Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007475.1 Hibiscus syriacus cultivar Beakdansim tig00020550_pilon, whole genome shotgun sequence
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: 249424
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:17514 original size:74 final size:73
Alignment explanation
Indices: 17424--17570 Score: 285
Period size: 74 Copynumber: 2.0 Consensus size: 73
17414 GTGTGTTTTT
17424 GGGGGGGGGGGTATGTTCTATTTCAAAGCAATAACAACATAAGGTTGTTGAAGGAAATTAGCATA
1 GGGGGGGGGGGTATGTTCTATTTCAAAGCAATAACAACATAAGGTTGTTGAAGGAAATTAGCATA
17489 AAATTAAA
66 AAATTAAA
17497 GGGGGGGGGGGTTATGTTCTATTTCAAAGCAATAACAACATAAGGTTGTTGAAGGAAATTAGCAT
1 GGGGGGGGGGG-TATGTTCTATTTCAAAGCAATAACAACATAAGGTTGTTGAAGGAAATTAGCAT
17562 AAAATTAAA
65 AAAATTAAA
17571 AGTAAAACGG
Statistics
Matches: 73, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
73 11 0.15
74 62 0.85
ACGTcount: A:0.38, C:0.08, G:0.27, T:0.27
Consensus pattern (73 bp):
GGGGGGGGGGGTATGTTCTATTTCAAAGCAATAACAACATAAGGTTGTTGAAGGAAATTAGCATA
AAATTAAA
Found at i:17866 original size:18 final size:18
Alignment explanation
Indices: 17840--17884 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
17830 TCACGGAATT
17840 TAAGATTACCGACAGAAA
1 TAAGATTACCGACAGAAA
* * *
17858 TATGATTACCGACGGGAA
1 TAAGATTACCGACAGAAA
17876 TAAGATTAC
1 TAAGATTAC
17885 TGAGAATGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.42, C:0.16, G:0.20, T:0.22
Consensus pattern (18 bp):
TAAGATTACCGACAGAAA
Found at i:24194 original size:20 final size:20
Alignment explanation
Indices: 24169--24208 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
24159 TCTGTGCACT
24169 TAGTATCAATATTGTTCATC
1 TAGTATCAATATTGTTCATC
*
24189 TAGTATCGATATTGTTCATC
1 TAGTATCAATATTGTTCATC
24209 CAATACTGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.28, C:0.15, G:0.12, T:0.45
Consensus pattern (20 bp):
TAGTATCAATATTGTTCATC
Found at i:24219 original size:20 final size:20
Alignment explanation
Indices: 24172--24213 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
24162 GTGCACTTAG
* * *
24172 TATCAATATTGTTCATCTAG
1 TATCGATATTGTTCATCCAA
24192 TATCGATATTGTTCATCCAA
1 TATCGATATTGTTCATCCAA
24212 TA
1 TA
24214 CTGATACTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.31, C:0.17, G:0.10, T:0.43
Consensus pattern (20 bp):
TATCGATATTGTTCATCCAA
Found at i:26525 original size:96 final size:96
Alignment explanation
Indices: 26425--26814 Score: 468
Period size: 96 Copynumber: 4.1 Consensus size: 96
26415 GATGCAATAC
* * * * *
26425 CGATATTGTCAAAATAGAATGCTAAAATGGTA-TCGATATCATATATGATATCGGTACTGCTTAG
1 CGATACTGTCAAAACAGAATGCTAAAATGGTACT-GATACCATATATGATATCGATACTACTTAG
*
26489 AGTAGTAGTA-CTGATACTCTAAGTTATGGTAT
65 AGTAGTAGTATC-GATACTCTGAGTTATGGTAT
* * *
26521 CGATACTGTCAAAACATAATGCTAAATTGGTACCGATACCATATATGATATCGATACTACTTAGA
1 CGATACTGTCAAAACAGAATGCTAAAATGGTACTGATACCATATATGATATCGATACTACTTAGA
* * ** *
26586 GTTGTAGTATCGATACTTTTGAGGCA--GTAC
66 GTAGTAGTATCGATAC-TCTGAGTTATGGTAT
*
26616 CGATATTGTCAAAACAGAATGCTAAAATGGTACTGATACCATATATGATATCGATACTACTTAAG
1 CGATACTGTCAAAACAGAATGCTAAAATGGTACTGATACCATATATGATATCGATACTACTT-AG
* ***
26681 AGTAGTAGTACCGATACTACTGA--TAAAATAT
65 AGTAGTAGTATCGATACT-CTGAGTTATGGTAT
* * * *
26712 CGATACTATCAAAATATAATGCTATAATGGTACTGATACCATATATGATATCGATACTACTTAGA
1 CGATACTGTCAAAACAGAATGCTAAAATGGTACTGATACCATATATGATATCGATACTACTTAGA
* *
26777 TTAGTAGTATCGATACTCTGAGTAATGGTAT
66 GTAGTAGTATCGATACTCTGAGTTATGGTAT
26808 CGATACT
1 CGATACT
26815 ACTCCTTTCG
Statistics
Matches: 250, Mismatches: 35, Indels: 18
0.83 0.12 0.06
Matches are distributed among these distances:
94 5 0.02
95 80 0.32
96 159 0.64
97 6 0.02
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.32
Consensus pattern (96 bp):
CGATACTGTCAAAACAGAATGCTAAAATGGTACTGATACCATATATGATATCGATACTACTTAGA
GTAGTAGTATCGATACTCTGAGTTATGGTAT
Found at i:26752 original size:191 final size:191
Alignment explanation
Indices: 26405--26793 Score: 556
Period size: 191 Copynumber: 2.0 Consensus size: 191
26395 GAAGTAATAC
* * *
26405 CGATA-TTGTTGATGCAATACCGATATTGTCAAAATAGAATGCTAAAATGGTATCGATATCATAT
1 CGATACTTGTTGAGGCAATACCGATATTGTCAAAACAGAATGCTAAAATGGTATCGATACCATAT
* * * * *** *
26469 ATGATATCGGTACTGCTTAGAGTAGTAGTACTGATACTCTAAGTTATGGTATCGATACTGTCAAA
66 ATGATATCGATACTACTTAGAGTAGTAGTACCGATACTCT-AGATAAAATATCGATACTATCAAA
26534 ACATAATGCTAAATTGGTACCGATACCATATATGATATCGATACTACTTAGAGTT-GTAGTAT
130 ACATAATGCTAAATTGGTACCGATACCATATATGATATCGATACTACTTAGA-TTAGTAGTAT
*
26596 CGATACTT-TTGAGGCAGTACCGATATTGTCAAAACAGAATGCTAAAATGGTA-CTGATACCATA
1 CGATACTTGTTGAGGCAATACCGATATTGTCAAAACAGAATGCTAAAATGGTATC-GATACCATA
26659 TATGATATCGATACTACTTAAGAGTAGTAGTACCGATACTACT-GATAAAATATCGATACTATCA
65 TATGATATCGATACTACTT-AGAGTAGTAGTACCGATACT-CTAGATAAAATATCGATACTATCA
* *
26723 AAATATAATGCTATAA-TGGTACTGATACCATATATGATATCGATACTACTTAGATTAGTAGTAT
128 AAACATAATGCTA-AATTGGTACCGATACCATATATGATATCGATACTACTTAGATTAGTAGTAT
26787 CGATACT
1 CGATACT
26794 CTGAGTAATG
Statistics
Matches: 178, Mismatches: 14, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
190 3 0.02
191 150 0.84
192 23 0.13
193 2 0.01
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.32
Consensus pattern (191 bp):
CGATACTTGTTGAGGCAATACCGATATTGTCAAAACAGAATGCTAAAATGGTATCGATACCATAT
ATGATATCGATACTACTTAGAGTAGTAGTACCGATACTCTAGATAAAATATCGATACTATCAAAA
CATAATGCTAAATTGGTACCGATACCATATATGATATCGATACTACTTAGATTAGTAGTAT
Found at i:26787 original size:24 final size:23
Alignment explanation
Indices: 26760--26817 Score: 66
Period size: 21 Copynumber: 2.6 Consensus size: 23
26750 CCATATATGA
* *
26760 TATCGATACTACTTAGATTAGTAG
1 TATCGATACTACTT-GAGTAATAG
*
26784 TATCGATACT-C-TGAGTAATGG
1 TATCGATACTACTTGAGTAATAG
26805 TATCGATACTACT
1 TATCGATACTACT
26818 CCTTTCGTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 16 0.55
22 2 0.07
23 1 0.03
24 10 0.34
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (23 bp):
TATCGATACTACTTGAGTAATAG
Found at i:27894 original size:27 final size:27
Alignment explanation
Indices: 27863--27950 Score: 158
Period size: 27 Copynumber: 3.3 Consensus size: 27
27853 TTCTCTTGTT
*
27863 TTTGCTTCCGCTGAGAATCTAAGCATC
1 TTTGCTTCCGTTGAGAATCTAAGCATC
*
27890 TTTGCTTCCATTGAGAATCTAAGCATC
1 TTTGCTTCCGTTGAGAATCTAAGCATC
27917 TTTGCTTCCGTTGAGAATCTAAGCATC
1 TTTGCTTCCGTTGAGAATCTAAGCATC
27944 TTTGCTT
1 TTTGCTT
27951 GGGTTATTTT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.39
Consensus pattern (27 bp):
TTTGCTTCCGTTGAGAATCTAAGCATC
Found at i:30220 original size:21 final size:21
Alignment explanation
Indices: 30196--30246 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
30186 CAACGGATGC
*
30196 TGTTGCTGCTGCTCGAATTGA
1 TGTTGCTGCTGCTCAAATTGA
*
30217 TGTTGCTGCTGTTCAAATTGA
1 TGTTGCTGCTGCTCAAATTGA
30238 TGTTGCTGC
1 TGTTGCTGC
30247 AATACATAGC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.14, C:0.18, G:0.27, T:0.41
Consensus pattern (21 bp):
TGTTGCTGCTGCTCAAATTGA
Found at i:32314 original size:18 final size:19
Alignment explanation
Indices: 32291--32330 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
32281 AAGTCTTATC
*
32291 ATTTTTCAATTAA-AAAAT
1 ATTTTTCAATCAACAAAAT
*
32309 ATTTTTCAGTCAACAAAAT
1 ATTTTTCAATCAACAAAAT
32328 ATT
1 ATT
32331 AAGACGTCAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.45, C:0.10, G:0.03, T:0.42
Consensus pattern (19 bp):
ATTTTTCAATCAACAAAAT
Found at i:32987 original size:21 final size:21
Alignment explanation
Indices: 32963--33015 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
32953 GTTTCCAGAT
32963 TCGCAACGCGAACTTCGACTA
1 TCGCAACGCGAACTTCGACTA
*
32984 TCGCAACGCGAACTTGGACTA
1 TCGCAACGCGAACTTCGACTA
*
33005 TCGCAATGCGA
1 TCGCAACGCGA
33016 TTTACATATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.28, C:0.30, G:0.23, T:0.19
Consensus pattern (21 bp):
TCGCAACGCGAACTTCGACTA
Found at i:33109 original size:42 final size:42
Alignment explanation
Indices: 33030--33246 Score: 379
Period size: 42 Copynumber: 5.3 Consensus size: 42
33020 CATATTCGCA
*
33030 TTGCGATAGTCGAAGTTCGCGTTGCGATTT-TT-CAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
33070 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
33112 TTGCGATAGTCCAAGTTCGCGTTGCGA-TT-TTCCAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
* *
33152 TTGCGATAGTCGAAGTTCGCGTTACGATTTATTCCAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
33194 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
33236 TTGCGATAGTC
1 TTGCGATAGTC
33247 TAAAATCGCA
Statistics
Matches: 168, Mismatches: 5, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
40 65 0.39
41 6 0.04
42 97 0.58
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.36
Consensus pattern (42 bp):
TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCG
Found at i:33122 original size:82 final size:82
Alignment explanation
Indices: 33030--33246 Score: 380
Period size: 82 Copynumber: 2.6 Consensus size: 82
33020 CATATTCGCA
* *
33030 TTGCGATAGTCGAAGTTCGCGTTGCGATTTTTCAAATTCGTTGCGATAGTCCAAGTTCGCGTTGC
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTTTCAAATTCGTTGCGATAGTCCAAGTTCGCGTTAC
33095 GATTTATTCCAAATTCG
66 GATTTATTCCAAATTCG
* *
33112 TTGCGATAGTCCAAGTTCGCGTTGCGATTTTCCAAATTCGTTGCGATAGTCGAAGTTCGCGTTAC
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTTTTCAAATTCGTTGCGATAGTCCAAGTTCGCGTTAC
33177 GATTTATTCCAAATTCG
66 GATTTATTCCAAATTCG
33194 TTGCGATAGTCCAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAGTC
1 TTGCGATAGTCCAAGTTCGCGTTGCGATTT-TT-CAAATTCGTTGCGATAGTC
33247 TAAAATCGCA
Statistics
Matches: 128, Mismatches: 5, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
82 108 0.84
83 1 0.01
84 19 0.15
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.36
Consensus pattern (82 bp):
TTGCGATAGTCCAAGTTCGCGTTGCGATTTTTCAAATTCGTTGCGATAGTCCAAGTTCGCGTTAC
GATTTATTCCAAATTCG
Found at i:33349 original size:6 final size:6
Alignment explanation
Indices: 33338--33399 Score: 124
Period size: 6 Copynumber: 10.3 Consensus size: 6
33328 AGACACATAT
33338 GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC
1 GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC
33386 GACCAC GACCAC GA
1 GACCAC GACCAC GA
33400 GACGAGACGA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 56 1.00
ACGTcount: A:0.34, C:0.48, G:0.18, T:0.00
Consensus pattern (6 bp):
GACCAC
Found at i:34015 original size:15 final size:15
Alignment explanation
Indices: 33995--34027 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
33985 GCCATACCAC
33995 CAGTCGTTGCGATTT
1 CAGTCGTTGCGATTT
34010 CAGTCGTTGCGATTT
1 CAGTCGTTGCGATTT
34025 CAG
1 CAG
34028 AATAAATCGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.15, C:0.21, G:0.27, T:0.36
Consensus pattern (15 bp):
CAGTCGTTGCGATTT
Found at i:34057 original size:21 final size:21
Alignment explanation
Indices: 34033--34106 Score: 98
Period size: 21 Copynumber: 3.6 Consensus size: 21
34023 TTCAGAATAA
34033 ATCGCAACGCGAACTTGGACT
1 ATCGCAACGCGAACTTGGACT
* **
34054 ATCGCAA--CGAATTTGGAAA
1 ATCGCAACGCGAACTTGGACT
34073 ATCGCAACGCGAACTTGGACT
1 ATCGCAACGCGAACTTGGACT
*
34094 ATCGCAATGCGAA
1 ATCGCAACGCGAA
34107 TATGTAAATC
Statistics
Matches: 44, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
19 16 0.36
21 28 0.64
ACGTcount: A:0.34, C:0.24, G:0.23, T:0.19
Consensus pattern (21 bp):
ATCGCAACGCGAACTTGGACT
Found at i:34666 original size:32 final size:33
Alignment explanation
Indices: 34630--34705 Score: 93
Period size: 32 Copynumber: 2.3 Consensus size: 33
34620 TCATAAATAA
** *
34630 AATTTAATTTTACTTTTAAT-AAAATTATAATT
1 AATTTAATAATACTTTTAATAAAAATAATAATT
*
34662 AATTT-ATAATACTTTTACTAAAAATAATAATT
1 AATTTAATAATACTTTTAATAAAAATAATAATT
34694 AATTTAAGTAAT
1 AATTTAA-TAAT
34706 TCAATTTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
31 11 0.30
32 21 0.57
33 1 0.03
34 4 0.11
ACGTcount: A:0.47, C:0.04, G:0.01, T:0.47
Consensus pattern (33 bp):
AATTTAATAATACTTTTAATAAAAATAATAATT
Found at i:34671 original size:22 final size:21
Alignment explanation
Indices: 34625--34672 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
34615 ATTAATCATA
*
34625 AATAAAATTTAATTTTACTTTT
1 AATAAAATTTAA-TTTAATTTT
34647 AATAAAATTATAA-TTAATTTAT
1 AATAAAATT-TAATTTAATTT-T
34669 AATA
1 AATA
