Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 11 of 343
Found at i:3860815 original size:47 final size:46
Alignment explanation
Indices: 3860750--3860850 Score: 157
Period size: 47 Copynumber: 2.2 Consensus size: 46
3860740 AATAATGAAA
* *
3860750 TAAAAACACTAAACTTTTAATTTTATCTAATTTTTATAAATATTACT
1 TAAAAA-ACTAAACTTTTAAATTTATCTAATTTTTATAAATATAACT
*
3860797 TAAAAAACTAAAATTTTTAAATTTATCTAATTTTTATAAATATAACT
1 TAAAAAACT-AAACTTTTAAATTTATCTAATTTTTATAAATATAACT
3860844 TAAAAAA
1 TAAAAAA
3860851 ACCTATGTAT
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
46 3 0.06
47 47 0.94
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.44
Consensus pattern (46 bp):
TAAAAAACTAAACTTTTAAATTTATCTAATTTTTATAAATATAACT
Found at i:3863976 original size:43 final size:43
Alignment explanation
Indices: 3863905--3864063 Score: 203
Period size: 43 Copynumber: 3.7 Consensus size: 43
3863895 CTAAAATTAA
3863905 CGGCG-TTTGTTTAAAAAAGCGCCGCTAAAGACCAGGACTTTTAG
1 CGGCGCTTT-TTTAAAAAA-CGCCGCTAAAGACCAGGACTTTTAG
* *
3863949 CGGCGCTTTTTTGAAAAACGCCGCTAAAGACCAAGACTTTTAG
1 CGGCGCTTTTTTAAAAAACGCCGCTAAAGACCAGGACTTTTAG
* * *
3863992 AGGTGCTTTTTTAAAAAACGCCACTAAAGACCAGGACTTTTAG
1 CGGCGCTTTTTTAAAAAACGCCGCTAAAGACCAGGACTTTTAG
* *** *
3864035 CGGCACTTTTCCCACAAACGCCGCTAAAG
1 CGGCGCTTTTTTAAAAAACGCCGCTAAAG
3864064 GTCATTAAAT
Statistics
Matches: 99, Mismatches: 15, Indels: 3
0.85 0.13 0.03
Matches are distributed among these distances:
43 83 0.84
44 13 0.13
45 3 0.03
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.25
Consensus pattern (43 bp):
CGGCGCTTTTTTAAAAAACGCCGCTAAAGACCAGGACTTTTAG
Found at i:3864114 original size:28 final size:26
Alignment explanation
Indices: 3864077--3864129 Score: 70
Period size: 28 Copynumber: 2.0 Consensus size: 26
3864067 ATTAAATTTA
3864077 AAAAAAATAAAATATTATAAAAGTCATG
1 AAAAAAATAAAA-ATT-TAAAAGTCATG
* *
3864105 AAAAATATAAAAATTTAAAATTCAT
1 AAAAAAATAAAAATTTAAAAGTCAT
3864130 TATCAAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 9 0.39
27 3 0.13
28 11 0.48
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.28
Consensus pattern (26 bp):
AAAAAAATAAAAATTTAAAAGTCATG
Found at i:3866185 original size:5 final size:5
Alignment explanation
Indices: 3866175--3866210 Score: 65
Period size: 5 Copynumber: 7.4 Consensus size: 5
3866165 TTATGTTTTA
3866175 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT A-TAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
3866211 AAACTAAAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.13
5 26 0.87
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATTAT
Found at i:3866766 original size:55 final size:55
Alignment explanation
Indices: 3866705--3866814 Score: 211
Period size: 55 Copynumber: 2.0 Consensus size: 55
3866695 TAAAGTAAAT
3866705 CAACATTTTGTACTAAGACTATTTTAGACAGCAGCAGTAGTCTAAGTTTGAAAAA
1 CAACATTTTGTACTAAGACTATTTTAGACAGCAGCAGTAGTCTAAGTTTGAAAAA
*
3866760 CAACATTTTGTACTAAGACTATTTTGGACAGCAGCAGTAGTCTAAGTTTGAAAAA
1 CAACATTTTGTACTAAGACTATTTTAGACAGCAGCAGTAGTCTAAGTTTGAAAAA
3866815 TCACCAAAAG
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (55 bp):
CAACATTTTGTACTAAGACTATTTTAGACAGCAGCAGTAGTCTAAGTTTGAAAAA
Found at i:3867556 original size:15 final size:15
Alignment explanation
Indices: 3867536--3867592 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
3867526 CGATGAATTT
3867536 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
3867551 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
3867566 ATTGAATTTATATTG
1 ATTGAATTTATATTG
3867581 ATTGAA-TTATAT
1 ATTGAATTTATAT
3867593 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:3867994 original size:23 final size:22
Alignment explanation
Indices: 3867964--3868070 Score: 89
Period size: 21 Copynumber: 5.0 Consensus size: 22
3867954 GCTTTATCGA
**
3867964 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACTTCGTGTGTCGTA-T
*
3867987 TCAGGCACTTCGTGTTTCGTA-
1 TCAGGCACTTCGTGTGTCGTAT
*
3868008 TC-GGCA-TCTCGTGTGACGTA-
1 TCAGGCACT-TCGTGTGTCGTAT
*
3868028 TCAGGCACCTCGTGTGTCGT-T
1 TCAGGCACTTCGTGTGTCGTAT
* **
3868049 TTAGGCACTTTATGTGTCGTAT
1 TCAGGCACTTCGTGTGTCGTAT
3868071 ACTGATCAGG
Statistics
Matches: 68, Mismatches: 11, Indels: 11
0.76 0.12 0.12
Matches are distributed among these distances:
19 1 0.01
20 16 0.24
21 32 0.47
22 1 0.01
23 18 0.26
ACGTcount: A:0.15, C:0.21, G:0.25, T:0.38
Consensus pattern (22 bp):
TCAGGCACTTCGTGTGTCGTAT
Found at i:3868039 original size:21 final size:21
Alignment explanation
Indices: 3867987--3868043 Score: 71
Period size: 20 Copynumber: 2.8 Consensus size: 21
3867977 GTGTCGTATT
* **
3867987 TCAGGCACTTCGTGTTTCGTA
1 TCAGGCACCTCGTGTGACGTA
*
3868008 TC-GGCATCTCGTGTGACGTA
1 TCAGGCACCTCGTGTGACGTA
3868028 TCAGGCACCTCGTGTG
1 TCAGGCACCTCGTGTG
3868044 TCGTTTTAGG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
20 16 0.53
21 14 0.47
ACGTcount: A:0.14, C:0.26, G:0.28, T:0.32
Consensus pattern (21 bp):
TCAGGCACCTCGTGTGACGTA
Found at i:3870146 original size:25 final size:25
Alignment explanation
Indices: 3870112--3870175 Score: 103
Period size: 25 Copynumber: 2.6 Consensus size: 25
3870102 AAGTTGACGA
3870112 CGATGCAGCAGATGGTCGGGTCCGG
1 CGATGCAGCAGATGGTCGGGTCCGG
* *
3870137 CGATGCAGCATATGGTCGGGTCTGG
1 CGATGCAGCAGATGGTCGGGTCCGG
3870162 CGATGCAG-AGATGG
1 CGATGCAGCAGATGG
3870176 GTTGGGATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
24 5 0.14
25 31 0.86
ACGTcount: A:0.19, C:0.20, G:0.42, T:0.19
Consensus pattern (25 bp):
CGATGCAGCAGATGGTCGGGTCCGG
Found at i:3870350 original size:7 final size:7
Alignment explanation
Indices: 3870326--3870369 Score: 52
Period size: 7 Copynumber: 6.1 Consensus size: 7
3870316 CATAAATCTA
*
3870326 AACCCAT
1 AACCCCT
*
3870333 AACCTCTT
1 AACC-CCT
3870341 AACCCCT
1 AACCCCT
3870348 AACCCCT
1 AACCCCT
3870355 AACCCCT
1 AACCCCT
*
3870362 AACACCT
1 AACCCCT
3870369 A
1 A
3870370 CACCTTAAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
7 27 0.82
8 6 0.18
ACGTcount: A:0.34, C:0.48, G:0.00, T:0.18
Consensus pattern (7 bp):
AACCCCT
Found at i:3870422 original size:15 final size:15
Alignment explanation
Indices: 3870400--3870434 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
3870390 AAACCACCAT
3870400 TAAA-CCATAATCCA
1 TAAACCCATAATCCA
*
3870414 TAAACCCATCATCCA
1 TAAACCCATAATCCA
3870429 TAAACC
1 TAAACC
3870435 TTAAAATAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.21
15 15 0.79
ACGTcount: A:0.46, C:0.34, G:0.00, T:0.20
Consensus pattern (15 bp):
TAAACCCATAATCCA
Found at i:3877522 original size:37 final size:37
Alignment explanation
Indices: 3877458--3877567 Score: 195
Period size: 37 Copynumber: 3.0 Consensus size: 37
3877448 TACGTATGAT
*
3877458 CACTTATCAC-TTGTCCCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
*
3877494 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
3877531 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
3877568 TAAAGCTATC
Statistics
Matches: 70, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
36 10 0.14
37 60 0.86
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.37
Consensus pattern (37 bp):
CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGC
Found at i:3877610 original size:52 final size:52
Alignment explanation
Indices: 3877531--3877845 Score: 393
Period size: 52 Copynumber: 6.2 Consensus size: 52
3877521 TAAGTGTAGC
* * **
3877531 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTAT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
3877584 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* *
3877636 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* * *
3877688 CAC---T---TTGTCACTTGATTAGATAAGTATAGCCGAAGCTATAACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* *
3877734 CAC-TTT-A----TCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
* ** *
3877780 CACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
3877832 CACTTTATCACTTG
1 CACTTT-TCACTTG
3877846 ATCAGAAGTA
Statistics
Matches: 232, Mismatches: 20, Indels: 20
0.85 0.07 0.07
Matches are distributed among these distances:
46 81 0.35
47 2 0.01
48 2 0.01
52 132 0.57
53 15 0.06
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (52 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
Found at i:3877641 original size:98 final size:98
Alignment explanation
Indices: 3877531--3877851 Score: 429
Period size: 98 Copynumber: 3.3 Consensus size: 98
3877521 TAAGTGTAGC
* * *
3877531 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTATCACTTTTCACTT
1 CACTTATCACTTTATCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTTCACTT
3877596 GTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
66 GTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
3877629 CACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCAC---
1 CACTTATCACTTT--A----TCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTT
* *
3877691 T---TTGTCACTTGATTAGATAAGTATAGCCGAAGCTAT
60 TCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* * * * *
3877727 AACTTATCACTTTATCACTTGATCAGATAAGTATAGCCGAAGCTATTACTTATCACTTTCCACTT
1 CACTTATCACTTTATCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTTCACTT
** *
3877792 GTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
66 GTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
3877825 CACTTATCACTTTATCACTTGATCAGA
1 CACTTATCACTTTATCACTTGATCAGA
3877852 AGTACTCAAA
Statistics
Matches: 195, Mismatches: 16, Indels: 24
0.83 0.07 0.10
Matches are distributed among these distances:
92 39 0.20
96 1 0.01
98 114 0.58
101 1 0.01
104 40 0.21
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.35
Consensus pattern (98 bp):
CACTTATCACTTTATCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTTCACTT
GTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:3881344 original size:18 final size:18
Alignment explanation
Indices: 3881321--3881413 Score: 132
Period size: 18 Copynumber: 5.2 Consensus size: 18
3881311 CCCAACTACT
* *
3881321 GTATACGTGAACAGTCCC
1 GTATACGTGAATAGTACC
*
3881339 GTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACC
*
3881357 GTATACGTGAATAGTACT
1 GTATACGTGAATAGTACC
* *
3881375 GTATACGTAAATAGTGCC
1 GTATACGTGAATAGTACC
3881393 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
3881411 GTA
1 GTA
3881414 AACGGTCGTA
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 66 1.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:3881379 original size:36 final size:36
Alignment explanation
Indices: 3881321--3881413 Score: 150
Period size: 36 Copynumber: 2.6 Consensus size: 36
3881311 CCCAACTACT
* * *
3881321 GTATACGTGAACAGTCCCGTATACGTGAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTAAATAGTGCC
*
3881357 GTATACGTGAATAGTACTGTATACGTAAATAGTGCC
1 GTATACGTGAATAGTACCGTATACGTAAATAGTGCC
3881393 GTATACGTGAATAGTACCGTA
1 GTATACGTGAATAGTACCGTA
3881414 AACGGTCGTA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 52 1.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (36 bp):
GTATACGTGAATAGTACCGTATACGTAAATAGTGCC
Found at i:3883768 original size:18 final size:20
Alignment explanation
Indices: 3883747--3883788 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 20
3883737 AACATTTATC
*
3883747 ATTTAAAATTTTA-AT-AAT
1 ATTTAAAAGTTTATATAAAT
*
3883765 ATTTATAAGTTTATATAAAT
1 ATTTAAAAGTTTATATAAAT
3883785 ATTT
1 ATTT
3883789 TAGCTAAGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 11 0.55
19 2 0.10
20 7 0.35
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (20 bp):
