Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009576.1 Hibiscus syriacus cultivar Beakdansim tig00116944_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: 1684752
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 10
Found at i:599749 original size:27 final size:27
Alignment explanation
Indices: 599714--599790 Score: 109
Period size: 31 Copynumber: 2.7 Consensus size: 27
599704 TTCAAAGGGC
599714 GTCCTAATAATTTTGATTTTTAACATA
1 GTCCTAATAATTTTGATTTTTAACATA
*
599741 GTCCAAATAATTTTGATTTATTTTTAACATA
1 GTCCTAATAATTTTG----ATTTTTAACATA
599772 GTCCTAATAATTTTGATTT
1 GTCCTAATAATTTTGATTT
599791 GGGGTATACA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
27 18 0.41
31 26 0.59
ACGTcount: A:0.32, C:0.10, G:0.08, T:0.49
Consensus pattern (27 bp):
GTCCTAATAATTTTGATTTTTAACATA
Found at i:599767 original size:31 final size:31
Alignment explanation
Indices: 599729--599790 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
599719 AATAATTTTG
599729 ATTTTTAACATAGTCCAAATAATTTTGATTT
1 ATTTTTAACATAGTCCAAATAATTTTGATTT
*
599760 ATTTTTAACATAGTCCTAATAATTTTGATTT
1 ATTTTTAACATAGTCCAAATAATTTTGATTT
599791 GGGGTATACA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.34, C:0.10, G:0.06, T:0.50
Consensus pattern (31 bp):
ATTTTTAACATAGTCCAAATAATTTTGATTT
Found at i:614405 original size:30 final size:29
Alignment explanation
Indices: 614355--614451 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 29
614345 ACTGAATTTT
*
614355 AAAAATATACACC-TAATAACAAATATTAA
1 AAAAATAGAC-CCTTAATAACAAATATTAA
** **
614384 AATAAATAGACCCTTGTTAACAAGCATTAA
1 AA-AAATAGACCCTTAATAACAAATATTAA
*
614414 AAAAATTAGACCCTTAATAACAAATGTTATA
1 AAAAA-TAGACCCTTAATAACAAATATTA-A
614445 AAAAATA
1 AAAAATA
614452 TTGGCAAAAA
Statistics
Matches: 54, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
29 7 0.13
30 41 0.76
31 6 0.11
ACGTcount: A:0.56, C:0.13, G:0.05, T:0.26
Consensus pattern (29 bp):
AAAAATAGACCCTTAATAACAAATATTAA
Found at i:616661 original size:22 final size:23
Alignment explanation
Indices: 616620--616667 Score: 73
Period size: 22 Copynumber: 2.1 Consensus size: 23
616610 AGAAAAAATG
616620 TAAATATAATATAGTTTATAATA
1 TAAATATAATATAGTTTATAATA
616643 TAAATAT-ATATA-TTATATAATA
1 TAAATATAATATAGTT-TATAATA
616665 TAA
1 TAA
616668 GGACGAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 2 0.08
22 15 0.62
23 7 0.29
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (23 bp):
TAAATATAATATAGTTTATAATA
Found at i:616902 original size:20 final size:20
Alignment explanation
Indices: 616879--616920 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
616869 GAATCCTTCG
616879 TCGTGAAATTGAAATCGAAC
1 TCGTGAAATTGAAATCGAAC
*
616899 TCGTGAAGTTGAAATCGAAC
1 TCGTGAAATTGAAATCGAAC
616919 TC
1 TC
616921 AGAGTTCTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (20 bp):
TCGTGAAATTGAAATCGAAC
Found at i:617240 original size:105 final size:105
Alignment explanation
Indices: 616978--617823 Score: 1521
Period size: 105 Copynumber: 8.0 Consensus size: 105
616968 CGTTGTGAAG
* * * * *
616978 CTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCATGAAGCTGAACTTGCGTTG
1 CTGAATTTGAGAAA-TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
*
617043 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTTGACT
65 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAA-TTGGCT
*
617085 CTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGT
1 CTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
617150 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
617190 CTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 CTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
* *
617255 CTGGAGTCCAATATCCTTCATTGTGAAGTTGAAATTGACT
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
*
617295 CTGAATCTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 CTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
*
617360 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTTGACT
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAA-TTGGCT
617401 CTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 CTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
*
617466 CTGGAGTCCAATATCCTCCGTTGTGAAGTTGAAATTGGCT
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
*
617506 CTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGT
1 CTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
*
617571 CTGGAGTCCAATATCCTCCGTTGTGAAGTTGAAATTGGCT
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
617611 CTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 CTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
617676 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
*
617716 CTAAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
1 CTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
*
617781 CTGGGGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
66 CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
617821 CTG
1 CTG
617824 GGTAAAACCT
Statistics
Matches: 717, Mismatches: 21, Indels: 4
0.97 0.03 0.01
Matches are distributed among these distances:
105 521 0.73
106 184 0.26
107 12 0.02
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.34
Consensus pattern (105 bp):
CTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGT
CTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCT
Found at i:617572 original size:316 final size:316
Alignment explanation
Indices: 616988--617823 Score: 1539
Period size: 316 Copynumber: 2.6 Consensus size: 316
616978 CTGAAATTGG
* * *
616988 GAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCATGAAGCTGAACTTGCGTTGTCTGGAGTCC
1 GAAA-TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
617053 AATATCCTTCGTTGTGAAGTTGAAATTTGACTCTGAATTTGAGAAATGTTTGTTGACAACCAGCG
65 AATATCCTTCGTTGTGAAGTTGAAATTTGACTCTGAATTTGAGAAATGTTTGTTGACAACCAGCG
*
617118 GTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAA
130 GTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAA
*
617183 ATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTT
195 ATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCATCGTGAAGTTGAACTT
*
617248 GCGTTGTCTGGAGTCCAATATCCTTCATTGTGAAGTTGAAATTGACTCTGAATCTGA
260 GCGTTGTCTGGAGTCCAATATCCTCCATTGTGAAGTTGAAATTGACTCTGAATCTGA
617305 GAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
1 GAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
617370 ATATCCTTCGTTGTGAAGTTGAAATTTGACTCTGAATTTGAGAAATGTTTGTTGACAACCAGCGG
66 ATATCCTTCGTTGTGAAGTTGAAATTTGACTCTGAATTTGAGAAATGTTTGTTGACAACCAGCGG
*
617435 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTCCGTTGTGAAGTTGAAA
131 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
617500 TTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCATCGTGAAGTTGAACTTG
196 TTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCATCGTGAAGTTGAACTTG
* * *
617565 CGTTGTCTGGAGTCCAATATCCTCCGTTGTGAAGTTGAAATTGGCTCTGAATTTGA
261 CGTTGTCTGGAGTCCAATATCCTCCATTGTGAAGTTGAAATTGACTCTGAATCTGA
617621 GAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
1 GAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
* *
617686 ATATCCTTCGTTGTGAAGTTGAAA-TTGGCTCTAAATTTGAGAAATGTTTGTTGACAACCAGCGG
66 ATATCCTTCGTTGTGAAGTTGAAATTTGACTCTGAATTTGAGAAATGTTTGTTGACAACCAGCGG
*
617750 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGGGTCCAATATCCTTCGTTGTGAAGTTGAAA
131 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
617815 TTGGCTCTG
196 TTGGCTCTG
617824 GGTAAAACCT
Statistics
Matches: 505, Mismatches: 14, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
315 110 0.22
316 391 0.77
317 4 0.01
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.34
Consensus pattern (316 bp):
GAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCA
ATATCCTTCGTTGTGAAGTTGAAATTTGACTCTGAATTTGAGAAATGTTTGTTGACAACCAGCGG
TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAA
TTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCATCGTGAAGTTGAACTTG
CGTTGTCTGGAGTCCAATATCCTCCATTGTGAAGTTGAAATTGACTCTGAATCTGA
Found at i:617784 original size:421 final size:423
Alignment explanation
Indices: 616978--617816 Score: 1547
Period size: 421 Copynumber: 2.0 Consensus size: 423
616968 CGTTGTGAAG
*
616978 CTGAAATTGGGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCATGAAGCTGAACTTGCGTTG
1 CTGAAATTGAGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCATGAAGCTGAACTTGCGTTG
*
617043 TCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTTGACTCTGAATTTGAGAAATGTTTGTTG
66 TCTGGAGTCCAATATCCTCCGTTGTGAAGTTGAAATTTGACTCTGAATTTGAGAAATGTTTGTTG
*
617108 ACAACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTG
131 ACAACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTCCGTTG
617173 TGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGA
196 TGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGA
*
617238 AGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCATTGTGAAGTTGAAATTGACTCTGAATCT
261 AGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCATTGTGAAGTTGAAATTGACTCTAAATCT
617303 GAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
326 GAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
617368 CAATATCCTTCGTTGTGAAGTTGAAATTTGACT
391 CAATATCCTTCGTTGTGAAGTTGAAATTTGACT
* * * *
617401 CTGAATTTGAGAAA-TGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTG
1 CTGAAATTGAGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCATGAAGCTGAACTTGCGTTG
*
617465 TCTGGAGTCCAATATCCTCCGTTGTGAAGTTGAAA-TTGGCTCTGAATTTGAGAAATGTTTGTTG
66 TCTGGAGTCCAATATCCTCCGTTGTGAAGTTGAAATTTGACTCTGAATTTGAGAAATGTTTGTTG
617529 ACAACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTCCGTTG
131 ACAACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTCCGTTG
617594 TGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGA
196 TGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGA
* * *
617659 AGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTAAATTT
261 AGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCATTGTGAAGTTGAAATTGACTCTAAATCT
*
617724 GAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGGGTC
326 GAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
617789 CAATATCCTTCGTTGTGAAGTTGAAATT
391 CAATATCCTTCGTTGTGAAGTTGAAATT
617817 GGCTCTGGGT
Statistics
Matches: 403, Mismatches: 13, Indels: 2
0.96 0.03 0.00
Matches are distributed among these distances:
421 310 0.77
422 81 0.20
423 12 0.03
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (423 bp):
CTGAAATTGAGAAATTGTTTATTGACAACCAGCGGTCCCTTCGTCATGAAGCTGAACTTGCGTTG
TCTGGAGTCCAATATCCTCCGTTGTGAAGTTGAAATTTGACTCTGAATTTGAGAAATGTTTGTTG
ACAACCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTCCGTTG
TGAAGTTGAAATTGGCTCTGAATTTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGA
AGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCATTGTGAAGTTGAAATTGACTCTAAATCT
GAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTC
CAATATCCTTCGTTGTGAAGTTGAAATTTGACT
Found at i:630479 original size:22 final size:23
Alignment explanation
Indices: 630438--630485 Score: 73
Period size: 22 Copynumber: 2.1 Consensus size: 23
630428 AGAAAAAATG
630438 TAAATATAATATAGTTTATAATA
1 TAAATATAATATAGTTTATAATA
630461 TAAATAT-ATATA-TTATATAATA
1 TAAATATAATATAGTT-TATAATA
630483 TAA
1 TAA
630486 GGACGAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 2 0.08
22 15 0.62
23 7 0.29
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (23 bp):
TAAATATAATATAGTTTATAATA
Found at i:631590 original size:10 final size:10