34673 CTTTTACTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 6 0.26
22 14 0.61
23 3 0.13
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (21 bp):
AATAAAATTTAATTTAATTTT
Found at i:34678 original size:31 final size:32
Alignment explanation
Indices: 34640--34699 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
34630 AATTTAATTT
*
34640 TACTTTTAAT-AAAATTATAATTAATTTATAA
1 TACTTTTAATAAAAATAATAATTAATTTATAA
*
34671 TACTTTTACTAAAAATAATAATTAATTTA
1 TACTTTTAATAAAAATAATAATTAATTTA
34700 AGTAATTCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 9 0.35
32 17 0.65
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.47
Consensus pattern (32 bp):
TACTTTTAATAAAAATAATAATTAATTTATAA
Found at i:35282 original size:24 final size:25
Alignment explanation
Indices: 35250--35301 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
35240 ATTTTGATAA
* *
35250 TTAATTTAA-AATTTATTCTTTGATT
1 TTAATTTAACAATTAATACTTT-ATT
35275 TTAA-TTAACAATTAATACTTTATT
1 TTAATTTAACAATTAATACTTTATT
35299 TTA
1 TTA
35302 TTCATTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 10 0.42
25 14 0.58
ACGTcount: A:0.37, C:0.06, G:0.02, T:0.56
Consensus pattern (25 bp):
TTAATTTAACAATTAATACTTTATT
Found at i:35330 original size:25 final size:25
Alignment explanation
Indices: 35302--35358 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
35292 CTTTATTTTA
*
35302 TTCATTAT-ATTTTATTTGCATTGGT
1 TTCATTATCATTTTATATG-ATTGGT
*
35327 TTCA-TATCATTTTATATGATTTGT
1 TTCATTATCATTTTATATGATTGGT
35351 TATCATTA
1 T-TCATTA
35359 ATCTTAACTT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 9 0.33
25 16 0.59
26 2 0.07
ACGTcount: A:0.25, C:0.09, G:0.09, T:0.58
Consensus pattern (25 bp):
TTCATTATCATTTTATATGATTGGT
Found at i:35776 original size:19 final size:20
Alignment explanation
Indices: 35741--35802 Score: 65
Period size: 19 Copynumber: 3.2 Consensus size: 20
35731 GAATATCAAG
*
35741 TTAAAATTAA-GCATCAAAA
1 TTAAAATTAACGTATCAAAA
* * *
35760 TTAAAGTTAATGT-TCAATA
1 TTAAAATTAACGTATCAAAA
*
35779 TTAAAATTTACGTATCAAAA
1 TTAAAATTAACGTATCAAAA
35799 TTAA
1 TTAA
35803 TATTTTCATG
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
19 24 0.71
20 10 0.29
ACGTcount: A:0.50, C:0.08, G:0.06, T:0.35
Consensus pattern (20 bp):
TTAAAATTAACGTATCAAAA
Found at i:36607 original size:17 final size:17
Alignment explanation
Indices: 36568--36621 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
36558 GTATTATAAA
*
36568 TTAATTATAATTATATT
1 TTAATTATAATTAAATT
** *
36585 AAAATTAAAATTAAATT
1 TTAATTATAATTAAATT
*
36602 TTAATTATGATT-AATT
1 TTAATTATAATTAAATT
36618 TTAA
1 TTAA
36622 AAATATCCTT
Statistics
Matches: 29, Mismatches: 8, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
16 8 0.28
17 21 0.72
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (17 bp):
TTAATTATAATTAAATT
Found at i:37909 original size:31 final size:31
Alignment explanation
Indices: 37871--37931 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
37861 TGGCTATCGC
37871 AGTTTGGCTCCAGAAACAAACTAATTCATCA
1 AGTTTGGCTCCAGAAACAAACTAATTCATCA
37902 AGTTTGGCTCCAGAAACAAACTAATTCATC
1 AGTTTGGCTCCAGAAACAAACTAATTCATC
37932 TAGGTTTCCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.26
Consensus pattern (31 bp):
AGTTTGGCTCCAGAAACAAACTAATTCATCA
Found at i:39691 original size:16 final size:16
Alignment explanation
Indices: 39654--39708 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 16
39644 AACTTAATTG
*
39654 AAATAATTAAAACA-A
1 AAATAATAAAAACATA
39669 AAGATAATAAAAACATA
1 AA-ATAATAAAAACATA
39686 AAATAA-ACATAAACATA
1 AAATAATA-A-AAACATA
39703 AAATAA
1 AAATAA
39709 AGACATAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
15 3 0.09
16 16 0.46
17 16 0.46
ACGTcount: A:0.73, C:0.07, G:0.02, T:0.18
Consensus pattern (16 bp):
AAATAATAAAAACATA
Found at i:39782 original size:25 final size:25
Alignment explanation
Indices: 39721--39782 Score: 63
Period size: 25 Copynumber: 2.4 Consensus size: 25
39711 ACATAATTGC
* *
39721 ATAAATATAAAATAATAGTGATGAAA
1 ATAAA-ATAAAATAAAAGTGATCAAA
* *
39747 ATACAAGAAAATAAAAGTGA-CAAA
1 ATAAAATAAAATAAAAGTGATCAAA
39771 ATTAAAATAAAA
1 A-TAAAATAAAA
39783 CAACATCAGT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
24 4 0.14
25 21 0.72
26 4 0.14
ACGTcount: A:0.66, C:0.03, G:0.10, T:0.21
Consensus pattern (25 bp):
ATAAAATAAAATAAAAGTGATCAAA
Found at i:41259 original size:133 final size:133
Alignment explanation
Indices: 40923--41539 Score: 905
Period size: 133 Copynumber: 4.6 Consensus size: 133
40913 AGTGAAAATA
* ** *
40923 ATCCACCTCCTTT-TGTGATGGAATAGAACGAGATGTCGGTACTGATCTACCTCCTTCTGTTATA
1 ATCCACCT-CTTTCTGTGATGGAATCGAACGAGATGTCGGTGTTGATCTACCTCCTTCTGTGATA
* * *
40987 GAATCGAGCTAAAAGTTGACGTTGATCCAACTCATTTTGCGATGGATTTGAGCGAAAATAAAAAA
65 GAATCGAGCTAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAAT--AAAA
*
41052 ATGTCG
128 AGGTCG
* * * *
41058 ATCCACCTCTTTATGTGATGGAATCGAACGAGATATTGGTGTTGATCTACCTCCTTCTGTTATAG
1 ATCCACCTCTTTCTGTGATGGAATCGAACGAGATGTCGGTGTTGATCTACCTCCTTCTGTGATAG
* * * * *
41123 AATCAAGCTGAAAGTTGATGCTAATCCGACTCCTTCTGCGATGGATTTGAGCGAAAATAAAAAGG
66 AATCGAGCTAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAATAAAAAGG
*
41188 TTG
131 TCG
* * *
41191 ATCCACCTCTTTCTATGATGTAATCGAACGAGATGTCGGTGCTGATCTACCTCCTTCTGTGATAG
1 ATCCACCTCTTTCTGTGATGGAATCGAACGAGATGTCGGTGTTGATCTACCTCCTTCTGTGATAG
* * *
41256 AATCGAACTAAAATTTGACGTTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAATAAAAAGG
66 AATCGAGCTAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAATAAAAAGG
41321 TCG
131 TCG
*
41324 ATCCACCTCTTTCTGTGATGGAATCGAATGAGATGTCGGTGTTGATCTACCTCCTTCTGTGATAG
1 ATCCACCTCTTTCTGTGATGGAATCGAACGAGATGTCGGTGTTGATCTACCTCCTTCTGTGATAG
* * *
41389 AATCGAGCTAAAAGTTGACGCTGATCCAACTCCCTT-TACAATGGATTTGAGCGATAATAAAAAG
66 AATCGAGCTAAAAGTTGACGCTGATCCAACT-CCTTCTGCGATGGATTTGAGCGAAAATAAAAAG
*
41453 GCCG
130 GTCG
*
41457 ATCCACTTCTTTCTGTGATGGAATCGAACGAGATGTCGGTGTTGATCTACCTCCTTCTGTGATAG
1 ATCCACCTCTTTCTGTGATGGAATCGAACGAGATGTCGGTGTTGATCTACCTCCTTCTGTGATAG
*
41522 AATCGAGCTGAAAGTTGA
66 AATCGAGCTAAAAGTTGA
41540 ATAAGTTCTT
Statistics
Matches: 435, Mismatches: 45, Indels: 6
0.90 0.09 0.01
Matches are distributed among these distances:
133 322 0.74
134 8 0.02
135 105 0.24
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.31
Consensus pattern (133 bp):
ATCCACCTCTTTCTGTGATGGAATCGAACGAGATGTCGGTGTTGATCTACCTCCTTCTGTGATAG
AATCGAGCTAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAATAAAAAGG
TCG
Found at i:41260 original size:44 final size:44
Alignment explanation
Indices: 41189--41527 Score: 123
Period size: 44 Copynumber: 7.7 Consensus size: 44
41179 ATAAAAAGGT
* * *
41189 TGATCCACCTCTTTCTATGAT-GTAATCGAACGAGATGTCGGTGC
1 TGATCCACCTCCTTCTGTGATAG-AATCGAACGAAATGTCGGTGC
* * * ** *
41233 TGATCTACCTCCTTCTGTGATAGAATCGAACTAAAAT-TTGACGT
1 TGATCCACCTCCTTCTGTGATAGAATCGAAC-GAAATGTCGGTGC
* * * * * * ***
41277 TGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAATAAAAAGGT-C
1 TGATCCACCTCCTTCTGTGATAGAATCGAACG-AAAT--GTCGGTGC
* * * * *
41323 -GATCCACCTCTTTCTGTGATGGAATCGAATGAGATGTCGGTGT
1 TGATCCACCTCCTTCTGTGATAGAATCGAACGAAATGTCGGTGC
* * * * * **
41366 TGATCTACCTCCTTCTGTGATAGAATCGAGCTAAAAGTTGACGC
1 TGATCCACCTCCTTCTGTGATAGAATCGAACGAAATGTCGGTGC
* *** * * * * ****
41410 TGATCCAACTCCCTT-TACAATGGATTTGAGCGATAATAAAAAG-GC
1 TGATCCACCT-CCTTCTGTGATAGAATCGAACGA-AAT-GTCGGTGC
* * * * * *
41455 CGATCCACTTCTTTCTGTGATGGAATCGAACGAGATGTCGGTGT
1 TGATCCACCTCCTTCTGTGATAGAATCGAACGAAATGTCGGTGC
*
41499 TGATCTACCTCCTTCTGTGATAGAATCGA
1 TGATCCACCTCCTTCTGTGATAGAATCGA
41528 GCTGAAAGTT
Statistics
Matches: 200, Mismatches: 82, Indels: 26
0.65 0.27 0.08
Matches are distributed among these distances:
42 3 0.01
43 1 0.00
44 140 0.70
45 55 0.28
47 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.31
Consensus pattern (44 bp):
TGATCCACCTCCTTCTGTGATAGAATCGAACGAAATGTCGGTGC
Found at i:41462 original size:266 final size:264
Alignment explanation
Indices: 40758--41539 Score: 1027
Period size: 266 Copynumber: 3.0 Consensus size: 264
40748 TTGATAATGA
* * * *
40758 TGATCTAACTCTTTCTGCGATGGATTTGAGCG---A-ACAAATGTCGAT-C-TCTCTTTCTGTGA
1 TGATCCAACTCATTCTGCGATGGATTTGAGCGAAAATAAAAATGTCGATCCACCTCTTTCTGTGA
* * * * *
40817 TGAAATCTAACGAGATATCGGTGTTGATCTACCTCATTCTGCGATAGAATCGAGTTGAAAGTTGA
66 TGGAATCGAACGAGATATCGGTGTTGATCTACCTCCTTCTGTGATAGAATCGAGCTGAAAGTTGA
* * * *
40882 CGCTGATCCAATTCCTTTTGCGATGGATTTGA--G-TGA-AAATA---ATCCACCTCCTTT-TGT
131 CGCTGATCCAACTCCCTTTGCGATGGATTTGAGCGATAATAAAAAGGGATCCACCT-CTTTCTGT
* * * *
40939 GATGGAATAGAACGAGATGTCGGTACTGATCTACCTCCTTCTGTTATAGAATCGAGCTAAAAGTT
195 GATGGAATCGAACGAGATGTCGGTGCTGATCTACCTCCTTCTGTGATAGAATCGAACTAAAAGTT
41004 GACGT
260 GACGT
* *
41009 TGATCCAACTCATTTTGCGATGGATTTGAGCGAAAATAAAAAAATGTCGATCCACCTCTTTATGT
1 TGATCCAACTCATTCTGCGATGGATTTGAGCGAAAAT--AAAAATGTCGATCCACCTCTTTCTGT
* * *
41074 GATGGAATCGAACGAGATATTGGTGTTGATCTACCTCCTTCTGTTATAGAATCAAGCTGAAAGTT
64 GATGGAATCGAACGAGATATCGGTGTTGATCTACCTCCTTCTGTGATAGAATCGAGCTGAAAGTT
* * * *
41139 GATGCTAATCCGACT-CCTTCTGCGATGGATTTGAGCGAAAATAAAAAGGTTGATCCACCTCTTT
129 GACGCTGATCCAACTCCCTT-TGCGATGGATTTGAGCGATAATAAAAAGG--GATCCACCTCTTT
* *
41203 CTATGATGTAATCGAACGAGATGTCGGTGCTGATCTACCTCCTTCTGTGATAGAATCGAACTAAA
191 CTGTGATGGAATCGAACGAGATGTCGGTGCTGATCTACCTCCTTCTGTGATAGAATCGAACTAAA
*
41268 ATTTGACGT
256 AGTTGACGT
* *
41277 TGATCCAACTCCTTCTGCGATGGATTTGAGCGAAAATAAAAAGGTCGATCCACCTCTTTCTGTGA
1 TGATCCAACTCATTCTGCGATGGATTTGAGCGAAAATAAAAATGTCGATCCACCTCTTTCTGTGA
* * *
41342 TGGAATCGAATGAGATGTCGGTGTTGATCTACCTCCTTCTGTGATAGAATCGAGCTAAAAGTTGA
66 TGGAATCGAACGAGATATCGGTGTTGATCTACCTCCTTCTGTGATAGAATCGAGCTGAAAGTTGA
* * *
41407 CGCTGATCCAACTCCCTTTACAATGGATTTGAGCGATAATAAAAAGGCCGATCCACTTCTTTCTG
131 CGCTGATCCAACTCCCTTTGCGATGGATTTGAGCGATAATAAAAAGG--GATCCACCTCTTTCTG
* * *
41472 TGATGGAATCGAACGAGATGTCGGTGTTGATCTACCTCCTTCTGTGATAGAATCGAGCTGAAAGT
194 TGATGGAATCGAACGAGATGTCGGTGCTGATCTACCTCCTTCTGTGATAGAATCGAACTAAAAGT
41537 TGA
259 TGA
41540 ATAAGTTCTT
Statistics
Matches: 457, Mismatches: 54, Indels: 25
0.85 0.10 0.05
Matches are distributed among these distances:
251 29 0.06
254 1 0.00
257 11 0.02
258 4 0.01
259 91 0.20
261 1 0.00
262 1 0.00
263 4 0.01
266 198 0.43
267 8 0.02
268 109 0.24
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (264 bp):
TGATCCAACTCATTCTGCGATGGATTTGAGCGAAAATAAAAATGTCGATCCACCTCTTTCTGTGA
TGGAATCGAACGAGATATCGGTGTTGATCTACCTCCTTCTGTGATAGAATCGAGCTGAAAGTTGA
CGCTGATCCAACTCCCTTTGCGATGGATTTGAGCGATAATAAAAAGGGATCCACCTCTTTCTGTG
ATGGAATCGAACGAGATGTCGGTGCTGATCTACCTCCTTCTGTGATAGAATCGAACTAAAAGTTG
ACGT
Found at i:41714 original size:33 final size:33
Alignment explanation
Indices: 41672--41745 Score: 148
Period size: 33 Copynumber: 2.2 Consensus size: 33
41662 AAAACTTGAT
41672 GTATGCATATGCTCCTATTAAATGAATGCATGA
1 GTATGCATATGCTCCTATTAAATGAATGCATGA
41705 GTATGCATATGCTCCTATTAAATGAATGCATGA
1 GTATGCATATGCTCCTATTAAATGAATGCATGA
41738 GTATGCAT
1 GTATGCAT
41746 GGGGTGTGTG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (33 bp):
GTATGCATATGCTCCTATTAAATGAATGCATGA
Found at i:56758 original size:21 final size:21
Alignment explanation
Indices: 56732--56771 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
56722 CAGAACCCCA
*
56732 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
*
56753 GGGGGGAATCGGTTCCCCT
1 GGGGGGAATCGATTCCCCT
56772 TCAAAGGAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.25, G:0.40, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:56806 original size:20 final size:21
Alignment explanation
Indices: 56753--56814 Score: 63
Period size: 20 Copynumber: 2.9 Consensus size: 21
56743 ATTCCCCTGT
56753 GGGGGGAATCGGTTCCCCTTCAAA
1 GGGGGG-ATCGGTT-CCC-TCAAA
* *
56777 GGAGGAATCGGTTCCCTC-AA
1 GGGGGGATCGGTTCCCTCAAA
*
56797 GGGGGGATCGATTCCCTC
1 GGGGGGATCGGTTCCCTC
56815 TGCACCAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
20 17 0.52
21 2 0.06
22 3 0.09
23 7 0.21
24 4 0.12
ACGTcount: A:0.19, C:0.26, G:0.34, T:0.21
Consensus pattern (21 bp):
GGGGGGATCGGTTCCCTCAAA
Found at i:60602 original size:22 final size:21
Alignment explanation
Indices: 60560--60599 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
60550 GAGTTTGTTT
*
60560 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
