAGTCAGCATAGCTTTGCCCATTTGAAGTCAAGTTTCCAT
*
1169708 CCCTTCAAGATGTTGTTGGATTTTATCCTGATTAAAGAGGAAGATCCAAAGTTCTCTGTCGTAGT
131 CCCTTCAAGATGTTGCTGGATTTTATCCTGATTAAAGAGGAAGATCCAAAGTTCTCTGTCGTAGT
* *
1169773 TGCGTCCCAAAAGGGCTTTATGAAAGAAATCTGGTACCAAAGAAAGTTTT
196 TGCATCCCAAAAGGGCTCTATGAAAGAAATCTGGTACCAAAGAAAGTTTT
1169823 CACATGCAAG
Statistics
Matches: 227, Mismatches: 18, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
273 227 1.00
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (273 bp):
TTCTTATAACAAAATCTGCACAACAGCACGATGTCAGAAATTCACAGTGCGAACGACACAATTCT
TTGCCGGGGCAATGCCTCTCTCGTTGAGTCAGCATAGCTTTGCCCATTTGAAGTCAAGTTTCCAT
CCCTTCAAGATGTTGCTGGATTTTATCCTGATTAAAGAGGAAGATCCAAAGTTCTCTGTCGTAGT
TGCATCCCAAAAGGGCTCTATGAAAGAAATCTGGTACCAAAGAAAGTTTTTGTATGATCATACCA
GGGTATTCCTCGA
Found at i:1169982 original size:16 final size:16
Alignment explanation
Indices: 1169930--1169998 Score: 70
Period size: 17 Copynumber: 4.2 Consensus size: 16
1169920 GTTCAGACTC
1169930 AAAAA-AAAAATGAAAA
1 AAAAACAAAAAT-AAAA
1169946 AACAAA-AAAAATAATAA
1 AA-AAACAAAAATAA-AA
*
1169963 AAAAACCAAAATAAAA
1 AAAAACAAAAATAAAA
*
1169979 AAAATCAAAAATCAAAA
1 AAAAACAAAAAT-AAAA
1169996 AAA
1 AAA
1169999 TCAATCAATC
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
16 19 0.41
17 27 0.59
ACGTcount: A:0.83, C:0.07, G:0.01, T:0.09
Consensus pattern (16 bp):
AAAAACAAAAATAAAA
Found at i:1169995 original size:17 final size:16
Alignment explanation
Indices: 1169952--1170002 Score: 66
Period size: 16 Copynumber: 3.1 Consensus size: 16
1169942 AAAAAACAAA
*
1169952 AAAAATAATAAAAAAAC
1 AAAAATAA-AAAAAATC
*
1169969 CAAAATAAAAAAAATC
1 AAAAATAAAAAAAATC
*
1169985 AAAAATCAAAAAAATC
1 AAAAATAAAAAAAATC
1170001 AA
1 AA
1170003 TCAATCAAAG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
16 23 0.77
17 7 0.23
ACGTcount: A:0.78, C:0.10, G:0.00, T:0.12
Consensus pattern (16 bp):
AAAAATAAAAAAAATC
Found at i:1170011 original size:17 final size:16
Alignment explanation
Indices: 1169933--1170002 Score: 60
Period size: 16 Copynumber: 4.7 Consensus size: 16
1169923 CAGACTCAAA
* *
1169933 AAAAAAATGAAAAAAC
1 AAAAAAATCAAAAATC
*
1169949 -AAAAAA--AATAAT-
1 AAAAAAATCAAAAATC
* *
1169961 AAAAAAA-CCAAAATA
1 AAAAAAATCAAAAATC
1169976 AAAAAAATCAAAAATC
1 AAAAAAATCAAAAATC
1169992 AAAAAAATCAA
1 AAAAAAATCAA
1170003 TCAATCAAAG
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
13 10 0.23
14 4 0.09
15 13 0.30
16 17 0.39
ACGTcount: A:0.80, C:0.09, G:0.01, T:0.10
Consensus pattern (16 bp):
AAAAAAATCAAAAATC
Found at i:1170033 original size:6 final size:6
Alignment explanation
Indices: 1170024--1170068 Score: 81
Period size: 6 Copynumber: 7.3 Consensus size: 6
1170014 CAAAAATAGG
1170024 AGAAAA AGAAAGA AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AG
1 AGAAAA AGAAA-A AGAAAA AGAAAA AGAAAA AGAAAA AGAAAA AG
1170069 GAAAGGTCAA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
6 32 0.84
7 6 0.16
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (6 bp):
AGAAAA
Found at i:1170057 original size:18 final size:19
Alignment explanation
Indices: 1170024--1170073 Score: 84
Period size: 19 Copynumber: 2.6 Consensus size: 19
1170014 CAAAAATAGG
1170024 AGAAAAAGAAAGAAGAAAA
1 AGAAAAAGAAAGAAGAAAA
1170043 AGAAAAAGAAA-AAGAAAA
1 AGAAAAAGAAAGAAGAAAA
1170061 AGAAAAAGGAAAG
1 AGAAAAA-GAAAG
1170074 GTCAAGGCGA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
18 14 0.48
19 15 0.52
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (19 bp):
AGAAAAAGAAAGAAGAAAA
Found at i:1171335 original size:13 final size:13
Alignment explanation
Indices: 1171317--1171342 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1171307 AGAAAACACC
1171317 AAGTTTAAAGGGT
1 AAGTTTAAAGGGT
1171330 AAGTTTAAAGGGT
1 AAGTTTAAAGGGT
1171343 GAAATATCTA
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:0.00, G:0.31, T:0.31
Consensus pattern (13 bp):
AAGTTTAAAGGGT
Found at i:1172586 original size:50 final size:50
Alignment explanation
Indices: 1172030--1172593 Score: 389
Period size: 50 Copynumber: 11.3 Consensus size: 50
1172020 TTTGCAATTC
* *
1172030 AAAAGATTAAAGCCACAACGGTAAATCTTACTTCCCAAGCGATGCAGCGG
1 AAAAGATTAAAGCCATAACGGTAAATCTTACTTCCCAAGCGATGCAGTGG
** * * * * * * **
1172080 AGCAGATTGAAGCTATAACGGCAAATCTCACTTCCTCGA-C-ATTGCAATTC
1 AAAAGATTAAAGCCATAACGGTAAATCTTACTTCC-CAAGCGA-TGCAGTGG
* * *
1172130 AAAAGATTAAAGCCACAACGGTAAATCTTACTTCCCAAGCAATGCAGCGG
1 AAAAGATTAAAGCCATAACGGTAAATCTTACTTCCCAAGCGATGCAGTGG
** * * * * * **
1172180 AGTAGATTGAAGCTATAACGGCAAATCTTACTTCCC-CGAC-ATTGCAATTC
