Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 55 of 204
Found at i:16144796 original size:20 final size:20
Alignment explanation
Indices: 16144760--16144802 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
16144750 TTATGCTAAA
*
16144760 TAAATGGAATGGAAAGTAAG
1 TAAATGGAATAGAAAGTAAG
*
16144780 TAAATGGAA-AGACAAGTATG
1 TAAATGGAATAGA-AAGTAAG
16144800 TAA
1 TAA
16144803 GTAAGTGGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 2 0.10
20 18 0.90
ACGTcount: A:0.51, C:0.02, G:0.26, T:0.21
Consensus pattern (20 bp):
TAAATGGAATAGAAAGTAAG
Found at i:16153006 original size:23 final size:24
Alignment explanation
Indices: 16152967--16153028 Score: 67
Period size: 23 Copynumber: 2.6 Consensus size: 24
16152957 TTTCTAGGAA
16152967 ACCAAACAAAAACCCCTC-A-AACAAC
1 ACCAAA-AAAAA-CCCTCGAGAA-AAC
16152992 ACCAAAAAAAACCCTCGAGAAAAC
1 ACCAAAAAAAACCCTCGAGAAAAC
*
16153016 A-AAAAAAAAACCC
1 ACCAAAAAAAACCC
16153029 GAAATTTAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
23 16 0.47
24 10 0.29
25 8 0.24
ACGTcount: A:0.61, C:0.32, G:0.03, T:0.03
Consensus pattern (24 bp):
ACCAAAAAAAACCCTCGAGAAAAC
Found at i:16155142 original size:18 final size:18
Alignment explanation
Indices: 16155119--16155168 Score: 91
Period size: 18 Copynumber: 2.8 Consensus size: 18
16155109 AACTTTTCTT
16155119 TCAGAAGTGCTTTTGGAG
1 TCAGAAGTGCTTTTGGAG
*
16155137 TCAGAAGTACTTTTGGAG
1 TCAGAAGTGCTTTTGGAG
16155155 TCAGAAGTGCTTTT
1 TCAGAAGTGCTTTT
16155169 TTTAAGCAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.24, C:0.12, G:0.28, T:0.36
Consensus pattern (18 bp):
TCAGAAGTGCTTTTGGAG
Found at i:16162059 original size:29 final size:29
Alignment explanation
Indices: 16162016--16162124 Score: 89
Period size: 29 Copynumber: 3.8 Consensus size: 29
16162006 CCTTTACTGG
*
16162016 GATTTCCACAGAGGCCTTCCTTTGATAAA
1 GATTTCCACAAAGGCCTTCCTTTGATAAA
* * *
16162045 GATTCCCACAAAGGCGTTTCC-TTG-TAGA
1 GATTTCCACAAAGGC-CTTCCTTTGATAAA
* * *
16162073 GATTTTCCACAAAGGCATT-CTTTAACAAA
1 GA-TTTCCACAAAGGCCTTCCTTTGATAAA
* * *
16162102 GGTTGCCACAAAGGCCTACCTTT
1 GATTTCCACAAAGGCCTTCCTTT
16162125 CCAAAGTTTT
Statistics
Matches: 62, Mismatches: 13, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
27 1 0.02
28 22 0.35
29 35 0.56
30 4 0.06
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.29
Consensus pattern (29 bp):
GATTTCCACAAAGGCCTTCCTTTGATAAA
Found at i:16162285 original size:61 final size:61
Alignment explanation
Indices: 16162107--16162381 Score: 205
Period size: 61 Copynumber: 4.5 Consensus size: 61
16162097 ACAAAGGTTG
* * * * ** * * * *
16162107 CCACAAAGGCCTACCTTTCCAAAGTTTTGCCACAAAAG-CATCTTTTACATTCAATACT-A
1 CCACAAAGGCTTTCCTGTCCAGAGTTTTGCCACAAAAGTTGTCATGTACATCCAGTACTCA
** * * ** * * *
16162166 GCCACAAACACTTTCCTGTCCAGAGATTTACTGCAGAAGCTGTTC-TTTACATCCAGTACTCA
1 -CCACAAAGGCTTTCCTGTCCAGAGTTTTGCCACAAAAGTTG-TCATGTACATCCAGTACTCA
* * * * * *
16162228 CCACAAAGGTTTTCCTATCCGGAGTTTTGCCACAAAAGTTTTCCTGTACATCTAGTACTCA
1 CCACAAAGGCTTTCCTGTCCAGAGTTTTGCCACAAAAGTTGTCATGTACATCCAGTACTCA
* * * * * * **
16162289 CCACAAAGGCTTTCATGTCCAAAGTTTTACCACAAAGGTTGTCATTTACATCCAATACTTG
1 CCACAAAGGCTTTCCTGTCCAGAGTTTTGCCACAAAAGTTGTCATGTACATCCAGTACTCA
*
16162350 CCACAAAGGCTTTCCTGTCTAGAGTTTTGCCA
1 CCACAAAGGCTTTCCTGTCCAGAGTTTTGCCA
16162382 TAAAGCCTAT
Statistics
Matches: 164, Mismatches: 47, Indels: 7
0.75 0.22 0.03
Matches are distributed among these distances:
60 29 0.18
61 132 0.80
62 3 0.02
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (61 bp):
CCACAAAGGCTTTCCTGTCCAGAGTTTTGCCACAAAAGTTGTCATGTACATCCAGTACTCA
Found at i:16168326 original size:16 final size:16
Alignment explanation
Indices: 16168305--16168335 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16168295 GGGAAAAATA
*
16168305 AAAAGTTTTAGGGAAT
1 AAAAGTTTGAGGGAAT
16168321 AAAAGTTTGAGGGAA
1 AAAAGTTTGAGGGAA
16168336 AGTAAATAGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.00, G:0.29, T:0.26
Consensus pattern (16 bp):
AAAAGTTTGAGGGAAT
Found at i:16168707 original size:9 final size:9
Alignment explanation
Indices: 16168693--16168729 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
16168683 TATAGTTTGA
16168693 TATTCGAAT
1 TATTCGAAT
16168702 TATTCGAAT
1 TATTCGAAT
*
16168711 TATTCGAGT
1 TATTCGAAT
16168720 TATTCGAAT
1 TATTCGAAT
16168729 T
1 T
16168730 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:16171882 original size:24 final size:26
Alignment explanation
Indices: 16171826--16171890 Score: 80
Period size: 24 Copynumber: 2.5 Consensus size: 26
16171816 GAATACGCTT
*
16171826 CAAAGGCAATTCTTTCACAGTTCACCA
1 CAAAGGCTATTCTTTCACAG-TCACCA
*
16171853 CAAAGGCTATTCTTTCA-A-TCGCCA
1 CAAAGGCTATTCTTTCACAGTCACCA
*
16171877 CAAAGGCTACTCTT
1 CAAAGGCTATTCTT
16171891 AGAAGTCATG
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
24 18 0.51
26 1 0.03
27 16 0.46
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.28
Consensus pattern (26 bp):
CAAAGGCTATTCTTTCACAGTCACCA
Found at i:16174231 original size:27 final size:28
Alignment explanation
Indices: 16174175--16174235 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 28
16174165 TGCGCCATTA
* *
16174175 AGGC-TTTCCTTTTATGAATTTCCATAG
1 AGGCTTTTCATTTTATGAATTGCCATAG
16174202 AGGCTTTTCATTTTA-GATATTGCCAT-G
1 AGGCTTTTCATTTTATGA-ATTGCCATAG
16174229 AGGCTTT
1 AGGCTTT
16174236 CTTTATCCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 14 0.47
28 16 0.53
ACGTcount: A:0.21, C:0.16, G:0.18, T:0.44
Consensus pattern (28 bp):
AGGCTTTTCATTTTATGAATTGCCATAG
Found at i:16174348 original size:30 final size:30
Alignment explanation
Indices: 16174308--16174378 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 30
16174298 AAAAAGGTTT
*
16174308 ACAAAAGCTTTTCCTTTACAGAG-TCTTGCC
1 ACAAAGGCTTTTCCTTTACAGAGAT-TTGCC
*
16174338 ACAAAGGCTTTTTCTTTACAGAGATTTGCC
1 ACAAAGGCTTTTCCTTTACAGAGATTTGCC
* *
16174368 ATAAAGACTTT
1 ACAAAGGCTTT
16174379 CATTTTCTGG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
30 35 0.97
31 1 0.03
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.35
Consensus pattern (30 bp):
ACAAAGGCTTTTCCTTTACAGAGATTTGCC
Found at i:16179663 original size:41 final size:41
Alignment explanation
Indices: 16179617--16179726 Score: 175
Period size: 41 Copynumber: 2.7 Consensus size: 41
16179607 CATTGAATGT
*
16179617 AAGGGGTTGCTAAGTGCAGATTCCCCGAATCACTGATCAAA
1 AAGGGGTTGCTAAGTGCAGATTCCCCGAATCACTAATCAAA
* *
16179658 AAGGGGTTGCTAAGTGCAGATTTCTCGAATCACTAATCAAA
1 AAGGGGTTGCTAAGTGCAGATTCCCCGAATCACTAATCAAA
* *
16179699 AAGGGGTTACTAAGTGTAGATTCCCCGA
1 AAGGGGTTGCTAAGTGCAGATTCCCCGA
16179727 GAGGTTACTA
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 62 1.00
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.25
Consensus pattern (41 bp):
AAGGGGTTGCTAAGTGCAGATTCCCCGAATCACTAATCAAA
Found at i:16183509 original size:17 final size:18
Alignment explanation
Indices: 16183484--16183517 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
16183474 ACAAGTAGCA
16183484 AGAAAGCAAA-AAGCAAC
1 AGAAAGCAAAGAAGCAAC
*
16183501 AGAAGGCAAAGAAGCAA
1 AGAAAGCAAAGAAGCAA
16183518 TAGTGGTGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.62, C:0.15, G:0.24, T:0.00
Consensus pattern (18 bp):
AGAAAGCAAAGAAGCAAC
Found at i:16185889 original size:47 final size:46
Alignment explanation
Indices: 16185773--16185895 Score: 147
Period size: 47 Copynumber: 2.6 Consensus size: 46
16185763 GTATATATAA
** *
16185773 ATATATTTGTTATGCATGAAAATGAATTAATTTATAGCTGAATGTAT
1 ATATATTTGTTATGCATG-AAATGAATTAAACTATAGCCGAATGTAT
* * * *
16185820 ATGTAATTGTTATGCAGAGAAATGAATTAAACTATGGCCGAATGTAT
1 ATATATTTGTTATGCA-TGAAATGAATTAAACTATAGCCGAATGTAT
*
16185867 ATATATTTGTTATGCATTGAAATAAATTA
1 ATATATTTGTTATGCA-TGAAATGAATTA
16185896 TTTGAAATTA
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
47 62 0.98
48 1 0.02
ACGTcount: A:0.39, C:0.06, G:0.16, T:0.39
Consensus pattern (46 bp):
ATATATTTGTTATGCATGAAATGAATTAAACTATAGCCGAATGTAT
Found at i:16185977 original size:159 final size:161
Alignment explanation
Indices: 16185758--16186056 Score: 505
Period size: 159 Copynumber: 1.9 Consensus size: 161
16185748 AAATTAACTA
* *
16185758 CGAATGTATATATAAATATATTTGTTATGCATGAAAATGAATTAATTTATAGCTGAATGTATATG
1 CGAATGTATATAT-AATATATTTGTTATACATGAAAATGAATTAATCTATAGCTGAATGTATATG
* *
16185823 TAATTGTTATGCAGAGAAATGAATTAAACTATGGCCGAATG-TATATATATTTGTTATGCATTGA
65 TAATTGTTATGCAGAGAAATAAATTAAACTATGGCCGAATGATATATATATTTGTTATACATTGA
16185887 AATAAATTATTTGAAATTACATAGGTTATGGC
130 AATAAATTATTTGAAATTACATAGGTTATGGC
16185919 CGAATGTATATAT-ATATATTTGTTATACATTG-AAATGAATTAATCTATAGCTGAATGTATATG
1 CGAATGTATATATAATATATTTGTTATACA-TGAAAATGAATTAATCTATAGCTGAATGTATATG
16185982 TAATTGTTATGCAGAGAAATAAATTAAACTATGGCCGAATGTATATATATATTTGTTATACATTG
65 TAATTGTTATGCAGAGAAATAAATTAAACTATGGCCGAATG-ATATATATATTTGTTATACATTG
*
16186047 AAATGAATTA
129 AAATAAATTA
16186057 ATCTATAGCT
Statistics
Matches: 130, Mismatches: 5, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
159 85 0.65
160 2 0.02
161 43 0.33
ACGTcount: A:0.39, C:0.06, G:0.16, T:0.39
Consensus pattern (161 bp):
CGAATGTATATATAATATATTTGTTATACATGAAAATGAATTAATCTATAGCTGAATGTATATGT
AATTGTTATGCAGAGAAATAAATTAAACTATGGCCGAATGATATATATATTTGTTATACATTGAA
ATAAATTATTTGAAATTACATAGGTTATGGC
Found at i:16186001 original size:47 final size:47
Alignment explanation
Indices: 16185950--16186219 Score: 342
Period size: 47 Copynumber: 5.7 Consensus size: 47
16185940 GTTATACATT
*
16185950 GAAATGAATTAATCTATAGCTGAATGTATATGTAATTGTTATGCAGA
1 GAAATGAATTAAACTATAGCTGAATGTATATGTAATTGTTATGCAGA
* * * * * **
16185997 GAAATAAATTAAACTATGGCCGAATGTATATATATATTTGTTATACATT
1 GAAATGAATTAAACTATAGCTGAATGTATATGTA-A-TTGTTATGCAGA
*
16186046 GAAATGAATTAATCTATAGCTGAATGTATATGTAATTGTTATGCAGA
1 GAAATGAATTAAACTATAGCTGAATGTATATGTAATTGTTATGCAGA
* * * * * **
16186093 GAAATAAATTAAACTATGGCCGAATGTATATATATATTTGTTATACATT
1 GAAATGAATTAAACTATAGCTGAATGTATATGTA-A-TTGTTATGCAGA
*
16186142 GAAATGAATTAATCTATAGCTGAATGTATATGTAATTGTTATGCAGA
1 GAAATGAATTAAACTATAGCTGAATGTATATGTAATTGTTATGCAGA
*
16186189 GAAATGAATTAAACTATGGCTGAATGTATAT
1 GAAATGAATTAAACTATAGCTGAATGTATAT
16186220 ATATATATGT
Statistics
Matches: 185, Mismatches: 34, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
47 105 0.57
48 4 0.02
49 76 0.41
ACGTcount: A:0.40, C:0.07, G:0.17, T:0.37
Consensus pattern (47 bp):
GAAATGAATTAAACTATAGCTGAATGTATATGTAATTGTTATGCAGA
Found at i:16186065 original size:96 final size:96
Alignment explanation
Indices: 16185913--16186248 Score: 609
Period size: 96 Copynumber: 3.5 Consensus size: 96
16185903 TTACATAGGT
16185913 TATGGCCGAATGTATATATATATATTTGTTATACATTGAAATGAATTAATCTATAGCTGAATGTA
1 TATGGCCGAATG--TATATATATATTTGTTATACATTGAAATGAATTAATCTATAGCTGAATGTA
16185978 TATGTAATTGTTATGCAGAGAAATAAATTAAAC
64 TATGTAATTGTTATGCAGAGAAATAAATTAAAC
16186011 TATGGCCGAATGTATATATATATTTGTTATACATTGAAATGAATTAATCTATAGCTGAATGTATA
1 TATGGCCGAATGTATATATATATTTGTTATACATTGAAATGAATTAATCTATAGCTGAATGTATA
16186076 TGTAATTGTTATGCAGAGAAATAAATTAAAC
66 TGTAATTGTTATGCAGAGAAATAAATTAAAC
16186107 TATGGCCGAATGTATATATATATTTGTTATACATTGAAATGAATTAATCTATAGCTGAATGTATA
1 TATGGCCGAATGTATATATATATTTGTTATACATTGAAATGAATTAATCTATAGCTGAATGTATA
*
16186172 TGTAATTGTTATGCAGAGAAATGAATTAAAC
66 TGTAATTGTTATGCAGAGAAATAAATTAAAC