60581 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
60600 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:63563 original size:16 final size:16
Alignment explanation
Indices: 63526--63580 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 16
63516 AACTTAATTG
*
63526 AAATAATTAAAACA-A
1 AAATAATAAAAACATA
63541 AAGATAATAAAAACATA
1 AA-ATAATAAAAACATA
63558 AAATAA-ACATAAACATA
1 AAATAATA-A-AAACATA
63575 AAATAA
1 AAATAA
63581 AGACATAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
15 3 0.09
16 16 0.46
17 16 0.46
ACGTcount: A:0.73, C:0.07, G:0.02, T:0.18
Consensus pattern (16 bp):
AAATAATAAAAACATA
Found at i:63654 original size:25 final size:25
Alignment explanation
Indices: 63594--63654 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
63584 CATAATTGCG
*
63594 TAAATATAAAATAATAGTGACGAAAA
1 TAAA-ATAAAATAAAAGTGACGAAAA
* *
63620 TACAAGAAAATAAAAGTGAC-AAAA
1 TAAAATAAAATAAAAGTGACGAAAA
63644 TTAAAATAAAA
1 -TAAAATAAAA
63655 CAACATCAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
24 4 0.14
25 22 0.76
26 3 0.10
ACGTcount: A:0.66, C:0.05, G:0.10, T:0.20
Consensus pattern (25 bp):
TAAAATAAAATAAAAGTGACGAAAA
Found at i:66046 original size:22 final size:22
Alignment explanation
Indices: 66018--66093 Score: 136
Period size: 22 Copynumber: 3.5 Consensus size: 22
66008 CCTTTATTTC
*
66018 AAATAATTTACCTTTAATTTTT
1 AAATAATTTATCTTTAATTTTT
66040 AAATAATTTATCTTTAA-TTTT
1 AAATAATTTATCTTTAATTTTT
66061 AAATAATTTATCTTTAATTTTT
1 AAATAATTTATCTTTAATTTTT
66083 AAATAATTTAT
1 AAATAATTTAT
66094 AATTATACGT
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
21 21 0.40
22 31 0.60
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.55
Consensus pattern (22 bp):
AAATAATTTATCTTTAATTTTT
Found at i:66069 original size:43 final size:42
Alignment explanation
Indices: 66009--66093 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 42
65999 ATAGTTTACC
66009 CTTTATTTCAAATAATTTACCTTTAATTTTTAAATAATTTAT
1 CTTTATTTCAAATAATTTACCTTTAATTTTTAAATAATTTAT
* *
66051 CTTTAATTTTAAATAATTTATCTTTAATTTTTAAATAATTTAT
1 CTTT-ATTTCAAATAATTTACCTTTAATTTTTAAATAATTTAT
66094 AATTATACGT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
42 4 0.10
43 36 0.90
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.56
Consensus pattern (42 bp):
CTTTATTTCAAATAATTTACCTTTAATTTTTAAATAATTTAT
Found at i:69672 original size:22 final size:22
Alignment explanation
Indices: 69641--69694 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
69631 CGGTTCAACC
69641 TAAATTTTTTTTGAT-TTTTTAT
1 TAAA-TTTTTTTGATATTTTTAT
* *
69663 TAAATGTTTTTGGTATTTTTAT
1 TAAATTTTTTTGATATTTTTAT
*
69685 TTAATTTTTT
1 TAAATTTTTT
69695 AAATAATTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 8 0.30
22 19 0.70
ACGTcount: A:0.22, C:0.00, G:0.07, T:0.70
Consensus pattern (22 bp):
TAAATTTTTTTGATATTTTTAT
Found at i:74113 original size:18 final size:18
Alignment explanation
Indices: 74092--74127 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
74082 ATACATTGGG
*
74092 CTATGAATATGAAGTAAA
1 CTATGAATATAAAGTAAA
*
74110 CTATGAATCTAAAGTAAA
1 CTATGAATATAAAGTAAA
74128 GTTACAAATC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.50, C:0.08, G:0.14, T:0.28
Consensus pattern (18 bp):
CTATGAATATAAAGTAAA
Found at i:75839 original size:2 final size:2
Alignment explanation
Indices: 75834--75878 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
75824 TTTTAATGAT
75834 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
75876 TA T
1 TA T
75879 GAAATCATAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:76124 original size:26 final size:25
Alignment explanation
Indices: 76076--76125 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
76066 TTCAAATTAT
* *
76076 AATATATATATTTGTTATAGTTAAA
1 AATATATATATATATTATAGTTAAA
76101 AATATATATTATATATTATAGTTAA
1 AATATATA-TATATATTATAGTTAA
76126 TATTCGATGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 8 0.36
26 14 0.64
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (25 bp):
AATATATATATATATTATAGTTAAA
Found at i:79024 original size:12 final size:12
Alignment explanation
Indices: 79007--79061 Score: 53
Period size: 12 Copynumber: 4.8 Consensus size: 12
78997 AACTTTATTC
79007 ATAATAACAATA
1 ATAATAACAATA
79019 ATAATAAC-ATA
1 ATAATAACAATA
*
79030 AAAATAATC-AT-
1 ATAATAA-CAATA
* *
79041 TTAAAAACAATA
1 ATAATAACAATA
79053 ATAATAACA
1 ATAATAACA
79062 TTATTAAAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
10 1 0.03
11 15 0.44
12 18 0.53
ACGTcount: A:0.65, C:0.09, G:0.00, T:0.25
Consensus pattern (12 bp):
ATAATAACAATA
Found at i:82662 original size:83 final size:83
Alignment explanation
Indices: 82567--82727 Score: 270
Period size: 83 Copynumber: 1.9 Consensus size: 83
82557 GTGCATATCT
82567 TTTTAATATTTTAAATTTAAAAGAAATTATTATCTATTTAAATTTAGATATTAAAAGA-TGTTTA
1 TTTTAATATTTTAAATTTAAAAGAAATTATTATCTATTTAAATTTAGATATTAAAAGAGT-TTTA
*
82631 GTTGGAGTAAAACTCTCAA
65 ATTGGAGTAAAACTCTCAA
* * *
82650 TTTTAATATTTTAAATTTAAAATATATTATTATCTGTTTAAATTTAGATATTAAAAGAGTTTTAA
1 TTTTAATATTTTAAATTTAAAAGAAATTATTATCTATTTAAATTTAGATATTAAAAGAGTTTTAA
82715 TTGGAGTAAAACT
66 TTGGAGTAAAACT
82728 TTATCGAAAT
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
83 72 0.99
84 1 0.01
ACGTcount: A:0.42, C:0.04, G:0.09, T:0.45
Consensus pattern (83 bp):
TTTTAATATTTTAAATTTAAAAGAAATTATTATCTATTTAAATTTAGATATTAAAAGAGTTTTAA
TTGGAGTAAAACTCTCAA
Found at i:83429 original size:21 final size:21
Alignment explanation
Indices: 83405--83482 Score: 68
Period size: 21 Copynumber: 3.7 Consensus size: 21
83395 TTTCAACAAA
*
83405 GAGAAGAAAGAGAAGAAAAAG
1 GAGAAGAAAGAGAAGAAGAAG
* *
83426 GAGAA-AGAGTAGAAGAAGATG
1 GAGAAGAAAG-AGAAGAAGAAG
* * *
83447 GAAAAGAAGGGGAAGAAGAAG
1 GAGAAGAAAGAGAAGAAGAAG
* *
83468 GGGAAGAAAAAGAAG
1 GAGAAGAAAGAGAAG
83483 GATAACAAGA
Statistics
Matches: 42, Mismatches: 13, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
20 3 0.07
21 37 0.88
22 2 0.05
ACGTcount: A:0.59, C:0.00, G:0.38, T:0.03
Consensus pattern (21 bp):
GAGAAGAAAGAGAAGAAGAAG
Found at i:83465 original size:12 final size:12
Alignment explanation
Indices: 83436--83475 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
83426 GAGAAAGAGT
*
83436 AGAAGAAGATGGA
1 AGAAGAAG-GGGA
83449 A-AAGAAGGGGA
1 AGAAGAAGGGGA
83460 AGAAGAAGGGGA
1 AGAAGAAGGGGA
83472 AGAA
1 AGAA
83476 AAAGAAGGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
11 4 0.16
12 20 0.80
13 1 0.04
ACGTcount: A:0.55, C:0.00, G:0.42, T:0.03
Consensus pattern (12 bp):
AGAAGAAGGGGA
Found at i:83466 original size:27 final size:27
Alignment explanation
Indices: 83436--83505 Score: 77
Period size: 27 Copynumber: 2.6 Consensus size: 27
83426 GAGAAAGAGT
* * *
83436 AGAAGAAGATGGAAAAGAAGGGGAAGA
1 AGAAGAAGAAGGAAAAGAAGGAGAACA
** * *
83463 AGAAGGGGAAGAAAAAGAAGGATAACA
1 AGAAGAAGAAGGAAAAGAAGGAGAACA
83490 AGAAGAAGAAGGAAAA
1 AGAAGAAGAAGGAAAA
83506 ATCATTGGCA
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.60, C:0.01, G:0.36, T:0.03
Consensus pattern (27 bp):
AGAAGAAGAAGGAAAAGAAGGAGAACA
Found at i:85184 original size:260 final size:260
Alignment explanation
Indices: 84537--85263 Score: 785
Period size: 262 Copynumber: 2.8 Consensus size: 260
84527 TACTATAGAC
* * * *
84537 TTTGTAGTAAAACTAAATAAAATAGAAATATTTATGGCCA-ATTTCATATAAAAAATAATAATTT
1 TTTGAAGTAAAA-T-AA-AAAATAGAAATAATTA-GGCCAGATTTCAAAT-AAAAAT-ATACTTT
**
84601 TAAGGACTAAATTGAACAAACATGAAATTACAAAGTGAAATTTAAATAAATTAAACAACATGCAA
60 TAAGGACTAAATTGAACAAACATGAAATTACAAAGTGAAATTTAAATAAATTAAACAACACACAA
* * *
84666 AGATCAAATTGAAACAATTGTAAAATGTAAAGCTAAAATTAATATAAAATTGGAGTAAATTGAAT
125 GGATCAAATTGAAACAATTGTAAAATGTAAAGCTAAAATTAATATAAAATTAGACTAAATTGAAT
** * *
84731 TTATTTAAAAAGTTAATGATTATGATATAATTTATAGGATTTGAAATTAAATTTATGATGTGATT
190 TTATTTAAAAAGTTAATGAACATAATATAATTTATAGGATTTGAAATGAAATTTATGATGTGATT
*
84796 TATATG
255 TATAGG
* *
84802 TTTGGAGTACAAATAAAAAATAGAAATAATTATGCCATGATTTCAAATAAAAATATCAC-TTTAA
1 TTTGAAGTA-AAATAAAAAATAGAAATAATTAGGCCA-GATTTCAAATAAAAATAT-ACTTTTAA
* * *
84866 GGACTAAATTGAACAAATATGAAATTAAAAAGTGAAATTTAAATAAATTAAACAACACACAGGGA
63 GGACTAAATTGAACAAACATGAAATTACAAAGTGAAATTTAAATAAATTAAACAACACACAAGGA
* * * * * * * *
84931 TCAACTTGAAATAAATGTAAAATATAAAGCTAAATTTAATGTCAAATTAGACTAAATTGCATTTA
128 TCAAATTGAAACAATTGTAAAATGTAAAGCTAAAATTAATATAAAATTAGACTAAATTGAATTTA
* ** * * *
84996 TTTTAAAAGTTGGTGAACA-AATATAATTTGTATGG-TTTGAAATGAAGTTTATGATGTGGTTTT
193 TTTAAAAAGTTAATGAACATAATATAATTTATA-GGATTTGAAATGAAATTTATGATGT-GATTT
85059 ATAGGG
256 ATA-GG
* * ** * ***
85065 TTTGAAGT-ATATTAAAAATAGAAATTGTTACAGGTCA-ATTTTGGAT-AAAATATACTTTTAAG
1 TTTGAAGTAAAATAAAAAATAGAAATAATT--AGGCCAGATTTCAAATAAAAATATACTTTTAAG
* * *
85127 GATTAAATTGAACAAACAAT-AAATTACAAAGTTAAATTTGAATAAATTAAACAACACACAAGGA
64 GACTAAATTGAACAAAC-ATGAAATTACAAAGTGAAATTTAAATAAATTAAACAACACACAAGGA
* * * * *
85191 TCAAAGTGAAACAATTGTAAAATGTAAAGATGAAAA-T-AT-T-AAATTGGACTAAATTGTATTA
128 TCAAATTGAAACAATTGTAAAATGTAAAGCT-AAAATTAATATAAAATTAGACTAAATTGAATTT
85252 ATTTAAAAAGTT
192 ATTTAAAAAGTT
85264 GACGAACAAA
Statistics
Matches: 391, Mismatches: 59, Indels: 32
0.81 0.12 0.07
Matches are distributed among these distances:
257 29 0.07
258 1 0.00
259 4 0.01
260 94 0.24
261 59 0.15
262 148 0.38
263 34 0.09
264 10 0.03
265 9 0.02
266 3 0.01
ACGTcount: A:0.48, C:0.06, G:0.13, T:0.33
Consensus pattern (260 bp):
TTTGAAGTAAAATAAAAAATAGAAATAATTAGGCCAGATTTCAAATAAAAATATACTTTTAAGGA
CTAAATTGAACAAACATGAAATTACAAAGTGAAATTTAAATAAATTAAACAACACACAAGGATCA
AATTGAAACAATTGTAAAATGTAAAGCTAAAATTAATATAAAATTAGACTAAATTGAATTTATTT
AAAAAGTTAATGAACATAATATAATTTATAGGATTTGAAATGAAATTTATGATGTGATTTATAGG
Found at i:85299 original size:4 final size:4
Alignment explanation
Indices: 85290--85971 Score: 1039
Period size: 4 Copynumber: 171.5 Consensus size: 4
85280 TAAGGACTCG
85290 TACA TACA TACA TACA TACA T--A TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* **
85336 TACA TACA TATA TACA TACA TACA TACA T--A TACA TACA TACA TGTA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * * * * * *
85382 TACA TGCA TACA TGCA TACA TGCA TACA TGCA TGCA TGCA TGCA TGCA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * * * * * * * * * *
85430 TGCA TGCA TGCA TGCA TGCA TGCA TGCA TGCA TGCA TGCA TGCA TGCA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
*
85478 TGCA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
85526 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
85574 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
85622 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
85670 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
85718 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
85766 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
85814 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
85862 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
* * * * * * * * *
85910 TGCA TGCA TGCA TGCA TGCA TGCA TGCA TGCA TGCA TACA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
85958 TACA TACA TACA TA
1 TACA TACA TACA TA
85972 TATTTTTCAT
Statistics
Matches: 658, Mismatches: 16, Indels: 8
0.96 0.02 0.01
Matches are distributed among these distances:
2 4 0.01
4 654 0.99
ACGTcount: A:0.45, C:0.24, G:0.05, T:0.26
Consensus pattern (4 bp):
TACA
Found at i:86365 original size:17 final size:17
Alignment explanation
Indices: 86345--86383 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
86335 CATATAAATT
86345 TAAT-TTATAATAATAAA
1 TAATATTATAA-AATAAA
*
86362 TAATATTATAACATAAA
1 TAATATTATAAAATAAA
86379 TAATA
1 TAATA
86384 AACAACATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (17 bp):
TAATATTATAAAATAAA
Found at i:89076 original size:2 final size:2
Alignment explanation
Indices: 89071--89105 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
89061 CGTGTGTGTG
89071 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
89106 TTAGTTTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:89251 original size:23 final size:23
Alignment explanation
Indices: 89213--89256 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
89203 ATTTTAGGAT
*
89213 TAATTAATATTGATATTTTATAA
1 TAATTAATATTGATATATTATAA
89236 TAATTAATAATT-ATATATTAT
1 TAATTAAT-ATTGATATATTAT
89257 GTGACTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
TAATTAATATTGATATATTATAA
