Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 170 of 343
Found at i:56439570 original size:28 final size:29
Alignment explanation
Indices: 56439537--56439591 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
56439527 ACGGGTGACC
56439537 ACACGGGCGAGT-CTAGGCCATGTGAAGG
1 ACACGGGCGAGTGCTAGGCCATGTGAAGG
* * *
56439565 ACACGGGCGTGTGCTTGGCCGTGTGAA
1 ACACGGGCGAGTGCTAGGCCATGTGAA
56439592 AACCCCTGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 11 0.48
29 12 0.52
ACGTcount: A:0.20, C:0.22, G:0.40, T:0.18
Consensus pattern (29 bp):
ACACGGGCGAGTGCTAGGCCATGTGAAGG
Found at i:56441286 original size:20 final size:21
Alignment explanation
Indices: 56441261--56441300 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
56441251 CTTATAATGA
56441261 TAAAAAATA-TTTAAATTTAT
1 TAAAAAATATTTTAAATTTAT
56441281 TAAAAAATATTTTAAATTTA
1 TAAAAAATATTTTAAATTTA
56441301 ACTTAATAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
TAAAAAATATTTTAAATTTAT
Found at i:56443955 original size:23 final size:23
Alignment explanation
Indices: 56443929--56443972 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
56443919 CGCAAAAATA
* *
56443929 ATTAAATGTTAAATTTCATGTCT
1 ATTAAATGTGAAATTACATGTCT
*
56443952 ATTATATGTGAAATTACATGT
1 ATTAAATGTGAAATTACATGT
56443973 GTGAAATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.36, C:0.07, G:0.11, T:0.45
Consensus pattern (23 bp):
ATTAAATGTGAAATTACATGTCT
Found at i:56445257 original size:48 final size:48
Alignment explanation
Indices: 56445183--56445328 Score: 238
Period size: 48 Copynumber: 3.0 Consensus size: 48
56445173 GATGTCCAAT
* *
56445183 ATATATATATGTGGTAAAGCCGAATGGCTAATGTAAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCAAATGGCTAATGTGAAATATGTATGAG
56445231 ATATATATATGTGGTAAAGCCAAATGGCTAATGTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCAAATGGCTAATGTGAAATATGTATGAG
** **
56445279 CCATGCATATGTGGTAAAGCCAAATGGCTAATGTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCAAATGGCTAATGTGAAATATGTATGAG
56445327 AT
1 AT
56445329 GTGTATATAT
Statistics
Matches: 90, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 90 1.00
ACGTcount: A:0.38, C:0.08, G:0.23, T:0.30
Consensus pattern (48 bp):
ATATATATATGTGGTAAAGCCAAATGGCTAATGTGAAATATGTATGAG
Found at i:56446229 original size:31 final size:31
Alignment explanation
Indices: 56446194--56446255 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
56446184 TTTTAAATTT
56446194 GCTTAAGACTTACTAAGCTTATAAAAGCTTA
1 GCTTAAGACTTACTAAGCTTATAAAAGCTTA
56446225 GCTTAAGACTTACTAAGCTTATAAAAGCTTA
1 GCTTAAGACTTACTAAGCTTATAAAAGCTTA
56446256 CTCTGTTGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.39, C:0.16, G:0.13, T:0.32
Consensus pattern (31 bp):
GCTTAAGACTTACTAAGCTTATAAAAGCTTA
Found at i:56456299 original size:42 final size:42
Alignment explanation
Indices: 56456242--56456405 Score: 184
Period size: 42 Copynumber: 3.9 Consensus size: 42
56456232 TAGGGTTATG
* *
56456242 TGTGATTTCATGTAAGACCATATTTGGGATATGGTATCGATA
1 TGTGATTTCATGTAAGACCATATCTGGGATATGGCATCGATA
* * *
56456284 TGTGATTTCATGTAAGACCATGTCTGGGAAATGGCATCAATA
1 TGTGATTTCATGTAAGACCATATCTGGGATATGGCATCGATA
* ** * *
56456326 TGAGACATCATGTAAGACCATAACTGGGCTATCGGCATCGATA
1 TGTGATTTCATGTAAGACCATATCTGGGATAT-GGCATCGATA
** * * *
56456369 TGTGATCCCATGTAAGACTATATCTCGAATATGGCAT
1 TGTGATTTCATGTAAGACCATATCTGGGATATGGCAT
56456406 TGGCATCTTA
Statistics
Matches: 99, Mismatches: 22, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
42 67 0.68
43 32 0.32
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (42 bp):
TGTGATTTCATGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:56456403 original size:85 final size:84
Alignment explanation
Indices: 56456249--56456405 Score: 208
Period size: 85 Copynumber: 1.9 Consensus size: 84
56456239 ATGTGTGATT
** * ** * *
56456249 TCATGTAAGACCATATTTGGGATATGGTATCGATATGTGATTTCATGTAAGACCATGTCTGGGAA
1 TCATGTAAGACCATAACTGGGATATGGCATCGATATGTGATCCCATGTAAGACCATATCTGCGAA
56456314 ATGGCATCAATATGAGACA
66 ATGGCATCAATATGAGACA
* *
56456333 TCATGTAAGACCATAACTGGGCTATCGGCATCGATATGTGATCCCATGTAAGACTATATCT-CGA
1 TCATGTAAGACCATAACTGGGATAT-GGCATCGATATGTGATCCCATGTAAGACCATATCTGCGA
56456397 ATATGGCAT
65 A-ATGGCAT
56456406 TGGCATCTTA
Statistics
Matches: 62, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
84 25 0.40
85 37 0.60
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (84 bp):
TCATGTAAGACCATAACTGGGATATGGCATCGATATGTGATCCCATGTAAGACCATATCTGCGAA
ATGGCATCAATATGAGACA
Found at i:56464161 original size:23 final size:23
Alignment explanation
Indices: 56464135--56464217 Score: 87
Period size: 23 Copynumber: 3.6 Consensus size: 23
56464125 CTAAGTTGAT
*
56464135 AAACAGTAAGTTCTATTGAGCTG
1 AAACAGTAAGCTCTATTGAGCTG
* * *
56464158 AAACGGTAAGCCCTATCGAGCTG
1 AAACAGTAAGCTCTATTGAGCTG
* * *
56464181 -AACAGTAAGCTCCAATGAGCTAA
1 AAACAGTAAGCTCTATTGAGCT-G
56464204 AAACAGTAAGCTCT
1 AAACAGTAAGCTCT
56464218 TACGAGCTGA
Statistics
Matches: 47, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
22 16 0.34
23 19 0.40
24 12 0.26
ACGTcount: A:0.37, C:0.20, G:0.20, T:0.22
Consensus pattern (23 bp):
AAACAGTAAGCTCTATTGAGCTG
Found at i:56467416 original size:42 final size:42
Alignment explanation
Indices: 56467369--56467449 Score: 153
Period size: 42 Copynumber: 1.9 Consensus size: 42
56467359 CCATTGAAGT
56467369 TAGTGATGGACGGTCAGGACGTTAATATATATAGGTTTTATA
1 TAGTGATGGACGGTCAGGACGTTAATATATATAGGTTTTATA
*
56467411 TAGTGATGGACGGTCATGACGTTAATATATATAGGTTTT
1 TAGTGATGGACGGTCAGGACGTTAATATATATAGGTTTT
56467450 GTATTAATTG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.30, C:0.07, G:0.26, T:0.37
Consensus pattern (42 bp):
TAGTGATGGACGGTCAGGACGTTAATATATATAGGTTTTATA
Found at i:56469645 original size:46 final size:48
Alignment explanation
Indices: 56469587--56469857 Score: 224
Period size: 46 Copynumber: 5.7 Consensus size: 48
56469577 AGGTTATTGT
* *
56469587 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCATATTATGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATATGATGA
*
56469633 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAG-CAT-TGA-GA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATATGATGA
* * *
56469678 CGAGTGCTAGTGTAAGA-CATGTCTTGGACAT-GCATCGG-C-TATGA-AA
1 -GA--GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATATGATGA
* * * * *
56469724 TGTGTCAGTGTAAGACCATATCTGGCACATGGCGTCGGCACAGATATG-TGA
1 -GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-C--ATATGATGA
* * * * *
56469775 GAGCTAGTATAAGACCATGTTTGGGACATGGCATCGGCTTCA-GTGATAA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC--CATATGATGA
*
56469824 TAGCCAGTGTAAGACCATGTCTGGGACATGGCAT
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCAT
56469858 TGGTAATTTT
Statistics
Matches: 178, Mismatches: 31, Indels: 29
0.75 0.13 0.12
Matches are distributed among these distances:
44 10 0.06
45 14 0.08
46 35 0.20
47 30 0.17
48 20 0.11
49 33 0.19
50 30 0.17
51 6 0.03
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (48 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCATATGATGA
Found at i:56469781 original size:94 final size:93
Alignment explanation
Indices: 56469587--56469857 Score: 289
Period size: 94 Copynumber: 2.8 Consensus size: 93
56469577 AGGTTATTGT
* * *
56469587 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCAT-ATTATGAGAGCCAGTGTAAGACCAT
1 GAGCTAGTGTAAGACATGTCTTGGACATGCATCGGCTATGATAAT--GAGCCAGTGTAAGACCAT
**
56469651 GTCTGGGACATGGCATCAGCATTGAGACGA
64 GTCTGGGACATGGCATCAGCACAGAGACGA
* * * *
56469681 GTGCTAGTGTAAGACATGTCTTGGACATGCATCGGCTATGA-AATGTGTCAGTGTAAGACCATAT
1 GAGCTAGTGTAAGACATGTCTTGGACATGCATCGGCTATGATAATGAGCCAGTGTAAGACCATGT
* * * * *
56469745 CTGGCACATGGCGTCGGCACAGATATGTGA
66 CTGGGACATGGCATCAGCACAGAGA--CGA
*
56469775 GAGCTAGTATAAGACCATGT-TTGGGACATGGCATCGGCTTCAGTGATAAT-AGCCAGTGTAAGA
1 GAGCTAGTGTAAGA-CATGTCTT-GGACAT-GCATCGGC-T-A-TGATAATGAGCCAGTGTAAGA
56469838 CCATGTCTGGGACATGGCAT
60 CCATGTCTGGGACATGGCAT
56469858 TGGTAATTTT
Statistics
Matches: 146, Mismatches: 21, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
92 36 0.25
94 54 0.37
95 12 0.08
96 8 0.05
97 1 0.01
98 1 0.01
99 31 0.21
100 3 0.02
ACGTcount: A:0.28, C:0.18, G:0.29, T:0.25
Consensus pattern (93 bp):
GAGCTAGTGTAAGACATGTCTTGGACATGCATCGGCTATGATAATGAGCCAGTGTAAGACCATGT
CTGGGACATGGCATCAGCACAGAGACGA
Found at i:56477271 original size:44 final size:47
Alignment explanation
Indices: 56477187--56477310 Score: 132
Period size: 50 Copynumber: 2.6 Consensus size: 47
56477177 GACGTAAGCC
*
56477187 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGTTACGAAATATGT-T
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGTCACGAAATATGTGT
* * *
56477231 AGTGTAAGACCGTGTCTGGGACATGGCGTCAG-CATG-AATATGTGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATCAGTCACGAAATATGT----G-T
56477281 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGACCATGTCTGGGACATGGCATC
56477311 GGCCTTGGTG
Statistics
Matches: 66, Mismatches: 6, Indels: 10
0.80 0.07 0.12
Matches are distributed among these distances:
44 16 0.24
45 15 0.23
46 6 0.09
50 29 0.44
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.26
Consensus pattern (47 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCAGTCACGAAATATGTGT
Found at i:56481087 original size:27 final size:27
Alignment explanation
Indices: 56481057--56481678 Score: 643
Period size: 27 Copynumber: 23.0 Consensus size: 27
56481047 AAAGTACTCC
56481057 CGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
56481084 CGATTTACAGAATTA-TCGTTTTACCCT
1 CGATTTACAGAATTACT-GTTTTACCCT
* ** * *
56481111 CAATTTTTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
* **
56481138 CGATTTACAGAATTACCGTTTTACTTT
1 CGATTTACAGAATTACTGTTTTACCCT
* **
56481165 C-AGTTTATAGAATTACCATTTTACCCT
1 CGA-TTTACAGAATTACTGTTTTACCCT
* * **
56481192 TGATTTACATAATTACCATTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
*
56481219 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACTGTTTTACCCT
56481246 CGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
** ** * *
56481273 TAATTTGTAAAATTACTGTTTTACCTT
1 CGATTTACAGAATTACTGTTTTACCCT
* * *
56481300 CGGTTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
* **
56481327 C-AGGTTACAGAATTACCATTTTACCCT
1 CGA-TTTACAGAATTACTGTTTTACCCT
**
56481354 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
* *
56481381 C-AGTTTACAGAATTACTATTTTACCAT
1 CGA-TTTACAGAATTACTGTTTTACCCT
* *
56481408 CGATTTACAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
*
56481435 CGATTTACAGAATTACCGTTTTA-CCT
1 CGATTTACAGAATTACTGTTTTACCCT
** **
56481461 TTAGTTTACAGAATTACCATTTTACCCT
1 CGA-TTTACAGAATTACTGTTTTACCCT
*
56481489 CGATTTACAGAATTA-TCATTTTACCCT
1 CGATTTACAGAATTACT-GTTTTACCCT
*
56481516 C-AGTTTATAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACTGTTTTACCCT
56481543 CGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
** *
56481570 CGATTTGTAAAATTA-TCGTTTTACCCT
1 CGATTTACAGAATTACT-GTTTTACCCT
* *
56481597 CGATTTATAGAATTACTGGTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
* *
56481624 CGGTTTACAAAATTA-TCGTTTTACCCT
1 CGATTTACAGAATTACT-GTTTTACCCT
*
56481651 CGATTTACAGAATTACTATTTTACCCT
1 CGATTTACAGAATTACTGTTTTACCCT
56481678 C
1 C
56481679 AATTGTGAAA
Statistics
Matches: 506, Mismatches: 69, Indels: 40
0.82 0.11 0.07
Matches are distributed among these distances:
26 11 0.02
27 483 0.95
28 12 0.02
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACTGTTTTACCCT
Found at i:56481755 original size:54 final size:54
Alignment explanation
Indices: 56481687--56481854 Score: 266
Period size: 54 Copynumber: 3.1 Consensus size: 54
56481677 TCAATTGTGA
* * * *
56481687 AATTACTAAAATACCCCTGTAGGGTAGAATTACCAAAATACCCCTATAGGGTAG
1 AATTACTAAAATACCCTTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
*
56481741 AATTACTAAAATACCCTTATAGGGTAGAATTACCGAAATACCCCCGTAGGGTAG
1 AATTACTAAAATACCCTTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
*
56481795 AATTA-TCAAAATACCCTTATAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
1 AATTACT-AAAATACCCTTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
56481849 AATTAC
1 AATTAC
56481855 CGAGATACCT
Statistics
Matches: 105, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
53 1 0.01
54 104 0.99
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (54 bp):
AATTACTAAAATACCCTTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
Found at i:56481856 original size:27 final size:27
Alignment explanation
Indices: 56481687--56481883 Score: 232
Period size: 27 Copynumber: 7.3 Consensus size: 27
56481677 TCAATTGTGA
*
56481687 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
*
56481714 AATTACCAAAATACCCCTATAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* * *
56481741 AATTACTAAAATACCCTTATAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* *
56481768 AATTACCGAAATACCCCCGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* * *
56481795 AATTATCAAAATACCCTTATAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* *
56481822 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCCTGTAGGGTAG
* * ** * *
56481849 AATTACCGAGATACCTTTGTGGGGTAA
1 AATTACCAAAATACCCCTGTAGGGTAG
56481876 AATTACCA
1 AATTACCA
56481884 TTTTGTCCCT
Statistics
Matches: 144, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 144 1.00
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (27 bp):
AATTACCAAAATACCCCTGTAGGGTAG
Found at i:56481863 original size:54 final size:54
Alignment explanation
Indices: 56481687--56481882 Score: 257
Period size: 54 Copynumber: 3.6 Consensus size: 54
56481677 TCAATTGTGA
* * * * *
56481687 AATTACTAAAATACCCCTGTAGGGTAGAATTACCAAAATACCCCTATAGGGTAG
1 AATTACCAAAATACCCTTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* *
56481741 AATTACTAAAATACCCTTATAGGGTAGAATTACCGAAATACCCCCGTAGGGTAG
1 AATTACCAAAATACCCTTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* *
56481795 AATTATCAAAATACCCTTATAGGGTAGAAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCTTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
* * * * * *
56481849 AATTACCGAGATACCTTTGTGGGGTAAAATTACC
1 AATTACCAAAATACCCTTATAGGGTAGAATTACC
56481883 ATTTTGTCCC
Statistics
Matches: 125, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
54 125 1.00
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.25
Consensus pattern (54 bp):
AATTACCAAAATACCCTTATAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
Found at i:56481880 original size:81 final size:81
Alignment explanation
Indices: 56481695--56481863 Score: 257
Period size: 81 Copynumber: 2.1 Consensus size: 81
56481685 GAAATTACTA
* * * *
56481695 AAATACCCCTGTAGGGTAGAATTACCAAAATACCCCTATAGGGTAGAATTACTAAAATACCCTTA
1 AAATACCCCCGTAGGGTAGAATTACCAAAATACCCCTATAGGGTAGAAATACCAAAATACCCCTA
56481760 TAGGGTAGAATTACCG
66 TAGGGTAGAATTACCG
* * * *
56481776 AAATACCCCCGTAGGGTAGAATTATCAAAATACCCTTATAGGGTAGAAATACCGAAATACCCCTG
1 AAATACCCCCGTAGGGTAGAATTACCAAAATACCCCTATAGGGTAGAAATACCAAAATACCCCTA
56481841 TAGGGTAGAATTACCG
66 TAGGGTAGAATTACCG
*
56481857 AGATACC
1 AAATACC
56481864 TTTGTGGGGT
Statistics
Matches: 79, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 79 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (81 bp):
AAATACCCCCGTAGGGTAGAATTACCAAAATACCCCTATAGGGTAGAAATACCAAAATACCCCTA
TAGGGTAGAATTACCG
Found at i:56482119 original size:27 final size:26
Alignment explanation
Indices: 56482081--56482163 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
56482071 CGGAGGAAGC
* *
56482081 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGTCAC-AATATCT
56482108 GTTCTGGTGGCTCTGTCACAATATCT
1 GTTCTGGTGGCTCTGTCACAATATCT
* *
56482134 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGTCACAATATCT
56482161 GTT
1 GTT
56482164 GACCGATCGA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 10 0.20
27 41 0.80
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGTCACAATATCT
Found at i:56482496 original size:27 final size:27
Alignment explanation
Indices: 56482474--56482542 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
56482464 TAGGTGGGTT
*
56482474 TGCCACATTATCTG-ATTCTGGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGGCTC
*
56482501 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGGCTC
* *
56482528 TGTCACGATATCTGT
1 TGCCACAATATCTGT
56482543 TTTGGCAGCC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
27 36 0.97
28 1 0.03
ACGTcount: A:0.19, C:0.25, G:0.20, T:0.36
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGGCTC
Found at i:56482674 original size:6 final size:6
Alignment explanation
Indices: 56482665--56482796 Score: 130
Period size: 6 Copynumber: 21.8 Consensus size: 6
56482655 TTGCATTCAC
* *
56482665 ATTCTG ATTCTG ATTCTG ATTCTG ATTTTG ATCCTG -TTACTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG
* * *
56482713 ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG -TTACTA ATAT-TG ATTCTG
1 ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG ATTCTG
56482762 ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
56482797 CATTTTGGTT
Statistics
Matches: 105, Mismatches: 10, Indels: 22
0.77 0.07 0.16
Matches are distributed among these distances:
5 7 0.07
6 89 0.85
7 7 0.07
8 2 0.02
ACGTcount: A:0.19, C:0.17, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:56486143 original size:29 final size:29
Alignment explanation
Indices: 56486080--56486187 Score: 139
Period size: 29 Copynumber: 3.8 Consensus size: 29
56486070 TTCACATACC
* * *
56486080 TGTATCTGGCCCATTAAGCCC-AATCATA
1 TGTATATGGCCCATTAGGCCCAAATCACA
*
56486108 T-TCATATGGCCCATTAGGCCCAAATCACC
1 TGT-ATATGGCCCATTAGGCCCAAATCACA
56486137 TGTATATGGCCCATTAGGCCCAAATCACA
1 TGTATATGGCCCATTAGGCCCAAATCACA
* *
56486166 TTTATATGGCCTATTAGGCCCA
1 TGTATATGGCCCATTAGGCCCA
56486188 GTCACGTTCA
Statistics
Matches: 70, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
27 1 0.01
28 17 0.24
29 51 0.73
30 1 0.01
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.28
Consensus pattern (29 bp):
TGTATATGGCCCATTAGGCCCAAATCACA
Found at i:56495885 original size:55 final size:54
Alignment explanation
Indices: 56495730--56495936 Score: 236
Period size: 53 Copynumber: 3.8 Consensus size: 54
56495720 TTTCCTTTTT
* * *
56495730 AACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * *
56495783 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
** * * * * *
56495837 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAG
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * *
56495892 AACTTACCAATGCCATGCCTTGGCATTGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
56495937 AAACCCTAAT
Statistics
Matches: 125, Mismatches: 27, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
53 46 0.37
54 37 0.30
55 42 0.34
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.38
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:56503350 original size:55 final size:54
Alignment explanation
Indices: 56503211--56503417 Score: 245
Period size: 53 Copynumber: 3.8 Consensus size: 54
56503201 TTTCCTTTTT
* * *
56503211 AACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * *
56503264 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
** * * * * *
56503318 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAG
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* *
56503373 AACTTACCAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
56503418 AAACCCTAAT
Statistics
Matches: 126, Mismatches: 26, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
53 46 0.37
54 38 0.30
55 42 0.33
ACGTcount: A:0.20, C:0.24, G:0.19, T:0.37
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:56510800 original size:55 final size:53
Alignment explanation
Indices: 56510680--56510809 Score: 143
Period size: 53 Copynumber: 2.4 Consensus size: 53
56510670 ACCATTTCCC
* * * *
56510680 TGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGAACTCACCATTGCCA
1 TGTCTTGACATGGTCTTACATGGGATACTTGCCTTATGAACTCACCAATGCCA
* * * * * * *
56510733 TGCCTTGGCATGGTCGTACATGGGATATTTGCCTTATAGTAATTTATCAATGCCA
1 TGTCTTGACATGGTCTTACATGGGATACTTGCCTTAT-G-AACTCACCAATGCCA
56510788 TGTCTTGACATGGTCTTACATG
1 TGTCTTGACATGGTCTTACATG
56510810 ATTTCCTTGC
Statistics
Matches: 61, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
53 30 0.49
54 1 0.02
55 30 0.49
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.37
Consensus pattern (53 bp):
TGTCTTGACATGGTCTTACATGGGATACTTGCCTTATGAACTCACCAATGCCA
Found at i:56510820 original size:55 final size:53
Alignment explanation
Indices: 56510680--56510871 Score: 156
Period size: 55 Copynumber: 3.6 Consensus size: 53
56510670 ACCATTTCCC
* * *
56510680 TGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTATGAACTCACCATTGCCA
1 TGTCTTGACATGGTCTTACATGATATCCTTGCCTTATGAACTCACCAATGCCA
* * * * * *
56510733 TGCCTTGGCATGGTCGTACATGGGATAT--TTGCCTTATAGTAATTTATCAATGCCA
1 TGTCTTGACATGGTCTTACAT--GATATCCTTGCCTTAT-G-AACTCACCAATGCCA
* * * * *
56510788 TGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAGAGCTTACCAATTCCA
1 TGTCTTGACATGGTCTTACATGATATCCTTGCCTTAT-GAACTCACCAATGCCA
* * *
56510842 TGCCTT-AGCATGGTCTTACTTGGTATCCTT
1 TGTCTTGA-CATGGTCTTACATGATATCCTT
56510872 AAACCCTAAT
Statistics
Matches: 110, Mismatches: 22, Indels: 13
0.76 0.15 0.09
Matches are distributed among these distances:
53 31 0.28
54 36 0.33
55 43 0.39
ACGTcount: A:0.20, C:0.23, G:0.19, T:0.38
Consensus pattern (53 bp):
TGTCTTGACATGGTCTTACATGATATCCTTGCCTTATGAACTCACCAATGCCA
Found at i:56514218 original size:29 final size:29
Alignment explanation
Indices: 56514178--56514237 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
56514168 TATATTCGGT
*
56514178 TAATACAATGAAATAAATGACCATATGAA
1 TAATACAATGAAATAAATGACCATATAAA
*
56514207 TAATACAATGAAATAGATGACCATATAAA
1 TAATACAATGAAATAAATGACCATATAAA
56514236 TA
1 TA
56514238 GTGGATTTTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.55, C:0.10, G:0.10, T:0.25
Consensus pattern (29 bp):
TAATACAATGAAATAAATGACCATATAAA
Found at i:56519544 original size:23 final size:23
Alignment explanation
Indices: 56519517--56519617 Score: 118
Period size: 22 Copynumber: 4.4 Consensus size: 23
56519507 GTTGATAAAT
56519517 AGTAAGCTCTATTGAGCTGAAAC
1 AGTAAGCTCTATTGAGCTGAAAC
* *
56519540 GGTAAGCTCTATCGAGCTG-AAC
1 AGTAAGCTCTATTGAGCTGAAAC
*
56519562 AGTAAGCTCCATTGAGCTGAAA-
1 AGTAAGCTCTATTGAGCTGAAAC
* *
56519584 AGTAAGCTCT-TACGAGTTGATAAC
1 AGTAAGCTCTAT-TGAGCTGA-AAC
56519608 AGTAAGCTCT
1 AGTAAGCTCT
56519618 TACGAGCTGA
Statistics
Matches: 66, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
21 1 0.02
22 34 0.52
23 21 0.32
24 10 0.15
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.26
Consensus pattern (23 bp):
AGTAAGCTCTATTGAGCTGAAAC
Found at i:56519614 original size:24 final size:24
Alignment explanation
Indices: 56519517--56519639 Score: 102
Period size: 22 Copynumber: 5.3 Consensus size: 24
56519507 GTTGATAAAT
*
56519517 AGTAAGCTC-TATTGAGCTGA-AAC
1 AGTAAGCTCTTA-CGAGCTGATAAC
*
56519540 GGTAAGCTC-TATCGAGCTG--AAC
1 AGTAAGCTCTTA-CGAGCTGATAAC
56519562 AGTAAGCTCCATT--GAGCTGA-AA-
1 AGTAAGCT-C-TTACGAGCTGATAAC
*
56519584 AGTAAGCTCTTACGAGTTGATAAC
1 AGTAAGCTCTTACGAGCTGATAAC
*
56519608 AGTAAGCTCTTACGAGCTGATATC
1 AGTAAGCTCTTACGAGCTGATAAC
*
56519632 GGTAAGCT
1 AGTAAGCT
56519640 TAAGTGAGTT
Statistics
Matches: 85, Mismatches: 7, Indels: 15
0.79 0.07 0.14
Matches are distributed among these distances:
20 2 0.02
21 1 0.01
22 30 0.35
23 22 0.26
24 29 0.34
25 1 0.01
ACGTcount: A:0.32, C:0.19, G:0.24, T:0.26
Consensus pattern (24 bp):
AGTAAGCTCTTACGAGCTGATAAC
Found at i:56519625 original size:46 final size:46
Alignment explanation
Indices: 56519505--56519627 Score: 121
Period size: 45 Copynumber: 2.7 Consensus size: 46
