Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 301 of 320
Found at i:95755076 original size:4 final size:4
Alignment explanation
Indices: 95755067--95755092 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
95755057 CATCTTAATA
95755067 AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AA
95755093 TACCGTAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:95759004 original size:51 final size:51
Alignment explanation
Indices: 95758923--95759031 Score: 209
Period size: 51 Copynumber: 2.1 Consensus size: 51
95758913 CATGCTTAGC
95758923 TCTAGTGCTTACTTTTCATATTTATCTCTTCATATCACTTACAAAGGGATAG
1 TCTA-TGCTTACTTTTCATATTTATCTCTTCATATCACTTACAAAGGGATAG
95758975 TCTATGCTTACTTTTCATATTTATCTCTTCATATCACTTACAAAGGGATAG
1 TCTATGCTTACTTTTCATATTTATCTCTTCATATCACTTACAAAGGGATAG
95759026 TCTATG
1 TCTATG
95759032 TCTTTTTATA
Statistics
Matches: 57, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
51 53 0.93
52 4 0.07
ACGTcount: A:0.27, C:0.19, G:0.11, T:0.43
Consensus pattern (51 bp):
TCTATGCTTACTTTTCATATTTATCTCTTCATATCACTTACAAAGGGATAG
Found at i:95761548 original size:30 final size:30
Alignment explanation
Indices: 95761513--95761569 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
95761503 ATCAGTTCCC
*
95761513 CCTCCCCACCTCATCAT-GCATATCATCCAA
1 CCTCCCCACCTCACCATAGC-TATCATCCAA
*
95761543 CCTCCCCCCCTCACCATAGCTATCATC
1 CCTCCCCACCTCACCATAGCTATCATC
95761570 AGCCCACCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 22 0.92
31 2 0.08
ACGTcount: A:0.23, C:0.51, G:0.04, T:0.23
Consensus pattern (30 bp):
CCTCCCCACCTCACCATAGCTATCATCCAA
Found at i:95773503 original size:115 final size:115
Alignment explanation
Indices: 95773374--95773614 Score: 464
Period size: 115 Copynumber: 2.1 Consensus size: 115
95773364 GTTTAAAACT
95773374 AATTATTAATAATACATAAAATTTGTATACTATTAAAATGAAAATATTGAATATTAACAATTTTA
1 AATTATTAATAATACATAAAATTTGTATACTATTAAAATGAAAATATTGAATATTAACAATTTTA
*
95773439 ACATTAAGATAAATTAATTTACCAATATATAAAATAAATATCATGTAAGA
66 ACATTAAGATAAATAAATTTACCAATATATAAAATAAATATCATGTAAGA
95773489 AATTATTAATAATACATAAAATTTGTATACTATTAAAATGAAAATATTGAATATTAACAATTTTA
1 AATTATTAATAATACATAAAATTTGTATACTATTAAAATGAAAATATTGAATATTAACAATTTTA
95773554 ACATTAAGATAAATAAATTTACCAATATATAAAATAAATATCATGTAAGA
66 ACATTAAGATAAATAAATTTACCAATATATAAAATAAATATCATGTAAGA
*
95773604 AATTAATAATA
1 AATTATTAATA
95773615 TTAATATTAT
Statistics
Matches: 124, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
115 124 1.00
ACGTcount: A:0.53, C:0.06, G:0.05, T:0.36
Consensus pattern (115 bp):
AATTATTAATAATACATAAAATTTGTATACTATTAAAATGAAAATATTGAATATTAACAATTTTA
ACATTAAGATAAATAAATTTACCAATATATAAAATAAATATCATGTAAGA
Found at i:95773987 original size:27 final size:27
Alignment explanation
Indices: 95773921--95773987 Score: 66
Period size: 27 Copynumber: 2.5 Consensus size: 27
95773911 AAATTAATTT
*
95773921 AATTATT-TTAAAATTATAAATATATA
1 AATTATTATTATAATTATAAATATATA
** *
95773947 AATTATTAAAATAATTTTAAAT-TATA
1 AATTATTATTATAATTATAAATATATA
*
95773973 ATTTTATTATTATAA
1 A-ATTATTATTATAA
95773988 AAATATACGA
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
26 12 0.38
27 20 0.62
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (27 bp):
AATTATTATTATAATTATAAATATATA
Found at i:95775997 original size:19 final size:20
Alignment explanation
Indices: 95775973--95776020 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
95775963 GACGCGATCC
95775973 TTTTTTATATTAAAAT-ATT
1 TTTTTTATATTAAAATAATT
*
95775992 TTTTTTAGA-TAAAATAATT
1 TTTTTTATATTAAAATAATT
95776011 TTTTTT-TATT
1 TTTTTTATATT
95776021 TTCAGATCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 7 0.28
19 18 0.72
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (20 bp):
TTTTTTATATTAAAATAATT
Found at i:95777733 original size:19 final size:18
Alignment explanation
Indices: 95777693--95777730 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
95777683 TTAATAAAAA
*
95777693 TTAAAAATAATATTTTAT
1 TTAAAAATAATATTATAT
95777711 TTAAAAAT-ATATATATAT
1 TTAAAAATAATAT-TATAT
95777729 TT
1 TT
95777731 TAATATAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TTAAAAATAATATTATAT
Found at i:95777739 original size:24 final size:24
Alignment explanation
Indices: 95777675--95777741 Score: 68
Period size: 24 Copynumber: 2.9 Consensus size: 24
95777665 ATATAAATTT
*
95777675 AAATAT-TTTTAATA-AAAATTAA
1 AAATATATTTTAATATAAAAATAA
* *
95777697 AAATAATATTTT-ATTTAAAAATAT
1 AAAT-ATATTTTAATATAAAAATAA
*
95777721 ATATATATTTTAATATAAAAA
1 AAATATATTTTAATATAAAAA
95777742 AAGAGTCGCG
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
22 4 0.11
23 11 0.31
24 21 0.58
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
AAATATATTTTAATATAAAAATAA
Found at i:95792569 original size:19 final size:18
Alignment explanation
Indices: 95792527--95792570 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
95792517 TTTTTGTTTG
*
95792527 GATTGTTTTAAATATTCTT
1 GATTG-TTTAAATATTATT
*
95792546 TATTGTTTAAATATATATT
1 GATTGTTTAAATAT-TATT
95792565 GATTGT
1 GATTGT
95792571 CAATTTAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 9 0.43
19 12 0.57
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.57
Consensus pattern (18 bp):
GATTGTTTAAATATTATT
Found at i:95794151 original size:18 final size:18
Alignment explanation
Indices: 95794113--95794149 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
95794103 AATTCTACTT
*
95794113 AATTCTAACATATAAATA
1 AATTCAAACATATAAATA
95794131 AATTCAAACATA-AAATA
1 AATTCAAACATATAAATA
95794148 AA
1 AA
95794150 ATAGGGTGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.62, C:0.11, G:0.00, T:0.27
Consensus pattern (18 bp):
AATTCAAACATATAAATA
Found at i:95797839 original size:28 final size:29
Alignment explanation
Indices: 95797774--95797840 Score: 84
Period size: 28 Copynumber: 2.3 Consensus size: 29
95797764 AGATCTAATT
*
95797774 TTTTAAATTTGAAAAATAAAAAGACTAAA
1 TTTTAAATATGAAAAATAAAAAGACTAAA
* *
95797803 TTTCT-AATAT-AAAACTATAAAGACTAAA
1 TTT-TAAATATGAAAAATAAAAAGACTAAA
95797831 TTTTAAATAT
1 TTTTAAATAT
95797841 TCAAATACAT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
27 1 0.03
28 24 0.73
29 7 0.21
30 1 0.03
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.36
Consensus pattern (29 bp):
TTTTAAATATGAAAAATAAAAAGACTAAA
Found at i:95799079 original size:29 final size:30
Alignment explanation
Indices: 95799033--95799091 Score: 102
Period size: 29 Copynumber: 2.0 Consensus size: 30
95799023 GAATTGGACC
95799033 AAATCAAAATTTCATGTATAAAATTACACA
1 AAATCAAAATTTCATGTATAAAATTACACA
*
95799063 AAATCAAAATTT-ATGTATACAATTACACA
1 AAATCAAAATTTCATGTATAAAATTACACA
95799092 TTAAATCATA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 16 0.57
30 12 0.43
ACGTcount: A:0.53, C:0.14, G:0.03, T:0.31
Consensus pattern (30 bp):
AAATCAAAATTTCATGTATAAAATTACACA
Found at i:95800327 original size:21 final size:21
Alignment explanation
Indices: 95800301--95800342 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
95800291 AGCACCGACG
95800301 GCTCCAGCGAAAAGAAGGCTT
1 GCTCCAGCGAAAAGAAGGCTT
95800322 GCTCCAGCGAAAAGAAGGCTT
1 GCTCCAGCGAAAAGAAGGCTT
95800343 TGTACGACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.24, G:0.29, T:0.14
Consensus pattern (21 bp):
GCTCCAGCGAAAAGAAGGCTT
Found at i:95800990 original size:42 final size:42
Alignment explanation
Indices: 95800943--95801025 Score: 105
Period size: 42 Copynumber: 2.0 Consensus size: 42
95800933 GTGCTTGATA
* *
95800943 ATGTAAAGGAGGAAGATGAGTACTATGAAAAG-TCAATATCTG
1 ATGTAAAGAAGGAAGACGAGTACTATGAAAAGCT-AATATCTG
* * *
95800985 ATGTAAAGAAGGAAGGCGAGTACTGTGATAAGCTAATATCT
1 ATGTAAAGAAGGAAGACGAGTACTATGAAAAGCTAATATCT
95801026 TGCCTAAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 34 0.97
43 1 0.03
ACGTcount: A:0.41, C:0.08, G:0.27, T:0.24
Consensus pattern (42 bp):
ATGTAAAGAAGGAAGACGAGTACTATGAAAAGCTAATATCTG
Found at i:95804054 original size:108 final size:108
Alignment explanation
Indices: 95803797--95804055 Score: 389
Period size: 108 Copynumber: 2.4 Consensus size: 108
95803787 ATAACTAATA
* * *
95803797 TTGTTAATTACTCTGTTAAAGTTTTTGACGTGCTTTTTT-AA-AATGATATGTTAAGTTAGAATA
1 TTGTTAATTACTCTGATAAAATTTTTGACGTGTTTTTTTAAACAATGATATGTTAAGTTAGAATA
95803860 AATTTTAAATAATAAAATTTCTAATAAAATTGTATTAAAATTT
66 AATTTTAAATAATAAAATTTCTAATAAAATTGTATTAAAATTT
* * **** *
95803903 TTGTTAATTACTTTGATAAAATTTTTGA-TTAGTTTAACAAAACAATGATATGTTAAGTTGGAAT
1 TTGTTAATTACTCTGATAAAATTTTTGACGT-GTTTTTTTAAACAATGATATGTTAAGTTAGAAT
