Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold12
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: 2382857
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.28
Warning! 280777 characters in sequence are not A, C, G, or T
File 4 of 12
Found at i:485763 original size:21 final size:21
Alignment explanation
Indices: 485730--485774 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
485720 TTGCAAGTTG
*
485730 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
485752 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
485772 AAA
1 AAA
485775 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:487599 original size:15 final size:15
Alignment explanation
Indices: 487579--487609 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
487569 TAAAAATGTC
*
487579 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
487594 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
487609 C
1 C
487610 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:489705 original size:13 final size:13
Alignment explanation
Indices: 489687--489712 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
489677 ACATTTTTCT
489687 TTGTATCGATACA
1 TTGTATCGATACA
489700 TTGTATCGATACA
1 TTGTATCGATACA
489713 GGGTGATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:489876 original size:20 final size:20
Alignment explanation
Indices: 489833--489878 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
489823 AAATCTTTTG
489833 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
489854 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
489874 CAAAA
1 CAAAA
489879 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:492274 original size:13 final size:13
Alignment explanation
Indices: 492256--492281 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
492246 TACAGCAAGT
492256 ATGTATCGATACA
1 ATGTATCGATACA
492269 ATGTATCGATACA
1 ATGTATCGATACA
492282 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:493839 original size:29 final size:28
Alignment explanation
Indices: 493778--493852 Score: 87
Period size: 29 Copynumber: 2.6 Consensus size: 28
493768 TTCTACAATC
*
493778 AGGGATACTCCAACCTCGTTATTTTCGA
1 AGGGATACTCCAACCCCGTTATTTTCGA
* **
493806 GGGGATACTCCAACCCCAGTTATTTTTTA
1 AGGGATACTCCAACCCC-GTTATTTTCGA
**
493835 AGGGATACTTTAACCCCG
1 AGGGATACTCCAACCCCG
493853 ATTTTATTTC
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
28 16 0.41
29 23 0.59
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (28 bp):
AGGGATACTCCAACCCCGTTATTTTCGA
Found at i:493840 original size:108 final size:106
Alignment explanation
Indices: 493703--493927 Score: 267
Period size: 108 Copynumber: 2.1 Consensus size: 106
493693 TACAATCGGT
* *
493703 GATACTCCAA-CCCGTTATTTTCGAGGGGATACTCCAACCTCAG-TTTTATTTTCAAAACACCAA
1 GATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACC-CAGATTTTATTTCCAAAACACCAA
493766 -TTTTCTACAATCAGGGATACTCCAACCTCGTTATTTTCGAGGG
65 TTTTTC-ACAATCAGGGATACTCCAACCTCGTTATTTTCGA-GG
** ** * **
493809 GATACTCCAACCCCAGTTATTTTTTAAGGGATACTTTAACCCCGATTTTATTTCCAAAACACTGA
1 GATACTCCAACCCC-GTTATTTTCGAAGGGATACTCCAACCCAGATTTTATTTCCAAAACACCAA
* ** *
493874 TTTTTCACTATTGGGGATGCTCCAACCTCGTTATTTTCGAGG
65 TTTTTCACAATCAGGGATACTCCAACCTCGTTATTTTCGAGG
*
493916 GATACTCTAACC
1 GATACTCCAACC
493928 TTGGTTTTAT
Statistics
Matches: 101, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
106 10 0.10
107 18 0.18
108 68 0.67
109 5 0.05
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.34
Consensus pattern (106 bp):
GATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCAGATTTTATTTCCAAAACACCAAT
TTTTCACAATCAGGGATACTCCAACCTCGTTATTTTCGAGG
Found at i:493999 original size:157 final size:158
Alignment explanation
Indices: 493808--494420 Score: 607
Period size: 157 Copynumber: 3.9 Consensus size: 158
493798 ATTTTCGAGG
* * ** ** * *
493808 GGATACTCCAACCCCAGTTATTTTTTAAGGGATACTTTAACCCCGATTTTATTTCCAAAACACTG
1 GGATACTCTAA-CCCTGTTATTTTCGAAGGGATACTCCAACCCCGATTTTATTTCTAAAACACCG
* * * * * * * *
493873 ATTTTTCACTATTGGGGATGCTCCAACCTCGTTATTTTCGA-GGGATACTCTAACCTTGGTTTTA
65 ATTTTTCACAATCGAGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCTCGATTTTA
*
493937 TTTTCAAAACACCAATTTTCCATAATCGA
130 TTTCCAAAACACCAATTTTCCATAATCGA
* * * *
493966 GGATACTCTAA-CCTAGTTATTTTCGAGGGGATACTTCAACCCCGGTTTTATTTCTAAAACATC-
1 GGATACTCTAACCCT-GTTATTTTCGAAGGGATACTCCAACCCCGATTTTATTTCTAAAACACCG
* * * * * * *
494029 ATTTTTTTACAATCGAGGATATTCTAACCCCATTA-TTTCTAAAGGGATACTCCAACCCCGATTT
65 A-TTTTTCACAATCGAGGATACTCCAACCCCGTTATTTTC-GAGGGGATACTCCAACCTCGATTT
* * *
494093 TATTTCCAGAA-ACCAATTTTTCACAATCGA
128 TATTTCCAAAACACCAATTTTCCATAATCGA
* * * * *
494123 GGATACTCTAACCCTGTTA-TTTCTGAAAGGATACTCCAACCCTAGTTTTTATTTTTGAAACACC
1 GGATACTCTAACCCTGTTATTTTC-GAAGGGATACTCCAACCC-CGATTTTATTTCTAAAACACC
* * * * *
494187 GATTTTTTATAATCGAGGATACTTCAA-CCCGTTATTTTTGAGGGGATACTCCCACCTCGATTTT
64 GATTTTTCACAATCGAGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCTCGA-TTT
* * * * *
494251 TATTTCGAAAACATCGATTTTCCATACTCGG
128 TATTTCCAAAACACCAATTTTCCATAATCGA
* *
494282 GGATACTCTAACCCTGTTATTTTCG-AGGGATACTCCAACCCCGATTTTATTTCTAAAGCACCAA
1 GGATACTCTAACCCTGTTATTTTCGAAGGGATACTCCAACCCCGATTTTATTTCTAAAACACCGA
* * * *
494346 TTTTTCACAATCGGGGATACT-CAACCCCGTTA-TTTCTGAGGGGATACTTCAACCTTAGTTTTT
66 TTTTTCACAATCGAGGATACTCCAACCCCGTTATTTTC-GAGGGGATACTCCAACC-TCGATTTT
494409 ATTTCCAAAACA
129 ATTTCCAAAACA
494421 TTGACTCTCC
Statistics
Matches: 370, Mismatches: 70, Indels: 31
0.79 0.15 0.07
Matches are distributed among these distances:
156 17 0.05
157 207 0.56
158 108 0.29
159 34 0.09
160 4 0.01
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.36
Consensus pattern (158 bp):
GGATACTCTAACCCTGTTATTTTCGAAGGGATACTCCAACCCCGATTTTATTTCTAAAACACCGA
TTTTTCACAATCGAGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCTCGATTTTAT
TTCCAAAACACCAATTTTCCATAATCGA
Found at i:494026 original size:79 final size:80
Alignment explanation
Indices: 493808--494399 Score: 491
Period size: 79 Copynumber: 7.5 Consensus size: 80
493798 ATTTTCGAGG
* * ** ** * **
493808 GGATACTCCAACCCCAGTTATTTTTTAAGGGATACTTTAACCCCGATTTTATTTCCAAAACACTG
1 GGATACTCTAACCCTAGTTATTTTCGAAGGGATACTCCAACCCCGATTTTATTTCTAAAACACCA
* *
493873 ATTTTTCACT-ATTGG
66 ATTTTTCA-TAATCGA
* * * * ** *
493888 GGATGCTCCAA-CCTCGTTATTTTCG-AGGGATACTCTAACCTTGGTTTTATTT-TCAAAACACC
1 GGATACTCTAACCCTAGTTATTTTCGAAGGGATACTCCAACCCCGATTTTATTTCT-AAAACACC
*
493950 AATTTTCCATAATCGA
65 AATTTTTCATAATCGA
* * * *
493966 GGATACTCTAA-CCTAGTTATTTTCGAGGGGATACTTCAACCCCGGTTTTATTTCTAAAACATCA
1 GGATACTCTAACCCTAGTTATTTTCGAAGGGATACTCCAACCCCGATTTTATTTCTAAAACACCA
* * *
494030 TTTTTTTACAATCGA
66 ATTTTTCATAATCGA
* * * * *
494045 GGATATTCTAACCCCA-TTA-TTTCTAAAGGGATACTCCAACCCCGATTTTATTTCCAGAA-ACC
1 GGATACTCTAACCCTAGTTATTTTC-GAAGGGATACTCCAACCCCGATTTTATTTCTAAAACACC
*
494107 AATTTTTCACAATCGA
65 AATTTTTCATAATCGA
* * * * *
494123 GGATACTCTAACCCT-GTTA-TTTCTGAAAGGATACTCCAACCCTAGTTTTTATTTTTGAAACAC
1 GGATACTCTAACCCTAGTTATTTTC-GAAGGGATACTCCAACCC-CGATTTTATTTCTAAAACAC
* *
494186 CGATTTTTTATAATCGA
64 CAATTTTTCATAATCGA
* * * * * *
494203 GGATACT-TCAACCC--GTTATTTTTGAGGGGATACTCCCACCTCGATTTTTATTTCGAAAACAT
1 GGATACTCT-AACCCTAGTTATTTTCGAAGGGATACTCCAACCCCGA-TTTTATTTCTAAAACAC
* * * *
494265 CGATTTTCCATACTCGG
64 CAATTTTTCATAATCGA
*
494282 GGATACTCTAACCCT-GTTATTTTCG-AGGGATACTCCAACCCCGATTTTATTTCTAAAGCACCA
1 GGATACTCTAACCCTAGTTATTTTCGAAGGGATACTCCAACCCCGATTTTATTTCTAAAACACCA
* *
494345 ATTTTTCACAATCGG
66 ATTTTTCATAATCGA
* * *
494360 GGATACTC-AACCC-CGTTA-TTTCTGAGGGGATACTTCAACC
1 GGATACTCTAACCCTAGTTATTTTC-GAAGGGATACTCCAACC
494400 TTAGTTTTTA
Statistics
Matches: 415, Mismatches: 80, Indels: 36
0.78 0.15 0.07
Matches are distributed among these distances:
76 4 0.01
77 11 0.03
78 168 0.40
79 177 0.43
80 55 0.13
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (80 bp):
GGATACTCTAACCCTAGTTATTTTCGAAGGGATACTCCAACCCCGATTTTATTTCTAAAACACCA
ATTTTTCATAATCGA
Found at i:496306 original size:11 final size:12
Alignment explanation
Indices: 496276--496306 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
496266 ATATAATAAT
496276 GAACCTATCATA
1 GAACCTATCATA
496288 GAACCTATCATA
1 GAACCTATCATA
496300 G-ACCTAT
1 GAACCTAT
496307 AGAGTTTAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 6 0.32
12 13 0.68
ACGTcount: A:0.39, C:0.26, G:0.10, T:0.26
Consensus pattern (12 bp):
GAACCTATCATA
Found at i:501321 original size:22 final size:22
Alignment explanation
Indices: 501294--501349 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
501284 TTACAAGTTG
501294 AAATAAAGAACTTGGCTAATG-A
1 AAATAAAGAACTTGGCTAA-GAA
* *
501316 AAATAATGAA-TTAGCTAAGAA
1 AAATAAAGAACTTGGCTAAGAA
501337 AAATAAA-AACTTG
1 AAATAAAGAACTTG
501350 CATGATTCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
20 3 0.11
21 16 0.57
22 9 0.32
ACGTcount: A:0.55, C:0.07, G:0.14, T:0.23
Consensus pattern (22 bp):
AAATAAAGAACTTGGCTAAGAA
Found at i:505274 original size:13 final size:13
Alignment explanation
Indices: 505256--505290 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
505246 TTTTCTTTGT
505256 ATCGATACATTGA
1 ATCGATACATTGA
*
505269 ATCGATACATTGT
1 ATCGATACATTGA
505282 ATCGATACA
1 ATCGATACA
505291 GGGTGATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.31
Consensus pattern (13 bp):
ATCGATACATTGA
Found at i:505454 original size:20 final size:20
Alignment explanation
Indices: 505411--505456 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
505401 AAATCTTTTG
505411 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
505432 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
505452 CAAAA
1 CAAAA
505457 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:511839 original size:49 final size:49
Alignment explanation
Indices: 511724--512210 Score: 521
Period size: 49 Copynumber: 10.0 Consensus size: 49
511714 AATGCTAATG
* ** *
511724 TGCTGATTCAAGGCCAACGACATTGGGTTTTAAAGATGACGAAGATGCCAATA
1 TGCTGATTCAAGGCCAGCGACATT-GGACTTAAAGAT---GAAGGTGCCAATA
* * * *
511777 TGTTGATTCAAGGCCAGCAATATTGGACTTAAAGATGAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATA
** *
511826 TGCTGATTCAAGGCCAGCGACATTGGTTTTAAAGATGACGAAGGTGCTAATA
1 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT---GAAGGTGCCAATA
* *
511878 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATA
* * **
511927 TGCTGATTCAAGGCCAGCGACATTGGTCCTAAAGACAAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATA
* * *
511976 TGCTGATTCAAGGCCAGTGATATTGGACTT----A--AAGGTGCCAGTA
1 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATA
* * * **
512019 TGCTAATTCAAGGCCAGCGACATTGGTCCTAAAGACAAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATA
* *
512068 TGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGCCAATG
1 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATA
* *
512111 TGCTGATTCAAGGCCAGGGACATTGGTCTTAAAGATGACGAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGAT---GAAGGTGCCAATA
* *
512163 TGCTGATTCAAGGCCAGCGATATTGGACTTAAAGTTGAAGGTGCCAAT
1 TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAAT
512211 TCGTCCCTAC
Statistics
Matches: 366, Mismatches: 50, Indels: 40
0.80 0.11 0.09
Matches are distributed among these distances:
43 74 0.20
45 2 0.01
47 2 0.01
49 171 0.47
52 97 0.27
53 20 0.05
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (49 bp):
TGCTGATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGGTGCCAATA
Found at i:511885 original size:101 final size:101
Alignment explanation
Indices: 511720--512210 Score: 694
Period size: 92 Copynumber: 5.0 Consensus size: 101
511710 GAAGAATGCT
* * * *
511720 AATGTGCTGATTCAAGGCCAACGACATTGGGTTTTAAAGATGACGAAGATGCCAATATGTTGATT
1 AATGTGCTGATTCAAGGCCAGCGACATT-GGTCTTAAAGATGACGAAGGTGCCAATATGCTGATT
*
511785 CAAGGCCAGCAATATTGGACTTAAAGATGAAGGTGCC
65 CAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCC
* *
511822 AATGTGCTGATTCAAGGCCAGCGACATTGGTTTTAAAGATGACGAAGGTGCTAATATGCTGATTC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACGAAGGTGCCAATATGCTGATTC
511887 AAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCC
66 AAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCC
* *
511923 AATGTGCTGATTCAAGGCCAGCGACATTGGTCCT-AA-A-GACAAAGGTGCCAATATGCTGATTC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACGAAGGTGCCAATATGCTGATTC
*
511985 AAGGCCAGTGATATTGGACTT----A--AAGGTGCC
66 AAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCC
* * * * *
512015 AGTATGCTAATTCAAGGCCAGCGACATTGGTCCT-AA-A-GACAAAGGTGCCAATATGCTGATTC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACGAAGGTGCCAATATGCTGATTC
512077 AAGGCCAGCGATATTGGACTT----A--AAGGTGCC
66 AAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCC
*
512107 AATGTGCTGATTCAAGGCCAGGGACATTGGTCTTAAAGATGACGAAGGTGCCAATATGCTGATTC
1 AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACGAAGGTGCCAATATGCTGATTC
*
512172 AAGGCCAGCGATATTGGACTTAAAGTTGAAGGTGCC
66 AAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCC
512208 AAT
