Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D10
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: 65706892
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 869813 characters in sequence are not A, C, G, or T
File 82 of 218
Found at i:24237000 original size:30 final size:31
Alignment explanation
Indices: 24236966--24237025 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
24236956 AAACCTTTTA
*
24236966 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
24236996 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
24237026 TCCCACTTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:24244821 original size:26 final size:26
Alignment explanation
Indices: 24244787--24244858 Score: 90
Period size: 26 Copynumber: 2.7 Consensus size: 26
24244777 AACCATAGCA
* *
24244787 CAAATTAGTCATTTACCCTCGAGGGG
1 CAAAATAGTCATTTACCCTCCAGGGG
24244813 CAAAATAGTCATTTACCCTCCAGGGG
1 CAAAATAGTCATTTACCCTCCAGGGG
** *
24244839 CATTATGGTCATTTTACCCT
1 CAAAATAGTCA-TTTACCCT
24244859 ATAAGGGTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
26 32 0.80
27 8 0.20
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (26 bp):
CAAAATAGTCATTTACCCTCCAGGGG
Found at i:24244924 original size:27 final size:28
Alignment explanation
Indices: 24244894--24244946 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
24244884 CTACAATAGT
* *
24244894 ATTAAGATCATTTTACCTTAC-AGGGGC
1 ATTAAGATCATATTACCCTACGAGGGGC
*
24244921 ATTACGATCATATTACCCTACGAGGG
1 ATTAAGATCATATTACCCTACGAGGG
24244947 TATTTCAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 18 0.82
28 4 0.18
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (28 bp):
ATTAAGATCATATTACCCTACGAGGGGC
Found at i:24244958 original size:27 final size:27
Alignment explanation
Indices: 24244928--24245014 Score: 97
Period size: 27 Copynumber: 3.2 Consensus size: 27
24244918 GGCATTACGA
*
24244928 TCATATTACCC-TACGAGGGTATTTCAG
1 TCATTTTACCCAT-CGAGGGTATTTCAG
* **
24244955 TCATTTTACTCATCGAGGGTATTTTGG
1 TCATTTTACCCATCGAGGGTATTTCAG
*
24244982 TTATTTTACCCATCGAGGGTATTTC-G
1 TCATTTTACCCATCGAGGGTATTTCAG
24245008 ATCATTT
1 -TCATTT
24245015 AACAAATATT
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
26 1 0.02
27 48 0.96
28 1 0.02
ACGTcount: A:0.22, C:0.18, G:0.18, T:0.41
Consensus pattern (27 bp):
TCATTTTACCCATCGAGGGTATTTCAG
Found at i:24248516 original size:54 final size:53
Alignment explanation
Indices: 24248391--24248563 Score: 213
Period size: 54 Copynumber: 3.2 Consensus size: 53
24248381 CTGTAAAATA
* *
24248391 GGTAAAATGACCAAAATACCCTCATAGGGTAAAATAGCTGAAATACCCCCATAA
1 GGTAAAATGACCAAAATACCCTCATAGGGTAAAATA-CTGAAATACCCCTATAG
* * * * *
24248445 GATAGAATGATCGAAATACCC-CTATAGGGTAAAATGACTGAAATACCCCTACAG
1 GGTAAAATGACCAAAATACCCTC-ATAGGGTAAAAT-ACTGAAATACCCCTATAG
* * *
24248499 GGTAAAAGGACCAAAATACCCTCATAGGGTATAATAACTAAAATACCCCTATAG
1 GGTAAAATGACCAAAATACCCTCATAGGGTAAAAT-ACTGAAATACCCCTATAG
24248553 GGTAAAATGAC
1 GGTAAAATGAC
24248564 TGTTATACCC
Statistics
Matches: 99, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
53 1 0.01
54 96 0.97
55 2 0.02
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.20
Consensus pattern (53 bp):
GGTAAAATGACCAAAATACCCTCATAGGGTAAAATACTGAAATACCCCTATAG
Found at i:24248576 original size:27 final size:27
Alignment explanation
Indices: 24248391--24248564 Score: 167
Period size: 27 Copynumber: 6.4 Consensus size: 27
24248381 CTGTAAAATA
*
24248391 GGTAAAATGACCAAAATA-CCCTCATAG
1 GGTAAAATGACTAAAATACCCCT-ATAG
* * *
24248418 GGTAAAAT-AGCTGAAATACCCCCATAA
1 GGTAAAATGA-CTAAAATACCCCTATAG
* * *
24248445 GATAGAATGA-TCGAAATACCCCTATAG
1 GGTAAAATGACT-AAAATACCCCTATAG
* *
24248472 GGTAAAATGACTGAAATACCCCTACAG
1 GGTAAAATGACTAAAATACCCCTATAG
* *
24248499 GGTAAAAGGACCAAAATA-CCCTCATAG
1 GGTAAAATGACTAAAATACCCCT-ATAG
* *
24248526 GGTATAATAACTAAAATACCCCTATAG
1 GGTAAAATGACTAAAATACCCCTATAG
24248553 GGTAAAATGACT
1 GGTAAAATGACT
24248565 GTTATACCCC
Statistics
Matches: 119, Mismatches: 21, Indels: 14
0.77 0.14 0.09
Matches are distributed among these distances:
26 6 0.05
27 104 0.87
28 9 0.08
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACTAAAATACCCCTATAG
Found at i:24251442 original size:81 final size:80
Alignment explanation
Indices: 24251293--24251625 Score: 348
Period size: 81 Copynumber: 4.1 Consensus size: 80
24251283 CCCCAAAATA
* * * * * * *
24251293 GGTAAAATGACCAAAATACCTCATAAGATAAAATGACCAAAATA-CTCCATAGGGTAGAATAATC
1 GGTAAAATGACCAAAATACCCCATAAGGTAAAATAACCGAAATACCCCCATAGGGTAAAATAACC
*
24251357 GAAATACCCTTATAG
66 GAAATACCCTCATAG
**
24251372 GGTAAAATGACCAAAATACCTTTATAAGGTAAAATAACCGAAATACCCCCATAGGGTAAAATAAC
1 GGTAAAATGACCAAAATACC-CCATAAGGTAAAATAACCGAAATACCCCCATAGGGTAAAATAAC
*
24251437 CGAAATACCCTCATAA
65 CGAAATACCCTCATAG
* * * * ** **
24251453 GGTAAAATGATCGAAATACGCCCATAGGGTAAAATGAA-TGAAATACCCCCATAGGGTAGTATTG
1 GGTAAAATGACCAAAATAC-CCCATAAGGTAAAAT-AACCGAAATACCCCCATAGGGTAAAATAA
* * *
24251517 CCAAAAGACCCCCATAG
64 CCGAAATACCCTCATAG
* * * * **
24251534 GGTAAAATGACCAAAATACCCCCACAAGGTAGAATGACTGAAATACCATCATAGGGTAAAATAAC
1 GGTAAAATGACCAAAATA-CCCCATAAGGTAAAATAACCGAAATACCCCCATAGGGTAAAATAAC
24251599 CGAAATA-CCTCCATAG
65 CGAAATACCCT-CATAG
24251615 GGTAAAATGAC
1 GGTAAAATGAC
24251626 TGTTATACCC
Statistics
Matches: 209, Mismatches: 38, Indels: 12
0.81 0.15 0.05
Matches are distributed among these distances:
79 20 0.10
80 23 0.11
81 162 0.78
82 4 0.02
ACGTcount: A:0.44, C:0.20, G:0.16, T:0.19
Consensus pattern (80 bp):
GGTAAAATGACCAAAATACCCCATAAGGTAAAATAACCGAAATACCCCCATAGGGTAAAATAACC
GAAATACCCTCATAG
Found at i:24251634 original size:27 final size:27
Alignment explanation
Indices: 24251293--24251625 Score: 284
Period size: 27 Copynumber: 12.4 Consensus size: 27
24251283 CCCCAAAATA
* *
24251293 GGTAAAATGACCAAAATACCT-CATAA
1 GGTAAAATGACCGAAATACCTCCATAG
* *
24251319 GATAAAATGACCAAAATA-CTCCATAG
1 GGTAAAATGACCGAAATACCTCCATAG
* * * *
24251345 GGTAGAATAATCGAAATACC-CTTATAG
1 GGTAAAATGACCGAAATACCTC-CATAG
* ** *
24251372 GGTAAAATGACCAAAATACCTTTATAA
1 GGTAAAATGACCGAAATACCTCCATAG
* *
24251399 GGTAAAATAACCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCTCCATAG
* *
24251426 GGTAAAATAACCGAAATACC-CTCATAA
1 GGTAAAATGACCGAAATACCTC-CATAG
*
24251453 GGTAAAATGATCGAAATACGC-CCATAG
1 GGTAAAATGACCGAAATAC-CTCCATAG
** *
24251480 GGTAAAATGAATGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCTCCATAG
* * * * *
24251507 GGTAGTATTG-CCAAAAGACCCCCATAG
1 GGTA-AAATGACCGAAATACCTCCATAG
* * * *
24251534 GGTAAAATGACCAAAATACCCCCACAA
1 GGTAAAATGACCGAAATACCTCCATAG
* *
24251561 GGTAGAATGACTGAAATACCAT-CATAG
1 GGTAAAATGACCGAAATACC-TCCATAG
*
24251588 GGTAAAATAACCGAAATACCTCCATAG
1 GGTAAAATGACCGAAATACCTCCATAG
24251615 GGTAAAATGAC
1 GGTAAAATGAC
24251626 TGTTATACCC
Statistics
Matches: 249, Mismatches: 47, Indels: 21
0.79 0.15 0.07
Matches are distributed among these distances:
25 2 0.01
26 41 0.16
27 201 0.81
28 5 0.02
ACGTcount: A:0.44, C:0.20, G:0.16, T:0.19
Consensus pattern (27 bp):
GGTAAAATGACCGAAATACCTCCATAG
Found at i:24264308 original size:19 final size:20
Alignment explanation
Indices: 24264284--24264329 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 20
24264274 CATCCAAACA
24264284 CCAGAAAAGTAAATCA-TTT
1 CCAGAAAAGTAAATCATTTT
24264303 CCAGAAAAGTAAATCATTTT
1 CCAGAAAAGTAAATCATTTT
24264323 CCAGAAA
1 CCAGAAA
24264330 TCATTTTTTG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.48, C:0.17, G:0.11, T:0.24
Consensus pattern (20 bp):
CCAGAAAAGTAAATCATTTT
Found at i:24264928 original size:26 final size:26
Alignment explanation
Indices: 24264890--24264949 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
24264880 CTGTAAGTGC
*
24264890 TCTGAAACTGATACATGTTATGATAT
1 TCTGAAACGGATACATGTTATGATAT
*
24264916 TCTGAAACGGATATATGTTATGATAT
1 TCTGAAACGGATACATGTTATGATAT
*
24264942 TCTAAAAC
1 TCTGAAAC
24264950 TACTGTAGGT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (26 bp):
TCTGAAACGGATACATGTTATGATAT
Found at i:24265701 original size:42 final size:42
Alignment explanation
Indices: 24265642--24265726 Score: 170
Period size: 42 Copynumber: 2.0 Consensus size: 42
24265632 AGTATGTGGG
24265642 AGCTAGTTATGTGGACGCCCGTAGGAGGGAGTTCCTGAATCT
1 AGCTAGTTATGTGGACGCCCGTAGGAGGGAGTTCCTGAATCT
24265684 AGCTAGTTATGTGGACGCCCGTAGGAGGGAGTTCCTGAATCT
1 AGCTAGTTATGTGGACGCCCGTAGGAGGGAGTTCCTGAATCT
24265726 A
1 A
24265727 ACATAGGGAG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.22, C:0.19, G:0.33, T:0.26
Consensus pattern (42 bp):
AGCTAGTTATGTGGACGCCCGTAGGAGGGAGTTCCTGAATCT
Found at i:24266924 original size:16 final size:16
Alignment explanation
Indices: 24266903--24266934 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
24266893 ATTGCTTCCA
24266903 TTCCTAACTGGTGGTG
1 TTCCTAACTGGTGGTG
24266919 TTCCTAACTGGTGGTG
1 TTCCTAACTGGTGGTG
24266935 GTCGAGGATG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.19, G:0.31, T:0.38
Consensus pattern (16 bp):
TTCCTAACTGGTGGTG
Found at i:24267798 original size:27 final size:27
Alignment explanation
Indices: 24267477--24267927 Score: 392
Period size: 27 Copynumber: 16.7 Consensus size: 27
24267467 ATACCCTTGA
* * * *
24267477 AGGGTAAAATAATCGAAATACCCTTGAT
1 AGGGTAAAATGACCGTAATACCCCT-AT
* * * *
24267505 -GGGTAAAATGACTGAAATACCATCGAT
1 AGGGTAAAATGACCGTAATACC-CCTAT
* * * *
24267532 -GGGTAAAATAACCGAAATACTCTCGAT
1 AGGGTAAAATGACCGTAATAC-CCCTAT
* * * *
24267559 A-GGTAAAATGACTGAAATACCTTCGAT
1 AGGGTAAAATGACCGTAATACC-CCTAT
** *
24267586 -GGGTAAAATGACCAAAATACCCTTGAT
1 AGGGTAAAATGACCGTAATACCCCT-AT
* * *
24267613 -GGGTAAAATGACTGAAATACCCTTGAT
1 AGGGTAAAATGACCGTAATACCCCT-AT
* *
24267640 -GGGTAAAATGATCGAAATACCCCTAT
1 AGGGTAAAATGACCGTAATACCCCTAT
* *
24267666 AGGGTAAAATGACCGTAATACCCTTGT
1 AGGGTAAAATGACCGTAATACCCCTAT
* * *
24267693 AGGGTAAAATAACTGTAATACCCTTAT
1 AGGGTAAAATGACCGTAATACCCCTAT
* * *
24267720 AGGGTAAAATGACCGTAATGCTCCTGT
1 AGGGTAAAATGACCGTAATACCCCTAT
* * *
24267747 AGGGTAAAATGATCGTAATATCCCTGT
1 AGGGTAAAATGACCGTAATACCCCTAT
24267774 AGGGTAAAATGACCGTAATACCCCTAT
1 AGGGTAAAATGACCGTAATACCCCTAT
* * * * *
24267801 AAGGTAAAATTACTGTAATGCCTCTAT
1 AGGGTAAAATGACCGTAATACCCCTAT
* *
24267828 AAGGTAAAATGACCGTAATGCCCCTAT
1 AGGGTAAAATGACCGTAATACCCCTAT
* *
24267855 AGGATAAAATGACCGTAATGCCCCTAT
1 AGGGTAAAATGACCGTAATACCCCTAT
*
24267882 AGGATAAAATGACCGTAATACCCCTAT
1 AGGGTAAAATGACCGTAATACCCCTAT
*
24267909 AGGGTAAAATGACCATAAT
1 AGGGTAAAATGACCGTAAT
24267928 GCCCTGGTGG
Statistics
Matches: 363, Mismatches: 53, Indels: 15
0.84 0.12 0.03
Matches are distributed among these distances:
26 3 0.01
27 359 0.99
28 1 0.00
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.25
Consensus pattern (27 bp):
AGGGTAAAATGACCGTAATACCCCTAT
Found at i:24267956 original size:26 final size:26
Alignment explanation
Indices: 24267927--24267978 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
24267917 ATGACCATAA
* *
24267927 TGCCCTGGTGGGTAAATGACTATTTT
1 TGCCCTCGTGAGTAAATGACTATTTT
* *
24267953 TGCCCTCGTGATTAAATGATTATTTT
1 TGCCCTCGTGAGTAAATGACTATTTT
24267979 GTCTGTGGTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.21, C:0.15, G:0.21, T:0.42
Consensus pattern (26 bp):
TGCCCTCGTGAGTAAATGACTATTTT
Found at i:24267994 original size:23 final size:23
Alignment explanation
Indices: 24267964--24268020 Score: 78
Period size: 23 Copynumber: 2.4 Consensus size: 23
24267954 GCCCTCGTGA
*
24267964 TTAAATGATTATTTTGTCTGTGG
1 TTAAATGATTAATTTGTCTGTGG
* *
24267987 TTAAATGACTAATTTGTCTGTGT
1 TTAAATGATTAATTTGTCTGTGG
24268010 TTAATATGATT
1 TTAA-ATGATT
24268021 GATGTGTTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
23 24 0.83
24 5 0.17
ACGTcount: A:0.26, C:0.05, G:0.18, T:0.51
Consensus pattern (23 bp):
TTAAATGATTAATTTGTCTGTGG
Found at i:24268196 original size:26 final size:26
Alignment explanation
Indices: 24268164--24268213 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
24268154 ATAGCCACAT
24268164 ATACTATTACTGGCAGCTTTGCTGTG
1 ATACTATTACTGGCAGCTTTGCTGTG
*
24268190 ATACTATTGCTGGCAGCTTTGCTG
1 ATACTATTACTGGCAGCTTTGCTG
24268214 CGATGCTACT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.18, C:0.20, G:0.24, T:0.38
Consensus pattern (26 bp):
ATACTATTACTGGCAGCTTTGCTGTG
Found at i:24268229 original size:26 final size:26
Alignment explanation
Indices: 24268174--24268229 Score: 76
Period size: 26 Copynumber: 2.2 Consensus size: 26
24268164 ATACTATTAC
* * *
24268174 TGGCAGCTTTGCTGTGATACTATTGC
1 TGGCAGCTTTGCTGCGATACTACTGA
*
24268200 TGGCAGCTTTGCTGCGATGCTACTGA
1 TGGCAGCTTTGCTGCGATACTACTGA
24268226 TGGC
1 TGGC
24268230 TTTGTGTTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.14, C:0.21, G:0.30, T:0.34
Consensus pattern (26 bp):
TGGCAGCTTTGCTGCGATACTACTGA
Found at i:24268475 original size:32 final size:32
Alignment explanation
Indices: 24268220--24268472 Score: 197
Period size: 32 Copynumber: 7.9 Consensus size: 32
24268210 GCTGCGATGC
** *
24268220 TACTGATGGCTTTGTGTTAATCATAGTACCGT
1 TACTGATGGCTTTGTGCCAATCATATTACCGT
*
24268252 TACTGATGGCTTTGTGCCAATCATAGTACCGT
1 TACTGATGGCTTTGTGCCAATCATATTACCGT
* * *
24268284 TACTGATGACTTTATGCCGATCATATTACCGT
1 TACTGATGGCTTTGTGCCAATCATATTACCGT
* * * * *
24268316 TA-TCGATGACTATGTGCCGATTAT-TTCACTGT
1 TACT-GATGGCTTTGTGCCAATCATATT-ACCGT
* * * * *
24268348 TACTGATGGCTGTGTG-TAGATCATATCACTGC
1 TACTGATGGCTTTGTGCCA-ATCATATTACCGT
* * * * *
24268380 CACTAATGGCTTTGTACCGATCATGTTACCGT
1 TACTGATGGCTTTGTGCCAATCATATTACCGT
* * * * *
24268412 TACTGATGGCTATATGCCGATCATATCACTGT
1 TACTGATGGCTTTGTGCCAATCATATTACCGT
* *
24268444 TACTGATGGCTTTGTGCTAATCACATTAC
1 TACTGATGGCTTTGTGCCAATCATATTAC
24268473 TGTACGTATG
Statistics
Matches: 174, Mismatches: 41, Indels: 12
0.77 0.18 0.05
Matches are distributed among these distances:
31 3 0.02
32 169 0.97
33 2 0.01
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.37
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCAATCATATTACCGT
Found at i:24281081 original size:29 final size:29
Alignment explanation
Indices: 24281042--24281113 Score: 90
Period size: 29 Copynumber: 2.4 Consensus size: 29
24281032 ATAATTGCAG
*
24281042 AAAATCTACCAAATAAATAATAAATGCGAT
1 AAAATC-ACCAAATAAAGAATAAATGCGAT
* *
24281072 AAAATCACCAAATAACGAATAAATGTGAT
1 AAAATCACCAAATAAAGAATAAATGCGAT
* *
24281101 AAGATCGCCAAAT
1 AAAATCACCAAAT
24281114 CTCGTTCAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 31 0.84
30 6 0.16
ACGTcount: A:0.54, C:0.15, G:0.10, T:0.21
Consensus pattern (29 bp):
AAAATCACCAAATAAAGAATAAATGCGAT
Found at i:24281861 original size:41 final size:41
Alignment explanation
Indices: 24281800--24282083 Score: 354
Period size: 41 Copynumber: 6.9 Consensus size: 41
24281790 TTCTGAACTT
24281800 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
* * * **
24281841 TTGGGGCTTTAGCGGTGTTTTTGGAAAAGTGTAAG-TAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCG-CCGCTAATGC
*
24281882 TCGGGGCTTTAGCGGCGTTTTTGCAAAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
* *
24281923 TCGGGGCTTTAGCAGCGTTTTTTGAAAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
**
24281964 TAAGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
* ** * * * *
24282005 TAGGGATTTTAGTGGTGTTTTTCGAAAAGCGTCGCTAATGC
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
* * ** *
24282046 TCGGGGTTTTACCGGCGTTTTTCCAAAAACGCCGCTAA
1 TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAA
24282084 AAATATTTTA
Statistics
Matches: 208, Mismatches: 33, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
40 1 0.00
41 206 0.99
42 1 0.00
ACGTcount: A:0.20, C:0.19, G:0.31, T:0.30
Consensus pattern (41 bp):
TCGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGC
Found at i:24282459 original size:15 final size:16
Alignment explanation
Indices: 24282441--24282482 Score: 56
Period size: 14 Copynumber: 2.9 Consensus size: 16
24282431 GTTTAGGGAG
24282441 TATGGATTTAAG-GAT
1 TATGGATTTAAGAGAT
24282456 TATGGA-TT-AGAGAT
1 TATGGATTTAAGAGAT
24282470 TATGG-TTTAAGAG
1 TATGGATTTAAGAG
24282483 TTGGGATTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
13 2 0.08
14 12 0.50
15 10 0.42
ACGTcount: A:0.33, C:0.00, G:0.29, T:0.38
Consensus pattern (16 bp):
TATGGATTTAAGAGAT
Found at i:24282611 original size:7 final size:7
Alignment explanation
Indices: 24282584--24282622 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
24282574 GGCATAGGGA
24282584 TTATGTGT
1 TTATG-GT
* *
24282592 TTAGGGA
1 TTATGGT
24282599 TTATGGT
1 TTATGGT
24282606 TTATGGT
1 TTATGGT
24282613 TTATGGT
1 TTATGGT
24282620 TTA
1 TTA
24282623 AGGGTTGGGG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
7 23 0.85
8 4 0.15
ACGTcount: A:0.18, C:0.00, G:0.28, T:0.54
Consensus pattern (7 bp):
TTATGGT
Found at i:24282616 original size:14 final size:14
Alignment explanation
Indices: 24282578--24282622 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
24282568 TTTTGAGGCA
24282578 TAGGGATTATGTGTT
1 TAGGGATTATG-GTT
24282593 TAGGGATTATGGTT
1 TAGGGATTATGGTT
* *
24282607 TATGGTTTATGGTT
1 TAGGGATTATGGTT
24282621 TA
1 TA
24282623 AGGGTTGGGG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
14 17 0.61
15 11 0.39
ACGTcount: A:0.20, C:0.00, G:0.31, T:0.49
Consensus pattern (14 bp):
TAGGGATTATGGTT
Found at i:24285109 original size:6 final size:6
Alignment explanation
Indices: 24285098--24285123 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
24285088 AACTACTTCA
24285098 TTCTTT TTCTTT TTCTTT TTCTTT TT
1 TTCTTT TTCTTT TTCTTT TTCTTT TT
24285124 TTTGTGAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTCTTT
Found at i:24288018 original size:43 final size:43
Alignment explanation
Indices: 24287958--24288048 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 43
24287948 CTTTGAGTTC
* * *
24287958 ATTA-CAAGATTTCCTTGATTAAGTAAATGTATTATATCTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
* *
24288000 ATTACCAAGATTTACTTGATTAAGAAAATGCATTGTATTTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
24288043 ATTACC
1 ATTACC
24288049 TTGCAATGTG
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 4 0.09
43 39 0.91
ACGTcount: A:0.34, C:0.11, G:0.10, T:0.45
Consensus pattern (43 bp):
ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
Found at i:24288514 original size:43 final size:42
Alignment explanation
Indices: 24288443--24288685 Score: 337
Period size: 43 Copynumber: 5.7 Consensus size: 42
24288433 CGTACTGCGT
*
24288443 CGCTAAAGGT-TTGTTCTATAGCGGCGTTTGTGAGAAAAGCGC
1 CGCTAAAGGTCTTGATCTATAGCGGCGTTTGTG-GAAAAGCGC
* *
24288485 CGCTAAAGGTCTTGAGCTATAGCGACGTTTGTGGAAAAAGCGC
1 CGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGG-AAAAGCGC
*
24288528 CGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAAAAGCTC
1 CGCTAAAGGTCTTGATCTATAGCGGCGTTTGT-GGAAAAGCGC
* * *
24288571 CGCTAGAA-GTCTTGAGCTATAGCGGAGTTTGTGCAAAAGCGC
1 CGCTA-AAGGTCTTGATCTATAGCGGCGTTTGTGGAAAAGCGC
*
24288613 CGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGGAAAAGCGC
1 CGCTAAAGGTCTTGATCTATAGCGGCGTTTGT-GGAAAAGCGC
* *
24288656 CGCTAAAGGTCATGATCTATAGCAGCGTTT
1 CGCTAAAGGTCTTGATCTATAGCGGCGTTT
24288686 ATTTCTAAAA
Statistics
Matches: 179, Mismatches: 16, Indels: 11
0.87 0.08 0.05
Matches are distributed among these distances:
41 2 0.01
42 45 0.25
43 128 0.72
44 4 0.02
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (42 bp):
CGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGAAAAGCGC
Found at i:24288646 original size:85 final size:86
Alignment explanation
Indices: 24288443--24288678 Score: 363
Period size: 85 Copynumber: 2.8 Consensus size: 86
24288433 CGTACTGCGT
* *
24288443 CGCTAAAGGT-TTGTTCTATAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCTTGAGCTATAG
1 CGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGAGCTATAG
24288507 CGACGTTTGTGGAAAAAGCGC
66 CGACGTTTGTGGAAAAAGCGC
*
24288528 CGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAAAAGCTCCGCTAGAA-GTCTTGAGCTATA
1 CGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTA-AAGGTCTTGAGCTATA
*
24288592 GCGGA-GTTTGT-GCAAAAGCGC
65 GC-GACGTTTGTGGAAAAAGCGC
* * *
24288613 CGCTAAAGGTCCTGATCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGATCTATAG
1 CGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGAGCTATAG
24288678 C
66 C
24288679 AGCGTTTATT
Statistics
Matches: 139, Mismatches: 8, Indels: 8
0.90 0.05 0.05
Matches are distributed among these distances:
84 2 0.01
85 78 0.56
86 55 0.40
87 4 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (86 bp):
CGCTAAAGGTCTTGATCTATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCTTGAGCTATAG
CGACGTTTGTGGAAAAAGCGC
Found at i:24296501 original size:27 final size:26
Alignment explanation
Indices: 24296461--24296517 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 26
24296451 TAGAGGCGGT
* *
24296461 ATATAACCACTTCATACATCTATTTCC
1 ATATAAACACTTCATACATCCATTT-C
* *
24296488 ATATAAACATTTCATATATCCATTTC
1 ATATAAACACTTCATACATCCATTTC
24296514 ATAT
1 ATAT
24296518 TACAATTTCT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 5 0.19
27 21 0.81
ACGTcount: A:0.37, C:0.23, G:0.00, T:0.40
Consensus pattern (26 bp):
ATATAAACACTTCATACATCCATTTC
