Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 27 of 205
Found at i:8167034 original size:9 final size:9
Alignment explanation
Indices: 8167016--8167349 Score: 204
Period size: 9 Copynumber: 38.8 Consensus size: 9
8167006 CTTATATTTA
*
8167016 AACTTGCAT
1 AACTTACAT
8167025 AACTTACAT
1 AACTTACAT
*
8167034 AA-TAACAT
1 AACTTACAT
8167042 AACAACTTACAT
1 ---AACTTACAT
8167054 AA--TACAT
1 AACTTACAT
* *
8167061 AGCATACAT
1 AACTTACAT
8167070 AACTTACAT
1 AACTTACAT
*
8167079 AA--TACAA
1 AACTTACAT
8167086 AACTTACAT
1 AACTTACAT
*
8167095 AACTTAAAT
1 AACTTACAT
* *
8167104 ATCTTACAC
1 AACTTACAT
8167113 AACTTACAT
1 AACTTACAT
*
8167122 AACCTACAT
1 AACTTACAT
8167131 AA--TACAT
1 AACTTACAT
8167138 AACTTACAT
1 AACTTACAT
*
8167147 AACTTACCT
1 AACTTACAT
8167156 AACTTACAT
1 AACTTACAT
*
8167165 AATACATA-AT
1 -A-ACTTACAT
8167175 AACTTAC--
1 AACTTACAT
8167182 AACTTAC--
1 AACTTACAT
8167189 AACTTACAT
1 AACTTACAT
*
8167198 AACATACAT
1 AACTTACAT
* **
8167207 TACTTTGAT
1 AACTTACAT
8167216 AACTTACAT
1 AACTTACAT
*
8167225 AAGTTACAT
1 AACTTACAT
** *
8167234 AAAATATAT
1 AACTTACAT
*
8167243 AACTGAC--
1 AACTTACAT
8167250 AACTTACAT
1 AACTTACAT
*
8167259 AACATACAT
1 AACTTACAT
* **
8167268 TACTTTGAT
1 AACTTACAT
*
8167277 AAC-TA-TT
1 AACTTACAT
**
8167284 AAAATACAT
1 AACTTACAT
*
8167293 AA--TACAC
1 AACTTACAT
8167300 AACTTACAT
1 AACTTACAT
* *
8167309 AGCTTACTT
1 AACTTACAT
8167318 AA--TACAT
1 AACTTACAT
8167325 AACTTACAT
1 AACTTACAT
8167334 AACTTACAT
1 AACTTACAT
*
8167343 AATTTAC
1 AACTTAC
8167350 TTAATATATA
Statistics
Matches: 249, Mismatches: 53, Indels: 46
0.72 0.15 0.13
Matches are distributed among these distances:
7 54 0.22
8 12 0.05
9 169 0.68
10 3 0.01
11 6 0.02
12 5 0.02
ACGTcount: A:0.46, C:0.20, G:0.02, T:0.31
Consensus pattern (9 bp):
AACTTACAT
Found at i:8167076 original size:25 final size:25
Alignment explanation
Indices: 8167045--8167349 Score: 139
Period size: 25 Copynumber: 11.9 Consensus size: 25
8167035 ATAACATAAC
* *
8167045 AACTTACATAATACATAGCATACAT
1 AACTTACATAATACATAACTTACAT
*
8167070 AACTTACATAATACAAAACTTACAT
1 AACTTACATAATACATAACTTACAT
* * *
8167095 AACTTAAATATCTTACACAACTTACAT
1 AACTTACATA--ATACATAACTTACAT
*
8167122 AACCTACATAATACATAACTTACAT
1 AACTTACATAATACATAACTTACAT
* *
8167147 AACTTACCTAACTTACATAATACATA-AT
1 AACTTACATAA--TACAT-A-ACTTACAT
*
8167175 AACTTACA-ACTTAC--AACTTACAT
1 AACTTACATA-ATACATAACTTACAT
* * **
8167198 AACATACATTACTTTGATAACTTACAT
1 AACTTACA-TA-ATACATAACTTACAT
* * *
8167225 AAGTTACATAAAATATATAACTGAC--
1 AACTTACAT--AATACATAACTTACAT
* **
8167250 AACTTACATAACATACATTACTTTGAT
1 AACTTACAT-A-ATACATAACTTACAT
*
8167277 AACTATTA-A-AATACATAA--TACAC
1 AAC--TTACATAATACATAACTTACAT
* *
8167300 AACTTACATAGCTTACTTAA--TACAT
1 AACTTACATA--ATACATAACTTACAT
*
8167325 AACTTACATAACTTACATAATTTAC
1 AACTTACATAA--TACATAACTTAC
8167350 TTAATATATA
Statistics
Matches: 213, Mismatches: 40, Indels: 52
0.70 0.13 0.17
Matches are distributed among these distances:
21 3 0.01
22 5 0.02
23 16 0.08
24 2 0.01
25 106 0.50
26 5 0.02
27 57 0.27
28 12 0.06
29 7 0.03
ACGTcount: A:0.46, C:0.20, G:0.02, T:0.32
Consensus pattern (25 bp):
AACTTACATAATACATAACTTACAT
Found at i:8167137 original size:43 final size:41
Alignment explanation
Indices: 8167065--8167175 Score: 134
Period size: 43 Copynumber: 2.6 Consensus size: 41
8167055 ATACATAGCA
* * *
8167065 TACATAACTTACATAATACAAAACTTACATAACTTAAATATCT
1 TACACAACTTACATAATACATAA--TACATAACTTAAATAACT
*
8167108 TACACAACTTACATAACCTACATAATACATAACTTACATAACT
1 TACACAACTTACATAA--TACATAATACATAACTTAAATAACT
8167151 TAC-CTAACTTACATAATACATAATA
1 TACAC-AACTTACATAATACATAATA
8167176 ACTTACAACT
Statistics
Matches: 61, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
41 9 0.15
42 1 0.02
43 45 0.74
45 6 0.10
ACGTcount: A:0.48, C:0.22, G:0.00, T:0.31
Consensus pattern (41 bp):
TACACAACTTACATAATACATAATACATAACTTAAATAACT
Found at i:8167144 original size:34 final size:34
Alignment explanation
Indices: 8167016--8167267 Score: 154
Period size: 34 Copynumber: 7.5 Consensus size: 34
8167006 CTTATATTTA
* *
8167016 AACTTGCATAACTTAC---ATA-ATAACATA-AC
1 AACTTACATAACTTACATAATACATAACTTACAC
*
8167045 AACTTACATAA--TACATAGCATACATAACTTACAT
1 AACTTACATAACTTACATA--ATACATAACTTACAC
* * *
8167079 AA--TACAAAACTTACATAACTTAAATATCTTACAC
1 AACTTACATAACTTACATAA--TACATAACTTACAC
* *
8167113 AACTTACATAACCTACATAATACATAACTTACAT
1 AACTTACATAACTTACATAATACATAACTTACAC
* *
8167147 AACTTACCTAACTTACATAATACATAA-TAACTTAC
1 AACTTACATAACTTACATAATACATAACTTAC--AC
* ** *
8167182 AACTTAC--AACTTACATAACATACATTACTTTGAT
1 AACTTACATAACTTACAT-A-ATACATAACTTACAC
* * *
8167216 AACTTACATAAGTTACATAAAATATATAAC-T-GAC
1 AACTTACATAACTTACAT--AATACATAACTTACAC
*
8167250 AACTTACATAACATACAT
1 AACTTACATAACTTACAT
8167268 TACTTTGATA
Statistics
Matches: 175, Mismatches: 27, Indels: 37
0.73 0.11 0.15
Matches are distributed among these distances:
27 3 0.02
29 10 0.06
32 10 0.06
33 19 0.11
34 85 0.49
35 16 0.09
36 30 0.17
37 2 0.01
ACGTcount: A:0.47, C:0.21, G:0.02, T:0.30
Consensus pattern (34 bp):
AACTTACATAACTTACATAATACATAACTTACAC
Found at i:8167162 original size:52 final size:52
Alignment explanation
Indices: 8167065--8167163 Score: 153
Period size: 52 Copynumber: 1.9 Consensus size: 52
8167055 ATACATAGCA
* *
8167065 TACATAACTTACATAATACAAAACTTACATAACTTAAATATCTTACACAACT
1 TACATAACCTACATAATACAAAACTTACATAACTTAAATAACTTACACAACT
* **
8167117 TACATAACCTACATAATACATAACTTACATAACTTACCTAACTTACA
1 TACATAACCTACATAATACAAAACTTACATAACTTAAATAACTTACA
8167164 TAATACATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
52 42 1.00
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.30
Consensus pattern (52 bp):
TACATAACCTACATAATACAAAACTTACATAACTTAAATAACTTACACAACT
Found at i:8167264 original size:61 final size:60
Alignment explanation
Indices: 8167155--8167345 Score: 193
Period size: 61 Copynumber: 3.2 Consensus size: 60
8167145 ATAACTTACC
*
8167155 TAACTTACATAATACATAATAACTTACAACTTACAACTTACATAACATACATTACTTTGA
1 TAACTTACATAATACATAATAACTTACAACTGACAACTTACATAACATACATTACTTTGA
*
8167215 TAACTTACATAAGTTACATAA-AA-TATATAACTGACAACTTACATAACATACATTACTTTGA
1 TAACTTACATAA--TACATAATAACT-TACAACTGACAACTTACATAACATACATTACTTTGA
* * * **
8167276 TAACTATTA-A-AATACATAAT-AC--ACAACTTACATAGCTTAC-TTA-ATACATAACTTACA
1 TAAC--TTACATAATACATAATAACTTACAACTGACA-A-CTTACATAACATACATTACTTTGA
8167333 TAACTTACATAAT
1 TAACTTACATAAT
8167346 TTACTTAATA
Statistics
Matches: 112, Mismatches: 8, Indels: 25
0.77 0.06 0.17
Matches are distributed among these distances:
55 3 0.03
56 1 0.01
57 26 0.23
58 3 0.03
59 13 0.12
60 13 0.12
61 42 0.38
62 8 0.07
63 3 0.03
ACGTcount: A:0.46, C:0.18, G:0.03, T:0.33
Consensus pattern (60 bp):
TAACTTACATAATACATAATAACTTACAACTGACAACTTACATAACATACATTACTTTGA
Found at i:8167342 original size:34 final size:32
Alignment explanation
Indices: 8167286--8167360 Score: 96
Period size: 34 Copynumber: 2.3 Consensus size: 32
8167276 TAACTATTAA
*
8167286 AATACATAATACACAACTTACATAGCTTACTT
1 AATACATAATACACAACTTACATAACTTACTT
* *
8167318 AATACATAACTTACATAACTTACATAATTTACTT
1 AATACATAA--TACACAACTTACATAACTTACTT
*
8167352 AATATATAA
1 AATACATAA
8167361 ATTATGTAAC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
32 9 0.24
34 28 0.76
ACGTcount: A:0.47, C:0.17, G:0.01, T:0.35
Consensus pattern (32 bp):
AATACATAATACACAACTTACATAACTTACTT
Found at i:8173447 original size:85 final size:83
Alignment explanation
Indices: 8173352--8173607 Score: 304
Period size: 85 Copynumber: 3.0 Consensus size: 83
8173342 TTTTGTGAAA
* * * * * *
8173352 TAAGTGCCGCTAAAGAACACTA-CTTTTAGCGGCGTTT-TTGACCAAGCGCCGCTATAGAACATT
1 TAAGCGCCGCTAAAGAATA-TATC-TTTAGCGGCGTTTATT-TCCTAGCGCCGCTAAAGAACATG
8173415 A-CTTTTAGCGGCGTTTTATTTC
63 ATC-TTTAGCGGCGTTTT-TTTC
* *
8173437 TAAGCGCCGCTAAAGAATATGATCTTTAGCGGCGTTTATTTCCTTAGCGCTGATAAAGAACATGA
1 TAAGCGCCGCTAAAGAATAT-ATCTTTAGCGGCGTTTATTTCC-TAGCGCCGCTAAAGAACATGA
8173502 TCTTTAGCGGCG-TTTTTTC
64 TCTTTAGCGGCGTTTTTTTC
* *
8173521 ATAAGCGCCGCTAAAGAATAGGATCTTTAGCGGCGTTTATTTTCTTAGCGCCGCTAAAGAACATG
1 -TAAGCGCCGCTAAAGAATA-TATCTTTAGCGGCGTTTA-TTTCCTAGCGCCGCTAAAGAACATG
8173586 ATCTTTAGCGGCGTTTTTTTC
63 ATCTTTAGCGGCGTTTTTTTC
8173607 T
1 T
8173608 GTAAGCACCG
Statistics
Matches: 150, Mismatches: 12, Indels: 18
0.83 0.07 0.10
Matches are distributed among these distances:
84 5 0.03
85 104 0.69
86 40 0.27
87 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (83 bp):
TAAGCGCCGCTAAAGAATATATCTTTAGCGGCGTTTATTTCCTAGCGCCGCTAAAGAACATGATC
TTTAGCGGCGTTTTTTTC
Found at i:8173465 original size:43 final size:41
Alignment explanation
Indices: 8173352--8173604 Score: 278
Period size: 43 Copynumber: 6.0 Consensus size: 41
8173342 TTTTGTGAAA
* *
8173352 TAAGTGCCGCTAAAGAACACT-A-CTTTTAGCGGCGTTTTTGAC
1 TAAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTTT-TC
* * *
8173394 CAAGCGCCGCTATAGAACATTA-CTTTTAGCGGCGTTTTATTTC
1 TAAGCGCCGCTAAAGAACATGATC-TTTAGCGGCG-TTT-TTTC
*
8173437 TAAGCGCCGCTAAAGAATATGATCTTTAGCGGCGTTTATTTCC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTT-TTT-C
* * *
8173480 TTAGCGCTGATAAAGAACATGATCTTTAGCGGCGTTTTTTC
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTC
* *
8173521 ATAAGCGCCGCTAAAGAATAGGATCTTTAGCGGCGTTTATTTTC
1 -TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCG-TT-TTTTC
*
8173565 TTAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
1 TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
8173605 TCTGTAAGCA
Statistics
Matches: 183, Mismatches: 20, Indels: 17
0.83 0.09 0.08
Matches are distributed among these distances:
41 6 0.03
42 70 0.38
43 99 0.54
44 8 0.04
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (41 bp):
TAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTC
Found at i:8173527 original size:128 final size:128
Alignment explanation
Indices: 8173376--8173606 Score: 333
Period size: 128 Copynumber: 1.8 Consensus size: 128
8173366 GAACACTACT
* * **
8173376 TTTAGCGGCGTTTTTGACCAAGCGCCGCTATAGAACATTA-CTTTTAGCGGCGTTT-TATTTCTA
1 TTTAGCGGCGTTTTTCACCAAGCGCCGCTAAAGAACAGGATC-TTTAGCGGCGTTTAT-TTTCTA
*
8173439 AGCGCCGCTAAAGAATATGATCTTTAGCGGCGTTTATTTCCTTAGCGCTGATAAAGAACATGATC
64 AGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTCCTTAGCGCTGATAAAGAACATGATC
* * *
8173504 TTTAGCGGCGTTTTTTCA-TAAGCGCCGCTAAAGAATAGGATCTTTAGCGGCGTTTATTTTCTTA
1 TTTAGCGGCG-TTTTTCACCAAGCGCCGCTAAAGAACAGGATCTTTAGCGGCGTTTATTTTCTAA
*
8173568 GCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTC
65 GCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTC
8173607 TGTAAGCACC
Statistics
Matches: 91, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
128 83 0.91
129 8 0.09
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (128 bp):