1 AAT
512211 TCGTCCCTAC
Statistics
Matches: 359, Mismatches: 21, Indels: 19
0.90 0.05 0.05
Matches are distributed among these distances:
92 125 0.35
93 2 0.01
94 2 0.01
95 45 0.13
98 43 0.12
99 1 0.00
100 2 0.01
101 112 0.31
102 27 0.08
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (101 bp):
AATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGACGAAGGTGCCAATATGCTGATTC
AAGGCCAGCGATATTGGACTTAAAGATGAAGGTGCC
Found at i:514589 original size:20 final size:20
Alignment explanation
Indices: 514564--514617 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
514554 AGTCAACCTT
*
514564 CTATGTATTGATACAAATAC
1 CTATGTATCGATACAAATAC
514584 CTATGTATCGATACAAATAC
1 CTATGTATCGATACAAATAC
514604 CTATGTATCGATAC
1 CTATGTATCGATAC
514618 TTTGAGTTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (20 bp):
CTATGTATCGATACAAATAC
Found at i:515142 original size:21 final size:22
Alignment explanation
Indices: 515117--515169 Score: 99
Period size: 22 Copynumber: 2.5 Consensus size: 22
515107 ATTTATAACA
515117 CCCCCTTAATAA-AATTTTTCT
1 CCCCCTTAATAATAATTTTTCT
515138 CCCCCTTAATAATAATTTTTCT
1 CCCCCTTAATAATAATTTTTCT
515160 CCCCCTTAAT
1 CCCCCTTAAT
515170 TAATGCTCTC
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 12 0.39
22 19 0.61
ACGTcount: A:0.26, C:0.32, G:0.00, T:0.42
Consensus pattern (22 bp):
CCCCCTTAATAATAATTTTTCT
Found at i:516848 original size:51 final size:51
Alignment explanation
Indices: 516788--516891 Score: 190
Period size: 51 Copynumber: 2.0 Consensus size: 51
516778 TAATCTATGG
*
516788 ATGTAGGTGAAACGAAAGAAACCTAATTTTTGGCATAAAACACATCCAAAA
1 ATGTAGGTGAAACGAAAGAAACCTAATTTTTGGCATAAAACACAACCAAAA
*
516839 ATGTAGGTGAAACGAAAGAAACCTAATTTTTGGCATAGAACACAACCAAAA
1 ATGTAGGTGAAACGAAAGAAACCTAATTTTTGGCATAAAACACAACCAAAA
516890 AT
1 AT
516892 TGGTTTTCGG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.47, C:0.15, G:0.16, T:0.21
Consensus pattern (51 bp):
ATGTAGGTGAAACGAAAGAAACCTAATTTTTGGCATAAAACACAACCAAAA
Found at i:517971 original size:20 final size:21
Alignment explanation
Indices: 517946--518013 Score: 79
Period size: 20 Copynumber: 3.4 Consensus size: 21
517936 ATAAGTTTTG
* *
517946 TATCGATACATTTA-TCATTC
1 TATCGATACATTTATTCAATA
*
517966 TATCGATATA-TTATTCAATA
1 TATCGATACATTTATTCAATA
*
517986 TATCGATACA-TTATTCAATG
1 TATCGATACATTTATTCAATA
518006 TATCGATA
1 TATCGATA
518014 TATGCAGGCA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
19 3 0.07
20 39 0.93
ACGTcount: A:0.35, C:0.15, G:0.07, T:0.43
Consensus pattern (21 bp):
TATCGATACATTTATTCAATA
Found at i:518957 original size:20 final size:21
Alignment explanation
Indices: 518918--518958 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
518908 ATAGCCCATG
518918 TTCATGCATTTTGAGCTATGT
1 TTCATGCATTTTGAGCTATGT
*
518939 TTCATGCATTTTTAG-TATGT
1 TTCATGCATTTTGAGCTATGT
518959 CCAACACCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.20, C:0.12, G:0.17, T:0.51
Consensus pattern (21 bp):
TTCATGCATTTTGAGCTATGT
Found at i:524089 original size:172 final size:172
Alignment explanation
Indices: 523798--524143 Score: 647
Period size: 172 Copynumber: 2.0 Consensus size: 172
523788 CCATGTATAT
*
523798 CTAGAATAATCATCCACAATAACAAATCCGTATCTTTTACCACCTAGACTTTGTGTTCTTGTTGG
1 CTAGAATAATCATCCACAATAACAAATCCGTATCTTTTACCACCTAGACTTTGCGTTCTTGTTGG
*
523863 ACTAAATAAGTCGATGTGAACTAGTTGCAAAACTTTAGAGGTCGTGACAATGTTTATGGGTTTAA
66 ACCAAATAAGTCGATGTGAACTAGTTGCAAAACTTTAGAGGTCGTGACAATGTTTATGGGTTTAA
*
523928 AAGAATTTCTTCTATGCTTACCCTTAATGCATGGATCACATA
131 AAGAATTTCTTCTATGCTTACCCTTAATGCATGCATCACATA
*
523970 CTAGAATAATCATCCACAATAACAAATCTGTATCTTTTACCACCTAGACTTTGCGTTCTTGTTGG
1 CTAGAATAATCATCCACAATAACAAATCCGTATCTTTTACCACCTAGACTTTGCGTTCTTGTTGG
*
524035 ACCAAATAAGTCGATGTGAACTAGTTGCAAAACTTTAGAGGTCGTGATAATGTTTATGGGTTTAA
66 ACCAAATAAGTCGATGTGAACTAGTTGCAAAACTTTAGAGGTCGTGACAATGTTTATGGGTTTAA
524100 AAGAATTTCTTCTATGCTTACCCTTAATGCATGCATCACATA
131 AAGAATTTCTTCTATGCTTACCCTTAATGCATGCATCACATA
524142 CT
1 CT
524144 TTATCGCAAT
Statistics
Matches: 169, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
172 169 1.00
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.34
Consensus pattern (172 bp):
CTAGAATAATCATCCACAATAACAAATCCGTATCTTTTACCACCTAGACTTTGCGTTCTTGTTGG
ACCAAATAAGTCGATGTGAACTAGTTGCAAAACTTTAGAGGTCGTGACAATGTTTATGGGTTTAA
AAGAATTTCTTCTATGCTTACCCTTAATGCATGCATCACATA
Found at i:526895 original size:20 final size:20
Alignment explanation
Indices: 526870--526925 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
526860 CTTGAATGTG
*
526870 TGTATCAATACATTATGCTT
1 TGTATCGATACATTATGCTT
526890 TGTATCGATACATTATGCTT
1 TGTATCGATACATTATGCTT
*
526910 TGTATTGATACATTAT
1 TGTATCGATACATTAT
526926 ATCGATACAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.46
Consensus pattern (20 bp):
TGTATCGATACATTATGCTT
Found at i:526947 original size:19 final size:20
Alignment explanation
Indices: 526919--526976 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
526909 TTGTATTGAT
* *
526919 ACATTATATCGATACATG-T
1 ACATTGTATCGATACATGAA
*
526938 TCATTGTATCGATACATGAA
1 ACATTGTATCGATACATGAA
*
526958 AAATTGTATCGATACATGA
1 ACATTGTATCGATACATGA
526977 GATTGACAGT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
19 16 0.48
20 17 0.52
ACGTcount: A:0.38, C:0.14, G:0.14, T:0.34
Consensus pattern (20 bp):
ACATTGTATCGATACATGAA
Found at i:527030 original size:20 final size:20
Alignment explanation
Indices: 527005--527057 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 20
526995 TACTACTGTT
*
527005 TGTATCGATACATGGT-ACAA
1 TGTATCGATACATGATGA-AA
*
527025 TGTATCGATACATGATGAAT
1 TGTATCGATACATGATGAAA
527045 TGTATCGATACAT
1 TGTATCGATACAT
527058 TGCTTGTAAC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (20 bp):
TGTATCGATACATGATGAAA
Found at i:529445 original size:4 final size:4
Alignment explanation
Indices: 529436--529481 Score: 56
Period size: 4 Copynumber: 11.5 Consensus size: 4
529426 TAACATGATG
* * * *
529436 GATA GATA GATA GATA GATA GATA AATA TATA GAAA GATA AATA GA
1 GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GATA GA
529482 AATCATGGGT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.57, C:0.00, G:0.20, T:0.24
Consensus pattern (4 bp):
GATA
Found at i:530288 original size:2 final size:2
Alignment explanation
Indices: 530276--530345 Score: 122
Period size: 2 Copynumber: 35.0 Consensus size: 2
530266 ATATTATTAA
* *
530276 AT AT AT TT AT AT AT AT AT AT AT AT AT AT AT CT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
530318 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
530346 TCGTGCATAA
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 64 1.00
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:531499 original size:2 final size:2
Alignment explanation
Indices: 531487--531534 Score: 71
Period size: 2 Copynumber: 23.5 Consensus size: 2
531477 TCATTCATAA
531487 AT AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT ACT CAT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T -AT
531530 AT AT A
1 AT AT A
531535 CCTTCAATCC
Statistics
Matches: 43, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
1 1 0.02
2 39 0.91
3 2 0.05
4 1 0.02
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:532051 original size:3 final size:3
Alignment explanation
Indices: 532043--532084 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
532033 CTAACACTAT
532043 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
532085 GACTTTTTGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:532188 original size:2 final size:2
Alignment explanation
Indices: 532181--532230 Score: 84
Period size: 2 Copynumber: 25.5 Consensus size: 2
532171 GTGAGTAATA
*
532181 AT AT AT AT AT AT AT AT AT AT CT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
532223 AT -T AT AT A
1 AT AT AT AT A
532231 CCTGCATTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 44 0.98
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:722468 original size:10 final size:10
Alignment explanation
Indices: 722453--722479 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
722443 ATGTATCAAG
722453 CAAAAACAAA
1 CAAAAACAAA
722463 CAAAAACAAA
1 CAAAAACAAA
722473 CAAAAAC
1 CAAAAAC
722480 TTAGTTAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.78, C:0.22, G:0.00, T:0.00
Consensus pattern (10 bp):
CAAAAACAAA
Found at i:726698 original size:52 final size:51
Alignment explanation
Indices: 726613--726736 Score: 212
Period size: 52 Copynumber: 2.4 Consensus size: 51
726603 ATATGAAAAG
* *
726613 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAA
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
*
726664 TTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAA
1 -TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
726716 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
726737 AAGATCAGTG
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
51 21 0.30
52 48 0.70
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
Found at i:726749 original size:51 final size:51
Alignment explanation
Indices: 726613--726756 Score: 202
Period size: 52 Copynumber: 2.8 Consensus size: 51
726603 ATATGAAAAG
*
726613 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
* *
726665 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAA-
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
*
726716 TTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
726757 ATGTATCGAT
Statistics
Matches: 84, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
50 2 0.02
51 34 0.40
52 48 0.57
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAAT
Found at i:726763 original size:13 final size:13
Alignment explanation
Indices: 726745--726769 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
726735 CAAAGATCAG
726745 TGTATCGATACAA
1 TGTATCGATACAA
726758 TGTATCGATACA
1 TGTATCGATACA
726770 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:726847 original size:33 final size:33
Alignment explanation
Indices: 726810--726876 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
726800 AGTAGCTTAA
726810 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
726843 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
726876 A
1 A
726877 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:726850 original size:13 final size:13
Alignment explanation
Indices: 726832--726856 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
726822 CAAAAAAATA
726832 TGTATCGATACAT
1 TGTATCGATACAT
726845 TGTATCGATACA
1 TGTATCGATACA
726857 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:736983 original size:9 final size:9
Alignment explanation
Indices: 736969--737032 Score: 67
Period size: 9 Copynumber: 6.9 Consensus size: 9
736959 TCATACCCAA
736969 AAAAAAAAC
1 AAAAAAAAC
*
736978 AAAAAAAAT
1 AAAAAAAAC
* *
736987 AGAGAAAACC
1 A-AAAAAAAC
736997 AAAAAAAAC
1 AAAAAAAAC
737006 -AAAAAAAC
1 AAAAAAAAC
737014 AAAAAAAACC
1 AAAAAAAA-C
737024 AAGAAAAAA
1 AA-AAAAAA
737033 ATAACAAAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
8 8 0.18
9 22 0.49
10 9 0.20
11 6 0.13
ACGTcount: A:0.83, C:0.11, G:0.05, T:0.02
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:737009 original size:7 final size:8
Alignment explanation
Indices: 736970--737044 Score: 55
Period size: 8 Copynumber: 8.9 Consensus size: 8
736960 CATACCCAAA
736970 AAAAAAAC
1 AAAAAAAC
736978 AAAAAAA-
1 AAAAAAAC
736985 ATAGAGAAAACC
1 A-A-A-AAAA-C
736997 AAAAAAAAC
1 -AAAAAAAC
737006 AAAAAAAC
1 AAAAAAAC
737014 AAAAAAAAC
1 -AAAAAAAC
* *
737023 CAAGAAA-
1 AAAAAAAC
*
737030 AAAATAAC
1 AAAAAAAC
737038 AAAAAAA
1 AAAAAAA
737045 TAGAAAGGGG
Statistics
Matches: 53, Mismatches: 6, Indels: 16
0.71 0.08 0.21
Matches are distributed among these distances:
7 5 0.09
8 27 0.51
9 10 0.19
10 8 0.15
11 1 0.02
12 1 0.02
13 1 0.02
ACGTcount: A:0.83, C:0.11, G:0.04, T:0.03
Consensus pattern (8 bp):
AAAAAAAC
Found at i:737046 original size:11 final size:11
Alignment explanation
Indices: 736997--737044 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
736987 AGAGAAAACC
736997 AAAAAA-AACA
1 AAAAAACAACA
737007 AAAAAACAA-A
1 AAAAAACAACA
* *
737017 AAAAACCAAGA
1 AAAAAACAACA
*
737028 AAAAAATAACA
1 AAAAAACAACA
737039 AAAAAA
1 AAAAAA
737045 TAGAAAGGGG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
10 15 0.47
11 17 0.53
ACGTcount: A:0.85, C:0.10, G:0.02, T:0.02
Consensus pattern (11 bp):
AAAAAACAACA
Found at i:738333 original size:28 final size:28
Alignment explanation
Indices: 738265--738866 Score: 603
Period size: 28 Copynumber: 20.9 Consensus size: 28
738255 CGTTCATCTC
*
738265 TTCAAAGCCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
* *
738294 TTCAAAGCCCACAAGTTAGGGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
738322 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
738350 TTCAAAGCCCACAAGTTAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
738378 TTCAAAGCCCATAAGTTAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