1 AAAAGATTAAAGCCATAACGGTAAATCTTACTTCCCAAG-CGA-TGCAGTGG
*
1172230 AAAAGATTAAAGCCATAACGGTAAATCTTACTTCCCAAGCGATGCAGCGG
1 AAAAGATTAAAGCCATAACGGTAAATCTTACTTCCCAAGCGATGCAGTGG
* * * * * * **
1172280 AGCAA-ATTGAAGCTATAACGGTAAATCTCACTTCCC-CGAC-ATTGCAATTC
1 A-AAAGATTAAAGCCATAACGGTAAATCTTACTTCCCAAG-CGA-TGCAGTGG
* * *
1172330 AAAAGATTAAAGCCACAACGGTGAATCTTACTTCCCAAGCGATGCAGCGG
1 AAAAGATTAAAGCCATAACGGTAAATCTTACTTCCCAAGCGATGCAGTGG
** * * * * * * *
1172380 AGCTA-ATTGAAGCTATAACGGCAAATCTCACTTCCC-CGAC-ATTGCAAT-T
1 A-AAAGATTAAAGCCATAACGGTAAATCTTACTTCCCAAG-CGA-TGCAGTGG
* *
1172429 CAAAGATTAAAGCCACAACGGTAAATCTTACTTCCCAAGCGATGCAGTGG
1 AAAAGATTAAAGCCATAACGGTAAATCTTACTTCCCAAGCGATGCAGTGG
** * * * * * * **
1172479 AGCAGATTGAAGCTATAACGGCAAATCTCACTTCCC-CGAC-ATTGCAATTC
1 AAAAGATTAAAGCCATAACGGTAAATCTTACTTCCCAAG-CGA-TGCAGTGG
* *
1172529 AAAAGATTAAAGCCACAACGGTAAATCTTACTTCCCAAGTGATGCAGTGG
1 AAAAGATTAAAGCCATAACGGTAAATCTTACTTCCCAAGCGATGCAGTGG
*
1172579 AATAGATTAAAGCCA
1 AAAAGATTAAAGCCA
1172594 AATTGGTGAA
Statistics
Matches: 376, Mismatches: 113, Indels: 50
0.70 0.21 0.09
Matches are distributed among these distances:
48 1 0.00
49 45 0.12
50 318 0.85
51 12 0.03
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.22
Consensus pattern (50 bp):
AAAAGATTAAAGCCATAACGGTAAATCTTACTTCCCAAGCGATGCAGTGG
Found at i:1172657 original size:100 final size:100
Alignment explanation
Indices: 1172021--1172575 Score: 997
Period size: 100 Copynumber: 5.6 Consensus size: 100
1172011 AAACCATAGT
1172021 TTGCAATTCAAAAGATTAAAGCCACAACGGTAAATCTTACTTCCCAAGCGATGCAGCGGAGCAGA
1 TTGCAATTCAAAAGATTAAAGCCACAACGGTAAATCTTACTTCCCAAGCGATGCAGCGGAGCAGA
*
1172086 TTGAAGCTATAACGGCAAATCTCACTTCCTCGACA
66 TTGAAGCTATAACGGCAAATCTCACTTCCCCGACA
* *
1172121 TTGCAATTCAAAAGATTAAAGCCACAACGGTAAATCTTACTTCCCAAGCAATGCAGCGGAGTAGA
1 TTGCAATTCAAAAGATTAAAGCCACAACGGTAAATCTTACTTCCCAAGCGATGCAGCGGAGCAGA
*
1172186 TTGAAGCTATAACGGCAAATCTTACTTCCCCGACA
66 TTGAAGCTATAACGGCAAATCTCACTTCCCCGACA
* *
1172221 TTGCAATTCAAAAGATTAAAGCCATAACGGTAAATCTTACTTCCCAAGCGATGCAGCGGAGCAAA
1 TTGCAATTCAAAAGATTAAAGCCACAACGGTAAATCTTACTTCCCAAGCGATGCAGCGGAGCAGA
*
1172286 TTGAAGCTATAACGGTAAATCTCACTTCCCCGACA
66 TTGAAGCTATAACGGCAAATCTCACTTCCCCGACA
*
1172321 TTGCAATTCAAAAGATTAAAGCCACAACGGTGAATCTTACTTCCCAAGCGATGCAGCGGAGCTA-
1 TTGCAATTCAAAAGATTAAAGCCACAACGGTAAATCTTACTTCCCAAGCGATGCAGCGGAGC-AG
1172385 ATTGAAGCTATAACGGCAAATCTCACTTCCCCGACA
65 ATTGAAGCTATAACGGCAAATCTCACTTCCCCGACA
*
1172421 TTGCAATTC-AAAGATTAAAGCCACAACGGTAAATCTTACTTCCCAAGCGATGCAGTGGAGCAGA
1 TTGCAATTCAAAAGATTAAAGCCACAACGGTAAATCTTACTTCCCAAGCGATGCAGCGGAGCAGA
1172485 TTGAAGCTATAACGGCAAATCTCACTTCCCCGACA
66 TTGAAGCTATAACGGCAAATCTCACTTCCCCGACA
*
1172520 TTGCAATTCAAAAGATTAAAGCCACAACGGTAAATCTTACTTCCCAAGTGATGCAG
1 TTGCAATTCAAAAGATTAAAGCCACAACGGTAAATCTTACTTCCCAAGCGATGCAG
1172576 TGGAATAGAT
Statistics
Matches: 436, Mismatches: 16, Indels: 6
0.95 0.03 0.01
Matches are distributed among these distances:
98 1 0.00
99 95 0.22
100 339 0.78
101 1 0.00
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.23
Consensus pattern (100 bp):
TTGCAATTCAAAAGATTAAAGCCACAACGGTAAATCTTACTTCCCAAGCGATGCAGCGGAGCAGA
TTGAAGCTATAACGGCAAATCTCACTTCCCCGACA
Found at i:1172679 original size:25 final size:25
Alignment explanation
Indices: 1172633--1172682 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
1172623 CAGTTAAAAA
* * *
1172633 GATTAAAGCCACATCGGTGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
*
1172658 GATTAAAGCTACAACAGCGAATCTT
1 GATTAAAGCCACAACAGCGAATCTT
1172683 ACGCCCCAAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (25 bp):
GATTAAAGCCACAACAGCGAATCTT
Found at i:1172755 original size:125 final size:125
Alignment explanation
Indices: 1172533--1172770 Score: 386
Period size: 125 Copynumber: 1.9 Consensus size: 125
1172523 CAATTCAAAA
* * ** * * *
1172533 GATTAAAGCCACAACGGTAAATCTTACTTCCCAAGTGATGCAGTGGAATAGATTAAAGCCAAATT
1 GATTAAAGCCACAACAGCAAATCTTACGCCCCAAGCGATGCAGTGGAACAGATTAAAACCAAATT
1172598 GGTGAATCTTGTTTCTCCGACATTACAGTTAAAAAGATTAAAGCCACATCGGTGAATCTT
66 GGTGAATCTTGTTTCTCCGACATTACAGTTAAAAAGATTAAAGCCACATCGGTGAATCTT
* *
1172658 GATTAAAGCTACAACAGCGAATCTTACGCCCCAAGCGATGCAGTGGAACAGATTAAAACCAAATT
1 GATTAAAGCCACAACAGCAAATCTTACGCCCCAAGCGATGCAGTGGAACAGATTAAAACCAAATT
*
1172723 GGTGAATCTTGTTTCTCCGACATTGCAGTTAAAAAGATTAAAGCCACA
66 GGTGAATCTTGTTTCTCCGACATTACAGTTAAAAAGATTAAAGCCACA
1172771 ATAACGAATC
Statistics
Matches: 103, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
125 103 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (125 bp):