TTTAGCGGCGTTTTTCACCAAGCGCCGCTAAAGAACAGGATCTTTAGCGGCGTTTATTTTCTAAG
CGCCGCTAAAGAACATGATCTTTAGCGGCGTTTATTTCCTTAGCGCTGATAAAGAACATGATC
Found at i:8174789 original size:17 final size:17
Alignment explanation
Indices: 8174757--8174789 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
8174747 TTTTTCTATA
*
8174757 ATTTTTTATTAGTTTTT
1 ATTTTTTATCAGTTTTT
8174774 ATTTTTTATCA-TTTTT
1 ATTTTTTATCAGTTTTT
8174790 CGCCACATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (17 bp):
ATTTTTTATCAGTTTTT
Found at i:8174948 original size:20 final size:19
Alignment explanation
Indices: 8174925--8174972 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 19
8174915 TTTCATAAAA
8174925 TTTTACAATTTTTTTATATT
1 TTTTA-AATTTTTTTATATT
8174945 TTTTAAGA--TTTTTATATT
1 TTTTAA-ATTTTTTTATATT
8174963 TTTTATAATT
1 TTTTA-AATT
8174973 GTTAATAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
18 16 0.67
19 2 0.08
20 6 0.25
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (19 bp):
TTTTAAATTTTTTTATATT
Found at i:8178107 original size:5 final size:5
Alignment explanation
Indices: 8178097--8178124 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
8178087 AATGGTAAGC
8178097 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
8178125 CTATTGTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:8178606 original size:85 final size:89
Alignment explanation
Indices: 8178516--8178710 Score: 236
Period size: 85 Copynumber: 2.2 Consensus size: 89
8178506 AATTAAGTCT
* * * *
8178516 TTTTTTGTTACACTTAATTGTGTATTTGAACTTTTAAAATGCATAAAAAAGACTCTC-AAA-CTT
1 TTTTTT-TTACACTTAATTGGGTAATTGAAATGTTAAAATGCATAAAAAAGACTCTCAAAATCTT
*
8178579 T-AAAAAAAATAATTAAACCCCTG-
65 TCAAAAAAAACAATTAAACCCCTGC
* * * *
8178602 TTTTTTTTCCACTCAATTGGGTAATTGAAATGTTAAAATGCATAAAAAATACTCTCAAAATTTTT
1 TTTTTTTTACACTTAATTGGGTAATTGAAATGTTAAAATGCATAAAAAAGACTCTCAAAATCTTT
* *
8178667 CAAAAAAAGCAATTAAACCTCTGC
66 CAAAAAAAACAATTAAACCCCTGC
*
8178691 TTTTTTTTTGCACTTAATTG
1 -TTTTTTTTACACTTAATTG
8178711 CCAAAATACA
Statistics
Matches: 91, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
85 43 0.47
86 9 0.10
87 3 0.03
88 19 0.21
90 17 0.19
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.39
Consensus pattern (89 bp):
TTTTTTTTACACTTAATTGGGTAATTGAAATGTTAAAATGCATAAAAAAGACTCTCAAAATCTTT
CAAAAAAAACAATTAAACCCCTGC
Found at i:8178770 original size:20 final size:20
Alignment explanation
Indices: 8178734--8178771 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
8178724 AAAATGCTAT
*
8178734 TTGACCGTAAACTTTAACAA
1 TTGACCGTAAACGTTAACAA
8178754 TTGACCGTTAAA-GTTAAC
1 TTGACCG-TAAACGTTAAC
8178772 TGCCCATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (20 bp):
TTGACCGTAAACGTTAACAA
Found at i:8178855 original size:10 final size:9
Alignment explanation
Indices: 8178834--8178940 Score: 54
Period size: 10 Copynumber: 11.1 Consensus size: 9
8178824 ACATGTGACA
8178834 AAAAATTAT
1 AAAAATTAT
8178843 AAAAATTATT
1 AAAAATTA-T
**
8178853 AAACTTTAAT
1 AAAAATT-AT
*
8178863 AAAAATTAGA
1 AAAAATTA-T
8178873 AAAAATATAT
1 AAAAAT-TAT
*
8178883 AAAAATAGTAA
1 AAAAAT--TAT
*
8178894 AAAAATATAAA
1 AAAAAT-T-AT
8178905 AAAAATTA-
1 AAAAATTAT
**
8178913 AAATTTTAT
1 AAAAATTAT
*
8178922 AAAAATCAT
1 AAAAATTAT
*
8178931 AAAAAATAT
1 AAAAATTAT
8178940 A
1 A
8178941 TAATGCATCA
Statistics
Matches: 75, Mismatches: 16, Indels: 14
0.71 0.15 0.13
Matches are distributed among these distances:
8 6 0.08
9 24 0.32
10 26 0.35
11 19 0.25
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (9 bp):
AAAAATTAT
Found at i:8178884 original size:20 final size:20
Alignment explanation
Indices: 8178861--8178943 Score: 71
Period size: 20 Copynumber: 4.2 Consensus size: 20
8178851 TTAAACTTTA
8178861 ATAAAAATTAGAAAAAATAT
1 ATAAAAATTAGAAAAAATAT
8178881 ATAAAAA-TAGTAAAAAA-AT
1 ATAAAAATTAG-AAAAAATAT
** ** * *
8178900 ATAAAAAAAATTAAAATTTT
1 ATAAAAATTAGAAAAAATAT
* *
8178920 ATAAAAATCATAAAAAATAT
1 ATAAAAATTAGAAAAAATAT
8178940 ATAA
1 ATAA
8178944 TGCATCAAAA
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
19 16 0.32
20 34 0.68
ACGTcount: A:0.70, C:0.01, G:0.02, T:0.27
Consensus pattern (20 bp):
ATAAAAATTAGAAAAAATAT
Found at i:8178955 original size:59 final size:58
Alignment explanation
Indices: 8178833--8178943 Score: 150
Period size: 59 Copynumber: 1.9 Consensus size: 58
8178823 CACATGTGAC
* ** * *
8178833 AAAAAATTATAAAAATTATTAAACTTTAATAAAAATTAGAAAAAATATATAAAAATAG
1 AAAAAAATATAAAAAAAATTAAAATTTAATAAAAATCAGAAAAAATATATAAAAATAG
* *
8178891 TAAAAAAATATAAAAAAAATTAAAATTTTATAAAAATCATAAAAAATATATAA
1 -AAAAAAATATAAAAAAAATTAAAATTTAATAAAAATCAGAAAAAATATATAA
8178944 TGCATCAAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
59 45 1.00
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.29
Consensus pattern (58 bp):
AAAAAAATATAAAAAAAATTAAAATTTAATAAAAATCAGAAAAAATATATAAAAATAG
Found at i:8179188 original size:21 final size:21
Alignment explanation
Indices: 8179164--8179281 Score: 71
Period size: 21 Copynumber: 5.2 Consensus size: 21
8179154 AATAAATACC
*
8179164 AAAAATTTATTTTAAAAATTA
1 AAAAAATTATTTTAAAAATTA
8179185 AAAAAATTATTTTAAAAATATTTAAA
1 AAAAAATTATTTT-AAAA-A-TT--A
* *
8179211 AATTTAAAAATATTTTAAAAATATTT
1 AA---AAAATTATTTT-AAAA-ATTA
*
8179237 TAAAAA-TATTTT-AAAATTAA
1 AAAAAATTATTTTAAAAATT-A
*
8179257 AAAAAAGTATTTT-AAAATTA
1 AAAAAATTATTTTAAAAATTA
8179277 AAAAA
1 AAAAA
8179282 TTTAAAAAAT
Statistics
Matches: 81, Mismatches: 6, Indels: 21
0.75 0.06 0.19
Matches are distributed among these distances:
19 3 0.04
20 14 0.17
21 24 0.30
22 10 0.12
23 5 0.06
24 2 0.02
26 4 0.05
28 2 0.02
29 17 0.21
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (21 bp):
AAAAAATTATTTTAAAAATTA
Found at i:8179206 original size:11 final size:11
Alignment explanation
Indices: 8179186--8179252 Score: 97
Period size: 11 Copynumber: 6.4 Consensus size: 11
8179176 TAAAAATTAA
8179186 AAAAATTATTTT
1 AAAAA-TATTTT
8179198 AAAAATA-TTT
1 AAAAATATTTT
8179208 -AAAA-A-TTT
1 AAAAATATTTT
8179216 AAAAATATTTT
1 AAAAATATTTT
8179227 AAAAATATTTT
1 AAAAATATTTT
8179238 AAAAATATTTT
1 AAAAATATTTT
8179249 AAAA
1 AAAA
8179253 TTAAAAAAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 7
0.88 0.00 0.12
Matches are distributed among these distances:
8 4 0.08
9 8 0.15
10 4 0.08
11 31 0.60
12 5 0.10
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:8179211 original size:22 final size:22
Alignment explanation
Indices: 8179164--8179255 Score: 97
Period size: 21 Copynumber: 4.4 Consensus size: 22
8179154 AATAAATACC
**
8179164 AAAAATTTATTTTAAAAAT-TAA
1 AAAAA-TTATTTTAAAAATATTT
8179186 AAAAATTATTTTAAAAATATTT
1 AAAAATTATTTTAAAAATATTT
8179208 -AAAA--A-TTTAAAAATATTTT
1 AAAAATTATTTTAAAAATA-TTT
8179227 AAAAA-TATTTTAAAAATATTT
1 AAAAATTATTTTAAAAATATTT
*
8179248 TAAAATTA
1 AAAAATTA
8179256 AAAAAAAGTA
Statistics
Matches: 61, Mismatches: 3, Indels: 12
0.80 0.04 0.16
Matches are distributed among these distances:
18 10 0.16
19 4 0.07
20 4 0.07
21 25 0.41
22 18 0.30
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
AAAAATTATTTTAAAAATATTT
Found at i:8179239 original size:30 final size:32
Alignment explanation
Indices: 8179171--8179243 Score: 116
Period size: 30 Copynumber: 2.4 Consensus size: 32
8179161 ACCAAAAATT
8179171 TATTTTAAAAATTAAAAAAATTATTTTAAAAA
1 TATTTTAAAAATTAAAAAAATTATTTTAAAAA
*
8179203 TA-TTTAAAAATT-TAAAAA-TATTTTAAAAA
1 TATTTTAAAAATTAAAAAAATTATTTTAAAAA
8179232 TATTTTAAAAAT
1 TATTTTAAAAAT
8179244 ATTTTAAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
29 13 0.33
30 14 0.36
31 10 0.26
32 2 0.05
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (32 bp):
TATTTTAAAAATTAAAAAAATTATTTTAAAAA
Found at i:8179279 original size:20 final size:20
Alignment explanation
Indices: 8179198--8179281 Score: 82
Period size: 21 Copynumber: 4.2 Consensus size: 20
8179188 AAATTATTTT
* *
8179198 AAAAATATTTAAAAATT--T
1 AAAAATATTTTAAAATTAAA
***
8179216 AAAAATATTTTAAAAATATTTT
1 AAAAATATTTT-AAAAT-TAAA
8179238 AAAAATATTTTAAAATTAAA
1 AAAAATATTTTAAAATTAAA
8179258 AAAAAGTATTTTAAAATTAAA
1 AAAAA-TATTTTAAAATTAAA
8179279 AAA
1 AAA
8179282 TTTAAAAAAT
Statistics
Matches: 57, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
18 10 0.18
19 5 0.09
20 7 0.12
21 23 0.40
22 12 0.21
ACGTcount: A:0.62, C:0.00, G:0.01, T:0.37
Consensus pattern (20 bp):
AAAAATATTTTAAAATTAAA
Found at i:8179516 original size:20 final size:20
Alignment explanation
Indices: 8179481--8179559 Score: 70
Period size: 20 Copynumber: 3.8 Consensus size: 20
8179471 GTATAATAAT
8179481 TTTTATAAATTTTTTTTACAAA
1 TTTTAT-AA-TTTTTTTACAAA
**
8179503 TTTTATAATTTTTTTACATT
1 TTTTATAATTTTTTTACAAA
* * *
8179523 TTTTATCA-TTTTTTACGAC
1 TTTTATAATTTTTTTACAAA
8179542 TTTATATAATTTTATTTA
1 TTT-TATAATTTT-TTTA
8179560 TTTTTCTATA
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
19 11 0.23
20 21 0.45
21 5 0.11
22 10 0.21
ACGTcount: A:0.29, C:0.06, G:0.01, T:0.63
Consensus pattern (20 bp):
TTTTATAATTTTTTTACAAA
Found at i:8179590 original size:17 final size:17
Alignment explanation
Indices: 8179570--8179614 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 17
8179560 TTTTTCTATA
8179570 TTTTATAATTTTACGAT
1 TTTTATAATTTTACGAT
*
8179587 TTTTATAAAATTTTATGAT
1 TTTTAT--AATTTTACGAT
*
8179606 TTATATAAT
1 TTTTATAAT
8179615 ATTTTTCTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 9 0.38
19 15 0.62
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.58
Consensus pattern (17 bp):
TTTTATAATTTTACGAT
Found at i:8179600 original size:19 final size:19
Alignment explanation
Indices: 8179576--8179619 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
8179566 TATATTTTAT
*
8179576 AATTTTACGATTTTTATAA
1 AATTTTACGATTTATATAA
*
8179595 AATTTTATGATTTATATAA
1 AATTTTACGATTTATATAA
*
8179614 TATTTT
1 AATTTT
8179620 TCTAATTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (19 bp):
AATTTTACGATTTATATAA
Found at i:8179617 original size:46 final size:46
Alignment explanation
Indices: 8179533--8179628 Score: 106
Period size: 46 Copynumber: 2.1 Consensus size: 46
8179523 TTTTATCATT
* * * *
8179533 TTTTACGACTTTATATAATTTTATTTATTTTTCTATA-TTTTATAA
1 TTTTACGACTTTATAAAATTTTATTGATTTATATATATTTTTATAA
* *
8179578 TTTTACGATTTTTATAAAATTTTA-TGATTTATATAATATTTTTCTAA
1 TTTTACGA-CTTTATAAAATTTTATTGATTTATAT-ATATTTTTATAA
8179625 TTTT
1 TTTT
8179629 TAATAAAAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
45 15 0.36
46 16 0.38
47 11 0.26
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.61
Consensus pattern (46 bp):
TTTTACGACTTTATAAAATTTTATTGATTTATATATATTTTTATAA
Found at i:8179689 original size:29 final size:28
Alignment explanation
Indices: 8179611--8179690 Score: 90
Period size: 29 Copynumber: 2.8 Consensus size: 28