Alignment explanation
Indices: 631575--631604 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
631565 TTCATCATAC
631575 CAAATTCTCT
1 CAAATTCTCT
631585 CAAATTCTCT
1 CAAATTCTCT
*
631595 CAACTTCTCT
1 CAAATTCTCT
631605 TATAATCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.27, C:0.33, G:0.00, T:0.40
Consensus pattern (10 bp):
CAAATTCTCT
Found at i:631663 original size:9 final size:9
Alignment explanation
Indices: 631651--631684 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
631641 TAATATTTTG
631651 TATTTAATT
1 TATTTAATT
*
631660 TATTTAA-G
1 TATTTAATT
631668 TATTTAATT
1 TATTTAATT
631677 TATTTAAT
1 TATTTAAT
631685 ATTTTACTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (9 bp):
TATTTAATT
Found at i:631690 original size:17 final size:17
Alignment explanation
Indices: 631650--631688 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
631640 TTAATATTTT
631650 GTATTTAATTTATTTAA
1 GTATTTAATTTATTTAA
631667 GTATTTAATTTATTTAA
1 GTATTTAATTTATTTAA
631684 -TATTT
1 GTATTT
631689 TACTTAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (17 bp):
GTATTTAATTTATTTAA
Found at i:633893 original size:13 final size:13
Alignment explanation
Indices: 633848--633921 Score: 73
Period size: 13 Copynumber: 5.8 Consensus size: 13
633838 ATAGATTTTG
*
633848 TTTTTTTATTATA
1 TTTTTTTATTGTA
633861 TTTGTATTTA--GTA
1 TTT-T-TTTATTGTA
633874 -TTTTTTATTGTA
1 TTTTTTTATTGTA
* * *
633886 GTTGTTTATTGGA
1 TTTTTTTATTGTA
633899 TTTTTTTATTGTA
1 TTTTTTTATTGTA
633912 TTTTTTTATT
1 TTTTTTTATT
633922 TATCATTTAA
Statistics
Matches: 50, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
10 4 0.08
11 1 0.02
12 5 0.10
13 35 0.70
14 1 0.02
15 4 0.08
ACGTcount: A:0.18, C:0.00, G:0.11, T:0.72
Consensus pattern (13 bp):
TTTTTTTATTGTA
Found at i:633984 original size:33 final size:35
Alignment explanation
Indices: 633947--634020 Score: 93
Period size: 34 Copynumber: 2.2 Consensus size: 35
633937 ACTTTAATTC
633947 GTTAATA-TGGTTGGA-TTTATT-TTAATTTATTTT
1 GTTAATACTGGTTGGACTTT-TTGTTAATTTATTTT
*
633980 GTTAA-ACTTGTTGGACTTTTTGTTAATTTATTTT
1 GTTAATACTGGTTGGACTTTTTGTTAATTTATTTT
634014 GCTTAAT
1 G-TTAAT
634021 TTTGTTTATT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
32 1 0.03
33 14 0.40
34 16 0.46
35 4 0.11
ACGTcount: A:0.23, C:0.04, G:0.15, T:0.58
Consensus pattern (35 bp):
GTTAATACTGGTTGGACTTTTTGTTAATTTATTTT
Found at i:634715 original size:15 final size:15
Alignment explanation
Indices: 634695--634724 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
634685 TCTAGAGAAG
634695 CTTGTTACAAACATC
1 CTTGTTACAAACATC
*
634710 CTTGTTATAAACATC
1 CTTGTTACAAACATC
634725 TCATTTGATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.23, G:0.07, T:0.37
Consensus pattern (15 bp):
CTTGTTACAAACATC
Found at i:650859 original size:46 final size:46
Alignment explanation
Indices: 650792--650883 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
650782 TTATCTGGTT
650792 TCCTTTGCACATTCCTAAGCACATCTTGATTTCTTGGATGGCATTA
1 TCCTTTGCACATTCCTAAGCACATCTTGATTTCTTGGATGGCATTA
650838 TCCTTTGCACATTCCTAAGCACATCTTGATTTCTTGGATGGCATTA
1 TCCTTTGCACATTCCTAAGCACATCTTGATTTCTTGGATGGCATTA
650884 CTTGATAGAC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.22, C:0.24, G:0.15, T:0.39
Consensus pattern (46 bp):
TCCTTTGCACATTCCTAAGCACATCTTGATTTCTTGGATGGCATTA
Found at i:653702 original size:16 final size:16
Alignment explanation
Indices: 653654--653707 Score: 56
Period size: 15 Copynumber: 3.2 Consensus size: 16
653644 ATTTTAGAAA
*
653654 AAAATATATTATTAATT
1 AAAATATA-AATTAATT
*
653671 AAAAATATAAA-AAATT
1 -AAAATATAAATTAATT
653687 AAAATATAAATTAATTT
1 AAAATATAAATTAA-TT
653704 AAAA
1 AAAA
653708 ATTTCAAGGA
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
15 10 0.32
16 6 0.19
17 7 0.23
18 8 0.26
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
AAAATATAAATTAATT
Found at i:654137 original size:22 final size:21
Alignment explanation
Indices: 654103--654147 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
654093 CATAAGAAAA
* *
654103 TAATTTTTGATAACACATATAT
1 TAATGTTTAATAACA-ATATAT
*
654125 TAATGTTTAATAAGAATATAT
1 TAATGTTTAATAACAATATAT
654146 TA
1 TA
654148 TATACTTGTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.44
Consensus pattern (21 bp):
TAATGTTTAATAACAATATAT
Found at i:659990 original size:2 final size:2
Alignment explanation
Indices: 659985--660030 Score: 76
Period size: 2 Copynumber: 23.5 Consensus size: 2
659975 CCGTATAACT
*
659985 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA GA TA TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
660026 TA TA T
1 TA TA T
660031 CGTTAGCTTG
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:660603 original size:181 final size:182
Alignment explanation
Indices: 660278--660749 Score: 696
Period size: 181 Copynumber: 2.6 Consensus size: 182
660268 GATCCAAATT
* * **
660278 AAAAATGTA-CGATCCAAAACGATATAACAGGTAAAACTATGACAAAACCGGTATTGAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* * * * * * * *
660342 AAACCGGTAAAGCGCTACTGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTTC
66 AAACCGATAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGAATCGACACTTC
* *
660407 GTGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTTTA
131 GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
** *
660459 AAAAATGTATCGATCCAAAATAATATACCAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* *
660524 AAACCGATAAAACGTTACCGGATATATTGAAAGTGTCGATACTTT-ATATAAGAATCGACACTTT
66 AAACCGATAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGAATCGACACTTC
** *
660588 GTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAATGTGTCGATACTTTAA
131 GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
* * * *
660640 AAAAATATATCGATCCACAACGATATAACAAGTAAAAATATGATAAAACCGGTACCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
660705 AAACCGATAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
66 AAACCGATAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
660750 CGTAAGTACG
Statistics
Matches: 261, Mismatches: 29, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
181 175 0.67
182 86 0.33
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.26
Consensus pattern (182 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
AAACCGATAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGAATCGACACTTC
GTGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
Found at i:662960 original size:21 final size:21
Alignment explanation
Indices: 662934--663016 Score: 139
Period size: 21 Copynumber: 4.0 Consensus size: 21
662924 AAGATAATCA
662934 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAT
662955 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAT
*
662976 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAT
* *
662997 AGAGTCGAAGATACACTTGA
1 AGAGTCGAAGAGAAACTTGA
663017 GAGGCATAAG
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 59 1.00
ACGTcount: A:0.42, C:0.11, G:0.29, T:0.18
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAT
Found at i:663114 original size:33 final size:33
Alignment explanation
Indices: 663052--663117 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
663042 AAAATAGATG
* *
663052 AGTGGTGAAAGAATTAGAGTTGTTGAGGGGTGA
1 AGTGGTGAAAGAATTAGAGGTGTTAAGGGGTGA
*
663085 AGTGGTGAAAGAAGTT-GGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAA-TTAGAGGTGTTAAGGGGTGA
663118 TATTAAGATG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 27 0.93
34 2 0.07
ACGTcount: A:0.29, C:0.00, G:0.45, T:0.26
Consensus pattern (33 bp):
AGTGGTGAAAGAATTAGAGGTGTTAAGGGGTGA
Found at i:664844 original size:19 final size:19
Alignment explanation
Indices: 664820--664868 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
664810 AATGTAGGGT
664820 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
664839 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
664858 TAATTTTGTAT
1 TAATTTTGTAT
664869 GTAAATAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.33, C:0.02, G:0.10, T:0.55
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:666269 original size:200 final size:200
Alignment explanation
Indices: 665100--666246 Score: 1935
Period size: 200 Copynumber: 5.8 Consensus size: 200
665090 AATTTACAAT
* *
665100 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAGAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* *
665165 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAATCGGTACAAGTATACCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
*
665230 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCTATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
665295 AATGA
196 AATGA
* * * * *
665300 ATGACAAACAGGGTGCAACCATAAAGCGTCGATCAATATATAAAGAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* *
665365 CGAAACCCA-AACGTATAATGTAATAGGTAATTTTTCAATCTAATCGGTACAAGTATACCAGTTT
66 CGAAACCCATAA-GTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTT
665429 TATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCA
130 TATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCA
665494 GAATGA
195 GAATGA
*
665500 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATAT-AAAA-TGTCGATCCGATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
*
665563 CGAATCCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
665628 AT--GAGAA-AGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
665690 AATGA
196 AATGA
**
665695 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCTGATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
665760 CGAAA-CC-TAAGTATAA--T-ATAGGTAATTTTTCAATCTAACC-GTACAAGTATACCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
* *
665819 ATGAGAGAATAGGTCTAAATAATGTTTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
665884 AATGA
196 AATGA
665889 ATGGCAAACA-GGTGCAACAATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* *
665952 CGAAACCTATAAGTATAATATAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
*
666017 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
*
666082 ATTGA
196 AATGA
* * *
666087 ATGGCAAACATGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAATAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* * *
666152 CTAAACCCATAAGTATAATGTATTAGGTAATTTTTCAATCTAACCGGTACAAGTATACCAGTTTT
66 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
666217 ATGAGAGAATAGGTCTAAATAATGTATCGA
131 ATGAGAGAATAGGTCTAAATAATGTATCGA
666247 TACTGTTTAA
Statistics
Matches: 900, Mismatches: 32, Indels: 30
0.94 0.03 0.03
Matches are distributed among these distances:
191 21 0.02
192 49 0.05
193 37 0.04
194 77 0.09
195 110 0.12
196 12 0.01
197 44 0.05
198 174 0.19
199 36 0.04
200 340 0.38
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (200 bp):
ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
AATGA
Found at i:667756 original size:6 final size:6
Alignment explanation
Indices: 667745--667808 Score: 65
Period size: 6 Copynumber: 10.7 Consensus size: 6
667735 CAAGCGGTCA
* * * * *
667745 ATGAAG ATGAAG CTGACG ATGAAG ATGACG ATGAAG ATGACG ATGATG
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG
* *
667793 ATGATG ATGATG ATGA
1 ATGAAG ATGAAG ATGA
667809 TCCAAACAAG
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 50 1.00
ACGTcount: A:0.39, C:0.06, G:0.33, T:0.22
Consensus pattern (6 bp):
ATGAAG
Found at i:667794 original size:3 final size:3
Alignment explanation
Indices: 667762--667809 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