Found at i:24298332 original size:20 final size:20
Alignment explanation
Indices: 24298307--24298352 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
24298297 TTCTCTCTAT
24298307 TTTTGGCGT-TGGCTCCTTGA
1 TTTTGG-GTGTGGCTCCTTGA
*
24298327 TTTTGGGTGGTGGTTCCTTGA
1 TTTTGGGT-GTGGCTCCTTGA
24298348 TTTTG
1 TTTTG
24298353 TCCATGTTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 2 0.09
20 6 0.26
21 15 0.65
ACGTcount: A:0.04, C:0.13, G:0.33, T:0.50
Consensus pattern (20 bp):
TTTTGGGTGTGGCTCCTTGA
Found at i:24301377 original size:17 final size:18
Alignment explanation
Indices: 24301357--24301399 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
24301347 AATATGAATT
*
24301357 ATATATACATAT-TTACA
1 ATATATACATATAGTACA
*
24301374 ATATATATATATAAGTACA
1 ATATATACATAT-AGTACA
24301393 ATATATA
1 ATATATA
24301400 GGTAAATTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 11 0.50
19 11 0.50
ACGTcount: A:0.51, C:0.07, G:0.02, T:0.40
Consensus pattern (18 bp):
ATATATACATATAGTACA
Found at i:24301380 original size:19 final size:19
Alignment explanation
Indices: 24301356--24301399 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
24301346 TAATATGAAT
**
24301356 TATATATACATATTTACAA
1 TATATATACATAAGTACAA
*
24301375 TATATATATATAAGTACAA
1 TATATATACATAAGTACAA
24301394 TATATA
1 TATATA
24301400 GGTAAATTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.41
Consensus pattern (19 bp):
TATATATACATAAGTACAA
Found at i:24302039 original size:3 final size:3
Alignment explanation
Indices: 24302031--24302097 Score: 59
Period size: 3 Copynumber: 23.3 Consensus size: 3
24302021 TAAATATAGA
* * * * *
24302031 AAT AAT AAT AAT ATT AAT GAT -AT AAT -AT AAT AAT GAT AAT AAC ATT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
24302077 AAA AAT AAT AAT AAT AA- AAT A
1 AAT AAT AAT AAT AAT AAT AAT A
24302098 GCTAAGAAAA
Statistics
Matches: 50, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
2 6 0.12
3 44 0.88
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:24302066 original size:16 final size:17
Alignment explanation
Indices: 24302035--24302068 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
24302025 TATAGAAATA
*
24302035 ATAATAATATTAATGAT
1 ATAATAATAATAATGAT
24302052 ATAAT-ATAATAATGAT
1 ATAATAATAATAATGAT
24302068 A
1 A
24302069 ATAACATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (17 bp):
ATAATAATAATAATGAT
Found at i:24303678 original size:45 final size:45
Alignment explanation
Indices: 24303619--24303747 Score: 163
Period size: 45 Copynumber: 2.9 Consensus size: 45
24303609 TTGTTTATTT
* * *
24303619 AGTCTGC-CCTACTGCAGTTTCAGGGGGATAAGACTTGATTTCTTG
1 AGTCTGCTCC-ACTGCAATTTCAGGGAGATAAGACTCGATTTCTTG
* *
24303664 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTG
1 AGTCTGCTCCACTGCAATTTCAGGGAGATAAGACTCGATTTCTTG
* *
24303709 GGTCTGCTCCACTGCAACTTT-AGGGAGATAAGACCCGAT
1 AGTCTGCTCCACTGCAA-TTTCAGGGAGATAAGACTCGAT
24303748 GCGATCTGCT
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
45 69 0.95
46 4 0.05
ACGTcount: A:0.22, C:0.24, G:0.25, T:0.29
Consensus pattern (45 bp):
AGTCTGCTCCACTGCAATTTCAGGGAGATAAGACTCGATTTCTTG
Found at i:24303956 original size:44 final size:44
Alignment explanation
Indices: 24303581--24304086 Score: 264
Period size: 44 Copynumber: 11.6 Consensus size: 44
24303571 TTCTAATCCA
* * ** * * *
24303581 CTCCACTACAACTTTAGGGAGATGGGATTTGTTTATTTAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATTACTTAGTCTG
** * *
24303625 C-CCTACTGCAGTTTCAGGGGGATAAGACTTGATTTCTTGAGTCTG
1 CTCC-ACTGCAACTTCAGGGAGATAAGACTTGATTACTT-AGTCTG
* * * *
24303670 CTCCACTGCAACTTCAGGGAGATAAGACTCGCTTTCTTGGGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATTACTT-AGTCTG
* ** * *
24303715 CTCCACTGCAACTTTAGGGAGATAAGACCCGA-TGC-GA-TCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATTACTTAGTCTG
* * * *
24303756 CT-CTCTGCAACTTCAGAGAGATAAGATCTGTGATT--TTAATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-TGATTACTTAGTCTG
* * * * *
24303799 CTCCACTGTAACTTCAAGGAGATAGGA-TT-ATTGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATT-AC-TTAGTCTG
* *
24303843 CTCCAGTGTAACTTCAGGGAGATAAGA-TTCGCCA-T-CTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTT-G--ATTACTT-AGTCTG
* * * * *
24303888 C-CTTACTACAACTTTA-GGAGGATAAGGCTTGCTTACTTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGACTTGATTACTTAGTCTG
* * * * *
24303932 CGCCACTGCAACTTCAGGGAGATAAGACTAGA-TGC--AATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATTACTTAGTCTG
* * * *
24303973 CT-CTCTGCAACTTCAGAGAGATAAGATCTGTGATT--TTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGA-CT-TGATTACTTAGTCTG
* * * *
24304016 CTCCACTGCGACTTCAGGGAGATAGGA-TTG-TTGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTGATT-AC-TTAGTCTG
24304060 CTCCACTGCAACTTCAGGGAGATAAGA
1 CTCCACTGCAACTTCAGGGAGATAAGA
24304087 TTCGCCATCT
Statistics
Matches: 358, Mismatches: 69, Indels: 70
0.72 0.14 0.14
Matches are distributed among these distances:
40 48 0.13
41 17 0.05
42 7 0.02
43 17 0.05
44 163 0.46
45 100 0.28
46 4 0.01
47 1 0.00
48 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTGATTACTTAGTCTG
Found at i:24304515 original size:44 final size:43
Alignment explanation
Indices: 24304452--24304573 Score: 149
Period size: 44 Copynumber: 2.8 Consensus size: 43
24304442 ATCTGCTATT
*
24304452 TTCAACCTACTCCACTGTTGCTCAGGTAGATAGGA-TTCACAATC
1 TTCAACCTATTCCACTGTTGCTCAGG-AGATAGGACTT-ACAATC
* *
24304496 TTCAACCTATTCTATTGTTGAC-CAGGGAGATAGGACTTACAATC
1 TTCAACCTATTCCACTGTTG-CTCA-GGAGATAGGACTTACAATC
*
24304540 TTCAACCTATTCCACTGTTGTTCAAGGAGATAGG
1 TTCAACCTATTCCACTGTTGCTC-AGGAGATAGG
24304574 GCTGAGGTCA
Statistics
Matches: 67, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
44 61 0.91
45 6 0.09
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (43 bp):
TTCAACCTATTCCACTGTTGCTCAGGAGATAGGACTTACAATC
Found at i:24304686 original size:43 final size:43
Alignment explanation
Indices: 24304637--24304771 Score: 126
Period size: 44 Copynumber: 3.1 Consensus size: 43
24304627 TTTTAACCTA
24304637 CTTCGCTGCAACCCAGGGAGGCAAGGTTGGTGTCTTCAATCTG
1 CTTCGCTGCAACCCAGGGAGGCAAGGTTGGTGTCTTCAATCTG
**** * * * * * * *
24304680 CTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTG
1 CTTCGCTG-CAACCCAGGGAGGCAAGGT-TGGTGTCTTCAATCTG
* * *
24304725 CTCCGCTACAACCCAGGGAGGCAAGGTTGGTGTCTTCGATCTG
1 CTTCGCTGCAACCCAGGGAGGCAAGGTTGGTGTCTTCAATCTG
24304768 CTTC
1 CTTC
24304772 ACTGTCGGTG
Statistics
Matches: 64, Mismatches: 26, Indels: 4
0.68 0.28 0.04
Matches are distributed among these distances:
43 21 0.33
44 26 0.41
45 17 0.27
ACGTcount: A:0.19, C:0.26, G:0.28, T:0.27
Consensus pattern (43 bp):
CTTCGCTGCAACCCAGGGAGGCAAGGTTGGTGTCTTCAATCTG
Found at i:24304707 original size:88 final size:88
Alignment explanation
Indices: 24304584--24305149 Score: 873
Period size: 88 Copynumber: 6.4 Consensus size: 88
24304574 GCTGAGGTCA
* * * * * *
24304584 TCGATCTGCTTCGCTATCGATGCAGGAAGGTAAGATCTGCTATTTTTAACCTACTTCGCTGCAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
*
24304649 CCAGGGAGGCAAGGTTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
*
24304672 TCAATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
*
24304737 CCAGGGAGGCAAGGTTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
* * *
24304760 TCGATCTGCTTCACTGTCGGTGCAGGAAGGCAAGATCTACTATTTTTAACCTGCTCCCCTACAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
*
24304825 CCAGAGAGGCAAGGCTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
* * * * *
24304848 TCGATCTGCTTCTCTGTCGGTGCAGGAAGGCAAGATCTGCAATTTTTAACCTGCACCGCTGCAAT
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
**
24304913 ATAGGGAGGCAAGGCTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
* *
24304936 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTACTCCTCTACAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
* *
24305001 CCAGGGA-CCAAGGCTAGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
* * *
24305023 TCGACCTCCTTCACTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
*
24305088 CCAGGGAGGCAAGGTTGGTGTCT
66 CCAGGGAGGCAAGGCTGGTGTCT
24305111 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTG
1 TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTG
24305150 TTGTCGTCAC
Statistics
Matches: 432, Mismatches: 45, Indels: 2
0.90 0.09 0.00
Matches are distributed among these distances:
87 80 0.19
88 352 0.81
ACGTcount: A:0.21, C:0.25, G:0.26, T:0.27
Consensus pattern (88 bp):
TCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAC
CCAGGGAGGCAAGGCTGGTGTCT
Found at i:24304747 original size:44 final size:44
Alignment explanation
Indices: 24304606--24304837 Score: 119
Period size: 44 Copynumber: 5.3 Consensus size: 44
24304596 GCTATCGATG
* * *
24304606 CAGGAAGGTAAGATCTGCTATTTTTAACCTACTTCGCTGCAACC
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTTCGCTACAACC
* * * * * * * * ****
24304650 CAGGGAGGCAAGGT-TGGTGTCTTCAATCTGCTTCGCTGTCGGTG
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTTCGCT-ACAACC
*
24304694 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAACC
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTTCGCTACAACC
* * * * * ** * * * ****
24304738 CAGGGAGGCAAGGT-TGGTGTCTTCGATCTGCTTCACTGTCGGTG
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTTCGCT-ACAACC
* * *
24304782 CAGGAAGGCAAGATCTACTATTTTTAACCTGCTCCCCTACAACC
1 CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTTCGCTACAACC
24304826 CA-GAGAGGCAAG
1 CAGGA-AGGCAAG
24304838 GCTGGTGTCT
Statistics
Matches: 125, Mismatches: 58, Indels: 10
0.65 0.30 0.05
Matches are distributed among these distances:
43 34 0.27
44 60 0.48
45 31 0.25
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.26
Consensus pattern (44 bp):
CAGGAAGGCAAGATCTGCTATTTTTAACCTGCTTCGCTACAACC
Found at i:24304879 original size:44 final size:44
Alignment explanation
Indices: 24304831--24304969 Score: 118
Period size: 44 Copynumber: 3.2 Consensus size: 44
24304821 CAACCCAGAG
*
24304831 AGGCAAGGCTGGTGTCTTCGATCTGCTTCTCTGTCGGTGCAGGA
1 AGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGA
* *** * ** * ** ** ** *
24304875 AGGCAAGATCTGCAATTTTTAACCTGCACCGCTG-CAATATAGGG
1 AGGCAAG-GCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGA
24304919 AGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGA
1 AGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGA
24304963 AGGCAAG
1 AGGCAAG
24304970 ATCTGCTATT
Statistics
Matches: 62, Mismatches: 31, Indels: 4
0.64 0.32 0.04
Matches are distributed among these distances:
43 16 0.26
44 31 0.50
45 15 0.24
ACGTcount: A:0.20, C:0.22, G:0.32, T:0.26
Consensus pattern (44 bp):
AGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGA
Found at i:24309151 original size:16 final size:16
Alignment explanation
Indices: 24309130--24309160 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
24309120 CCATTGGATA
24309130 TAGTGCCCTAAGTATC
1 TAGTGCCCTAAGTATC
24309146 TAGTGCCCTAAGTAT
1 TAGTGCCCTAAGTAT
24309161 AGTATTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (16 bp):
TAGTGCCCTAAGTATC
Found at i:24310562 original size:26 final size:24
Alignment explanation
Indices: 24310518--24310573 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 24
24310508 CATTTTCTCG
* *
24310518 AATTTTTCAAGGGAAAATTGTTAT
1 AATTTTTCAAGGGAAAATTGTCAA
*
24310542 AATTTTATCGAGGGTAAAATTGTCAA
1 AATTTT-TCAAGGG-AAAATTGTCAA
24310568 AATTTT
1 AATTTT
24310574 GGTGAGAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 6 0.22
25 6 0.22
26 15 0.56
ACGTcount: A:0.38, C:0.05, G:0.16, T:0.41
Consensus pattern (24 bp):
AATTTTTCAAGGGAAAATTGTCAA
Found at i:24315194 original size:17 final size:17
Alignment explanation
Indices: 24315172--24315207 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
24315162 CCTTGACAAC
24315172 CTCCTTAACAGGCAGCT
1 CTCCTTAACAGGCAGCT
24315189 CTCCTTAACAGGCAGCT
1 CTCCTTAACAGGCAGCT
24315206 CT
1 CT
24315208 AGAAGAGCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.22, C:0.36, G:0.17, T:0.25
Consensus pattern (17 bp):
CTCCTTAACAGGCAGCT
Found at i:24316000 original size:14 final size:14
Alignment explanation
Indices: 24315983--24316021 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
24315973 ATTTTACAAG
24315983 ATATATTTTTGTTT
1 ATATATTTTTGTTT
24315997 ATATATTATTT-TTT
1 ATATATT-TTTGTTT
*
24316011 AAATATTTTTG
1 ATATATTTTTG
24316022 AACTTTTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
13 3 0.14
14 16 0.73
15 3 0.14
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (14 bp):
ATATATTTTTGTTT
Found at i:24316744 original size:5 final size:5
Alignment explanation
Indices: 24316656--24316725 Score: 101
Period size: 5 Copynumber: 14.4 Consensus size: 5
24316646 AAAAACTTTA
*
24316656 AATAT -ATAT AAT-T ATTA- AATATT AATAT AATAT AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATA-T AATAT AATAT AATAT AATAT AATAT
24316704 AATAT AATAT AATAT AATAT AA
1 AATAT AATAT AATAT AATAT AA
24316726 ATATTTTTAA
Statistics
Matches: 59, Mismatches: 2, Indels: 8
0.86 0.03 0.12
Matches are distributed among these distances:
4 10 0.17
5 45 0.76
6 4 0.07
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
AATAT
Found at i:24316964 original size:22 final size:22
Alignment explanation
Indices: 24316939--24316983 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
24316929 TATTATAACT
24316939 TTTTTTTATTTACCAAAATATA
1 TTTTTTTATTTACCAAAATATA
**
24316961 TTTTTTTATTTGTCAAAATATA
1 TTTTTTTATTTACCAAAATATA
24316983 T
1 T
24316984 CAAAAAAACT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.07, G:0.02, T:0.58
Consensus pattern (22 bp):
TTTTTTTATTTACCAAAATATA
Found at i:24317137 original size:4 final size:4
Alignment explanation
Indices: 24317130--24317271 Score: 84
Period size: 4 Copynumber: 35.2 Consensus size: 4
24317120 GGGCAGAAGG
* *
24317130 AGAA AGAA AGAA AAAA AGAA AGAA AGAA AGGAGA GGAA AGAA AG-A A-AA
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA A-GA-A AGAA AGAA AGAA AGAA
* * * *
24317178 AGAA GGAC AGAAA AGGAA AG-G AGAA GAGAA A-AA AGAA CGAA AG-A AG-A
1 AGAA AGAA AG-AA A-GAA AGAA AGAA -AGAA AGAA AGAA AGAA AGAA AGAA
*
24317225 AG-A AGAAA AGGAAA AGAGA AGAA A-AA AGAA AGAA AGAA GGAA AGAA
1 AGAA AG-AA A-G-AA AGA-A AGAA AGAA AGAA AGAA AGAA AGAA AGAA
24317271 A
1 A
24317272 AGGAAAGGAG
Statistics
Matches: 110, Mismatches: 14, Indels: 28
0.72 0.09 0.18
Matches are distributed among these distances:
3 21 0.19
4 62 0.56
5 20 0.18
6 7 0.06
ACGTcount: A:0.70, C:0.01, G:0.29, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:24317192 original size:23 final size:21
Alignment explanation
Indices: 24317132--24317278 Score: 85
Period size: 22 Copynumber: 6.9 Consensus size: 21
24317122 GCAGAAGGAG
*
24317132 AAAGAAAGAAAAAAAGAAAGAA
1 AAAG-AAGAAGAAAAGAAAGAA
* *
24317154 AGAA-AGGAGAGGAAAGAAAGAA
1 A-AAGAAGA-AGAAAAGAAAGAA
*
24317176 AAAGAAGGACAGAAAAGGAAAGGA
1 AAAGAA-GA-AGAAAA-GAAAGAA
* *
24317200 GAAG-AGAA-AAAAGAACGAA
1 AAAGAAGAAGAAAAGAAAGAA
24317219 AGAAGAAGAAGAAAAG---GAA
1 A-AAGAAGAAGAAAAGAAAGAA
24317238 AAGAGAAGAA-AAAAGAAAGAA
1 AA-AGAAGAAGAAAAGAAAGAA
*
24317259 AGAAGGA-AAGAAAAGGAAAG
1 A-AAGAAGAAGAAAA-GAAAG
24317279 GAGAAGAGGG
Statistics
Matches: 98, Mismatches: 12, Indels: 30
0.70 0.09 0.21
Matches are distributed among these distances:
18 6 0.06
19 16 0.16
20 9 0.09
21 21 0.21
22 27 0.28
23 10 0.10
24 9 0.09
ACGTcount: A:0.69, C:0.01, G:0.29, T:0.00
Consensus pattern (21 bp):
AAAGAAGAAGAAAAGAAAGAA
Found at i:24317224 original size:11 final size:10
Alignment explanation
Indices: 24317133--24317285 Score: 60
Period size: 10 Copynumber: 15.4 Consensus size: 10
24317123 CAGAAGGAGA
24317133 AAGAAAGAA-
1 AAGAAAGAAG
24317142 AA-AAAGAAAG
1 AAGAAAG-AAG
*
24317152 AAAGAAAGGAG
1 -AAGAAAGAAG
*
24317163 AGGAAAG-A-
1 AAGAAAGAAG
24317171 AAGAAA-AAG
1 AAGAAAGAAG
*
24317180 AAGGACAGAA-
1 AA-GAAAGAAG
*
24317190 AAGGAAAGGAG
1 AA-GAAAGAAG
*
24317201 AAGAGAAAAAAG
1 -A-AGAAAGAAG
24317213 AACGAAAGAAG
1 AA-GAAAGAAG
24317224 AAG-AAGAA-
1 AAGAAAGAAG
24317232 AAGGAAA-AGAG
1 AA-GAAAGA-AG
*
24317243 AAGAAAAAAG
1 AAGAAAGAAG
24317253 AAAGAAAGAAG
1 -AAGAAAGAAG
24317264 --GAAAGAA-
1 AAGAAAGAAG
*
24317271 AAGGAAAGGAG
1 AA-GAAAGAAG
24317282 AAGA
1 AAGA
24317286 GGGAAGGAAG
Statistics
Matches: 111, Mismatches: 11, Indels: 43
0.67 0.07 0.26
Matches are distributed among these distances:
8 19 0.17
9 14 0.13
10 36 0.32
11 30 0.27
12 11 0.10
13 1 0.01
ACGTcount: A:0.69, C:0.01, G:0.30, T:0.00
Consensus pattern (10 bp):
AAGAAAGAAG
Found at i:24317250 original size:39 final size:40
Alignment explanation
Indices: 24317132--24317285 Score: 164
Period size: 40 Copynumber: 4.0 Consensus size: 40
24317122 GCAGAAGGAG
*
24317132 AAAGAAAGAAA-AA-AAGAA-AGAAA-GAAAGGAG-AG--G
1 AAAGAAAGAAAGAAGAAGAAGA-AAAGGAAAGGAGAAGAAA
24317166 AAAGAAAGAAA-AAGAAGGACAGAAAAGGAAAGGAGAAGAGAAA
1 AAAGAAAGAAAGAAGAA-GA-AGAAAAGGAAAGGAG-A-AGAAA
* *
24317209 AAAGAACGAAAGAAGAAGAAGAAAAGGAAAAGAGAAGAAA
1 AAAGAAAGAAAGAAGAAGAAGAAAAGGAAAGGAGAAGAAA
*
24317249 AAAGAAAGAAAGAAGGA-AAGAAAAGGAAAGGAGAAGA
1 AAAGAAAGAAAGAAGAAGAAGAAAAGGAAAGGAGAAGA
24317286 GGGAAGGAAG
Statistics
Matches: 103, Mismatches: 6, Indels: 17
0.82 0.05 0.13
Matches are distributed among these distances:
34 13 0.13
35 2 0.02
36 2 0.02
37 4 0.04
38 9 0.09
39 19 0.18
40 20 0.19
41 3 0.03
42 14 0.14
43 12 0.12
44 5 0.05
ACGTcount: A:0.69, C:0.01, G:0.30, T:0.00
Consensus pattern (40 bp):
AAAGAAAGAAAGAAGAAGAAGAAAAGGAAAGGAGAAGAAA
Found at i:24321814 original size:24 final size:24
Alignment explanation
Indices: 24321784--24321850 Score: 82
Period size: 24 Copynumber: 2.7 Consensus size: 24
24321774 TTGGTTTTTT
24321784 TATATATTTTAATAAATAAAAATA-
1 TATATATTTTAATAAATAAAAA-AG
* *
24321808 TATATATATTAGTAAATAAAAAAG
1 TATATATTTTAATAAATAAAAAAG
24321832 TTATAATATTTTAATAAAT
1 -TAT-ATATTTTAATAAAT
24321851 TTTTATTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
23 1 0.03
24 20 0.56
25 3 0.08
26 12 0.33
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (24 bp):
TATATATTTTAATAAATAAAAAAG
Found at i:24344763 original size:31 final size:31
Alignment explanation
Indices: 24344728--24344795 Score: 104
Period size: 31 Copynumber: 2.2 Consensus size: 31
24344718 TACACTGGTA
24344728 GTCACCCAACTATT-AGTAAA-TTTCATTTTTG
1 GTCACCCAACTATTCA--AAATTTTCATTTTTG
24344759 GTCACCCAACTATTCAAAATTTTCATTTTTG
1 GTCACCCAACTATTCAAAATTTTCATTTTTG
24344790 GTCACC
1 GTCACC
24344796 AACCGTTCAA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
30 3 0.09
31 31 0.89
32 1 0.03
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.40
Consensus pattern (31 bp):
GTCACCCAACTATTCAAAATTTTCATTTTTG
Found at i:24344805 original size:30 final size:31
Alignment explanation
Indices: 24344748--24344805 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
24344738 TATTAGTAAA
*
24344748 TTTCATTTTTGGTCACCCAACTATTCAAAAT
1 TTTCATTTTTGGTCACCCAACCATTCAAAAT
*
24344779 TTTCATTTTTGGTCA-CCAACCGTTCAA
1 TTTCATTTTTGGTCACCCAACCATTCAA
24344806 GTACTGATGG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 10 0.40
31 15 0.60
ACGTcount: A:0.26, C:0.24, G:0.09, T:0.41
Consensus pattern (31 bp):
TTTCATTTTTGGTCACCCAACCATTCAAAAT
Found at i:24356940 original size:24 final size:24
Alignment explanation
Indices: 24356908--24356955 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
24356898 TCAGCGTGCT
24356908 TTGCTGACGTGGCAACAAATTGCC
1 TTGCTGACGTGGCAACAAATTGCC
24356932 TTGCTGACGTGGCAACAAATTGCC
1 TTGCTGACGTGGCAACAAATTGCC
24356956 CCCTCGAGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (24 bp):
TTGCTGACGTGGCAACAAATTGCC
Found at i:24360225 original size:2 final size:2
Alignment explanation
Indices: 24360218--24360247 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
24360208 ATTGAGTGGT
24360218 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
24360248 ATTTACTTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:24360994 original size:35 final size:35
Alignment explanation
Indices: 24360955--24361025 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
24360945 CATTAGTTTC
*
24360955 TAGGCATAATGTCAAAATTAATCTTAATTTTCGGT
1 TAGGCATAATGTCAAAATTAATCTTAAATTTCGGT
*
24360990 TAGGCATAATGTCAAAATTAGTCTTAAATTTCGGT
1 TAGGCATAATGTCAAAATTAATCTTAAATTTCGGT
24361025 T
1 T
24361026 GTTTGGTCAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.34, C:0.11, G:0.15, T:0.39
Consensus pattern (35 bp):
TAGGCATAATGTCAAAATTAATCTTAAATTTCGGT
Found at i:24363873 original size:13 final size:13
Alignment explanation
Indices: 24363855--24363879 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24363845 AAATTCAATG
24363855 TCAATTTCATATA
1 TCAATTTCATATA
24363868 TCAATTTCATAT
1 TCAATTTCATAT
24363880 CCAAACAGAT
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:0.00, T:0.48
Consensus pattern (13 bp):
TCAATTTCATATA
Found at i:24366975 original size:21 final size:21
Alignment explanation
Indices: 24366926--24366978 Score: 74
Period size: 19 Copynumber: 2.6 Consensus size: 21
24366916 AACAGCGGTG
*
24366926 GCAGTGAGATTAGTTACTGTA
1 GCAGTGAGATTAGGTACTGTA
*