* * * *
16186203 TATGGCTGAATGTATATATATATATGTTACACATTGAAATAAATTA
1 TATGGCCGAATGTATATATATATTTGTTATACATTGAAATGAATTA
16186249 TTTGAAGTTA
Statistics
Matches: 233, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
96 221 0.95
98 12 0.05
ACGTcount: A:0.40, C:0.07, G:0.15, T:0.38
Consensus pattern (96 bp):
TATGGCCGAATGTATATATATATTTGTTATACATTGAAATGAATTAATCTATAGCTGAATGTATA
TGTAATTGTTATGCAGAGAAATAAATTAAAC
Found at i:16186439 original size:41 final size:41
Alignment explanation
Indices: 16186355--16186447 Score: 123
Period size: 41 Copynumber: 2.3 Consensus size: 41
16186345 TGTAAGTTCG
* * *
16186355 GGCTTTATGCCTAGTAGGCTCTATGCCGGTGAAATGTATCA
1 GGCTTTATGCCTAGCAGGCTCTATGCCGGTGAAATCTAGCA
* ***
16186396 GGCTTTATGCCTAGCAGGCTCTGTGCCGGTGGTGTCTAGCA
1 GGCTTTATGCCTAGCAGGCTCTATGCCGGTGAAATCTAGCA
16186437 GGCTTTATGCC
1 GGCTTTATGCC
16186448 AGTGTTTTAT
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.16, C:0.23, G:0.30, T:0.31
Consensus pattern (41 bp):
GGCTTTATGCCTAGCAGGCTCTATGCCGGTGAAATCTAGCA
Found at i:16191527 original size:27 final size:27
Alignment explanation
Indices: 16191447--16191542 Score: 104
Period size: 27 Copynumber: 3.6 Consensus size: 27
16191437 TATTGAATAC
* *
16191447 GCCAAAAAGG-TAGTTCTTTCAGAGTTC
1 GCCACAAAGGCTA-TTCTTTCAGAGTTT
* * *
16191474 ACCACAAAGACTATTCTTTTAGAGTTT
1 GCCACAAAGGCTATTCTTTCAGAGTTT
* *
16191501 GCCACAAAGGTTATTCTTTCAAAGTTT
1 GCCACAAAGGCTATTCTTTCAGAGTTT
*
16191528 GCCATAAAGGCTATT
1 GCCACAAAGGCTATT
16191543 ATTAATAGTC
Statistics
Matches: 56, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
27 54 0.96
28 2 0.04
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Consensus pattern (27 bp):
GCCACAAAGGCTATTCTTTCAGAGTTT
Found at i:16192400 original size:3 final size:3
Alignment explanation
Indices: 16192385--16192418 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
16192375 ACCACTTGAG
*
16192385 GAA GAA CAA GAA GAA GAA GAA GAA GAAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA G-AA GAA GAA
16192419 TCCTTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.68, C:0.03, G:0.29, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:16200505 original size:21 final size:20
Alignment explanation
Indices: 16200460--16200502 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 20
16200450 GCATGGTATG
*
16200460 TTAAATAATTATTAAATTAT
1 TTAAAAAATTATTAAATTAT
16200480 TTAAAAAATTTATTCAAATTAT
1 TTAAAAAA-TTATT-AAATTAT
16200502 T
1 T
16200503 AAATTATTCG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 7 0.35
21 5 0.25
22 8 0.40
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (20 bp):
TTAAAAAATTATTAAATTAT
Found at i:16201214 original size:27 final size:27
Alignment explanation
Indices: 16201184--16201242 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
16201174 ACTGATAGGC
*
16201184 GGCACCAAAGGTGCCATTCCCATGGGT
1 GGCACCAAAGGTGCCATTCCCATGGGA
***
16201211 GGCACCGGTGGTGCCATTCCCATGGGA
1 GGCACCAAAGGTGCCATTCCCATGGGA
16201238 GGCAC
1 GGCAC
16201243 TGCCCTTATA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.19, C:0.31, G:0.34, T:0.17
Consensus pattern (27 bp):
GGCACCAAAGGTGCCATTCCCATGGGA
Found at i:16201312 original size:10 final size:10
Alignment explanation
Indices: 16201297--16201420 Score: 71
Period size: 10 Copynumber: 11.9 Consensus size: 10
16201287 GAAGGAGAGG
16201297 GAAAGAAGAA
1 GAAAGAAGAA
16201307 GAAAGAAAGAAA
1 GAAAG-AAG-AA
16201319 GAAA-AAGAA
1 GAAAGAAGAA
16201328 GGAAAGAA-AA
1 -GAAAGAAGAA
16201338 GGAAAGGATAAGAA
1 -GAAA-G--AAGAA
*
16201352 GAAAAAAGAA
1 GAAAGAAGAA
16201362 TGAAA-AAGAA
1 -GAAAGAAGAA
16201372 GGAAAGAA-AA
1 -GAAAGAAGAA
*
16201382 GGAAAGGAGAA
1 -GAAAGAAGAA
16201393 GAGAAG-AGAA
1 GA-AAGAAGAA
* *
16201403 AAAAAAAGAA
1 GAAAGAAGAA
16201413 G-AAGAAGA
1 GAAAGAAGA
16201421 GGGGAGGAAG
Statistics
Matches: 94, Mismatches: 7, Indels: 27
0.73 0.05 0.21
Matches are distributed among these distances:
9 10 0.11
10 53 0.56
11 17 0.18
12 6 0.06
13 6 0.06
14 2 0.02
ACGTcount: A:0.69, C:0.00, G:0.29, T:0.02
Consensus pattern (10 bp):
GAAAGAAGAA
Found at i:16201320 original size:18 final size:18
Alignment explanation
Indices: 16201297--16201418 Score: 75
Period size: 18 Copynumber: 6.9 Consensus size: 18
16201287 GAAGGAGAGG
16201297 GAAAG-AAGAAGAAAGAAA
1 GAAAGAAAGAAG-AAGAAA
16201315 GAAAGAAA-AAGAAGGAAA
1 GAAAGAAAGAAGAA-GAAA
* *
16201333 GAAAAGGAAAGGATAAG-AA
1 G-AAA-GAAAGAAGAAGAAA
16201352 GAAA-AAAGAATGAA-AAA
1 GAAAGAAAGAA-GAAGAAA
*
16201369 GAAGGAAAGAA-AAGGAAA
1 GAAAGAAAGAAGAA-GAAA
*
16201387 G-GAGAAGAGAAG-AGAAA
1 GAAAGAA-AGAAGAAGAAA
16201404 -AAA-AAAGAAGAAGAA
1 GAAAGAAAGAAGAAGAA
16201419 GAGGGGAGGA
Statistics
Matches: 82, Mismatches: 8, Indels: 30
0.68 0.07 0.25
Matches are distributed among these distances:
15 5 0.06
16 13 0.16
17 17 0.21
18 31 0.38
19 8 0.10
20 5 0.06
21 3 0.04
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.02
Consensus pattern (18 bp):
GAAAGAAAGAAGAAGAAA
Found at i:16201358 original size:34 final size:34
Alignment explanation
Indices: 16201296--16201387 Score: 104
Period size: 34 Copynumber: 2.8 Consensus size: 34
16201286 AGAAGGAGAG
16201296 GGAAAGAAGAA-GAAA-GAAAGAAAGAAAAAGAA
1 GGAAAGAAGAAGGAAAGGAAAGAAAGAAAAAGAA
16201328 GGAAAGAA-AAGGAAAGGATAAG-AAGAAAAAAGAA
1 GGAAAGAAGAAGGAAAGGA-AAGAAAG-AAAAAGAA
* *
16201362 TGAAA-AAGAAGGAAAGAAAAGGAAAG
1 GGAAAGAAGAAGGAAAGGAAA-GAAAG
16201388 GAGAAGAGAA
Statistics
Matches: 51, Mismatches: 2, Indels: 11
0.80 0.03 0.17
Matches are distributed among these distances:
31 2 0.04
32 12 0.24
33 9 0.18
34 25 0.49
35 3 0.06
ACGTcount: A:0.68, C:0.00, G:0.29, T:0.02
Consensus pattern (34 bp):
GGAAAGAAGAAGGAAAGGAAAGAAAGAAAAAGAA
Found at i:16201375 original size:44 final size:45
Alignment explanation
Indices: 16201300--16201416 Score: 170
Period size: 44 Copynumber: 2.6 Consensus size: 45
16201290 GGAGAGGGAA
16201300 AGAAGAAGAAAGAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGG
1 AGAAGAAGAAAGAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGG
* *
16201345 ATAAGAAGAAA-AAAGAATGAAAAAGAAGGAAAGAAAAGGAAAGG
1 AGAAGAAGAAAGAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGG
16201389 AGAAG-AGAAGAGAAA-AAA-AAAGAAGAAG
1 AGAAGAAGAA-AGAAAGAAAGAAA-AAGAAG
16201417 AAGAGGGGAG
Statistics
Matches: 65, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
43 7 0.11
44 45 0.69
45 13 0.20
ACGTcount: A:0.69, C:0.00, G:0.29, T:0.02
Consensus pattern (45 bp):
AGAAGAAGAAAGAAAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGG
Found at i:16201410 original size:23 final size:22
Alignment explanation
Indices: 16201299--16201417 Score: 68
Period size: 23 Copynumber: 5.3 Consensus size: 22
16201289 AGGAGAGGGA
16201299 AAGAAGAAGAAAGAAAGAAAGAAA-
1 AAGAAG-AGAAAGAAA-AAA-AAAG
**
16201323 AAGAAG-GAAAGAAAAGGAAAG
1 AAGAAGAGAAAGAAAAAAAAAG
* * *
16201344 GATAAGAAGAAA-AAAGAATGAAA-
1 AAGAAG-AGAAAGAAA-AA-AAAAG
**
16201367 AAGAAG-GAAAGAAAAGGAAAG
1 AAGAAGAGAAAGAAAAAAAAAG
*
16201388 GAGAAGAGAAGAGAAAAAAAAAG
1 AAGAAGAGAA-AGAAAAAAAAAG
16201411 AAGAAGA
1 AAGAAGA
16201418 AGAGGGGAGG
Statistics
Matches: 74, Mismatches: 12, Indels: 19
0.70 0.11 0.18
Matches are distributed among these distances:
20 7 0.09
21 15 0.20
22 17 0.23
23 25 0.34
24 10 0.14
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.02
Consensus pattern (22 bp):
AAGAAGAGAAAGAAAAAAAAAG
Found at i:16201569 original size:27 final size:28
Alignment explanation
Indices: 16201537--16201590 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
16201527 TTTTATTATG
* *
16201537 TTATTTAGCAT-ATAAATTTTATGAAAT
1 TTATTTAGCATGACAAAATTTATGAAAT
16201564 TTATTTAGCATGACAAAATTTATGAAA
1 TTATTTAGCATGACAAAATTTATGAAA
16201591 AAATTCATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 11 0.46
28 13 0.54
ACGTcount: A:0.43, C:0.06, G:0.09, T:0.43
Consensus pattern (28 bp):
TTATTTAGCATGACAAAATTTATGAAAT
Found at i:16202437 original size:285 final size:287
Alignment explanation
Indices: 16201832--16203070 Score: 2161
Period size: 285 Copynumber: 4.3 Consensus size: 287
16201822 AAAGTAAAAG
*
16201832 TATAAAATTAGAAATTATGAATTTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAAGAAAT
1 TATAAAATTAGAAATTATGAAATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAAGAAAT
** *
16201897 AACCGAGGTAAGAGTGTTTTACAAAATTTTTTAAAAATTCAGAAATAATTAATACAGATATTTGA
66 GGCCGAGGTAAGAGTGTTTTACAAAATTTTTTAAAAATTCAGAAATAATTAATACAAATATTTGA
16201962 AACAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAAAATTATTTTATTGAAAGTA
131 AACAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAAAATTATTTTATTGAAAGTA
* * *
16202027 ATAAAATTCAGGAAAATAATACGAGAAAATGGCGTGAATAAGGG-TTTTTTTACACTAAATTAAT
196 ATAAAATTTAGGAAAATAATACGAGCAAATGGCGGGAATAAGGGTTTTTTTTACACTAAATTAAT
16202091 TTAAAAAACACACTAAATTAATAAATT
261 TTAAAAAACACACTAAATTAATAAATT
16202118 TATAAAATTAGAAATTATG-AATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAAGAAAT
1 TATAAAATTAGAAATTATGAAATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAAGAAAT
16202182 GGCCGAGGTAAGAGTGTTTTAC-AAATTTTTTAAAAATTCAGAAATAATTAATACAAATATTTGA
66 GGCCGAGGTAAGAGTGTTTTACAAAATTTTTTAAAAATTCAGAAATAATTAATACAAATATTTGA
*
16202246 AACAAAATGTACTGAAATAATATAAATTAATAAAATACGAAAATAAAATTATTTTATTGAAAGTA
131 AACAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAAAATTATTTTATTGAAAGTA
*
16202311 ATAAAATTTAGGAAAATAATACGAGCAAATGGCGGGAATAAGAG-TTTTTTTACACTAAATTAAT
196 ATAAAATTTAGGAAAATAATACGAGCAAATGGCGGGAATAAGGGTTTTTTTTACACTAAATTAAT
* *
16202375 TTTAAAAATACACTAAATTAATAAATT
261 TTAAAAAACACACTAAATTAATAAATT
16202402 TATAAAATTAGAAATTATGAAATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAAGAAAT
1 TATAAAATTAGAAATTATGAAATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAAGAAAT
* *
16202467 GGTCGAGGTAAGAGTGTTTTACAAATTTTTTTAAAAATTCAGAAATAATTAATACAAATATTTGA
66 GGCCGAGGTAAGAGTGTTTTACAAAATTTTTTAAAAATTCAGAAATAATTAATACAAATATTTGA
*
16202532 AACAAAATGTACTGAAATAATATAAAATAATAAAATATGAAAATAAAATTATTTTATTGAAAGTA
131 AACAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAAAATTATTTTATTGAAAGTA
* *
16202597 ATAAAATTT-GAGAAAATAATACGAGCAAATGGCTGGAATAA-GGATTTTTTTACACTAAATTAA
196 ATAAAATTTAG-GAAAATAATACGAGCAAATGGCGGGAATAAGGGTTTTTTTTACACTAAATTAA
16202660 TTT-AAAAACACACTAAATTAATAAATT
260 TTTAAAAAACACACTAAATTAATAAATT
* *
16202687 TATAAAATTAGAAATTATGAAATTTTTTAAAGTAATAAAATACAGAGAAAAAAATACGAAGAAAT
1 TATAAAATTAGAAATTATGAAATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAAGAAAT
*
16202752 GGCCGATGTAAGAGTGTTTTACAAAATTTTTTAAAAATTCAGAAATAATTAATACAAATATTTGA
66 GGCCGAGGTAAGAGTGTTTTACAAAATTTTTTAAAAATTCAGAAATAATTAATACAAATATTTGA
16202817 AACAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAAAATT-TTTTATTGAAAGTA
131 AACAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAAAATTATTTTATTGAAAGTA
* **
16202881 ATAAAATTTGGGAAAATAATACGAGCAAATGGCAAGAATAAGGGTTTTTTTTTACACTAAATTAA
196 ATAAAATTTAGGAAAATAATACGAGCAAATGGCGGGAATAAGGG-TTTTTTTTACACTAAATTAA
*
16202946 TTTAAAAAACATACTAAATTAATAAATT
260 TTTAAAAAACACACTAAATTAATAAATT
* *
16202974 TATAAAATTAGAAATTATGATATTTTTTAAAGTAATAAAATGCAGAGAAAAAAATACGAAGAAAT
1 TATAAAATTAGAAATTATGAAATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAAGAAAT
* *
16203039 GGCCGAGGTAAGAGTGTTTTACTAACTTTTTT
66 GGCCGAGGTAAGAGTGTTTTACAAAATTTTTT
16203071 TTCAACATGC
