Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 280 of 362
Found at i:94474291 original size:43 final size:43
Alignment explanation
Indices: 94474244--94474427 Score: 219
Period size: 43 Copynumber: 4.3 Consensus size: 43
94474234 GTAACAAAAG
* *
94474244 CGCCGTTAAAAGCCATGACTTTTAGCGGCGTTTCACCCACAAA
1 CGCCGCTAAAAGCCATGACTTTTAGCGGCGCTTCACCCACAAA
* * *
94474287 CGCCGCTAAAAGCAATGACTTTTAACGGCGCTTCATCCACAAA
1 CGCCGCTAAAAGCCATGACTTTTAGCGGCGCTTCACCCACAAA
* * * *
94474330 CGCCGCTATAAGCCATGACTTTTAGCAGCACTTCACCTA-AAA
1 CGCCGCTAAAAGCCATGACTTTTAGCGGCGCTTCACCCACAAA
* * **
94474372 CTGTCACTAAAAGCCATGACTTTTAGCGGCGCTT-TTCCAGCAAA
1 C-GCCGCTAAAAGCCATGACTTTTAGCGGCGCTTCACCCA-CAAA
94474416 CGCCGCTAAAAG
1 CGCCGCTAAAAG
94474428 TCAGGATCTT
Statistics
Matches: 116, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
42 6 0.05
43 106 0.91
44 4 0.03
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.23
Consensus pattern (43 bp):
CGCCGCTAAAAGCCATGACTTTTAGCGGCGCTTCACCCACAAA
Found at i:94476137 original size:46 final size:46
Alignment explanation
Indices: 94476070--94476241 Score: 210
Period size: 46 Copynumber: 3.7 Consensus size: 46
94476060 TGTAACCCGC
94476070 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
94476116 CCATAAGTC-AACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAG-CGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * *
94476166 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
94476209 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTT
94476242 TGGATGCTCA
Statistics
Matches: 108, Mismatches: 7, Indels: 22
0.79 0.05 0.16
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 60 0.56
47 28 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:94476186 original size:93 final size:93
Alignment explanation
Indices: 94476077--94476248 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
94476067 CGCCCATAAG
* *
94476077 CGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCATCCATAAGTCAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTCAACTCGGACTCAACTCA
94476142 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
94476170 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTCAACTCGGACTCAACTCA
*
94476235 ACGAGTTTGGATGC
66 ACGAGTTCGGATGC
94476249 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTCAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:94488084 original size:306 final size:306
Alignment explanation
Indices: 94487514--94488085 Score: 885
Period size: 306 Copynumber: 1.9 Consensus size: 306
94487504 AACCATTTGC
* * * *
94487514 AAAAATAGATGGGATTAGCACTGAAATAATTCATCATATACCTCATGCCTTTCAATAGTTTAATC
1 AAAAAAAGATGGGATTAGCACTGAAATAATTCATCATATACCTCATGCCCTTAAATAATTTAATC
*
94487579 AAAAGCATTCATATATACATTTCATCGAATCAATACCAAAAAGAAACATTCTTGTATGATCATTC
66 AAAAGCATTCATATATACATGTCATCGAATCAATACCAAAAAGAAACATTCTTGTATGATCATTC
* *
94487644 TCTAGCATAAATATTTTAATGGATAAACACATGTGTTAACAAACCATTTAAATATCAATCACAAA
131 TCTAGCATAAATATTTTAATGGATAAACACATGTATTAACAAACCATTTAAAGATCAATCACAAA
* * * * *
94487709 TTTTAATAGCCCAATGAACTATAGTAAGATAACTTGGCTACTCAGGTAACTAGATCACAATAGAG
196 TTTTAATAGCCCAATGAACTATAGTAACATAACTCGGATACTCAGGTAACTACATCACAATAAAG
94487774 AGCATCGAAACACTAAACTATAGTAACCTGAAAAACTATTTTCAAA
261 AGCATCGAAACACTAAACTATAGTAACCTGAAAAACTATTTTCAAA
* * *
94487820 AAAAAAAGATTGGATTAGCACT-AAATAAATTCATCATATACTTCATGCCCTTAAATAATTTCAT
1 AAAAAAAGATGGGATTAGCACTGAAAT-AATTCATCATATACCTCATGCCCTTAAATAATTTAAT
* *
94487884 TAAAATCATTCATATATACATGTCATCGAATCAATACCAAAAAGAAACATTCTTGTATGATCATT
65 CAAAAGCATTCATATATACATGTCATCGAATCAATACCAAAAAGAAACATTCTTGTATGATCATT
* * * * *
94487949 CTCTAGCATAGATCTTTTAATGGATAAACTCATGTATTAACAAATCATTTATAGATCAATCACAA
130 CTCTAGCATAAATATTTTAATGGATAAACACATGTATTAACAAACCATTTAAAGATCAATCACAA
* * ** *
94488014 ATTTTAATAGCCTAGTGAACTATAGTAACATAACTCGGATACTTGGGTAACTACATCACACTAAA
195 ATTTTAATAGCCCAATGAACTATAGTAACATAACTCGGATACTCAGGTAACTACATCACAATAAA
94488079 GAGCATC
260 GAGCATC
94488086 AAAATGCTAA
Statistics
Matches: 238, Mismatches: 27, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
305 4 0.02
306 234 0.98
ACGTcount: A:0.42, C:0.17, G:0.10, T:0.30
Consensus pattern (306 bp):
AAAAAAAGATGGGATTAGCACTGAAATAATTCATCATATACCTCATGCCCTTAAATAATTTAATC
AAAAGCATTCATATATACATGTCATCGAATCAATACCAAAAAGAAACATTCTTGTATGATCATTC
TCTAGCATAAATATTTTAATGGATAAACACATGTATTAACAAACCATTTAAAGATCAATCACAAA
TTTTAATAGCCCAATGAACTATAGTAACATAACTCGGATACTCAGGTAACTACATCACAATAAAG
AGCATCGAAACACTAAACTATAGTAACCTGAAAAACTATTTTCAAA
Found at i:94492769 original size:25 final size:26
Alignment explanation
Indices: 94492722--94492770 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
94492712 AGGCAACACA
* * *
94492722 CACCCGTGTGGTCAGGTCGTGTGGCT
1 CACCCGTGTGCTCAGGCCATGTGGCT
94492748 CACCCGTGT-CTCAGGCCATGTGG
1 CACCCGTGTGCTCAGGCCATGTGG
94492771 GCATTCGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 11 0.55
26 9 0.45
ACGTcount: A:0.10, C:0.31, G:0.35, T:0.24
Consensus pattern (26 bp):
CACCCGTGTGCTCAGGCCATGTGGCT
Found at i:94496844 original size:24 final size:23
Alignment explanation
Indices: 94496785--94496845 Score: 68
Period size: 24 Copynumber: 2.6 Consensus size: 23
94496775 CCGGGTTGTG
94496785 TAACGGGAAGCTCATAAGAGTCA
1 TAACGGGAAGCTCATAAGAGTCA
* **
94496808 TAATCAGGAAGCTCATGCGAGTCAA
1 TAA-CGGGAAGCTCATAAGAGTC-A
*
94496833 TAACGGGTAGCTC
1 TAACGGGAAGCTC
94496846 TGAAAAGCCA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
23 3 0.10
24 24 0.77
25 4 0.13
ACGTcount: A:0.34, C:0.20, G:0.26, T:0.20
Consensus pattern (23 bp):
TAACGGGAAGCTCATAAGAGTCA
Found at i:94496949 original size:26 final size:26
Alignment explanation
Indices: 94496910--94496976 Score: 84
Period size: 26 Copynumber: 2.6 Consensus size: 26
94496900 AGTCATATCA
* *
94496910 GGAAGCTCACGAAGAGCC-TTTAATCG
1 GGAAGCTCATGAAGAGCCATATAAT-G
94496936 GGAAGCTCATGAAGAGCCATATAATG
1 GGAAGCTCATGAAGAGCCATATAATG
*
94496962 GGACGCTCAT-AAGAG
1 GGAAGCTCATGAAGAG
94496977 TTGCAGTGTG
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
25 5 0.14
26 27 0.73
27 5 0.14
ACGTcount: A:0.34, C:0.19, G:0.28, T:0.18
Consensus pattern (26 bp):
GGAAGCTCATGAAGAGCCATATAATG
Found at i:94498003 original size:16 final size:13
Alignment explanation
Indices: 94497969--94497996 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
94497959 CTTTATTTTA
94497969 TTATTTATCATCT
1 TTATTTATCATCT
94497982 TTATTTATCATCT
1 TTATTTATCATCT
94497995 TT
1 TT
94497997 CCAATTTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.14, G:0.00, T:0.64
Consensus pattern (13 bp):
TTATTTATCATCT
Found at i:94501260 original size:27 final size:27
Alignment explanation
Indices: 94501228--94501282 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
94501218 CCAACACATA
94501228 GGCAAGGTAAGTATCATACTCTTTTCT
1 GGCAAGGTAAGTATCATACTCTTTTCT
94501255 GGCAAGGTAAGTATCATACTCTTTTCT
1 GGCAAGGTAAGTATCATACTCTTTTCT
94501282 G
1 G
94501283 ACATATTTCT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.36
Consensus pattern (27 bp):
GGCAAGGTAAGTATCATACTCTTTTCT
Found at i:94516838 original size:93 final size:93
Alignment explanation
Indices: 94516726--94516897 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
94516716 CGCCCATAAG
*
94516726 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
94516790 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
94516819 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
94516884 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
94516898 TCAATCATCC
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:94516892 original size:46 final size:46
Alignment explanation
Indices: 94516719--94516894 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
94516709 TGTAACCCGC
* *
94516719 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
94516765 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
94516815 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
94516858 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
94516895 TGCTCAATCA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 61 0.55
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:94518296 original size:51 final size:51
Alignment explanation
Indices: 94518183--94518433 Score: 319
Period size: 47 Copynumber: 5.2 Consensus size: 51
94518173 AGATATTACA
* * *
94518183 CATCACATTGGTCATTCGGCCTTATCACAC----ATACGCATGTTCACATT
1 CATCACATTGGCCATTCGGCCTTATCACACATATATACACAGGTTCACATT
*
94518230 CATCACATTGGCCATTCGGCCTTATCACACATATATATACAGGTTCACATT
1 CATCACATTGGCCATTCGGCCTTATCACACATATATACACAGGTTCACATT
** * *
94518281 CATCACATTTTCCATTCGGCCTTATCACAC----ATACGCATGTTCACATT
1 CATCACATTGGCCATTCGGCCTTATCACACATATATACACAGGTTCACATT
*
94518328 CATCACATTGGCCATTCGGCCTTATCACACATATATATACAGGTTCACATT
1 CATCACATTGGCCATTCGGCCTTATCACACATATATACACAGGTTCACATT
* *
94518379 CATCACATTTGCCATTCGGCCTTAT--CTCATATATACACA--TTCACATT
1 CATCACATTGGCCATTCGGCCTTATCACACATATATACACAGGTTCACATT
94518426 CATCACAT
1 CATCACAT
94518434 AAAATCCTAA
Statistics
Matches: 179, Mismatches: 17, Indels: 16
0.84 0.08 0.08
Matches are distributed among these distances:
47 87 0.49
49 12 0.07
51 80 0.45
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (51 bp):
CATCACATTGGCCATTCGGCCTTATCACACATATATACACAGGTTCACATT
Found at i:94518352 original size:98 final size:98
Alignment explanation
Indices: 94518183--94518433 Score: 421
Period size: 98 Copynumber: 2.6 Consensus size: 98
94518173 AGATATTACA
* *
94518183 CATCACATTGGTCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCG
1 CATCACATTTGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCG
94518248 GCCTTATCACACATATATATACAGGTTCACATT
66 GCCTTATCACACATATATATACAGGTTCACATT
*
94518281 CATCACATTTTCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCG
1 CATCACATTTGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCG
94518346 GCCTTATCACACATATATATACAGGTTCACATT
66 GCCTTATCACACATATATATACAGGTTCACATT
* * ** **
94518379 CATCACATTTGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCACAT
1 CATCACATTTGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACAT
94518434 AAAATCCTAA
Statistics
Matches: 143, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
98 143 1.00
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (98 bp):
CATCACATTTGCCATTCGGCCTTATCACACATACGCATGTTCACATTCATCACATTGGCCATTCG
GCCTTATCACACATATATATACAGGTTCACATT
Found at i:94522906 original size:30 final size:30
Alignment explanation
Indices: 94522872--94522928 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
94522862 TTTTCAAGCA
* *
94522872 TAGGGGTAAAATGGCCATTTTGCCAAATTC