* * * *
738407 TTCAAAGCTCACACTAGTCGGTGGCAAATCTT
1 TTCAAAGC-C-CACAAGTCAGTGGC--ACCCT
*
738439 TTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
*
738467 TTCAAAGCCCACAAGTCATTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * **
738495 TTCAAAGCCTACAAGTTAGTGGCACATT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
738523 TTCAAAGCCCATAAGTCAGTGGCGCCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * * ** *
738551 ATCAAATCCCACGAGTTGGTGGCAACACTT
1 TTCAAAGCCCACAAGTCAGTGGC-AC-CCT
* *
738581 TTCAAAGCCCACAATTCAGTGGCATCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
** *
738609 TTCAAAGCCCATGAGTCAGTGGCAACACTT
1 TTCAAAGCCCACAAGTCAGTGGC-AC-CCT
* *
738639 TTCAAAGCCCACAAATCAATGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
738667 TTCAAAGCCCATAACTCAGTGGCACCTT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* *
738695 TTCAAAGTCCACAAGTCAGTGGCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
738724 TTCAAAGCCCACAAGTCAGTGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * * *
738752 TTCAAAACCGATAAGTCAATGGCACCCT
1 TTCAAAGCCCACAAGTCAGTGGCACCCT
* * * *
738780 TTCAAACCCCACAAGTCAATGCCACTCTT
1 TTCAAAGCCCACAAGTCAGTGGCAC-CCT
**
738809 TTCAAAGCCCACAAG-CTAGTGGCAACTTTT
1 TTCAAAGCCCACAAGTC-AGTGGC-AC-CCT
*
738839 TTCAAAGCCCACACAAGTTAGTGGCACC
1 TTCAAAG-CC-CACAAGTCAGTGGCACC
738867 TTTTTTTTAA
Statistics
Matches: 476, Mismatches: 81, Indels: 31
0.81 0.14 0.05
Matches are distributed among these distances:
28 287 0.60
29 85 0.18
30 65 0.14
31 15 0.03
32 23 0.05
33 1 0.00
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (28 bp):
TTCAAAGCCCACAAGTCAGTGGCACCCT
Found at i:738410 original size:85 final size:84
Alignment explanation
Indices: 738265--738869 Score: 631
Period size: 85 Copynumber: 7.0 Consensus size: 84
738255 CGTTCATCTC
*
738265 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGGGGCACCCTTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGC
738330 CCACAAGTCAGTGGCATCCT
66 CCACAAGTCAGTGGCA-CCT
* * * *
738350 TTCAAAGCCCACAAGTTAGTGGCAC-CCTTTCAAAGCCCATAAGTTAGTGGCACTCTTTTCAAAG
1 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCAC-CCTTTCAAAG
* * *
738414 CTCACACTAGTCGGTGGCAAATCTT
65 C-C-CACAAGTCAGTGGC--A-CCT
* * *
738439 TTCAAAGCCCACAAGTCAGTGGCA-TCCTTTCAAAGCCCACAAGTCATTGGCACCCTTTCAAAGC
1 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGC
* * *
738503 CTACAAGTTAGTGGCACATT
66 CCACAAGTCAGTGGCAC-CT
* * * * * * * *
738523 TTCAAAGCCCATAAGTCAGTGGCGC-CCTATCAAATCCCACGAGTTGGTGGCAACACTTTTCAAA
1 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGC-AC-CCTTTCAAA
*
738587 GCCCACAATTCAGTGGCATCCT
64 GCCCACAAGTCAGTGGCA-CCT
** * * * *
738609 TTCAAAGCCCATGAGTCAGTGGCAACACTTTTCAAAGCCCACAAATCAATGGCACCCTTTCAAAG
1 TTCAAAGCCCACAAGTCAGTGGC-ACTCTTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAG
* *
738674 CCCATAACTCAGTGGCACCTT
65 CCCACAAGTCAGTGGCACC-T
* * *
738695 TTCAAAGTCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAAC
1 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGC
* * *
738760 CGATAAGTCAATGGCACCCT
66 CCACAAGTCAGTGGCA-CCT
* * * * **
738780 TTCAAACCCCACAAGTCAATGCCACTCTTTTCAAAGCCCACAAGCTAGTGGCAACTTTTTTCAAA
1 TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGC-AC-CCTTTCAAA
*
738845 GCCCACACAAGTTAGTGGCACCT
64 G-CC-CACAAGTCAGTGGCACCT
738868 TT
1 TT
738870 TTTTTAAAAA
Statistics
Matches: 435, Mismatches: 66, Indels: 35
0.81 0.12 0.07
Matches are distributed among these distances:
83 1 0.00
84 70 0.16
85 136 0.31
86 106 0.24
87 24 0.06
88 35 0.08
89 63 0.14
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (84 bp):
TTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGC
CCACAAGTCAGTGGCACCT
Found at i:739004 original size:45 final size:46
Alignment explanation
Indices: 738934--739057 Score: 133
Period size: 49 Copynumber: 2.7 Consensus size: 46
738924 CTATCTGACA
* * * * * *
738934 TCGCTAGCATTGAATCAGCATATTGGCGCTTTT-ATTAGCCCAATT
1 TCGCTGGCCTTGAATTAGCACATTGGCACTTTTCATTAGCCCAATG
*
738979 TCGCTGGCCTTGAATTAGCACATTGGTCCACTTTTCCCTTAGCCCAATG
1 TCGCTGGCCTTGAATTAGCACATTGG--CACTTTT-CATTAGCCCAATG
* *
739028 TCGCTGGCCTTGAATTTGTACATTGGCACT
1 TCGCTGGCCTTGAATTAGCACATTGGCACT
739058 CTTTTCATCT
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
45 22 0.33
47 10 0.15
49 34 0.52
ACGTcount: A:0.20, C:0.26, G:0.19, T:0.35
Consensus pattern (46 bp):
TCGCTGGCCTTGAATTAGCACATTGGCACTTTTCATTAGCCCAATG
Found at i:739794 original size:20 final size:20
Alignment explanation
Indices: 739769--739844 Score: 134
Period size: 20 Copynumber: 3.8 Consensus size: 20
739759 TTTTTACCCA
*
739769 AATGTATCAATACACTTTTC
1 AATGTATCAATACATTTTTC
739789 AATGTATCAATACATTTTTC
1 AATGTATCAATACATTTTTC
739809 AATGTATCAATACATTTTTC
1 AATGTATCAATACATTTTTC
*
739829 AATGTATCGATACATT
1 AATGTATCAATACATT
739845 CTATTTTTTT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 54 1.00
ACGTcount: A:0.36, C:0.16, G:0.07, T:0.42
Consensus pattern (20 bp):
AATGTATCAATACATTTTTC
Found at i:739866 original size:52 final size:51
Alignment explanation
Indices: 739803--739943 Score: 166
Period size: 51 Copynumber: 2.8 Consensus size: 51
739793 TATCAATACA
739803 TTTTTC-A-ATGTATCAATACATTTTTCAATGTATCGATACATTCTAT-TT
1 TTTTTCTAGATGTATCAATACATTTTTCAATGTATCGATACATTCTATCTT
** * *
739851 TTTTTACCTAGATGTAT-AGATACATTCTTT-AACATATCGATACATTTTGTCTT
1 TTTTT--CTAGATGTATCA-ATACATT-TTTCAATGTATCGATACATTCTATCTT
*
739904 TTTTTCTAGATGTATCGATACATTTTTCAATGTATCGATA
1 TTTTTCTAGATGTATCAATACATTTTTCAATGTATCGATA
739944 AACTAGTTAA
Statistics
Matches: 77, Mismatches: 7, Indels: 15
0.78 0.07 0.15
Matches are distributed among these distances:
48 5 0.06
50 4 0.05
51 29 0.38
52 29 0.38
53 10 0.13
ACGTcount: A:0.28, C:0.14, G:0.09, T:0.48
Consensus pattern (51 bp):
TTTTTCTAGATGTATCAATACATTTTTCAATGTATCGATACATTCTATCTT
Found at i:744537 original size:127 final size:130
Alignment explanation
Indices: 744304--744542 Score: 351
Period size: 127 Copynumber: 1.9 Consensus size: 130
744294 AAAAAGTGTC
* * **
744304 ATTTTGTATCTTAATGGAAACCCACAAAGATATGAAAAGTTTTTGAAATCTTTTATACCTTTACG
1 ATTTTGTACCTTAATGGAAACCCACAAAGATATGAAAAGTTTTTGAAACCTTTTATACCCCTACG
* * *
744369 GATATTCATAGGAATATAAAAAATTAAAAATGATTAATATTTATTTATTTTTAGAATAAAAAATT
66 GATACTCATAGAAATATAAAAAATTAAAAACGATTAATATTTATTTATTTTTAGAATAAAAAATT
*
744434 ATTTTGTACCTT-ATGGAAACCC-GAAAGATATGAAAAGTTTTTGAAACCTTTTATACCCCTAC-
1 ATTTTGTACCTTAATGGAAACCCACAAAGATATGAAAAGTTTTTGAAACCTTTTATACCCCTACG
* *
744496 GATAC-CTATAGAAATATAAAAGATTAAAAACGATTAATATTTGTTTA
66 GATACTC-ATAGAAATATAAAAAATTAAAAACGATTAATATTTATTTA
744543 AATCATAGGG
Statistics
Matches: 98, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
126 1 0.01
127 40 0.41
128 36 0.37
129 10 0.10
130 11 0.11
ACGTcount: A:0.42, C:0.10, G:0.11, T:0.37
Consensus pattern (130 bp):
ATTTTGTACCTTAATGGAAACCCACAAAGATATGAAAAGTTTTTGAAACCTTTTATACCCCTACG
GATACTCATAGAAATATAAAAAATTAAAAACGATTAATATTTATTTATTTTTAGAATAAAAAATT
Found at i:744574 original size:127 final size:129
Alignment explanation
Indices: 744307--744550 Score: 296
Period size: 128 Copynumber: 1.9 Consensus size: 129
744297 AAGTGTCATT
* * **
744307 TTGTATCTTAATGGAAACCCACAAAGATATGAAAAGTTTTTGAAATCTTTTATACCTTTACGGAT
1 TTGTAACTT-ATGGAAACCCACAAAGATATGAAAAGTTTTTGAAACCTTTTATACCCCTACGGAT
* * * * ** * *
744372 ATTCATAGGAATATAAAAAATTAAAAATGATTAATATTTATTTATTTTTAGAATAAAAAATTATT
65 ACTCATAGAAATATAAAAAATTAAAAACGATTAATATTTATTTAATCATAGAAGAAAAAATTATA
* *
744437 TTGTACCTTATGGAAACCC-GAAAGATATGAAAAGTTTTTGAAACCTTTTATACCCCTAC-GATA
1 TTGTAACTTATGGAAACCCACAAAGATATGAAAAGTTTTTGAAACCTTTTATACCCCTACGGATA
* *
744500 C-CTATAGAAATATAAAAGATTAAAAACGATTAATATTTGTTTAAATCATAG
66 CTC-ATAGAAATATAAAAAATTAAAAACGATTAATATTTATTT-AATCATAG
744551 GGGAATTAGT
Statistics
Matches: 99, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
126 1 0.01
127 39 0.39
128 41 0.41
129 10 0.10
130 8 0.08
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.36
Consensus pattern (129 bp):
TTGTAACTTATGGAAACCCACAAAGATATGAAAAGTTTTTGAAACCTTTTATACCCCTACGGATA
CTCATAGAAATATAAAAAATTAAAAACGATTAATATTTATTTAATCATAGAAGAAAAAATTATA
Found at i:745485 original size:12 final size:12
Alignment explanation
Indices: 745468--745501 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
745458 TTCGTTTTTA
745468 CTATTTTTCTTT
1 CTATTTTTCTTT
*
745480 CTA-TTTTCATT
1 CTATTTTTCTTT
745491 CTATTTTTCTT
1 CTATTTTTCTT
745502 CTCACTTTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.12, C:0.18, G:0.00, T:0.71
Consensus pattern (12 bp):
CTATTTTTCTTT
Found at i:746081 original size:164 final size:166
Alignment explanation
Indices: 745882--746555 Score: 516
Period size: 166 Copynumber: 4.1 Consensus size: 166
745872 AACAACATTA
* ** *
745882 GATGAGTTTTAAAAATTCTAAACCAAGAAAAATCCCC-CATAAAAAATTTACAGG-GAAAAAAAC
1 GATGAATTTTAAAAATTGAAAACCGAGAAAAATCCCCTCA-AAAAAATTTAC-GGAGAAAAAAAC
* * * * *
745945 -TCAG-TTTCACAAAAAAAGAGAATTTTAA-CAAAAA-TTTCAAAACTCATGAAAATGAATTAAT
64 AT-AGATTTCA-AAAAAAAGAGAATTTCAAGAAAAAACATTAAAAACTCATGAAAATGAATGAAT
746006 TTTCT-AAAACTAATTTAATATGAATCAAA-AGATGATGTTT
127 TTT-TGAAAACTAATTTAATATGAATCAAATA-ATGATGTTT
* *
746046 GATGAATTTTAAAAATTGAAAACCGAGAAAAATCCCTCTCAAAAAAATTTACGGAGTACAAAACA
1 GATGAATTTTAAAAATTGAAAACCGAGAAAAATCCC-CTCAAAAAAATTTACGGAGAAAAAAACA
* * * *
746111 TTGTATTTTAAAAAAAAGGGAGTTTCAAGGAAAAAACATTAAAAACTCATGAAAATGAATGAATT
65 TAG-ATTTCAAAAAAAAGAGAATTTCAA-GAAAAAACATTAAAAACTCATGAAAATGAATGAATT
*
746176 TTTGAAAACTGATTTAATATGAATCAAATAATGATGTTT
128 TTTGAAAACTAATTTAATATGAATCAAATAATGATGTTT
* ** * *
746215 GCTGAATTTTAAAAATTGAAAAATGAG-AAAATCCCCTCAAAAAAATTTACGAAGTAGAAAACAC
1 GATGAATTTTAAAAATTGAAAACCGAGAAAAATCCCCTCAAAAAAATTTACGGAG-A-AAAAAAC
* * *** * ** * * * *
746279 CT-TATTTTGGAAGATTGGGAGTTTCAAGAAAAAA-ATAAAAAACTCATGAAAATAAATGAATTT
64 ATAGATTTCAAAAAAAAGAGAATTTCAAGAAAAAACATTAAAAACTCATGAAAATGAATGAATTT
* * * * * *
746342 TTAAAAACTAAATTACTATGAAAT-AAATGATAATATTT
129 TTGAAAACTAATTTAATATG-AATCAAATAATGATGTTT
* * * * * * * ** * * * * *
746380 GATGAAATTTCAGAAA-TAAAAACCAAGAACAATCTCTTTGAAAAAATTGATGAAGTAGAAAACA
1 GATG-AATTTTAAAAATTGAAAACCGAGAAAAATCCCCTCAAAAAAATTTACGGAGAAAAAAACA
* * * *
746444 -ACGTATTTCGAAAAAAAGAGAATTTCAAG-GAAAA-ATTCAAAAACTCACGAAAATGAATTAAT
65 TA-G-ATTTCAAAAAAAAGAGAATTTCAAGAAAAAACATT-AAAAACTCATGAAAATGAATGAAT
* * * * * *
746506 TTTTGAAAACTAATTTGATAGGAATTAAATGATAATATTT
127 TTTTGAAAACTAATTTAATATGAATCAAATAATGATGTTT
*
746546 GAAGAATTTT
1 GATGAATTTT
746556 GATGTTTGAA
Statistics
Matches: 412, Mismatches: 77, Indels: 41
0.78 0.15 0.08
Matches are distributed among these distances:
164 39 0.09
165 98 0.24
166 130 0.32
167 41 0.10
168 14 0.03
169 89 0.22
170 1 0.00
ACGTcount: A:0.50, C:0.10, G:0.12, T:0.28
Consensus pattern (166 bp):
GATGAATTTTAAAAATTGAAAACCGAGAAAAATCCCCTCAAAAAAATTTACGGAGAAAAAAACAT
AGATTTCAAAAAAAAGAGAATTTCAAGAAAAAACATTAAAAACTCATGAAAATGAATGAATTTTT
GAAAACTAATTTAATATGAATCAAATAATGATGTTT
Found at i:746193 original size:169 final size:168
Alignment explanation
Indices: 745974--746555 Score: 601
Period size: 166 Copynumber: 3.5 Consensus size: 168
745964 GAATTTTAAC
* * *
745974 AAAAATTTCAAAACTCATGAAAATGAATTAATTTTCT-AAAACTAATTTAATATGAATCAAAAGA
1 AAAAAATTAAAAACTCATGAAAATGAATGAATTTT-TGAAAACTAATTTAATATGAATCAAAAGA
* * *
746038 TGATGTTTGATGAATTTTAAAAATTGAAAACCGAGAAAAATCCCTCTCAAAAAAATTTACGGAGT
65 TAATATTTGATGAATTTTAAAAATTGAAAACCGAGAAAAATCCCTCTCAAAAAAATTTACGAAGT
* * *
746103 ACAAAACATTGTATTTTAAAAAAAAGGGAGTTTCAAGGA
130 AGAAAACAATGTATTTTGAAAAAAAGGGAGTTTCAAGGA
*
746142 AAAAACATTAAAAACTCATGAAAATGAATGAATTTTTGAAAACTGATTTAATATGAATCAAATA-
1 AAAAA-ATTAAAAACTCATGAAAATGAATGAATTTTTGAAAACTAATTTAATATGAATCAAA-AG
* * * **
746206 ATGATGTTTGCTGAATTTTAAAAATTGAAAAATGAG-AAAATCCC-CTCAAAAAAATTTACGAAG
64 ATAATATTTGATGAATTTTAAAAATTGAAAACCGAGAAAAATCCCTCTCAAAAAAATTTACGAAG
* * * **
746269 TAGAAAACACCT-TATTTTGGAAGATTGGGAGTTTCAA-GA
129 TAGAAAACA-ATGTATTTTGAAAAAAAGGGAGTTTCAAGGA
* * * * * *
746308 AAAAAATAAAAAACTCATGAAAATAAATGAATTTTTAAAAACTAAATTACTATGAAAT-AAATGA
1 AAAAAATTAAAAACTCATGAAAATGAATGAATTTTTGAAAACTAATTTAATATG-AATCAAAAGA
* * * * * * ** * *
746372 TAATATTTGATGAAATTTCAGAAA-TAAAAACCAAGAACAATCTCT-TTGAAAAAATTGATGAAG
65 TAATATTTGATG-AATTTTAAAAATTGAAAACCGAGAAAAATCCCTCTCAAAAAAATTTACGAAG
* * * *
746435 TAGAAAACAACGTATTTCGAAAAAAAGAGAATTTCAAGG-
129 TAGAAAACAATGTATTTTGAAAAAAAGGGAGTTTCAAGGA
* * * * * *
746474 -AAAAATTCAAAAACTCACGAAAATGAATTAATTTTTGAAAACTAATTTGATAGGAATTAAATGA
1 AAAAAATT-AAAAACTCATGAAAATGAATGAATTTTTGAAAACTAATTTAATATGAATCAAAAGA
*
746538 TAATATTTGAAGAATTTT
65 TAATATTTGATGAATTTT
746556 GATGTTTGAA
Statistics
Matches: 344, Mismatches: 57, Indels: 29
0.80 0.13 0.07
Matches are distributed among these distances:
165 77 0.22
166 121 0.35
167 47 0.14
168 15 0.04
169 83 0.24
170 1 0.00
ACGTcount: A:0.49, C:0.09, G:0.13, T:0.29
Consensus pattern (168 bp):
AAAAAATTAAAAACTCATGAAAATGAATGAATTTTTGAAAACTAATTTAATATGAATCAAAAGAT
AATATTTGATGAATTTTAAAAATTGAAAACCGAGAAAAATCCCTCTCAAAAAAATTTACGAAGTA
GAAAACAATGTATTTTGAAAAAAAGGGAGTTTCAAGGA