24366947 GC--TGAGATTGGGTACTGTA
1 GCAGTGAGATTAGGTACTGTA
24366966 GCAGTGAGATTAG
1 GCAGTGAGATTAG
24366979 AAACAGCGGT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 17 0.63
21 10 0.37
ACGTcount: A:0.26, C:0.09, G:0.34, T:0.30
Consensus pattern (21 bp):
GCAGTGAGATTAGGTACTGTA
Found at i:24367605 original size:11 final size:12
Alignment explanation
Indices: 24367576--24367608 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
24367566 TTCAGCTAGG
*
24367576 ATGCTGGTCTGC
1 ATGCTGGTTTGC
24367588 ATGCTGGTTTGC
1 ATGCTGGTTTGC
24367600 -TGCTGGTTT
1 ATGCTGGTTT
24367609 CCTGTTACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 9 0.45
12 11 0.55
ACGTcount: A:0.06, C:0.18, G:0.33, T:0.42
Consensus pattern (12 bp):
ATGCTGGTTTGC
Found at i:24374192 original size:22 final size:22
Alignment explanation
Indices: 24374164--24374208 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
24374154 TTACAGTTAT
*
24374164 AGAACATAACAAATATAGATGC
1 AGAACATAACAAATACAGATGC
**
24374186 AGAACATATTAAATACAGATGC
1 AGAACATAACAAATACAGATGC
24374208 A
1 A
24374209 ATTTCCTACC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.53, C:0.13, G:0.13, T:0.20
Consensus pattern (22 bp):
AGAACATAACAAATACAGATGC
Found at i:24374999 original size:63 final size:63
Alignment explanation
Indices: 24374879--24374999 Score: 165
Period size: 63 Copynumber: 1.9 Consensus size: 63
24374869 CCCGTGTCTA
* * * * *
24374879 TGGCTCGTGTGACACTAATTCACAAACAGTGAGTTACATGGCCTGGACACGCGCCTATGTCCC
1 TGGCCCGTGTGACACTAATTCACAAACAATGAATTACATGGCCTGCACACGCACCTATGTCCC
24374942 TGGCCCGTGTGA-ACCTAATTCACAAACAATGAATTACATGGCCTGTCACACG-ACCTAT
1 TGGCCCGTGTGACA-CTAATTCACAAACAATGAATTACATGGCCTG-CACACGCACCTAT
24375000 CACACGGCCT
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
62 1 0.02
63 45 0.88
64 5 0.10
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (63 bp):
TGGCCCGTGTGACACTAATTCACAAACAATGAATTACATGGCCTGCACACGCACCTATGTCCC
Found at i:24375009 original size:24 final size:25
Alignment explanation
Indices: 24374981--24375042 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 25
24374971 TGAATTACAT
*
24374981 GGCCTGTCACACGA-CCTATCACAC
1 GGCCTGTCACACGAGCCTACCACAC
*
24375005 GGCCTGTCACAC-AGCCTACCACAT
1 GGCCTGTCACACGAGCCTACCACAC
* *
24375029 GACCTGGCACACGA
1 GGCCTGTCACACGA
24375043 TCGTGTGGCG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
23 1 0.03
24 30 0.94
25 1 0.03
ACGTcount: A:0.26, C:0.40, G:0.19, T:0.15
Consensus pattern (25 bp):
GGCCTGTCACACGAGCCTACCACAC
Found at i:24377973 original size:29 final size:29
Alignment explanation
Indices: 24377910--24377977 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
24377900 TAATCAACCA
24377910 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
24377939 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
24377968 CGCACACTTA
1 CGCACACTTA
24377978 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:24378118 original size:29 final size:30
Alignment explanation
Indices: 24378079--24378157 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
24378069 CTTAATAATC
24378079 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
24378109 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
24378138 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
24378158 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:24388338 original size:22 final size:22
Alignment explanation
Indices: 24388284--24388349 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
24388274 TTCTGTACTG
*
24388284 AATTGCAAACAATTAAAATTTC
1 AATTGCAAATAATTAAAATTTC
*
24388306 AATTGCGAATAATTAAAATTAT-
1 AATTGCAAATAATTAAAATT-TC
* *
24388328 AATTGTAAATACATAAAAATTT
1 AATTGCAAATA-ATTAAAATTT
24388350 AACACAAAGA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
22 28 0.76
23 9 0.24
ACGTcount: A:0.52, C:0.08, G:0.06, T:0.35
Consensus pattern (22 bp):
AATTGCAAATAATTAAAATTTC
Found at i:24388759 original size:20 final size:20
Alignment explanation
Indices: 24388721--24388760 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
24388711 TTTCTCAACC
* *
24388721 TCAAAATCTTCCATAAACAT
1 TCAAAAACTTCAATAAACAT
*
24388741 TCAAAAACTTCAATTAACAT
1 TCAAAAACTTCAATAAACAT
24388761 AAATGGTAAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.23, G:0.00, T:0.30
Consensus pattern (20 bp):
TCAAAAACTTCAATAAACAT
Found at i:24390176 original size:46 final size:44
Alignment explanation
Indices: 24390076--24390183 Score: 135
Period size: 44 Copynumber: 2.4 Consensus size: 44
24390066 TGTCTTTGAC
** * * * *
24390076 ATGGACTTACATGAATTATTCCTCTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTATCTCCAAAGCCATATATAAT
*
24390120 ATGGACTTACATGGCTCAATCCTATCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTATCTCCAAAGCCATA--TATAAT
24390166 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
24390184 TTTCTGTTCT
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 32 0.58
46 23 0.42
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTATCTCCAAAGCCATATATAAT
Found at i:24402609 original size:22 final size:21
Alignment explanation
Indices: 24402571--24402620 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
24402561 TGAAGAATGT
*
24402571 AATTTTATGCTATTTTACATTA
1 AATTTTATGCTAATTTA-ATTA
24402593 AATTTT-TGCATAATTTAATT-
1 AATTTTATGC-TAATTTAATTA
24402613 -ATTTTATG
1 AATTTTATG
24402621 TGACATATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
19 5 0.20
20 2 0.08
21 6 0.24
22 12 0.48
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.56
Consensus pattern (21 bp):
AATTTTATGCTAATTTAATTA
Found at i:24406341 original size:33 final size:33
Alignment explanation
Indices: 24406299--24406362 Score: 128
Period size: 33 Copynumber: 1.9 Consensus size: 33
24406289 ATTCAAGTAA
24406299 ATCATCCCCATCAGTAGGAGATTCCAAAACCTC
1 ATCATCCCCATCAGTAGGAGATTCCAAAACCTC
24406332 ATCATCCCCATCAGTAGGAGATTCCAAAACC
1 ATCATCCCCATCAGTAGGAGATTCCAAAACC
24406363 CCTTCCACAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.34, C:0.33, G:0.12, T:0.20
Consensus pattern (33 bp):
ATCATCCCCATCAGTAGGAGATTCCAAAACCTC
Found at i:24407340 original size:8 final size:8
Alignment explanation
Indices: 24407327--24407367 Score: 50
Period size: 8 Copynumber: 5.1 Consensus size: 8
24407317 ACAAAAAAAT
24407327 AAATATAA
1 AAATATAA
24407335 AAATATAA
1 AAATATAA
24407343 AAATA-AA
1 AAATATAA
24407350 TAAATATAGA
1 -AAATATA-A
24407360 AAAT-TAA
1 AAATATAA
24407367 A
1 A
24407368 GTGGAAGATG
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
7 4 0.13
8 20 0.67
9 5 0.17
10 1 0.03
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (8 bp):
AAATATAA
Found at i:24407351 original size:24 final size:23
Alignment explanation
Indices: 24407319--24407367 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 23
24407309 ATTCGAGAAC
24407319 AAAAAAATAAATATA-AAAATATA
1 AAAAAAATAAATATAGAAAAT-TA
24407342 AAAATAAATAAATATAGAAAATTA
1 AAAA-AAATAAATATAGAAAATTA
24407366 AA
1 AA
24407368 GTGGAAGATG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
23 4 0.17
24 15 0.62
25 5 0.21
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (23 bp):
AAAAAAATAAATATAGAAAATTA
Found at i:24416835 original size:210 final size:211
Alignment explanation
Indices: 24416473--24416942 Score: 825
Period size: 210 Copynumber: 2.2 Consensus size: 211
24416463 GTGGGGCCAG
* * * **
24416473 GCCGTGTGCCTCACACAACTGAGACACACGTTTGTGTCTCAGGCCGTGTAACATTTGAACTAGGG
1 GCCGTGTGCCACACACGACTGAGTCACACGCCTGTGTCTCAGGCCGTGTAACATTTGAACTAGGG
*
24416538 ACACACGACCATGTCCCTGCTCGTGTCCTCACCCGTGTAACTTTAAAAGTAGGGTCACATGCCCG
66 ACACACGACCATGTCCCTGCTCGTGTCCTCACCCGTGTAACTCTAAAAGTAGGGTCACATGCCCG
24416603 CGTGCTAAGCCATATGTTAGGCCATGTAACTTACTAACTACCAT-AAAAGGAACCCTTAAATGAC
131 CGTGCTAAGCCATATGTTAGGCCATGTAACTTACTAACTACCATAAAAAGGAACCCTTAAATGAC
24416667 ACAACCGTGTCACCAA
196 ACAACCGTGTCACCAA
*
24416683 GCCGTGTGCCACACACGGCTGAGTCACACGCCTGTGTCTCAGGCCGTGTAACATTTGAACTAGGG
1 GCCGTGTGCCACACACGACTGAGTCACACGCCTGTGTCTCAGGCCGTGTAACATTTGAACTAGGG
24416748 ACACACGACCATGTCCCTGCTCGTGTCCTCACCCGTGTAACTCTAAAAGTAGGGTCACATGCCCG
66 ACACACGACCATGTCCCTGCTCGTGTCCTCACCCGTGTAACTCTAAAAGTAGGGTCACATGCCCG
*
24416813 CGTGCTAAGCCATGTGTTAGGCCATGTAACTTACTAACTACCATAAAAAGGAACCCTTAAATGAC
131 CGTGCTAAGCCATATGTTAGGCCATGTAACTTACTAACTACCATAAAAAGGAACCCTTAAATGAC
*
24416878 ACAACCGTGTCACTAA
196 ACAACCGTGTCACCAA
* **
24416894 GTCGTGTGCCACACACGACTGAGTCACACGCCCATGTCTCAGGCCGTGT
1 GCCGTGTGCCACACACGACTGAGTCACACGCCTGTGTCTCAGGCCGTGT
24416943 GGACCTAAAT
Statistics
Matches: 246, Mismatches: 13, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
210 166 0.67
211 80 0.33
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.23
Consensus pattern (211 bp):
GCCGTGTGCCACACACGACTGAGTCACACGCCTGTGTCTCAGGCCGTGTAACATTTGAACTAGGG
ACACACGACCATGTCCCTGCTCGTGTCCTCACCCGTGTAACTCTAAAAGTAGGGTCACATGCCCG
CGTGCTAAGCCATATGTTAGGCCATGTAACTTACTAACTACCATAAAAAGGAACCCTTAAATGAC
ACAACCGTGTCACCAA
Found at i:24417426 original size:92 final size:92
Alignment explanation
Indices: 24417264--24417462 Score: 335
Period size: 92 Copynumber: 2.2 Consensus size: 92
24417254 GCATCACAAG
*
24417264 TTAACCAAAATGACACAATCTAGCAAGGTATCAAATGGTACCAAGCCAAGATAACATCCATAACT
1 TTAA-CAAAATGACACAATCTAGCAAGGTATCAAATGGTACCAAACCAAGATAACATCCATAACT
*
24417329 TATACAAGCCAATTCACCAACTAACTAT
65 TATACAAGCCAATTCACCAACTAACCAT
* * * *
24417357 TTAACAAAATGACACCATTTAGCAAGGTATCAAATGGTACTAAACCAAGATAACATCTATAACTT
1 TTAACAAAATGACACAATCTAGCAAGGTATCAAATGGTACCAAACCAAGATAACATCCATAACTT
24417422 ATACAAGCCAATTCACCAACTAACCAT
66 ATACAAGCCAATTCACCAACTAACCAT
24417449 TTAACAAAATGACA
1 TTAACAAAATGACA
24417463 TTACAATTCA
Statistics
Matches: 100, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
92 96 0.96
93 4 0.04
ACGTcount: A:0.45, C:0.23, G:0.09, T:0.23
Consensus pattern (92 bp):
TTAACAAAATGACACAATCTAGCAAGGTATCAAATGGTACCAAACCAAGATAACATCCATAACTT
ATACAAGCCAATTCACCAACTAACCAT
Found at i:24422540 original size:12 final size:12
Alignment explanation
Indices: 24422523--24422548 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
24422513 TTCATTCAGA
24422523 TTTCACTATAAC
1 TTTCACTATAAC
24422535 TTTCACTATAAC
1 TTTCACTATAAC
24422547 TT
1 TT
24422549 ATGTTCCTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.23, G:0.00, T:0.46
Consensus pattern (12 bp):
TTTCACTATAAC
Found at i:24434062 original size:12 final size:12
Alignment explanation
Indices: 24434045--24434073 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
24434035 ACATGCCTAC
24434045 ACATGTATATCT
1 ACATGTATATCT
24434057 ACATGTATATCT