667752 TGAAGCTGAC
* * * *
667762 GAT GAA GAT GAC GAT GAA GAT GAC GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
667810 CCAAACAAGT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.38, C:0.04, G:0.33, T:0.25
Consensus pattern (3 bp):
GAT
Found at i:667809 original size:12 final size:12
Alignment explanation
Indices: 667745--667808 Score: 83
Period size: 12 Copynumber: 5.3 Consensus size: 12
667735 CAAGCGGTCA
*
667745 ATGAAGATGAAG
1 ATGACGATGAAG
*
667757 CTGACGATGAAG
1 ATGACGATGAAG
667769 ATGACGATGAAG
1 ATGACGATGAAG
*
667781 ATGACGATGATG
1 ATGACGATGAAG
* *
667793 ATGATGATGATG
1 ATGACGATGAAG
667805 ATGA
1 ATGA
667809 TCCAAACAAG
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 47 1.00
ACGTcount: A:0.39, C:0.06, G:0.33, T:0.22
Consensus pattern (12 bp):
ATGACGATGAAG
Found at i:669396 original size:183 final size:180
Alignment explanation
Indices: 669004--669403 Score: 719
Period size: 180 Copynumber: 2.2 Consensus size: 180
668994 AAGTTTTCAC
* *
669004 ACTTTTTAATATTGTGTCGGTACTTTATATCCAGAATGGAAGAAAAATGTGTCGATACCTTGTCA
1 ACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTATCGATACCTTGTCA
669069 AAAAGTGTCGACATTTACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACC
66 AAAAGTGTCGACATTTACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACC
669134 GGTATAAATATACCGTTTTATGAGCGAATAGGTCTACAACATATATCGAT
131 GGTATAAATATACCGTTTTATGAGCGAATAGGTCTACAACATATATCGAT
669184 ACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTATCGATACCTTGTCA
1 ACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTATCGATACCTTGTCA
*
669249 AAAAGTGTCGACATTTACACATCGGAACCCGGAATTATAATGTAATAGATAATTTTGTAATATAA
66 AAAAGTGTCGACATTT--ACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAA
* *
669314 CCGGTATAAATATACCGGTTTTATGAGCGAATATGTCTACAACCTATATCGAT
129 CCGGTATAAATATACC-GTTTTATGAGCGAATAGGTCTACAACATATATCGAT
*
669367 ACTTTTTAATTTTGTGTCGGTACTTTATGTCCAGAAT
1 ACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAAT
669404 TATAATGTAC
Statistics
Matches: 211, Mismatches: 6, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
180 79 0.37
182 62 0.29
183 70 0.33
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.35
Consensus pattern (180 bp):
ACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTATCGATACCTTGTCA
AAAAGTGTCGACATTTACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAACC
GGTATAAATATACCGTTTTATGAGCGAATAGGTCTACAACATATATCGAT
Found at i:669645 original size:301 final size:302
Alignment explanation
Indices: 669095--669989 Score: 1589
Period size: 301 Copynumber: 3.0 Consensus size: 302
669085 ACATCGGAAC
* * *
669095 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACC-GTTTTATGAGC
1 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATTAGC
* * * *
669159 GAATAGGTCTACAACATATATCGATACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
66 GAATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCTGTACTTTATGTCCAGAATGGA
* *
669224 AGAAAAATGTATCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCGGAATTATAA
131 AGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAA
*
669289 TGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATATGTCTAC
196 TGTAATAGATAATTTTGTAATATAACCGGTATAAATATACC-GTTTTATGAGCGAATAGGTCTAC
*
669354 AACCTATATCGATACTTTTTAATTTTGTGTCGGTACTTTATGT
260 AACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGT
669397 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATTAG-
1 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATTAGC
669461 GAATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCTGTACTTTATGTCCAGAATGGA
66 GAATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCTGTACTTTATGTCCAGAATGGA
* *
669526 A-AAAAATGTGTCTATACATTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAA
131 AGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAA
*
669590 TATAATAGATAATTTTGTAATATAACCGGTATAAATATACCAGTTTTATGAGCGAATAGGTCTAC
196 TGTAATAGATAATTTTGTAATATAACCGGTATAAATATACC-GTTTTATGAGCGAATAGGTCTAC
669655 AACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGT
260 AACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGT
669698 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATTAGC
1 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATTAGC
669763 GAATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCTGTACTTTATGTCCAGAATGGA
66 GAATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCTGTACTTTATGTCCAGAATGGA
**
669828 AGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACTTAGAATTATAA
131 AGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAA
669893 TGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGCGAATAGGTCTAC
196 TGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCG-TTTTATGAGCGAATAGGTCTAC
*
669958 AACCTATATCGACACTTTTTAATATTGTGTCG
260 AACCTATATCGACACTTTTTAATTTTGTGTCG
669990 CTAATTTTAA
Statistics
Matches: 568, Mismatches: 21, Indels: 7
0.95 0.04 0.01
Matches are distributed among these distances:
301 227 0.40
302 180 0.32
303 161 0.28
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (302 bp):
CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATTAGC
GAATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCTGTACTTTATGTCCAGAATGGA
AGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAA
TGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGTTTTATGAGCGAATAGGTCTACA
ACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGT
Found at i:669791 original size:120 final size:120
Alignment explanation
Indices: 669578--669824 Score: 422
Period size: 120 Copynumber: 2.1 Consensus size: 120
669568 ACATCGGAAC
669578 CCAGAATTATAATATAATAGATAATTTTGTAATATAACCGGTATAAATATACCAGTTTTATGAGC
1 CCAGAATTATAATATAATAGATAATTTTGTAATATAACCGGTATAAATATACCAGTTTTATGAGC
*
669643 GAATAGGTCTACAACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGT
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
* * * * *
669698 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATTAGC
1 CCAGAATTATAATATAATAGATAATTTTGTAATATAACCGGTATAAATATACCAGTTTTATGAGC
* *
669763 GAATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCTGTACTTTATGT
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
669818 CCAGAAT
1 CCAGAAT
669825 GGAAGAAAAA
Statistics
Matches: 119, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
120 119 1.00
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.38
Consensus pattern (120 bp):
CCAGAATTATAATATAATAGATAATTTTGTAATATAACCGGTATAAATATACCAGTTTTATGAGC
GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
Found at i:671386 original size:23 final size:23
Alignment explanation
Indices: 671360--671430 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
671350 AATAGGTAAA
*
671360 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
671383 ATATAATGTAATAGGTAGCG-TT
1 ATATAATGTAATAGGTAGCGCTT
*
671405 -TATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
671427 ATAT
1 ATAT
671431 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
21 18 0.41
22 4 0.09
23 22 0.50
ACGTcount: A:0.34, C:0.06, G:0.23, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:671410 original size:21 final size:21
Alignment explanation
Indices: 671365--671435 Score: 97
Period size: 21 Copynumber: 3.3 Consensus size: 21
671355 GTAAAATATG
671365 ATGTAATAGGTAGCGCTTATATA
1 ATGTAATAGGTAGCG-TT-TATA
671388 ATGTAATAGGTAGCGTTTATA
1 ATGTAATAGGTAGCGTTTATA
* *
671409 ATGTAATAGGTAGTGCTTATA
1 ATGTAATAGGTAGCGTTTATA
*
671430 TTGTAA
1 ATGTAA
671436 AGTATCTATC
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
21 28 0.62
22 2 0.04
23 15 0.33
ACGTcount: A:0.34, C:0.06, G:0.23, T:0.38
Consensus pattern (21 bp):
ATGTAATAGGTAGCGTTTATA
Found at i:674081 original size:26 final size:27
Alignment explanation
Indices: 674050--674120 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 27
674040 AATAGAAAAT
*
674050 ATCATAAAT-TACAA-TAAAATTTTACA
1 ATCATAAATCTA-AATTAAAAATTTACA
674076 ATCAT-AATCGTAAATTAAAAATTTACA
1 ATCATAAATC-TAAATTAAAAATTTACA
674103 ATCAT-AATCGTAAATTAA
1 ATCATAAATC-TAAATTAA
674121 GCATATAATT
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
25 3 0.07
26 7 0.17
27 31 0.76
ACGTcount: A:0.52, C:0.11, G:0.03, T:0.34
Consensus pattern (27 bp):
ATCATAAATCTAAATTAAAAATTTACA
Found at i:674094 original size:27 final size:27
Alignment explanation
Indices: 674064--674120 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
674054 TAAATTACAA
*
674064 TAAAATTTTACAATCATAATCGTAAAT
1 TAAAAATTTACAATCATAATCGTAAAT
674091 TAAAAATTTACAATCATAATCGTAAAT
1 TAAAAATTTACAATCATAATCGTAAAT
674118 TAA
1 TAA
674121 GCATATAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.51, C:0.11, G:0.04, T:0.35
Consensus pattern (27 bp):
TAAAAATTTACAATCATAATCGTAAAT
Found at i:676319 original size:24 final size:25
Alignment explanation
Indices: 676292--676341 Score: 84
Period size: 24 Copynumber: 2.0 Consensus size: 25
676282 GTGAACAAGG
676292 AAAGAGGATGAGAACAACT-AACTT
1 AAAGAGGATGAGAACAACTAAACTT
*
676316 AAAGAGGATGAGAAGAACTAAACTT
1 AAAGAGGATGAGAACAACTAAACTT
676341 A
1 A
676342 CCCAGGAGGG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 18 0.75
25 6 0.25
ACGTcount: A:0.52, C:0.10, G:0.22, T:0.16
Consensus pattern (25 bp):
AAAGAGGATGAGAACAACTAAACTT
Found at i:679582 original size:40 final size:41
Alignment explanation
Indices: 679508--679584 Score: 129
Period size: 40 Copynumber: 1.9 Consensus size: 41
679498 ATTTTTTTGT
* *
679508 CAATTAGACCACCTAGTTATTTAATTATTATCAATCATTGC
1 CAATTAGACCACCTAATCATTTAATTATTATCAATCATTGC
679549 CAATTAGACCACCTAATCA-TTAATTATTATCAATCA
1 CAATTAGACCACCTAATCATTTAATTATTATCAATCA
679585 GTCACTAACT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
40 17 0.50
41 17 0.50
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.36
Consensus pattern (41 bp):
CAATTAGACCACCTAATCATTTAATTATTATCAATCATTGC
Found at i:680849 original size:22 final size:22
Alignment explanation
Indices: 680824--680910 Score: 106
Period size: 21 Copynumber: 4.0 Consensus size: 22
680814 ATGAGTGGCA
* * *
680824 TGTGAATATATCCCGAATGACC
1 TGTGAGTATGTCCCGAAGGACC
680846 TGTGAGTATGT-CCGAAGGACC
1 TGTGAGTATGTCCCGAAGGACC
*
680867 TATGAGTATGTCCCGAAGGACC
1 TGTGAGTATGTCCCGAAGGACC
* *
680889 TATGAGTA-GTCCTGAAGGACC
1 TGTGAGTATGTCCCGAAGGACC
680910 T
1 T
680911 ATGAAACCCT
Statistics
Matches: 59, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
21 32 0.54
22 27 0.46
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (22 bp):
TGTGAGTATGTCCCGAAGGACC
Found at i:680861 original size:21 final size:21
Alignment explanation
Indices: 680836--680914 Score: 115
Period size: 21 Copynumber: 3.7 Consensus size: 21
680826 TGAATATATC
* *
680836 CCGAATGACCTGTGAGTATGT
1 CCGAAGGACCTATGAGTATGT
680857 CCGAAGGACCTATGAGTATGT
1 CCGAAGGACCTATGAGTATGT
680878 CCCGAAGGACCTATGAGTA-GT
1 -CCGAAGGACCTATGAGTATGT
680899 CCTGAAGGACCTATGA
1 CC-GAAGGACCTATGA
680915 AACCCTCGAC
Statistics
Matches: 54, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
20 2 0.04
21 34 0.63
22 18 0.33
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.23
Consensus pattern (21 bp):
CCGAAGGACCTATGAGTATGT
Found at i:681155 original size:23 final size:23
Alignment explanation
Indices: 681125--681174 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
681115 TTTCTCATAC
681125 ATCACATAAACCCATATCTTCTT
1 ATCACATAAACCCATATCTTCTT
*
681148 ATCACATAAACCCGTATCTTCTT
1 ATCACATAAACCCATATCTTCTT
681171 ATCA
1 ATCA