ATTTAAAAGTTTATATAAAT
Found at i:3888133 original size:21 final size:22
Alignment explanation
Indices: 3888086--3888136 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
3888076 AACATTTAAT
3888086 TAATTTTATAAAATTTTAAAAG
1 TAATTTTATAAAATTTTAAAAG
* *
3888108 TAATTTT-TATAATTTTTAAA-
1 TAATTTTATAAAATTTTAAAAG
*
3888128 TAAATTTAT
1 TAATTTTAT
3888137 TGATTTTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 6 0.24
21 12 0.48
22 7 0.28
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (22 bp):
TAATTTTATAAAATTTTAAAAG
Found at i:3888167 original size:24 final size:24
Alignment explanation
Indices: 3888108--3888183 Score: 82
Period size: 24 Copynumber: 3.0 Consensus size: 24
3888098 ATTTTAAAAG
3888108 TAATTTTTATAATTTTTAAATAAATT-
1 TAATTTTT-TAATTTTT-AA-AAATTA
*
3888134 TATTGATTTTTAATTTTTAAAAATTA
1 TAAT--TTTTTAATTTTTAAAAATTA
*
3888160 TAATTTTTTAAATTTTAAAAATTA
1 TAATTTTTTAATTTTTAAAAATTA
3888184 ATTAAATATT
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
24 19 0.43
25 5 0.11
26 8 0.18
27 8 0.18
28 4 0.09
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (24 bp):
TAATTTTTTAATTTTTAAAAATTA
Found at i:3888762 original size:3 final size:3
Alignment explanation
Indices: 3888754--3888806 Score: 90
Period size: 3 Copynumber: 17.7 Consensus size: 3
3888744 GCCGCTGTTG
3888754 CTT CTT CTT -TGT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CT-T CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
3888799 CTT CTT CT
1 CTT CTT CT
3888807 CACTTTCAAC
Statistics
Matches: 48, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 1 0.02
3 46 0.96
4 1 0.02
ACGTcount: A:0.00, C:0.32, G:0.02, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:3902888 original size:9 final size:9
Alignment explanation
Indices: 3902875--3902942 Score: 73
Period size: 9 Copynumber: 7.6 Consensus size: 9
3902865 ATAAGTATAA
*
3902875 AATTAACCA
1 AATTAACCG
*
3902884 AATTAATCG
1 AATTAACCG
3902893 AATTAACCG
1 AATTAACCG
*
3902902 AATTACCCG
1 AATTAACCG
* * *
3902911 AACTACCCA
1 AATTAACCG
3902920 AATTAACCG
1 AATTAACCG
*
3902929 AATTAATCG
1 AATTAACCG
3902938 AATTA
1 AATTA
3902943 TTTGTATAAA
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 49 1.00
ACGTcount: A:0.46, C:0.22, G:0.07, T:0.25
Consensus pattern (9 bp):
AATTAACCG
Found at i:3903028 original size:18 final size:18
Alignment explanation
Indices: 3903005--3903039 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
3902995 TTTATGATCA
3903005 GGTTGGGTAATTGGGTTG
1 GGTTGGGTAATTGGGTTG
*
3903023 GGTTGGGTACTTGGGTT
1 GGTTGGGTAATTGGGTT
3903040 AATATATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.09, C:0.03, G:0.49, T:0.40
Consensus pattern (18 bp):
GGTTGGGTAATTGGGTTG
Found at i:3903244 original size:18 final size:18
Alignment explanation
Indices: 3903221--3903259 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
3903211 AACCGACCCC
**
3903221 TAACCGAATTAATTCGGT
1 TAACCGAACGAATTCGGT
*
3903239 TAACCGACCGAATTCGGT
1 TAACCGAACGAATTCGGT
3903257 TAA
1 TAA
3903260 TCGGTCAGTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (18 bp):
TAACCGAACGAATTCGGT
Found at i:3905175 original size:78 final size:78
Alignment explanation
Indices: 3905046--3905200 Score: 292
Period size: 78 Copynumber: 2.0 Consensus size: 78
3905036 ATTGACAATA
* *
3905046 ACTGTAGCTTGTAGGTGATAATGCTAAATACTAAAGTTCACCCTAAACAATGTTTACTTTCATCT
1 ACTGTAGCTTGTAGGTGATAATGCTAAAGACGAAAGTTCACCCTAAACAATGTTTACTTTCATCT
3905111 ACATTCAGAACTT
66 ACATTCAGAACTT
3905124 ACTGTAGCTTGTAGGTGATAATGCTAAAGACGAAAGTTCACCCTAAACAATGTTTACTTTCATCT
1 ACTGTAGCTTGTAGGTGATAATGCTAAAGACGAAAGTTCACCCTAAACAATGTTTACTTTCATCT
3905189 ACATTCAGAACT
66 ACATTCAGAACT
3905201 AAGTCCAATA
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
78 75 1.00
ACGTcount: A:0.34, C:0.19, G:0.14, T:0.33
Consensus pattern (78 bp):
ACTGTAGCTTGTAGGTGATAATGCTAAAGACGAAAGTTCACCCTAAACAATGTTTACTTTCATCT
ACATTCAGAACTT
Found at i:3925300 original size:56 final size:56
Alignment explanation
Indices: 3925214--3925333 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
3925204 ACAAGGGATG
3925214 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
*
3925270 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
3925326 ATGGGCAA
1 ATGGGCAA
3925334 TAAACTAATA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
Found at i:3926833 original size:47 final size:47
Alignment explanation
Indices: 3926779--3927281 Score: 701
Period size: 47 Copynumber: 10.6 Consensus size: 47
3926769 TATTTGAATA
*
3926779 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
3926826 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
3926875 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGACCAATGTGATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
*
3926924 AATGTGAACA-TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
3926971 AATGTGAACA-TGCATATATGAGATAAGGCCGAATGACCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
3927018 AATGTGAAAGTGTATATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
3927067 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
3927114 AAGGTGAACA-TGCATATATGAGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* *
3927161 AATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
3927208 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
* * *
3927255 GATGTGGAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
3927282 TCCCGAAGGG
Statistics
Matches: 416, Mismatches: 32, Indels: 16
0.90 0.07 0.03
Matches are distributed among these distances:
46 2 0.00
47 281 0.68
49 131 0.31
50 2 0.00
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.27
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
Found at i:3927051 original size:143 final size:143
Alignment explanation
Indices: 3926776--3927260 Score: 730
Period size: 143 Copynumber: 3.4 Consensus size: 143
3926766 GTATATTTGA
*
3926776 ATAAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAA-AGTGTA
1 ATAAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TG--
* * * *
3926840 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGG
63 CATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGG
*
3926905 CCGAATGACCAATGTG
128 CCGAATGGCCAATGTG
*
3926921 ATAAATGTGAACA-TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
1 ATAAATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
*
3926985 TATATGAGATAAGGCCGAATGACCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
65 TATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
3927050 GAATGGCCAATGTG
130 GAATGGCCAATGTG
* * * *
3927064 ATGAATGTGAACA-TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAAGGTGAACATGCA
1 ATAAATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCA
* *
3927128 TATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TG--TGTATGTGTGATAAGGC
65 TATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTATATATATGTGATAAGGC
3927190 CGAATGGCCAATGTG
129 CGAATGGCCAATGTG
* *
3927205 ATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTG
1 ATAAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
3927261 GAAGTGTATA
Statistics
Matches: 318, Mismatches: 18, Indels: 12
0.91 0.05 0.03
Matches are distributed among these distances:
140 1 0.00
141 80 0.25
143 178 0.56
144 1 0.00
145 56 0.18
146 2 0.01
ACGTcount: A:0.34, C:0.10, G:0.29, T:0.27
Consensus pattern (143 bp):
ATAAATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCAT
ATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCG
AATGGCCAATGTG
Found at i:3929912 original size:40 final size:40
Alignment explanation
Indices: 3929562--3929984 Score: 469
Period size: 40 Copynumber: 10.6 Consensus size: 40
3929552 TCGAATGATG
* *
3929562 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TATA
* * * * *
3929602 TCCGGACTAAGAT-CCGAAG-GCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGAGCATTCGTGCTAGTGA-TATA
* * * *
3929642 TCCGGGTTAAGTCCCGAAG-GCATTTGTGCGAGTTACTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGA-TATA
* * *
3929682 ACCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* ** *
3929722 TCCGGGCTAAGTTCCGAAGAGCATTTATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* *
3929762 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* *
3929802 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* *
3929842 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
3929882 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* * ** * * *
3929922 TCTGTGCTAAACCCCGAAGAGCATTCGTGTTGGTGTTATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
3929962 TCCGGGCTAGGTCCCGAAGAGCA
1 TCCGGGCTAAGTCCCGAAGAGCA
3929985 ATCATGCTGG
Statistics
Matches: 341, Mismatches: 38, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
39 1 0.00
40 321 0.94
41 19 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
Found at i:3931344 original size:55 final size:56
Alignment explanation
Indices: 3931260--3931378 Score: 222
Period size: 55 Copynumber: 2.1 Consensus size: 56
3931250 ACAAGGGATG
*
3931260 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAA-AATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATAGAAGAATAAAATAAGAAGC
3931315 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATAGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATAGAAGAATAAAATAAGAAGC
3931371 ATGGGCAA
1 ATGGGCAA
3931379 TAAACTAATA
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
55 39 0.63
56 23 0.37
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATAGAAGAATAAAATAAGAAGC
Found at i:3932898 original size:18 final size:16
Alignment explanation
Indices: 3932867--3932900 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
3932857 GTGATGAATG
3932867 TGAAAGTGTATATATA
1 TGAAAGTGTATATATA
3932883 TGAAAGTGTATATATA
1 TGAAAGTGTATATATA
3932899 TG
1 TG
3932901 TGATAAGGCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.21, T:0.38
Consensus pattern (16 bp):
TGAAAGTGTATATATA
Found at i:3937434 original size:32 final size:33
Alignment explanation
Indices: 3937394--3937469 Score: 100
Period size: 34 Copynumber: 2.3 Consensus size: 33
3937384 ATCTAAATAT
* *
3937394 ATATATATGGTAATT-GCTTTTTATTAATTTTA
1 ATATATATGGTAATTAGCTTTTTATTAACTTCA
* *
3937426 ATATATATGGTAATTACTCTTTTTATTACCTTCA
1 ATATATATGGTAATTA-GCTTTTTATTAACTTCA
3937460 ATATATATGG
1 ATATATATGG
3937470 CAATAATATT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
32 15 0.39
34 23 0.61
ACGTcount: A:0.32, C:0.08, G:0.09, T:0.51
Consensus pattern (33 bp):
ATATATATGGTAATTAGCTTTTTATTAACTTCA
Found at i:3937510 original size:47 final size:46
Alignment explanation
Indices: 3937424--3937581 Score: 210
Period size: 47 Copynumber: 3.3 Consensus size: 46
3937414 TTATTAATTT
* *
3937424 TAATATATATGGTAAT-TACTCTTTTTATTACCTTCAATATATATGGCAA
1 TAATAT-TATGGTAATGT--TCTTTTCATTGCCTT-AATATATATGGCAA
3937473 TAATATTATGGTAATGTTCTTTTCATTGCCTGTAATATATATGGCAA
1 TAATATTATGGTAATGTTCTTTTCATTGCCT-TAATATATATGGCAA
* * *
3937520 TAATATTGTGGTAATGTTCTTTTCATTGACTTTAATATATATGGTAA
1 TAATATTATGGTAATGTTCTTTTCATTG-CCTTAATATATATGGCAA
3937567 TAATATTATGGTAAT
1 TAATATTATGGTAAT
3937582 TGCTATTTTA
Statistics
Matches: 100, Mismatches: 6, Indels: 8
0.88 0.05 0.07
Matches are distributed among these distances:
47 81 0.81
48 12 0.12
49 7 0.07
ACGTcount: A:0.32, C:0.09, G:0.13, T:0.46
Consensus pattern (46 bp):
TAATATTATGGTAATGTTCTTTTCATTGCCTTAATATATATGGCAA
Found at i:3937578 original size:14 final size:15
Alignment explanation
Indices: 3937552--3937581 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