8179601 ATGATTTATA
* *
8179611 TAATATTTTTCTAATTTTTAATAAAAATT
1 TAATATTTTTATAATTTTT-ATTAAAATT
*
8179640 AAATATTTCTTAT-ATTTTTATTAAAATT
1 TAATATTT-TTATAATTTTTATTAAAATT
*
8179668 TAATAATTTTTATAACTTTTATT
1 TAAT-ATTTTTATAATTTTTATT
8179691 GATTTTTATT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
28 15 0.35
29 25 0.58
30 3 0.07
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (28 bp):
TAATATTTTTATAATTTTTATTAAAATT
Found at i:8183120 original size:22 final size:24
Alignment explanation
Indices: 8183077--8183120 Score: 56
Period size: 22 Copynumber: 1.9 Consensus size: 24
8183067 ATTTGATATA
*
8183077 TTTTGATATAAAAAATTGAAATGT
1 TTTTGATATAAAAAATTAAAATGT
*
8183101 TTTTGA-AT-AAAAGTTAAAAT
1 TTTTGATATAAAAAATTAAAAT
8183121 TGAACAATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 10 0.56
23 2 0.11
24 6 0.33
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (24 bp):
TTTTGATATAAAAAATTAAAATGT
Found at i:8183347 original size:44 final size:44
Alignment explanation
Indices: 8183294--8183378 Score: 143
Period size: 44 Copynumber: 1.9 Consensus size: 44
8183284 CAAAATTGCT
*
8183294 CAATGCCAAAATGACATTCTGTTTTCCACAAACCCTATTAAAAG
1 CAATACCAAAATGACATTCTGTTTTCCACAAACCCTATTAAAAG
* *
8183338 CAATACCAAAATGACATTCTGTTTTTCACAAACTCTATTAA
1 CAATACCAAAATGACATTCTGTTTTCCACAAACCCTATTAA
8183379 GTATCGATAC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.39, C:0.24, G:0.07, T:0.31
Consensus pattern (44 bp):
CAATACCAAAATGACATTCTGTTTTCCACAAACCCTATTAAAAG
Found at i:8185484 original size:17 final size:17
Alignment explanation
Indices: 8185462--8185495 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
8185452 CGGAGCCAAT
*
8185462 CTCCTCCACGTGCGCCA
1 CTCCTCCACGCGCGCCA
8185479 CTCCTCCACGCGCGCCA
1 CTCCTCCACGCGCGCCA
8185496 TGGCTTGCGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.12, C:0.56, G:0.18, T:0.15
Consensus pattern (17 bp):
CTCCTCCACGCGCGCCA
Found at i:8191865 original size:45 final size:45
Alignment explanation
Indices: 8191815--8192248 Score: 362
Period size: 44 Copynumber: 9.8 Consensus size: 45
8191805 TCGAATAAAT
* *
8191815 AGATCTT-TCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGC
1 AGATCTTGT-CTTCCCATACTGGTGGTGAAGTAGATCAAAGAAAGC
*** * *
8191860 AGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAGATAGC
1 AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCAAAGAAAGC
* ** *
8191904 AAATCTTGTCTTCCCATACTGGTGGTGAAGTAGATTGAAGAAAAC
1 AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCAAAGAAAGC
* *** * * *
8191949 AGATATTGTCTTCATGTACTGG-CGTGAAGTAGATCAAATATAGC
1 AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCAAAGAAAGC
* *
8191993 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGC
1 AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCAAAGAAAGC
*** * * * *
8192038 AGATCTTGTCTTCATGTATTAG-CGTGAAGTAGATCGAAA-ATAGC
1 AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATC-AAAGAAAGC
*** * *
8192082 AGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAGATAGC
1 AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCAAAGAAAGC
* *** * * ** *
8192126 AAATCTTGTCTTCATGTATTGG-CGTGAAGTAGATTGAAGAAAAC
1 AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCAAAGAAAGC
*** * * *
8192170 AGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAGATACC
1 AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCAAAGAAAGC
*
8192214 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGAT
1 AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGAT
8192249 TGAAAATACA
Statistics
Matches: 319, Mismatches: 64, Indels: 12
0.81 0.16 0.03
Matches are distributed among these distances:
43 3 0.01
44 218 0.68
45 97 0.30
46 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (45 bp):
AGATCTTGTCTTCCCATACTGGTGGTGAAGTAGATCAAAGAAAGC
Found at i:8192156 original size:88 final size:89
Alignment explanation
Indices: 8191815--8192226 Score: 499
Period size: 89 Copynumber: 4.7 Consensus size: 89
8191805 TCGAATAAAT
* * * *
8191815 AGATCTT-TCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGCAGATCTTGTCTTCATGTAC
1 AGATCTTGT-CTTCACATACTGGTCGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTAC
8191879 TGGCGTGAAGTAGATCAAAGATAGC
65 TGGCGTGAAGTAGATCAAAGATAGC
* * * ** * *
8191904 AAATCTTGTCTTCCCATACTGGTGGTGAAGTAGATTGAAGAAAACAGATATTGTCTTCATGTACT
1 AGATCTTGTCTTCACATACTGGTCGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTACT
*
8191969 GGCGTGAAGTAGATCAAATATAGC
66 GGCGTGAAGTAGATCAAAGATAGC
* * * * *
8191993 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATT
1 AGATCTTGTCTTCACATACTGGTCGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTACT
*
8192058 AGCGTGAAGTAGATCGAAA-ATAGC
66 GGCGTGAAGTAGATC-AAAGATAGC
** * * *
8192082 AGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAGATAGCAAATCTTGTCTTCATGTATT
1 AGATCTTGTCTTCACATACTGGTCGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTACT
** * *
8192146 GGCGTGAAGTAGATTGAAGAAAAC
66 GGCGTGAAGTAGATCAAAGATAGC
** * *
8192170 AGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAGATACCAGATCTTGTCTTC
1 AGATCTTGTCTTCACATACTGGTCGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTTC
8192227 CCATACTGGT
Statistics
Matches: 290, Mismatches: 30, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
87 2 0.01
88 108 0.37
89 176 0.61
90 4 0.01
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (89 bp):
AGATCTTGTCTTCACATACTGGTCGTGAAGTAGATCAAAGAAAGCAGATCTTGTCTTCATGTACT
GGCGTGAAGTAGATCAAAGATAGC
Found at i:8192235 original size:44 final size:44
Alignment explanation
Indices: 8191841--8192226 Score: 477
Period size: 44 Copynumber: 8.7 Consensus size: 44
8191831 TACTGGTGGC
* *
8191841 GAAGCAGATCAAAGAAAGCAGATCTTGTCTTCATGTACTGGCGT
1 GAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTACTGGCGT
* *** *
8191885 GAAGTAGATCAAAGATAGCAAATCTTGTCTTCCCATACTGGTGGT
1 GAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTACTGG-CGT
** * * *
8191930 GAAGTAGATTGAAGAAAACAGATATTGTCTTCATGTACTGGCGT
1 GAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTACTGGCGT
* *** * *
8191974 GAAGTAGATCAAATATAGCAGATCTTGTCTTCCCATACTGGTGGC
1 GAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTACTGG-CGT
* * * *
8192019 GAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTAGCGT
1 GAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTACTGGCGT
8192063 GAAGTAGATCGAAA-ATAGCAGATCTTGTCTTCATGTACTGGCGT
1 GAAGTAGATC-AAAGATAGCAGATCTTGTCTTCATGTACTGGCGT
* *
8192107 GAAGTAGATCAAAGATAGCAAATCTTGTCTTCATGTATTGGCGT
1 GAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTACTGGCGT
** * *
8192151 GAAGTAGATTGAAGAAAACAGATCTTGTCTTCATGTACTGGCGT
1 GAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTACTGGCGT
*
8192195 GAAGTAGATCAAAGATACCAGATCTTGTCTTC
1 GAAGTAGATCAAAGATAGCAGATCTTGTCTTC
8192227 CCATACTGGT
Statistics
Matches: 284, Mismatches: 54, Indels: 8
0.82 0.16 0.02
Matches are distributed among these distances:
43 3 0.01
44 211 0.74
45 70 0.25
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.29
Consensus pattern (44 bp):
GAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTACTGGCGT
Found at i:8192244 original size:133 final size:132
Alignment explanation
Indices: 8191815--8192248 Score: 467
Period size: 133 Copynumber: 3.3 Consensus size: 132
8191805 TCGAATAAAT
* * * *
8191815 AGATCTT-TCCTTCCCATACTGGTGGCGAAGCAGATCAAAGAAAGCAGATCTTGTCTTCATGTAC
1 AGATCTTGT-CTTCACATACTGG-CGCGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTAC
* * * *** * **
8191879 TGGCGTGAAGTAGATCAAAGATAGCAAATCTTGTCTTCCCATACTGGTGGTGAAGTAGATTGAAG
64 TGGCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTGG-CGTGAAGTAGATCAAAG
*
8191944 AAAAC
128 ATAAC
* ** * * ***
8191949 AGATATTGTCTTCATGTACTGGCGTGAAGTAGATCAAATATAGCAGATCTTGTCTTCCCATACTG
1 AGATCTTGTCTTCACATACTGGCGCGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTACTG
* * * *
8192014 GTGGCGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTATTAGCGTGAAGTAGATCGAAA-A
66 G-CGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATC-AAAGA
*
8192078 TAGC
129 TAAC
** * * *
8192082 AGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATAGCAAATCTTGTCTTCATGTATTG
1 AGATCTTGTCTTCACATACTGGCGCGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTACTG
* *
8192147 GCGTGAAGTAGATTGAAGAAAACAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATA
66 GCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATA
*
8192212 CC
131 AC
* *
8192214 AGATCTTGTCTTCCCATACTGGTGGCGAAGTAGAT
1 AGATCTTGTCTTCACATACTGG-CGCGAAGTAGAT
8192249 TGAAAATACA
Statistics
Matches: 249, Mismatches: 46, Indels: 11
0.81 0.15 0.04
Matches are distributed among these distances:
131 3 0.01
132 74 0.30
133 119 0.48
134 52 0.21
135 1 0.00
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (132 bp):
AGATCTTGTCTTCACATACTGGCGCGAAGTAGATCAAAGATAGCAGATCTTGTCTTCATGTACTG
GCGTGAAGTAGATCGAAGAAAGCAGATCTTGTCTTCATGTACTGGCGTGAAGTAGATCAAAGATA
AC
Found at i:8192856 original size:17 final size:17
Alignment explanation
Indices: 8192834--8192867 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
8192824 CGGAGCCAAT
*
8192834 CTCCTCCACGTGCGCCA
1 CTCCTCCACGCGCGCCA
8192851 CTCCTCCACGCGCGCCA
1 CTCCTCCACGCGCGCCA
8192868 TGGCTTGCGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.12, C:0.56, G:0.18, T:0.15
Consensus pattern (17 bp):
CTCCTCCACGCGCGCCA
Found at i:8197222 original size:14 final size:14
Alignment explanation
Indices: 8197199--8197251 Score: 63
Period size: 14 Copynumber: 3.8 Consensus size: 14
8197189 ATTATTTTAT
*
8197199 TTTAGGATTTAGGG
1 TTTAGAATTTAGGG
*
8197213 TTTAGAATTTTAGTG
1 TTTAGAA-TTTAGGG
8197228 TTTAG-ATTTAGGG
1 TTTAGAATTTAGGG
*
8197241 TTTAAAATTTA
1 TTTAGAATTTA
8197252 ACGTTTTAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
13 10 0.30
14 12 0.36
15 11 0.33
ACGTcount: A:0.28, C:0.00, G:0.23, T:0.49
Consensus pattern (14 bp):
TTTAGAATTTAGGG
Found at i:8197230 original size:15 final size:15
Alignment explanation
Indices: 8197206--8197250 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
8197196 TATTTTAGGA
8197206 TTTAGGGTTTAGAAT
1 TTTAGGGTTTAGAAT
*
8197221 TTTAGTGTTTAG-A-
1 TTTAGGGTTTAGAAT
*
8197234 TTTAGGGTTTAAAAT
1 TTTAGGGTTTAGAAT
8197249 TT
1 TT
8197251 AACGTTTTAG
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
13 10 0.40
14 2 0.08
15 13 0.52
ACGTcount: A:0.27, C:0.00, G:0.22, T:0.51
Consensus pattern (15 bp):
TTTAGGGTTTAGAAT
Found at i:8197237 original size:28 final size:27
Alignment explanation
Indices: 8197192--8197250 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 27
8197182 CAAAAAAATT
*
8197192 ATTTTATTTTAGGATTTAGGGTTTAGA
1 ATTTTATTTTAGGATTTAGGGTTTAAA
