Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 58 of 173
Found at i:16436272 original size:41 final size:39
Alignment explanation
Indices: 16436213--16436357 Score: 191
Period size: 41 Copynumber: 3.6 Consensus size: 39
16436203 TTGAATGAAG
16436213 GGGTTGCTAAGTGCAGATTCCCCGAATCACTGATCAAATAA
1 GGGTTGCTAAGTGCAGATTCCCCGAATCACTGAT-AAA-AA
*
16436254 GTGTTGCTAAGTGCAGATTCCCCGAATCACTGATAAAAAA
1 GGGTTGCTAAGTGCAGATTCCCCGAATCACTGAT-AAAAA
** * * *
16436294 GGGTTGCTAAGTATAGATTCCCCGAAACTCTAATAAAAA
1 GGGTTGCTAAGTGCAGATTCCCCGAATCACTGATAAAAA
* *
16436333 GGGGTGCTAAGTGTAGATTCCCCGA
1 GGGTTGCTAAGTGCAGATTCCCCGA
16436358 GGGGTTGCTA
Statistics
Matches: 94, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
39 28 0.30
40 30 0.32
41 36 0.38
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (39 bp):
GGGTTGCTAAGTGCAGATTCCCCGAATCACTGATAAAAA
Found at i:16436312 original size:40 final size:40
Alignment explanation
Indices: 16436213--16436357 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
16436203 TTGAATGAAG
*
16436213 GGGTTGCTAAGTGCAGATTCCCCGAATCACTGATCAAATAA
1 GGGTTGCTAAGTGCAGATTCCCCGAATCACTGAT-AAAAAA
*
16436254 GTGTTGCTAAGTGCAGATTCCCCGAATCACTGATAAAAAA
1 GGGTTGCTAAGTGCAGATTCCCCGAATCACTGATAAAAAA
** * * *
16436294 GGGTTGCTAAGTATAGATTCCCCGAAACTCTAAT-AAAAA
1 GGGTTGCTAAGTGCAGATTCCCCGAATCACTGATAAAAAA
* *
16436333 GGGGTGCTAAGTGTAGATTCCCCGA
1 GGGTTGCTAAGTGCAGATTCCCCGA
16436358 GGGGTTGCTA
Statistics
Matches: 94, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
39 28 0.30
40 33 0.35
41 33 0.35
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (40 bp):
GGGTTGCTAAGTGCAGATTCCCCGAATCACTGATAAAAAA
Found at i:16436368 original size:26 final size:25
Alignment explanation
Indices: 16436332--16436383 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 25
16436322 TCTAATAAAA
16436332 AGGGGTGCTAAGTGTAGATTCCCCG
1 AGGGGTGCTAAGTGTAGATTCCCCG
*
16436357 AGGGGTTGCTAAGTGTTGATTCCCCG
1 AGGGG-TGCTAAGTGTAGATTCCCCG
16436383 A
1 A
16436384 ATTATTGATT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
25 5 0.20
26 20 0.80
ACGTcount: A:0.19, C:0.19, G:0.35, T:0.27
Consensus pattern (25 bp):
AGGGGTGCTAAGTGTAGATTCCCCG
Found at i:16441814 original size:22 final size:22
Alignment explanation
Indices: 16441772--16441817 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
16441762 TAGAAAAGTG
*
16441772 TAGAGAAAATCTAAAGAAAACC
1 TAGAGAAAATCTAAACAAAACC
*
16441794 TAGAGAAAA-CTAAACCTAAACC
1 TAGAGAAAATCTAAA-CAAAACC
16441816 TA
1 TA
16441818 AACCTAAGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.57, C:0.17, G:0.11, T:0.15
Consensus pattern (22 bp):
TAGAGAAAATCTAAACAAAACC
Found at i:16453164 original size:37 final size:36
Alignment explanation
Indices: 16453108--16453229 Score: 118
Period size: 37 Copynumber: 3.3 Consensus size: 36
16453098 TGGACATACG
* * * * *
16453108 CAAGGTAAGACAGTTCGCTGGACTTTTTCTTATGTTT
1 CAAGCTAAGATAG-TCGCTGGACTTATCCTAATGTTT
*
16453145 CAAGCTAAGATAGTCCGCTGGACTTGTCCTAATGTTT
1 CAAGCTAAGATAGT-CGCTGGACTTATCCTAATGTTT
* * * * *
16453182 CAAACAAAGACAAATCGTTGGACTTATCCTAATGTTT
1 CAAGCTAAGA-TAGTCGCTGGACTTATCCTAATGTTT
16453219 CAAGCTAAGAT
1 CAAGCTAAGAT
16453230 CGTCTATTGG
Statistics
Matches: 69, Mismatches: 14, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
36 1 0.01
37 66 0.96
38 2 0.03
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.33
Consensus pattern (36 bp):
CAAGCTAAGATAGTCGCTGGACTTATCCTAATGTTT
Found at i:16453240 original size:37 final size:36
Alignment explanation
Indices: 16453139--16453243 Score: 104
Period size: 37 Copynumber: 2.8 Consensus size: 36
16453129 ACTTTTTCTT
* * *
16453139 ATGTTTCAAGCTAAGATAGTCCGCTGGACTTGTCCTA
1 ATGTTTCAAGCTAAGATCGT-CGTTGGACTTATCCTA
* * *
16453176 ATGTTTCAAACAAAGA-CAAATCGTTGGACTTATCCTA
1 ATGTTTCAAGCTAAGATC--GTCGTTGGACTTATCCTA
*
16453213 ATGTTTCAAGCTAAGATCGTCTATTGGACTT
1 ATGTTTCAAGCTAAGATCGTC-GTTGGACTT
16453244 GTCTCAAAGT
Statistics
Matches: 54, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
36 2 0.04
37 50 0.93
38 2 0.04
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (36 bp):
ATGTTTCAAGCTAAGATCGTCGTTGGACTTATCCTA
Found at i:16454785 original size:36 final size:35
Alignment explanation
Indices: 16454745--16454836 Score: 114
Period size: 36 Copynumber: 2.6 Consensus size: 35
16454735 ACATTGTTTG
*
16454745 TTTATCCAACTAGCGTTGGGCGTAAACCATTGTCGA
1 TTTATCCAACTA-CGTTGGGCGTAAAACATTGTCGA
* *
16454781 TTTATCCAACTACCGCTT-GGCGTAAAACATTGTTGG
1 TTTATCCAACTA-CG-TTGGGCGTAAAACATTGTCGA
*
16454817 TTTATCCAACTAAGTTGGGC
1 TTTATCCAACTACGTTGGGC
16454837 ACACATTGGA
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
34 2 0.04
35 4 0.08
36 41 0.84
37 2 0.04
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.33
Consensus pattern (35 bp):
TTTATCCAACTACGTTGGGCGTAAAACATTGTCGA
Found at i:16455390 original size:22 final size:24
Alignment explanation
Indices: 16455365--16455410 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
16455355 AGTACAGAAA
16455365 TGAAATAT-ATGAAAATG-AAGTG
1 TGAAATATAATGAAAATGCAAGTG
* *
16455387 TGAAATGTAATGTAAATGCAAGTG
1 TGAAATATAATGAAAATGCAAGTG
16455411 CATAGTATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 7 0.35
23 8 0.40
24 5 0.25
ACGTcount: A:0.46, C:0.02, G:0.24, T:0.28
Consensus pattern (24 bp):
TGAAATATAATGAAAATGCAAGTG
Found at i:16456736 original size:14 final size:14
Alignment explanation
Indices: 16456719--16456770 Score: 50
Period size: 14 Copynumber: 3.7 Consensus size: 14
16456709 AACCTGTACT
16456719 TATGAATCCGCATA
1 TATGAATCCGCATA
* * *
16456733 TATGATTCTGCATC
1 TATGAATCCGCATA
* * *
16456747 TTTGAGTCCACATA
1 TATGAATCCGCATA
16456761 TATGAATCCG
1 TATGAATCCG
16456771 TACTTATGAG
Statistics
Matches: 27, Mismatches: 11, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.29, C:0.21, G:0.15, T:0.35
Consensus pattern (14 bp):
TATGAATCCGCATA
Found at i:16456780 original size:28 final size:28
Alignment explanation
Indices: 16456714--16456782 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 28
16456704 TTATTAACCT
* * * *
16456714 GTACTTATGAATCCGCATATATGATTCT
1 GTACTTATGAGTCCACATATATGAATCC
*
16456742 GCATCTT-TGAGTCCACATATATGAATCC
1 GTA-CTTATGAGTCCACATATATGAATCC
16456770 GTACTTATGAGTC
1 GTACTTATGAGTC
16456783 TGTATATATG
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
27 3 0.09
28 27 0.82
29 3 0.09
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.36
Consensus pattern (28 bp):
GTACTTATGAGTCCACATATATGAATCC
Found at i:16456837 original size:26 final size:26
Alignment explanation
Indices: 16456788--16456837 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
16456778 GAGTCTGTAT
* *
16456788 ATATGATTCTGCATCTCTGGATCCAC
1 ATATGATTCTGCATCTATGAATCCAC
* *
16456814 ATATGATTTTGTATCTATGAATCC
1 ATATGATTCTGCATCTATGAATCC
16456838 GCTTATGTGA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.26, C:0.20, G:0.14, T:0.40
Consensus pattern (26 bp):
ATATGATTCTGCATCTATGAATCCAC
Found at i:16461152 original size:121 final size:121
Alignment explanation
Indices: 16460938--16461167 Score: 442
Period size: 121 Copynumber: 1.9 Consensus size: 121
16460928 TCACTGGTAT
*
16460938 CTTGCTCTGTAATACAAGCATTTGGTGCATTCTTATATTTCTTATTTAGCTTCACGTAGTCCTTT
1 CTTGCTCTGTAAAACAAGCATTTGGTGCATTCTTATATTTCTTATTTAGCTTCACGTAGTCCTTT
16461003 CAATGACCTTTCCCATGACAAAAGGCATATTCATCTTTTCCAAATTTGACTTTTGA
66 CAATGACCTTTCCCATGACAAAAGGCATATTCATCTTTTCCAAATTTGACTTTTGA
*
16461059 CTTGCTCTGTAAAACAAGCATTTGGTGCATTCTTATATTTCTTATTTAGCTTCATGTAGTCCTTT
1 CTTGCTCTGTAAAACAAGCATTTGGTGCATTCTTATATTTCTTATTTAGCTTCACGTAGTCCTTT
16461124 CAATGACCTTTCCCATGACAAAAGGCATATTCATCTTTTCCAAA
66 CAATGACCTTTCCCATGACAAAAGGCATATTCATCTTTTCCAAA
16461168 CTTGGTCGAA
Statistics
Matches: 107, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
121 107 1.00
ACGTcount: A:0.26, C:0.22, G:0.12, T:0.40