*
95803967 AAGTTTTAAATAATAAAATTTCTAATAAAATTGTATTAAAATTT
65 AAATTTTAAATAATAAAATTTCTAATAAAATTGTATTAAAATTT
95804011 TTGTTAATTACTCTGATAAAATTTTTGACGTGTTTTTTTAAACAA
1 TTGTTAATTACTCTGATAAAATTTTTGACGTGTTTTTTTAAACAA
95804056 AATATTAGTT
Statistics
Matches: 132, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
105 1 0.01
106 28 0.21
107 2 0.02
108 100 0.76
109 1 0.01
ACGTcount: A:0.39, C:0.05, G:0.10, T:0.46
Consensus pattern (108 bp):
TTGTTAATTACTCTGATAAAATTTTTGACGTGTTTTTTTAAACAATGATATGTTAAGTTAGAATA
AATTTTAAATAATAAAATTTCTAATAAAATTGTATTAAAATTT
Found at i:95806500 original size:3 final size:3
Alignment explanation
Indices: 95806494--95806532 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
95806484 CTTCATTTTC
95806494 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
95806533 TTTGAACATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:95807202 original size:25 final size:27
Alignment explanation
Indices: 95807157--95807229 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 27
95807147 TTTAAAATTT
* * *
95807157 ATATATTGTTTATTCTGAACC-GTTTC
1 ATATATTATTTATTTTAAACCTGTTTC
* *
95807183 ATATATTA-TTATTTTAAACCTTTTTTT
1 ATATATTATTTATTTTAAACC-TGTTTC
95807210 ATATATTATTTATTTTAAAC
1 ATATATTATTTATTTTAAAC
95807230 TTTTTATTTT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
25 10 0.26
26 7 0.18
27 11 0.28
28 11 0.28
ACGTcount: A:0.30, C:0.10, G:0.04, T:0.56
Consensus pattern (27 bp):
ATATATTATTTATTTTAAACCTGTTTC
Found at i:95807232 original size:27 final size:27
Alignment explanation
Indices: 95807183--95807234 Score: 88
Period size: 27 Copynumber: 1.9 Consensus size: 27
95807173 GAACCGTTTC
95807183 ATATATTATTATTTTAAACCTTTTTTT
1 ATATATTATTATTTTAAACCTTTTTTT
95807210 ATATATTATTTATTTTAAA-CTTTTT
1 ATATATTA-TTATTTTAAACCTTTTT
95807235 ATTTTGTACT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
27 14 0.58
28 10 0.42
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (27 bp):
ATATATTATTATTTTAAACCTTTTTTT
Found at i:95807233 original size:25 final size:25
Alignment explanation
Indices: 95807142--95807236 Score: 79
Period size: 25 Copynumber: 3.8 Consensus size: 25
95807132 TGATTTATAC
* *
95807142 TTTATTTTAAA--ATTTATATATTG
1 TTTATTTTAAACTTTTTATATATTA
* * * *
95807165 TTTATTCTGAACCGTTTCATATATTA
1 TTTATT-TTAAACTTTTTATATATTA
95807191 -TTATTTTAAACCTTTTTTTATATATTA
1 TTTATTTTAAA-C--TTTTTATATATTA
95807218 TTTATTTTAAACTTTTTAT
1 TTTATTTTAAACTTTTTAT
95807237 TTTGTACTTT
Statistics
Matches: 56, Mismatches: 9, Indels: 12
0.73 0.12 0.16
Matches are distributed among these distances:
23 6 0.11
24 6 0.11
25 13 0.23
26 9 0.16
27 12 0.21
28 10 0.18
ACGTcount: A:0.29, C:0.07, G:0.03, T:0.60
Consensus pattern (25 bp):
TTTATTTTAAACTTTTTATATATTA
Found at i:95807929 original size:127 final size:127
Alignment explanation
Indices: 95807774--95808146 Score: 417
Period size: 127 Copynumber: 2.9 Consensus size: 127
95807764 GTTGACTTTA
* *
95807774 TAAAACGAAAGTGATGTTTGATGTTTAGAAATTCGAGGGATTGTGCCCTAATGTGTTGGGTTTCG
1 TAAAACGAAAGCGATGTTTGATGTTTAGAAATTCGAGGGATCGTGCCCTAATGTGTTGGGTTTCG
* * * ** *
95807839 GTCTTTCGTTTGTCTAAATAGTCAAAATTTCCTTTAAAATTTTGTCCGCGTTTTCTAAACCT
66 ATCTTTTGTTTGTCTAAATAATCAAAATTTCCTTTAAAATTTCATCCGCATTTTCTAAACCT
* * *
95807901 TAAAACGAAGGCGATATTTGATGTTTAGAAATTCGAGGGATCGTGCCCTAATGTGTTGGGCTTCG
1 TAAAACGAAAGCGATGTTTGATGTTTAGAAATTCGAGGGATCGTGCCCTAATGTGTTGGGTTTCG
* * * * * * * * *
95807966 ATCTTTTATTTGTCTAAACAATCAGATTTTCATTTTAAATTTCATTCGCATTTTCTAAGCTT
66 ATCTTTTGTTTGTCTAAATAATCAAAATTTCCTTTAAAATTTCATCCGCATTTTCTAAACCT
* * * * * * *
95808028 TAAAACAAAAGCGACGGTTGATGTTTGGGAATTCG-GGAAATCGTGCCCTAATGTGCTGGGTTTC
1 TAAAACGAAAGCGATGTTTGATGTTTAGAAATTCGAGG-GATCGTGCCCTAATGTGTTGGGTTTC
* * * ** *
95808092 GATTTTTTGTTTATCTAAATAATCAAACA-TCCCTTTAAAATCCCATCTGCATTTT
65 GATCTTTTGTTTGTCTAAATAATCAAA-ATTTCCTTTAAAATTTCATCCGCATTTT
95808147 TCTTCATAAA
Statistics
Matches: 201, Mismatches: 43, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
126 2 0.01
127 199 0.99
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.39
Consensus pattern (127 bp):
TAAAACGAAAGCGATGTTTGATGTTTAGAAATTCGAGGGATCGTGCCCTAATGTGTTGGGTTTCG
ATCTTTTGTTTGTCTAAATAATCAAAATTTCCTTTAAAATTTCATCCGCATTTTCTAAACCT
Found at i:95809347 original size:49 final size:46
Alignment explanation
Indices: 95809199--95809486 Score: 199
Period size: 42 Copynumber: 6.6 Consensus size: 46
95809189 TCGTTTTCTC
**
95809199 GATGCCATAGTTCAGCTATGGTCTTACAC-AT--C-T-TCACATAAT
1 GATGCCATAGCCCAGCTATGGTCTTACACGATCACATATCACAT-AT
* *
95809241 GATGCCATAGCCCAACTATGGTCTTACAC-AT---AT-TCATATAT
1 GATGCCATAGCCCAGCTATGGTCTTACACGATCACATATCACATAT
* *
95809282 CGATGCTATAGACCAGCTATGGTCTTACACGTAATCACATATCACATAT
1 -GATGCCATAGCCCAGCTATGGTCTTACACG--ATCACATATCACATAT
95809331 CGATGCCATAGCCCAGCTATGGTCTTACACG-----A-ATCAC--AT
1 -GATGCCATAGCCCAGCTATGGTCTTACACGATCACATATCACATAT
*
95809370 -A-GCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCACTA-
1 GATGCCATAGCCCAGCTATGGTCTTACACG-ATCACATATCACA-TAT
* * * * * *
95809415 -ATGCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACA-CT
1 GATGCCATAGCCCAGCTATGGTCTTACAC-G-ATCACATATCACATAT
* *
95809461 GATGCCATATCCCAGATATGGTCTTA
1 GATGCCATAGCCCAGCTATGGTCTTA
95809487 TACGGAAATC
Statistics
Matches: 204, Mismatches: 19, Indels: 41
0.77 0.07 0.16
Matches are distributed among these distances:
36 27 0.13
37 1 0.00
39 2 0.01
41 7 0.03
42 62 0.30
43 4 0.02
45 3 0.01
46 24 0.12
47 36 0.18
48 2 0.01
49 36 0.18
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.29
Consensus pattern (46 bp):
GATGCCATAGCCCAGCTATGGTCTTACACGATCACATATCACATAT
Found at i:95809351 original size:91 final size:83
Alignment explanation
Indices: 95809232--95809439 Score: 233
Period size: 91 Copynumber: 2.4 Consensus size: 83
95809222 TTACACATCT
* * *
95809232 TCACATAATGATGCCATAGCCCAACTATGGTCTTACAC-ATATTCATATATCGATGCTATAGACC
1 TCACAT-ATGATGCCATAGCCCAGCTATGGTCTTACACGA-A-TC--ACAT--A-GCCATAGACC
95809296 AGCTATGGTCTTACACGTAATCACATA
58 AGCTATGGTCTTACACG-AATCACATA
*
95809323 TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATAGCCATAGCCCAGCTATG
1 TCACATAT-GATGCCATAGCCCAGCTATGGTCTTACACGAATCACATAGCCATAGACCAGCTATG
95809388 GTCTTACACGAATCACATA
65 GTCTTACACGAATCACATA
* * *
95809407 TCTCACTA--ATGCCATATCCCAGATATGGTCTTA
1 TCACA-TATGATGCCATAGCCCAGCTATGGTCTTA
95809440 TACAGTAGCA
Statistics
Matches: 107, Mismatches: 7, Indels: 15
0.83 0.05 0.12
Matches are distributed among these distances:
82 23 0.21
84 13 0.12
85 27 0.25
86 1 0.01
88 3 0.03
90 4 0.04
91 35 0.33
92 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.28
Consensus pattern (83 bp):
TCACATATGATGCCATAGCCCAGCTATGGTCTTACACGAATCACATAGCCATAGACCAGCTATGG
TCTTACACGAATCACATA
Found at i:95809382 original size:36 final size:36
Alignment explanation
Indices: 95809335--95809406 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
95809325 ACATATCGAT
95809335 GCCATAGCCCAGCTATGGTCTTACACGAATCACATA
1 GCCATAGCCCAGCTATGGTCTTACACGAATCACATA
95809371 GCCATAGCCCAGCTATGGTCTTACACGAATCACATA
1 GCCATAGCCCAGCTATGGTCTTACACGAATCACATA
95809407 TCTCACTAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.22
Consensus pattern (36 bp):
GCCATAGCCCAGCTATGGTCTTACACGAATCACATA
Found at i:95809471 original size:47 final size:46
Alignment explanation
Indices: 95809371--95809490 Score: 159
Period size: 47 Copynumber: 2.6 Consensus size: 46
95809361 GAATCACATA
* * * * *
95809371 GCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCACTAAT
1 GCCATATCCCAGATATGGTCTTATACGAAGCACATATCACACTAAT
* * *
95809417 GCCATATCCCAGATATGGTCTTATACAGTAGCATATATCACACTGAT
1 GCCATATCCCAGATATGGTCTTATAC-GAAGCACATATCACACTAAT
95809464 GCCATATCCCAGATATGGTCTTATACG
1 GCCATATCCCAGATATGGTCTTATACG
95809491 GAAATCACTT
Statistics
Matches: 65, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
46 24 0.37
47 41 0.63
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (46 bp):
GCCATATCCCAGATATGGTCTTATACGAAGCACATATCACACTAAT
Found at i:95809588 original size:31 final size:31
Alignment explanation
Indices: 95809508--95809588 Score: 126
Period size: 31 Copynumber: 2.6 Consensus size: 31
95809498 CTTGTCACTT
* * *
95809508 GTAGCAGAGGCTACCACTATTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
95809539 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
95809570 GTAGCCGAAGCTACCACTT
1 GTAGCCGAAGCTACCACTT
95809589 CACTTGTTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.23