8197219 ATTTTAGTGTTTA-GATTTAGGGTTTAAA
1 ATTTTA-T-TTTAGGATTTAGGGTTTAAA
8197247 ATTT
1 ATTT
8197251 AACGTTTTAG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 6 0.21
28 19 0.66
29 4 0.14
ACGTcount: A:0.27, C:0.00, G:0.20, T:0.53
Consensus pattern (27 bp):
ATTTTATTTTAGGATTTAGGGTTTAAA
Found at i:8197259 original size:28 final size:27
Alignment explanation
Indices: 8197198--8197260 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 27
8197188 AATTATTTTA
* *
8197198 TTTTAGGATTTAGGGTTTAGAATTTTAG
1 TTTTA-GATTTAGGGTTTAAAATTTAAG
8197226 TGTTTAGATTTAGGGTTTAAAATTTAACG
1 T-TTTAGATTTAGGGTTTAAAATTTAA-G
8197255 TTTTAG
1 TTTTAG
8197261 TGTTTATGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
28 25 0.81
29 6 0.19
ACGTcount: A:0.27, C:0.02, G:0.22, T:0.49
Consensus pattern (27 bp):
TTTTAGATTTAGGGTTTAAAATTTAAG
Found at i:8197564 original size:28 final size:29
Alignment explanation
Indices: 8197533--8197588 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 29
8197523 AAAATTTCTG
*
8197533 TAATTTTTTTTTACATTT-GAAATTTAGT
1 TAATTTATTTTTACATTTAGAAATTTAGT
**
8197561 TAATTTATTTTTATTTTTAGAAATTTAG
1 TAATTTATTTTTACATTTAGAAATTTAG
8197589 GATTTTAAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 15 0.62
29 9 0.38
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.61
Consensus pattern (29 bp):
TAATTTATTTTTACATTTAGAAATTTAGT
Found at i:8208119 original size:26 final size:26
Alignment explanation
Indices: 8208083--8208134 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
8208073 CTAATTGAGA
8208083 AAGTGAGAATTCATAATGGTCTCATC
1 AAGTGAGAATTCATAATGGTCTCATC
8208109 AAGTGAGAATTCATAATGGTCTCATC
1 AAGTGAGAATTCATAATGGTCTCATC
8208135 CTCATTCTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (26 bp):
AAGTGAGAATTCATAATGGTCTCATC
Found at i:8210324 original size:23 final size:23
Alignment explanation
Indices: 8210272--8210324 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
8210262 TTAAGTTAAT
* **
8210272 CAAATTAAGTTATTCGAGTCGACT
1 CAAA-TAAGTTATTCGAGTCAAAG
8210296 CAAATAAGTTATTCGAGTCAAAG
1 CAAATAAGTTATTCGAGTCAAAG
*
8210319 CTAATA
1 CAAATA
8210325 TATGGACAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
23 21 0.84
24 4 0.16
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (23 bp):
CAAATAAGTTATTCGAGTCAAAG
Found at i:8212473 original size:5 final size:5
Alignment explanation
Indices: 8212457--8212491 Score: 61
Period size: 5 Copynumber: 6.8 Consensus size: 5
8212447 AAATTCCTAA
8212457 GCCCG AGCCCG GCCCG GCCCG GCCCG GCCCG GCCC
1 GCCCG -GCCCG GCCCG GCCCG GCCCG GCCCG GCCC
8212492 ATTTTTTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.03, C:0.60, G:0.37, T:0.00
Consensus pattern (5 bp):
GCCCG
Found at i:8215957 original size:3 final size:3
Alignment explanation
Indices: 8215949--8216004 Score: 78
Period size: 3 Copynumber: 18.7 Consensus size: 3
8215939 ATCAATTAAA
* *
8215949 TAT TAT TA- TAT TAT TAT AAT AAT GTAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT
8215994 TAT TAT TAT TA
1 TAT TAT TAT TA
8216005 CTACGTAAAA
Statistics
Matches: 49, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
2 2 0.04
3 45 0.92
4 2 0.04
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:8216848 original size:36 final size:38
Alignment explanation
Indices: 8216780--8216871 Score: 93
Period size: 36 Copynumber: 2.5 Consensus size: 38
8216770 ATATGTGTGG
*
8216780 AATTGAAATGAATAT-TGACTTGAAAATGG-AAAAGTGAA
1 AATTGAATTGAAT-TGTGACTTGAAAATGGAAAAAGT-AA
** *
8216818 TTTTGAATTGAATTGTGA-TTGAAAGT-GAAAAAGTAA
1 AATTGAATTGAATTGTGACTTGAAAATGGAAAAAGTAA
*
8216854 AATTGAATTGAAATGTGA
1 AATTGAATTGAATTGTGA
8216872 ATTTGGAGAC
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
36 18 0.40
37 14 0.31
38 13 0.29
ACGTcount: A:0.46, C:0.01, G:0.22, T:0.32
Consensus pattern (38 bp):
AATTGAATTGAATTGTGACTTGAAAATGGAAAAAGTAA
Found at i:8220576 original size:41 final size:41
Alignment explanation
Indices: 8220518--8220612 Score: 163
Period size: 41 Copynumber: 2.3 Consensus size: 41
8220508 TTGAAATTTG
* *
8220518 TGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCCGA
1 TGATCTGAATCAAGCTATAAGCCTAACAGGCTAAGTGCCGA
*
8220559 TGATCTGAATCAAGCTATAAGCCTAACAGGCTAAGTGCCGG
1 TGATCTGAATCAAGCTATAAGCCTAACAGGCTAAGTGCCGA
8220600 TGATCTGAATCAA
1 TGATCTGAATCAA
8220613 AGGAACGAAG
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.23
Consensus pattern (41 bp):
TGATCTGAATCAAGCTATAAGCCTAACAGGCTAAGTGCCGA
Found at i:8220839 original size:41 final size:41
Alignment explanation
Indices: 8220782--8220957 Score: 307
Period size: 41 Copynumber: 4.3 Consensus size: 41
8220772 GTTTGGAATT
8220782 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
8220823 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
* *
8220864 GGTGATCTGAATCAGGCTATAAGCCTAGTAGGCTAAATGCC
1 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
* * *
8220905 GGTGATATGAATCAGGTTATAAACCTAGCAGGCTAAGTGCC
1 GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
8220946 GGTGATCTGAAT
1 GGTGATCTGAAT
8220958 ATGTTAAATT
Statistics
Matches: 127, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 127 1.00
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.24
Consensus pattern (41 bp):
GGTGATCTGAATCAGGCTATAAGCCTAGCAGGCTAAGTGCC
Found at i:8222155 original size:32 final size:32
Alignment explanation
Indices: 8222114--8222178 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
8222104 ACCTAACATT
8222114 GAGGTATCAATATCTGAATTCCTCAAATACTG
1 GAGGTATCAATATCTGAATTCCTCAAATACTG
8222146 GAGGTATCAATATCTGAATTCCTCAAATACTG
1 GAGGTATCAATATCTGAATTCCTCAAATACTG
8222178 G
1 G
8222179 TACATTGTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (32 bp):
GAGGTATCAATATCTGAATTCCTCAAATACTG
Found at i:8233398 original size:12 final size:12
Alignment explanation
Indices: 8233381--8233405 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8233371 TTTGCCCCTA
8233381 ATAATACATATT
1 ATAATACATATT
8233393 ATAATACATATT
1 ATAATACATATT
8233405 A
1 A
8233406 ATGTATTACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (12 bp):
ATAATACATATT
Found at i:8234704 original size:16 final size:16
Alignment explanation
Indices: 8234683--8234717 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
8234673 AATAAATATG
8234683 ATAATATTCA-TTATTA
1 ATAATATT-ATTTATTA
8234699 ATAATATTATTTATTA
1 ATAATATTATTTATTA
8234715 ATA
1 ATA
8234718 GTACCAATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 1 0.06
16 17 0.94
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (16 bp):
ATAATATTATTTATTA
Found at i:8238849 original size:14 final size:15
Alignment explanation
Indices: 8238820--8238857 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
8238810 ATATCTCAAT
*
8238820 TTAATTTCATACCAA
1 TTAATTACATACCAA
*
8238835 TT-ATTACATATCAA
1 TTAATTACATACCAA
8238849 TTAATTACA
1 TTAATTACA
8238858 CCACTTTCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.42, C:0.16, G:0.00, T:0.42
Consensus pattern (15 bp):
TTAATTACATACCAA
Found at i:8240483 original size:20 final size:19
Alignment explanation
Indices: 8240434--8240483 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
8240424 AATGTAAATA
*
8240434 TTTTATTGAATAAAGTTTTG
1 TTTTATTG-ATAAAGTTATG
* *
8240454 GTTTAGTGATAAAGTTAATG
1 TTTTATTGATAAAGTT-ATG
8240474 TTTTATTGAT
1 TTTTATTGAT
8240484 GTAAATAGTA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.30, C:0.00, G:0.18, T:0.52
Consensus pattern (19 bp):
TTTTATTGATAAAGTTATG
Found at i:8241837 original size:13 final size:14
Alignment explanation
Indices: 8241819--8241852 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
8241809 GGCATGATAT
8241819 GCATTGGACA-AAA
1 GCATTGGACAGAAA
8241832 GCATTGG-CAGAAA
1 GCATTGGACAGAAA
8241845 GCATTGGA
1 GCATTGGA
8241853 GCTTTTACAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 2 0.11
13 17 0.89
ACGTcount: A:0.38, C:0.15, G:0.29, T:0.18
Consensus pattern (14 bp):
GCATTGGACAGAAA
Found at i:8243648 original size:58 final size:57
Alignment explanation
Indices: 8243541--8243732 Score: 181
Period size: 58 Copynumber: 3.3 Consensus size: 57
8243531 TTAATATAAT
* * * *
8243541 ATTTGGTACATGAACTTCACACTTTTTC-TAATTTGGCATCTAAACTTTTTTTGGTCCA
1 ATTTGGTAC-TAAACTTCACACTTTTTCTTAATTTGGTA-CTTAATTTTTTTTGGTCCA
* * *
8243599 ATTTGGTACTCAAACTTTACACTTTTTCTTAAGTTGGTACTTAATTTTTTTGGAGTCCA
1 ATTTGGTACT-AAACTTCACACTTTTTCTTAATTTGGTACTTAATTTTTTTTG-GTCCA
* * * ** * *
8243658 ATTTGGTACTGAACTTGACTA-TTTTTCTTAATTTGGTACCTAATCTTTTTTTTATTCG
1 ATTTGGTACTAAACTTCAC-ACTTTTTCTTAATTTGGTACTTAAT-TTTTTTTGGTCCA
8243716 ATTTGGTACTTAAACTT
1 ATTTGGTAC-TAAACTT
8243733 ATCAAACGTT
Statistics
Matches: 111, Mismatches: 17, Indels: 11
0.80 0.12 0.08
Matches are distributed among these distances:
57 1 0.01
58 74 0.67
59 36 0.32
ACGTcount: A:0.23, C:0.16, G:0.12, T:0.48
Consensus pattern (57 bp):
ATTTGGTACTAAACTTCACACTTTTTCTTAATTTGGTACTTAATTTTTTTTGGTCCA
Found at i:8243707 original size:59 final size:58
Alignment explanation
Indices: 8243541--8243708 Score: 198
Period size: 58 Copynumber: 2.9 Consensus size: 58
8243531 TTAATATAAT
* * * *
8243541 ATTTGGTACATGAACTTCACACTTTTTC-TAATTTGGCATCTAAACTTTTTTTGGTCCA
1 ATTTGGTAC-TGAACTTCACACTTTTTCTTAATTTGGTACCTAATCTTTTTTGGGTCCA
* * * *
8243599 ATTTGGTACTCAAACTTTACACTTTTTCTTAAGTTGGTACTTAAT-TTTTTTGGAGTCCA
1 ATTTGGTACT-GAACTTCACACTTTTTCTTAATTTGGTACCTAATCTTTTTTGG-GTCCA
*
8243658 ATTTGGTACTGAACTTGACTA-TTTTTCTTAATTTGGTACCTAATCTTTTTT
1 ATTTGGTACTGAACTTCAC-ACTTTTTCTTAATTTGGTACCTAATCTTTTTT
8243709 TTATTCGATT
Statistics
Matches: 93, Mismatches: 12, Indels: 9
0.82 0.11 0.08
Matches are distributed among these distances:
57 1 0.01
58 59 0.63
59 33 0.35
ACGTcount: A:0.23, C:0.16, G:0.12, T:0.48
Consensus pattern (58 bp):
ATTTGGTACTGAACTTCACACTTTTTCTTAATTTGGTACCTAATCTTTTTTGGGTCCA
Found at i:8243918 original size:31 final size:32
Alignment explanation
Indices: 8243880--8243949 Score: 106
Period size: 31 Copynumber: 2.2 Consensus size: 32
8243870 TTAATATAAC
*
8243880 ATTTGGTACTTGAACTTGACACTTTTT-CTTA
1 ATTTGGTACTTGAACTTGACACTTTTTCCCTA
* *
8243911 ATTTGGTACTTGAACTTGGCATTTTTTCCCTA
1 ATTTGGTACTTGAACTTGACACTTTTTCCCTA
8243943 ATTTGGT
1 ATTTGGT
8243950 TGCTAAACTT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
31 25 0.71
32 10 0.29
ACGTcount: A:0.20, C:0.16, G:0.16, T:0.49
Consensus pattern (32 bp):
ATTTGGTACTTGAACTTGACACTTTTTCCCTA
Found at i:8250046 original size:19 final size:20
Alignment explanation
Indices: 8250024--8250069 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
8250014 TTTTTAATTG
* *
8250024 AAATAATAATTTTATTAA-A
1 AAATAATAATCTTATAAATA
8250043 AAATAATAATCTTATAAATA
1 AAATAATAATCTTATAAATA
8250063 AAATAAT
1 AAATAAT