56519495 AGCTCCTCTT
* * *
56519505 GAGTTGATAAATAGTAAGCTCTATTGAGCTGAAACGGTAAGCTCTATC
1 GAGTTGAT-AACAGTAAGCTCT-TAGAGCTGAAACAGTAAGCTCTATC
*
56519553 GAGCTG--AACAGTAAGCTCCATT-GAGCTGAAA-AGTAAGCTCT-TAC
1 GAGTTGATAACAGTAAGCT-C-TTAGAGCTGAAACAGTAAGCTCTAT-C
56519597 GAGTTGATAACAGTAAGCTCTTACGAGCTGA
1 GAGTTGATAACAGTAAGCTCTTA-GAGCTGA
56519628 TATCGGTAAG
Statistics
Matches: 64, Mismatches: 4, Indels: 16
0.76 0.05 0.19
Matches are distributed among these distances:
43 1 0.02
44 17 0.27
45 20 0.31
46 20 0.31
47 1 0.02
48 5 0.08
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (46 bp):
GAGTTGATAACAGTAAGCTCTTAGAGCTGAAACAGTAAGCTCTATC
Found at i:56523379 original size:20 final size:20
Alignment explanation
Indices: 56523356--56523416 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
56523346 CTTATCTGCT
56523356 CCTATTTGTACTTCGATACC
1 CCTATTTGTACTTCGATACC
* * * *
56523376 CCTAATTGCACTT-GTGTGCC
1 CCTATTTGTACTTCG-ATACC
*
56523396 CTTATTTGTACTTCGATACC
1 CCTATTTGTACTTCGATACC
56523416 C
1 C
56523417 TGAATGCACA
Statistics
Matches: 30, Mismatches: 9, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
19 1 0.03
20 28 0.93
21 1 0.03
ACGTcount: A:0.18, C:0.30, G:0.13, T:0.39
Consensus pattern (20 bp):
CCTATTTGTACTTCGATACC
Found at i:56523387 original size:40 final size:40
Alignment explanation
Indices: 56523332--56523416 Score: 136
Period size: 40 Copynumber: 2.1 Consensus size: 40
56523322 ACAAATTTAG
56523332 TACCCCTAATTGCACTTATCTGCTCC-TATTTGTACTTCGA
1 TACCCCTAATTGCACTTATCTGC-CCTTATTTGTACTTCGA
* *
56523372 TACCCCTAATTGCACTTGTGTGCCCTTATTTGTACTTCGA
1 TACCCCTAATTGCACTTATCTGCCCTTATTTGTACTTCGA
56523412 TACCC
1 TACCC
56523417 TGAATGCACA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
39 2 0.05
40 40 0.95
ACGTcount: A:0.19, C:0.31, G:0.12, T:0.39
Consensus pattern (40 bp):
TACCCCTAATTGCACTTATCTGCCCTTATTTGTACTTCGA
Found at i:56523453 original size:20 final size:20
Alignment explanation
Indices: 56523414--56523497 Score: 80
Period size: 20 Copynumber: 4.2 Consensus size: 20
56523404 TACTTCGATA
*
56523414 CCCTGAATGCACATTT-GTGC
1 CCCTGATTGCAC-TTTGGTGC
* *
56523434 CCCTGTTTGCCCTTTGGTGC
1 CCCTGATTGCACTTTGGTGC
* * * *
56523454 CCCTGGTCGCACATTCGTGC
1 CCCTGATTGCACTTTGGTGC
*
56523474 TCCTGATTGCACTTTGGTGC
1 CCCTGATTGCACTTTGGTGC
56523494 CCCT
1 CCCT
56523498 ATTATCCATC
Statistics
Matches: 49, Mismatches: 14, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
19 3 0.06
20 46 0.94
ACGTcount: A:0.10, C:0.35, G:0.23, T:0.33
Consensus pattern (20 bp):
CCCTGATTGCACTTTGGTGC
Found at i:56523466 original size:40 final size:40
Alignment explanation
Indices: 56523422--56523497 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
56523412 TACCCTGAAT
* * *
56523422 GCACATTTGTGCCCCTGTTTGCCCTTTGGTGCCCCTGGTC
1 GCACATTCGTGCCCCTGATTGCACTTTGGTGCCCCTGGTC
*
56523462 GCACATTCGTGCTCCTGATTGCACTTTGGTGCCCCT
1 GCACATTCGTGCCCCTGATTGCACTTTGGTGCCCCT
56523498 ATTATCCATC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.08, C:0.34, G:0.24, T:0.34
Consensus pattern (40 bp):
GCACATTCGTGCCCCTGATTGCACTTTGGTGCCCCTGGTC
Found at i:56526115 original size:43 final size:42
Alignment explanation
Indices: 56526053--56526214 Score: 179
Period size: 42 Copynumber: 3.8 Consensus size: 42
56526043 TACCGTACCA
* *
56526053 ATGCCATATCCCAGATATGGTCTTACATGTAA-TCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACG-AAGTCTCATATCG
* * *
56526095 ATGCCAATAGCCCAGCTATGGAT-TTACACGAAGTCTCATATTG
1 ATGCC-ATATCCCAGATATGG-TCTTACACGAAGTCTCATATCG
*
56526138 ATGCCATATCCCAGATATGTTCTTACAC-ATAGTCTCATAGT-G
1 ATGCCATATCCCAGATATGGTCTTACACGA-AGTCTCATA-TCG
* *
56526180 ATGCCATATCCCAGATATAGTCTTACACGTAGTCT
1 ATGCCATATCCCAGATATGGTCTTACACGAAGTCT
56526215 TAGTAACCCT
Statistics
Matches: 102, Mismatches: 11, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
41 2 0.02
42 66 0.65
43 33 0.32
44 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
Found at i:56526357 original size:11 final size:11
Alignment explanation
Indices: 56526329--56526379 Score: 67
Period size: 9 Copynumber: 5.1 Consensus size: 11
56526319 GATTCATACA
56526329 ATAA-TAAAAC
1 ATAATTAAAAC
56526339 AT--TTAAAAC
1 ATAATTAAAAC
56526348 ATAATTAAAAC
1 ATAATTAAAAC
56526359 AT--TTAAAAC
1 ATAATTAAAAC
56526368 ATAATTAAAAC
1 ATAATTAAAAC
56526379 A
1 A
56526380 ATGCATTAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
9 17 0.47
10 2 0.06
11 17 0.47
ACGTcount: A:0.63, C:0.10, G:0.00, T:0.27
Consensus pattern (11 bp):
ATAATTAAAAC
Found at i:56526358 original size:20 final size:20
Alignment explanation
Indices: 56526329--56526379 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
56526319 GATTCATACA
56526329 ATAA-TAAAACATTTAAAAC
1 ATAATTAAAACATTTAAAAC
56526348 ATAATTAAAACATTTAAAAC
1 ATAATTAAAACATTTAAAAC
56526368 ATAATTAAAACA
1 ATAATTAAAACA
56526380 ATGCATTAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 4 0.13
20 27 0.87
ACGTcount: A:0.63, C:0.10, G:0.00, T:0.27
Consensus pattern (20 bp):
ATAATTAAAACATTTAAAAC
Found at i:56529317 original size:43 final size:44
Alignment explanation
Indices: 56529234--56529347 Score: 133
Period size: 43 Copynumber: 2.6 Consensus size: 44
56529224 ATATCGTACA
* * *
56529234 ATGCCAACGTCCCAGACGTGGTCTTACATGCTATCTC-ATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGCTACCACAATATCG
** *
56529277 ATGCCATTGTCCCAGACATGGTCTTACACG-TAACCACATATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACGCT-ACCACA-ATATCG
*
56529322 ATGCCAACATCCCAGACGTGGTCTTA
1 ATGCCAACGTCCCAGACGTGGTCTTA
56529348 TACGAGAACA
Statistics
Matches: 58, Mismatches: 10, Indels: 4
0.81 0.14 0.06
Matches are distributed among these distances:
42 1 0.02
43 29 0.50
45 28 0.48
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (44 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGCTACCACAATATCG
Found at i:56529360 original size:45 final size:45
Alignment explanation
Indices: 56529271--56529362 Score: 114
Period size: 45 Copynumber: 2.0 Consensus size: 45
56529261 ATGCTATCTC
*** *
56529271 ATATCGATGCCATTGTCCCAGACATGGTCTTACACGTAACCACAT
1 ATATCGATGCCAACATCCCAGACATGGTCTTACACGTAAACACAT
* *
56529316 ATATCGATGCCAACATCCCAGACGTGGTCTTATACG-AGAACACAT
1 ATATCGATGCCAACATCCCAGACATGGTCTTACACGTA-AACACAT
56529361 AT
1 AT
56529363 TAGAAATCCT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
44 1 0.03
45 39 0.98
ACGTcount: A:0.32, C:0.27, G:0.16, T:0.25
Consensus pattern (45 bp):
ATATCGATGCCAACATCCCAGACATGGTCTTACACGTAAACACAT
Found at i:56530105 original size:18 final size:19
Alignment explanation
Indices: 56530082--56530121 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
56530072 ACTGCAACAA
*
56530082 TATTAAAAA-TGTAAAAAT
1 TATTAAAAATTGAAAAAAT
56530100 TATTAAAAATTGAAAAAAT
1 TATTAAAAATTGAAAAAAT
56530119 TAT
1 TAT
56530122 CGGGCCGTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (19 bp):
TATTAAAAATTGAAAAAAT
Found at i:56534729 original size:43 final size:43
Alignment explanation
Indices: 56534639--56534740 Score: 116
Period size: 43 Copynumber: 2.4 Consensus size: 43
56534629 ATCCAGATGA
* * * * * *
56534639 GATTACATATAAGACCATGTCTGGGACATTGGCATTGTATTAT
1 GATTACGTCTAAGACCATGTCTGAGACATTAGCATCGTATAAT
*
56534682 GATTATGTCTAAGACCATGTCTGAGACATTAGCATCGT-TAAT
1 GATTACGTCTAAGACCATGTCTGAGACATTAGCATCGTATAAT
*
56534724 CGATTACGTGTAAGACC
1 -GATTACGTCTAAGACC
56534741 CTGCTTGGGA
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 3 0.06
43 46 0.94
ACGTcount: A:0.30, C:0.17, G:0.21, T:0.32
Consensus pattern (43 bp):
GATTACGTCTAAGACCATGTCTGAGACATTAGCATCGTATAAT
Found at i:56551815 original size:40 final size:40
Alignment explanation
Indices: 56551760--56551928 Score: 194
Period size: 40 Copynumber: 4.2 Consensus size: 40
56551750 TGGTCTTAAC
*
56551760 TGCTAGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCA
1 TGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCA
* * *
56551800 TGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCG
1 TGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCA
* ** *
56551840 TGCTAGTGATATATCCGTGCTAAACCCCGAAGAGCATTCG
1 TGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCA
* * * * * * *
56551880 TGCTGGTGTTATATTCGAGCTAGGTCCCAAAGAGCAATCA
1 TGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCA
*
56551920 TGCTGGTGA
1 TGCTAGTGA
56551929 CGTGTATTGG
Statistics
Matches: 111, Mismatches: 18, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 111 1.00
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (40 bp):
TGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCA
Found at i:56555415 original size:47 final size:47
Alignment explanation
Indices: 56555361--56555865 Score: 785
Period size: 47 Copynumber: 10.6 Consensus size: 47
56555351 TATTTGAATA
* *
56555361 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
56555408 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
56555457 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
56555504 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
56555553 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
56555602 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
56555649 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
56555698 AACGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
56555745 AATGTGAAATTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
56555792 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
56555839 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
56555866 TCCCGAAGGG
Statistics
Matches: 426, Mismatches: 26, Indels: 12
0.92 0.06 0.03
Matches are distributed among these distances:
47 243 0.57
49 183 0.43
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:56555469 original size:96 final size:94
Alignment explanation
Indices: 56555361--56555865 Score: 785
Period size: 96 Copynumber: 5.3 Consensus size: 94
56555351 TATTTGAATA
* *
56555361 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATA
56555426 TATGTGATAAGGCCTAATGGCCGATGTGATG
64 TATGTGATAAGGCCTAATGGCCGATGTGATG
* *
56555457 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATA
56555522 TATGTGATAAGGCCTAATGGCCGATGTGATG
64 TATGTGATAAGGCCTAATGGCCGATGTGATG
56555553 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* *
56555618 TATGTGATAAGGCCGAATGGCCAATGTGATG
64 TATGTGATAAGGCCTAATGGCCGATGTGATG
*
56555649 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAACGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
*
56555714 TATGTGATAAGGCCTAATAGCCGATGTGATG
64 TATGTGATAAGGCCTAATGGCCGATGTGATG
*
56555745 AATGTGAAATTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * *
56555810 TGTGACAGGGCCGAGTGGCCAACGTGATG
66 TGTGATAAGGCCTAATGGCCGATGTGATG
* *
56555839 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
56555866 TCCCGAAGGG
Statistics
Matches: 387, Mismatches: 20, Indels: 6
0.94 0.05 0.01
Matches are distributed among these distances:
94 98 0.25
96 244 0.63
98 45 0.12
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (94 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:56558407 original size:38 final size:37
Alignment explanation
Indices: 56558318--56558390 Score: 130
Period size: 38 Copynumber: 2.0 Consensus size: 37
56558308 TTATAGAGAT
56558318 TAAAGA-CCGATGGCTATGTAAGAGATTATGTCCGGG
1 TAAAGACCCGATGGCTATGTAAGAGATTATGTCCGGG
56558354 TAAAGACCCGATGGCTATGTACAGAGATTATGTCCGG
1 TAAAGACCCGATGGCTATGTA-AGAGATTATGTCCGG
56558391 ATTAAAATTC
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
36 6 0.17
37 14 0.40
38 15 0.43
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.25
Consensus pattern (37 bp):
TAAAGACCCGATGGCTATGTAAGAGATTATGTCCGGG
Found at i:56558598 original size:119 final size:118
Alignment explanation
Indices: 56558444--56558761 Score: 496
Period size: 119 Copynumber: 2.7 Consensus size: 118
56558434 AGGTCTCGAC
56558444 GATG-ATCCGGGCTAAGTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGT-CCGAAGA
1 GATGTATCCGGGCTAAGTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGA
56558507 GCATTCATGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
66 GCATTCATGCTAGTGATGTATCC-GGCTAAGTTCCGAAGAGCATTCGTGCTAGT
56558561 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAG
1 GATGTATCCGGGCTAAG-TCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAG
56558626 AGCATTCATGCTAGTGATGTATCCGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
65 AGCATTCATGCTAGTGATGTATCCGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
* * ** * * * * *
56558680 GATATATCCGTGCTAAACCCCGAAGAGCATTTGTGCTGGTGTTATATCCGGGCTAGGTCCCGAAG
1 GATGTATCCGGGCT-AAGTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAG
* *
56558745 AGCAATCATGCTGGTGA
65 AGCATTCATGCTAGTGA
56558762 CGTGTATTCG
Statistics
Matches: 186, Mismatches: 11, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
117 4 0.02
118 12 0.06
119 138 0.74
120 32 0.17
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (118 bp):
GATGTATCCGGGCTAAGTCCGAAGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGAAGA
GCATTCATGCTAGTGATGTATCCGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
Found at i:56558760 original size:40 final size:40
Alignment explanation
Indices: 56558444--56558748 Score: 456
Period size: 40 Copynumber: 7.7 Consensus size: 40
56558434 AGGTCTCGAC
56558444 GATG-ATCCGGGCTAAGT-CCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
56558482 GATGTATCCGGGCTAAGT-CCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
56558521 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
56558561 GATGTATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
56558601 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
*
56558641 GATGTATCC-GGCTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * ** * *
56558680 GATATATCCGTGCTAAACCCCGAAGAGCATTTGTGCTGGT
1 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
* * *
56558720 GTTATATCCGGGCTAGGTCCCGAAGAGCA
1 GATGTATCCGGGCTAAGTCCCGAAGAGCA
56558749 ATCATGCTGG
Statistics
Matches: 246, Mismatches: 18, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
38 4 0.02
39 87 0.35
40 155 0.63
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
GATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
Found at i:56562245 original size:47 final size:47
Alignment explanation
Indices: 56562191--56562650 Score: 713
Period size: 47 Copynumber: 9.7 Consensus size: 47
56562181 TATTTGAATA
*
56562191 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATG
*
56562238 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATG
*
56562285 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATG
*
56562332 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCGATGTGATG
*
56562381 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATG
*
56562428 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATG
* * *
56562475 AATGCGGAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCGATGTGATG
* *
56562524 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATG
* * * * *
56562571 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATG
* * *
56562618 GATGTGAAAGTGTATAAATGTGATAAGTCCGAA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAA
56562651 GGGCAATTGT
Statistics
Matches: 381, Mismatches: 28, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
47 293 0.77
49 88 0.23
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCGATGTGATG
Found at i:56562377 original size:96 final size:94
Alignment explanation
Indices: 56562191--56562644 Score: 737
Period size: 96 Copynumber: 4.8 Consensus size: 94
56562181 TATTTGAATA
56562191 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
56562256 TGTGATAAGGCCTAATGGCCGATGTGATG
66 TGTGATAAGGCCTAATGGCCGATGTGATG
56562285 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG--TATA
56562350 TATGTGATAAGGCCTAATGGCCGATGTGATG
64 TATGTGATAAGGCCTAATGGCCGATGTGATG
* *
56562381 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
* *
56562446 TGTGATAAGGCCGAATGGCCAATGTGATG
66 TGTGATAAGGCCTAATGGCCGATGTGATG
* * * *
56562475 AATGCGGAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
*
56562540 TATGTGATAAGGCCTAATAGCCGATGTGATG
64 TATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
56562571 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
56562636 TGTGATAAG
66 TGTGATAAG
56562645 TCCGAAGGGC
Statistics
Matches: 337, Mismatches: 19, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
94 156 0.46
96 181 0.54
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (94 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:56562447 original size:143 final size:143
Alignment explanation
Indices: 56562191--56562644 Score: 790
Period size: 143 Copynumber: 3.2 Consensus size: 143
56562181 TATTTGAATA
* *
56562191 AATGTGAAAGTG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
56562254 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAAT
66 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAAT
56562319 GGCCAATGTGATG
131 GGCCAATGTGATG
56562332 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
56562397 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAAT
66 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAAT
56562462 GGCCAATGTGATG
131 GGCCAATGTGATG
* *
56562475 AATGCGGAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
* * * *
56562540 TATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGT
66 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAAT
*
56562605 GGCCAACGTGATG
131 GGCCAATGTGATG
*
56562618 GATGTGAAAGTGTATA-A-ATGTGATAAG
1 AATGTGAAAGTGTATATATATGTGATAAG
56562645 TCCGAAGGGC
Statistics
Matches: 299, Mismatches: 12, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
141 22 0.07
142 1 0.00
143 276 0.92
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (143 bp):
AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAAT
GGCCAATGTGATG
Found at i:56562542 original size:190 final size:189
Alignment explanation
Indices: 56562191--56562650 Score: 742
Period size: 190 Copynumber: 2.4 Consensus size: 189
56562181 TATTTGAATA
56562191 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
* * *
56562256 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATGG
66 TGTGATAAGGCCGAATGGCCAATGTGATGAATGCGAAAGTGTATATATGTGATAAGGCCGAATGG
*
56562321 CCAATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
131 CCAATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATAGCCGATGTGATG
* *
56562381 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
* *
56562446 TGTGATAAGGCCGAATGGCCAATGTGATGAATGCGGAAGTGTATATATATGTGATAAGGCCTAAT
66 TGTGATAAGGCCGAATGGCCAATGTGATGAATGCGAAAGTG--TATATATGTGATAAGGCCGAAT
*
56562511 GGCCGATGTGATGAATGTGAAAGTG-TATATATGTGATAAGGCCTAATAGCCGATGTGATG
129 GGCCAATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATAGCCGATGTGATG
* * * * * *
56562571 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAA
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
*
56562636 TGTGATAAGTCCGAA
66 TGTGATAAGGCCGAA
56562651 GGGCAATTGT
Statistics
Matches: 250, Mismatches: 18, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
190 205 0.82
192 45 0.18
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (189 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
TGTGATAAGGCCGAATGGCCAATGTGATGAATGCGAAAGTGTATATATGTGATAAGGCCGAATGG
CCAATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATAGCCGATGTGATG
Found at i:56566520 original size:85 final size:86
Alignment explanation
Indices: 56566363--56566520 Score: 239
Period size: 85 Copynumber: 1.8 Consensus size: 86
56566353 CTAGATTATC
** * *
56566363 GTATAAGACTGTGTCTGGGACACTGGCATCGATTTGAAATTTACATGTAAGACCATGTCTAGGAC
1 GTATAAGACCCTGTCTGGGACACAGGCATCGATCTGAAATTTACATGTAAGACCATGTCTAGGAC
56566428 ATCGGCATCGTATCTGTTTTT
66 ATCGGCATCGTATCTGTTTTT
*
56566449 GTATAAGACCCTGTCTGGGACAGAGGCATCGATACTG-AA-TTACATGTAAGACCATGTCTAGGA
1 GTATAAGACCCTGTCTGGGACACAGGCATCGAT-CTGAAATTTACATGTAAGACCATGTCTAGGA
*
56566512 CATTGGCAT
65 CATCGGCAT
56566521 TGTGCTTGTC
Statistics
Matches: 65, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
85 32 0.49
86 31 0.48
87 2 0.03
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.30
Consensus pattern (86 bp):
GTATAAGACCCTGTCTGGGACACAGGCATCGATCTGAAATTTACATGTAAGACCATGTCTAGGAC
ATCGGCATCGTATCTGTTTTT
Found at i:56567807 original size:41 final size:42
Alignment explanation
Indices: 56567727--56567831 Score: 117
Period size: 41 Copynumber: 2.5 Consensus size: 42
56567717 TCTCAAACGT
* *
56567727 GGTCTTACATGCTATCTCATAT-CAATGCCACTGTACCAGACAG
1 GGTCTTACATG-TAAC-CAAATACAATGCCACTGTACCAGACAG
* * *
56567770 GGTCTTACATG-AATCAAATACAATGCCGA-TGTCCCAGACAT
1 GGTCTTACATGTAACCAAATACAATGCC-ACTGTACCAGACAG
56567811 GGTCTTACATGTAACCAAATA
1 GGTCTTACATGTAACCAAATA
56567832 TATCGATGCC
Statistics
Matches: 53, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
40 4 0.08
41 29 0.55
42 9 0.17
43 11 0.21
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (42 bp):
GGTCTTACATGTAACCAAATACAATGCCACTGTACCAGACAG
Found at i:56567917 original size:46 final size:45
Alignment explanation
Indices: 56567810--56567955 Score: 177
Period size: 45 Copynumber: 3.2 Consensus size: 45
56567800 GTCCCAGACA
* * ** *
56567810 TGGTCTTACATGTAACCAAATATATCGATGCCAACGTCCCAAACG
1 TGGTCTTACATGAAAACACTTATATCGATGCCAACGTCCAAAACG
56567855 TGGTCTTACATGAAAACACTTATATCGATGCCAACGTCCAAAAACG
1 TGGTCTTACATGAAAACACTTATATCGATGCCAACGTCC-AAAACG
* * * * *
56567901 TGGTCTTCCACT-AAAACACTTATATCGATGCTAACATCCCAGACG
1 TGGTCTTACA-TGAAAACACTTATATCGATGCCAACGTCCAAAACG
56567946 TGGTCTTACA
1 TGGTCTTACA
56567956 CGAAGGCACA
Statistics
Matches: 88, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
45 48 0.55
46 39 0.44
47 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (45 bp):
TGGTCTTACATGAAAACACTTATATCGATGCCAACGTCCAAAACG
Found at i:56568518 original size:15 final size:15
Alignment explanation
Indices: 56568495--56568525 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
56568485 TCAAAAATTC
56568495 CAATACAAAACATAT
1 CAATACAAAACATAT
*
56568510 CAATCCAAAACATAT
1 CAATACAAAACATAT
56568525 C
1 C
56568526 TTTCATATTT
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:0.55, C:0.26, G:0.00, T:0.19
Consensus pattern (15 bp):
CAATACAAAACATAT
Found at i:56568889 original size:23 final size:23
Alignment explanation
Indices: 56568819--56568897 Score: 83
Period size: 23 Copynumber: 3.6 Consensus size: 23
56568809 TTACAAATAT
*
56568819 AACCTTTATAATTAAATAACTAA
1 AACCTTTATAATTAAGTAACTAA
* * * * *
56568842 AACATATAT-ATCAAG-GA-TAT
1 AACCTTTATAATTAAGTAACTAA
56568862 AACCTTTATAATTAAGTAACTAA
1 AACCTTTATAATTAAGTAACTAA
56568885 AACCTTTATAATT
1 AACCTTTATAATT
56568898 TAACCACCAA
Statistics
Matches: 42, Mismatches: 11, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
20 9 0.21
21 6 0.14
22 5 0.12
23 22 0.52
ACGTcount: A:0.48, C:0.13, G:0.04, T:0.35
Consensus pattern (23 bp):
AACCTTTATAATTAAGTAACTAA
Found at i:56571580 original size:14 final size:14
Alignment explanation
Indices: 56571557--56571599 Score: 52
Period size: 15 Copynumber: 3.0 Consensus size: 14
56571547 TATTTTTTTC
56571557 ATTTTCTCTTCTTCT
1 ATTTT-TCTTCTTCT
56571572 ATTTTTCTTCTTCTT
1 ATTTTTCTTCTTC-T
*
56571587 GTTTTTCTT-TTCT
1 ATTTTTCTTCTTCT
56571600 CCCCTATAGC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
13 1 0.04
14 11 0.42
15 14 0.54
ACGTcount: A:0.05, C:0.21, G:0.02, T:0.72
Consensus pattern (14 bp):
ATTTTTCTTCTTCT
Found at i:56574955 original size:43 final size:41
Alignment explanation
Indices: 56574859--56575013 Score: 139
Period size: 43 Copynumber: 3.6 Consensus size: 41
56574849 ATCGAGATGA
* * * * *
56574859 GATTACATGTAAGACCATGTTTGGGACATTGACATTGTATT
