Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032252.1 Gossypioides kirkii chromosome KI_10
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: 47257441
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 3600 characters in sequence are not A, C, G, or T
File 106 of 163
Found at i:30079829 original size:68 final size:68
Alignment explanation
Indices: 30079720--30079873 Score: 193
Period size: 68 Copynumber: 2.3 Consensus size: 68
30079710 ACGATTAACC
* * * ** * * **
30079720 CCATCCAACATATCAAATGCTCGTGTGAGCTAGTCCAACCAACACA-CTAAATGCTCGTAAGAGC
1 CCATCCAACACACCATATGCTCGAATGAGCCAATCCAACCAACACATC-AAATGCTCACAAGAGC
30079784 TAGT
65 TAGT
* *
30079788 CCATCCAACACACCATATGCTCGAATGAGCCAATCCAACCAACATATCAAATGCTCACATGAGCT
1 CCATCCAACACACCATATGCTCGAATGAGCCAATCCAACCAACACATCAAATGCTCACAAGAGCT
30079853 AGT
66 AGT
30079856 CCATCCAACACACCATAT
1 CCATCCAACACACCATAT
30079874 AACTGTAATT
Statistics
Matches: 74, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
68 73 0.99
69 1 0.01
ACGTcount: A:0.36, C:0.32, G:0.12, T:0.20
Consensus pattern (68 bp):
CCATCCAACACACCATATGCTCGAATGAGCCAATCCAACCAACACATCAAATGCTCACAAGAGCT
AGT
Found at i:30080252 original size:30 final size:30
Alignment explanation
Indices: 30080216--30080273 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
30080206 ACAAAAAAAT
*
30080216 GCCTCTAAAATAGTAACAAAATTAACAAAG
1 GCCTCTAAAATAATAACAAAATTAACAAAG
*
30080246 GCCTCTAAAATAATGACAAAATTAACAA
1 GCCTCTAAAATAATAACAAAATTAACAA
30080274 TAAAATAAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.53, C:0.17, G:0.09, T:0.21
Consensus pattern (30 bp):
GCCTCTAAAATAATAACAAAATTAACAAAG
Found at i:30082667 original size:15 final size:17
Alignment explanation
Indices: 30082635--30082669 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 17
30082625 TGATAATTCA
30082635 TTCCAATCTATTTCATT
1 TTCCAATCTATTTCATT
30082652 TTCCAA-CTATTT-ATT
1 TTCCAATCTATTTCATT
30082667 TTC
1 TTC
30082670 TCCTCTTAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.33
16 6 0.33
17 6 0.33
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.54
Consensus pattern (17 bp):
TTCCAATCTATTTCATT
Found at i:30092030 original size:33 final size:33
Alignment explanation
Indices: 30091983--30092052 Score: 88
Period size: 33 Copynumber: 2.1 Consensus size: 33
30091973 AAGAAAGATA
*
30091983 AATTCTATTAGGATTTGAAAAAGAGTAA-TTTG
1 AATTCTACTAGGATTTGAAAAAGAGTAATTTTG
* * *
30092015 AATTCTAACTAGGATTTTAAAAGGATTAATTTTG
1 AATTCT-ACTAGGATTTGAAAAAGAGTAATTTTG
30092049 AATT
1 AATT
30092053 TCAAATTAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 6 0.19
33 18 0.56
34 8 0.25
ACGTcount: A:0.40, C:0.04, G:0.16, T:0.40
Consensus pattern (33 bp):
AATTCTACTAGGATTTGAAAAAGAGTAATTTTG
Found at i:30092417 original size:25 final size:25
Alignment explanation
Indices: 30092384--30092432 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
30092374 AACATCCAAG
30092384 GGGAGTGTTATGAATGATT-TTAAGA
1 GGGAGTGTTATGAAT-ATTATTAAGA
30092409 GGGAGTGTTATGAATATTATTAAG
1 GGGAGTGTTATGAATATTATTAAG
30092433 TAAATGTTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 3 0.13
25 20 0.87
ACGTcount: A:0.33, C:0.00, G:0.31, T:0.37
Consensus pattern (25 bp):
GGGAGTGTTATGAATATTATTAAGA
Found at i:30094471 original size:89 final size:92
Alignment explanation
Indices: 30094263--30094472 Score: 243
Period size: 92 Copynumber: 2.3 Consensus size: 92
30094253 AATTTTTGTT
* * * * * * *
30094263 TTTATTTTGCACTCATTTGGATACTTGAGCTTTTAAAATGCATTAAAAAAACTCTTAAATTTTTT
1 TTTATTTTGCACTCAATTGGATACTTAAACTTTCAAAATGCATTAAAAAAACCCTCAAACTTTTT
*
30094328 AAAAAAAGAAGAAATTAAGCCCCTACT
66 AAAAAAAGAAGAAATTAAGCCCCTACA
* *
30094355 TTTATTTTGCACTCAATT-GAGTACTTAAACTTTCAAAATGTA-TCAAAAAACCCTCAAACTTTT
1 TTTATTTTGCACTCAATTGGA-TACTTAAACTTTCAAAATGCATTAAAAAAACCCTCAAACTTTT
* *
30094418 TCAAAAAA-AA-CAATTAAGTCCCCTGA-A
65 TAAAAAAAGAAGAAATTAAG-CCCCT-ACA
30094445 TTT-TTTTGCACTCAATTGGATACTTAAA
1 TTTATTTTGCACTCAATTGGATACTTAAA
30094473 ATGCTCCTAA
Statistics
Matches: 102, Mismatches: 12, Indels: 11
0.82 0.10 0.09
Matches are distributed among these distances:
89 29 0.28
90 12 0.12
91 27 0.26
92 34 0.33
ACGTcount: A:0.39, C:0.17, G:0.09, T:0.36
Consensus pattern (92 bp):
TTTATTTTGCACTCAATTGGATACTTAAACTTTCAAAATGCATTAAAAAAACCCTCAAACTTTTT
AAAAAAAGAAGAAATTAAGCCCCTACA
Found at i:30094562 original size:9 final size:9
Alignment explanation
Indices: 30094550--30094598 Score: 50
Period size: 9 Copynumber: 5.7 Consensus size: 9
30094540 TTTTTATTCA
30094550 TTTTATAAT
1 TTTTATAAT
*
30094559 TTTTTTAAT
1 TTTTATAAT
*
30094568 TTTTAATAAA
1 TTTT-ATAAT
30094578 TTTTA-AAT
1 TTTTATAAT
30094586 TTTT-T-AT
1 TTTTATAAT
30094593 TTTTAT
1 TTTTAT
30094599 TAAAATTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
7 6 0.18
8 7 0.21
9 13 0.39
10 7 0.21
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (9 bp):
TTTTATAAT
Found at i:30094594 original size:25 final size:25
Alignment explanation
Indices: 30094549--30094620 Score: 85
Period size: 25 Copynumber: 2.8 Consensus size: 25
30094539 TTTTTTATTC
30094549 ATTTTATAATTTTTTTAATTTTTAATAA
1 ATTTTA-AA-TTTTTT-ATTTTTAATAA
*
30094577 ATTTTAAATTTTTTATTTTTATTAA
1 ATTTTAAATTTTTTATTTTTAATAA
*
30094602 AATTT-AATTTTTT-TTTTTA
1 ATTTTAAATTTTTTATTTTTA
30094621 TATTTTTTGC
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
23 6 0.14
24 8 0.19
25 14 0.33
26 6 0.14
27 2 0.05
28 6 0.14
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (25 bp):
ATTTTAAATTTTTTATTTTTAATAA
Found at i:30094906 original size:87 final size:85
Alignment explanation
Indices: 30094727--30094952 Score: 303
Period size: 87 Copynumber: 2.6 Consensus size: 85
30094717 TAACGGTCAA
* * * * * *
30094727 AGGGCCTTTTTGATG-AATTTGACAGTTCAAGTACGCAATTGAGTG-CAAAAAAATCGGGGGCTG
1 AGGGCCTTTTTGATGCATTTTGAAAGTTCAAGTACCCAATTGAGTGAAAAAAAAAGCAGGGGCTG
30094790 ATTTTTTTTGAAAAAGTTTG
66 ATTTTTTTTGAAAAAGTTTG
* * *
30094810 ACGGTCTTTTTGATGCATTTTGAAAGTTCAATTACCCAATTGAGTGAAAAATAAAAGCAGGGGCT
1 AGGGCCTTTTTGATGCATTTTGAAAGTTCAAGTACCCAATTGAGTGAAAAA-AAAAGCAGGGGCT
*
30094875 TATTGTTTTTTGAAAAAGTTTG
65 GATT-TTTTTTGAAAAAGTTTG
* *
30094897 AGGGCCTTTTTGATGCATTTTGAAAATTCAAGTACCCAAGTGAGTGCAAAAAAAAA
1 AGGGCCTTTTTGATGCATTTTGAAAGTTCAAGTACCCAATTGAGTG-AAAAAAAAA
30094953 ATACTTAATT
Statistics
Matches: 123, Mismatches: 15, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
83 13 0.11
84 26 0.21
85 3 0.02
86 14 0.11
87 62 0.50
88 5 0.04
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.33
Consensus pattern (85 bp):
AGGGCCTTTTTGATGCATTTTGAAAGTTCAAGTACCCAATTGAGTGAAAAAAAAAGCAGGGGCTG
ATTTTTTTTGAAAAAGTTTG
Found at i:30094971 original size:87 final size:85
Alignment explanation
Indices: 30094792--30094993 Score: 241
Period size: 87 Copynumber: 2.3 Consensus size: 85
30094782 GGGGGCTGAT
* * * *
30094792 TTTTTTTGAAAAAGTTTGACGGTCTTTTTGATGCATTTTGAAAGTTCAATTACCCAATTGAGTGA
1 TTTTTTTGAAAAAGTTTGA-GGGCTTTTTGATGCATTTTGAAAATTCAAGTACCCAAGTGAGTGA
*
30094857 AAAATAAAAGCAGGGGCTTATTG
65 AAAATAAAA-CA-GGACTTATTG
30094880 -TTTTTTGAAAAAGTTTGAGGGCCTTTTTGATGCATTTTGAAAATTCAAGTACCCAAGTGAGTGC
1 TTTTTTTGAAAAAGTTTGAGGG-CTTTTTGATGCATTTTGAAAATTCAAGTACCCAAGTGAGTG-
*
30094944 AAAAA-AAAA-A-TACTTAATTG
64 AAAAATAAAACAGGACTT-ATTG
*
30094964 CTTTTTTTAAAAACAGTTTGAGGGCTTTTT
1 -TTTTTTTGAAAA-AGTTTGAGGGCTTTTT
30094994 ACACCTTTAA
Statistics
Matches: 101, Mismatches: 7, Indels: 14
0.83 0.06 0.11
Matches are distributed among these distances:
83 3 0.03
84 4 0.04
85 1 0.01
86 18 0.18
87 70 0.69
88 5 0.05
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (85 bp):
TTTTTTTGAAAAAGTTTGAGGGCTTTTTGATGCATTTTGAAAATTCAAGTACCCAAGTGAGTGAA
AAATAAAACAGGACTTATTG
Found at i:30097062 original size:29 final size:30
Alignment explanation
Indices: 30097004--30097177 Score: 219
Period size: 30 Copynumber: 5.9 Consensus size: 30
30096994 CAAAAACGGA
* *
30097004 GTCAAAATATGATTTTGGAAAAGTTTAAGG
1 GTCAAAATGTAATTTTGGAAAAGTTTAAGG
* *
30097034 GTTAAAATATAATTTT-GAAAAGTTTAAGG
1 GTCAAAATGTAATTTTGGAAAAGTTTAAGG
**
30097063 GTCAAAATGTAATTTTGGAAAAGTTTGGGG
1 GTCAAAATGTAATTTTGGAAAAGTTTAAGG
* *
30097093 GTCAAAGTGTGATTTTGGAAAAGTTTAAGG
1 GTCAAAATGTAATTTTGGAAAAGTTTAAGG
* *
30097123 GTCAAAGTGTAATTTTGGAAAAGCTT-AGG
1 GTCAAAATGTAATTTTGGAAAAGTTTAAGG
*
30097152 GTTCAAAATGTAATTTTTG-AAAGTTT
1 G-TCAAAATGTAATTTTGGAAAAGTTT
30097178 CGGTCAATAT
Statistics
Matches: 127, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
29 37 0.29
30 90 0.71
ACGTcount: A:0.37, C:0.03, G:0.24, T:0.36
Consensus pattern (30 bp):
GTCAAAATGTAATTTTGGAAAAGTTTAAGG
Found at i:30097112 original size:89 final size:89
Alignment explanation
Indices: 30097004--30097177 Score: 253
Period size: 89 Copynumber: 2.0 Consensus size: 89
30096994 CAAAAACGGA
* *
30097004 GTCAAAATATGATTTTGGAAAAGTTTAAGGGTTAAAATATAATTTT-GAAAAGTTTAAGGG-TCA
1 GTCAAAATATGATTTTGGAAAAGTTTAAGGGTCAAAATATAATTTTGGAAAAGCTT-AGGGTTCA
30097067 AAATGTAATTTTGGAAAAGTTTGGGG
65 AAATGTAATTTTGG-AAAGTTTGGGG
* * * *
30097093 GTCAAAGTGTGATTTTGGAAAAGTTTAAGGGTCAAAGTGTAATTTTGGAAAAGCTTAGGGTTCAA
1 GTCAAAATATGATTTTGGAAAAGTTTAAGGGTCAAAATATAATTTTGGAAAAGCTTAGGGTTCAA
*
30097158 AATGTAATTTTTGAAAGTTT
66 AATGTAATTTTGGAAAGTTT
30097178 CGGTCAATAT
Statistics
Matches: 76, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
89 52 0.68
90 24 0.32
ACGTcount: A:0.37, C:0.03, G:0.24, T:0.36
Consensus pattern (89 bp):
GTCAAAATATGATTTTGGAAAAGTTTAAGGGTCAAAATATAATTTTGGAAAAGCTTAGGGTTCAA
AATGTAATTTTGGAAAGTTTGGGG
Found at i:30097935 original size:29 final size:29
Alignment explanation
Indices: 30097903--30097958 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
30097893 AAACCTTTCT
* *
30097903 TTTTTATCTCTTTTTAAA-AAATGTTTTGA
1 TTTTTACCTCTTTTAAAATAAAT-TTTTGA
*
30097932 TTTTTCCCTCTTTTAAAATAAATTTTT
1 TTTTTACCTCTTTTAAAATAAATTTTT
30097959 AAAGAAGACA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 19 0.83