1 ACATGTATATCT
24434069 ACATG
1 ACATG
24434074 GAGGAGAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.34, C:0.17, G:0.10, T:0.38
Consensus pattern (12 bp):
ACATGTATATCT
Found at i:24440584 original size:25 final size:25
Alignment explanation
Indices: 24440555--24440608 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
24440545 AATAGTTTTA
*
24440555 TAAACCATATTAAGAAGAATTATTT
1 TAAACCATATTAAGAAGAACTATTT
*
24440580 TAAACCATATTAAGAGGAACTATTT
1 TAAACCATATTAAGAAGAACTATTT
24440605 TAAA
1 TAAA
24440609 TTGTAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.33
Consensus pattern (25 bp):
TAAACCATATTAAGAAGAACTATTT
Found at i:24441170 original size:2 final size:2
Alignment explanation
Indices: 24441163--24441192 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
24441153 GAACCTTGAA
*
24441163 AT AT AT AT AT AC 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
24441193 GATTTCTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:24446040 original size:21 final size:22
Alignment explanation
Indices: 24445956--24446040 Score: 75
Period size: 21 Copynumber: 3.9 Consensus size: 22
24445946 ATTAAAGCTT
*
24445956 CTAATACGGTGTAGGTAAACCA
1 CTAATACGGTGTAGATAAACCA
***
24445978 CTAAT-CGGTGTAGATAAAAGTTG
1 CTAATACGGTGTAGAT-AAA-CCA
* * *
24446001 CTAATACAGTATGGATAAACCA
1 CTAATACGGTGTAGATAAACCA
24446023 CTAA-ACGGTGTAGATAAA
1 CTAATACGGTGTAGATAAA
24446041 AGTTGTTAAT
Statistics
Matches: 47, Mismatches: 13, Indels: 7
0.70 0.19 0.10
Matches are distributed among these distances:
21 20 0.43
22 12 0.26
23 8 0.17
24 7 0.15
ACGTcount: A:0.40, C:0.14, G:0.21, T:0.25
Consensus pattern (22 bp):
CTAATACGGTGTAGATAAACCA
Found at i:24446164 original size:34 final size:34
Alignment explanation
Indices: 24446126--24446206 Score: 108
Period size: 34 Copynumber: 2.4 Consensus size: 34
24446116 AGTATTTAAT
* *
24446126 TATGCTTTTAACAAAACAATATAGTAGCAATCAA
1 TATGCTTATAACAAAACAATACAGTAGCAATCAA
*** *
24446160 TATGCTTATAACAGTTCAATACAGTAGCAATTAA
1 TATGCTTATAACAAAACAATACAGTAGCAATCAA
24446194 TATGCTTATAACA
1 TATGCTTATAACA
24446207 GTTCAACTCA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 41 1.00
ACGTcount: A:0.43, C:0.15, G:0.10, T:0.32
Consensus pattern (34 bp):
TATGCTTATAACAAAACAATACAGTAGCAATCAA
Found at i:24446207 original size:34 final size:34
Alignment explanation
Indices: 24446142--24446212 Score: 124
Period size: 34 Copynumber: 2.1 Consensus size: 34
24446132 TTTAACAAAA
*
24446142 CAATATAGTAGCAATCAATATGCTTATAACAGTT
1 CAATACAGTAGCAATCAATATGCTTATAACAGTT
*
24446176 CAATACAGTAGCAATTAATATGCTTATAACAGTT
1 CAATACAGTAGCAATCAATATGCTTATAACAGTT
24446210 CAA
1 CAA
24446213 CTCAATAGCA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.42, C:0.15, G:0.11, T:0.31
Consensus pattern (34 bp):
CAATACAGTAGCAATCAATATGCTTATAACAGTT
Found at i:24446222 original size:34 final size:34
Alignment explanation
Indices: 24446150--24446223 Score: 114
Period size: 34 Copynumber: 2.2 Consensus size: 34
24446140 AACAATATAG
*
24446150 TAGCAATCAATATGCTTATAACAGTTCAATACAG
1 TAGCAATCAATATGCTTATAACAGTTCAATACAA
*
24446184 TAGCAATTAATATGCTTATAACAGTTCAACT-CAA
1 TAGCAATCAATATGCTTATAACAGTTCAA-TACAA
24446218 TAGCAA
1 TAGCAA
24446224 AAGTCGTGTT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
34 36 0.97
35 1 0.03
ACGTcount: A:0.42, C:0.18, G:0.11, T:0.30
Consensus pattern (34 bp):
TAGCAATCAATATGCTTATAACAGTTCAATACAA
Found at i:24450602 original size:16 final size:16
Alignment explanation
Indices: 24450578--24450612 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
24450568 TTCGCTGTAT
*
24450578 TAGATTAGAGGCGTAA
1 TAGAATAGAGGCGTAA
*
24450594 TAGAATAGAGGTGTAA
1 TAGAATAGAGGCGTAA
24450610 TAG
1 TAG
24450613 TAAATCAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.40, C:0.03, G:0.31, T:0.26
Consensus pattern (16 bp):
TAGAATAGAGGCGTAA
Found at i:24450655 original size:45 final size:44
Alignment explanation
Indices: 24450590--24450686 Score: 133
Period size: 44 Copynumber: 2.2 Consensus size: 44
24450580 GATTAGAGGC
* *
24450590 GTAATAGAATAGAGGTGTAATAGTAAATCAAT-TGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGT-AATC-ATGTGTTTGGTTGAAT
*
24450635 GTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGTAATCATGTGTTTGGTTGAAT
*
24450679 GGAATGGA
1 GTAATGGA
24450687 GATGTAATAG
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
43 1 0.02
44 24 0.51
45 22 0.47
ACGTcount: A:0.34, C:0.03, G:0.29, T:0.34
Consensus pattern (44 bp):
GTAATGGAATAGAGGCGTAATAGTAATCATGTGTTTGGTTGAAT
Found at i:24450873 original size:13 final size:15
Alignment explanation
Indices: 24450838--24450879 Score: 66
Period size: 15 Copynumber: 2.7 Consensus size: 15
24450828 CATAATTATT
24450838 ATTAAATATATTTTA
1 ATTAAATATATTTTA
24450853 ATTAAATATATTTTA
1 ATTAAATATATTTTA
*
24450868 ATAATAATATAT
1 ATTA-AATATAT
24450880 AATTTCATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
15 18 0.72
16 7 0.28
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTAAATATATTTTA
Found at i:24450926 original size:47 final size:46
Alignment explanation
Indices: 24450875--24451013 Score: 144
Period size: 47 Copynumber: 3.0 Consensus size: 46
24450865 TTAATAATAA
*
24450875 TATATAATTTCATAAAATTCTTGATAATAAATTTTCTTATATGAATT
1 TATATAATTTCATAAAATTCTTAATAATAAATTTTCTTATAT-AATT
** * * *
24450922 TATATAA-TT--TAAAATAATTAATATTAAATATAAT-TTA-ATAATGA
1 TATATAATTTCATAAAATTCTTAATAATAAAT-T-TTCTTATATAAT-T
*
24450966 TATATAATTTCATAAAATTCTTAATAATAAATATTCTTATATAATT
1 TATATAATTTCATAAAATTCTTAATAATAAATTTTCTTATATAATT
24451012 TA
1 TA
24451014 CTAAAATCAT
Statistics
Matches: 72, Mismatches: 12, Indels: 17
0.71 0.12 0.17
Matches are distributed among these distances:
43 3 0.04
44 25 0.35
45 7 0.10
46 8 0.11
47 29 0.40
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (46 bp):
TATATAATTTCATAAAATTCTTAATAATAAATTTTCTTATATAATT
Found at i:24451003 original size:16 final size:16
Alignment explanation
Indices: 24450977--24451010 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
24450967 ATATAATTTC
24450977 ATAAAATTCTTA-ATA
1 ATAAAATTCTTATATA
24450992 ATAAATATTCTTATATA
1 ATAAA-ATTCTTATATA
24451009 AT
1 AT
24451011 TTACTAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 7 0.41
17 5 0.29
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (16 bp):
ATAAAATTCTTATATA
Found at i:24451357 original size:66 final size:66
Alignment explanation
Indices: 24451251--24451381 Score: 226
Period size: 66 Copynumber: 2.0 Consensus size: 66
24451241 CGCAAATGTG
* *
24451251 ATTTGAGTTCAAATTAGATTCATAGTAAGCTCAAATTTTTATTAATGCCAATGCCAACACTACCA
1 ATTTGAGTTCAAATTAGACTCATAGTAAGCTCAAACTTTTATTAATGCCAATGCCAACACTACCA
24451316 C
66 C
* *
24451317 ATTTGGGTTCAAATTATACTCATAGTAAGCTCAAACTTTTATTAATGCCAATGCCAACACTACCA
1 ATTTGAGTTCAAATTAGACTCATAGTAAGCTCAAACTTTTATTAATGCCAATGCCAACACTACCA
24451382 AAACCTTTTG
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 61 1.00
ACGTcount: A:0.36, C:0.21, G:0.11, T:0.33
Consensus pattern (66 bp):
ATTTGAGTTCAAATTAGACTCATAGTAAGCTCAAACTTTTATTAATGCCAATGCCAACACTACCA
C
Found at i:24457754 original size:14 final size:15
Alignment explanation
Indices: 24457735--24457771 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
24457725 AACGAAAGAG
24457735 AAAAGAAGGAAAAA-
1 AAAAGAAGGAAAAAC
*
24457749 AAAAG-AGAAAAAAC
1 AAAAGAAGGAAAAAC
24457763 AAAAGAAGG
1 AAAAGAAGG
24457772 GGAACGAGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
13 7 0.37
14 10 0.53
15 2 0.11
ACGTcount: A:0.76, C:0.03, G:0.22, T:0.00
Consensus pattern (15 bp):
AAAAGAAGGAAAAAC
Found at i:24461336 original size:47 final size:48
Alignment explanation
Indices: 24461284--24461404 Score: 127
Period size: 47 Copynumber: 2.5 Consensus size: 48
24461274 AATTTATCAG
* * ** *
24461284 CTCGACCAATTGTTTATCCATAATGTATCCTAGTCGGTAGTT-ATCTA
1 CTCGACCAATGGTTTATCCACAACATATCCTAGTCGATAGTTCATCTA
* * *
24461331 CTCGACCAGTGGTTTATCCACAACATATTCTAGTCGATAGTTCATTTA
1 CTCGACCAATGGTTTATCCACAACATATCCTAGTCGATAGTTCATCTA
* * * *
24461379 CTCGACTAGTGGTTCATCCATAACAT
1 CTCGACCAATGGTTTATCCACAACAT
24461405 GTTAGCAGAT
Statistics
Matches: 62, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
47 35 0.56
48 27 0.44
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.36
Consensus pattern (48 bp):
CTCGACCAATGGTTTATCCACAACATATCCTAGTCGATAGTTCATCTA
Found at i:24461398 original size:48 final size:47
Alignment explanation
Indices: 24461313--24461404 Score: 130
Period size: 48 Copynumber: 1.9 Consensus size: 47
24461303 ATAATGTATC
* *
24461313 CTAGTCGGTAGTTATCTACTCGACCAGTGGTTTATCCACAACATATT
1 CTAGTCGATAGTTATCTACTCGACCAGTGGTTCATCCACAACATATT
* * *
24461360 CTAGTCGATAGTTCATTTACTCGACTAGTGGTTCATCCATAACAT
1 CTAGTCGATAGTT-ATCTACTCGACCAGTGGTTCATCCACAACAT
24461405 GTTAGCAGAT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
47 12 0.31
48 27 0.69
ACGTcount: A:0.26, C:0.23, G:0.16, T:0.35
Consensus pattern (47 bp):
CTAGTCGATAGTTATCTACTCGACCAGTGGTTCATCCACAACATATT
Found at i:24465189 original size:3 final size:3
Alignment explanation
Indices: 24465181--24465205 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
24465171 ATCATCGTTG
24465181 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
24465206 GCTAAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:24468896 original size:16 final size:16
Alignment explanation
Indices: 24468875--24468911 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
24468865 TTGGTTCGCT
24468875 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGGC
*
24468891 GTAATGGAATAGATGC
1 GTAATGGAATAGAGGC
24468907 GTAAT
1 GTAAT
24468912 AGGTAATACT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.38, C:0.05, G:0.32, T:0.24
Consensus pattern (16 bp):
GTAATGGAATAGAGGC
Found at i:24468958 original size:46 final size:44
Alignment explanation
Indices: 24468891--24468976 Score: 109
Period size: 46 Copynumber: 1.9 Consensus size: 44
24468881 GAATAGAGGC
* * * *
24468891 GTAATGGAATAGATGCGTAATAGGTAATACTTTTGTTTGGTTCGCT
1 GTAATAGAATAGAGGAGTAATA-GT-ATACTTGTGTTTGGTTCGCT
*
24468937 GTAATAGAATAGAGGAGTAATAGTATTCTTGTGTTTGGTT
1 GTAATAGAATAGAGGAGTAATAGTATACTTGTGTTTGGTT
24468977 GAATGGAATA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 14 0.40
45 2 0.06
46 19 0.54
ACGTcount: A:0.28, C:0.06, G:0.27, T:0.40
Consensus pattern (44 bp):
GTAATAGAATAGAGGAGTAATAGTATACTTGTGTTTGGTTCGCT
Found at i:24469403 original size:120 final size:120
Alignment explanation
Indices: 24469120--24469718 Score: 992
Period size: 120 Copynumber: 5.0 Consensus size: 120
24469110 TAATTTAATA