8250070 TTAAGGGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (20 bp):
AAATAATAATCTTATAAATA
Found at i:8251535 original size:52 final size:51
Alignment explanation
Indices: 8251479--8251588 Score: 175
Period size: 52 Copynumber: 2.1 Consensus size: 51
8251469 AATGGTATGT
8251479 TTTTTTTAATGGAGCCTATCTGAAAGGCACCAATGAATATTTTATATTAAAA
1 TTTTTTTAATGGAGCCTATCTGAAAGGCACCAATGAATATTTTATATT-AAA
* * * *
8251531 TTTTTTTAATGGAGCCTATCTGACAGGCGCCAATGAATTTTTTATATTAAT
1 TTTTTTTAATGGAGCCTATCTGAAAGGCACCAATGAATATTTTATATTAAA
8251582 TTTTTTT
1 TTTTTTT
8251589 CTTTTAATAA
Statistics
Matches: 54, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
51 9 0.17
52 45 0.83
ACGTcount: A:0.30, C:0.12, G:0.14, T:0.45
Consensus pattern (51 bp):
TTTTTTTAATGGAGCCTATCTGAAAGGCACCAATGAATATTTTATATTAAA
Found at i:8251691 original size:27 final size:27
Alignment explanation
Indices: 8251650--8251730 Score: 83
Period size: 27 Copynumber: 3.0 Consensus size: 27
8251640 GAGTAGTTGC
*
8251650 GCCTATCTCAGAGGCGCCAATGGTGGA
1 GCCTATCTGAGAGGCGCCAATGGTGGA
* * * * *
8251677 GCCTATCTGACAGGCGCCACTAGTTGT
1 GCCTATCTGAGAGGCGCCAATGGTGGA
*
8251704 GCC-ATGTTGAGAGGCGCCAATGGTGGA
1 GCCTAT-CTGAGAGGCGCCAATGGTGGA
8251731 TTTTTTCCCT
Statistics
Matches: 41, Mismatches: 12, Indels: 2
0.75 0.22 0.04
Matches are distributed among these distances:
26 2 0.05
27 39 0.95
ACGTcount: A:0.21, C:0.25, G:0.33, T:0.21
Consensus pattern (27 bp):
GCCTATCTGAGAGGCGCCAATGGTGGA
Found at i:8254311 original size:55 final size:55
Alignment explanation
Indices: 8254251--8254362 Score: 145
Period size: 55 Copynumber: 2.0 Consensus size: 55
8254241 TTATTTAAAC
*
8254251 AAAAAAATA-ATTTTAATATAAAAAATTGATTCGCGCCTATTAGATAGGCGCGATT
1 AAAAAAATATATTTTAATAT-AAAAATTGATTCGCGCCTATCAGATAGGCGCGATT
* * * * * *
8254306 AAAAAAATATTTTTTAATATAATAATTTATTTGCGTCTGTCAGATAGGCGCGATT
1 AAAAAAATATATTTTAATATAAAAATTGATTCGCGCCTATCAGATAGGCGCGATT
8254361 AA
1 AA
8254363 TTTTTTTTAA
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
55 40 0.82
56 9 0.18
ACGTcount: A:0.41, C:0.10, G:0.14, T:0.35
Consensus pattern (55 bp):
AAAAAAATATATTTTAATATAAAAATTGATTCGCGCCTATCAGATAGGCGCGATT
Found at i:8254758 original size:60 final size:60
Alignment explanation
Indices: 8254665--8254783 Score: 202
Period size: 60 Copynumber: 2.0 Consensus size: 60
8254655 ATATTAAACT
* * * *
8254665 AAACACTACAATTTATAACTTAATCCTAAATTACTAATAAATTAATTTTAAAATAATTAC
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
8254725 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
1 AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTA
8254784 TAAAAAGCAA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 55 1.00
ACGTcount: A:0.53, C:0.13, G:0.00, T:0.34
Consensus pattern (60 bp):
AAACACAAAAATTTATAACATAATCCTAAATTACTAACAAATTAATTTTAAAATAATTAC
Found at i:8256369 original size:18 final size:20
Alignment explanation
Indices: 8256339--8256376 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
8256329 TAGATTAATG
8256339 TTTAAATAATAATA-ATTTT
1 TTTAAATAATAATATATTTT
8256358 TTTAAA-AATAATATATTTT
1 TTTAAATAATAATATATTTT
8256377 AACTTTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TTTAAATAATAATATATTTT
Found at i:8258721 original size:11 final size:12
Alignment explanation
Indices: 8258707--8258741 Score: 56
Period size: 11 Copynumber: 3.1 Consensus size: 12
8258697 AGAAAAAAAA
8258707 AAGAGAG-AGGG
1 AAGAGAGAAGGG
8258718 AAGAGAGAAGGG
1 AAGAGAGAAGGG
8258730 -AGAGAGAAGGG
1 AAGAGAGAAGGG
8258741 A
1 A
8258742 GGGGAATCCG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 18 0.82
12 4 0.18
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (12 bp):
AAGAGAGAAGGG
Found at i:8259895 original size:45 final size:46
Alignment explanation
Indices: 8259803--8260356 Score: 323
Period size: 44 Copynumber: 12.5 Consensus size: 46
8259793 GTGAGGTAAA
* * * *
8259803 ATCTGCCATCTTCGATCTTCTTCGCTGCCAAATACAGGAAGGCAAG
1 ATCTGCTATCTTCGATCTACTTCACTGCCAAATACAGGAAGACAAG
* *
8259849 ATCTG-TAATCTTCGATCTACTTCAC-GCCAAATACATGAAGATAAG
1 ATCTGCT-ATCTTCGATCTACTTCACTGCCAAATACAGGAAGACAAG
* * ** * **
8259894 ATCTGCTTTCTTCGATCTACTTCGCCACC-AGTATGGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCACTGCCAAATACAGGAAGACAAG
* * * * * **
8259939 ATCTGC-ATCGTCAATCCACTTC-CTACC-AATATAGGAAGACCGG
1 ATCTGCTATCTTCGATCTACTTCACTGCCAAATACAGGAAGACAAG
* * *
8259982 ATCTGCTACCTTTGATCTACTTCAC-GCC-AATACATGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCACTGCCAAATACAGGAAGACAAG
* ** *
8260026 ATCTGCTTTCTGT-GATCTACTT--C-GCCATCAATATGGGAAGACAAA
1 ATCTGCTATCT-TCGATCTACTTCACTGCCA--AATACAGGAAGACAAG
* * * * * * * *
8260071 ATCTGC-GTCGTCGATCCACTTCCAAT--C-ATTATAGGAAGATAGG
1 ATCTGCTATCTTCGATCTACTT-CACTGCCAAATACAGGAAGACAAG
* ** * *
8260114 ACCTATTATCTTTGATCTACTTCAC-GCC-AATACATGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCACTGCCAAATACAGGAAGACAAG
* * * ** **
8260158 ATCTGCTTTCTGCGATCTACTTCGCCACC-AATATGGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCACTGCCAAATACAGGAAGACAAG
* * * * *
8260203 ATCTGC-ATCTTCGATCCACTTC-CTACC-AATATAGGAAGATAGG
1 ATCTGCTATCTTCGATCTACTTCACTGCCAAATACAGGAAGACAAG
* *
8260246 ATCTGCTACCTTCGATCTACTTCAC-GCC-AATACATGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCACTGCCAAATACAGGAAGACAAG
* * * ** **
8260290 ATCTGCTTTCTGCGATCTACTTCGCCACC-AATATGGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCACTGCCAAATACAGGAAGACAAG
*
8260335 ATCTGC-ATCTTCGATCCACTTC
1 ATCTGCTATCTTCGATCTACTTC
8260357 CTATTCCACT
Statistics
Matches: 390, Mismatches: 97, Indels: 44
0.73 0.18 0.08
Matches are distributed among these distances:
42 4 0.01
43 62 0.16
44 181 0.46
45 118 0.30
46 25 0.06
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.28
Consensus pattern (46 bp):
ATCTGCTATCTTCGATCTACTTCACTGCCAAATACAGGAAGACAAG
Found at i:8260076 original size:132 final size:132
Alignment explanation
Indices: 8259862--8260359 Score: 807
Period size: 132 Copynumber: 3.8 Consensus size: 132
8259852 TGTAATCTTC
* * *
8259862 GATCTACTTCACGCCAAATACATGAAGATAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTA
1 GATCTACTTCACGCC-AATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATA
* **
8259927 TGGGAAGACAAGATCTGCATCGTCAATCCACTTCCTACCAATATAGGAAGACCGGATCTGCTACC
65 TGGGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACC
8259992 TTT
130 TTT
* *
8259995 GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGTGATCTACTTCGCCATCAATAT
1 GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATAT
* * * * * * ** *
8260060 GGGAAGACAAAATCTGCGTCGTCGATCCACTTCCAATCATTATAGGAAGATAGGACCTATTATCT
66 GGGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCT
8260125 TT
131 TT
8260127 GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATAT
1 GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATAT
*
8260192 GGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCT
66 GGGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCT
*
8260257 TC
131 TT
8260259 GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATAT
1 GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATAT
*
8260324 GGGAAGACAAGATCTGCATCTTCGATCCACTTCCTA
66 GGGAAGACAAGATCTGCATCGTCGATCCACTTCCTA
8260360 TTCCACTGCC
Statistics
Matches: 335, Mismatches: 30, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
132 320 0.96
133 15 0.04
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.28
Consensus pattern (132 bp):
GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATAT
GGGAAGACAAGATCTGCATCGTCGATCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCT
TT
Found at i:8260517 original size:134 final size:134
Alignment explanation
Indices: 8260357--8260627 Score: 488
Period size: 134 Copynumber: 2.0 Consensus size: 134
8260347 GATCCACTTC
* *
8260357 CTATTCCACTGCCAAATGCAGAGAGATAGAGTTATCGGCTTTAATGCACTCCACTGTGGTCAGGG
1 CTATTCCACTGCCAAATACAGAGAGATAGAGTTATCGGCTTCAATGCACTCCACTGTGGTCAGGG
8260422 AGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTT
66 AGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTT
8260487 CAAT
131 CAAT
* * *
8260491 CTATTCCACTGCCAGATACAGGGAGATAGAGTTATCGGCTTCAATGTACTCCACTGTGGTCAGGG
1 CTATTCCACTGCCAAATACAGAGAGATAGAGTTATCGGCTTCAATGCACTCCACTGTGGTCAGGG
*
8260556 AGGTAAAATCTGCCATCTTTGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTT
66 AGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTT
8260621 CAAT
131 CAAT
8260625 CTA
1 CTA
8260628 NNNNNNNNNN
Statistics
Matches: 131, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
134 131 1.00
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.27
Consensus pattern (134 bp):
CTATTCCACTGCCAAATACAGAGAGATAGAGTTATCGGCTTCAATGCACTCCACTGTGGTCAGGG
AGGTAAAATCTGCCATCTTCGATCTGCTTCGCTGCCAAATACAGGAAGGCAAGATCTGCAATCTT
CAAT
Found at i:8274650 original size:21 final size:23
Alignment explanation
Indices: 8274611--8274667 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
8274601 GTTTTAAAAT
* *
8274611 TTGGGCTCAGGTAGTTTTA-GG-A
1 TTGGGCT-AGGTTGGTTTAGGGTA
8274633 TTGGGCTAGGTTGGTTTAGGGTA
1 TTGGGCTAGGTTGGTTTAGGGTA
8274656 TTGGGCTAGGTT
1 TTGGGCTAGGTT
8274668 AGTTGGGTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 9 0.29
22 9 0.29
23 13 0.42
ACGTcount: A:0.14, C:0.07, G:0.40, T:0.39
Consensus pattern (23 bp):
TTGGGCTAGGTTGGTTTAGGGTA
Found at i:8275411 original size:17 final size:18
Alignment explanation
Indices: 8275389--8275426 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
8275379 AAGAAAAATG
8275389 TAAAAA-TAT-AATATTTA
1 TAAAAATTATAAAT-TTTA
8275406 TAAAAATTATAAATTTTA
1 TAAAAATTATAAATTTTA
8275424 TAA
1 TAA
8275427 TTATTTCCGA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.32
18 10 0.53
19 3 0.16
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TAAAAATTATAAATTTTA
Found at i:8290128 original size:16 final size:16
Alignment explanation
Indices: 8290105--8290144 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
8290095 CGTTTGGTTC
8290105 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
*
8290121 GGTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
8290137 GCTGTAAT
1 GCTGTAAT
8290145 AGTAATTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.35, C:0.05, G:0.33, T:0.28
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:8290190 original size:45 final size:44
Alignment explanation
Indices: 8290126--8290218 Score: 134
Period size: 44 Copynumber: 2.1 Consensus size: 44
8290116 ATAGAGGTGT
* *
8290126 AATGGAATAGAGCTGTAATAGTAATTCAAT-TGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAGT-ATT-AATGTGTTTAGTTGAATGG
*
8290171 AATGGAATAGAACTGTAATAGTATTATTGTGTTTAGTTGAATGG
1 AATGGAATAGAACTGTAATAGTATTAATGTGTTTAGTTGAATGG
8290215 AATG
1 AATG
8290219 ATGTTATAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