30 4 0.17
ACGTcount: A:0.27, C:0.11, G:0.04, T:0.59
Consensus pattern (29 bp):
TTTTTACCTCTTTTAAAATAAATTTTTGA
Found at i:30098726 original size:17 final size:17
Alignment explanation
Indices: 30098664--30098726 Score: 54
Period size: 17 Copynumber: 3.7 Consensus size: 17
30098654 AATTTTTATT
*
30098664 TTAAAATAAATTTAAAC
1 TTAAAATAAATTTAAAA
** ** *
30098681 TCCAAATAAGCTTAAAT
1 TTAAAATAAATTTAAAA
*
30098698 TTACAATAAATTTAAAA
1 TTAAAATAAATTTAAAA
*
30098715 TTAAAATGAATT
1 TTAAAATAAATT
30098727 AAGATTTAAA
Statistics
Matches: 33, Mismatches: 13, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
17 33 1.00
ACGTcount: A:0.54, C:0.08, G:0.03, T:0.35
Consensus pattern (17 bp):
TTAAAATAAATTTAAAA
Found at i:30099199 original size:23 final size:23
Alignment explanation
Indices: 30099172--30099222 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
30099162 TCAAAAAGAA
30099172 TATATATATATATGAACCAATTG
1 TATATATATATATGAACCAATTG
*
30099195 TATATATATATATGAATCAATTG
1 TATATATATATATGAACCAATTG
30099218 TATAT
1 TATAT
30099223 TTTAACTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.43, C:0.06, G:0.08, T:0.43
Consensus pattern (23 bp):
TATATATATATATGAACCAATTG
Found at i:30104140 original size:18 final size:19
Alignment explanation
Indices: 30104117--30104152 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
30104107 CATAATAGTT
30104117 TTTTCA-CAATAATTTAAC
1 TTTTCATCAATAATTTAAC
*
30104135 TTTTCATTAATAATTTAA
1 TTTTCATCAATAATTTAA
30104153 TATTTTAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.39, C:0.11, G:0.00, T:0.50
Consensus pattern (19 bp):
TTTTCATCAATAATTTAAC
Found at i:30109669 original size:29 final size:29
Alignment explanation
Indices: 30109613--30109669 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
30109603 TAACCTAATA
*
30109613 AAATATATAAAAAATATATTAATGATAAC
1 AAATATATAAAAAATATATTAATAATAAC
30109642 AAATA-ATATAAAAATATAATT-ATAATAA
1 AAATATATA-AAAAATAT-ATTAATAATAA
30109670 TGGCAATAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 3 0.12
29 19 0.76
30 3 0.12
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (29 bp):
AAATATATAAAAAATATATTAATAATAAC
Found at i:30109801 original size:15 final size:15
Alignment explanation
Indices: 30109775--30109812 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
30109765 ACATGTAATT
*
30109775 AAATAAAAGGCA-AA
1 AAATAAATGGCATAA
30109789 AATATAAATGGCATAA
1 AA-ATAAATGGCATAA
30109805 AAATAAAT
1 AAATAAAT
30109813 AATAAATCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 2 0.10
15 15 0.71
16 4 0.19
ACGTcount: A:0.66, C:0.05, G:0.11, T:0.18
Consensus pattern (15 bp):
AAATAAATGGCATAA
Found at i:30109832 original size:24 final size:24
Alignment explanation
Indices: 30109803--30109865 Score: 76
Period size: 23 Copynumber: 2.6 Consensus size: 24
30109793 TAAATGGCAT
30109803 AAAAATAAATAATAAATCAAA-AC
1 AAAAATAAATAATAAATCAAATAC
*
30109826 AATAAATAAATAA-AAATTAAATAC
1 AA-AAATAAATAATAAATCAAATAC
*
30109850 TAAAATAAATGAATAA
1 AAAAATAAAT-AATAA
30109866 TTATAAATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
23 17 0.50
24 15 0.44
25 2 0.06
ACGTcount: A:0.71, C:0.05, G:0.02, T:0.22
Consensus pattern (24 bp):
AAAAATAAATAATAAATCAAATAC
Found at i:30109865 original size:35 final size:35
Alignment explanation
Indices: 30109801--30109875 Score: 82
Period size: 35 Copynumber: 2.1 Consensus size: 35
30109791 TATAAATGGC
30109801 ATAAAAATAAATAATAAATCAAAACAATAA-ATAA
1 ATAAAAATAAATAATAAATCAAAACAATAATATAA
* **
30109835 ATAAAAATTAAATACTAAAAT-AAATGAATAATTATAA
1 ATAAAAA-TAAATAAT-AAATCAAAACAATAA-TATAA
30109872 ATAA
1 ATAA
30109876 CGAAAAAAGG
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
34 7 0.21
35 15 0.44
36 4 0.12
37 8 0.24
ACGTcount: A:0.69, C:0.04, G:0.01, T:0.25
Consensus pattern (35 bp):
ATAAAAATAAATAATAAATCAAAACAATAATATAA
Found at i:30112020 original size:25 final size:25
Alignment explanation
Indices: 30111973--30112020 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
30111963 CCAAAAACGG
* *
30111973 AATGAAAATAACTAAAGCTTAAAGA
1 AATGAAAATAACTAAAACATAAAGA
30111998 AATGAAAATAACTAAAACATAAA
1 AATGAAAATAACTAAAACATAAA
30112021 TTACAAGAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.65, C:0.08, G:0.08, T:0.19
Consensus pattern (25 bp):
AATGAAAATAACTAAAACATAAAGA
Found at i:30113623 original size:75 final size:73
Alignment explanation
Indices: 30113495--30113640 Score: 229
Period size: 75 Copynumber: 2.0 Consensus size: 73
30113485 CATCTTTTTA
*
30113495 AATAAAATATATTCATTTAAATATTTATCCTTTAATTATTTTTTCTTTCAAGTCCCATCAATGTC
1 AATAAAATATATTCATTTAAATATTTATCCTTTAATTATTTATTCTTTCAAGTCCCATCAATGTC
30113560 ATTTTTGT
66 ATTTTTGT
* * *
30113568 AATATAAATCTATTCATTTTAAATATTTATCCTTTAATTATTTATTCTTTGAAGTCTCATCAATG
1 AATA-AAATATATTCA-TTTAAATATTTATCCTTTAATTATTTATTCTTTCAAGTCCCATCAATG
*
30113633 TCTTTTTT
64 TCATTTTT
30113641 TTCTATTTTT
Statistics
Matches: 66, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
73 4 0.06
74 10 0.15
75 52 0.79
ACGTcount: A:0.31, C:0.13, G:0.04, T:0.52
Consensus pattern (73 bp):
AATAAAATATATTCATTTAAATATTTATCCTTTAATTATTTATTCTTTCAAGTCCCATCAATGTC
ATTTTTGT
Found at i:30115104 original size:25 final size:25
Alignment explanation
Indices: 30115071--30115123 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
30115061 AAAAGGAATA
*
30115071 TTTTAAAAAATACAAACTAATAATT
1 TTTTAAAAAATACAAACTAATAAAT
* *
30115096 TTTTTAAAAATACAAACTTATAAAT
1 TTTTAAAAAATACAAACTAATAAAT
30115121 TTT
1 TTT
30115124 GGAACAATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.42
Consensus pattern (25 bp):
TTTTAAAAAATACAAACTAATAAAT
Found at i:30119563 original size:2 final size:2
Alignment explanation
Indices: 30119556--30119618 Score: 51
Period size: 2 Copynumber: 33.0 Consensus size: 2
30119546 TTGAAAAACT
* * * *
30119556 TA TA TA TA TA TA TA TA TA TA TA T- TA TT TA T- TA TA AA AA GA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
30119596 TA TA AA TA TA T- TA AA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA
30119619 ATTCTTAACT
Statistics
Matches: 49, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
1 3 0.06
2 46 0.94
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (2 bp):
TA
Found at i:30122614 original size:12 final size:12
Alignment explanation
Indices: 30122597--30122630 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
30122587 ATTGGGGCTC
*
30122597 GAGTTGGTGCTT
1 GAGTTGGTCCTT
*
30122609 GGGTTGGTCCTT
1 GAGTTGGTCCTT
30122621 GAGTTGGTCC
1 GAGTTGGTCC
30122631 GCAGCCTCGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.06, C:0.15, G:0.41, T:0.38
Consensus pattern (12 bp):
GAGTTGGTCCTT
Found at i:30123310 original size:11 final size:11
Alignment explanation
Indices: 30123256--30123329 Score: 55
Period size: 13 Copynumber: 6.5 Consensus size: 11
30123246 TTTTAATTTG
30123256 TAAAAAATATT
1 TAAAAAATATT
**
30123267 TCGAAAATA--
1 TAAAAAATATT
30123276 TAAAAAATATAT
1 TAAAAAATAT-T
30123288 GTAAAAAATATT
1 -TAAAAAATATT
30123300 TCAAAAATATTATT
1 T-AAAAA-A-TATT
*
30123314 TTAAAAA-ATT
1 TAAAAAATATT
30123324 TAAAAA
1 TAAAAA
30123330 TATAAAAAAC
Statistics
Matches: 50, Mismatches: 6, Indels: 15
0.70 0.08 0.21
Matches are distributed among these distances:
9 7 0.14
10 8 0.16
11 8 0.16
12 7 0.14
13 15 0.30
14 5 0.10
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.34
Consensus pattern (11 bp):
TAAAAAATATT
Found at i:30123343 original size:19 final size:19
Alignment explanation
Indices: 30123316--30123358 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
30123306 ATATTATTTT
*
30123316 AAAAAATTT-AAAAATATA
1 AAAAAATTTCAAAAATAGA
*
30123334 AAAAACATTTCGAAAATAGA
1 AAAAA-ATTTCAAAAATAGA
30123354 AAAAA
1 AAAAA
30123359 GTATTTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 5 0.24
19 4 0.19
20 12 0.57
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.21
Consensus pattern (19 bp):
AAAAAATTTCAAAAATAGA
Found at i:30123370 original size:21 final size:20
Alignment explanation
Indices: 30123322--30123370 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
30123312 TTTTAAAAAA
*
30123322 TTTAAAAATATAAAAAACAT
1 TTTAAAAATAGAAAAAACAT
** *
30123342 TTCGAAAATAGAAAAAAGTAT
1 TTTAAAAATAGAAAAAA-CAT
30123363 TTTAAAAA
1 TTTAAAAA
30123371 ATTCGAAAAT
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.61, C:0.04, G:0.06, T:0.29
Consensus pattern (20 bp):
TTTAAAAATAGAAAAAACAT
Found at i:30124819 original size:93 final size:92
Alignment explanation
Indices: 30124590--30124825 Score: 427
Period size: 92 Copynumber: 2.6 Consensus size: 92
30124580 AAGTGTAATT
*
30124590 TGGTAAATAATGTATTGTCAAATCAACACATTATTTGATATAAATTGAAATATTATAATAATCTT
1 TGGTAAATAATGTATTGTCAAATCAACACATTATTTGATATAAATTGAAATATTATAACAATCTT
*
30124655 TAATTTAAATATTTTAAAATTTGAATT
66 TAATTTAAATATTTTAAAATTTGAATA
* *
30124682 TGGTAAATAATGTATTGTCAAATCAACACATTATTTGATATAAATTAAAATATTATAACAATTTT
1 TGGTAAATAATGTATTGTCAAATCAACACATTATTTGATATAAATTGAAATATTATAACAATCTT
30124747 TAATTTAAATAATTTTAAAATTTGAATA
66 TAATTTAAAT-ATTTTAAAATTTGAATA
30124775 TGGTAAATAATGTATTGTCAAATCAACACATTATTTGATATAAATTGAAAT
1 TGGTAAATAATGTATTGTCAAATCAACACATTATTTGATATAAATTGAAAT
30124826 CAAATTATAA
Statistics
Matches: 138, Mismatches: 5, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
92 72 0.52
93 66 0.48
ACGTcount: A:0.44, C:0.06, G:0.08, T:0.42
Consensus pattern (92 bp):
TGGTAAATAATGTATTGTCAAATCAACACATTATTTGATATAAATTGAAATATTATAACAATCTT
TAATTTAAATATTTTAAAATTTGAATA
Found at i:30124977 original size:77 final size:78
Alignment explanation
Indices: 30124875--30125029 Score: 249
Period size: 77 Copynumber: 2.0 Consensus size: 78
30124865 ATTTGACAAT
* *
30124875 ACATTATTTACCATATTCAAAATTTAAAATTATTTAAATTAAAA-ATTAATATAATATTTTAATT
1 ACATTATTTACCAAATTCAAAATTTAAAATTATTTAAATTAAAATATTAATATAATATTTAAATT
30124939 TATATCAAATAAC
66 TATATCAAATAAC
* * *