1 TAGGGGCAAAATGGCCATTTTACCAAATTC
*
94522902 TAGGGGCAAAATGGTCATTTTACCAAA
1 TAGGGGCAAAATGGCCATTTTACCAAA
94522929 GATGTGAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAATGGCCATTTTACCAAATTC
Found at i:94523516 original size:140 final size:140
Alignment explanation
Indices: 94523269--94523526 Score: 367
Period size: 140 Copynumber: 1.8 Consensus size: 140
94523259 ATTGTTGGCT
* * *
94523269 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATTATGAGAGCCAGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATGAGAGCAAGTGAAAGACCATGTCTGG
** * *
94523334 GACATGACATCGGCATTGAGATGAGAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGA
66 GACATGACATCAACATTGAGATGAGAGCCAATGTAAGACATGTCTGGGACATGCATCGGCCTCGA
94523399 GACGTAAACC
131 GACGTAAACC
* * * *
94523409 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-GATGATAGTAAGTGAAAGACCATGTCTG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATGATGAGAGCAAGTGAAAGACCATGTCTG
* *
94523473 GGACATGGCATCAAC-TTGAGATGTGAGCCAATGTAAGACCATGTCTGGGACATG
65 GGACATGACATCAACATTGAGATGAGAGCCAATGTAAGA-CATGTCTGGGACATG
94523527 GCATTGGCAC
Statistics
Matches: 103, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
139 20 0.19
140 82 0.80
141 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.22
Consensus pattern (140 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATGAGAGCAAGTGAAAGACCATGTCTGG
GACATGACATCAACATTGAGATGAGAGCCAATGTAAGACATGTCTGGGACATGCATCGGCCTCGA
GACGTAAACC
Found at i:94523530 original size:47 final size:45
Alignment explanation
Indices: 94523269--94523526 Score: 250
Period size: 47 Copynumber: 5.5 Consensus size: 45
94523259 ATTGTTGGCT
* * * *
94523269 AGTGTAAGACATGTCTGGGACATGCATCAGC-CACATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTC-GA-GATGTGAGCC
* * *
94523315 AGTGTAAGACCATGTCTGGGACATGACATCGGCATTGAGATGAGAGCT
1 AGTGTAAGA-CATGTCTGGGACATG-CATCGGC-TCGAGATGTGAGCC
* * *
94523363 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGTAAACC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CTCGAGATGTGAGCC
**
94523409 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGAT-AGTA
1 AGTGTAAGACATGTCTGGGACATGCATCGGCT-CGAGATG-TGAGCC
* ** *
94523455 AGTGAAAGACCATGTCTGGGACATGGCATCAACTTGAGATGTGAGCC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTCGAGATGTGAGCC
*
94523502 AATGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
94523527 GCATTGGCAC
Statistics
Matches: 179, Mismatches: 23, Indels: 20
0.81 0.10 0.09
Matches are distributed among these distances:
45 2 0.01
46 70 0.39
47 76 0.42
48 30 0.17
49 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.22
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTCGAGATGTGAGCC
Found at i:94526970 original size:18 final size:18
Alignment explanation
Indices: 94526943--94526977 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
94526933 ACCGATAAAT
94526943 GACCAACTCTAGCAAACA
1 GACCAACTCTAGCAAACA
*
94526961 GACCAGCTCTAGCAAAC
1 GACCAACTCTAGCAAAC
94526978 CTTCCTGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.34, G:0.14, T:0.11
Consensus pattern (18 bp):
GACCAACTCTAGCAAACA
Found at i:94527573 original size:51 final size:51
Alignment explanation
Indices: 94527514--94527615 Score: 143
Period size: 51 Copynumber: 2.0 Consensus size: 51
94527504 TAGAGGAGAT
* *
94527514 GGTACATTACTT-GCCAACCTGAGGTATCCGACTGCCTAACTTTACCTATCA
1 GGTACATTACTTAG-CAACCCGAGGTATCCAACTGCCTAACTTTACCTATCA
* * *
94527565 GGTACATTACTTAGTAGCCCGAGGTATCCAATTGCCTAACTTTACCTATCA
1 GGTACATTACTTAGCAACCCGAGGTATCCAACTGCCTAACTTTACCTATCA
94527616 CTTCGAGACT
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
51 44 0.98
52 1 0.02
ACGTcount: A:0.26, C:0.27, G:0.16, T:0.30
Consensus pattern (51 bp):
GGTACATTACTTAGCAACCCGAGGTATCCAACTGCCTAACTTTACCTATCA
Found at i:94532350 original size:16 final size:16
Alignment explanation
Indices: 94532329--94532361 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
94532319 AAAAACACCT
94532329 AAAAAGG-ACTAAATTG
1 AAAAAGGTA-TAAATTG
94532345 AAAAAGGTATAAATTG
1 AAAAAGGTATAAATTG
94532361 A
1 A
94532362 TTGATAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 15 0.94
17 1 0.06
ACGTcount: A:0.58, C:0.03, G:0.18, T:0.21
Consensus pattern (16 bp):
AAAAAGGTATAAATTG
Found at i:94532963 original size:39 final size:39
Alignment explanation
Indices: 94532901--94532978 Score: 95
Period size: 39 Copynumber: 2.0 Consensus size: 39
94532891 TATCTGGGAC
*
94532901 ATGGCATCGGCATCGAAATGTGATCCCGTATAATACCAT
1 ATGGCATCGGCATCGAAATGTGATCCCGTATAAGACCAT
* * **
94532940 ATGGCTTCGGCATCGTTAA-GTGATTTCGTATAAGACCAT
1 ATGGCATCGGCATCG-AAATGTGATCCCGTATAAGACCAT
94532979 GTCTAGGACA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
39 31 0.94
40 2 0.06
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (39 bp):
ATGGCATCGGCATCGAAATGTGATCCCGTATAAGACCAT
Found at i:94533178 original size:48 final size:48
Alignment explanation
Indices: 94533012--94533181 Score: 157
Period size: 48 Copynumber: 3.5 Consensus size: 48
94533002 AGATCCTATG
* * * *
94533012 TAAGACCATGTCTGGGACATGGCATCGGCACC-AGTATGAGATCCCATG
1 TAAGACCATATCTGGGACATGGCATCGGCACCGA-TATGAGATCTCGTA
* * * * * * *
94533060 TAAGACCATATCTGGGATATGGAATTGGTATCGATGTGAGGTCTCGTA
1 TAAGACCATATCTGGGACATGGCATCGGCACCGATATGAGATCTCGTA
* * *
94533108 TAAGACTATGT-TAGGGACATGGCATCGGCACCGACATGAGA-CTTCGTA
1 TAAGACCATATCT-GGGACATGGCATCGGCACCGATATGAGATC-TCGTA
*
94533156 TAAGACCATATCTGGGATATGGCATC
1 TAAGACCATATCTGGGACATGGCATC
94533182 AATATGTGGT
Statistics
Matches: 94, Mismatches: 24, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
47 2 0.02
48 90 0.96
49 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.25
Consensus pattern (48 bp):
TAAGACCATATCTGGGACATGGCATCGGCACCGATATGAGATCTCGTA
Found at i:94541638 original size:30 final size:30
Alignment explanation
Indices: 94541602--94541659 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
94541592 ATGACACTTA
*
94541602 GTGTGCAGTTCGAAATAGCTTCGGCTATTG
1 GTGTGCAATTCGAAATAGCTTCGGCTATTG
* *
94541632 GTGTGCAATTTGAGATAGCTTCGGCTAT
1 GTGTGCAATTCGAAATAGCTTCGGCTAT
94541660 ATATATAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.21, C:0.16, G:0.29, T:0.34
Consensus pattern (30 bp):
GTGTGCAATTCGAAATAGCTTCGGCTATTG
Found at i:94553781 original size:8 final size:9
Alignment explanation
Indices: 94553758--94553880 Score: 58
Period size: 9 Copynumber: 13.4 Consensus size: 9
94553748 CAAAATTATT
94553758 ATTTTATAAA
1 ATTTT-TAAA
94553768 ATTTTTAAA
1 ATTTTTAAA
*
94553777 A-TTTTAACC
1 ATTTTTAA-A
* *
94553786 TTTTTTATAT
1 ATTTTTA-AA
94553796 ATTCTTTAGAA
1 ATT-TTTA-AA
94553807 ATTTTTAAA
1 ATTTTTAAA
*
94553816 ATTTTTATA
1 ATTTTTAAA
*
94553825 ATTTTAAAA
1 ATTTTTAAA
** *
94553834 AAATAT-AA
1 ATTTTTAAA
*
94553842 A-TTTTAGA
1 ATTTTTAAA
94553850 ATTTTTAAAA
1 ATTTTT-AAA
*
94553860 ATATTTT-GA
1 AT-TTTTAAA
94553869 A-TTTTAAA
1 ATTTTTAAA
94553877 ATTT
1 ATTT
94553881 ATTTTAATTT
Statistics
Matches: 84, Mismatches: 19, Indels: 21
0.68 0.15 0.17
Matches are distributed among these distances:
7 6 0.07
8 13 0.15
9 32 0.38
10 20 0.24
11 13 0.15
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (9 bp):
ATTTTTAAA
Found at i:94553872 original size:19 final size:20
Alignment explanation
Indices: 94553842--94553892 Score: 63
Period size: 19 Copynumber: 2.6 Consensus size: 20
94553832 AAAAATATAA
94553842 ATTTTAGAATTTTTAAAA-AT
1 ATTTT-GAATTTTTAAAATAT
*
94553862 ATTTTGAA-TTTTAAAATTT
1 ATTTTGAATTTTTAAAATAT
94553881 ATTTT-AATTTTT
1 ATTTTGAATTTTT
94553893 TTTTTGTATT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 10 0.36
19 13 0.46
20 5 0.18
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (20 bp):
ATTTTGAATTTTTAAAATAT
Found at i:94553873 original size:18 final size:19
Alignment explanation
Indices: 94553842--94553891 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 19
94553832 AAAAATATAA
94553842 ATTTTAGAATTTTTAAAA-AT
1 ATTTT-GAA-TTTTAAAATAT
*
94553862 ATTTTGAATTTTAAAATTT
1 ATTTTGAATTTTAAAATAT
94553881 ATTTT-AATTTT
1 ATTTTGAATTTT
94553892 TTTTTTGTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 14 0.50
19 9 0.32
20 5 0.18
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
ATTTTGAATTTTAAAATAT
Found at i:94554057 original size:23 final size:23
Alignment explanation
Indices: 94554030--94554083 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
94554020 TCGAACTCGA
* *
94554030 AACTTGAATTACT-TATTCGATTT
1 AACTTGAATAACTCGATTCGA-TT
*
94554053 GACTTGAATAACTCGATTCGATT
1 AACTTGAATAACTCGATTCGATT
94554076 AACTTGAA
1 AACTTGAA
94554084 ATTATTTTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 20 0.77
24 6 0.23
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (23 bp):
AACTTGAATAACTCGATTCGATT
Found at i:94558034 original size:13 final size:13
Alignment explanation
Indices: 94558016--94558092 Score: 91
Period size: 13 Copynumber: 5.9 Consensus size: 13
94558006 AGTTCTTCAT
*
94558016 TGCTTTTAAAAAG
1 TGCTTTTGAAAAG
94558029 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
94558042 TGCTGTGGAAAAG
1 TGCTTTTGAAAAG
*
94558055 TGTTTTTGAAAAG
1 TGCTTTTGAAAAG
* *
94558068 TACTTTTGAGAAG
1 TGCTTTTGAAAAG
*
94558081 TGCTTTGGAAAA
1 TGCTTTTGAAAA
94558093 ATTTAAGTGT
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 52 1.00
ACGTcount: A:0.32, C:0.06, G:0.25, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:94561613 original size:13 final size:14
Alignment explanation
Indices: 94561595--94561624 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
94561585 ATTTGGGGTT
94561595 TTAGGG-TTTAAGG
1 TTAGGGTTTTAAGG
94561608 TTAGGGTTTTAAGG
1 TTAGGGTTTTAAGG
94561622 TTA
1 TTA
94561625 ATTAAATAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.23, C:0.00, G:0.33, T:0.43
Consensus pattern (14 bp):
TTAGGGTTTTAAGG
Found at i:94561942 original size:126 final size:126
Alignment explanation
Indices: 94561765--94562080 Score: 465
Period size: 126 Copynumber: 2.5 Consensus size: 126
94561755 TTGTGTTTAT
* **
94561765 GGATGCACTATCAGCAAAATTACT-AAAAAAAGCTTC-CACGTGGACATTCTTTTGCTACAGTAG
1 GGATGCACTGTCAGCAAAATTACTGAAAAAAA-C-TCACACGTGGACGCTCTTTTGCTACAGTAG
* * *
94561828 TATCTGAAAAAATAATTTTGATAAGATGTTTCTGAACAAATAGTGTCCAAAACGCTTCAAGCA
64 TATATGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAAACGCTTCAAGCA
* * *
94561891 GGATGCACTGTTAGCAAAATTATTGAAAAAAACTCACACGTGGACGCTCTTTTGCTATAGTAGTA
1 GGATGCACTGTCAGCAAAATTACTGAAAAAAACTCACACGTGGACGCTCTTTTGCTACAGTAGTA
* * *
94561956 TATGGAAAAATAATTTTGAGAAGACGTTTCTGAACAAATGGTGTCCAAAATGCTTCAAGCA
66 TATGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAAACGCTTCAAGCA
* * *
94562017 TGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCACATGTGGACGCTCTTTTGCTACAGTAGT
1 GGATGCACTGTCAGCAAAATTACTGAAAAAAACTCACACGTGGACGCTCTTTTGCTACAGTAGT
94562081 TCCTATTTGG
Statistics
Matches: 170, Mismatches: 18, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
125 2 0.01
126 161 0.95
127 7 0.04
ACGTcount: A:0.36, C:0.17, G:0.18, T:0.28
Consensus pattern (126 bp):
GGATGCACTGTCAGCAAAATTACTGAAAAAAACTCACACGTGGACGCTCTTTTGCTACAGTAGTA
TATGAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAAACGCTTCAAGCA
Found at i:94565104 original size:9 final size:9
Alignment explanation
Indices: 94565090--94565120 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
94565080 ATTTATATTT
94565090 TATTAAAAA
1 TATTAAAAA
94565099 TATTAAAAA
1 TATTAAAAA
94565108 TATTAAAAA
1 TATTAAAAA
94565117 TATT
1 TATT
94565121 GTCTTATTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (9 bp):
TATTAAAAA
Found at i:94566264 original size:7 final size:7
Alignment explanation
Indices: 94566252--94566276 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
94566242 TATTAGTTAT
94566252 ATACATA
1 ATACATA
94566259 ATACATA
1 ATACATA
94566266 ATACATA
1 ATACATA
94566273 ATAC
1 ATAC
94566277 TAAATACTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (7 bp):
ATACATA
Found at i:94567475 original size:11 final size:11
Alignment explanation
Indices: 94567449--94567490 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
94567439 TAAAGAGAGC
94567449 TTTGAGA-AAA
1 TTTGAGAGAAA
*
94567459 TATGAGAGAAA
1 TTTGAGAGAAA
94567470 TTTGAGAG-AA
1 TTTGAGAGAAA
94567480 TTTGAAGAGAA
1 TTTG-AGAGAA
94567491 TATAAAGAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 12 0.44
11 14 0.52
12 1 0.04
ACGTcount: A:0.48, C:0.00, G:0.26, T:0.26
Consensus pattern (11 bp):
TTTGAGAGAAA
Found at i:94568179 original size:21 final size:21
Alignment explanation
Indices: 94568153--94568193 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
94568143 ATGGGATAGG
94568153 TGATGTGGCTCA-TTAACTAGT
1 TGATGTGGC-CAGTTAACTAGT
94568174 TGATGTGGCCAGTTAACTAG
1 TGATGTGGCCAGTTAACTAG
94568194 CCATGATGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 2 0.11
21 17 0.89
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.34
Consensus pattern (21 bp):
TGATGTGGCCAGTTAACTAGT
Found at i:94568643 original size:3 final size:3
Alignment explanation
Indices: 94568635--94568677 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
94568625 AATTAACAAT
94568635 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA- AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
94568678 ATAAAAATGC
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:94569762 original size:3 final size:3
Alignment explanation
Indices: 94569754--94569780 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
94569744 AATAAATACA
94569754 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
94569781 AGACAATGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:94570340 original size:18 final size:17
Alignment explanation
Indices: 94570317--94570367 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
94570307 TTCTTGATAT
*
94570317 GTTAAAAGAAACTAAGAA
1 GTTAAAAGAAAATAA-AA
94570335 GTT-AAAGAAAATAAAA
1 GTTAAAAGAAAATAAAA
* * *
94570351 GTGAAAAAAAAAGAAAA
1 GTTAAAAGAAAATAAAA
94570368 AGAAAAATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
16 4 0.14
17 21 0.75
18 3 0.11
ACGTcount: A:0.69, C:0.02, G:0.16, T:0.14
Consensus pattern (17 bp):
GTTAAAAGAAAATAAAA
Found at i:94574871 original size:18 final size:18
Alignment explanation
Indices: 94574848--94574883 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
94574838 ATTCAACGGT
94574848 GGTTACTCTAAATGTATC
1 GGTTACTCTAAATGTATC
94574866 GGTTACTCTAAATGTATC
1 GGTTACTCTAAATGTATC
94574884 ACCCTCACAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.39
Consensus pattern (18 bp):
GGTTACTCTAAATGTATC
Found at i:94578037 original size:40 final size:38
Alignment explanation
Indices: 94577985--94578080 Score: 99
Period size: 40 Copynumber: 2.5 Consensus size: 38
94577975 TTAAAAAAGT
*
94577985 AATATATAAAAAAATAAAAAAATTGAT-ATAAACTTATAAA
1 AATATATTAAAAAATAAAAAAATT-ATAATAAA-TT-TAAA
** *
94578025 AATATATTAAAAAACTATTAATATTATAATAAATTTAAA
1 AATATATTAAAAAA-TAAAAAAATTATAATAAATTTAAA
94578064 AA-AT-TTAAAAAATAAAA
1 AATATATTAAAAAATAAAA
94578081 TTAAAAAAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
36 3 0.06
37 8 0.17
38 2 0.04
39 6 0.12
40 17 0.35
41 12 0.25
ACGTcount: A:0.66, C:0.02, G:0.01, T:0.31
Consensus pattern (38 bp):
AATATATTAAAAAATAAAAAAATTATAATAAATTTAAA
Found at i:94578149 original size:10 final size:10
Alignment explanation
Indices: 94578134--94578183 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
94578124 AATCATAAGC
94578134 ATTATAAAAA
1 ATTATAAAAA
94578144 ATTAT-AAAA
1 ATTATAAAAA
* *
94578153 AGTAT-TAAA
1 ATTATAAAAA
*
94578162 ATTGATATAAA
1 ATT-ATAAAAA
94578173 ATTATAAAAA
1 ATTATAAAAA
94578183 A
1 A
94578184 GAATCATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
9 13 0.38
10 14 0.41
11 7 0.21
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (10 bp):
ATTATAAAAA
Found at i:94578639 original size:19 final size:18
Alignment explanation
Indices: 94578617--94578816 Score: 85
Period size: 19 Copynumber: 10.8 Consensus size: 18
94578607 ATTTTTTTTA
94578617 AATTTTATAATTTTATAT
1 AATTTTATAATTTTATAT
*
94578635 CAATTTTAATATTTTTAT-T
1 -AATTTT-ATAATTTTATAT
* * *
94578654 ATTTTTAAGAATTTTAATAC
1 AATTTT-ATAATTTT-ATAT
* * *
94578674 AATTTTTTTATTTTAAAT
1 AATTTTATAATTTTATAT
*
94578692 AATTTTTATTATTTATATAT
1 AA-TTTTATAATTT-TATAT
*
94578712 ATATTTTTTAA-TTTAT-T
1 A-ATTTTATAATTTTATAT
94578729 ATATTTTATAATATTTATA-
1 A-ATTTTATAAT-TTTATAT
* *
94578748 AGTTTTTATAATTTCA-AT
1 A-ATTTTATAATTTTATAT
94578766 AAGTTTATATTAATTTTAGTAT
1 AA-TTT-TA-TAATTTTA-TAT
*
94578788 --TTTT-TAATATTTA-AC
1 AATTTTATAAT-TTTATAT
*
94578803 ATTTTTATAATTTT
1 AATTTTATAATTTT
94578817 TATGGAAAAA
Statistics
Matches: 140, Mismatches: 22, Indels: 40
0.69 0.11 0.20
Matches are distributed among these distances:
15 1 0.01
16 4 0.03
17 23 0.16
18 31 0.22
19 46 0.33
20 32 0.23
21 1 0.01
22 2 0.01
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (18 bp):
AATTTTATAATTTTATAT
Found at i:94578656 original size:9 final size:9
Alignment explanation
Indices: 94578599--94578819 Score: 100
Period size: 9 Copynumber: 23.8 Consensus size: 9
94578589 CCAGTTCAAG
*
94578599 TTTTTATGAT
1 TTTTTAT-AA
*
94578609 TTTTTTTAA
1 TTTTTATAA
*
94578618 ATTTTATAA
1 TTTTTATAA
94578627 TTTTATATCAA
1 TTTT-TAT-AA
*
94578638 TTTTAAT-A
1 TTTTTATAA
*
94578646 TTTTTATTA
1 TTTTTATAA
*
94578655 TTTTTAAGAA
1 TTTTT-ATAA
*
94578665 TTTTAATACAA
1 TTTT--TATAA
*
94578676 TTTTT-TTA
1 TTTTTATAA
*
94578684 TTTTAAATAA
1 TTTT-TATAA
*
94578694 TTTTTATTA
1 TTTTTATAA
94578703 TTTATATATATA
1 TTT-T-TATA-A
94578715 TTTTT-TAA
1 TTTTTATAA
94578723 TTTATTAT-A
1 TTT-TTATAA
94578732 -TTTTATAA
1 TTTTTATAA
*
94578740 TATTTATAA
1 TTTTTATAA
94578749 GTTTTTATAA
1 -TTTTTATAA
**
94578759 TTTCAATAA
1 TTTTTATAA
*
94578768 GTTTATATTAA
1 -TTTTTA-TAA
94578779 -TTTTAGT-A
1 TTTTTA-TAA
94578787 TTTTT-TAA
1 TTTTTATAA
*
94578795 TATTTA-ACA
1 TTTTTATA-A
94578804 TTTTTATAA
1 TTTTTATAA
94578813 TTTTTAT
1 TTTTTAT
94578820 GGAAAAAATA
Statistics
Matches: 161, Mismatches: 27, Indels: 47
0.69 0.11 0.20
Matches are distributed among these distances:
7 5 0.03
8 26 0.16
9 66 0.41
10 39 0.24
11 20 0.12
12 5 0.03
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (9 bp):
TTTTTATAA
Found at i:94578679 original size:29 final size:27
Alignment explanation
Indices: 94578617--94578697 Score: 72
Period size: 29 Copynumber: 2.9 Consensus size: 27
94578607 ATTTTTTTTA
* *
94578617 AATTTTATAATTTTATATCAATTTTAAT
1 AATTTTATTATTTT-TAACAATTTTAAT
* *
94578645 ATTTTTATTATTTTTAAGAATTTTAAT
1 AATTTTATTATTTTTAACAATTTTAAT
* * *
94578672 ACAATTTTTTTATTTTAAATAATTTT
1 --AATTTTATTATTTTTAACAATTTT
94578698 TATTATTTAT
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
27 11 0.26
28 12 0.28
29 20 0.47
ACGTcount: A:0.36, C:0.02, G:0.01, T:0.60
Consensus pattern (27 bp):
AATTTTATTATTTTTAACAATTTTAAT
Found at i:94578723 original size:29 final size:26
Alignment explanation
Indices: 94578690--94578816 Score: 82
Period size: 26 Copynumber: 4.7 Consensus size: 26
94578680 TTTATTTTAA
94578690 ATAATTTTTATTATTTATATATATATTTT
1 ATAATTTTTATTATTT-TATA-ATA-TTT
*
94578719 TTAATTTATTA-TATTTTATAATATTT
1 ATAATTT-TTATTATTTTATAATATTT
* *
94578745 ATAAGTTTTTATAATTTCAATAAGT-TTAT
1 ATAA-TTTTTATTATTT-TATAA-TATT-T
* *
94578774 ATTAA-TTTTAGTATTTTTTAATATTT
1 A-TAATTTTTATTATTTTATAATATTT
*
94578800 A-ACATTTTTATAATTTT
1 ATA-ATTTTTATTATTTT
94578817 TATGGAAAAA
Statistics
Matches: 78, Mismatches: 10, Indels: 23
0.70 0.09 0.21
Matches are distributed among these distances:
24 1 0.01
25 1 0.01
26 22 0.28
27 15 0.19
28 19 0.24
29 14 0.18
30 6 0.08
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (26 bp):
ATAATTTTTATTATTTTATAATATTT
Found at i:94580093 original size:44 final size:44
Alignment explanation
Indices: 94580044--94580133 Score: 171
Period size: 44 Copynumber: 2.0 Consensus size: 44
94580034 ATAGATAAAC
94580044 AACTTTTGTAAAGTGAATTTTCATGAAATTGTAATTTAGGGACT
1 AACTTTTGTAAAGTGAATTTTCATGAAATTGTAATTTAGGGACT
*
94580088 AACTTTTGTAAAGTGAATTTTCATGAAATTGTAATTTGGGGACT
1 AACTTTTGTAAAGTGAATTTTCATGAAATTGTAATTTAGGGACT
94580132 AA
1 AA
94580134 GTTGTAAAGA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.34, C:0.07, G:0.19, T:0.40
Consensus pattern (44 bp):
AACTTTTGTAAAGTGAATTTTCATGAAATTGTAATTTAGGGACT
Found at i:94580155 original size:44 final size:43
Alignment explanation
Indices: 94580049--94580156 Score: 128
Period size: 44 Copynumber: 2.5 Consensus size: 43
94580039 TAAACAACTT
** *
94580049 TTGTAAAGTGAATTTTCATGAAATTGTAATTTAGGGACTAACTT
1 TTGTAAAGTGAAAATTCATGAAATTGTAATTTAGGGACTAAC-G
** *
94580093 TTGTAAAGTGAATTTTCATGAAATTGTAATTTGGGGACTAA-G
1 TTGTAAAGTGAAAATTCATGAAATTGTAATTTAGGGACTAACG
94580135 TTGTAAAGATGTAAAATTCATG
1 TTGTAAAG-TG-AAAATTCATG
94580157 GAAAAATTAT
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
42 8 0.14
43 2 0.03
44 48 0.83
ACGTcount: A:0.35, C:0.06, G:0.20, T:0.39
Consensus pattern (43 bp):
TTGTAAAGTGAAAATTCATGAAATTGTAATTTAGGGACTAACG
Found at i:94580973 original size:24 final size:24
Alignment explanation
Indices: 94580940--94580991 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
94580930 GAGCTACTCG
94580940 TTATTGGCTCGCATGAGCTTCCTAA
1 TTATTGGCTCGCATGAGCTTCCT-A