Consensus pattern (121 bp):
CTTGCTCTGTAAAACAAGCATTTGGTGCATTCTTATATTTCTTATTTAGCTTCACGTAGTCCTTT
CAATGACCTTTCCCATGACAAAAGGCATATTCATCTTTTCCAAATTTGACTTTTGA
Found at i:16462574 original size:113 final size:113
Alignment explanation
Indices: 16462376--16462600 Score: 319
Period size: 113 Copynumber: 2.0 Consensus size: 113
16462366 TGCACTAGGT
* ** * *
16462376 AAGTTCATAGGAAATAGAGGTGGGTCATAGATACTCTTAAATACCAAGTCTTTCTTAGTCAGAAT
1 AAGTTCATAGGAAAGAGAGGTGCATCATACATACTCTTAAATACCAAGTCTTTCCTAGTCAGAAT
* *
16462441 TTTTCCTAAACACGCACTTTCACACAACTACACCTATATCTAGTAATC
66 TTTTCATAAACACGCACTTTCACACAACTACACCTATATCCAGTAATC
* * *
16462489 AAGTTCCTAGGAAAGAGTGGTGCATCATACATACTTTTAAATACCAAGTCTTTCCTAG-CTAGAA
1 AAGTTCATAGGAAAGAGAGGTGCATCATACATACTCTTAAATACCAAGTCTTTCCTAGTC-AGAA
*
16462553 CTTTTT-ATAAACATGCACTTTCACACAACTACACCTATATCCAGTAAT
65 -TTTTTCATAAACACGCACTTTCACACAACTACACCTATATCCAGTAAT
16462601 TAAGGAACCA
Statistics
Matches: 99, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
112 1 0.01
113 93 0.94
114 5 0.05
ACGTcount: A:0.35, C:0.22, G:0.12, T:0.31
Consensus pattern (113 bp):
AAGTTCATAGGAAAGAGAGGTGCATCATACATACTCTTAAATACCAAGTCTTTCCTAGTCAGAAT
TTTTCATAAACACGCACTTTCACACAACTACACCTATATCCAGTAATC
Found at i:16463604 original size:12 final size:12
Alignment explanation
Indices: 16463589--16463630 Score: 66
Period size: 12 Copynumber: 3.5 Consensus size: 12
16463579 CTCTGGGCCT
16463589 TCGCTTGGGTCC
1 TCGCTTGGGTCC
*
16463601 TCGCTTGGTTCC
1 TCGCTTGGGTCC
*
16463613 TCACTTGGGTCC
1 TCGCTTGGGTCC
16463625 TCGCTT
1 TCGCTT
16463631 TCATTTGGAC
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.02, C:0.33, G:0.26, T:0.38
Consensus pattern (12 bp):
TCGCTTGGGTCC
Found at i:16465396 original size:18 final size:18
Alignment explanation
Indices: 16465373--16465414 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
16465363 GCAAAGCTAC
*
16465373 GAGCTCAACTCAAGT-TGT
1 GAGCTCAA-ACAAGTATGT
16465391 GAGCTCAAACAAGTATGT
1 GAGCTCAAACAAGTATGT
16465409 GAGCTC
1 GAGCTC
16465415 TACACTTGCG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 5 0.23
18 17 0.77
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.24
Consensus pattern (18 bp):
GAGCTCAAACAAGTATGT
Found at i:16465464 original size:35 final size:35
Alignment explanation
Indices: 16465418--16465488 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 35
16465408 TGAGCTCTAC
* * *
16465418 ACTTGCGAGCTCACCTAAAGATGCGAACTCATCAA
1 ACTTGCAAGCTCAACTAAAGATGCGAACACATCAA
* * *
16465453 ACTTGCAAGCTCAACTCAAGTTGCGAGCACATCAA
1 ACTTGCAAGCTCAACTAAAGATGCGAACACATCAA
16465488 A
1 A
16465489 GTGTGAGCTG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.35, C:0.28, G:0.17, T:0.20
Consensus pattern (35 bp):
ACTTGCAAGCTCAACTAAAGATGCGAACACATCAA
Found at i:16469970 original size:17 final size:17
Alignment explanation
Indices: 16469932--16469982 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
16469922 ACTCTATCCT
*
16469932 TGCGAGCTCACCTAAAGA
1 TGCGAGCTCATC-AAAGA
*
16469950 TGCGAGCTCATCAAAGC
1 TGCGAGCTCATCAAAGA
*
16469967 TGCGAGCACATCAAAG
1 TGCGAGCTCATCAAAG
16469983 TATGAGCTGT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
17 19 0.63
18 11 0.37
ACGTcount: A:0.33, C:0.27, G:0.24, T:0.16
Consensus pattern (17 bp):
TGCGAGCTCATCAAAGA
Found at i:16475530 original size:22 final size:21
Alignment explanation
Indices: 16475499--16475547 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
16475489 AATAAAGGGT
16475499 TTAAAA-TAAAAAAAAACATAA
1 TTAAAATTAAAAAAAAACA-AA
*
16475520 TTAAAATTAAAACAAAACAAA
1 TTAAAATTAAAAAAAAACAAA
*
16475541 ATAAAAT
1 TTAAAAT
16475548 CAATGGGGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 14 0.56
22 11 0.44
ACGTcount: A:0.73, C:0.06, G:0.00, T:0.20
Consensus pattern (21 bp):
TTAAAATTAAAAAAAAACAAA
Found at i:16476736 original size:36 final size:35
Alignment explanation
Indices: 16476697--16476765 Score: 95
Period size: 35 Copynumber: 1.9 Consensus size: 35
16476687 TTAATTAATT
* *
16476697 TTTTTAATTTTAAAAATTCA-AAAAAGTATAAAATA
1 TTTTTAAATTTAAAAA-TCATAAAAAGTACAAAATA
16476732 TTTTTAAATTTAAAAATCATTAAAAAGTACAAAA
1 TTTTTAAATTTAAAAATCA-TAAAAAGTACAAAA
16476766 AAAATATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
34 3 0.10
35 15 0.50
36 12 0.40
ACGTcount: A:0.55, C:0.04, G:0.03, T:0.38
Consensus pattern (35 bp):
TTTTTAAATTTAAAAATCATAAAAAGTACAAAATA
Found at i:16481275 original size:21 final size:22
Alignment explanation
Indices: 16481233--16481277 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
16481223 TCTCTCATAT
*
16481233 TCTCAAATCTCTCTTAAATTTC
1 TCTCAAATCCCTCTTAAATTTC
*
16481255 TCTCAATTCCCTCTT-AATTTC
1 TCTCAAATCCCTCTTAAATTTC
16481276 TC
1 TC
16481278 ACTCAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.22, C:0.31, G:0.00, T:0.47
Consensus pattern (22 bp):
TCTCAAATCCCTCTTAAATTTC
Found at i:16483779 original size:43 final size:43
Alignment explanation
Indices: 16483711--16484015 Score: 294
Period size: 43 Copynumber: 7.2 Consensus size: 43
16483701 ACGTAGAAAT
* * *
16483711 AAACGTCGCTATAGACCATA-ACCTTTAGCGGTGCTTTTCCCAC
1 AAACGCCGCTATAGATCA-AGACCTTTAGCGGCGCTTTTCCCAC
* * * * *
16483754 AAATGCCGCTACAGATCAGGACCTTTAGCGGCGCTTTTTCCAT
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAC
* * ** * *
16483797 AAACACCGCTCTAGATCGGGACCTTTAGCGGCACTTTT-GCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAC
* *
16483839 AAACACCGCTATAGATCAAGACCTTTAACGGCGCTTTTCCCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAC
* * * * *
16483882 AAACGCCGCTATAGCTCAAGACTTTTAGCGGCTCTTTTTCTAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAC
* ** *
16483925 AAATGCCGCTATATCTCAAGACCTTTAGCGGCGC-TTTACCAC
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAC
* * * * * *
16483967 AAACGCCGCTATAGAACAA-ACCTTTAACGACGCTTCTCGCAA
1 AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAC
16484009 AAACGCC
1 AAACGCC
16484016 ACTAAAAACT
Statistics
Matches: 214, Mismatches: 45, Indels: 7
0.80 0.17 0.03
Matches are distributed among these distances:
41 12 0.06
42 67 0.31
43 135 0.63
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.25
Consensus pattern (43 bp):
AAACGCCGCTATAGATCAAGACCTTTAGCGGCGCTTTTCCCAC
Found at i:16483862 original size:85 final size:85
Alignment explanation
Indices: 16483717--16483992 Score: 288
Period size: 85 Copynumber: 3.2 Consensus size: 85
16483707 AAATAAACGT
* ** * *
16483717 CGCTATAGACCATA-ACCTTTAGCGGTGCTTTTCCCACAAATGCCGCTACAGATCAGGACCTTTA
1 CGCTATAGATCA-AGACCTTTAGCGGCACTTTT-CCACAAATGCCGCTATAGATCAAGACCTTTA
* *
16483781 GCGGCGCTTTTTCCATAAACAC
64 GCGGCGCTTTTCCCACAAACAC
* ** * ** *
16483803 CGCTCTAGATCGGGACCTTTAGCGGCACTTTTGCACAAACACCGCTATAGATCAAGACCTTTAAC
1 CGCTATAGATCAAGACCTTTAGCGGCACTTTTCCACAAATGCCGCTATAGATCAAGACCTTTAGC
*
16483868 GGCGCTTTTCCCACAAACGC
66 GGCGCTTTTCCCACAAACAC
* * * * **
16483888 CGCTATAGCTCAAGACTTTTAGCGGCTCTTTTTCTACAAATGCCGCTATATCTCAAGACCTTTAG
1 CGCTATAGATCAAGACCTTTAGCGGCAC-TTTTCCACAAATGCCGCTATAGATCAAGACCTTTAG
* *
16483953 CGGCGC-TTTACCACAAACGC
65 CGGCGCTTTTCCCACAAACAC
*
16483973 CGCTATAGAACAA-ACCTTTA
1 CGCTATAGATCAAGACCTTTA
16483993 ACGACGCTTC
Statistics
Matches: 156, Mismatches: 32, Indels: 6
0.80 0.16 0.03
Matches are distributed among these distances:
84 6 0.04
85 90 0.58
86 60 0.38
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.26
Consensus pattern (85 bp):
CGCTATAGATCAAGACCTTTAGCGGCACTTTTCCACAAATGCCGCTATAGATCAAGACCTTTAGC
GGCGCTTTTCCCACAAACAC
Found at i:16483948 original size:128 final size:127
Alignment explanation
Indices: 16483717--16484015 Score: 337
Period size: 128 Copynumber: 2.3 Consensus size: 127
16483707 AAATAAACGT
* * * * *
16483717 CGCTATAGACCATAACCTTTAGCGGTGCTTTTCCCACAAATGCCGCTACAGATCAGGACCTTTAG
1 CGCTATAGAACA-AACCTTTAACGGCGCTTTTCCCACAAACGCCGCTACAGATCAAGACCTTTAG
* * ** **
16483782 CGGCGCTTTTTCCATAAACACCGCTCTAGATCGGGACCTTTAGCGGCACTTTTGCACAAACAC