43 2 0.05
44 21 0.48
45 21 0.48
ACGTcount: A:0.34, C:0.03, G:0.26, T:0.37
Consensus pattern (44 bp):
AATGGAATAGAACTGTAATAGTATTAATGTGTTTAGTTGAATGG
Found at i:8290390 original size:24 final size:21
Alignment explanation
Indices: 8290313--8290425 Score: 88
Period size: 21 Copynumber: 5.1 Consensus size: 21
8290303 GTTATTAAAT
8290313 TTTAATAAGATTATTAATATAA
1 TTTAATAA-ATTATTAATATAA
* * *
8290335 -ATAATAAATAATTTAATCATAT
1 TTTAATAAATTA-TTAAT-ATAA
8290357 TTTAACATAATTATTATTAAATATAA
1 TTT-A-ATAA--ATTATT-AATATAA
*
8290383 TTTAATAAA-AATT-ATATAA
1 TTTAATAAATTATTAATATAA
8290402 TTTAATAAAATTATTAATATAA
1 TTTAAT-AAATTATTAATATAA
8290424 TT
1 TT
8290426 ATTCTTATAT
Statistics
Matches: 72, Mismatches: 8, Indels: 22
0.71 0.08 0.22
Matches are distributed among these distances:
19 12 0.17
20 6 0.08
21 17 0.24
22 12 0.17
23 1 0.01
24 5 0.07
25 5 0.07
26 8 0.11
27 6 0.08
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (21 bp):
TTTAATAAATTATTAATATAA
Found at i:8290401 original size:19 final size:18
Alignment explanation
Indices: 8290377--8290424 Score: 71
Period size: 19 Copynumber: 2.7 Consensus size: 18
8290367 TTATTATTAA
8290377 ATATAATTTAATAAAAATT
1 ATATAATTTAAT-AAAATT
8290396 ATATAATTTAATAAAATT
1 ATATAATTTAATAAAATT
*
8290414 AT-TAATATAAT
1 ATATAATTTAAT
8290425 TATTCTTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
17 8 0.29
18 8 0.29
19 12 0.43
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
ATATAATTTAATAAAATT
Found at i:8290441 original size:56 final size:55
Alignment explanation
Indices: 8290342--8290448 Score: 135
Period size: 56 Copynumber: 1.9 Consensus size: 55
8290332 TAAATAATAA
* *
8290342 ATAATTTAATCATATTTTAACATAATTATTATTAAATATAATTTAATAAAAATTAT
1 ATAATTTAATAAAATTTTAACATAATTATTATT-AATATAATTTAATAAAAATTAT
* * *
8290398 ATAATTTAATAAAATTATTAATATAATTATTCTT-ATATGAATTTACTAAAA
1 ATAATTTAATAAAATT-TTAACATAATTATTATTAATAT-AATTTAATAAAA
8290449 TCATAATATA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
55 4 0.09
56 25 0.57
57 15 0.34
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.46
Consensus pattern (55 bp):
ATAATTTAATAAAATTTTAACATAATTATTATTAATATAATTTAATAAAAATTAT
Found at i:8290714 original size:23 final size:23
Alignment explanation
Indices: 8290687--8290732 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
8290677 TCATAATATC
*
8290687 CAAACATAATTTTCATATATTAA
1 CAAACATAATATTCATATATTAA
8290710 CAAACATAATATTCATATATTAA
1 CAAACATAATATTCATATATTAA
8290733 TAAAAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (23 bp):
CAAACATAATATTCATATATTAA
Found at i:8292104 original size:43 final size:43
Alignment explanation
Indices: 8292040--8292328 Score: 330
Period size: 43 Copynumber: 6.8 Consensus size: 43
8292030 GCGTCGCTAA
* * *
8292040 CTTTAGTGGCGCTTTTCCCACAAACACCGCTAAAGACCATTAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGAC
*
8292083 CTTTAGCGGCGCTTTTTCCACAAACGCCGCTAAAGACCATGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGAC
* * * * *
8292126 CTTTAGTGACGCTTTCCCCACAAACGCCGCTAAAGAGCAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGAC
** * *
8292169 CTTTAGAAGCACTTTTCCCACAAACGCCGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGAC
* ** *
8292212 ATTTAGCGGCGCTTTTATCACAAACGCCGCTATAGACCATGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGAC
* ** * * *
8292255 CTTTAGCAGCGCTTTTATCACAAATGCCGCTAAAGAACA-AAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGAC
* **
8292297 CTTTAGCGGCGCTTCTAGCA-AAACGCCGCTAA
1 CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAA
8292329 GAACATAATC
Statistics
Matches: 212, Mismatches: 34, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
41 11 0.05
42 19 0.09
43 182 0.86
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.22
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGACCATGAC
Found at i:8292202 original size:129 final size:128
Alignment explanation
Indices: 8292051--8292302 Score: 364
Period size: 129 Copynumber: 2.0 Consensus size: 128
8292041 TTTAGTGGCG
** *
8292051 CTTTTCCCACAAACACCGCTAAAGACCATTACCTTTAGCGGCGCTTTT-TCCACAAACGCCGCTA
1 CTTTTCCCACAAACACCGCTAAAGACCAAGACATTTAGCGGCGCTTTTAT-CACAAACGCCGCTA
* * *
8292115 AAGACCATGACCTTTAG-TGACGCTTTCCCCACAAACGCCGCTAAAGAGCAAGACCTTTAGAAGC
65 AAGACCATGACCTTTAGCAG-CGCTTTCACCACAAACGCCGCTAAAGAACAA-ACCTTTAGAAGC
8292179 A
128 A
* *
8292180 CTTTTCCCACAAACGCCGCTAAAGACCAAGACATTTAGCGGCGCTTTTATCACAAACGCCGCTAT
1 CTTTTCCCACAAACACCGCTAAAGACCAAGACATTTAGCGGCGCTTTTATCACAAACGCCGCTAA
* * *
8292245 AGACCATGACCTTTAGCAGCGCTTTTATCACAAATGCCGCTAAAGAACAAACCTTTAG
66 AGACCATGACCTTTAGCAGCGCTTTCACCACAAACGCCGCTAAAGAACAAACCTTTAG
8292303 CGGCGCTTCT
Statistics
Matches: 110, Mismatches: 11, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
128 8 0.07
129 100 0.91
130 2 0.02
ACGTcount: A:0.31, C:0.31, G:0.15, T:0.23
Consensus pattern (128 bp):
CTTTTCCCACAAACACCGCTAAAGACCAAGACATTTAGCGGCGCTTTTATCACAAACGCCGCTAA
AGACCATGACCTTTAGCAGCGCTTTCACCACAAACGCCGCTAAAGAACAAACCTTTAGAAGCA
Found at i:8296965 original size:147 final size:142
Alignment explanation
Indices: 8296718--8296988 Score: 427
Period size: 147 Copynumber: 1.9 Consensus size: 142
8296708 AATGGCCTAT
*
8296718 TTTTTTTAAAGTAAATTTTTTGTGGCGTTTTAATAAAAATGCCGCTATTGCTTACCTTTTGCAGC
1 TTTTTTTAAAGTAAATTTTTTGTGGCGTTTTAATAAAAACGCCGCTATTGCTTACCTTTTGCAGC
* *
8296783 GTTTTTATGAAAAACGCCGCAAAAAATTATTTCATTTTGAATAAAACGACACTGTTTTGTTATAT
66 GTTTTTATGAAAAACGCCGCAAAAAATTATTTCATTTGGAATAAAACGACACTATTTTGTTATAT
8296848 AAAATGGAGTTA
131 AAAATGGAGTTA
*
8296860 TTTTTTTAAAGTAAAATTATTTTTTGTGGCGTTTTTTATAAAAACGCCGCTATTGCTTACCTTTT
1 TTTTTTTAAAGT--AA--ATTTTTTGTGGCG-TTTTAATAAAAACGCCGCTATTGCTTACCTTTT
* *
8296925 GCGGCGTTTTTGAT-AAAAACGCCGCAAAAACTTATTTCATTTGGAATAAAACGACACTATTTTG
61 GCAGCGTTTTT-ATGAAAAACGCCGCAAAAAATTATTTCATTTGGAATAAAACGACACTATTTTG
8296989 CTATGCTAAA
Statistics
Matches: 117, Mismatches: 6, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
142 12 0.10
144 2 0.02
146 13 0.11
147 88 0.75
148 2 0.02
ACGTcount: A:0.31, C:0.13, G:0.15, T:0.41
Consensus pattern (142 bp):
TTTTTTTAAAGTAAATTTTTTGTGGCGTTTTAATAAAAACGCCGCTATTGCTTACCTTTTGCAGC
GTTTTTATGAAAAACGCCGCAAAAAATTATTTCATTTGGAATAAAACGACACTATTTTGTTATAT
AAAATGGAGTTA
Found at i:8297584 original size:89 final size:89
Alignment explanation
Indices: 8297479--8297655 Score: 282
Period size: 89 Copynumber: 2.0 Consensus size: 89
8297469 TTAATCCCAA
* * * *
8297479 ACCCCAAATCCCTAACCACTAACCCTTACACCTTATTTAATATATAAATTAAAAAATACTAATTA
1 ACCCCAAATCCCTAACCACTAACCCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTA
*
8297544 ATCTAAATCATAAACCCTAACCCG
66 ATCTAAACCATAAACCCTAACCCG
* *
8297568 ACCCCAAATCCCTAACCCCTAACCCCTAAACATTATTTAATATATAAATTAAAATACACTAATTA
1 ACCCCAAATCCCTAACCACTAACCCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTA
*
8297633 ATCTAAACCCTAAACCCTAACCC
66 ATCTAAACCATAAACCCTAACCC
8297656 CTAACCTAAC
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
89 80 1.00
ACGTcount: A:0.44, C:0.30, G:0.01, T:0.26
Consensus pattern (89 bp):
ACCCCAAATCCCTAACCACTAACCCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTA
ATCTAAACCATAAACCCTAACCCG
Found at i:8297684 original size:89 final size:88
Alignment explanation
Indices: 8297511--8297686 Score: 219
Period size: 89 Copynumber: 2.0 Consensus size: 88
8297501 CCCTTACACC
* * *
8297511 TTATTTAATATATAAATTAAAAAATACTAATTAATCTAAATCATAAACCCTAACCCGACCCCAAA
1 TTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCATAAACCCTAACCCGAACCCAAA
* * *
8297576 TCCCTAACCCCTAACCCCTAAACA
66 -CCCGAACCCATAAACCCTAAACA
* * * *
8297600 TTATTTAATATATAAATTAAAATACACTAATTAATCTAAACCCTAAACCCTAACCCCTAA-CCTA
1 TTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCATAAACCCTAA-CCCGAACCCAA
*
8297664 ACACCGAATCCATAAACCCTAAA
65 AC-CCGAACCCATAAACCCTAAA
8297687 TCCCTAACTC
Statistics
Matches: 74, Mismatches: 11, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
88 1 0.01
89 69 0.93
90 4 0.05
ACGTcount: A:0.45, C:0.27, G:0.01, T:0.26
Consensus pattern (88 bp):
TTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCATAAACCCTAACCCGAACCCAAA
CCCGAACCCATAAACCCTAAACA
Found at i:8297722 original size:43 final size:41
Alignment explanation
Indices: 8297636--8297731 Score: 106
Period size: 43 Copynumber: 2.3 Consensus size: 41
8297626 CTAATTAATC
*
8297636 TAAACCCTAAA-CCCTAACCCCTAACCTAACACCGAATCCA
1 TAAACCCTAAATCCCTAACCCCTAACCTAACACCGAACCCA
* * *
8297676 TAAACCCTAAATCCCTAACTCTTAACCTCTAAC-CCTTAACCCA
1 TAAACCCTAAATCCCTAACCCCTAA-C-CTAACACC-GAACCCA
*
8297719 TAAACCATAAATC
1 TAAACCCTAAATC
8297732 ACAACCCTTA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
40 11 0.23
41 11 0.23
42 3 0.06
43 22 0.47
ACGTcount: A:0.40, C:0.39, G:0.01, T:0.21
Consensus pattern (41 bp):
TAAACCCTAAATCCCTAACCCCTAACCTAACACCGAACCCA
Found at i:8297765 original size:14 final size:15
Alignment explanation
Indices: 8297748--8297781 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
8297738 CTTAAATCAG
8297748 AATCTCTAA-TCCAT
1 AATCTCTAATTCCAT
8297762 AATCTCTAATTCCAT
1 AATCTCTAATTCCAT
8297777 AATCT
1 AATCT
8297782 ATAAACCTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.35, C:0.26, G:0.00, T:0.38
Consensus pattern (15 bp):
AATCTCTAATTCCAT
Found at i:8298232 original size:41 final size:41
Alignment explanation
Indices: 8298187--8298380 Score: 264
Period size: 41 Copynumber: 4.7 Consensus size: 41
8298177 AAATGTTTTT
* * *
8298187 GCGGCGCTTTTTTAAAAACGTCGCTAAAG-TCCCGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGAT-CTGAGCATTA
** *
8298228 GCGGCGCTTTCCCAAAAATGCCGCTAAAGATCTGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
* *
8298269 GCGGCGCTTTTCCAAAAATGCCGCTAAAGATCTGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
*
8298310 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGTATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
* *
8298351 GCGGCGCTTTTTTTAAAAACGCTGCTAAAG
1 GCGGCGC-TTTTTCAAAAACGCCGCTAAAG
8298381 CCCCGAAAGG
Statistics
Matches: 139, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
41 118 0.85
42 21 0.15
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (41 bp):
GCGGCGCTTTTTCAAAAACGCCGCTAAAGATCTGAGCATTA
Found at i:8298461 original size:39 final size:38
Alignment explanation
Indices: 8298417--8298569 Score: 119
Period size: 40 Copynumber: 3.8 Consensus size: 38
8298407 TGTGCTTAGG
* *
8298417 TTTTTAGCGGCATTTTCCAAAAAACGCCGCTAATGGTCA
1 TTTTTAGCGGCGTTTT-CAAAAAACGCCGCTAATGCTCA
* * * *
8298456 TTTTTAGTGGCGCTTT-AATAAAAGCGTCGCTAATGCTTGA
1 TTTTTAGCGGCGTTTTCAA-AAAA-CGCCGCTAATGC-TCA
* * * *
8298496 TATTTAGTGGCGTTTTACATAAAGCGCCGCTAATGCTCCA
1 TTTTTAGCGGCGTTTT-CAAAAAACGCCGCTAATGCT-CA
**
8298536 TTTTTAGCGGCGTTTTTTGGAAAAACGCCGCTAA