681175 TATCATTCAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.34, C:0.30, G:0.02, T:0.34
Consensus pattern (23 bp):
ATCACATAAACCCATATCTTCTT
Found at i:682035 original size:23 final size:23
Alignment explanation
Indices: 682005--682054 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
681995 TTTCTCATAC
682005 ATCACATAAACCCATATCTTCTT
1 ATCACATAAACCCATATCTTCTT
*
682028 ATCACATAAACCCGTATCTTCTT
1 ATCACATAAACCCATATCTTCTT
682051 ATCA
1 ATCA
682055 TATCATTCAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.34, C:0.30, G:0.02, T:0.34
Consensus pattern (23 bp):
ATCACATAAACCCATATCTTCTT
Found at i:682628 original size:884 final size:880
Alignment explanation
Indices: 680905--682669 Score: 3250
Period size: 880 Copynumber: 2.0 Consensus size: 880
680895 TAGTCCTGAA
680905 GGACCTATGAAACCCTCGACTCTTGGCATGTCACCTATACCTCTAGCTCTCCTGACACTTACATG
1 GGACCTATGAAACCCTCGACTCTTGGCATGTCACCTATACCTCTAGCTCTCCTGACACTTACATG
680970 GGCATTCCTTTCATATCATTTCACATATTCGCATGTACATTTCACTTTTCATATGATTTCATAAC
66 GGCATTCCTTTCATATCATTTCACATATTCGCATGTACATTTCACTTTTCATATGATTTCATAAC
*
681035 CATATCACTTATCTTATAAACACTTCTCTTGTGTTCATATGAAATATATATATATCATTGCCATC
131 CATATCACTTATCTCATAAACACTTCTCTTGTGTTCATATGAAATATATATATATCATTGCCATC
681100 ATTTGTTCACATATGTTTCTCATACATCACATAAACCCATATCTTCTTATCACATAAACCCGTAT
196 ATTTGTTCACATATGTTTCTCATACATCACATAAACCCATATCTTCTTATCACATAAACCCGTAT
681165 CTTCTTATCATATCATTCACATCACTTTTTATATAACTCATGATACATAAATATCGCATATCACA
261 CTTCTTATCATATCATTCACATCACTTTTTATATAACTCATGATACATAAATATCGCATATCACA
681230 TATAAACACATAGATCATTTCCACATAACTTATATTAACTTTCCAAGCCATTTCATATTACTAGT
326 TATAAACACATAGATCATTTCCACATAACTTATATTAACTTTCCAAGCCATTTCATATTACTAGT
681295 CCAATTGTTTAATAATATATTTATATATGTATAACTTATAACATTCATATAGCTGTGCTTCATTC
391 CCAATTGTTTAATAATATATTTATATATGTATAACTTATAACATTCATATAGCTGTGCTTCATTC
*
681360 TCTTATACTTATCTAGATCATGCAACCTATTCTTACTTATATATATATATTATATATACATATAT
456 TCTTATACTTATCTAGATCATGCAACCTATTCTTACTTATATATATATATTATACATA-ATATAT
681425 TCACTTCTATTGCTCTTTTATATACAAATTAATCTATTTAATTCAAGTTCATATATTCCTATAAT
520 TCACTTCTATTGCTCTTTTATATACAAATTAATCTATTTAATTCAAGTTCATATATTCCTATAAT
681490 CATCTCAATATGGCTCCATAGATATCTATCATACAACCCATGTGTCATAATTTTATTTAAGCATA
585 CATCTCAATATGGCTCCATAGATATCTATCATACAACCCATGTGTCATAATTTTATTTAAGCATA
681555 TGTATCTTTCTCATCTAGCTCTCTTATGCGTTCATATTATCACTTATGTTCAAGCCTTCTAGTTA
650 TGTATCTTTCTCATCTAGCTCTCTTATGCGTTCATATTATCACTTATGTTCAAGCCTTCTAGTTA
681620 ATATACTATTCTCATTTCATCCTATAGGTCAATATATTTAGCTTACTTCGCTCATATCATTCCTC
715 ATATACTATTCTCATTTCATCCTATAGGTCAATATATTTAGCTTACTTCGCTCATATCATTCCTC
681685 ACAACTCACTTTTATGATACTCTCATATTATACTTAATTACTTATAGTTACATTTTCATGTA-TA
780 ACAACTCACTTTTATGATACTCTCATATTATACTTAATTACTTATAGTTACATTTTCATGTACTA
681749 CATATATC-TGTCACA-GACTTATCTAATATTATTT
845 CATATATCTTGTCACATGACTTATCTAATATTATTT
681783 GGACCTATGAAACCCTCGACTCTTGGCATGTCACCTATACCTCTAGCTCTCCTGACACTTACATG
1 GGACCTATGAAACCCTCGACTCTTGGCATGTCACCTATACCTCTAGCTCTCCTGACACTTACATG
681848 GGCATTCTCTTTCATATCATTTCACATATTCGCATGTACATTTCA-TTTTCATATGATTTCATAA
66 GGCATTC-CTTTCATATCATTTCACATATTCGCATGTACATTTCACTTTTCATATGATTTCATAA
681912 CCATATATCACTTATCTCATAAACACTTCTCTTGTGTTCATATGAAATATATATATATCATTGCC
130 CC--ATATCACTTATCTCATAAACACTTCTCTTGTGTTCATATGAAATATATATATATCATTGCC
681977 ATCATTTGTTCACATATGTTTCTCATACATCACATAAACCCATATCTTCTTATCACATAAACCCG
193 ATCATTTGTTCACATATGTTTCTCATACATCACATAAACCCATATCTTCTTATCACATAAACCCG
682042 TATCTTCTTATCATATCATTCACATCACTTATTTTCATATAACTCATGATTACATAAATATCGCA
258 TATCTTCTTATCATATCATTCACATCAC-T-TTTT-ATATAACTCATGA-TACATAAATATCGCA
682107 TATCACATATAAACACATAGATCATTTCCACATAACTTATATTAACTTTCCAAGCCATTTCATAT
319 TATCACATATAAACACATAGATCATTTCCACATAACTTATATTAACTTTCCAAGCCATTTCATAT
682172 TACTAGTCCAATTGTTTAATAATAT-TTTCATATATGTATATAACTTATAACATATCATATAGCT
384 TACTAGTCCAATTGTTTAATAATATATTT-ATATATG--TATAACTTATAACAT-TCATATAGCT
682236 -TGCTTCATTCTCTTATACTTATCTAGATCATGCAACCTATTCTTAC-T-TATATATATA-TATA
445 GTGCTTCATTCTCTTATACTTATCTAGATCATGCAACCTATTCTTACTTATATATATATATTATA
682297 CAT-ATAT-TTCACTTCTATTGCTTCTTTTATATACAAATTAATCTATTTAATTCAAGTTCATAT
510 CATAATATATTCACTTCTATTGC-TCTTTTATATACAAATTAATCTATTTAATTCAAGTTCATAT
682360 AATTCCTATAATCATCTC-ATATGGCTCCATAGATATCTATCATACAACCCATGTGTCATAATTT
574 -ATTCCTATAATCATCTCAATATGGCTCCATAGATATCTATCATACAACCCATGTGTCATAATTT
682424 TATTTAAGCATATGTATCTTTCTCATCTAGCTCATCTTATGCGTTCATATTATCACTTATGTTCA
638 TATTTAAGCATATGTATCTTTCTCATCTAGCTC-TCTTATGCGTTCATATTATCACTTATGTTCA
*
682489 AGCCTTCTAGTTAATATACTATTCTCATTTCCTCCTATAGGTCAATATTATTTAGCTTACTTCGC
702 AGCCTTCTAGTTAATATACTATTCTCATTTCATCCTATAGGTCAATA-TATTTAGCTTACTTCGC
682554 TCATATCATTCCTCACAAACTCACTTTTATGATACTCTCATATTATTACTTAATTACTTATA-TT
766 TCATATCATTCCTCAC-AACTCACTTTTATGATACTCTCATATTA-TACTTAATTACTTATAGTT
682618 ACATTTTCATGTACTACATATATCTTGTCACATGACTTATCTAATATTATTT
829 ACATTTTCATGTACTACATATATCTTGTCACATGACTTATCTAATATTATTT
682670 ATACTAAGTT
Statistics
Matches: 864, Mismatches: 3, Indels: 31
0.96 0.00 0.03
Matches are distributed among these distances:
878 93 0.11
879 37 0.04
880 167 0.19
881 125 0.14
882 98 0.11
883 55 0.06
884 165 0.19
885 27 0.03
886 68 0.08
887 29 0.03
ACGTcount: A:0.31, C:0.22, G:0.06, T:0.41
Consensus pattern (880 bp):
GGACCTATGAAACCCTCGACTCTTGGCATGTCACCTATACCTCTAGCTCTCCTGACACTTACATG
GGCATTCCTTTCATATCATTTCACATATTCGCATGTACATTTCACTTTTCATATGATTTCATAAC
CATATCACTTATCTCATAAACACTTCTCTTGTGTTCATATGAAATATATATATATCATTGCCATC
ATTTGTTCACATATGTTTCTCATACATCACATAAACCCATATCTTCTTATCACATAAACCCGTAT
CTTCTTATCATATCATTCACATCACTTTTTATATAACTCATGATACATAAATATCGCATATCACA
TATAAACACATAGATCATTTCCACATAACTTATATTAACTTTCCAAGCCATTTCATATTACTAGT
CCAATTGTTTAATAATATATTTATATATGTATAACTTATAACATTCATATAGCTGTGCTTCATTC
TCTTATACTTATCTAGATCATGCAACCTATTCTTACTTATATATATATATTATACATAATATATT
CACTTCTATTGCTCTTTTATATACAAATTAATCTATTTAATTCAAGTTCATATATTCCTATAATC
ATCTCAATATGGCTCCATAGATATCTATCATACAACCCATGTGTCATAATTTTATTTAAGCATAT
GTATCTTTCTCATCTAGCTCTCTTATGCGTTCATATTATCACTTATGTTCAAGCCTTCTAGTTAA
TATACTATTCTCATTTCATCCTATAGGTCAATATATTTAGCTTACTTCGCTCATATCATTCCTCA
CAACTCACTTTTATGATACTCTCATATTATACTTAATTACTTATAGTTACATTTTCATGTACTAC
ATATATCTTGTCACATGACTTATCTAATATTATTT
Found at i:686195 original size:19 final size:19
Alignment explanation
Indices: 686168--686233 Score: 60
Period size: 19 Copynumber: 3.3 Consensus size: 19
686158 AAAAACATAA
* *
686168 CCCCAAGGGGGTATCGATT
1 CCCCTAGGGGGAATCGATT
*
686187 CCCCTAGGGGGAATCGGTT
1 CCCCTAGGGGGAATCGATT
*
686206 CCCCTTTAAAGGGGGAATCGGTT
1 CCCC--T--AGGGGGAATCGATT
686229 CCCCT
1 CCCCT
686234 TCAAGGGGCT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
19 20 0.50
21 2 0.05
23 18 0.45
ACGTcount: A:0.18, C:0.29, G:0.30, T:0.23
Consensus pattern (19 bp):
CCCCTAGGGGGAATCGATT
Found at i:686247 original size:22 final size:23
Alignment explanation
Indices: 686192--686253 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
686182 CGATTCCCCT
*
686192 AGGGGGAATCGGTTCCCCTTTAA
1 AGGGGCAATCGGTTCCCCTTTAA
* *
686215 AGGGGGAATCGGTTCCCC-TTCA
1 AGGGGCAATCGGTTCCCCTTTAA
* *
686237 AGGGGCTATCGATTCCC
1 AGGGGCAATCGGTTCCC
686254 TCTGCCCTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
22 17 0.49
23 18 0.51
ACGTcount: A:0.19, C:0.26, G:0.31, T:0.24
Consensus pattern (23 bp):
AGGGGCAATCGGTTCCCCTTTAA
Found at i:694111 original size:44 final size:41
Alignment explanation
Indices: 694034--694115 Score: 110
Period size: 44 Copynumber: 1.9 Consensus size: 41
694024 ACAAGGCGAT
* *
694034 TTTGAAAAATGTGTTGCGATAGTTAAAATGTGTTGCGAGAG
1 TTTGAAAAATGTGTTGCGATAGTGAAAAAGTGTTGCGAGAG
*
694075 TTTGAAAAACGTGTTGTTGTGATAGTGAAAAAGTGTTGCGA
1 TTTGAAAAA--TG-TGTTGCGATAGTGAAAAAGTGTTGCGA
694116 TAGTGAAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
41 9 0.26
43 2 0.06
44 24 0.69
ACGTcount: A:0.32, C:0.05, G:0.29, T:0.34
Consensus pattern (41 bp):
TTTGAAAAATGTGTTGCGATAGTGAAAAAGTGTTGCGAGAG
Found at i:694125 original size:19 final size:20
Alignment explanation
Indices: 694036--694126 Score: 96
Period size: 19 Copynumber: 4.4 Consensus size: 20
694026 AAGGCGATTT
694036 TGAAAAATGTGTTGCGATAG
1 TGAAAAATGTGTTGCGATAG
* *
694056 T-TAAAATGTGTTGCGAGAG
1 TGAAAAATGTGTTGCGATAG
*
694075 TTTGAAAAACGTGTTGTTGTGATAG
1 --TGAAAAA--TG-TGTTGCGATAG
694100 TGAAAAA-GTGTTGCGATAG
1 TGAAAAATGTGTTGCGATAG
694119 TGAAAAAT
1 TGAAAAAT
694127 CCAAAATAAG
Statistics
Matches: 58, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
19 33 0.57
20 2 0.03
21 1 0.02
22 4 0.07
23 7 0.12
24 2 0.03
25 9 0.16
ACGTcount: A:0.35, C:0.04, G:0.29, T:0.32
Consensus pattern (20 bp):
TGAAAAATGTGTTGCGATAG
Found at i:694565 original size:21 final size:20
Alignment explanation
Indices: 694541--694648 Score: 89
Period size: 21 Copynumber: 5.3 Consensus size: 20
694531 ATTTTGGAAA
694541 ATCGCAATGCGAACTTTGACT
1 ATCGCAA-GCGAACTTTGACT
**
694562 ATCGCAA-CGAA-TTTGGAAA
1 ATCGCAAGCGAACTTT-GACT
*
694581 ATCGCAACGCGAACTTCGACT
1 ATCGCAA-GCGAACTTTGACT
**
694602 ATCGCAA-CGAA-TTTGAAAA
1 ATCGCAAGCGAACTTTG-ACT
*
694621 ATCGCAACGCGAACTTGGACT
1 ATCGCAA-GCGAACTTTGACT
694642 ATCGCAA
1 ATCGCAA
694649 AATCGCATTG
Statistics
Matches: 68, Mismatches: 11, Indels: 16
0.72 0.12 0.17
Matches are distributed among these distances:
18 6 0.09
19 25 0.37
21 32 0.47
22 5 0.07
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.21
Consensus pattern (20 bp):
ATCGCAAGCGAACTTTGACT
Found at i:694577 original size:40 final size:40
Alignment explanation
Indices: 694533--694648 Score: 196
Period size: 40 Copynumber: 2.9 Consensus size: 40
694523 TCGTTGCGAT
* *
694533 TTTGGAAAATCGCAATGCGAACTTTGACTATCGCAACGAA
1 TTTGGAAAATCGCAACGCGAACTTCGACTATCGCAACGAA
694573 TTTGGAAAATCGCAACGCGAACTTCGACTATCGCAACGAA
1 TTTGGAAAATCGCAACGCGAACTTCGACTATCGCAACGAA
* *
694613 TTTGAAAAATCGCAACGCGAACTTGGACTATCGCAA
1 TTTGGAAAATCGCAACGCGAACTTCGACTATCGCAA
694649 AATCGCATTG
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 72 1.00
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.22
Consensus pattern (40 bp):
TTTGGAAAATCGCAACGCGAACTTCGACTATCGCAACGAA
Found at i:694584 original size:19 final size:19
Alignment explanation
Indices: 694533--694629 Score: 79
Period size: 19 Copynumber: 4.9 Consensus size: 19
694523 TCGTTGCGAT
694533 TTTGGAAAATCGCAATGCGAA
1 TTTGGAAAATCGCAA--CGAA
**
694554 CTTT-GACTATCGCAACGAA
1 -TTTGGAAAATCGCAACGAA
694573 TTTGGAAAATCGCAACGCGAA
1 TTTGGAAAATCGCAA--CGAA
* * **
694594 CTTCGACTATCGCAACGAA
1 TTTGGAAAATCGCAACGAA
*
694613 TTTGAAAAATCGCAACG
1 TTTGGAAAATCGCAACG
694630 CGAACTTGGA
Statistics
Matches: 59, Mismatches: 13, Indels: 9
0.73 0.16 0.11
Matches are distributed among these distances:
18 3 0.05
19 29 0.49
21 24 0.41
22 3 0.05
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.23
Consensus pattern (19 bp):
TTTGGAAAATCGCAACGAA
Found at i:696036 original size:19 final size:20
Alignment explanation
Indices: 695996--696036 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
695986 ACTTTAAAGA
*
695996 TAAAAAAGTATTTTTATTAT
1 TAAAAAAGTATTTTTATAAT
696016 TAAAAAA-TATATTTT-TAAT
1 TAAAAAAGTAT-TTTTATAAT
696035 TA
1 TA
696037 CGTGGACTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (20 bp):
TAAAAAAGTATTTTTATAAT
Found at i:701999 original size:2 final size:2
Alignment explanation
Indices: 701992--702040 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
701982 CGTTCTCGTG
701992 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
702034 TA TA TA T
1 TA TA TA T
702041 GATTTGTTGA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:703558 original size:75 final size:76
Alignment explanation