30124952 ACATTATTTGCCAAATTTAAAATTTAAAATTATTTAAATTAAAATTATTATTATAATATTTAAAT
1 ACATTATTTACCAAATTCAAAATTTAAAATTATTTAAATTAAAA-TATTAATATAATATTTAAAT
30125017 TTATATCAAATAA
65 TTATATCAAATAA
30125030 AGTGTTGATT
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
77 41 0.58
79 30 0.42
ACGTcount: A:0.49, C:0.06, G:0.01, T:0.44
Consensus pattern (78 bp):
ACATTATTTACCAAATTCAAAATTTAAAATTATTTAAATTAAAATATTAATATAATATTTAAATT
TATATCAAATAAC
Found at i:30125088 original size:15 final size:17
Alignment explanation
Indices: 30125070--30125109 Score: 57
Period size: 15 Copynumber: 2.5 Consensus size: 17
30125060 AATTCAAATT
30125070 TTAAAATTATT-TAA-A
1 TTAAAATTATTATAATA
30125085 TTAAAATTATTATAATA
1 TTAAAATTATTATAATA
*
30125102 TTACAATT
1 TTAAAATT
30125110 TATATCAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 11 0.50
16 3 0.14
17 8 0.36
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
TTAAAATTATTATAATA
Found at i:30125136 original size:92 final size:94
Alignment explanation
Indices: 30124947--30125155 Score: 325
Period size: 92 Copynumber: 2.2 Consensus size: 94
30124937 TTTATATCAA
* * *
30124947 ATAACACATTATTTGCCAAATTTAAAATTTAAAATTATTTAAATTAAAATTATTATTATAATATT
1 ATAATACATTATTTACCAAATTCAAAATTTAAAATTATTTAAATTAAAA-TATTATTATAATATT
30125012 TAAATTTATATCAAATAAAGTGTTGATTTG
65 TAAATTTATATCAAATAAAGTGTTGATTTG
* *
30125042 ATAATACATTATTTATCAAATTCAAATTTTAAAATTATTTAAATT-AAA-ATTATTATAATA-TT
1 ATAATACATTATTTACCAAATTCAAAATTTAAAATTATTTAAATTAAAATATTATTATAATATTT
*
30125104 ACAATTTATATCAAATAATGTGTTGATTTG
66 A-AATTTATATCAAATAAAGTGTTGATTTG
30125134 ATAATACATTATTTACCAAATT
1 ATAATACATTATTTACCAAATT
30125156 ACCCTTAATT
Statistics
Matches: 106, Mismatches: 7, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
91 3 0.03
92 60 0.57
94 3 0.03
95 40 0.38
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.44
Consensus pattern (94 bp):
ATAATACATTATTTACCAAATTCAAAATTTAAAATTATTTAAATTAAAATATTATTATAATATTT
AAATTTATATCAAATAAAGTGTTGATTTG
Found at i:30125248 original size:22 final size:22
Alignment explanation
Indices: 30125222--30125270 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
30125212 AGTATTGGGT
*
30125222 CACCTAAATTTCAGCTCACCAA
1 CACCTAAATTCCAGCTCACCAA
* * *
30125244 CACCTGAATTCCAGCTTACCAC
1 CACCTAAATTCCAGCTCACCAA
30125266 CACCT
1 CACCT
30125271 TTTGACTACT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.31, C:0.41, G:0.06, T:0.22
Consensus pattern (22 bp):
CACCTAAATTCCAGCTCACCAA
Found at i:30126266 original size:24 final size:23
Alignment explanation
Indices: 30126239--30126285 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
30126229 GTGGCTTGAT
**
30126239 AATTTGATTTTATATATATTTTTA
1 AATTTGATTAAATAT-TATTTTTA
*
30126263 AATTTTATTAAATATTATTTTTA
1 AATTTGATTAAATATTATTTTTA
30126286 TTTTAACTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (23 bp):
AATTTGATTAAATATTATTTTTA
Found at i:30126559 original size:35 final size:35
Alignment explanation
Indices: 30126519--30126588 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
30126509 TAGCTTTTCG
*
30126519 AATTTTTTAAAAT-TAGTTTTTATGTCTTCGAAATA
1 AATTTTTTAAAATATA-TTTTTATATCTTCGAAATA
* * *
30126554 AATTTTTTTACATATATTTTTATATTTTCGAAATA
1 AATTTTTTAAAATATATTTTTATATCTTCGAAATA
30126589 TTAAAAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 28 0.93
36 2 0.07
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.54
Consensus pattern (35 bp):
AATTTTTTAAAATATATTTTTATATCTTCGAAATA
Found at i:30126643 original size:24 final size:24
Alignment explanation
Indices: 30126611--30126690 Score: 85
Period size: 21 Copynumber: 3.4 Consensus size: 24
30126601 ATTTTCAAAA
30126611 TATATTTTTACAAATTAAAAATCT
1 TATATTTTTACAAATTAAAAATCT
** **
30126635 TATATTTTTTTACATTTTCGAAA---
1 TATA--TTTTTACAAATTAAAAATCT
30126658 TATATTTTTACAAATTAAAAATCT
1 TATATTTTTACAAATTAAAAATCT
30126682 TATATTTTT
1 TATATTTTT
30126691 TACATTTTCG
Statistics
Matches: 43, Mismatches: 8, Indels: 10
0.70 0.13 0.16
Matches are distributed among these distances:
21 13 0.30
23 4 0.09
24 13 0.30
26 13 0.30
ACGTcount: A:0.39, C:0.07, G:0.01, T:0.53
Consensus pattern (24 bp):
TATATTTTTACAAATTAAAAATCT
Found at i:30126712 original size:21 final size:21
Alignment explanation
Indices: 30126636--30126715 Score: 79
Period size: 21 Copynumber: 3.6 Consensus size: 21
30126626 TAAAAATCTT
30126636 ATATTTTTTTACATTTTCGAA
1 ATATTTTTTTACATTTTCGAA
* ** **
30126657 ATATATTTTTACAAATTAAAA
1 ATATTTTTTTACATTTTCGAA
30126678 ATCTTATATTTTTTACATTTTCGAA
1 A---TAT-TTTTTTACATTTTCGAA
30126703 ATATTTTTTTACA
1 ATATTTTTTTACA
30126716 AATGAAATAT
Statistics
Matches: 45, Mismatches: 10, Indels: 8
0.71 0.16 0.13
Matches are distributed among these distances:
21 26 0.58
22 3 0.07
24 3 0.07
25 13 0.29
ACGTcount: A:0.35, C:0.09, G:0.03, T:0.54
Consensus pattern (21 bp):
ATATTTTTTTACATTTTCGAA
Found at i:30126712 original size:46 final size:47
Alignment explanation
Indices: 30126598--30126718 Score: 217
Period size: 47 Copynumber: 2.6 Consensus size: 47
30126588 ATTAAAAAAA
*
30126598 TACATTTTCAAAATATATTTTTACAAATTAAAAATCTTATATTTTTT
1 TACATTTTCGAAATATATTTTTACAAATTAAAAATCTTATATTTTTT
30126645 TACATTTTCGAAATATATTTTTACAAATTAAAAATCTTATA-TTTTT
1 TACATTTTCGAAATATATTTTTACAAATTAAAAATCTTATATTTTTT
*
30126691 TACATTTTCGAAATATTTTTTTACAAAT
1 TACATTTTCGAAATATATTTTTACAAAT
30126719 GAAATATTTT
Statistics
Matches: 72, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
46 32 0.44
47 40 0.56
ACGTcount: A:0.39, C:0.09, G:0.02, T:0.50
Consensus pattern (47 bp):
TACATTTTCGAAATATATTTTTACAAATTAAAAATCTTATATTTTTT
Found at i:30127774 original size:28 final size:28
Alignment explanation
Indices: 30127743--30127827 Score: 125
Period size: 28 Copynumber: 3.0 Consensus size: 28
30127733 ATTTTTTTCA
*
30127743 TTTATTTTTTAAATTTAATTTCTAATTT
1 TTTATATTTTAAATTTAATTTCTAATTT
30127771 TTTATATTTTAAATTTAATTTCTAATTT
1 TTTATATTTTAAATTTAATTTCTAATTT
* *
30127799 CGTTTATATTTTAAATTTCATTTTTAATT
1 --TTTATATTTTAAATTTAATTTCTAATT
30127828 ATTATTTTTT
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
28 27 0.52
30 25 0.48
ACGTcount: A:0.29, C:0.05, G:0.01, T:0.65
Consensus pattern (28 bp):
TTTATATTTTAAATTTAATTTCTAATTT
Found at i:30127789 original size:21 final size:20
Alignment explanation
Indices: 30127742--30127791 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
30127732 GATTTTTTTC
30127742 ATTT-ATTTTTTAAATTTAA
1 ATTTAATTTTTTAAATTTAA
* *
30127761 TTTCTAATTTTTTATATTTTAA
1 ATT-TAATTTTTTA-AATTTAA
30127783 ATTTAATTT
1 ATTTAATTT
30127792 CTAATTTCGT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
19 2 0.08
20 1 0.04
21 14 0.56
22 8 0.32
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (20 bp):
ATTTAATTTTTTAAATTTAA
Found at i:30127805 original size:30 final size:29
Alignment explanation
Indices: 30127738--30127827 Score: 128
Period size: 30 Copynumber: 3.1 Consensus size: 29
30127728 TTTTGATTTT
*
30127738 TTTCATTTATTTTTTAAATTTAATTTCTAA
1 TTTC-TTTATATTTTAAATTTAATTTCTAA
30127768 TTT-TTTATATTTTAAATTTAATTTCTAA
1 TTTCTTTATATTTTAAATTTAATTTCTAA
* *
30127796 TTTCGTTTATATTTTAAATTTCATTTTTAA
1 TTTC-TTTATATTTTAAATTTAATTTCTAA
30127826 TT
1 TT
30127828 ATTATTTTTT
Statistics
Matches: 55, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
28 27 0.49
30 28 0.51
ACGTcount: A:0.29, C:0.06, G:0.01, T:0.64
Consensus pattern (29 bp):
TTTCTTTATATTTTAAATTTAATTTCTAA
Found at i:30128832 original size:59 final size:59
Alignment explanation
Indices: 30128659--30128919 Score: 264
Period size: 58 Copynumber: 4.5 Consensus size: 59
30128649 GAGGGAACGT
* ** * *
30128659 TGGTGTCGGTCAATGCATGGTCAACA-AAAAAAATTATTTTTTTATCAGATAAAAAAGG
1 TGGTGTCGGCCAATGCATGACCAACACAAAAAAAATATTTTTTTATCTGATAAAAAAGG
* * * * * * *
30128717 TGGTGCCGGCCAA-ACATTGTCCAACACCAAAAAAA-ATTTTCTTGTCTGATAAAAAAAG
1 TGGTGTCGGCCAATGCA-TGACCAACACAAAAAAAATATTTTTTTATCTGATAAAAAAGG
* *
30128775 TGGTGTCGGCTAATGCATGACCAACACAAAAAAAAATTATTTTTTTATTTGAT-AAAAAGG
1 TGGTGTCGGCCAATGCATGACCAACAC-AAAAAAAA-TATTTTTTTATCTGATAAAAAAGG
* * * * * *
30128835 TGG-ATCGGCCAATGCATGGCCAACATC-AAAAAAATGTTTTTTTATTTGATTAAAAAGA
1 TGGTGTCGGCCAATGCATGACCAACA-CAAAAAAAATATTTTTTTATCTGATAAAAAAGG
30128893 TGGTGTCGGCCAATGCATGACCAACAC
1 TGGTGTCGGCCAATGCATGACCAACAC
30128920 TACAGAGCCT
Statistics
Matches: 167, Mismatches: 27, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
57 17 0.10
58 74 0.44
59 54 0.32
60 10 0.06
61 12 0.07
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.28
Consensus pattern (59 bp):
TGGTGTCGGCCAATGCATGACCAACACAAAAAAAATATTTTTTTATCTGATAAAAAAGG
Found at i:30128897 original size:118 final size:118
Alignment explanation
Indices: 30128659--30128919 Score: 302
Period size: 118 Copynumber: 2.2 Consensus size: 118
30128649 GAGGGAACGT
* **
30128659 TGGTGTCGGTCAATGCATGGTC-A-AC-AAAAAAAATTATTTTTTTATCAGATAAAAAAGGTGGT
1 TGGTGTCGGCCAATGCATGACCAACACAAAAAAAAATTATTTTTTTATCAGATAAAAAAGGTGGT
* *
30128721 GCCGGCCAAACATTGTCCAACACCAAAAAAAATTTTCTTGTCTGATAAAAAAAG
66 -CCGGCCAAACATTGGCCAACACCAAAAAAAATTTTCTTATCTGATAAAAAAAG
* **
30128775 TGGTGTCGGCTAATGCATGACCAACACAAAAAAAAATTATTTTTTTATTTGAT-AAAAAGGTGGA
1 TGGTGTCGGCCAATGCATGACCAACACAAAAAAAAATTATTTTTTTATCAGATAAAAAAGGTGG-
* * * * * *
30128839 T-CGGCCAATGCA-TGGCCAACATCAAAAAAATGTTTTTTTATTTGAT-TAAAAAG
65 TCCGGCCAA-ACATTGGCCAACACCAAAAAAA-ATTTTCTTATCTGATAAAAAAAG
30128892 ATGGTGTCGGCCAATGCATGACCAACAC
1 -TGGTGTCGGCCAATGCATGACCAACAC
30128920 TACAGAGCCT
Statistics
Matches: 123, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
116 18 0.15
117 30 0.24
118 51 0.41
119 24 0.20
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.28
Consensus pattern (118 bp):
TGGTGTCGGCCAATGCATGACCAACACAAAAAAAAATTATTTTTTTATCAGATAAAAAAGGTGGT
CCGGCCAAACATTGGCCAACACCAAAAAAAATTTTCTTATCTGATAAAAAAAG
Found at i:30130400 original size:24 final size:26
Alignment explanation
Indices: 30130373--30130420 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