GATTAAAGCCACAACAGCAAATCTTACGCCCCAAGCGATGCAGTGGAACAGATTAAAACCAAATT
GGTGAATCTTGTTTCTCCGACATTACAGTTAAAAAGATTAAAGCCACATCGGTGAATCTT
Found at i:1173527 original size:13 final size:13
Alignment explanation
Indices: 1173509--1173533 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1173499 GATCTAATTC
1173509 TTTTTTATTTTTA
1 TTTTTTATTTTTA
1173522 TTTTTTATTTTT
1 TTTTTTATTTTT
1173534 TTCTTTCTTT
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:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTATTTTTA
Found at i:1176095 original size:25 final size:26
Alignment explanation
Indices: 1176065--1176114 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
1176055 ATATAAATAT
*
1176065 GAAAATATTC-TTTAAAAAAATATAG
1 GAAAATATTCGTTAAAAAAAATATAG
1176090 GAAAATATTCGTTAAAAAAAATATA
1 GAAAATATTCGTTAAAAAAAATATA
1176115 CATGTACATA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.58, C:0.04, G:0.08, T:0.30
Consensus pattern (26 bp):
GAAAATATTCGTTAAAAAAAATATAG
Found at i:1176403 original size:19 final size:19
Alignment explanation
Indices: 1176379--1176440 Score: 106
Period size: 19 Copynumber: 3.3 Consensus size: 19
1176369 AAAAATCTGC
*
1176379 ATATCATATCTAAGATTAT
1 ATATCATATCTAAGATTGT
*
1176398 ATATCATATCTAAGATTGC
1 ATATCATATCTAAGATTGT
1176417 ATATCATATCTAAGATTGT
1 ATATCATATCTAAGATTGT
1176436 ATATC
1 ATATC
1176441 CTCAAAATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 40 1.00
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.40
Consensus pattern (19 bp):
ATATCATATCTAAGATTGT
Found at i:1181926 original size:37 final size:36
Alignment explanation
Indices: 1181864--1181967 Score: 111
Period size: 37 Copynumber: 2.9 Consensus size: 36
1181854 GGGCTTTACA
**
1181864 CATTTCTTACGTTTTATATCGTCAATGGAT-AGTATG
1 CATTTCTTACGTTTTATATTATCAATGGATGAGT-TG
* *
1181900 CATTTTCTTATGTTTTATATTATCAATGAATGAGTTG
1 CA-TTTCTTACGTTTTATATTATCAATGGATGAGTTG
* * * *
1181937 CATCTCTTACATTCTATATTACCAATGGATG
1 CATTTCTTACGTTTTATATTATCAATGGATG
1181968 GCTTGAACCT
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
36 25 0.45
37 28 0.50
38 3 0.05
ACGTcount: A:0.27, C:0.14, G:0.13, T:0.45
Consensus pattern (36 bp):
CATTTCTTACGTTTTATATTATCAATGGATGAGTTG
Found at i:1183392 original size:32 final size:33
Alignment explanation
Indices: 1183346--1183409 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 33
1183336 CTGATCTGTA
1183346 CCGTTGGATTTGGGGAGGCTCAACTATAAATAC
1 CCGTTGGATTTGGGGAGGCTCAACTATAAATAC
1183379 CCGTTGG-TTTGGGGAGGCTCAACTATAAATA
1 CCGTTGGATTTGGGGAGGCTCAACTATAAATA
1183410 GAAGTCTCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 24 0.77
33 7 0.23
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (33 bp):
CCGTTGGATTTGGGGAGGCTCAACTATAAATAC
Found at i:1186606 original size:13 final size:13
Alignment explanation
Indices: 1186590--1186628 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 13
1186580 AGGGTTTGCA
1186590 AAAATAGAAAAAT
1 AAAATAGAAAAAT
1186603 AAAATAGAATAAAT
1 AAAATAGAA-AAAT
1186617 -AAATAGATAAAA
1 AAAATAGA-AAAA
1186629 ACAGAAAGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 19 0.79
14 5 0.21
ACGTcount: A:0.74, C:0.00, G:0.08, T:0.18
Consensus pattern (13 bp):
AAAATAGAAAAAT
Found at i:1187482 original size:44 final size:45
Alignment explanation
Indices: 1187388--1187484 Score: 110
Period size: 44 Copynumber: 2.2 Consensus size: 45
1187378 GACTAGATGC
* *
1187388 GATCTGCTCTTCTGTAACTTCAGAGAGATAAGATCTGTGGTTTTA
1 GATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTA
* * * *
1187433 -CTCTGCTCTACTGCAATTTCAGAGAGATAGGAT-TG-GTTTCTTA
1 GATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTT-TTA
1187476 GATCTGCTC
1 GATCTGCTC
1187485 CACTACTGCT
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
42 3 0.07
43 5 0.12
44 35 0.81
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.37
Consensus pattern (45 bp):
GATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTA
Found at i:1187666 original size:44 final size:42
Alignment explanation
Indices: 1187565--1188148 Score: 287
Period size: 44 Copynumber: 13.7 Consensus size: 42
1187555 GTTTCTTCTG
* ** * **
1187565 TCTGCTCCACTACTGCTT-AGGGAGATAAGAC-TGG-ATGCA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGGTTTTAA
** *
1187604 TCTGCTCTGCTGCAACTTCAGAGAGATAAGACCTGTGGTTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-CT-TGGTTTTAA
* * **
1187648 TCCGCTCCACTGCAACTTCAGGGAGATAGGA-TTGGTTTCTTTTG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGG--T-TTTAA
* * ***