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATC
* *
56574900 GTAATTAAGTGTAATACCATGTCTGGGACATTGGCATCGTTAATC
1 G--ATTACGTGTAAGACCATGTCTGGGACATTGGCATCG-T-ATC
* * *
56574945 GATTACGTGTAAGACCCTGTCTGGGACAGTGGCATCGATATGT
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCG-TAT-C
* * *
56574988 GATAACATGTAAGACCATATCTGGGA
1 GATTACGTGTAAGACCATGTCTGGGA
56575014 TATGGAATTG
Statistics
Matches: 92, Mismatches: 17, Indels: 8
0.79 0.15 0.07
Matches are distributed among these distances:
41 1 0.01
42 2 0.02
43 85 0.92
44 1 0.01
45 3 0.03
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (41 bp):
GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATC
Found at i:56575994 original size:45 final size:45
Alignment explanation
Indices: 56575893--56576019 Score: 156
Period size: 45 Copynumber: 2.9 Consensus size: 45
56575883 TTTTCTCAAA
* *
56575893 TCACCGGCATT-TCGCCTGTTAGGCTCG-AGGCCCG-ATATCAGT
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATATCAGT
*
56575935 TCACCAGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGT-A-T
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATA-TCAGT
* *
56575979 CTCACCGGCATTATAGTCTGCTAGGCTCAAAGGCCCGAATA
1 -TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATA
56576020 ATCAAGTCAA
Statistics
Matches: 74, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
42 10 0.14
43 14 0.19
44 8 0.11
45 41 0.55
46 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.24
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATATCAGT
Found at i:56576397 original size:43 final size:43
Alignment explanation
Indices: 56576349--56576539 Score: 288
Period size: 43 Copynumber: 4.6 Consensus size: 43
56576339 CCGGCATTAC
* *
56576349 GCCTGCTAGGGACGAAAGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
56576392 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
56576435 GCCTACTAGG--C-AAGGCCC-AATACACATC-CCGGCACTAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
56576473 GCCTGC-AGGCACGAAGGCCCGAATACACATCACCGGCA-TAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
56576514 GCCTGCTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
56576540 TAATACCAGC
Statistics
Matches: 137, Mismatches: 5, Indels: 13
0.88 0.03 0.08
Matches are distributed among these distances:
37 3 0.02
38 14 0.10
39 11 0.08
40 14 0.10
41 20 0.15
42 25 0.18
43 50 0.36
ACGTcount: A:0.31, C:0.34, G:0.25, T:0.10
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:56576493 original size:80 final size:82
Alignment explanation
Indices: 56576366--56576539 Score: 264
Period size: 80 Copynumber: 2.1 Consensus size: 82
56576356 AGGGACGAAA
56576366 GCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCA
1 GCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCA
56576431 CGAAGCCTACTAGGCAAG
66 -GAAGCCTACTAGGCAAG
*
56576449 GCCC-AATACACATC-CCGGCACTAAGCCTGC-AGGCACGAAGGCCCGAATACACATCACCGGCA
1 GCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCA
* *
56576511 TAAGCCTGCTAGGCACGAAG
66 GAAGCCTACTAGG--C-AAG
56576531 GCCCGAATA
1 GCCCGAATA
56576540 TAATACCAGC
Statistics
Matches: 84, Mismatches: 3, Indels: 8
0.88 0.03 0.08
Matches are distributed among these distances:
79 11 0.13
80 32 0.38
81 16 0.19
82 17 0.20
83 8 0.10
ACGTcount: A:0.31, C:0.35, G:0.24, T:0.10
Consensus pattern (82 bp):
GCCCGAATACACATCACCGGCACGAAGCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCA
GAAGCCTACTAGGCAAG
Found at i:56581836 original size:31 final size:31
Alignment explanation
Indices: 56581798--56581876 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
56581788 TTTAACGGTT
56581798 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
56581829 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
* **
56581860 ATTGGGCTAAAGCCTTT
1 ACTGGGCCGAAGCCTTT
56581877 ACTGTAAACG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:56581978 original size:42 final size:41
Alignment explanation
Indices: 56581900--56581992 Score: 116
Period size: 42 Copynumber: 2.2 Consensus size: 41
56581890 TGGCCCTTAG
* **
56581900 GCCCATTTCAATATCACATGTAATGTCAAAGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAAA-GATGTATGCAA
56581942 GCCCATTTCAATATCACATGAAATACCGATAA-ATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACC-A-AAGATGTATGCAA
*
56581984 GCCTATTTC
1 GCCCATTTC
56581993 GGAGACTACT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
42 42 0.93
43 1 0.02
44 2 0.04
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (41 bp):
GCCCATTTCAATATCACATGAAATACCAAAGATGTATGCAA
Found at i:56582187 original size:26 final size:26
Alignment explanation
Indices: 56582135--56582258 Score: 187
Period size: 26 Copynumber: 4.8 Consensus size: 26
56582125 CCTCTTTAAT
*
56582135 AACTGGGGCA-AAGCCCTTTTTAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
**
56582160 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
56582186 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
**
56582212 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
56582238 AATTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
56582259 GCACTTCCTC
Statistics
Matches: 90, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
25 10 0.11
26 80 0.89
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:56582212 original size:52 final size:52
Alignment explanation
Indices: 56582135--56582258 Score: 223
Period size: 52 Copynumber: 2.4 Consensus size: 52
56582125 CCTCTTTAAT
*
56582135 AACTGGGGCA-AAGCCCTTTTTAATAAACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTA
56582186 AACTGGGGCATAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTA
*
56582238 AATTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
56582259 GCACTTCCTC
Statistics
Matches: 70, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
51 10 0.14
52 60 0.86
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (52 bp):
AACTGGGGCATAAGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTA
Found at i:56583114 original size:27 final size:27
Alignment explanation
Indices: 56583084--56583161 Score: 113
Period size: 27 Copynumber: 2.9 Consensus size: 27
56583074 ACAAGGGTAG
56583084 TACGGTCACTTTACCCTATAGGGGCTT
1 TACGGTCACTTTACCCTATAGGGGCTT
*
56583111 TACGATCACTTTACCCTATAGGGGCTT
1 TACGGTCACTTTACCCTATAGGGGCTT
**
56583138 TACGGTCTTTTTA-CCTAATAGGGG
1 TACGGTCACTTTACCCT-ATAGGGG
56583162 TATTTTAGTC
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
26 3 0.07
27 43 0.93
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.35
Consensus pattern (27 bp):
TACGGTCACTTTACCCTATAGGGGCTT
Found at i:56583236 original size:27 final size:27
Alignment explanation
Indices: 56583183--56583540 Score: 224
Period size: 27 Copynumber: 13.3 Consensus size: 27
56583173 TTTCATCCTA
* * * *
56583183 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
** *
56583210 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* *** * *
56583237 CAATGGTATTTCCATAATTTTTAGAAAGT
1 CAAGGGTATTTTGGTAA-TTTTATAAA-C
* *
56583266 CAAGGGTATTTCT-GTAACTTTATAAAT
1 CAAGGGTATTT-TGGTAATTTTATAAAC
* *
56583293 CAGGGGTATTTTGGTAATTTTACAAA-
1 CAAGGGTATTTTGGTAATTTTATAAAC
** * *
56583319 TTAGGGTATTTTGGTAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
*
56583346 C-AGTGGTATTTTGGTAATTTTACAAAC
1 CAAG-GGTATTTTGGTAATTTTATAAAC
* * * *
56583373 TAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
*** * * *
56583400 TGCGGATATTTCGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * * *
56583427 CAGGGGTATTTTAGCAA-TTTATAGA-
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * *
56583452 CTAGGGTATTTTGGTAATTTTACT-GAT
1 CAAGGGTATTTTGGTAATTTTA-TAAAC
* *
56583479 CGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTATAAAC
* * *
56583506 CAAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTATAAAC
*
56583533 CGAGGGTA
1 CAAGGGTA
56583541 AAACAATAAT
Statistics
Matches: 264, Mismatches: 56, Indels: 22
0.77 0.16 0.06
Matches are distributed among these distances:
25 13 0.05
26 38 0.14
27 185 0.70
28 15 0.06
29 13 0.05
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTATAAAC
Found at i:56583535 original size:54 final size:54
Alignment explanation
Indices: 56583183--56583540 Score: 262
Period size: 54 Copynumber: 6.6 Consensus size: 54
56583173 TTTCATCCTA
* * * * * ** *
56583183 CAAGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTATAAAC
* *** * * * *
56583237 CAATGGTATTTCCATAATTTTTAGAAAGTCAAGGGTATTTCT-GTAACTTTATAAAT
1 CAAGGGTATTTTGGTAA-TTTTACAAA-TCGAGGGTATTT-TGGTAATTTTATAAAC
* * * *
56583293 CAGGGGTATTTTGGTAATTTTACAAAT-TAGGGTATTTTGGTAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTATAAAC
* * *
56583346 C-AGTGGTATTTTGGTAATTTTACAAA-CTAGGGGTATTTTGGTAATTTTACAAAT
1 CAAG-GGTATTTTGGTAATTTTACAAATCGA-GGGTATTTTGGTAATTTTATAAAC
*** * * * * * *
56583400 TGCGGATATTTCGGTAATTTTACAAA-CCAGGGGTATTTTAGCAA-TTTATAGA-
1 CAAGGGTATTTTGGTAATTTTACAAATCGA-GGGTATTTTGGTAATTTTATAAAC
* ** *
56583452 CTAGGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTATAAAC
* **
56583506 CAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTA
1 CAAGGGTATTTTGGTAATTTTACAAATCGAGGGTA
56583541 AAACAATAAT
Statistics
Matches: 239, Mismatches: 54, Indels: 22
0.76 0.17 0.07
Matches are distributed among these distances:
52 33 0.14
53 58 0.24
54 99 0.41
55 15 0.06
56 34 0.14
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.39
Consensus pattern (54 bp):
CAAGGGTATTTTGGTAATTTTACAAATCGAGGGTATTTTGGTAATTTTATAAAC
Found at i:56583550 original size:27 final size:27
Alignment explanation
Indices: 56583518--56583621 Score: 145
Period size: 27 Copynumber: 3.9 Consensus size: 27
56583508 AGGGTATTTT
* *
56583518 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAAC
* * * *
56583545 AATAATTCTGTAAATCAAGGGTAAAAT
1 AGTAATTCTATAAATCGAGGGTAAAAC
56583572 AGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAAAAC
*
56583599 GGTAATTCTATAAATCGAGGGTA
1 AGTAATTCTATAAATCGAGGGTA
56583622 CTTTGGTAAT
Statistics
Matches: 68, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 68 1.00
ACGTcount: A:0.42, C:0.09, G:0.20, T:0.29
Consensus pattern (27 bp):
AGTAATTCTATAAATCGAGGGTAAAAC
Found at i:56583551 original size:54 final size:54
Alignment explanation
Indices: 56583493--56583635 Score: 169
Period size: 54 Copynumber: 2.6 Consensus size: 54
56583483 GGTATTTTGG
* * * *
56583493 TAATTTTGTAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACAA
1 TAATTCTGTAAATCAAGGGTAATTTAGTAATTTTATAAATCGAGGGTAAAACAA
** * **
56583547 TAATTCTGTAAATCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAACGG
1 TAATTCTGTAAATCAAGGGTAATTTAGTAATTTTATAAATCGAGGGTAAAACAA
* * * *
56583601 TAATTCTATAAATCGAGGGTACTTTGGTAATTTTA
1 TAATTCTGTAAATCAAGGGTAATTTAGTAATTTTA
56583636 CAATTTGAGG
Statistics
Matches: 73, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 73 1.00
ACGTcount: A:0.38, C:0.08, G:0.19, T:0.34
Consensus pattern (54 bp):
TAATTCTGTAAATCAAGGGTAATTTAGTAATTTTATAAATCGAGGGTAAAACAA
Found at i:56583629 original size:27 final size:27
Alignment explanation
Indices: 56583454--56583632 Score: 108
Period size: 27 Copynumber: 6.6 Consensus size: 27
56583444 TTTATAGACT
* * *
56583454 AGGGTATTTTGGTAATTTTACT-GATCG
1 AGGGTAATTTGGTAATTCTA-TAAATCG
* * * * *
56583481 AGGGTATTTTGGTAATTTTGTAAACCA
1 AGGGTAATTTGGTAATTCTATAAATCG
* * * *
56583508 AGGGTATTTTAGTAATTTTGTAAATCG
1 AGGGTAATTTGGTAATTCTATAAATCG
***** * *
56583535 AGGGTAAAACAATAATTCTGTAAATCA
1 AGGGTAATTTGGTAATTCTATAAATCG
** *
56583562 AGGGTAAAATAGTAATTCTATAAATCG
1 AGGGTAATTTGGTAATTCTATAAATCG
***
56583589 AGGGTAAAACGGTAATTCTATAAATCG
1 AGGGTAATTTGGTAATTCTATAAATCG
*
56583616 AGGGTACTTTGGTAATT
1 AGGGTAATTTGGTAATT
56583633 TTACAATTTG
Statistics
Matches: 127, Mismatches: 24, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
26 1 0.01
27 126 0.99
ACGTcount: A:0.35, C:0.08, G:0.22, T:0.36
Consensus pattern (27 bp):
AGGGTAATTTGGTAATTCTATAAATCG