**
94580965 TTATT-GCTCTTATGAGCTTCCTA
1 TTATTGGCTCGCATGAGCTTCCTA
94580988 TTAT
1 TTAT
94580992 ACAGACCGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 5 0.20
24 15 0.60
25 5 0.20
ACGTcount: A:0.19, C:0.21, G:0.15, T:0.44
Consensus pattern (24 bp):
TTATTGGCTCGCATGAGCTTCCTA
Found at i:94587206 original size:422 final size:421
Alignment explanation
Indices: 94586423--94587225 Score: 1453
Period size: 422 Copynumber: 1.9 Consensus size: 421
94586413 AAATCTTAGG
* *
94586423 AAAATTTCTAGGTTTAAGCCTCACACGCCCATATGGAGGCAATGCACATGCTCGTGTGCTTGGAA
1 AAAATTTCTAGGTTTAAGCCTCACACGCCCATATGGAGGAAATGCACATGCCCGTGTGCTTGGAA
*
94586488 CACGCCCGTGTCCCTTACCCGTGTGGAATTAATTGAATTTATTTTCCATTTCAAACCTACTGGGT
66 CACGCCCGTGTCCCTTACCCGTGTGGAATTAATTGAATTTATTTTCCATTTCAAACCTACGGGGT
* * *
94586553 TTTCACACGGCCTAGACATGCACGTGTGGTCGCTCGTTTCCAAAAACCTGGACATTCTATTTATT
131 TTTCACACGGCCTAGACATGCACGTGTGGTCGCCCGTGTCCAAAAACCTAGACATTCTATTTATT
94586618 TTGTCATCACTCATTTTGAGGCACACGGCCAAGGCACACGCCCGTGTGCTAAGCCGTGTCCTCCA
196 TTGTCATCACTCATTTTGAGGCACACGGCCAAGGCACACGCCCGTGTGCTAAGCCGTGTCCTCCA
* * *
94586683 CACGGTTGAGACACACACCTGTGTCTCTGCGCGTGTGTTTACTACCATGCAAACTGGCCTAAAAT
261 CACGGTTAAGACACACACCTGTGTCTCTGCGCGTGTGTTTACTACCATACAAACTGACCTAAAAT
*
94586748 TTTAAGTGCAGGGGACACACGGCCAGACAACACACCCATGGGGGCTGACTGTGTGTCACACAATG
326 TTTAAGTGCAGGGGACACACGGCCAGACAACACACCCATAGGGGCTGACTGTGTGTCACACAATG
94586813 CCTGGACACCAACATGCACAAATATTAGGTT
391 CCTGGACACCAACATGCACAAATATTAGGTT
* *
94586844 AAAATTTCTAGGTTTAAGCCTCACACGCCCGTGTGGAGGAAATGCACATGCCCGTGTGCTTGGAA
1 AAAATTTCTAGGTTTAAGCCTCACACGCCCATATGGAGGAAATGCACATGCCCGTGTGCTTGGAA
94586909 CACGCCCGTGTCCCTTACCCGTGTGGAATTAATTGAATTTATTTTCCATTTCAAACCTACCGGGG
66 CACGCCCGTGTCCCTTACCCGTGTGGAATTAATTGAATTTATTTTCCATTTCAAACCTA-CGGGG
*
94586974 TTTTCACACGGCCTAGACATGCACGTGTGGTCGCCCGTGTCCAAAAACCTAGACATTCTGTTTAT
130 TTTTCACACGGCCTAGACATGCACGTGTGGTCGCCCGTGTCCAAAAACCTAGACATTCTATTTAT
*
94587039 TTTGTCATCACTCATTTTGAGGCACACGGCCAAGGCACACGCCCGTGTGCTAGGCCGTGTCCTCC
195 TTTGTCATCACTCATTTTGAGGCACACGGCCAAGGCACACGCCCGTGTGCTAAGCCGTGTCCTCC
*
94587104 ACACGGTTAAGACACACACCTGTGTCTCTGTGCGTGTGTTTACTACCATACAAACTGACCTAAAA
260 ACACGGTTAAGACACACACCTGTGTCTCTGCGCGTGTGTTTACTACCATACAAACTGACCTAAAA
*
94587169 TTTTAAGTGCAGGGGACACACGGCCAGGCAACACACCCATAGGGGCTGACTGTGTGT
325 TTTTAAGTGCAGGGGACACACGGCCAGACAACACACCCATAGGGGCTGACTGTGTGT
94587226 TACTTACGGC
Statistics
Matches: 365, Mismatches: 16, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
421 120 0.33
422 245 0.67
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.26
Consensus pattern (421 bp):
AAAATTTCTAGGTTTAAGCCTCACACGCCCATATGGAGGAAATGCACATGCCCGTGTGCTTGGAA
CACGCCCGTGTCCCTTACCCGTGTGGAATTAATTGAATTTATTTTCCATTTCAAACCTACGGGGT
TTTCACACGGCCTAGACATGCACGTGTGGTCGCCCGTGTCCAAAAACCTAGACATTCTATTTATT
TTGTCATCACTCATTTTGAGGCACACGGCCAAGGCACACGCCCGTGTGCTAAGCCGTGTCCTCCA
CACGGTTAAGACACACACCTGTGTCTCTGCGCGTGTGTTTACTACCATACAAACTGACCTAAAAT
TTTAAGTGCAGGGGACACACGGCCAGACAACACACCCATAGGGGCTGACTGTGTGTCACACAATG
CCTGGACACCAACATGCACAAATATTAGGTT
Found at i:94596097 original size:39 final size:40
Alignment explanation
Indices: 94595999--94596100 Score: 111
Period size: 39 Copynumber: 2.6 Consensus size: 40
94595989 AGCTCGCATA
* * *
94595999 AGGAACTTCTCTAATACACAAATTACCCTTAGCTCTTAGG
1 AGGAGCTTTTCTAATACACAACTTACCCTTAGCTCTTAGG
* * *
94596039 -GGAGCTTTGTC-GATACACAACTTATCCTTAGCTC-TCGG
1 AGGAGCTTT-TCTAATACACAACTTACCCTTAGCTCTTAGG
*
94596077 AGGAGCTTTTCTAATGCACAACTT
1 AGGAGCTTTTCTAATACACAACTT
94596101 TTAGAATAAT
Statistics
Matches: 51, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
38 5 0.10
39 44 0.86
40 2 0.04
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (40 bp):
AGGAGCTTTTCTAATACACAACTTACCCTTAGCTCTTAGG
Found at i:94600347 original size:40 final size:40
Alignment explanation
Indices: 94600255--94600470 Score: 294
Period size: 40 Copynumber: 5.5 Consensus size: 40
94600245 GGATGATAAT
* * * *
94600255 CGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTA-GTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATC
94600294 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATC
*
94600334 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATC
* *
94600374 CGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATC
* * *
94600414 CGGGCTATGTCCCGAAGGCATTCGAGCAAG-TAGCTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTA-CTATATC
* *
94600454 C-GGTTAAATCCCGAAGG
1 CGGGCTAAGTCCCGAAGG
94600471 TACTTGGCTT
Statistics
Matches: 162, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 48 0.30
40 114 0.70
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATC
Found at i:94608433 original size:40 final size:40
Alignment explanation
Indices: 94608378--94608595 Score: 289
Period size: 40 Copynumber: 5.5 Consensus size: 40
94608368 TGGATGATAA
* * *
94608378 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
*
94608418 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
94608458 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
94608498 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * * *
94608538 CCGAGCTATGTCCCGAAGGCATTCGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
94608578 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
94608596 TACTTGGCTT
Statistics
Matches: 162, Mismatches: 14, Indels: 5
0.90 0.08 0.03
Matches are distributed among these distances:
39 15 0.09
40 147 0.91
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:94614084 original size:42 final size:42
Alignment explanation
Indices: 94614025--94614108 Score: 150
Period size: 42 Copynumber: 2.0 Consensus size: 42
94614015 AAGAAGAAGA
*
94614025 TAAAAAGTTATCCTAGAAATGGCGCGTCAATGCTTTGAAATC
1 TAAAAAGTTATCCTAGAAATGGCGCATCAATGCTTTGAAATC
*
94614067 TAAAAAGTTATCCTAGAAATGGTGCATCAATGCTTTGAAATC
1 TAAAAAGTTATCCTAGAAATGGCGCATCAATGCTTTGAAATC
94614109 ACTATTTTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (42 bp):
TAAAAAGTTATCCTAGAAATGGCGCATCAATGCTTTGAAATC
Found at i:94622784 original size:54 final size:54
Alignment explanation
Indices: 94622702--94622811 Score: 220
Period size: 54 Copynumber: 2.0 Consensus size: 54
94622692 ATTCAAAGAC
94622702 TAAGTAGAGGAAAATTATCAAAATCATGACTTTATCTCTTTTTCTAAGGTTTAA
1 TAAGTAGAGGAAAATTATCAAAATCATGACTTTATCTCTTTTTCTAAGGTTTAA
94622756 TAAGTAGAGGAAAATTATCAAAATCATGACTTTATCTCTTTTTCTAAGGTTTAA
1 TAAGTAGAGGAAAATTATCAAAATCATGACTTTATCTCTTTTTCTAAGGTTTAA
94622810 TA
1 TA
94622812 TATCATTTGG
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (54 bp):
TAAGTAGAGGAAAATTATCAAAATCATGACTTTATCTCTTTTTCTAAGGTTTAA
Found at i:94634594 original size:93 final size:93
Alignment explanation
Indices: 94634377--94634595 Score: 255
Period size: 93 Copynumber: 2.4 Consensus size: 93
94634367 TATGTGAGAA
* * *
94634377 CCAGTGTAAGACCATGTCTAGGACATGGAATCGGCATTGAGATGAGGGCTAGTGTAAGACGTGTC
1 CCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATAGAGATGAGGGCCAGTGTAAGACGTGTC
*
94634442 TAGACATGAATCAGCCACATTACAATAG
66 TAGACATGAATCAGCCACATGACAATAG
* * * * *
94634470 CCTGTGTAAGACCATGTCTGGGACATGGCATCGGCGTAGAGATGAGTGCCAGTGTAAGACGTGTT
1 CCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATAGAGATGAGGGCCAGTGTAAGACGTGTC
* ***
94634535 TGAGACAT-ACATCAGCCTCAATGATGGTAG
66 T-AGACATGA-ATCAGCCAC-ATGACAATAG
* *
94634565 CCAGTGTAAGA-CGTGTCTCGGACAT-GCATCG
1 CCAGTGTAAGACCATGTCTAGGACATGGCATCG
94634596 ACTAAGCTTC
Statistics
Matches: 107, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
93 65 0.61
94 26 0.24
95 16 0.15
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (93 bp):
CCAGTGTAAGACCATGTCTAGGACATGGCATCGGCATAGAGATGAGGGCCAGTGTAAGACGTGTC
TAGACATGAATCAGCCACATGACAATAG
Found at i:94634676 original size:49 final size:49
Alignment explanation
Indices: 94634608--94634737 Score: 142
Period size: 49 Copynumber: 2.7 Consensus size: 49
94634598 TAAGCTTCAT
* *
94634608 GCTAGTGTAAGA-TATGTCTGGGACATGA-ATCAG-CTCTTAT-ACACGAGA
1 GCTAGTGTAAGACCATGTCTGGGACATGACATCAGCCTC-GATGA-A-GAGA
* * *
94634656 GCTAATGTAAGACCATGTCTGGGACATGACATCGGCCTCGATGAAGATA
1 GCTAGTGTAAGACCATGTCTGGGACATGACATCAGCCTCGATGAAGAGA
* *
94634705 GCCAGTGTAAGACCATGTCTGGGACATGGCATC
1 GCTAGTGTAAGACCATGTCTGGGACATGACATC
94634738 GGCAACTTAA
Statistics
Matches: 70, Mismatches: 8, Indels: 7
0.82 0.09 0.08
Matches are distributed among these distances:
48 11 0.16
49 48 0.69
50 7 0.10
51 4 0.06
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (49 bp):
GCTAGTGTAAGACCATGTCTGGGACATGACATCAGCCTCGATGAAGAGA
Found at i:94637647 original size:14 final size:15
Alignment explanation
Indices: 94637630--94637660 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
94637620 AAGTGACTTG
94637630 GATAA-ATCGTCTAT
1 GATAATATCGTCTAT
94637644 GATAATATCGTCTAT
1 GATAATATCGTCTAT
94637659 GA
1 GA
94637661 ACGCTGAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (15 bp):
GATAATATCGTCTAT
Found at i:94642040 original size:47 final size:48
Alignment explanation
Indices: 94641846--94642110 Score: 151
Period size: 47 Copynumber: 5.7 Consensus size: 48
94641836 GTTATGTGAG
* * * *
94641846 AGCCAGTGTAAGACCATGTCTGGGACATAGCATCGGCATTGAGATGA-GG-
1 AGCCAGTGTAAGA-CGTGTCTGGGACAT-GCATCGGC-CTCAGATAATGGT
* * * * * * *
94641895 -GCTAGTGTAAGACGTGTCTAGGACATGCATCAGCCACA-TTACT-AT
1 AGCCAGTGTAAGACGTGTCTGGGACATGCATCGGCCTCAGATAATGGT
* * * *** *
94641940 AGCCTGTGTAAAACCATGTCTGGGACATGGCATCGTTGT-AGA-GATGAGT
1 AGCCAGTGTAAGA-CGTGTCTGGGACAT-GCATCGGCCTCAGATAATG-GT
94641989 -GCCAGTGTAAGACGTGTCTGGGACATGCATCGGCCTCA-ATAATGGT
1 AGCCAGTGTAAGACGTGTCTGGGACATGCATCGGCCTCAGATAATGGT
* * * * *
94642035 AGCCAGTGTAGGACGTGCCTGGGACATGCATCGG-CTAAGCT--TCGT
1 AGCCAGTGTAAGACGTGTCTGGGACATGCATCGGCCTCAGATAATGGT
* * *
94642080 -GCTAGTGTAAGACATGACTGGGACATGCATC
1 AGCCAGTGTAAGACGTGTCTGGGACATGCATC
94642111 AGCTCTTATA
Statistics
Matches: 163, Mismatches: 41, Indels: 29
0.70 0.18 0.12
Matches are distributed among these distances:
44 28 0.17
45 4 0.02
46 29 0.18
47 75 0.46
48 26 0.16
49 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (48 bp):
AGCCAGTGTAAGACGTGTCTGGGACATGCATCGGCCTCAGATAATGGT
Found at i:94642057 original size:94 final size:92
Alignment explanation
Indices: 94641846--94642113 Score: 272
Period size: 94 Copynumber: 2.9 Consensus size: 92
94641836 GTTATGTGAG
* * * *
94641846 AGCCAGTGTAAGACCATGTCTGGGACATAGCATCGGCATTGAGATGAGGGCTAGTGTAAGACGTG
1 AGCCAGTGTAAAACCATGCCTGGGACAT-GCATCGGC-TAGAGATGAGTGCTAGTGTAAGACGTG
* * *
94641911 TCTAGGACATGCATCAGCCACATTACTAT
64 TCTGGGACATGCATCAGCCACAATAATAT
* * *
94641940 AGCCTGTGTAAAACCATGTCTGGGACATGGCATCGTTG-TAGAGATGAGTGCCAGTGTAAGACGT