1187692 TCTGCTCCACTGCAACTTTAGGGAGATAAGAC-TGGATGCGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGGTTTTAA
* * *
1187733 TCTGCTCTATTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-CT-TGGTTTTAA
* * * * *
1187777 TCCGATCCACTGCAACTTTAGGGAGATAGGATTGACTT-CTTTT-G
1 TCTGCTCCACTGCAACTTCAGGGAGATA--A--GACTTGGTTTTAA
* ***
1187821 TCTGCTCCACTGCAACTTCAGGGAGATAAGAC-TGGATGCGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGGTTTTAA
* * *
1187862 TCTGCTCTATTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-CT-TGGTTTTAA
* * * * **
1187906 TCCGCTCCTCTGCAACCTCAGGGAGATAGGA-TTGGTTTCTTTTG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGG--T-TTTAA
* * * * ***
1187950 TCTGCTCCACTACTA-TTTAGGGAGATAAGACTT-GATGCGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGGTTTTAA
* * *
1187990 TCTGCTCTATTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-CT-TGGTTTTAA
* * * * * **
1188034 TCCGCTCCTCTGCAACCTCAGGGGGATAGGA-TTGGTTTCTTTTG
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGG--T-TTTAA
* ** * ***
1188078 TCTGCTCCACTACTGCTT-AGGGAGATAAGACTT-GATGCGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGGTTTTAA
* * *
1188118 TCTACTCTACTGCAACTTCAGAGAGATAAGA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGA
1188149 TCTGTAATCT
Statistics
Matches: 396, Mismatches: 115, Indels: 66
0.69 0.20 0.11
Matches are distributed among these distances:
39 14 0.04
40 41 0.10
41 90 0.23
42 8 0.02
43 31 0.08
44 202 0.51
45 4 0.01
46 2 0.01
47 2 0.01
48 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.23, T:0.31
Consensus pattern (42 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGGTTTTAA
Found at i:1187772 original size:129 final size:129
Alignment explanation
Indices: 1187537--1188153 Score: 981
Period size: 129 Copynumber: 4.8 Consensus size: 129
1187527 TCTACTGCTG
* * *
1187537 CTCAAGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTGC-TTAGGGAGATAAGACTGGAT
1 CTCAGGGAGATAGGATTGGTTTCTTTTGTCTGCTCCACTACTACTTTAGGGAGATAAGACTGGAT
** *
1187601 GC-ATCTGCTCTGCTGCAACTTCAGAGAGATAAGACCTGTGGTTTTAATCCGCTCCACTGCAAC
66 GCGATCTGCTCTATTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAAC
* * *
1187664 TTCAGGGAGATAGGATTGGTTTCTTTTGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTGGAT
1 CTCAGGGAGATAGGATTGGTTTCTTTTGTCTGCTCCACTACTACTTTAGGGAGATAAGACTGGAT
*
1187729 GCGATCTGCTCTATTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGATCCACTGCAAC
66 GCGATCTGCTCTATTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAAC
* * ** * * *
1187793 TTTAGGGAGATAGGATTGACTTCTTTTGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGAT
1 CTCAGGGAGATAGGATTGGTTTCTTTTGTCTGCTCCACTACTACTTTAGGGAGATAAGACTGGAT
*
1187858 GCGATCTGCTCTATTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCTCTGCAAC
66 GCGATCTGCTCTATTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAAC
*
1187922 CTCAGGGAGATAGGATTGGTTTCTTTTGTCTGCTCCACTACTA-TTTAGGGAGATAAGACTTGAT
1 CTCAGGGAGATAGGATTGGTTTCTTTTGTCTGCTCCACTACTACTTTAGGGAGATAAGACTGGAT
*
1187986 GCGATCTGCTCTATTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCTCTGCAAC
66 GCGATCTGCTCTATTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAAC
* * *
1188050 CTCAGGGGGATAGGATTGGTTTCTTTTGTCTGCTCCACTACTGC-TTAGGGAGATAAGACTTGAT
1 CTCAGGGAGATAGGATTGGTTTCTTTTGTCTGCTCCACTACTACTTTAGGGAGATAAGACTGGAT
* *
1188114 GCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGT
66 GCGATCTGCTCTATTGCAACTTCAGAGAGATAAGATCTGT
1188154 AATCTTCAAC
Statistics
Matches: 459, Mismatches: 28, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
127 38 0.08
128 204 0.44
129 217 0.47
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.32
Consensus pattern (129 bp):
CTCAGGGAGATAGGATTGGTTTCTTTTGTCTGCTCCACTACTACTTTAGGGAGATAAGACTGGAT
GCGATCTGCTCTATTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCACTGCAAC
Found at i:1188219 original size:128 final size:129
Alignment explanation
Indices: 1187517--1188367 Score: 426
Period size: 128 Copynumber: 6.6 Consensus size: 129
1187507 GTCTACAATA
* * * ** *** *
1187517 TTCAACCTACTCTACTGCTGCTCAAGGAGATAGGATTGGTTTCTTCTGTCTGC-TCCACTACT-G
1 TTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCC-CTACTAC
* * * * **
1187580 CTTAGGG-AGATAAGACTGGATGC-ATCTGCTCTGCTGCAACTTCAGAGAGATAAGACCTGTGGT
65 CTT-GGGAAGATAAGACTTGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTAAT
1187643 -
129 C
* * ** * ** *** * *
1187643 TTTAATCC-GCTCCACTGCAACTTCAGGGAGATAGGATTGGTTTCTTTTGTCTGC-TCCACTGCA
1 TTCAA-CCTACTCCACTGCTGC-TCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCC-CTACT
* * * * *