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:95809664 original size:50 final size:50
Alignment explanation
Indices: 95809570--95809694 Score: 182
Period size: 50 Copynumber: 2.5 Consensus size: 50
95809560 CACTGATCAG
* * *
95809570 GTAGCCGAAGCTACCAC-T-TCACTTGTTATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTT-TCACTTGTCCTTGATCAGATAAGT
* *
95809619 GTAGCCGAAGGTATCACTTATCACTTTCACTTGTCTTTGATCAGATAAGT
1 GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
95809669 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTATCACTTATCACTT
95809695 GTTGCCATGG
Statistics
Matches: 68, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
49 15 0.22
50 47 0.69
51 6 0.09
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (50 bp):
GTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATCAGATAAGT
Found at i:95815400 original size:13 final size:13
Alignment explanation
Indices: 95815382--95815408 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
95815372 GATGAAATAA
95815382 TATTAAATTGTAC
1 TATTAAATTGTAC
95815395 TATTAAATTGTAC
1 TATTAAATTGTAC
95815408 T
1 T
95815409 CATACAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.48
Consensus pattern (13 bp):
TATTAAATTGTAC
Found at i:95816697 original size:17 final size:18
Alignment explanation
Indices: 95816667--95816712 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
95816657 ATTTAAATTG
95816667 CGGTCGCGGTCGCGTTTT
1 CGGTCGCGGTCGCGTTTT
95816685 CGGTCGC-GTCGCG-TTT
1 CGGTCGCGGTCGCGTTTT
95816701 --GTCGCGGTCGCG
1 CGGTCGCGGTCGCG
95816713 GACATAACGG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
16 3 0.11
17 6 0.22
18 7 0.26
ACGTcount: A:0.00, C:0.30, G:0.41, T:0.28
Consensus pattern (18 bp):
CGGTCGCGGTCGCGTTTT
Found at i:95818525 original size:14 final size:14
Alignment explanation
Indices: 95818487--95818529 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
95818477 TAAAATGTAC
95818487 AATATAATTAAA-T
1 AATATAATTAAATT
95818500 AATATAAATTAAATT
1 AATAT-AATTAAATT
*
95818515 AA-ATAATTTAATT
1 AATATAATTAAATT
95818528 AA
1 AA
95818530 CTGTTTACCC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 15 0.56
14 9 0.33
15 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATATAATTAAATT
Found at i:95821012 original size:3 final size:3
Alignment explanation
Indices: 95821006--95821108 Score: 71
Period size: 3 Copynumber: 34.0 Consensus size: 3
95820996 TAAAAAAATT
* **
95821006 TAA TAA TAA TAA TAC TGG TAA TAAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA
* * * * * * * ** *
95821052 TAA TAA TCA TGA TGA TGA TGA TGA TGA TGG TAT TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
95821100 CAA TAA TAA
1 TAA TAA TAA
95821109 AAATCTTAAA
Statistics
Matches: 86, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
3 83 0.97
4 3 0.03
ACGTcount: A:0.54, C:0.03, G:0.10, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:95823182 original size:21 final size:22
Alignment explanation
Indices: 95823141--95823182 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
95823131 TGTGAAAAAC
*
95823141 TAAATAAAACAAAAAATTAAAT
1 TAAATAAAACAAAAAACTAAAT
*
95823163 TAAA-AAAACAAATAACTAAA
1 TAAATAAAACAAAAAACTAAA
95823183 CATATGATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.74, C:0.07, G:0.00, T:0.19
Consensus pattern (22 bp):
TAAATAAAACAAAAAACTAAAT
Found at i:95829118 original size:12 final size:12
Alignment explanation
Indices: 95829103--95829144 Score: 75
Period size: 12 Copynumber: 3.5 Consensus size: 12
95829093 TTGTGTTCGT
95829103 GTTTGTCCTCGG
1 GTTTGTCCTCGG
*
95829115 GTTTTTCCTCGG
1 GTTTGTCCTCGG
95829127 GTTTGTCCTCGG
1 GTTTGTCCTCGG
95829139 GTTTGT
1 GTTTGT
95829145 GCTTGTACTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.00, C:0.21, G:0.31, T:0.48
Consensus pattern (12 bp):
GTTTGTCCTCGG
Found at i:95831656 original size:63 final size:61
Alignment explanation
Indices: 95831514--95831656 Score: 160
Period size: 63 Copynumber: 2.3 Consensus size: 61
95831504 GACTTGGTCT
* * ** * **
95831514 CCCCAAAATTTTAAGAAATTTTGATTTCTCCCTTGAATTTTTTAGAAACTTTTAATTAGAC
1 CCCCAAAATTTTAAAAAAATTACATTTCTCCCTTGAAGTTTTTAGAAAAATTTAATTAGAC
* * *
95831575 TCCCAAAATTTTCAAAAAAAATTACATTTCTCTCTTGAAGTTTTTAGAAAAATTTAATTAGTC
1 CCCCAAAATTTT--AAAAAAATTACATTTCTCCCTTGAAGTTTTTAGAAAAATTTAATTAGAC
95831638 CCCTTCAAAATTTTAAAAA
1 CCC--CAAAATTTTAAAAA
95831657 TTCTCATTAT
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
61 11 0.16
63 47 0.70
65 9 0.13
ACGTcount: A:0.38, C:0.16, G:0.06, T:0.40
Consensus pattern (61 bp):
CCCCAAAATTTTAAAAAAATTACATTTCTCCCTTGAAGTTTTTAGAAAAATTTAATTAGAC
Found at i:95832915 original size:29 final size:30
Alignment explanation
Indices: 95832872--95832930 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
95832862 GAATTGAATC
* *
95832872 AAATCAAAATTTCATGTATAAAATTGCACA
1 AAATCAAAAGTTCATGTATAAAATTACACA
*
95832902 AAATC-AAAGTTCATGTATACAATTACACA
1 AAATCAAAAGTTCATGTATAAAATTACACA
95832931 TTAAAATATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 21 0.81
30 5 0.19
ACGTcount: A:0.49, C:0.15, G:0.07, T:0.29
Consensus pattern (30 bp):
AAATCAAAAGTTCATGTATAAAATTACACA
Found at i:95833726 original size:9 final size:9
Alignment explanation
Indices: 95833714--95833752 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
95833704 AAAAATCAGA
95833714 AAAAATATT
1 AAAAATATT
95833723 -AAAATATT
1 AAAAATATT
**
95833731 AAAAATGCT
1 AAAAATATT
95833740 AAAAATATT
1 AAAAATATT
95833749 AAAA
1 AAAA
95833753 TTGATATAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
8 8 0.32
9 17 0.68
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.28
Consensus pattern (9 bp):
AAAAATATT
Found at i:95833768 original size:20 final size:19
Alignment explanation
Indices: 95833745--95833783 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
95833735 ATGCTAAAAA
*
95833745 TATTAAAATTGATATAAACT
1 TATTAAAATT-ATAAAAACT
95833765 TATTAAAATTATAAAAACT
1 TATTAAAATTATAAAAACT
95833784 AATAAGTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (19 bp):
TATTAAAATTATAAAAACT
Found at i:95833832 original size:17 final size:19
Alignment explanation
Indices: 95833801--95833835 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
95833791 ATTATAAAAA
95833801 TAAAAAATCTAATAAATTG
1 TAAAAAATCTAATAAATTG
95833820 TAAAAAAT-T-ATAAATT
1 TAAAAAATCTAATAAATT
95833836 AATAAAACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 1 0.06
19 8 0.50
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (19 bp):
TAAAAAATCTAATAAATTG
Found at i:95833916 original size:27 final size:27
Alignment explanation
Indices: 95833739--95833916 Score: 77
Period size: 27 Copynumber: 6.5 Consensus size: 27
95833729 TTAAAAATGC
*
95833739 TAAAAATATTAAAATTGATATAAACTTA
1 TAAAAAT-TAAAAATTGATATAAACTTA
* *
95833767 TTAAAATTATAAAAACT-A-ATAAGTA-TTA
1 -TAAAAAT-TAAAAATTGATATAA--ACTTA
* *
95833795 TAAAAATAAAAAATCT-A-ATAAA-TTG
1 TAAAAATTAAAAAT-TGATATAAACTTA
* *
95833820 TAAAAAATTATAAATTAATA-AAACTTA
1 T-AAAAATTAAAAATTGATATAAACTTA
* ** *
95833847 TTTAAAATTAAAGAA-TG-TATTGGACTTCT
1 -TAAAAATTAAA-AATTGATA-TAAACTT-A
*
95833876 TAAAAATAATAAAATTGATATAAACTTA
1 TAAAAATTA-AAAATTGATATAAACTTA
95833904 TAAAAATTAAAAA
1 TAAAAATTAAAAA
95833917 AAAATCATAA
Statistics
Matches: 112, Mismatches: 22, Indels: 32
0.67 0.13 0.19
Matches are distributed among these distances:
25 5 0.04
26 22 0.20
27 32 0.29
28 28 0.25
29 23 0.21
30 2 0.02
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.34
Consensus pattern (27 bp):
TAAAAATTAAAAATTGATATAAACTTA
Found at i:95834562 original size:19 final size:19
Alignment explanation
Indices: 95834534--95834594 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 19
95834524 TTTATATCAA
*
95834534 TTTTAGTATTTGTAATATT
1 TTTTAATATTTGTAATATT
* *
95834553 TTTTAATATTTG-ATTTTT
1 TTTTAATATTTGTAATATT
* *
95834571 TTTATAAT-TTTTTAATCTT
1 TTT-TAATATTTGTAATATT
95834590 TTTTA
1 TTTTA
95834595 GGGAAAAATA
Statistics
Matches: 34, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
18 12 0.35
19 22 0.65
ACGTcount: A:0.25, C:0.02, G:0.05, T:0.69
Consensus pattern (19 bp):
TTTTAATATTTGTAATATT
Found at i:95836012 original size:18 final size:20
Alignment explanation
Indices: 95835977--95836013 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
95835967 GAAAAAGAAT
*
95835977 TATACTTTTTAATTGATTTA
1 TATACTTTTTAATAGATTTA
95835997 TATA-TTTTTAA-AGATTT
1 TATACTTTTTAATAGATTT
95836014 TTTTTTATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 5 0.31
19 7 0.44