* * * * *
24469120 ATAATTTAAAATAACTATTGTTAAATAT-TATTTAA-TAAAGATATATAATTTAATAAAATTCTT
1 ATAATTTGAAATAATTATTATTAAATATAT-TTTAATTAAA-ATATATAATCTAATAAAATTATT
*
24469183 AATATTAAATATTCTTATATGAATTTACTAAAATCAT-ATATA--ATACTATAAAAT
64 AATAATAAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAAT
* * * * * *
24469237 ATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTTTTAG
1 ATAATTTGAAATAATTATTATTAAATATATTTTAATTAAAATATATAATCTAATAAAATTATTAA
* *
24469302 TATTAAATATTCATATATGAATTTACTAAAATCATAATATATGATACTATAAAAT
66 TAATAAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAAT
24469357 ATAATTTGAAATAATTATTATTAAATATATTTTAATTAAAATATATAATCTAATAAAATTATTAA
1 ATAATTTGAAATAATTATTATTAAATATATTTTAATTAAAATATATAATCTAATAAAATTATTAA
* *
24469422 TAATAAATATTCTTATATGGATTTACTAAGATCATAATATATGATACTATAAAAT
66 TAATAAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAAT
24469477 ATAATTTGAAATAATTATTATTAAATATATTTTAATTAAAATATATAATCTAATAAAATTATTAA
1 ATAATTTGAAATAATTATTATTAAATATATTTTAATTAAAATATATAATCTAATAAAATTATTAA
24469542 TAATAAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAAT
66 TAATAAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAAT
24469597 ATAATTTGAAATAATTATTATTAAATATATTTTAATTAAAATATATAATCTAATAAAATTATTAA
1 ATAATTTGAAATAATTATTATTAAATATATTTTAATTAAAATATATAATCTAATAAAATTATTAA
*
24469662 TAATAAATATTCTTATATGAAATTACTAAAATCATAATATATGATACTATAAAAT
66 TAATAAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAAT
24469717 AT
1 AT
24469719 TTTTAATTAA
Statistics
Matches: 457, Mismatches: 20, Indels: 7
0.94 0.04 0.01
Matches are distributed among these distances:
117 88 0.19
118 8 0.02
120 361 0.79
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (120 bp):
ATAATTTGAAATAATTATTATTAAATATATTTTAATTAAAATATATAATCTAATAAAATTATTAA
TAATAAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAAT
Found at i:24471868 original size:6 final size:6
Alignment explanation
Indices: 24471855--24471898 Score: 61
Period size: 6 Copynumber: 7.2 Consensus size: 6
24471845 ACCCTTCTTC
* *
24471855 TCCCCTT TCCCTT TCCCCT TCCCCT TCCCTT TCCCCT TCCCCT T
1 TCCCC-T TCCCCT TCCCCT TCCCCT TCCCCT TCCCCT TCCCCT T
24471899 GGTTTGCAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
6 29 0.88
7 4 0.12
ACGTcount: A:0.00, C:0.59, G:0.00, T:0.41
Consensus pattern (6 bp):
TCCCCT
Found at i:24471884 original size:18 final size:18
Alignment explanation
Indices: 24471855--24471898 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
24471845 ACCCTTCTTC
24471855 TCCCCTTTCCCTTTCCCCT
1 TCCCC-TTCCCTTTCCCCT
24471874 TCCCCTTCCCTTTCCCCT
1 TCCCCTTCCCTTTCCCCT
24471892 TCCCCTT
1 TCCCCTT
24471899 GGTTTGCAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 20 0.80
19 5 0.20
ACGTcount: A:0.00, C:0.59, G:0.00, T:0.41
Consensus pattern (18 bp):
TCCCCTTCCCTTTCCCCT
Found at i:24475073 original size:59 final size:59
Alignment explanation
Indices: 24475009--24475207 Score: 210
Period size: 59 Copynumber: 3.3 Consensus size: 59
24474999 AATACTAAGA
24475009 ATTTTATTAAT-TTATATATTTTTGTTAAATTATATTTAATAATAATTATTTTAAATTAT
1 ATTTTA-TAATATTATATATTTTTGTTAAATTATATTTAATAATAATTATTTTAAATTAT
* * ** * * * * * *
24475068 ATTTTATAGTATTATATA-TTATGATTTTAGTAAATTCATATAAGAA-TA-TTTAATACTAAGA
1 ATTTTATAATATTATATATTTTTG-TTAAATTATATTTA-ATAATAATTATTTTAA-A-TTA-T
24475129 ATTTTATTAA-ATTATATATTTTTGTTAAATTATATTTAATAATAATTATTTTAAATTAT
1 ATTTTA-TAATATTATATATTTTTGTTAAATTATATTTAATAATAATTATTTTAAATTAT
24475188 ATTTTATAATATTATATATT
1 ATTTTATAATATTATATATT
24475208 ATAATTTTAG
Statistics
Matches: 109, Mismatches: 20, Indels: 22
0.72 0.13 0.15
Matches are distributed among these distances:
58 15 0.14
59 41 0.38
60 16 0.15
61 26 0.24
62 11 0.10
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.55
Consensus pattern (59 bp):
ATTTTATAATATTATATATTTTTGTTAAATTATATTTAATAATAATTATTTTAAATTAT
Found at i:24475151 original size:18 final size:17
Alignment explanation
Indices: 24475129--24475263 Score: 95
Period size: 18 Copynumber: 8.0 Consensus size: 17
24475119 AATACTAAGA
24475129 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
*
24475146 ATTTTTGTTAAA-T-TAT
1 A-TTTTATTAAATTATAT
* *
24475162 A-TTTAAT-AATAAT-T
1 ATTTTATTAAATTATAT
* *
24475176 ATTTTAAATTATATTTTAT
1 ATTTT--ATTAAATTATAT
* *
24475195 AATATTA-TATATTATA-
1 -ATTTTATTAAATTATAT
*
24475211 ATTTTAGTAAATTCATAT
1 ATTTTATTAAATT-ATAT
24475229 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
24475246 ATTTTTATTAAATTATAT
1 A-TTTTATTAAATTATAT
24475264 TTAATAATAA
Statistics
Matches: 92, Mismatches: 13, Indels: 25
0.71 0.10 0.19
Matches are distributed among these distances:
13 2 0.02
14 6 0.07
15 9 0.10
16 9 0.10
17 20 0.22
18 41 0.45
19 1 0.01
20 4 0.04
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:24475159 original size:120 final size:120
Alignment explanation
Indices: 24474987--24475229 Score: 459
Period size: 120 Copynumber: 2.0 Consensus size: 120
24474977 TGATACAATC
*
24474987 ATAAGAATATTTAATACTAAGAATTTTATTAATTTATATATTTTTGTTAAATTATATTTAATAAT
1 ATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAAT
* *
24475052 AATTATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCAT
66 AATTATTTTAAATTATATTTTATAATATTATATATTATAATTTTAGTAAATTCAT
24475107 ATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAAT
1 ATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAAT
24475172 AATTATTTTAAATTATATTTTATAATATTATATATTATAATTTTAGTAAATTCAT
66 AATTATTTTAAATTATATTTTATAATATTATATATTATAATTTTAGTAAATTCAT
24475227 ATA
1 ATA
24475230 TTTTATTAAA
Statistics
Matches: 120, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 120 1.00
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (120 bp):
ATAAGAATATTTAATACTAAGAATTTTATTAAATTATATATTTTTGTTAAATTATATTTAATAAT
AATTATTTTAAATTATATTTTATAATATTATATATTATAATTTTAGTAAATTCAT
Found at i:24475182 original size:26 final size:25
Alignment explanation
Indices: 24475144--24475202 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 25
24475134 ATTAAATTAT
*
24475144 ATATTTTTGTTAAATTATATTTAATA
1 ATATTATT-TTAAATTATATTTAATA
*
24475170 ATAATTATTTTAAATTATATTTTATA
1 AT-ATTATTTTAAATTATATTTAATA
24475196 ATATTAT
1 ATATTAT
24475203 ATATTATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
25 5 0.17
26 20 0.67
27 5 0.17
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (25 bp):
ATATTATTTTAAATTATATTTAATA
Found at i:24475201 original size:15 final size:15
Alignment explanation
Indices: 24475157--24475212 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 15
24475147 TTTTTGTTAA
*
24475157 ATTATATTTAATAAT
1 ATTATATTTTATAAT
*
24475172 AAT-TA-TTT-TAA-
1 ATTATATTTTATAAT
24475183 ATTATATTTTATAAT
1 ATTATATTTTATAAT
*
24475198 ATTATATATTATAAT
1 ATTATATTTTATAAT
24475213 TTTAGTAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
11 2 0.06
12 5 0.15
13 5 0.15
14 5 0.15
15 16 0.48
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTATATTTTATAAT
Found at i:24475230 original size:41 final size:40
Alignment explanation
Indices: 24475065--24475248 Score: 118
Period size: 41 Copynumber: 4.6 Consensus size: 40
24475055 TATTTTAAAT
* *
24475065 TATATTTTATAGTATTATATATTATGATTTTAGTAAATTCA
1 TATATTTTATAATATTATATATTATAATTTTAGTAAATT-A
* * * *
24475106 TATA----AGAATATT-TAATACTAAGAATTTTATTAAATTA
1 TATATTTTATAATATTAT-ATA-TTATAATTTTAGTAAATTA
* **
24475143 TATATTTTTGTTAA-ATTATAT-TTAATAATAATTATTTTAAA-T-
1 TATA-TTTT-ATAATATTATATATT-ATAAT--TT-TAGTAAATTA
24475185 TATATTTTATAATATTATATATTATAATTTTAGTAAATTCA
1 TATATTTTATAATATTATATATTATAATTTTAGTAAATT-A
24475226 TATATTTTATTAA-ATTATATATT
1 TATATTTTA-TAATATTATATATT
24475249 TTTATTAAAT
Statistics
Matches: 110, Mismatches: 14, Indels: 38
0.68 0.09 0.23
Matches are distributed among these distances:
36 1 0.01
37 14 0.13
38 19 0.17
39 3 0.03
40 4 0.04
41 43 0.39
42 14 0.13
43 6 0.05
44 6 0.05
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (40 bp):
TATATTTTATAATATTATATATTATAATTTTAGTAAATTA
Found at i:24475453 original size:21 final size:21
Alignment explanation
Indices: 24475427--24475478 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
24475417 ACCGCTGTTT
*
24475427 CTAATCTCACTGCTACAGTAAC
1 CTAATCTCACAGCTACAGT-AC
24475449 C-AATCTCACAGCTACAGTAC
1 CTAATCTCACAGCTACAGTAC
24475469 CTAATCTCAC
1 CTAATCTCAC
24475479 CGCCATCGCT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 3 0.11
21 24 0.86
22 1 0.04
ACGTcount: A:0.33, C:0.35, G:0.08, T:0.25
Consensus pattern (21 bp):
CTAATCTCACAGCTACAGTAC
Found at i:24478615 original size:50 final size:49
Alignment explanation
Indices: 24478549--24478734 Score: 185
Period size: 50 Copynumber: 3.7 Consensus size: 49
24478539 AAAGTGATGG
* * * *
24478549 TCACGTGTGTAGTACTATGTGCAAGCTACTATGTGTACCAGAATGATAGG
1 TCACATGTATAGTACTATGTGCAGGCTACTATGTGTACCAG-ATGATAGA
* ** * *
24478599 TCGCATGTATAGTACTATGTGCAGGCTACTATGCATACCAGATAGTTTTGA
1 TCACATGTATAGTACTATGTGCAGGCTACTATGTGTACCAGAT-G-ATAGA
* * * * * *
24478650 TCACGTGTGTAGTACTAT-TGCAGGCTACTACGTGTATCGGATGGTAATGA
1 TCACATGTATAGTACTATGTGCAGGCTACTATGTGTACCAGATGAT-A-GA
24478700 TCACATGTATAGTACTATGTGCAGGCTACTATGTG
1 TCACATGTATAGTACTATGTGCAGGCTACTATGTG
24478735 AACTGAACAT
Statistics
Matches: 109, Mismatches: 22, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
48 1 0.01
49 3 0.03
50 73 0.67
51 32 0.29
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (49 bp):
TCACATGTATAGTACTATGTGCAGGCTACTATGTGTACCAGATGATAGA
Found at i:24478707 original size:101 final size:101
Alignment explanation
Indices: 24478549--24478732 Score: 273
Period size: 101 Copynumber: 1.8 Consensus size: 101
24478539 AAAGTGATGG
* * *
24478549 TCACGTGTGTAGTACTATGTGCAAGCTACTATGTGTACCAGAATGATAGGTCGCATGTATAGTAC
1 TCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTACCAGAATGATAGATCACATGTATAGTAC
24478614 TATGTGCAGGCTACTATGCATACCAGATAGTTTTGA
66 TATGTGCAGGCTACTATGCATACCAGATAGTTTTGA
* * * *
24478650 TCACGTGTGTAGTACTAT-TGCAGGCTACTACGTGTATC-GGATGGTAATGATCACATGTATAGT
1 TCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTACCAGAATGAT-A-GATCACATGTATAGT
24478713 ACTATGTGCAGGCTACTATG
64 ACTATGTGCAGGCTACTATG
24478733 TGAACTGAAC
Statistics
Matches: 74, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
99 5 0.07
100 18 0.24
101 51 0.69
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (101 bp):
TCACGTGTGTAGTACTATGTGCAAGCTACTACGTGTACCAGAATGATAGATCACATGTATAGTAC
TATGTGCAGGCTACTATGCATACCAGATAGTTTTGA
Found at i:24478792 original size:45 final size:45
Alignment explanation
Indices: 24478741--24478828 Score: 140
Period size: 45 Copynumber: 2.0 Consensus size: 45