Indices: 703449--703645 Score: 285
Period size: 75 Copynumber: 2.6 Consensus size: 76
703439 ACAGTTTTTG
* *
703449 AAAACGTATAATATATAG-TTTT-AAAAACGATTTTTGAAAACATATATAATATAGTTTTTGAAA
1 AAAACATATAGTATATAGTTTTTAAAAAACGATTTTTGAAAACATATATAATATAGTTTTTGAAA
*
703512 ACATGCTTTT-A
66 ACAT-ATTTTAA
* *
703523 AAAA-ATATAGTATATAGTTTTTAAAAAAGGGTTTTTGAAAACATATATAATATAGTTTTTGAAA
1 AAAACATATAGTATATAGTTTTTAAAAAACGATTTTTGAAAACATATATAATATAGTTTTTGAAA
703587 ACATATTTTAA
66 ACATATTTTAA
**
703598 AAAACATATAGTATATAGTTTTTTAAAAAATAATTTTTGAAAACATAT
1 AAAACATATAGTATATAG-TTTTTAAAAAACGATTTTTGAAAACATAT
703646 TATTTTGAAA
Statistics
Matches: 110, Mismatches: 8, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
73 11 0.10
74 12 0.11
75 48 0.44
76 13 0.12
77 26 0.24
ACGTcount: A:0.47, C:0.05, G:0.09, T:0.40
Consensus pattern (76 bp):
AAAACATATAGTATATAGTTTTTAAAAAACGATTTTTGAAAACATATATAATATAGTTTTTGAAA
ACATATTTTAA
Found at i:703577 original size:38 final size:37
Alignment explanation
Indices: 703443--703645 Score: 184
Period size: 38 Copynumber: 5.4 Consensus size: 37
703433 ATATATACAG
* *
703443 TTTTTGAAAACGTATA-ATATATAG-TTTTAAAAACGA
1 TTTTTGAAAACATATATA-ATATAGTTTTTAAAAAAGA
*
703479 TTTTTGAAAACATATATAATATAGTTTTTGAAAACATG-
1 TTTTTGAAAACATATATAATATAGTTTTT-AAAA-AAGA
* * *
703517 CTTTT-AAAAAATATAGT-ATATAGTTTTTAAAAAAGGG
1 TTTTTGAAAACATATA-TAATATAGTTTTTAAAAAA-GA
* *
703554 TTTTTGAAAACATATATAATATAGTTTTTGAAAACATA
1 TTTTTGAAAACATATATAATATAGTTTTT-AAAAAAGA
** *
703592 TTTTAAAAAACATATAGT-ATATAGTTTTTTAAAAAATAA
1 TTTTTGAAAACATATA-TAATATAG-TTTTTAAAAAA-GA
703631 TTTTTGAAAACATAT
1 TTTTTGAAAACATAT
703646 TATTTTGAAA
Statistics
Matches: 138, Mismatches: 16, Indels: 23
0.78 0.09 0.13
Matches are distributed among these distances:
35 1 0.01
36 26 0.19
37 30 0.22
38 54 0.39
39 27 0.20
ACGTcount: A:0.45, C:0.04, G:0.09, T:0.41
Consensus pattern (37 bp):
TTTTTGAAAACATATATAATATAGTTTTTAAAAAAGA
Found at i:703680 original size:53 final size:53
Alignment explanation
Indices: 703578--703681 Score: 138
Period size: 54 Copynumber: 1.9 Consensus size: 53
703568 TATAATATAG
***
703578 TTTTTGAAAACATATTTTAAAAAACATATAGTATATAGTTTTTTAAAAAATAA
1 TTTTTGAAAACATATTTTAAAAAACATATAGTATATACAGTTTTAAAAAATAA
**
703631 TTTTTGAAAACATATTATTTTGAAAACATATA-TATATACAGTTTTAAAAAA
1 TTTTTGAAAACATA-T-TTTAAAAAACATATAGTATATACAGTTTTAAAAAA
703682 CGGGTTTTGA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
53 14 0.32
54 17 0.39
55 13 0.30
ACGTcount: A:0.48, C:0.05, G:0.06, T:0.41
Consensus pattern (53 bp):
TTTTTGAAAACATATTTTAAAAAACATATAGTATATACAGTTTTAAAAAATAA
Found at i:703690 original size:54 final size:53
Alignment explanation
Indices: 703579--703693 Score: 124
Period size: 54 Copynumber: 2.2 Consensus size: 53
703569 ATAATATAGT
*** * *
703579 TTTTGAAAACATATTTTAAAAAACATATAGTATATAGTTTTTTAAAAAATAAT
1 TTTTGAAAACATATTTTAAAAAACATATAGTATATACAGTTTTAAAAAACAAG
** **
703632 TTTTGAAAACATATTATTTTGAAAACATATA-TATATACAGTTTTAAAAAACGGG
1 TTTTGAAAACATA-T-TTTAAAAAACATATAGTATATACAGTTTTAAAAAACAAG
703686 TTTTGAAA
1 TTTTGAAA
703694 TTTTCTCCTC
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
53 13 0.25
54 25 0.49
55 13 0.25
ACGTcount: A:0.46, C:0.05, G:0.09, T:0.40
Consensus pattern (53 bp):
TTTTGAAAACATATTTTAAAAAACATATAGTATATACAGTTTTAAAAAACAAG
Found at i:706299 original size:14 final size:16
Alignment explanation
Indices: 706270--706306 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
706260 TATTGTTTCT
706270 TTTTTAATTATAAATA
1 TTTTTAATTATAAATA
706286 TTTTTAATTA-AATATA
1 TTTTTAATTATAA-ATA
706302 TTTTT
1 TTTTT
706307 CTTATCGCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 2 0.10
16 18 0.90
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TTTTTAATTATAAATA
Found at i:709612 original size:10 final size:10
Alignment explanation
Indices: 709587--709626 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
709577 GTCGGTATTC
709587 TTTATTTTCCT
1 TTTATTTT-CT
709598 TTTATTTTCT
1 TTTATTTTCT
* *
709608 CTTATTTTTT
1 TTTATTTTCT
709618 TTTATTTTC
1 TTTATTTTC
709627 AATAAGTCTG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
10 17 0.68
11 8 0.32
ACGTcount: A:0.10, C:0.12, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTATTTTCT
Found at i:709620 original size:20 final size:20
Alignment explanation
Indices: 709584--709626 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
709574 ATTGTCGGTA
709584 TTCTTTATTTTCCTTTTATT
1 TTCTTTATTTTCCTTTTATT
*
709604 TTCTCTTATTTT-TTTTTATT
1 TTCT-TTATTTTCCTTTTATT
709624 TTC
1 TTC
709627 AATAAGTCTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.09, C:0.14, G:0.00, T:0.77
Consensus pattern (20 bp):
TTCTTTATTTTCCTTTTATT
Found at i:709690 original size:23 final size:23
Alignment explanation
Indices: 709633--709683 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
709623 TTTCAATAAG
**
709633 TCTGCATAAATGGTACATTTTAT
1 TCTGCATGTATGGTACATTTTAT
709656 TCTGCATGTATGGTACATTTTAT
1 TCTGCATGTATGGTACATTTTAT
709679 TCTGC
1 TCTGC
709684 CTTTATGACA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.45
Consensus pattern (23 bp):
TCTGCATGTATGGTACATTTTAT
Found at i:709696 original size:23 final size:23
Alignment explanation
Indices: 709647--709703 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
709637 CATAAATGGT
**
709647 ACATTTTATTCTGCATGTATGGT
1 ACATTTTATTCTGCATGTATGAC
* *
709670 ACATTTTATTCTGCCTTTATGAC
1 ACATTTTATTCTGCATGTATGAC
709693 ACATTTT-TTCT
1 ACATTTTATTCT
709704 TCTTCTTTTG
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
22 4 0.13
23 26 0.87
ACGTcount: A:0.21, C:0.18, G:0.11, T:0.51
Consensus pattern (23 bp):
ACATTTTATTCTGCATGTATGAC
Found at i:710816 original size:30 final size:30
Alignment explanation
Indices: 710768--710864 Score: 95
Period size: 30 Copynumber: 3.2 Consensus size: 30
710758 TATTTTCAAT
*
710768 ATTTTTTCTAACATTTGTTATTAGGGGTCTA
1 ATTTTTTC-AATATTTGTTATTAGGGGTCTA
* * * * * *
710799 ATTTTTTCAATACTTGTTGTCACGAGCCTA
1 ATTTTTTCAATATTTGTTATTAGGGGTCTA
* *
710829 ATATTTTCAATATTTGTTATTAGGGGTATA
1 ATTTTTTCAATATTTGTTATTAGGGGTCTA
*
710859 CTTTTT
1 ATTTTT
710865 AAATTTTAAT
Statistics
Matches: 49, Mismatches: 17, Indels: 1
0.73 0.25 0.01
Matches are distributed among these distances:
30 41 0.84
31 8 0.16
ACGTcount: A:0.24, C:0.11, G:0.14, T:0.51
Consensus pattern (30 bp):
ATTTTTTCAATATTTGTTATTAGGGGTCTA
Found at i:710945 original size:30 final size:30
Alignment explanation
Indices: 710890--710966 Score: 104
Period size: 30 Copynumber: 2.6 Consensus size: 30
710880 TTCTAATATT
*
710890 TATTTATTATTATGAGTCTAATTTTTTCAG
1 TATTTATTATTATGAGTCTAATTTTTTCAA
*
710920 TACTTTTTTATTAT-AGGTC-AATTTTTTCAA
1 TA-TTTATTATTATGA-GTCTAATTTTTTCAA
710950 TATTTATTATTATGAGT
1 TATTTATTATTATGAGT
710967 GTACTCTTAA
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
29 12 0.29
30 16 0.39
31 13 0.32
ACGTcount: A:0.27, C:0.06, G:0.09, T:0.57
Consensus pattern (30 bp):
TATTTATTATTATGAGTCTAATTTTTTCAA
Found at i:711020 original size:72 final size:70
Alignment explanation
Indices: 710941--711074 Score: 162
Period size: 72 Copynumber: 1.9 Consensus size: 70
710931 TATAGGTCAA
* * ** * *
710941 TTTTTTCAATATTTATTATTAT-GAGTGTACTCTTAAATTTTACTTTTTTAATATTTGTTATTAG
1 TTTTTTCAATACTTATTATTATGGAG-CTACTC-TAAAAATT-CATTTTTAATACTTGTTATTAG
711005 AGACTCAT
63 AGACTCAT
* *
711013 TTTTTTCAATACTTGTTATTGTGGAGCTACTCTAAAAATTCATTTTTAATACTTGTTATTAG
1 TTTTTTCAATACTTATTATTATGGAGCTACTCTAAAAATTCATTTTTAATACTTGTTATTAG
711075 GAATAATTAC
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
70 20 0.38
71 6 0.11
72 24 0.45
73 3 0.06
ACGTcount: A:0.28, C:0.10, G:0.10, T:0.53
Consensus pattern (70 bp):
TTTTTTCAATACTTATTATTATGGAGCTACTCTAAAAATTCATTTTTAATACTTGTTATTAGAGA
CTCAT
Found at i:711380 original size:2 final size:2
Alignment explanation
Indices: 711373--711399 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
711363 TTCAGACTCA
711373 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
711400 ATCAAATGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:714190 original size:12 final size:12
Alignment explanation
Indices: 714171--714218 Score: 55
Period size: 12 Copynumber: 4.2 Consensus size: 12
714161 TTTTTGGTCA
*
714171 AAGTCAACGGTC
1 AAGTCAACAGTC
*
714183 AGGTCAACAGTC
1 AAGTCAACAGTC
*
714195 AAGTCAACAATC
1 AAGTCAACAGTC
714207 AA-TCAA-AGTC
1 AAGTCAACAGTC
714217 AA
1 AA
714219 AAAGTTGAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
10 5 0.16
11 4 0.13
12 22 0.71
ACGTcount: A:0.44, C:0.23, G:0.17, T:0.17
Consensus pattern (12 bp):
AAGTCAACAGTC
Found at i:714269 original size:13 final size:14
Alignment explanation
Indices: 714236--714275 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
714226 AATATGTTCG
*
714236 AGTTGACTCAACTA
1 AGTTGACTCAGCTA
*
714250 GGTTGACTCAGC-A
1 AGTTGACTCAGCTA
714263 AGTTGACTCAGCT
1 AGTTGACTCAGCT
714276 CGACCGGTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.28
Consensus pattern (14 bp):
AGTTGACTCAGCTA
Found at i:716809 original size:17 final size:18
Alignment explanation
Indices: 716775--716810 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
716765 ATCATGAATA
*
716775 ATTAATTTTGATTCTGAT
1 ATTAATTTTGAATCTGAT
716793 ATTAATTTT-AATCTGAT
1 ATTAATTTTGAATCTGAT
716810 A
1 A
716811 CAAAATATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.33, C:0.06, G:0.08, T:0.53
Consensus pattern (18 bp):
ATTAATTTTGAATCTGAT
Found at i:723589 original size:40 final size:40
Alignment explanation
Indices: 723534--723636 Score: 206
Period size: 40 Copynumber: 2.6 Consensus size: 40
723524 GCGTTTATTT
723534 ATTAAATGAACGAACATGAACAAGATTTTACGTTCGTGTA
1 ATTAAATGAACGAACATGAACAAGATTTTACGTTCGTGTA
723574 ATTAAATGAACGAACATGAACAAGATTTTACGTTCGTGTA
1 ATTAAATGAACGAACATGAACAAGATTTTACGTTCGTGTA
723614 ATTAAATGAACGAACATGAACAA
1 ATTAAATGAACGAACATGAACAA
723637 AGGGCTCGTT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 63 1.00
ACGTcount: A:0.44, C:0.13, G:0.17, T:0.27
Consensus pattern (40 bp):
ATTAAATGAACGAACATGAACAAGATTTTACGTTCGTGTA
Found at i:724076 original size:16 final size:16
Alignment explanation
Indices: 724055--724087 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
724045 AAAAAAATTT
724055 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
724071 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
724087 T
1 T
724088 TTATTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.06, C:0.12, G:0.24, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:727125 original size:33 final size:32
Alignment explanation
Indices: 727088--727186 Score: 146
Period size: 33 Copynumber: 3.1 Consensus size: 32
727078 CTAACTTAAG
727088 GGAGGCAAAGTATAATTAATCATAGAAAATGAA
1 GGAGGCAAAGTATAATTAATCATAGAAAATG-A
* *
727121 GGAGGCAAAGTATAATTAACCATAGAAACTGA
1 GGAGGCAAAGTATAATTAATCATAGAAAATGA
*
727153 GGGGAGCAAAGTATAATTAATCATAG-AAATGA
1 GGAG-GCAAAGTATAATTAATCATAGAAAATGA
727185 GG
1 GG
727187 GGGAAATCAA
Statistics
Matches: 60, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
32 11 0.18
33 49 0.82
ACGTcount: A:0.47, C:0.08, G:0.24, T:0.20
Consensus pattern (32 bp):
GGAGGCAAAGTATAATTAATCATAGAAAATGA
Found at i:736437 original size:14 final size:14
Alignment explanation
Indices: 736420--736452 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
736410 TGATTTGTCT
736420 ATTATGCATGTTTG
1 ATTATGCATGTTTG
*
736434 ATTATGGATGTTTG
1 ATTATGCATGTTTG
736448 ATTAT
1 ATTAT
736453 AGATGAATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.24, C:0.03, G:0.21, T:0.52