Found at i:91302 original size:118 final size:118
Alignment explanation
Indices: 91067--91404 Score: 518
Period size: 118 Copynumber: 2.9 Consensus size: 118
91057 TGGCATTATA
* * * * * * *
91067 TGTGCTAAAATGATAAGAAAATCATACTGAATGTATGAATTTCCATAT-GGAGCACTGA-GTGTG
1 TGTGCTAAAATGATAAGGAAATCATATTGAATATATGGATTTCCAGATAGG-GCA-TTATATGTG
* *
91130 CTAAAAATGATAAGTAAATCATACTGAGTGTATGGATTTACATATGGAGCACTGAG
64 CT-AAAATGATAAGGAAATCATACTGAGTGTATGGATTTACATATGGAACACTGAG
91186 TGTGCTAAAATGATAAGGAAATCATATTGAATATATGGATTTCCAGATAGGGCATTATATGTGCT
1 TGTGCTAAAATGATAAGGAAATCATATTGAATATATGGATTTCCAGATAGGGCATTATATGTGCT
* *
91251 AAAATGATAAGGAAATCATACTAAATGTATGGATTTACATATGGAACACTGAG
66 AAAATGATAAGGAAATCATACTGAGTGTATGGATTTACATATGGAACACTGAG
91304 TGTGCTAAAATGATAAGGAAATCATATTGAATATATGGATTTCCAGATAGGGCATTATATGTGCT
1 TGTGCTAAAATGATAAGGAAATCATATTGAATATATGGATTTCCAGATAGGGCATTATATGTGCT
* *
91369 AAAATGGTAAGGGAATCATACTGAGTGTATGGATTT
66 AAAATGATAAGGAAATCATACTGAGTGTATGGATTT
91405 CCAGAAAAAG
Statistics
Matches: 202, Mismatches: 15, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
118 148 0.73
119 52 0.26
120 2 0.01
ACGTcount: A:0.38, C:0.09, G:0.22, T:0.31
Consensus pattern (118 bp):
TGTGCTAAAATGATAAGGAAATCATATTGAATATATGGATTTCCAGATAGGGCATTATATGTGCT
AAAATGATAAGGAAATCATACTGAGTGTATGGATTTACATATGGAACACTGAG
Found at i:91427 original size:59 final size:59
Alignment explanation
Indices: 91067--91621 Score: 453
Period size: 59 Copynumber: 9.4 Consensus size: 59
91057 TGGCATTATA
* * * * *
91067 TGTGCTAAAATGATAAGAAAATCATACTGAATGTATGAATTTCCATATGGAGCACTGAG
1 TGTGCTAAAATGATAAGGAAATCATACTGAATGTATGGATTTCCAGATAGAGCACTAAG
* * * * * *
91126 TGTGCTAAAAATGATAAGTAAATCATACTGAGTGTATGGATTTACATATGGAGCACTGAG
1 TGTGCT-AAAATGATAAGGAAATCATACTGAATGTATGGATTTCCAGATAGAGCACTAAG
* * * *
91186 TGTGCTAAAATGATAAGGAAATCATATTGAATATATGGATTTCCAGATAGGGCATTATA-
1 TGTGCTAAAATGATAAGGAAATCATACTGAATGTATGGATTTCCAGATAGAGCACTA-AG
* * * * * *
91245 TGTGCTAAAATGATAAGGAAATCATACTAAATGTATGGATTTACATATGGAACACTGAG
1 TGTGCTAAAATGATAAGGAAATCATACTGAATGTATGGATTTCCAGATAGAGCACTAAG
* * * *
91304 TGTGCTAAAATGATAAGGAAATCATATTGAATATATGGATTTCCAGATAGGGCATTATA-
1 TGTGCTAAAATGATAAGGAAATCATACTGAATGTATGGATTTCCAGATAGAGCACTA-AG
* * * * *
91363 TGTGCTAAAATGGTAAGGGAATCATACTGAGTGTATGGATTTCCAGAAAAAGCACTAAG
1 TGTGCTAAAATGATAAGGAAATCATACTGAATGTATGGATTTCCAGATAGAGCACTAAG
* * * * * * * * * * *
91422 GGTGCTATAAGGAGAATGAAATTATACTAAAAGTATGGATTTTCATATA-AGGCACTTTAG
1 TGTGCTAAAATGATAAGGAAATCATACTGAATGTATGGATTTCCAGATAGA-GCAC-TAAG
* * * * *
91482 -GTGCTAAAAATGGTAAAGG-AATCATACT-AATGGTATGGGTTCTCGA-ATAGGGCACTACG
1 TGTGCT-AAAATGAT-AAGGAAATCATACTGAAT-GTATGGATT-TCCAGATAGAGCACTAAG
* * * * * *
91541 TTTGCTAAAATAAGAAGGAAATCATA-TTAA-GTATATGATATTCTAGATAGAGCACTAAG
1 TGTGCTAAAATGATAAGGAAATCATACTGAATGTAT-GGAT-TTCCAGATAGAGCACTAAG
* * *
91600 AGTGCTAATATTATAAGGAAAT
1 TGTGCTAAAATGATAAGGAAAT
91622 TGTACGAATT
Statistics
Matches: 393, Mismatches: 85, Indels: 36
0.76 0.17 0.07
Matches are distributed among these distances:
57 4 0.01
58 13 0.03
59 280 0.71
60 91 0.23
61 5 0.01
ACGTcount: A:0.39, C:0.10, G:0.22, T:0.30
Consensus pattern (59 bp):
TGTGCTAAAATGATAAGGAAATCATACTGAATGTATGGATTTCCAGATAGAGCACTAAG
Found at i:91776 original size:45 final size:45
Alignment explanation
Indices: 91712--91812 Score: 159
Period size: 45 Copynumber: 2.2 Consensus size: 45
91702 TAAATTATAA
*
91712 TAAGTATATTGGTAAAATAAGCTTACGAGCTTAGGGATTTAATGG
1 TAAGTATATTGGTAAAATAAGCTTACGAGCTTAGGGATTAAATGG
* *
91757 TAAGTATATTGGTAAAATAAGCTTACTAGCTTATGGATTAAATGG
1 TAAGTATATTGGTAAAATAAGCTTACGAGCTTAGGGATTAAATGG
91802 TATA-TATATTG
1 TA-AGTATATTG
91813 ATAACATGAT
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
45 51 0.98
46 1 0.02
ACGTcount: A:0.37, C:0.06, G:0.21, T:0.37
Consensus pattern (45 bp):
TAAGTATATTGGTAAAATAAGCTTACGAGCTTAGGGATTAAATGG
Found at i:97607 original size:59 final size:59
Alignment explanation
Indices: 97543--98352 Score: 875
Period size: 59 Copynumber: 13.7 Consensus size: 59
97533 TGGCATTATA
* * **
97543 TGTGCTAAAATGATAAGGAAATCATAATGAATGTATGAATTTCCATATGGAAAACTGAG
1 TGTGCTAAAATGATAAGGAAATCATACTGAATGTATGGATTTCCATATGGAGCACTGAG
* * * *
97602 TGTGCTAAAAATGATAAGCAAATCATACTGAGTGTATCGATTTACATATGGAGCACTGAG
1 TGTGCT-AAAATGATAAGGAAATCATACTGAATGTATGGATTTCCATATGGAGCACTGAG
* * * * *
97662 TGTGCTAAAATGATAAGGAAATCATATTGAATATATGGATTTCCAGATAGG-GCA-TTATA
1 TGTGCTAAAATGATAAGGAAATCATACTGAATGTATGGATTTCCATAT-GGAGCACTGA-G
* * *
97721 TGTGCTAAAATGATAAGGAAATCATACTGAATGTATGAATTTCAATATGGAGTACTGAG
1 TGTGCTAAAATGATAAGGAAATCATACTGAATGTATGGATTTCCATATGGAGCACTGAG
* * ** *
97780 TGTGCTAAAATGATAAGTAAATCATACTGAGTGTATGGATTTATATATGGAGCACTAAG
1 TGTGCTAAAATGATAAGGAAATCATACTGAATGTATGGATTTCCATATGGAGCACTGAG
* * * * * *
97839 TGTGCTAAAATGATAAGGAAATCATATTGAATATATGGATTTCTAGATAGG-GCA-TTATA
1 TGTGCTAAAATGATAAGGAAATCATACTGAATGTATGGATTTCCATAT-GGAGCACTGA-G
* * * * *
97898 TGTGCTAAAATGATAAGGAAATCATAATGAATGTGTGAATTTCTATATGGAGCACAGAG
1 TGTGCTAAAATGATAAGGAAATCATACTGAATGTATGGATTTCCATATGGAGCACTGAG
* * ** *
97957 TGTGCTAAAATGATAAGTAAATCATAAC-GAGTGTATAAATTTACATATGGAGCACTGAG
1 TGTGCTAAAATGATAAGGAAATCAT-ACTGAATGTATGGATTTCCATATGGAGCACTGAG
* * * * *
98016 TGTGCTAAAATGATAAGGAAATCATATTGAATATATGGATTTCCAGATAGG-GCA-TTATA
1 TGTGCTAAAATGATAAGGAAATCATACTGAATGTATGGATTTCCATAT-GGAGCACTGA-G
*
98075 TGTGCTAAAATGATAAGGAAATCATACTGAATGTATGAATTTCCATATGGAGCACTGAG
1 TGTGCTAAAATGATAAGGAAATCATACTGAATGTATGGATTTCCATATGGAGCACTGAG
* * *
98134 TGTGCTAAAATGATAAGTAAATCATACTGAGTGTATGGATTTACATATGGAGCACTGAG
1 TGTGCTAAAATGATAAGGAAATCATACTGAATGTATGGATTTCCATATGGAGCACTGAG
* * * * *
98193 TGTGCTAAAATGATAAGGAAATCATATTGAATATATGGATTTCCAGATAGG-GCA-TTATA
1 TGTGCTAAAATGATAAGGAAATCATACTGAATGTATGGATTTCCATAT-GGAGCACTGA-G
* * * * *** *
98252 TGTGCTAAAATGGTAAGGGAATCATACTGAGTGTATGGATTTCCAGAAAAAGCACTAAG
1 TGTGCTAAAATGATAAGGAAATCATACTGAATGTATGGATTTCCATATGGAGCACTGAG
* * * * *
98311 GGTGCTACAAGGATAAGGAAATTATACTAACAT-TATGGATTT
1 TGTGCTAAAATGATAAGGAAATCATACTGA-ATGTATGGATTT
98353 TGATATAAGG
Statistics
Matches: 629, Mismatches: 102, Indels: 40
0.82 0.13 0.05
Matches are distributed among these distances:
58 15 0.02
59 546 0.87
60 68 0.11
ACGTcount: A:0.39, C:0.10, G:0.22, T:0.30
Consensus pattern (59 bp):
TGTGCTAAAATGATAAGGAAATCATACTGAATGTATGGATTTCCATATGGAGCACTGAG
Found at i:98348 original size:118 final size:120
Alignment explanation
Indices: 97534--98454 Score: 798
Period size: 118 Copynumber: 7.8 Consensus size: 120
97524 ATTATCAAAT
* * * * **
97534 GGCA-TTATATGTGCTAAAATGATAAGGAAATCATAATGAATGTATGAATTTCCATATGGAAAAC
1 GGCACTTATATGTGCTAAAATGATAAGGAAATCATACTGAATGTATGGATTTCCAGATAGAGCAC
* * * *
97598 T-GAGTGTGCTAAAAATGATAAGCAAATCATACTGAGTGTATCG-ATTTACATAT-G
66 TATAGTGTGCT-AAAATGATAAGGAAATCATACTGAATGTAT-GAATTTCCATATAG
* * * * *
97652 GAGCACTGA-GTGTGCTAAAATGATAAGGAAATCATATTGAATATATGGATTTCCAGATAGGGCA
1 G-GCACTTATATGTGCTAAAATGATAAGGAAATCATACTGAATGTATGGATTTCCAGATAGAGCA
* *
97716 TTATA-TGTGCTAAAATGATAAGGAAATCATACTGAATGTATGAATTTCAATAT-G
65 CTATAGTGTGCTAAAATGATAAGGAAATCATACTGAATGTATGAATTTCCATATAG
* * * * * ** * *
97770 GAGTACTGA-GTGTGCTAAAATGATAAGTAAATCATACTGAGTGTATGGATTTATATATGGAGCA
1 G-GCACTTATATGTGCTAAAATGATAAGGAAATCATACTGAATGTATGGATTTCCAGATAGAGCA
* * * * *
97834 CTA-AGTGTGCTAAAATGATAAGGAAATCATATTGAATATATGGATTTCTAGATAG
65 CTATAGTGTGCTAAAATGATAAGGAAATCATACTGAATGTATGAATTTCCATATAG
* * * * * *
97889 GGCA-TTATATGTGCTAAAATGATAAGGAAATCATAATGAATGTGTGAATTTCTATATGGAGCAC
1 GGCACTTATATGTGCTAAAATGATAAGGAAATCATACTGAATGTATGGATTTCCAGATAGAGCAC
* * * * *
97953 -AGAGTGTGCTAAAATGATAAGTAAATCATAAC-GAGTGTATAAATTTACATAT-G
66 TATAGTGTGCTAAAATGATAAGGAAATCAT-ACTGAATGTATGAATTTCCATATAG
* * * * *
98006 GAGCACTGA-GTGTGCTAAAATGATAAGGAAATCATATTGAATATATGGATTTCCAGATAGGGCA
1 G-GCACTTATATGTGCTAAAATGATAAGGAAATCATACTGAATGTATGGATTTCCAGATAGAGCA
*
98070 TTATA-TGTGCTAAAATGATAAGGAAATCATACTGAATGTATGAATTTCCATAT-G
65 CTATAGTGTGCTAAAATGATAAGGAAATCATACTGAATGTATGAATTTCCATATAG
* * * * * * *
98124 GAGCACTGA-GTGTGCTAAAATGATAAGTAAATCATACTGAGTGTATGGATTTACATATGGAGCA
1 G-GCACTTATATGTGCTAAAATGATAAGGAAATCATACTGAATGTATGGATTTCCAGATAGAGCA
* * * * *
98188 CT-GAGTGTGCTAAAATGATAAGGAAATCATATTGAATATATGGATTTCCAGATAG
65 CTATAGTGTGCTAAAATGATAAGGAAATCATACTGAATGTATGAATTTCCATATAG
* * * * *
98243 GGCA-TTATATGTGCTAAAATGGTAAGGGAATCATACTGAGTGTATGGATTTCCAGAAAAAGCAC
1 GGCACTTATATGTGCTAAAATGATAAGGAAATCATACTGAATGTATGGATTTCCAGATAGAGCAC
* * * * * * ** *
98307 TA-AGGGTGCTACAAGGATAAGGAAATTATACTAACAT-TATGGATTTTGATATAA
66 TATAGTGTGCTAAAATGATAAGGAAATCATACTGA-ATGTATGAATTTCCATATAG
* * * *
98361 GGCACTT-CAGGTGCTAAAAATGGTAAAGG-AATCATACT-AATGGTAT-GATTATCGA-ATAGA
1 GGCACTTATATGTGCT-AAAATGAT-AAGGAAATCATACTGAAT-GTATGGATT-TCCAGATAGA
* * * * *
98421 GCA-TTTCGTGCGCTAAAATAAGAAGGAAATCATA
62 GCACTATAGTGTGCTAAAATGATAAGGAAATCATA
98455 TTAAGTATAT
Statistics
Matches: 664, Mismatches: 115, Indels: 48
0.80 0.14 0.06
Matches are distributed among these distances:
117 13 0.02
118 551 0.83
119 93 0.14
120 7 0.01
ACGTcount: A:0.39, C:0.10, G:0.22, T:0.30
Consensus pattern (120 bp):
GGCACTTATATGTGCTAAAATGATAAGGAAATCATACTGAATGTATGGATTTCCAGATAGAGCAC
TATAGTGTGCTAAAATGATAAGGAAATCATACTGAATGTATGAATTTCCATATAG
Found at i:98352 original size:177 final size:177
Alignment explanation
Indices: 97534--98296 Score: 1321
Period size: 177 Copynumber: 4.3 Consensus size: 177
97524 ATTATCAAAT
* **
97534 GGCATTATATGTGCTAAAATGATAAGGAAATCATAATGAATGTATGAATTTCCATATGGAAAACT
1 GGCATTATATGTGCTAAAATGATAAGGAAATCATACTGAATGTATGAATTTCCATATGGAGCACT
* *
97599 GAGTGTGCTAAAAATGATAAGCAAATCATACTGAGTGTATCGATTTACATATGGAGCACTGAGTG
66 GAGTGTGCT-AAAATGATAAGTAAATCATACTGAGTGTATGGATTTACATATGGAGCACTGAGTG
97664 TGCTAAAATGATAAGGAAATCATATTGAATATATGGATTTCCAGATAG
130 TGCTAAAATGATAAGGAAATCATATTGAATATATGGATTTCCAGATAG
* *
97712 GGCATTATATGTGCTAAAATGATAAGGAAATCATACTGAATGTATGAATTTCAATATGGAGTACT
1 GGCATTATATGTGCTAAAATGATAAGGAAATCATACTGAATGTATGAATTTCCATATGGAGCACT
* *
97777 GAGTGTGCTAAAATGATAAGTAAATCATACTGAGTGTATGGATTTATATATGGAGCACTAAGTGT
66 GAGTGTGCTAAAATGATAAGTAAATCATACTGAGTGTATGGATTTACATATGGAGCACTGAGTGT
*
97842 GCTAAAATGATAAGGAAATCATATTGAATATATGGATTTCTAGATAG
131 GCTAAAATGATAAGGAAATCATATTGAATATATGGATTTCCAGATAG
* * * *
97889 GGCATTATATGTGCTAAAATGATAAGGAAATCATAATGAATGTGTGAATTTCTATATGGAGCACA
1 GGCATTATATGTGCTAAAATGATAAGGAAATCATACTGAATGTATGAATTTCCATATGGAGCACT
**
97954 GAGTGTGCTAAAATGATAAGTAAATCATAAC-GAGTGTATAAATTTACATATGGAGCACTGAGTG
66 GAGTGTGCTAAAATGATAAGTAAATCAT-ACTGAGTGTATGGATTTACATATGGAGCACTGAGTG
98018 TGCTAAAATGATAAGGAAATCATATTGAATATATGGATTTCCAGATAG
130 TGCTAAAATGATAAGGAAATCATATTGAATATATGGATTTCCAGATAG
98066 GGCATTATATGTGCTAAAATGATAAGGAAATCATACTGAATGTATGAATTTCCATATGGAGCACT
1 GGCATTATATGTGCTAAAATGATAAGGAAATCATACTGAATGTATGAATTTCCATATGGAGCACT
98131 GAGTGTGCTAAAATGATAAGTAAATCATACTGAGTGTATGGATTTACATATGGAGCACTGAGTGT
66 GAGTGTGCTAAAATGATAAGTAAATCATACTGAGTGTATGGATTTACATATGGAGCACTGAGTGT
98196 GCTAAAATGATAAGGAAATCATATTGAATATATGGATTTCCAGATAG
131 GCTAAAATGATAAGGAAATCATATTGAATATATGGATTTCCAGATAG
* * * *
98243 GGCATTATATGTGCTAAAATGGTAAGGGAATCATACTGAGTGTATGGATTTCCA
1 GGCATTATATGTGCTAAAATGATAAGGAAATCATACTGAATGTATGAATTTCCA
98297 GAAAAAGCAC
Statistics
Matches: 554, Mismatches: 29, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
176 2 0.00
177 480 0.87
178 72 0.13
ACGTcount: A:0.38, C:0.09, G:0.22, T:0.31
Consensus pattern (177 bp):
GGCATTATATGTGCTAAAATGATAAGGAAATCATACTGAATGTATGAATTTCCATATGGAGCACT
GAGTGTGCTAAAATGATAAGTAAATCATACTGAGTGTATGGATTTACATATGGAGCACTGAGTGT
GCTAAAATGATAAGGAAATCATATTGAATATATGGATTTCCAGATAG
Found at i:98664 original size:45 final size:45
Alignment explanation
Indices: 98600--98700 Score: 150
Period size: 45 Copynumber: 2.2 Consensus size: 45
98590 TAAATTATAA
*
98600 TAAGTATATTGGTAAAATAAGCTTACGAGCTTAGGGATTTAAAGG
1 TAAGTATATTGGTAAAATAAGCTTACGAGCTTAGGGATTGAAAGG
* * *
98645 TAAGTATATTGGTAAAATAAGCTTACTAGCTTATGGATTGAATGG
1 TAAGTATATTGGTAAAATAAGCTTACGAGCTTAGGGATTGAAAGG
98690 TATA-TATATTG
1 TA-AGTATATTG
98701 ATAACATGAT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
45 50 0.98
46 1 0.02
ACGTcount: A:0.37, C:0.06, G:0.22, T:0.36
Consensus pattern (45 bp):
TAAGTATATTGGTAAAATAAGCTTACGAGCTTAGGGATTGAAAGG
Found at i:102872 original size:21 final size:21
Alignment explanation
Indices: 102840--102910 Score: 81