1187706 ACTTTAGGG-AGATAAGACTGGATGCGATCTGCTCTATTGCAACTTCAGAGAGATAAGATCTGTG
63 ACCTT-GGGAAGATAAGACTTGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTA
*
1187770 GT-
127 ATC
* * ** * * * * *** *
1187772 TTTAATCCGA-TCCACTGCAACTTTAGGGAGATAGGATTGACT-TCTTTTGTCTGC-TCCACTGC
1 TTCAA-CCTACTCCACTGCTGC-TCAGGGAGATAGGACTG-GTGGCTTAAATCTGCTTCC-CTAC
* * * *
1187834 -AACTTCAGGG-AGATAAGACTGGATGCGATCTGCTCTATTGCAACTTCAGAGAGATAAGATCTG
62 TACCTT--GGGAAGATAAGACTTGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTG
**
1187897 TGGT-
125 TAATC
* * * ** * ** ***
1187901 TTTAATCC-GCTCCTCTGCAACCTCAGGGAGATAGGATTGGTTTCTTTTGTCTGC-TCCACTACT
1 TTCAA-CCTACTCCACTGC-TGCTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCC-CTACT
* * * *
1187964 A-TTTAGGG-AGATAAGACTTGATGCGATCTGCTCTATTGCAACTTCAGAGAGATAAGATCTGTG
63 ACCTT-GGGAAGATAAGACTTGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTA
*
1188027 GT-
127 ATC
* * * ** * * ** ***
1188029 TTTAATCC-GCTCCTCTGCAACCTCAGGGGGATAGGATTGGTTTCTTTTGTCTGC-TCCACTACT
1 TTCAA-CCTACTCCACTGC-TGCTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCC-CTACT
*
1188092 -GCTTAGGG-AGATAAGACTTGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTA
63 ACCTT-GGGAAGATAAGACTTGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTA
1188155 ATC
127 ATC
* * * * *
1188158 TTCAACCTACTCCACTACTGCTTAAGGAGATAGGGCTGGTGGCTTAAATCTACTTCCCTACTACC
1 TTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACC
* * ** * *
1188223 TTGGGAAGATAAGA-TTCGCCAT-CTTTGATCTACTCCACTACTGCTT-AGGGAGATAAGATCTA
66 TTGGGAAGATAAGACTT-G--ATGC---GATCTACTCTACTGCAACTTCAGAGAGATAAGATCTG
*
1188285 CAATC
125 TAATC
* *
1188290 TTCAACCTATTCCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTT-CCTACTATC
1 TTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACC
1188354 TTGGGAAGATAAGA
66 TTGGGAAGATAAGA
1188368 TTCGCCGTCT
Statistics
Matches: 637, Mismatches: 65, Indels: 41
0.86 0.09 0.06
Matches are distributed among these distances:
126 13 0.02
127 39 0.06
128 241 0.38
129 232 0.36
130 5 0.01
131 24 0.04
132 67 0.11
133 16 0.03
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (129 bp):
TTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCCCTACTACC
TTGGGAAGATAAGACTTGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTAATC
Found at i:1188291 original size:44 final size:44
Alignment explanation
Indices: 1188243--1188452 Score: 110
Period size: 44 Copynumber: 4.8 Consensus size: 44
1188233 AAGATTCGCC
*
1188243 ATCTTTGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACA
1 ATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACA
* * * * * * ***
1188287 ATCTTCAACCTATTCCACTGCTGCTCAGGGAGATAGGA-CTGGT
1 ATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACA
** ** * * *
1188330 GGCTTAAATCTGCTTCCTACTA-T-CTT-GGGAAGATAAGAT-TCGCC
1 ATCTTCGATCTAC-TCC-ACTACTGCTTAGGG-AGATAAGATCT-ACA
* * * * *
1188374 GTCTTTGATTTGCTCCGCTACTGCTTAGGGAGATAAGATCTACA
1 ATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACA
*
1188418 ATCTTCGA-CTTACTCCACTGCTGCTCTA-GGAGATA
1 ATCTTCGATC-TACTCCACTACTGCT-TAGGGAGATA
1188453 GGATTCATAT
Statistics
Matches: 121, Mismatches: 34, Indels: 22
0.68 0.19 0.12
Matches are distributed among these distances:
42 6 0.05
43 23 0.19
44 83 0.69
45 9 0.07
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (44 bp):
ATCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACA
Found at i:1188415 original size:131 final size:131
Alignment explanation
Indices: 1188140--1188455 Score: 472
Period size: 131 Copynumber: 2.4 Consensus size: 131
1188130 CAACTTCAGA
** * * *
1188140 GAGATAAGATCTGTAATCTTCAACCTACTCCACTACTGCTTAAGGAGATAGGGCTGGTGGCTTAA
1 GAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGC-TCAGGAGATAGGACTGGTGGCTTAA
1188205 ATCTACTTCCCTACTACCTTGGGAAGATAAGATTCGCCATCTTTGATCTACTCCACTACTGCTTA
65 ATCTACTTCCCTACTACCTTGGGAAGATAAGATTCGCCATCTTTGATCTACTCCACTACTGCTTA
1188270 GG
130 GG
*
1188272 GAGATAAGATCTACAATCTTCAACCTATTCCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTAA
1 GAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCA-GGAGATAGGACTGGTGGCTTAA
* * * * * *
1188337 ATCTGCTT-CCTACTATCTTGGGAAGATAAGATTCGCCGTCTTTGATTTGCTCCGCTACTGCTTA
65 ATCTACTTCCCTACTACCTTGGGAAGATAAGATTCGCCATCTTTGATCTACTCCACTACTGCTTA
1188401 GG
130 GG
* *
1188403 GAGATAAGATCTACAATCTTCGACTTACTCCACTGCTGCTCTAGGAGATAGGA
1 GAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTC-AGGAGATAGGA
1188456 TTCATATCTT
Statistics
Matches: 167, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
131 103 0.62
132 64 0.38