65 CGGCGCTTTTTCCACAAACACCGCTATAGATCAAGACCTTTAGCGGCACTTTACCACAAACAC
* * * *
16483845 CGCTATAGATCAAGACCTTTAACGGCGCTTTTCCCACAAACGCCGCTATAGCTCAAGACTTTTAG
1 CGCTATAGAACAA-ACCTTTAACGGCGCTTTTCCCACAAACGCCGCTACAGATCAAGACCTTTAG
* * ** ** * *
16483910 CGGCTCTTTTTCTACAAATGCCGCTATATCTCAAGACCTTTAGCGGCGCTTTACCACAAACGC
65 CGGCGCTTTTTCCACAAACACCGCTATAGATCAAGACCTTTAGCGGCACTTTACCACAAACAC
* * * *
16483973 CGCTATAGAACAAACCTTTAACGACGCTTCTCGCAAAAACGCC
1 CGCTATAGAACAAACCTTTAACGGCGCTTTTCCCACAAACGCC
16484016 ACTAAAAACT
Statistics
Matches: 143, Mismatches: 27, Indels: 3
0.83 0.16 0.02
Matches are distributed among these distances:
127 27 0.19
128 116 0.81
ACGTcount: A:0.27, C:0.31, G:0.17, T:0.25
Consensus pattern (127 bp):
CGCTATAGAACAAACCTTTAACGGCGCTTTTCCCACAAACGCCGCTACAGATCAAGACCTTTAGC
GGCGCTTTTTCCACAAACACCGCTATAGATCAAGACCTTTAGCGGCACTTTACCACAAACAC
Found at i:16488112 original size:7 final size:7
Alignment explanation
Indices: 16488102--16488153 Score: 68
Period size: 7 Copynumber: 7.4 Consensus size: 7
16488092 CATTAACTCT
*
16488102 TAACCTC
1 TAACCCC
16488109 TAACCCC
1 TAACCCC
16488116 TAACCCC
1 TAACCCC
16488123 TAACCCC
1 TAACCCC
*
16488130 AAACCCC
1 TAACCCC
**
16488137 TAACTAC
1 TAACCCC
16488144 TAACCCC
1 TAACCCC
16488151 TAA
1 TAA
16488154 ACCTTATTTA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
7 38 1.00
ACGTcount: A:0.35, C:0.48, G:0.00, T:0.17
Consensus pattern (7 bp):
TAACCCC
Found at i:16488119 original size:21 final size:21
Alignment explanation
Indices: 16488095--16488156 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
16488085 CTTAAATCAT
* * *
16488095 TAACTCTTAACCTCTAACCCC
1 TAACTCCTAACCCCAAACCCC
*
16488116 TAACCCCTAACCCCAAACCCC
1 TAACTCCTAACCCCAAACCCC
*
16488137 TAACTACTAACCCCTAAACC
1 TAACTCCTAACCCC-AAACC
16488157 TTATTTAATA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
21 29 0.85
22 5 0.15
ACGTcount: A:0.34, C:0.47, G:0.00, T:0.19
Consensus pattern (21 bp):
TAACTCCTAACCCCAAACCCC
Found at i:16488804 original size:41 final size:41
Alignment explanation
Indices: 16488703--16489009 Score: 451
Period size: 41 Copynumber: 7.5 Consensus size: 41
16488693 TTTGCGGTGC
* * *
16488703 TTTTCTAAAATCGCCGCT-AAAGTCTCGAGCATTA-CGGGGCT
1 TTTTC-AAAAACGCCGCTAAAAGCCT-GAGCATTAGCGGCGCT
* ** *
16488744 TCTTGTAAAACACCGCT-AAAGCCTCGAGCATTAGCGGCGCT
1 TTTTCAAAAACGCCGCTAAAAGCCT-GAGCATTAGCGGCGCT
16488785 TTTTCAAAAACGCCGCTAAAAGCCTGAGCATTAGCGGCGCT
1 TTTTCAAAAACGCCGCTAAAAGCCTGAGCATTAGCGGCGCT
16488826 TTTTCAAAAACGCCGCTAAAAGCCTGAGCATTAGCGGCGCT
1 TTTTCAAAAACGCCGCTAAAAGCCTGAGCATTAGCGGCGCT
*
16488867 TTTTAAAAAACGCCGCTAAAAGCCTGAGCATTAGCGGCGCT
1 TTTTCAAAAACGCCGCTAAAAGCCTGAGCATTAGCGGCGCT
16488908 TTTTCAAAAACGCCGCTAAAAGCCTGAGCATTAGCGGCGCT
1 TTTTCAAAAACGCCGCTAAAAGCCTGAGCATTAGCGGCGCT
* *
16488949 TTTTTAAAAACGCCGCTAAAAG-CTCGAGCATTAGCGGTGCT
1 TTTTCAAAAACGCCGCTAAAAGCCT-GAGCATTAGCGGCGCT
*
16488990 TTTTCAAAACCGCCGCTAAA
1 TTTTCAAAAACGCCGCTAAA
16489010 GCCACGAAAG
Statistics
Matches: 246, Mismatches: 17, Indels: 6
0.91 0.06 0.02
Matches are distributed among these distances:
40 26 0.11
41 213 0.87
42 7 0.03
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (41 bp):
TTTTCAAAAACGCCGCTAAAAGCCTGAGCATTAGCGGCGCT
Found at i:16492041 original size:42 final size:42
Alignment explanation
Indices: 16491989--16492089 Score: 114
Period size: 42 Copynumber: 2.4 Consensus size: 42
16491979 CACGACCTGA
* * *
16491989 CACACAGTCTGCGACATGGCCATGTGTAT-TAAGTCAATGAGT
1 CACACGGTCTGAGACACGGCCATGTG-ATCTAAGTCAATGAGT
* * *
16492031 CACACGGTCTGTGACACGGTCGTGTGATCTAAGTCAATGAGT
1 CACACGGTCTGAGACACGGCCATGTGATCTAAGTCAATGAGT
* *
16492073 TACACGATCTGAGACAC
1 CACACGGTCTGAGACAC
16492090 AGGCTGGGAC
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
41 2 0.04
42 48 0.96
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.25
Consensus pattern (42 bp):
CACACGGTCTGAGACACGGCCATGTGATCTAAGTCAATGAGT
Found at i:16496773 original size:4 final size:4
Alignment explanation
Indices: 16496759--16496789 Score: 55
Period size: 4 Copynumber: 8.0 Consensus size: 4
16496749 TAAAATTAGT
16496759 TAAA T-AA TAAA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
16496790 AAGGATAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 23 0.88
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
TAAA
Found at i:16497185 original size:31 final size:31
Alignment explanation
Indices: 16497092--16497187 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
16497082 GGCAAATTAC
*
16497092 AAGAGTAATTGAATCCTAATAAAACTCTTTC
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
16497123 AAGAGTAATTGAATCCTAATAAATACTCTTTA
1 AAGAGTAATTGAATCCTAATAAA-ACTCTTTA
16497155 AAGAGTAATTGAATCCTAATAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
16497186 AA
1 AA
16497188 ATTATCTAAG
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.45, C:0.14, G:0.09, T:0.32
Consensus pattern (31 bp):
AAGAGTAATTGAATCCTAATAAAACTCTTTA
Found at i:16502926 original size:69 final size:69
Alignment explanation
Indices: 16502815--16503058 Score: 332
Period size: 69 Copynumber: 3.6 Consensus size: 69
16502805 CGTGTGACTC
* * *
16502815 AAAATAGTTAGCGAGAGCAAAGCTCTCAACTGTCATATTAAGGTTCACAGGAAAAGAGCCGCAAC
1 AAAATAGTTAGCGAGAACAAAGCTCCCAACTGTCATATTAAGGTTCATAGGAAAAGAGCCGCAAC
16502880 CTCT
66 CTCT
* * * * *
16502884 AAAATAGTTAGCGAGAACAAAGCTCCCAGCTGTCATACTAAGGTT--TAGGGAATGAGCTGCAAC
1 AAAATAGTTAGCGAGAACAAAGCTCCCAACTGTCATATTAAGGTTCATAGGAAAAGAGCCGCAAC
16502947 CTC-
66 CTCT
* * **
16502950 AAAACTAGTTAGCGAGAACAAAGCTCCCAATTGTCATATTAAAGTTCATAGGCGAAGAGCCGCAA
1 AAAA-TAGTTAGCGAGAACAAAGCTCCCAACTGTCATATTAAGGTTCATAGGAAAAGAGCCGCAA
16503015 CCTCT
65 CCTCT
* *
16503020 AAAATAGTTAGCGAGAGCAAAGCTCCCAACTGTAATATT
1 AAAATAGTTAGCGAGAACAAAGCTCCCAACTGTCATATT
16503059 TTAGCCGAAG
Statistics
Matches: 152, Mismatches: 19, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
66 4 0.03
67 54 0.36
69 90 0.59
70 4 0.03
ACGTcount: A:0.37, C:0.21, G:0.20, T:0.21
Consensus pattern (69 bp):
AAAATAGTTAGCGAGAACAAAGCTCCCAACTGTCATATTAAGGTTCATAGGAAAAGAGCCGCAAC
CTCT
Found at i:16508494 original size:20 final size:20
Alignment explanation
Indices: 16508469--16508551 Score: 73
Period size: 20 Copynumber: 4.2 Consensus size: 20
16508459 GATGCGTAAC
*
16508469 AGAGGCACTGAAGTGCAGAT
1 AGAGGCACTGAAGTGCAAAT
*
16508489 AGAGGCAC-GATTGTGC-AAT
1 AGAGGCACTGA-AGTGCAAAT
* * *
16508508 CAGTGG-ACCGAAATGCAAAT
1 -AGAGGCACTGAAGTGCAAAT
*
16508528 AGAGGCATTGAAGTGCAAAT
1 AGAGGCACTGAAGTGCAAAT
16508548 AGAG
1 AGAG
16508552 ACACCAAAGT
Statistics
Matches: 49, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
19 13 0.27
20 36 0.73
ACGTcount: A:0.37, C:0.14, G:0.31, T:0.17
Consensus pattern (20 bp):
AGAGGCACTGAAGTGCAAAT
Found at i:16511626 original size:128 final size:128
Alignment explanation
Indices: 16511289--16511671 Score: 705
Period size: 127 Copynumber: 3.0 Consensus size: 128
16511279 TCTGCTCGAT
*
16511289 AATAGGAATGATTTTTTTTGTACTCTTATGTAAATCTTAATTGTTTAGCTAAGTTATAGTCGATA
1 AATATGAATGA-TTTTTTTGTACTCTTATGTAAATCTTAATTGTTTAGCTAAGTTATAGTCGATA
16511354 AGATTGTATCGATATTGGATATGAAATGTTTTTAAATAAATATTCTTTTTGAATCAGAATTGGC
65 AGATTGTATCGATATTGGATATGAAATGTTTTTAAATAAATATTCTTTTTGAATCAGAATTGGC
16511418 AATATGAATGA-TTTTTTGTACTCTTATGTAAATCTTAATTGTTTAGCTAAGTTATAGTCGATAA
1 AATATGAATGATTTTTTTGTACTCTTATGTAAATCTTAATTGTTTAGCTAAGTTATAGTCGATAA
*
16511482 GATTGTATCGGTATTGGATATGAAATGTTTTTAAATAAATATTCTTTTTGAATCAGAATTGGC
66 GATTGTATCGATATTGGATATGAAATGTTTTTAAATAAATATTCTTTTTGAATCAGAATTGGC
* *
16511545 CATATGAATGATTTTTTTGTACTCTTATATAAATCTTAATTGTTTAGCTAAGTTATAGTCGATAA
1 AATATGAATGATTTTTTTGTACTCTTATGTAAATCTTAATTGTTTAGCTAAGTTATAGTCGATAA
*
16511610 GATTGTATCGATATTGGATATGAAATATTTTTAAATAAATATTCTTTTTGAATCAGAATTGG
66 GATTGTATCGATATTGGATATGAAATGTTTTTAAATAAATATTCTTTTTGAATCAGAATTGG
16511672 TTATCATTGT