Period size: 21 Copynumber: 3.2 Consensus size: 21
102830 AGAACCCGTG
*
102840 GGGGGTATCGATTCCC-TCAA
1 GGGGGAATCGATTCCCTTCAA
*
102860 GGAGGGAATCGATTCCCATTTAAA
1 GG-GGGAATCGATTCCC--TTCAA
102884 GGGGGAATCGATTCCCCTTCAA
1 GGGGGAATCGATT-CCCTTCAA
102906 GGGGG
1 GGGGG
102911 GTATTGATTC
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
20 2 0.05
21 13 0.30
22 9 0.21
23 11 0.26
24 8 0.19
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.23
Consensus pattern (21 bp):
GGGGGAATCGATTCCCTTCAA
Found at i:102893 original size:23 final size:23
Alignment explanation
Indices: 102840--102922 Score: 82
Period size: 23 Copynumber: 3.7 Consensus size: 23
102830 AGAACCCGTG
*
102840 GGGGGTATCGATTCCC--TC-AA
1 GGGGGAATCGATTCCCATTCAAA
*
102860 GGAGGGAATCGATTCCCATTTAAA
1 GG-GGGAATCGATTCCCATTCAAA
* *
102884 GGGGGAATCGATTCCCCTTCAAG
1 GGGGGAATCGATTCCCATTCAAA
* *
102907 GGGGGTATTGATTCCC
1 GGGGGAATCGATTCCC
102923 TCTGCACTAA
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
20 2 0.04
21 13 0.25
23 33 0.63
24 4 0.08
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.25
Consensus pattern (23 bp):
GGGGGAATCGATTCCCATTCAAA
Found at i:107432 original size:19 final size:19
Alignment explanation
Indices: 107394--107446 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
107384 CTCTAAATCA
107394 ATTTTCAAAATTTC-ATTTTG
1 ATTTTCAAAA--TCAATTTTG
107414 ATTTTCAAAATCAATTTTG
1 ATTTTCAAAATCAATTTTG
** *
107433 GCTTTAAAAATCAA
1 ATTTTCAAAATCAA
107447 ATCATTTTCA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
18 2 0.07
19 17 0.59
20 10 0.34
ACGTcount: A:0.38, C:0.11, G:0.06, T:0.45
Consensus pattern (19 bp):
ATTTTCAAAATCAATTTTG
Found at i:108877 original size:22 final size:23
Alignment explanation
Indices: 108847--108910 Score: 73
Period size: 22 Copynumber: 2.9 Consensus size: 23
108837 ATGGATGTAT
*
108847 TGCATGGTGCATTGATGCACTAG
1 TGCATGGTGCATGGATGCACTAG
108870 TGCA-GGTGCATGGATGCAC---
1 TGCATGGTGCATGGATGCACTAG
*
108889 TGCAGGGATGCATGGATGCACT
1 TGCATGG-TGCATGGATGCACT
108911 GCAGGGGTGC
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
19 4 0.11
20 2 0.05
21 13 0.35
22 14 0.38
23 4 0.11
ACGTcount: A:0.22, C:0.19, G:0.34, T:0.25
Consensus pattern (23 bp):
TGCATGGTGCATGGATGCACTAG
Found at i:108902 original size:21 final size:21
Alignment explanation
Indices: 108876--108931 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
108866 CTAGTGCAGG
108876 TGCATGGATGCACTGCAGGGA
1 TGCATGGATGCACTGCAGGGA
*
108897 TGCATGGATGCACTGCAGGGG
1 TGCATGGATGCACTGCAGGGA
*
108918 TGCTTGGATGCACT
1 TGCATGGATGCACT
108932 TTGACACCCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.20, C:0.20, G:0.38, T:0.23
Consensus pattern (21 bp):
TGCATGGATGCACTGCAGGGA
Found at i:109032 original size:29 final size:29
Alignment explanation
Indices: 109011--109068 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 29
109001 AAACTTTGAA
109011 TAAATTCAATT-AAGTCCAAAAACATTTTG
1 TAAATTCAATTCAAGTCCAAAAACA-TTTG
109040 TAAATTCAATTCAAGTCCAAAAACCATTT
1 TAAATTCAATTCAAGTCCAAAAA-CATTT
109069 TGCCTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 11 0.41
30 14 0.52
31 2 0.07
ACGTcount: A:0.45, C:0.17, G:0.05, T:0.33
Consensus pattern (29 bp):
TAAATTCAATTCAAGTCCAAAAACATTTG
Found at i:109058 original size:30 final size:30
Alignment explanation
Indices: 109011--109070 Score: 104
Period size: 29 Copynumber: 2.0 Consensus size: 30
109001 AAACTTTGAA
109011 TAAATTCAATTAAGTCCAAAAA-CATTTTG
1 TAAATTCAATTAAGTCCAAAAACCATTTTG
109040 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATT-AAGTCCAAAAACCATTTTG
109071 CCTTAAATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 11 0.38
31 7 0.24
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (30 bp):
TAAATTCAATTAAGTCCAAAAACCATTTTG
Found at i:110665 original size:21 final size:20
Alignment explanation
Indices: 110641--110679 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
110631 ATATGCTAAA
110641 CTATCA-AAGTGTGAGTTTTGG
1 CTATCAGAAGT-TGA-TTTTGG
110662 CTATCAGAAGTTGATTTT
1 CTATCAGAAGTTGATTTT
110680 CTTAGTCATG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 4 0.24
21 9 0.53
22 4 0.24
ACGTcount: A:0.26, C:0.10, G:0.23, T:0.41
Consensus pattern (20 bp):
CTATCAGAAGTTGATTTTGG
Found at i:113610 original size:59 final size:59
Alignment explanation
Indices: 113544--114455 Score: 938
Period size: 59 Copynumber: 15.4 Consensus size: 59
113534 TGGCATTATA
* * *
113544 TGTGCTAAAATGATAAGGAAATCATACTAAACGTATGAATTTCCATATGGAGCACTGAG
1 TGTGCTAAAATGATAAGGAAATCATACTGAATGTATGGATTTCCATATGGAGCACTGAG
* * * * *
113603 TGTGCTAAAAATGATAAGTAAATCATACTGAGTGCATGGATTTACATATAGAGCACTGAG
1 TGTGCT-AAAATGATAAGGAAATCATACTGAATGTATGGATTTCCATATGGAGCACTGAG
* * * *
113663 TGTGCTAAAATGATAAGGAAATCATATTGAATATATGGATTTCCATATAGGA-CA-TTATA
1 TGTGCTAAAATGATAAGGAAATCATACTGAATGTATGGATTTCCATAT-GGAGCACTGA-G
* *
113722 TGTGCTAAAATGATAAGGAAATCATACTGATTGTATGAATTTCCATATGGAGCACTGAG
1 TGTGCTAAAATGATAAGGAAATCATACTGAATGTATGGATTTCCATATGGAGCACTGAG
* * *
113781 TGTGCTAAAATGATAAGAAAATCATACTGAGTGTATGGATTTACATATGGAGCACTGAG
1 TGTGCTAAAATGATAAGGAAATCATACTGAATGTATGGATTTCCATATGGAGCACTGAG
* * * *
113840 TGTGCTAAAATGATAAGGAAATCATATTGAATATATGGATTTCCAGATAGG-GCA-TTA-
1 TGTGCTAAAATGATAAGGAAATCATACTGAATGTATGGATTTCCATAT-GGAGCACTGAG
* * *
113897 TACGTGCTAAAATGATAAGGAAATCATATTGAATGTATGAATTTCCATATAGAGCACTGAG
1 T--GTGCTAAAATGATAAGGAAATCATACTGAATGTATGGATTTCCATATGGAGCACTGAG
* * * * *
113958 TGTGCTAAAATGTTAAGTAAATCATACTGAGTGTATGGATTTACATATGGAGCACTGAC
1 TGTGCTAAAATGATAAGGAAATCATACTGAATGTATGGATTTCCATATGGAGCACTGAG
* * * * *
114017 TGTGCTAAAATGATAAGGAAATCATATTGAATATATGGATTTCCAGATAGG-GCA-TTATA
1 TGTGCTAAAATGATAAGGAAATCATACTGAATGTATGGATTTCCATAT-GGAGCACTGA-G
* *
114076 TGTGCTAAAATGATAAGGAAATCATAATGAATGTATGAATTTCCATATGGAGCACTGAG
1 TGTGCTAAAATGATAAGGAAATCATACTGAATGTATGGATTTCCATATGGAGCACTGAG
* * * *
114135 TGTGCTAAAATGTTAAGTAAATCATACTGAGTGTATGGATTTACATATGGAGCACTGAG
1 TGTGCTAAAATGATAAGGAAATCATACTGAATGTATGGATTTCCATATGGAGCACTGAG
* * * * * * *
114194 TGTGCTAAAATGATAAGGAAAACATATTGAATATATGGATTTTCAGATAGG-GCA-TTATA
1 TGTGCTAAAATGATAAGGAAATCATACTGAATGTATGGATTTCCATAT-GGAGCACTGA-G
* * * * *** *
114253 TGTGCTAAAATGGTAAGGGAATCATACTGAGTGTATGGATTTCCAGAAAAAGCACTAAG
1 TGTGCTAAAATGATAAGGAAATCATACTGAATGTATGGATTTCCATATGGAGCACTGAG
* * * * * * *
114312 GGTGCTACAAGGATAAGGAAATTATACT-AATAGTATGGATTTTCATAT-AAGGCACTTCAG
1 TGTGCTAAAATGATAAGGAAATCATACTGAAT-GTATGGATTTCCATATGGA-GCAC-TGAG
* * * **
114372 -GTGCTAAAAATGGTAAAGG-AATCATACT-AATGGTAT-GATTCTCGA-ATAGAGCACTTCG
1 TGTGCT-AAAATGAT-AAGGAAATCATACTGAAT-GTATGGATT-TCCATATGGAGCACTGAG
* *
114430 TGTGCTAAAATAAGAAGGAAATCATA
1 TGTGCTAAAATGATAAGGAAATCATA
114456 TTAAGTATAT
Statistics
Matches: 711, Mismatches: 114, Indels: 57
0.81 0.13 0.06
Matches are distributed among these distances:
57 5 0.01
58 32 0.05
59 576 0.81
60 93 0.13
61 5 0.01
ACGTcount: A:0.38, C:0.11, G:0.21, T:0.30
Consensus pattern (59 bp):
TGTGCTAAAATGATAAGGAAATCATACTGAATGTATGGATTTCCATATGGAGCACTGAG
Found at i:114380 original size:177 final size:177
Alignment explanation
Indices: 113535--114359 Score: 1328
Period size: 177 Copynumber: 4.7 Consensus size: 177
113525 ATTACCAAAT
* *
113535 GGCATTATATGTGCTAAAATGATAAGGAAATCATACTAAACGTATGAATTTCCATATGGAGCACT
1 GGCATTATATGTGCTAAAATGATAAGGAAATCATACTGAATGTATGAATTTCCATATGGAGCACT
* *
113600 GAGTGTGCTAAAAATGATAAGTAAATCATACTGAGTGCATGGATTTACATATAGAGCACTGAGTG
66 GAGTGTGCT-AAAATGATAAGTAAATCATACTGAGTGTATGGATTTACATATGGAGCACTGAGTG
*
113665 TGCTAAAATGATAAGGAAATCATATTGAATATATGGATTTCCATATAG
130 TGCTAAAATGATAAGGAAATCATATTGAATATATGGATTTCCAGATAG
* *
113713 GACATTATATGTGCTAAAATGATAAGGAAATCATACTGATTGTATGAATTTCCATATGGAGCACT
1 GGCATTATATGTGCTAAAATGATAAGGAAATCATACTGAATGTATGAATTTCCATATGGAGCACT
*
113778 GAGTGTGCTAAAATGATAAGAAAATCATACTGAGTGTATGGATTTACATATGGAGCACTGAGTGT
66 GAGTGTGCTAAAATGATAAGTAAATCATACTGAGTGTATGGATTTACATATGGAGCACTGAGTGT
113843 GCTAAAATGATAAGGAAATCATATTGAATATATGGATTTCCAGATAG
131 GCTAAAATGATAAGGAAATCATATTGAATATATGGATTTCCAGATAG
* * *
113890 GGCATTATACGTGCTAAAATGATAAGGAAATCATATTGAATGTATGAATTTCCATATAGAGCACT
1 GGCATTATATGTGCTAAAATGATAAGGAAATCATACTGAATGTATGAATTTCCATATGGAGCACT
* *
113955 GAGTGTGCTAAAATGTTAAGTAAATCATACTGAGTGTATGGATTTACATATGGAGCACTGACTGT
66 GAGTGTGCTAAAATGATAAGTAAATCATACTGAGTGTATGGATTTACATATGGAGCACTGAGTGT
114020 GCTAAAATGATAAGGAAATCATATTGAATATATGGATTTCCAGATAG
131 GCTAAAATGATAAGGAAATCATATTGAATATATGGATTTCCAGATAG
*
114067 GGCATTATATGTGCTAAAATGATAAGGAAATCATAATGAATGTATGAATTTCCATATGGAGCACT
1 GGCATTATATGTGCTAAAATGATAAGGAAATCATACTGAATGTATGAATTTCCATATGGAGCACT
*
114132 GAGTGTGCTAAAATGTTAAGTAAATCATACTGAGTGTATGGATTTACATATGGAGCACTGAGTGT
66 GAGTGTGCTAAAATGATAAGTAAATCATACTGAGTGTATGGATTTACATATGGAGCACTGAGTGT
* *
114197 GCTAAAATGATAAGGAAAACATATTGAATATATGGATTTTCAGATAG
131 GCTAAAATGATAAGGAAATCATATTGAATATATGGATTTCCAGATAG
* * * * * ***
114244 GGCATTATATGTGCTAAAATGGTAAGGGAATCATACTGAGTGTATGGATTTCCAGAAAAAGCACT
1 GGCATTATATGTGCTAAAATGATAAGGAAATCATACTGAATGTATGAATTTCCATATGGAGCACT
* * * * * * * *
114309 AAGGGTGCTACAAGGATAAGGAAATTATACT-AATAGTATGGATTTTCATAT
66 GAGTGTGCTAAAATGATAAGTAAATCATACTGAGT-GTATGGATTTACATAT
114360 AAGGCACTTC
Statistics
Matches: 606, Mismatches: 40, Indels: 3
0.93 0.06 0.00
Matches are distributed among these distances:
176 2 0.00
177 534 0.88
178 70 0.12
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.30
Consensus pattern (177 bp):
GGCATTATATGTGCTAAAATGATAAGGAAATCATACTGAATGTATGAATTTCCATATGGAGCACT
GAGTGTGCTAAAATGATAAGTAAATCATACTGAGTGTATGGATTTACATATGGAGCACTGAGTGT
GCTAAAATGATAAGGAAATCATATTGAATATATGGATTTCCAGATAG
Found at i:114665 original size:45 final size:45
Alignment explanation
Indices: 114601--114713 Score: 176
Period size: 45 Copynumber: 2.5 Consensus size: 45
114591 TAAATTATAA
114601 TAAGTATATTGGTAAAATAAGCTTACGAGCTTAGGGATTTAAA-GG
1 TAAGTATATTGGTAAAATAAGCTTACGAGCTTAGGGA-TTAAATGG
* *
114646 TAAGTATATTGGTAAAATAAGCTTACTAGCTTATGGATTAAATGG
1 TAAGTATATTGGTAAAATAAGCTTACGAGCTTAGGGATTAAATGG
114691 TATA-TATATTGGTAAAATAAGCT
1 TA-AGTATATTGGTAAAATAAGCT
114714 CACCAGGGCA
Statistics
Matches: 64, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
44 5 0.08
45 58 0.91
46 1 0.02
ACGTcount: A:0.39, C:0.06, G:0.20, T:0.35
Consensus pattern (45 bp):
TAAGTATATTGGTAAAATAAGCTTACGAGCTTAGGGATTAAATGG
Found at i:123908 original size:28 final size:28
Alignment explanation
Indices: 123877--123942 Score: 96
Period size: 28 Copynumber: 2.4 Consensus size: 28
123867 ACCCATTTAA
* * *
123877 AACATGTCATCTTGTACTTAACCTTTGT
1 AACATGTCATCTTATACTCAACATTTGT
123905 AACATGTCATCTTATACTCAACATTTGT
1 AACATGTCATCTTATACTCAACATTTGT
*
123933 AACATATCAT
1 AACATGTCAT
123943 ATAATACATT
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:0.32, C:0.21, G:0.08, T:0.39
Consensus pattern (28 bp):
AACATGTCATCTTATACTCAACATTTGT
Found at i:123949 original size:28 final size:28
Alignment explanation
Indices: 123891--123949 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
123881 TGTCATCTTG
* * * * *
123891 TACTTAACCTTTGTAACATGTCATCTTA
1 TACTCAACATTTGTAACATATCATATAA
123919 TACTCAACATTTGTAACATATCATATAA
1 TACTCAACATTTGTAACATATCATATAA
123947 TAC
1 TAC
123950 ATTTCACCAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.36, C:0.20, G:0.05, T:0.39
Consensus pattern (28 bp):
TACTCAACATTTGTAACATATCATATAA
Found at i:124239 original size:17 final size:17
Alignment explanation
Indices: 124217--124254 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
124207 TTGATACATG
124217 AATGTACCAAAGATGAT
1 AATGTACCAAAGATGAT
124234 AATGTACCAAAGATGAT
1 AATGTACCAAAGATGAT
124251 AATG
1 AATG
124255 GTATGCCAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.47, C:0.11, G:0.18, T:0.24
Consensus pattern (17 bp):
AATGTACCAAAGATGAT
Found at i:124418 original size:33 final size:33
Alignment explanation
Indices: 124376--124440 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
124366 GTAGCTTATG
*
124376 TAACATTCTTGTATGATCTCATAGATCCTTGTA
1 TAACATTCTTGTATGATCTCATAAATCCTTGTA
124409 TAACATTCTTGTATGATCTCATAAATCCTTGT
1 TAACATTCTTGTATGATCTCATAAATCCTTGT
124441 CATATAACCC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.28, C:0.18, G:0.11, T:0.43
Consensus pattern (33 bp):
TAACATTCTTGTATGATCTCATAAATCCTTGTA
Found at i:130364 original size:15 final size:16