3937542 TCATTGACTT
3937552 TAATATATATGGTAA
1 TAATATATATGGTAA
3937567 TAATAT-TATGGTAA
1 TAATATATATGGTAA
3937581 T
1 T
3937582 TGCTATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.43, C:0.00, G:0.13, T:0.43
Consensus pattern (15 bp):
TAATATATATGGTAA
Found at i:3939364 original size:13 final size:13
Alignment explanation
Indices: 3939346--3939373 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
3939336 TTTTTAGAGC
3939346 TTCAACTTGACCA
1 TTCAACTTGACCA
3939359 TTCAACTTGACCA
1 TTCAACTTGACCA
3939372 TT
1 TT
3939374 TAAGTTCAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.29, G:0.07, T:0.36
Consensus pattern (13 bp):
TTCAACTTGACCA
Found at i:3940779 original size:9 final size:8
Alignment explanation
Indices: 3940757--3940806 Score: 50
Period size: 9 Copynumber: 6.1 Consensus size: 8
3940747 TTATTCTAGA
3940757 AATTTTTT
1 AATTTTTT
3940765 AATTTTTT
1 AATTTTTT
3940773 AATTTTTTT
1 AA-TTTTTT
*
3940782 AACTTTCTT
1 AA-TTTTTT
3940791 --TTTTTT
1 AATTTTTT
3940797 ATATTTTTT
1 A-ATTTTTT
3940806 A
1 A
3940807 GAAGTTTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
6 5 0.14
8 10 0.29
9 20 0.57
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (8 bp):
AATTTTTT
Found at i:3940833 original size:18 final size:18
Alignment explanation
Indices: 3940812--3940877 Score: 69
Period size: 18 Copynumber: 3.6 Consensus size: 18
3940802 TTTTAGAAGT
3940812 TTTTTGAAATATTTATAA
1 TTTTTGAAATATTTATAA
* * *
3940830 TTTTTAAAAAATATATAA
1 TTTTTGAAATATTTATAA
* *
3940848 ATTTTGAAATTTTTATAAA
1 TTTTTGAAATATTTAT-AA
3940867 TATTTTGAAAT
1 T-TTTTGAAAT
3940878 TTAAAATTAC
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
18 26 0.70
19 2 0.05
20 9 0.24
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.52
Consensus pattern (18 bp):
TTTTTGAAATATTTATAA
Found at i:3943231 original size:30 final size:30
Alignment explanation
Indices: 3943195--3943429 Score: 312
Period size: 30 Copynumber: 7.8 Consensus size: 30
3943185 ACTTTTCTCA
* *
3943195 ACTAGCCACTCCTTTTTCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
3943225 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
* *
3943255 ACTAGCCACTCTTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
*
3943285 ACTAGCCACACCTTTTCCACCACCAACTCT
1 ACTAGCCACACCTTTTCCACCACCAACTCC
* *
3943315 ACTAGCCACTCTTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
*
3943345 ACTAGCCACACCTTTTCCACCACCAAATCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
* ** *
3943375 ACTAGCCACA-CTTGCTCCATTACCTACTCC
1 ACTAGCCACACCTT-TTCCACCACCAACTCC
* *
3943405 ACTAACCACA-CTTGCTCCACCACCA
1 ACTAGCCACACCTT-TTCCACCACCA
3943430 CTTGTACCTA
Statistics
Matches: 182, Mismatches: 22, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
29 3 0.02
30 179 0.98
ACGTcount: A:0.26, C:0.47, G:0.04, T:0.23
Consensus pattern (30 bp):
ACTAGCCACACCTTTTCCACCACCAACTCC
Found at i:3943260 original size:60 final size:60
Alignment explanation
Indices: 3943195--3943429 Score: 348
Period size: 60 Copynumber: 3.9 Consensus size: 60
3943185 ACTTTTCTCA
3943195 ACTAGCCACTCCTTTTT-CACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACT-CTTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCC
*
3943255 ACTAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCT
1 ACTAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCC
*
3943315 ACTAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAAATCC
1 ACTAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCC
* ** ** * * *
3943375 ACTAGCCACACTTGCTCCATTACCTACTCCACTAACCACA-CTTGCTCCACCACCA
1 ACTAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACCTT-TTCCACCACCA
3943430 CTTGTACCTA
Statistics
Matches: 162, Mismatches: 11, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
59 9 0.06
60 153 0.94
ACGTcount: A:0.26, C:0.47, G:0.04, T:0.23
Consensus pattern (60 bp):
ACTAGCCACTCTTTTTCCACCACCAACTCCACTAGCCACACCTTTTCCACCACCAACTCC
Found at i:3943945 original size:23 final size:23
Alignment explanation
Indices: 3943918--3944045 Score: 70
Period size: 23 Copynumber: 5.5 Consensus size: 23
3943908 CCTTTTTTGT
3943918 TATTATTATATTTCTTAATATTA
1 TATTATTATATTTCTTAATATTA
* *
3943941 TATTA-TATATATTCTT-TTAATA
1 TATTATTATAT-TTCTTAATATTA
* *
3943963 TATTAGGTATATTT-TAAAT-TCTA
1 TATTA-TTATATTTCTTAATAT-TA
* *
3943986 TATTACATATATATT-TT-ATACTA
1 TATTA-TTATAT-TTCTTAATATTA
* *
3944009 TTTTATGTATATATCTTTAATATTA
1 TATTAT-TATATTTC-TTAATATTA
3944034 TATTATATATAT
1 TATTAT-TATAT
3944046 ATATATTTTT
Statistics
Matches: 79, Mismatches: 15, Indels: 20
0.69 0.13 0.18
Matches are distributed among these distances:
22 16 0.20
23 38 0.48
24 10 0.13
25 15 0.19
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.57
Consensus pattern (23 bp):
TATTATTATATTTCTTAATATTA
Found at i:3944020 original size:25 final size:25
Alignment explanation
Indices: 3943992--3944130 Score: 88
Period size: 25 Copynumber: 5.5 Consensus size: 25
3943982 TCTATATTAC
*
3943992 ATATATATTTTATACTATTTTATGT
1 ATATATATTTTATACTATATTATGT
* * * *
3944017 ATATATCTTTAATATTATATTATATAT
1 ATATATATTTTATACTATA-T-TATGT
* * *
3944044 ATATATATTTTTTAC-ATGTTATCTT
1 ATATATATTTTATACTATATTAT-GT
*
3944069 ATGTATATATCTTA-ACTATATTATGT
1 A--TATATATTTTATACTATATTATGT
* *
3944095 ATGTAT-TTTTAACACTATATTATGT
1 ATATATATTTT-ATACTATATTATGT
*
3944120 ACATAT-TTTTA
1 ATATATATTTTA
3944131 ATATTATCAC
Statistics
Matches: 87, Mismatches: 19, Indels: 17
0.71 0.15 0.14
Matches are distributed among these distances:
23 3 0.03
24 9 0.10
25 38 0.44
26 7 0.08
27 30 0.34
ACGTcount: A:0.34, C:0.06, G:0.04, T:0.55
Consensus pattern (25 bp):
ATATATATTTTATACTATATTATGT
Found at i:3944040 original size:21 final size:21
Alignment explanation
Indices: 3943984--3944052 Score: 63
Period size: 21 Copynumber: 3.3 Consensus size: 21
3943974 TTTTAAATTC
*
3943984 TATATTACA-TATATATTTTA
1 TATATTATATTATATATTTTA
*
3944004 TACTATTTTATGTATATATCTTTA
1 TA-TATTATAT-TATATAT-TTTA
*
3944028 -ATATTATATTATATA-TATA
1 TATATTATATTATATATTTTA
3944047 TATATT
1 TATATT
3944053 TTTTACATGT
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
19 3 0.08
20 7 0.17
21 11 0.28
22 7 0.17
23 8 0.20
24 4 0.10
ACGTcount: A:0.38, C:0.04, G:0.01, T:0.57
Consensus pattern (21 bp):
TATATTATATTATATATTTTA
Found at i:3945870 original size:12 final size:12
Alignment explanation
Indices: 3945853--3945888 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
3945843 ATTCATTTGA
*
3945853 CATTCATGCATT
1 CATTCATACATT
3945865 CATTCATACATT
1 CATTCATACATT
3945877 CATTCATACATT
1 CATTCATACATT
3945889 GCATATCCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.31, C:0.25, G:0.03, T:0.42
Consensus pattern (12 bp):
CATTCATACATT
Found at i:3954320 original size:72 final size:72
Alignment explanation
Indices: 3954097--3954612 Score: 517
Period size: 72 Copynumber: 6.9 Consensus size: 72
3954087 CTTTTCAAGG
* * * *
3954097 AAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCAAGACACGTTGAGGTACTTTTAATTT-T
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGACACGCTGAGGTAATTTCAATTTCT
*
3954161 GTTTTTC-
65 GTTTGTCA
*
3954168 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACA--CTGAGGTAATTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA-GACACGCTGAGGTAATTTCAATTTCT
3954231 GTTTGTCA
65 GTTTGTCA
3954239 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACGCTGAGGTAATTTCAATTTCTG
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACGCTGAGGTAATTTCAATTTCTG
3954304 TTTGTCA
66 TTTGTCA
* * *
3954311 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCACATGCTGAGGT-TTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG-ACACGCTGAGGTAATTTCAATTTCT
*
3954375 GTTTTCAATTTCTGTTCGT
65 G--------TT-TG-TC-A
** * * * * * *
3954394 AAAAAAAAATCA-ACT-C-ATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTT
1 AAAATCAACTCATATTGCGAGA--G-GTGAGTTGAG-----CCTCA-GACACGCTGAGGTA-ATT
* *
3954456 TAAATTTCTGTTTTTCA
56 TCAATTTCTGTTTGTCA
*
3954473 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCTGAGGTAATTTCAATTTCTG
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACGCTGAGGTAATTTCAATTTCTG
3954538 TTTGTCA
66 TTTGTCA
* * * **
3954545 AAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCACATGCTGAGGTCTTTTCAATTTCT
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG-ACACGCTGAGGTAATTTCAATTTCT
3954610 GTT
65 GTT
3954613 CTTCAATTTC
Statistics
Matches: 375, Mismatches: 38, Indels: 62
0.79 0.08 0.13
Matches are distributed among these distances:
69 15 0.04
70 12 0.03
71 76 0.20
72 133 0.35
73 50 0.13
74 4 0.01
79 17 0.05
80 9 0.02
81 5 0.01
82 9 0.02
83 17 0.05
88 15 0.04
89 1 0.00
90 12 0.03
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (72 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGACACGCTGAGGTAATTTCAATTTCTG
TTTGTCA
Found at i:3954381 original size:13 final size:13
Alignment explanation
Indices: 3954363--3954390 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
3954353 ATGCTGAGGT
3954363 TTTTCAATTTCTG
1 TTTTCAATTTCTG
3954376 TTTTCAATTTCTG
1 TTTTCAATTTCTG
3954389 TT
1 TT
3954391 CGTAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.64
Consensus pattern (13 bp):
TTTTCAATTTCTG
Found at i:3954574 original size:234 final size:238
Alignment explanation
Indices: 3954168--3955103 Score: 1644
Period size: 235 Copynumber: 4.0 Consensus size: 238
3954158 TTTGTTTTTC
* * *
3954168 AAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCAGGACA--CTGAGGTA-ATTTCAATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTC
* *
3954230 TGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-AGACACGCTGAGGTAATT
66 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATT
*
3954294 TCAATTTCTGTTTGTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG-CACATGCT
131 TCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCCACATGCT
3954358 GAGGT-TTTTCAATTTCTGTT-TTCAATTTCTGTTCGTAAAAA
196 GAGGTCTTTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAAA
3954399 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTC
3954464 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTGAGGTAATT
66 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATT
3954528 TCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG-CACATGCT
131 TCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCCACATGCT
3954592 GAGGTCTTTTCAATTTCTGTTCTTCAATTTCTGTTCGT-AAAA
196 GAGGTCTTTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAAA
3954634 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTC
3954699 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACA-GCTGAGGTAATT
66 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATT
*
3954763 TCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATTC
131 TCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGC-CACATGC
*
3954828 TGAGGTTTTTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAAA
195 TGAGGTCTTTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAAA
3954872 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTC
1 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTC
*
3954937 TGTTTTTCAAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAAT
66 TGTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAAT
* *
3955002 TTCAATTTCTGTTTGTCAAAAATTAACCCATATTGCGAGAGGTGAGTTGAGTCTCGGCTCACATG
130 TTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGC-CACATG
*
3955067 CTGAGGTCTTTTTAATTTCTGCTT-TTCAATTTCTGTT
194 CTGAGGTCTTTTCAATTTCTG-TTCTTCAATTTCTGTT
3955104 TTTTCAATTT