30130363 TATATTAAAA
*
30130373 ATATTTC-AATT-TTTTTAAAATACC
1 ATATTTCAAATTATATTTAAAATACC
30130397 ATATTTCAAATTATATTTAAAATA
1 ATATTTCAAATTATATTTAAAATA
30130421 ATTTAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.33
25 4 0.19
26 10 0.48
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (26 bp):
ATATTTCAAATTATATTTAAAATACC
Found at i:30130530 original size:25 final size:26
Alignment explanation
Indices: 30130488--30130545 Score: 84
Period size: 25 Copynumber: 2.3 Consensus size: 26
30130478 TTTCAAATCT
*
30130488 AAATTAAAAATAATTTTCCCA-ATTTC
1 AAATTAAAAATAATTTT-CAATATTTC
30130514 AAATTAAAAATAA-TTTCAATATTTC
1 AAATTAAAAATAATTTTCAATATTTC
30130539 AAATTAA
1 AAATTAA
30130546 GTTTTTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
24 2 0.07
25 15 0.50
26 13 0.43
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (26 bp):
AAATTAAAAATAATTTTCAATATTTC
Found at i:30131858 original size:19 final size:20
Alignment explanation
Indices: 30131832--30131883 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
30131822 TTATTTTTTT
30131832 ATATTTTTTACATTTTCAAA
1 ATATTTTTTACATTTTCAAA
* *
30131852 ATATTTTTTATATTTTGAAA
1 ATATTTTTTACATTTTCAAA
30131872 ATATTTTTTACA
1 ATATTTTTTACA
30131884 AATGAAATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.58
Consensus pattern (20 bp):
ATATTTTTTACATTTTCAAA
Found at i:30133216 original size:21 final size:21
Alignment explanation
Indices: 30133192--30133313 Score: 111
Period size: 21 Copynumber: 5.6 Consensus size: 21
30133182 ATATTTCATT
*
30133192 TGTAAAAAAATATTTCTAAAA
1 TGTAAAAAAATATTTCGAAAA
*
30133213 TGTAAATAAATATTTCGAAAA
1 TGTAAAAAAATATTTCGAAAA
* * ** **
30133234 TATAAAAATATAAGATTTTTAATT
1 TGT-AAAA-A-AATATTTCGAAAA
30133258 TGTAAAAAAATACTTT-GAAAA
1 TGTAAAAAAATA-TTTCGAAAA
30133279 TGTAAAAAAATATTTCGAAAA
1 TGTAAAAAAATATTTCGAAAA
*
30133300 TATAAAAAATATAT
1 TGTAAAAAA-ATAT
30133314 GTAAAAAAAT
Statistics
Matches: 80, Mismatches: 15, Indels: 11
0.75 0.14 0.10
Matches are distributed among these distances:
20 3 0.04
21 51 0.64
22 11 0.14
23 5 0.06
24 10 0.12
ACGTcount: A:0.56, C:0.03, G:0.07, T:0.34
Consensus pattern (21 bp):
TGTAAAAAAATATTTCGAAAA
Found at i:30133379 original size:20 final size:20
Alignment explanation
Indices: 30133348--30133397 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
30133338 TAATTTTTTT
*
30133348 TAAAAAA-A-TTCGAAAATC
1 TAAAAAATATTTCGAAAATA
*
30133366 TAAAAAATATTTCGAATATA
1 TAAAAAATATTTCGAAAATA
*
30133386 TAAAAATTATTT
1 TAAAAAATATTT
30133398 TTAAAAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 7 0.26
19 1 0.04
20 19 0.70
ACGTcount: A:0.56, C:0.06, G:0.04, T:0.34
Consensus pattern (20 bp):
TAAAAAATATTTCGAAAATA
Found at i:30134817 original size:26 final size:25
Alignment explanation
Indices: 30134776--30134824 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
30134766 TTTTTTAAAT
* *
30134776 TATTTTAAATATAATTTGAAATATGG
1 TATTTTAAA-AAAAATTGAAATATGG
30134802 TATTTTAAAAAAAATTGAAATAT
1 TATTTTAAAAAAAATTGAAATAT
30134825 TTTAAATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 12 0.57
26 9 0.43
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.43
Consensus pattern (25 bp):
TATTTTAAAAAAAATTGAAATATGG
Found at i:30135030 original size:17 final size:16
Alignment explanation
Indices: 30134994--30135055 Score: 63
Period size: 17 Copynumber: 3.6 Consensus size: 16
30134984 CCATTTGCTC
30134994 CATTTTCAATTTTAATTT
1 CATTTT-AA-TTTAATTT
*
30135012 CATCTTTAATTTCATTT
1 CAT-TTTAATTTAATTT
30135029 CAGTTTT-ATTTAATATT
1 CA-TTTTAATTTAAT-TT
30135046 CATTTTAATT
1 CATTTTAATT
30135056 AAAATTAAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
16 10 0.26
17 19 0.50
18 6 0.16
19 3 0.08
ACGTcount: A:0.27, C:0.11, G:0.02, T:0.60
Consensus pattern (16 bp):
CATTTTAATTTAATTT
Found at i:30135054 original size:12 final size:11
Alignment explanation
Indices: 30134997--30135055 Score: 57
Period size: 12 Copynumber: 5.2 Consensus size: 11
30134987 TTTGCTCCAT
30134997 TTTCAATTTTAA
1 TTTC-ATTTTAA
30135009 TTTCATCTTTAA
1 TTTCAT-TTTAA
* *
30135021 TTTCATTTCAG
1 TTTCATTTTAA
*
30135032 TTTTA-TTTAA
1 TTTCATTTTAA
30135042 TATTCATTTTAA
1 T-TTCATTTTAA
30135054 TT
1 TT
30135056 AAAATTAAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
10 4 0.11
11 13 0.34
12 21 0.55
ACGTcount: A:0.27, C:0.10, G:0.02, T:0.61
Consensus pattern (11 bp):
TTTCATTTTAA
Found at i:30135076 original size:12 final size:12
Alignment explanation
Indices: 30135056--30135088 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
30135046 CATTTTAATT
30135056 AAAATTAAAATG
1 AAAATTAAAATG
*
30135068 AATATTAAAATG
1 AAAATTAAAATG
30135080 AAAATTAAA
1 AAAATTAAA
30135089 TAAAACTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.06, T:0.27
Consensus pattern (12 bp):
AAAATTAAAATG
Found at i:30135109 original size:17 final size:15
Alignment explanation
Indices: 30135058--30135119 Score: 58
Period size: 17 Copynumber: 4.1 Consensus size: 15
30135048 TTTTAATTAA
30135058 AATTAAAATG-AA-T
1 AATTAAAATGAAATT
30135071 -ATTAAAATGAAAATT
1 AATTAAAATG-AAATT
*
30135086 AAATAAAACTGAAATT
1 AATTAAAA-TGAAATT
30135102 AAGTTAAAGATGAAATT
1 AA-TTAAA-ATGAAATT
30135119 A
1 A
30135120 TAATTGAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
12 9 0.22
14 2 0.05
15 1 0.03
16 13 0.32
17 14 0.35
18 1 0.03
ACGTcount: A:0.60, C:0.02, G:0.10, T:0.29
Consensus pattern (15 bp):
AATTAAAATGAAATT
Found at i:30135333 original size:20 final size:20
Alignment explanation
Indices: 30135285--30135335 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
30135275 AATGGGTCTA
*
30135285 AAAAAATATTTAAAAAATAAT
1 AAAAAA-ATTTAAAAAATAAC
** *
30135306 AATTAAATTTAAAAAATACC
1 AAAAAAATTTAAAAAATAAC
30135326 AAAAAAATTT
1 AAAAAAATTT
30135336 TATATTAAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (20 bp):
AAAAAAATTTAAAAAATAAC
Found at i:30135392 original size:25 final size:23
Alignment explanation
Indices: 30135330--30135395 Score: 73
Period size: 25 Copynumber: 2.8 Consensus size: 23
30135320 AATACCAAAA
30135330 AAATTTTATATTAAA-AATATTTC
1 AAATTTTAT-TTAAATAATATTTC
*
30135353 -AATTTTTTTTAAAATACCATATTTC
1 AAATTTTATTT-AAATA--ATATTTC
30135378 AAATTTTATTTAAATAAT
1 AAATTTTATTTAAATAAT
30135396 TTAAAAAATG
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
21 2 0.06
22 10 0.28
23 3 0.08
25 12 0.33
26 9 0.25
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (23 bp):
AAATTTTATTTAAATAATATTTC
Found at i:30136788 original size:11 final size:11
Alignment explanation
Indices: 30136761--30136821 Score: 54
Period size: 10 Copynumber: 5.5 Consensus size: 11
30136751 ATATTTCCAA
*
30136761 ATTTTTTAAAAT
1 ATTTTTT-ATAT
30136773 ATTTTTT-TAT
1 ATTTTTTATAT
* *
30136783 ATTTTTGAAAT
1 ATTTTTTATAT
30136794 ATTTTTTACATAT
1 ATTTTTT--ATAT
30136807 ATTTTTTATAT
1 ATTTTTTATAT
30136818 -TTTT
1 ATTTT
30136822 GAATTTTTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
10 12 0.29
11 12 0.29
12 7 0.17
13 10 0.24
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (11 bp):
ATTTTTTATAT
Found at i:30136800 original size:33 final size:33
Alignment explanation
Indices: 30136761--30136836 Score: 111
Period size: 33 Copynumber: 2.3 Consensus size: 33
30136751 ATATTTCCAA
30136761 ATTTTTTAAAATAT-TTTTTTATATTTTTGAAAT
1 ATTTTTTAAAATATATTTTTTATATTTTTG-AAT
*
30136794 ATTTTTT-ACATATATTTTTTATATTTTTGAAT
1 ATTTTTTAAAATATATTTTTTATATTTTTGAAT
*
30136826 TTTTTTTAAAA
1 ATTTTTTAAAA
30136837 AAAATTATAC
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
32 14 0.37
33 24 0.63
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.64
Consensus pattern (33 bp):
ATTTTTTAAAATATATTTTTTATATTTTTGAAT
Found at i:30136808 original size:13 final size:12
Alignment explanation
Indices: 30136761--30136814 Score: 60
Period size: 13 Copynumber: 4.7 Consensus size: 12
30136751 ATATTTCCAA
*
30136761 ATTTTTTAAAAT
1 ATTTTTTAATAT
30136773 ATTTTTT--TAT
1 ATTTTTTAATAT
*
30136783 ATTTTTGAA-AT
1 ATTTTTTAATAT
30136794 ATTTTTTACATAT
1 ATTTTTTA-ATAT
30136807 ATTTTTTA
1 ATTTTTTA
30136815 TATTTTTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
10 8 0.23
11 9 0.26
12 8 0.23
13 10 0.29
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (12 bp):
ATTTTTTAATAT
Found at i:30138268 original size:21 final size:20
Alignment explanation
Indices: 30138218--30138273 Score: 85
Period size: 20 Copynumber: 2.7 Consensus size: 20
30138208 AAGTTTAGTT
30138218 AATATTAAAAAATATTTCGAA
1 AATA-TAAAAAATATTTCGAA
*
30138239 AATGTAAAAAATATTTCGAA
1 AATATAAAAAATATTTCGAA
30138259 AATATAAAAATATAT
1 AATATAAAAA-ATAT
30138274 GTAAAAATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 25 0.78
21 7 0.22
ACGTcount: A:0.59, C:0.04, G:0.05, T:0.32
Consensus pattern (20 bp):
AATATAAAAAATATTTCGAA
Found at i:30138280 original size:31 final size:31
Alignment explanation
Indices: 30138240--30138332 Score: 100
Period size: 31 Copynumber: 3.0 Consensus size: 31
30138230 TATTTCGAAA
30138240 ATGTAAAAAATATTTCGAAAATATAAAAATAT
1 ATGT-AAAAATATTTCGAAAATATAAAAATAT
* *
30138272 ATGTAAAAATATTTTGAAAATAT-AATATAT
1 ATGTAAAAATATTTCGAAAATATAAAAATAT
* * * *
30138302 TTTTAAAAA-AATTCTAAAATATAAAGAATAT
1 ATGTAAAAATATTTCGAAAATATAAA-AATAT
30138333 TTCTAAAATA
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
29 10 0.20
30 15 0.29
31 22 0.43
32 4 0.08
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.35
Consensus pattern (31 bp):
ATGTAAAAATATTTCGAAAATATAAAAATAT
Found at i:30138332 original size:80 final size:81
Alignment explanation
Indices: 30138222--30138374 Score: 213
Period size: 80 Copynumber: 1.9 Consensus size: 81
30138212 TTAGTTAATA
* *
30138222 TTAAAAAATATTTCGAAAATGTAAAAAATATTTCGAAAATAT-AAAAATATATGTAAAAATATTT
1 TTAAAAAATATTTCGAAAATATAAAAAATATTTCGAAAATATAAAAAAAATATGTAAAAA-A-TT
30138286 TGAAAATATAATATATTT
64 TGAAAATATAATATATTT