Statistics
Matches: 912, Mismatches: 33, Indels: 15
0.95 0.03 0.02
Matches are distributed among these distances:
284 260 0.29
285 332 0.36
286 205 0.22
287 115 0.13
ACGTcount: A:0.51, C:0.06, G:0.12, T:0.31
Consensus pattern (287 bp):
TATAAAATTAGAAATTATGAAATTTTTTAAAGTAATAAAATGCGGAGAAAAAAATACGAAGAAAT
GGCCGAGGTAAGAGTGTTTTACAAAATTTTTTAAAAATTCAGAAATAATTAATACAAATATTTGA
AACAAAATGTACTGAAATAATATAAAATAATAAAATACGAAAATAAAATTATTTTATTGAAAGTA
ATAAAATTTAGGAAAATAATACGAGCAAATGGCGGGAATAAGGGTTTTTTTTACACTAAATTAAT
TTAAAAAACACACTAAATTAATAAATT
Found at i:16205821 original size:18 final size:18
Alignment explanation
Indices: 16205798--16205842 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
16205788 ATCCCAATGA
16205798 TCGCCACCACCTTCTTCT
1 TCGCCACCACCTTCTTCT
*
16205816 TCGCCACCATCTTCTTCT
1 TCGCCACCACCTTCTTCT
*
16205834 TCACCACCA
1 TCGCCACCA
16205843 ACCATATCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.16, C:0.49, G:0.04, T:0.31
Consensus pattern (18 bp):
TCGCCACCACCTTCTTCT
Found at i:16206539 original size:60 final size:62
Alignment explanation
Indices: 16206486--16206607 Score: 172
Period size: 63 Copynumber: 2.0 Consensus size: 62
16206476 TTTATACTCA
*
16206486 AAATTATACTAACTAAAAATAATAACTAACCATAATAATAATACTAGTTTTTTACTAACTAG
1 AAATTATACTAAATAAAAATAATAACTAACCATAATAATAATACTAGTTTTTTACTAACTAG
** * ** *
16206548 TTTATTTTGGTAAATAAAAATAATAACTAACCATAGTAATAATACTAGTTTTTTACTAAC
1 -AAATTATACTAAATAAAAATAATAACTAACCATAATAATAATACTAGTTTTTTACTAAC
16206608 AATAATACTA
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
63 52 1.00
ACGTcount: A:0.47, C:0.11, G:0.05, T:0.37
Consensus pattern (62 bp):
AAATTATACTAAATAAAAATAATAACTAACCATAATAATAATACTAGTTTTTTACTAACTAG
Found at i:16213464 original size:13 final size:13
Alignment explanation
Indices: 16213448--16213474 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
16213438 TTAAAAACAC
16213448 TTTTCAAAAGTAT
1 TTTTCAAAAGTAT
16213461 TTTTCAAAAGTAT
1 TTTTCAAAAGTAT
16213474 T
1 T
16213475 ACTAAACTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.48
Consensus pattern (13 bp):
TTTTCAAAAGTAT
Found at i:16217399 original size:15 final size:15
Alignment explanation
Indices: 16217379--16217411 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
16217369 AAGGATACAA
16217379 TTATTCGGATTATTC
1 TTATTCGGATTATTC
16217394 TTATTCGGATTATTC
1 TTATTCGGATTATTC
16217409 TTA
1 TTA
16217412 CACTTGCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.21, C:0.12, G:0.12, T:0.55
Consensus pattern (15 bp):
TTATTCGGATTATTC
Found at i:16218795 original size:43 final size:43
Alignment explanation
Indices: 16218726--16219002 Score: 287
Period size: 43 Copynumber: 6.5 Consensus size: 43
16218716 TTTTTAAAAT
* * * * *
16218726 AAACGCCGCTATAGATCATGATCTTTAGCGGCGCTT-TTCTCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGACGCTTCTAC-CAC
* **
16218769 AAAC-CTCGCTAAAGAACAAGACCTTTAGCGGTGCTTCTACCAC
1 AAACGC-CGCTAAAGAACATGACCTTTAGCGACGCTTCTACCAC
* *
16218812 AAACGCCGCTAAAGATCATGACCTTTAGCGACGCTTTTACCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGACGCTTCTACCAC
* *
16218855 TAACGCCGCTAAA-AATCATGACCTTTAACGACGCTTCTACCAC
1 AAACGCCGCTAAAGAA-CATGACCTTTAGCGACGCTTCTACCAC
* *
16218898 AAACGTCGCTAAAGAACATGACCTTTAGCGACGCTTATACCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGACGCTTCTACCAC
* * * * * ***
16218941 AAACGCCACT-AACAAGATGACTTTTAGCGGCGCTT-TTTGAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGACGCTTCTACCAC
16218982 AAACGCCGCTAAA-AACATGAC
1 AAACGCCGCTAAAGAACATGAC
16219003 TTTTTAAAAA
Statistics
Matches: 198, Mismatches: 30, Indels: 14
0.82 0.12 0.06
Matches are distributed among these distances:
41 19 0.10
42 25 0.13
43 149 0.75
44 5 0.03
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGACGCTTCTACCAC
Found at i:16218878 original size:86 final size:85
Alignment explanation
Indices: 16218726--16219002 Score: 319
Period size: 86 Copynumber: 3.3 Consensus size: 85
16218716 TTTTTAAAAT
* * * * *
16218726 AAACGCCGCTATAGATCATGATCTTTAGCGGCGCTTTT-CTCACAAAC-CTCGCTAAAGAACAAG
1 AAACGCCGCTAAAGAACATGACCTTTAGCGACGCTTTTAC-CACAAACGC-CGCTAAA-AACATG
*
16218789 ACCTTTAGCGGTGCTTCTACCAC
63 ACCTTTAGCGGCGCTTCTACCAC
* *
16218812 AAACGCCGCTAAAGATCATGACCTTTAGCGACGCTTTTACCACTAACGCCGCTAAAAATCATGAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGACGCTTTTACCACAAACGCCGCTAAAAA-CATGAC
* *
16218877 CTTTAACGACGCTTCTACCAC
65 CTTTAGCGGCGCTTCTACCAC
* * * * * *
16218898 AAACGTCGCTAAAGAACATGACCTTTAGCGACGCTTATACCACAAACGCCACTAACAAGATGACT
1 AAACGCCGCTAAAGAACATGACCTTTAGCGACGCTTTTACCACAAACGCCGCTAAAAACATGACC
***
16218963 TTTAGCGGCGCTT-TTTGAC
66 TTTAGCGGCGCTTCTACCAC
16218982 AAACGCCGCTAAA-AACATGAC
1 AAACGCCGCTAAAGAACATGAC
16219003 TTTTTAAAAA
Statistics
Matches: 166, Mismatches: 22, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
83 8 0.05
84 15 0.09
85 18 0.11
86 123 0.74
87 2 0.01
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23
Consensus pattern (85 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGACGCTTTTACCACAAACGCCGCTAAAAACATGACC
TTTAGCGGCGCTTCTACCAC
Found at i:16218881 original size:129 final size:127
Alignment explanation
Indices: 16218726--16219002 Score: 335
Period size: 129 Copynumber: 2.2 Consensus size: 127
16218716 TTTTTAAAAT
* * * * * *
16218726 AAACGCCGCTATAGATCATGATCTTTAGCGGCGCTT-TTCTCACAAACCTCGCTAAAGAACAAGA
1 AAACGCCGCTAAAAATCATGACCTTTAACGACGCTTCTAC-CACAAACCTCGCTAAAGAACAAGA
** * *
16218790 CCTTTAGCGGTGCTTCTACCACAAACGCCGCTAA-AGATCATGACCTTTAGCGACGCTTTTACCA
65 CCTTTAGCGACGCTTATACCACAAACGCCACTAACA-A-CATGACCTTTAGCGACGCTTTT-CCA
16218854 C
127 C
* * *
16218855 TAACGCCGCTAAAAATCATGACCTTTAACGACGCTTCTACCACAAACGTCGCTAAAGAACATGAC
1 AAACGCCGCTAAAAATCATGACCTTTAACGACGCTTCTACCACAAACCTCGCTAAAGAACAAGAC
* * * **
16218920 CTTTAGCGACGCTTATACCACAAACGCCACTAACAAGATGACTTTTAGCGGCGCTTTTTGAC
66 CTTTAGCGACGCTTATACCACAAACGCCACTAACAACATGACCTTTAGCGACGCTTTTCCAC
16218982 AAACGCCGCTAAAAA-CATGAC
1 AAACGCCGCTAAAAATCATGAC
16219003 TTTTTAAAAA
Statistics
Matches: 127, Mismatches: 19, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
126 6 0.05
127 16 0.13
128 19 0.15
129 83 0.65
130 3 0.02
ACGTcount: A:0.32, C:0.29, G:0.16, T:0.23
Consensus pattern (127 bp):
AAACGCCGCTAAAAATCATGACCTTTAACGACGCTTCTACCACAAACCTCGCTAAAGAACAAGAC
CTTTAGCGACGCTTATACCACAAACGCCACTAACAACATGACCTTTAGCGACGCTTTTCCAC
Found at i:16223604 original size:89 final size:89
Alignment explanation
Indices: 16223418--16223605 Score: 279
Period size: 89 Copynumber: 2.1 Consensus size: 89
16223408 CCCAAACCCC
* *
16223418 AAACCACTAACCCCTAAACCTTATTTAATATATAAATTAAAAAACACTAATTAATCTAAATCCTA
1 AAACC-CTAACCCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTA
* * *
16223483 AACCCTAACTCGATCCCAAATTCTT
65 AACCCTAACTCGATACCAAATACAT
* *
16223508 AACCCCTAACCCCTAAACATTATTTAATATATAAATTAAAACACACTAATTAATCTAAACCCTAA
1 AAACCCTAACCCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTAA
*
16223573 ACCCTAA-TCTGATACTAAATACAT
66 ACCCTAACTC-GATACCAAATACAT
16223597 AAACCCTAA
1 AAACCCTAA
16223606 ATCCTTAACT
Statistics
Matches: 88, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
88 2 0.02
89 82 0.93
90 4 0.05
ACGTcount: A:0.46, C:0.26, G:0.01, T:0.28
Consensus pattern (89 bp):
AAACCCTAACCCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAACCCTAA
ACCCTAACTCGATACCAAATACAT
Found at i:16223635 original size:14 final size:14
Alignment explanation
Indices: 16223608--16223655 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
16223598 AACCCTAAAT
* *
16223608 CCTTAACTCTTAAC
1 CCTTAACCCCTAAC
*
16223622 CTTTAACCCCTAAC
1 CCTTAACCCCTAAC
* *
16223636 CCTTAACCCATAAA
1 CCTTAACCCCTAAC
16223650 CCTTAA
1 CCTTAA
16223656 ATCACAACCC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.33, C:0.38, G:0.00, T:0.29
Consensus pattern (14 bp):
CCTTAACCCCTAAC
Found at i:16224175 original size:41 final size:41
Alignment explanation
Indices: 16224117--16224316 Score: 229
Period size: 41 Copynumber: 4.9 Consensus size: 41
16224107 AAATGTTTTT
*
16224117 GCGGCACTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
* **
16224158 GCGGCGCTTTTTAAAAAATACCGCTAAAGCCCCGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
** * ** *
16224199 ATGGCGCTTTTTCAAAAACGCCTCTAAAGATCTGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
* * ** *
16224240 GCGGCGCATTTTCAAAAACGCAGCTAAAGATCTGAGCATTA
1 GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
* * *
16224281 GCGACGCTTTTTTTAAAAACGTCGCTAAAGCCCCGA
1 GCGGCGC-TTTTTCAAAAACGCCGCTAAAGCCCCGA
16224317 AAGGTAGAAA
Statistics
Matches: 132, Mismatches: 26, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
41 111 0.84
42 21 0.16
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (41 bp):
GCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCGAGCATTA
Found at i:16229723 original size:22 final size:21
Alignment explanation
Indices: 16229675--16229723 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
16229665 AACTAAATCC
** *
16229675 TTTCTCTCAATTTTTCTCTAA
1 TTTCTCTCAATTCCTCTCAAA
16229696 TATTCTCTCAAATTCCTCTCAAA
1 T-TTCTCTC-AATTCCTCTCAAA
16229719 TTTCT
1 TTTCT
16229724 ATTTAAAAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 1 0.04
22 11 0.48
23 11 0.48
ACGTcount: A:0.22, C:0.27, G:0.00, T:0.51
Consensus pattern (21 bp):
TTTCTCTCAATTCCTCTCAAA
Found at i:16231545 original size:18 final size:18
Alignment explanation
Indices: 16231522--16231564 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
16231512 TGCCAGGTGC
* *
16231522 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
16231540 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
16231558 GTTTCCT
1 GTATCCT
16231565 TTTTCTAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:16231827 original size:21 final size:22
Alignment explanation
Indices: 16231803--16231845 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
16231793 TTATCTGATG
16231803 AACCAGAATCCCC-GCC-GAAGC
1 AACCAGAA-CCCCTGCCGGAAGC
*
16231824 AACCATAACCCCTGCCGGAAGC
1 AACCAGAACCCCTGCCGGAAGC
16231846 TGGACAAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 4 0.21
21 10 0.53
22 5 0.26
ACGTcount: A:0.33, C:0.42, G:0.19, T:0.07
Consensus pattern (22 bp):
AACCAGAACCCCTGCCGGAAGC
Found at i:16232023 original size:49 final size:49
Alignment explanation
Indices: 16231961--16232228 Score: 448
Period size: 49 Copynumber: 5.5 Consensus size: 49
16231951 GTTTATATTA
16231961 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
1 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
*
16232010 ATGTAATCAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
1 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
*
16232059 ATGTAATAAAATACAAAATAGTTTATTTTGAATAATTTGATATTATTTG
1 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
* *
16232108 ATGTAATAAAATACAAAATAGTTTATTTTGAATAGTTTGATATTATTTC
1 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
* * *
16232157 ATTTAATAAAATAAAAAATAGTTTATTTTGAATATTTTGATGTTATTTCG
1 ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTT-G
*
16232207 -TTTAATAAAATACAAAATAGTT
1 ATGTAATAAAATACAAAATAGTT
16232229 AATATTCTTA
Statistics
Matches: 207, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
49 207 1.00
ACGTcount: A:0.42, C:0.03, G:0.10, T:0.46