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (131 bp):
GAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGAGATAGGACTGGTGGCTTAAA
TCTACTTCCCTACTACCTTGGGAAGATAAGATTCGCCATCTTTGATCTACTCCACTACTGCTTAG
G
Found at i:1188638 original size:50 final size:50
Alignment explanation
Indices: 1188578--1188760 Score: 231
Period size: 50 Copynumber: 3.7 Consensus size: 50
1188568 TACAATGTCG
*
1188578 GGGAAGTAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCACCA
1 GGGAAGTAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCA
* * * ** * ** *
1188628 AGGAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTGCAATGTCA
1 GGGAAGTAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCA
* *
1188678 GGGAAGCAAGATTTACCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCA
1 GGGAAGTAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCA
* **
1188728 GGGAAGTAAGATTCGCCGTTGCGGCTTCAATCT
1 GGGAAGTAAGATTCACCGTTGTAGCTTCAATCT
1188761 TCAACCTACT
Statistics
Matches: 107, Mismatches: 26, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
50 107 1.00
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.29
Consensus pattern (50 bp):
GGGAAGTAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCA
Found at i:1188690 original size:100 final size:100
Alignment explanation
Indices: 1188570--1188761 Score: 321
Period size: 100 Copynumber: 1.9 Consensus size: 100
1188560 TAATTAACTA
* *
1188570 CAATGTCGGGGAAGTAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCACCAAGGAAGT
1 CAATGTCAGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCACCAAGGAAGT
*
1188635 AAGATTCACCGTTGTGGCTTCAATCTTTTTAATTG
66 AAGATTCACCGTTGCGGCTTCAATCTTTTTAATTG
* * *
1188670 CAATGTCAGGGAAGCAAGATTTACCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGGGAAGT
1 CAATGTCAGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCACCAAGGAAGT
*
1188735 AAGATTCGCCGTTGCGGCTTCAATCTT
66 AAGATTCACCGTTGCGGCTTCAATCTT
1188762 CAACCTACTC
Statistics
Matches: 85, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
100 85 1.00
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.29
Consensus pattern (100 bp):
CAATGTCAGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCACCAAGGAAGT
AAGATTCACCGTTGCGGCTTCAATCTTTTTAATTG
Found at i:1188882 original size:44 final size:44
Alignment explanation
Indices: 1188832--1189037 Score: 125
Period size: 44 Copynumber: 4.7 Consensus size: 44
1188822 TCTCGGGAAT
* * *
1188832 ATAAGATTCGCTGTCTTCGATCTGCTCCACTACTGCTTAGGGAG
1 ATAAGATTCACTGTCTTCAATCTACTCCACTACTGCTTAGGGAG
** * * *
1188876 ATAAGA-TCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAG
1 ATAAGATTC-ACTGTCTTCAATCTACTCCACTACTGCTTAGGGAG
* * * * * * * *
1188920 ATAGGACTGA-TGGCTTAAATTTGCTTCCTACTA-T-CTTAGGAAG
1 ATAAGATTCACTGTCTTCAATCTAC-TCC-ACTACTGCTTAGGGAG
* * * * *
1188963 ATAGGATTCACCGTCTTCTATCTATTCCACTACTACTTAGGGAG
1 ATAAGATTCACTGTCTTCAATCTACTCCACTACTGCTTAGGGAG
** *
1189007 ATAAGA-TCTACAATCTTCAACCTACTCCACT
1 ATAAGATTC-ACTGTCTTCAATCTACTCCACT
1189038 GTTGCTCAGG
Statistics
Matches: 118, Mismatches: 36, Indels: 16
0.69 0.21 0.09
Matches are distributed among these distances:
42 4 0.03
43 30 0.25
44 80 0.68
45 4 0.03
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (44 bp):
ATAAGATTCACTGTCTTCAATCTACTCCACTACTGCTTAGGGAG
Found at i:1188992 original size:131 final size:131
Alignment explanation
Indices: 1188755--1189058 Score: 448
Period size: 131 Copynumber: 2.3 Consensus size: 131
1188745 GTTGCGGCTT
* *
1188755 CAATCTTCAACCTACTCCACTATTGCTCAAGGAGATAGGACTAGTGGCTTAAATCTACTTCCTAC
1 CAATCTTCAACCTACTCCACTGTTGCTCAGGGAGATAGGACTAGTGGCTTAAATCTACTTCCTAC
* * * * * *
1188820 TATCTCGGGAATATAAGATTCGCTGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCT
66 TATCTCAGGAAGATAAGATTCACCGTCTTCGATCTACTCCACTACTACTTAGGGAGATAAGATCT
1188885 A
131 A
* * *
1188886 CAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGACT-GATGGCTTAAATTTGCTTCCTA
1 CAATCTTCAACCTACTCCACTGTTGCTCAGGGAGATAGGACTAG-TGGCTTAAATCTACTTCCTA
* * * *
1188950 CTATCTTAGGAAGATAGGATTCACCGTCTTCTATCTATTCCACTACTACTTAGGGAGATAAGATC
65 CTATCTCAGGAAGATAAGATTCACCGTCTTCGATCTACTCCACTACTACTTAGGGAGATAAGATC
1189015 TA
130 TA
*
1189017 CAATCTTCAACCTACTCCACTGTTGCTCAGGGATATAGGACT
1 CAATCTTCAACCTACTCCACTGTTGCTCAGGGAGATAGGACT
1189059 TGTAATTTCA
Statistics
Matches: 155, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
130 1 0.01
131 154 0.99
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (131 bp):
CAATCTTCAACCTACTCCACTGTTGCTCAGGGAGATAGGACTAGTGGCTTAAATCTACTTCCTAC