Statistics
Matches: 679, Mismatches: 14, Indels: 15
0.96 0.02 0.02
Matches are distributed among these distances:
231 42 0.06
233 8 0.01
234 139 0.20
235 198 0.29
236 21 0.03
237 44 0.06
238 77 0.11
239 43 0.06
240 105 0.15
241 2 0.00
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.34
Consensus pattern (238 bp):
AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATTTC
TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATT
TCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCCACATGCT
GAGGTCTTTTCAATTTCTGTTCTTCAATTTCTGTTCGTAAAAA
Found at i:3954619 original size:14 final size:14
Alignment explanation
Indices: 3954600--3954627 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
3954590 CTGAGGTCTT
3954600 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
3954614 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
3954628 GTAAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.07, T:0.57
Consensus pattern (14 bp):
TTCAATTTCTGTTC
Found at i:3954682 original size:89 final size:88
Alignment explanation
Indices: 3954527--3954708 Score: 260
Period size: 89 Copynumber: 2.1 Consensus size: 88
3954517 CTGAGGTAAT
* * * *
3954527 TTCAATTTCTGTTTGTCAAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCACATGCT
1 TTCAATTTCTGTTCGTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCACACGCT
*
3954592 GAGGT-CTTTTCAATTTCTGTTC
66 GAGGTACTTTTAAATTTCTGTTC
3954614 TTCAATTTCTGTTCGTAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACAC
1 TTCAATTTCTGTTCGT--AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCACAC
* *
3954678 GCTGAGGTATTTTTAAATTTCTGTTT
63 GCTGAGGTACTTTTAAATTTCTGTTC
3954704 TTCAA
1 TTCAA
3954709 AAATCAACTC
Statistics
Matches: 84, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
87 15 0.18
89 48 0.57
90 21 0.25
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (88 bp):
TTCAATTTCTGTTCGTAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCACACGCT
GAGGTACTTTTAAATTTCTGTTC
Found at i:3954856 original size:14 final size:14
Alignment explanation
Indices: 3954837--3954864 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
3954827 CTGAGGTTTT
3954837 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
3954851 TTCAATTTCTGTTC
1 TTCAATTTCTGTTC
3954865 GTAAAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.21, G:0.07, T:0.57
Consensus pattern (14 bp):
TTCAATTTCTGTTC
Found at i:3954929 original size:92 final size:89
Alignment explanation
Indices: 3954779--3954946 Score: 230
Period size: 92 Copynumber: 1.8 Consensus size: 89
3954769 TCTGTTTGTC
* ** *
3954779 AAAAATTAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCTCACATTCTGAGGTTTTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG--CACACGCTGAGG-TTTTTAAATT
3954844 TCTGTTCTTCAATTTCTGTTCGTAAAA
63 TCTGTTCTTCAATTTCTGTTCGTAAAA
3954871 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACACGCTGAGGTATTTTTAAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGCACACGCTGAGG--TTTTTAAATT
*
3954935 TCTGTTTTTCAA
63 TCTGTTCTTCAA
3954947 AAAATCAACT
Statistics
Matches: 68, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
90 9 0.13
91 20 0.29
92 37 0.54
93 2 0.03
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.36
Consensus pattern (89 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCACACGCTGAGGTTTTTAAATTTCT
GTTCTTCAATTTCTGTTCGTAAAA
Found at i:3954979 original size:75 final size:73
Alignment explanation
Indices: 3954870--3955095 Score: 301
Period size: 75 Copynumber: 3.0 Consensus size: 73
3954860 TGTTCGTAAA
3954870 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTTAAATT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTGAGGTATTTTT-AATT
3954935 TCTGTTTTTC
64 TCTGTTTTTC
* * *
3954945 AAAAAATCAACTCATATTGCGAAAGGTGAGTTGAGCCTCGGGACACGCTGAGGTAATTTCAATTT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGACACGCTGAGGTATTTTTAATTT
*
3955010 CTGTTTGTC
65 CTGTTTTTC
* * * * *
3955019 -AAAAATTAACCCATATTGCGAGAGGTGAGTTGAGTCTCGGCTCACATGCTGAGGTCTTTTTAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG---ACACGCTGAGGTATTTTTAAT
*
3955083 TTCTGCTTTTC
63 TTCTGTTTTTC
3955094 AA
1 AA
3955096 TTTCTGTTTT
Statistics
Matches: 132, Mismatches: 15, Indels: 7
0.86 0.10 0.05
Matches are distributed among these distances:
72 2 0.02
73 34 0.26
74 13 0.10
75 82 0.62
76 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (73 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGACACGCTGAGGTATTTTTAATTTC
TGTTTTTC
Found at i:3955097 original size:14 final size:15
Alignment explanation
Indices: 3955072--3955113 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
3955062 ACATGCTGAG
*
3955072 GTCTTTTTAATTTCT
1 GTCTTTTCAATTTCT
3955087 G-CTTTTCAATTTCT
1 GTCTTTTCAATTTCT
*
3955101 GTTTTTTCAATTT
1 GTCTTTTCAATTT
3955114 ATATTTTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 13 0.54
15 11 0.46
ACGTcount: A:0.14, C:0.14, G:0.07, T:0.64
Consensus pattern (15 bp):
GTCTTTTCAATTTCT
Found at i:3955109 original size:15 final size:14
Alignment explanation
Indices: 3955075--3955124 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
3955065 TGCTGAGGTC
3955075 TTTTT-AATTTCTG
1 TTTTTCAATTTCTG
*
3955088 CTTTTCAATTTCTG
1 TTTTTCAATTTCTG
* *
3955102 TTTTTTCAATTTATA
1 -TTTTTCAATTTCTG
3955117 TTTTTCAA
1 TTTTTCAA
3955125 AAATCCACTC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
13 4 0.13
14 16 0.52
15 11 0.35
ACGTcount: A:0.20, C:0.12, G:0.04, T:0.64
Consensus pattern (14 bp):
TTTTTCAATTTCTG
Found at i:3955905 original size:30 final size:30
Alignment explanation
Indices: 3955869--3956093 Score: 258
Period size: 30 Copynumber: 7.8 Consensus size: 30
3955859 ACTTTTCTCA
*
3955869 ACTAGCCACTCCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
3955899 ACTAGCCACACCTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
* *
3955929 ACTAGCCACTCTTTTTCCACCACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
3955959 ACTAGCCACACCTTTT----CACC-ACT-C
1 ACTAGCCACACCTTTTCCACCACCAACTCC
*
3955983 ACTAGCCAC-TC-TTTCCA-CACCAACTCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
3956010 ACTAGCCACACCTTTTCCACCACCAA-TCC
1 ACTAGCCACACCTTTTCCACCACCAACTCC
* ** *
3956039 ACTAGCCACA-CTTGCTCCATTACCTACTCC
1 ACTAGCCACACCTT-TTCCACCACCAACTCC
* *
3956069 ACTAACCACA-CTTGCTCCACCACCA
1 ACTAGCCACACCTT-TTCCACCACCA
3956094 CTTGTACCTA
Statistics
Matches: 170, Mismatches: 15, Indels: 20
0.83 0.07 0.10
Matches are distributed among these distances:
22 3 0.02
23 1 0.01
24 10 0.06
25 7 0.04
26 7 0.04
27 10 0.06
28 4 0.02
29 27 0.16
30 101 0.59
ACGTcount: A:0.26, C:0.48, G:0.04, T:0.23
Consensus pattern (30 bp):
ACTAGCCACACCTTTTCCACCACCAACTCC
Found at i:3956613 original size:23 final size:23
Alignment explanation
Indices: 3956576--3956705 Score: 72
Period size: 25 Copynumber: 5.5 Consensus size: 23
3956566 CCTTTTTTGT
3956576 TATTAT-TATATTTCTTAATATTA
1 TATTATATATA-TTCTTAATATTA
* *
3956599 TATTATATATATTCTT-TTAATA
1 TATTATATATATTCTTAATATTA
**
3956621 TATTAGGTATATT-TTAA-ATTCTA
1 TATTATATATATTCTTAATA-T-TA
* *
3956644 TATTACGTATATATAT-TTTATACTA
1 TATTA--TATATAT-TCTTAATATTA
* *
3956669 TTTTATGTATATATCTTTAATATTA
1 TATTATATATAT-TC-TTAATATTA
*
3956694 TATTATTTATAT
1 TATTATATATAT
3956706 ATATATATAT
Statistics
Matches: 81, Mismatches: 16, Indels: 18
0.70 0.14 0.16
Matches are distributed among these distances:
21 3 0.04
22 15 0.19
23 26 0.32
24 4 0.05
25 28 0.35
26 4 0.05
27 1 0.01
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.58
Consensus pattern (23 bp):
TATTATATATATTCTTAATATTA
Found at i:3956716 original size:16 final size:17
Alignment explanation
Indices: 3956662--3956717 Score: 50
Period size: 16 Copynumber: 3.6 Consensus size: 17
3956652 ATATATATTT
*
3956662 TATACTATTT-TATGTA
1 TATACTATTTATATATA
*
3956678 TATA-TCTTTA-ATAT-
1 TATACTATTTATATATA
*
3956692 TATATTATTTATATATA
1 TATACTATTTATATATA
3956709 TATA-TATTT
1 TATACTATTT
3956718 TTTACATGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
14 4 0.12
15 12 0.36
16 13 0.39
17 4 0.12
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.59
Consensus pattern (17 bp):
TATACTATTTATATATA
Found at i:3956757 original size:22 final size:24
Alignment explanation
Indices: 3956731--3956789 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
3956721 ACATGTTATC
3956731 TTATGTATATATCTT-A-ACTATA
1 TTATGTATATATCTTAACACTATA
* *
3956753 TTATGTATGTATTTTTAACACTATA
1 TTATGTATATA-TCTTAACACTATA
*
3956778 TTATGTACATAT
1 TTATGTATATAT
3956790 TTTTAATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
22 10 0.33
23 3 0.10
24 2 0.07
25 15 0.50
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.51
Consensus pattern (24 bp):
TTATGTATATATCTTAACACTATA
Found at i:3956779 original size:25 final size:25
Alignment explanation
Indices: 3956747--3956795 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
3956737 ATATATCTTA
**
3956747 ACTATATTATGTATGTATTTTTAAC
1 ACTATATTATGTACATATTTTTAAC
3956772 ACTATATTATGTACATATTTTTAA
1 ACTATATTATGTACATATTTTTAA
3956796 TATTATCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.51
Consensus pattern (25 bp):
ACTATATTATGTACATATTTTTAAC
Found at i:3956969 original size:16 final size:15
Alignment explanation
Indices: 3956945--3956992 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
3956935 TAATTATTAT
*
3956945 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
3956961 TATTTTAATATTTTA
1 TATTTTAATATTTTA
3956976 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
3956992 T
1 T
3956993 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:3956980 original size:7 final size:8
Alignment explanation
Indices: 3956945--3956996 Score: 61
Period size: 8 Copynumber: 6.5 Consensus size: 8
3956935 TAATTATTAT
*
3956945 TATTCTAA
1 TATTTTAA
*
3956953 TATTTTGA
1 TATTTTAA
3956961 TATTTTAA
1 TATTTTAA
3956969 TATTTT-A
1 TATTTTAA
3956976 TATTTTATA
1 TATTTTA-A
*
3956985 TATTTTAT
1 TATTTTAA
3956993 TATT
1 TATT
3956997 CACATCATTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
7 7 0.18
8 23 0.61
9 8 0.21
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (8 bp):
TATTTTAA
Found at i:3961031 original size:6 final size:6
Alignment explanation
Indices: 3961020--3961047 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
3961010 TTAATTATAG
3961020 TATAAA TATAAA TATAAA TATAAA TATA
1 TATAAA TATAAA TATAAA TATAAA TATA
3961048 TACTTAAGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (6 bp):
TATAAA
Found at i:3963858 original size:24 final size:24
Alignment explanation
Indices: 3963831--3963881 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
3963821 TTCTGAGAAA
* *
3963831 TTTAAATTTTTTTCTTTTATGTTT
1 TTTAAATTTCTTTCTTTTATCTTT
* *
3963855 TTTAACTTTCTTTCTTTTTTCTTT
1 TTTAAATTTCTTTCTTTTATCTTT
3963879 TTT
1 TTT
3963882 CTTTTCCATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.12, C:0.10, G:0.02, T:0.76
Consensus pattern (24 bp):
TTTAAATTTCTTTCTTTTATCTTT
Found at i:3963877 original size:7 final size:7
Alignment explanation
Indices: 3963838--3963886 Score: 53
Period size: 7 Copynumber: 6.6 Consensus size: 7
3963828 AAATTTAAAT
3963838 TTTTTTC
1 TTTTTTC
* *
3963845 TTTTATG
1 TTTTTTC
3963852 TTTTTTAAC
1 TTTTTT--C
3963861 TTTCTTTC
1 TTT-TTTC
3963869 TTTTTTC
1 TTTTTTC
3963876 TTTTTTC
1 TTTTTTC
3963883 TTTT
1 TTTT
3963887 CCATTCTTTC
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
7 25 0.71
8 4 0.11
9 3 0.09
10 3 0.09
ACGTcount: A:0.06, C:0.12, G:0.02, T:0.80
Consensus pattern (7 bp):
TTTTTTC