Consensus pattern (49 bp):
ATGTAATAAAATACAAAATAGTTTATTTTGAATATTTTGATATTATTTG
Found at i:16232085 original size:29 final size:29
Alignment explanation
Indices: 16232052--16232135 Score: 78
Period size: 29 Copynumber: 3.2 Consensus size: 29
16232042 TATTTTGATA
16232052 TTATTTGATGTAATAAAATACAAAATAGT
1 TTATTTGATGTAATAAAATACAAAATAGT
***
16232081 TTATTT--TG-AAT--AAT--TTGATA--
1 TTATTTGATGTAATAAAATACAAAATAGT
16232101 TTATTTGATGTAATAAAATACAAAATAGT
1 TTATTTGATGTAATAAAATACAAAATAGT
16232130 TTATTT
1 TTATTT
16232136 TGAATAGTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 18
0.62 0.09 0.28
Matches are distributed among these distances:
20 6 0.15
22 5 0.12
23 3 0.08
24 3 0.08
25 3 0.08
26 3 0.08
27 5 0.12
29 12 0.30
ACGTcount: A:0.43, C:0.02, G:0.10, T:0.45
Consensus pattern (29 bp):
TTATTTGATGTAATAAAATACAAAATAGT
Found at i:16235694 original size:125 final size:123
Alignment explanation
Indices: 16235434--16235815 Score: 550
Period size: 125 Copynumber: 3.1 Consensus size: 123
16235424 TCCAAACATG
** *
16235434 CTACTGTAGCAAAAACGCGTCCACGTGGGAGTGATTTCAGAAATTCTTCTGAT-AAAGCATCCTG
1 CTACTGTAGCAAAAACGCGTCCACGT-GGAGCAATTTCAAAAATTCTTCTGATAAAAG-ATCCTG
*
16235498 CTTGAAGCATTTTTATACTATTTGTTCAGAAACGTCAACTCAAAATTATTTTTTTAGGAC
64 CTTGAAGCATTTTTATACTATTTGTTCAGAAACGTCAACTCAAAATTATTTTTTCAGGAC
* * *
16235558 CTACTGTAGCAAAAGCGCGTCCACGTAGGAGCAATTTAAAAAATTCTTCTGATAAAAGATCCTGG
1 CTACTGTAGCAAAAACGCGTCCACGT-GGAGCAATTTCAAAAATTCTTCTGATAAAAGATCCTGC
* * *
16235623 TTGAAGCGGTTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
65 TTGAAGC-ATTTTTATACTATTTGTTCAGAAACGTCAACTCAAAATTATTTTTTCAGGAC
* * * *
16235683 CTACTGTAGCAAAAACGCGTCCACGTGAGTGCAATTTCAAAAATTCTTCTAATAAAACATCTTGC
1 CTACTGTAGCAAAAACGCGTCCACGTG-GAGCAATTTCAAAAATTCTTCTGATAAAAGATCCTGC
* *
16235748 TTGAAGCAATTTTTATACTATTTGTTCAGAAAAGTCAACTCAAAATTATTTTTTCAAGAC
65 TTGAAGC-ATTTTTATACTATTTGTTCAGAAACGTCAACTCAAAATTATTTTTTCAGGAC
*
16235808 ATACTGTA
1 CTACTGTA
16235816 ATAAGCCTAA
Statistics
Matches: 230, Mismatches: 25, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
124 61 0.27
125 169 0.73
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Consensus pattern (123 bp):
CTACTGTAGCAAAAACGCGTCCACGTGGAGCAATTTCAAAAATTCTTCTGATAAAAGATCCTGCT
TGAAGCATTTTTATACTATTTGTTCAGAAACGTCAACTCAAAATTATTTTTTCAGGAC
Found at i:16244362 original size:17 final size:17
Alignment explanation
Indices: 16244340--16244373 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
16244330 GTTTTTTTTA
16244340 TTGTTTACTACATAAAG
1 TTGTTTACTACATAAAG
16244357 TTGTTTACTACATAAAG
1 TTGTTTACTACATAAAG
16244374 GTTAAAACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (17 bp):
TTGTTTACTACATAAAG
Found at i:16244699 original size:4 final size:4
Alignment explanation
Indices: 16244690--16244715 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
16244680 ATAATAATAA
16244690 TAAT TAAT TAAT TAAT TAAT TAAT TA
1 TAAT TAAT TAAT TAAT TAAT TAAT TA
16244716 TAATTGAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
TAAT
Found at i:16245507 original size:61 final size:63
Alignment explanation
Indices: 16245399--16245528 Score: 187
Period size: 61 Copynumber: 2.1 Consensus size: 63
16245389 GCTGAATTTG
*
16245399 TATTAGATATTATAATTATTTAAGTTTAATTTTTTACCTAATTAATATTTAGATACCA-TTTA
1 TATTAGATATTATAATTATTTAAGTTTAATTTTTTACCAAATTAATATTTAGATACCACTTTA
* *
16245461 TACTTAGATATTGTAATTA-TTAAGCTTT-A-TTTTTACCAAATTAATATTTAGATACTACTTTA
1 TA-TTAGATATTATAATTATTTAAG-TTTAATTTTTTACCAAATTAATATTTAGATACCACTTTA
16245523 TATTAG
1 TATTAG
16245529 TTTATGTTGC
Statistics
Matches: 62, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
61 30 0.48
62 14 0.23
63 18 0.29
ACGTcount: A:0.36, C:0.08, G:0.06, T:0.50
Consensus pattern (63 bp):
TATTAGATATTATAATTATTTAAGTTTAATTTTTTACCAAATTAATATTTAGATACCACTTTA
Found at i:16247705 original size:21 final size:21
Alignment explanation
Indices: 16247641--16247705 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
16247631 GTTATTAAAT
*
16247641 TTTAATAAGATTATTATTAAATAA
1 TTTAATAAAATTATT-TT--ATAA
* * *
16247665 TTTAATAAAAATAATATATAA
1 TTTAATAAAATTATTTTATAA
16247686 TTTAATAAAATTATTTTATA
1 TTTAATAAAATTATTTTATA
16247706 TTAAATTATA
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
21 21 0.62
23 1 0.03
24 12 0.35
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (21 bp):
TTTAATAAAATTATTTTATAA
Found at i:16247752 original size:21 final size:23
Alignment explanation
Indices: 16247711--16247754 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
16247701 TTATATTAAA
*
16247711 TTATATTAAAAGATTTTTTATTT
1 TTATATTAAAAGATATTTTATTT
16247734 TTATATT-AAA-ATATTTTATTT
1 TTATATTAAAAGATATTTTATTT
16247755 ACTGCATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 10 0.50
22 3 0.15
23 7 0.35
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (23 bp):
TTATATTAAAAGATATTTTATTT
Found at i:16261829 original size:20 final size:20
Alignment explanation
Indices: 16261806--16261843 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
16261796 CTTGATAAAA
*
16261806 GGTATCGATATAATTTTATG
1 GGTATCAATATAATTTTATG
16261826 GGTATCAATATAATTTTA
1 GGTATCAATATAATTTTA
16261844 CAAGTACTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.05, G:0.16, T:0.45
Consensus pattern (20 bp):
GGTATCAATATAATTTTATG
Found at i:16263102 original size:36 final size:38
Alignment explanation
Indices: 16263029--16263104 Score: 116
Period size: 39 Copynumber: 2.0 Consensus size: 38
16263019 TTAAAAATAT
**
16263029 TTATATTAAAAAACACCTATAAATATAATAAATATTTTA
1 TTATATTAAAAAACACAAATAAATATAAT-AATATTTTA
*
16263068 TTATATTAAAAAACACAAATAAATATAATAATTTTTT
1 TTATATTAAAAAACACAAATAAATATAATAATATTTT
16263105 TAATGTAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
38 7 0.21
39 27 0.79
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (38 bp):
TTATATTAAAAAACACAAATAAATATAATAATATTTTA
Found at i:16265272 original size:31 final size:29
Alignment explanation
Indices: 16265216--16265273 Score: 71
Period size: 31 Copynumber: 1.9 Consensus size: 29
16265206 ATGTAGCACC
*
16265216 TGTATTTTAAATTGATTAATATTAGTCAT
1 TGTATTTTAAATTGATAAATATTAGTCAT
* *
16265245 TGTATTTTTCAAATTGGTAAATTTTAGTC
1 TGTA-TTTT-AAATTGATAAATATTAGTC
16265274 CCTACACTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 4 0.17
30 4 0.17
31 16 0.67
ACGTcount: A:0.31, C:0.05, G:0.12, T:0.52
Consensus pattern (29 bp):
TGTATTTTAAATTGATAAATATTAGTCAT
Found at i:16274142 original size:21 final size:21
Alignment explanation
Indices: 16274118--16274169 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
16274108 CATTGTTTCT
*
16274118 AATCTCACCGCTACAGTATCC
1 AATCTCACCGCTACAGTAACC
*
16274139 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
16274160 AATCTCACCG
1 AATCTCACCG
16274170 TCACCGCTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.31, C:0.37, G:0.10, T:0.23
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:16279832 original size:40 final size:40
Alignment explanation
Indices: 16279777--16280325 Score: 927
Period size: 40 Copynumber: 13.7 Consensus size: 40
16279767 GAGCATTGGA
16279777 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
16279817 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
16279857 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
16279897 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
16279937 ATATGTCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
16279977 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
16280017 ATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
16280057 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
16280097 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
16280137 ATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
16280177 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
16280217 ATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
16280257 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
16280297 ATATGTCCGGGTTAAGACCGCGAAGGCAA
1 ATATATCCGGGCTAAGACC-CGAAGGCAA
16280326 AGGTGTTTGC
Statistics
Matches: 477, Mismatches: 31, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
40 468 0.98
41 9 0.02
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:16287529 original size:40 final size:40
Alignment explanation
Indices: 16287474--16288021 Score: 934
Period size: 40 Copynumber: 13.7 Consensus size: 40
16287464 GAGCATTGGA
16287474 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
16287514 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
16287554 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
16287594 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
16287634 ATATGTCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
16287674 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
16287714 ATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
16287754 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
16287794 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTA
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
16287834 ATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
16287874 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* * *
16287914 ATATGTCCGGGCTATGACCCGAAGGCAATTATGCGAGATG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
*
16287954 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
* *
16287994 ATATGTCCGGGTTAAGACCCGAAGGCAA
1 ATATATCCGGGCTAAGACCCGAAGGCAA
16288022 AGGTGTTTGC
Statistics
Matches: 477, Mismatches: 31, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 477 1.00
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCAATTATGCGAGTTG
Found at i:16289875 original size:15 final size:15
Alignment explanation
Indices: 16289855--16289888 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
16289845 ATGAGAAAAT
16289855 AAACCTAAATGTATG
1 AAACCTAAATGTATG
16289870 AAACCTAAATGTATG
1 AAACCTAAATGTATG
16289885 AAAC
1 AAAC
16289889 GTACAAACCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.50, C:0.15, G:0.12, T:0.24
Consensus pattern (15 bp):
AAACCTAAATGTATG
Found at i:16291977 original size:12 final size:12
Alignment explanation
Indices: 16291955--16291984 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
16291945 ATCAAATATT
16291955 AGAACAATAAAGA
1 AGAA-AATAAAGA
16291968 AGAAAATAAAGA
1 AGAAAATAAAGA
16291980 AGAAA
1 AGAAA
16291985 GATGGAAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.73, C:0.03, G:0.17, T:0.07
Consensus pattern (12 bp):
AGAAAATAAAGA
Found at i:16293143 original size:21 final size:22
Alignment explanation
Indices: 16293119--16293167 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 22
16293109 CACAATGACC
16293119 ACATGCCAAAGT-CACATTCAA
1 ACATGCCAAAGTGCACATTCAA
* * **
16293140 ACATACCAAATTGGTCATTCAA
1 ACATGCCAAAGTGCACATTCAA
16293162 ACATGC
1 ACATGC
16293168 ATTAACCCCT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.41, C:0.27, G:0.10, T:0.22
Consensus pattern (22 bp):
ACATGCCAAAGTGCACATTCAA
Found at i:16294331 original size:20 final size:20
Alignment explanation
Indices: 16294302--16294355 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 20
16294292 CAAACAGGGG
*
16294302 CACCGTAGTGCAAATAGAGA
1 CACCGAAGTGCAAATAGAGA
* * * * *
16294322 CATCGAAGTGTATATAGGGG