20 4 0.25
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.59
Consensus pattern (20 bp):
TATACTTTTTAATAGATTTA
Found at i:95838130 original size:15 final size:17
Alignment explanation
Indices: 95838112--95838148 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
95838102 AGTTGAATTG
*
95838112 ATTTTGACAAA-A-AAA
1 ATTTTGAAAAATAGAAA
95838127 ATTTTGAAAAATAGAAA
1 ATTTTGAAAAATAGAAA
95838144 ATTTT
1 ATTTT
95838149 CAATTCAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 10 0.53
16 1 0.05
17 8 0.42
ACGTcount: A:0.54, C:0.03, G:0.08, T:0.35
Consensus pattern (17 bp):
ATTTTGAAAAATAGAAA
Found at i:95843329 original size:12 final size:12
Alignment explanation
Indices: 95843312--95843337 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
95843302 GAACTGAACC
95843312 AGGAGAAGCTGA
1 AGGAGAAGCTGA
95843324 AGGAGAAGCTGA
1 AGGAGAAGCTGA
95843336 AG
1 AG
95843338 AAAAATCAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.08, G:0.42, T:0.08
Consensus pattern (12 bp):
AGGAGAAGCTGA
Found at i:95844904 original size:3 final size:3
Alignment explanation
Indices: 95844896--95844923 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
95844886 AAACTAAAGT
95844896 AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA A
95844924 AATTAGAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:95845618 original size:13 final size:13
Alignment explanation
Indices: 95845600--95845628 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
95845590 ATGATCAAAC
95845600 TTATGTATGGTAT
1 TTATGTATGGTAT
95845613 TTATGTATGGTAT
1 TTATGTATGGTAT
95845626 TTA
1 TTA
95845629 AAGCGGTATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.21, T:0.55
Consensus pattern (13 bp):
TTATGTATGGTAT
Found at i:95856576 original size:21 final size:21
Alignment explanation
Indices: 95856550--95856590 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
95856540 CCCTTCCCTC
*
95856550 TAGTATCTCCTTTTTTTTTTT
1 TAGTATCTCCTTTTCTTTTTT
* *
95856571 TAGTATTTTCTTTTCTTTTT
1 TAGTATCTCCTTTTCTTTTT
95856591 CTCCATCTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.10, C:0.12, G:0.05, T:0.73
Consensus pattern (21 bp):
TAGTATCTCCTTTTCTTTTTT
Found at i:95861617 original size:55 final size:55
Alignment explanation
Indices: 95861556--95861663 Score: 216
Period size: 55 Copynumber: 2.0 Consensus size: 55
95861546 CATAACAATT
95861556 TTCGCATTTGCATTGAACCCACAAATTCTTGTATAGATCGAGATCATTAGAACAA
1 TTCGCATTTGCATTGAACCCACAAATTCTTGTATAGATCGAGATCATTAGAACAA
95861611 TTCGCATTTGCATTGAACCCACAAATTCTTGTATAGATCGAGATCATTAGAAC
1 TTCGCATTTGCATTGAACCCACAAATTCTTGTATAGATCGAGATCATTAGAAC
95861664 CGGAGGAGTA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.31
Consensus pattern (55 bp):
TTCGCATTTGCATTGAACCCACAAATTCTTGTATAGATCGAGATCATTAGAACAA
Found at i:95866170 original size:14 final size:13
Alignment explanation
Indices: 95866155--95866216 Score: 70
Period size: 13 Copynumber: 4.7 Consensus size: 13
95866145 GTTCGTTGCT
95866155 TTTTGAGAAGTGC
1 TTTTGAGAAGTGC
* * *
95866168 TTTTCAAAAGTAC
1 TTTTGAGAAGTGC
95866181 TTTTGAGAGAGTGC
1 TTTTGAGA-AGTGC
* *
95866195 TTTTCAGAGGTGC
1 TTTTGAGAAGTGC
95866208 TTTTGAGAA
1 TTTTGAGAA
95866217 ATTTAAGTGT
Statistics
Matches: 38, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
13 27 0.71
14 11 0.29
ACGTcount: A:0.26, C:0.10, G:0.26, T:0.39
Consensus pattern (13 bp):
TTTTGAGAAGTGC
Found at i:95866193 original size:27 final size:26
Alignment explanation
Indices: 95866155--95866216 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 26
95866145 GTTCGTTGCT
95866155 TTTTGAGAAGTGCTTTTCAAAAGTAC
1 TTTTGAGAAGTGCTTTTCAAAAGTAC
* * *
95866181 TTTTGAGAGAGTGCTTTTCAGAGGTGC
1 TTTTGAGA-AGTGCTTTTCAAAAGTAC
95866208 TTTTGAGAA
1 TTTTGAGAA
95866217 ATTTAAGTGT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
26 9 0.28
27 23 0.72
ACGTcount: A:0.26, C:0.10, G:0.26, T:0.39
Consensus pattern (26 bp):
TTTTGAGAAGTGCTTTTCAAAAGTAC
Found at i:95866486 original size:19 final size:20
Alignment explanation
Indices: 95866442--95866491 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
95866432 ATTAATTATT
*
95866442 TATAAAATTTAATTAGAATA
1 TATAAAATATAATTAGAATA
*
95866462 TATAAAATATATTTA-AATA
1 TATAAAATATAATTAGAATA
*
95866481 T-TTAAATATAA
1 TATAAAATATAA
95866492 AAATTAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
18 8 0.31
19 5 0.19
20 13 0.50
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (20 bp):
TATAAAATATAATTAGAATA
Found at i:95871780 original size:32 final size:32
Alignment explanation
Indices: 95871699--95871785 Score: 104
Period size: 33 Copynumber: 2.6 Consensus size: 32
95871689 TATTTTAACT
95871699 TTAAATTT-AATATAATGGATTTACATTTTTAAAA
1 TTAAATTTAAATA-AAT--ATTTACATTTTTAAAA
* * *
95871733 GTAAATTTTAAATAAATATTTATATTTTTATAA
1 TTAAA-TTTAAATAAATATTTACATTTTTAAAA
95871766 TTAAATTTAAATAAATATTT
1 TTAAATTTAAATAAATATTT
95871786 TTATATATTG
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
32 15 0.32
33 18 0.38
34 4 0.09
35 6 0.13
36 4 0.09
ACGTcount: A:0.46, C:0.01, G:0.03, T:0.49
Consensus pattern (32 bp):
TTAAATTTAAATAAATATTTACATTTTTAAAA
Found at i:95871997 original size:22 final size:22
Alignment explanation
Indices: 95871962--95872003 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
95871952 GCTTAAATTG
*
95871962 AAATTTTTTAATT-ATAAATCA
1 AAATTTTTAAATTAATAAATCA
95871983 AAATTTTTAAGATTAATAAAT
1 AAATTTTTAA-ATTAATAAAT
95872004 ATAGGAACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 3 0.17
23 6 0.33
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (22 bp):
AAATTTTTAAATTAATAAATCA
Found at i:95886275 original size:21 final size:21
Alignment explanation
Indices: 95886249--95886289 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
95886239 AGACGAGCAA
* *
95886249 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
95886270 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
95886290 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:95890204 original size:17 final size:18
Alignment explanation
Indices: 95890182--95890215 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
95890172 AAAATTATTT
95890182 TTAAAAATTA-AAAATAA
1 TTAAAAATTATAAAATAA
95890199 TTAAAAATTATAAAATA
1 TTAAAAATTATAAAATA
95890216 TATATAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
TTAAAAATTATAAAATAA
Found at i:95890455 original size:16 final size:16
Alignment explanation
Indices: 95890434--95890469 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
95890424 TTTGGTTCGC
95890434 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
95890450 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
95890466 TGTA
1 TGTA
95890470 ATAGCTAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:95890534 original size:44 final size:45
Alignment explanation
Indices: 95890450--95890540 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
95890440 GGATTAGAGG
* * *
95890450 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
95890495 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
95890539 TG
1 TG
95890541 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:95890726 original size:18 final size:19
Alignment explanation
Indices: 95890705--95890741 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
95890695 TTATTATTAA
95890705 ATAT-ATTT-TAATTAAAAT
1 ATATAATTTATAA-TAAAAT
95890723 ATATAATTTATAATAAAAT
1 ATATAATTTATAATAAAAT
95890742 TCTTAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 4 0.24
19 10 0.59
20 3 0.18
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
ATATAATTTATAATAAAAT
Found at i:95890906 original size:120 final size:120
Alignment explanation
Indices: 95890685--95890974 Score: 438
Period size: 120 Copynumber: 2.4 Consensus size: 120
95890675 TTAATCATAT
95890685 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTATAATAAAATTCTTAATA
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAA-TT-TAATAAAATTCTTAATA
* * * *
95890750 ATCAATATTCTTATATGAATTTACTCAAATTATAATATATGATACTATAAAATATAA
64 ATAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* * *
95890807 TTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATTCTTAATAT
1 TTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAA
* *
95890871 TAAATGTTCTTATATGAATTTTCTAAAATCATAATATATAATACTATAAAATATAA
65 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
** *
95890927 TTTAACATAATTATTATTAAATATAAGTTAATAAAAATATATAATTTA
1 TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTA
95890975 TCATCATACT
Statistics
Matches: 152, Mismatches: 14, Indels: 6
0.88 0.08 0.03
Matches are distributed among these distances:
119 2 0.01
120 107 0.70
121 2 0.01
122 39 0.26
123 2 0.01
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (120 bp):
TTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAAT
AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:95891193 original size:19 final size:19
Alignment explanation
Indices: 95891162--95891210 Score: 89
Period size: 19 Copynumber: 2.5 Consensus size: 19
95891152 TCTTATTTTA
95891162 AATTTATATCAATAATAAAT
1 AATTTA-ATCAATAATAAAT
95891182 AATTTAATCAATAATAAAT
1 AATTTAATCAATAATAAAT
95891201 AATTTAATCA
1 AATTTAATCA
95891211 TATTTTAACA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 23 0.79
20 6 0.21
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.39
Consensus pattern (19 bp):
AATTTAATCAATAATAAAT
Found at i:95891255 original size:18 final size:17
Alignment explanation
Indices: 95891232--95891299 Score: 67
Period size: 17 Copynumber: 4.2 Consensus size: 17
95891222 AATTATTATT
95891232 AAATATAT-A-TTAATTA
1 AAATATATAATTTAA-TA
95891248 AAATATATAATTTAATA
1 AAATATATAATTTAATA
*
95891265 AAAT-TCTTAA--TAAT-
1 AAATAT-ATAATTTAATA
95891279 AAATATATAATTTAATA
1 AAATATATAATTTAATA
95891296 AAAT
1 AAAT
95891300 TCTCAATTTC
Statistics
Matches: 43, Mismatches: 2, Indels: 13
0.74 0.03 0.22
Matches are distributed among these distances:
14 7 0.16
15 5 0.12
16 13 0.30
17 14 0.33
18 4 0.09
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.41
Consensus pattern (17 bp):
AAATATATAATTTAATA
Found at i:95891262 original size:14 final size:15
Alignment explanation
Indices: 95891225--95891264 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
95891215 TTAACATAAT
95891225 TATT-ATTAAATATA
1 TATTAATTAAATATA
95891239 TATTAATTAAA-ATA
1 TATTAATTAAATATA
*
95891253 TA-TAATTTAATA
1 TATTAATTAAATA
95891265 AAATTCTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 7 0.30
14 10 0.43
15 6 0.26
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TATTAATTAAATATA
Found at i:95891296 original size:16 final size:15
Alignment explanation
Indices: 95891231--95891297 Score: 50
Period size: 16 Copynumber: 4.3 Consensus size: 15
95891221 TAATTATTAT
95891231 TAAATATATA-TTAA
1 TAAATATATATTTAA
95891245 TTAAAATATATAATTTAA
1 -T-AAATATAT-ATTTAA
*
95891263 TAAA-AT-TCTTAATAA
1 TAAATATATATT--TAA
95891278 TAAATATATAATTTAA
1 TAAATATAT-ATTTAA
95891294 TAAA
1 TAAA
95891298 ATTCTCAATT
Statistics
Matches: 42, Mismatches: 2, Indels: 15
0.71 0.03 0.25
Matches are distributed among these distances:
13 2 0.05
14 1 0.02
15 10 0.24
16 20 0.48
17 3 0.07
18 6 0.14
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (15 bp):
TAAATATATATTTAA
Found at i:95896713 original size:16 final size:17
Alignment explanation
Indices: 95896694--95896730 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
95896684 TTTTAGAATT
95896694 TATAAATATAA-AATAA
1 TATAAATATAATAATAA
*
95896710 TAT-AATATAATTATAA
1 TATAAATATAATAATAA
95896726 TATAA
1 TATAA
95896731 TCATAAATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
15 7 0.39
16 10 0.56
17 1 0.06
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TATAAATATAATAATAA
Found at i:95896714 original size:5 final size:5
Alignment explanation
Indices: 95896698--95896736 Score: 51
Period size: 5 Copynumber: 7.4 Consensus size: 5
95896688 AGAATTTATA
*
95896698 AATAT AAAAT AATAT AATAT AATTAT AATAT AATCAT AA
1 AATAT AATAT AATAT AATAT AA-TAT AATAT AAT-AT AA
95896737 ATACAAGTAC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
5 21 0.70
6 9 0.30
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (5 bp):
AATAT
Found at i:95896724 original size:11 final size:11
Alignment explanation
Indices: 95896694--95896736 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
95896684 TTTTAGAATT
*
95896694 TATAAATATAA
1 TATAATTATAA
*
95896705 AATAA-TATAA
1 TATAATTATAA
95896715 TATAATTATAA
1 TATAATTATAA
*
95896726 TATAATCATAA
1 TATAATTATAA
95896737 ATACAAGTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
10 9 0.32
11 19 0.68
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (11 bp):
TATAATTATAA
Found at i:95896724 original size:21 final size:22
Alignment explanation
Indices: 95896694--95896736 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
95896684 TTTTAGAATT
95896694 TATAAATATAAAATAAT-ATAA
1 TATAAATATAAAATAATCATAA
* *
95896715 TATAATTATAATATAATCATAA
1 TATAAATATAAAATAATCATAA
95896737 ATACAAGTAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (22 bp):
TATAAATATAAAATAATCATAA
Found at i:95898708 original size:51 final size:51
Alignment explanation
Indices: 95898637--95898797 Score: 277
Period size: 51 Copynumber: 3.2 Consensus size: 51
95898627 CTGATCACAT
* *
95898637 TTATCACTTGTCACTGATCAGATAAGTATAGCTAAAACTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
* *
95898688 TTATCACTTGTCATTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAT
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
95898739 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
*
95898790 TTGTCACT
1 TTATCACT
95898798 GATCAGAAGT
Statistics
Matches: 103, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 103 1.00
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (51 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
Found at i:95909706 original size:31 final size:31
Alignment explanation
Indices: 95909668--95909731 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
95909658 CATTTTTCTT
95909668 TAATTATTCTCTAAATAAATAATAAATAAAA
1 TAATTATTCTCTAAATAAATAATAAATAAAA
*
95909699 TAATTATTCTCTAAATCAATAATAAATAAAA
1 TAATTATTCTCTAAATAAATAATAAATAAAA
95909730 TA
1 TA
95909732 TAGATATAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (31 bp):
TAATTATTCTCTAAATAAATAATAAATAAAA
Found at i:95910504 original size:17 final size:17
Alignment explanation
Indices: 95910471--95910521 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
95910461 TATGGGAAGT
*
95910471 AATCTTAAGAGGATTTGC
1 AATCTT-AGAAGATTTGC
*
95910489 AATCTTAGAAGATTTGT
1 AATCTTAGAAGATTTGC
* *
95910506 AATTTTAGAAAATTTG
1 AATCTTAGAAGATTTG
95910522 ATTCTGTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
17 23 0.79
18 6 0.21
ACGTcount: A:0.37, C:0.06, G:0.18, T:0.39
Consensus pattern (17 bp):
AATCTTAGAAGATTTGC
Found at i:95910548 original size:24 final size:23
Alignment explanation
Indices: 95910499--95910549 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
95910489 AATCTTAGAA
*
95910499 GATT-TGTAATTTTAGAAAATTT
1 GATTCTGTAATTTTAGAAAATTC
* *
95910521 GATTCTGTAAATTTTAGGAGATTC
1 GATTCTGT-AATTTTAGAAAATTC
95910545 GATTC
1 GATTC
95910550 GTAGATTACT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 4 0.17
23 3 0.12
24 17 0.71
ACGTcount: A:0.31, C:0.06, G:0.18, T:0.45
Consensus pattern (23 bp):
GATTCTGTAATTTTAGAAAATTC
Found at i:95915210 original size:28 final size:28
Alignment explanation
Indices: 95915174--95915229 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
95915164 CTAAATAATG
95915174 TTTAACTAAAAGTACAAATTAGTTGGAA
1 TTTAACTAAAAGTACAAATTAGTTGGAA
*
95915202 TTTAGCTAAAAGTACAAATTAGTTGGAA
1 TTTAACTAAAAGTACAAATTAGTTGGAA
95915230 CAATGGTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.45, C:0.07, G:0.16, T:0.32
Consensus pattern (28 bp):
TTTAACTAAAAGTACAAATTAGTTGGAA
Found at i:95915351 original size:52 final size:52
Alignment explanation
Indices: 95915281--95915434 Score: 202
Period size: 52 Copynumber: 2.9 Consensus size: 52
95915271 GACGGAAAAG
** *
95915281 ATGTGATATGTGCGCCCGTATAAAACCATAGCTGGGCTATGGCATCGGTGCA
1 ATGTGATATGTGTTCCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGCA
* * * *
95915333 ATGTGATACGTGTTCCCGTATAAGACCAGAGCTAGGCTATGGCATCGGTGTA
1 ATGTGATATGTGTTCCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGCA
* *
95915385 ATGTGATAATGTGATT-CCGTATAAGACCATATCTGGGATATGGCATCGGT
1 ATGTGAT-ATGTG-TTCCCGTATAAGACCATAGCTGGGCTATGGCATCGGT
95915435 ATTATATGTG
Statistics
Matches: 88, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
52 52 0.59
53 34 0.39
54 2 0.02
ACGTcount: A:0.26, C:0.18, G:0.28, T:0.28
Consensus pattern (52 bp):
ATGTGATATGTGTTCCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGCA
Found at i:95915614 original size:31 final size:31
Alignment explanation
Indices: 95915576--95915639 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
95915566 TTGTCAATGG