Found at i:3970443 original size:19 final size:19
Alignment explanation
Indices: 3970419--3970456 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
3970409 TTCATATGTC
3970419 AATATTACAAAGTCGACAG
1 AATATTACAAAGTCGACAG
3970438 AATATTACAAAGTCGACAG
1 AATATTACAAAGTCGACAG
3970457 TCACCAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.16, G:0.16, T:0.21
Consensus pattern (19 bp):
AATATTACAAAGTCGACAG
Found at i:3971718 original size:46 final size:46
Alignment explanation
Indices: 3971648--3971840 Score: 237
Period size: 46 Copynumber: 4.2 Consensus size: 46
3971638 GATCAAATTA
** *
3971648 ATTGAAGAAGCCACAAATCATATACCCCTAAGTTGCAGTGGGATAG
1 ATTGAAGAAGATACAAATCCTATACCCCTAAGTTGCAGTGGGATAG
* *
3971694 ATTGAAGAAGATACAAATCCTATACCCCTGAA-TTACAGTGGGATGG
1 ATTGAAGAAGATACAAATCCTATACCCCT-AAGTTGCAGTGGGATAG
* * *
3971740 ATTGAAGAAGATATATATCCTATACCCCTAAGCTGCAGTGGGATAG
1 ATTGAAGAAGATACAAATCCTATACCCCTAAGTTGCAGTGGGATAG
* * * *
3971786 ATTGAAGATAG-TATAAATCCTATATCCTTGAGTTGCAGTGGGATAG
1 ATTGAAGA-AGATACAAATCCTATACCCCTAAGTTGCAGTGGGATAG
*
3971832 ATGGAAGAA
1 ATTGAAGAA
3971841 ACCGCAAATT
Statistics
Matches: 128, Mismatches: 16, Indels: 7
0.85 0.11 0.05
Matches are distributed among these distances:
45 3 0.02
46 121 0.95
47 4 0.03
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (46 bp):
ATTGAAGAAGATACAAATCCTATACCCCTAAGTTGCAGTGGGATAG
Found at i:3972350 original size:89 final size:89
Alignment explanation
Indices: 3972198--3972391 Score: 212
Period size: 89 Copynumber: 2.2 Consensus size: 89
3972188 AAATCTCAAC
* * * * * * * *
3972198 TCCCTAAAGTAGCAGTGGAGTAGATTGAAGTCATAGATCTTATCTCCTTAAAATTACAGTGGAGT
1 TCCCTAAAGTTGCAGTGGAGCAAATTGAAGCCATAGACCTTATCTCCCTAAAATTACAATGGAGC
**
3972263 AGA-TCAAAGATGGCGAATCTTATT
66 AGACT-AAAGACAGCGAATCTTATT
* * * *
3972287 TTCCTGAAGTTGCAGTGGAGCAAATTGAAGCCATCAG-CCTTATCTCCCTAAAGTTGCAATGGAG
1 TCCCTAAAGTTGCAGTGGAGCAAATTGAAGCCAT-AGACCTTATCTCCCTAAAATTACAATGGAG
*
3972351 CAGACTGAAGACAGCGAATCTTATT
65 CAGACTAAAGACAGCGAATCTTATT
*
3972376 TCCCTAAAATTGCAGT
1 TCCCTAAAGTTGCAGT
3972392 AGAATAGATT
Statistics
Matches: 85, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
89 82 0.96
90 3 0.04
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (89 bp):
TCCCTAAAGTTGCAGTGGAGCAAATTGAAGCCATAGACCTTATCTCCCTAAAATTACAATGGAGC
AGACTAAAGACAGCGAATCTTATT
Found at i:3972389 original size:45 final size:45
Alignment explanation
Indices: 3972275--3972389 Score: 124
Period size: 44 Copynumber: 2.6 Consensus size: 45
3972265 ATCAAAGATG
* * * * *
3972275 GCGAATCTTATTTTCCTGAAGTTGCAGTGGAGCAAATTGAAGCCA
1 GCGAATCTTATTTCCCTAAAGTTGCAATGGAGCAAACTGAAGACA
* ** * *
3972320 TC-AGCCTTATCTCCCTAAAGTTGCAATGGAGCAGACTGAAGACA
1 GCGAATCTTATTTCCCTAAAGTTGCAATGGAGCAAACTGAAGACA
*
3972364 GCGAATCTTATTTCCCTAAAATTGCA
1 GCGAATCTTATTTCCCTAAAGTTGCA
3972390 GTAGAATAGA
Statistics
Matches: 54, Mismatches: 15, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
44 34 0.63
45 20 0.37
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (45 bp):
GCGAATCTTATTTCCCTAAAGTTGCAATGGAGCAAACTGAAGACA
Found at i:3972605 original size:142 final size:142
Alignment explanation
Indices: 3972272--3972827 Score: 588
Period size: 143 Copynumber: 4.0 Consensus size: 142
3972262 TAGATCAAAG
* * * *
3972272 ATGGCGAATCTTATTTTCCTGAAGTTGCAGTGGAGCAAATTGAAGCCA-TCAGCCTTATCTCCCT
1 ATGGCGAATCTTATATTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACT-AACCTTATCTCTCT
** * * *
3972336 AAAGTTGCAATGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTAAAATTGCAGTAGAATAGAT
65 AAAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCT-AAGTTTCAGTGGAATAGAT
3972401 TAAAGCTACAAATT
129 TAAAGCTACAAATT
* *
3972415 ATGGCGAATCTTATATTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTGACCTTATCTCTATA
1 ATGGCGAATCTTATATTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTAACCTTATCTCTCTA
* * * *
3972480 AAGTTGCAGCAGAGCAGGCTGAAGAAAGCGGATCTTATTTCCCTGAAGTTTCAGTGGAAT-GATT
66 AAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCT-AAGTTTCAGTGGAATAGATT
* *
3972544 GAAGCTACGAATT
130 AAAGCTACAAATT
* * * * * *
3972557 ATGGCGGATCTCATCTTCCTGAAGTTACAGTGGAGCAGATTGAAGCCACCAACCTTATCTCTCTG
1 ATGGCGAATCTTATATTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTAACCTTATCTCTCTA
*
3972622 AAGTTGCAGCGGAGTAGACTGAAGACAGCGAATCTTATTTCCCTAACGTTGT-AGTGGAATAGAT
66 AAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTAA-GTT-TCAGTGGAATAGAT
3972686 TAAAGCTACAAATT
129 TAAAGCTACAAATT
* * * * * * * *
3972700 AT-G-G--TC-------CC-GAAGTTGTAGTGCAGTAGATTTAAGCCACCAGCCTTATCCCCCTA
1 ATGGCGAATCTTATATTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTAACCTTATCTCTCTA
* ** * *
3972753 AAGTTGCAGCGGAGCAGACTGAAGACCA-AGAATCTTATTTCCCTGAAGTCGCAGAGGAACAGAT
66 AAGTTGCAGCGGAGCAGACTGAAGA-CAGCGAATCTTATTTCCCT-AAGTTTCAGTGGAATAGAT
3972817 TGAAA-CTACAA
129 T-AAAGCTACAA
3972828 GTCGCAAACC
Statistics
Matches: 357, Mismatches: 48, Indels: 28
0.82 0.11 0.06
Matches are distributed among these distances:
131 94 0.26
132 9 0.03
139 2 0.01
141 3 0.01
142 123 0.34
143 125 0.35
144 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.26
Consensus pattern (142 bp):
ATGGCGAATCTTATATTCCTGAAGTTGCAGTGGAGCAGATTGAAGCCACTAACCTTATCTCTCTA
AAGTTGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTAAGTTTCAGTGGAATAGATTA
AAGCTACAAATT
Found at i:3973164 original size:179 final size:179
Alignment explanation
Indices: 3972832--3973166 Score: 402
Period size: 179 Copynumber: 1.9 Consensus size: 179
3972822 CTACAAGTCG
* * * * *
3972832 CAAACCTTATCTCTCTGAAGTTGCAGTGGTGCAGGTTGAAATTATCAATTCTTACCTCCTTGAAG
1 CAAACCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAATTACCAATTCTTACCTCCTTGAAG
* * * ** * *
3972897 TTCCAACGGAATAGATCGAAGTTACAAGTGTCTTCTTTCTGAAATTACATTGGAACAGATCGAAG
66 TTCCAACGGAATAGATCGAAGCTACAAATCTCTTCTCCCTAAAATTACATTGGAACAAATCGAAG
* * *
3972962 CCACAATCTTTATTTCTCTGAAGTTGCAGTAGAGTAGGATAAAAATACA
131 CCACAATCTTAATCTCCCTGAAGTTGCAGTAGAGTAGGATAAAAATACA
* * * *
3973011 CAAACTTTATCTCCCTTAAGTTGCAATGGAGCAGATTGAAATTACCAATTCTTATCTTCTTGAAG
1 CAAACCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAATTACCAATTCTTACCTCCTTGAAG
** * * * ** *
3973076 TTCCAGTGGAGTAGATCGATGCTACAAATCTCTTCTCCCTAAAATTATATTGGAGTAAATTGAAG
66 TTCCAACGGAATAGATCGAAGCTACAAATCTCTTCTCCCTAAAATTACATTGGAACAAATCGAAG
*
3973141 CCATAAGTC-TAATCTCCCTGAAGTTG
131 CCACAA-TCTTAATCTCCCTGAAGTTG
3973167 TAGTGGATTA
Statistics
Matches: 127, Mismatches: 28, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
179 125 0.98
180 2 0.02
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.32
Consensus pattern (179 bp):
CAAACCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAATTACCAATTCTTACCTCCTTGAAG
TTCCAACGGAATAGATCGAAGCTACAAATCTCTTCTCCCTAAAATTACATTGGAACAAATCGAAG
CCACAATCTTAATCTCCCTGAAGTTGCAGTAGAGTAGGATAAAAATACA
Found at i:3973522 original size:27 final size:27
Alignment explanation
Indices: 3973482--3973536 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
3973472 ACTCAGAAAC
*
3973482 CCTAGGCGCCGCAATGGCCACCAGCAA
1 CCTAGGCGCCGCAATGGCAACCAGCAA
*
3973509 CCTAGGCGCTGCAATGGCAACCAGCAA
1 CCTAGGCGCCGCAATGGCAACCAGCAA
3973536 C
1 C
3973537 TTCCGTGTGC
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:0.27, C:0.38, G:0.25, T:0.09
Consensus pattern (27 bp):
CCTAGGCGCCGCAATGGCAACCAGCAA
Found at i:3976255 original size:31 final size:30
Alignment explanation
Indices: 3976185--3976256 Score: 78
Period size: 29 Copynumber: 2.4 Consensus size: 30
3976175 TTACAACACA
* *
3976185 ATAACGTGACTAAAATGTAACATTTCAAAC
1 ATAAAGTGACTAAAATGTAACATTGCAAAC
3976215 ATAAA-TGACTAAAATGTAAC-TTAAGGCAAAC
1 ATAAAGTGACTAAAATGTAACATT---GCAAAC
3976246 A-AAAGTGACTA
1 ATAAAGTGACTA
3976257 TTTGGTAGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
28 2 0.06
29 15 0.42
30 7 0.19
31 12 0.33
ACGTcount: A:0.50, C:0.14, G:0.12, T:0.24
Consensus pattern (30 bp):
ATAAAGTGACTAAAATGTAACATTGCAAAC
Found at i:3976390 original size:29 final size:28
Alignment explanation
Indices: 3976337--3976391 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
3976327 CTCTTCATAA
* *
3976337 TTTTAGAATTTAATATCTGTGCTTTTAT
1 TTTTAGAATTTAATATCTCTACTTTTAT
*
3976365 TTTTAAGAATTTAATCTCTCTACTTTT
1 TTTT-AGAATTTAATATCTCTACTTTT
3976392 TAAATTTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 4 0.17
29 19 0.83
ACGTcount: A:0.25, C:0.11, G:0.07, T:0.56
Consensus pattern (28 bp):
TTTTAGAATTTAATATCTCTACTTTTAT
Found at i:3984443 original size:17 final size:17
Alignment explanation
Indices: 3984413--3984446 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
3984403 TATATCGAAT
3984413 ATATGTATAAATAAATA
1 ATATGTATAAATAAATA
3984430 ATAT-TATAATATAAATA
1 ATATGTATAA-ATAAATA
3984447 TTAAAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (17 bp):
ATATGTATAAATAAATA
Found at i:3985055 original size:16 final size:15
Alignment explanation
Indices: 3985030--3985062 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
3985020 AGCGCTCTCC
3985030 AACCTCACAAGAATA
1 AACCTCACAAGAATA
3985045 AACCATCACAAGAATA
1 AACC-TCACAAGAATA
3985061 AA
1 AA
3985063 TGGTGTATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.58, C:0.24, G:0.06, T:0.12
Consensus pattern (15 bp):
AACCTCACAAGAATA
Found at i:3988460 original size:22 final size:24
Alignment explanation
Indices: 3988408--3988460 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 24
3988398 TTATGCATTT
3988408 ATATATATATATAAAAGTTAGTTTG
1 ATATATATATATAAAAGTTAG-TTG
* *
3988433 A-CTATATATATAACA-TTA-TTG
1 ATATATATATATAAAAGTTAGTTG
3988454 ATATATA
1 ATATATA
3988461 AGAAAGTGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
21 4 0.17
22 4 0.17
23 3 0.12
24 12 0.50
25 1 0.04
ACGTcount: A:0.45, C:0.04, G:0.08, T:0.43
Consensus pattern (24 bp):
ATATATATATATAAAAGTTAGTTG
Found at i:3988689 original size:21 final size:22
Alignment explanation
Indices: 3988648--3988689 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
3988638 AATCATACGA
3988648 TAAAATGTAATATTTATGGTAT
1 TAAAATGTAATATTTATGGTAT
3988670 TAAAAT-TAA-ATTTAATGGTA
1 TAAAATGTAATATTT-ATGGTA
3988690 ATATATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.21
21 9 0.47
22 6 0.32
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.43
Consensus pattern (22 bp):
TAAAATGTAATATTTATGGTAT
Found at i:3988715 original size:20 final size:19
Alignment explanation
Indices: 3988670--3988716 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
3988660 TTTATGGTAT
* *
3988670 TAAAAT-TAAATTTAATGG
1 TAAAATATAAAATTAATAG
*
3988688 TAATATATAAAATTAATAG
1 TAAAATATAAAATTAATAG
3988707 TAAAAATATA
1 T-AAAATATA
3988717 GAAAATATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
18 5 0.22
19 11 0.48
20 7 0.30
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.36
Consensus pattern (19 bp):
TAAAATATAAAATTAATAG
Found at i:3992938 original size:34 final size:34
Alignment explanation
Indices: 3992900--3992967 Score: 118
Period size: 34 Copynumber: 2.0 Consensus size: 34
3992890 ACATAACGCA
* *
3992900 TAGTACAATAATGATAAATAAGATACTATAAAAT
1 TAGTACAATAATGATAAATAAAACACTATAAAAT
3992934 TAGTACAATAATGATAAATAAAACACTATAAAAT
1 TAGTACAATAATGATAAATAAAACACTATAAAAT
3992968 AATGCATAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.28
Consensus pattern (34 bp):
TAGTACAATAATGATAAATAAAACACTATAAAAT
Found at i:3995837 original size:14 final size:15
Alignment explanation
Indices: 3995803--3995836 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
3995793 TAAATTTTAA
*
3995803 AAAAATATTTAAACT