1 CACCGAAGTGCAAATAGAGA
16294342 CACCGAAGTGCAAA
1 CACCGAAGTGCAAA
16294356 CAAGGGCACC
Statistics
Matches: 25, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.37, C:0.19, G:0.28, T:0.17
Consensus pattern (20 bp):
CACCGAAGTGCAAATAGAGA
Found at i:16295242 original size:21 final size:20
Alignment explanation
Indices: 16295214--16295257 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
16295204 AAATACTTTT
*
16295214 AATTATAAATAAACATTAAA
1 AATTATAAATAAACATAAAA
* *
16295234 AATTCATAATTTAACATAAAA
1 AATT-ATAAATAAACATAAAA
16295255 AAT
1 AAT
16295258 CACAATATTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (20 bp):
AATTATAAATAAACATAAAA
Found at i:16300728 original size:84 final size:84
Alignment explanation
Indices: 16300581--16300752 Score: 308
Period size: 84 Copynumber: 2.0 Consensus size: 84
16300571 TGTATCCTAT
* *
16300581 ATATTCCTAAGGTTCAAACGGGGCTCGATAGTCGTCGTAACATCGTTGGATTTTCTGTCGAAGCA
1 ATATTCATAAGGTTCAAACGGGGCTCGATAGTCATCGTAACATCGTTGGATTTTCTGTCGAAGCA
16300646 TAATATGATAAATAACATA
66 TAATATGATAAATAACATA
* *
16300665 ATATTCATAAGGTTCAAACGGGGCTCGATAGTCATCGTAACATCGTTGGATTTTTTGTTGAAGCA
1 ATATTCATAAGGTTCAAACGGGGCTCGATAGTCATCGTAACATCGTTGGATTTTCTGTCGAAGCA
16300730 TAATATGATAAATAACATA
66 TAATATGATAAATAACATA
16300749 ATAT
1 ATAT
16300753 CATTTAAATC
Statistics
Matches: 84, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
84 84 1.00
ACGTcount: A:0.34, C:0.15, G:0.19, T:0.33
Consensus pattern (84 bp):
ATATTCATAAGGTTCAAACGGGGCTCGATAGTCATCGTAACATCGTTGGATTTTCTGTCGAAGCA
TAATATGATAAATAACATA
Found at i:16303999 original size:23 final size:23
Alignment explanation
Indices: 16303954--16303999 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
16303944 TTATTAATAT
* *
16303954 TGTTTGTGAACATGTTCGTTTAA
1 TGTTCGTGAACATGTTCGATTAA
*
16303977 TGTTCGTGAACATGTTTGATTAA
1 TGTTCGTGAACATGTTCGATTAA
16304000 GTTAAATGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.24, C:0.09, G:0.22, T:0.46
Consensus pattern (23 bp):
TGTTCGTGAACATGTTCGATTAA
Found at i:16307363 original size:17 final size:17
Alignment explanation
Indices: 16307338--16307371 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
16307328 CTCCACTCAA
*
16307338 TTAAGCAAGATCTACTC
1 TTAAACAAGATCTACTC
*
16307355 TTAAACAAGGTCTACTC
1 TTAAACAAGATCTACTC
16307372 AACCACCGAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.24, G:0.12, T:0.29
Consensus pattern (17 bp):
TTAAACAAGATCTACTC
Found at i:16314214 original size:74 final size:72
Alignment explanation
Indices: 16314126--16314263 Score: 197
Period size: 72 Copynumber: 1.9 Consensus size: 72
16314116 GGCATCCATG
*
16314126 TGTATGCCAAGTTAGCAATTAGTTAATT-TTTAAAAAAAATAAAAAATATATTTTTATAAACTTT
1 TGTATGCCAAGTTAGCAATTAATTAATTGTTT---AAAAATAAAAAATATATTTTTATAAACTTT
16314190 ATTATTAAAA
63 ATTATTAAAA
* * * *
16314200 TGTATGCCACGTTAGCAATTAATTAATTGTTTAAAATTACAAATTATATTTTTATAAACTTTAT
1 TGTATGCCAAGTTAGCAATTAATTAATTGTTTAAAAATAAAAAATATATTTTTATAAACTTTAT
16314264 ACTTTTTAAT
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
72 29 0.50
74 26 0.45
75 3 0.05
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (72 bp):
TGTATGCCAAGTTAGCAATTAATTAATTGTTTAAAAATAAAAAATATATTTTTATAAACTTTATT
ATTAAAA
Found at i:16315971 original size:114 final size:114
Alignment explanation
Indices: 16315843--16316130 Score: 359
Period size: 114 Copynumber: 2.5 Consensus size: 114
16315833 AAACGTTGCA
* * * *
16315843 AAAACTGTTAAGAAAACGCTGCCGTTTTCAGTTTAGGTTTTGGGGACTTTAGTGGCGCTTACT-G
1 AAAACTGTTAAGAAAACGATGCCGTTTTCAGTTTAGGTTTTAGAGACGTTAGTGGCGCTT-CTCG
*
16315907 GAAAACGCCGCTA-TAGTC-AAGAATTAGCGGCGCTTTATCATAAGCGCCGT
65 GAAAACGCCGC-AGTAG-CGAAGAATTAGCGGCGCTTTATCAGAAGCGCCGT
* ** * * *
16315957 AAAACTGTTAAGAAAACGTTGCCGTTTTTCA-TTTATCTTTTCGAGACGTTAGTGGCGATTTTCG
1 AAAACTGTTAAGAAAACGATGCCG-TTTTCAGTTTAGGTTTTAGAGACGTTAGTGGCGCTTCTCG
** *
16316021 GAAAACGCCGCAGTAGCGAAGCTTTAGTGGCGCTTTATCAGAAGCGCCGT
65 GAAAACGCCGCAGTAGCGAAGAATTAGCGGCGCTTTATCAGAAGCGCCGT
* * *
16316071 AAAACTGTTAAGAAAATGATGTCGTTTTTAGTTTAGGTTTTAGAGACGTTAGTGGCGCTT
1 AAAACTGTTAAGAAAACGATGCCGTTTTCAGTTTAGGTTTTAGAGACGTTAGTGGCGCTT
16316131 GTCTAAAAAC
Statistics
Matches: 149, Mismatches: 20, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
113 8 0.05
114 135 0.91
115 6 0.04
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (114 bp):
AAAACTGTTAAGAAAACGATGCCGTTTTCAGTTTAGGTTTTAGAGACGTTAGTGGCGCTTCTCGG
AAAACGCCGCAGTAGCGAAGAATTAGCGGCGCTTTATCAGAAGCGCCGT
Found at i:16316840 original size:28 final size:28
Alignment explanation
Indices: 16316807--16316864 Score: 89
Period size: 28 Copynumber: 2.1 Consensus size: 28
16316797 TGGATATGGT
*
16316807 TTAAGGATTGGGGTTAAGGGTTTAGGGG
1 TTAAGGACTGGGGTTAAGGGTTTAGGGG
* *
16316835 TTAAGGGCTGGGGTTAGGGGTTTAGGGG
1 TTAAGGACTGGGGTTAAGGGTTTAGGGG
16316863 TT
1 TT
16316865 TATAGTTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.17, C:0.02, G:0.48, T:0.33
Consensus pattern (28 bp):
TTAAGGACTGGGGTTAAGGGTTTAGGGG
Found at i:16317055 original size:21 final size:22
Alignment explanation
Indices: 16317029--16317075 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
16317019 TATGGATTAT
*
16317029 GGTTTAAGGGTT-GGGGTTAAG
1 GGTTTAAGGGTTAAGGGTTAAG
* *
16317050 GGTTTATGGGTTAAGGGTTATG
1 GGTTTAAGGGTTAAGGGTTAAG
16317072 GGTT
1 GGTT
16317076 AGGGGTTTAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.17, C:0.00, G:0.45, T:0.38
Consensus pattern (22 bp):
GGTTTAAGGGTTAAGGGTTAAG
Found at i:16317057 original size:28 final size:29
Alignment explanation
Indices: 16317025--16317090 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 29
16317015 GGCTTATGGA
*
16317025 TTATGGTTTAAGGGTT-GGGGTTAAGGGT
1 TTATGGGTTAAGGGTTAGGGGTTAAGGGT
* *
16317053 TTATGGGTTAAGGGTTATGGGTTAGGGGT
1 TTATGGGTTAAGGGTTAGGGGTTAAGGGT
*
16317082 TTAGGGGTT
1 TTATGGGTT
16317091 TATAGTTAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
28 15 0.45
29 18 0.55
ACGTcount: A:0.17, C:0.00, G:0.44, T:0.39
Consensus pattern (29 bp):
TTATGGGTTAAGGGTTAGGGGTTAAGGGT
Found at i:16317072 original size:14 final size:14
Alignment explanation
Indices: 16317025--16317082 Score: 73
Period size: 14 Copynumber: 4.1 Consensus size: 14
16317015 GGCTTATGGA
*
16317025 TTATGGTTTAAGGG
1 TTATGGGTTAAGGG
*
16317039 TT-GGGGTTAAGGG
1 TTATGGGTTAAGGG
16317052 TTTATGGGTTAAGGG
1 -TTATGGGTTAAGGG
*
16317067 TTATGGGTTAGGGG
1 TTATGGGTTAAGGG
16317081 TT
1 TT
16317083 TAGGGGTTTA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
13 9 0.24
14 19 0.50
15 10 0.26
ACGTcount: A:0.17, C:0.00, G:0.43, T:0.40
Consensus pattern (14 bp):
TTATGGGTTAAGGG
Found at i:16317092 original size:8 final size:7
Alignment explanation
Indices: 16316991--16317087 Score: 52
Period size: 7 Copynumber: 13.7 Consensus size: 7
16316981 TCTACGATTC
*
16316991 AAGGTTT
1 AAGGGTT
*
16316998 AAGGGAT
1 AAGGGTT
*
16317005 ATGGGTT
1 AAGGGTT
*
16317012 AGAGGCTT
1 A-AGGGTT
* *
16317020 ATGGATT
1 AAGGGTT
* *
16317027 ATGGTTT
1 AAGGGTT
16317034 AAGGGTT
1 AAGGGTT
*
16317041 -GGGGTT
1 AAGGGTT
16317047 AAGGGTTT
1 AAGGG-TT
*
16317055 ATGGGTT
1 AAGGGTT
16317062 AAGGGTT
1 AAGGGTT
*
16317069 ATGGGTT
1 AAGGGTT
*
16317076 AGGGGTT
1 AAGGGTT
*
16317083 TAGGG
1 AAGGG
16317088 GTTTATAGTT
Statistics
Matches: 68, Mismatches: 19, Indels: 6
0.73 0.20 0.06
Matches are distributed among these distances:
6 5 0.07
7 52 0.76
8 11 0.16
ACGTcount: A:0.22, C:0.01, G:0.42, T:0.35
Consensus pattern (7 bp):
AAGGGTT
Found at i:16321088 original size:23 final size:24
Alignment explanation
Indices: 16321062--16321116 Score: 76
Period size: 23 Copynumber: 2.3 Consensus size: 24
16321052 TTTTAACTAA
* *
16321062 TTTTTATAAATATGAACATAT-TT
1 TTTTTATAAAAATGAAAATATATT
*
16321085 TTTTTAAAAAAATGAAAATATATT
1 TTTTTATAAAAATGAAAATATATT
16321109 TTTTTATA
1 TTTTTATA
16321117 TACTTTATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
23 18 0.67
24 9 0.33
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.51
Consensus pattern (24 bp):
TTTTTATAAAAATGAAAATATATT
Found at i:16324493 original size:21 final size:21
Alignment explanation
Indices: 16324467--16324510 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
16324457 AACTTAAAGC
16324467 AGAGGCGGCAGCGAGAGAAGT
1 AGAGGCGGCAGCGAGAGAAGT
*
16324488 AGAGGCTGCAGCGAGAGAAGT
1 AGAGGCGGCAGCGAGAGAAGT
16324509 AG
1 AG
16324511 TGAGAGAAGC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.34, C:0.14, G:0.45, T:0.07
Consensus pattern (21 bp):
AGAGGCGGCAGCGAGAGAAGT
Found at i:16324991 original size:43 final size:43
Alignment explanation
Indices: 16324940--16325206 Score: 201
Period size: 42 Copynumber: 6.3 Consensus size: 43
16324930 TTATGTTCTA
*
16324940 TAGCGGCGTTTGTCAAGAAAGCGCCGCTAAAGAACATTA-CTTT
1 TAGCGGCGTTTGTCAAGAAAGCGCCGCTAAAGAACATGATC-TT
* ** *
16324983 TCGCGGCGTTTGAGATAAAAAGCAG-CGCTAAAGAACATGATCTT
1 TAGCGGCGTTTGTCA-AGAAAGC-GCCGCTAAAGAACATGATCTT
* * *
16325027 TAGCGGCATTTTTC--GTTAAGCGCCGCTAAAGAACATGATCTT
1 TAGCGGCGTTTGTCAAG-AAAGCGCCGCTAAAGAACATGATCTT
**** *
16325069 TAGCGGCGTCTT-T-TTTTAAGCGCCGCTAAAGAACATTA-CTTT
1 TAGCGGCGT-TTGTCAAGAAAGCGCCGCTAAAGAACATGATC-TT
* * *
16325111 TAGCGGAGTTTGTGATA-ATAGCGCCGCTAAAGAACATGATCTT
1 TAGCGGCGTTTGTCA-AGAAAGCGCCGCTAAAGAACATGATCTT
***** * *
16325154 TAGCGGCGTTT-TTTTCTAAGTGCCGCTAAAGAACATGACCTT
1 TAGCGGCGTTTGTCAAGAAAGCGCCGCTAAAGAACATGATCTT
16325196 TAGCGGCGTTT
1 TAGCGGCGTTT
16325207 TTTCTGTAAA
Statistics
Matches: 181, Mismatches: 29, Indels: 29
0.76 0.12 0.12
Matches are distributed among these distances:
41 4 0.02
42 98 0.54
43 45 0.25
44 32 0.18
45 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.30
Consensus pattern (43 bp):
TAGCGGCGTTTGTCAAGAAAGCGCCGCTAAAGAACATGATCTT
Found at i:16325150 original size:85 final size:85
Alignment explanation
Indices: 16325008--16325206 Score: 280
Period size: 85 Copynumber: 2.4 Consensus size: 85
16324998 TAAAAAGCAG
* * *
16325008 CGCTAAAGAACATGATCTTTAGCGGCA-TTTTTCG-TTA-AGCGCCGCTAAAGAACATGATCTTT
1 CGCTAAAGAACATGACCTTTAGCGG-AGTTTGT-GATAATAGCGCCGCTAAAGAACATGATCTTT
16325070 AGCGGCGTCTTTTTT-TAAGCGC
64 AGCGGCGT-TTTTTTCTAAGCGC
* *
16325092 CGCTAAAGAACATTACTTTTAGCGGAGTTTGTGATAATAGCGCCGCTAAAGAACATGATCTTTAG
1 CGCTAAAGAACATGACCTTTAGCGGAGTTTGTGATAATAGCGCCGCTAAAGAACATGATCTTTAG
*
16325157 CGGCGTTTTTTTCTAAGTGC
66 CGGCGTTTTTTTCTAAGCGC
*
16325177 CGCTAAAGAACATGACCTTTAGCGGCGTTT
1 CGCTAAAGAACATGACCTTTAGCGGAGTTT
16325207 TTTCTGTAAA
Statistics
Matches: 102, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
83 2 0.02
84 34 0.33
85 66 0.65
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.32
Consensus pattern (85 bp):
CGCTAAAGAACATGACCTTTAGCGGAGTTTGTGATAATAGCGCCGCTAAAGAACATGATCTTTAG
CGGCGTTTTTTTCTAAGCGC
Found at i:16325184 original size:127 final size:127
Alignment explanation
Indices: 16324958--16325209 Score: 384
Period size: 127 Copynumber: 2.0 Consensus size: 127
16324948 TTTGTCAAGA
* *
16324958 AAGCGCCGCTAAAGAACATTACTTTTCGCGGCGTTTGAGATAAAAAGCAGCGCTAAAGAACATGA
1 AAGCGCCGCTAAAGAACATTACTTTTAGCGGAGTTTGAGATAAAAAGCAGCGCTAAAGAACATGA
*
16325023 TCTTTAGCGGCATTTTTCGTTAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTCTTTTTTT
66 TCTTTAGCGGCATTTTTCGTTAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGT-TTTTTTT
* *