Found at i:56585168 original size:45 final size:45
Alignment explanation
Indices: 56585068--56585194 Score: 138
Period size: 45 Copynumber: 2.9 Consensus size: 45
56585058 TTTTCTCAAA
* *
56585068 TCACCGGCATT-TCGCCTGTTAGGCTCG-AGGCCCG-ATATCAGT
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATATCAGT
56585110 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATAGT-A-T
1 TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATA-TCAGT
** * * *
56585154 CTCACCGGCATTATAGTTTGCTAAGCTCAAAGGCTCGAATA
1 -TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATA
56585195 ATCAAGTCAA
Statistics
Matches: 73, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
42 11 0.15
43 14 0.19
44 8 0.11
45 39 0.53
46 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCGAAGGCCCGAATATCAGT
Found at i:56585585 original size:43 final size:43
Alignment explanation
Indices: 56585511--56585699 Score: 274
Period size: 43 Copynumber: 4.4 Consensus size: 43
56585501 ACATGTCATT
* *
56585511 TCACCGGCATTACGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
* * *
56585554 TCACTGGAACGAAGCCTGCTAGGCACGAAGGCCCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
* *
56585597 TCCCCGGCACTAAGCCTGCTAGGTACGAAGGCCCGAATACACA
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
*
56585640 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATATA-A
1 TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
* *
56585682 T-ACCAGCACTAGGCCTGC
1 TCACCGGCACTAAGCCTGC
56585700 GGGATTTATC
Statistics
Matches: 131, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
41 15 0.11
42 2 0.02
43 114 0.87
ACGTcount: A:0.29, C:0.33, G:0.24, T:0.14
Consensus pattern (43 bp):
TCACCGGCACTAAGCCTGCTAGGCACGAAGGCCCGAATACACA
Found at i:56594034 original size:15 final size:15
Alignment explanation
Indices: 56593993--56594052 Score: 66
Period size: 15 Copynumber: 4.0 Consensus size: 15
56593983 TATAGATAAC
* * *
56593993 AAGAAAACCAGGATT
1 AAGAAATCCAAGATA
*
56594008 AAGAAGTCCAAGATA
1 AAGAAATCCAAGATA
* *
56594023 GATAAATCCAAGATA
1 AAGAAATCCAAGATA
56594038 AAGAAATCCAAGATA
1 AAGAAATCCAAGATA
56594053 CAATATCATA
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 36 1.00
ACGTcount: A:0.55, C:0.13, G:0.17, T:0.15
Consensus pattern (15 bp):
AAGAAATCCAAGATA
Found at i:56595391 original size:18 final size:18
Alignment explanation
Indices: 56595336--56595394 Score: 64
Period size: 18 Copynumber: 3.3 Consensus size: 18
56595326 TAACCCATTT
*
56595336 CAGTAACAATAATCAGTG
1 CAGTAACAATAATCAGTA
* * * *
56595354 GAGTAACCATGATCAATA
1 CAGTAACAATAATCAGTA
*
56595372 CAGTAACAATAATCCGTA
1 CAGTAACAATAATCAGTA
56595390 CAGTA
1 CAGTA
56595395 TGCAAACAAA
Statistics
Matches: 31, Mismatches: 10, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.44, C:0.19, G:0.15, T:0.22
Consensus pattern (18 bp):
CAGTAACAATAATCAGTA
Found at i:56595866 original size:27 final size:27
Alignment explanation
Indices: 56595789--56595877 Score: 117
Period size: 27 Copynumber: 3.3 Consensus size: 27
56595779 GGAAAATCAG
* *
56595789 TCATTTTACCTTACAGGGGTA-TTACA
1 TCATTTTACCCTACAGGGGTATTTAGA
* *
56595815 GTCATTTTACCCTATAGGGGTATTTTGA
1 -TCATTTTACCCTACAGGGGTATTTAGA
*
56595843 TCATTTTACCCTACAGGGGTATTTCGA
1 TCATTTTACCCTACAGGGGTATTTAGA
56595870 TCATTTTA
1 TCATTTTA
56595878 TCACAACGGC
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 52 0.95
28 3 0.05
ACGTcount: A:0.24, C:0.18, G:0.17, T:0.42
Consensus pattern (27 bp):
TCATTTTACCCTACAGGGGTATTTAGA
Found at i:56595926 original size:27 final size:27
Alignment explanation
Indices: 56595869--56595994 Score: 184
Period size: 27 Copynumber: 4.7 Consensus size: 27
56595859 GGGTATTTCG
*
56595869 ATCATTTTATCAC--AACGGCAAAATC
1 ATCATTTTATCACATAAGGGCAAAATC
*
56595894 ATCATTTTATCACATAAGGGAAAAATC
1 ATCATTTTATCACATAAGGGCAAAATC
*
56595921 ATCATTTTATCACATAAGGGCAAAATT
1 ATCATTTTATCACATAAGGGCAAAATC
* *
56595948 GTCATTTTATCACATAAGGGGAAAATC
1 ATCATTTTATCACATAAGGGCAAAATC
*
56595975 ATCATTTTATCACACAAGGG
1 ATCATTTTATCACATAAGGG
56595995 TTCAGGTACG
Statistics
Matches: 90, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
25 13 0.14
27 77 0.86
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (27 bp):
ATCATTTTATCACATAAGGGCAAAATC
Found at i:56607283 original size:31 final size:31
Alignment explanation
Indices: 56607245--56607310 Score: 114
Period size: 31 Copynumber: 2.1 Consensus size: 31
56607235 ACATCAAAAT
*
56607245 ACATGCATGTCACACATGGGTCAAACCCTAG
1 ACATGCATATCACACATGGGTCAAACCCTAG
*
56607276 ACATGCATATCACACATGGGTGAAACCCTAG
1 ACATGCATATCACACATGGGTCAAACCCTAG
56607307 ACAT
1 ACAT
56607311 CAACCCCAGC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.35, C:0.27, G:0.18, T:0.20
Consensus pattern (31 bp):
ACATGCATATCACACATGGGTCAAACCCTAG
Found at i:56608223 original size:20 final size:20
Alignment explanation
Indices: 56608198--56608237 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
56608188 TTGATCCAAA
56608198 TTAGAACTTTTTCAATTTCT
1 TTAGAACTTTTTCAATTTCT
*
56608218 TTAGAACTTTTTCCATTTCT
1 TTAGAACTTTTTCAATTTCT
56608238 ACCTAAAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.23, C:0.17, G:0.05, T:0.55
Consensus pattern (20 bp):
TTAGAACTTTTTCAATTTCT
Found at i:56608714 original size:42 final size:42
Alignment explanation
Indices: 56608605--56608715 Score: 168
Period size: 42 Copynumber: 2.6 Consensus size: 42
56608595 CCCCAAAACG
* **
56608605 TCACACGGCCAAGGCACACGCCCGTATGCTAGGCCGTGTCCA
1 TCACACGGCCAAGGCACACGCCCGTGTGCTAGGCCGTACCCA
56608647 TCACACGGCCAAGGCACACGCCCGTGTGCTAGGCCGTACCCA
1 TCACACGGCCAAGGCACACGCCCGTGTGCTAGGCCGTACCCA
* * *
56608689 TCACATGGCCAAGACACACGGCCGTGT
1 TCACACGGCCAAGGCACACGCCCGTGT
56608716 CTCTGCCCGT
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.23, C:0.38, G:0.26, T:0.14
Consensus pattern (42 bp):
TCACACGGCCAAGGCACACGCCCGTGTGCTAGGCCGTACCCA
Found at i:56609629 original size:44 final size:45
Alignment explanation
Indices: 56609579--56609678 Score: 132
Period size: 46 Copynumber: 2.2 Consensus size: 45
56609569 CCGAGAAATG
*
56609579 GTCTTACACTGAC-ACATCTCGTA-GCTGATGCATGCCCCAGACAT
1 GTCTTACACTGACTACATCTCG-AGGCCGATGCATGCCCCAGACAT
* * *
56609623 GTCTTACACTGGCTTACGTCTCGAGGCCGATGCATGTCCCAGACAT
1 GTCTTACACTGAC-TACATCTCGAGGCCGATGCATGCCCCAGACAT
56609669 GTCTTACACT
1 GTCTTACACT
56609679 AGCGCTTATC
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
44 12 0.24
45 1 0.02
46 36 0.73
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (45 bp):
GTCTTACACTGACTACATCTCGAGGCCGATGCATGCCCCAGACAT
Found at i:56609656 original size:46 final size:44
Alignment explanation
Indices: 56609605--56609771 Score: 165
Period size: 46 Copynumber: 3.6 Consensus size: 44
56609595 TCTCGTAGCT
* *
56609605 GATGCATGCCCCAGACATGTCTTACACTGGCTTACGTCTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTTA--TCTCAAGGCC
* *
56609651 GATGCATGTCCCAGACATGTCTTACACTAGCGCTTATCTCAATGCT
1 GATGCATGTCCCAGACATGTCTTACACT-G-GCTTATCTCAAGGCC
* * * *
56609697 GATGCCATGTCCTAGACATGGCCTTACACTGGCTCTCATAAT-ATGGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCT-T-AT-CTCAAGGCC
*
56609745 GATGCATGTCCCAGACATTTCTTACAC
1 GATGCATGTCCCAGACATGTCTTACAC
56609772 CAGCTAACAC
Statistics
Matches: 101, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
46 48 0.48
47 29 0.29
48 23 0.23
49 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.28
Consensus pattern (44 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTTATCTCAAGGCC
Found at i:56616614 original size:42 final size:42
Alignment explanation
Indices: 56616502--56616663 Score: 157
Period size: 42 Copynumber: 3.8 Consensus size: 42
56616492 TACCGTACCA
* * * * *
56616502 ATGCCATATCCTAGATATAGTTTTACATGTAA-TCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACG-AAGTCTCATATCG
* *
56616544 ATGCCAATAGCCCAGCTATGGTCTTACACGAAGTCTCATATCG
1 ATGCC-ATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
** * *
56616587 ATGCCATATCTTAGATATGGTCTTACACGTACTCTCATAGT-G
1 ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATA-TCG
* * *
56616629 ATGCCACAACCCAGATATGGTCTTACACGTAGTCT
1 ATGCCATATCCCAGATATGGTCTTACACGAAGTCT
56616664 TAGTAACCCT
Statistics
Matches: 99, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
42 66 0.67
43 33 0.33
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATATCG
Found at i:56616632 original size:85 final size:84
Alignment explanation
Indices: 56616502--56616663 Score: 211
Period size: 85 Copynumber: 1.9 Consensus size: 84
56616492 TACCGTACCA
* * * *
56616502 ATGCCATATCCTAGATATAGTTTTACATGTAATCTCGTATCGATGCCA-ATAGCCCAGCTATGGT
1 ATGCCATATCCTAGATATAGTCTTACACGTAATCTCATATCGATGCCACA-A-CCCAGATATGGT
56616566 CTTACACGAAGTCTCATATCG
64 CTTACACGAAGTCTCATATCG
* * *
56616587 ATGCCATATCTTAGATATGGTCTTACACGTACTCTCATAGT-GATGCCACAACCCAGATATGGTC
1 ATGCCATATCCTAGATATAGTCTTACACGTAATCTCATA-TCGATGCCACAACCCAGATATGGTC
*
56616651 TTACACGTAGTCT
65 TTACACGAAGTCT
56616664 TAGTAACCCT
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
84 24 0.36
85 41 0.61
86 2 0.03
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (84 bp):
ATGCCATATCCTAGATATAGTCTTACACGTAATCTCATATCGATGCCACAACCCAGATATGGTCT
TACACGAAGTCTCATATCG
Found at i:56622431 original size:110 final size:110
Alignment explanation
Indices: 56622232--56622689 Score: 607
Period size: 110 Copynumber: 4.2 Consensus size: 110
56622222 ACATAATTTT
* ** *
56622232 ATGTATCGTGATCTGCCATTTTGATCCATACACTATCGAAGACTACACCATGAATATGAAA-ATA
1 ATGTATCCTGATCTGCCATTTCAATTCATACACTATCGAAGACTACACCATGAATAT-AAATATA
* *
56622296 GACATATTATGCCATGGGTCTTAACCACATGGTTTTACACACATTC
65 GACATATCATGCCATGGGTCTTAACCACATGGTCTTACACACATTC
* * * * ** *
56622342 TTGTATCGTGATATACCATTTTGATTCATACACTATCGAAGGCTACACCATGAATATAAATATAG
1 ATGTATCCTGATCTGCCATTTCAATTCATACACTATCGAAGACTACACCATGAATATAAATATAG
56622407 ACATATCATGCCATGGGT-TATAACCACATGGTCTTACACACATTC
66 ACATATCATGCCATGGGTCT-TAACCACATGGTCTTACACACATTC
* * * *
56622452 ATGTACCCTAATCTGCCATTTCAATTCGTACACTATCGAAGACTACACCATGAATATTAATATAG
1 ATGTATCCTGATCTGCCATTTCAATTCATACACTATCGAAGACTACACCATGAATATAAATATAG
* *
56622517 ACATATCATGCCATGAGTCTTAACCACATGAG-CTTACAAACATTC
66 ACATATCATGCCATGGGTCTTAACCACATG-GTCTTACACACATTC
* * * * * *
56622562 ATGTATCCTGATTTTCCATTTCAATTCATACACTATCAAAGTCTACACCATGAATATAAATACAA
1 ATGTATCCTGATCTGCCATTTCAATTCATACACTATCGAAGACTACACCATGAATATAAATATAG
* *
56622627 ACATATCACGCCATGGGTCCTAACCACATGGTCTTACACACATTC
66 ACATATCATGCCATGGGTCTTAACCACATGGTCTTACACACATTC
* *
56622672 ATGTATCATAATCTGCCA
1 ATGTATCCTGATCTGCCA
56622690 ATCTGGTTAG
Statistics
Matches: 305, Mismatches: 38, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
109 5 0.02
110 298 0.98
111 2 0.01
ACGTcount: A:0.34, C:0.23, G:0.12, T:0.31
Consensus pattern (110 bp):
ATGTATCCTGATCTGCCATTTCAATTCATACACTATCGAAGACTACACCATGAATATAAATATAG
ACATATCATGCCATGGGTCTTAACCACATGGTCTTACACACATTC
Found at i:56625477 original size:47 final size:47
Alignment explanation
Indices: 56625399--56625562 Score: 228
Period size: 47 Copynumber: 3.6 Consensus size: 47
56625389 CCCTTCGGGA
* * * * * *
56625399 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56625446 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56625493 CTTATCAC----ATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56625536 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
56625563 ACCAACCCTT
Statistics
Matches: 103, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
43 43 0.42
47 60 0.58
ACGTcount: A:0.27, C:0.32, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:56625501 original size:22 final size:22
Alignment explanation
Indices: 56625474--56625545 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
56625464 TTTCACATTC
56625474 ATCACATCGGCCATTAGGCCTT
1 ATCACATCGGCCATTAGGCCTT
* * *
56625496 ATCACATAC--ACTTTCA--CATT
1 ATCACAT-CGGCCATT-AGGCCTT
56625516 CATCACATCGGCCATTAGGCCTT