1 AAAAATAATTAAACT
*
3995818 AAAAATAATTAAATT
1 AAAAATAATTAAACT
3995833 AAAA
1 AAAA
3995837 TTCAAAGACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (15 bp):
AAAAATAATTAAACT
Found at i:3997016 original size:12 final size:12
Alignment explanation
Indices: 3996990--3997034 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
3996980 AAGGACCTCA
*
3996990 CATCATCATCAT
1 CATCGTCATCAT
* *
3997002 CATTGTCATCGT
1 CATCGTCATCAT
*
3997014 CATCGTCACCAT
1 CATCGTCATCAT
3997026 CATCGTCAT
1 CATCGTCAT
3997035 TGTCGTCATT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.24, C:0.33, G:0.09, T:0.33
Consensus pattern (12 bp):
CATCGTCATCAT
Found at i:3997330 original size:18 final size:18
Alignment explanation
Indices: 3997309--3997358 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
3997299 TTTTTTATAC
3997309 ATAATATTAATTTTTTTT
1 ATAATATTAATTTTTTTT
*
3997327 ATAAT-TAAGACTTTTTTTT
1 ATAATATTA-A-TTTTTTTT
3997346 ATAATATTTAATT
1 ATAATA-TTAATT
3997359 AAGACTTATT
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
17 2 0.08
18 6 0.23
19 15 0.58
20 1 0.04
21 2 0.08
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (18 bp):
ATAATATTAATTTTTTTT
Found at i:4005309 original size:46 final size:46
Alignment explanation
Indices: 4005252--4005345 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 46
4005242 GAAGAAAAAG
*
4005252 AAAAAAAATTAATGTGTACTGCCAATCTTTCAGGTGGCACCAGAGA
1 AAAAAAAATTAACGTGTACTGCCAATCTTTCAGGTGGCACCAGAGA
4005298 AAAAAAAATTAACGTGTACTGCCAATCTTTCAGGTGGCACCAGAGA
1 AAAAAAAATTAACGTGTACTGCCAATCTTTCAGGTGGCACCAGAGA
4005344 AA
1 AA
4005346 TTTAAAAAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.22
Consensus pattern (46 bp):
AAAAAAAATTAACGTGTACTGCCAATCTTTCAGGTGGCACCAGAGA
Found at i:4005728 original size:22 final size:23
Alignment explanation
Indices: 4005703--4005747 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
4005693 GGTTTTCAAT
*
4005703 TAAAA-AAAAGTAAAGA-AAAAAA
1 TAAAATAAAA-TAAAAACAAAAAA
4005725 TAAAATAAAATAAAAACAAAAAA
1 TAAAATAAAATAAAAACAAAAAA
4005748 AGTACAATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 10 0.50
23 10 0.50
ACGTcount: A:0.82, C:0.02, G:0.04, T:0.11
Consensus pattern (23 bp):
TAAAATAAAATAAAAACAAAAAA
Found at i:4005971 original size:47 final size:47
Alignment explanation
Indices: 4005913--4006017 Score: 149
Period size: 47 Copynumber: 2.2 Consensus size: 47
4005903 TTTTATTATC
* *
4005913 TATTTTCCATATATGTTATTTTTTTTCC-TTTCTCATATTTAATTCTG
1 TATTTTCCATATATGTTATTCTCTTTCCTTTTCT-ATATTTAATTCTG
* * *
4005960 TATTTTTCATATATGTTATTCTCTTTCCTTTTCTATATTTGATTCTT
1 TATTTTCCATATATGTTATTCTCTTTCCTTTTCTATATTTAATTCTG
4006007 TATTTTCCATA
1 TATTTTCCATA
4006018 AAATATTAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
47 46 0.90
48 5 0.10
ACGTcount: A:0.19, C:0.15, G:0.04, T:0.62
Consensus pattern (47 bp):
TATTTTCCATATATGTTATTCTCTTTCCTTTTCTATATTTAATTCTG
Found at i:4005997 original size:24 final size:24
Alignment explanation
Indices: 4005936--4006005 Score: 58
Period size: 23 Copynumber: 3.0 Consensus size: 24
4005926 TGTTATTTTT
*
4005936 TTTCC-TTTCTCATATTTAATTCTG
1 TTTCCTTTTCT-ATATTTAATTCTC
*
4005960 TAT--TTTTCATATATGTT-ATTCTC
1 TTTCCTTTTC-TATAT-TTAATTCTC
*
4005983 TTTCCTTTTCTATATTTGATTCT
1 TTTCCTTTTCTATATTTAATTCT
4006006 TTATTTTCCA
Statistics
Matches: 37, Mismatches: 3, Indels: 12
0.71 0.06 0.23
Matches are distributed among these distances:
23 17 0.46
24 15 0.41
25 5 0.14
ACGTcount: A:0.17, C:0.17, G:0.04, T:0.61
Consensus pattern (24 bp):
TTTCCTTTTCTATATTTAATTCTC
Found at i:4006061 original size:84 final size:84
Alignment explanation
Indices: 4005960--4006131 Score: 263
Period size: 84 Copynumber: 2.0 Consensus size: 84
4005950 TTTAATTCTG
** * * * *
4005960 TATTTTTCATATATGTTATTCTCTTTCCTTTTCTATATTTGATTCTTTATTTTCCATAAAATATT
1 TATTTTTCATATATGTTATTCGATTTCCTTTCCTATATTTGATTCTCTATTTTCAACAAAATATT
4006025 AAATTCCCTTTCATATCTC
66 AAATTCCCTTTCATATCTC
*
4006044 TATTTTTCATATTTGTTATTCGATTTCCTTTCCTATATTTGATTCTCTATTTTCAACAAAATATT
1 TATTTTTCATATATGTTATTCGATTTCCTTTCCTATATTTGATTCTCTATTTTCAACAAAATATT
* *
4006109 CAATTCTCTTTCATATCTC
66 AAATTCCCTTTCATATCTC
4006128 TATT
1 TATT
4006132 GTTATTCTCT
Statistics
Matches: 79, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
84 79 1.00
ACGTcount: A:0.24, C:0.18, G:0.03, T:0.55
Consensus pattern (84 bp):
TATTTTTCATATATGTTATTCGATTTCCTTTCCTATATTTGATTCTCTATTTTCAACAAAATATT
AAATTCCCTTTCATATCTC
Found at i:4006392 original size:17 final size:17
Alignment explanation
Indices: 4006363--4006395 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
4006353 AGTTGTTTCT
4006363 TTTCAACTTTTTTTTTG
1 TTTCAACTTTTTTTTTG
4006380 TTTC-ACTTGTTTTTTT
1 TTTCAACTT-TTTTTTT
4006396 TAATTCTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.09, C:0.12, G:0.06, T:0.73
Consensus pattern (17 bp):
TTTCAACTTTTTTTTTG
Found at i:4006570 original size:26 final size:26
Alignment explanation
Indices: 4006534--4006585 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
4006524 TTTTCCTCTC
*
4006534 TGAATATATATTTTTAATGGGTATTT
1 TGAATATATATTTTTAACGGGTATTT
4006560 TGAATATATATTTTTAACGGGTATTT
1 TGAATATATATTTTTAACGGGTATTT
4006586 CGAAAAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.31, C:0.02, G:0.15, T:0.52
Consensus pattern (26 bp):
TGAATATATATTTTTAACGGGTATTT
Found at i:4010660 original size:43 final size:43
Alignment explanation
Indices: 4010605--4010702 Score: 133
Period size: 43 Copynumber: 2.3 Consensus size: 43
4010595 AAAAGGGGAC
* * * *
4010605 ACACACCTGTGTGGCCTGGCCGTGTGTCTCATACGGCCAACAG
1 ACACACCCGTGTGGCCCGACCGTGTGTCTCACACGGCCAACAG
* *
4010648 ACACGCCCGTGTGGCCCGACCGTGTGTCTCACATGGCCAACAG
1 ACACACCCGTGTGGCCCGACCGTGTGTCTCACACGGCCAACAG
*
4010691 ATACACCCGTGT
1 ACACACCCGTGT
4010703 CACAGGACAT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 47 1.00
ACGTcount: A:0.19, C:0.35, G:0.27, T:0.19
Consensus pattern (43 bp):
ACACACCCGTGTGGCCCGACCGTGTGTCTCACACGGCCAACAG
Found at i:4016097 original size:48 final size:47
Alignment explanation
Indices: 4016045--4016167 Score: 113
Period size: 48 Copynumber: 2.6 Consensus size: 47
4016035 CTAAGTGCCA
* * * *
4016045 ATATCATTGCCCGAAGCCAACTCAATA-AATCTTACACCCGAAGTGTCG
1 ATATCATAGCCCGAAGCCAAATCAA-AGAA-CTCACACCCGAAGTGACG
* * * *
4016093 ATATCATAACCCAAAGCCAAATCAAAGTAACTCGCACCCTAAGTGACG
1 ATATCATAGCCCGAAGCCAAATCAAAG-AACTCACACCCGAAGTGACG
* * *
4016141 ATATCATGGCCCGAAGCTAAATTAAAG
1 ATATCATAGCCCGAAGCCAAATCAAAG
4016168 TAACCCCTAA
Statistics
Matches: 60, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
47 1 0.02
48 57 0.95
49 2 0.03
ACGTcount: A:0.38, C:0.27, G:0.15, T:0.20
Consensus pattern (47 bp):
ATATCATAGCCCGAAGCCAAATCAAAGAACTCACACCCGAAGTGACG
Found at i:4016168 original size:48 final size:48
Alignment explanation
Indices: 4016079--4016171 Score: 123
Period size: 48 Copynumber: 1.9 Consensus size: 48
4016069 ATAAATCTTA
*
4016079 CACCCGAAGTGTCGATATCATAACCCAAAGCCAAATCAAAGTAACTCG
1 CACCCGAAGTGACGATATCATAACCCAAAGCCAAATCAAAGTAACTCG
* ** * * *
4016127 CACCCTAAGTGACGATATCATGGCCCGAAGCTAAATTAAAGTAAC
1 CACCCGAAGTGACGATATCATAACCCAAAGCCAAATCAAAGTAAC
4016172 CCCTAATGAC
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 38 1.00
ACGTcount: A:0.39, C:0.27, G:0.16, T:0.18
Consensus pattern (48 bp):
CACCCGAAGTGACGATATCATAACCCAAAGCCAAATCAAAGTAACTCG
Found at i:4022185 original size:21 final size:21
Alignment explanation
Indices: 4022161--4022213 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 21
4022151 ACCTTAATAG
4022161 TAATTTATTT-TACTAATAAAT
1 TAATTTATTTCT-CTAATAAAT
* * *
4022182 TAATGTGTTTCTCTTATAAAT
1 TAATTTATTTCTCTAATAAAT
4022203 TAATTTCATTT
1 TAATTT-ATTT
4022214 ATTTTTTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
21 21 0.84
22 4 0.16
ACGTcount: A:0.34, C:0.08, G:0.04, T:0.55
Consensus pattern (21 bp):
TAATTTATTTCTCTAATAAAT
Found at i:4023734 original size:37 final size:37
Alignment explanation
Indices: 4023661--4023735 Score: 89
Period size: 37 Copynumber: 2.0 Consensus size: 37
4023651 ATCCAAAAAA
* * *
4023661 AAAATTATGAAAAGTTAAAAGACATATATATATGTAC
1 AAAATTATGAAAAGTTAAAAAAAACATATATATGTAC
* *
4023698 AAAATTATGAAAA-TATAAAAAAAACATATGTGTGTAC
1 AAAATTATGAAAAGT-TAAAAAAAACATATATATGTAC
4023735 A
1 A
4023736 CATGAATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
36 1 0.03
37 31 0.97
ACGTcount: A:0.56, C:0.05, G:0.11, T:0.28
Consensus pattern (37 bp):
AAAATTATGAAAAGTTAAAAAAAACATATATATGTAC
Found at i:4024115 original size:3 final size:3
Alignment explanation
Indices: 4024099--4024157 Score: 61
Period size: 3 Copynumber: 20.3 Consensus size: 3
4024089 GTATGTAAGT
* *
4024099 ATA ATA A-A AAA ATA ATA ATA GTA ATA ATA ATA ATA ATA ATA ACT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA
*
4024143 ATA TTA ATA A-A ATA A
1 ATA ATA ATA ATA ATA A
4024158 ACTAAAAACT
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
2 5 0.11
3 41 0.87
4 1 0.02
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:4025799 original size:132 final size:132
Alignment explanation
Indices: 4025663--4026685 Score: 1444
Period size: 132 Copynumber: 7.8 Consensus size: 132
4025653 CTGCCATCTT
* * * * * *
4025663 CGATCTACTCCACCACTAGTATGGGAAGACAAGATCTGTATCTTGGATCCACTTCCTATCAATAT
1 CGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTATCAATAT
4025728 AGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTC
66 AGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTC
4025793 TG
131 TG
*
4025795 CGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGACCCACTTCCTATCAATAT
1 CGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTATCAATAT
*
4025860 AGGAAGATAGGACCTGCTATCTTCGATCTACCTCACGCCAATACATGAAGACAAGATCTGCTTTC
66 AGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTC
4025925 TG
131 TG
*
4025927 CGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTGGATCCACTTCCTATCAATAT
1 CGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTATCAATAT
*
4025992 AAGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTC
66 AGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTC
4026057 TG
131 TG
* * * *
4026059 CGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCGTCGTCGATCCACTTCCAATCATTAT
1 CGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTATCAATAT
* * * *
4026124 AGAAAGATAGGACCTGTTATCTTTGATCTACTTCACGCCAATACATGAAGACAAGATCTACTTTC
66 AGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTC
4026189 TG
131 TG
* *
4026191 CGATCTACTTCGCCACCAATATGGGAAAACAAGATCTGCATCTTGGATCCACTTCCTATCAATAT
1 CGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTATCAATAT
* * *
4026256 AGAAAGATAGGACCTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATTTGCTTTC
66 AGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTC
*
4026321 TT
131 TG
*
4026323 CGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATAT
1 CGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTATCAATAT
4026388 AGGAAGATAGGACCTGCTA-CTTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTT
66 AGGAAGATAGGACCTGCTATC-TTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTT
*
4026452 CTT
130 CTG
* * *
4026455 CGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCTACTTCGCCACCAATA
1 CGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTC-CTATCAATA
* * * * * * * * * * ** * *
4026520 TGGGAAGACAAGATCTGC-ATCTTCGATCCATTTC-CTACCAATATAGGAAAACCGGATCAGCTA
65 TAGGAAGATAGGACCTGCTATCTTCGATCTACTTCAC-GCCAATACATGAAGACAAGATCTGCTT
*
4026583 TCTT
129 TCTG
* * * *** * * * *