Found at i:753234 original size:20 final size:20
Alignment explanation
Indices: 753209--753283 Score: 114
Period size: 20 Copynumber: 3.8 Consensus size: 20
753199 TTTTACCCAG
753209 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
753229 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
*
753249 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
753269 ATGTATCGATACATT
1 ATGTATCGATACATT
753284 CTGTCTTTTT
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:756301 original size:19 final size:20
Alignment explanation
Indices: 756277--756337 Score: 72
Period size: 19 Copynumber: 3.1 Consensus size: 20
756267 TTTGAAATTC
756277 AACAGT-TTGTATCGATACA
1 AACAGTATTGTATCGATACA
*
756296 AACAGTAAATGTATCGATACA
1 AACAGT-ATTGTATCGATACA
* *
756317 TA-AGTGTTGTATCGATACA
1 AACAGTATTGTATCGATACA
756336 AA
1 AA
756338 AGCTACTCTG
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
19 19 0.54
20 3 0.09
21 13 0.37
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.30
Consensus pattern (20 bp):
AACAGTATTGTATCGATACA
Found at i:768745 original size:97 final size:97
Alignment explanation
Indices: 768495--768734 Score: 390
Period size: 97 Copynumber: 2.5 Consensus size: 97
768485 TTGAAAAACA
* *
768495 GGGTTGGAGTATCCCTTCGGAGGAATGGGGTTGGAGTGTCCCCAATGATGACAATTTAAGTAAGA
1 GGGTTGGAGTATCCCCTCGGAGGAATGGGGTTGGAGTGTCCCCGATGATGACAATTTAAGTAAGA
*
768560 ATAAAATTTAAACTTTGATGCGTTTAAAAGCG
66 ATAAAATTTAAACTTTAATGCGTTTAAAAGCG
* *
768592 GGGTTGGAGTATCCCCTCGGAGGAATGGGGTTGAAGTGTCCCCGATGATGACAATTTAAGTGAGA
1 GGGTTGGAGTATCCCCTCGGAGGAATGGGGTTGGAGTGTCCCCGATGATGACAATTTAAGTAAGA
* * *
768657 ATAAGATTTAAACTTTAATGTGTTTAAAAGTG
66 ATAAAATTTAAACTTTAATGCGTTTAAAAGCG
* *
768689 GGGTTGGAGTATCCCCTCGGAGGAATAGGGTTGGAGTATCCCCGAT
1 GGGTTGGAGTATCCCCTCGGAGGAATGGGGTTGGAGTGTCCCCGAT
768735 AAATAAAATT
Statistics
Matches: 132, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
97 132 1.00
ACGTcount: A:0.28, C:0.13, G:0.30, T:0.28
Consensus pattern (97 bp):
GGGTTGGAGTATCCCCTCGGAGGAATGGGGTTGGAGTGTCCCCGATGATGACAATTTAAGTAAGA
ATAAAATTTAAACTTTAATGCGTTTAAAAGCG
Found at i:771678 original size:28 final size:28
Alignment explanation
Indices: 771606--772783 Score: 989
Period size: 28 Copynumber: 40.8 Consensus size: 28
771596 TACTAACTTA
*
771606 TGTGGGCTTTGAAAAGAGTTGCCACTGACT
1 TGTGGGCTTTG-AAAG-GATGCCACTGACT
* *
771636 TGTGTAGGCTTTGAAAGGGTGCCACTAACT
1 TGTG--GGCTTTGAAAGGATGCCACTGACT
* * **
771666 TGTAGGCTTTGAAAAAAGAGTTGCCACCAACT
1 TGTGGGCTTTG---AAAG-GATGCCACTGACT
* *
771698 TGTATGGGCTTTGAAAAGATACCACTGACT
1 TG--TGGGCTTTGAAAGGATGCCACTGACT
*
771728 TGTGGGTTTTGAAAAGGATGCCACTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
*
771757 TGTGGGCTTTGAAAAGGATGCCACTAACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
*
771786 TTTGGGCTTTTGAAAGGATGCCACTGACT
1 TGTGGGC-TTTGAAAGGATGCCACTGACT
* * *
771815 TGTGGGGTTTGAAAAGATGCCA-TTATCT
1 TGTGGGCTTTGAAAGGATGCCACTGA-CT
*
771843 TGTGGGCTTTGAAAATG-TGCCACTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
*
771871 TGTGGGCTTTGAAAGGGTATGCCATTGACT
1 TGTGGGCTTTGAAA-GG-ATGCCACTGACT
* * *
771901 TGTGGACTTTGAAATGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
771929 TGTCGGCTTT-AAAGGATGACACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
771956 TATGGGCTTTGAAATGGCTTGCCACCGACT
1 TGTGGGCTTTGAAA-GG-ATGCCACTGACT
* *
771986 TGAATGGGCTTTGAAATGGCTTGCCACCGACTT
1 TG--TGGGCTTTGAAA-GG-ATGCCACTGAC-T
* **
772019 GTGTGGGCTTTGAAATGGGTTGCCACCAACT
1 -TGTGGGCTTTGAAA--GGATGCCACTGACT
* * *
772050 TGTGTGAGCTTTCAAATGAGTTGCCACCGACTT
1 TGTG-G-GCTTTGAAA-G-GATGCCACTGAC-T
* *
772083 GTGTGGGCTTTGAAA-TAGTGCCACTAACT
1 -TGTGGGCTTTGAAAGGA-TGCCACTGACT
* * *
772112 TATGGGCTTTGAAATGATGCTACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
772140 TGTGGGCTTTGAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
772168 TGTGGGCCTTGAAATGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
772196 TGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
772224 TGTGAGCTTTAAAAGGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
772252 TGTGGGCTTGGAAAAGG-TGCCACTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
* *
772280 TGTGGGCTTTGAAAATG-TGCCACTAACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
* * *
772308 TATGGGCTTGGAAAAGG-TGCGACTGACT
1 TGTGGGCTTTG-AAAGGATGCCACTGACT
* * * *
772336 TATGAGCTTTGAAATGATGCCATTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
772364 TATGGGCTTTGAAATGATGCCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * *
772392 TGTGGGCTTTAAAAGGGTGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
772420 TGTGGGCTTTGAAAGGGTGCCACCGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
*
772448 TGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
772476 TGTAGGC-TTGAAATGG-TGCCACTGACA
1 TGTGGGCTTTGAAA-GGATGCCACTGACT
* *
772503 TATGGGCTTTGAAAGGATACCACTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
772531 TATGGGC-TTAAAAAGATGCCA-TGGAGT
1 TGTGGGCTTTGAAAGGATGCCACT-GACT
*
772558 TGTGGGCTTTGAAATGGGTTGCCACTGACT
1 TGTGGGCTTTGAAA--GGATGCCACTGACT
* * *
772588 TGCGTGGGCTTTCAAATGAGTTGCCAC-AACTT
1 T--GTGGGCTTTGAAA-G-GATGCCACTGAC-T
* * *
772620 GTGTGGGCTTTAAAATGAGTTGCCACCGACT
1 -TGTGGGCTTTGAAA-G-GATGCCACTGACT
* **
772651 TGTGGGCTTTGAAATGATGCCGTTGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
772679 TGTAGACTTTGAAATGG-TGCCAATAACT
1 TGTGGGCTTTGAAA-GGATGCCACTGACT
* *
772707 TGTGGGCTTTGAAATGATGCCACAGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
772735 TATGGGCTTTGAAAGGATGCCACAGACT
1 TGTGGGCTTTGAAAGGATGCCACTGACT
* *
772763 TGTGGACTTT-AAAGGGTGCCA
1 TGTGGGCTTTGAAAGGATGCCA
772784 TGGAGTTATG
Statistics
Matches: 959, Mismatches: 140, Indels: 101
0.80 0.12 0.08
Matches are distributed among these distances:
26 1 0.00
27 85 0.09
28 506 0.53
29 86 0.09
30 100 0.10
31 42 0.04
32 119 0.12
33 6 0.01
34 14 0.01
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGATGCCACTGACT
Found at i:772626 original size:31 final size:31
Alignment explanation
Indices: 772558--772667 Score: 143
Period size: 31 Copynumber: 3.5 Consensus size: 31
772548 GCCATGGAGT
*
772558 TGTGGGCTTTGAAATGGGTTGCCACTGACTTG
1 TGTGGGCTTTGAAATGAGTTGCCAC-GACTTG
* * *
772590 CGTGGGCTTTCAAATGAGTTGCCACAACTTG
1 TGTGGGCTTTGAAATGAGTTGCCACGACTTG
*
772621 TGTGGGCTTTAAAATGAGTTGCCACCGAC-T-
1 TGTGGGCTTTGAAATGAGTTGCCA-CGACTTG
772651 TGTGGGCTTTGAAATGA
1 TGTGGGCTTTGAAATGA
772668 TGCCGTTGAC
Statistics
Matches: 69, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
30 16 0.23
31 28 0.41
32 25 0.36
ACGTcount: A:0.21, C:0.17, G:0.30, T:0.32
Consensus pattern (31 bp):
TGTGGGCTTTGAAATGAGTTGCCACGACTTG
Found at i:772795 original size:27 final size:27
Alignment explanation
Indices: 772746--773459 Score: 815
Period size: 27 Copynumber: 26.1 Consensus size: 27
772736 ATGGGCTTTG
* * * *
772746 AAAGGATGCCACAGACTTGTGGACTTT
1 AAAGGGTGCCACGGAGTTGTGGACTTA
* *
772773 AAAGGGTGCCATGGAGTTATGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
* *
772800 CAAAGGG-GCCATGGAGATGTGGACTTA
1 -AAAGGGTGCCACGGAGTTGTGGACTTA
* * *
772827 AAAGGGTGCCACAGAGATGTGGACCTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
*
772854 AAAGGATGCCACGGAGTTGTGGACTTTTA
1 AAAGGGTGCCACGGAGTTGTGGAC--TTA
* * **
772883 AAATGGTGCCACAGAGTTGTAAACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
* *
772910 AATA-GGTGCCACGGAGTTATGGACCTA
1 AA-AGGGTGCCACGGAGTTGTGGACTTA
* *
772937 AAAGGGTGCCACAGAGTGGTGGACTTTA
1 AAAGGGTGCCACGGAGTTGTGGAC-TTA
* **
772965 AAAGAGTGCCATAGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
*
772992 AAAGGGTGCCACGGAGTTATGGACTTTA
1 AAAGGGTGCCACGGAGTTGTGGAC-TTA
* *
773020 AAAGGGTGCCACGGTGTTGTGGACCTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
*
773047 AAAGGGTGCCACAGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
*
773074 AAAGGGTGCCACGGAGTTGGGGACATT-
1 AAAGGGTGCCACGGAGTTGTGGAC-TTA
* * * * * *
773101 GAAGGATGGCACAGTGTTGTGGGCTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
**
773128 AAAGAATGCCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
*
773155 AAAGGATGCCACGGAGTTGTGGACTTTA
1 AAAGGGTGCCACGGAGTTGTGGAC-TTA
** * *
773183 AAAGGGTGCCACAAAGCTGAGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
* *
773210 AAAGGATGCCACAGAGTTGTGGACTTTA
1 AAAGGGTGCCACGGAGTTGTGGAC-TTA
*
773238 AAAGGGTGCCACGGAGTTATGGACTTTA
1 AAAGGGTGCCACGGAGTTGTGGAC-TTA
* *
773266 AAAGGGTGCCACAGAGTTGTAGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
** *
773293 AAAGGGTTTCATGGAGTTGTGGACTTTA
1 AAAGGGTGCCACGGAGTTGTGGAC-TTA
*
773321 AAAGGGTGCCATGGAGTTGTGGACCTT-
1 AAAGGGTGCCACGGAGTTGTGGA-CTTA
773348 AAAGGGTGCCACGGAGTTGTGGACTTTA
1 AAAGGGTGCCACGGAGTTGTGGAC-TTA
*
773376 AAAGGGTGCCACGAAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
773403 AAAGGGTGCCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
*
773430 AAAGGTTGCCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTA
773457 AAA
1 AAA
773460 AGGAATGCCA
Statistics
Matches: 587, Mismatches: 84, Indels: 32
0.83 0.12 0.05
Matches are distributed among these distances:
26 10 0.02
27 378 0.64
28 177 0.30
29 22 0.04
ACGTcount: A:0.29, C:0.15, G:0.33, T:0.24
Consensus pattern (27 bp):
AAAGGGTGCCACGGAGTTGTGGACTTA
Found at i:773462 original size:55 final size:54
Alignment explanation
Indices: 772746--773459 Score: 826
Period size: 55 Copynumber: 13.1 Consensus size: 54
772736 ATGGGCTTTG
* * * * ** *
772746 AAAGGATGCCACAGACTTGTGGACTTTAAAGGGTGCCATGGAGTTATGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTA
* * * *
772800 CAAAGGG-GCCATGGAGATGTGGACTTAAAAGGGTGCCACAGAGATGTGGACCTA
1 -AAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTA
* * **
772854 AAAGGATGCCACGGAGTTGTGGACTTTTAAAATGGTGCCACAGAGTTGTAAACTTA
1 AAAGGGTGCCACGGAGTTGTGGAC--TTAAAAGGGTGCCACAGAGTTGTGGACTTA
* * *
772910 AATA-GGTGCCACGGAGTTATGGACCTAAAAGGGTGCCACAGAGTGGTGGACTTTA
1 AA-AGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGAC-TTA
* ** * *
772965 AAAGAGTGCCATAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTATGGACTTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGAC-TTA
* *
773020 AAAGGGTGCCACGGTGTTGTGGACCTAAAAGGGTGCCACAGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTA
* * * * * *
773074 AAAGGGTGCCACGGAGTTGGGGACATT-GAAGGATGGCACAGTGTTGTGGGCTTA
1 AAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACAGAGTTGTGGACTTA
** * *
773128 AAAGAATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGAC-TTA
** * * *
773183 AAAGGGTGCCACAAAGCTGAGGACTTAAAAGGATGCCACAGAGTTGTGGACTTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGAC-TTA
* *
773238 AAAGGGTGCCACGGAGTTATGGACTTTAAAAGGGTGCCACAGAGTTGTAGACTTA
1 AAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACAGAGTTGTGGACTTA
** * **
773293 AAAGGGTTTCATGGAGTTGTGGACTTTAAAAGGGTGCCATGGAGTTGTGGACCTT-
1 AAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACAGAGTTGTGGA-CTTA
773348 AAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCAC-GAAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACAG-AGTTGTGGACTTA
* *
773403 AAAGGGTGCCACGGAGTTGTGGACTTAAAAGGTTGCCACGGAGTTGTGGACTTA
1 AAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTA
773457 AAA
1 AAA
773460 AGGAATGCCA
Statistics
Matches: 562, Mismatches: 83, Indels: 29
0.83 0.12 0.04
Matches are distributed among these distances:
53 7 0.01
54 196 0.35
55 285 0.51
56 73 0.13
57 1 0.00
ACGTcount: A:0.29, C:0.15, G:0.33, T:0.24
Consensus pattern (54 bp):
AAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTA
Found at i:779766 original size:97 final size:97
Alignment explanation
Indices: 779541--779752 Score: 345
Period size: 97 Copynumber: 2.2 Consensus size: 97
779531 TGAAAAACGA
** *
779541 GGTTGGAGTATCTTCTCGGAGGAATGGGGTTGGAGTGTCTCCGATGATGACAATTTAAGTGAGAA
1 GGTTGGAGTATCCCCTCGGAGGAATGGGGTTGAAGTGTCTCCGATGATGACAATTTAAGTGAGAA
*
779606 TAAAATTTAAACATTGATGCGTTTAAAAGCGG
66 TAAAATATAAACATTGATGCGTTTAAAAGCGG
779638 GGTTGGAGTATCCCCTCGGAGGAATGGGGTTGAAGTGTC-CTCGATGATGACAATTTAAGTGAGA
1 GGTTGGAGTATCCCCTCGGAGGAATGGGGTTGAAGTGTCTC-CGATGATGACAATTTAAGTGAGA
* * *
779702 ATAAGATATAAACTTTGATGTGTTTAAAAGCGG
65 ATAAAATATAAACATTGATGCGTTTAAAAGCGG
779735 GGTTGGAGTATCCCCTCG
1 GGTTGGAGTATCCCCTCG
779753 AAAGAATAAG
Statistics
Matches: 107, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
96 1 0.01
97 106 0.99
ACGTcount: A:0.28, C:0.12, G:0.30, T:0.29
Consensus pattern (97 bp):
GGTTGGAGTATCCCCTCGGAGGAATGGGGTTGAAGTGTCTCCGATGATGACAATTTAAGTGAGAA
TAAAATATAAACATTGATGCGTTTAAAAGCGG
Found at i:779790 original size:97 final size:97
Alignment explanation
Indices: 779582--779790 Score: 260
Period size: 97 Copynumber: 2.2 Consensus size: 97
779572 GGAGTGTCTC
* * *
779582 CGATGATGACAATTTAAGTGAGAATAAAATTTAAACATTGATGCGTTTAAAAGCGGGGTTGGAGT
1 CGATAATGAAAATTTAAGTGAGAATAAAATATAAACATTGATGCGTTTAAAAGCGGGGTTGGAGT
* * ** *
779647 ATCCCCTCGGAGGAATGGGGTTGAAGTGTCCT
66 ATCCCCTCGAAAGAATAAGGTTGAAGTATCCT
* * * * *
779679 CGATGATGACAATTTAAGTGAGAATAAGATATAAACTTTGATGTGTTTAAAAGCGGGGTTGGAGT
1 CGATAATGAAAATTTAAGTGAGAATAAAATATAAACATTGATGCGTTTAAAAGCGGGGTTGGAGT