Alignment explanation
Indices: 130344--130374 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
130334 TTTTTAAAAA
130344 AAAAATATTTT-TTTT
1 AAAAATATTTTATTTT
130359 AAAAATATTTTATTTT
1 AAAAATATTTTATTTT
130375 TTTAAAGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
AAAAATATTTTATTTT
Found at i:131322 original size:21 final size:23
Alignment explanation
Indices: 131296--131345 Score: 70
Period size: 21 Copynumber: 2.3 Consensus size: 23
131286 TAATTATTAA
131296 AATATTTAAAAT-ATATT-TATT
1 AATATTTAAAATAATATTATATT
*
131317 AATATTTATAATAATATTATATT
1 AATATTTAAAATAATATTATATT
131340 -ATATTT
1 AATATTT
131346 TTAATATTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 11 0.42
22 11 0.42
23 4 0.15
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
AATATTTAAAATAATATTATATT
Found at i:131323 original size:10 final size:10
Alignment explanation
Indices: 131308--131353 Score: 51
Period size: 10 Copynumber: 4.5 Consensus size: 10
131298 TATTTAAAAT
131308 ATATTTATTA
1 ATATTTATTA
131318 ATATTTATAATA
1 ATATTTAT--TA
131330 ATATTATATT-
1 ATATT-TATTA
131340 ATATTT-TTA
1 ATATTTATTA
131349 ATATT
1 ATATT
131354 ATAATAAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
8 2 0.06
9 6 0.19
10 13 0.41
11 1 0.03
12 7 0.22
13 3 0.09
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
ATATTTATTA
Found at i:131339 original size:53 final size:53
Alignment explanation
Indices: 131281--131391 Score: 120
Period size: 53 Copynumber: 2.1 Consensus size: 53
131271 TTTTCATCAA
* **
131281 AATATTA-ATTATTAA-AATAT-TTAAAATATATTTATTAATATTTATAATAATAT
1 AATATTATATTATTAATAATATAATAAAATA-ATCAATT-ATA-TTATAATAATAT
* * *
131334 TATATTATATTTTTAATATTATAATAAAATAATCAATTATATTATAATAATAT
1 AATATTATATTATTAATAATATAATAAAATAATCAATTATATTATAATAATAT
131387 AATAT
1 AATAT
131392 ATTATATTTT
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
53 22 0.46
54 10 0.21
55 9 0.19
56 7 0.15
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (53 bp):
AATATTATATTATTAATAATATAATAAAATAATCAATTATATTATAATAATAT
Found at i:131341 original size:26 final size:25
Alignment explanation
Indices: 131279--131341 Score: 71
Period size: 23 Copynumber: 2.6 Consensus size: 25
131269 CATTTTCATC
131279 AAAATATTA-ATTATTAAAATATTT
1 AAAATATTATATTATTAAAATATTT
*
131303 AAAATA-TAT-TTATTAATAT-TTAT
1 AAAATATTATATTATTAAAATATT-T
131326 AATAATATTATATTAT
1 AA-AATATTATATTAT
131342 ATTTTTAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
22 2 0.06
23 14 0.42
24 10 0.30
25 3 0.09
26 4 0.12
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
AAAATATTATATTATTAAAATATTT
Found at i:131379 original size:23 final size:23
Alignment explanation
Indices: 131349--131399 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
131339 TATATTTTTA
131349 ATATTATAATAAAATAATCA-ATT
1 ATATTATAATAAAATAAT-ATATT
*
131372 ATATTATAATAATATAATATATT
1 ATATTATAATAAAATAATATATT
131395 ATATT
1 ATATT
131400 TTTATTTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 1 0.04
23 25 0.96
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (23 bp):
ATATTATAATAAAATAATATATT
Found at i:131424 original size:32 final size:32
Alignment explanation
Indices: 131383--131471 Score: 93
Period size: 32 Copynumber: 2.9 Consensus size: 32
131373 TATTATAATA
131383 ATATAATATATTATATTTT-TAT-TTTAATAAAT
1 ATATAATATATT-T-TTTTATATATTTAATAAAT
131415 ATATAATATATTTTTTTATATATTTAAT-AAT
1 ATATAATATATTTTTTTATATATTTAATAAAT
*
131446 GA-AT-A-ATA-TTATTTATATATTTAATA
1 -ATATAATATATTTTTTTATATATTTAATA
131472 TTAATATAAT
Statistics
Matches: 52, Mismatches: 1, Indels: 11
0.81 0.02 0.17
Matches are distributed among these distances:
28 16 0.31
29 3 0.06
30 5 0.10
31 9 0.17
32 19 0.37
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (32 bp):
ATATAATATATTTTTTTATATATTTAATAAAT
Found at i:131443 original size:28 final size:29
Alignment explanation
Indices: 131323--131479 Score: 103
Period size: 28 Copynumber: 5.3 Consensus size: 29
131313 TATTAATATT
*
131323 TATAATA-ATATTATATTATATTTTTAATA
1 TATAATATATATTAT-TTATATATTTAATA
* * * *
131352 TTATAATAAAATAATCAATTATAT-TATAATAA
1 -TATAAT-ATAT-ATTATTTATATATTTAAT-A
*
131384 TATAATATAT-TATATTTTTAT-TTTAATA
1 TATAATATATAT-TATTTATATATTTAATA
* *
131412 AATATATAATATATTTTTTTATATATTTAATA
1 TATA-AT-ATATA-TTATTTATATATTTAATA
131444 -ATGAATA-ATATTATTTATATATTTAATA
1 TAT-AATATATATTATTTATATATTTAATA
131472 T-TAATATA
1 TATAATATA
131480 ATAATCTAAT
Statistics
Matches: 102, Mismatches: 12, Indels: 28
0.72 0.08 0.20
Matches are distributed among these distances:
27 4 0.04
28 24 0.24
29 16 0.16
30 14 0.14
31 23 0.23
32 18 0.18
33 3 0.03
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (29 bp):
TATAATATATATTATTTATATATTTAATA
Found at i:131454 original size:19 final size:19
Alignment explanation
Indices: 131432--131502 Score: 65
Period size: 19 Copynumber: 3.7 Consensus size: 19
131422 ATATTTTTTT
*
131432 ATATATTTAATAATGAATA
1 ATATATTTAATAATTAATA
*
131451 ATATTATTTATATATTTAATA
1 ATA-TATTTA-ATAATTAATA
* *
131472 TTA-ATATAATAATCTAATA
1 ATATATTTAATAAT-TAATA
131491 ATAT-TTTAATAA
1 ATATATTTAATAA
131503 AGATATTTAA
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
18 4 0.10
19 21 0.51
20 6 0.15
21 10 0.24
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (19 bp):
ATATATTTAATAATTAATA
Found at i:131484 original size:32 final size:30
Alignment explanation
Indices: 131315--131482 Score: 91
Period size: 32 Copynumber: 5.5 Consensus size: 30
131305 AATATATTTA
* *
131315 TTAATAT-TTATAATAATATTATATTATATTT
1 TTAATATAATATAAT-ATATTAT-TTATATAT
* * * *
131346 TTAATATTATAATAAAATAATCAATTATAT-T
1 TTAATATAAT-ATAATAT-ATTATTTATATAT
* *
131377 AT-A-ATAATATAATATATTATATT-TTTATT
1 TTAATATAATATAATATATTAT-TTATATA-T
* *
131406 TTAATAAATATATAATATATTTTTTTATATAT
1 TTAATATA-ATATAATATA-TTATTTATATAT
*
131438 TT-A-ATAAT-GAATAATATTATTTATATAT
1 TTAATATAATATAAT-ATATTATTTATATAT
131466 TTAATATTAATATAATA
1 TTAATA-TAATATAATA
131483 ATCTAATAAT
Statistics
Matches: 103, Mismatches: 18, Indels: 32
0.67 0.12 0.21
Matches are distributed among these distances:
27 5 0.05
28 24 0.23
29 12 0.12
30 5 0.05
31 17 0.17
32 27 0.26
33 13 0.13
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (30 bp):
TTAATATAATATAATATATTATTTATATAT
Found at i:131523 original size:23 final size:23
Alignment explanation
Indices: 131497--131541 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
131487 AATAATATTT
131497 TAATAAAGATATTTAAAATATAC
1 TAATAAAGATATTTAAAATATAC
* * *
131520 TAATTAATATTTTTAAAATATA
1 TAATAAAGATATTTAAAATATA
131542 ATATAACACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
TAATAAAGATATTTAAAATATAC
Found at i:132419 original size:60 final size:59
Alignment explanation
Indices: 132341--132452 Score: 147
Period size: 59 Copynumber: 1.9 Consensus size: 59
132331 ATAGTTCCTC
* * *
132341 GATTATAGTGTGATGCTTTGTTGAGT-ATCTCGACTATTGAAAGTTACAAAATGGTCTCTT
1 GATTATAGGGTGATGCTTTATTGAGTCA--TCGACTATTAAAAGTTACAAAATGGTCTCTT
*
132401 GATTATAGGGT-ATTGCTTTATTGAGTCATCGATTATTAAAAGTTACAAAATG
1 GATTATAGGGTGA-TGCTTTATTGAGTCATCGACTATTAAAAGTTACAAAATG
132453 ATCATCTGAC
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
59 23 0.50
60 22 0.48
61 1 0.02
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (59 bp):
GATTATAGGGTGATGCTTTATTGAGTCATCGACTATTAAAAGTTACAAAATGGTCTCTT
Found at i:135131 original size:59 final size:60
Alignment explanation
Indices: 135032--135155 Score: 142
Period size: 59 Copynumber: 2.1 Consensus size: 60
135022 TGATTTTGTA
* * *** *
135032 ACTTTTAATAGTCAGTGGACTCAATAAAGCAATGTTCTATAATCAATGGATCATTT-CAT
1 ACTTTTAATAGTCAATGAACTCAATAAAGCAATACCCTATAATCAAGGGATCATTTGCAT
* * * * *
135091 ACTTTTAATAGTCAATGAACTCAATAAATCACTACCCTATATTCAGGGGATCATTTGTAT
1 ACTTTTAATAGTCAATGAACTCAATAAAGCAATACCCTATAATCAAGGGATCATTTGCAT
135151 ACTTT
1 ACTTT
135156 ACCCTAAATA
Statistics
Matches: 53, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
59 46 0.87
60 7 0.13
ACGTcount: A:0.35, C:0.17, G:0.12, T:0.36
Consensus pattern (60 bp):
ACTTTTAATAGTCAATGAACTCAATAAAGCAATACCCTATAATCAAGGGATCATTTGCAT
Found at i:135441 original size:20 final size:20
Alignment explanation
Indices: 135416--135456 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
135406 AAATACTGAC
135416 ATTGTTCTTACAGTATCGAT
1 ATTGTTCTTACAGTATCGAT
**
135436 ATTGTTCTTGTAGTATCGAT
1 ATTGTTCTTACAGTATCGAT
135456 A
1 A
135457 CCTAAAGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.24, C:0.12, G:0.17, T:0.46
Consensus pattern (20 bp):
ATTGTTCTTACAGTATCGAT
Found at i:136217 original size:46 final size:46
Alignment explanation
Indices: 136164--136254 Score: 182
Period size: 46 Copynumber: 2.0 Consensus size: 46
136154 CCATACTCAC
136164 AAAATTTTTATTTGGTCAATTCACCTCCTTTTGACACCATTTTCGA
1 AAAATTTTTATTTGGTCAATTCACCTCCTTTTGACACCATTTTCGA
136210 AAAATTTTTATTTGGTCAATTCACCTCCTTTTGACACCATTTTCG
1 AAAATTTTTATTTGGTCAATTCACCTCCTTTTGACACCATTTTCG
136255 GTTAATCAAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.25, C:0.22, G:0.09, T:0.44
Consensus pattern (46 bp):
AAAATTTTTATTTGGTCAATTCACCTCCTTTTGACACCATTTTCGA
Found at i:143730 original size:9 final size:9
Alignment explanation
Indices: 143716--143744 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
143706 AAAAATAATC
143716 AGAGAAAAA
1 AGAGAAAAA
143725 AGAGAAAAA
1 AGAGAAAAA
143734 AGAGAAAAA
1 AGAGAAAAA
143743 AG
1 AG
143745 GGTTCAACTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (9 bp):
AGAGAAAAA
Found at i:145612 original size:182 final size:182
Alignment explanation
Indices: 145051--145830 Score: 1057
Period size: 182 Copynumber: 4.3 Consensus size: 182
145041 GATACAAATG
* * * *
145051 AAAAATGTATC-ACTCCATAGCAATATTACAGGTAAAAATATGACAAAACCGGTCTCGAAATGAC
1 AAAAATGTATCGA-TCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCCCAAAATGAC
* ** * *
145115 AAAATCGGTAAAACGATACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTT
65 AAAACCGGTAAAAAAATACCAGATATATTGAAAGTGTCGATAATTTAATATAAGTATCGACACTT
*
145180 TTGGAATTTAAAAGAGAAGAAGTTATAGCACCTATAAAGTGTCGATACTTTAA
130 TTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAA
** *
145233 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACTTGTCTCAAAAATGAC
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTC-CCAAAATGAC
* * * * ***
145298 AAAACCAGTAAAAAAAATACCGGATATGTTGAAAGTGTCGATAATTTAATATAAATATCGATTTT
65 AAAACCGGT-AAAAAAATACCAGATATATTGAAAGTGTCGATAATTTAATATAAGTATCGACACT
**
145363 TTTTTAATTT-AAA-AG-AGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAA
129 TTTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAA
* * * **
145414 AAATATATATCGATCCATAACAATATAACATGTAAAAATATGACAAAATAGGTCCCAAAATGACA
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCCCAAAATGACA
* **** *
145479 AATCCGGTAAAGCGCTACCAGATATATTGAAAGTGTCGATAATTTAATATAAGTATCGATACTTT
66 AAACCGGTAAAAAAATACCAGATATATTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTT
* * * *
145544 TTGAATTTAAAAGAAAAGAAGTTATAGCGCCTAAAAAGTGTCGATACTTTAT
131 TGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAA
* * * * *
145596 GAAAATGTATCGATCCATAACAATATAACAGCTAAAAATATGACAAAACCGATCTCAAAATGAAA
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCCCAAAATGACA
* * * * *
145661 AAACCGATAAAGAACTA-TAGGATATATTGAAAGTGTCGATACTTTAATATAAGTATCGACACTT
66 AAACCGGTAAAAAAATACCA-GATATATTGAAAGTGTCGATAATTTAATATAAGTATCGACACTT
145725 TTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAA
130 TTGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAA
*
145778 AAAAATATATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGT
1 AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGT
145831 AAAGCGCTAC
Statistics
Matches: 526, Mismatches: 65, Indels: 14
0.87 0.11 0.02
Matches are distributed among these distances:
179 55 0.10
180 19 0.04
181 85 0.16
182 292 0.56
183 18 0.03
184 57 0.11
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.27
Consensus pattern (182 bp):
AAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCCCAAAATGACA
AAACCGGTAAAAAAATACCAGATATATTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTT
TGGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAA
Found at i:146318 original size:19 final size:19
Alignment explanation
Indices: 146296--146388 Score: 98
Period size: 19 Copynumber: 4.9 Consensus size: 19