TATCTCAGGAAGATAAGATTCACCGTCTTCGATCTACTCCACTACTACTTAGGGAGATAAGATCT
A
Found at i:1189941 original size:28 final size:27
Alignment explanation
Indices: 1189901--1189954 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
1189891 TTGGTCTCTC
*
1189901 CTTTTTCTTTTTTCGTTCTTTTCTTTTT
1 CTTTTTCTTTTTTAGTTCTTTT-TTTTT
*
1189929 CTTTTTAC-TTTTTATTTCTTTTTTTT
1 CTTTTT-CTTTTTTAGTTCTTTTTTTT
1189955 CGAGTGAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 4 0.17
28 18 0.78
29 1 0.04
ACGTcount: A:0.04, C:0.15, G:0.02, T:0.80
Consensus pattern (27 bp):
CTTTTTCTTTTTTAGTTCTTTTTTTTT
Found at i:1190432 original size:16 final size:16
Alignment explanation
Indices: 1190396--1190452 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
1190386 GAGTTTTTTA
1190396 TTTTTTTTATTTTCTT
1 TTTTTTTTATTTTCTT
* * *
1190412 GTTTTTTTGTTTTGTT
1 TTTTTTTTATTTTCTT
1190428 TTTTTACTTT-TTTCTCTT
1 TTTTT--TTTATTT-TCTT
1190446 TTTTTTT
1 TTTTTTT
1190453 GCCTCCACTG
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
16 19 0.58
17 3 0.09
18 11 0.33
ACGTcount: A:0.04, C:0.07, G:0.05, T:0.84
Consensus pattern (16 bp):
TTTTTTTTATTTTCTT
Found at i:1190447 original size:29 final size:28
Alignment explanation
Indices: 1190389--1190453 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 28
1190379 CCCGGTAGAG
* * *
1190389 TTTTTTAT-TTTTTTTATTTTCTTGTTT
1 TTTTTTTTGTTTTTTTATTTTCTTCTCT
1190416 TTTTGTTTTGTTTTTTTACTTTT-TTCTCT
1 TTTT-TTTTGTTTTTTTA-TTTTCTTCTCT
1190445 TTTTTTTTG
1 TTTTTTTTG
1190454 CCTCCACTGT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
27 4 0.12
28 8 0.25
29 16 0.50
30 4 0.12
ACGTcount: A:0.05, C:0.06, G:0.06, T:0.83
Consensus pattern (28 bp):
TTTTTTTTGTTTTTTTATTTTCTTCTCT
Found at i:1194692 original size:58 final size:59
Alignment explanation
Indices: 1194611--1194721 Score: 145
Period size: 58 Copynumber: 1.9 Consensus size: 59
1194601 GAATATATGT
* * *
1194611 ATGTATATATATATATAGGAGTTATAAAATGTGAAACACATATATAT-TATAAGAATGC
1 ATGTATATATATATATAGAAGTTATAAAATATAAAACACATATATATGTATAAGAATGC
* * *
1194669 ATGTATATATATATTTTA-AAGTTATAGAATATAAAACACATATGTATGTATAA
1 ATGTATATATATA-TATAGAAGTTATAAAATATAAAACACATATATATGTATAA
1194722 ATATGTAAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
58 37 0.82
59 8 0.18
ACGTcount: A:0.47, C:0.05, G:0.12, T:0.37
Consensus pattern (59 bp):
ATGTATATATATATATAGAAGTTATAAAATATAAAACACATATATATGTATAAGAATGC
Found at i:1194748 original size:23 final size:23
Alignment explanation
Indices: 1194708--1194761 Score: 56
Period size: 23 Copynumber: 2.3 Consensus size: 23
1194698 TATAAAACAC
*
1194708 ATATGTATGTATAAATATGTA-AA
1 ATATGTGTGTATAAATAT-TATAA
**
1194731 ATATGTGTGTATGTATATTATAA
1 ATATGTGTGTATAAATATTATAA
*
1194754 AAATGTGT
1 ATATGTGT
1194762 ACATACGTGT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
22 2 0.08
23 24 0.92
ACGTcount: A:0.41, C:0.00, G:0.17, T:0.43
Consensus pattern (23 bp):
ATATGTGTGTATAAATATTATAA
Found at i:1195588 original size:13 final size:13
Alignment explanation
Indices: 1195572--1195610 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 13
1195562 AAGGTTTGCA
1195572 AAAATAGAAAAAT
1 AAAATAGAAAAAT
1195585 AAAATAGAATAAAT
1 AAAATAGAA-AAAT
1195599 -AAATAGATAAAA
1 AAAATAGA-AAAA
1195611 ACAGAAAGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 19 0.79
14 5 0.21
ACGTcount: A:0.74, C:0.00, G:0.08, T:0.18
Consensus pattern (13 bp):
AAAATAGAAAAAT
Found at i:1197265 original size:554 final size:554
Alignment explanation
Indices: 1196216--1197326 Score: 2206
Period size: 554 Copynumber: 2.0 Consensus size: 554
1196206 AAAATCATTA
1196216 TTTTAATAAATCAAAATATTTTATTAAAATGATTAATCTCAAGGTGACCCAATCACACCTCAAAA
1 TTTTAATAAATCAAAATATTTTATTAAAATGATTAATCTCAAGGTGACCCAATCACACCTCAAAA
1196281 AAAGATTGGTGGCGACTCCATTTTCGTTTTAAAAGTCGACCCTGTTTTTCAAAATAAAAATAGTT
66 AAAGATTGGTGGCGACTCCATTTTCGTTTTAAAAGTCGACCCTGTTTTTCAAAATAAAAATAGTT
1196346 TCGACAGCTTGGCGACTCCACTGGGGATTGGTTTTGAGAGTCGAGCCACAAATTGATTATCTTCT
131 TCGACAGCTTGGCGACTCCACTGGGGATTGGTTTTGAGAGTCGAGCCACAAATTGATTATCTTCT
1196411 ATCTTTTTGTCGAAATTTGAAAATTCAATTTAAATTTACGATCCTTTCATTACATTTTTATGGTC
196 ATCTTTTTGTCGAAATTTGAAAATTCAATTTAAATTTACGATCCTTTCATTACATTTTTATGGTC
1196476 TACATTATTGTGGTATGTTTGCTTTATTAGTTACAGTCTTTTAATCACTGTATATTACACTGCAT
261 TACATTATTGTGGTATGTTTGCTTTATTAGTTACAGTCTTTTAATCACTGTATATTACACTGCAT
1196541 AGCTGTTCGGTTATACCCTTTTAAGTGAGAATGAGAAACTATCCTTTGCGAGGTCTTTACTTTCA
326 AGCTGTTCGGTTATACCCTTTTAAGTGAGAATGAGAAACTATCCTTTGCGAGGTCTTTACTTTCA
1196606 TGCAGGATAGTGGATCAATTTTGGGATACATCCGCACCTATGCCTTTATGAGATTTTCATCTCCG