4026587 CGACCTACTTC-ACGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAAT
1 CGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTC-CTATCAAT
* * * *
4026651 ATGGGAAGACAAGATCTGC-ATCTTCGATCTACTTC
64 ATAGGAAGATAGGACCTGCTATCTTCGATCTACTTC
4026686 GCCACCAATA
Statistics
Matches: 822, Mismatches: 64, Indels: 10
0.92 0.07 0.01
Matches are distributed among these distances:
131 24 0.03
132 775 0.94
133 23 0.03
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (132 bp):
CGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTATCAATAT
AGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTC
TG
Found at i:4026501 original size:176 final size:175
Alignment explanation
Indices: 4025741--4026817 Score: 1144
Period size: 176 Copynumber: 6.1 Consensus size: 175
4025731 AAGATAGGAC
* * * * * * *
4025741 CTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCTGCGATCTACTTC
1 CTGCTTTCTTCGATCTACTTCCCACCAATATAGGAAGACAAGATCTGC-ATCTTCGATCTACTTC
* * * *
4025806 GCCACCAATATGGGAAGACAAGATCTGCATCTTCGACCCACTTCCTATCAATATAGGAAGATAGG
65 GCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAAACAGG
* *
4025871 ACCTGCTATCTTCGATCTACCTCACGCCAATACATGAAGACAAGAT
130 ATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGAT
* * * *
4025917 CTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTGGATCCACTTC
1 CTGCTTTCTTCGATCTACTTC-CCACCAATATAGGAAGACAAGATCTGCATCTTCGATCTACTTC
* * ** * * * * * * * *
4025982 -CTATCAATATAAGAAGATAGGACCTGCTATCTTCGATCTACTTCAC-GCCAATACATGAAGACA
65 GCCACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAAAACA
* * * * * ***
4026045 AGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGAT
128 GGATCTGCTATCTTCGATCTACTTC-ACGCCAATACATGAAGACAAGAT
* * * * * * * * * * * *
4026094 CTGC-GTCGTCGATCCACTTCCAATCATTATAGAAAGATAGGACCTGTTATCTTTGATCTACTTC
1 CTGCTTTCTTCGATCTACTTCCCACCAATATAGGAAGACAAGATCTG-CATCTTCGATCTACTTC
* * *** * * * * * *
4026158 -ACGCCAATACATGAAGACAAGATCTACTTTCTGCGATCTACTTCGCCACCAATATGGGAAAACA
65 GCCACCAATATGGGAAGACAAGATCTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAAAACA
* * * ** * * * *
4026222 AGATCTGC-ATCTTGGATCCACTTC-CTATCAATATA-GAAAGATAGGAC
128 GGATCTGCTATCTTCGATCTACTTCAC-GCCAATACATG-AAGACAAGAT
** * * * * * *
4026269 CTGCTACCTTCGATCTACTTCACGCCAATACATGAAGACAAGATTTGCTTTCTTCGATCTACTTC
1 CTGCTTTCTTCGATCTACTTCCCACCAATATAGGAAGACAAGATCTGC-ATCTTCGATCTACTTC
* *
4026334 GCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAGATAGG
65 GCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAAACAGG
*
4026399 ACCTGCTA-CTTTCGATCTACTTCACGCCAATACATGAAGACAAGAT
130 ATCTGCTATC-TTCGATCTACTTCACGCCAATACATGAAGACAAGAT
*
4026445 CTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCTACTTC
1 CTGCTTTCTTCGATCTACTTC-CCACCAATATAGGAAGACAAGATCTGCATCTTCGATCTACTTC
* *
4026510 GCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCATTTCCTACCAATATAGGAAAACCGG
65 GCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAAACAGG
* *
4026575 ATCAGCTATCTTCGACCTACTTCACGCCAATACATGAAGACAAGAT
130 ATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGAT
*
4026621 CTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCTACTTC
1 CTGCTTTCTTCGATCTACTTC-CCACCAATATAGGAAGACAAGATCTGCATCTTCGATCTACTTC
* *
4026686 GCCACCAATATGGGAAGACAATATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAAACCGG
65 GCCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAAACAGG
* * *
4026751 ATCAGCTATCTTCGACCTACTTCACGTCAATACATGAAGACAAGAT
130 ATCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGAT
*
4026797 CTACTTTCTTCGATCTACTTC
1 CTGCTTTCTTCGATCTACTTC
4026818 TTGTCCCGGG
Statistics
Matches: 745, Mismatches: 139, Indels: 34
0.81 0.15 0.04
Matches are distributed among these distances:
174 2 0.00
175 78 0.10
176 555 0.74
177 110 0.15
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (175 bp):
CTGCTTTCTTCGATCTACTTCCCACCAATATAGGAAGACAAGATCTGCATCTTCGATCTACTTCG
CCACCAATATGGGAAGACAAGATCTGCATCTTCGATCCACTTCCTACCAATATAGGAAAACAGGA
TCTGCTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGAT
Found at i:4026586 original size:44 final size:45
Alignment explanation
Indices: 4025651--4026817 Score: 975
Period size: 44 Copynumber: 26.5 Consensus size: 45
4025641 GGAAGGTAAA
* * * * * *
4025651 ATCTGCCATCTTCGATCTACTCCACCACTAGTATGGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCGCCACCAATATAGGAAGACAAG
* * * * * *
4025696 ATCTG-TATCTTGGATCCACTTC-CTATCAATATAGGAAGATAGG
1 ATCTGCTATCTTCGATCTACTTCGCCACCAATATAGGAAGACAAG
* * * * *
4025739 ACCTGCTATCTTCGATCTACTTC-ACGCCAATACATGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCGCCACCAATATAGGAAGACAAG
* * *
4025783 ATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCGCCACCAATATAGGAAGACAAG
* * * * * *
4025828 ATCTGC-ATCTTCGACCCACTTC-CTATCAATATAGGAAGATAGG
1 ATCTGCTATCTTCGATCTACTTCGCCACCAATATAGGAAGACAAG
* * * * * *
4025871 ACCTGCTATCTTCGATCTACCTC-ACGCCAATACATGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCGCCACCAATATAGGAAGACAAG
* * *
4025915 ATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCGCCACCAATATAGGAAGACAAG
* * * * * * *
4025960 ATCTGC-ATCTTGGATCCACTTC-CTATCAATATAAGAAGATAGG
1 ATCTGCTATCTTCGATCTACTTCGCCACCAATATAGGAAGACAAG
* * * * *
4026003 ACCTGCTATCTTCGATCTACTTC-ACGCCAATACATGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCGCCACCAATATAGGAAGACAAG
* * *
4026047 ATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCGCCACCAATATAGGAAGACAAG
* * * * * * * * *
4026092 ATCTGC-GTCGTCGATCCACTTC-CAATCATTATAGAAAGATAGG
1 ATCTGCTATCTTCGATCTACTTCGCCACCAATATAGGAAGACAAG
* * * * * * *
4026135 ACCTGTTATCTTTGATCTACTTC-ACGCCAATACATGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCGCCACCAATATAGGAAGACAAG
* * * * *
4026179 ATCTACTTTCTGCGATCTACTTCGCCACCAATATGGGAAAACAAG
1 ATCTGCTATCTTCGATCTACTTCGCCACCAATATAGGAAGACAAG
* * * * * * *
4026224 ATCTGC-ATCTTGGATCCACTTC-CTATCAATATAGAAAGATAGG
1 ATCTGCTATCTTCGATCTACTTCGCCACCAATATAGGAAGACAAG
* * * * * *
4026267 ACCTGCTACCTTCGATCTACTTC-ACGCCAATACATGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCGCCACCAATATAGGAAGACAAG
* * *
4026311 ATTTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCGCCACCAATATAGGAAGACAAG
* * * *
4026356 ATCTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAAGATAGG
1 ATCTGCTATCTTCGATCTACTTCGCCACCAATATAGGAAGACAAG
* * * * *
4026399 ACCTGCTA-CTTTCGATCTACTTC-ACGCCAATACATGAAGACAAG
1 ATCTGCTATC-TTCGATCTACTTCGCCACCAATATAGGAAGACAAG
* *
4026443 ATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCGCCACCAATATAGGAAGACAAG
*
4026488 ATCTGC-ATCTTCGATCTACTTCGCCACCAATATGGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCGCCACCAATATAGGAAGACAAG
* * * * **
4026532 ATCTGC-ATCTTCGATCCATTTC-CTACCAATATAGGAAAACCGG
1 ATCTGCTATCTTCGATCTACTTCGCCACCAATATAGGAAGACAAG
* * * * * *
4026575 ATCAGCTATCTTCGACCTACTTC-ACGCCAATACATGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCGCCACCAATATAGGAAGACAAG
* *
4026619 ATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCGCCACCAATATAGGAAGACAAG
* *
4026664 ATCTGC-ATCTTCGATCTACTTCGCCACCAATATGGGAAGACAAT
1 ATCTGCTATCTTCGATCTACTTCGCCACCAATATAGGAAGACAAG
* * * **
4026708 ATCTGC-ATCTTCGATCCACTTC-CTACCAATATAGGAAAACCGG
1 ATCTGCTATCTTCGATCTACTTCGCCACCAATATAGGAAGACAAG
* * * ** * *
4026751 ATCAGCTATCTTCGACCTACTTC-ACGTCAATACATGAAGACAAG
1 ATCTGCTATCTTCGATCTACTTCGCCACCAATATAGGAAGACAAG
* *
4026795 ATCTACTTTCTTCGATCTACTTC
1 ATCTGCTATCTTCGATCTACTTC
4026818 TTGTCCCGGG
Statistics
Matches: 867, Mismatches: 238, Indels: 35
0.76 0.21 0.03
Matches are distributed among these distances:
43 160 0.18
44 550 0.63
45 157 0.18
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (45 bp):
ATCTGCTATCTTCGATCTACTTCGCCACCAATATAGGAAGACAAG
Found at i:4035061 original size:13 final size:13
Alignment explanation
Indices: 4035045--4035069 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4035035 ATGTATATAA
4035045 TATATATATAAAC
1 TATATATATAAAC
4035058 TATATATATAAA
1 TATATATATAAA
4035070 AAAAATATGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (13 bp):
TATATATATAAAC
Found at i:4035190 original size:3 final size:3
Alignment explanation
Indices: 4035174--4035235 Score: 67
Period size: 3 Copynumber: 21.3 Consensus size: 3
4035164 GTATGTAAGT
* *
4035174 ATA ATA A-A AAA ATA ATA ATA GTA ATA ATA ATA ATA ATA ATA ATA ACT-
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA
*
4035221 ATA TTA ATA A-A ATA A
1 ATA ATA ATA ATA ATA A
4035236 ACTAAAAACT
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
2 5 0.10
3 44 0.88
4 1 0.02
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:4042974 original size:96 final size:96
Alignment explanation
Indices: 4042858--4043051 Score: 363
Period size: 96 Copynumber: 2.0 Consensus size: 96
4042848 AAATGAAATA
*
4042858 AATTGAAATGCATTAAACTAAAGCTTAAAGAGTCTTGAAAACAAAGTATAGGGACTAGAAAT-TG
1 AATTGAAATGCATTAAACTAAAGCTTAAAGAATCTTGAAAACAAAGTATAGGGACTAGAAATGT-
4042922 AAATAAACCTTAACTATAGTGCTAACTAACTT
65 AAATAAACCTTAACTATAGTGCTAACTAACTT
4042954 AATTGAAATGCATTAAACTAAAGCTTAAAGAATCTTGAAAACAAAGTATAGGGACTAGAAATGTA
1 AATTGAAATGCATTAAACTAAAGCTTAAAGAATCTTGAAAACAAAGTATAGGGACTAGAAATGTA
4043019 AATAAACCTTAACTATAGTGCTAACTAACTT
66 AATAAACCTTAACTATAGTGCTAACTAACTT
4043050 AA
1 AA
4043052 ATAAATAAAC
Statistics
Matches: 96, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
96 95 0.99
97 1 0.01
ACGTcount: A:0.47, C:0.12, G:0.14, T:0.27
Consensus pattern (96 bp):
AATTGAAATGCATTAAACTAAAGCTTAAAGAATCTTGAAAACAAAGTATAGGGACTAGAAATGTA
AATAAACCTTAACTATAGTGCTAACTAACTT
Found at i:4043064 original size:36 final size:36
Alignment explanation
Indices: 4043017--4043097 Score: 153
Period size: 36 Copynumber: 2.2 Consensus size: 36
4043007 ACTAGAAATG
4043017 TAAATAAACCTTAACTATAGTGCTAACTAACTTAAA
1 TAAATAAACCTTAACTATAGTGCTAACTAACTTAAA
4043053 TAAATAAACCTTAACTATAGTGCTAACTAACTTAAA
1 TAAATAAACCTTAACTATAGTGCTAACTAACTTAAA
4043089 TAACATAAA
1 TAA-ATAAA
4043098 AAAATAAAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
36 39 0.89
37 5 0.11
ACGTcount: A:0.49, C:0.16, G:0.05, T:0.30
Consensus pattern (36 bp):
TAAATAAACCTTAACTATAGTGCTAACTAACTTAAA
Found at i:4048119 original size:18 final size:18
Alignment explanation
Indices: 4048081--4048119 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
4048071 AGCAATTCAT
*
4048081 AATTGATAAATACTTTTA
1 AATTGATAAATACTTTAA
4048099 AATTGATCAAATA-TTTAA
1 AATTGAT-AAATACTTTAA
4048117 AAT
1 AAT
4048120 ATTGATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (18 bp):
AATTGATAAATACTTTAA
Found at i:4051063 original size:131 final size:131
Alignment explanation
Indices: 4050828--4051339 Score: 496
Period size: 131 Copynumber: 3.9 Consensus size: 131
4050818 TCACAATTAT
* * * * * *
4050828 TAAAAATCCC-TT-AAACGAAGGCGATACGCGATATTTGGTAATTCGCGGAATCGTACCCTAACG
1 TAAAAAACCCTTTAAAACGAAGGCAATACTCGATGTTTGATAATTCG-GGAATCATACCCTAACG
*
4050891 TGCTGGGTTGCAATTTCTCGTTTGCTT-AAAATAATCAAATATCCCTTCAAAATTTCACTCATGT
65 TGCTGGGTTGCAATTTCTCGTTTG-TTCAAAATAATCGAATATCCCTTCAAAATTTCACTCATGT
4050955 CTTC
129 -TTC
* * * *
4050959 T-AAAAACCCTTTAAAACGAAGGCAATACTCGGTGTTTGATAATTCGAGAATCATGCCCTATCGT
1 TAAAAAACCCTTTAAAACGAAGGCAATACTCGATGTTTGATAATTCGGGAATCATACCCTAACGT
* ** * * *** *
4051023 GTTGGGTTGTGATTTCTCGTTTGTTCAAAATAATCGAATATTCCTTTAGGTTTTCACTCGTGTTT
66 GCTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCGAATATCCCTTCAAAATTTCACTCATGTTT
*
4051088 A
131 C
* * * * * *
4051089 TCAAAAA-CCTTCCAAAACAAAGACAATACTCGGTGTTTGATAATTCGGGAATCATGCCCTAACG
1 TAAAAAACCCTT-TAAAACGAAGGCAATACTCGATGTTTGATAATTCGGGAATCATACCCTAACG
* ** * * * * * * *