146286 CTTTTATTTA
146296 ATATTATAGGTAAAAAATG
1 ATATTATAGGTAAAAAATG
* *
146315 ATATTATACGTAAACAATG
1 ATATTATAGGTAAAAAATG
*
146334 ATATTATAGGT-AAATATG
1 ATATTATAGGTAAAAAATG
* * * * *
146352 ATATTACATGTAGAAAGTT
1 ATATTATAGGTAAAAAATG
*
146371 ATATTATAGGTAGAAAAT
1 ATATTATAGGTAAAAAAT
146389 AAATATGGAT
Statistics
Matches: 59, Mismatches: 14, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
18 14 0.24
19 45 0.76
ACGTcount: A:0.47, C:0.03, G:0.15, T:0.34
Consensus pattern (19 bp):
ATATTATAGGTAAAAAATG
Found at i:146375 original size:37 final size:37
Alignment explanation
Indices: 146296--146388 Score: 107
Period size: 37 Copynumber: 2.5 Consensus size: 37
146286 CTTTTATTTA
*
146296 ATATTATAGGTAAAAAATGATATTATACGTAAACAATG
1 ATATTATAGGT-AAAAATGATATTACACGTAAACAATG
* * * *
146334 ATATTATAGGTAAATATGATATTACATGTAGAA-AGTT
1 ATATTATAGGTAAAAATGATATTACACGTA-AACAATG
146371 ATATTATAGGTAGAAAAT
1 ATATTATAGGTA-AAAAT
146389 AAATATGGAT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
37 30 0.64
38 17 0.36
ACGTcount: A:0.47, C:0.03, G:0.15, T:0.34
Consensus pattern (37 bp):
ATATTATAGGTAAAAATGATATTACACGTAAACAATG
Found at i:147737 original size:24 final size:24
Alignment explanation
Indices: 147727--147841 Score: 160
Period size: 24 Copynumber: 4.8 Consensus size: 24
147717 CATAATTCAC
* * *
147727 GTCAAGTATCATATCAAAATCCAG
1 GTCAAGTATCAGATCAGAATCCAT
*
147751 GTCAAGTATCAGATCAGAATCCAA
1 GTCAAGTATCAGATCAGAATCCAT
147775 GTCAAGTATCAGATCAGAATCCAT
1 GTCAAGTATCAGATCAGAATCCAT
* *
147799 GTC-AGATATCATATCATAATCCAT
1 GTCAAG-TATCAGATCAGAATCCAT
147823 GTCAAGTATCAGATCAGAA
1 GTCAAGTATCAGATCAGAA
147842 ATCAAATCGA
Statistics
Matches: 81, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
23 2 0.02
24 77 0.95
25 2 0.02
ACGTcount: A:0.40, C:0.20, G:0.15, T:0.25
Consensus pattern (24 bp):
GTCAAGTATCAGATCAGAATCCAT
Found at i:147858 original size:72 final size:71
Alignment explanation
Indices: 147707--147858 Score: 182
Period size: 72 Copynumber: 2.1 Consensus size: 71
147697 GGATATATCA
* * *
147707 AAAATCAAATCATAATTCACGTCAAGTATCATATCAAAATCCAGGTCAAGTATCAGATCAGAATC
1 AAAATCAGATCAGAATCCACGTCAAGTATCATATCAAAATCCAGGTCAAGTATCAGATCAGAATC
*
147772 CAAGTC
66 CAAATC
* * * *
147778 AAGTATCAGATCAGAATCCATGTC-AGATATCATATCATAATCCATGTCAAGTATCAGATCAGAA
1 AA-AATCAGATCAGAATCCACGTCAAG-TATCATATCAAAATCCAGGTCAAGTATCAGATCAG-A
147842 AT-CAAATC
63 ATCCAAATC
147850 GAAAATCAG
1 -AAAATCAG
147859 GTAAAATATT
Statistics
Matches: 68, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
71 4 0.06
72 59 0.87
73 5 0.07
ACGTcount: A:0.43, C:0.20, G:0.12, T:0.24
Consensus pattern (71 bp):
AAAATCAGATCAGAATCCACGTCAAGTATCATATCAAAATCCAGGTCAAGTATCAGATCAGAATC
CAAATC
Found at i:150367 original size:8 final size:8
Alignment explanation
Indices: 150337--150381 Score: 58
Period size: 7 Copynumber: 5.6 Consensus size: 8
150327 TCAAAGTTTT
150337 GGTCAACAG
1 GGTCAAC-G
150346 TGGTCAAC-
1 -GGTCAACG
150354 GGTCAACG
1 GGTCAACG
150362 GGTCAAC-
1 GGTCAACG
150369 GGTCAACG
1 GGTCAACG
150377 GGTCA
1 GGTCA
150382 GGTCAACAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
7 14 0.42
8 12 0.36
10 7 0.21
ACGTcount: A:0.27, C:0.24, G:0.33, T:0.16
Consensus pattern (8 bp):
GGTCAACG
Found at i:150367 original size:15 final size:15
Alignment explanation
Indices: 150337--150381 Score: 72
Period size: 15 Copynumber: 2.9 Consensus size: 15
150327 TCAAAGTTTT
150337 GGTCAACAGTGGTCAAC
1 GGTCAAC-G-GGTCAAC
150354 GGTCAACGGGTCAAC
1 GGTCAACGGGTCAAC
150369 GGTCAACGGGTCA
1 GGTCAACGGGTCA
150382 GGTCAACAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
15 20 0.71
16 1 0.04
17 7 0.25
ACGTcount: A:0.27, C:0.24, G:0.33, T:0.16
Consensus pattern (15 bp):
GGTCAACGGGTCAAC
Found at i:150415 original size:13 final size:13
Alignment explanation
Indices: 150397--150428 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
150387 ACAAGTCGGA
150397 TCGGGTAAACGGG
1 TCGGGTAAACGGG
150410 TCGGGTAAACGGG
1 TCGGGTAAACGGG
150423 TCGGGT
1 TCGGGT
150429 CGGGTCATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.19, C:0.16, G:0.47, T:0.19
Consensus pattern (13 bp):
TCGGGTAAACGGG
Found at i:150426 original size:31 final size:31
Alignment explanation
Indices: 150373--150433 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
150363 GTCAACGGTC
*
150373 AACGGGTCAGGTCAACAAGTCGGATCGGGTA
1 AACGGGTCAGGTAAACAAGTCGGATCGGGTA
* ** *
150404 AACGGGTCGGGTAAACGGGTCGGGTCGGGT
1 AACGGGTCAGGTAAACAAGTCGGATCGGGT
150434 CATAACCGGT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.23, C:0.18, G:0.43, T:0.16
Consensus pattern (31 bp):
AACGGGTCAGGTAAACAAGTCGGATCGGGTA
Found at i:151870 original size:22 final size:22
Alignment explanation
Indices: 151819--151874 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 22
151809 GTTTTTGTTT
*
151819 TTTTTTTATATAAAATGATAGTA
1 TTTTATTATATAAAATGATAG-A
*
151842 TAGTTATTATATAAAATGATA-A
1 T-TTTATTATATAAAATGATAGA
151864 CTTTTATTATA
1 -TTTTATTATA
151875 AATGCATGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
22 9 0.32
23 2 0.07
24 17 0.61
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (22 bp):
TTTTATTATATAAAATGATAGA
Found at i:152119 original size:9 final size:9
Alignment explanation
Indices: 152105--152146 Score: 57
Period size: 9 Copynumber: 4.7 Consensus size: 9
152095 GTTATTGTCA
152105 AGGAGGTAG
1 AGGAGGTAG
152114 AGGAGGTAG
1 AGGAGGTAG
*
152123 AGGAGGCAG
1 AGGAGGTAG
*
152132 AGGAAGTAG
1 AGGAGGTAG
*
152141 TGGAGG
1 AGGAGG
152147 CAGTGGAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.33, C:0.02, G:0.55, T:0.10
Consensus pattern (9 bp):
AGGAGGTAG
Found at i:152128 original size:18 final size:18
Alignment explanation
Indices: 152105--152154 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
152095 GTTATTGTCA
* *
152105 AGGAGGTAGAGGAGGTAG
1 AGGAGGCAGAGGAAGTAG
152123 AGGAGGCAGAGGAAGTAG
1 AGGAGGCAGAGGAAGTAG
* *
152141 TGGAGGCAGTGGAA
1 AGGAGGCAGAGGAA
152155 AAGGAAGAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.34, C:0.04, G:0.52, T:0.10
Consensus pattern (18 bp):
AGGAGGCAGAGGAAGTAG
Found at i:154094 original size:19 final size:19
Alignment explanation
Indices: 154070--154114 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
154060 AATGTAGGGT
154070 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
154089 TAATTTTGTATATGATTTA
1 TAATTTTGTATAAGATTTA
154108 TAATTTT
1 TAATTTT
154115 ATTTGTGAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.58
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:154835 original size:199 final size:199
Alignment explanation
Indices: 154490--155587 Score: 1730
Period size: 199 Copynumber: 5.5 Consensus size: 199
154480 GTAAACTTAT
* *
154490 GTGTCGATACATTTATAACAAGTATCGATCCCAAAAACATCGAAATCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * * * *
154555 GGTAAATTAACAATGCAACCGGTCTAAATATACAGGTTTTTGAGAAAACAGGTATACAAAAATTA
66 GGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACATGTGTACAAAAAGTA
* *
154620 TCGACAAAAATAAAACAAGTGTCGATAATTTTGGTCCAGAATGTATTTCTAAACCAAGTGCACGA
131 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCACGA
*
154685 AAAG
196 AAAA
* * *
154689 GTGTTGATACATTTATAACAAATGTCAATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * *
154754 GGTAAATTAACAATATAACCGGTCTAAATATACCGATTTTTGAGAAAAAATGTGTACAAAAAGTA
66 GGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACATGTGTACAAAAAGTA
* * *
154819 TCGATACAAATAAAACAAGTGTAGATACTTTTGGTCCAGAATGTATTTCTAAACCTAGTGCACGA
131 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCACGA
154884 AAAA
196 AAAA
154888 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* *
154953 GGTAAATTAACAATGTAACCAGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTA
66 GGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACATGTGTACAAAAAGTA
* *
155018 TCGACACAAATAAAACAAGTATAGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCACGA
131 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCACGA
155083 AAAA
196 AAAA
* * * *
155087 GTGTCGATACATTTATAATAAGTGTCGATCCCAAAAACATCAAAACCCAAAATTTTAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* *
155152 TGTAAATTAACAATGTAACCAGTCTAAATATACCGGTTTTTGAGAAAACATGTGTACAAAAAGTA
66 GGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACATGTGTACAAAAAGTA
*
155217 TCGACACAAATAAAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCTAAACCAAGTGCACGA
131 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCACGA
*
155282 ATAA
196 AAAA
* *
155286 GTGTCGATCCATTTATAACAAGTGTCGATCCCAAAAACATTGAAACCCATAATTATAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* *
155351 GGTAAATTAACAATGTAACCGGTCTAAATATACCAGTTTTTGAGAAAATATGTGTA-AAAAAGTA
66 GGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACATGTGTACAAAAAGTA
* *
155415 TCGACATAAATAAAACAAGTGTCGATACTTTTGGTCTAGAATGTATTTCTAAACCAAGTGCACGA
131 TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCACGA
155480 AAAA
196 AAAA
* * * * * * *
155484 GTGTGGATACATTTATAACAAGTATCGATCCTAAGAACATCGAAACCGAAAATTTTAATGTAATA
1 GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
* * ** * * *
155549 GGTTATTTTGCAATATAACCGGTATAATTATACCGGTTT
66 GGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTT
155588 AATTTGAAAA
Statistics
Matches: 828, Mismatches: 71, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
198 160 0.19
199 668 0.81
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (199 bp):
GTGTCGATACATTTATAACAAGTGTCGATCCCAAAAACATCGAAACCCATAATTATAATGTAATA
GGTAAATTAACAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACATGTGTACAAAAAGTA
TCGACACAAATAAAACAAGTGTCGATACTTTTGGTCCAGAATGTATTTCTAAACCAAGTGCACGA
AAAA
Found at i:155955 original size:15 final size:15
Alignment explanation
Indices: 155935--155992 Score: 64
Period size: 15 Copynumber: 3.7 Consensus size: 15
155925 TTTCTCAAAG
155935 CTCTTCTCAACCCAA
1 CTCTTCTCAACCCAA
*
155950 CTCTTC-CTAACCCAG
1 CTCTTCTC-AACCCAA
155965 CTCTTCTCAACCACAA
1 CTCTTCTCAACC-CAA
155981 CCTCTTTCTCAA
1 -CTC-TTCTCAA
155993 ACAATCGTCC
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
14 1 0.03
15 22 0.61
16 3 0.08
17 3 0.08
18 7 0.19
ACGTcount: A:0.24, C:0.45, G:0.02, T:0.29
Consensus pattern (15 bp):
CTCTTCTCAACCCAA
Found at i:157164 original size:3 final size:3
Alignment explanation
Indices: 157139--157182 Score: 61
Period size: 3 Copynumber: 14.7 Consensus size: 3
157129 CAAGCGGTCA
* * *
157139 ATG AAG ATG ACG ATG AAG ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
157183 CCAAACAAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.39, C:0.02, G:0.32, T:0.27
Consensus pattern (3 bp):
ATG
Found at i:158477 original size:24 final size:24
Alignment explanation
Indices: 158444--158501 Score: 89
Period size: 24 Copynumber: 2.4 Consensus size: 24
158434 TTTTCATTTC
158444 ATTTATAATTAGAGTTTGAATTTAA
1 ATTTA-AATTAGAGTTTGAATTTAA
*
158469 ATTTAAATTTGAGTTTGAATTTAA
1 ATTTAAATTAGAGTTTGAATTTAA
*
158493 ATGTAAATT
1 ATTTAAATT
158502 TCGGCTCCAC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
24 26 0.84
25 5 0.16
ACGTcount: A:0.40, C:0.00, G:0.12, T:0.48
Consensus pattern (24 bp):
ATTTAAATTAGAGTTTGAATTTAA
Found at i:158479 original size:18 final size:18
Alignment explanation
Indices: 158458--158494 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
158448 ATAATTAGAG
158458 TTTGAATTTAAATTTAAA
1 TTTGAATTTAAATTTAAA
* *
158476 TTTGAGTTTGAATTTAAA
1 TTTGAATTTAAATTTAAA
158494 T
1 T
158495 GTAAATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTAAA
Found at i:159025 original size:200 final size:198
Alignment explanation
Indices: 158679--159445 Score: 879
Period size: 200 Copynumber: 3.8 Consensus size: 198
158669 TTATTCATTC
* *
158679 GTGTCGATACATGTTGTCCATAATGTA-TTTCCAAACCAAGTGCACAAGAAAAGTGTCGATACAT
1 GTGTCGATACTTTTTGTCCATAATGTATTTTCCAAACCAAGTGCAC--GAAAAGTGTCGATACAT
* * *
158743 TTATAACAAGTATCGATCCCAAAAACATCGAAACACATAATTATAATGTAATAAGTAAATTAACA
64 TTATAACAAGTGTCGAT-CCAAAATCATCGAAACACATAATTATAATGTAATAGGTAAATTAACA
158808 ATGTAACCAGTCTAAATAAACCGGTTTTTGAGAAAATAAGTATACATAAAGTATCGACACAAATC
128 ATGTAACCAGTCTAAATAAACCGGTTTTTGAGAAAATAAGTATACATAAAGTATCGACACAAATC
158873 CAACAA
193 CAACAA
* * *
158879 GTGTCGATACTTTTTGTCCAGAATGTATTTTTCAAACCAAGTGTACGACAAAGTGTCGATACATT
1 GTGTCGATACTTTTTGTCCATAATGTATTTTCCAAACCAAGTGCACGA-AAAGTGTCGATACATT