391 TGCAGGATAGTGGATCAATTTTGGGATACATCCGCACCTATGCCTTTATGAGATTTTCATCTCCG
1196671 TGCAACCATAGGGAAATGTATTCCTCTGAACTGAACTCGATCCATATGAGCCTATAATGGGTGAG
456 TGCAACCATAGGGAAATGTATTCCTCTGAACTGAACTCGATCCATATGAGCCTATAATGGGTGAG
1196736 GATCGAGGAATCTGCTAGTTTAGGTACCCTTTTC
521 GATCGAGGAATCTGCTAGTTTAGGTACCCTTTTC
1196770 TTTTAATAAAAT-AAAATATTTTATTAAAATGATTAATCTCAAGGTGACCCAATCACACCTCAAA
1 TTTTAAT-AAATCAAAATATTTTATTAAAATGATTAATCTCAAGGTGACCCAATCACACCTCAAA
1196834 AAAAGATTGGTGGCGACTCCATTTTCGTTTTAAAAGTCGACCCTGTTTTTCAAAATAAAAATAGT
65 AAAAGATTGGTGGCGACTCCATTTTCGTTTTAAAAGTCGACCCTGTTTTTCAAAATAAAAATAGT
1196899 TTCGACAGCTTGGCGACTCCACTGGGGATTGGTTTTGAGAGTCGAGCCACAAATTGATTATCTTC
130 TTCGACAGCTTGGCGACTCCACTGGGGATTGGTTTTGAGAGTCGAGCCACAAATTGATTATCTTC
1196964 TATCTTTTTGTCGAAATTTGAAAATTCAATTTAAATTTACGATCCTTTCATTACATTTTTATGGT
195 TATCTTTTTGTCGAAATTTGAAAATTCAATTTAAATTTACGATCCTTTCATTACATTTTTATGGT
1197029 CTACATTATTGTGGTATGTTTGCTTTATTAGTTACAGTCTTTTAATCACTGTATATTACACTGCA
260 CTACATTATTGTGGTATGTTTGCTTTATTAGTTACAGTCTTTTAATCACTGTATATTACACTGCA
1197094 TAGCTGTTCGGTTATACCCTTTTAAGTGAGAATGAGAAACTATCCTTTGCGAGGTCTTTACTTTC
325 TAGCTGTTCGGTTATACCCTTTTAAGTGAGAATGAGAAACTATCCTTTGCGAGGTCTTTACTTTC
1197159 ATGCAGGATAGTGGATCAATTTTGGGATACATCCGCACCTATGCCTTTATGAGATTTTCATCTCC
390 ATGCAGGATAGTGGATCAATTTTGGGATACATCCGCACCTATGCCTTTATGAGATTTTCATCTCC
1197224 GTGCAACCATAGGGAAATGTATTCCTCTGAACTGAACTCGATCCATATGAGCCTATAATGGGTGA
455 GTGCAACCATAGGGAAATGTATTCCTCTGAACTGAACTCGATCCATATGAGCCTATAATGGGTGA
1197289 GGATCGAGGAATCTGCTAGTTTAGGTACCCTTTTC
520 GGATCGAGGAATCTGCTAGTTTAGGTACCCTTTTC
1197324 TTT
1 TTT
1197327 AGAGCCAAAC
Statistics
Matches: 556, Mismatches: 0, Indels: 2
1.00 0.00 0.00
Matches are distributed among these distances:
554 552 0.99
555 4 0.01
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.36
Consensus pattern (554 bp):
TTTTAATAAATCAAAATATTTTATTAAAATGATTAATCTCAAGGTGACCCAATCACACCTCAAAA
AAAGATTGGTGGCGACTCCATTTTCGTTTTAAAAGTCGACCCTGTTTTTCAAAATAAAAATAGTT
TCGACAGCTTGGCGACTCCACTGGGGATTGGTTTTGAGAGTCGAGCCACAAATTGATTATCTTCT
ATCTTTTTGTCGAAATTTGAAAATTCAATTTAAATTTACGATCCTTTCATTACATTTTTATGGTC
TACATTATTGTGGTATGTTTGCTTTATTAGTTACAGTCTTTTAATCACTGTATATTACACTGCAT
AGCTGTTCGGTTATACCCTTTTAAGTGAGAATGAGAAACTATCCTTTGCGAGGTCTTTACTTTCA
TGCAGGATAGTGGATCAATTTTGGGATACATCCGCACCTATGCCTTTATGAGATTTTCATCTCCG
TGCAACCATAGGGAAATGTATTCCTCTGAACTGAACTCGATCCATATGAGCCTATAATGGGTGAG
GATCGAGGAATCTGCTAGTTTAGGTACCCTTTTC
Found at i:1201042 original size:9 final size:9
Alignment explanation
Indices: 1200999--1201024 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
1200989 ATAAGTTTCA
1200999 AAAAAAATC
1 AAAAAAATC
1201008 AAAAAAATC
1 AAAAAAATC
1201017 AAAAAAAT
1 AAAAAAAT
1201025 ATTTCAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.81, C:0.08, G:0.00, T:0.12
Consensus pattern (9 bp):
AAAAAAATC
Found at i:1201044 original size:6 final size:6
Alignment explanation
Indices: 1201033--1201110 Score: 67
Period size: 6 Copynumber: 13.7 Consensus size: 6
1201023 ATATTTCAAA
*
1201033 AAAATG AAAATG AAAATG AAAATG AAAATG ---ATGG AAAAAG AAAA-G
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAAT-G AAAATG AAAATG
* * * *
1201078 AAAAAG AGAAGG AAAAAG AAAATG AAAA-G AAAA
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAA
1201111 AGGAGAGGCC
Statistics
Matches: 61, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
3 2 0.03
4 1 0.02
5 10 0.16
6 47 0.77
7 1 0.02
ACGTcount: A:0.71, C:0.00, G:0.21, T:0.09
Consensus pattern (6 bp):
AAAATG
Found at i:1201080 original size:11 final size:11
Alignment explanation
Indices: 1201066--1201110 Score: 56
Period size: 11 Copynumber: 4.0 Consensus size: 11
1201056 GAAAATGATG
1201066 GAAAAAGAAAA
1 GAAAAAGAAAA
*
1201077 GAAAAAGAGAAG
1 GAAAAAGA-AAA
1201089 GAAAAAGAAAA
1 GAAAAAGAAAA
1201100 TG-AAAAGAAAA
1 -GAAAAAGAAAA
1201111 AGGAGAGGCC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
11 19 0.63
12 11 0.37
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (11 bp):
GAAAAAGAAAA
Found at i:1201106 original size:23 final size:23
Alignment explanation
Indices: 1201044--1201107 Score: 78
Period size: 23 Copynumber: 2.8 Consensus size: 23
1201034 AAATGAAAAT
* * *
1201044 GAAAATGAAAATGAAAA-TGATG
1 GAAAAAGAAAATGAAAAGAGAAG
1201066 GAAAAAGAAAA-GAAAAAGAGAAG
1 GAAAAAGAAAATG-AAAAGAGAAG
1201089 GAAAAAGAAAATGAAAAGA
1 GAAAAAGAAAATGAAAAGA
1201108 AAAAGGAGAG
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
21 1 0.03
22 14 0.39
23 20 0.56
24 1 0.03
ACGTcount: A:0.69, C:0.00, G:0.23, T:0.08
Consensus pattern (23 bp):
GAAAAAGAAAATGAAAAGAGAAG
Done.