1 AGCCAGTGTAAAACCATGCCTGGGACAT-GCATCG--GCTAGAGATGAGTGCTAGTGTAAGACGT
* * *
94642004 GTCTGGGACATGCATCGGCCTCAATAATGGT
63 GTCTGGGACATGCATCAGCCACAATAAT-AT
** * * ** * *
94642035 AGCCAGTGTAGGA-CGTGCCTGGGACATGCATCGGCTA-AGCTTCGTGCTAGTGTAAGACATGAC
1 AGCCAGTGTAAAACCATGCCTGGGACATGCATCGGCTAGAGATGAGTGCTAGTGTAAGACGTGTC
94642098 TGGGACATGCATCAGC
66 TGGGACATGCATCAGC
94642114 TCTTATACAC
Statistics
Matches: 146, Mismatches: 24, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
91 36 0.25
92 2 0.01
93 6 0.04
94 90 0.62
95 11 0.08
96 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.24
Consensus pattern (92 bp):
AGCCAGTGTAAAACCATGCCTGGGACATGCATCGGCTAGAGATGAGTGCTAGTGTAAGACGTGTC
TGGGACATGCATCAGCCACAATAATAT
Found at i:94643024 original size:55 final size:55
Alignment explanation
Indices: 94642922--94643040 Score: 143
Period size: 55 Copynumber: 2.2 Consensus size: 55
94642912 GTTAGTATTT
* *
94642922 TCCACGGGTAGGCCACACGGGCGTGTGCCATAGCCGTGTCTATAAGTCAGTTTTG
1 TCCACGGGTAGGCCACACGGGCGTGTGCCATAGCCGTGCCTATAAGTCAGTGTTG
* ** * *
94642977 TCCACGGGTAGGCCACACGGGTGTGTGTTATGGCTGTGCCT-TAAAGTCAGTGTTG
1 TCCACGGGTAGGCCACACGGGCGTGTGCCATAGCCGTGCCTAT-AAGTCAGTGTTG
94643032 -CACACGGGT
1 TC-CACGGGT
94643041 TAAGGGCTTG
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
54 2 0.04
55 53 0.96
ACGTcount: A:0.18, C:0.24, G:0.33, T:0.26
Consensus pattern (55 bp):
TCCACGGGTAGGCCACACGGGCGTGTGCCATAGCCGTGCCTATAAGTCAGTGTTG
Found at i:94644014 original size:13 final size:13
Alignment explanation
Indices: 94643998--94644027 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
94643988 AAAATAGTTG
*
94643998 ATAAATAAATACA
1 ATAAAGAAATACA
94644011 ATAAAGAAATACA
1 ATAAAGAAATACA
94644024 ATAA
1 ATAA
94644028 TAATAGTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.70, C:0.07, G:0.03, T:0.20
Consensus pattern (13 bp):
ATAAAGAAATACA
Found at i:94644065 original size:11 final size:11
Alignment explanation
Indices: 94644018--94644075 Score: 57
Period size: 11 Copynumber: 5.2 Consensus size: 11
94644008 ACAATAAAGA
*
94644018 AATACAATAAT
1 AATATAATAAT
*
94644029 AATAGTAATAGT
1 AATA-TAATAAT
94644041 AATATAA-AATT
1 AATATAATAA-T
94644052 AATGAT-ATAAT
1 AAT-ATAATAAT
94644063 AATATAATAAT
1 AATATAATAAT
94644074 AA
1 AA
94644076 GCATAAAAAG
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
10 3 0.08
11 23 0.59
12 13 0.33
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (11 bp):
AATATAATAAT
Found at i:94649174 original size:27 final size:27
Alignment explanation
Indices: 94648897--94649200 Score: 247
Period size: 27 Copynumber: 11.2 Consensus size: 27
94648887 TTATTGAATT
* * *
94648897 CCCTTGGTTTATAAAATTACCAAAATA
1 CCCTTGATTTGTAAAATTACTAAAATA
* * *
94648924 CCCTTAATTAGTAAAATTACCAAAATA
1 CCCTTGATTTGTAAAATTACTAAAATA
* * *
94648951 TCCTTGGTTTGTAAAATTACCAAAATA
1 CCCTTGATTTGTAAAATTACTAAAATA
*
94648978 CCCTTGATTTGTGAAATTA-TCAAAATA
1 CCCTTGATTTGTAAAATTACT-AAAATA
** *
94649005 CCCTTGACCTGTAAAATTACCAAAATA
1 CCCTTGATTTGTAAAATTACTAAAATA
* * * *
94649032 CCCTCGACTTGTGAAATTACTGAAATA
1 CCCTTGATTTGTAAAATTACTAAAATA
* *
94649059 CCCTCGATTTGTAAAATTACCAAAATA
1 CCCTTGATTTGTAAAATTACTAAAATA
* **
94649086 CCCTTAATTTACAAAATTA-TAGAAATA
1 CCCTTGATTTGTAAAATTACTA-AAATA
*
94649113 CCCTTGACTTT-CAAAACTTA-TAGAAATA
1 CCCTTGA-TTTGTAAAA-TTACTA-AAATA
* * * *
94649141 CCATTGGTTTGCAAAATTACTGAAATA
1 CCCTTGATTTGTAAAATTACTAAAATA
* * * * *
94649168 CCCTTGGTTTGTAGATTTACCAAAACA
1 CCCTTGATTTGTAAAATTACTAAAATA
94649195 CCCTTG
1 CCCTTG
94649201 TAGGGTGAAA
Statistics
Matches: 229, Mismatches: 41, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
26 1 0.00
27 203 0.89
28 25 0.11
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.32
Consensus pattern (27 bp):
CCCTTGATTTGTAAAATTACTAAAATA
Found at i:94649483 original size:41 final size:41
Alignment explanation
Indices: 94649438--94649559 Score: 174
Period size: 41 Copynumber: 3.0 Consensus size: 41
94649428 GGAGGAAGAA
* * *
94649438 ATTGAGGATCGCATGGTTGCTTGACGATCGTGGATCAACCG
1 ATTGAGGATCGCATGGTTGCTTGACGACCATGGATCCACCG
* *
94649479 ATTGAGGATCACATGATTGCTTG-CGACCATGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGACCATGGATCCACCG
* *
94649519 ATTAAGGATTGCATGGTTGCTTGACGACCATGGATCCACCG
1 ATTGAGGATCGCATGGTTGCTTGACGACCATGGATCCACCG
94649560 GTGGCTTTTA
Statistics
Matches: 71, Mismatches: 9, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
40 33 0.46
41 38 0.54
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (41 bp):
ATTGAGGATCGCATGGTTGCTTGACGACCATGGATCCACCG
Found at i:94649751 original size:22 final size:22
Alignment explanation
Indices: 94649699--94649763 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
94649689 GCCAATTATT
* *
94649699 CTGATTATGGCTTTGCGCCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
94649721 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
* *
94649743 CTGATTATGGTTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
94649764 ACGTATTTAC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.32
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:94651428 original size:44 final size:44
Alignment explanation
Indices: 94651375--94651504 Score: 190
Period size: 44 Copynumber: 3.0 Consensus size: 44
94651365 AGGACTTGTC
* * * *
94651375 GCTTCAATCTACTCCACTACAACTTCATGGAGATAAGA-TCTGTA
1 GCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTC-ATA
*
94651419 GCTTTAATCTACTCCACTGTAACTTCAGGGAGATAAGATTCATA
1 GCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTCATA
*
94651463 GCTTTAGTCTACTCCACTGCAACTTCAGGGAGATAAGATTCA
1 GCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTCA
94651505 CCATGATAAC
Statistics
Matches: 78, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
44 76 0.97
45 2 0.03
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (44 bp):
GCTTTAATCTACTCCACTGCAACTTCAGGGAGATAAGATTCATA
Found at i:94666134 original size:27 final size:27
Alignment explanation
Indices: 94666104--94666177 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
94666094 ATAGGTGGTG
*
94666104 CCTATCTGGTAGGCGCCACTGGTGACT
1 CCTATCTGATAGGCGCCACTGGTGACT
* **
94666131 CCTATCTAATAGGCATCACTGGTGACT
1 CCTATCTGATAGGCGCCACTGGTGACT
* *
94666158 TCTATCTGATAGGCGGCACT
1 CCTATCTGATAGGCGCCACT
94666178 AATGTTTAAT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.20, C:0.27, G:0.24, T:0.28
Consensus pattern (27 bp):
CCTATCTGATAGGCGCCACTGGTGACT
Found at i:94666366 original size:19 final size:19
Alignment explanation
Indices: 94666344--94666398 Score: 51
Period size: 19 Copynumber: 3.0 Consensus size: 19
94666334 AATTGAGAGT
94666344 TTTGTTAGTAATTTTGTTA
1 TTTGTTAGTAATTTTGTTA
** *
94666363 TTTGAAAGTTATTTTGTTA
1 TTTGTTAGTAATTTTGTTA
* *
94666382 --GGTTATTAATTTTGTTA
1 TTTGTTAGTAATTTTGTTA
94666399 GCTTCTGAAT
Statistics
Matches: 28, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
17 12 0.43
19 16 0.57
ACGTcount: A:0.24, C:0.00, G:0.16, T:0.60
Consensus pattern (19 bp):
TTTGTTAGTAATTTTGTTA
Found at i:94670022 original size:75 final size:75
Alignment explanation
Indices: 94669907--94670046 Score: 235
Period size: 75 Copynumber: 1.9 Consensus size: 75
94669897 TAAATTTTAC
* * **
94669907 TATTTAAATTACAAAAAACCCCTAAAATTAATAACTAAAATGGCGAAAAAGTCATTACATAAATA
1 TATTTAAATTACAAAAAAACCCTAAAATTAATAACTAAAATCGAAAAAAAGTCATTACATAAATA
94669972 CAAAATTGAT
66 CAAAATTGAT
*
94669982 TATTTAAATTACAAAAAAACCCTAAAATTAATAACTAAAATCGAAAAAAAGTCATTATATAAATA
1 TATTTAAATTACAAAAAAACCCTAAAATTAATAACTAAAATCGAAAAAAAGTCATTACATAAATA
94670047 TAAAGTTGTT
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
75 60 1.00
ACGTcount: A:0.56, C:0.12, G:0.05, T:0.27
Consensus pattern (75 bp):
TATTTAAATTACAAAAAAACCCTAAAATTAATAACTAAAATCGAAAAAAAGTCATTACATAAATA
CAAAATTGAT
Found at i:94670321 original size:99 final size:100
Alignment explanation
Indices: 94670150--94670356 Score: 294
Period size: 99 Copynumber: 2.1 Consensus size: 100
94670140 TGGTCCTAGG
* * *
94670150 CGGTGGATACTGGCCGGGAGGAGTAGAGTACGACAGTGGATACAGACCGAGAGGAGTGAAATATG
1 CGGTGGATACGGGCCGGGAGGAGTAGAGTACGACAGTAGATACAGACCGAGAGGAGTGAAATATA
* *
94670215 GCGGTGGATATGGGCCTGGAGAAGTAGAGTAC-GA
66 GCAGTGGATATGGGCCGGGAGAAGTAGAGTACTGA
* * * *
94670249 CGGTGGATACGGGCCTGGAGGAGTAGAGTACGAC-GATAGATACAGTCCGAGAGGAGTGGAGTAT
1 CGGTGGATACGGGCCGGGAGGAGTAGAGTACGACAG-TAGATACAGACCGAGAGGAGTGAAATAT
*
94670313 AGCAGTGGATATGGGCCGGGAGGAGTAGAGTACTGA
65 AGCAGTGGATATGGGCCGGGAGAAGTAGAGTACTGA
94670349 -GGTGGATA
1 CGGTGGATA
94670357 TGAGTCGAAA
Statistics
Matches: 96, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
98 1 0.01
99 93 0.97
100 2 0.02
ACGTcount: A:0.29, C:0.13, G:0.42, T:0.17
Consensus pattern (100 bp):
CGGTGGATACGGGCCGGGAGGAGTAGAGTACGACAGTAGATACAGACCGAGAGGAGTGAAATATA
GCAGTGGATATGGGCCGGGAGAAGTAGAGTACTGA
Found at i:94670354 original size:33 final size:33
Alignment explanation
Indices: 94670150--94670358 Score: 165
Period size: 33 Copynumber: 6.3 Consensus size: 33
94670140 TGGTCCTAGG
94670150 CGGTGGATACT-GGCCGGGAGGAGTAGAGTACGA
1 CGGTGGATA-TGGGCCGGGAGGAGTAGAGTACGA
* ** * * * * *
94670183 CAGTGGATACAGACCGAGAGGAGT-GAAATATGG
1 CGGTGGATATGGGCCGGGAGGAGTAG-AGTACGA
* *
94670216 CGGTGGATATGGGCCTGGAGAAGTAGAGTACGA
1 CGGTGGATATGGGCCGGGAGGAGTAGAGTACGA
* *
94670249 CGGTGGATACGGGCCTGGAGGAGTAGAGTACGA
1 CGGTGGATATGGGCCGGGAGGAGTAGAGTACGA
* * ** * * * *
94670282 CGATAGATACAGTCCGAGAGGAGTGGAGTA-TA
1 CGGTGGATATGGGCCGGGAGGAGTAGAGTACGA
*
94670314 GCAGTGGATATGGGCCGGGAGGAGTAGAGTACTGA
1 -CGGTGGATATGGGCCGGGAGGAGTAGAGTAC-GA
94670349 -GGTGGATATG
1 CGGTGGATATG
94670359 AGTCGAAATG
Statistics
Matches: 133, Mismatches: 37, Indels: 12
0.73 0.20 0.07
Matches are distributed among these distances:
32 2 0.02
33 129 0.97
34 1 0.01
35 1 0.01
ACGTcount: A:0.28, C:0.12, G:0.42, T:0.17
Consensus pattern (33 bp):
CGGTGGATATGGGCCGGGAGGAGTAGAGTACGA
Found at i:94670800 original size:13 final size:13
Alignment explanation
Indices: 94670782--94670810 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
94670772 TAACTTTAAA
94670782 ACACGGCCATGAC
1 ACACGGCCATGAC
94670795 ACACGGCCATGAC
1 ACACGGCCATGAC
94670808 ACA
1 ACA
94670811 TGCCAGTGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.34, C:0.38, G:0.21, T:0.07
Consensus pattern (13 bp):
ACACGGCCATGAC
Found at i:94675615 original size:28 final size:27
Alignment explanation
Indices: 94675574--94675642 Score: 70
Period size: 26 Copynumber: 2.5 Consensus size: 27
94675564 ATATTTTAAT
*
94675574 AAATC-AATAAAAATTTTCAAATAAATAA
1 AAATCAAATAAAAA-TTAC-AATAAATAA
*
94675602 AAATCAAAT-AAAATTACATTAAATAA