24478731 TGTGAACTGA
* * *
24478741 ACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCCACCGG
1 ACATCATTGATTAATAAGGTGGTTGCTATGCGCTGAATCCACCGG
*
24478786 ACATCATTGTTTAATAAGGTGGTTGCTATGCGCTGAATCCACC
1 ACATCATTGATTAATAAGGTGGTTGCTATGCGCTGAATCCACC
24478829 TAGTATCTGT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (45 bp):
ACATCATTGATTAATAAGGTGGTTGCTATGCGCTGAATCCACCGG
Found at i:24483877 original size:51 final size:51
Alignment explanation
Indices: 24483822--24483951 Score: 181
Period size: 51 Copynumber: 2.5 Consensus size: 51
24483812 GATGGTTACG
* *
24483822 TGTGTAGTACTATGTGCAGACTACTATGCGTATCGGATAGT-TTCGATCACA
1 TGTGTAGTACTATGTGCAGGCTACTATGCGTATCGGATAGTAAT-GATCACA
* * * *
24483873 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGGTAATGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTATGCGTATCGGATAGTAATGATCACA
*
24483924 TGTGTAGTACGATGTGCAGGCTACTATG
1 TGTGTAGTACTATGTGCAGGCTACTATG
24483952 TGAACTGAAC
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
51 69 0.99
52 1 0.01
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (51 bp):
TGTGTAGTACTATGTGCAGGCTACTATGCGTATCGGATAGTAATGATCACA
Found at i:24483952 original size:26 final size:26
Alignment explanation
Indices: 24483872--24483953 Score: 66
Period size: 26 Copynumber: 3.2 Consensus size: 26
24483862 TTTCGATCAC
*
24483872 ATGTGTAGTACTATGTGCAGGCTACT
1 ATGTGTAGTACGATGTGCAGGCTACT
* *
24483898 ACGTGTA-T-CGGATG-GTAATGG-TCAC-
1 ATGTGTAGTAC-GATGTG-CA-GGCT-ACT
24483923 ATGTGTAGTACGATGTGCAGGCTACT
1 ATGTGTAGTACGATGTGCAGGCTACT
24483949 ATGTG
1 ATGTG
24483954 AACTGAACAT
Statistics
Matches: 42, Mismatches: 5, Indels: 18
0.65 0.08 0.28
Matches are distributed among these distances:
24 2 0.05
25 16 0.38
26 22 0.52
27 2 0.05
ACGTcount: A:0.23, C:0.15, G:0.30, T:0.32
Consensus pattern (26 bp):
ATGTGTAGTACGATGTGCAGGCTACT
Found at i:24484119 original size:23 final size:22
Alignment explanation
Indices: 24484093--24484136 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 22
24484083 AATTGACTAA
24484093 GTGT-AATTGAATAATGAATATAG
1 GTGTGAATTGAAT--TGAATATAG
24484116 GTGTGGAATTGAATTGAATAT
1 GTGT-GAATTGAATTGAATAT
24484137 CGACTTAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 11 0.58
25 8 0.42
ACGTcount: A:0.39, C:0.00, G:0.25, T:0.36
Consensus pattern (22 bp):
GTGTGAATTGAATTGAATATAG
Found at i:24489381 original size:17 final size:18
Alignment explanation
Indices: 24489341--24489383 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
24489331 CACCAAATAG
24489341 CAGTTCAT-ACTACATAA
1 CAGTTCATAACTACATAA
*
24489358 CAATTCATAAC-ACATAA
1 CAGTTCATAACTACATAA
*
24489375 TAGTTCATA
1 CAGTTCATA
24489384 TCGCATCATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 20 0.91
18 2 0.09
ACGTcount: A:0.44, C:0.21, G:0.05, T:0.30
Consensus pattern (18 bp):
CAGTTCATAACTACATAA
Found at i:24490465 original size:43 final size:43
Alignment explanation
Indices: 24490404--24490612 Score: 274
Period size: 43 Copynumber: 4.9 Consensus size: 43
24490394 TTTATGTGGA
*
24490404 AAACGCCGCTATAGAACATGACCTTTAGCGGCACTTTCCCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCACTTTCCCCAC
* * *** * * *
24490447 AAACGCTGCTAAAGAACATGACCATTAGCGTTGCTTTTCCTAT
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCACTTTCCCCAC
* * *
24490490 AAACGCCGCTAAAGAACATGACCTTTAGTGGCGCTTTCCCTAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCACTTTCCCCAC
* * *
24490533 AGATGCCACTAAAGAACATGACCTTTAGCGGCACTTTCCCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCACTTTCCCCAC
*
24490576 AAACGCTGCTAAAGAACATGACCTTTAGCGGCACTTT
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCACTTT
24490613 TTCCAAAAAT
Statistics
Matches: 140, Mismatches: 26, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 140 1.00
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGGCACTTTCCCCAC
Found at i:24491094 original size:66 final size:65
Alignment explanation
Indices: 24490988--24491117 Score: 181
Period size: 66 Copynumber: 2.0 Consensus size: 65
24490978 ATTCTGAAGC
* * * *
24490988 TGTAGCTGGAGTTCATCATATTTTCTACTTGCCTTTGCTTCCCTCGCTGCTGCCTCTGCTTTAAC
1 TGTAGCTGGAGTTCATCATATTTTCTA-TTGCCTCTGCTTCCCTCGATGCTACCTCCGCTTTAAC
24491053 T
65 T
*
24491054 TGTAGCTGGAGTTCATCATATTTTCT-TTAAGCCTCTGCTTCTCTCGATGCTACCTCCGCTTTAA
1 TGTAGCTGGAGTTCATCATATTTTCTATT--GCCTCTGCTTCCCTCGATGCTACCTCCGCTTTAA
24491118 AGTTGAGCAG
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
64 2 0.04
66 55 0.96
ACGTcount: A:0.15, C:0.28, G:0.16, T:0.42
Consensus pattern (65 bp):
TGTAGCTGGAGTTCATCATATTTTCTATTGCCTCTGCTTCCCTCGATGCTACCTCCGCTTTAACT
Found at i:24497995 original size:99 final size:99
Alignment explanation
Indices: 24497813--24497998 Score: 284
Period size: 99 Copynumber: 1.9 Consensus size: 99
24497803 ATAATTGAAC
* * **
24497813 TAAACGGTTCTACTTAATATCAAAATTCAATAAATTGAACTAAATTAATTTTTTTAAAAACGCAT
1 TAAACGGTTCCACTTAATATCAAAACTCAATAAATTGAACTAAATTAACCTTTTTAAAAACGCAT
*
24497878 AATTGAACAATCAGTTTTACTTTGTATAACAGAA
66 AATTGAACAAACAGTTTTACTTTGTATAACAGAA
* **
24497912 TAAATGGTTCCACTTAATATCAAAACTCAATAAATTGAACTAAATTAACCTTTTTAAAAATTCAT
1 TAAACGGTTCCACTTAATATCAAAACTCAATAAATTGAACTAAATTAACCTTTTTAAAAACGCAT
24497977 AATTGAACAAAC-GTTTTTACTT
66 AATTGAACAAACAG-TTTTACTT
24497999 AATATCAAAT
Statistics
Matches: 78, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
98 1 0.01
99 77 0.99
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (99 bp):
TAAACGGTTCCACTTAATATCAAAACTCAATAAATTGAACTAAATTAACCTTTTTAAAAACGCAT
AATTGAACAAACAGTTTTACTTTGTATAACAGAA
Found at i:24498006 original size:72 final size:72
Alignment explanation
Indices: 24497923--24498141 Score: 217
Period size: 72 Copynumber: 3.1 Consensus size: 72
24497913 AAATGGTTCC
*
24497923 ACTTAATATCAAAACTCAATAAATTGAACTAAATTAACCTTTTTAAAAATTCATAATTGAACAAA
1 ACTTAATATCAAAACTCAATAAATTGAACTAAATTAACCTTTTTAAAAATTCATAATTAAACAAA
*
24497988 CGTTTTT
66 CGATTTT
** ** * ** * *
24497995 ACTTAATATCAAATTTCAATAAATCAAACTAAATTAAGC-TTTTGGAAATGT-ATAACTAAATAA
1 ACTTAATATCAAAACTCAATAAATTGAACTAAATTAACCTTTTTAAAAAT-TCATAATTAAACAA
* ** *
24498058 ATGGGTTC
65 ACGATTTT
* * * * **
24498066 GCGTAATATAAAAACTTAATAAATTGAACTAAATTAACCTTTTTAAAAACACATAATTAAACAAA
1 ACTTAATATCAAAACTCAATAAATTGAACTAAATTAACCTTTTTAAAAATTCATAATTAAACAAA
*
24498131 CAATTTT
66 CGATTTT
24498138 ACTT
1 ACTT
24498142 GATAATTAAT
Statistics
Matches: 108, Mismatches: 36, Indels: 6
0.72 0.24 0.04
Matches are distributed among these distances:
71 51 0.47
72 57 0.53
ACGTcount: A:0.47, C:0.13, G:0.06, T:0.34
Consensus pattern (72 bp):
ACTTAATATCAAAACTCAATAAATTGAACTAAATTAACCTTTTTAAAAATTCATAATTAAACAAA
CGATTTT
Found at i:24500227 original size:38 final size:38
Alignment explanation
Indices: 24500176--24500310 Score: 137
Period size: 41 Copynumber: 3.4 Consensus size: 38
24500166 AAAATGATAC
*
24500176 TTTGCGGCCTTTTTCTCAGT-GCTGCTAATGCTTGACCT
1 TTTGCGGCGTTTTTCTCA-TAGCTGCTAATGCTTGACCT
*
24500214 TTTGCGGTGTTTTTCTCATAAACGCTGCTAATGCTTGACCT
1 TTTGCGGCGTTTTTCTCAT--A-GCTGCTAATGCTTGACCT
* * *
24500255 TTTGAGGCGTTTTTCTCATAAATGCTGCTACTGCTTTACCT
1 TTTGCGGCGTTTTTCTCAT--A-GCTGCTAATGCTTGACCT
* *
24500296 ATTGCGGCATTTTTC
1 TTTGCGGCGTTTTTC
24500311 CGTCCAAACG
Statistics
Matches: 83, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
37 1 0.01
38 16 0.19
41 66 0.80
ACGTcount: A:0.15, C:0.23, G:0.19, T:0.43
Consensus pattern (38 bp):
TTTGCGGCGTTTTTCTCATAGCTGCTAATGCTTGACCT
Found at i:24500252 original size:41 final size:41
Alignment explanation
Indices: 24500196--24500310 Score: 167
Period size: 41 Copynumber: 2.8 Consensus size: 41
24500186 TTTTCTCAGT
*
24500196 GCTGCTAATGCTTGACCTTTTGCGGTGTTTTTCTCATAAAC
1 GCTGCTAATGCTTGACCTTTTGCGGCGTTTTTCTCATAAAC
* *
24500237 GCTGCTAATGCTTGACCTTTTGAGGCGTTTTTCTCATAAAT
1 GCTGCTAATGCTTGACCTTTTGCGGCGTTTTTCTCATAAAC
* * * *
24500278 GCTGCTACTGCTTTACCTATTGCGGCATTTTTC
1 GCTGCTAATGCTTGACCTTTTGCGGCGTTTTTC
24500311 CGTCCAAACG
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 66 1.00
ACGTcount: A:0.17, C:0.23, G:0.19, T:0.42
Consensus pattern (41 bp):
GCTGCTAATGCTTGACCTTTTGCGGCGTTTTTCTCATAAAC
Found at i:24501706 original size:14 final size:14
Alignment explanation
Indices: 24501672--24501699 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
24501662 CATTTTCTTC
24501672 AATTCAACTCTCAA
1 AATTCAACTCTCAA
24501686 AATTCAACTCTCAA
1 AATTCAACTCTCAA
24501700 CTCTCAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.29, G:0.00, T:0.29
Consensus pattern (14 bp):
AATTCAACTCTCAA
Found at i:24506302 original size:63 final size:63
Alignment explanation
Indices: 24506235--24506468 Score: 199
Period size: 63 Copynumber: 3.8 Consensus size: 63
24506225 ACGACACCAG
* * *
24506235 TTTATTTTACACGAGCACCACATCACACACAATCATTCCCTACACCAACACATTCATCACTAC
1 TTTATTTTACACAAGCACCACATCACACACAATCATTCCCTACACCGACACATTCATCACTAA
* * * * * * * * *
24506298 TTTATTTCACACAAGCA-C-CATTACATGAGCAACCATTTCCTGCACTGACACATTCATCGCCAA
1 TTTATTTTACACAAGCACCACATCACA-CA-CAATCATTCCCTACACCGACACATTCATCACTAA
* * ** * *
24506361 TTTATTTTACACAAGCATCACAACATGCGCAATCATTCCCTACACCGACA-A--CATCAATAA
1 TTTATTTTACACAAGCACCACATCACACACAATCATTCCCTACACCGACACATTCATCACTAA
* * ** * *
24506421 TTTATTTTTCACAAGCACTACATCATGCACAATCATTCCATGCACCGA
1 TTTATTTTACACAAGCACCACATCACACACAATCATTCCCTACACCGA
24506469 TACCTTCCTC
Statistics
Matches: 134, Mismatches: 33, Indels: 11
0.75 0.19 0.06
Matches are distributed among these distances:
60 47 0.35
61 6 0.04
62 3 0.02
63 74 0.55
64 1 0.01
65 3 0.02
ACGTcount: A:0.34, C:0.32, G:0.07, T:0.27
Consensus pattern (63 bp):
TTTATTTTACACAAGCACCACATCACACACAATCATTCCCTACACCGACACATTCATCACTAA
Found at i:24510057 original size:19 final size:20
Alignment explanation
Indices: 24510023--24510060 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
24510013 ATATTATTTC
24510023 TATTCCATTGTAATATTTAT
1 TATTCCATTGTAATATTTAT
*
24510043 TATTGCATTGT-ATATTTA
1 TATTCCATTGTAATATTTA
24510061 ATGTAGCATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.29, C:0.08, G:0.08, T:0.55
Consensus pattern (20 bp):
TATTCCATTGTAATATTTAT
Found at i:24510069 original size:19 final size:20
Alignment explanation
Indices: 24510028--24510069 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
24510018 ATTTCTATTC
* *
24510028 CATTGTAATATTTATTATTG
1 CATTGTAATATTTAATATAG
*
24510048 CATTGT-ATATTTAATGTAG
1 CATTGTAATATTTAATATAG
24510067 CAT
1 CAT
24510070 CACATCATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.31, C:0.07, G:0.12, T:0.50
Consensus pattern (20 bp):
CATTGTAATATTTAATATAG
Done.