Consensus pattern (14 bp):
ATTATGCATGTTTG
Found at i:736457 original size:14 final size:14
Alignment explanation
Indices: 736427--736457 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
736417 TCTATTATGC
*
736427 ATGTTTGATTATGG
1 ATGTTTGATTATAG
736441 ATGTTTGATTATAG
1 ATGTTTGATTATAG
736455 ATG
1 ATG
736458 AATTCGAACC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.48
Consensus pattern (14 bp):
ATGTTTGATTATAG
Found at i:738301 original size:24 final size:23
Alignment explanation
Indices: 738274--738356 Score: 76
Period size: 24 Copynumber: 3.5 Consensus size: 23
738264 ATTTCCGATT
738274 TGAATTATGTTCTGACATCTGATC
1 TGAATTATGTTCTGA-ATCTGATC
* * * *
738298 TGAAATCTGTTCTGATTCTTGACC
1 TGAATTATGTTCTGAATC-TGATC
* * *
738322 TGGATTTTGTTCTGATATCTTATC
1 TGAATTATGTTCTGA-ATCTGATC
738346 TGAATTATGTT
1 TGAATTATGTT
738357 TTGTTTTCTG
Statistics
Matches: 45, Mismatches: 12, Indels: 4
0.74 0.20 0.07
Matches are distributed among these distances:
23 2 0.04
24 41 0.91
25 2 0.04
ACGTcount: A:0.22, C:0.14, G:0.17, T:0.47
Consensus pattern (23 bp):
TGAATTATGTTCTGAATCTGATC
Found at i:742206 original size:23 final size:23
Alignment explanation
Indices: 742176--742274 Score: 155
Period size: 23 Copynumber: 4.3 Consensus size: 23
742166 AGAATAATTT
742176 TGTCTTTGTGGCACGTTTTTCTC
1 TGTCTTTGTGGCACGTTTTTCTC
742199 TGTCTTTGTGGCACGTTTTTCTC
1 TGTCTTTGTGGCACGTTTTTCTC
*
742222 TGTCGTTGTGGCACGTTTTTCTC
1 TGTCTTTGTGGCACGTTTTTCTC
* *
742245 CGTCTTTGTGACACGTTTTTCATC
1 TGTCTTTGTGGCACGTTTTTC-TC
742269 T-TCTTT
1 TGTCTTT
742275 TTCGGTCTTT
Statistics
Matches: 70, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
23 68 0.97
24 2 0.03
ACGTcount: A:0.06, C:0.22, G:0.20, T:0.52
Consensus pattern (23 bp):
TGTCTTTGTGGCACGTTTTTCTC
Found at i:744377 original size:17 final size:17
Alignment explanation
Indices: 744355--744418 Score: 56
Period size: 17 Copynumber: 3.5 Consensus size: 17
744345 ATTGAACAAG
744355 TTCTTCTCATTATGAAC
1 TTCTTCTCATTATGAAC
* * *
744372 TTCTTCTCTCTTGTTGGATGAG
1 TTCTTCTC-ATT-AT-GA--AC
744394 TTCTTCTCATTATGAAC
1 TTCTTCTCATTATGAAC
744411 TTCTTCTC
1 TTCTTCTC
744419 TCTTGTTGGA
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
17 17 0.47
18 2 0.06
19 3 0.08
20 3 0.08
21 2 0.06
22 9 0.25
ACGTcount: A:0.16, C:0.23, G:0.11, T:0.50
Consensus pattern (17 bp):
TTCTTCTCATTATGAAC
Found at i:744400 original size:22 final size:22
Alignment explanation
Indices: 744372--744440 Score: 76
Period size: 22 Copynumber: 3.4 Consensus size: 22
744362 CATTATGAAC
744372 TTCTTCTCTCTTGTTGGATGAG
1 TTCTTCTCTCTTGTTGGATGAG
* * *
744394 TTCTTCTC-ATT-AT-GA--AC
1 TTCTTCTCTCTTGTTGGATGAG
744411 TTCTTCTCTCTTGTTGGATGAG
1 TTCTTCTCTCTTGTTGGATGAG
744433 TTCTTCTC
1 TTCTTCTC
744441 ATTATGAACT
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
17 9 0.25
18 2 0.06
19 3 0.08
20 3 0.08
21 2 0.06
22 17 0.47
ACGTcount: A:0.12, C:0.22, G:0.16, T:0.51
Consensus pattern (22 bp):
TTCTTCTCTCTTGTTGGATGAG
Found at i:744407 original size:39 final size:39
Alignment explanation
Indices: 744353--744454 Score: 197
Period size: 39 Copynumber: 2.6 Consensus size: 39
744343 GGATTGAACA
744353 AGTTCTTCTCATTATGAACTTCTTCTCTCTTGTTGGATG
1 AGTTCTTCTCATTATGAACTTCTTCTCTCTTGTTGGATG
744392 AGTTCTTCTCATTATGAACTTCTTCTCTCTTGTTGGATG
1 AGTTCTTCTCATTATGAACTTCTTCTCTCTTGTTGGATG
744431 AGTTCTTCTCATTATGAAC-TCTTC
1 AGTTCTTCTCATTATGAACTTCTTC
744455 ACTGAAAATG
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
38 5 0.08
39 58 0.92
ACGTcount: A:0.17, C:0.22, G:0.14, T:0.48
Consensus pattern (39 bp):
AGTTCTTCTCATTATGAACTTCTTCTCTCTTGTTGGATG
Found at i:744780 original size:16 final size:16
Alignment explanation
Indices: 744724--744780 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
744714 AGGAACAAGT
744724 TCTTCTCATTATGAAC
1 TCTTCTCATTATGAAC
* *
744740 T-TTCTCCTTTATGACGAGT
1 TCTTCT-CATTATGA--A-C
744759 TCTTCTCATTATGAAC
1 TCTTCTCATTATGAAC
744775 TCTTCT
1 TCTTCT
744781 GGAAATGTCA
Statistics
Matches: 32, Mismatches: 4, Indels: 10
0.70 0.09 0.22
Matches are distributed among these distances:
15 4 0.12
16 14 0.44
17 1 0.03
18 1 0.03
19 8 0.25
20 4 0.12
ACGTcount: A:0.19, C:0.25, G:0.09, T:0.47
Consensus pattern (16 bp):
TCTTCTCATTATGAAC
Found at i:745776 original size:21 final size:21
Alignment explanation
Indices: 745752--745798 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 21
745742 AAACCCTCCT
745752 TTTTCTCTCTTCA-TTTTTTCA
1 TTTT-TCTCTTCATTTTTTTCA
*
745773 TTTTTTTCTTCATTTTTTTCA
1 TTTTTCTCTTCATTTTTTTCA
745794 TTTTT
1 TTTTT
745799 TTCATTTTCC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 7 0.29
21 17 0.71
ACGTcount: A:0.09, C:0.17, G:0.00, T:0.74
Consensus pattern (21 bp):
TTTTTCTCTTCATTTTTTTCA
Found at i:745779 original size:9 final size:9
Alignment explanation
Indices: 745761--745806 Score: 58
Period size: 9 Copynumber: 4.9 Consensus size: 9
745751 TTTTTCTCTC
745761 TTCA-TTTT
1 TTCATTTTT
745769 TTCATTTTTTT
1 TTCA--TTTTT
745780 CTTCATTTTT
1 -TTCATTTTT
745790 TTCATTTTT
1 TTCATTTTT
745799 TTCATTTT
1 TTCATTTT
745807 CCCCTTTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
8 4 0.12
9 17 0.50
10 5 0.15
11 4 0.12
12 4 0.12
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.76
Consensus pattern (9 bp):
TTCATTTTT
Found at i:745784 original size:20 final size:21
Alignment explanation
Indices: 745759--745801 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
745749 CCTTTTTCTC
745759 TCTTCA-TTTTTTCATTTTTT
1 TCTTCATTTTTTTCATTTTTT
745779 TCTTCATTTTTTTCATTTTTT
1 TCTTCATTTTTTTCATTTTTT
745800 TC
1 TC
745802 ATTTTCCCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.09, C:0.16, G:0.00, T:0.74
Consensus pattern (21 bp):
TCTTCATTTTTTTCATTTTTT
Found at i:745816 original size:28 final size:29
Alignment explanation
Indices: 745785--745842 Score: 75
Period size: 28 Copynumber: 2.0 Consensus size: 29
745775 TTTTTCTTCA
*
745785 TTTTTTTCATTTTTTTCATTT-TCCC-CTT
1 TTTTTTTCATCTTTTT-ATTTGTCCCTCTT
*
745813 TTTTTTTTATCTTTTTATTTGTCCCTCTT
1 TTTTTTTCATCTTTTTATTTGTCCCTCTT
745842 T
1 T
745843 CCTTCAAGCA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 4 0.15
28 18 0.69
29 4 0.15
ACGTcount: A:0.07, C:0.19, G:0.02, T:0.72
Consensus pattern (29 bp):
TTTTTTTCATCTTTTTATTTGTCCCTCTT
Found at i:749384 original size:14 final size:14
Alignment explanation
Indices: 749365--749394 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
749355 AATGAATGTA
749365 AAGAATAAAGAATG
1 AAGAATAAAGAATG
749379 AAGAATAAAGAATG
1 AAGAATAAAGAATG
749393 AA
1 AA
749395 AATGTAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.20, T:0.13
Consensus pattern (14 bp):
AAGAATAAAGAATG
Found at i:757546 original size:16 final size:16
Alignment explanation
Indices: 757521--757551 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
757511 ATGATACTCA
*
757521 AACAATGATCAAAATG
1 AACAAAGATCAAAATG
757537 AACAAAGATCAAAAT
1 AACAAAGATCAAAAT
757552 ATCTCTATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.13, G:0.10, T:0.16
Consensus pattern (16 bp):
AACAAAGATCAAAATG
Found at i:764837 original size:19 final size:20
Alignment explanation
Indices: 764796--764846 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
764786 AACGCGATCT
764796 CCAGAATCGCAAATCAGTTC
1 CCAGAATCGCAAATCAGTTC
764816 CCAGAATCGCAAATCA-TTC
1 CCAGAATCGCAAATCAGTTC
764835 CCAGAATCGCAA
1 CCAGAATCGCAA
764847 TGCGATTACG
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.37, C:0.31, G:0.14, T:0.18
Consensus pattern (20 bp):
CCAGAATCGCAAATCAGTTC
Found at i:764927 original size:20 final size:20
Alignment explanation
Indices: 764902--765133 Score: 202
Period size: 20 Copynumber: 11.5 Consensus size: 20
764892 GATTTTCCAG
** *
764902 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGAATCCGTA
**
764922 AATCGCAACGCGAA-CATATA
1 AATCGCAACGCGAATC-CGTA
* *
764942 AATCGCAACGCGATTCTG-A
1 AATCGCAACGCGAATCCGTA
* * *
764961 CTATCGCAACGAGTATCCGTAA
1 -AATCGCAACGCGAATCCGT-A
*
764983 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATCCGTA
*
765003 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATCCGTA
*
765023 AATCGCAACGAC-AATACGTAA
1 AATCGCAACG-CGAATCCGT-A
*
765044 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGAATCCGTA
* *
765064 AATCGCAACGAGAATACGTA
1 AATCGCAACGCGAATCCGTA
* *
765084 AATCGCAACGC-AAACACGTC
1 AATCGCAACGCGAATC-CGTA
* *
765104 AATCGCAATGCGAATCTGTA
1 AATCGCAACGCGAATCCGTA
765124 AATCGCAACG
1 AATCGCAACG
765134 AGATTCTGAC
Statistics
Matches: 174, Mismatches: 28, Indels: 20
0.78 0.13 0.09
Matches are distributed among these distances:
19 3 0.02
20 132 0.76
21 38 0.22
22 1 0.01
ACGTcount: A:0.38, C:0.26, G:0.19, T:0.18
Consensus pattern (20 bp):
AATCGCAACGCGAATCCGTA
Found at i:764985 original size:61 final size:61
Alignment explanation
Indices: 764902--765093 Score: 187
Period size: 61 Copynumber: 3.2 Consensus size: 61
764892 GATTTTCCAG
* * *
764902 AATCGCAACG-CGAATATG-AAAATCGCAACGCG-AACATATAAATCGCAACGCG-ATTC-TGA
1 AATCGCAACGAC-AATACGTAAAATCGCAACGCGTAAC-CATAAATCGCAACGCGTATCCGT-A
* ** * * *
764961 CTATCGCAACGAGTATCCGTAAAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCGTA
1 -AATCGCAACGACAATACGTAAAATCGCAACGCGTAACCATAAATCGCAACGCGTATCCGTA
* * * * *
765023 AATCGCAACGACAATACGTAAAATCGCAACGCGTATCCGTAAATCGCAACGAGAATACGTA
1 AATCGCAACGACAATACGTAAAATCGCAACGCGTAACCATAAATCGCAACGCGTATCCGTA
765084 AATCGCAACG
1 AATCGCAACG
765094 CAAACACGTC
Statistics
Matches: 111, Mismatches: 16, Indels: 9
0.82 0.12 0.07
Matches are distributed among these distances:
60 12 0.11
61 92 0.83
62 6 0.05
63 1 0.01
ACGTcount: A:0.38, C:0.26, G:0.19, T:0.18
Consensus pattern (61 bp):
AATCGCAACGACAATACGTAAAATCGCAACGCGTAACCATAAATCGCAACGCGTATCCGTA
Found at i:764991 original size:81 final size:80
Alignment explanation
Indices: 764902--765135 Score: 258
Period size: 81 Copynumber: 2.9 Consensus size: 80
764892 GATTTTCCAG
* * ** *
764902 AATCGCAACGCGAATATGAAAATCGCAACGCGAACATATAAATCGCAACGCGATTCTG-ACTATC
1 AATCGCAACGCGAATACGTAAATCGCAACGCGAACACGTAAATCGCAACGCGATTCTGTA-AATC
764966 GCAACGAGTATCCGTAA
65 GCAACGAGTATCCGT-A
* * * * *
764983 AATCGCAACGCGTATCCGTAAATCGCAACGCGTATC-CGTAAATCGCAACGACAATAC-GTAAAA
1 AATCGCAACGCGAATACGTAAATCGCAACGCG-AACACGTAAATCGCAACG-CGATTCTGT-AAA
*
765046 TCGCAACGCGTATCCGTA
63 TCGCAACGAGTATCCGTA
* * * * *
765064 AATCGCAACGAGAATACGTAAATCGCAACGCAAACACGTCAATCGCAATGCGAATCTGTAAATCG
1 AATCGCAACGCGAATACGTAAATCGCAACGCGAACACGTAAATCGCAACGCGATTCTGTAAATCG
765129 CAACGAG
66 CAACGAG
765136 ATTCTGACTA
Statistics
Matches: 125, Mismatches: 22, Indels: 13
0.78 0.14 0.08
Matches are distributed among these distances:
80 17 0.14
81 84 0.67
82 23 0.18
83 1 0.01
ACGTcount: A:0.38, C:0.26, G:0.19, T:0.18
Consensus pattern (80 bp):
AATCGCAACGCGAATACGTAAATCGCAACGCGAACACGTAAATCGCAACGCGATTCTGTAAATCG
CAACGAGTATCCGTA
Found at i:764994 original size:41 final size:39
Alignment explanation
Indices: 764940--765133 Score: 185
Period size: 41 Copynumber: 4.8 Consensus size: 39
764930 CGCGAACATA
* *
764940 TAAATCGCAACGCGATTC-TGACTATCGCAACGAGTATCCG
1 TAAATCGCAACGCGATTCGT-A-AATCGCAACGCGTATCCG
*
764980 TAAAATCGCAACGCGTATCCGTAAATCGCAACGCGTATCCG
1 T-AAATCGCAACGCG-ATTCGTAAATCGCAACGCGTATCCG
* *
765021 TAAATCGCAACGACAATACGTAAAATCGCAACGCGTATCCG
1 TAAATCGCAACG-CGATTCGT-AAATCGCAACGCGTATCCG
* * * *
765062 TAAATCGCAACGAGAATACGTAAATCGCAACGC-AAACACG
1 TAAATCGCAACGCG-ATTCGTAAATCGCAACGCGTATC-CG
* * *
765102 TCAATCGCAATGCGAATCTGTAAATCGCAACG