95915576 AAGTGAATGATAAATGGGCCCAAAGGAGTTA
1 AAGTGAATGATAAATGGGCCCAAAGGAGTTA
95915607 AAGTGAATGATAAATGGGCCCAAAGGAGTTA
1 AAGTGAATGATAAATGGGCCCAAAGGAGTTA
95915638 AA
1 AA
95915640 TTATGAATAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (31 bp):
AAGTGAATGATAAATGGGCCCAAAGGAGTTA
Found at i:95924493 original size:17 final size:17
Alignment explanation
Indices: 95924460--95924505 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
95924450 TTTCAGTCCA
*
95924460 ATTG-ATTAAATCTAATT
1 ATTGAATTAAAT-AAATT
95924477 ATTGAATTAAATAAATT
1 ATTGAATTAAATAAATT
*
95924494 ATTTAA-TAAATA
1 ATTGAATTAAATA
95924506 TATAATTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
16 6 0.23
17 13 0.50
18 7 0.27
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.43
Consensus pattern (17 bp):
ATTGAATTAAATAAATT
Found at i:95928534 original size:32 final size:32
Alignment explanation
Indices: 95928493--95928558 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
95928483 ATAAGATACA
95928493 CGACTCAGTACAACAATTAAACAGTCGGCAAT
1 CGACTCAGTACAACAATTAAACAGTCGGCAAT
95928525 CGACTCAGTACAACAATTAAACAGTCGGCAAT
1 CGACTCAGTACAACAATTAAACAGTCGGCAAT
95928557 CG
1 CG
95928559 TTTGACACTA
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:0.39, C:0.26, G:0.17, T:0.18
Consensus pattern (32 bp):
CGACTCAGTACAACAATTAAACAGTCGGCAAT
Found at i:95934245 original size:12 final size:13
Alignment explanation
Indices: 95934228--95934265 Score: 53
Period size: 12 Copynumber: 3.1 Consensus size: 13
95934218 TTTATTCAAT
95934228 TTATA-TTTATTA
1 TTATATTTTATTA
*
95934240 TTATATTTTAATA
1 TTATATTTTATTA
95934253 TTA-ATTTTATTA
1 TTATATTTTATTA
95934265 T
1 T
95934266 AAATTTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 14 0.61
13 9 0.39
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (13 bp):
TTATATTTTATTA
Found at i:95950250 original size:53 final size:53
Alignment explanation
Indices: 95950184--95950316 Score: 198
Period size: 53 Copynumber: 2.5 Consensus size: 53
95950174 ATAAGTGTGC
* * *
95950184 CCGTTTAAGACCATAGCTGGGCTATGGCATCAGTGCAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGATATGGCATCAGTACAATGTGATAATGTGATT
* *
95950237 CCGTATAAGACCATAGCTGGGATATGGCATCGGTATAATGTGATAATGTGATT
1 CCGTATAAGACCATAGCTGGGATATGGCATCAGTACAATGTGATAATGTGATT
95950290 CCGTATAAGACCAT-GTCT-GGATATGGC
1 CCGTATAAGACCATAG-CTGGGATATGGC
95950317 TTCGGTATGA
Statistics
Matches: 74, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
52 10 0.14
53 64 0.86
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (53 bp):
CCGTATAAGACCATAGCTGGGATATGGCATCAGTACAATGTGATAATGTGATT
Found at i:95955922 original size:21 final size:22
Alignment explanation
Indices: 95955890--95955930 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
95955880 TTAATGGTAA
95955890 ATGTGATGCATTTAGGATATTG
1 ATGTGATGCATTTAGGATATTG
*
95955912 ATGTGAT-CATTTATGATAT
1 ATGTGATGCATTTAGGATAT
95955931 CCAACAACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.29, C:0.05, G:0.22, T:0.44
Consensus pattern (22 bp):
ATGTGATGCATTTAGGATATTG
Found at i:95957955 original size:26 final size:24
Alignment explanation
Indices: 95957905--95957958 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 24
95957895 TATATAGAGT
*
95957905 TAATAATATTTAAATAATTTAAAA
1 TAATAATATTTAAATAAATTAAAA
95957929 TAATAATATTTGTAAATACAATT-AAA
1 TAATAATA-TT-TAAATA-AATTAAAA
95957955 TAAT
1 TAAT
95957959 TTAATATAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 8 0.31
25 2 0.08
26 13 0.50
27 3 0.12
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (24 bp):
TAATAATATTTAAATAAATTAAAA
Found at i:95958364 original size:31 final size:31
Alignment explanation
Indices: 95958263--95958404 Score: 113
Period size: 31 Copynumber: 4.4 Consensus size: 31
95958253 TAAAATTTTG
* * *
95958263 AATATAATGATAAACGATATTTTAACAATTT
1 AATATAATGATAAATGATATTTAAATAATTT
* * * *
95958294 AATATAATGATATTTTAATAATATTTAATTAAATC
1 AATATAATGATA----AATGATATTTAAATAATTT
*
95958329 AATATAGTGATAAATGATATTTAAATAATTT
1 AATATAATGATAAATGATATTTAAATAATTT
** * *
95958360 AATATAACCATACATGAAATGTTTAAATAATTT
1 AATATAATGATAAATG--ATATTTAAATAATTT
*
95958393 AATATTATGATA
1 AATATAATGATA
95958405 CATAAAATAT
Statistics
Matches: 85, Mismatches: 20, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
31 39 0.46
33 23 0.27
35 23 0.27
ACGTcount: A:0.49, C:0.04, G:0.06, T:0.41
Consensus pattern (31 bp):
AATATAATGATAAATGATATTTAAATAATTT
Found at i:95958406 original size:33 final size:33
Alignment explanation
Indices: 95958348--95958412 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
95958338 ATAAATGATA
*
95958348 TTTAAATAATTTAATATAACCATACATGAAATG
1 TTTAAATAATTTAATATAACCATACATAAAATG
* **
95958381 TTTAAATAATTTAATATTATGATACATAAAAT
1 TTTAAATAATTTAATATAACCATACATAAAAT
95958413 ATAAGTTAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.49, C:0.06, G:0.05, T:0.40
Consensus pattern (33 bp):
TTTAAATAATTTAATATAACCATACATAAAATG
Found at i:95961998 original size:24 final size:24
Alignment explanation
Indices: 95961961--95962018 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
95961951 CGCCTTCTCA
95961961 AAAAGAAAAAAAAAGAAGAAAAG-
1 AAAAGAAAAAAAAAGAAGAAAAGT
* *
95961984 AAAAGAAAGATAAAAGAATAAAAGT
1 AAAAGAAA-AAAAAAGAAGAAAAGT
*
95962009 AAATGAAAAA
1 AAAAGAAAAA
95962019 TTTCTCTCGT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
23 8 0.28
24 14 0.48
25 7 0.24
ACGTcount: A:0.78, C:0.00, G:0.16, T:0.07
Consensus pattern (24 bp):
AAAAGAAAAAAAAAGAAGAAAAGT
Found at i:95962845 original size:27 final size:27
Alignment explanation
Indices: 95962814--95962867 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
95962804 AACCAAATAA
95962814 TTGTTGAACCATAATTTATGAAATTCT
1 TTGTTGAACCATAATTTATGAAATTCT
95962841 TTGTTGAACCATAATTTATGAAATTCT
1 TTGTTGAACCATAATTTATGAAATTCT
95962868 CTGCCACAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.44
Consensus pattern (27 bp):
TTGTTGAACCATAATTTATGAAATTCT
Found at i:95965574 original size:16 final size:16
Alignment explanation
Indices: 95965553--95965583 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
95965543 TCTCTCTCTA
*
95965553 TATATATGTATGTATG
1 TATATATGAATGTATG
95965569 TATATATGAATGTAT
1 TATATATGAATGTAT
95965584 ATATTCAGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.48
Consensus pattern (16 bp):
TATATATGAATGTATG
Found at i:95969598 original size:105 final size:104
Alignment explanation
Indices: 95969410--95969619 Score: 402
Period size: 105 Copynumber: 2.0 Consensus size: 104
95969400 ATGGCTACTT
95969410 TTCATTTCATCTGCTGAAATTAGGATGACAGGCAGGAAAAGGAGACAGTTTAATTTAAGAACACA
1 TTCATTTCATCTGCTGAAATTAGGATGACAGGCAGGAAAAGGAGACAGTTTAATTTAAGAACACA
95969475 TGAAATGGAAATGTTATAAAGGAGAAGAAGCAACAAATA
66 TGAAATGGAAATGTTATAAAGGAGAAGAAGCAACAAATA
*
95969514 TTCATTTCATCTGCTGAAATTAGGATGACATGCAGGAAAAGGAAGACAGTTTAATTTAAGAACAC
1 TTCATTTCATCTGCTGAAATTAGGATGACAGGCAGGAAAAGG-AGACAGTTTAATTTAAGAACAC
95969579 ATGAAATGGAAATGTTATAAAGGAGAAGAAGCAACAAATA
65 ATGAAATGGAAATGTTATAAAGGAGAAGAAGCAACAAATA
95969619 T
1 T
95969620 GTAGTAGGAC
Statistics
Matches: 104, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
104 41 0.39
105 63 0.61
ACGTcount: A:0.44, C:0.10, G:0.21, T:0.24
Consensus pattern (104 bp):
TTCATTTCATCTGCTGAAATTAGGATGACAGGCAGGAAAAGGAGACAGTTTAATTTAAGAACACA
TGAAATGGAAATGTTATAAAGGAGAAGAAGCAACAAATA
Found at i:95979469 original size:2 final size:2
Alignment explanation
Indices: 95979462--95979492 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
95979452 AGCAACTCAA
95979462 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
95979493 TCCATTTCCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:95981007 original size:4 final size:4
Alignment explanation
Indices: 95980998--95981022 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
95980988 AGTTAAAGGG
95980998 TCAC TCAC TCAC TCAC TCAC TCAC T
1 TCAC TCAC TCAC TCAC TCAC TCAC T
95981023 TTTCTCTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.48, G:0.00, T:0.28
Consensus pattern (4 bp):
TCAC
Found at i:95986644 original size:24 final size:25
Alignment explanation
Indices: 95986617--95986664 Score: 64
Period size: 24 Copynumber: 1.9 Consensus size: 25
95986607 TTACTGCTAC
95986617 TCTTTTCCT-TCTTTT-TTCCTTTCT
1 TCTTTT-CTATCTTTTCTTCCTTTCT
95986641 TCTTTTCTATCTTTTCCTTCCTTT
1 TCTTTTCTATCTTTT-CTTCCTTT
95986665 TTTTCATAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 2 0.10
24 12 0.57
26 7 0.33