* * * *
30138304 TTAAAAAA-A-TTCTAAAATATAAAGAATATTTCTAAAATATAAAAAAAATATTTAAAAAATTTG
1 TTAAAAAATATTTCGAAAATATAAAAAATATTTCGAAAATATAAAAAAAATATGTAAAAAATTTG
30138367 AAAATATA
66 AAAATATA
30138375 TCTTACCATA
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
79 12 0.19
80 28 0.44
81 16 0.25
82 8 0.12
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.35
Consensus pattern (81 bp):
TTAAAAAATATTTCGAAAATATAAAAAATATTTCGAAAATATAAAAAAAATATGTAAAAAATTTG
AAAATATAATATATTT
Found at i:30138333 original size:31 final size:30
Alignment explanation
Indices: 30138243--30138340 Score: 90
Period size: 30 Copynumber: 3.2 Consensus size: 30
30138233 TTCGAAAATG
* * *
30138243 TAAAAAATATTTCGAAAATATAAAAATATATG
1 TAAAAAA-A-TTCTAAAATATAAAAATATTTC
* * * *
30138275 TAAAAATATTTTGAAAATAT-AATATATTTT
1 TAAAAAAATTCT-AAAATATAAAAATATTTC
30138305 TAAAAAAATTCTAAAATATAAAGAATATTTC
1 TAAAAAAATTCTAAAATATAAA-AATATTTC
30138336 TAAAA
1 TAAAA
30138341 TATAAAAAAA
Statistics
Matches: 53, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
29 7 0.13
30 21 0.40
31 19 0.36
32 6 0.11
ACGTcount: A:0.57, C:0.03, G:0.04, T:0.36
Consensus pattern (30 bp):
TAAAAAAATTCTAAAATATAAAAATATTTC
Found at i:30138359 original size:20 final size:19
Alignment explanation
Indices: 30138306--30138360 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
30138296 ATATATTTTT
*
30138306 AAAAAAATTCTAAAATATA
1 AAAAAAATTTTAAAATATA
* *
30138325 AAGAATATTTCTAAAATATA
1 AAAAAAATTT-TAAAATATA
30138345 AAAAAAATATTTAAAA
1 AAAAAAAT-TTTAAAA
30138361 AATTTGAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 7 0.24
20 20 0.69
21 2 0.07
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (19 bp):
AAAAAAATTTTAAAATATA
Found at i:30139751 original size:24 final size:24
Alignment explanation
Indices: 30139724--30139771 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
30139714 AGGTTTTTAA
*
30139724 TTAATTTAATTT-AATCATAATTTT
1 TTAAATTAATTTAAAT-ATAATTTT
*
30139748 TTAAATTATTTTAAATATAATTTT
1 TTAAATTAATTTAAATATAATTTT
30139772 AAATATGGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 18 0.86
25 3 0.14
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (24 bp):
TTAAATTAATTTAAATATAATTTT
Found at i:30139783 original size:12 final size:12
Alignment explanation
Indices: 30139746--30139777 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
30139736 AATCATAATT
30139746 TTTTAAAT-T-A
1 TTTTAAATATAA
30139756 TTTTAAATATAA
1 TTTTAAATATAA
30139768 TTTTAAATAT
1 TTTTAAATAT
30139778 GGTTTTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 8 0.40
11 1 0.05
12 11 0.55
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
TTTTAAATATAA
Found at i:30140038 original size:23 final size:25
Alignment explanation
Indices: 30140012--30140063 Score: 67
Period size: 23 Copynumber: 2.2 Consensus size: 25
30140002 TAATTTCATG
30140012 TTTAAAAAGAAAATT-AA-ATAAAA
1 TTTAAAAAGAAAATTAAAGATAAAA
*
30140035 TTT--AAATAAAATTAAAGATAAAA
1 TTTAAAAAGAAAATTAAAGATAAAA
30140058 TTTAAA
1 TTTAAA
30140064 TTGAAAATGG
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
21 9 0.38
22 2 0.08
23 12 0.50
25 1 0.04
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (25 bp):
TTTAAAAAGAAAATTAAAGATAAAA
Found at i:30140041 original size:11 final size:11
Alignment explanation
Indices: 30140021--30140064 Score: 63
Period size: 11 Copynumber: 4.0 Consensus size: 11
30140011 GTTTAAAAAG
30140021 AAAA-TTAAAT
1 AAAATTTAAAT
30140031 AAAATTTAAAT
1 AAAATTTAAAT
*
30140042 AAAATTAAAGAT
1 AAAATTTAA-AT
30140054 AAAATTTAAAT
1 AAAATTTAAAT
30140065 TGAAAATGGA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
10 4 0.13
11 16 0.53
12 10 0.33
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (11 bp):
AAAATTTAAAT
Found at i:30140064 original size:23 final size:21
Alignment explanation
Indices: 30140021--30140064 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 21
30140011 GTTTAAAAAG
30140021 AAAATTAAATAAAATTTAAAT
1 AAAATTAAATAAAATTTAAAT
30140042 AAAATTAAAGATAAAATTTAAAT
1 AAAATT-AA-ATAAAATTTAAAT
30140065 TGAAAATGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 6 0.29
22 2 0.10
23 13 0.62
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (21 bp):
AAAATTAAATAAAATTTAAAT
Found at i:30140313 original size:23 final size:23
Alignment explanation
Indices: 30140278--30140323 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
30140268 ACCATATTTT
* * *
30140278 AAATTATATTTAAAATAATTTAA
1 AAATGATAATTAAAATAAATTAA
*
30140301 AAATGATAATTAAATTAAATTAA
1 AAATGATAATTAAAATAAATTAA
30140324 TTAGAAAACC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (23 bp):
AAATGATAATTAAAATAAATTAA
Found at i:30140459 original size:18 final size:18
Alignment explanation
Indices: 30140429--30140467 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
30140419 TAAAAACCTA
30140429 TTTAAATTAAAAA-TAAT
1 TTTAAATTAAAAATTAAT
*
30140446 TTTAATATTTAAAATTAAT
1 TTTAA-ATTAAAAATTAAT
30140465 TTT
1 TTT
30140468 TTTTGCTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 7 0.37
19 7 0.37
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTAAATTAAAAATTAAT
Found at i:30144988 original size:450 final size:450
Alignment explanation
Indices: 30144147--30145044 Score: 1697
Period size: 450 Copynumber: 2.0 Consensus size: 450
30144137 TGGTACGTAC
30144147 TGGTGGTGGTGGTGGTGATGAGGGTGAGTTAGAGTCATCGTCATTGATGTTGATGACTGGTGGCG
1 TGGTGGTGGTGGTGGTGATGAGGGTGAGTTAGAGTCATCGTCATTGATGTTGATGACTGGTGGCG
*
30144212 CTGTGAAATGATTTCGTTGACGATTTAAAGATGCTGGAAACTGCTCATCCGAGTGGCTTCGCGTA
66 CTGCGAAATGATTTCGTTGACGATTTAAAGATGCTGGAAACTGCTCATCCGAGTGGCTTCGCGTA
*
30144277 TGAACCATGCTTGCTGTTGTTTTTTGTATTTCTATCTCTATAGTGGTGTGCGACATTAGACGACG
131 TGAACCATGCTTGCTGTTGTTTTTCGTATTTCTATCTCTATAGTGGTGTGCGACATTAGACGACG
30144342 ACAGGTGCGATGAACGTGTTTGGACAGTGAGGTTTTGTAGTTTGAAGGTGGTGATGGGGTTTTGG
196 ACAGGTGCGATGAACGTGTTTGGACAGTGAGGTTTTGTAGTTTGAAGGTGGTGATGGGGTTTTGG
*
30144407 ATAGGTATTTATGGTGGGTTAATTATTTTCCCAAAAGCACTGGGGCACATAGAATATGTAGTTGT
261 ATAGGTATTTATGGTGGGTTAATTATTTTCCCAAAAGCACTGGGGCACATAGAATATGCAGTTGT
30144472 TGATCTTTTCGATCGGCTTAGCAAGAGAGTCATACCAGTCCCAACAATACTCGCCGAGACCTTTA
326 TGATCTTTTCGATCGGCTTAGCAAGAGAGTCATACCAGTCCCAACAATACTCGCCGAGACCTTTA
*
30144537 GATCGCTAAAAGCTTGTCGAAGAGAAGGAGAAGGGAGGTTCATCGGTTACGCACCACTGG
391 GATCGCTAAAAGCTTGTCGAAGAGAAGGAGAAGGGAGGTTCATCGATTACGCACCACTGG
30144597 TGGTGGTGGTGGTGGTGATGAGGGTGAGTTAGAGTCATCGTCATTGATGTTGATGACTGGTGGCG
1 TGGTGGTGGTGGTGGTGATGAGGGTGAGTTAGAGTCATCGTCATTGATGTTGATGACTGGTGGCG
*
30144662 CTGCGAAATGATTTCGTTGACGGTTTAAAGATGCTGGAAACTGCTCATCCGAGTGGCTTCGCGTA
66 CTGCGAAATGATTTCGTTGACGATTTAAAGATGCTGGAAACTGCTCATCCGAGTGGCTTCGCGTA
*
30144727 TGAACCATGCTTGCTGTTGTTTTTCGTATTTCTATCTTTATAGTGGTGTGCGACATTAGACGACG
131 TGAACCATGCTTGCTGTTGTTTTTCGTATTTCTATCTCTATAGTGGTGTGCGACATTAGACGACG
30144792 ACAGGTGCGATGAACGTGTTTGGACAGTGAGGTTTTGTAGTTTGAAGGTGGTGATGGGGTTTTGG
196 ACAGGTGCGATGAACGTGTTTGGACAGTGAGGTTTTGTAGTTTGAAGGTGGTGATGGGGTTTTGG
* *
30144857 ATGGGTATTTATGGTGGGTTAATTATTTTCCCAAAAGCACTGGGGCACATAGAATTTGCAGTTGT
261 ATAGGTATTTATGGTGGGTTAATTATTTTCCCAAAAGCACTGGGGCACATAGAATATGCAGTTGT
* *
30144922 TGATCTTTTCGATCGGCTTAGCAAGAGAGTCATACCAGTGCCAATAATACTCGCCGAGACCTTTA
326 TGATCTTTTCGATCGGCTTAGCAAGAGAGTCATACCAGTCCCAACAATACTCGCCGAGACCTTTA
*
30144987 GATCGCTAAAAGCTTGTCGAAGAGAAGGAGAAGGGAGGTTCATCGATTGCGCACCACT
391 GATCGCTAAAAGCTTGTCGAAGAGAAGGAGAAGGGAGGTTCATCGATTACGCACCACT
30145045 TTTAATGGCT
Statistics
Matches: 437, Mismatches: 11, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
450 437 1.00
ACGTcount: A:0.23, C:0.15, G:0.30, T:0.31
Consensus pattern (450 bp):
TGGTGGTGGTGGTGGTGATGAGGGTGAGTTAGAGTCATCGTCATTGATGTTGATGACTGGTGGCG
CTGCGAAATGATTTCGTTGACGATTTAAAGATGCTGGAAACTGCTCATCCGAGTGGCTTCGCGTA
TGAACCATGCTTGCTGTTGTTTTTCGTATTTCTATCTCTATAGTGGTGTGCGACATTAGACGACG
ACAGGTGCGATGAACGTGTTTGGACAGTGAGGTTTTGTAGTTTGAAGGTGGTGATGGGGTTTTGG
ATAGGTATTTATGGTGGGTTAATTATTTTCCCAAAAGCACTGGGGCACATAGAATATGCAGTTGT
TGATCTTTTCGATCGGCTTAGCAAGAGAGTCATACCAGTCCCAACAATACTCGCCGAGACCTTTA
GATCGCTAAAAGCTTGTCGAAGAGAAGGAGAAGGGAGGTTCATCGATTACGCACCACTGG
Found at i:30162801 original size:42 final size:42
Alignment explanation
Indices: 30162715--30162868 Score: 211
Period size: 42 Copynumber: 3.7 Consensus size: 42
30162705 TCGAGTCTTA
* * *
30162715 AGTCTTCCTTTAAACATAATCTC-TGCTCATCCCGAGTCACG
1 AGTCTTCCTTTAAACATAATCTCATGCTCTTTCTGAGTCACG
* * * *
30162756 AGTCTTCCTTTAAACAAAATTTCATGCTCTTTTTGAGTCAAG
1 AGTCTTCCTTTAAACATAATCTCATGCTCTTTCTGAGTCACG
* *
30162798 AGTCTTCCTTAAAACATAATCTCATACTCTTTCTGAGTCACG
1 AGTCTTCCTTTAAACATAATCTCATGCTCTTTCTGAGTCACG
30162840 AGTCTTCCTTTTAAACATAATCTCATGCT
1 AGTCTTCC-TTTAAACATAATCTCATGCT
30162869 TATCCCGAGA
Statistics
Matches: 96, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
41 21 0.22
42 57 0.59
43 18 0.19
ACGTcount: A:0.27, C:0.25, G:0.10, T:0.37
Consensus pattern (42 bp):
AGTCTTCCTTTAAACATAATCTCATGCTCTTTCTGAGTCACG
Found at i:30162886 original size:43 final size:42
Alignment explanation
Indices: 30162715--30162888 Score: 199
Period size: 42 Copynumber: 4.1 Consensus size: 42
30162705 TCGAGTCTTA
*
30162715 AGTCTTCCTTTAAACATAATCTC-TGCTCATCCCGAGTCACG
1 AGTCTTCCTTTAAACATAATCTCATGCTCTTCCCGAGTCACG
* * *** *
30162756 AGTCTTCCTTTAAACAAAATTTCATGCTCTTTTTGAGTCAAG
1 AGTCTTCCTTTAAACATAATCTCATGCTCTTCCCGAGTCACG
* * * *
30162798 AGTCTTCCTTAAAACATAATCTCATACTCTTTCTGAGTCACG
1 AGTCTTCCTTTAAACATAATCTCATGCTCTTCCCGAGTCACG
* *
30162840 AGTCTTCCTTTTAAACATAATCTCATGCT-TATCCCGAGACATG
1 AGTCTTCC-TTTAAACATAATCTCATGCTCT-TCCCGAGTCACG
30162883 AGTCTT
1 AGTCTT
30162889 TCATTTATAC
Statistics
Matches: 111, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
41 21 0.19
42 58 0.52
43 32 0.29
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.36
Consensus pattern (42 bp):
AGTCTTCCTTTAAACATAATCTCATGCTCTTCCCGAGTCACG
Found at i:30162888 original size:85 final size:83