1 TTTTTAGCGGCG--TTTTCAAAAAACGCCGCTAA
8298570 AAACGCTGCT
Statistics
Matches: 88, Mismatches: 18, Indels: 14
0.73 0.15 0.12
Matches are distributed among these distances:
37 2 0.02
38 4 0.05
39 24 0.27
40 38 0.43
41 15 0.17
42 5 0.06
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (38 bp):
TTTTTAGCGGCGTTTTCAAAAAACGCCGCTAATGCTCA
Found at i:8298542 original size:40 final size:39
Alignment explanation
Indices: 8298417--8298551 Score: 137
Period size: 40 Copynumber: 3.4 Consensus size: 39
8298407 TGTGCTTAGG
* * * * *
8298417 TTTTTAGCGGCATTTTCCAAAAAACGCCGCTAATGGTCA
1 TTTTTAGCGGCGTTTTACATAAAGCGCCGCTAATGCTCA
* * * *
8298456 TTTTTAGTGGCGCTTTA-ATAAAAGCGTCGCTAATGCTTGA
1 TTTTTAGCGGCGTTTTACAT-AAAGCGCCGCTAATGC-TCA
* *
8298496 TATTTAGTGGCGTTTTACATAAAGCGCCGCTAATGCTCCA
1 TTTTTAGCGGCGTTTTACATAAAGCGCCGCTAATGCT-CA
8298536 TTTTTAGCGGCGTTTT
1 TTTTTAGCGGCGTTTT
8298552 TTGGAAAAAC
Statistics
Matches: 77, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
38 1 0.01
39 27 0.35
40 47 0.61
41 2 0.03
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.36
Consensus pattern (39 bp):
TTTTTAGCGGCGTTTTACATAAAGCGCCGCTAATGCTCA
Found at i:8301079 original size:51 final size:51
Alignment explanation
Indices: 8301008--8301139 Score: 158
Period size: 50 Copynumber: 2.6 Consensus size: 51
8300998 CATGCCAAAA
* ** * * *
8301008 CCATGTCCCAGCCATGGTCTTACATGGGATGTTCTCATATCGGTGCCCATG
1 CCATGTCCCAGACATGGTCTTACATGGGATCCTCTCAGATCGGTGCCAACG
** * *
8301059 CCATGTCCCAGACATGGTCTTACGGGGGA-CCTCTCAGCTTGGTGCCAACG
1 CCATGTCCCAGACATGGTCTTACATGGGATCCTCTCAGATCGGTGCCAACG
*
8301109 CCATGTCCCAAACATGGTCTTACATGGGATC
1 CCATGTCCCAGACATGGTCTTACATGGGATC
8301140 TCTTTACCCA
Statistics
Matches: 67, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
50 40 0.60
51 27 0.40
ACGTcount: A:0.20, C:0.30, G:0.24, T:0.26
Consensus pattern (51 bp):
CCATGTCCCAGACATGGTCTTACATGGGATCCTCTCAGATCGGTGCCAACG
Found at i:8301507 original size:29 final size:30
Alignment explanation
Indices: 8301474--8301533 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
8301464 CCTCGACTCT
*
8301474 AACTTTGGCAAAATTATG-ATTTGCCCCAA
1 AACTTTGACAAAATTATGCATTTGCCCCAA
* * *
8301503 AACTTTTACATAATTATGCTTTTGCCCCAA
1 AACTTTGACAAAATTATGCATTTGCCCCAA
8301533 A
1 A
8301534 GTTCAGAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 15 0.58
30 11 0.42
ACGTcount: A:0.33, C:0.22, G:0.10, T:0.35
Consensus pattern (30 bp):
AACTTTGACAAAATTATGCATTTGCCCCAA
Found at i:8303884 original size:21 final size:22
Alignment explanation
Indices: 8303846--8303886 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
8303836 GGATGGAAAA
*
8303846 TATTTTTTTAATTATATATTAT
1 TATTTATTTAATTATATATTAT
8303868 TATTTATTTAA-TATATATT
1 TATTTATTTAATTATATATT
8303887 TCTAATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (22 bp):
TATTTATTTAATTATATATTAT
Found at i:8303895 original size:21 final size:22
Alignment explanation
Indices: 8303852--8303900 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
8303842 AAAATATTTT
*
8303852 TTTAATTATATATTATTATTTA
1 TTTAATTATATATTATTAATTA
8303874 TTTAA-TATATATT-TCTAATTA
1 TTTAATTATATATTAT-TAATTA
8303895 -TTAATT
1 TTTAATT
8303901 CAGGTTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
20 5 0.21
21 14 0.58
22 5 0.21
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (22 bp):
TTTAATTATATATTATTAATTA
Found at i:8304827 original size:13 final size:15
Alignment explanation
Indices: 8304809--8304844 Score: 58
Period size: 13 Copynumber: 2.5 Consensus size: 15
8304799 TAATTTCTAT
8304809 ATATATATT-ATAAA
1 ATATATATTCATAAA
8304823 A-ATATATTCATAAA
1 ATATATATTCATAAA
8304837 ATATATAT
1 ATATATAT
8304845 AGTATTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 7 0.35
14 7 0.35
15 6 0.30
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (15 bp):
ATATATATTCATAAA
Found at i:8312331 original size:31 final size:31
Alignment explanation
Indices: 8312293--8312366 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 31
8312283 AATTCCCTTT
8312293 TATCATTATATTAAAATATTAAAATATAATC
1 TATCATTATATTAAAATATTAAAATATAATC
* * * * *
8312324 TATCATTATAATAAATTATTTAAATATTATT
1 TATCATTATATTAAAATATTAAAATATAATC
*
8312355 TATTATTATATT
1 TATCATTATATT
8312367 TAAGTTTTTA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (31 bp):
TATCATTATATTAAAATATTAAAATATAATC
Found at i:8315414 original size:17 final size:17
Alignment explanation
Indices: 8315392--8315424 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
8315382 ATATTTTTTA
8315392 TTTTTAATCAAATATAC
1 TTTTTAATCAAATATAC
8315409 TTTTTAATCAAATATA
1 TTTTTAATCAAATATA
8315425 TATTAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTTTAATCAAATATAC
Found at i:8322963 original size:3 final size:3
Alignment explanation
Indices: 8322955--8323015 Score: 81
Period size: 3 Copynumber: 20.7 Consensus size: 3
8322945 CTGCCAAATG
* *
8322955 TAT TAT TAT TAT TAT T-T T-T TGAC AAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT TAT TAT
8322999 TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TA
8323016 AGAAGAGGGT
Statistics
Matches: 52, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
2 4 0.08
3 48 0.92
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:8324943 original size:26 final size:27
Alignment explanation
Indices: 8324891--8324943 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
8324881 AAAATATATG
8324891 AATAATATAATATATAAAAAAACACTA
1 AATAATATAATATATAAAAAAACACTA
8324918 AATAATATAATATAT-AAAAAACACTA
1 AATAATATAATATATAAAAAAACACTA
8324944 TCTTAACTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 11 0.42
27 15 0.58
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (27 bp):
AATAATATAATATATAAAAAAACACTA
Found at i:8330942 original size:28 final size:31
Alignment explanation
Indices: 8330877--8330944 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
8330867 TATTTTATTA
*
8330877 TGGTACATGTACTTTCATAAATTGTCCAATG
1 TGGTACTTGTACTTTCATAAATTGTCCAATG
** *
8330908 TAATACTTGTACTTTGA-AAA-TGT-CAATG
1 TGGTACTTGTACTTTCATAAATTGTCCAATG
8330936 TGGTACTTG
1 TGGTACTTG
8330945 AACTATCAAT
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
28 12 0.39
29 3 0.10
30 3 0.10
31 13 0.42
ACGTcount: A:0.29, C:0.13, G:0.18, T:0.40
Consensus pattern (31 bp):
TGGTACTTGTACTTTCATAAATTGTCCAATG
Found at i:8349695 original size:27 final size:26
Alignment explanation
Indices: 8349665--8349715 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
8349655 ACTAAAGCAT
* *
8349665 ATTGACGATAAAGTTAAAAATAAATAA
1 ATTGA-GAGAAAGTTAAAAAAAAATAA
*
8349692 ATTGAGAGAAATTTAAAAAAAAAT
1 ATTGAGAGAAAGTTAAAAAAAAAT
8349716 TAGAGTCAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 16 0.76
27 5 0.24
ACGTcount: A:0.61, C:0.02, G:0.12, T:0.25
Consensus pattern (26 bp):
ATTGAGAGAAAGTTAAAAAAAAATAA
Found at i:8349931 original size:5 final size:6
Alignment explanation
Indices: 8349906--8349930 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
8349896 AATTCTTTTT
8349906 AAGAAA AAGAAA AAGAAA AAGAAA A
1 AAGAAA AAGAAA AAGAAA AAGAAA A
8349931 GCATTCAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:8351367 original size:98 final size:99
Alignment explanation
Indices: 8351184--8351380 Score: 254
Period size: 98 Copynumber: 2.0 Consensus size: 99
8351174 TATTCATTGA
* *
8351184 TTAACTCCGATTGCGTCATTGCTTTAGTTCAGTTCAGAAAACGTGAAAATTAAGGTTACTTTAAG
1 TTAACTCCGATTGCGTCACTGCTTTAGTTCAGTTCAGAAAACGTGAAAATTAAGGTTACTTTAAC
*
8351249 ATTGGAGTATTGATTAATTACTTTATAATTCAAT
66 ATCGGAGTATTGATTAATTACTTTATAATTCAAT
* * * * * * * *
8351283 TTAATTCCGATTGCGTCACTGTTTTGGTTCAGTT-AGAAAATGTGAGAGTT-TGGATTTCTTTAA
1 TTAACTCCGATTGCGTCACTGCTTTAGTTCAGTTCAGAAAACGTGAAAATTAAGG-TTACTTTAA
* *
8351346 CATCGGATTATTTATTAATTACTTTATAATTCAAT
65 CATCGGAGTATTGATTAATTACTTTATAATTCAAT
8351381 AGGTATTTGA
Statistics
Matches: 84, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
97 2 0.02
98 52 0.62
99 30 0.36
ACGTcount: A:0.30, C:0.12, G:0.16, T:0.42
Consensus pattern (99 bp):
TTAACTCCGATTGCGTCACTGCTTTAGTTCAGTTCAGAAAACGTGAAAATTAAGGTTACTTTAAC
ATCGGAGTATTGATTAATTACTTTATAATTCAAT
Found at i:8355835 original size:15 final size:15
Alignment explanation
Indices: 8355812--8355851 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
8355802 TGAGCAATCA
* *
8355812 AATTGGTTCGAGATT
1 AATTTGTTCAAGATT
8355827 AATTTGTTCAAGATT
1 AATTTGTTCAAGATT
8355842 AATTTGTTCA
1 AATTTGTTCA
8355852 GTTTGGCACA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.30, C:0.07, G:0.17, T:0.45
Consensus pattern (15 bp):
AATTTGTTCAAGATT
Found at i:8369702 original size:21 final size:21
Alignment explanation
Indices: 8369647--8369717 Score: 70
Period size: 21 Copynumber: 3.4 Consensus size: 21
8369637 TCAGCTCTCT
* * *
8369647 TGAGCTTCAGTTTAACCCTTT
1 TGAGCTTCCGTTCAACCCTTA
* * * *
8369668 TGGGTTTTCGTTCAACTCTTA
1 TGAGCTTCCGTTCAACCCTTA
8369689 TGAGCTTCCGTTCAACCCTTA
1 TGAGCTTCCGTTCAACCCTTA
*
8369710 TGGGCTTC
1 TGAGCTTC
8369718 TGTTTAGCAC
Statistics
Matches: 38, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.15, C:0.25, G:0.18, T:0.41
Consensus pattern (21 bp):
TGAGCTTCCGTTCAACCCTTA
Found at i:8369708 original size:42 final size:42
Alignment explanation
Indices: 8369589--8369713 Score: 137
Period size: 42 Copynumber: 3.0 Consensus size: 42
8369579 TTTTGTGAAC
* * * * *
8369589 TTTCGTGTTAACTCATATGAGTTTCAGTTTAACCCTATT-AGT
1 TTTCGT-TCAACTCTTATGAGCTTCAGTTTAACCCTTTTGGGT
*
8369631 TTTCGTTCAGCTCTCT-TGAGCTTCAGTTTAACCCTTTTGGGT
1 TTTCGTTCAACTCT-TATGAGCTTCAGTTTAACCCTTTTGGGT
* * *
8369673 TTTCGTTCAACTCTTATGAGCTTCCGTTCAACCCTTATGGG
1 TTTCGTTCAACTCTTATGAGCTTCAGTTTAACCCTTTTGGG
8369714 CTTCTGTTTA
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
41 26 0.37
42 44 0.63
ACGTcount: A:0.18, C:0.22, G:0.17, T:0.43
Consensus pattern (42 bp):
TTTCGTTCAACTCTTATGAGCTTCAGTTTAACCCTTTTGGGT
Found at i:8377279 original size:42 final size:42
Alignment explanation
Indices: 8377198--8377332 Score: 166
Period size: 42 Copynumber: 3.2 Consensus size: 42
8377188 TGTTAACTCA
* * **
8377198 TATGAGTTTCAGTTTAACCC-TATTGGTTTCCATTCAGCTC-
1 TATGAGCTTCAGTTTAACCCTTATGGGTTTCTGTTCAGCTCT
8377238 TATTGAGCTTCAGTTTAACCCTTATGGGTTTCTGTTCAGCTCT
1 TA-TGAGCTTCAGTTTAACCCTTATGGGTTTCTGTTCAGCTCT
* * * *
8377281 TATGAGCTTCCGTTCAACCCTTATGGGTTTCTGTTTAGCACT
1 TATGAGCTTCAGTTTAACCCTTATGGGTTTCTGTTCAGCTCT
*
8377323 TATGTGCTTC
1 TATGAGCTTC
8377333 TGTGCAGCCT
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
40 2 0.02
41 17 0.20
42 62 0.75
43 2 0.02
ACGTcount: A:0.17, C:0.22, G:0.18, T:0.43
Consensus pattern (42 bp):
TATGAGCTTCAGTTTAACCCTTATGGGTTTCTGTTCAGCTCT
Found at i:8377284 original size:21 final size:21
Alignment explanation
Indices: 8377258--8377340 Score: 76