Statistics
Matches: 247, Mismatches: 6, Indels: 3
0.96 0.02 0.01
Matches are distributed among these distances:
127 125 0.51
128 112 0.45
129 10 0.04
ACGTcount: A:0.33, C:0.07, G:0.16, T:0.44
Consensus pattern (128 bp):
AATATGAATGATTTTTTTGTACTCTTATGTAAATCTTAATTGTTTAGCTAAGTTATAGTCGATAA
GATTGTATCGATATTGGATATGAAATGTTTTTAAATAAATATTCTTTTTGAATCAGAATTGGC
Found at i:16520024 original size:15 final size:15
Alignment explanation
Indices: 16520004--16520034 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
16519994 ATTCAAGTAA
16520004 ACGATTGGTGTAAAT
1 ACGATTGGTGTAAAT
*
16520019 ACGATTGTTGTAAAT
1 ACGATTGGTGTAAAT
16520034 A
1 A
16520035 TCCTTTTGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.06, G:0.23, T:0.35
Consensus pattern (15 bp):
ACGATTGGTGTAAAT
Found at i:16520159 original size:20 final size:20
Alignment explanation
Indices: 16520131--16520177 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
16520121 CTCAAAAAAT
*
16520131 TATACAAAA-TCTAAAGAGTA
1 TATAAAAAATTCTAAA-AGTA
*
16520151 TATAAAAAATTTTAAAAGTA
1 TATAAAAAATTCTAAAAGTA
16520171 TA-AAAAA
1 TATAAAAA
16520178 CCCTATACCC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 5 0.21
20 14 0.58
21 5 0.21
ACGTcount: A:0.62, C:0.04, G:0.06, T:0.28
Consensus pattern (20 bp):
TATAAAAAATTCTAAAAGTA
Found at i:16521317 original size:10 final size:10
Alignment explanation
Indices: 16521304--16521389 Score: 74
Period size: 10 Copynumber: 8.8 Consensus size: 10
16521294 TTATATTTTT
16521304 TTATTAAAAA
1 TTATTAAAAA
16521314 TTATTAAAAAA
1 TTATT-AAAAA
16521325 TTATTAAAAA
1 TTATTAAAAA
*
16521335 -TAGT-AAAA
1 TTATTAAAAA
*
16521343 TTGA-TATAAAC
1 TT-ATTA-AAAA
16521354 TTATT-AAAA
1 TTATTAAAAA
*
16521363 TTA-TAAAAT
1 TTATTAAAAA
16521372 TTATTAAAAA
1 TTATTAAAAA
*
16521382 TCATTAAA
1 TTATTAAA
16521390 GTCTTATAAA
Statistics
Matches: 62, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
8 5 0.08
9 17 0.27
10 24 0.39
11 16 0.26
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (10 bp):
TTATTAAAAA
Found at i:16521325 original size:11 final size:11
Alignment explanation
Indices: 16521304--16521334 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
16521294 TTATATTTTT
16521304 TTATT-AAAAA
1 TTATTAAAAAA
16521314 TTATTAAAAAA
1 TTATTAAAAAA
16521325 TTATTAAAAA
1 TTATTAAAAA
16521335 TAGTAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.25
11 15 0.75
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (11 bp):
TTATTAAAAAA
Found at i:16521342 original size:29 final size:28
Alignment explanation
Indices: 16521310--16521389 Score: 83
Period size: 29 Copynumber: 2.8 Consensus size: 28
16521300 TTTTTTATTA
16521310 AAAATTATTAAAAAATTATTAAAAATAGT
1 AAAATTATTAAAAAATTATTAAAAATA-T
* * *
16521339 AAAATTGA-TATAAACTTATTAAAATTAT
1 AAAATT-ATTAAAAAATTATTAAAAATAT
*
16521367 AAAATTTATT-AAAAATCATTAAA
1 AAAA-TTATTAAAAAATTATTAAA
16521390 GTCTTATAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
28 16 0.38
29 25 0.60
30 1 0.02
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (28 bp):
AAAATTATTAAAAAATTATTAAAAATAT
Found at i:16521371 original size:8 final size:9
Alignment explanation
Indices: 16521304--16521380 Score: 66
Period size: 9 Copynumber: 8.0 Consensus size: 9
16521294 TTATATTTTT
16521304 TTATTAAAAA
1 TTATT-AAAA
16521314 TTATTAAAAAA
1 TTATT--AAAA
16521325 TTATTAAAA
1 TTATTAAAA
* *
16521334 ATAGTAAAA
1 TTATTAAAA
*
16521343 TTGATATAAAC
1 TT-AT-TAAAA
16521354 TTATTAAAA
1 TTATTAAAA
16521363 TTA-TAAAA
1 TTATTAAAA
16521371 TTTATTAAAA
1 -TTATTAAAA
16521381 ATCATTAAAG
Statistics
Matches: 56, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
8 5 0.09
9 22 0.39
10 13 0.23
11 16 0.29
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.39
Consensus pattern (9 bp):
TTATTAAAA
Found at i:16521858 original size:19 final size:19
Alignment explanation
Indices: 16521819--16521858 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
16521809 TAAGGAAGAA
* * *
16521819 ATAATTTTTTATATATTTT
1 ATAATTTTTTAAAAATATT
16521838 ATAATTTTTTAAAAATATT
1 ATAATTTTTTAAAAATATT
16521857 AT
1 AT
16521859 TTTTATACTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
ATAATTTTTTAAAAATATT
Found at i:16522072 original size:22 final size:22
Alignment explanation
Indices: 16522047--16522092 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
16522037 TTTTTATAAG
16522047 TTTTTA-AGAATTT-TAGTAAATT
1 TTTTTATA-AATTTATA-TAAATT
16522069 TTTTTATAAATTTATATAAATT
1 TTTTTATAAATTTATATAAATT
16522091 TT
1 TT
16522093 AGTATTGTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 19 0.86
23 3 0.14
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (22 bp):
TTTTTATAAATTTATATAAATT
Found at i:16526229 original size:18 final size:18
Alignment explanation
Indices: 16526206--16526248 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
16526196 TGCCAGGTGC
*
16526206 GTATCCTAGCCATTATAT
1 GTATCCTAACCATTATAT
*
16526224 GTATCCTAACCCTTATAT
1 GTATCCTAACCATTATAT
*
16526242 GTTTCCT
1 GTATCCT
16526249 TTTCCCAGTC
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:0.23, C:0.26, G:0.09, T:0.42
Consensus pattern (18 bp):
GTATCCTAACCATTATAT
Found at i:16530010 original size:125 final size:126
Alignment explanation
Indices: 16529747--16530009 Score: 336
Period size: 125 Copynumber: 2.1 Consensus size: 126
16529737 AAACATGAAT
* * * * * *
16529747 TACTGTAGAAAAAGAGCGTCAATGTGGGAGCTTTTTTAATTGATTTTGCTGACAGTGCATCCTGC
1 TACTATAGAAAAAGAGCGTCAACGTGAGAGCTTTTTTAAGTAATTTTGCTGACAGTGCATCCTAC
** * *
16529812 TTAAAGTGTTTTTGACACTATATGTTTAGAAACATCTTTTAAAAATTATTTTTTCAGGAAC
66 TTAAAGCATTTTTAACACTATATGTTCAGAAACATCTTTTAAAAATTATTTTTTCAGGAAC
* *
16529873 TACTATAGAAAAAGAGCGTCCACGTGAGAGC-TTTTTCAGTAATTTTGCTGACAGTGCATCCTAC
1 TACTATAGAAAAAGAGCGTCAACGTGAGAGCTTTTTTAAGTAATTTTGCTGACAGTGCATCCTAC
* * * *
16529937 TTGAAGCATTTTTAACACTATTTGTTCAG-AAC-TGTATTCTCAAAATTATTTTTT-AGGAAC
66 TTAAAGCATTTTTAACACTATATGTTCAGAAACATCT-TT-TAAAAATTATTTTTTCAGGAAC
16529997 TACTATAGAAAAA
1 TACTATAGAAAAA
16530010 AATAAAATCC
Statistics
Matches: 119, Mismatches: 16, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
123 2 0.02
124 24 0.20
125 66 0.55
126 27 0.23
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (126 bp):
TACTATAGAAAAAGAGCGTCAACGTGAGAGCTTTTTTAAGTAATTTTGCTGACAGTGCATCCTAC
TTAAAGCATTTTTAACACTATATGTTCAGAAACATCTTTTAAAAATTATTTTTTCAGGAAC
Found at i:16530124 original size:34 final size:33
Alignment explanation
Indices: 16530069--16530177 Score: 148
Period size: 34 Copynumber: 3.3 Consensus size: 33
16530059 CACAATATTA
16530069 TTTTAAAAA-ACTAAACCCTAATTTAATTAATT
1 TTTTAAAAACACTAAACCCTAATTTAATTAATT
* *
16530101 TTCTTAAAAACACTAAACTCTAATTTAATTTATT
1 TT-TTAAAAACACTAAACCCTAATTTAATTAATT
* *
16530135 TATTTAAAACCCCTAAACCCTAATTTAATTAATT
1 T-TTTAAAAACACTAAACCCTAATTTAATTAATT
*
16530169 TTTAAAAAA
1 TTTTAAAAA
16530178 GAACACTAAA
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
32 2 0.03
33 13 0.20
34 50 0.76
35 1 0.02
ACGTcount: A:0.45, C:0.15, G:0.00, T:0.40
Consensus pattern (33 bp):
TTTTAAAAACACTAAACCCTAATTTAATTAATT
Found at i:16533067 original size:30 final size:30
Alignment explanation
Indices: 16533031--16533092 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
16533021 CGGGAATAAC
* * *
16533031 TTGCTCACACAAGTTGACATTATATCAGGG
1 TTGCTCACACAAGCTAACATTATATCAAGG
*
16533061 TTGCTCACACCAGCTAACATTATATCAAGG
1 TTGCTCACACAAGCTAACATTATATCAAGG
16533091 TT
1 TT
16533093 ACCTGTCCGG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.31
Consensus pattern (30 bp):
TTGCTCACACAAGCTAACATTATATCAAGG
Found at i:16535544 original size:6 final size:6
Alignment explanation
Indices: 16535533--16535565 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
16535523 AGGATTCCAA
16535533 AAATGG AAATGG AAATGG AAAT-G AAATGG AAAT
1 AAATGG AAATGG AAATGG AAATGG AAATGG AAAT