Alignment explanation
Indices: 30162715--30162888 Score: 206
Period size: 85 Copynumber: 2.1 Consensus size: 83
30162705 TCGAGTCTTA
* * *
30162715 AGTCTTCCTTTAAACATAATCTCTGCTCATCCCGAGTCACGAGTCTTCCTTTAAACAAAATTTCA
1 AGTCTTCCTTAAAACATAATCTCTACTCATCCCGAGTCACGAGTCTTCCTTTAAACAAAATCTCA
*** *
30162780 TGCTCTTTTTGAGTCAAG
66 TGCTCTTCCCGAGACAAG
* * * *
30162798 AGTCTTCCTTAAAACATAATCTCATACTCTTTCTGAGTCACGAGTCTTCCTTTTAAACATAATCT
1 AGTCTTCCTTAAAACATAATCTC-TACTCATCCCGAGTCACGAGTCTTCC-TTTAAACAAAATCT
*
30162863 CATGCT-TATCCCGAGACATG
64 CATGCTCT-TCCCGAGACAAG
30162883 AGTCTT
1 AGTCTT
30162889 TCATTTATAC
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
83 22 0.29
84 23 0.30
85 31 0.41
ACGTcount: A:0.27, C:0.25, G:0.11, T:0.36
Consensus pattern (83 bp):
AGTCTTCCTTAAAACATAATCTCTACTCATCCCGAGTCACGAGTCTTCCTTTAAACAAAATCTCA
TGCTCTTCCCGAGACAAG
Found at i:30166092 original size:26 final size:25
Alignment explanation
Indices: 30166038--30166085 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
30166028 ATATTGTTCC
*
30166038 AAAATTTATAAGTTTGTATTTTTAA
1 AAAATGTATAAGTTTGTATTTTTAA
*
30166063 AAAATGTATTAGTTTGTATTTTT
1 AAAATGTATAAGTTTGTATTTTT
30166086 TTTAAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.54
Consensus pattern (25 bp):
AAAATGTATAAGTTTGTATTTTTAA
Found at i:30167202 original size:20 final size:21
Alignment explanation
Indices: 30167173--30167215 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
30167163 TTAAAAAGTC
*
30167173 AAATTTAAAGAAATA-AATTT
1 AAATTAAAAGAAATAGAATTT
*
30167193 AAATTAAAAGAATTAGAATTT
1 AAATTAAAAGAAATAGAATTT
30167214 AA
1 AA
30167216 TGATCATGGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (21 bp):
AAATTAAAAGAAATAGAATTT
Found at i:30168261 original size:20 final size:20
Alignment explanation
Indices: 30168213--30168262 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 20
30168203 TTAATAATTA
*
30168213 TTATAAA-TTATTTGTTTAG
1 TTATAAATTTATGTGTTTAG
30168232 TT-TAATATTTATGTGATTT-G
1 TTATAA-ATTTATGTG-TTTAG
30168252 TTATAAATTTA
1 TTATAAATTTA
30168263 AATTGTTTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
18 3 0.12
19 3 0.12
20 14 0.54
21 6 0.23
ACGTcount: A:0.32, C:0.00, G:0.10, T:0.58
Consensus pattern (20 bp):
TTATAAATTTATGTGTTTAG
Found at i:30168301 original size:16 final size:16
Alignment explanation
Indices: 30168280--30168323 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
30168270 TTGTTGTTTG
30168280 TTTTTAAATTATTTTA
1 TTTTTAAATTATTTTA
* *
30168296 TTTTTAAGTTAATTTA
1 TTTTTAAATTATTTTA
30168312 TTTTT-AATTATT
1 TTTTTAAATTATT
30168324 ATAATTATTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
15 5 0.21
16 19 0.79
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (16 bp):
TTTTTAAATTATTTTA
Found at i:30170207 original size:15 final size:15
Alignment explanation
Indices: 30170166--30170213 Score: 60
Period size: 16 Copynumber: 3.1 Consensus size: 15
30170156 TATAATTCAT
*
30170166 AATAATTAAAAACAA
1 AATAATTTAAAACAA
*
30170181 AATAACTTTAAAATAA
1 AATAA-TTTAAAACAA
30170197 AATAATTTAAAAACAA
1 AATAATTT-AAAACAA
30170213 A
1 A
30170214 GAACAAAACA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 8 0.29
16 20 0.71
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (15 bp):
AATAATTTAAAACAA
Found at i:30170524 original size:150 final size:150
Alignment explanation
Indices: 30170254--30170598 Score: 423
Period size: 150 Copynumber: 2.3 Consensus size: 150
30170244 ACATAAATAT
* * *
30170254 TAAACTAAAATAATTTATAATAATTACTAACAAAATAACTTTAAATTAAATTAAAAACAAGAAAA
1 TAAACT-AAATAATTTATAATAATTACTAACAAAATAAATTTAAATTAAATAAAAAACAACAAAA
** * * *
30170319 TAATTTATCTTTCTTTTAGCTTTCTTCCCTTTAATCTACTCTACTAAAT-AAAAAAATTATAAAA
65 TAAAATACCTTTCTTTTAACTTTCTTCCCTTTAATCTACTCTACTAAATAAAAAAAACTATAAAA
*
30170383 AATCACAT-AAACCAACATTAAAC
130 AA-CAAATCAAA--AACATTAAAC
*
30170406 TAAAC-AAATAATTTATAATAATTACTAACAAAATAATTTTAAATTAAATAAAAAACAACAAAA-
1 TAAACTAAATAATTTATAATAATTACTAACAAAATAAATTTAAATTAAATAAAAAACAACAAAAT
* * * * *
30170469 AAAATGCCTTTTTTTTAACTTTTTTCCCTTTAATCTATTCTACTAAATAAAAAAAAAACTATAAC
66 AAAATACCTTTCTTTTAACTTTCTTCCCTTTAATCTACTCTACTAAAT--AAAAAAAACTATAAA
*
30170534 AAACAAATCATAAACATTAAAC
129 AAACAAATCAAAAACATTAAAC
* **
30170556 TAAACTAAAT--TTTAAAATAATTAAAAACAAAATAAATTTAAAT
1 TAAACTAAATAATTTATAATAATTACTAACAAAATAAATTTAAAT
30170599 CAATAAATAA
Statistics
Matches: 169, Mismatches: 19, Indels: 13
0.84 0.09 0.06
Matches are distributed among these distances:
149 69 0.41
150 70 0.41
151 8 0.05
152 22 0.13
ACGTcount: A:0.53, C:0.13, G:0.01, T:0.33
Consensus pattern (150 bp):
TAAACTAAATAATTTATAATAATTACTAACAAAATAAATTTAAATTAAATAAAAAACAACAAAAT
AAAATACCTTTCTTTTAACTTTCTTCCCTTTAATCTACTCTACTAAATAAAAAAAACTATAAAAA
ACAAATCAAAAACATTAAAC
Found at i:30170596 original size:149 final size:148
Alignment explanation
Indices: 30170233--30170598 Score: 417
Period size: 149 Copynumber: 2.5 Consensus size: 148
30170223 AATTTACACT
* * *
30170233 TATAAAAAATC--A-CATAAATATTAAACTAAAAT-AA-TTTATAATAATTACTAACAAAATAAC
1 TATAAAAAATCAAATCATAAACATTAAACTAAACTAAATTTTATAATAATTACTAACAAAATAAA
* * ** * *
30170293 TTTAAATTAAATTAAAAACAAGAAAATAATTTATCTTTCTTTTAGCTTTCTTCCCTTTAATCTAC
66 TTTAAATTAAATAAAAAACAACAAAATAAAATACCTTTCTTTTAACTTTCTTCCCTTTAATCTAC
*
30170358 TCTACTAAATAAAAAAAT
131 TCTACTAAATAAAAAAAC
* *
30170376 TATAAAAAATCACAT-AAACCAACATTAAACTAAAC-AAATAATTTATAATAATTACTAACAAAA
1 TATAAAAAATCAAATCATA--AACATTAAACTAAACTAAAT--TTTATAATAATTACTAACAAAA
* * * *
30170439 TAATTTTAAATTAAATAAAAAACAACAAAA-AAAATGCCTTTTTTTTAACTTTTTTCCCTTTAAT
62 TAAATTTAAATTAAATAAAAAACAACAAAATAAAATACCTTTCTTTTAACTTTCTTCCCTTTAAT
*
30170503 CTATTCTACTAAATAAAAAAAAAAC
127 CTACTCTACTAAAT---AAAAAAAC
* * **
30170528 TATAACAAA-CAAATCATAAACATTAAACTAAACTAAATTTTAAAATAATTAAAAACAAAATAAA
1 TATAAAAAATCAAATCATAAACATTAAACTAAACTAAATTTTATAATAATTACTAACAAAATAAA
30170592 TTTAAAT
66 TTTAAAT
30170599 CAATAAATAA
Statistics
Matches: 187, Mismatches: 22, Indels: 22
0.81 0.10 0.10
Matches are distributed among these distances:
143 11 0.06
145 3 0.02
147 15 0.08
149 69 0.37
150 64 0.34
151 8 0.04
152 17 0.09
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.33
Consensus pattern (148 bp):
TATAAAAAATCAAATCATAAACATTAAACTAAACTAAATTTTATAATAATTACTAACAAAATAAA
TTTAAATTAAATAAAAAACAACAAAATAAAATACCTTTCTTTTAACTTTCTTCCCTTTAATCTAC
TCTACTAAATAAAAAAAC
Found at i:30172967 original size:13 final size:13
Alignment explanation
Indices: 30172935--30172967 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
30172925 TATACATATG
30172935 TTTTTTTCTTTCC
1 TTTTTTTCTTTCC
*
30172948 CTTTTTTCTTTCC
1 TTTTTTTCTTTCC
30172961 TTTTTTT
1 TTTTTTT
30172968 ATGTGACTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTTTTTCTTTCC
Found at i:30173559 original size:17 final size:17
Alignment explanation
Indices: 30173528--30173588 Score: 59
Period size: 17 Copynumber: 3.5 Consensus size: 17
30173518 CTAAAATACC
*
30173528 ATGACAAATGGAAATGCA
1 ATGAC-AATGAAAATGCA
*
30173546 ATGACAATGCAAATGCA
1 ATGACAATGAAAATGCA
* * * *
30173563 ATAACAGTTAAAATGTA
1 ATGACAATGAAAATGCA
30173580 ATGACAATG
1 ATGACAATG
30173589 GGAATGCGAT
Statistics
Matches: 34, Mismatches: 9, Indels: 1
0.77 0.20 0.02
Matches are distributed among these distances:
17 29 0.85
18 5 0.15
ACGTcount: A:0.49, C:0.11, G:0.18, T:0.21
Consensus pattern (17 bp):
ATGACAATGAAAATGCA
Found at i:30177612 original size:21 final size:21
Alignment explanation
Indices: 30177588--30177629 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
30177578 ATAATCCAAG
*
30177588 ACAAGAGAATTACAATCAACA
1 ACAAGAGAACTACAATCAACA
*
30177609 ACAATAGAACTACAATCAACA
1 ACAAGAGAACTACAATCAACA
30177630 CACTCAGATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.57, C:0.21, G:0.07, T:0.14
Consensus pattern (21 bp):
ACAAGAGAACTACAATCAACA
Found at i:30181045 original size:22 final size:22
Alignment explanation
Indices: 30181020--30181065 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
30181010 GTTGCAACAA
*
30181020 TCGATTATGGAGGTTGAATTGT
1 TCGATTATAGAGGTTGAATTGT
30181042 TCGATTATAGAGGTTGAATTGT
1 TCGATTATAGAGGTTGAATTGT
30181064 TC
1 TC
30181066 AAAGTGGGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.24, C:0.07, G:0.28, T:0.41
Consensus pattern (22 bp):
TCGATTATAGAGGTTGAATTGT
Found at i:30192646 original size:94 final size:94
Alignment explanation
Indices: 30192483--30192668 Score: 345
Period size: 94 Copynumber: 2.0 Consensus size: 94
30192473 AAGACGAAGC
* *
30192483 AAAGCAATCGATCGAGCAACAAAGAAGATTGAACGAGAAGATGAAGGAAGTTGTTAAAAAGGAGT
1 AAAGCAATCGATCGAGCAACAAAGAAGATTGAACGAGAAGATGAAGAAAGTTGTTAAAAAGGAGA
30192548 TTATAAATTGGCTTGACGCGGGCATTAGA
66 TTATAAATTGGCTTGACGCGGGCATTAGA
*
30192577 AAAGCAATCGATTGAGCAACAAAGAAGATTGAACGAGAAGATGAAGAAAGTTGTTAAAAAGGAGA
1 AAAGCAATCGATCGAGCAACAAAGAAGATTGAACGAGAAGATGAAGAAAGTTGTTAAAAAGGAGA
30192642 TTATAAATTGGCTTGACGCGGGCATTA
66 TTATAAATTGGCTTGACGCGGGCATTA
30192669 TTTACCCTAT
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
94 89 1.00
ACGTcount: A:0.42, C:0.10, G:0.27, T:0.20
Consensus pattern (94 bp):
AAAGCAATCGATCGAGCAACAAAGAAGATTGAACGAGAAGATGAAGAAAGTTGTTAAAAAGGAGA
TTATAAATTGGCTTGACGCGGGCATTAGA
Found at i:30193321 original size:26 final size:26
Alignment explanation
Indices: 30193285--30193340 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 26
30193275 CGCTGAGGTG
30193285 GAAATCATTAAGAAGTTACCTCCT-TC
1 GAAATCATTAAGAAGTTACCT-CTATC
30193311 GAAATCATTAAGAAGTTACCTCTATC
1 GAAATCATTAAGAAGTTACCTCTATC
30193337 GAAA
1 GAAA
30193341 AATGTGAAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
25 2 0.07
26 27 0.93
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (26 bp):
GAAATCATTAAGAAGTTACCTCTATC
Found at i:30195167 original size:25 final size:25
Alignment explanation
Indices: 30195133--30195185 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
30195123 TACAGCATTT
*