1 TAAATCGCAACGCGATTC-GTAAATCGCAACG
765134 AGATTCTGAC
Statistics
Matches: 132, Mismatches: 14, Indels: 16
0.81 0.09 0.10
Matches are distributed among these distances:
39 4 0.03
40 55 0.42
41 68 0.52
42 4 0.03
43 1 0.01
ACGTcount: A:0.36, C:0.27, G:0.19, T:0.19
Consensus pattern (39 bp):
TAAATCGCAACGCGATTCGTAAATCGCAACGCGTATCCG
Found at i:765769 original size:24 final size:24
Alignment explanation
Indices: 765742--765819 Score: 129
Period size: 24 Copynumber: 3.2 Consensus size: 24
765732 GTATTCGAAA
*
765742 TTTGATCTTCGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
765766 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
765790 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
765814 TTTGAT
1 TTTGAT
765820 GATTTTTCAG
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 51 1.00
ACGTcount: A:0.21, C:0.22, G:0.19, T:0.38
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:766002 original size:3 final size:3
Alignment explanation
Indices: 765994--766020 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
765984 ATATAACACT
765994 GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA
766021 ATCCCCAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:768362 original size:19 final size:19
Alignment explanation
Indices: 768338--768417 Score: 62
Period size: 19 Copynumber: 4.4 Consensus size: 19
768328 GCAATAAGAG
768338 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
768357 AATCGCAA--CG---TCAA
1 AATCGCAATGCGAAATGAA
* * *
768371 AATCACAACGCGGAAATGAC
1 AATCGCAATGC-GAAATGAA
* *
768391 TATCGCAATGCGAAATAAA
1 AATCGCAATGCGAAATGAA
768410 AATCGCAA
1 AATCGCAA
768418 CGAGAGAATC
Statistics
Matches: 45, Mismatches: 10, Indels: 12
0.67 0.15 0.18
Matches are distributed among these distances:
14 10 0.22
16 1 0.02
17 3 0.07
19 21 0.47
20 10 0.22
ACGTcount: A:0.46, C:0.21, G:0.17, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:768429 original size:14 final size:14
Alignment explanation
Indices: 768410--768445 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
768400 GCGAAATAAA
768410 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
768424 AATCGCAACGAGGG
1 AATCGCAACGAGAG
768438 AATCGCAA
1 AATCGCAA
768446 TACGAAATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.42, C:0.22, G:0.28, T:0.08
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:768461 original size:47 final size:48
Alignment explanation
Indices: 768335--768461 Score: 139
Period size: 53 Copynumber: 2.6 Consensus size: 48
768325 ATCGCAATAA
* *
768335 GAGAATCGCAATGCGAAATGAAAATCGCAACGTCAAAATCACAACGCG
1 GAGAATCGCAATGCGAAATGAAAATCGCAACGACAAAATCACAACGAG
* * * *
768383 GAAATGACTATCGCAATGCGAAATAAAAATCGCAACGAGAGAATCGCAACGAG
1 G--A-GA--ATCGCAATGCGAAATGAAAATCGCAACGACAAAATCACAACGAG
*
768436 G-GAATCGCAATACGAAATGAAAATCG
1 GAGAATCGCAATGCGAAATGAAAATCG
768462 AAATGCGAAT
Statistics
Matches: 66, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
47 21 0.32
48 1 0.02
49 2 0.03
50 1 0.02
51 2 0.03
53 39 0.59
ACGTcount: A:0.45, C:0.20, G:0.22, T:0.13
Consensus pattern (48 bp):
GAGAATCGCAATGCGAAATGAAAATCGCAACGACAAAATCACAACGAG
Found at i:768487 original size:19 final size:19
Alignment explanation
Indices: 768465--768521 Score: 52
Period size: 19 Copynumber: 3.3 Consensus size: 19
768455 AAAATCGAAA
768465 TGCGAATTTAGTTTCGCGT
1 TGCGAATTTAGTTTCGCGT
768484 TGCG-ATTT-G--T-GCGT
1 TGCGAATTTAGTTTCGCGT
* * *
768498 TGCGATTTTAATTTCGCAT
1 TGCGAATTTAGTTTCGCGT
768517 TGCGA
1 TGCGA
768522 TTCTATCGTT
Statistics
Matches: 30, Mismatches: 3, Indels: 10
0.70 0.07 0.23
Matches are distributed among these distances:
14 8 0.27
15 4 0.13
17 1 0.03
18 5 0.17
19 12 0.40
ACGTcount: A:0.16, C:0.16, G:0.26, T:0.42
Consensus pattern (19 bp):
TGCGAATTTAGTTTCGCGT
Found at i:768513 original size:33 final size:33
Alignment explanation
Indices: 768465--768555 Score: 121
Period size: 33 Copynumber: 2.8 Consensus size: 33
768455 AAAATCGAAA
* * * *
768465 TGCGAATTTAGTTTCGCGTTGCGATT-TGTGCGT
1 TGCGATTTTAATTTCGCATTGCGATTCTAT-CGT
768498 TGCGATTTTAATTTCGCATTGCGATTCTATCGT
1 TGCGATTTTAATTTCGCATTGCGATTCTATCGT
*
768531 TGCGATTTTCATTTCGCATTGCGAT
1 TGCGATTTTAATTTCGCATTGCGAT
768556 AGTCATTTTT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
33 50 0.96
34 2 0.04
ACGTcount: A:0.15, C:0.18, G:0.23, T:0.44
Consensus pattern (33 bp):
TGCGATTTTAATTTCGCATTGCGATTCTATCGT
Found at i:768522 original size:19 final size:18
Alignment explanation
Indices: 768497--768555 Score: 63
Period size: 19 Copynumber: 3.4 Consensus size: 18
768487 GATTTGTGCG
768497 TTGCGATTTTAATTTCGCA
1 TTGCGATTTT-ATTTCGCA
*
768516 TTGCGATTCTA--TCG--
1 TTGCGATTTTATTTCGCA
768530 TTGCGATTTTCATTTCGCA
1 TTGCGATTTT-ATTTCGCA
768549 TTGCGAT
1 TTGCGAT
768556 AGTCATTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 9 0.27
15 1 0.03
16 3 0.09
17 3 0.09
18 1 0.03
19 16 0.48
ACGTcount: A:0.17, C:0.19, G:0.19, T:0.46
Consensus pattern (18 bp):
TTGCGATTTTATTTCGCA
Found at i:770044 original size:42 final size:42
Alignment explanation
Indices: 769976--770055 Score: 99
Period size: 42 Copynumber: 1.9 Consensus size: 42
769966 CGATGACAGT
* * *
769976 GGCCTCTTGAACGGTGGGAGGAGACTCTCGAGGAATGATAGG
1 GGCCTCTTCAACGATAGGAGGAGACTCTCGAGGAATGATAGG
* *
770018 GGCCTCTTCAACGATAGGAGTG-GACTCTTGAGGGATGA
1 GGCCTCTTCAACGATAGGAG-GAGACTCTCGAGGAATGA
770056 CAGGCGAGTC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
42 31 0.97
43 1 0.03
ACGTcount: A:0.24, C:0.17, G:0.38, T:0.21
Consensus pattern (42 bp):
GGCCTCTTCAACGATAGGAGGAGACTCTCGAGGAATGATAGG
Found at i:772089 original size:31 final size:32
Alignment explanation
Indices: 772042--772110 Score: 104
Period size: 31 Copynumber: 2.2 Consensus size: 32
772032 AATCGCAACG
**
772042 TCGCAACGAGAGAATCGCAACGCGAAATTAAAA
1 TCGCAAC-AGAGAATCGCAACGCGAAACCAAAA
772075 TCGCAAC-GAGAATCGCAACGCGAAACCAAAA
1 TCGCAACAGAGAATCGCAACGCGAAACCAAAA
772106 TCGCA
1 TCGCA
772111 TTGCGATTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
31 27 0.79
33 7 0.21
ACGTcount: A:0.43, C:0.26, G:0.20, T:0.10
Consensus pattern (32 bp):
TCGCAACAGAGAATCGCAACGCGAAACCAAAA
Found at i:772147 original size:14 final size:14
Alignment explanation
Indices: 772128--772217 Score: 63
Period size: 14 Copynumber: 5.7 Consensus size: 14
772118 TTTTATTTCG
772128 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
* *
772142 CGTTGCGATTTTAATTTCG
1 CGTTGCGA---T--TCTCT
772161 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
772175 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
772194 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
772208 CGTTGCGATT
1 CGTTGCGATT
772218 TTCATTCTCT
Statistics
Matches: 60, Mismatches: 6, Indels: 20
0.70 0.07 0.23
Matches are distributed among these distances:
14 31 0.52
16 4 0.07
17 4 0.07
19 21 0.35
ACGTcount: A:0.10, C:0.23, G:0.22, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:772153 original size:33 final size:33
Alignment explanation
Indices: 772111--772237 Score: 218
Period size: 33 Copynumber: 3.8 Consensus size: 33
772101 CAAAATCGCA
*
772111 TTGCGATTTTTATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
772144 TTGCGATTTTAATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
772177 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
772210 TTGCGATTTTCATTCTCTCGTTGCGATT
1 TTGCGATTTTCATT-TCGCGTTGCGATT
772238 TTCATTTCAA
Statistics
Matches: 90, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
33 78 0.87
34 12 0.13
ACGTcount: A:0.10, C:0.22, G:0.20, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:772166 original size:19 final size:18
Alignment explanation
Indices: 772106--772245 Score: 70
Period size: 19 Copynumber: 8.1 Consensus size: 18
772096 GAAACCAAAA
*
772106 TCGCATTGCGATTTTTATT
1 TCGCGTTGCGA-TTTTATT
*
772125 TCGCGTTGCGA---T-TC
1 TCGCGTTGCGATTTTATT
*
772139 TCTCGTTGCGATTTTAATT
1 TCGCGTTGCGATTTT-ATT
*
772158 TCGCGTTGCGA---T-TC
1 TCGCGTTGCGATTTTATT
*
772172 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTT-ATT
*
772191 TCGCGTTGCGA---T-TC
1 TCGCGTTGCGATTTTATT
*
772205 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTT-ATT
*
772224 CTCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTT-ATT
772244 TC
1 TC
772246 AACCAAAAGA
Statistics
Matches: 93, Mismatches: 12, Indels: 32
0.68 0.09 0.23
Matches are distributed among these distances:
14 33 0.35
15 1 0.01
16 2 0.02
17 3 0.03
19 35 0.38
20 19 0.20
ACGTcount: A:0.11, C:0.23, G:0.19, T:0.47
Consensus pattern (18 bp):
TCGCGTTGCGATTTTATT
Found at i:772226 original size:20 final size:20
Alignment explanation
Indices: 772168--772243 Score: 94
Period size: 20 Copynumber: 4.2 Consensus size: 20
772158 TCGCGTTGCG
772168 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
772188 ATT-TCGCGTTGCG------
1 ATTCTCTCGTTGCGATTTTC
772201 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
772221 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
772241 ATT
1 ATT
772244 TCAACCAAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
13 3 0.06
14 9 0.19
19 9 0.19
20 26 0.55
ACGTcount: A:0.11, C:0.24, G:0.17, T:0.49
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:772542 original size:25 final size:26
Alignment explanation
Indices: 772484--772535 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 26
772474 TTTCCATTTC
*
772484 TGAATGATTGTGAGGGATTTCTGACCG
1 TGAATGGTTGTGAGGGATTTC-GACCG
772511 TGAATGGTTGTGAGGGATTTC-ACCG
1 TGAATGGTTGTGAGGGATTTCGACCG
772536 GAGATGGGGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 4 0.17
27 20 0.83
ACGTcount: A:0.21, C:0.12, G:0.35, T:0.33
Consensus pattern (26 bp):
TGAATGGTTGTGAGGGATTTCGACCG
Found at i:772775 original size:20 final size:20
Alignment explanation
Indices: 772750--772922 Score: 197
Period size: 20 Copynumber: 8.6 Consensus size: 20
772740 CTTTAAAAAT
772750 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
772770 CGCGTTGCGATTTTAC-G-TA
1 CGCGTTGCGA-TTTACGGATA
*
772789 CTGTCGTTGCGATTTGCGGATA
1 C-G-CGTTGCGATTTACGGATA
* * *
772811 CGCATTGCGATTTACGTATT
1 CGCGTTGCGATTTACGGATA
* *
772831 CTCGTTGCGATTTACAGATA
1 CGCGTTGCGATTTACGGATA
* * *
772851 CGCATTGCGATTTACGTATT
1 CGCGTTGCGATTTACGGATA
*
772871 CTCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
772891 CGCGTTGCGATTTTACGGATA
1 CGCGTTGCGA-TTTACGGATA
*
772912 CTCGTTGCGAT
1 CGCGTTGCGAT
772923 AGTCAGAATC
Statistics
Matches: 126, Mismatches: 21, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
19 3 0.02
20 86 0.68
21 34 0.27
22 3 0.02
ACGTcount: A:0.18, C:0.20, G:0.25, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:772836 original size:40 final size:41
Alignment explanation
Indices: 772752--772922 Score: 256
Period size: 40 Copynumber: 4.2 Consensus size: 41
772742 TTAAAAATCG
* * *
772752 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTACTGT
1 CGTTGCGATTTACGGATACGCATTGCGATTTTACGTATTCT
*
772793 CGTTGCGATTTGCGGATACGCATTGCGA-TTTACGTATTCT
1 CGTTGCGATTTACGGATACGCATTGCGATTTTACGTATTCT
*
772833 CGTTGCGATTTACAGATACGCATTGCGA-TTTACGTATTCT
1 CGTTGCGATTTACGGATACGCATTGCGATTTTACGTATTCT
* * *
772873 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGGATACT
1 CGTTGCGATTTACGGATACGCATTGCGATTTTACGTATTCT
772914 CGTTGCGAT
1 CGTTGCGAT
772923 AGTCAGAATC
Statistics
Matches: 119, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
40 74 0.62
41 45 0.38
ACGTcount: A:0.19, C:0.20, G:0.25, T:0.36
Consensus pattern (41 bp):
CGTTGCGATTTACGGATACGCATTGCGATTTTACGTATTCT