1 AAATCAAATAAAAATTACAATAAATAA
*
94675628 AAATCACATTAAAAA
1 AAATCA-AATAAAAA
94675643 AATCACAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
26 14 0.40
27 5 0.14
28 13 0.37
29 3 0.09
ACGTcount: A:0.65, C:0.09, G:0.00, T:0.26
Consensus pattern (27 bp):
AAATCAAATAAAAATTACAATAAATAA
Found at i:94675625 original size:15 final size:15
Alignment explanation
Indices: 94675607--94675649 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 15
94675597 AATAAAAATC
*
94675607 AAATAAAATTACATT
1 AAATAAAATCACATT
94675622 AAATAAAAATCACATT
1 AAAT-AAAATCACATT
94675638 AAA-AAAATCACA
1 AAATAAAATCACA
94675650 AAACACTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 9 0.35
15 4 0.15
16 13 0.50
ACGTcount: A:0.65, C:0.12, G:0.00, T:0.23
Consensus pattern (15 bp):
AAATAAAATCACATT
Found at i:94675645 original size:14 final size:16
Alignment explanation
Indices: 94675607--94675649 Score: 56
Period size: 14 Copynumber: 2.9 Consensus size: 16
94675597 AATAAAAATC
*
94675607 AAAT-AAAATTACATT
1 AAATAAAAATCACATT
94675622 AAATAAAAATCACATT
1 AAATAAAAATCACATT
94675638 -AA-AAAAATCACA
1 AAATAAAAATCACA
94675650 AAACACTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
14 10 0.38
15 6 0.23
16 10 0.38
ACGTcount: A:0.65, C:0.12, G:0.00, T:0.23
Consensus pattern (16 bp):
AAATAAAAATCACATT
Found at i:94678791 original size:11 final size:11
Alignment explanation
Indices: 94678775--94678803 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
94678765 CATAGGGTTG
94678775 AGTAGTGGACC
1 AGTAGTGGACC
94678786 AGTAGTGGACC
1 AGTAGTGGACC
94678797 AGTAGTG
1 AGTAGTG
94678804 ACCTTGGAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.28, C:0.14, G:0.38, T:0.21
Consensus pattern (11 bp):
AGTAGTGGACC
Found at i:94680634 original size:103 final size:98
Alignment explanation
Indices: 94680524--94680716 Score: 237
Period size: 103 Copynumber: 1.9 Consensus size: 98
94680514 CAAAATTATT
* *
94680524 ATTTTTTT-AAAG-TACATTACTAAAAAATTACTAAACCCTAAACTAAACACTAACAATTTATAA
1 ATTTTTTTAAAAGATACATTACTAAAAAATAAC-AAA----AAACAAAACACTAACAATTTATAA
* *
94680587 TCTAATCTCATAAATTACTAACAAAATAAATAACTATAAC
61 CCTAA--TCATAAACTACTAACAAAATAAATAACTATAAC
*
94680627 ATTTTTTTAAAAGAAATTACATTACTAAAAAATAACAAAACACAAAACACTAACAATTTATAACC
1 ATTTTTTTAAAAG--A-TACATTACTAAAAAATAACAAAAAACAAAACACTAACAATTTATAACC
94680692 TAATCATAAACTACTAACAAAATAA
63 TAATCATAAACTACTAACAAAATAA
94680717 CTATAAAATT
Statistics
Matches: 80, Mismatches: 5, Indels: 12
0.82 0.05 0.12
Matches are distributed among these distances:
101 21 0.26
103 34 0.43
104 4 0.05
107 3 0.04
108 18 0.22
ACGTcount: A:0.53, C:0.16, G:0.01, T:0.30
Consensus pattern (98 bp):
ATTTTTTTAAAAGATACATTACTAAAAAATAACAAAAAACAAAACACTAACAATTTATAACCTAA
TCATAAACTACTAACAAAATAAATAACTATAAC
Found at i:94680748 original size:97 final size:98
Alignment explanation
Indices: 94680498--94680768 Score: 276
Period size: 97 Copynumber: 2.7 Consensus size: 98
94680488 TACTCATGAC
* * * *
94680498 ACTAACAAAATAACTACAAAATTATTATTTTTTTAAAGTACATTACTAAAAAATTACTAAACCCT
1 ACTAACAAAATAACTATAAAATTATTA-TTATTTAAATTACATTACTAAAAAATAAC-AAA----
* * * *
94680563 AAACTAAACACTAACAATTTATAATCTAATCTCATAAATT
60 ACACAAAACACTAACAATTTATAACCTAA-CTCATAAACT
* * ***
94680603 ACTAACAAAATAAATAACTATAACATT-TTTTTAAAAGAAATTACATTACTAAAAAATAACAAAA
1 ACTAAC---A-AAATAACTATAAAATTATTATT-ATTTAAATTACATTACTAAAAAATAACAAAA
94680667 CACAAAACACTAACAATTTATAACCTAA-TCATAAACT
61 CACAAAACACTAACAATTTATAACCTAACTCATAAACT
* * *
94680704 ACTAACAAAATAACTATAAAATTATTATTATTTAATTTACATTACTAAAAACTCACAAAACACAA
1 ACTAACAAAATAACTATAAAATTATTATTATTTAAATTACATTACTAAAAAATAACAAAACACAA
94680769 CAATTTATAA
Statistics
Matches: 139, Mismatches: 21, Indels: 20
0.77 0.12 0.11
Matches are distributed among these distances:
97 45 0.32
98 5 0.04
101 14 0.10
103 26 0.19
105 6 0.04
107 5 0.04
108 24 0.17
109 14 0.10
ACGTcount: A:0.53, C:0.16, G:0.01, T:0.30
Consensus pattern (98 bp):
ACTAACAAAATAACTATAAAATTATTATTATTTAAATTACATTACTAAAAAATAACAAAACACAA
AACACTAACAATTTATAACCTAACTCATAAACT
Found at i:94681081 original size:3 final size:3
Alignment explanation
Indices: 94681075--94681104 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
94681065 ATTACCTTTT
94681075 TTC TTC TTC TTC TTC TTC TTC TT- TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
94681105 CCTTTCTCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (3 bp):
TTC
Found at i:94683296 original size:18 final size:19
Alignment explanation
Indices: 94683265--94683300 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
94683255 ATAACTAAAA
94683265 TAAAATATTAAAAAATATG
1 TAAAATATTAAAAAATATG
94683284 TAAAATA-TAAAAAATAT
1 TAAAATATTAAAAAATAT
94683301 ATTGATTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (19 bp):
TAAAATATTAAAAAATATG
Found at i:94706290 original size:15 final size:15
Alignment explanation
Indices: 94706266--94706296 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
94706256 ATGAGTAGAT
*
94706266 TTAATTTGTTTTAGC
1 TTAATCTGTTTTAGC
94706281 TTAATCTGTTTTAGC
1 TTAATCTGTTTTAGC
94706296 T
1 T
94706297 CTTTACCTTT
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:0.19, C:0.10, G:0.13, T:0.58
Consensus pattern (15 bp):
TTAATCTGTTTTAGC
Found at i:94710903 original size:7 final size:7
Alignment explanation
Indices: 94710893--94710920 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
94710883 AAAAATAAAA
94710893 AATATTT
1 AATATTT
94710900 AATATTT
1 AATATTT
94710907 AATATTT
1 AATATTT
94710914 AATATTT
1 AATATTT
94710921 TATTTCTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
AATATTT
Found at i:94711437 original size:3 final size:3
Alignment explanation
Indices: 94711429--94711488 Score: 61
Period size: 3 Copynumber: 20.0 Consensus size: 3
94711419 GGGCAGTAGG
* * *
94711429 AGA AGA AG- AGA AAA AGA AGA ATA AG- AGA AGAA ACA ATGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AG-A AGA A-GA AGA AGA
94711474 AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA
94711489 GAAAATGGAA
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
2 4 0.09
3 39 0.83
4 4 0.09
ACGTcount: A:0.67, C:0.02, G:0.28, T:0.03
Consensus pattern (3 bp):
AGA
Found at i:94712698 original size:11 final size:11
Alignment explanation
Indices: 94712684--94712727 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
94712674 AGATAAATAT
94712684 TATTTTATTAA
1 TATTTTATTAA
* *
94712695 TATTTAATAAGA
1 TATTTTATTA-A
*
94712707 TATTTTATTAT
1 TATTTTATTAA
94712718 TATTTTATTA
1 TATTTTATTA
94712728 GTATATAAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
11 18 0.67
12 9 0.33
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:94714853 original size:46 final size:46
Alignment explanation
Indices: 94714801--94715112 Score: 435
Period size: 46 Copynumber: 7.0 Consensus size: 46
94714791 AGTGTGCTCT
94714801 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
94714847 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
94714893 C-----TG---TGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
94714931 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
94714977 CTGATATGAGATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * **
94715023 GTGACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
94715069 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
94715113 TCACGTCAAA
Statistics
Matches: 243, Mismatches: 14, Indels: 18
0.88 0.05 0.07
Matches are distributed among these distances:
38 36 0.15
41 2 0.01
43 2 0.01
45 1 0.00
46 202 0.83
ACGTcount: A:0.38, C:0.15, G:0.25, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:94714953 original size:84 final size:87
Alignment explanation
Indices: 94714811--94715068 Score: 396
Period size: 84 Copynumber: 2.9 Consensus size: 87
94714801 CTGATATGAA
*
94714811 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAGATGTGTAAGACCATGGTTG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTG
94714876 AAAGATACCATGGCAACC-T-G
66 AAAGATACCATGGCAACCATAG
94714896 -TGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTG
94714960 AAAGATACCATGGCAACCTGATATGAG
66 AAAGATACCATGGCAACC----AT-AG
* * * **
94714987 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGACCATGGTTG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTG
94715052 AAAGATACCATGGCAAC
66 AAAGATACCATGGCAAC
94715069 ATGACAGAAA
Statistics
Matches: 159, Mismatches: 6, Indels: 9
0.91 0.03 0.05
Matches are distributed among these distances:
84 81 0.51
89 1 0.01
91 1 0.01
92 76 0.48
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.22
Consensus pattern (87 bp):
ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCATGGTTG
AAAGATACCATGGCAACCATAG
Found at i:94718061 original size:11 final size:11
Alignment explanation
Indices: 94718047--94718091 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
94718037 AGATAAATAT
94718047 TATTTTATTAA
1 TATTTTATTAA
*
94718058 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
94718071 TATTTTATTAT
1 TATTTTATTAA
94718082 TATTTTATTA
1 TATTTTATTA
94718092 GTATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:94720281 original size:38 final size:39
Alignment explanation
Indices: 94720231--94720400 Score: 171
Period size: 46 Copynumber: 4.0 Consensus size: 39
94720221 CTGATATGAA
*
94720231 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
*
94720270 -TGTGTAAGACCATGGTTGAAAGATACCATGGTAACTTGATATGAG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC-----AT--G
*
94720315 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTG
1 ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
*
94720354 ACATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
1 --ATG---TG--TAAGACCATGGTTGAAAGATACCATGGCAACATG
94720400 A
1 A
94720401 CAGAAAATGA
Statistics
Matches: 110, Mismatches: 6, Indels: 25
0.78 0.04 0.18
Matches are distributed among these distances:
38 34 0.31
39 1 0.01
41 4 0.04
43 1 0.01
44 2 0.02
45 1 0.01
46 67 0.61
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.23
Consensus pattern (39 bp):
ATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATG
Found at i:94720337 original size:46 final size:46
Alignment explanation
Indices: 94720273--94720440 Score: 221
Period size: 46 Copynumber: 3.7 Consensus size: 46
94720263 CAACCTGTGT
* * * * *
94720273 GTAAGACCATGGTTGAAAGATACCATGGTAACTTGATATGAGATGT
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGA
* *
94720319 GTAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAAAGA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGA
*
94720365 ATAAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAAATGA
1 GTAAGACCATGGTTGAAAGATACCATGGCAACATGACATG-AAATGA
* * *
94720411 GTAAGACCATAGTTGAAAGACACTATGGCA
1 GTAAGACCATGGTTGAAAGATACCATGGCA
94720441 TCACGTCAAA
Statistics
Matches: 108, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
45 1 0.01
46 107 0.99
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.21
Consensus pattern (46 bp):
GTAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGA
Found at i:94721387 original size:21 final size:21
Alignment explanation
Indices: 94721361--94721406 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
94721351 GTTCAACGTG
94721361 GCTAGTTAACTGGCCACATCA
1 GCTAGTTAACTGGCCACATCA
*
94721382 GCTAGTTAACTGGCCACGTCA
1 GCTAGTTAACTGGCCACATCA
94721403 GCTA
1 GCTA
94721407 TCCCGTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (21 bp):
GCTAGTTAACTGGCCACATCA
Found at i:94732369 original size:23 final size:23
Alignment explanation
Indices: 94732343--94732387 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
94732333 AAATTAAGTA
*
94732343 AGTGTTTTAAAATAAATGTTTTT
1 AGTGTTTTAAAACAAATGTTTTT
94732366 AGTGTTTTAAAACAAATGTTTT
1 AGTGTTTTAAAACAAATGTTTT
94732388 CTAAATCTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.36, C:0.02, G:0.13, T:0.49
Consensus pattern (23 bp):
AGTGTTTTAAAACAAATGTTTTT
Found at i:94739166 original size:17 final size:16
Alignment explanation
Indices: 94739138--94739172 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
94739128 GAAGAAGATA
*
94739138 AAGAAAGAAAAAGAAG
1 AAGAAAGAAAAACAAG
94739154 AAGAAATGAAAAACAAG
1 AAGAAA-GAAAAACAAG
94739171 AA
1 AA
94739173 ATGGAGGAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.74, C:0.03, G:0.20, T:0.03
Consensus pattern (16 bp):
AAGAAAGAAAAACAAG
Found at i:94744586 original size:23 final size:23
Alignment explanation
Indices: 94744556--94744602 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
94744546 CAATGTCACA
94744556 TGCTAGGGTGTTTGAAAACTATG
1 TGCTAGGGTGTTTGAAAACTATG
94744579 TGCTAGGGTGTTTGAAAACTATG
1 TGCTAGGGTGTTTGAAAACTATG
94744602 T
1 T
94744603 TGATGTGATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.26, C:0.09, G:0.30, T:0.36
Consensus pattern (23 bp):
TGCTAGGGTGTTTGAAAACTATG
Found at i:94761043 original size:22 final size:20
Alignment explanation
Indices: 94761001--94761054 Score: 63
Period size: 22 Copynumber: 2.6 Consensus size: 20
94760991 CGAAGTGTTG
* *
94761001 AACAATAGGTACTAGTGCAA
1 AACAATAGGCACTAGTACAA
94761021 AACAATAGGCATCGTAGTACAA
1 AACAATAGGCA-C-TAGTACAA
*
94761043 ATCAATAGGCAC
1 AACAATAGGCAC
94761055 AGAAGTACTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 10 0.34
21 2 0.07
22 17 0.59
ACGTcount: A:0.44, C:0.19, G:0.19, T:0.19
Consensus pattern (20 bp):
AACAATAGGCACTAGTACAA
Found at i:94761061 original size:22 final size:22
Alignment explanation
Indices: 94761018--94761082 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
94761008 GGTACTAGTG
*
94761018 CAAAACAATAGGCATCGTAGTA
1 CAAAACAATAGGCATCGAAGTA
*
94761040 CAAATCAATAGGCA-CAGAAGTA
1 CAAAACAATAGGCATC-GAAGTA
* * *
94761062 CTAAACAGTAGGTATCGAAGT
1 CAAAACAATAGGCATCGAAGT
94761083 GTGAATCCCA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.45, C:0.17, G:0.20, T:0.18
Consensus pattern (22 bp):
CAAAACAATAGGCATCGAAGTA
Found at i:94769925 original size:25 final size:24
Alignment explanation
Indices: 94769871--94769928 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
94769861 GCTGTAAATG
* *
94769871 GTAAACTCCTCCGAGCTGAATAAC
1 GTAAGCTCCTCCGAACTGAATAAC
* *
94769895 GATAAGCTCCTCCGAACTGAGTATC
1 G-TAAGCTCCTCCGAACTGAATAAC
94769920 AGTAAGCTC
1 -GTAAGCTC
94769929 ATATGAGCTA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
24 1 0.04
25 26 0.93
26 1 0.04
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (24 bp):
GTAAGCTCCTCCGAACTGAATAAC
Found at i:94780467 original size:5 final size:5
Alignment explanation
Indices: 94780452--94780483 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
94780442 GTTAACAAAA
94780452 TATTAT TATTT TATTT TATTT TATTT TATTT T
1 TATT-T TATTT TATTT TATTT TATTT TATTT T
94780484 TCCCCAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 22 0.85
6 4 0.15
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (5 bp):
TATTT
Found at i:94781727 original size:28 final size:28
Alignment explanation
Indices: 94781669--94781727 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
94781659 AATATGGTAC
* * * *
94781669 TATTGAGAATGGCACTTAGTGTGCGAGA
1 TATTGAGAATGACACTTAATGTGCAAAA
94781697 TATTGAGAATGACACTTAATGTGCAAAA
1 TATTGAGAATGACACTTAATGTGCAAAA
94781725 TAT
1 TAT
94781728 CAAATGATTC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.36, C:0.10, G:0.24, T:0.31
Consensus pattern (28 bp):
TATTGAGAATGACACTTAATGTGCAAAA
Found at i:94782046 original size:40 final size:40
Alignment explanation
Indices: 94781950--94782048 Score: 99
Period size: 40 Copynumber: 2.5 Consensus size: 40
94781940 TAAGCCTAGA
* * ** *
94781950 AGGCGAAATGTCGGTGAATGAGTTCAGACTTAAAGTCTAGC
1 AGGCTAAATGTCGGTG-ATGAATTCAGACTTAAAACCTAAC
** * **
94781991 AGGCTTCATGCCGGTGATGAATTCAGGTTTAAAACCTAAC
1 AGGCTAAATGTCGGTGATGAATTCAGACTTAAAACCTAAC
94782031 AGGCTAAATGTCGGTGAT
1 AGGCTAAATGTCGGTGAT
94782049 TTGATAAAAG
Statistics
Matches: 45, Mismatches: 13, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
40 33 0.73
41 12 0.27
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.26
Consensus pattern (40 bp):
AGGCTAAATGTCGGTGATGAATTCAGACTTAAAACCTAAC
Found at i:94786354 original size:21 final size:22
Alignment explanation
Indices: 94786312--94786354 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
94786302 TTGTTGTGAA
**
94786312 ATTATTATGGTTAATTTGTTTGG
1 ATTATTAT-GTTAATTACTTTGG
94786335 ATTATTAT-TTAATTACTTTG
1 ATTATTATGTTAATTACTTTG
94786355 TTATTTTCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 10 0.56
23 8 0.44
ACGTcount: A:0.26, C:0.02, G:0.14, T:0.58
Consensus pattern (22 bp):
ATTATTATGTTAATTACTTTGG
Found at i:94786484 original size:265 final size:270
Alignment explanation
Indices: 94785967--94786491 Score: 638
Period size: 272 Copynumber: 2.0 Consensus size: 270
94785957 TTTGATTTTG
* * * *
94785967 GATTGTTATGAAATTTTTAATTTGTTTGGAATTCTTGTCTTTAAAGTGTTAGATATATTTAATTT
1 GATTGTTATGAAAATTTTAATTTATTTGGAATTCTTATCTTTAAAGTGTTAGATATATTTAAATT
* * * * * * *
94786032 GTTTTGAGATTGTTATGTTTAATTTATTTGTATTGTTATTCAATTATTTTTGTTAATTTGTATTT
66 GTTGTGAAATTATTATGGTTAATTTATTTGGATTATTATTCAATTATCTTTGTTAATTTGTATTT
* * * * *
94786097 ATTTATTGTTATTTATGAATAATTTTTATTTAAAATTAATTTTTTGGCTTGATTTTATATTATTT
131 ATTTATTATTAATTATAAATAAATTTTATTTAAAATT-ATTTTTTGGCTTGATTCTATATTATTT
* *
94786162 TGCATATCCAGATTTGAATTTTTGCAGATCTAAATATCCGACATATAATTGAAAATGTTAAATTT
195 T-CATATCCAGATTTGAATTTTTGCAGATCTAAATATCCGACATATAATTAAAAATGTGAAATTT
94786227 GGATTGTTTGTA
259 GGATTGTTTGTA
* * *
94786239 GATTGTTATGAAAATTTTAATTTATTTGGAATTCTTATGTTT-AAGTTTTTAGGTATATTTAAAT
1 GATTGTTATGAAAATTTTAATTTATTTGGAATTCTTATCTTTAAAG-TGTTAGATATATTTAAAT
* *
94786303 TGTTGTGAAATTATTATGGTTAATTTGTTTGGATTATTATTTAATTA-CTTTGTT-ATTT-TCAT
65 TGTTGTGAAATTATTATGGTTAATTTATTTGGATTATTATTCAATTATCTTTGTTAATTTGT-AT
*
94786365 TTATTTATTATTAATTATAAATAAATTTTATTT-AAA-T-TTTTTT-GTTTGATTCTATATTATT
129 TTATTTATTATTAATTATAAATAAATTTTATTTAAAATTATTTTTTGGCTTGATTCTATATTATT
*** * ** *
94786426 TT-ATGGATTTGGATTTGGATTTTTGCAGAT-TCGGATATCCGACATATGATTAAAAATGTGAAA
194 TTCAT--ATCCAGATTTGAATTTTTGCAGATCT-AAATATCCGACATATAATTAAAAATGTGAAA
94786489 TTT
256 TTT
94786492 AAATTTTTTT
Statistics
Matches: 217, Mismatches: 31, Indels: 17
0.82 0.12 0.06
Matches are distributed among these distances:
263 2 0.01
264 1 0.00
265 67 0.31
266 6 0.03
268 1 0.00
269 4 0.02
270 35 0.16
271 9 0.04
272 92 0.42
ACGTcount: A:0.29, C:0.04, G:0.13, T:0.54
Consensus pattern (270 bp):
GATTGTTATGAAAATTTTAATTTATTTGGAATTCTTATCTTTAAAGTGTTAGATATATTTAAATT
GTTGTGAAATTATTATGGTTAATTTATTTGGATTATTATTCAATTATCTTTGTTAATTTGTATTT
ATTTATTATTAATTATAAATAAATTTTATTTAAAATTATTTTTTGGCTTGATTCTATATTATTTT
CATATCCAGATTTGAATTTTTGCAGATCTAAATATCCGACATATAATTAAAAATGTGAAATTTGG
ATTGTTTGTA
Found at i:94788499 original size:22 final size:22
Alignment explanation
Indices: 94788480--94788529 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
94788470 ACAAAAATAT
94788480 AATAAAATATTTTTATAAATTA
1 AATAAAATATTTTTATAAATTA
*
94788502 AATATAATATTTTT-T--ATTA
1 AATAAAATATTTTTATAAATTA
94788521 AA-AAAATAT
1 AATAAAATAT
94788530 CTTCTTTGAC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 6 0.23
19 6 0.23
21 1 0.04
22 13 0.50
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
AATAAAATATTTTTATAAATTA
Found at i:94788527 original size:23 final size:22
Alignment explanation
Indices: 94788474--94788529 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
94788464 TAACATACAA
* *
94788474 AAATATAATAAAATATTTTTAT
1 AAATAAAATATAATATTTTTAT
*
94788496 AAATTAAATATAATATTTTTTATT
1 AAATAAAATATAATA-TTTTTA-T
94788520 AAA-AAAATAT
1 AAATAAAATAT
94788530 CTTCTTTGAC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
22 12 0.43
23 12 0.43
24 4 0.14
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
AAATAAAATATAATATTTTTAT
Found at i:94791129 original size:19 final size:18
Alignment explanation
Indices: 94791051--94791177 Score: 83
Period size: 19 Copynumber: 6.4 Consensus size: 18
94791041 AAAATTCATA
*
94791051 AAAAATTATTAAAAATAA
1 AAAAATTATTAAAAATAT
* *
94791069 ATAAAATATATTTCAGATATAT
1 A-AAAAT-TA-TT-AAAAATAT
* *
94791091 TATAATTATTAAAAATAT
1 AAAAATTATTAAAAATAT
94791109 AAAAATTATTAAAAATCAT
1 AAAAATTATTAAAAAT-AT
*
94791128 AAAAATTTATAAAAAAAATTCAT
1 AAAAA-TTAT--TAAAAA-T-AT
* *
94791151 AAAAATTAATAACTAATAT
1 AAAAATTATTAA-AAATAT
94791170 AAAAATTA
1 AAAAATTA
94791178 AAAAAAATTA
Statistics
Matches: 86, Mismatches: 13, Indels: 19
0.73 0.11 0.16
Matches are distributed among these distances:
18 21 0.24
19 24 0.28
20 11 0.13
21 8 0.09
22 13 0.15
23 9 0.10
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.34
Consensus pattern (18 bp):
AAAAATTATTAAAAATAT
Found at i:94791139 original size:10 final size:9
Alignment explanation
Indices: 94791094--94791194 Score: 62
Period size: 10 Copynumber: 10.2 Consensus size: 9
94791084 GATATATTAT
94791094 AATTATTAAA
1 AATTA-TAAA
94791104 AA-TATAAA
1 AATTATAAA
94791112 AATTATTAAA
1 AATTA-TAAA
*
94791122 AATCATAAA
1 AATTATAAA
94791131 AATTTATAAAAAA
1 AA-TTAT---AAA
94791144 AATTCATAAA
1 AATT-ATAAA
*
94791154 AATTAATAACT
1 AATT-ATAA-A
94791165 AA-TATAAA
1 AATTATAAA
*
94791173 AATTAAAAAA
1 AATT-ATAAA
94791183 AATTATAGAA
1 AATTATA-AA
94791193 AA