16535566 TTACAATCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.55, C:0.00, G:0.27, T:0.18
Consensus pattern (6 bp):
AAATGG
Found at i:16535560 original size:11 final size:12
Alignment explanation
Indices: 16535533--16535565 Score: 59
Period size: 11 Copynumber: 2.8 Consensus size: 12
16535523 AGGATTCCAA
16535533 AAATGGAAATGG
1 AAATGGAAATGG
16535545 AAATGGAAAT-G
1 AAATGGAAATGG
16535556 AAATGGAAAT
1 AAATGGAAAT
16535566 TTACAATCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.55, C:0.00, G:0.27, T:0.18
Consensus pattern (12 bp):
AAATGGAAATGG
Found at i:16543549 original size:14 final size:14
Alignment explanation
Indices: 16543526--16543558 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
16543516 ATTTTTCTAT
16543526 TTTTTCTTC-TTTC
1 TTTTTCTTCTTTTC
16543539 TTTTTCTTTCTTTTC
1 TTTTTC-TTCTTTTC
16543554 TTTTT
1 TTTTT
16543559 TATTTCATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.33
14 3 0.17
15 9 0.50
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (14 bp):
TTTTTCTTCTTTTC
Found at i:16548137 original size:37 final size:37
Alignment explanation
Indices: 16547944--16548681 Score: 311
Period size: 37 Copynumber: 19.3 Consensus size: 37
16547934 GCATTGGCAA
* *
16547944 AGACCTAGTC-AAGGCCGACCTTTAAAAAAGGTTGGGAT
1 AGACCTTGTCTAAGG-CAACCTTT-AAAAAGGTTGGGAT
* * *
16547982 AGAGC-TGTCTAAGGCAACC-TTAAAATGGTTTGGAT
1 AGACCTTGTCTAAGGCAACCTTTAAAAAGGTTGGGAT
* * *
16548017 AAACCTTCTTATCTAAGGAAACCTTTAAAAAAGGTTGGGAT
1 AGA-C--CTTGTCTAAGGCAACCTTT-AAAAAGGTTGGGAT
* *
16548058 AGACCTTCTTATCTAAGACAACCTTTAAAAAAAGGTTGGGAT
1 AGA-C--CTTGTCTAAGGCAACCTTT--AAAAAGGTTGGGAT
*
16548100 AGACCTTGTCTAAGGCAACCTTTAAAAAGGTTAGGAT
1 AGACCTTGTCTAAGGCAACCTTTAAAAAGGTTGGGAT
* * *
16548137 AGACCTTATCTAAGGCAACC-TCAAAAATGTTGGGAT
1 AGACCTTGTCTAAGGCAACCTTTAAAAAGGTTGGGAT
* * **
16548173 AGACCTTGTCTAAGGCAACCATTGAAAAGGTTACGAT
1 AGACCTTGTCTAAGGCAACCTTTAAAAAGGTTGGGAT
** * * *
16548210 AGACCTCCTTTAAGGAAACC-TTAAAAAGGTTGGAATAT
1 AGACCTTGTCTAAGGCAACCTTTAAAAAGGTTGG--GAT
** * *
16548248 AAAGCAACCTT-TAAAAAATGTTGGGATAGACCCGTTTAAGGTAACCTTAAAAAGGATGGGAT
1 --AG--ACCTTGT--CTAA-----GG-CA-A-CC--TT----------TAAAAAGGTTGGGAT
* * *
16548310 AGACCTTGTCTAAGGAAAACTATAAAAAAGGTTGGGAT
1 AGACCTTGTCTAAGGCAACCT-TTAAAAAGGTTGGGAT
* * * *
16548348 AGACCCAT-T-TAAGGCAACC-TTATAAAGATTAGGAT
1 AGA-CCTTGTCTAAGGCAACCTTTAAAAAGGTTGGGAT
16548383 AGACCTTGTCTAAGGCAACCTTTAAAAAAGGTTGGGAT
1 AGACCTTGTCTAAGGCAACCTTT-AAAAAGGTTGGGAT
* * *
16548421 AGATCC--GTATAAGGCAACC-TTGAAAATGTTGGGAT
1 AGA-CCTTGTCTAAGGCAACCTTTAAAAAGGTTGGGAT
* * **
16548456 AAACCTTGGCTAAAACAACCTTTAAAAATGGTTGGGAT
1 AGACCTTGTCTAAGGCAACCTTTAAAAA-GGTTGGGAT
** * * * *
16548494 AGACC-CATCTAATGAAAACTGTAAAAATGGTTGGGAT
1 AGACCTTGTCTAAGGCAACCTTTAAAAA-GGTTGGGAT
* * * *
16548531 AGACCCAT-T-AAAGGTAAAC-TTAAAAAGGTTGGGAT
1 AGA-CCTTGTCTAAGGCAACCTTTAAAAAGGTTGGGAT
*
16548566 AGACAC--GTCTAAGGCAACC-CTAAAAAGGTTAGGG-T
1 AGAC-CTTGTCTAAGGCAACCTTTAAAAAGGTT-GGGAT
* * * * *
16548601 AGA-CTCGTCTACGGCAACC-CTAATAAGGTTGGGGT
1 AGACCTTGTCTAAGGCAACCTTTAAAAAGGTTGGGAT
* * *
16548636 AGACC-TGTTTAAGGCAAAC-TT-GAAAGGATTGGGAT
1 AGACCTTGTCTAAGGCAACCTTTAAAAAGG-TTGGGAT
*
16548671 AGATCTTGTCT
1 AGACCTTGTCT
16548682 TAGGTCCCAT
Statistics
Matches: 540, Mismatches: 98, Indels: 126
0.71 0.13 0.16
Matches are distributed among these distances:
33 1 0.00
34 14 0.03
35 125 0.23
36 79 0.15
37 128 0.24
38 57 0.11
39 34 0.06
40 4 0.01
41 37 0.07
42 22 0.04
43 2 0.00
47 1 0.00
48 3 0.01
49 2 0.00
50 2 0.00
51 3 0.01
52 2 0.00
54 1 0.00
57 2 0.00
58 5 0.01
59 1 0.00
60 2 0.00
62 2 0.00
64 11 0.02
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
AGACCTTGTCTAAGGCAACCTTTAAAAAGGTTGGGAT
Found at i:16548179 original size:73 final size:73
Alignment explanation
Indices: 16547944--16548242 Score: 264
Period size: 73 Copynumber: 4.0 Consensus size: 73
16547934 GCATTGGCAA
* * * * *
16547944 AGACCTAGTC-AAGGCCGACCTTTAAAAAAGGTTGGGATAGAGC-TGTCTAAGGCAACCTTAAAA
1 AGACCTTGTCTAAGG-CAACCTTTAAAAAAGGTTAGGATAGACCTTATCTAAGGCAACC-TAAAA
* *
16548007 TGGTTTGGAT
64 AGGTTGGGAT
* * * * *
16548017 AAACCTTCTTATCTAAGGAAACCTTTAAAAAAGGTTGGGATAGACCTTCTTATCTAAGACAACCT
1 AGA-C--CTTGTCTAAGGCAACCTTTAAAAAAGGTTAGGATAGA-C--CTTATCTAAGGCAACC-
16548082 TTAAAAAAAGGTTGGGAT
59 -T--AAAAAGGTTGGGAT
16548100 AGACCTTGTCTAAGGCAACCTTT-AAAAAGGTTAGGATAGACCTTATCTAAGGCAACCTCAAAAA
1 AGACCTTGTCTAAGGCAACCTTTAAAAAAGGTTAGGATAGACCTTATCTAAGGCAACCT-AAAAA
*
16548164 TGTTGGGAT
65 GGTTGGGAT
* * * ** * *
16548173 AGACCTTGTCTAAGGCAACCATT-GAAAAGGTTACGATAGACCTCCTTTAAGGAAACCTTAAAAA
1 AGACCTTGTCTAAGGCAACCTTTAAAAAAGGTTAGGATAGACCTTATCTAAGGCAACC-TAAAAA
16548237 GGTTGG
65 GGTTGG
16548243 AATATAAAGC
Statistics
Matches: 189, Mismatches: 25, Indels: 24
0.79 0.11 0.10
Matches are distributed among these distances:
73 75 0.40
74 3 0.02
76 43 0.23
77 4 0.02
78 1 0.01
79 17 0.09
80 29 0.15
81 2 0.01
82 1 0.01
83 14 0.07
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (73 bp):
AGACCTTGTCTAAGGCAACCTTTAAAAAAGGTTAGGATAGACCTTATCTAAGGCAACCTAAAAAG
GTTGGGAT
Found at i:16548308 original size:35 final size:35
Alignment explanation
Indices: 16548251--16548673 Score: 321
Period size: 35 Copynumber: 11.7 Consensus size: 35
16548241 GGAATATAAA
* *
16548251 GCAACCTTTAAAAAATGTTGGGATAGACCCGTTTAAG
1 GCAACC-TT-AAAAAGGTTGGGATAGACCCGTCTAAG
* * *
16548288 GTAACCTTAAAAAGGATGGGATAGACCTTGTCTAAG
1 GCAACCTTAAAAAGGTTGGGATAGACC-CGTCTAAG
* * * *
16548324 GAAAACTATAAAAAAGGTTGGGATAGACCCATTTAAG
1 GCAACCT-T-AAAAAGGTTGGGATAGACCCGTCTAAG
* * * *
16548361 GCAACCTTATAAAGATTAGGATAGACCTTGTCTAAG
1 GCAACCTTAAAAAGGTTGGGATAGACC-CGTCTAAG
* *
16548397 GCAACCTTTAAAAAAGGTTGGGATAGATCCGTATAAG
1 GCAACC-TT-AAAAAGGTTGGGATAGACCCGTCTAAG
* * * * * *
16548434 GCAACCTTGAAAATGTTGGGATAAACCTTGGCTAAA
1 GCAACCTTAAAAAGGTTGGGATAGACC-CGTCTAAG
* * *
16548470 ACAACCTTTAAAAATGGTTGGGATAGACCCATCTAAT
1 GCAACC-TTAAAAA-GGTTGGGATAGACCCGTCTAAG
* * *
16548507 GAAAACTGTAAAAATGGTTGGGATAGACCCAT-TAAAG
1 GCAACCT-TAAAAA-GGTTGGGATAGACCCGTCT-AAG
* * *
16548544 GTAAACTTAAAAAGGTTGGGATAGACACGTCTAAG
1 GCAACCTTAAAAAGGTTGGGATAGACCCGTCTAAG
* * *
16548579 GCAACCCTAAAAAGGTTAGGG-TAGACTCGTCTACG
1 GCAACCTTAAAAAGGTT-GGGATAGACCCGTCTAAG
* * * * *
16548614 GCAACCCTAATAAGGTTGGGGTAGACCTGTTTAAG
1 GCAACCTTAAAAAGGTTGGGATAGACCCGTCTAAG
* *
16548649 GCAAACTT-GAAAGGATTGGGATAGA
1 GCAACCTTAAAAAGG-TTGGGATAGA
16548674 TCTTGTCTTA
Statistics
Matches: 308, Mismatches: 63, Indels: 32
0.76 0.16 0.08
Matches are distributed among these distances:
34 7 0.02
35 133 0.43
36 48 0.16
37 75 0.24
38 45 0.15
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (35 bp):
GCAACCTTAAAAAGGTTGGGATAGACCCGTCTAAG
Found at i:16548308 original size:137 final size:137
Alignment explanation
Indices: 16548114--16548374 Score: 330
Period size: 137 Copynumber: 1.9 Consensus size: 137
16548104 CTTGTCTAAG
* * *
16548114 GCAACCTTTAAAAAGGTTAGGATAGACCTTATCTAAGGCAACCTCAAAAATGTTGGGATAGACCT
1 GCAACCTTTAAAAAGGTTAGGATAGACCGTATCTAAGGCAACCTCAAAAAGGATGGGATAGACCT
* ** *
16548179 TGTCTAAGG-CAACCATTGAAAAGGTTACGATAGACCTCCTTTAAGGAAACCTTAAAAAGGTTGG
66 TGTCTAAGGAAAACCATAAAAAAGGTTACGATAGACC-CATTTAAGGAAACCTTAAAAAGGTTGG
16548243 AATATAAA
130 AATATAAA
* * * *
16548251 GCAACCTTTAAAAAATGTTGGGATAGACCCGT-T-TAAGGTAACCTTAAAAAGGATGGGATAGAC
1 GCAACCTTT-AAAAAGGTTAGGATAGA-CCGTATCTAAGGCAACCTCAAAAAGGATGGGATAGAC
* ** * *
16548314 CTTGTCTAAGGAAAACTATAAAAAAGGTTGGGATAGACCCATTTAAGGCAACCTTATAAAG
64 CTTGTCTAAGGAAAACCATAAAAAAGGTTACGATAGACCCATTTAAGGAAACCTTAAAAAG
16548375 ATTAGGATAG
Statistics
Matches: 105, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
137 65 0.62
138 37 0.35
139 3 0.03
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.25
Consensus pattern (137 bp):
GCAACCTTTAAAAAGGTTAGGATAGACCGTATCTAAGGCAACCTCAAAAAGGATGGGATAGACCT
TGTCTAAGGAAAACCATAAAAAAGGTTACGATAGACCCATTTAAGGAAACCTTAAAAAGGTTGGA
ATATAAA