*
779744 ATCCCCTCGAAAGAATAAGGTTGGAGTATCCGT
66 ATCCCCTCGAAAGAATAAGGTTGAAGTATCC-T
779777 -GATAAAT-AAAATTT
1 CGAT-AATGAAAATTT
779791 TAATTTTTTT
Statistics
Matches: 98, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
97 95 0.97
98 3 0.03
ACGTcount: A:0.34, C:0.11, G:0.26, T:0.29
Consensus pattern (97 bp):
CGATAATGAAAATTTAAGTGAGAATAAAATATAAACATTGATGCGTTTAAAAGCGGGGTTGGAGT
ATCCCCTCGAAAGAATAAGGTTGAAGTATCCT
Found at i:780220 original size:19 final size:20
Alignment explanation
Indices: 780173--780246 Score: 89
Period size: 19 Copynumber: 3.7 Consensus size: 20
780163 CACACCCAGA
*
780173 TGTATCGATACATGTTGCTT
1 TGTATCGATACATGTTGCAT
780193 TGTATCGATACATGTT-CAT
1 TGTATCGATACATGTTGCAT
* *
780212 TGTACCGATACATG-GGCAAAT
1 TGTATCGATACATGTTGC--AT
780233 TGTATCGATACATG
1 TGTATCGATACATG
780247 AAATTGGCAG
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
19 16 0.34
20 16 0.34
21 15 0.32
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.36
Consensus pattern (20 bp):
TGTATCGATACATGTTGCAT
Found at i:780312 original size:13 final size:13
Alignment explanation
Indices: 780291--780321 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
780281 CGATACATGG
*
780291 TACAATGTATCGA
1 TACATTGTATCGA
780304 TACATTGTATCGA
1 TACATTGTATCGA
780317 TACAT
1 TACAT
780322 GAAGAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:780400 original size:19 final size:20
Alignment explanation
Indices: 780376--780413 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
780366 ATAATTTCAA
780376 ATGAA-TGTATCGATACATT
1 ATGAATTGTATCGATACATT
780395 ATGAATTGTATCGATACAT
1 ATGAATTGTATCGATACAT
780414 GGCTACGGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.37
Consensus pattern (20 bp):
ATGAATTGTATCGATACATT
Found at i:782565 original size:20 final size:20
Alignment explanation
Indices: 782537--782583 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
782527 TATGTTTTTT
* * *
782537 CTTTTTTTTTCTTTTTCTTC
1 CTTTCTTTTTCATCTTCTTC
*
782557 CTTTCTTTTTCATCTTCTTT
1 CTTTCTTTTTCATCTTCTTC
782577 CTTTCTT
1 CTTTCTT
782584 ACCTAACATG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.74
Consensus pattern (20 bp):
CTTTCTTTTTCATCTTCTTC
Found at i:788916 original size:65 final size:65
Alignment explanation
Indices: 788770--788922 Score: 157
Period size: 65 Copynumber: 2.3 Consensus size: 65
788760 CATTTTGGCT
* * *
788770 AACTCCTTTTTGACTTAGGTTTCGCCTTCGTCACCCTTTTTCAGTTTGTATGGTTTTGTCCTAAC
1 AACTCCTCTTTGACTTAGG-TTCACCTTCGTCACCCTTTTTCAGTTTATATGGTTTTGTCCTAAC
788835 A
65 A
* ** * * *
788836 AATTTTTCTTTGACTTAGGTTCACC-TCAGTTACCCTTTGTT-GGTTTATATGGTTTTGTCCTAG
1 AACTCCTCTTTGACTTAGGTTCACCTTC-GTCACCCTTT-TTCAGTTTATATGGTTTTGTCCTAA
*
788899 CC
64 CA
* *
788901 AACTCCTCTTCGACTTAAGTTC
1 AACTCCTCTTTGACTTAGGTTC
788923 CACCGTAGTC
Statistics
Matches: 70, Mismatches: 15, Indels: 5
0.78 0.17 0.06
Matches are distributed among these distances:
64 2 0.03
65 51 0.73
66 17 0.24
ACGTcount: A:0.16, C:0.24, G:0.15, T:0.45
Consensus pattern (65 bp):
AACTCCTCTTTGACTTAGGTTCACCTTCGTCACCCTTTTTCAGTTTATATGGTTTTGTCCTAACA
Found at i:788998 original size:66 final size:66
Alignment explanation
Indices: 788928--789059 Score: 158
Period size: 66 Copynumber: 2.0 Consensus size: 66
788918 AGTTCCACCG
* * * * **
788928 TAGTCACTATTTATTGGTTCGCATGGTTTCATCCTAGCCAACTCTTT-TTTGACTTAGGTTTTGC
1 TAGTCACCATTTATTAGTTCGCACGGTTTCATCCCAGCCAAC-CTTTCTTCAACTTAGGTTTTGC
788992 CC
65 CC
* * * *
788994 TAGTCACCCTTTATTAGTTCGTACGGTTTCATCCCAGCTAGCCTTTCTTCAACTTAGGTTTTGCC
1 TAGTCACCATTTATTAGTTCGCACGGTTTCATCCCAGCCAACCTTTCTTCAACTTAGGTTTTGCC
789059 C
66 C
789060 CGGTCAACCT
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
65 4 0.07
66 51 0.93
ACGTcount: A:0.17, C:0.26, G:0.16, T:0.42
Consensus pattern (66 bp):
TAGTCACCATTTATTAGTTCGCACGGTTTCATCCCAGCCAACCTTTCTTCAACTTAGGTTTTGCC
C
Found at i:790157 original size:17 final size:18
Alignment explanation
Indices: 790131--790164 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
790121 TGATTATTAA
790131 TTTTAATTTT-AATTTTC
1 TTTTAATTTTGAATTTTC
*
790148 TTTTAGTTTTGAATTTT
1 TTTTAATTTTGAATTTT
790165 TTTATTTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.21, C:0.03, G:0.06, T:0.71
Consensus pattern (18 bp):
TTTTAATTTTGAATTTTC
Found at i:792856 original size:22 final size:22
Alignment explanation
Indices: 792828--792870 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
792818 TCGAGCAATG
*
792828 AGAAAATATTAATAATGATATA
1 AGAAAATATTAATAATAATATA
792850 AGAAAATATTAATAATAATAT
1 AGAAAATATTAATAATAATAT
792871 GGTGCCTAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (22 bp):
AGAAAATATTAATAATAATATA
Found at i:794468 original size:56 final size:56
Alignment explanation
Indices: 794391--794520 Score: 226
Period size: 56 Copynumber: 2.3 Consensus size: 56
794381 TTGGAAGCTA
*
794391 CAAGAATAGTGTTTTTCTAAGTAAATGATAGCTAAGTAAATTTTGTATTTATAAAG
1 CAAGAATAGTGGTTTTCTAAGTAAATGATAGCTAAGTAAATTTTGTATTTATAAAG
794447 CAAGAATAGTGCGTTTT-TAAGTAAATGATAGCTAAGTAAATTTTGTATTTATAAAG
1 CAAGAATAGTG-GTTTTCTAAGTAAATGATAGCTAAGTAAATTTTGTATTTATAAAG
*
794503 CAAGAATAGTGTTTTTCT
1 CAAGAATAGTGGTTTTCT
794521 CAGAAAACCT
Statistics
Matches: 70, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
55 4 0.06
56 62 0.89
57 4 0.06
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.39
Consensus pattern (56 bp):
CAAGAATAGTGGTTTTCTAAGTAAATGATAGCTAAGTAAATTTTGTATTTATAAAG
Found at i:800325 original size:51 final size:51
Alignment explanation
Indices: 800220--800333 Score: 142
Period size: 51 Copynumber: 2.2 Consensus size: 51
800210 AAAACAACAA
*
800220 GGTTGGAGTATCTCTGATGGTGAGAAATTGATATTCTAAAAATAAAAATTG
1 GGTTGGAGTATCTCTGATGGTGAGAAATTGATATTCTAAAAATAAAAATGG
* * ** *
800271 GGTTGGCGTATCTCTGATGGTGA-AAAGTTGATATTTTGGAAA-CAAAATCGG
1 GGTTGGAGTATCTCTGATGGTGAGAAA-TTGATATTCTAAAAATAAAAAT-GG
800322 GGTTGGAGTATC
1 GGTTGGAGTATC
800334 CCCACAAAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
50 8 0.15
51 46 0.85
ACGTcount: A:0.32, C:0.08, G:0.28, T:0.32
Consensus pattern (51 bp):
GGTTGGAGTATCTCTGATGGTGAGAAATTGATATTCTAAAAATAAAAATGG
Found at i:800421 original size:130 final size:129
Alignment explanation
Indices: 800184--800466 Score: 286
Period size: 130 Copynumber: 2.2 Consensus size: 129
800174 TTTTGGGGGT
** * *
800184 AAAATCAGGGTTGGAGTATCCCCTTAAAAACAACAAGGTTGGAGTATCTCTGATGGTGAGAAATT
1 AAAATCAGGGTTGGAGTATCCCCACAAAAACAACAAGGTTAGAGTATCCCTGATGGTGAGAAATT
* * ** *
800249 GATATTCTAAAAATAAAAATTGGGTTGGCGTATCTCTGATGGTGAAAAGTTGATATTTTGGAAAC
66 GATATTCTAAAAATAAAAATTGGGTTGGAGTATCCCTGATGGTGAAAA-TCAATATTTTAGAAAC
* * ***
800314 AAAATCGGGGTTGGAGTATCCCCACAAAAATAATGGGGTTAGAGTATCCCTGATGGT-AGAAAAT
1 AAAATCAGGGTTGGAGTATCCCCACAAAAACAACAAGGTTAGAGTATCCCTGATGGTGAG-AAAT
* * * * * *
800378 CTG-TGTTTTAGAAAT-TAAATTGGGGTTGGAGTATCCCCT-ATGGTGGAAATCAATGTTTTAGA
65 -TGATATTCTAAAAATAAAAATT-GGGTTGGAGTAT-CCCTGATGGTGAAAATCAATATTTTAGA
*
800440 AAT
127 AAC
**
800443 AAAATCAGGGTTAAAGTATCCCCA
1 AAAATCAGGGTTGGAGTATCCCCA
800467 ATGGTGGAAA
Statistics
Matches: 125, Mismatches: 24, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
129 39 0.31
130 81 0.65
131 5 0.04
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.29
Consensus pattern (129 bp):
AAAATCAGGGTTGGAGTATCCCCACAAAAACAACAAGGTTAGAGTATCCCTGATGGTGAGAAATT
GATATTCTAAAAATAAAAATTGGGTTGGAGTATCCCTGATGGTGAAAATCAATATTTTAGAAAC
Found at i:800499 original size:51 final size:51
Alignment explanation
Indices: 800348--800514 Score: 219
Period size: 51 Copynumber: 3.3 Consensus size: 51
800338 CAAAAATAAT
** * * * *
800348 GGGGTTAGAGTATCCCTGATGGTAGAAAATCTGTGTTTTAGAAATTAAATT
1 GGGGTTAGAGTATCCCCAATGGTGGAAAATCAGTGTTTTAGAAATAAAATC
* * *
800399 GGGGTTGGAGTATCCCCTATGGTGG-AAATCAATGTTTTAGAAATAAAATC
1 GGGGTTAGAGTATCCCCAATGGTGGAAAATCAGTGTTTTAGAAATAAAATC
* *
800449 AGGGTTAAAGTATCCCCAATGGTGGAAAATCAGTGTTTTAGAAATAAAATC
1 GGGGTTAGAGTATCCCCAATGGTGGAAAATCAGTGTTTTAGAAATAAAATC
*
800500 GGGGTTTGAGTATCC
1 GGGGTTAGAGTATCC
800515 TCTTAGAAAT
Statistics
Matches: 99, Mismatches: 16, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
50 42 0.42
51 57 0.58
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.31
Consensus pattern (51 bp):
GGGGTTAGAGTATCCCCAATGGTGGAAAATCAGTGTTTTAGAAATAAAATC
Found at i:800569 original size:79 final size:79
Alignment explanation
Indices: 800448--800872 Score: 417
Period size: 79 Copynumber: 5.4 Consensus size: 79
800438 GAAATAAAAT
** * *
800448 CAGGGTTAAAGTATCCCCAATGGTGGAAAATCAGTGTTTTAGAAATAAAATCGGGGTTTGAGTAT
1 CAGGGTTGGAGTATCCCCAATGGTGGAAAATCGGTGTTTTAGAAATAAAATCGGGGTTGGAGTAT
800513 CCTCTTAGAAATAA
66 CCTCTTAGAAATAA
* * * * * * * *
800527 TAGGGTTAGAGTATCCCCGATGGT-GAAAAACTGGTGTTTTAGAAATAAAATTGAGATTAGAGTA
1 CAGGGTTGGAGTATCCCCAATGGTGGAAAATC-GGTGTTTTAGAAATAAAATCGGGGTTGGAGTA
* *
800591 TCCTCTCAAAAATAA
65 TCCTCTTAGAAATAA
* * * * * *
800606 CAAGGTTGGAGTGTCCCCGATGGTGGAAAATCGATATTTTAAAAATAAAATCGGGGTTGGAGTAT
1 CAGGGTTGGAGTATCCCCAATGGTGGAAAATCGGTGTTTTAGAAATAAAATCGGGGTTGGAGTAT
* *
800671 CC-CCTCGAAAATAA
66 CCTCTTAG-AAATAA
** * * * * *
800685 TGGGGTTGGAGTATCTCCAATGGTGAAAAATCGATGTTTTAGAAATAAAATCAGAGTTGGAGTAT
1 CAGGGTTGGAGTATCCCCAATGGTGGAAAATCGGTGTTTTAGAAATAAAATCGGGGTTGGAGTAT
* *
800750 CCCCTTAAAAATAA
66 CCTCTTAGAAATAA
* * * * * * *
800764 CGGGGTTGGAGTATCCTCGATAGTGGAAAATCAGTGTTTTAGAAATAAAA-CTGGGATTTGAGTA
1 CAGGGTTGGAGTATCCCCAATGGTGGAAAATCGGTGTTTTAGAAATAAAATC-GGGGTTGGAGTA
**
800828 T-CTCGTCGGAAATAA
65 TCCTC-TTAGAAATAA
*
800843 CAGGGTTGGAGTATCCCTAATGGTGGAAAA
1 CAGGGTTGGAGTATCCCCAATGGTGGAAAA
800873 CGTATTTTGG
Statistics
Matches: 278, Mismatches: 62, Indels: 12
0.79 0.18 0.03
Matches are distributed among these distances:
78 10 0.04
79 260 0.94
80 8 0.03
ACGTcount: A:0.35, C:0.12, G:0.25, T:0.28
Consensus pattern (79 bp):
CAGGGTTGGAGTATCCCCAATGGTGGAAAATCGGTGTTTTAGAAATAAAATCGGGGTTGGAGTAT
CCTCTTAGAAATAA
Found at i:800749 original size:158 final size:157
Alignment explanation
Indices: 800457--800873 Score: 502
Period size: 158 Copynumber: 2.6 Consensus size: 157
800447 TCAGGGTTAA
* * *
800457 AGTATCCCCAATGGTGGAAAATCAGTGTTTTAGAAATAAAATCGGGGTTTGAGTATCCTCT-TAG
1 AGTATCCCCGATGGTGGAAAATCAGTGTTTTAGAAATAAAATCGGGGTTTGAGTATCCCCTCGA-
* * * *
800521 AAATAATAGGGTTAGAGTATCCCCGATGGTGAAAAACTGGTGTTTTAGAAATAAAATTGAGATTA
65 AAATAATAGGGTTGGAGTAT-CCCAATGGTGAAAAACTGATGTTTTAGAAATAAAATAGAGATTA
*
800586 GAGTATCCTCTCAAAAATAACAAGGTTGG
129 GAGTATCCCCTCAAAAATAACAAGGTTGG
* * * *
800615 AGTGTCCCCGATGGTGGAAAATC-GATATTTTAAAAATAAAATCGGGGTTGGAGTATCCCCTCGA
1 AGTATCCCCGATGGTGGAAAATCAG-TGTTTTAGAAATAAAATCGGGGTTTGAGTATCCCCTCGA
*
800679 AAATAATGGGGTTGGAGTATCTCCAATGGTGAAAAA-TCGATGTTTTAGAAATAAAATCAGAG-T
65 AAATAATAGGGTTGGAGTATC-CCAATGGTGAAAAACT-GATGTTTTAGAAATAAAAT-AGAGAT
* * **
800742 TGGAGTATCCCCTTAAAAATAACGGGGTTGG
127 TAGAGTATCCCCTCAAAAATAACAAGGTTGG
* * * * * *
800773 AGTATCCTCGATAGTGGAAAATCAGTGTTTTAGAAATAAAA-CTGGGATTTGAGTATCTCGTCGG
1 AGTATCCCCGATGGTGGAAAATCAGTGTTTTAGAAATAAAATC-GGGGTTTGAGTATCCCCTCGA
* *
800837 AAATAACAGGGTTGGAGTATCCCTAATGGTGGAAAAC
65 AAATAATAGGGTTGGAGTATCCC-AATGGTGAAAAAC
800874 GTATTTTGGA
Statistics
Matches: 220, Mismatches: 30, Indels: 17
0.82 0.11 0.06
Matches are distributed among these distances:
157 6 0.03
158 209 0.95
159 5 0.02
ACGTcount: A:0.35, C:0.13, G:0.24, T:0.28
Consensus pattern (157 bp):
AGTATCCCCGATGGTGGAAAATCAGTGTTTTAGAAATAAAATCGGGGTTTGAGTATCCCCTCGAA
AATAATAGGGTTGGAGTATCCCAATGGTGAAAAACTGATGTTTTAGAAATAAAATAGAGATTAGA
GTATCCCCTCAAAAATAACAAGGTTGG
Found at i:803399 original size:13 final size:13
Alignment explanation
Indices: 803381--803407 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
803371 ATTTTAGGCA
803381 TGTATCGATACAT
1 TGTATCGATACAT
803394 TGTATCGATACAT
1 TGTATCGATACAT
803407 T
1 T
803408 TGCTGTTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:807043 original size:78 final size:78
Alignment explanation
Indices: 806950--807179 Score: 263
Period size: 78 Copynumber: 3.0 Consensus size: 78
806940 TTTTCATCTT
* * **
806950 GGGGATACTCTAACCCCGGTTTTATTTTCAAAACATTAATTTTTCACAATCAGGGATACTCCACC
1 GGGGATACTCCAACCCCGGATTTATTTTCAAAACATCGATTTTTCACAATCAGGGATACTCCACC
*
807015 CCGTTATTTTCGC
66 CCGTTATTTTCGA
** * * *
807028 GGGGATACTCCAACCCCGGCCTTA-TTTCTAAAGCATCGATTTTCCACAATCGGGGATACTCCAA
1 GGGGATACTCCAACCCCGGATTTATTTTC-AAAACATCGATTTTTCACAATCAGGGATACTCC-A
*
807092 CCCCGTTATTTTTGA
64 CCCCGTTATTTTCGA
* *
807107 GGGGATGA-TCCAACCCC-GATTTATTTTTAAAACATCGA-TTTTCTATAATCAGGGATACTCCA
1 GGGGAT-ACTCCAACCCCGGATTTATTTTCAAAACATCGATTTTTC-ACAATCAGGGATACTCCA
*
807169 GCCC-TTATTTT
64 CCCCGTTATTTT
807180 ATTTTCAAAA
Statistics
Matches: 129, Mismatches: 18, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
76 7 0.05
77 12 0.09
78 77 0.60
79 32 0.25
80 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.33
Consensus pattern (78 bp):
GGGGATACTCCAACCCCGGATTTATTTTCAAAACATCGATTTTTCACAATCAGGGATACTCCACC
CCGTTATTTTCGA
Found at i:807119 original size:28 final size:29
Alignment explanation