* * *
158944 TATAACAAGTGTCGATACTAAAATCATCGAAATACATAGA-TATAATGTAATAGGTAAAATAACA
65 TATAACAAGTGTCGAT-CCAAAATCATCGAAACACATA-ATTATAATGTAATAGGTAAATTAACA
* * * * *
159008 ATGTAACCGGCCTAAATACACCGGTTTATGAGAAAACAAGTATACATAAAGTATCGACACAAATC
128 ATGTAACCAGTCTAAATAAACCGGTTTTTGAGAAAATAAGTATACATAAAGTATCGACACAAATC
159073 CAACAA
193 CAACAA
* *
159079 GTGTCGATACTTTTTGTCCATAATGTATTTTCCAAACCAA-TGCACAAAAAAGTGTCGATACTTT
1 GTGTCGATACTTTTTGTCCATAATGTATTTTCCAAACCAAGTGCAC-GAAAAGTGTCGATACATT
* * * * * * *
159143 TATAATATGTGTCGATCCCAAATACATCGAAACATATAATTATAATGTAATAGGTCACTTTACAA
65 TATAACAAGTGTCGATCCAAAAT-CATCGAAACACATAATTATAATGTAATAGGTAAATTAACAA
* ** * * * *
159208 TGTAACCAGTTTAAATTTATCGGTTTTATAAGAAAATAGGTATACATAAAGTATCGAAACAAATC
129 TGTAACCAGTCTAAATAAACCGGTTTT-TGAGAAAATAAGTATACATAAAGTATCGACACAAATC
159273 CAACAA
193 CAACAA
* * * *
159279 GTGTCGATACTTTTT-TCCCCAAAATG-A-ATGCACAAA-CAGGTGCACGCATAAAGTGTCGATA
1 GTGTCGATACTTTTTGT--CCATAATGTATTTTC-CAAACCAAGTGCACG-A-AAAGTGTCGATA
* ** * * * *
159340 CATTTAAAATTA-TATCGATCCCAAAAACATCGAAAC-CGATAATTATAATGTAATAGATCAATT
61 CATTTATAACAAGTGTCGAT-CCAAAATCATCGAAACAC-ATAATTATAATGTAATAGGTAAATT
* * **
159403 TACAATGTAACCTGT-TGAAATTTACCGGTTTTATGAGAAAATA
124 AACAATGTAACCAGTCT-AAATAAACCGGTTTT-TGAGAAAATA
159446 GACCAATATA
Statistics
Matches: 490, Mismatches: 61, Indels: 32
0.84 0.10 0.05
Matches are distributed among these distances:
198 6 0.01
199 94 0.19
200 341 0.70
201 49 0.10
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.29
Consensus pattern (198 bp):
GTGTCGATACTTTTTGTCCATAATGTATTTTCCAAACCAAGTGCACGAAAAGTGTCGATACATTT
ATAACAAGTGTCGATCCAAAATCATCGAAACACATAATTATAATGTAATAGGTAAATTAACAATG
TAACCAGTCTAAATAAACCGGTTTTTGAGAAAATAAGTATACATAAAGTATCGACACAAATCCAA
CAA
Found at i:159432 original size:399 final size:401
Alignment explanation
Indices: 158679--159443 Score: 1001
Period size: 399 Copynumber: 1.9 Consensus size: 401
158669 TTATTCATTC
158679 GTGTCGATACATGTTGTCCATAATGTATTTCCAAACCAAGTGCACAAGAAAAGTGTCGATACATT
1 GTGTCGATACATGTTGTCCATAATGTATTTCCAAACCAAGTGCACAAGAAAAGTGTCGATACATT
158744 TATAACAAGTATCGATCCCAAAAACATCGAAACACATAATTATAATGTAATAAGTAAATTAACAA
66 TATAACAAGTATCGATCCCAAAAACATCGAAACACATAATTATAATGTAATAAGTAAATTAACAA
* *
158809 TGTAACCAGTCTAAATAAACCGGTTTTTGAGAAAATAAGTATACATAAAGTATCGACACAAATCC
131 TGTAACCAGTCTAAATAAACCGGTTTTTAAGAAAATAAGTATACATAAAGTATCGAAACAAATCC
* * *** *
158874 AACAAGTGTCGATACTTTTTGTCCAGAATGTATTTTTCAAACCAAGTGTACGACAAAGTGTCGAT
196 AACAAGTGTCGATACTTTTTGTCCAAAATGTAATGCACAAACCAAGTGCACGACAAAGTGTCGAT
* * * * *
158939 ACATTTATAACAAGTGTCGATACTAAAATCATCGAAATACATAGATATAATGTAATAGGTAAAAT
261 ACATTTAAAACAAGTATCGATACCAAAAACATCGAAATACATAGATATAATGTAATAGATAAAAT
159004 AACAATGTAACCGGCCTAAATACACCGG-TTTATGAGAAAACAAGTATACATAAAGTATCGACAC
326 AACAATGTAACCGGCCTAAATACACCGGTTTTATGAGAAAACAAGTATACATAAAGTATCGACAC
159068 AAATCCAACAA
391 AAATCCAACAA
* * *
159079 GTGTCGATACTTTTTGTCCATAATGTATTTTCCAAACCAA-TGCACAA-AAAAGTGTCGATACTT
1 GTGTCGATACATGTTGTCCATAATGTA-TTTCCAAACCAAGTGCACAAGAAAAGTGTCGATACAT
* * * * * * * * *
159142 TTATAATATGTGTCGATCCCAAATACATCGAAACATATAATTATAATGTAATAGGTCACTTTACA
65 TTATAACAAGTATCGATCCCAAAAACATCGAAACACATAATTATAATGTAATAAGTAAATTAACA
* ** * *
159207 ATGTAACCAGTTTAAATTTATCGGTTTTATAAGAAAATAGGTATACATAAAGTATCGAAACAAAT
130 ATGTAACCAGTCTAAATAAACCGGTTTT-TAAGAAAATAAGTATACATAAAGTATCGAAACAAAT
* *
159272 CCAACAAGTGTCGATACTTTTT-TCCCCAAAATG-AATGCACAAA-CAGGTGCACGCATAAAGTG
194 CCAACAAGTGTCGATACTTTTTGT--CCAAAATGTAATGCACAAACCAAGTGCACG-ACAAAGTG
** * *
159334 TCGATACATTTAAAATTA-TATCGATCCCAAAAACATCGAAA-CCGATA-ATTATAATGTAATAG
256 TCGATACATTTAAAACAAGTATCGATACCAAAAACATCGAAATAC-ATAGA-TATAATGTAATAG
* * * * * **
159396 ATCAATTTACAATGTAACCTG-TTGAAATTTACCGGTTTTATGAGAAAA
319 ATAAAATAACAATGTAACCGGCCT-AAATACACCGGTTTTATGAGAAAA
159444 TAGACCAATA
Statistics
Matches: 313, Mismatches: 43, Indels: 18
0.84 0.11 0.05
Matches are distributed among these distances:
398 3 0.01
399 164 0.52
400 127 0.41
401 19 0.06
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.29
Consensus pattern (401 bp):
GTGTCGATACATGTTGTCCATAATGTATTTCCAAACCAAGTGCACAAGAAAAGTGTCGATACATT
TATAACAAGTATCGATCCCAAAAACATCGAAACACATAATTATAATGTAATAAGTAAATTAACAA
TGTAACCAGTCTAAATAAACCGGTTTTTAAGAAAATAAGTATACATAAAGTATCGAAACAAATCC
AACAAGTGTCGATACTTTTTGTCCAAAATGTAATGCACAAACCAAGTGCACGACAAAGTGTCGAT
ACATTTAAAACAAGTATCGATACCAAAAACATCGAAATACATAGATATAATGTAATAGATAAAAT
AACAATGTAACCGGCCTAAATACACCGGTTTTATGAGAAAACAAGTATACATAAAGTATCGACAC
AAATCCAACAA
Found at i:159553 original size:87 final size:87
Alignment explanation
Indices: 159451--159613 Score: 299
Period size: 87 Copynumber: 1.9 Consensus size: 87
159441 AAATAGACCA
*
159451 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGGTAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
159516 CCGGTTAAATGTCTATTTTATT
66 CCGGTTAAATGTCTATTTTATT
* *
159538 ATATAAGCGTTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
159603 CCGGTTAAATG
66 CCGGTTAAATG
159614 ATATAACATA
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
87 73 1.00
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.41
Consensus pattern (87 bp):
ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
CCGGTTAAATGTCTATTTTATT
Found at i:159585 original size:23 final size:23
Alignment explanation
Indices: 159535--159579 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
159525 TGTCTATTTT
* *
159535 ATTATATAAGCGTTACCTATTAC
1 ATTATATAAGCGCTACCTAATAC
159558 ATTATATAAGCGCTACCTAATA
1 ATTATATAAGCGCTACCTAATA
159580 TGTTATTGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.36
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:161549 original size:30 final size:31
Alignment explanation
Indices: 161486--161546 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 31
161476 AAAATGCAAG
161486 TTTTGAAAGTTTGAGGGATAAAATATAATAT
1 TTTTGAAAGTTTGAGGGATAAAATATAATAT
*
161517 TTTTTAAAGTTT-AGGGATCAAAAATATAAT
1 TTTTGAAAGTTTGAGGGAT--AAAATATAAT
161547 TTTAAAAAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 6 0.22
31 11 0.41
32 10 0.37
ACGTcount: A:0.43, C:0.02, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTTGAAAGTTTGAGGGATAAAATATAATAT
Found at i:161556 original size:30 final size:31
Alignment explanation
Indices: 161491--161557 Score: 77
Period size: 30 Copynumber: 2.2 Consensus size: 31
161481 GCAAGTTTTG
**
161491 AAAGTTTGAGGGATAAAATATAATATTTTTT
1 AAAGTTTGAGGGATAAAATATAATATTTTAA
161522 AAAGTTT-AGGGATCAAAA-AT-ATAATTTTAA
1 AAAGTTTGAGGGAT-AAAATATAAT-ATTTTAA
161552 AAAGTT
1 AAAGTT
161558 ATAAATTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
29 2 0.06
30 19 0.59
31 11 0.34
ACGTcount: A:0.46, C:0.01, G:0.15, T:0.37
Consensus pattern (31 bp):
AAAGTTTGAGGGATAAAATATAATATTTTAA
Found at i:176482 original size:45 final size:45
Alignment explanation
Indices: 176413--176628 Score: 319
Period size: 45 Copynumber: 4.8 Consensus size: 45
176403 TATAAAATTT
* *
176413 CTTATCATTTA-TCCTATAAGCTCGTAAGCTTATTCTACCAATATA
1 CTTACCATTTATTCC-ATAAGCTCGTAAGCTTATTTTACCAATATA
* *
176458 CTTACCATTTATTCAATAAGCTCGTAAGCTTATTTTACAAATATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
* *
176503 CTTACCATTTACTCTATAAGCTCGTAAGCTTATTTTACCAATATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
*
176548 CTTACCATTTACTCCATAAGCTCGTAAGCTTATTTTACCAATATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
* *
176593 CTTTGCCA-TTATGCCATAAGCTCGTAAGCTTATTTT
1 C-TTACCATTTATTCCATAAGCTCGTAAGCTTATTTT
176629 CGTGTTTACC
Statistics
Matches: 158, Mismatches: 11, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
45 151 0.96
46 7 0.04
ACGTcount: A:0.31, C:0.22, G:0.08, T:0.40
Consensus pattern (45 bp):
CTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAATATA
Found at i:180661 original size:55 final size:55
Alignment explanation
Indices: 180541--180860 Score: 392
Period size: 55 Copynumber: 5.8 Consensus size: 55
180531 ACGATAATTT
** ** * * * * *
180541 ATCAACTCATGATGAATTTTGTGGTTTTGCACACCTAAT-CACTATACGGCTATTT
1 ATCAACTCATGATGAATTCCGTGGAATTGCACACATAGTGCA-TGTACGGTTATTC
* * ** * * *
180596 ATAAAGTCATGATGAATTCTATAGAATTGCACACATAGTGCTTGTACAGTTATTC
1 ATCAACTCATGATGAATTCCGTGGAATTGCACACATAGTGCATGTACGGTTATTC
* * * *
180651 ATCAACTCATGATTAATTCTGCGGAATTGCACACATAGTGCATGCACGGTTATTC
1 ATCAACTCATGATGAATTCCGTGGAATTGCACACATAGTGCATGTACGGTTATTC
*
180706 ATCAACTCATGATGAATTCCGTGGAATTACACACATAGTG-ATTGTACGGTTATTC
1 ATCAACTCATGATGAATTCCGTGGAATTGCACACATAGTGCA-TGTACGGTTATTC
* *
180761 ATCAACTCATGATGAATTCCGTGGAATTGTACACATATTGCATGTACGGTTATTC
1 ATCAACTCATGATGAATTCCGTGGAATTGCACACATAGTGCATGTACGGTTATTC
*
180816 ATTAACTCATGATGAATTCCGTGGAATTGCACACATAGTGCATGT
1 ATCAACTCATGATGAATTCCGTGGAATTGCACACATAGTGCATGT
180861 TGATAACTCC
Statistics
Matches: 228, Mismatches: 34, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
54 1 0.00
55 225 0.99
56 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.34
Consensus pattern (55 bp):
ATCAACTCATGATGAATTCCGTGGAATTGCACACATAGTGCATGTACGGTTATTC
Found at i:183999 original size:21 final size:20
Alignment explanation
Indices: 183971--184009 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
183961 CATTGCAGGA
* *
183971 ATTTATGGCTTCGACAAAAG
1 ATTTATGGCATCAACAAAAG
183991 ATTTCATGGCATCAACAAA
1 ATTT-ATGGCATCAACAAA
184010 GACCTTAATG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.28
Consensus pattern (20 bp):
ATTTATGGCATCAACAAAAG
Found at i:196668 original size:77 final size:78
Alignment explanation
Indices: 196514--196668 Score: 174
Period size: 77 Copynumber: 2.0 Consensus size: 78
196504 ATATAGTAAG
*
196514 TAAACATTAAAAGAATGTAATTTTGATTACAATTCTTTTAATCGATATTTAATTCATAATAATTA
1 TAAACATTAAAAGAATGTAATTTTGATTACAAGTCTTTTAATCGATATTTAATT-ATAATAATTA
*
196579 AACAAGAGTTTAAA
65 AACAAAAGTTTAAA
* * * *
196593 TAAACGTT-AAAGATTGTAATTTTGATTATAAGTC-TTTAAT-GTATATTTAGTT-TGAATTAAT
1 TAAACATTAAAAGAATGTAATTTTGATTACAAGTCTTTTAATCG-ATATTTAATTAT-AA-TAAT
* *
196654 TAAAGAAAATTTTAA
63 TAAACAAAAGTTTAA
196669 TTAATTCGAA
Statistics
Matches: 65, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
75 1 0.02
76 3 0.05
77 31 0.48
78 23 0.35
79 7 0.11
ACGTcount: A:0.43, C:0.05, G:0.10, T:0.42
Consensus pattern (78 bp):
TAAACATTAAAAGAATGTAATTTTGATTACAAGTCTTTTAATCGATATTTAATTATAATAATTAA
ACAAAAGTTTAAA
Found at i:199091 original size:75 final size:76
Alignment explanation
Indices: 199006--199202 Score: 254
Period size: 75 Copynumber: 2.6 Consensus size: 76
198996 CCGTTGAACA
* * * *
199006 GGGGGAATCGGTACCCCCT-TGGGGGGGATCGGTTCCCTCTGAGCATACTGGAATTCTCGGAACA
1 GGGGGAATCGGTTCCACCTATGGGGGGAATCGGTTCCCTCTGAGCATACTGGAAATCTCGGAACA
** *
199070 AAAATGTTTAG
66 AAAACATTCAG
* * * *
199081 GGGGGAATCGGTTCCACCTAT-GGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAGCC
1 GGGGGAATCGGTTCCACCTATGGGGGGAATCGGTTCCCTCTGAGCATACTGGAAATCTCGGAACA
*
199145 AAACCATTCAG
66 AAAACATTCAG
*
199156 GGGGGAATCGGTTCCTCCTATGGGGGGCAATCGGTTCCCTCTGAGCA
1 GGGGGAATCGGTTCCACCTATGGGGGG-AATCGGTTCCCTCTGAGCA
199203 ATCTGTAATT
Statistics
Matches: 105, Mismatches: 14, Indels: 4
0.85 0.11 0.03
Matches are distributed among these distances:
75 81 0.77
76 6 0.06
77 18 0.17
ACGTcount: A:0.21, C:0.24, G:0.32, T:0.23
Consensus pattern (76 bp):
GGGGGAATCGGTTCCACCTATGGGGGGAATCGGTTCCCTCTGAGCATACTGGAAATCTCGGAACA
AAAACATTCAG
Found at i:201813 original size:21 final size:21
Alignment explanation
Indices: 201787--201826 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
201777 CAGAACCCCA
*
201787 GGGGGGTATCGATTCCCCTGT
1 GGGGGGAATCGATTCCCCTGT
201808 GGGGGGAATCGATTCCCCT
1 GGGGGGAATCGATTCCCCT
201827 TCAAAGGGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.12, C:0.25, G:0.38, T:0.25
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCCTGT
Found at i:201855 original size:19 final size:19
Alignment explanation
Indices: 201809--201868 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 19
201799 TTCCCCTGTG
201809 GGGGGAATCGATTCCCCTTCAAA
1 GGGGGAATCGATT-CCC-TC--A
201832 GGGGGAATC-AGTTCCCTCA
1 GGGGGAATCGA-TTCCCTCA
*
201851 GGGGGGATCGATTCCCTC
1 GGGGGAATCGATTCCCTC
201869 TACACCAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
19 16 0.47
20 1 0.03
21 2 0.06
22 4 0.12
23 11 0.32
ACGTcount: A:0.20, C:0.27, G:0.32, T:0.22
Consensus pattern (19 bp):
GGGGGAATCGATTCCCTCA
Done.