Period size: 21 Copynumber: 4.0 Consensus size: 21
8377248 CAGTTTAACC
* *
8377258 CTTATGGGTTTCTGTTCAGCT
1 CTTATGGGCTTCTGTTCAGCA
* * * *
8377279 CTTATGAGCTTCCGTTCAACC
1 CTTATGGGCTTCTGTTCAGCA
* *
8377300 CTTATGGGTTTCTGTTTAGCA
1 CTTATGGGCTTCTGTTCAGCA
* *
8377321 CTTATGTGCTTCTGTGCAGC
1 CTTATGGGCTTCTGTTCAGC
8377341 CTTCGAGCTT
Statistics
Matches: 47, Mismatches: 15, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 47 1.00
ACGTcount: A:0.13, C:0.23, G:0.22, T:0.42
Consensus pattern (21 bp):
CTTATGGGCTTCTGTTCAGCA
Found at i:8378429 original size:42 final size:42
Alignment explanation
Indices: 8378336--8378435 Score: 112
Period size: 42 Copynumber: 2.4 Consensus size: 42
8378326 ACGGCCTATG
* * *
8378336 ACACTGACGTGTCTCCTGGCCATGTGAGCCACACTACCGGCC
1 ACACTGGCGTGTGTCCTGGCCATGTGAGCCACACTACCGACC
* * * * *
8378378 ACACGGGCGTGTGTCCTGGCCGTGTGAGCCATAC-AGGCGACT
1 ACACTGGCGTGTGTCCTGGCCATGTGAGCCACACTA-CCGACC
8378420 ACACTGGCGTGTGTCC
1 ACACTGGCGTGTGTCC
8378436 CCTGTTCTTA
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
41 1 0.02
42 47 0.98
ACGTcount: A:0.17, C:0.33, G:0.30, T:0.20
Consensus pattern (42 bp):
ACACTGGCGTGTGTCCTGGCCATGTGAGCCACACTACCGACC
Found at i:8380947 original size:16 final size:16
Alignment explanation
Indices: 8380898--8380948 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
8380888 GTTTGAGCTA
*
8380898 TATGTTGTATTATA-T
1 TATGTTGTATAATATT
* *
8380913 AATGTTTTGATAGATATT
1 TATGTTGT-ATA-ATATT
8380931 TATGTTGTATAATATT
1 TATGTTGTATAATATT
8380947 TA
1 TA
8380949 GAAGTGATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
15 6 0.21
16 9 0.32
17 6 0.21
18 7 0.25
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (16 bp):
TATGTTGTATAATATT
Found at i:8390786 original size:25 final size:24
Alignment explanation
Indices: 8390736--8390787 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
8390726 TTGTCTTGAC
** * *
8390736 TATGTATTTGGTTTATGTTTGGGT
1 TATGTATTTGGACTATGTTAGCGT
8390760 TATGTAATTTGGACTATGTTAGCGT
1 TATGT-ATTTGGACTATGTTAGCGT
8390785 TAT
1 TAT
8390788 ATTTGACTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 5 0.22
25 18 0.78
ACGTcount: A:0.19, C:0.04, G:0.25, T:0.52
Consensus pattern (24 bp):
TATGTATTTGGACTATGTTAGCGT
Found at i:8395518 original size:24 final size:24
Alignment explanation
Indices: 8395491--8395573 Score: 69
Period size: 24 Copynumber: 3.4 Consensus size: 24
8395481 GCCATTAACA
* *
8395491 GGAAGCTCATGTGAGCCAATATCT-
1 GGAAGCTCAAGCGAGCCAATAT-TG
* *
8395515 GGAAGGTTAAGCGAGCCAATATTG
1 GGAAGCTCAAGCGAGCCAATATTG
* * *
8395539 GGAAGCTCTAGAGAGCCAATTAATTA
1 GGAAGCTCAAGCGAGCCAA-T-ATTG
8395565 GGAAGCTCA
1 GGAAGCTCA
8395574 TGAAAAAGCC
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
23 1 0.02
24 33 0.72
25 1 0.02
26 11 0.24
ACGTcount: A:0.34, C:0.17, G:0.28, T:0.22
Consensus pattern (24 bp):
GGAAGCTCAAGCGAGCCAATATTG
Found at i:8397999 original size:20 final size:19
Alignment explanation
Indices: 8397976--8398083 Score: 81
Period size: 20 Copynumber: 5.4 Consensus size: 19
8397966 AGCATGGATA
8397976 TGCTATCAAGAGCACCGTAG
1 TGCTATCAAGAGCA-CGTAG
* * *
8397996 TGCTAACAAGAGTACGAAAG
1 TGCTATCAAGAGCACG-TAG
*
8398016 TGCTATCAAGAGCATTGTAG
1 TGCTATCAAGAGCA-CGTAG
* * * *
8398036 TGCTATTAGGAGTACGAAAG
1 TGCTATCAAGAGCACG-TAG
* *
8398056 TACTGTCAAGAGCACCGTAG
1 TGCTATCAAGAGCA-CGTAG
8398076 TGCTATCA
1 TGCTATCA
8398084 GGAATACGAA
Statistics
Matches: 64, Mismatches: 20, Indels: 8
0.70 0.22 0.09
Matches are distributed among these distances:
19 3 0.05
20 58 0.91
21 3 0.05
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (19 bp):
TGCTATCAAGAGCACGTAG
Found at i:8398161 original size:40 final size:40
Alignment explanation
Indices: 8397981--8398166 Score: 239
Period size: 40 Copynumber: 4.7 Consensus size: 40
8397971 GGATATGCTA
* * * *
8397981 TCAAGAGCACCGTAGTGCTAACAAGAGTACGAAAGTGCTA
1 TCAAGAGCACCGTAGTGCTATCAGGAGTACGAAAGTACTG
** *
8398021 TCAAGAGCATTGTAGTGCTATTAGGAGTACGAAAGTACTG
1 TCAAGAGCACCGTAGTGCTATCAGGAGTACGAAAGTACTG
*
8398061 TCAAGAGCACCGTAGTGCTATCAGGAATACGAAAGTACTG
1 TCAAGAGCACCGTAGTGCTATCAGGAGTACGAAAGTACTG
*
8398101 TCAAGAGCACCATTA-TGCTATCAGGAGTACGAAAGTACTG
1 TCAAGAGCACC-GTAGTGCTATCAGGAGTACGAAAGTACTG
* * * *
8398141 TTAGGAGCACCATAGTGCTATTAGGA
1 TCAAGAGCACCGTAGTGCTATCAGGA
8398167 TCACTTATTC
Statistics
Matches: 127, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
39 2 0.02
40 123 0.97
41 2 0.02
ACGTcount: A:0.34, C:0.18, G:0.25, T:0.23
Consensus pattern (40 bp):
TCAAGAGCACCGTAGTGCTATCAGGAGTACGAAAGTACTG
Found at i:8398164 original size:20 final size:20
Alignment explanation
Indices: 8398105--8398166 Score: 54
Period size: 20 Copynumber: 3.1 Consensus size: 20
8398095 GTACTGTCAA
*
8398105 GAGCACCATTA-TGCTATCAG
1 GAGCACCA-TAGTGCTATTAG
* * * * *
8398125 GAGTACGAAAGTACTGTTAG
1 GAGCACCATAGTGCTATTAG
8398145 GAGCACCATAGTGCTATTAG
1 GAGCACCATAGTGCTATTAG
8398165 GA
1 GA
8398167 TCACTTATTC
Statistics
Matches: 30, Mismatches: 11, Indels: 2
0.70 0.26 0.05
Matches are distributed among these distances:
19 1 0.03
20 29 0.97
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (20 bp):
GAGCACCATAGTGCTATTAG
Found at i:8426715 original size:18 final size:18
Alignment explanation
Indices: 8426692--8426734 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
8426682 ACCCAATCTA
**
8426692 AACCCAAGTATTCAACCC
1 AACCCAAGTACCCAACCC
*
8426710 AACCCAATTACCCAACCC
1 AACCCAAGTACCCAACCC
8426728 AACCCAA
1 AACCCAA
8426735 TCATAAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.42, C:0.44, G:0.02, T:0.12
Consensus pattern (18 bp):
AACCCAAGTACCCAACCC
Found at i:8426857 original size:9 final size:9
Alignment explanation
Indices: 8426843--8426909 Score: 98
Period size: 9 Copynumber: 7.4 Consensus size: 9
8426833 GTAGTGATTC
*
8426843 AATTTGGTT
1 AATTCGGTT
*
8426852 AATTTGGTT
1 AATTCGGTT
*
8426861 AATTCGGGT
1 AATTCGGTT
8426870 AATTCGGTT
1 AATTCGGTT
*
8426879 AATTCGGGT
1 AATTCGGTT
8426888 AATTCGGTT
1 AATTCGGTT
8426897 AATTCGGTT
1 AATTCGGTT
8426906 AATT
1 AATT
8426910 TTTAACCAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 53 1.00
ACGTcount: A:0.24, C:0.07, G:0.24, T:0.45
Consensus pattern (9 bp):
AATTCGGTT
Found at i:8427487 original size:5 final size:5
Alignment explanation
Indices: 8427477--8427515 Score: 53
Period size: 5 Copynumber: 8.0 Consensus size: 5
8427467 CCTTGACCCC
* *
8427477 CTTTT CTTTT CTTTT CTTTT CTTTT -TTTC CCTTT CTTTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT
8427516 TCACATTCCT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
4 3 0.10
5 26 0.90
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (5 bp):
CTTTT
Found at i:8427497 original size:15 final size:14
Alignment explanation
Indices: 8427476--8427552 Score: 57
Period size: 14 Copynumber: 5.1 Consensus size: 14
8427466 GCCTTGACCC
8427476 CCTTTTCTTTTCTTT
1 CCTTTTCTTTT-TTT
*
8427491 TCTTTTCTTTTTTT
1 CCTTTTCTTTTTTT
*
8427505 CCCTTTCTTTTTCACATT
1 CCTTTTCTTTTT----TT
*
8427523 CCTTTT-TTTTGTT
1 CCTTTTCTTTTTTT
8427536 CTCTTTCTCTTTTTTT
1 C-CTTT-TCTTTTTTT
8427552 C
1 C
8427553 TTTCTCCCTT
Statistics
Matches: 49, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
13 3 0.06
14 17 0.35
15 11 0.22
16 7 0.14
17 4 0.08
18 7 0.14
ACGTcount: A:0.03, C:0.25, G:0.01, T:0.71
Consensus pattern (14 bp):
CCTTTTCTTTTTTT
Found at i:8436153 original size:59 final size:59
Alignment explanation
Indices: 8436086--8436203 Score: 218
Period size: 59 Copynumber: 2.0 Consensus size: 59
8436076 ATCAAACTCC
*
8436086 TTACCTCTCAACCAAACAAATGTAGGTTTCAACTTAAAATTTTCAATATTAAGTAATAA
1 TTACCTCTCAACCAAACAAATGTAGGTTTCAACTTAAAATTTTCAAAATTAAGTAATAA
*
8436145 TTACCTCTCAACCAAACGAATGTAGGTTTCAACTTAAAATTTTCAAAATTAAGTAATAA
1 TTACCTCTCAACCAAACAAATGTAGGTTTCAACTTAAAATTTTCAAAATTAAGTAATAA
8436204 GTAACTAACT
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 57 1.00
ACGTcount: A:0.42, C:0.17, G:0.08, T:0.33
Consensus pattern (59 bp):
TTACCTCTCAACCAAACAAATGTAGGTTTCAACTTAAAATTTTCAAAATTAAGTAATAA
Found at i:8449643 original size:25 final size:25
Alignment explanation
Indices: 8449609--8449662 Score: 108
Period size: 25 Copynumber: 2.2 Consensus size: 25
8449599 TCGGGATTAC
8449609 CATTATCACCGAAGAAGAAAGATGT
1 CATTATCACCGAAGAAGAAAGATGT
8449634 CATTATCACCGAAGAAGAAAGATGT
1 CATTATCACCGAAGAAGAAAGATGT
8449659 CATT
1 CATT
8449663 TGGGTGATCG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.43, C:0.17, G:0.19, T:0.22
Consensus pattern (25 bp):
CATTATCACCGAAGAAGAAAGATGT
Found at i:8462496 original size:26 final size:26
Alignment explanation
Indices: 8462442--8462514 Score: 96
Period size: 26 Copynumber: 2.9 Consensus size: 26
8462432 AAAAATAAAA
* **
8462442 ATTTACCAAAATAT-T-ATAACTTTT
1 ATTTACCAAAATATATAAAAAAATTT
*
8462466 TTTTACCAAAATATATAAAAAAATTT
1 ATTTACCAAAATATATAAAAAAATTT
8462492 ATTTACCAAAATATATAAAAAAA
1 ATTTACCAAAATATATAAAAAAA
8462515 CCAAAAAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
24 13 0.31
25 1 0.02
26 28 0.67
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (26 bp):
ATTTACCAAAATATATAAAAAAATTT
Found at i:8462496 original size:50 final size:51
Alignment explanation
Indices: 8462411--8462509 Score: 132
Period size: 50 Copynumber: 1.9 Consensus size: 51
8462401 TAATATGAGG
8462411 TTTTTTACAATAATATTATAAAAAAATAAAAATTTACCAAAATATTATAACTT
1 TTTTTTACAATAATATTATAAAAAAAT-AAAATTTACCAAAATA-TATAACTT
**
8462464 TTTTTTACCAA-AATA-TATAAAAAAAT-TTATTTACCAAAATATATAA
1 TTTTTTA-CAATAATATTATAAAAAAATAAAATTTACCAAAATATATAA
8462510 AAAAACCAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
49 5 0.12
50 13 0.30
52 11 0.26
53 11 0.26
54 3 0.07
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (51 bp):
TTTTTTACAATAATATTATAAAAAAATAAAATTTACCAAAATATATAACTT
Found at i:8462711 original size:11 final size:11
Alignment explanation
Indices: 8462695--8462731 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
8462685 GTTGGCGCGG
8462695 AAAAGAAGAGA
1 AAAAGAAGAGA
8462706 AAAAG-AGAGA
1 AAAAGAAGAGA
*
8462716 AAAAGAGGAGA
1 AAAAGAAGAGA
8462727 AAAAG
1 AAAAG
8462732 GAGGTATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 10 0.42
11 14 0.58
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (11 bp):
AAAAGAAGAGA
Found at i:8462796 original size:19 final size:21
Alignment explanation
Indices: 8462758--8462796 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
8462748 AATAATTGAT
*
8462758 TATATTGTTGTTATTATTTTG
1 TATATTGTTGTTAATATTTTG
8462779 TATATT-TTG-TAATATTTT
1 TATATTGTTGTTAATATTTT
8462797 TTTTTGTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 8 0.47
20 3 0.18
21 6 0.35
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (21 bp):
TATATTGTTGTTAATATTTTG
Done.