30195133 ATTATTCTATATATATATATATCAA
1 ATTAATCTATATATATATATATCAA
30195158 ATTAATCTATATATATATATATCAA
1 ATTAATCTATATATATATATATCAA
30195183 ATT
1 ATT
30195186 TTTTCTTTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (25 bp):
ATTAATCTATATATATATATATCAA
Found at i:30195943 original size:17 final size:18
Alignment explanation
Indices: 30195921--30195955 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
30195911 TGGACTTTTT
*
30195921 CTTCTTT-TTTCTTTGCG
1 CTTCTTTATGTCTTTGCG
30195938 CTTCTTTATGTCTTTGCG
1 CTTCTTTATGTCTTTGCG
30195956 TTTGCACTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.03, C:0.23, G:0.14, T:0.60
Consensus pattern (18 bp):
CTTCTTTATGTCTTTGCG
Found at i:30196262 original size:19 final size:19
Alignment explanation
Indices: 30196240--30196276 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
30196230 TTTTTTCTTT
*
30196240 TTCTCTTTCTCCTTCTCTC
1 TTCTCTTTCTCCTCCTCTC
30196259 TTCTCTTTCTCCTCCTCT
1 TTCTCTTTCTCCTCCTCT
30196277 TCCTCAACAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.00, C:0.43, G:0.00, T:0.57
Consensus pattern (19 bp):
TTCTCTTTCTCCTCCTCTC
Found at i:30200306 original size:43 final size:42
Alignment explanation
Indices: 30200239--30200369 Score: 208
Period size: 42 Copynumber: 3.1 Consensus size: 42
30200229 TGTATAAATA
*
30200239 GAAGACTCATGTCTCGGGATGAGCATGAGATTATGTTTAAAAG
1 GAAGACTCATGACTCGGGATGAGCATGAGATTATGTTT-AAAG
* * *
30200282 GAAGACTCATGACTCAGAAAGAGCATGAGATTATGTTTAAAG
1 GAAGACTCATGACTCGGGATGAGCATGAGATTATGTTTAAAG
*
30200324 GAAGACTCGTGACTCGGGATGAGCATGAGATTATGTTTAAAG
1 GAAGACTCATGACTCGGGATGAGCATGAGATTATGTTTAAAG
30200366 GAAG
1 GAAG
30200370 GCTTAAGACT
Statistics
Matches: 80, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
42 46 0.57
43 34 0.43
ACGTcount: A:0.35, C:0.11, G:0.28, T:0.25
Consensus pattern (42 bp):
GAAGACTCATGACTCGGGATGAGCATGAGATTATGTTTAAAG
Found at i:30201051 original size:21 final size:21
Alignment explanation
Indices: 30201011--30201063 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
30201001 GAGTTTTTAG
**
30201011 TATCAGTAGAAGCATGTCTTA
1 TATCAGTAGAAGCAACTCTTA
* * *
30201032 TTTCAGTAGAAGTAACTCTTG
1 TATCAGTAGAAGCAACTCTTA
30201053 TATCAGTAGAA
1 TATCAGTAGAA
30201064 TCATCTCAAC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (21 bp):
TATCAGTAGAAGCAACTCTTA
Found at i:30203228 original size:29 final size:30
Alignment explanation
Indices: 30203194--30203275 Score: 89
Period size: 28 Copynumber: 2.8 Consensus size: 30
30203184 TATATTTTAT
30203194 AATAAAACATTATTATTTATTTTTTAAAC-
1 AATAAAACATTATTATTTATTTTTTAAACA
** * * *
30203223 TCTAAAAAATTA-TCTTT-TTTTTTACACA
1 AATAAAACATTATTATTTATTTTTTAAACA
*
30203251 AATAAAACATTATTACTTATTTTTT
1 AATAAAACATTATTATTTATTTTTT
30203276 TGAAACTTAA
Statistics
Matches: 40, Mismatches: 10, Indels: 5
0.73 0.18 0.09
Matches are distributed among these distances:
27 9 0.22
28 13 0.32
29 12 0.30
30 6 0.15
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (30 bp):
AATAAAACATTATTATTTATTTTTTAAACA
Found at i:30204421 original size:9 final size:9
Alignment explanation
Indices: 30204407--30204432 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
30204397 TTTTTTAAAA
30204407 TAAAAATAT
1 TAAAAATAT
30204416 TAAAAATAT
1 TAAAAATAT
30204425 TAAAAATA
1 TAAAAATA
30204433 ATTTTTTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (9 bp):
TAAAAATAT
Found at i:30204538 original size:14 final size:14
Alignment explanation
Indices: 30204519--30204545 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
30204509 CATAGCTTTT
30204519 AAAAAGAAAAAGAA
1 AAAAAGAAAAAGAA
30204533 AAAAAGAAAAAGA
1 AAAAAGAAAAAGA
30204546 GAGCAATAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAAAGAA
Found at i:30205030 original size:24 final size:24
Alignment explanation
Indices: 30204979--30205031 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
30204969 TTCATTATTT
* *
30204979 ATTTTTTTTATAATTCTCCTTTTC
1 ATTTTTTTTATAATTCTCCTTCTA
*
30205003 ATTTTTTATTTTAATT-TCCTTCTA
1 ATTTTTT-TTATAATTCTCCTTCTA
30205027 ATTTT
1 ATTTT
30205032 GATTTTATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 18 0.72
25 7 0.28
ACGTcount: A:0.19, C:0.13, G:0.00, T:0.68
Consensus pattern (24 bp):
ATTTTTTTTATAATTCTCCTTCTA
Found at i:30205121 original size:19 final size:20
Alignment explanation
Indices: 30205094--30205137 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
30205084 TCTAAAATAT
* *
30205094 TTAATATTTTT-ACATTACA
1 TTAAAATTTTTCACATTAAA
*
30205113 TTAAAATTTTTCATATTAAA
1 TTAAAATTTTTCACATTAAA
30205133 TTAAA
1 TTAAA
30205138 TACATATTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (20 bp):
TTAAAATTTTTCACATTAAA
Found at i:30207572 original size:22 final size:22
Alignment explanation
Indices: 30207541--30207591 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
30207531 GGTTCATTTC
* *
30207541 AATTTTAAGTGTTATGTTATAT
1 AATTTCAAGTGTTATGTAATAT
30207563 AATTTCAAGTGTTATGTAATAT
1 AATTTCAAGTGTTATGTAATAT
30207585 AATTTCA
1 AATTTCA
30207592 CTAAATATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.35, C:0.04, G:0.12, T:0.49
Consensus pattern (22 bp):
AATTTCAAGTGTTATGTAATAT
Found at i:30211569 original size:18 final size:18
Alignment explanation
Indices: 30211543--30211578 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
30211533 CTACTAAAAA
30211543 TAAAATATACATTTAAAT
1 TAAAATATACATTTAAAT
* *
30211561 TAAACTATATATTTAAAT
1 TAAAATATACATTTAAAT
30211579 ATTAAATAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.42
Consensus pattern (18 bp):
TAAAATATACATTTAAAT
Found at i:30211741 original size:97 final size:97
Alignment explanation
Indices: 30211470--30211746 Score: 297
Period size: 101 Copynumber: 2.8 Consensus size: 97
30211460 AATTTAAAAT
* * * * *
30211470 TTTAAAAATTAAATAATAAAAAAAAAATTTCATCAGAAATT-GGTAGCGCCATTTAGAATAACTC
1 TTTAAATATTAAATAATAAATAAAAAA---CA--A-AAATTAGGTGGCGCCATTTAAAATAGCTC
**
30211534 TACTAAAAATAAAATATACATTTAAATTAAACTATATA
60 TACTAAAAATAAAATATACAAATAAATTAAACTATATA
* * *
30211572 TTTAAATATTAAATAATAAATAAAAAACAAAAATTAATCGGGTGGCGCCATTTAATATGGCTCCA
1 TTTAAATATTAAATAATAAATAAAAAACAAAAATT-A---GGTGGCGCCATTTAAAATAGCTCTA
* * *
30211637 CCAAAAATAAAATATATAAATAAATTAAATTATATA
62 CTAAAAATAAAATATACAAATAAATTAAACTATATA
* **
30211673 TTTAAATATTATATAATAAATAAATAAA-ATCAATTAGGTGGCGCCATTTAAAATAGCTCTACTA
1 TTTAAATATTAAATAATAAATAAA-AAACAAAAATTAGGTGGCGCCATTTAAAATAGCTCTACTA
30211737 AAAATAAAAT
65 AAAATAAAAT
30211747 TTAAATTTTA
Statistics
Matches: 149, Mismatches: 20, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
96 5 0.03
97 35 0.23
99 2 0.01
100 1 0.01
101 78 0.52
102 28 0.19
ACGTcount: A:0.52, C:0.10, G:0.07, T:0.31
Consensus pattern (97 bp):
TTTAAATATTAAATAATAAATAAAAAACAAAAATTAGGTGGCGCCATTTAAAATAGCTCTACTAA
AAATAAAATATACAAATAAATTAAACTATATA
Found at i:30214417 original size:22 final size:21
Alignment explanation
Indices: 30214381--30214440 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 21
30214371 AAATAGTAGT
*
30214381 AAAATAGTGAAAAAAAAACAA-
1 AAAACAGT-AAAAAAAAACAAG
* *
30214402 AAAATTAGTAACAAAACAACAAG
1 AAAA-CAGTAA-AAAAAAACAAG
30214425 AAAACAGTAAAAAAAA
1 AAAACAGTAAAAAAAA
30214441 TATTTTTCAT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
21 11 0.33
22 18 0.55
23 4 0.12
ACGTcount: A:0.73, C:0.08, G:0.08, T:0.10
Consensus pattern (21 bp):
AAAACAGTAAAAAAAAACAAG
Found at i:30214537 original size:14 final size:14
Alignment explanation
Indices: 30214518--30214556 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
30214508 CTAAACGAAT
30214518 TTTATTTTTTTAAA
1 TTTATTTTTTTAAA
30214532 TTTA-TTTTTTAAA
1 TTTATTTTTTTAAA
* *
30214545 TCTATATTTTTA
1 TTTATTTTTTTA
30214557 TCGAAGCTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 12 0.55
14 10 0.45
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTATTTTTTTAAA
Found at i:30215753 original size:32 final size:32
Alignment explanation
Indices: 30215712--30215777 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
30215702 CAACGGTCAA
30215712 GACTCTCTCTTTGATGGTATAAAATACCCATG
1 GACTCTCTCTTTGATGGTATAAAATACCCATG
30215744 GACTCTCTCTTTGATGGTATAAAATACCCATG
1 GACTCTCTCTTTGATGGTATAAAATACCCATG
30215776 GA
1 GA
30215778 AGTGTCAGAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (32 bp):
GACTCTCTCTTTGATGGTATAAAATACCCATG
Found at i:30216303 original size:12 final size:12
Alignment explanation
Indices: 30216288--30216321 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
30216278 ATTGGGGCTC
*
30216288 GGGTTGGTGCTT
1 GGGTTGGTCCTT
30216300 GGGTTGGTCCTT
1 GGGTTGGTCCTT
*
30216312 GAGTTGGTCC
1 GGGTTGGTCC
30216322 ACAGCCTCGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.03, C:0.15, G:0.44, T:0.38
Consensus pattern (12 bp):
GGGTTGGTCCTT
Found at i:30217445 original size:29 final size:30
Alignment explanation
Indices: 30217395--30217456 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 30
30217385 ACTCGCGTTC
* * *
30217395 TTATTTTGGTCACTCATTTTAAA-AATTTG
1 TTATTTTAGTCACTCATGTTAAATAAATTG
**
30217424 TTATTTTAGTCACTTGTGTTAAATAAATTG
1 TTATTTTAGTCACTCATGTTAAATAAATTG
30217454 TTA
1 TTA
30217457 ATCATAATCA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 19 0.70
30 8 0.30
ACGTcount: A:0.29, C:0.08, G:0.11, T:0.52
Consensus pattern (30 bp):
TTATTTTAGTCACTCATGTTAAATAAATTG
Found at i:30218808 original size:12 final size:12
Alignment explanation
Indices: 30218786--30218814 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
30218776 TAAATATCTT
30218786 TAAAA-TAATAA
1 TAAAATTAATAA
30218797 TAAAATTAATAA
1 TAAAATTAATAA
30218809 TAAAAT
1 TAAAAT
30218815 AAGAGGTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
TAAAATTAATAA
Found at i:30218852 original size:14 final size:14
Alignment explanation
Indices: 30218833--30218865 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
30218823 TACCACATCT