Indices: 807079--807134 Score: 80
Period size: 28 Copynumber: 1.9 Consensus size: 29
807069 TTCCACAATC
807079 GGGGATACTCCAACCCCG-TTATTTTTGA
1 GGGGATACTCCAACCCCGATTATTTTTGA
807107 GGGGATGA-TCCAACCCCGATTTATTTTT
1 GGGGAT-ACTCCAACCCCGA-TTATTTTT
807135 AAAACATCGA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
28 16 0.64
29 1 0.04
30 8 0.32
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.34
Consensus pattern (29 bp):
GGGGATACTCCAACCCCGATTATTTTTGA
Found at i:807183 original size:51 final size:51
Alignment explanation
Indices: 807119--807275 Score: 198
Period size: 51 Copynumber: 3.1 Consensus size: 51
807109 GGATGATCCA
*
807119 ACCC-CGA-TTTATTTTTAAAACA-TCGATTTTCTATAATCAGGGATACTCC
1 ACCCTCGATTTTATTTTCAAAACACT-GATTTTCTATAATCAGGGATACTCC
* *
807168 AGCCCT-TATTTTATTTTCAAAACACTGATTTTCTACAATCAGGGATAC-CTC
1 A-CCCTCGATTTTATTTTCAAAACACTGATTTTCTATAATCAGGGATACTC-C
* *
807219 AACCTCGATTTTATTTTCAAAACACTGATTTTCTATAATCAGGGATGCTCC
1 ACCCTCGATTTTATTTTCAAAACACTGATTTTCTATAATCAGGGATACTCC
807270 AACCCT
1 -ACCCT
807276 GTTATTTCCG
Statistics
Matches: 92, Mismatches: 8, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
49 1 0.01
50 8 0.09
51 77 0.84
52 6 0.07
ACGTcount: A:0.30, C:0.24, G:0.10, T:0.36
Consensus pattern (51 bp):
ACCCTCGATTTTATTTTCAAAACACTGATTTTCTATAATCAGGGATACTCC
Found at i:813709 original size:61 final size:61
Alignment explanation
Indices: 813579--814534 Score: 1049
Period size: 61 Copynumber: 15.6 Consensus size: 61
813569 TAGCCCCTTT
* * *
813579 TTAGTCCTCAAAGAACAGGACGCCATTTTCTTTTCAAAGCCCACACGAGTTGGTGGCACC-C
1 TTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCACCTC
* **
813640 TTTTGTCCTCAAAGAGCAGGACATCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTC
1 -TTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTC
813702 TTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCT-
1 TTAGTCCTCAAAGAGCAGGACGCCTTTTTC-TTTTAAAGCCCACACAAGTTGGTGGCACCTC
* * *
813763 TTAGTCCTCAAAGAGCAGGACGTCTTTTTTTTTTCAAAGCCCACACAAGTTGGTGGCACCTTT
1 TTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCACC-TC
* * *
813826 TTAGTCCTCAAAGAGTAGGATGTCTTTTCTCTTTTCAAAGCCCACACAAGTTGGTGGCACC-C
1 TTAGTCCTCAAAGAGCAGGACGCCTTTT-TCTTTT-AAAGCCCACACAAGTTGGTGGCACCTC
* * **
813888 TTTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTCGAAGCCCACACAAGTTGGTGGCACCT-
1 -TTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTC
* *
813949 TTCAGTCCTCAAAGAGCAGGGCGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC-C
1 TT-AGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTC
* ** * *
814010 TTGAGTCCTCAGAGAGCAGGACATCTTTTTCTTTTCAAGCCCACATAAGTTGGTGGTGC-CCT-
1 TT-AGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCCACACAAGTTGGT-G-GCACCTC
* * * * * *
814072 TTAGTCCTCAAAGAGTAGGGCACCTTTTCCTTTTAAAGCCCACGCAAGTTAGTGGCACC-C
1 TTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTC
* * * *
814132 TTGAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTCAAGCCTACACGAGTTGGTGGCACCTT
1 TT-AGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTC
* *
814194 TTAGTCCTCAAAGAGCAGGACGCCATTTTCTTTTAAAGCCCACACAAGCTGGTGGCACCT-
1 TTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTC
* * * * *
814254 TCAGTCCTCAAAGAGTAGGATGCCTTTTCCTTTTCAAAGCCCACACATGTTGGTGGCACC-C
1 TTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCACCTC
* * *
814315 TTTAGTCCTCAAAGAACAGGATGCC-TTTTCTTTTAGAAGCCCACACAAGTTGATGGCACCT-
1 -TTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTA-AAGCCCACACAAGTTGGTGGCACCTC
* * ** * * * * *
814376 TTCCATTCATCAAAGAGCAGGATACCTTTTT-TTTCTCGAAGCCCACATAAGTTGGTGACACTTT
1 TT--AGTCCTCAAAGAGCAGGACGCCTTTTTCTTT-T-AAAGCCCACACAAGTTGGTGGCACCTC
* * * ** * * *
814440 TTAGTCCTCAAAGATCAGGATGCC-TTTCCTTTTCAAAGCCCACATGAGTTGATGGCACTTT
1 TTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCACCTC
** * *
814501 TTAGTCCTTGAAGAGCAGGATGCCTTTTCCTTTT
1 TTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTT
814535 CTCCTTTGTC
Statistics
Matches: 772, Mismatches: 92, Indels: 60
0.84 0.10 0.06
Matches are distributed among these distances:
59 2 0.00
60 43 0.06
61 472 0.61
62 144 0.19
63 78 0.10
64 33 0.04
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (61 bp):
TTAGTCCTCAAAGAGCAGGACGCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTC
Found at i:814591 original size:45 final size:44
Alignment explanation
Indices: 814526--815459 Score: 574
Period size: 46 Copynumber: 21.8 Consensus size: 44
814516 CAGGATGCCT
*
814526 TTTCCTTTTCT-CC-TTTGTCCTCAAAGAGCAGGACACATTTCA
1 TTTCCTTTTTTCCCTTTTGTCCTCAAAGAGCAGGACACATTTCA
*
814568 TTTCCTTTCTTTCCCTTTTGTCCTCAAAGAGCAGGACGC----C-
1 TTTCCTTT-TTTCCCTTTTGTCCTCAAAGAGCAGGACACATTTCA
* * * * * * *
814608 TTTTCTTTTTTTCC-TTTATCCTCAAAGAGTAGGGCGCACTTCA
1 TTTCCTTTTTTCCCTTTTGTCCTCAAAGAGCAGGACACATTTCA
* * * *
814651 TTTCCTTCTTTTCCCTTATAGTTCTCAAAGAGCAGGACGCATTTTA
1 TTTCCTT-TTTTCCCTT-TTGTCCTCAAAGAGCAGGACACATTTCA
* * * *
814697 TTCTCC-TTTTT-CC-TTTGTCCTAAAAAAGTAGGACACATTTAA
1 TT-TCCTTTTTTCCCTTTTGTCCTCAAAGAGCAGGACACATTTCA
* ** * *
814739 TTTCC-TTTTT-CC-TTTGTCTTCAAAGAGCAGGATGCCTTT-T
1 TTTCCTTTTTTCCCTTTTGTCCTCAAAGAGCAGGACACATTTCA
* * *
814779 TTTTCTTTTTT--CTTTTGTCCTCAAAAAGCAGGACACACTTCA
1 TTTCCTTTTTTCCCTTTTGTCCTCAAAGAGCAGGACACATTTCA
* * * *
814821 TTTCTTTCTTTTCTCTTTTGTCCTCAAAAAGTAGGATGCAC-TTT-A
1 TTTCCTT-TTTTCCCTTTTGTCCTCAAAGAGCAGGA--CACATTTCA
* * *
814866 TTTTCC-TTTTCCCCCTTTGTCCTCAAAGAGCAGGACACATTCCA
1 -TTTCCTTTTTTCCCTTTTGTCCTCAAAGAGCAGGACACATTTCA
* * * * * *
814910 GTCCCTTCTCTTCCCCTTTTGTCCTTAAAGAGCAGGACGCACTTCA
1 TTTCCTT-T-TTTCCCTTTTGTCCTCAAAGAGCAGGACACATTTCA
* *
814956 TTTCCTTCTTTTCCTTTTTGTCCTCAAAAAGCAGGATGCAC-TTT-A
1 TTTCCTT-TTTTCCCTTTTGTCCTCAAAGAGCAGGA--CACATTTCA
* * *
815001 TATTCCTTTTCT-CC-TTTGTCCTCAAAGAGTAGGACACA-TTCC
1 T-TTCCTTTTTTCCCTTTTGTCCTCAAAGAGCAGGACACATTTCA
* * * * *
815043 TATCCCTTCTTTTCCCCTTTTGTCCTCAAAGATCAAGACGCACTTCA
1 T-TTCCTT-TTTT-CCCTTTTGTCCTCAAAGAGCAGGACACATTTCA
* ** *
815090 TTTCCTTCTTTTCCCTTTTGTCTTCAAAGAATAGGACGCACTTT-A
1 TTTCCTT-TTTTCCCTTTTGTCCTCAAAGAGCAGGACACA-TTTCA
* * * *
815135 TTTTCCTTTTCT-CC-TTTCTCCTCAAAGAGTAGGACACATTCCA
1 -TTTCCTTTTTTCCCTTTTGTCCTCAAAGAGCAGGACACATTTCA
* * *
815178 TTCCCTTCTTTTCCCCTTTTGTCCTCAAAGAGCAGGACGCACTTCA
1 TTTCCTT-TTTT-CCCTTTTGTCCTCAAAGAGCAGGACACATTTCA
* * *
815224 TTTCCTTATTTTCCCTGTTGTCCTCAAAGAGCAGGACGCACTGT-A
1 TTTCCTT-TTTTCCCTTTTGTCCTCAAAGAGCAGGACACA-TTTCA
* *
815269 TTT--TTCTTTT-TCTTTTGTCCTCAAAGAGCAGGAAACATTTCA
1 TTTCCTT-TTTTCCCTTTTGTCCTCAAAGAGCAGGACACATTTCA
*
815311 TTTTCCTTTTTT-CC-TTTGTCCTCGAAA-AGCAGG----ATGTGC-
1 -TTTCCTTTTTTCCCTTTTGTCCTC-AAAGAGCAGGACACAT-TTCA
* *
815350 --T-C-TTTTTCAC-TTTGTCCTC-AAGAAGCAGGACAC-TTTCC
1 TTTCCTTTTTTCCCTTTTGTCCTCAAAG-AGCAGGACACATTTCA
* * * *
815388 TTT-CTTTCTTT--C-TTTGTCCTCAAGGAACAAGACCCATTTCA
1 TTTCCTTT-TTTCCCTTTTGTCCTCAAAGAGCAGGACACATTTCA
815429 -TT-CTTTTTT-CC-TTTGTCCTCAAAGAGCAGGA
1 TTTCCTTTTTTCCCTTTTGTCCTCAAAGAGCAGGA
815460 TGCTCTCTTC
Statistics
Matches: 708, Mismatches: 119, Indels: 132
0.74 0.12 0.14
Matches are distributed among these distances:
33 2 0.00
34 5 0.01
35 17 0.02
36 1 0.00
37 2 0.00
38 21 0.03
39 10 0.01
40 57 0.08
41 72 0.10
42 82 0.12
43 87 0.12
44 46 0.06
45 144 0.20
46 150 0.21
47 12 0.02
ACGTcount: A:0.20, C:0.27, G:0.13, T:0.40
Consensus pattern (44 bp):
TTTCCTTTTTTCCCTTTTGTCCTCAAAGAGCAGGACACATTTCA
Found at i:814678 original size:46 final size:45
Alignment explanation
Indices: 814530--815344 Score: 648
Period size: 45 Copynumber: 18.6 Consensus size: 45
814520 ATGCCTTTTC
* *
814530 CTTTTCTCC-TTTGTCCTCAAAGAGCAGGACACATTTCATTTCCTT
1 CTTTTC-CCTTTTGTCCTCAAAGAGCAGGACGCACTTCATTTCCTT
814575 -TCTTTCCCTTTTGTCCTCAAAGAGCAGGACGC-C-T--TTT-CTT
1 CT-TTTCCCTTTTGTCCTCAAAGAGCAGGACGCACTTCATTTCCTT
* * * *
814615 -TTTTTCC-TTTATCCTCAAAGAGTAGGGCGCACTTCATTTCCTT
1 CTTTTCCCTTTTGTCCTCAAAGAGCAGGACGCACTTCATTTCCTT
* * * *
814658 CTTTTCCCTTATAGTTCTCAAAGAGCAGGACGCATTTTATTCTCC-T
1 CTTTTCCCTT-TTGTCCTCAAAGAGCAGGACGCACTTCATT-TCCTT
* * * * * *
814704 -TTTT-CC-TTTGTCCTAAAAAAGTAGGACACATTTAATTTCC-T
1 CTTTTCCCTTTTGTCCTCAAAGAGCAGGACGCACTTCATTTCCTT
* * *
814745 -TTTT-CC-TTTGTCTTCAAAGAGCAGGATGC-CTT--TTT-TTT
1 CTTTTCCCTTTTGTCCTCAAAGAGCAGGACGCACTTCATTTCCTT
** * * *
814783 CTTTTTTCTTTTGTCCTCAAAAAGCAGGACACACTTCATTTCTTT
1 CTTTTCCCTTTTGTCCTCAAAGAGCAGGACGCACTTCATTTCCTT
* * * * *
814828 CTTTTCTCTTTTGTCCTCAAAAAGTAGGATGCACTTTATTTTCC-T
1 CTTTTCCCTTTTGTCCTCAAAGAGCAGGACGCACTTCA-TTTCCTT
* * * * *
814873 -TTTCCCCCTTTGTCCTCAAAGAGCAGGACACA-TTCCAGTCCCTT
1 CTTTTCCCTTTTGTCCTCAAAGAGCAGGACGCACTT-CATTTCCTT
* *
814917 CTCTTCCCCTTTTGTCCTTAAAGAGCAGGACGCACTTCATTTCCTT
1 CT-TTTCCCTTTTGTCCTCAAAGAGCAGGACGCACTTCATTTCCTT
* * * *
814963 CTTTTCCTTTTTGTCCTCAAAAAGCAGGATGCACTTTATATTCCTT
1 CTTTTCCCTTTTGTCCTCAAAGAGCAGGACGCACTTCAT-TTCCTT
* * * * *
815009 -TTCT-CC-TTTGTCCTCAAAGAGTAGGACACA-TTCCTATCCCTT
1 CTTTTCCCTTTTGTCCTCAAAGAGCAGGACGCACTTCAT-TTCCTT
* *
815051 CTTTTCCCCTTTTGTCCTCAAAGATCAAGACGCACTTCATTTCCTT
1 CTTTT-CCCTTTTGTCCTCAAAGAGCAGGACGCACTTCATTTCCTT
* ** * *
815097 CTTTTCCCTTTTGTCTTCAAAGAATAGGACGCACTTTATTT--TC
1 CTTTTCCCTTTTGTCCTCAAAGAGCAGGACGCACTTCATTTCCTT
* * * *
815140 CTTTTCTCC-TTTCTCCTCAAAGAGTAGGACACA-TTCCATTCCCTT
1 CTTTTC-CCTTTTGTCCTCAAAGAGCAGGACGCACTT-CATTTCCTT
815185 CTTTTCCCCTTTTGTCCTCAAAGAGCAGGACGCACTTCATTTCCTT
1 CTTTT-CCCTTTTGTCCTCAAAGAGCAGGACGCACTTCATTTCCTT
* *
815231 ATTTTCCCTGTTGTCCTCAAAGAGCAGGACGCACTGT-ATTT--TT
1 CTTTTCCCTTTTGTCCTCAAAGAGCAGGACGCACT-TCATTTCCTT
* ** *
815274 CTTTT-TCTTTTGTCCTCAAAGAGCAGGAAACATTTCATTTTCCTT
1 CTTTTCCCTTTTGTCCTCAAAGAGCAGGACGCACTTCA-TTTCCTT
815319 -TTTT-CC-TTTGTCCTCGAAA-AGCAGGA
1 CTTTTCCCTTTTGTCCTC-AAAGAGCAGGA
815345 TGTGCTCTTT
Statistics
Matches: 623, Mismatches: 103, Indels: 90
0.76 0.13 0.11
Matches are distributed among these distances:
38 24 0.04
39 10 0.02
40 8 0.01
41 50 0.08
42 65 0.10
43 88 0.14
44 52 0.08
45 179 0.29
46 136 0.22
47 11 0.02
ACGTcount: A:0.20, C:0.27, G:0.12, T:0.40
Consensus pattern (45 bp):
CTTTTCCCTTTTGTCCTCAAAGAGCAGGACGCACTTCATTTCCTT
Found at i:815083 original size:134 final size:133
Alignment explanation
Indices: 814530--815307 Score: 833
Period size: 134 Copynumber: 5.9 Consensus size: 133
814520 ATGCCTTTTC
* * *
814530 CTTTTCTCC-TTTGTCCTCAAAGAGCAGGACACATTTCATTTCCTT-TCTTTCCCTTTTGTCCTC
1 CTTTTCCCCTTTTGTCCTCAAAGAGCAGGACGCACTTCATTTCCTTCT-TTTCCCTTTTGTCCTC
* * * * * * *
814593 AAAGAGCAGGACGC-CTTT-TCTT--TTTTTCCTTTATCCTCAAAGAGTAGGGCGCACTTCAT-T
65 AAAAAGCAGGACGCACTTTATTTTCCTTTTTCCTTTGTCCTCAAAGAGCAGGACACA-TTCCTAT
*
814653 TCCTT
129 CCCTT
* * * *
814658 CTTTT-CCCTTATAGTTCTCAAAGAGCAGGACGCATTTTATTCTCC-T-TTTT-CC-TTTGTCCT
1 CTTTTCCCCTT-TTGTCCTCAAAGAGCAGGACGCACTTCATT-TCCTTCTTTTCCCTTTTGTCCT
* * * * * * *
814718 AAAAAAGTAGGACACA-TTTAATTTCCTTTTTCCTTTGTCTTCAAAGAGCAGG----ATGCCTTT
64 CAAAAAGCAGGACGCACTTTATTTTCCTTTTTCCTTTGTCCTCAAAGAGCAGGACACATTCCTAT
***
814778 TTTTT
129 CCCTT
** * * * *
814783 CTTTT-TTCTTTTGTCCTCAAAAAGCAGGACACACTTCATTTCTTTCTTTTCTCTTTTGTCCTCA
1 CTTTTCCCCTTTTGTCCTCAAAGAGCAGGACGCACTTCATTTCCTTCTTTTCCCTTTTGTCCTCA
* * *
814847 AAAAGTAGGATGCACTTTATTTTCCTTTTCCCCCTTTGTCCTCAAAGAGCAGGACACATTCC-AG
66 AAAAGCAGGACGCACTTTATTTTCCTTTT--TCCTTTGTCCTCAAAGAGCAGGACACATTCCTA-
814911 TCCCTT
128 TCCCTT
* * *
814917 CTCTTCCCCTTTTGTCCTTAAAGAGCAGGACGCACTTCATTTCCTTCTTTTCCTTTTTGTCCTCA
1 CTTTTCCCCTTTTGTCCTCAAAGAGCAGGACGCACTTCATTTCCTTCTTTTCCCTTTTGTCCTCA
* * *
814982 AAAAGCAGGATGCACTTTATATTCCTTTTCTCCTTTGTCCTCAAAGAGTAGGACACATTCCTATC
66 AAAAGCAGGACGCACTTTATTTTCCTTTT-TCCTTTGTCCTCAAAGAGCAGGACACATTCCTATC
815047 CCTT
130 CCTT
* * *
815051 CTTTTCCCCTTTTGTCCTCAAAGATCAAGACGCACTTCATTTCCTTCTTTTCCCTTTTGTCTTCA
1 CTTTTCCCCTTTTGTCCTCAAAGAGCAGGACGCACTTCATTTCCTTCTTTTCCCTTTTGTCCTCA
* * *
815116 AAGAA-TAGGACGCACTTTATTTTCCTTTTCTCCTTTCTCCTCAAAGAGTAGGACACATTCC-AT
66 AA-AAGCAGGACGCACTTTATTTTCCTTTT-TCCTTTGTCCTCAAAGAGCAGGACACATTCCTA-
815179 TCCCTT
128 TCCCTT
* *
815185 CTTTTCCCCTTTTGTCCTCAAAGAGCAGGACGCACTTCATTTCCTTATTTTCCCTGTTGTCCTCA
1 CTTTTCCCCTTTTGTCCTCAAAGAGCAGGACGCACTTCATTTCCTTCTTTTCCCTTTTGTCCTCA
* * * * *
815250 AAGAGCAGGACGCACTGTATTTTTCTTTTTCTTTTGTCCTCAAAGAGCAGGAAACATT
66 AAAAGCAGGACGCACTTTATTTTCCTTTTTCCTTTGTCCTCAAAGAGCAGGACACATT
815308 TCATTTTCCT
Statistics
Matches: 550, Mismatches: 75, Indels: 45
0.82 0.11 0.07
Matches are distributed among these distances:
123 2 0.00
124 28 0.05
125 17 0.03
126 23 0.04
127 27 0.05
128 22 0.04
129 51 0.09
130 23 0.04
133 27 0.05
134 249 0.45
135 81 0.15
ACGTcount: A:0.20, C:0.27, G:0.12, T:0.40
Consensus pattern (133 bp):
CTTTTCCCCTTTTGTCCTCAAAGAGCAGGACGCACTTCATTTCCTTCTTTTCCCTTTTGTCCTCA
AAAAGCAGGACGCACTTTATTTTCCTTTTTCCTTTGTCCTCAAAGAGCAGGACACATTCCTATCC
CTT
Found at i:815394 original size:40 final size:39
Alignment explanation
Indices: 815272--815459 Score: 119
Period size: 40 Copynumber: 4.8 Consensus size: 39
815262 CACTGTATTT
* *
815272 TTCTTTTTCTTTTGTCCTCAA-AGAGCAGGAAACATTTCA
1 TTCTTTTTCCTTTGTCCTCAAGA-AGCAGGACACATTTCA
*
815311 TTTTCCTTTTTTCCTTTGTCCTCGAA-AAGCAGG----ATGTGC-
1 --TT-C-TTTTTCCTTTGTCCTC-AAGAAGCAGGACACAT-TTCA