Found at i:16548344 original size:102 final size:102
Alignment explanation
Indices: 16548159--16548344 Score: 241
Period size: 102 Copynumber: 1.8 Consensus size: 102
16548149 AGGCAACCTC
* * * *
16548159 AAAAATGTTGGGATAGACCTTGTCTAAGGCAACCATTGAAAAGGTTACGATAGACCTCCTTTAAG
1 AAAAATGTTGGGATAGACCTCGTCTAAGGCAACCATTAAAAAGGATACGATAGACCTCCTCTAAG
*
16548224 GAAACCTTAAAAAGGTTGGAATATAAAGCAACCTTTA
66 GAAAACTTAAAAAGGTTGGAATATAAAGCAACCTTTA
* * ** **
16548261 AAAAATGTTGGGATAGACC-CGTTTAAGGTAACC-TTAAAAAGGATGGGATAGACCTTGTCTAAG
1 AAAAATGTTGGGATAGACCTCGTCTAAGGCAACCATTAAAAAGGATACGATAGACCTCCTCTAAG
16548324 GAAAACTATAAAAAAGGTTGG
66 GAAAACT-T-AAAAAGGTTGG
16548345 GATAGACCCA
Statistics
Matches: 71, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
100 29 0.41
101 12 0.17
102 30 0.42
ACGTcount: A:0.40, C:0.13, G:0.22, T:0.25
Consensus pattern (102 bp):
AAAAATGTTGGGATAGACCTCGTCTAAGGCAACCATTAAAAAGGATACGATAGACCTCCTCTAAG
GAAAACTTAAAAAGGTTGGAATATAAAGCAACCTTTA
Found at i:16548345 original size:73 final size:73
Alignment explanation
Indices: 16548256--16548681 Score: 336
Period size: 73 Copynumber: 5.9 Consensus size: 73
16548246 ATAAAGCAAC
* *
16548256 CTTTAAAAAATGTTGGGATAGACCCGTTTAAGGTAACCTTAAAAAGGATGGGATAGACCTTGTCT
1 CTTTAAAAAAGGTTGGGATAGACCCGTTTAAGGCAACCTTAAAAAGGATGGGATAGACCTTGTCT
16548321 AAGGAAAA
66 AAGGAAAA
* * * *
16548329 CTATAAAAAAGGTTGGGATAGACCCATTTAAGGCAACCTTATAAA-GATTAGGATAGACCTTGTC
1 CTTTAAAAAAGGTTGGGATAGACCCGTTTAAGGCAACCTTAAAAAGGA-TGGGATAGACCTTGTC
* *
16548393 TAAGGCAAC
65 TAAGGAAAA
* * * * * * *
16548402 CTTTAAAAAAGGTTGGGATAGATCCGTATAAGGCAACCTTGAAAATGTTGGGATAAACCTTGGCT
1 CTTTAAAAAAGGTTGGGATAGACCCGTTTAAGGCAACCTTAAAAAGGATGGGATAGACCTTGTCT
16548467 AA--AACAA
66 AAGGAA-AA
* * * * * * * *
16548474 CCTTTAAAAATGGTTGGGATAGACCCATCTAATGAAAACTGTAAAAATGGTTGGGATAGACCCAT
1 -CTTTAAAAAAGGTTGGGATAGACCCGTTTAAGGCAACCT-TAAAAA-GGATGGGATAGA-CCTT
* *
16548539 -T-AAAGGTAAA
62 GTCTAAGGAAAA
* * * * *
16548549 C-TT-AAAAAGGTTGGGATAGACACGTCTAAGGCAACCCTAAAAAGGTTAGGG-TAGA-CTCGTC
1 CTTTAAAAAAGGTTGGGATAGACCCGTTTAAGGCAACCTTAAAAAGGAT-GGGATAGACCTTGTC
* *
16548610 TACGG-CAA
65 TAAGGAAAA
** * * * * * *
16548618 CCCT-AATAAGGTTGGGGTAGACCTGTTTAAGGCAAACTT-GAAAGGATTGGGATAGATCTTGTC
1 CTTTAAAAAAGGTTGGGATAGACCCGTTTAAGGCAACCTTAAAAAGGA-TGGGATAGACCTTGTC
16548681 T
65 T
16548682 TAGGTCCCAT
Statistics
Matches: 280, Mismatches: 57, Indels: 34
0.75 0.15 0.09
Matches are distributed among these distances:
68 1 0.00
69 12 0.04
70 45 0.16
71 16 0.06
72 30 0.11
73 151 0.54
74 9 0.03
75 12 0.04
76 4 0.01
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.25
Consensus pattern (73 bp):
CTTTAAAAAAGGTTGGGATAGACCCGTTTAAGGCAACCTTAAAAAGGATGGGATAGACCTTGTCT
AAGGAAAA
Found at i:16548454 original size:146 final size:145
Alignment explanation
Indices: 16547944--16548591 Score: 517
Period size: 146 Copynumber: 4.4 Consensus size: 145
16547934 GCATTGGCAA
* * * *
16547944 AGACCTAGTC-AAGGCCGACCTTTAAAAAAGGTTGGGATAGAGCTGTCTAAGGCAACCTT-AAAA
1 AGACCTTGTCTAAGG-CAACCTTTAAAAAAGGTTGGGATAGA-CCGTATAAGGCAACCTTAAAAA
* * * * *
16548007 TGGTTTGGATAAACCTTCTTATCTAAGGAAACCTTTAAAAAAGGTTGGGATAGACCTTCTTATCT
64 T-GTTGGGATAAA-C--CTTGTCTAAGGAAAACTATAAAAAAGGTTGGGATAGACC-TC--ATTT
*
16548072 AAGACAACCTTTAAAAAAAGGTTGGGAT
122 AAGGCAACC-TT--AAAAAGGTT-GGAT
* * *
16548100 AGACCTTGTCTAAGGCAACCTTT-AAAAAGGTTAGGATAGACCTTATCTAAGGCAACCTCAAAAA
1 AGACCTTGTCTAAGGCAACCTTTAAAAAAGGTTGGGATAGACCGTA--TAAGGCAACCTTAAAAA
* * * ** ** * *
16548164 TGTTGGGATAGACCTTGTCTAAGG-CAACCATTGAAAAGGTTACGATAGACCTCCTTTAAGGAAA
64 TGTTGGGATAAACCTTGTCTAAGGAAAACTATAAAAAAGGTTGGGATAGACCTCATTTAAGGCAA
16548228 CCTTAAAAAGGTTGG--
129 CCTTAAAAAGGTTGGAT
* * * * * *
16548243 A-A-----TATAAAGCAACCTTTAAAAAATGTTGGGATAGACCCGTTTAAGGTAACCTTAAAAAG
1 AGACCTTGTCTAAGGCAACCTTTAAAAAAGGTTGGGATAGA-CCGTATAAGGCAACCTTAAAAAT
* *
16548302 GATGGGATAGACCTTGTCTAAGGAAAACTATAAAAAAGGTTGGGATAGACC-CATTTAAGGCAAC
65 GTTGGGATAAACCTTGTCTAAGGAAAACTATAAAAAAGGTTGGGATAGACCTCATTTAAGGCAAC
* *
16548366 CTTATAAAGATTAGGAT
130 CTTAAAAAGGTT-GGAT
*
16548383 AGACCTTGTCTAAGGCAACCTTTAAAAAAGGTTGGGATAGATCCGTATAAGGCAACCTTGAAAAT
1 AGACCTTGTCTAAGGCAACCTTTAAAAAAGGTTGGGATAGA-CCGTATAAGGCAACCTTAAAAAT
* * * * * *
16548448 GTTGGGATAAACCTTGGCTAA--AACAACCTTTAAAAATGGTTGGGATAGACC-CATCTAATGAA
65 GTTGGGATAAACCTTGTCTAAGGAA-AA-CTATAAAAAAGGTTGGGATAGACCTCATTTAAGGCA
*
16548510 AACTGTAAAAATGGTTGGGAT
128 ACCT-TAAAAA-GGTT-GGAT
* * * * * *
16548531 AGACCCAT-T-AAAGGTAAAC-TT-AAAAAGGTTGGGATAGACACGTCTAAGGCAACCCTAAAAA
1 AGA-CCTTGTCTAAGGCAACCTTTAAAAAAGGTTGGGATAGAC-CGTATAAGGCAACCTTAAAAA
16548592 GGTTAGGGTA
Statistics
Matches: 401, Mismatches: 69, Indels: 55
0.76 0.13 0.10
Matches are distributed among these distances:
137 71 0.18
138 38 0.09
139 3 0.01
140 1 0.00
141 1 0.00
142 1 0.00
143 1 0.00
144 3 0.01
145 39 0.10
146 111 0.28
147 12 0.03
148 13 0.03
149 12 0.03
151 2 0.00
152 19 0.05
153 10 0.02
154 2 0.00
155 17 0.04
156 36 0.09
157 9 0.02
ACGTcount: A:0.38, C:0.16, G:0.21, T:0.25
Consensus pattern (145 bp):
AGACCTTGTCTAAGGCAACCTTTAAAAAAGGTTGGGATAGACCGTATAAGGCAACCTTAAAAATG
TTGGGATAAACCTTGTCTAAGGAAAACTATAAAAAAGGTTGGGATAGACCTCATTTAAGGCAACC
TTAAAAAGGTTGGAT
Found at i:16548874 original size:36 final size:36
Alignment explanation
Indices: 16548827--16548898 Score: 99
Period size: 36 Copynumber: 2.0 Consensus size: 36
16548817 GGAGCACATC
** *
16548827 AGTCAGAATAGATCTGAAAGGATGTTGAACTGAATA
1 AGTCAGAATAGATCCCAAAGGATGTTAAACTGAATA
* *
16548863 AGTCAGGATAGATCCCAAAGGTTGTTAAACTGAATA
1 AGTCAGAATAGATCCCAAAGGATGTTAAACTGAATA
16548899 GAGTTTACTC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.40, C:0.11, G:0.24, T:0.25
Consensus pattern (36 bp):
AGTCAGAATAGATCCCAAAGGATGTTAAACTGAATA
Found at i:16549859 original size:14 final size:15
Alignment explanation
Indices: 16549842--16549875 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
16549832 TTCTTTATTC
16549842 TTTATTTT-TTGTGA
1 TTTATTTTCTTGTGA
*
16549856 TTTATTTTCTTGTGT
1 TTTATTTTCTTGTGA
16549871 TTTAT
1 TTTAT
16549876 AAGCATAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.12, C:0.03, G:0.12, T:0.74
Consensus pattern (15 bp):
TTTATTTTCTTGTGA
Found at i:16549947 original size:34 final size:34
Alignment explanation
Indices: 16549908--16549979 Score: 85
Period size: 34 Copynumber: 2.1 Consensus size: 34
16549898 CTATTACCCG
*
16549908 TGGACCCT-AAAATCGAAAAT-CAAGTATAAGGTAA
1 TGGACCCTGAAAATC-AAAATGAAAG-ATAAGGTAA
* *
16549942 TGGACCTTGGAAATCAAAATGAAAGATAAGGTAA
1 TGGACCCTGAAAATCAAAATGAAAGATAAGGTAA
16549976 TGGA
1 TGGA
16549980 GTCAATCAAG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
34 25 0.76
35 8 0.24
ACGTcount: A:0.46, C:0.11, G:0.22, T:0.21
Consensus pattern (34 bp):
TGGACCCTGAAAATCAAAATGAAAGATAAGGTAA
Found at i:16552254 original size:29 final size:29
Alignment explanation
Indices: 16552221--16552435 Score: 213
Period size: 29 Copynumber: 7.4 Consensus size: 29
16552211 TCATTGACCA
*
16552221 ATGAAAAGGGATAGGTTCGACTATCGAAT
1 ATGAAAAGGGATAGCTTCGACTATCGAAT
* *
16552250 ATGAAAAGCGATAGCTTC-AGCTATCGATT
1 ATGAAAAGGGATAGCTTCGA-CTATCGAAT
* * * *
16552279 ATGAAATGGGATTG-TGACGACCATC-AAGT
1 ATGAAAAGGGATAGCT-TCGACTATCGAA-T
*
16552308 ATGAAAAGGGATAGCTTCGGCTATCGAAT
1 ATGAAAAGGGATAGCTTCGACTATCGAAT
* * *
16552337 ATGAAAAGGGATAGCTTCGGCTATTGATT
1 ATGAAAAGGGATAGCTTCGACTATCGAAT
* * *
16552366 ATGAAAAGGGAT-GGTGACGACAATCGAAT
1 ATGAAAAGGGATAGCT-TCGACTATCGAAT
* * *
16552395 ATGAAATGGGATAGCTTCGGCTATCGATT
1 ATGAAAAGGGATAGCTTCGACTATCGAAT
16552424 ATGAAAAGGGAT
1 ATGAAAAGGGAT
16552436 GGTAATGACC
Statistics
Matches: 149, Mismatches: 29, Indels: 16
0.77 0.15 0.08
Matches are distributed among these distances:
28 5 0.03
29 138 0.93
30 6 0.04
ACGTcount: A:0.35, C:0.12, G:0.27, T:0.25
Consensus pattern (29 bp):
ATGAAAAGGGATAGCTTCGACTATCGAAT
Found at i:16552367 original size:87 final size:87
Alignment explanation