ACGTcount: A:0.02, C:0.29, G:0.00, T:0.69
Consensus pattern (25 bp):
TCTTTTCTATCTTTTCTTCCTTTCT
Found at i:95987595 original size:23 final size:23
Alignment explanation
Indices: 95987569--95987612 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
95987559 AGGTAAGTTT
95987569 ACAAGTACAA-ATAATGTACAATC
1 ACAAGTACAATATAAT-TACAATC
95987592 ACAAGTACAATATAATTACAA
1 ACAAGTACAATATAATTACAA
95987613 ATGGTTAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.55, C:0.16, G:0.07, T:0.23
Consensus pattern (23 bp):
ACAAGTACAATATAATTACAATC
Found at i:95997997 original size:20 final size:20
Alignment explanation
Indices: 95997937--95997997 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
95997927 AAATCGATAT
*
95997937 TTTTTATTTAAGTGTGT-AA
1 TTTTTATTTAAGTATGTAAA
* * *
95997956 -TTTTA-TTAATTTATTTACA
1 TTTTTATTTAA-GTATGTAAA
95997975 TTTTTATTTAAGTATGTAAA
1 TTTTTATTTAAGTATGTAAA
95997995 TTT
1 TTT
95997998 ATAAAATGAT
Statistics
Matches: 31, Mismatches: 7, Indels: 7
0.69 0.16 0.16
Matches are distributed among these distances:
17 4 0.13
18 8 0.26
19 1 0.03
20 14 0.45
21 4 0.13
ACGTcount: A:0.30, C:0.02, G:0.08, T:0.61
Consensus pattern (20 bp):
TTTTTATTTAAGTATGTAAA
Found at i:96005207 original size:108 final size:108
Alignment explanation
Indices: 96005018--96005231 Score: 419
Period size: 108 Copynumber: 2.0 Consensus size: 108
96005008 GAATCGGTCA
96005018 TTTGGAATTTTATTGTTAGAACCCCCATTTAGAAGGAATGAAGTTAGCCAAGTCAAGCTCCAGAG
1 TTTGGAATTTTATTGTTAGAACCCCCATTTAGAAGGAATGAAGTTAGCCAAGTCAAGCTCCAGAG
96005083 TCAGGACCCAATCACCAGCCATCAGTTTCTGCACATCTATATC
66 TCAGGACCCAATCACCAGCCATCAGTTTCTGCACATCTATATC
*
96005126 TTTGGAATTTTATTGTTGGAACCCCCATTTAGAAGGAATGAAGTTAGCCAAGTCAAGCTCCAGAG
1 TTTGGAATTTTATTGTTAGAACCCCCATTTAGAAGGAATGAAGTTAGCCAAGTCAAGCTCCAGAG
96005191 TCAGGACCCAATCACCAGCCATCAGTTTCTGCACATCTATA
66 TCAGGACCCAATCACCAGCCATCAGTTTCTGCACATCTATA
96005232 ACTTCAAACC
Statistics
Matches: 105, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
108 105 1.00
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (108 bp):
TTTGGAATTTTATTGTTAGAACCCCCATTTAGAAGGAATGAAGTTAGCCAAGTCAAGCTCCAGAG
TCAGGACCCAATCACCAGCCATCAGTTTCTGCACATCTATATC
Found at i:96008044 original size:12 final size:12
Alignment explanation
Indices: 96008027--96008052 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
96008017 AGAATAGGAG
96008027 AAGGATTAGTTA
1 AAGGATTAGTTA
96008039 AAGGATTAGTTA
1 AAGGATTAGTTA
96008051 AA
1 AA
96008053 AGAAAACAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (12 bp):
AAGGATTAGTTA
Found at i:96019280 original size:18 final size:17
Alignment explanation
Indices: 96019259--96019292 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
96019249 TTACTAAAAA
96019259 TATTAGTACATATATCAC
1 TATTAGTACA-ATATCAC
*
96019277 TATTATTACAATATCA
1 TATTAGTACAATATCA
96019293 TAAAATAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.41, C:0.15, G:0.03, T:0.41
Consensus pattern (17 bp):
TATTAGTACAATATCAC
Found at i:96024933 original size:21 final size:21
Alignment explanation
Indices: 96024907--96024977 Score: 133
Period size: 21 Copynumber: 3.4 Consensus size: 21
96024897 GTGACACTTA
*
96024907 CAGGAGGAGGTGCAAAAGCAG
1 CAGGAGGCGGTGCAAAAGCAG
96024928 CAGGAGGCGGTGCAAAAGCAG
1 CAGGAGGCGGTGCAAAAGCAG
96024949 CAGGAGGCGGTGCAAAAGCAG
1 CAGGAGGCGGTGCAAAAGCAG
96024970 CAGGAGGC
1 CAGGAGGC
96024978 AATTTGTAGT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 49 1.00
ACGTcount: A:0.34, C:0.18, G:0.44, T:0.04
Consensus pattern (21 bp):
CAGGAGGCGGTGCAAAAGCAG
Found at i:96028811 original size:15 final size:16
Alignment explanation
Indices: 96028781--96028819 Score: 62
Period size: 15 Copynumber: 2.4 Consensus size: 16
96028771 TAGTAAAAAT
96028781 ATAATTTTATTATTTTA
1 ATAA-TTTATTATTTTA
96028798 ATAATTTA-TATTTTA
1 ATAATTTATTATTTTA
96028813 ATAATTT
1 ATAATTT
96028820 TTAAAAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 14 0.64
16 4 0.18
17 4 0.18
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
ATAATTTATTATTTTA
Found at i:96028879 original size:29 final size:29
Alignment explanation
Indices: 96028797--96028881 Score: 70
Period size: 29 Copynumber: 2.9 Consensus size: 29
96028787 TTATTATTTT
*
96028797 AATAATTTAT-ATTTTAATAATTTTTAAAA
1 AATAATATATAATTTT-ATAATTTTTAAAA
* * *
96028826 AATTAA-AT-TAAATTTT-TATTATTTTGAAG
1 AA-TAATATAT-AATTTTATAAT-TTTTAAAA
96028855 AATAATATATAATTTTATAATTTTTAA
1 AATAATATATAATTTTATAATTTTTAA
96028882 TTTAAAATTT
Statistics
Matches: 43, Mismatches: 6, Indels: 14
0.68 0.10 0.22
Matches are distributed among these distances:
28 7 0.16
29 24 0.56
30 12 0.28
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (29 bp):
AATAATATATAATTTTATAATTTTTAAAA
Found at i:96041860 original size:47 final size:47
Alignment explanation
Indices: 96041788--96041917 Score: 138
Period size: 47 Copynumber: 2.8 Consensus size: 47
96041778 ATCTACACAA
* *
96041788 TACTAT-AGAATTTGAGATGAACATTTCCCGAACTACAGCATAAAAAG
1 TACTATAAG-ATTTCAGATGAACATTTCCCAAACTACAGCATAAAAAG
* * * ** *
96041835 TACTATAAGATTTCAGATGAGCATTTTCCAAACTATAGTGTAAACAG
1 TACTATAAGATTTCAGATGAACATTTCCCAAACTACAGCATAAAAAG
* *
96041882 AACTATAAGATTTCAGATGAATATCTT-CCAAACTAC
1 TACTATAAGATTTCAGATGAACAT-TTCCCAAACTAC
96041918 TGTCTACAAC
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
47 65 0.94
48 4 0.06
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.29
Consensus pattern (47 bp):
TACTATAAGATTTCAGATGAACATTTCCCAAACTACAGCATAAAAAG
Found at i:96051098 original size:28 final size:28
Alignment explanation
Indices: 96051066--96051123 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
96051056 ATATTTTATC
96051066 AATTTAAACTTAATTCTTAAAAATAAAA
1 AATTTAAACTTAATTCTTAAAAATAAAA
96051094 AATTTAAACTTAATTCTTAAAAATAAAA
1 AATTTAAACTTAATTCTTAAAAATAAAA
96051122 AA
1 AA
96051124 AATTACACAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (28 bp):
AATTTAAACTTAATTCTTAAAAATAAAA
Found at i:96052281 original size:20 final size:20
Alignment explanation
Indices: 96052258--96052295 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
96052248 TATTTTATTT
*
96052258 ATTTTTTAAATATTTTTATA
1 ATTTTGTAAATATTTTTATA
*
96052278 ATTTTGTATATATTTTTA
1 ATTTTGTAAATATTTTTA
96052296 CAGAACTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (20 bp):
ATTTTGTAAATATTTTTATA
Found at i:96052987 original size:19 final size:17
Alignment explanation
Indices: 96052963--96052999 Score: 56
Period size: 19 Copynumber: 2.1 Consensus size: 17
96052953 ATTTTGAAAA
96052963 TATAAAATAAATAAAATAT
1 TATAAAAT-AAT-AAATAT
96052982 TATAAAATAATAAATAT
1 TATAAAATAATAAATAT
96052999 T
1 T
96053000 TGAATCTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.39
18 3 0.17
19 8 0.44
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
TATAAAATAATAAATAT
Found at i:96053125 original size:16 final size:17
Alignment explanation
Indices: 96053104--96053137 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
96053094 GTTAAATAAT
*
96053104 TTATATAT-ATTTTTAA
1 TTATATATCATGTTTAA
96053120 TTATATATCATGTTTAA
1 TTATATATCATGTTTAA
96053137 T
1 T
96053138 CAAATATCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (17 bp):
TTATATATCATGTTTAA
Found at i:96059744 original size:16 final size:15
Alignment explanation
Indices: 96059721--96059755 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
96059711 ACAATTTAAT
*
96059721 TTATTTATCATATAA
1 TTATTTATAATATAA
96059736 TTATCTTATAATATAA
1 TTAT-TTATAATATAA
96059752 TTAT
1 TTAT
96059756 AATAAATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (15 bp):
TTATTTATAATATAA
Found at i:96059788 original size:29 final size:30
Alignment explanation
Indices: 96059751--96059813 Score: 80
Period size: 29 Copynumber: 2.2 Consensus size: 30
96059741 TTATAATATA
96059751 ATTA-TAATAAAT-TA-ATTTAATATCATTT
1 ATTACTAATAAATATATATTTAATAT-ATTT
*
96059779 ATTACTAATAAATATATATTTTATATATTT
1 ATTACTAATAAATATATATTTAATATATTT
96059809 -TTACT
1 ATTACT
96059814 TTATATGCTG
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
28 4 0.13
29 13 0.42
30 6 0.19
31 8 0.26
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.52
Consensus pattern (30 bp):
ATTACTAATAAATATATATTTAATATATTT
Found at i:96061728 original size:40 final size:40
Alignment explanation
Indices: 96061556--96061721 Score: 280
Period size: 40 Copynumber: 4.2 Consensus size: 40
96061546 AACCCAAGTA
* *
96061556 CCTTCGGGATTTAG-CCGGATATAGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