1 AA
94791195 ATTCATTTAA
Statistics
Matches: 73, Mismatches: 7, Indels: 22
0.72 0.07 0.22
Matches are distributed among these distances:
8 8 0.11
9 17 0.23
10 37 0.51
11 2 0.03
12 2 0.03
13 7 0.10
ACGTcount: A:0.66, C:0.03, G:0.01, T:0.30
Consensus pattern (9 bp):
AATTATAAA
Found at i:94791150 original size:23 final size:22
Alignment explanation
Indices: 94791119--94791162 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
94791109 AAAAATTATT
*
94791119 AAAAATCATAAAAATTTATAAA
1 AAAAATCATAAAAATTAATAAA
94791141 AAAAATTCATAAAAATTAATAA
1 AAAAA-TCATAAAAATTAATAA
94791163 CTAATATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (22 bp):
AAAAATCATAAAAATTAATAAA
Found at i:94791154 original size:42 final size:40
Alignment explanation
Indices: 94791107--94791184 Score: 104
Period size: 42 Copynumber: 1.9 Consensus size: 40
94791097 TATTAAAAAT
*
94791107 ATAAAAATTATTAA-AAATCATAAAAATTTATAAAAAAAATTC
1 ATAAAAATTAATAACAAAT-ATAAAAA-TTA-AAAAAAAATTC
*
94791149 ATAAAAATTAATAACTAATATAAAAATTAAAAAAAA
1 ATAAAAATTAATAACAAATATAAAAATTAAAAAAAA
94791185 TTATAGAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
40 7 0.21
41 3 0.09
42 20 0.61
43 3 0.09
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (40 bp):
ATAAAAATTAATAACAAATATAAAAATTAAAAAAAAATTC
Found at i:94791189 original size:19 final size:19
Alignment explanation
Indices: 94791101--94791194 Score: 75
Period size: 19 Copynumber: 4.7 Consensus size: 19
94791091 TATAATTATT
**
94791101 AAAAA-TATAAAAATTATT
1 AAAAATTATAAAAATTAAA
*
94791119 AAAAATCATAAAAATTTATAAA
1 AAAAATTATAAAAA--T-TAAA
94791141 AAAAATTCATAAAAATTAATA
1 AAAAATT-ATAAAAATTAA-A
**
94791162 ACTAA-TATAAAAATTAAA
1 AAAAATTATAAAAATTAAA
94791180 AAAAATTATAGAAAA
1 AAAAATTATA-AAAA
94791195 ATTCATTTAA
Statistics
Matches: 60, Mismatches: 8, Indels: 14
0.73 0.10 0.17
Matches are distributed among these distances:
18 9 0.15
19 22 0.37
20 8 0.13
21 6 0.10
22 8 0.13
23 7 0.12
ACGTcount: A:0.68, C:0.03, G:0.01, T:0.28
Consensus pattern (19 bp):
AAAAATTATAAAAATTAAA
Found at i:94791991 original size:9 final size:9
Alignment explanation
Indices: 94791874--94792076 Score: 55
Period size: 9 Copynumber: 22.0 Consensus size: 9
94791864 ATTATAATTT
94791874 TTTTTATAA
1 TTTTTATAA
*
94791883 TTTATTAGAA
1 TTT-TTATAA
*
94791893 CTTATTATGAA
1 -TTTTTAT-AA
94791904 TTTTT-TAAA
1 TTTTTAT-AA
*
94791913 GTTTTATAA
1 TTTTTATAA
*
94791922 TTATTGATAA
1 TT-TTTATAA
* *
94791932 GTTTTATAG
1 TTTTTATAA
* *
94791941 TTTATAT-G
1 TTTTTATAA
94791949 TTTTTATAA
1 TTTTTATAA
* *
94791958 TATTTATTAG
1 TTTTTA-TAA
**
94791968 TTTTTATGCTT
1 TTTTTAT--AA
94791979 TTTTTATAA
1 TTTTTATAA
94791988 -TTTTATAA
1 TTTTTATAA
*
94791996 -GTTTATAGA
1 TTTTTATA-A
***
94792005 AAGTTATAAA
1 TTTTTAT-AA
94792015 TGTTTT-TAA
1 T-TTTTATAA
*
94792024 TATGTTTAT-C
1 T-T-TTTATAA
94792034 TTTATTAT--
1 TTT-TTATAA
94792042 TTTTTATAA
1 TTTTTATAA
*
94792051 TTTTTATAG
1 TTTTTATAA
94792060 TTTTTAT-A
1 TTTTTATAA
94792068 TTTTTATAA
1 TTTTTATAA
94792077 GTTTATGTAA
Statistics
Matches: 143, Mismatches: 32, Indels: 38
0.67 0.15 0.18
Matches are distributed among these distances:
7 4 0.03
8 32 0.22
9 55 0.38
10 37 0.26
11 15 0.10
ACGTcount: A:0.31, C:0.01, G:0.07, T:0.60
Consensus pattern (9 bp):
TTTTTATAA
Found at i:94792053 original size:10 final size:8
Alignment explanation
Indices: 94792017--94792075 Score: 57
Period size: 9 Copynumber: 7.0 Consensus size: 8
94792007 GTTATAAATG
94792017 TTTTTAATA
1 TTTTT-ATA
* *
94792026 TGTTTATC
1 TTTTTATA
94792034 TTTATTAT-
1 TTT-TTATA
94792042 TTTTTATAA
1 TTTTTAT-A
94792051 TTTTTATA
1 TTTTTATA
94792059 GTTTTTATA
1 -TTTTTATA
94792068 TTTTTATA
1 TTTTTATA
94792076 AGTTTATGTA
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
7 4 0.09
8 16 0.37
9 23 0.53
ACGTcount: A:0.25, C:0.02, G:0.03, T:0.69
Consensus pattern (8 bp):
TTTTTATA
Found at i:94792070 original size:17 final size:19
Alignment explanation
Indices: 94792042--94792080 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
94792032 TCTTTATTAT
94792042 TTTTTATAATTTTTAT-AG
1 TTTTTATAATTTTTATAAG
94792060 TTTTTAT-ATTTTTATAAG
1 TTTTTATAATTTTTATAAG
94792078 TTT
1 TTT
94792081 ATGTAAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.26, C:0.00, G:0.05, T:0.69
Consensus pattern (19 bp):
TTTTTATAATTTTTATAAG
Found at i:94792586 original size:29 final size:29
Alignment explanation
Indices: 94792554--94792619 Score: 69
Period size: 29 Copynumber: 2.3 Consensus size: 29
94792544 ATTTTTAAAT
* * *
94792554 TTTTTTAAAAATAAATTATTATTTTATTA
1 TTTTTTAAAAATAAAATATAATTTTATGA
* * *
94792583 TTTTTGAGAGATAAAATATAATTTTATGA
1 TTTTTTAAAAATAAAATATAATTTTATGA
*
94792612 TTTATTAA
1 TTTTTTAA
94792620 TTTAAAAATT
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (29 bp):
TTTTTTAAAAATAAAATATAATTTTATGA
Found at i:94795290 original size:23 final size:23
Alignment explanation
Indices: 94795240--94795300 Score: 61
Period size: 23 Copynumber: 2.7 Consensus size: 23
94795230 GACTTAAGTT
* *
94795240 TTAAAATATAGAAAATAAAGAGA
1 TTAAATTATAGAAAATAAAAAGA
* * *
94795263 CTAAATTATTGAAAATAAAAATA
1 TTAAATTATAGAAAATAAAAAGA
94795286 TTAAATGTATA-AAAA
1 TTAAAT-TATAGAAAA
94795301 GTATGGGGTA
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
23 27 0.90
24 3 0.10
ACGTcount: A:0.62, C:0.02, G:0.08, T:0.28
Consensus pattern (23 bp):
TTAAATTATAGAAAATAAAAAGA
Found at i:94799858 original size:45 final size:45
Alignment explanation
Indices: 94799808--94799914 Score: 160
Period size: 45 Copynumber: 2.4 Consensus size: 45
94799798 GTAGCAGTAG
* * *
94799808 CAGTAACAGTAACAGTATTCAACACACAAAGTGTTGAATCTGTAA
1 CAGTAACGGTAACAGTATTCAACACACAAAGTGTCGAATCGGTAA
* * *
94799853 CAGTAATGGTAACAATATTCGACACACAAAGTGTCGAATCGGTAA
1 CAGTAACGGTAACAGTATTCAACACACAAAGTGTCGAATCGGTAA
94799898 CAGTAACGGTAACAGTA
1 CAGTAACGGTAACAGTA
94799915 ACAGTAATCG
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 54 1.00
ACGTcount: A:0.41, C:0.18, G:0.19, T:0.22
Consensus pattern (45 bp):
CAGTAACGGTAACAGTATTCAACACACAAAGTGTCGAATCGGTAA
Found at i:94799909 original size:12 final size:12
Alignment explanation
Indices: 94799892--94799921 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
94799882 AGTGTCGAAT
94799892 CGGTAACAGTAA
1 CGGTAACAGTAA
94799904 CGGTAACAGTAA
1 CGGTAACAGTAA
*
94799916 CAGTAA
1 CGGTAA
94799922 TCGGCACATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.43, C:0.17, G:0.23, T:0.17
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:94801006 original size:13 final size:13
Alignment explanation
Indices: 94800988--94801023 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
94800978 TTTCTTTTAT
94800988 ATATAATATAATA
1 ATATAATATAATA
94801001 ATATAATATAATA
1 ATATAATATAATA
94801014 ATATAATATA
1 ATATAATATA
94801024 CTTAATTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
ATATAATATAATA
Found at i:94802120 original size:34 final size:36
Alignment explanation
Indices: 94802059--94802125 Score: 86
Period size: 34 Copynumber: 1.9 Consensus size: 36
94802049 TACATAGTAA
*
94802059 TATAAAATAATAAGTGATGATAGTGAAACTAATGGG
1 TATAAAATAATAAGTGATGATAGTGAAAATAATGGG
*
94802095 TATAATAATTATAA-TGAT-ATA-TGAAAATAAT
1 TATAA-AATAATAAGTGATGATAGTGAAAATAAT
94802126 ACTATATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
34 9 0.32
35 3 0.11
36 9 0.32
37 7 0.25
ACGTcount: A:0.51, C:0.01, G:0.15, T:0.33
Consensus pattern (36 bp):
TATAAAATAATAAGTGATGATAGTGAAAATAATGGG
Found at i:94802254 original size:27 final size:28
Alignment explanation
Indices: 94802216--94802275 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 28
94802206 TGTAATAATG
* * *
94802216 ATATATACACAATGTGGTA-TTAAGAAT
1 ATATATACACAATATAGTATTTAAAAAT
*
94802243 ATATATATACAATATAGTATTTAAAAAT
1 ATATATACACAATATAGTATTTAAAAAT
94802271 ATATA
1 ATATA
94802276 CATAAGATGG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 16 0.57
28 12 0.43
ACGTcount: A:0.50, C:0.05, G:0.08, T:0.37
Consensus pattern (28 bp):
ATATATACACAATATAGTATTTAAAAAT
Found at i:94802291 original size:24 final size:23
Alignment explanation
Indices: 94802264--94802324 Score: 70
Period size: 24 Copynumber: 2.5 Consensus size: 23
94802254 ATATAGTATT
94802264 TAAAAATATATACAT-AAGATGGTA
1 TAAAAATATATACATGAA-AT-GTA
*
94802288 TAAAAATATGTACATGGAAATGTA
1 TAAAAATATATACAT-GAAATGTA
94802312 TAAGAAATATATA
1 TAA-AAATATATA
94802325 TAATTAGTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
24 20 0.62
25 10 0.31
26 2 0.06
ACGTcount: A:0.54, C:0.03, G:0.13, T:0.30
Consensus pattern (23 bp):
TAAAAATATATACATGAAATGTA
Found at i:94802455 original size:18 final size:19
Alignment explanation
Indices: 94802423--94802458 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
94802413 ACTACTTTGT
94802423 ACACTACACAAATATATAC
1 ACACTACACAAATATATAC
*
94802442 ACAC-ACACACATATATA
1 ACACTACACAAATATATA
94802459 TAAATAATAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.53, C:0.28, G:0.00, T:0.19
Consensus pattern (19 bp):
ACACTACACAAATATATAC
Found at i:94802499 original size:21 final size:21
Alignment explanation
Indices: 94802456--94802570 Score: 83
Period size: 21 Copynumber: 5.2 Consensus size: 21
94802446 ACACACATAT
* *
94802456 ATATA-AATAATAGTATTAGAA
1 ATATACAAT-ATAATATTAAAA
*
94802477 ATAGACAATATAATATTAAAA
1 ATATACAATATAATATTAAAA
94802498 ATATAC-ATATAATAGTATAAAAA
1 ATATACAATATAATA-T-T-AAAA
*
94802521 ATATATAACTAATAATATTAAAA
1 ATATACAA-T-ATAATATTAAAA
* *
94802544 TATATATAATA-ATATATAAAAA
1 -ATATACAATATA-ATATTAAAA
94802566 ATATA
1 ATATA
94802571 ATATTGAAAA
Statistics
Matches: 79, Mismatches: 6, Indels: 18
0.77 0.06 0.17
Matches are distributed among these distances:
20 8 0.10
21 26 0.33
22 13 0.16
23 14 0.18
24 10 0.13
25 2 0.03
26 6 0.08
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (21 bp):
ATATACAATATAATATTAAAA
Found at i:94802524 original size:23 final size:21
Alignment explanation
Indices: 94802475--94802574 Score: 80
Period size: 23 Copynumber: 4.6 Consensus size: 21
94802465 ATAGTATTAG
*
94802475 AAATAGACAATATAATAT-TAA
1 AAATATAC-ATATAATATATAA
94802496 AAATATACATATAATAGTATAA
1 AAATATACATATAATA-TATAA
* *
94802518 AAA-ATATATAACTAATAATATTA
1 AAATATACAT-A-TAAT-ATATAA
*
94802541 AAATATATATAATAATATATAAA
1 AAATATACAT-ATAATATAT-AA
94802564 AAATATA-ATAT
1 AAATATACATAT
94802575 TGAAAACATA
Statistics
Matches: 68, Mismatches: 4, Indels: 14
0.79 0.05 0.16
Matches are distributed among these distances:
20 8 0.12
21 15 0.22
22 13 0.19
23 23 0.34
24 9 0.13
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (21 bp):
AAATATACATATAATATATAA
Done.