30218833 AAATAATAACAACA
1 AAATAATAACAACA
30218847 AAATAATAACAACA
1 AAATAATAACAACA
*
30218861 TAATA
1 AAATA
30218866 CTGAAATGTT
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:0.70, C:0.12, G:0.00, T:0.18
Consensus pattern (14 bp):
AAATAATAACAACA
Found at i:30218921 original size:19 final size:19
Alignment explanation
Indices: 30218878--30218930 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
30218868 GAAATGTTAG
*
30218878 ACAAAATAATTAA-AAAATA
1 ACAAAATAA-TAACAAAACA
*
30218897 ATAAAATAATAACAAAACA
1 ACAAAATAATAACAAAACA
30218916 ACAAAAATAA-AACAA
1 AC-AAAATAATAACAA
30218931 GAAAACAGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 3 0.10
19 19 0.66
20 7 0.24
ACGTcount: A:0.75, C:0.09, G:0.00, T:0.15
Consensus pattern (19 bp):
ACAAAATAATAACAAAACA
Found at i:30228861 original size:26 final size:28
Alignment explanation
Indices: 30228829--30228898 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 28
30228819 TTATATTGTT
30228829 TTATTTTAATATTTAATATTTTATA-AA
1 TTATTTTAATATTTAATATTTTATATAA
* * * *
30228856 TT-TTTTATTTATTAAAATTTTTTATATAG
1 TTATTTTA-ATATT-TAATATTTTATATAA
30228885 TTATTTTAATATTT
1 TTATTTTAATATTT
30228899 TTTTAATGTT
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
26 5 0.15
27 6 0.18
28 10 0.30
29 7 0.21
30 5 0.15
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.64
Consensus pattern (28 bp):
TTATTTTAATATTTAATATTTTATATAA
Found at i:30229347 original size:3 final size:3
Alignment explanation
Indices: 30229341--30229380 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
30229331 GTTGTTGTTG
*
30229341 TTA TTA TTA TTA TTA TTA TTA TTA TTA GTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
30229381 GTTATAAATA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:30231618 original size:23 final size:23
Alignment explanation
Indices: 30231574--30231618 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
30231564 TATTTTAAAA
*
30231574 ATATATATTTAAATTGATATTTT
1 ATATATATTTAAATTGAAATTTT
30231597 ATATATATTTATAATT-AAATTT
1 ATATATATTTA-AATTGAAATTT
30231619 AAATAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (23 bp):
ATATATATTTAAATTGAAATTTT
Found at i:30233945 original size:23 final size:22
Alignment explanation
Indices: 30233914--30233970 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
30233904 CGAATACAAT
*
30233914 TAAATATAATTAGCAACAAAAAA
1 TAAAAATAATTAGCAA-AAAAAA
*
30233937 TAAAAATAA-TAGCAAATAAAA
1 TAAAAATAATTAGCAAAAAAAA
30233958 TGAAAACATAATT
1 T-AAAA-ATAATT
30233971 GTAATAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
21 6 0.21
22 10 0.34
23 12 0.41
24 1 0.03
ACGTcount: A:0.65, C:0.07, G:0.05, T:0.23
Consensus pattern (22 bp):
TAAAAATAATTAGCAAAAAAAA
Found at i:30233963 original size:22 final size:23
Alignment explanation
Indices: 30233919--30233969 Score: 61
Period size: 22 Copynumber: 2.2 Consensus size: 23
30233909 ACAATTAAAT
30233919 ATAATTAGCAACAAAAAATAAAA-
1 ATAA-TAGCAACAAAAAATAAAAC
*
30233942 ATAATAGCAA-ATAAAATGAAAAC
1 ATAATAGCAACAAAAAAT-AAAAC
30233965 ATAAT
1 ATAAT
30233970 TGTAATAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 6 0.24
22 10 0.40
23 9 0.36
ACGTcount: A:0.67, C:0.08, G:0.06, T:0.20
Consensus pattern (23 bp):
ATAATAGCAACAAAAAATAAAAC
Found at i:30236095 original size:19 final size:19
Alignment explanation
Indices: 30236071--30236108 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
30236061 CACTTTATCC
30236071 GCTTCTCTACAACTTTAGG
1 GCTTCTCTACAACTTTAGG
*
30236090 GCTTCTTTACAACTTTAGG
1 GCTTCTCTACAACTTTAGG
30236109 AAGATAGGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.21, C:0.24, G:0.16, T:0.39
Consensus pattern (19 bp):
GCTTCTCTACAACTTTAGG
Found at i:30236456 original size:51 final size:51
Alignment explanation
Indices: 30236401--30236557 Score: 167
Period size: 50 Copynumber: 3.1 Consensus size: 51
30236391 GCTATGTTGT
*
30236401 AACTTCAGAGAGATAAGGATTTTCTTTCGTAGCTTCAATCCGATCCACTAC
1 AACTTCAGAGAGATAAGGATTTTCTTTCGTAGCTTCAATCTGATCCACTAC
** * * *
30236452 AACTTCA-AG-GATATAGGATTTGATGTCGTAACTTC-ATCTTGCTCCACTAC
1 AACTTCAGAGAGATA-AGGATTTTCTTTCGTAGCTTCAATC-TGATCCACTAC
* * * * * *
30236502 AACTTCAGGGAGATAAAGATTTTCTTTCATGGCTTTAATCTGACCCACTAC
1 AACTTCAGAGAGATAAGGATTTTCTTTCGTAGCTTCAATCTGATCCACTAC
30236553 AACTT
1 AACTT
30236558 TAGGGGTATA
Statistics
Matches: 84, Mismatches: 17, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
49 7 0.08
50 35 0.42
51 35 0.42
52 7 0.08
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.33
Consensus pattern (51 bp):
AACTTCAGAGAGATAAGGATTTTCTTTCGTAGCTTCAATCTGATCCACTAC
Found at i:30236523 original size:202 final size:202
Alignment explanation
Indices: 30236235--30236689 Score: 628
Period size: 202 Copynumber: 2.3 Consensus size: 202
30236225 TTGTTATCTT
* * * ** * *
30236235 AATCCGATCCACTGTAAC-TCCAGAGATATAGGATCTGGTGTTGTGGCTTCATCTTGTTCCACTG
1 AATCCGATCCACTGTAACTTCAAG-GATATAGGATTTGATGTTGTAACTTCATCTTGCTCCACTA
*
30236299 CAAGTTCAAGGAGATAAAGATTTGCTTTCATGGCTTTAAT-TCGACCCACTACAACTTCAGGGGT
65 CAACTTCAAGGAGATAAAGATTTGCTTTCATGGCTTTAATCT-GACCCACTACAACTTCAGGGGT
* * * *
30236363 ATAGGATTTGGTTTTGTAGCTTCATCTTGCTATGTTGTAACTTCAGAGAGATAAGGATTT-TCTT
129 ATAGGATTTGGTTTTGTAGCTTCATCCTGCTATGTTGCAACTTCAGAAAGATAAGAATTTGT-TT
*
30236427 TCGTAGCTTC
193 TCGTAGCTTA
** *
30236437 AATCCGATCCACTACAACTTCAAGGATATAGGATTTGATGTCGTAACTTCATCTTGCTCCACTAC
1 AATCCGATCCACTGTAACTTCAAGGATATAGGATTTGATGTTGTAACTTCATCTTGCTCCACTAC
* * *
30236502 AACTTCAGGGAGATAAAGATTTTCTTTCATGGCTTTAATCTGACCCACTACAACTTTAGGGGTAT
66 AACTTCAAGGAGATAAAGATTTGCTTTCATGGCTTTAATCTGACCCACTACAACTTCAGGGGTAT
* * *
30236567 AGGATTTGGTTTTGTAGCTTCATCCTGCTCTGTTGCAACTTTAGAAAGATAAGAATTTGTTTTTG
131 AGGATTTGGTTTTGTAGCTTCATCCTGCTATGTTGCAACTTCAGAAAGATAAGAATTTGTTTTCG
30236632 TAGCTTA
196 TAGCTTA
* * * *
30236639 AATCTGATCCATTGTAACTTTAGGGATATAGGATTTGATGTTGTAACTTCA
1 AATCCGATCCACTGTAACTTCAAGGATATAGGATTTGATGTTGTAACTTCA
30236690 CTCCATTCTA
Statistics
Matches: 221, Mismatches: 29, Indels: 6
0.86 0.11 0.02
Matches are distributed among these distances:
202 215 0.97
203 6 0.03
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (202 bp):
AATCCGATCCACTGTAACTTCAAGGATATAGGATTTGATGTTGTAACTTCATCTTGCTCCACTAC
AACTTCAAGGAGATAAAGATTTGCTTTCATGGCTTTAATCTGACCCACTACAACTTCAGGGGTAT
AGGATTTGGTTTTGTAGCTTCATCCTGCTATGTTGCAACTTCAGAAAGATAAGAATTTGTTTTCG
TAGCTTA
Found at i:30236606 original size:101 final size:101
Alignment explanation
Indices: 30236250--30236714 Score: 409
Period size: 101 Copynumber: 4.6 Consensus size: 101
30236240 GATCCACTGT
* * * * * * * * *
30236250 AACTCCAGAGATATAGGATCTGGTGTTGTGGCTTCATCTTGTTCCACTGCAAGTTCAAGGAGATA
1 AACTTCAGGGATATAGGATTTGGTGTTGTAGCTTCATCTTGCTCTATTGCAACTTCAGGGAGATA
* *
30236315 AAGATTTGCTTTCATGGCTTTAAT-TCGACCCACTAC
66 AAGATTTTCTTTCATAGCTTTAATCT-GACCCACTAC
* * * * * *
30236351 AACTTCAGGGGTATAGGATTTGGTTTTGTAGCTTCATCTTGCTATGTTGTAACTTCAGAGAGATA
1 AACTTCAGGGATATAGGATTTGGTGTTGTAGCTTCATCTTGCTCTATTGCAACTTCAGGGAGATA
* * * * *
30236416 AGGATTTTCTTTCGTAGCTTCAATCCGATCCACTAC
66 AAGATTTTCTTTCATAGCTTTAATCTGACCCACTAC
* * * * * * *
30236452 AACTTCAAGGATATAGGATTTGATGTCGTAACTTCATCTTGCTCCACTACAACTTCAGGGAGATA
1 AACTTCAGGGATATAGGATTTGGTGTTGTAGCTTCATCTTGCTCTATTGCAACTTCAGGGAGATA
*
30236517 AAGATTTTCTTTCATGGCTTTAATCTGACCCACTAC
66 AAGATTTTCTTTCATAGCTTTAATCTGACCCACTAC
* * * * * * **
30236553 AACTTTAGGGGTATAGGATTTGGTTTTGTAGCTTCATCCTGCTCTGTTGCAACTTTAGAAAGAT-
1 AACTTCAGGGATATAGGATTTGGTGTTGTAGCTTCATCTTGCTCTATTGCAACTTCAGGGAGATA
** * * * **
30236617 AAGAATTTGT-TTTTGTAGCTTAAATCTGATCCATTGT
66 AAG-ATTT-TCTTTCATAGCTTTAATCTGACCCACTAC
* * * *
30236654 AACTTTAGGGATATAGGATTTGATGTTGTAACTTCA-C-TCCATTCTATTGCAACTTCAGGGA
1 AACTTCAGGGATATAGGATTTGGTGTTGTAGCTTCATCTTGC--TCTATTGCAACTTCAGGGA
30236715 TGTTGATATC
Statistics
Matches: 286, Mismatches: 73, Indels: 10
0.78 0.20 0.03
Matches are distributed among these distances:
99 2 0.01
100 4 0.01
101 279 0.98
102 1 0.00
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.36
Consensus pattern (101 bp):
AACTTCAGGGATATAGGATTTGGTGTTGTAGCTTCATCTTGCTCTATTGCAACTTCAGGGAGATA
AAGATTTTCTTTCATAGCTTTAATCTGACCCACTAC
Found at i:30240719 original size:23 final size:24
Alignment explanation
Indices: 30240688--30240749 Score: 99
Period size: 23 Copynumber: 2.6 Consensus size: 24
30240678 GTGCTGGGTA
30240688 ACAGAGGGCACACAAAGCGCTAAT
1 ACAGAGGGCACACAAAGCGCTAAT
*
30240712 -CAGAGGGCACACAAAGTGCTAAT
1 ACAGAGGGCACACAAAGCGCTAAT
30240735 AACAGAGGGCACACA
1 -ACAGAGGGCACACA
30240750 CAGTGTTGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
23 22 0.63
25 13 0.37
ACGTcount: A:0.42, C:0.24, G:0.26, T:0.08
Consensus pattern (24 bp):
ACAGAGGGCACACAAAGCGCTAAT
Found at i:30240740 original size:25 final size:25
Alignment explanation
Indices: 30240661--30240754 Score: 113
Period size: 25 Copynumber: 3.8 Consensus size: 25
30240651 CCGAAGTACT
* **
30240661 TAACAGAGGGCACA-TAAGTGCTGGG
1 TAACAGAGGGCACACAAAGTGCT-AA
*
30240686 TAACAGAGGGCACACAAAGCGCTAA
1 TAACAGAGGGCACACAAAGTGCTAA
30240711 T--CAGAGGGCACACAAAGTGCTAA
1 TAACAGAGGGCACACAAAGTGCTAA
*
30240734 TAACAGAGGGCACACACAGTG
1 TAACAGAGGGCACACAAAGTG
30240755 TTGAACAAAG
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
23 22 0.37
25 32 0.53
26 6 0.10
ACGTcount: A:0.38, C:0.21, G:0.29, T:0.12
Consensus pattern (25 bp):
TAACAGAGGGCACACAAAGTGCTAA
Found at i:30243464 original size:21 final size:21
Alignment explanation
Indices: 30243431--30243482 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
30243421 CTGAGGAAAG
30243431 ATAAAAG-AAACAGAATTAAA
1 ATAAAAGAAAACAGAATTAAA
*
30243451 ATAAAAGAAAACAGAATTGAA
1 ATAAAAGAAAACAGAATTAAA
*
30243472 AGAAATAGAAA
1 ATAAA-AGAAA
30243483 TAGGGAAGTC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 7 0.25
21 16 0.57
22 5 0.18
ACGTcount: A:0.69, C:0.04, G:0.13, T:0.13
Consensus pattern (21 bp):
ATAAAAGAAAACAGAATTAAA
Done.