16325086 AAGCGCCGCTAAAGAACATTACTTTTAGCGGAGTTTGTGAT-AATAGC-GCCGCTAAAGAACATG
1 AAGCGCCGCTAAAGAACATTACTTTTAGCGGAGTTTGAGATAAAAAGCAG-CGCTAAAGAACATG
* * *
16325149 ATCTTTAGCGGCGTTTTT-TTCTAAGTGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTT
65 ATCTTTAGCGGCATTTTTCGT-TAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTT
16325210 CTGTAAACGC
Statistics
Matches: 114, Mismatches: 8, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
126 7 0.06
127 69 0.61
128 38 0.33
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (127 bp):
AAGCGCCGCTAAAGAACATTACTTTTAGCGGAGTTTGAGATAAAAAGCAGCGCTAAAGAACATGA
TCTTTAGCGGCATTTTTCGTTAAGCGCCGCTAAAGAACATGACCTTTAGCGGCGTTTTTTTT
Found at i:16325209 original size:42 final size:41
Alignment explanation
Indices: 16325008--16325209 Score: 262
Period size: 42 Copynumber: 4.8 Consensus size: 41
16324998 TAAAAAGCAG
* *
16325008 CGCTAAAGAACATGATCTTTAGCGGCATTTTTCGTTAAGCGC
1 CGCTAAAGAACATGATCTTTAGCGGCGTTTTT-TTTAAGCGC
16325050 CGCTAAAGAACATGATCTTTAGCGGCGTCTTTTTTTAAGCGC
1 CGCTAAAGAACATGATCTTTAGCGGCGT-TTTTTTTAAGCGC
* * ** *
16325092 CGCTAAAGAACATTA-CTTTTAGCGGAGTTTGTGATAATAGCGC
1 CGCTAAAGAACATGATC-TTTAGCGGCGTTT-TTTTTA-AGCGC
*
16325135 CGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGTGC
1 CGCTAAAGAACATGATCTTTAGCGGCGTTTTTTT-TAAGCGC
*
16325177 CGCTAAAGAACATGACCTTTAGCGGCGTTTTTT
1 CGCTAAAGAACATGATCTTTAGCGGCGTTTTTT
16325210 CTGTAAACGC
Statistics
Matches: 140, Mismatches: 14, Indels: 12
0.84 0.08 0.07
Matches are distributed among these distances:
41 3 0.02
42 100 0.71
43 36 0.26
44 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.22, T:0.33
Consensus pattern (41 bp):
CGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTTAAGCGC
Found at i:16326927 original size:31 final size:31
Alignment explanation
Indices: 16326889--16326954 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
16326879 AACAATCTAA
*
16326889 TGACTTAAATAAAAACTTAT-GAATAGTTAAG
1 TGACTTAAATAAAAACTT-TCAAATAGTTAAG
* *
16326920 TGACTTAAATGAAAACTTTCAAATAGTTTAG
1 TGACTTAAATAAAAACTTTCAAATAGTTAAG
16326951 TGAC
1 TGAC
16326955 CTAATTGTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
30 1 0.03
31 30 0.97
ACGTcount: A:0.44, C:0.09, G:0.14, T:0.33
Consensus pattern (31 bp):
TGACTTAAATAAAAACTTTCAAATAGTTAAG
Found at i:16330392 original size:38 final size:38
Alignment explanation
Indices: 16330341--16330417 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
16330331 AACAAGAGTC
*
16330341 ATTATCCTCCTTGGTTAAATGGGAAAAAAATTCCTTTT
1 ATTATCCTCCTTGGTTAAATGGGAAAAAAAATCCTTTT
16330379 ATTATCCTCCTTGGTTAAATGGGAAAAAAAATCCTTTT
1 ATTATCCTCCTTGGTTAAATGGGAAAAAAAATCCTTTT
16330417 A
1 A
16330418 GCCCTCCCAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.38
Consensus pattern (38 bp):
ATTATCCTCCTTGGTTAAATGGGAAAAAAAATCCTTTT
Found at i:16331256 original size:32 final size:32
Alignment explanation
Indices: 16331185--16331258 Score: 103
Period size: 32 Copynumber: 2.3 Consensus size: 32
16331175 TTAAAGACCC
*
16331185 ATGGCTTTTGCAACTCCAATTATTTGCAACTA
1 ATGGCTTTTGCAACTCCAATTATTTACAACTA
* * *
16331217 ATGGCTTTTGCAACTCCGATTATTTATAACTC
1 ATGGCTTTTGCAACTCCAATTATTTACAACTA
*
16331249 ATTGCTTTTG
1 ATGGCTTTTG
16331259 AAAATGTGTC
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.24, C:0.20, G:0.14, T:0.42
Consensus pattern (32 bp):
ATGGCTTTTGCAACTCCAATTATTTACAACTA
Found at i:16336379 original size:3 final size:3
Alignment explanation
Indices: 16336371--16336407 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
16336361 AATTATTCTC
16336371 TAT TAT TAT TAT TAT TAT TAT TAT T-T TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
16336408 CTAATGTCCC
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:16338947 original size:38 final size:38
Alignment explanation
Indices: 16338896--16338983 Score: 167
Period size: 38 Copynumber: 2.3 Consensus size: 38
16338886 CGGTACTACT
*
16338896 TGGAGTGTAGGGATGGGTGGGTTGATTATATGCCCACA
1 TGGAGTGTAGGGATGGGTGGGTTGATTATATCCCCACA
16338934 TGGAGTGTAGGGATGGGTGGGTTGATTATATCCCCACA
1 TGGAGTGTAGGGATGGGTGGGTTGATTATATCCCCACA
16338972 TGGAGTGTAGGG
1 TGGAGTGTAGGG
16338984 TTGGATGGAG
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 49 1.00
ACGTcount: A:0.20, C:0.10, G:0.41, T:0.28
Consensus pattern (38 bp):
TGGAGTGTAGGGATGGGTGGGTTGATTATATCCCCACA
Found at i:16342144 original size:45 final size:45
Alignment explanation
Indices: 16342093--16342519 Score: 602
Period size: 45 Copynumber: 9.5 Consensus size: 45
16342083 GATCAAGACA
* *
16342093 AGTAAGACCATAGCTGAAAGATGCTATGGCATCATTATTCAAATG
1 AGTAAGACCATAGCTGAAAGACGCTATGGCATCATTATTCAGATG
* * * * *
16342138 AGTAAGACTAGAGCTGAAAGACGTTATGACATCATTATTCAGACG
1 AGTAAGACCATAGCTGAAAGACGCTATGGCATCATTATTCAGATG
* * * *
16342183 AGGAAGACCATAGTTGAAAGACGTTATGGCATCATTATTCAGACG
1 AGTAAGACCATAGCTGAAAGACGCTATGGCATCATTATTCAGATG
*
16342228 AGTAAGACCATAGCTGAAAGACGTTATGGCATCATTATTCAGATG
1 AGTAAGACCATAGCTGAAAGACGCTATGGCATCATTATTCAGATG
* * **
16342273 AGTAAGACCATAGCTGAAAGACACTATGGCATCATTATTCAAACA
1 AGTAAGACCATAGCTGAAAGACGCTATGGCATCATTATTCAGATG
*
16342318 AGTAAGACCATAGCTGAAAGACGCTATGGCATCATGATTCAGATG
1 AGTAAGACCATAGCTGAAAGACGCTATGGCATCATTATTCAGATG
* *
16342363 AGTAAGACCATAGTTGAAAGACGTTATGGCATCATTATTCAGATG
1 AGTAAGACCATAGCTGAAAGACGCTATGGCATCATTATTCAGATG
* **
16342408 AGTAAGACCATAGCTGAAAGACGCTATGGCATCATTATTCAAACA
1 AGTAAGACCATAGCTGAAAGACGCTATGGCATCATTATTCAGATG
** * * *
16342453 AGTAAGTGCATAGCTGAAAGATGCTATGGAATCATGATTCAGATG
1 AGTAAGACCATAGCTGAAAGACGCTATGGCATCATTATTCAGATG
*
16342498 AGTAAGACCATAGTTGAAAGAC
1 AGTAAGACCATAGCTGAAAGAC
16342520 ATTATAGCAT
Statistics
Matches: 337, Mismatches: 45, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 337 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.25
Consensus pattern (45 bp):
AGTAAGACCATAGCTGAAAGACGCTATGGCATCATTATTCAGATG
Found at i:16342325 original size:135 final size:135
Alignment explanation
Indices: 16342088--16342577 Score: 653
Period size: 135 Copynumber: 3.6 Consensus size: 135
16342078 ATCAAGATCA
* * * * *
16342088 AGACAAGTAAGACCATAGCTGAAAGATGCTATGGCATCATTATTCAAATGAGTAAGACTAGAGCT
1 AGACGAGTAAGACCATAGCTGAAAGACGTTATGGCATCATTATTCAAATGAGTAAGACCATAGCT
** * * * * * *
16342153 GAAAGACGTTATGACATCATTATTCAGACGAGGAAGACCATAGTTGAAAGACGTTATGGCATCAT
66 GAAAGACACTATGGCATCATTATTCAAACAAGTAAGACCATAGCTGAAAGACGCTATGGCATCAT
*
16342218 TATTC
131 GATTC
*
16342223 AGACGAGTAAGACCATAGCTGAAAGACGTTATGGCATCATTATTCAGATGAGTAAGACCATAGCT
1 AGACGAGTAAGACCATAGCTGAAAGACGTTATGGCATCATTATTCAAATGAGTAAGACCATAGCT
16342288 GAAAGACACTATGGCATCATTATTCAAACAAGTAAGACCATAGCTGAAAGACGCTATGGCATCAT
66 GAAAGACACTATGGCATCATTATTCAAACAAGTAAGACCATAGCTGAAAGACGCTATGGCATCAT
16342353 GATTC
131 GATTC
* * *
16342358 AGATGAGTAAGACCATAGTTGAAAGACGTTATGGCATCATTATTCAGATGAGTAAGACCATAGCT
1 AGACGAGTAAGACCATAGCTGAAAGACGTTATGGCATCATTATTCAAATGAGTAAGACCATAGCT
* ** * *
16342423 GAAAGACGCTATGGCATCATTATTCAAACAAGTAAGTGCATAGCTGAAAGATGCTATGGAATCAT
66 GAAAGACACTATGGCATCATTATTCAAACAAGTAAGACCATAGCTGAAAGACGCTATGGCATCAT
16342488 GATTC
131 GATTC
* * * * * *
16342493 AGATGAGTAAGACCATAGTTGAAAGACATTATAGCATCCA--ATTGAAAATGAATAAGACCATAG
1 AGACGAGTAAGACCATAGCTGAAAGACGTTATGGCAT-CATTATT-CAAATGAGTAAGACCATAG
* *
16342556 -TAGAAAGGCACTGTGGCATCAT
64 CT-GAAAGACACTATGGCATCAT
16342578 ATCGGAAAGT
Statistics
Matches: 322, Mismatches: 30, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
134 4 0.01
135 316 0.98
136 2 0.01
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.24
Consensus pattern (135 bp):
AGACGAGTAAGACCATAGCTGAAAGACGTTATGGCATCATTATTCAAATGAGTAAGACCATAGCT
GAAAGACACTATGGCATCATTATTCAAACAAGTAAGACCATAGCTGAAAGACGCTATGGCATCAT
GATTC
Found at i:16342577 original size:90 final size:89
Alignment explanation
Indices: 16342093--16342668 Score: 537
Period size: 90 Copynumber: 6.4 Consensus size: 89
16342083 GATCAAGACA
* ** * * *
16342093 AGTAAGACCATAGCTGAAAGATGCTATGGCATCATTATTCAAATGAGTAAGACTAGAGCTGAAAG
1 AGTAAGACCATAGTTGAAAGACACTATGGCATCATTATTCAGATGAGTAAGACCATAGCTGAAAG
* * * * *
16342158 ACGTTATGACATCATTATTCAGACG
66 ACGCTATGGCATCA-TATTAAAATG
* ** *
16342183 AGGAAGACCATAGTTGAAAGACGTTATGGCATCATTATTCAGACGAGTAAGACCATAGCTGAAAG
1 AGTAAGACCATAGTTGAAAGACACTATGGCATCATTATTCAGATGAGTAAGACCATAGCTGAAAG
* * *
16342248 ACGTTATGGCATCATTATTCAGATG
66 ACGCTATGGCATCA-TATTAAAATG
* * **
16342273 AGTAAGACCATAGCTGAAAGACACTATGGCATCATTATTCAAACAAGTAAGACCATAGCTGAAAG
1 AGTAAGACCATAGTTGAAAGACACTATGGCATCATTATTCAGATGAGTAAGACCATAGCTGAAAG
* *
16342338 ACGCTATGGCATCATGATTCAGATG
66 ACGCTATGGCATCAT-ATTAAAATG
**
16342363 AGTAAGACCATAGTTGAAAGACGTTATGGCATCATTATTCAGATGAGTAAGACCATAGCTGAAAG
1 AGTAAGACCATAGTTGAAAGACACTATGGCATCATTATTCAGATGAGTAAGACCATAGCTGAAAG
* **
16342428 ACGCTATGGCATCATTATTCAAACA
66 ACGCTATGGCATCA-TATTAAAATG
** * ** * * *
16342453 AGTAAGTGCATAGCTGAAAGATGCTATGGAATCATGATTCAGATGAGTAAGACCATAGTTGAAAG
1 AGTAAGACCATAGTTGAAAGACACTATGGCATCATTATTCAGATGAGTAAGACCATAGCTGAAAG
** *
16342518 ACATTATAGCATCCA-ATTGAAAATG
66 ACGCTATGGCAT-CATATT-AAAATG
* * * * * * * *
16342543 AATAAGACCATAGTAGAAAGGCACTGTGGCATCA-TA-TCGGAAAGTGAATAAGACCATGGTTGA
1 AGTAAGACCATAGTTGAAAGACACTATGGCATCATTATTC--AGA-TGAGTAAGACCATAGCTGA
* * *
16342606 AAGACACTATTGCATCATATCAGAAAGTG
63 AAGACGCTATGGCATCATATTA-AAA-TG
* * * *
16342635 ACTAAGACCATGGTTGAAAGGCATTATGGCATCA
1 AGTAAGACCATAGTTGAAAGACACTATGGCATCA
16342669 AGTGGAGAAT
Statistics
Matches: 414, Mismatches: 62, Indels: 18
0.84 0.13 0.04
Matches are distributed among these distances:
88 2 0.00
89 5 0.01
90 338 0.82
91 38 0.09
92 31 0.07
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.24
Consensus pattern (89 bp):
AGTAAGACCATAGTTGAAAGACACTATGGCATCATTATTCAGATGAGTAAGACCATAGCTGAAAG
ACGCTATGGCATCATATTAAAATG
Found at i:16342608 original size:46 final size:46
Alignment explanation
Indices: 16342500--16342699 Score: 203
Period size: 46 Copynumber: 4.4 Consensus size: 46
16342490 TTCAGATGAG
* * * * * *
16342500 TAAGACCATAGTTGAAAGACATTATAGCATCCA-AT-TGAAAATGAA
1 TAAGACCATGGTTGAAAGGCACTATGGCAT-CATATCGGAAAGTGAA
* * *
16342545 TAAGACCATAGTAGAAAGGCACTGTGGCATCATATCGGAAAGTGAA
1 TAAGACCATGGTTGAAAGGCACTATGGCATCATATCGGAAAGTGAA
* * * *
16342591 TAAGACCATGGTTGAAAGACACTATTGCATCATATCAGAAAGTGAC
1 TAAGACCATGGTTGAAAGGCACTATGGCATCATATCGGAAAGTGAA
* *
16342637 TAAGACCATGGTTGAAAGGCATTATGGCATCA-AGT-GGAGAA-TAAA
1 TAAGACCATGGTTGAAAGGCACTATGGCATCATA-TCGGA-AAGTGAA
16342682 TAAGACCATGGTTGAAAG
1 TAAGACCATGGTTGAAAG
16342700 ACAACATGAC
Statistics
Matches: 131, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
44 2 0.02
45 50 0.38
46 79 0.60
ACGTcount: A:0.41, C:0.14, G:0.23, T:0.23
Consensus pattern (46 bp):
TAAGACCATGGTTGAAAGGCACTATGGCATCATATCGGAAAGTGAA
Found at i:16342725 original size:91 final size:92
Alignment explanation
Indices: 16342500--16342702 Score: 245
Period size: 91 Copynumber: 2.2 Consensus size: 92
16342490 TTCAGATGAG
* * * * * *
16342500 TAAGACCATAGTTGAAAGACATTATAGCATCCA-AT-TGAAAATGAATAAGACCATAGTAGAAAG
1 TAAGACCATGGTTGAAAGACACTATTGCAT-CATATCAGAAAGTGACTAAGACCATAGTAGAAAG
* *
16342563 GCACTGTGGCATCATATCGGAAAGTGAA
65 GCACTATGGCATCATATCGGAAAGTAAA
* *
16342591 TAAGACCATGGTTGAAAGACACTATTGCATCATATCAGAAAGTGACTAAGACCATGGTTGAAAGG
1 TAAGACCATGGTTGAAAGACACTATTGCATCATATCAGAAAGTGACTAAGACCATAGTAGAAAGG
*
16342656 CATTATGGCATCA-AGT-GGAGAA-TAAA