1 -ATCACATCGGCCATTAGGCCTT
56625539 ATCACAT
1 ATCACAT
56625546 ATATACACTT
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
20 4 0.11
21 11 0.30
22 18 0.49
23 4 0.11
ACGTcount: A:0.28, C:0.32, G:0.11, T:0.29
Consensus pattern (22 bp):
ATCACATCGGCCATTAGGCCTT
Found at i:56625518 original size:43 final size:43
Alignment explanation
Indices: 56625458--56625546 Score: 178
Period size: 43 Copynumber: 2.1 Consensus size: 43
56625448 TGTCACATAT
56625458 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
56625501 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
56625544 ATA
1 ATA
56625547 TATACACTTT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.30
Consensus pattern (43 bp):
ATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
Found at i:56625824 original size:40 final size:39
Alignment explanation
Indices: 56625780--56625878 Score: 110
Period size: 39 Copynumber: 2.5 Consensus size: 39
56625770 GGATATAGCT
* **
56625780 ACTCGTTCAAATGCCTTCGGGACATAGCCC-GGTTATAGTA
1 ACTCGTACAAATGCCTTCGGG-CATAGCCCAGAAT-TAGTA
* * *
56625820 ACTCGCACAAATGCCTCCGGGCTTAGCCCAGAATTAGTA
1 ACTCGTACAAATGCCTTCGGGCATAGCCCAGAATTAGTA
*
56625859 TCTCGTACAAATGCCTTCGG
1 ACTCGTACAAATGCCTTCGG
56625879 ATCTTAGTCC
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
39 29 0.59
40 20 0.41
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
ACTCGTACAAATGCCTTCGGGCATAGCCCAGAATTAGTA
Found at i:56629424 original size:7 final size:7
Alignment explanation
Indices: 56629412--56629444 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
56629402 AAAACATGTT
56629412 TTTTTTC
1 TTTTTTC
56629419 TTTTTTTC
1 -TTTTTTC
56629427 TTTTTTC
1 TTTTTTC
56629434 TTTTTT-
1 TTTTTTC
56629440 TTTTT
1 TTTTT
56629445 GCTATGATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 5 0.20
7 13 0.52
8 7 0.28
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (7 bp):
TTTTTTC
Found at i:56629424 original size:8 final size:8
Alignment explanation
Indices: 56629411--56629444 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
56629401 AAAAACATGT
56629411 TTTTTTTC
1 TTTTTTTC
56629419 TTTTTTTC
1 TTTTTTTC
56629427 -TTTTTTC
1 TTTTTTTC
56629434 TTTTTTT-
1 TTTTTTTC
56629441 TTTT
1 TTTT
56629445 GCTATGATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 11 0.44
8 14 0.56
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (8 bp):
TTTTTTTC
Found at i:56629432 original size:15 final size:14
Alignment explanation
Indices: 56629410--56629444 Score: 61
Period size: 15 Copynumber: 2.4 Consensus size: 14
56629400 CAAAAACATG
56629410 TTTTTTTTCTTTTT
1 TTTTTTTTCTTTTT
56629424 TTCTTTTTTCTTTTT
1 TT-TTTTTTCTTTTT
56629439 TTTTTT
1 TTTTTT
56629445 GCTATGATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (14 bp):
TTTTTTTTCTTTTT
Found at i:56629944 original size:33 final size:33
Alignment explanation
Indices: 56629902--56629966 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
56629892 ACAAGGCAAG
56629902 ATGTCCATTTTGGAGTACGAACGTGAATTCGTA
1 ATGTCCATTTTGGAGTACGAACGTGAATTCGTA
*
56629935 ATGTCCATTTTGGAGTACGAGCGTGAATTCGT
1 ATGTCCATTTTGGAGTACGAACGTGAATTCGT
56629967 CTAACTTAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.25, C:0.15, G:0.26, T:0.34
Consensus pattern (33 bp):
ATGTCCATTTTGGAGTACGAACGTGAATTCGTA
Found at i:56635124 original size:22 final size:22
Alignment explanation
Indices: 56635096--56635168 Score: 119
Period size: 22 Copynumber: 3.3 Consensus size: 22
56635086 TCACTAAATC
*
56635096 GCAACATGGTATGATTGATGTT
1 GCAACATGGTATGATCGATGTT
*
56635118 GCAACATGGTATGATCAATGTT
1 GCAACATGGTATGATCGATGTT
*
56635140 GCAACATGGTATGATCGATGTC
1 GCAACATGGTATGATCGATGTT
56635162 GCAACAT
1 GCAACAT
56635169 AAGGAGCAGA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 47 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (22 bp):
GCAACATGGTATGATCGATGTT
Found at i:56636813 original size:31 final size:31
Alignment explanation
Indices: 56636775--56636838 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
56636765 CCTTTTCATA
*
56636775 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCATATGTCATAACACTGGGCCGAAGCCT
**
56636806 TTTCATATGTCATATTACTGGGCCGAAGCCT
1 TTTCATATGTCATAACACTGGGCCGAAGCCT
56636837 TT
1 TT
56636839 ACTATGAATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.36
Consensus pattern (31 bp):
TTTCATATGTCATAACACTGGGCCGAAGCCT
Found at i:56637096 original size:24 final size:24
Alignment explanation
Indices: 56637046--56637149 Score: 174
Period size: 24 Copynumber: 4.3 Consensus size: 24
56637036 CTAGAGGCCT
56637046 AGCCTCTTTTAATAACTGGGGCA-A
1 AGCC-CTTTTAATAACTGGGGCATA
56637070 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
56637094 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
* *
56637118 AGCCATTTTAATAACTGGGACATA
1 AGCCCTTTTAATAACTGGGGCATA
56637142 AGCCCTTT
1 AGCCCTTT
56637150 ATCATCGTGG
Statistics
Matches: 76, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
23 18 0.24
24 58 0.76
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:56637633 original size:24 final size:24
Alignment explanation
Indices: 56637583--56637714 Score: 180
Period size: 25 Copynumber: 5.4 Consensus size: 24
56637573 CTGGAGGCCT
56637583 AGCCTCTTTTAATAACT-GGAGCA-A
1 AGCC-CTTTTAATAACTAGG-GCATA
56637607 AGCCCTTTTAATAACTAGGGCATA
1 AGCCCTTTTAATAACTAGGGCATA
56637631 AGCCCTTTTAATAACTAGGGCATA
1 AGCCCTTTTAATAACTAGGGCATA
*
56637655 AG-CCTTTTATCATAACTGGGGCATA
1 AGCCCTTTTA--ATAACTAGGGCATA
*
56637680 AGCCCTTTATCATAACTAGGGCATA
1 AGCCCTTT-TAATAACTAGGGCATA
56637705 AGCCCTTTTA
1 AGCCCTTTTA
56637715 CACTTCCTCC
Statistics
Matches: 98, Mismatches: 4, Indels: 12
0.86 0.04 0.11
Matches are distributed among these distances:
23 22 0.22
24 34 0.35
25 36 0.37
26 5 0.05
27 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTAATAACTAGGGCATA
Found at i:56637788 original size:20 final size:20
Alignment explanation
Indices: 56637763--56637809 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
56637753 TTATGAATAC
56637763 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
56637783 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
56637803 ACCATGT
1 ATCATGT
56637810 TTATCACAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.34, C:0.21, G:0.11, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:56645095 original size:25 final size:24
Alignment explanation
Indices: 56645002--56645133 Score: 176
Period size: 25 Copynumber: 5.4 Consensus size: 24
56644992 CTAGAGGCCT
*
56645002 AGCCTCTTTTAATAACTGGAGCA-A
1 AGCC-CTTTTAATAACTGGGGCATA
*
56645026 AGCCCTTTTAATAACTAGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
56645050 AGCCCTTTTAATAACTAGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
56645074 AGCCCTTTATCATAACTGGGGCATA
1 AGCCCTTT-TAATAACTGGGGCATA
* *
56645099 AGCCCTTTATCATAACTGAGGCATA
1 AGCCCTTT-TAATAACTGGGGCATA
56645124 AGCCCTTTTA
1 AGCCCTTTTA
56645134 CACTTCCTCC
Statistics
Matches: 100, Mismatches: 6, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
23 16 0.16
24 38 0.38
25 46 0.46
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:56645097 original size:49 final size:47
Alignment explanation
Indices: 56644988--56645133 Score: 179
Period size: 49 Copynumber: 3.0 Consensus size: 47
56644978 GCTTTATCAT
*
56644988 ATAACTAGAGGCCT-AGCCTCTTTTAATAACTGGAGCA-AAGCCCTTTTA
1 ATAACTAG-GGCATAAGCC-CTTTTAATAACTGG-GCATAAGCCCTTTTA
*
56645036 ATAACTAGGGCATAAGCCCTTTTAATAACTAGGGCATAAGCCCTTTATC
1 ATAACTAGGGCATAAGCCCTTTTAATAACT-GGGCATAAGCCCTTT-TA
* *
56645085 ATAACTGGGGCATAAGCCCTTTATCATAACTGAGGCATAAGCCCTTTTA
1 ATAACTAGGGCATAAGCCCTTT-TAATAACTG-GGCATAAGCCCTTTTA
56645134 CACTTCCTCC
Statistics
Matches: 87, Mismatches: 5, Indels: 11
0.84 0.05 0.11
Matches are distributed among these distances:
47 19 0.22
48 23 0.26
49 24 0.28
50 21 0.24
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.29
Consensus pattern (47 bp):
ATAACTAGGGCATAAGCCCTTTTAATAACTGGGCATAAGCCCTTTTA
Found at i:56647446 original size:12 final size:11
Alignment explanation
Indices: 56647422--56647451 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
56647412 CATTTTGTTC
56647422 TTTAGTTTCTTT
1 TTTA-TTTCTTT
56647434 TTTATTTCTTT
1 TTTATTTCTTT
56647445 TTTATTT
1 TTTATTT
56647452 TTGTTTACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.78
12 4 0.22
ACGTcount: A:0.10, C:0.07, G:0.03, T:0.80
Consensus pattern (11 bp):
TTTATTTCTTT
Found at i:56649874 original size:22 final size:22
Alignment explanation
Indices: 56649828--56649879 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
56649818 ATTTTCGTAG
*
56649828 ACCAAAATCATTGTTTTAATAA
1 ACCAAAATCATTGTTTTAAAAA
56649850 ACCAAAAT-ATT-TTATTAAAACA
1 ACCAAAATCATTGTT-TTAAAA-A
*
56649872 ACCCAAAT
1 ACCAAAAT
56649880 TTCTAGGTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 2 0.08
21 8 0.31
22 16 0.62
ACGTcount: A:0.50, C:0.17, G:0.02, T:0.31
Consensus pattern (22 bp):
ACCAAAATCATTGTTTTAAAAA
Found at i:56651315 original size:19 final size:21
Alignment explanation
Indices: 56651270--56651308 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
56651260 TTTCTCTTAA
56651270 ATTTTTATTATTATTTTATAT
1 ATTTTTATTATTATTTTATAT
56651291 ATTTTTA-TA-TATTTTATA
1 ATTTTTATTATTATTTTATA
56651309 GTTTTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.50
20 2 0.11
21 7 0.39
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (21 bp):
ATTTTTATTATTATTTTATAT
Found at i:56654779 original size:21 final size:21
Alignment explanation
Indices: 56654740--56654807 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
56654730 GTTGTATAGA
*
56654740 GTTTA-TGGTTTTAGTGTTTAG
1 GTTTAGTGG-TTTAGAGTTTAG
56654761 GATTTAG-GGTTTAGAGTTTAG
1 G-TTTAGTGGTTTAGAGTTTAG
* *
56654782 GGTTAGTGG-TTGGAGTTTAGG
1 GTTTAGTGGTTTAGAGTTTA-G
56654803 GTTTA
1 GTTTA
56654808 AGGTGTAAGG
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
20 13 0.33
21 20 0.51
22 6 0.15
ACGTcount: A:0.18, C:0.00, G:0.35, T:0.47
Consensus pattern (21 bp):
GTTTAGTGGTTTAGAGTTTAG
Found at i:56654806 original size:7 final size:7
Alignment explanation
Indices: 56654749--56654807 Score: 52
Period size: 7 Copynumber: 8.6 Consensus size: 7
56654739 AGTTTATGGT
*
56654749 TTTAGTG
1 TTTAGGG
*
56654756 TTTAGGA
1 TTTAGGG
56654763 TTTAGGG
1 TTTAGGG
*
56654770 TTTAGAG
1 TTTAGGG
56654777 TTTAGGG
1 TTTAGGG
56654784 -TTAGTGG
1 TTTAG-GG
56654791 -TT-GGAG
1 TTTAGG-G
56654797 TTTAGGG
1 TTTAGGG
56654804 TTTA
1 TTTA
56654808 AGGTGTAAGG
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
5 1 0.02
6 6 0.14
7 34 0.79
8 2 0.05
ACGTcount: A:0.19, C:0.00, G:0.36, T:0.46
Consensus pattern (7 bp):
TTTAGGG
Found at i:56654820 original size:34 final size:34
Alignment explanation
Indices: 56654750--56654820 Score: 83
Period size: 34 Copynumber: 2.1 Consensus size: 34
56654740 GTTTATGGTT
* * *
56654750 TTAGTGTTTAGGATTTAGGGTTTAGAGTTTAGGG
1 TTAGTGGTTAGGATTTAGGGTTTAGAGTGTAAGG
56654784 TTAGTGGTT-GGAGTTTAGGGTTTA-AGGTGTAAGG
1 TTAGTGGTTAGGA-TTTAGGGTTTAGA-GTGTAAGG
56654818 TTA
1 TTA
56654821 ATAATTCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
33 4 0.12
34 28 0.88
ACGTcount: A:0.21, C:0.00, G:0.37, T:0.42
Consensus pattern (34 bp):
TTAGTGGTTAGGATTTAGGGTTTAGAGTGTAAGG
Found at i:56659164 original size:93 final size:93
Alignment explanation
Indices: 56659041--56659311 Score: 252
Period size: 93 Copynumber: 2.9 Consensus size: 93
56659031 ATATATTGAG
* * * *
56659041 GCCGATGCCATGTCCGAAGCAGGTTTTACACTGGCTCTCATCTATCG-GTGCCAATGCCATGTCC
1 GCCGATGCCATGTCCCAA-CAGGTCTTACACTAGCTCTCATATATCGAG-GCCAATG-CATGTCC
*
56659105 TAGATAGGTCTTACACT-GACAC-ATGTC-AA-
63 TAGACAGGTCTTACACTAG-CACTA-GTCTAAT
* * *
56659134 GCCGATTCCATGTCCCAGACAGGTCTTACACTAGCT-TGCATATCTCGAGGCCGATGCATGTCCT
1 GCCGATGCCATGTCCCA-ACAGGTCTTACACTAGCTCT-CATATATCGAGGCCAATGCATGTCCT
* *
56659198 AGACATGTCTTACACTAGCTCTAGTCTTAAT