Found at i:772940 original size:81 final size:81
Alignment explanation
Indices: 772752--772983 Score: 245
Period size: 81 Copynumber: 2.9 Consensus size: 81
772742 TTAAAAATCG
* * * * * *
772752 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTACTGTCGTTGCGATTTGCGGATACGCATT
1 CGTTGCGATGTACAGATACGCGTTGCGA-TTTACGTATTCTCGTTGCGATTTACGGATACGCGTT
* *
772817 GCGA-TTTACGTATTCT
65 GCGATTTTACGGATACT
* *
772833 CGTTGCGATTTACAGATACGCATTGCGATTTACGTATTCTCGTTGCGATTTACGGATACGCGTTG
1 CGTTGCGATGTACAGATACGCGTTGCGATTTACGTATTCTCGTTGCGATTTACGGATACGCGTTG
772898 CGATTTTACGGATACT
66 CGATTTTACGGATACT
* ** * * * ** *
772914 CGTTGCGATAGT-CAGA-ATCGTGTTGCGATTTATATGTTCGCGTTGCGATTTTCATATTCGCGT
1 CGTTGCGAT-GTACAGATA-CGCGTTGCGATTTACGTATTCTCGTTGCGATTTACGGATACGCGT
772977 TGCGATT
64 TGCGATT
772984 ATGAAAAATC
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
80 37 0.29
81 91 0.71
82 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.38
Consensus pattern (81 bp):
CGTTGCGATGTACAGATACGCGTTGCGATTTACGTATTCTCGTTGCGATTTACGGATACGCGTTG
CGATTTTACGGATACT
Found at i:772958 original size:20 final size:20
Alignment explanation
Indices: 772935--772983 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
772925 TCAGAATCGT
*
772935 GTTGCGATTTAT-ATGTTCGC
1 GTTGCGATTT-TCATATTCGC
772955 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTTCATATTCGC
772975 GTTGCGATT
1 GTTGCGATT
772984 ATGAAAAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 1 0.04
20 26 0.96
ACGTcount: A:0.14, C:0.16, G:0.24, T:0.45
Consensus pattern (20 bp):
GTTGCGATTTTCATATTCGC
Found at i:772979 original size:40 final size:40
Alignment explanation
Indices: 772749--772983 Score: 172
Period size: 40 Copynumber: 5.8 Consensus size: 40
772739 GCTTTAAAAA
* *
772749 TCGCGTTGCGATTTACGGATACGCGTTGCGATTT-TACGT
1 TCGCGTTGCGATTTACAGATACGCGTTGCGATTTATATGT
* * * * ** *
772788 ACTGTCGTTGCGATTTGCGGATACGCATTGCGATTTACGTAT
1 TC-G-CGTTGCGATTTACAGATACGCGTTGCGATTTATATGT
* * ** *
772830 TCTCGTTGCGATTTACAGATACGCATTGCGATTTACGTAT
1 TCGCGTTGCGATTTACAGATACGCGTTGCGATTTATATGT
* * *
772870 TCTCGTTGCGATTTACGGATACGCGTTGCGATTT-TACGGAT
1 TCGCGTTGCGATTTACAGATACGCGTTGCGATTTATA-TG-T
* * * *
772911 ACTCGTTGCGATAGT-CAGA-ATCGTGTTGCGATTTATATGT
1 TCGCGTTGCGAT-TTACAGATA-CGCGTTGCGATTTATATGT
* * *
772951 TCGCGTTGCGATTTTCATATTCGCGTTGCGATT
1 TCGCGTTGCGATTTACAGATACGCGTTGCGATT
772984 ATGAAAAATC
Statistics
Matches: 158, Mismatches: 28, Indels: 19
0.77 0.14 0.09
Matches are distributed among these distances:
39 2 0.01
40 94 0.59
41 57 0.36
42 5 0.03
ACGTcount: A:0.18, C:0.19, G:0.25, T:0.37
Consensus pattern (40 bp):
TCGCGTTGCGATTTACAGATACGCGTTGCGATTTATATGT
Found at i:772980 original size:121 final size:120
Alignment explanation
Indices: 772752--772983 Score: 290
Period size: 121 Copynumber: 1.9 Consensus size: 120
772742 TTAAAAATCG
* *
772752 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTACTGTCGTTGCGATTTGCGGATACGCATT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTAC-GTCGTTGCGATGTGCGAATACGCATT
* *
772817 GCGATTTACGTATTCTCGTTGCGATTTACAGATACGCATTGCGATTTACGTATTCT
65 GCGATTTACATATTCGCGTTGCGATTTACAGATACGCATTGCGATTTACGTATTCT
*
772873 CGTTGCGATTTACGGATACGCGTTGCGATTTTACGGATAC-TCGTTGCGATAGT-CAGAAT-CGT
1 CGTTGCGATTTACGGATACGCGTTGCGATTTTAC-G-TACGTCGTTGCGAT-GTGC-GAATACGC
* * * * * * *
772935 GTTGCGATTTATATGTTCGCGTTGCGATTTTCATATTCGCGTTGCGATT
62 ATTGCGATTTACATATTCGCGTTGCGATTTACAGATACGCATTGCGATT
772984 ATGAAAAATC
Statistics
Matches: 95, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
121 87 0.92
122 5 0.05
123 3 0.03
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.38
Consensus pattern (120 bp):
CGTTGCGATTTACGGATACGCGTTGCGATTTTACGTACGTCGTTGCGATGTGCGAATACGCATTG
CGATTTACATATTCGCGTTGCGATTTACAGATACGCATTGCGATTTACGTATTCT
Found at i:774863 original size:64 final size:64
Alignment explanation
Indices: 774706--774864 Score: 223
Period size: 65 Copynumber: 2.5 Consensus size: 64
774696 TAAATTGAAT
* * *
774706 ATCGAATGCATTTCATGCATCGATGCACATACCATGTATCGATGCACTGAGGATTTTATGAAAAC
1 ATCGAATGCATTTGATGCATCGATGCAC-TACCATGCATCGATGCACTCAGGATTTTATGAAAAC
* *
774771 ATCGAATGCATTTGATGCATCGATGCACTAGCCATGCATCGATGCACTCTGGCTATTT-TG-AAA
1 ATCGAATGCATTTGATGCATCGATGCACTA-CCATGCATCGATGCACTCAGGAT-TTTATGAAAA
774834 C
64 C
*
774835 ATCGAATGCACTTGATGCATCGATGCACTA
1 ATCGAATGCATTTGATGCATCGATGCACTA
774865 AGGGTCCAAC
Statistics
Matches: 86, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
64 35 0.41
65 48 0.56
66 3 0.03
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (64 bp):
ATCGAATGCATTTGATGCATCGATGCACTACCATGCATCGATGCACTCAGGATTTTATGAAAAC
Found at i:779986 original size:306 final size:308
Alignment explanation
Indices: 779433--780046 Score: 1205
Period size: 306 Copynumber: 2.0 Consensus size: 308
779423 GGTTCGAGGT
779433 GTACTGGAAAACTGCAAGTTAGACAACAAGAATCCTCAATTTAAACTTCATTATTGATGCATAAT
1 GTACTGGAAAACTGCAAGTTAGACAACAAGAATCCTCAATTTAAACTTCATTATTGATGCATAAT
779498 GAAAGGGAGAAGCATAGTAATGTGACTTACTCAGATTGTCGCCTACTGAAAAATTTTGGGATTGA
66 GAAAGGGAGAAGCATAGTAATGTGACTTACTCAGATTGTCGCCTACTGAAAAATTTTGGGATTGA
779563 ACCCAAGTCTCGAGGTCGGTGCTTGAAGCCCAGCTTGAATTGGACATAAATTTTTACTTGCTTCC
131 ACCCAAGTCTCGAGGTCGGTGCTTGAAGCCCAGCTTGAATTGGACATAAATTTTTACTTGCTTCC
779628 AAAGCTTGCTCCTCGTCCAATTTCTTATCAATTATCTTCCTCTCAATTGAACATAACTTTTTAAT
196 AAAGCTTGCTCCTCGTCCAATTTCTTATCAATTATCTTCCTCTCAATTGAACATAACTTTTTAAT
779693 TTATATTTTAATTATAGAATCATACCTGATAG-AATAT-CTATTAAAA
261 TTATATTTTAATTATAGAATCATACCTGATAGAAATATCCTATTAAAA
779739 GTACTGGAAAACTGCAAGTTAGACAACAAGAATCCTCAATTTAAACTTCATTATTGATGCATAAT
1 GTACTGGAAAACTGCAAGTTAGACAACAAGAATCCTCAATTTAAACTTCATTATTGATGCATAAT
779804 GAAAGGGAGAAGCATAGTAATGTGACTTACTCAGATTGTCGCCTACTGAAAAATTTTGGGATTGA
66 GAAAGGGAGAAGCATAGTAATGTGACTTACTCAGATTGTCGCCTACTGAAAAATTTTGGGATTGA
779869 ACCCAAGTCTCGAGGTCGGTGCTTGAAGCCCAGCTTGAATTGGACATAAATTTTTACTTGCTTCC
131 ACCCAAGTCTCGAGGTCGGTGCTTGAAGCCCAGCTTGAATTGGACATAAATTTTTACTTGCTTCC
*
779934 AAAGCTTGCTCCTCGTCCAATTTCTTATCAATTATCTTCCTCTCAATTGAACATAACTTTTTATT
196 AAAGCTTGCTCCTCGTCCAATTTCTTATCAATTATCTTCCTCTCAATTGAACATAACTTTTTAAT
779999 TTATATTTTAATTATAGAATCATACCTGATAGAAATATCCTATTAAAA
261 TTATATTTTAATTATAGAATCATACCTGATAGAAATATCCTATTAAAA
780047 ATTTGAGTAA
Statistics
Matches: 305, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
306 291 0.95
307 5 0.02
308 9 0.03
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.34
Consensus pattern (308 bp):
GTACTGGAAAACTGCAAGTTAGACAACAAGAATCCTCAATTTAAACTTCATTATTGATGCATAAT
GAAAGGGAGAAGCATAGTAATGTGACTTACTCAGATTGTCGCCTACTGAAAAATTTTGGGATTGA
ACCCAAGTCTCGAGGTCGGTGCTTGAAGCCCAGCTTGAATTGGACATAAATTTTTACTTGCTTCC
AAAGCTTGCTCCTCGTCCAATTTCTTATCAATTATCTTCCTCTCAATTGAACATAACTTTTTAAT
TTATATTTTAATTATAGAATCATACCTGATAGAAATATCCTATTAAAA
Found at i:780438 original size:17 final size:16
Alignment explanation
Indices: 780400--780450 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
780390 ATCATTTATT
780400 TAATAT-TAT-TTTTA
1 TAATATATATGTTTTA
*
780414 T-ATTTATATTGTTTTA
1 TAATATATA-TGTTTTA
*
780430 TAATATATATGATTTA
1 TAATATATATGTTTTA
780446 TAATA
1 TAATA
780451 AAAATAATAA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
13 3 0.10
14 3 0.10
15 1 0.03
16 17 0.57
17 6 0.20
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (16 bp):
TAATATATATGTTTTA
Found at i:780870 original size:18 final size:18
Alignment explanation
Indices: 780830--780871 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
780820 TTTTTTGGGA
**
780830 TTTTTTAGGAATTTGGGG
1 TTTTTTAGGAATTTAAGG
780848 TTTTTT-GGAATTTAAGG
1 TTTTTTAGGAATTTAAGG
780865 TGTTTTT
1 T-TTTTT
780872 TTTTGGAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.17, C:0.00, G:0.26, T:0.57
Consensus pattern (18 bp):
TTTTTTAGGAATTTAAGG
Found at i:780872 original size:19 final size:18
Alignment explanation
Indices: 780823--780860 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
780813 TTTACGATTT
*
780823 TTTGGGATTTTTTAGGAA
1 TTTGGGGTTTTTTAGGAA
780841 TTTGGGGTTTTTT-GGAA
1 TTTGGGGTTTTTTAGGAA
780858 TTT
1 TTT
780861 AAGGTGTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.16, C:0.00, G:0.29, T:0.55
Consensus pattern (18 bp):
TTTGGGGTTTTTTAGGAA
Found at i:783631 original size:10 final size:10
Alignment explanation
Indices: 783613--783678 Score: 53
Period size: 10 Copynumber: 6.4 Consensus size: 10
783603 AGAAAAATTC
783613 AATTCAATTTA
1 AATT-AATTTA
783624 AATTAATTTA
1 AATTAATTTA
*
783634 ATTTAATTTA
1 AATTAATTTA
* *
783644 AAATAACGTTA
1 AATTAA-TTTA
*
783655 ATAATAATTT-
1 A-ATTAATTTA
*
783665 AATTAATTCA
1 AATTAATTTA
783675 AATT
1 AATT
783679 TAAGTAACTA
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
9 6 0.13
10 24 0.53
11 10 0.22
12 5 0.11
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (10 bp):
AATTAATTTA
Found at i:783636 original size:20 final size:20
Alignment explanation
Indices: 783608--783645 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
783598 ATATGAGAAA
783608 AATTCAATTCAATTTAAATT
1 AATTCAATTCAATTTAAATT
* *
783628 AATTTAATTTAATTTAAA
1 AATTCAATTCAATTTAAA
783646 ATAACGTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (20 bp):
AATTCAATTCAATTTAAATT
Found at i:784329 original size:2 final size:2
Alignment explanation
Indices: 784322--784407 Score: 165
Period size: 2 Copynumber: 43.5 Consensus size: 2
784312 TATAAGCAAC
784322 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
784364 AT AT AT AT AT AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
784405 AT A
1 AT A
784408 GTGATAGGCA
Statistics
Matches: 83, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
1 1 0.01
2 82 0.99
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:785798 original size:24 final size:24
Alignment explanation
Indices: 785771--785845 Score: 98
Period size: 24 Copynumber: 3.1 Consensus size: 24
785761 GTTCGTGAAC
* * *
785771 GTTCGGTTATGTTTGTTCGGTTAT
1 GTTCGTTTATGTTCGTTCGATTAT
785795 GTTCGTTTATGTTCGTTCGATTAT
1 GTTCGTTTATGTTCGTTCGATTAT
*
785819 GTTCGTTTATGTTCATTC-ATTTAT
1 GTTCGTTTATGTTCGTTCGA-TTAT
785843 GTT
1 GTT
785846 TAATCCAATC
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
23 1 0.02
24 45 0.98
ACGTcount: A:0.12, C:0.11, G:0.21, T:0.56
Consensus pattern (24 bp):
GTTCGTTTATGTTCGTTCGATTAT
Found at i:785812 original size:14 final size:14
Alignment explanation
Indices: 785770--785825 Score: 57
Period size: 14 Copynumber: 4.3 Consensus size: 14
785760 CGTTCGTGAA
*
785770 CGTTCGGTTATGTT
1 CGTTCGATTATGTT
* *
785784 TGTTCGGTTATGTT
1 CGTTCGATTATGTT
785798 CG-T---TTATGTT
1 CGTTCGATTATGTT
785808 CGTTCGATTATGTT
1 CGTTCGATTATGTT
785822 CGTT
1 CGTT
785826 TATGTTCATT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
10 9 0.25
11 1 0.03
13 1 0.03
14 25 0.69
ACGTcount: A:0.09, C:0.12, G:0.25, T:0.54
Consensus pattern (14 bp):
CGTTCGATTATGTT
Found at i:786588 original size:10 final size:10
Alignment explanation
Indices: 786573--786647 Score: 61
Period size: 10 Copynumber: 7.7 Consensus size: 10
786563 GGGTCTCCAA
786573 CGTTTATGTT
1 CGTTTATGTT
786583 CGTTTATGTT
1 CGTTTATGTT
786593 CGTGTTCAT-TT
1 CGT-TT-ATGTT
* **
786604 ATGTTCGTGTT
1 -CGTTTATGTT
786615 CGTTTATGTT
1 CGTTTATGTT
786625 CG----TGTT
1 CGTTTATGTT
786631 CGTTTATGTT
1 CGTTTATGTT
786641 CGTTTAT
1 CGTTTAT
786648 TTATTAAATG
Statistics
Matches: 51, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
6 6 0.12
10 34 0.67
11 7 0.14
12 4 0.08
ACGTcount: A:0.09, C:0.12, G:0.21, T:0.57
Consensus pattern (10 bp):
CGTTTATGTT
Done.