*
815350 -TCTTTTTCACTTTGTCCTCAAGAAGCAGGACAC-TTTCCT
1 TTCTTTTTC-CTTTGTCCTCAAGAAGCAGGACACATTT-CA
* * *
815389 TTCTTTCTTTCTTTGTCCTCAAGGAA-CAAGACCCATTTCA
1 TTCTTT-TTCCTTTGTCCTCAA-GAAGCAGGACACATTTCA
815429 TTCTTTTTTCCTTTGTCCTCAA-AGAGCAGGA
1 TTC-TTTTTCCTTTGTCCTCAAGA-AGCAGGA
815460 TGCTCTCTTC
Statistics
Matches: 119, Mismatches: 9, Indels: 39
0.71 0.05 0.23
Matches are distributed among these distances:
34 8 0.07
35 18 0.15
36 1 0.01
37 1 0.01
38 3 0.03
39 3 0.03
40 47 0.39
41 13 0.11
42 1 0.01
43 21 0.18
44 3 0.03
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (39 bp):
TTCTTTTTCCTTTGTCCTCAAGAAGCAGGACACATTTCA
Found at i:818651 original size:80 final size:79
Alignment explanation
Indices: 818420--818840 Score: 458
Period size: 79 Copynumber: 5.3 Consensus size: 79
818410 TTTTCATCAT
* ** * * * *
818420 GGGGATACTCCAACCCCGGTTTTATTTCCAAAATATTAATTTTTCACAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGATTTTATTTTTAAAACATCAATTTTCCACAATCGAGGATACTCCAAC
* *
818485 CCCATTATTTTCGC
66 CCTATTATTTTCGA
*** * * * *
818499 GGGGATACTCCAACCCCGGCCTTATTTCTAAAGCATCGATTTTCCACAA-CAGGGGATACTCCAA
1 GGGGATACTCCAACCCCGATTTTATTTTTAAAACATCAATTTTCCACAATC-GAGGATACTCCAA
*
818563 CCCCATTATTTTCGA
65 CCCTATTATTTTCGA
* * *
818578 GTGGATACTCCAACCCTGATTTTTATTTTTAAAACATCGATTTTCCACAATCGAGGATACTCCAA
1 GGGGATACTCCAACCCCGA-TTTTATTTTTAAAACATCAATTTTCCACAATCGAGGATACTCCAA
818643 CCCTATTATTTTCGA
65 CCCTATTATTTTCGA
* * *
818658 GGGGATACTCCAACCCCGA-TTTATTTTTAAAACACCAA-TTTCTATAATC-AGGGATACTCCAA
1 GGGGATACTCCAACCCCGATTTTATTTTTAAAACATCAATTTTCCACAATCGA-GGATACTCCAA
*
818720 CCCTGTTATTTTCGA
65 CCCTATTATTTTCGA
** * * * *
818735 ATGGATACTCCAACCCTGATTTTATTTTCAAAACA-CTAATTTTCTATAATC-AGGGATACTCCA
1 GGGGATACTCCAACCCCGATTTTATTTTTAAAACATC-AATTTTCCACAATCGA-GGATACTCCA
* * *
818798 ACCCTGTTATTTCCAA
64 ACCCTATTATTTTCGA
818814 GGGGATACTCCAACCCCGATTTTATTT
1 GGGGATACTCCAACCCCGATTTTATTT
818841 CCAGAATACT
Statistics
Matches: 301, Mismatches: 34, Indels: 14
0.86 0.10 0.04
Matches are distributed among these distances:
76 1 0.00
77 51 0.17
78 34 0.11
79 145 0.48
80 69 0.23
81 1 0.00
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGATTTTATTTTTAAAACATCAATTTTCCACAATCGAGGATACTCCAAC
CCTATTATTTTCGA
Found at i:822755 original size:20 final size:19
Alignment explanation
Indices: 822730--822810 Score: 81
Period size: 20 Copynumber: 4.0 Consensus size: 19
822720 ATTGCCAAGG
822730 AAATGTATCGATACATTATT
1 AAATGTATCGATACATT-TT
822750 AAATGTATCGATACATGCTTAT
1 AAATGTATCGATACAT--TT-T
* *
822772 AATTGTATTGATACATTTCT
1 AAATGTATCGATACATTT-T
* *
822792 CATTGTATCGATACATTTT
1 AAATGTATCGATACATTTT
822811 GGGTTTTTGA
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
19 1 0.02
20 35 0.66
21 1 0.02
22 16 0.30
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.43
Consensus pattern (19 bp):
AAATGTATCGATACATTTT
Found at i:826297 original size:30 final size:30
Alignment explanation
Indices: 826263--826432 Score: 132
Period size: 30 Copynumber: 5.7 Consensus size: 30
826253 ACACCCCCAA
**
826263 TGGCATCCCTTCTCAAAGTTTACGACTCAG
1 TGGCATCCCTTCTCAAAGTCCACGACTCAG
* * * * *
826293 TGGCAACTCTTCTTAAAGTCCATGACTCAA
1 TGGCATCCCTTCTCAAAGTCCACGACTCAG
* * *
826323 TGGCATCCCTTCTCAAAGTCCATGACTTAA
1 TGGCATCCCTTCTCAAAGTCCACGACTCAG
** * *
826353 TGGCATCATTTCTTAAAGTCCACGACTCTG
1 TGGCATCCCTTCTCAAAGTCCACGACTCAG
* * * *
826383 TGGCA-CCCTTTTCAAAAGTCTACAACTCCG
1 TGGCATCCCTTCTC-AAAGTCCACGACTCAG
826413 TGGCA--CCTT-TACAAAGTCCA
1 TGGCATCCCTTCT-CAAAGTCCA
826433 TAACTCTATG
Statistics
Matches: 112, Mismatches: 26, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
28 8 0.07
29 9 0.08
30 95 0.85
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.29
Consensus pattern (30 bp):
TGGCATCCCTTCTCAAAGTCCACGACTCAG
Found at i:826333 original size:60 final size:60
Alignment explanation
Indices: 826260--826417 Score: 176
Period size: 60 Copynumber: 2.6 Consensus size: 60
826250 TTGACACCCC
* *
826260 CAATGGCATCCCTTCTCAAAGTTTACGACTCAGTGGCAAC-TCTTCTTAAAGTCCATGACT
1 CAATGGCATCCCTTCTCAAAGTCTACGACTCAGTGGCAACAT-TTCTTAAAGTCCACGACT
* * * * *
826320 CAATGGCATCCCTTCTCAAAGTCCATGACTTAATGGCATCATTTCTTAAAGTCCACGACT
1 CAATGGCATCCCTTCTCAAAGTCTACGACTCAGTGGCAACATTTCTTAAAGTCCACGACT
** * * *
826380 CTGTGGCA-CCCTTTTCAAAAGTCTACAACTCCGTGGCA
1 CAATGGCATCCCTTCTC-AAAGTCTACGACTCAGTGGCA
826418 CCTTTACAAA
Statistics
Matches: 80, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
59 7 0.09
60 72 0.90
61 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.15, T:0.29
Consensus pattern (60 bp):
CAATGGCATCCCTTCTCAAAGTCTACGACTCAGTGGCAACATTTCTTAAAGTCCACGACT
Found at i:826437 original size:28 final size:30
Alignment explanation
Indices: 826367--826477 Score: 91
Period size: 30 Copynumber: 3.8 Consensus size: 30
826357 ATCATTTCTT
* * *
826367 AAAGTCCACGACTCTGTGGCACCCTTTTCA
1 AAAGTCCACAACTCCGTGGCACCCTTTACA
*
826397 AAAGTCTACAACTCCGTGGCA-CCTTTAC-
1 AAAGTCCACAACTCCGTGGCACCCTTTACA
* ** * * *
826425 AAAGTCCATAACTCTATGGCGCCCTTTCCT
1 AAAGTCCACAACTCCGTGGCACCCTTTACA
* * *
826455 AAAGCCCACAAGTCAGTGGCACC
1 AAAGTCCACAACTCCGTGGCACC
826478 TTCTTAAAGC
Statistics
Matches: 63, Mismatches: 16, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
28 16 0.25
29 12 0.19
30 35 0.56
ACGTcount: A:0.27, C:0.33, G:0.16, T:0.23
Consensus pattern (30 bp):
AAAGTCCACAACTCCGTGGCACCCTTTACA
Found at i:826450 original size:58 final size:58
Alignment explanation
Indices: 826367--826541 Score: 144
Period size: 58 Copynumber: 3.1 Consensus size: 58
826357 ATCATTTCTT
* * * * * *
826367 AAAGTCCACGACTCTGTGGCACCCTTTTCAAAAGTCTACAACTCCGTGGCACCTTTAC
1 AAAGTCCACAACTCTATGGCACCCTTTCCAAAAGCCCACAACTCAGTGGCACCTTTAC
* * * * *
826425 AAAGTCCATAACTCTATGGCGCCCTTTCCTAAAGCCCACAAGTCAGTGGCACCTTCT-T
1 AAAGTCCACAACTCTATGGCACCCTTTCCAAAAGCCCACAACTCAGTGGCACCTT-TAC
* * * * * *
826483 AAAGCCCACAAGT-TAGTGGCACCCTTT-C-AAATCCCATAAGTCAGTGGCACCCTT-C
1 AAAGTCCACAACTCTA-TGGCACCCTTTCCAAAAGCCCACAACTCAGTGGCACCTTTAC
826538 AAAG
1 AAAG
826542 CCCATAAGTC
Statistics
Matches: 96, Mismatches: 19, Indels: 7
0.79 0.16 0.06
Matches are distributed among these distances:
55 5 0.05
56 22 0.23
57 3 0.03
58 65 0.68
59 1 0.01
ACGTcount: A:0.28, C:0.32, G:0.16, T:0.24
Consensus pattern (58 bp):
AAAGTCCACAACTCTATGGCACCCTTTCCAAAAGCCCACAACTCAGTGGCACCTTTAC
Found at i:826564 original size:56 final size:55
Alignment explanation
Indices: 826441--826653 Score: 167
Period size: 63 Copynumber: 3.6 Consensus size: 55
826431 CATAACTCTA
* * *
826441 TGGCGCCCTTTCCTAAAGCCCACAAGTCAGTGGCACCTTCTTAAAGCCCACAAGTTAG
1 TGGCACCCTTT-C-AAATCCCACAAGTCAGTGGCACCTTC-TAAAGCCCACAAGTCAG
* *
826499 TGGCACCCTTTCAAATCCCATAAGTCAGTGGCACCCTTC-AAAGCCCATAAGTCAG
1 TGGCACCCTTTCAAATCCCACAAGTCAGTGGCA-CCTTCTAAAGCCCACAAGTCAG
* * * * *
826554 TGGCATCCCTTTTTAAAGCCCACACAAGTCGGTGGCAACCCTATTTAAAGCCCACACAAGTCGG
1 TGGCA-CCC-TTTCAAA-TCC-CACAAGTCAGTGGC-A-CCT-TCTAAAG-CC-CACAAGTCAG
* *
826618 TGGCAACCCTTTTAAAGCCCACACAAGTCAGTGGCA
1 TGGC-ACCCTTTCAAA-TCC-CACAAGTCAGTGGCA
826654 ACCCTTTTTA
Statistics
Matches: 131, Mismatches: 13, Indels: 18
0.81 0.08 0.11
Matches are distributed among these distances:
55 19 0.15
56 22 0.17
57 12 0.09
58 12 0.09
59 12 0.09
60 5 0.04
61 1 0.01
62 5 0.04
63 27 0.21
64 15 0.11
65 1 0.01
ACGTcount: A:0.28, C:0.32, G:0.18, T:0.22
Consensus pattern (55 bp):
TGGCACCCTTTCAAATCCCACAAGTCAGTGGCACCTTCTAAAGCCCACAAGTCAG
Found at i:826589 original size:32 final size:32
Alignment explanation
Indices: 826547--826812 Score: 250
Period size: 32 Copynumber: 8.3 Consensus size: 32
826537 CAAAGCCCAT
* *
826547 AAGTCAGTGGCATCCCTTTTTAAAGCCCACAC
1 AAGTCGGTGGCAACCCTTTTTAAAGCCCACAC
*
826579 AAGTCGGTGGCAACCCTATTTAAAGCCCACAC
1 AAGTCGGTGGCAACCCTTTTTAAAGCCCACAC
826611 AAGTCGGTGGCAACCC-TTTTAAAGCCCACAC
1 AAGTCGGTGGCAACCCTTTTTAAAGCCCACAC
* *
826642 AAGTCAGTGGCAACCCTTTTTAAAGCACACAC
1 AAGTCGGTGGCAACCCTTTTTAAAGCCCACAC
* **** * *
826674 AAGTTGGTGGCATTTATTTTCAAAAGCCCATAC
1 AAGTCGGTGGCAACCCTTTT-TAAAGCCCACAC
* * * *
826707 AAGTTGGTAGCAACCC-TTTCAAAGCCCATAC
1 AAGTCGGTGGCAACCCTTTTTAAAGCCCACAC
* * ** *
826738 AAGTTGGTGGTAACCCTTCTCAAAAGCCCACAT
1 AAGTCGGTGGCAACCCTT-TTTAAAGCCCACAC
* ** *
826771 AAGTCAGTGGCAA-CCTTCTCAAAAGCCCATAC
1 AAGTCGGTGGCAACCCTT-TTTAAAGCCCACAC
*
826803 AAGTTGGTGG
1 AAGTCGGTGG
826813 GATCTCCCTC
Statistics
Matches: 196, Mismatches: 34, Indels: 8
0.82 0.14 0.03
Matches are distributed among these distances:
31 54 0.28
32 102 0.52
33 40 0.20
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.23
Consensus pattern (32 bp):
AAGTCGGTGGCAACCCTTTTTAAAGCCCACAC
Found at i:826635 original size:31 final size:31
Alignment explanation
Indices: 826454--826785 Score: 258
Period size: 32 Copynumber: 10.9 Consensus size: 31
826444 CGCCCTTTCC
826454 TAAAG-CC-CACAAGTCAGTGGC-A-CCTTCT
1 TAAAGCCCACACAAGTCAGTGGCAACCCTT-T
*
826482 TAAAG-CC-CACAAGTTAGTGGC-ACCCTTT
1 TAAAGCCCACACAAGTCAGTGGCAACCCTTT
* * *
826510 CAAA-TCC-CATAAGTCAGTGGC-ACCC-TT
1 TAAAGCCCACACAAGTCAGTGGCAACCCTTT
* * *
826537 CAAAG-CC-CATAAGTCAGTGGCATCCCTTTT
1 TAAAGCCCACACAAGTCAGTGGCAACCC-TTT
*
826567 TAAAGCCCACACAAGTCGGTGGCAACCCTATT
1 TAAAGCCCACACAAGTCAGTGGCAACCCT-TT
*
826599 TAAAGCCCACACAAGTCGGTGGCAACCCTTT
1 TAAAGCCCACACAAGTCAGTGGCAACCCTTT
826630 TAAAGCCCACACAAGTCAGTGGCAACCCTTTT
1 TAAAGCCCACACAAGTCAGTGGCAACCC-TTT
* ** ****
826662 TAAAGCACACACAAGTTGGTGGCATTTATTT
1 TAAAGCCCACACAAGTCAGTGGCAACCCTTT
* ** *
826693 TCAAAAGCCCATACAAGTTGGTAGCAACCCTTT
1 T--AAAGCCCACACAAGTCAGTGGCAACCCTTT
* * ** *
826726 CAAAGCCCATACAAGTTGGTGGTAACCCTTCT
1 TAAAGCCCACACAAGTCAGTGGCAACCCTT-T
* *
826758 CAAAAGCCCACATAAGTCAGTGGCAACC
1 -TAAAGCCCACACAAGTCAGTGGCAACC
826786 TTCTCAAAAG
Statistics
Matches: 257, Mismatches: 33, Indels: 23
0.82 0.11 0.07
Matches are distributed among these distances:
27 22 0.09
28 46 0.18
29 4 0.02
30 6 0.02
31 63 0.25
32 72 0.28
33 44 0.17
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (31 bp):
TAAAGCCCACACAAGTCAGTGGCAACCCTTT
Found at i:826753 original size:96 final size:95
Alignment explanation
Indices: 826531--826810 Score: 302
Period size: 96 Copynumber: 3.0 Consensus size: 95
826521 AGTCAGTGGC
*
826531 ACCC-TTCAAAGCCCAT--AAGTCAGTGGCATCCCTTTTTAAAGCCCACACAAGTCGGTGGCAAC
1 ACCCTTTCAAAGCCCATACAAGTCAGTGGCAACCCTTTTTAAAGCCCACACAAGTCGGTGGCAA-
* * *
826593 CCTA-TTT--AAAGCCCACACAAGTCGGTGGCA
65 --TATTTTCAAAAGCCCATACAAGTTGGTAGCA
* * * * *
826623 ACCCTTTTAAAGCCCACACAAGTCAGTGGCAACCCTTTTTAAAGCACACACAAGTTGGTGGCATT
1 ACCCTTTCAAAGCCCATACAAGTCAGTGGCAACCCTTTTTAAAGCCCACACAAGTCGGTGGCA-A
826688 TATTTTCAAAAGCCCATACAAGTTGGTAGCA
65 TATTTTCAAAAGCCCATACAAGTTGGTAGCA
** * ** * *
826719 ACCCTTTCAAAGCCCATACAAGTTGGTGGTAACCCTTCTCAAAAGCCCACATAAGTCAGTGGCAA
1 ACCCTTTCAAAGCCCATACAAGTCAGTGGCAACCCTT-TTTAAAGCCCACACAAGTCGGTGGCAA
** *
826784 CCTTCTCAAAAGCCCATACAAGTTGGT
65 TATTTTCAAAAGCCCATACAAGTTGGT
826811 GGGATCTCCC
Statistics
Matches: 156, Mismatches: 24, Indels: 12
0.81 0.12 0.06
Matches are distributed among these distances:
92 4 0.03
93 12 0.08
94 3 0.02
95 41 0.26
96 76 0.49
97 20 0.13
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (95 bp):
ACCCTTTCAAAGCCCATACAAGTCAGTGGCAACCCTTTTTAAAGCCCACACAAGTCGGTGGCAAT
ATTTTCAAAAGCCCATACAAGTTGGTAGCA
Found at i:826928 original size:58 final size:59
Alignment explanation
Indices: 826824--826974 Score: 160
Period size: 59 Copynumber: 2.6 Consensus size: 59
826814 ATCTCCCTCT
** * * * ** * * * *
826824 AAGCCCAATGTCGTTGGCTTTGAATCAACACATTGGCACTTTTC-AAATCTTTTTTCTC
1 AAGCCCAATGTCACTAGCTTTGAATCAGCACATTGACACTAGTCAAAACCTTCTTTATA
826882 AAGCCCAATGTCACTAGCTTTGAATCAGCACATTGACACTAGTCAAAACCTTCTTTATA
1 AAGCCCAATGTCACTAGCTTTGAATCAGCACATTGACACTAGTCAAAACCTTCTTTATA
* * **
826941 AAGCCTAATATCACTAGCCCTGAATCAGCACATT
1 AAGCCCAATGTCACTAGCTTTGAATCAGCACATT
826975 AGCACCTTTA
Statistics
Matches: 77, Mismatches: 15, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
58 37 0.48
59 40 0.52
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.31
Consensus pattern (59 bp):
AAGCCCAATGTCACTAGCTTTGAATCAGCACATTGACACTAGTCAAAACCTTCTTTATA
Found at i:830490 original size:20 final size:20
Alignment explanation
Indices: 830440--830481 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
830430 GTCAAAACCC
*
830440 TGAAAAGTATCGATACACAT
1 TGAAATGTATCGATACACAT
* *
830460 TTAAATGTATCGATACAGAT
1 TGAAATGTATCGATACACAT
830480 TG
1 TG
830482 CATTGTATCT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (20 bp):
TGAAATGTATCGATACACAT
Found at i:831352 original size:20 final size:20
Alignment explanation
Indices: 831327--831377 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
831317 ATTCTTTTCA
*
831327 TGTATCGATACAATGCAATC
1 TGTATCGATACAATGAAATC
* * * *
831347 TGTATCAATACATTTAAATG
1 TGTATCGATACAATGAAATC
831367 TGTATCGATAC
1 TGTATCGATAC
831378 TTTTCAGGGT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (20 bp):
TGTATCGATACAATGAAATC
Found at i:833828 original size:13 final size:13
Alignment explanation
Indices: 833810--833848 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