4051153 TGTTGGGTTGTGATTTCTTGTTTTTTCAAAACAATCGAAGATTCCTTCGAAATTTCACTCACGTT
65 TGCTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCGAATATCCCTTCAAAATTTCACTCATG-T
4051218 TTC
129 TTC
* * * ** *
4051221 TAAAAAACCCTTTAAAATGAAGGCAATATTCGATGCTTGGCAATTCGGGGAAT-AGTACCCTATC
1 TAAAAAACCCTTTAAAACGAAGGCAATACTCGATGTTTGATAATTC-GGGAATCA-TACCCTAAC
* * * *
4051285 GTGCTGGGTTGCAATTTCCCGTTTGTTCAAAATAATCTAATATCTCTTCAGAATT
64 GTGCTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCGAATATCCCTTCAAAATT
4051340 CCACACGTAT
Statistics
Matches: 309, Mismatches: 63, Indels: 16
0.80 0.16 0.04
Matches are distributed among these distances:
130 16 0.05
131 171 0.55
132 63 0.20
133 59 0.19
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (131 bp):
TAAAAAACCCTTTAAAACGAAGGCAATACTCGATGTTTGATAATTCGGGAATCATACCCTAACGT
GCTGGGTTGCAATTTCTCGTTTGTTCAAAATAATCGAATATCCCTTCAAAATTTCACTCATGTTT
C
Found at i:4055876 original size:23 final size:25
Alignment explanation
Indices: 4055850--4055896 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
4055840 TATCATTCAT
*
4055850 TTCATTATAT-CA-ATATTTTATGC
1 TTCATCATATCCATATATTTTATGC
*
4055873 TTCATCATTTCCATATATTTTATG
1 TTCATCATATCCATATATTTTATG
4055897 TATATTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.28, C:0.15, G:0.04, T:0.53
Consensus pattern (25 bp):
TTCATCATATCCATATATTTTATGC
Found at i:4056227 original size:46 final size:46
Alignment explanation
Indices: 4056157--4056422 Score: 343
Period size: 46 Copynumber: 6.0 Consensus size: 46
4056147 TTTGACGCGA
* * * * * *
4056157 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
* ** * * *
4056203 TGCCATGGTATCTTCCAACCATGGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
4056249 TGCCATGGTATCTTTCAACCATGGTCTTACACATCTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
4056295 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
4056341 TGCCATGGTATCTTTCAACCATGGTCTT--ACA---C--A-CAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
4056379 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
4056423 AGAGCACACT
Statistics
Matches: 196, Mismatches: 15, Indels: 18
0.86 0.07 0.08
Matches are distributed among these distances:
38 33 0.17
39 1 0.01
40 3 0.02
41 1 0.01
43 1 0.01
44 3 0.02
45 5 0.03
46 149 0.76
ACGTcount: A:0.22, C:0.25, G:0.15, T:0.38
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:4056387 original size:38 final size:38
Alignment explanation
Indices: 4056336--4056411 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
4056326 CATTTCATAT
4056336 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
4056374 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
1 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
4056412 TTTCATATCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (38 bp):
CAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
Found at i:4059283 original size:17 final size:19
Alignment explanation
Indices: 4059258--4059294 Score: 51
Period size: 17 Copynumber: 2.1 Consensus size: 19
4059248 AGTGATGATG
*
4059258 ATAATAATA-TGAAA-AAT
1 ATAACAATAGTGAAATAAT
4059275 ATAACAATAGTGAAATAAT
1 ATAACAATAGTGAAATAAT
4059294 A
1 A
4059295 ATATAGATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 8 0.47
18 5 0.29
19 4 0.24
ACGTcount: A:0.62, C:0.03, G:0.08, T:0.27
Consensus pattern (19 bp):
ATAACAATAGTGAAATAAT
Found at i:4059390 original size:3 final size:3
Alignment explanation
Indices: 4059372--4059436 Score: 53
Period size: 3 Copynumber: 21.3 Consensus size: 3
4059362 TATAGATGAA
* * *
4059372 AAT AA- AAT AGT AAT AAT AAT ACGAT AGT AAT AAT GAT AAT AA- AATT
1 AAT AAT AAT AAT AAT AAT AAT A--AT AAT AAT AAT AAT AAT AAT AA-T
*
4059418 AGT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT A
4059437 TGTTAAATAA
Statistics
Matches: 49, Mismatches: 8, Indels: 10
0.73 0.12 0.15
Matches are distributed among these distances:
2 4 0.08
3 41 0.84
4 1 0.02
5 3 0.06
ACGTcount: A:0.60, C:0.02, G:0.08, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:4059486 original size:3 final size:3
Alignment explanation
Indices: 4059478--4059685 Score: 96
Period size: 3 Copynumber: 66.7 Consensus size: 3
4059468 TTAAAAATGT
* * *
4059478 TAA TAA TAA TAA TGA TAA TAA TAA TGA TAA TAA TGA TAA TAA TAA TATA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
* * * * * * *
4059527 TCGA TAA TAAA TAA TAGA -AG GAA TAA AAA TAA TAG TAA TAA TAA GAG
1 T-AA TAA T-AA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * ** * *
4059574 TAT TAA CAA TAG TAA TAA TAA CGA TAA T-G TAAA TAC TAA TATA TACA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TA-A TA-A
* * * * * *
4059621 TTAA AAA TAA TAA TAG TAA TAG TAA TAG TAA TAA TGA TAA CAA TAA
1 -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
4059667 TACA TTAA TGA TAA TAA TA
1 TA-A -TAA TAA TAA TAA TA
4059686 TATGTTAATA
Statistics
Matches: 147, Mismatches: 47, Indels: 22
0.68 0.22 0.10
Matches are distributed among these distances:
2 1 0.01
3 126 0.86
4 16 0.11
5 4 0.03
ACGTcount: A:0.57, C:0.03, G:0.09, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:4059779 original size:3 final size:3
Alignment explanation
Indices: 4059773--4059876 Score: 52
Period size: 3 Copynumber: 34.0 Consensus size: 3
4059763 AAGATAGTAG
* * * *
4059773 TAA TAA TAA TAA TAA TAA TAA TACA TTAA GTTA CAA TAG TAA -AG TAA
1 TAA TAA TAA TAA TAA TAA TAA TA-A -TAA -TAA TAA TAA TAA TAA TAA
* * * * * *
4059820 TAA CAG TGA TAA TGA TAA T-A TAT TAGA TAA TAA TAG TAA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA
4059864 TAA GTAA TAA TAA
1 TAA -TAA TAA TAA
4059877 CAGATTAAAT
Statistics
Matches: 73, Mismatches: 21, Indels: 14
0.68 0.19 0.13
Matches are distributed among these distances:
2 5 0.07
3 57 0.78
4 9 0.12
5 2 0.03
ACGTcount: A:0.57, C:0.03, G:0.09, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:4064116 original size:22 final size:23
Alignment explanation
Indices: 4064091--4064134 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
4064081 AGTTAAAGGG
4064091 TTACCACACATTT-CCAAAAATT
1 TTACCACACATTTCCCAAAAATT
* **
4064113 TTACTACATTTTTCCCAAAAAT
1 TTACCACACATTTCCCAAAAAT
4064135 CCAATGTGTC
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 10 0.56
23 8 0.44
ACGTcount: A:0.39, C:0.25, G:0.00, T:0.36
Consensus pattern (23 bp):
TTACCACACATTTCCCAAAAATT
Found at i:4065111 original size:8 final size:7
Alignment explanation
Indices: 4065092--4065134 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
4065082 CAAATAATTT
4065092 TAAAAAA
1 TAAAAAA
*
4065099 TAAAAAC
1 TAAAAAA
4065106 T-AAAAA
1 TAAAAAA
4065112 TAAAAAAA
1 T-AAAAAA
4065120 TAGAAAAA
1 TA-AAAAA
4065128 TAAAAAA
1 TAAAAAA
4065135 ATATATAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
6 5 0.16
7 13 0.42
8 13 0.42
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.14
Consensus pattern (7 bp):
TAAAAAA
Found at i:4065126 original size:16 final size:16
Alignment explanation
Indices: 4065107--4065137 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
4065097 AATAAAAACT
4065107 AAAAATAAAAAAATAG
1 AAAAATAAAAAAATAG
4065123 AAAAATAAAAAAATA
1 AAAAATAAAAAAATA
4065138 TATAAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.13
Consensus pattern (16 bp):
AAAAATAAAAAAATAG
Found at i:4065135 original size:8 final size:8
Alignment explanation
Indices: 4065107--4065137 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
4065097 AATAAAAACT
4065107 AAAAATAA
1 AAAAATAA
*
4065115 AAAAATAG
1 AAAAATAA
4065123 AAAAATAA
1 AAAAATAA
4065131 AAAAATA
1 AAAAATA
4065138 TATAAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.13
Consensus pattern (8 bp):
AAAAATAA
Found at i:4076758 original size:13 final size:12
Alignment explanation
Indices: 4076709--4076764 Score: 51
Period size: 13 Copynumber: 4.4 Consensus size: 12
4076699 TTTAACAATA
4076709 CTTTTGAAAA-TG
1 CTTTT-AAAAGTG
4076721 CTTTTAAAATGTG
1 CTTTTAAAA-GTG
*
4076734 CTTTAAACAAGTG
1 CTTTTAA-AAGTG
*
4076747 CTTTTAAGAAGTA
1 CTTTTAA-AAGTG
4076760 CTTTT
1 CTTTT
4076765 TGAAAATTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
11 4 0.11
12 5 0.14
13 26 0.70
14 2 0.05
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (12 bp):
CTTTTAAAAGTG
Found at i:4088490 original size:46 final size:48
Alignment explanation
Indices: 4088386--4088505 Score: 154
Period size: 48 Copynumber: 2.5 Consensus size: 48
4088376 TGTCTTCGAC
** * *
4088386 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATAAT
* * *
4088434 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCCATATA-A-CTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATAAT
*
4088480 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
4088506 CTGTCCTGTC
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
46 27 0.43
47 1 0.02
48 35 0.56
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.35
Consensus pattern (48 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATAAT
Found at i:4093519 original size:46 final size:48
Alignment explanation
Indices: 4093415--4093534 Score: 154
Period size: 48 Copynumber: 2.5 Consensus size: 48
4093405 CGTCTTCGAC
** * *
4093415 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATAAT
* * *
4093463 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGTCATATA-AT-TGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATAAT
*
4093509 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
4093535 ATGTCCTGTC
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
46 27 0.43
47 2 0.03
48 34 0.54
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.37
Consensus pattern (48 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATAAT
Found at i:4098168 original size:15 final size:15
Alignment explanation
Indices: 4098138--4098169 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
4098128 TTAGATACGC
4098138 AATTAAATTTTAAAA
1 AATTAAATTTTAAAA
4098153 AATTACAATTTTAAAA
1 AATTA-AATTTTAAAA
4098169 A
1 A
4098170 GTTGTCATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (15 bp):
AATTAAATTTTAAAA
Found at i:4098967 original size:26 final size:27
Alignment explanation
Indices: 4098929--4098981 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 27
4098919 TTTAAAATCT
* *
4098929 AAAAATTAGAAGA-ATTAAATTTTTAAA
1 AAAAAGTAGAAGAGACT-AATTTTTAAA
4098956 AAAAAGTA-AAGAGACTAATTTTTAAA
1 AAAAAGTAGAAGAGACTAATTTTTAAA
4098982 TTTACAAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 14 0.61
27 9 0.39
ACGTcount: A:0.58, C:0.02, G:0.09, T:0.30
Consensus pattern (27 bp):
AAAAAGTAGAAGAGACTAATTTTTAAA
Found at i:4099624 original size:31 final size:31
Alignment explanation
Indices: 4099589--4099659 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
4099579 AATCTTTGTA
*
4099589 TTTTAATTTAATTAAATTTAGTCCTTATACT
1 TTTTAATTTAATCAAATTTAGTCCTTATACT
* * * * *
4099620 TTTTAAATTAGTCAACTTTAGTCCTTGTGCT
1 TTTTAATTTAATCAAATTTAGTCCTTATACT
*
4099651 CTTTAATTT
1 TTTTAATTT
4099660 TTAAAATTTT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.27, C:0.13, G:0.07, T:0.54
Consensus pattern (31 bp):
TTTTAATTTAATCAAATTTAGTCCTTATACT
Found at i:4121071 original size:24 final size:24
Alignment explanation
Indices: 4121044--4121095 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
4121034 TTAGTAAGTC
*
4121044 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
4121068 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
4121092 AAAT
1 AAAT
4121096 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Done.