66 CACTATGGCATCATA-TCGGA-AAGTAAA
16342682 TAAGACCATGGTTGAAAGACA
1 TAAGACCATGGTTGAAAGACA
16342703 ACATGACATC
Statistics
Matches: 97, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
90 2 0.02
91 57 0.59
92 38 0.39
ACGTcount: A:0.41, C:0.14, G:0.22, T:0.22
Consensus pattern (92 bp):
TAAGACCATGGTTGAAAGACACTATTGCATCATATCAGAAAGTGACTAAGACCATAGTAGAAAGG
CACTATGGCATCATATCGGAAAGTAAA
Found at i:16342745 original size:53 final size:53
Alignment explanation
Indices: 16342665--16342774 Score: 220
Period size: 53 Copynumber: 2.1 Consensus size: 53
16342655 GCATTATGGC
16342665 ATCAAGTGGAGAATAAATAAGACCATGGTTGAAAGACAACATGACATCCTTCA
1 ATCAAGTGGAGAATAAATAAGACCATGGTTGAAAGACAACATGACATCCTTCA
16342718 ATCAAGTGGAGAATAAATAAGACCATGGTTGAAAGACAACATGACATCCTTCA
1 ATCAAGTGGAGAATAAATAAGACCATGGTTGAAAGACAACATGACATCCTTCA
16342771 ATCA
1 ATCA
16342775 TTGCTATCCA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 57 1.00
ACGTcount: A:0.44, C:0.17, G:0.18, T:0.21
Consensus pattern (53 bp):
ATCAAGTGGAGAATAAATAAGACCATGGTTGAAAGACAACATGACATCCTTCA
Found at i:16344251 original size:7 final size:8
Alignment explanation
Indices: 16344179--16344252 Score: 94
Period size: 8 Copynumber: 8.6 Consensus size: 8
16344169 TTTCCCAAGT
16344179 TTTTTCGAA
1 TTTTT-GAA
16344188 TTTTTGAA
1 TTTTTGAA
16344196 TTTTTGAA
1 TTTTTGAA
16344204 TTTTTGAA
1 TTTTTGAA
16344212 TTTTTGAA
1 TTTTTGAA
*
16344220 TTTTTTCCCAAA
1 -TTTTT---GAA
16344232 TTTTTGAA
1 TTTTTGAA
16344240 TTTTTGAA
1 TTTTTGAA
16344248 TTTTT
1 TTTTT
16344253 TCCTTGGTCC
Statistics
Matches: 59, Mismatches: 2, Indels: 9
0.84 0.03 0.13
Matches are distributed among these distances:
8 42 0.71
9 10 0.17
11 5 0.08
12 2 0.03
ACGTcount: A:0.23, C:0.05, G:0.09, T:0.62
Consensus pattern (8 bp):
TTTTTGAA
Found at i:16347525 original size:20 final size:20
Alignment explanation
Indices: 16347500--16347566 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
16347490 TGCACATTCG
*
16347500 TGCTCTTATTAGTACTACGA
1 TGCTCTTATTAGCACTACGA
* *
16347520 TGCTCTTAATAGCACATTCG-
1 TGCTCTTATTAGCAC-TACGA
* *
16347540 TGCTCATGTTAGCACTACGA
1 TGCTCTTATTAGCACTACGA
16347560 TGCTCTT
1 TGCTCTT
16347567 GAAAGCACAT
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
19 3 0.08
20 31 0.84
21 3 0.08
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.37
Consensus pattern (20 bp):
TGCTCTTATTAGCACTACGA
Found at i:16347557 original size:40 final size:40
Alignment explanation
Indices: 16347491--16347593 Score: 145
Period size: 40 Copynumber: 2.6 Consensus size: 40
16347481 GATCCTGAGT
* * *
16347491 GCACATTCGTGCTCTTATTAGTACTACGATGCTCTT-AATA
1 GCACATTCGTGCTCATGTTAGCACTACGATGCTCTTGAA-A
16347531 GCACATTCGTGCTCATGTTAGCACTACGATGCTCTTGAAA
1 GCACATTCGTGCTCATGTTAGCACTACGATGCTCTTGAAA
* *
16347571 GCACATTCGTGCTCCTGATAGCA
1 GCACATTCGTGCTCATGTTAGCA
16347594 TATTTATGCT
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
40 55 0.96
41 2 0.04
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.32
Consensus pattern (40 bp):
GCACATTCGTGCTCATGTTAGCACTACGATGCTCTTGAAA
Found at i:16347573 original size:20 final size:20
Alignment explanation
Indices: 16347513--16347574 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
16347503 TCTTATTAGT
16347513 ACTACGATGCTCTT-AATAGC
1 ACTACGATGCTCTTGAA-AGC
* * **
16347533 ACATTCG-TGCTCATGTTAGC
1 AC-TACGATGCTCTTGAAAGC
16347553 ACTACGATGCTCTTGAAAGC
1 ACTACGATGCTCTTGAAAGC
16347573 AC
1 AC
16347575 ATTCGTGCTC
Statistics
Matches: 31, Mismatches: 8, Indels: 6
0.69 0.18 0.13
Matches are distributed among these distances:
19 3 0.10
20 25 0.81
21 3 0.10
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (20 bp):
ACTACGATGCTCTTGAAAGC
Found at i:16347583 original size:20 final size:20
Alignment explanation
Indices: 16347520--16347607 Score: 63
Period size: 20 Copynumber: 4.4 Consensus size: 20
16347510 AGTACTACGA
16347520 TGCTCTT-AATAGCACATTCG
1 TGCTCTTGAA-AGCACATTCG
* ** *
16347540 TGCTCATGTTAGCAC-TACG
1 TGCTCTTGAAAGCACATTCG
16347559 ATGCTCTTGAAAGCACATTCG
1 -TGCTCTTGAAAGCACATTCG
* * * **
16347580 TGCTCCTGATAGCATATTTA
1 TGCTCTTGAAAGCACATTCG
16347600 TGCTCTTG
1 TGCTCTTG
16347608 TTTGTTTTAC
Statistics
Matches: 51, Mismatches: 14, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
19 3 0.06
20 45 0.88
21 3 0.06
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (20 bp):
TGCTCTTGAAAGCACATTCG
Found at i:16349672 original size:25 final size:25
Alignment explanation
Indices: 16349637--16349776 Score: 122
Period size: 25 Copynumber: 5.6 Consensus size: 25
16349627 AGATAACCTG
* *
16349637 GCCACTAAGGCTTCCCAAATAATAA
1 GCCACAAAGGCTTTCCAAATAATAA
** * ** *
16349662 GTTACATAGGCTTTTTAAATAACAA
1 GCCACAAAGGCTTTCCAAATAATAA
* * *
16349687 GGCACAAAGGCTTCCCAAATAATAT
1 GCCACAAAGGCTTTCCAAATAATAA
* *
16349712 GCCACATAGGCTTTTCAAATAACT-A
1 GCCACAAAGGCTTTCCAAATAA-TAA
*
16349737 GCCACAAAGGCTTTCCAAATAATAT
1 GCCACAAAGGCTTTCCAAATAATAA
16349762 GCCACATAA-GCTTTC
1 GCCACA-AAGGCTTTC
16349777 TAGATAGCCA
Statistics
Matches: 88, Mismatches: 24, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
24 1 0.01
25 84 0.95
26 3 0.03
ACGTcount: A:0.38, C:0.24, G:0.13, T:0.26
Consensus pattern (25 bp):
GCCACAAAGGCTTTCCAAATAATAA
Found at i:16349705 original size:50 final size:50
Alignment explanation
Indices: 16349637--16349775 Score: 188
Period size: 50 Copynumber: 2.8 Consensus size: 50
16349627 AGATAACCTG
* ** *
16349637 GCCACTAAGGCTTCCCAAATAATAAGTTACATAGGCTTTTTAAATAACAA
1 GCCACAAAGGCTTCCCAAATAATAAGCCACATAGGCTTTTCAAATAACAA
* * *
16349687 GGCACAAAGGCTTCCCAAATAATATGCCACATAGGCTTTTCAAATAACTA
1 GCCACAAAGGCTTCCCAAATAATAAGCCACATAGGCTTTTCAAATAACAA
* * *
16349737 GCCACAAAGGCTTTCCAAATAATATGCCACATAAGCTTT
1 GCCACAAAGGCTTCCCAAATAATAAGCCACATAGGCTTT
16349776 CTAGATAGCC
Statistics
Matches: 79, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 79 1.00
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.26
Consensus pattern (50 bp):
GCCACAAAGGCTTCCCAAATAATAAGCCACATAGGCTTTTCAAATAACAA
Found at i:16349795 original size:21 final size:22
Alignment explanation
Indices: 16349689--16349795 Score: 67
Period size: 25 Copynumber: 4.5 Consensus size: 22
16349679 AATAACAAGG
*
16349689 CACAAAGGCTTCCCAAATAATATGC
1 CACAAAGGCTTTCC--ATAATA-GC
* *
16349714 CACATAGGCTTTTCAAATAACTAGC
1 CACAAAGGC-TTTC-CATAA-TAGC
16349739 CACAAAGGCTTTCCAAATAATATGC
1 CACAAAGGCTTTCC--ATAATA-GC
16349764 CACATAA-GCTTT-C-TAGATAGC
1 CACA-AAGGCTTTCCATA-ATAGC
16349785 CACAAAGGCTT
1 CACAAAGGCTT
16349796 ATTTGGTTTT
Statistics
Matches: 68, Mismatches: 5, Indels: 22
0.72 0.05 0.23
Matches are distributed among these distances:
20 2 0.03
21 12 0.18
22 3 0.04
24 7 0.10
25 37 0.54
26 7 0.10
ACGTcount: A:0.37, C:0.25, G:0.13, T:0.24
Consensus pattern (22 bp):
CACAAAGGCTTTCCATAATAGC
Found at i:16354837 original size:26 final size:27
Alignment explanation
Indices: 16354785--16354841 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
16354775 AAAGGTTGCT
16354785 AAATGACCAAAATACCCTTGAAGGGTA
1 AAATGACCAAAATACCCTTGAAGGGTA
*
16354812 AAATGACCAAAATACCCTTGGA-GGTA
1 AAATGACCAAAATACCCTTGAAGGGTA
16354838 AAAT
1 AAAT
16354842 TATCATTTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.46, C:0.18, G:0.18, T:0.19
Consensus pattern (27 bp):
AAATGACCAAAATACCCTTGAAGGGTA
Found at i:16374557 original size:42 final size:43
Alignment explanation
Indices: 16374408--16374640 Score: 185
Period size: 42 Copynumber: 5.5 Consensus size: 43
16374398 ATCCGTTACT
* * * **
16374408 CGGTGGATTCAGTACTTAGCAACCACC-TTAAATTCAGTGATA
1 CGGTGGAATCAGCACATAGCAACCACCTTTAAATTCAAAGATA
* *
16374450 CGG-GGAATCAGCACATAGCAACC-CCTTTCACAGTCAAAGATA
1 CGGTGGAATCAGCACATAGCAACCACCTTT-AAATTCAAAGATA
* * * ***
16374492 CGGTAGAATCAGCACTTAGCAACCACCTTTATATTCAGTTATA
1 CGGTGGAATCAGCACATAGCAACCACCTTTAAATTCAAAGATA
* * *
16374535 CGG-GGAATCAGCACATAACAACC-CCTTTCAAAATCAAATATA
1 CGGTGGAATCAGCACATAGCAACCACCTTT-AAATTCAAAGATA
* * *
16374577 CGGTCGAATCAGCACTTAGCAACCACCTTTAGAA-TCAATA-ATT
1 CGGTGGAATCAGCACATAGCAACCACCTTTA-AATTCAA-AGATA
* *
16374620 C-ATGGAATCAGCACTTAGCAA
1 CGGTGGAATCAGCACATAGCAA
16374641 GCCCTTGGGG
Statistics
Matches: 155, Mismatches: 27, Indels: 18
0.77 0.14 0.09
Matches are distributed among these distances:
40 2 0.01
41 24 0.15
42 62 0.40
43 54 0.35
44 13 0.08
ACGTcount: A:0.36, C:0.25, G:0.16, T:0.24
Consensus pattern (43 bp):
CGGTGGAATCAGCACATAGCAACCACCTTTAAATTCAAAGATA
Found at i:16374563 original size:85 final size:85
Alignment explanation
Indices: 16374416--16374607 Score: 305
Period size: 85 Copynumber: 2.3 Consensus size: 85
16374406 CTCGGTGGAT
* *
16374416 TCAGTACTTAGCAACCACC-TTAAATTCAGTGATACGGGGAATCAGCACATAGCAACCCCTTTCA
1 TCAGCACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAGCACATAACAACCCCTTTCA
* *
16374480 CAGTCAAAGATACGGTAGAA
66 AAATCAAAGATACGGTAGAA
* *
16374500 TCAGCACTTAGCAACCACCTTTATATTCAGTTATACGGGGAATCAGCACATAACAACCCCTTTCA
1 TCAGCACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAGCACATAACAACCCCTTTCA
* *
16374565 AAATCAAATATACGGTCGAA
66 AAATCAAAGATACGGTAGAA
16374585 TCAGCACTTAGCAACCACCTTTA
1 TCAGCACTTAGCAACCACCTTTA
16374608 GAATCAATAA
Statistics
Matches: 99, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
84 18 0.18
85 81 0.82
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.23
Consensus pattern (85 bp):
TCAGCACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAATCAGCACATAACAACCCCTTTCA
AAATCAAAGATACGGTAGAA
Found at i:16374646 original size:85 final size:85
Alignment explanation
Indices: 16374416--16374646 Score: 277
Period size: 85 Copynumber: 2.7 Consensus size: 85
16374406 CTCGGTGGAT
* * * *
16374416 TCAGTACTTAGCAACCACC-TTA-AATTCAGTGATACGGGGAATCAGCACATAGCAACCCCTTTC
1 TCAGCACTTAGCAACCACCTTTAGAA-TCAATAATACAGGGAATCAGCACATAGCAACCCCTTTC
* *
16374479 ACAGTCAAAGATACGGTAGAA
65 AAAATCAAAGATACGGTAGAA
* * * * * *
16374500 TCAGCACTTAGCAACCACCTTTATATTCAGTTATACGGGGAATCAGCACATAACAACCCCTTTCA
1 TCAGCACTTAGCAACCACCTTTAGAATCAATAATACAGGGAATCAGCACATAGCAACCCCTTTCA
* *
16374565 AAATCAAATATACGGTCGAA
66 AAATCAAAGATACGGTAGAA
* * * *
16374585 TCAGCACTTAGCAACCACCTTTAGAATCAATAATTCATGGAATCAGCACTTAGCAAGCCCTT
1 TCAGCACTTAGCAACCACCTTTAGAATCAATAATACAGGGAATCAGCACATAGCAACCCCTT
16374647 GGGGAATCTG
Statistics
Matches: 127, Mismatches: 18, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
84 18 0.14
85 108 0.85
86 1 0.01
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (85 bp):
TCAGCACTTAGCAACCACCTTTAGAATCAATAATACAGGGAATCAGCACATAGCAACCCCTTTCA
AAATCAAAGATACGGTAGAA
Found at i:16374652 original size:26 final size:26
Alignment explanation
Indices: 16374623--16374672 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
16374613 AATAATTCAT
*
16374623 GGAATCAGCACTTAGCAAGCCCTTGG
1 GGAATCAGCACTTAGCAACCCCTTGG
*
16374649 GGAATCTGCACTTAGCAACCCCTT
1 GGAATCAGCACTTAGCAACCCCTT
16374673 TTTATCCAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.26, C:0.30, G:0.22, T:0.22
Consensus pattern (26 bp):
GGAATCAGCACTTAGCAACCCCTTGG
Found at i:16377992 original size:42 final size:42
Alignment explanation
Indices: 16377912--16377993 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
16377902 CATTTTCTCT
* * **
16377912 ATGCCATAGTCCAACTATGGTCTTACACATGTTTACATATTG
1 ATGCCATAGCCCAACTATGATCTTACACATGTGCACATATTG