Indices: 16552221--16552435 Score: 324
Period size: 87 Copynumber: 2.5 Consensus size: 87
16552211 TCATTGACCA
* * * *
16552221 ATGAAAAGGGATAGGTTCGACTATCGAATATGAAAAGCGATAGCTTCAGCTATCGATTATGAAAT
1 ATGAAAAGGGATAGCTTCGGCTATCGAATATGAAAAGGGATAGCTTCAGCTATCGATTATGAAAA
* *
16552286 GGGATTGTGACGACCATC-AAGT
66 GGGATGGTGACGACAATCGAA-T
* *
16552308 ATGAAAAGGGATAGCTTCGGCTATCGAATATGAAAAGGGATAGCTTCGGCTATTGATTATGAAAA
1 ATGAAAAGGGATAGCTTCGGCTATCGAATATGAAAAGGGATAGCTTCAGCTATCGATTATGAAAA
16552373 GGGATGGTGACGACAATCGAAT
66 GGGATGGTGACGACAATCGAAT
* *
16552395 ATGAAATGGGATAGCTTCGGCTATCGATTATGAAAAGGGAT
1 ATGAAAAGGGATAGCTTCGGCTATCGAATATGAAAAGGGAT
16552436 GGTAATGACC
Statistics
Matches: 117, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
87 115 0.98
88 2 0.02
ACGTcount: A:0.35, C:0.12, G:0.27, T:0.25
Consensus pattern (87 bp):
ATGAAAAGGGATAGCTTCGGCTATCGAATATGAAAAGGGATAGCTTCAGCTATCGATTATGAAAA
GGGATGGTGACGACAATCGAAT
Found at i:16552460 original size:87 final size:87
Alignment explanation
Indices: 16552221--16552469 Score: 272
Period size: 87 Copynumber: 2.9 Consensus size: 87
16552211 TCATTGACCA
* * * * * *
16552221 ATGAAAAGGGATAGGTTCGACTATCGAATATGAAAAGCGATAGCTTC-AGCTATCGATTATGAAA
1 ATGAAAAGGGATAGCTTCGGCTATCGAATATGAAAAGGGATAGCTTCGA-CCATCAACTATGAAA
* * *
16552285 TGGGATTGTGACGACCATCAAGT
65 AGGGATGGTGACGACAATCAAGT
* * ** *
16552308 ATGAAAAGGGATAGCTTCGGCTATCGAATATGAAAAGGGATAGCTTCGGCTATTGATTATGAAAA
1 ATGAAAAGGGATAGCTTCGGCTATCGAATATGAAAAGGGATAGCTTCGACCATCAACTATGAAAA
16552373 GGGATGGTGACGACAATCGAA-T
66 GGGATGGTGACGACAATC-AAGT
* * * *
16552395 ATGAAATGGGATAGCTTCGGCTATCGATTATGAAAAGGGAT-GGTAAT-GACCATCAACTATTAA
1 ATGAAAAGGGATAGCTTCGGCTATCGAATATGAAAAGGGATAGCT--TCGACCATCAACTATGAA
16552458 AAGGGATGGTGA
64 AAGGGATGGTGA
16552470 TGACTATTGA
Statistics
Matches: 141, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
86 2 0.01
87 136 0.96
88 3 0.02
ACGTcount: A:0.36, C:0.12, G:0.27, T:0.25
Consensus pattern (87 bp):
ATGAAAAGGGATAGCTTCGGCTATCGAATATGAAAAGGGATAGCTTCGACCATCAACTATGAAAA
GGGATGGTGACGACAATCAAGT
Found at i:16552464 original size:58 final size:58
Alignment explanation
Indices: 16552330--16552464 Score: 200
Period size: 58 Copynumber: 2.3 Consensus size: 58
16552320 AGCTTCGGCT
* *
16552330 ATCGAATATGAAAAGGGATAGCTTCGGCTATTGATTATGAAAAGGGATGGTGACGACA
1 ATCGAATATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAGGGATGGTAACGACA
* * *
16552388 ATCGAATATGAAATGGGATAGCTTCGGCTATCGATTATGAAAAGGGATGGTAATGACC
1 ATCGAATATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAGGGATGGTAACGACA
*
16552446 ATC-AACTATTAAAAGGGAT
1 ATCGAA-TATGAAAAGGGAT
16552465 GGTGATGACT
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
57 2 0.03
58 67 0.97
ACGTcount: A:0.37, C:0.11, G:0.27, T:0.25
Consensus pattern (58 bp):
ATCGAATATGAAAAGGGATAGCTTCGGCTATCGATTATGAAAAGGGATGGTAACGACA
Found at i:16552482 original size:58 final size:58
Alignment explanation
Indices: 16552330--16552525 Score: 191
Period size: 58 Copynumber: 3.4 Consensus size: 58
16552320 AGCTTCGGCT
* *
16552330 ATCGAATATGAAAAGGGATAGCTTCGGCTATTGATTATGAAAAGGGATGGTGACGACA
1 ATCGAATATGAAAAGGGATAGCTTCGACTATTGATTATGAAAAGGGATGGTAACGACA
* * * * *
16552388 ATCGAATATGAAATGGGATAGCTTCGGCTATCGATTATGAAAAGGGATGGTAATGACC
1 ATCGAATATGAAAAGGGATAGCTTCGACTATTGATTATGAAAAGGGATGGTAACGACA
* * ** ** *
16552446 ATC-AACTATTAAAAGGGAT-GGTGAT-GACTATTGATTAATGAAAAATGATGGTTTCGACC
1 ATCGAA-TATGAAAAGGGATAGCT--TCGACTATTGATT-ATGAAAAGGGATGGTAACGACA
* *
16552505 ATTGAATATGAAAATGGATAG
1 ATCGAATATGAAAAGGGATAG
16552526 TTACAACCAT
Statistics
Matches: 114, Mismatches: 18, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
57 4 0.04
58 76 0.67
59 31 0.27
60 3 0.03
ACGTcount: A:0.37, C:0.10, G:0.26, T:0.27
Consensus pattern (58 bp):
ATCGAATATGAAAAGGGATAGCTTCGACTATTGATTATGAAAAGGGATGGTAACGACA
Found at i:16557478 original size:12 final size:12
Alignment explanation
Indices: 16557453--16557549 Score: 57
Period size: 12 Copynumber: 8.4 Consensus size: 12
16557443 ATTTATAAGA
16557453 TAAATATTAAAT
1 TAAATATTAAAT
16557465 TAAAT-TTAATAT
1 TAAATATTAA-AT
* *
16557477 TAAGATAATAACT
1 TAA-ATATTAAAT
*
16557490 TTAATATTAAAT
1 TAAATATTAAAT
16557502 T-AATA--AAA-
1 TAAATATTAAAT
* *
16557510 T-ACTATCAAGA-
1 TAAATATTAA-AT
16557521 TAAATATTAAAT
1 TAAATATTAAAT
16557533 TAAATA-TAATAT
1 TAAATATTAA-AT
16557545 TAAAT
1 TAAAT
16557550 CTATTAAAAT
Statistics
Matches: 68, Mismatches: 8, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
8 4 0.06
9 3 0.04
10 2 0.03
11 14 0.21
12 37 0.54
13 5 0.07
14 3 0.04
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (12 bp):
TAAATATTAAAT
Found at i:16557505 original size:20 final size:19
Alignment explanation
Indices: 16557455--16557507 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
16557445 TTATAAGATA
16557455 AATATTAAATT-A-AATTT
1 AATATTAAATTAATAATTT
16557472 AATATTAAGA-TAATAACTTT
1 AATATTAA-ATTAATAA-TTT
16557492 AATATTAAATTAATAA
1 AATATTAAATTAATAA
16557508 AATACTATCA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
17 9 0.29
18 2 0.06
19 3 0.10
20 17 0.55
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (19 bp):
AATATTAAATTAATAATTT
Found at i:16557560 original size:17 final size:17
Alignment explanation
Indices: 16557422--16557549 Score: 59
Period size: 17 Copynumber: 7.5 Consensus size: 17
16557412 AGATTAAATT
*
16557422 TATTAAATT-AATAGAA
1 TATTAAATTAAATAAAA
* * *
16557438 TATTTATTTATAAGATAAA
1 TATTAAATTA-AATA-AAA
**
16557457 TATTAAATTAAATTTAA
1 TATTAAATTAAATAAAA
* **
16557474 TATTAAGATAATAACTTTAA
1 TATTAA-AT--TAAATAAAA
16557494 TATTAAATT-AATAAAA
1 TATTAAATTAAATAAAA
* *
16557510 TACT--ATCAAGAT-AAA
1 TATTAAATTAA-ATAAAA
*
16557525 TATTAAATTAAATATAA
1 TATTAAATTAAATAAAA
16557542 TATTAAAT
1 TATTAAAT
16557550 CTATTAAAAT
Statistics
Matches: 83, Mismatches: 18, Indels: 21
0.68 0.15 0.17
Matches are distributed among these distances:
14 2 0.02
15 7 0.08
16 18 0.22
17 23 0.28
18 7 0.08
19 12 0.14
20 14 0.17
ACGTcount: A:0.54, C:0.02, G:0.03, T:0.41
Consensus pattern (17 bp):
TATTAAATTAAATAAAA
Found at i:16565036 original size:52 final size:52
Alignment explanation
Indices: 16564948--16565051 Score: 163
Period size: 52 Copynumber: 2.0 Consensus size: 52
16564938 ATTTGATTCA
** * *
16564948 GAATTATGACGAATCTATTTTCAGCAAACTATAGAACTAAAATGAAGACTTG
1 GAATTATGAAAAATCTATTTTCAACAAACTAGAGAACTAAAATGAAGACTTG
*
16565000 GAATTATGAAAAATCTATTTTCAACATACTAGAGAACTAAAATGAAGACTTG
1 GAATTATGAAAAATCTATTTTCAACAAACTAGAGAACTAAAATGAAGACTTG
16565052 TACTTCAGAG
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.29
Consensus pattern (52 bp):
GAATTATGAAAAATCTATTTTCAACAAACTAGAGAACTAAAATGAAGACTTG
Found at i:16574128 original size:23 final size:23
Alignment explanation
Indices: 16574082--16574128 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
16574072 TTTATATGAA
**
16574082 AAATATTAAAGTTATGGTGTTAT
1 AAATATTAAAGTTATGGAATTAT
16574105 AAATATTAAAGTT-TGGAATATAT
1 AAATATTAAAGTTATGGAAT-TAT
16574128 A
1 A
16574129 TATGATCGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 4 0.19
23 17 0.81
ACGTcount: A:0.45, C:0.00, G:0.15, T:0.40
Consensus pattern (23 bp):
AAATATTAAAGTTATGGAATTAT
Found at i:16584692 original size:34 final size:33
Alignment explanation
Indices: 16584654--16584718 Score: 78
Period size: 34 Copynumber: 1.9 Consensus size: 33
16584644 CAGTAAAATG
*
16584654 TTTTCCGTAAAATAATTT-CTAGAAAATGATTTAC
1 TTTTCCGGAAAATAATTTACT-GAAAAT-ATTTAC
* *
16584688 TTTTCTGGAAAATGATTTACTGAAAATATTT
1 TTTTCCGGAAAATAATTTACTGAAAATATTT
16584719 TCTACTGTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 4 0.15
34 21 0.78
35 2 0.07
ACGTcount: A:0.37, C:0.09, G:0.11, T:0.43
Consensus pattern (33 bp):
TTTTCCGGAAAATAATTTACTGAAAATATTTAC
Found at i:16584698 original size:20 final size:20
Alignment explanation