64 AGACAGGTCTTACACTAGCACTAGTC-TAAT
* * * * *
56659229 GCCGATGCCATGTCCCAAACATGGTCTTACACTACCTCTCATA-AT-GTGGTCGATGCATGTCCC
1 GCCGATGCCATGTCCC-AACA-GGTCTTACACTAGCTCTCATATATCGAGGCCAATGCATGTCCT
*
56659292 AGACATGTCTTACACTAGCA
64 AGACAGGTCTTACACTAGCA
56659312 TACATCCATA
Statistics
Matches: 150, Mismatches: 17, Indels: 21
0.80 0.09 0.11
Matches are distributed among these distances:
92 28 0.19
93 45 0.30
94 38 0.25
95 19 0.13
96 19 0.13
97 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.28
Consensus pattern (93 bp):
GCCGATGCCATGTCCCAACAGGTCTTACACTAGCTCTCATATATCGAGGCCAATGCATGTCCTAG
ACAGGTCTTACACTAGCACTAGTCTAAT
Found at i:56659202 original size:48 final size:48
Alignment explanation
Indices: 56658994--56659310 Score: 219
Period size: 49 Copynumber: 6.7 Consensus size: 48
56658984 ACATCTAAGT
* * *
56658994 CGATGTCATGTCCCAGCCAGGTCTTACACT-GACTTTCATATATTGAGGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTAG-C-TTCATATATCGAGGC
* * * *
56659043 CGATGCCATGTCCGA-AGCAGGTTTTACACTGGCTCTCATCTATCG-GTGC
1 CGATGCCATGTCCCAGA-CAGGTCTTACACTAGCT-TCATATATCGAG-GC
* * * * * * *
56659092 CAATGCCATGTCCTAGATAGGTCTTACACT-G--ACACATGTC-AAGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTAGCTTCATATATCGAGGC
* *
56659136 CGATTCCATGTCCCAGACAGGTCTTACACTAGCTTGCATATCTCGAGGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTAGCTT-CATATATCGAGGC
* * * ** *
56659185 CGATG-CATGTCCTAGACATGTCTTACACTAGC-TC-TAGTCTTAATGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTAGCTTCATA-TATCGAGGC
* * * *
56659231 CGATGCCATGTCCCAAACATGGTCTTACACTACCTCTCATA-AT-GTGGT
1 CGATGCCATGTCCCAGACA-GGTCTTACACTAGCT-TCATATATCGAGGC
*
56659279 CGATG-CATGTCCCAGACATGTCTTACACTAGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTAGC
56659311 ATACATCCAT
Statistics
Matches: 210, Mismatches: 41, Indels: 37
0.73 0.14 0.13
Matches are distributed among these distances:
44 28 0.13
45 8 0.04
46 24 0.11
47 24 0.11
48 52 0.25
49 68 0.32
50 4 0.02
51 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.28
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACAGGTCTTACACTAGCTTCATATATCGAGGC
Found at i:56659296 original size:94 final size:95
Alignment explanation
Indices: 56659134--56659310 Score: 252
Period size: 94 Copynumber: 1.9 Consensus size: 95
56659124 CACATGTCAA
* * * * *
56659134 GCCGATTCCATGTCCCAGACAGGTCTTACACTAGCTTGCATATCTCGAGGCCGATGCATGTCCTA
1 GCCGATGCCATGTCCCAAACAGGTCTTACACTACCTTGCATATATCGAGGCCGATGCATGTCCCA
56659199 GACATGTCTTACACTAGCTCTAGTCTTAAT
66 GACATGTCTTACACTAGCTCTAGTCTTAAT
* *
56659229 GCCGATGCCATGTCCCAAACATGGTCTTACACTACCTCT-CATA-AT-GTGGTCGATGCATGTCC
1 GCCGATGCCATGTCCCAAACA-GGTCTTACACTACCT-TGCATATATCGAGGCCGATGCATGTCC
56659291 CAGACATGTCTTACACTAGC
64 CAGACATGTCTTACACTAGC
56659311 ATACATCCAT
Statistics
Matches: 73, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
94 34 0.47
95 20 0.27
96 18 0.25
97 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (95 bp):
GCCGATGCCATGTCCCAAACAGGTCTTACACTACCTTGCATATATCGAGGCCGATGCATGTCCCA
GACATGTCTTACACTAGCTCTAGTCTTAAT
Found at i:56661697 original size:24 final size:24
Alignment explanation
Indices: 56661670--56661767 Score: 133
Period size: 24 Copynumber: 4.0 Consensus size: 24
56661660 AAGGCTGTCA
*
56661670 GGAGAAGATTTAAGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
*
56661694 GGAGACGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* * * *
56661718 GGAGAGGATTTATGAGTTGATAAA
1 GGAGAAGATTTAGGAGCTGATAAG
56661742 GGAGAAGATTTAGGAGCTGATCAAG
1 GGAGAAGATTTAGGAGCTGAT-AAG
56661767 G
1 G
56661768 AGCAAGAGTT
Statistics
Matches: 63, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
24 60 0.95
25 3 0.05
ACGTcount: A:0.37, C:0.05, G:0.36, T:0.22
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:56663195 original size:27 final size:26
Alignment explanation
Indices: 56663155--56663232 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 26
56663145 AGGAAGCGTC
56663155 CTGGTGGCTA-TGCCACAATTATCTGAT
1 CTGGTGGC-ACTGCCAC-ATTATCTGAT
* *
56663182 CTGGTGGCACTGCCACGTATATCTGTT
1 CTGGTGGCACTGCCACAT-TATCTGAT
*
56663209 CTGGTGGCTCTGCCACATTATCTG
1 CTGGTGGCACTGCCACATTATCTG
56663233 TTATGGCAGC
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
26 8 0.18
27 37 0.82
ACGTcount: A:0.17, C:0.26, G:0.24, T:0.33
Consensus pattern (26 bp):
CTGGTGGCACTGCCACATTATCTGAT
Found at i:56666082 original size:47 final size:47
Alignment explanation
Indices: 56666004--56666412 Score: 640
Period size: 47 Copynumber: 8.6 Consensus size: 47
56665994 CCCTTCGGGA
* * * * * *
56666004 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56666051 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56666098 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56666145 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56666192 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCA-GC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATT-AGGC
56666241 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56666288 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56666337 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56666384 CTTATCACATATATATACACTTTCACATT
1 CTTATCAC--ATATATACACTTTCACATT
56666413 TATTCAAATA
Statistics
Matches: 336, Mismatches: 18, Indels: 14
0.91 0.05 0.04
Matches are distributed among these distances:
46 1 0.00
47 226 0.67
49 108 0.32
50 1 0.00
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:56666243 original size:96 final size:96
Alignment explanation
Indices: 56666004--56666412 Score: 693
Period size: 96 Copynumber: 4.3 Consensus size: 96
56665994 CCCTTCGGGA
* * * * * *
56666004 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCAGCCTTATCACATATATAC
56666067 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
56666098 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCTATT-AGGCCTTATCACATATATA
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCA-GCCTTATCACATATATA
56666160 CACTTTCACATTCATCACATCGGCCATTAGGC
65 CACTTTCACATTCATCACATCGGCCATTAGGC
56666192 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCAGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCAGCCTTATCACATATATAC
56666257 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
*
56666288 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCAGCCTTATCACATATATAC
56666353 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
56666384 CTTATCACATATATATACACTTTCACATT
1 CTTATCACATATATATACACTTTCACATT
56666413 TATTCAAATA
Statistics
Matches: 298, Mismatches: 11, Indels: 10
0.93 0.03 0.03
Matches are distributed among these distances:
93 1 0.00
94 90 0.30
96 206 0.69
97 1 0.00
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCAGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:56666260 original size:143 final size:141
Alignment explanation
Indices: 56666004--56666412 Score: 658
Period size: 143 Copynumber: 2.9 Consensus size: 141
56665994 CCCTTCGGGA
* * * * * *
56666004 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
56666069 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
*
56666134 GGCTATTAGGC
131 GGCCATTAGGC
* *
56666145 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCAC--ATATATAC
*
56666210 ACTTTCACATTCATCACATTGGCCATTCA-GCCTTATCACATATATACACTTTCACATTCATCAC
64 ACTTTCACATTCATCACATCGGCCATT-AGGCCTTATCACATATATACACTTTCACATTCATCAC
56666274 ATCGGCCATTAGGC
128 ATCGGCCATTAGGC
56666288 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
56666353 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATT
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATT
56666413 TATTCAAATA
Statistics
Matches: 247, Mismatches: 13, Indels: 12
0.91 0.05 0.04
Matches are distributed among these distances:
141 47 0.19
142 1 0.00
143 134 0.54
144 1 0.00
145 64 0.26
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:56669990 original size:6 final size:6
Alignment explanation
Indices: 56669979--56670007 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
56669969 CATAGTAAAA
56669979 TATATT TATATT TATATT TATATT TATAT
1 TATATT TATATT TATATT TATATT TATAT
56670008 AAATATCATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
TATATT
Found at i:56670013 original size:18 final size:18
Alignment explanation
Indices: 56669979--56670013 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
56669969 CATAGTAAAA
**
56669979 TATATTTATATTTATATT
1 TATATTTATATAAATATT
56669997 TATATTTATATAAATAT
1 TATATTTATATAAATAT
56670014 CATAATCTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TATATTTATATAAATATT
Found at i:56670575 original size:9 final size:9
Alignment explanation
Indices: 56670561--56670729 Score: 205
Period size: 9 Copynumber: 18.1 Consensus size: 9
56670551 AAAATCTAAC
56670561 CATAACTTA
1 CATAACTTA
56670570 CATAACTTA
1 CATAACTTA
*
56670579 CATAGCTTA
1 CATAACTTA
56670588 CATAACTTA
1 CATAACTTA
*
56670597 TATAACATT-
1 CATAAC-TTA
56670606 CATAACTTA
1 CATAACTTA
*
56670615 CATAGCTTA
1 CATAACTTA
56670624 CATAACTTA
1 CATAACTTA
56670633 CATAACTTA
1 CATAACTTA
* *
56670642 TATAAGTTA
1 CATAACTTA
56670651 CATAACATTTA
1 CATAAC--TTA
56670662 CATAACTTA
1 CATAACTTA
*
56670671 CATAGCTTA
1 CATAACTTA
56670680 CATAACTTA
1 CATAACTTA
*
56670689 CATAAATATATA
1 CAT-AA-CT-TA
56670701 TCATAACTTA
1 -CATAACTTA
56670711 CATAACTTA
1 CATAACTTA
56670720 CATAACTTA
1 CATAACTTA
56670729 C
1 C
56670730 GTAATACATA
Statistics
Matches: 138, Mismatches: 14, Indels: 16
0.82 0.08 0.10
Matches are distributed among these distances:
8 2 0.01
9 112 0.81
10 6 0.04
11 11 0.08
12 4 0.03
13 3 0.02
ACGTcount: A:0.43, C:0.20, G:0.02, T:0.35
Consensus pattern (9 bp):
CATAACTTA
Found at i:56683237 original size:38 final size:40
Alignment explanation
Indices: 56683170--56683274 Score: 114
Period size: 38 Copynumber: 2.7 Consensus size: 40
56683160 GTAATTAATT
56683170 AATTTTAAAAAATAAATTTT-TATATATTTTTAATAATTTCT-A
1 AATTTT-AAAAATAAATTTTATATAT-TTTTTAA-AATTT-TAA
*
56683212 AATTTTAAAAATAAATTTTA-A-ATTTTTTAAGATTTTAA
1 AATTTTAAAAATAAATTTTATATATTTTTTAAAATTTTAA
*
56683250 AATTTTAAAAATTAA-TTTAT-TATTT
1 AATTTTAAAAATAAATTTTATATATTT
56683275 GACATTTACA
Statistics
Matches: 57, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
37 5 0.09
38 23 0.40
39 7 0.12
40 2 0.04
41 14 0.25
42 6 0.11
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (40 bp):
AATTTTAAAAATAAATTTTATATATTTTTTAAAATTTTAA
Found at i:56684983 original size:13 final size:12
Alignment explanation
Indices: 56684944--56684984 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
56684934 ACCCACATTT
56684944 AATTAAAAAATA
1 AATTAAAAAATA
56684956 TAATTACAAAAATA
1 -AATTA-AAAAATA
56684970 AATTAAAACAATA
1 AATTAAAA-AATA
56684983 AA
1 AA
56684985 AAATTATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 3 0.12
13 16 0.62
14 7 0.27
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (12 bp):
AATTAAAAAATA
Found at i:56685365 original size:17 final size:17
Alignment explanation
Indices: 56685343--56685376 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
56685333 TGACTATGTG
*
56685343 TATTTAATTATTTTTAT
1 TATTTAATAATTTTTAT
56685360 TATTTAATAATTTTTAT
1 TATTTAATAATTTTTAT
56685377 ATAATATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TATTTAATAATTTTTAT
Found at i:56689442 original size:42 final size:41
Alignment explanation
Indices: 56689362--56689442 Score: 92
Period size: 42 Copynumber: 1.9 Consensus size: 41
56689352 GTGCAAGTTT
* ** *
56689362 CACACGGCTAAGATATGCGCCTGTGTTCTAGGCCGTGTATCA
1 CACACGGCTAAGACACACGCCCGTGTTCTA-GCCGTGTATCA
56689404 CACACGGCTAAGACACACGCCCGTGTCTCT-GCCTGTGTA
1 CACACGGCTAAGACACACGCCCGTGT-TCTAGCC-GTGTA
56689443 CCCAATTTTG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
41 3 0.09
42 27 0.82
43 3 0.09
ACGTcount: A:0.21, C:0.31, G:0.25, T:0.23
Consensus pattern (41 bp):
CACACGGCTAAGACACACGCCCGTGTTCTAGCCGTGTATCA
Done.