833800 ATAATCCCCT
*
833810 TGTATCGATACAG
1 TGTATCGATACAA
*
833823 TGTATCGATATAA
1 TGTATCGATACAA
833836 TGTATCGATACAA
1 TGTATCGATACAA
833849 AGAATTCTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:840051 original size:13 final size:13
Alignment explanation
Indices: 840033--840057 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
840023 CATTTTCTGG
840033 TGTATCGATACAA
1 TGTATCGATACAA
840046 TGTATCGATACA
1 TGTATCGATACA
840058 TTCTGTGTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:840073 original size:32 final size:32
Alignment explanation
Indices: 840010--840077 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 32
840000 CATTACAAGC
840010 CAATGTATCGATACATTTTCTGGTGTATCGATA
1 CAATGTATCGATACA-TTTCTGGTGTATCGATA
840043 CAATGTATCGATACA-TTCTGTGTGTATCGATA
1 CAATGTATCGATACATTTCTG-GTGTATCGATA
840075 CAA
1 CAA
840078 GTTTAGCTAC
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
31 5 0.15
32 14 0.41
33 15 0.44
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.37
Consensus pattern (32 bp):
CAATGTATCGATACATTTCTGGTGTATCGATA
Found at i:840491 original size:20 final size:21
Alignment explanation
Indices: 840466--840516 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
840456 CGATACATTA
**
840466 TATCGATACATGACCAA-ATG
1 TATCGATACATGAAAAAGATG
*
840486 TATCGATACTTGAAAAAGATG
1 TATCGATACATGAAAAAGATG
840507 TATCGATACA
1 TATCGATACA
840517 GGTCATTGGC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 14 0.54
21 12 0.46
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (21 bp):
TATCGATACATGAAAAAGATG
Found at i:840587 original size:13 final size:13
Alignment explanation
Indices: 840569--840594 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
840559 ACACACAGTA
840569 TGTATCGATACAT
1 TGTATCGATACAT
840582 TGTATCGATACAT
1 TGTATCGATACAT
840595 CATAAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:840610 original size:33 final size:32
Alignment explanation
Indices: 840549--840616 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 32
840539 GTAGCCAAAC
**
840549 TTGTATCGATACACACAGTATGTATCGATACA
1 TTGTATCGATACACACAAAATGTATCGATACA
*
840581 TTGTATCGATACATCATAAAATGTATCGATACA
1 TTGTATCGATACA-CACAAAATGTATCGATACA
840614 TTG
1 TTG
840617 GCCTGTAACG
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 13 0.41
33 19 0.59
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (32 bp):
TTGTATCGATACACACAAAATGTATCGATACA
Found at i:846780 original size:13 final size:13
Alignment explanation
Indices: 846757--846795 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
846747 ACAGCATTCT
*
846757 CTGTATTGATACA
1 CTGTATCGATACA
*
846770 TTGTATCGATACA
1 CTGTATCGATACA
846783 CTGTATCGATACA
1 CTGTATCGATACA
846796 AGGGGATTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
CTGTATCGATACA
Found at i:846962 original size:20 final size:20
Alignment explanation
Indices: 846927--846967 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
846917 CAAAATTCTT
846927 GTTTTTCACTTCAAAATACATC
1 GTTTTTCAC-TCAAAAT-CATC
846949 GTTTTTCA-TCAAAATCATC
1 GTTTTTCACTCAAAATCATC
846968 AACAAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 7 0.37
22 8 0.42
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.41
Consensus pattern (20 bp):
GTTTTTCACTCAAAATCATC
Found at i:848861 original size:13 final size:13
Alignment explanation
Indices: 848843--848868 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
848833 TACAGCAAGT
848843 ATGTATCGATACA
1 ATGTATCGATACA
848856 ATGTATCGATACA
1 ATGTATCGATACA
848869 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:851116 original size:21 final size:21
Alignment explanation
Indices: 851083--851127 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
851073 TTGCAAGTTG
*
851083 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
851105 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
851125 AAA
1 AAA
851128 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:852949 original size:15 final size:15
Alignment explanation
Indices: 852931--852961 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
852921 TAAAAATGTC
*
852931 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
852946 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
852961 C
1 C
852962 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:855057 original size:13 final size:13
Alignment explanation
Indices: 855039--855090 Score: 104
Period size: 13 Copynumber: 4.0 Consensus size: 13
855029 ACATTTTTCC
855039 TTGTATCGATACA
1 TTGTATCGATACA
855052 TTGTATCGATACA
1 TTGTATCGATACA
855065 TTGTATCGATACA
1 TTGTATCGATACA
855078 TTGTATCGATACA
1 TTGTATCGATACA
855091 GGGTGATTAT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 39 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:855254 original size:20 final size:20
Alignment explanation
Indices: 855211--855256 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
855201 AAATCTTTTG
855211 CAAAATACTTGTTTTTCACTT
1 CAAAATACTTGTTTTTCAC-T
*
855232 CAAATTACTTCGTTTTTCA-T
1 CAAAATACTT-GTTTTTCACT
855252 CAAAA
1 CAAAA
855257 CCAGCATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 5 0.23
21 9 0.41
22 8 0.36
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (20 bp):
CAAAATACTTGTTTTTCACT
Found at i:857663 original size:13 final size:13
Alignment explanation
Indices: 857645--857670 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
857635 TACAGCAAGT
857645 ATGTATCGATACA
1 ATGTATCGATACA
857658 ATGTATCGATACA
1 ATGTATCGATACA
857671 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:859207 original size:20 final size:20
Alignment explanation
Indices: 859176--859232 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
859166 GTCAAAACCC
*
859176 TGAAAAGTATCGATACACAT
1 TGAAATGTATCGATACACAT
* *
859196 TTAAATGTATCGATACAGAT
1 TGAAATGTATCGATACACAT
* *
859216 TGCATTGTATCGATACA
1 TGAAATGTATCGATACA
859233 TTATATCGAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.32
Consensus pattern (20 bp):
TGAAATGTATCGATACACAT
Found at i:859279 original size:21 final size:20
Alignment explanation
Indices: 859236--859286 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
859226 CGATACATTA
**
859236 TATCGATACATGACCAAATG
1 TATCGATACATGAAAAAATG
859256 TATCGATACATGAAAAAGATG
1 TATCGATACATGAAAAA-ATG
*
859277 TATTGATACA
1 TATCGATACA
859287 GGTCATTAGC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 15 0.56
21 12 0.44
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (20 bp):
TATCGATACATGAAAAAATG
Found at i:872800 original size:33 final size:33
Alignment explanation
Indices: 872756--872820 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
872746 CACACCCAGG
872756 TGTATCAATACAAATTGCTAAGTATCGATACAT
1 TGTATCAATACAAATTGCTAAGTATCGATACAT
* **
872789 TGTATCGATACAAATTGCTTTGTATCGATACA
1 TGTATCAATACAAATTGCTAAGTATCGATACA
872821 CTATGGAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.35
Consensus pattern (33 bp):
TGTATCAATACAAATTGCTAAGTATCGATACAT
Found at i:876351 original size:34 final size:34
Alignment explanation
Indices: 876289--876361 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 34
876279 CATTAACGTT
* * *
876289 GATCTTCATCTCCCTCTCCCACTAAACCACCTTC
1 GATCTCCATCTCCCTCTCCAACTAAACCACCGTC
*
876323 GATCTCCATCTCCCTCTCTCAAC-GAACCACCGTC
1 GATCTCCATCTCCCTCTC-CAACTAAACCACCGTC
876357 GATCT
1 GATCT
876362 TTATGTCCAT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 31 0.91
35 3 0.09
ACGTcount: A:0.21, C:0.45, G:0.07, T:0.27
Consensus pattern (34 bp):
GATCTCCATCTCCCTCTCCAACTAAACCACCGTC
Found at i:876746 original size:23 final size:23
Alignment explanation
Indices: 876716--876773 Score: 77
Period size: 21 Copynumber: 2.6 Consensus size: 23
876706 TTTTACAATT
876716 TGTATCGATACAAAT-CGATAAAA
1 TGTATCGATACAAATGC-ATAAAA
*
876739 TGTATCGATAC--ATGCTTAAAA
1 TGTATCGATACAAATGCATAAAA
876760 TGTATCGATACAAA
1 TGTATCGATACAAA
876774 ATCACCCTAC
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
21 18 0.58
22 1 0.03
23 12 0.39
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (23 bp):
TGTATCGATACAAATGCATAAAA
Found at i:876821 original size:20 final size:20
Alignment explanation
Indices: 876796--876873 Score: 93
Period size: 20 Copynumber: 3.9 Consensus size: 20
876786 TTTGGAAAGG
*
876796 AAATGTATCGATACATAAAT
1 AAATGTATCGATACATTAAT
*
876816 AAATGTATCGATACATTTACT
1 AAATGTATCGATACA-TTAAT
* *
876837 ATATGTATCGATACATTATT
1 AAATGTATCGATACATTAAT
* *
876857 CATTGTATCGATACATT
1 AAATGTATCGATACATT
876874 CTGGGTTTTT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
20 33 0.66
21 17 0.34
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.38
Consensus pattern (20 bp):
AAATGTATCGATACATTAAT
Found at i:878695 original size:96 final size:94
Alignment explanation
Indices: 878558--878731 Score: 249
Period size: 96 Copynumber: 1.8 Consensus size: 94
878548 CTTTCAGAGG
* * * * * *
878558 GGATACTCCAATCCTGTTTTTAAACTTGTCAATTTAAATCTTTTTTTTGCTTAAATTATCATCAT
1 GGATACTCCAACCCTATTTTTAAACTTATCAAGTTAAATCTTATTTTTGCGTAAATTATCATCAT
878623 CAAGGATACTCCAACCCTTTCTTCTGAGA
66 CAAGGATACTCCAACCCTTTCTTCTGAGA
*
878652 GGATACTCTAACCCTATTTTTAAACTTATCACGAGTTAAATCTTATTTTTGCGTAAATTATCATC
1 GGATACTCCAACCCTATTTTTAAACTTATCA--AGTTAAATCTTATTTTTGCGTAAATTATCATC
**
878717 ATCGGGGATACTCCA
64 ATCAAGGATACTCCA
878732 GCCCGCTCTT
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
94 27 0.39
96 42 0.61
ACGTcount: A:0.29, C:0.21, G:0.11, T:0.40
Consensus pattern (94 bp):
GGATACTCCAACCCTATTTTTAAACTTATCAAGTTAAATCTTATTTTTGCGTAAATTATCATCAT
CAAGGATACTCCAACCCTTTCTTCTGAGA
Found at i:891229 original size:33 final size:33
Alignment explanation
Indices: 891185--891249 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
891175 CACACCCAGG
891185 TGTATCAATACAAATTGCTAAGTATCGATACAT
1 TGTATCAATACAAATTGCTAAGTATCGATACAT
* **
891218 TGTATCGATACAAATTGCTTTGTATCGATACA
1 TGTATCAATACAAATTGCTAAGTATCGATACA
891250 CTATGGAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.35
Consensus pattern (33 bp):
TGTATCAATACAAATTGCTAAGTATCGATACAT
Found at i:895175 original size:23 final size:23
Alignment explanation
Indices: 895145--895202 Score: 77
Period size: 21 Copynumber: 2.6 Consensus size: 23
895135 TTTTACAATT
895145 TGTATCGATACAAAT-CGATAAAA
1 TGTATCGATACAAATGC-ATAAAA
*
895168 TGTATCGATAC--ATGCTTAAAA
1 TGTATCGATACAAATGCATAAAA
895189 TGTATCGATACAAA
1 TGTATCGATACAAA
895203 ATCACCCTAC
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
21 18 0.58
22 1 0.03
23 12 0.39
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (23 bp):
TGTATCGATACAAATGCATAAAA
Found at i:895250 original size:20 final size:20
Alignment explanation
Indices: 895225--895302 Score: 93
Period size: 20 Copynumber: 3.9 Consensus size: 20
895215 TTTGGAAAGG
*
895225 AAATGTATCGATACATAAAT
1 AAATGTATCGATACATTAAT
*
895245 AAATGTATCGATACATTTACT
1 AAATGTATCGATACA-TTAAT
* *
895266 ATATGTATCGATACATTATT
1 AAATGTATCGATACATTAAT
* *
895286 CATTGTATCGATACATT
1 AAATGTATCGATACATT
895303 CTGGGTTTTT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
20 33 0.66
21 17 0.34
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.38
Consensus pattern (20 bp):
AAATGTATCGATACATTAAT
Found at i:897122 original size:96 final size:93
Alignment explanation
Indices: 896979--897151 Score: 256
Period size: 96 Copynumber: 1.8 Consensus size: 93
896969 CTTTCAGAGG
* * * * *
896979 GGATACTCAATCCTGTTTTTAAACTTGTCAATTTAAATCTTATTTTTGCTTAAATTATCATCATC
1 GGATACTCAACCCTATTTTTAAACTTATCAAGTTAAATCTTATTTTTGCGTAAATTATCATCATC
897044 AAGGATACTCCAACCCTTTCTTCTGAGA
66 AAGGATACTCCAACCCTTTCTTCTGAGA
897072 GGATACTCTAACCCTATTTTTAAACTTATCACGAGTTAAATCTTATTTTTGCGTAAATTATCATC
1 GGATACTC-AACCCTATTTTTAAACTTATCA--AGTTAAATCTTATTTTTGCGTAAATTATCATC
**
897137 ATCGGGGATACTCCA
63 ATCAAGGATACTCCA
897152 GCCCGCTCTT
Statistics
Matches: 70, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
93 8 0.11
94 19 0.27
96 43 0.61
ACGTcount: A:0.29, C:0.20, G:0.11, T:0.39
Consensus pattern (93 bp):
GGATACTCAACCCTATTTTTAAACTTATCAAGTTAAATCTTATTTTTGCGTAAATTATCATCATC
AAGGATACTCCAACCCTTTCTTCTGAGA
Found at i:907058 original size:13 final size:13
Alignment explanation
Indices: 907040--907064 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
907030 ATGCAATTTA
907040 TATCGATACATTG
1 TATCGATACATTG
907053 TATCGATACATT
1 TATCGATACATT
907065 AAAATTGTAT
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:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (13 bp):
TATCGATACATTG
Found at i:909661 original size:33 final size:33
Alignment explanation
Indices: 909617--909681 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
909607 CACACCCAGA
909617 TGTATCAATACAAATTGCTAAGTATCGATACAT
1 TGTATCAATACAAATTGCTAAGTATCGATACAT
* **
909650 TGTATCGATACAAATTGCTTTGTATCGATACA
1 TGTATCAATACAAATTGCTAAGTATCGATACA
909682 CTATGGAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.35
Consensus pattern (33 bp):
TGTATCAATACAAATTGCTAAGTATCGATACAT
Done.