96061595 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
96061635 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
96061675 CCTTCGAGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
96061715 CCTTCGG
1 CCTTCGG
96061722 ATCTTAGTCC
Statistics
Matches: 120, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 13 0.11
40 107 0.89
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:96069803 original size:40 final size:40
Alignment explanation
Indices: 96069631--96069796 Score: 255
Period size: 40 Copynumber: 4.2 Consensus size: 40
96069621 AACCCAAGTA
* **
96069631 CCTTCGGGA-TGTAG-CCAGATATAACAACTCGCACAAATG
1 CCTTCGGGACT-TAGCCCGGATATAGTAACTCGCACAAATG
96069670 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
96069710 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
96069750 CCTTCGAGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
96069790 CCTTCGG
1 CCTTCGG
96069797 ATCTTAGTCC
Statistics
Matches: 118, Mismatches: 7, Indels: 3
0.92 0.05 0.02
Matches are distributed among these distances:
39 12 0.10
40 106 0.90
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:96074402 original size:13 final size:13
Alignment explanation
Indices: 96074386--96074425 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
96074376 CAATCTCATA
96074386 TCTCAATTTCAAT
1 TCTCAATTTCAAT
96074399 TCTCAA-TTCAATT
1 TCTCAATTTCAA-T
96074412 TCTC-ATTTC-AT
1 TCTCAATTTCAAT
96074423 TCT
1 TCT
96074426 AATAGCTCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
11 4 0.16
12 7 0.28
13 14 0.56
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.50
Consensus pattern (13 bp):
TCTCAATTTCAAT
Found at i:96074411 original size:18 final size:19
Alignment explanation
Indices: 96074373--96074413 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
96074363 TGGTTCATGT
96074373 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
96074392 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
96074410 TTTC
1 TTTC
96074414 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:96074548 original size:23 final size:23
Alignment explanation
Indices: 96074518--96074575 Score: 116
Period size: 23 Copynumber: 2.5 Consensus size: 23
96074508 GCGGATTCCT
96074518 CCCAAACACACCAGAATATCCAA
1 CCCAAACACACCAGAATATCCAA
96074541 CCCAAACACACCAGAATATCCAA
1 CCCAAACACACCAGAATATCCAA
96074564 CCCAAACACACC
1 CCCAAACACACC
96074576 CGGAATATTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.47, C:0.43, G:0.03, T:0.07
Consensus pattern (23 bp):
CCCAAACACACCAGAATATCCAA
Found at i:96074964 original size:15 final size:15
Alignment explanation
Indices: 96074944--96074990 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
96074934 TATATTATAT
96074944 TTCAATCAATATAAA
1 TTCAATCAATATAAA
* * *
96074959 TTCAATCAAAATGAT
1 TTCAATCAATATAAA
96074974 TTCAATCAATATAAA
1 TTCAATCAATATAAA
96074989 TT
1 TT
96074991 TGATAAATTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.49, C:0.13, G:0.02, T:0.36
Consensus pattern (15 bp):
TTCAATCAATATAAA
Found at i:96075863 original size:19 final size:19
Alignment explanation
Indices: 96075839--96075877 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
96075829 AATATTTATT
*
96075839 TATTATTTATACATGTGTA
1 TATTATTAATACATGTGTA
96075858 TATTATTAATACATGTGTA
1 TATTATTAATACATGTGTA
96075877 T
1 T
96075878 CTATTTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.51
Consensus pattern (19 bp):
TATTATTAATACATGTGTA
Found at i:96075885 original size:19 final size:19
Alignment explanation
Indices: 96075842--96075885 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
96075832 ATTTATTTAT
96075842 TATTT-ATACATGTGTATA
1 TATTTAATACATGTGTATA
*
96075860 T-TATTAATACATGTGTATC
1 TAT-TTAATACATGTGTATA
96075879 TATTTAA
1 TATTTAA
96075886 AACCATACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
17 1 0.05
18 3 0.14
19 17 0.77
20 1 0.05
ACGTcount: A:0.34, C:0.07, G:0.09, T:0.50
Consensus pattern (19 bp):
TATTTAATACATGTGTATA
Found at i:96077887 original size:9 final size:9
Alignment explanation
Indices: 96077873--96077897 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
96077863 AGAGGGAAGG
96077873 AAGAAAAGA
1 AAGAAAAGA
96077882 AAGAAAAGA
1 AAGAAAAGA
96077891 AAGAAAA
1 AAGAAAA
96077898 AAGGGGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (9 bp):
AAGAAAAGA
Found at i:96080367 original size:27 final size:27
Alignment explanation
Indices: 96080336--96080390 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
96080326 TTTTAATCAC
96080336 TTACATTAACATGTTGTAACATTTTAG
1 TTACATTAACATGTTGTAACATTTTAG
* *
96080363 TTACATTAACGTGTTGTAATATTTTAG
1 TTACATTAACATGTTGTAACATTTTAG
96080390 T
1 T
96080391 CACTGAGTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.47
Consensus pattern (27 bp):
TTACATTAACATGTTGTAACATTTTAG
Found at i:96084030 original size:26 final size:26
Alignment explanation
Indices: 96083999--96084051 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
96083989 ATTTTTGTAA
96083999 ATTTTTAGTAATTAGATTAATTTTTT
1 ATTTTTAGTAATTAGATTAATTTTTT
96084025 ATTTTTAGTAATTAGATTAATTTTTT
1 ATTTTTAGTAATTAGATTAATTTTTT
96084051 A
1 A
96084052 CATTTTTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (26 bp):
ATTTTTAGTAATTAGATTAATTTTTT
Found at i:96088480 original size:16 final size:17
Alignment explanation
Indices: 96088459--96088501 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
96088449 GAGTGAAAAG
96088459 AAAATTAAAAGGAT-GA
1 AAAATTAAAAGGATAGA
*
96088475 AAAATTGAAAGGGATAGA
1 AAAATT-AAAAGGATAGA
96088493 AAAA-TAAAA
1 AAAATTAAAA
96088502 TGACAGTGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 9 0.39
17 8 0.35
18 6 0.26
ACGTcount: A:0.65, C:0.00, G:0.19, T:0.16
Consensus pattern (17 bp):
AAAATTAAAAGGATAGA
Found at i:96091861 original size:3 final size:3
Alignment explanation
Indices: 96091853--96091883 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
96091843 TATAGATGTC
96091853 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
96091884 GAGTGTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:96092372 original size:13 final size:13
Alignment explanation
Indices: 96092354--96092387 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
96092344 AGTTCGGTTT
96092354 TTAATTTTTTATA
1 TTAATTTTTTATA
* *
96092367 TTAATTTTTTGTT
1 TTAATTTTTTATA
96092380 TTAATTTT
1 TTAATTTT
96092388 CTAATTTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (13 bp):
TTAATTTTTTATA
Found at i:96092440 original size:21 final size:21
Alignment explanation
Indices: 96092414--96092476 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 21
96092404 CAAATGAGTT
*
96092414 TTATTTTAT-AACTTTTAAATA
1 TTATTTTATAAAATTTT-AATA
*
96092435 TTATTTGATAAAATTTTAATA
1 TTATTTTATAAAATTTTAATA
*
96092456 TCTATTTTTTAAATATTTTAA
1 T-TATTTTATAAA-ATTTTAA
96092477 AAATATATAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
21 13 0.37
22 15 0.43
23 7 0.20
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (21 bp):
TTATTTTATAAAATTTTAATA
Found at i:96092506 original size:26 final size:25
Alignment explanation
Indices: 96092426--96092513 Score: 64
Period size: 22 Copynumber: 3.7 Consensus size: 25
96092416 ATTTTATAAC
**
96092426 TTTTAAATAT-TATTTGATAAA-A-
1 TTTTAAATATATATTTTTTAAATAT
*
96092448 TTTT-AATATCTATTTTTTAAATAT
1 TTTTAAATATATATTTTTTAAATAT
*
96092472 TTTAAAAATATATATATTTTTAAGA-AT
1 TTT-TAAATATATAT-TTTTTAA-ATAT
96092499 TTTTAAAT-TAT-TTTT
1 TTTTAAATATATATTTT
96092514 AATATAAAAT
Statistics
Matches: 54, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
21 5 0.09
22 13 0.24
23 4 0.07
24 4 0.07
25 3 0.06
26 12 0.22
27 12 0.22
28 1 0.02
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (25 bp):
TTTTAAATATATATTTTTTAAATAT
Found at i:96092526 original size:16 final size:16
Alignment explanation
Indices: 96092502--96092536 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
96092492 TAAGAATTTT
*
96092502 TAAATTATTTTTAATA
1 TAAAATATTTTTAATA
*
96092518 TAAAATATTTTTTATA
1 TAAAATATTTTTAATA
96092534 TAA
1 TAA
96092537 TAAAAATTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TAAAATATTTTTAATA
Found at i:96095193 original size:3 final size:3
Alignment explanation
Indices: 96095185--96095217 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
96095175 TAGCTTTTAA
*
96095185 ATT ATT ATT ATT ATT ATT ATT ATT ATT GTT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
96095218 TATGGCGTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (3 bp):
ATT
Done.