*
16377954 ATGCCATAGCCCAGCTATGATCTTACACA-GTAGCACATAT
1 ATGCCATAGCCCAACTATGATCTTACACATGT-GCACATAT
16377994 CACACCAATG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
41 2 0.06
42 32 0.94
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.30
Consensus pattern (42 bp):
ATGCCATAGCCCAACTATGATCTTACACATGTGCACATATTG
Found at i:16380627 original size:43 final size:42
Alignment explanation
Indices: 16380508--16380640 Score: 162
Period size: 43 Copynumber: 3.2 Consensus size: 42
16380498 CTCGGTGGAT
*
16380508 TCAGCTCTTAGCAACCACC-TTAAATTCAGTGATACGGGGAA
1 TCAGCACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAA
* * * **
16380549 TCAGCACATAGCAACC-CCTTTCACAGTCAAAGATACGGTGGAA
1 TCAGCACTTAGCAACCACCTTT-AAATTCAGTGATACGG-GGAA
* *
16380592 TCAGCACTTAGCAACCACCTTTATATTCAGTGATACGGAGAA
1 TCAGCACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAA
16380634 TCAGCAC
1 TCAGCAC
16380641 ACCTTTAGAA
Statistics
Matches: 76, Mismatches: 12, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
40 2 0.03
41 16 0.21
42 22 0.29
43 31 0.41
44 5 0.07
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (42 bp):
TCAGCACTTAGCAACCACCTTTAAATTCAGTGATACGGGGAA
Found at i:16381025 original size:28 final size:28
Alignment explanation
Indices: 16380985--16381039 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
16380975 TTTAACTTAT
16380985 TTAACATGCACATTCATCAAAACAGTCC
1 TTAACATGCACATTCATCAAAACAGTCC
16381013 TTAACATGCACATTCATCAAAACAGTC
1 TTAACATGCACATTCATCAAAACAGTC
16381040 AATAACTCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.40, C:0.27, G:0.07, T:0.25
Consensus pattern (28 bp):
TTAACATGCACATTCATCAAAACAGTCC
Found at i:16381812 original size:11 final size:13
Alignment explanation
Indices: 16381782--16381813 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
16381772 TGCCCAAACG
16381782 TCGAAATTTTTGA
1 TCGAAATTTTTGA
16381795 TCGAAATTTTT-A
1 TCGAAATTTTTGA
16381807 -CGAAATT
1 TCGAAATT
16381814 ATTTTGTGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.37
12 1 0.05
13 11 0.58
ACGTcount: A:0.34, C:0.09, G:0.12, T:0.44
Consensus pattern (13 bp):
TCGAAATTTTTGA
Found at i:16389041 original size:12 final size:12
Alignment explanation
Indices: 16389024--16389050 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
16389014 CACACGCCCG
16389024 TGTGCTAGGCCA
1 TGTGCTAGGCCA
16389036 TGTGCTAGGCCA
1 TGTGCTAGGCCA
16389048 TGT
1 TGT
16389051 AAGTCACTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.15, C:0.22, G:0.33, T:0.30
Consensus pattern (12 bp):
TGTGCTAGGCCA
Found at i:16389942 original size:20 final size:21
Alignment explanation
Indices: 16389903--16389942 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
16389893 TACATCAATT
*
16389903 AGATCATGCATTCTTTCCATA
1 AGATCATGCATTCATTCCATA
*
16389924 AGATCATGC-TTGATTCCAT
1 AGATCATGCATTCATTCCAT
16389943 TTGAATACTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.38
Consensus pattern (21 bp):
AGATCATGCATTCATTCCATA
Found at i:16393161 original size:14 final size:14
Alignment explanation
Indices: 16393142--16393168 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
16393132 TCAAATGACA
16393142 TAGGTATTTATGAG
1 TAGGTATTTATGAG
16393156 TAGGTATTTATGA
1 TAGGTATTTATGA
16393169 TTGATGAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.00, G:0.26, T:0.44
Consensus pattern (14 bp):
TAGGTATTTATGAG
Found at i:16402079 original size:138 final size:138
Alignment explanation
Indices: 16401778--16402355 Score: 811
Period size: 138 Copynumber: 4.2 Consensus size: 138
16401768 ACATAGATAA
*
16401778 AATTAATATGTGAATTTGATTCATACAAAAATATTAATTATATATATTTTACCGAATTTATTAAT
1 AATTAATATATGAATTTGATTCATAC-AAAATATTAATTATATATATTTTACCGAATTTATTAAT
* * * * ** *
16401843 ATAGACAGTTATATTAATTAATTTAAAATCAAAATATAAAAGATGTGGAAATTAATGTTCTTTTG
65 ATAAACAATTATATTAATTAATTT-CAGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTG
*
16401908 AAAAGAATAT
129 GAAAGAATAT
* * *
16401918 AATTAATATATGAATTTGGTTCATACAAAATATTAATTATATATAGTTGACCGAATTTATTAATA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTATATATATTTTACCGAATTTATTAATA
* * *
16401983 TAAACAATTATATTAATTAATTTCAGTCAAAATATAAAATACATGGAAGTTAATATTCATTTGGA
66 TAAACAATTATATTAATTAATTTCAGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGA
16402048 AAGAATAT
131 AAGAATAT
* * * * *
16402056 AATTAATATATGAATTTAATTCATACAAAATATTAATTTTATACATTTTATCAAATTTATTAATA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTATATATATTTTACCGAATTTATTAATA
* * * * * *
16402121 TGAATAGTTAGATTAATTAATTT-TGATCAAAATATAAAAGACATGGAAATTAATATTTTTTTGG
66 TAAACAATTATATTAATTAATTTCAG-TCAAAATATAAAAGACATGGAAATTAATATTCTTTTGG
16402185 AAAGAATAT
130 AAAGAATAT
* * *
16402194 AATTAATATTTAAATTTGATTCATACAAAATATTAATTTTATATATTTTACCGAATTTATTAATA
1 AATTAATATATGAATTTGATTCATACAAAATATTAATTATATATATTTTACCGAATTTATTAATA
* * *
16402259 T-AA-AATTATATTAATGAATTTCAGTCAAAATATAAAAGACGTAGAAATTAATATTCTTTTGGA
66 TAAACAATTATATTAATTAATTTCAGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGA
16402322 AAGAATAT
131 AAGAATAT
*
16402330 AATTAATATAAGAATTTGATTCATAC
1 AATTAATATATGAATTTGATTCATAC
16402356 TGTAAAAGCT
Statistics
Matches: 388, Mismatches: 48, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
136 82 0.21
137 4 0.01
138 220 0.57
139 58 0.15
140 24 0.06
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.40
Consensus pattern (138 bp):
AATTAATATATGAATTTGATTCATACAAAATATTAATTATATATATTTTACCGAATTTATTAATA
TAAACAATTATATTAATTAATTTCAGTCAAAATATAAAAGACATGGAAATTAATATTCTTTTGGA
AAGAATAT
Found at i:16405217 original size:25 final size:25
Alignment explanation
Indices: 16405184--16405247 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 25
16405174 ACGGACACAC
*
16405184 CACAGCTCGTATGAGCTTACTGATT
1 CACAGCTCGTATGAGCTTACCGATT
** *
16405209 TGCATCTCGTGA-GAGCTTACCGATT
1 CACAGCTCGT-ATGAGCTTACCGATT
16405234 CACAGCTCGTATGA
1 CACAGCTCGTATGA
16405248 CCATACATGT
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
24 1 0.03
25 28 0.93
26 1 0.03
ACGTcount: A:0.23, C:0.25, G:0.22, T:0.30
Consensus pattern (25 bp):
CACAGCTCGTATGAGCTTACCGATT
Found at i:16408482 original size:50 final size:50
Alignment explanation
Indices: 16408412--16408527 Score: 144
Period size: 50 Copynumber: 2.3 Consensus size: 50
16408402 CACACCACAG
* * * *
16408412 CTCGTATGAGCTTACCGATTTACAGCTCTTGAGAGCTTACCAATTC-TCAA
1 CTCGTATGACCTTACAGATTTACAGCTCGTGAGAGCATACCAATTCAT-AA
* * * *
16408462 CTCGTATGACCTTGCAGATTTACAGCTCGTGAGAGCATATCGATTCATAG
1 CTCGTATGACCTTACAGATTTACAGCTCGTGAGAGCATACCAATTCATAA
16408512 CTCGTATGACCTTACA
1 CTCGTATGACCTTACA
16408528 TGTACAAGAG
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
50 55 0.98
51 1 0.02
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (50 bp):
CTCGTATGACCTTACAGATTTACAGCTCGTGAGAGCATACCAATTCATAA
Found at i:16409634 original size:17 final size:17
Alignment explanation
Indices: 16409612--16409656 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
16409602 GCGTGTGTCT
*
16409612 CAGCCGTGTGTGACATA
1 CAGCCGTGTGTGACACA
*
16409629 CAGCCGTCTGTGACACA
1 CAGCCGTGTGTGACACA
16409646 CAGCCGTGTGT
1 CAGCCGTGTGT
16409657 CCCTTATAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.20, C:0.29, G:0.29, T:0.22
Consensus pattern (17 bp):
CAGCCGTGTGTGACACA
Found at i:16417664 original size:18 final size:19
Alignment explanation
Indices: 16417629--16417665 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
16417619 TATAGTAGAA
16417629 GAGAAAGTAAATAATTTAG
1 GAGAAAGTAAATAATTTAG
*
16417648 GAGAAATTAAA-AATTTAG
1 GAGAAAGTAAATAATTTAG
16417666 ATTTAAATAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.54, C:0.00, G:0.19, T:0.27
Consensus pattern (19 bp):
GAGAAAGTAAATAATTTAG
Found at i:16419244 original size:22 final size:22
Alignment explanation
Indices: 16419204--16419245 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
16419194 TTTACATTAA
16419204 TTTTCTCTTTAATTTTTTCTAC
1 TTTTCTCTTTAATTTTTTCTAC
*
16419226 TTTTC-CTTTATTTTCTTTCT
1 TTTTCTCTTTAATTT-TTTCT
16419246 TCATCCTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.10, C:0.19, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTTCTCTTTAATTTTTTCTAC
Found at i:16419584 original size:19 final size:21
Alignment explanation
Indices: 16419548--16419586 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
16419538 TTCTATTTTA
*
16419548 AATTATTTTATTATATTTATG
1 AATTATTTTAATATATTTATG
16419569 AATT-TTTTAATA-ATTTAT
1 AATTATTTTAATATATTTAT
16419587 TTGATCGAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 7 0.41
21 4 0.24
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (21 bp):
AATTATTTTAATATATTTATG
Found at i:16421284 original size:14 final size:15
Alignment explanation
Indices: 16421253--16421285 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
16421243 AAATTTTAAG
16421253 AAAAATGAATATTGT
1 AAAAATGAATATTGT
*
16421268 AAAAATGGATATT-T
1 AAAAATGAATATTGT
16421282 AAAA
1 AAAA
16421286 CAATTCTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.58, C:0.00, G:0.12, T:0.30
Consensus pattern (15 bp):
AAAAATGAATATTGT
Found at i:16421377 original size:18 final size:18
Alignment explanation
Indices: 16421339--16421382 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
16421329 TAGTTCACTC
16421339 TTACTTTATTTTTTTAGTT
1 TTACTTTA-TTTTTTAGTT
16421358 TTACTTTA-TTTTTAGTTT
1 TTACTTTATTTTTTAG-TT
16421376 TTACTTT
1 TTACTTT
16421383 TACAATTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.29
18 9 0.38
19 8 0.33
ACGTcount: A:0.16, C:0.07, G:0.05, T:0.73
Consensus pattern (18 bp):
TTACTTTATTTTTTAGTT
Found at i:16421384 original size:19 final size:18
Alignment explanation
Indices: 16421339--16421384 Score: 58
Period size: 17 Copynumber: 2.5 Consensus size: 18
16421329 TAGTTCACTC
*
16421339 TTACTTTATTTTTTTAGTT
1 TTACTTT-TATTTTTAGTT
16421358 TTAC-TTTATTTTTAGTTT
1 TTACTTTTATTTTTAG-TT
16421376 TTACTTTTA
1 TTACTTTTA
16421385 CAATTTATAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 8 0.33
18 8 0.33
19 8 0.33
ACGTcount: A:0.17, C:0.07, G:0.04, T:0.72
Consensus pattern (18 bp):
TTACTTTTATTTTTAGTT
Found at i:16434373 original size:19 final size:19
Alignment explanation
Indices: 16434349--16434402 Score: 81
Period size: 19 Copynumber: 2.8 Consensus size: 19
16434339 AATCATATCT
*
16434349 TCTAAGATTGTATATCATA
1 TCTAAGATTGCATATCATA
*
16434368 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
*
16434387 TTTAAGATTGCATATC
1 TCTAAGATTGCATATC
16434403 CTTGAAGATT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.37, C:0.13, G:0.09, T:0.41
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:16437916 original size:3 final size:3
Alignment explanation
Indices: 16437908--16437935 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
16437898 ATTTGTATTT
16437908 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
16437936 AGTAAACAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:16441091 original size:16 final size:15
Alignment explanation
Indices: 16441070--16441099 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
16441060 TATTATATAT
16441070 TTTACTTTATTTATTA
1 TTTACTTT-TTTATTA
16441086 TTTACTTTTTTATT
1 TTTACTTTTTTATT
16441100 TACTTTACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTACTTTTTTATTA
Done.