Indices: 16584669--16584708 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
16584659 CGTAAAATAA
16584669 TTTCTAGAAAATGATTTACT
1 TTTCTAGAAAATGATTTACT
*
16584689 TTTCTGGAAAATGATTTACT
1 TTTCTAGAAAATGATTTACT
16584709 GAAAATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (20 bp):
TTTCTAGAAAATGATTTACT
Found at i:16585945 original size:22 final size:21
Alignment explanation
Indices: 16585920--16585968 Score: 80
Period size: 22 Copynumber: 2.3 Consensus size: 21
16585910 AACTTGGATG
16585920 CTAAATCAAGTTACAAATGCAA
1 CTAAATCAAGTTACAAATG-AA
16585942 CTAAATCAAGTTACAAATGAA
1 CTAAATCAAGTTACAAATGAA
*
16585963 CAAAAT
1 CTAAAT
16585969 AAACAAAATG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 7 0.27
22 19 0.73
ACGTcount: A:0.53, C:0.16, G:0.08, T:0.22
Consensus pattern (21 bp):
CTAAATCAAGTTACAAATGAA
Found at i:16587295 original size:6 final size:6
Alignment explanation
Indices: 16587284--16587327 Score: 70
Period size: 6 Copynumber: 7.2 Consensus size: 6
16587274 TTTGCAACCC
*
16587284 AAGGGG AAGGGG AAGGGG AAAGGG AAGGGG AAGGGG AAAGGGG A
1 AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG AAGGGG -AAGGGG A
16587328 GAAGAAAGCG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
6 29 0.83
7 6 0.17
ACGTcount: A:0.39, C:0.00, G:0.61, T:0.00
Consensus pattern (6 bp):
AAGGGG
Found at i:16587310 original size:18 final size:18
Alignment explanation
Indices: 16587287--16587325 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
16587277 GCAACCCAAG
16587287 GGGAAGGGGAAGGGGAAA
1 GGGAAGGGGAAGGGGAAA
16587305 GGGAAGGGGAAGGGGAAA
1 GGGAAGGGGAAGGGGAAA
16587323 GGG
1 GGG
16587326 GAGAAGAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.64, T:0.00
Consensus pattern (18 bp):
GGGAAGGGGAAGGGGAAA
Found at i:16592006 original size:27 final size:27
Alignment explanation
Indices: 16591986--16592164 Score: 211
Period size: 27 Copynumber: 6.6 Consensus size: 27
16591976 AATTACCTTT
16591986 GAAGGGTAAAATGACTGAATTACCCCC
1 GAAGGGTAAAATGACTGAATTACCCCC
*
16592013 GAAGGGTAAAATGACTGAATTACCCCT
1 GAAGGGTAAAATGACTGAATTACCCCC
* *
16592040 AAAGGGTAAAATGA-TCGAATTACCCTC
1 GAAGGGTAAAATGACT-GAATTACCCCC
* **
16592067 GAAAGGTAAAATGACTGAATTACCCTT
1 GAAGGGTAAAATGACTGAATTACCCCC
16592094 GAAGGGTAAAATGATCT-AATTACCCCC
1 GAAGGGTAAAATGA-CTGAATTACCCCC
* ** **
16592121 GAAGGGTAAAATAACCAAAACACCCCC
1 GAAGGGTAAAATGACTGAATTACCCCC
16592148 -ATAGGGTAAAATGACTG
1 GA-AGGGTAAAATGACTG
16592165 TTATACCCTT
Statistics
Matches: 130, Mismatches: 17, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
26 3 0.02
27 124 0.95
28 3 0.02
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (27 bp):
GAAGGGTAAAATGACTGAATTACCCCC
Found at i:16592034 original size:54 final size:54
Alignment explanation
Indices: 16591966--16592132 Score: 239
Period size: 54 Copynumber: 3.1 Consensus size: 54
16591956 GAATCATGGG
** *
16591966 AAAATGACCAAATTACCTTTGAAGGGTAAAATGACTGAATTACCCCCGAAGGGT
1 AAAATGACTGAATTACCCTTGAAGGGTAAAATGACTGAATTACCCCCGAAGGGT
* * * *
16592020 AAAATGACTGAATTACCCCTAAAGGGTAAAATGA-TCGAATTACCCTCGAAAGGT
1 AAAATGACTGAATTACCCTTGAAGGGTAAAATGACT-GAATTACCCCCGAAGGGT
16592074 AAAATGACTGAATTACCCTTGAAGGGTAAAATGATCT-AATTACCCCCGAAGGGT
1 AAAATGACTGAATTACCCTTGAAGGGTAAAATGA-CTGAATTACCCCCGAAGGGT
16592128 AAAAT
1 AAAAT
16592133 AACCAAAACA
Statistics
Matches: 99, Mismatches: 11, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
53 1 0.01
54 97 0.98
56 1 0.01
ACGTcount: A:0.40, C:0.18, G:0.19, T:0.23
Consensus pattern (54 bp):
AAAATGACTGAATTACCCTTGAAGGGTAAAATGACTGAATTACCCCCGAAGGGT
Found at i:16592101 original size:81 final size:81
Alignment explanation
Indices: 16591966--16592139 Score: 242
Period size: 81 Copynumber: 2.1 Consensus size: 81
16591956 GAATCATGGG
* * *
16591966 AAAATGACCAAATTACCTTTGAAGGGTAAAATGACTGAATTACCCCCGAAGGGTAAAATGA-CTG
1 AAAATGACCAAATTACCCTCGAAAGGTAAAATGACTGAATTACCCCCGAAGGGTAAAATGATCT-
*
16592030 AATTACCCCTAAAGGGT
65 AATTACCCCCAAAGGGT
* * **
16592047 AAAATGATCGAATTACCCTCGAAAGGTAAAATGACTGAATTACCCTTGAAGGGTAAAATGATCTA
1 AAAATGACCAAATTACCCTCGAAAGGTAAAATGACTGAATTACCCCCGAAGGGTAAAATGATCTA
*
16592112 ATTACCCCCGAAGGGT
66 ATTACCCCCAAAGGGT
*
16592128 AAAATAACCAAA
1 AAAATGACCAAA
16592140 ACACCCCCAT
Statistics
Matches: 80, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
81 78 0.98
82 2 0.03
ACGTcount: A:0.41, C:0.18, G:0.18, T:0.22
Consensus pattern (81 bp):
AAAATGACCAAATTACCCTCGAAAGGTAAAATGACTGAATTACCCCCGAAGGGTAAAATGATCTA
ATTACCCCCAAAGGGT
Found at i:16592375 original size:26 final size:26
Alignment explanation
Indices: 16592335--16592405 Score: 70
Period size: 26 Copynumber: 2.7 Consensus size: 26
16592325 TTGCCACATA
* * * *
16592335 TACTGTTAGTGGCAGCTTTCCTGCGT
1 TACTGTTACTAGCAGCTTTACTGCAT
* *
16592361 TACTGTTACTTGCAGCATTACTGCAT
1 TACTGTTACTAGCAGCTTTACTGCAT
* *
16592387 CACTATTACTAGCAGCTTT
1 TACTGTTACTAGCAGCTTT
16592406 GCTACGATAT
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.20, C:0.24, G:0.18, T:0.38
Consensus pattern (26 bp):
TACTGTTACTAGCAGCTTTACTGCAT
Found at i:16592570 original size:28 final size:28
Alignment explanation
Indices: 16592518--16592604 Score: 102
Period size: 28 Copynumber: 3.0 Consensus size: 28
16592508 TGCATTGCAT
* * *
16592518 TGTTACTGTATTGGGATACGACCCACAC
1 TGTTACTGTATTGGGCTAAGGCCCACAC
*
16592546 TGTTATTGTATTGGGCTAAGGCCCACACAC
1 TGTTACTGTATTGGGCTAAGG-CC-CACAC
* *
16592576 TGTTACTGTAATGGACTAAGGCCCACAC
1 TGTTACTGTATTGGGCTAAGGCCCACAC
16592604 T
1 T
16592605 ATACTGCTAC
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.46
29 4 0.08
30 23 0.46
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (28 bp):
TGTTACTGTATTGGGCTAAGGCCCACAC
Found at i:16592577 original size:30 final size:30
Alignment explanation
Indices: 16592541--16592603 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
16592531 GGATACGACC
* * *
16592541 CACACTGTTATTGTATTGGGCTAAGGCCCA
1 CACACTGTTACTGTAATGGACTAAGGCCCA
16592571 CACACTGTTACTGTAATGGACTAAGGCCCA
1 CACACTGTTACTGTAATGGACTAAGGCCCA
16592601 CAC
1 CAC
16592604 TATACTGCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (30 bp):
CACACTGTTACTGTAATGGACTAAGGCCCA
Found at i:16592628 original size:33 final size:30
Alignment explanation
Indices: 16592541--16592634 Score: 91
Period size: 30 Copynumber: 3.0 Consensus size: 30
16592531 GGATACGACC
* * *
16592541 CACACTGTTATTGTATTGGGCTAAGGCCCA
1 CACACTGCTACTGTAATGGGCTAAGGCCCA
* *
16592571 CACACTGTTACTGTAATGGACTAAGGCCCA
1 CACACTGCTACTGTAATGGGCTAAGGCCCA
16592601 CACTATACTGCTACTG-AATAGGGCTAAGGGCCCA
1 CAC---ACTGCTACTGTAAT-GGGCTAA-GGCCCA
16592635 GACTGTTACT
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
30 30 0.56
32 3 0.06
33 15 0.28
34 6 0.11
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (30 bp):
CACACTGCTACTGTAATGGGCTAAGGCCCA
Found at i:16592922 original size:32 final size:32
Alignment explanation
Indices: 16592886--16592954 Score: 120
Period size: 32 Copynumber: 2.2 Consensus size: 32
16592876 GGTTTTTCCT
*
16592886 TGAATATTTTAAACTACTAGATTAGGAGCTGA
1 TGAATATTTTAAACTACTAGATTAGGAGATGA
*
16592918 TGAATATTTTAAACTATTAGATTAGGAGATGA
1 TGAATATTTTAAACTACTAGATTAGGAGATGA
16592950 TGAAT
1 TGAAT
16592955 TTTAAATAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.39, C:0.06, G:0.19, T:0.36
Consensus pattern (32 bp):
TGAATATTTTAAACTACTAGATTAGGAGATGA
Found at i:16599467 original size:54 final size:55
Alignment explanation
Indices: 16599319--16599594 Score: 316
Period size: 54 Copynumber: 5.1 Consensus size: 55
16599309 AATCATGGGC
** * *
16599319 AAATGACCGAATTACCCTTGAAAGGAAAAAT-AACTGAATTACCC-CTGAAGGGTA
1 AAATGACCGAATTACCCCCGAAGGGTAAAATGAACTGAATTACCCTC-GAAGGGTA
* * * * * *
16599373 AAATAACCTAATTA-CCCCGAAAGGTAAAATGATC-GAATTACCCTCAAAAGGTA
1 AAATGACCGAATTACCCCCGAAGGGTAAAATGAACTGAATTACCCTCGAAGGGTA
* *
16599426 AAATGACCGAATTACCCCCGAAGGGTAAAATGATC-GAATTACCCCCGAAGGGTA
1 AAATGACCGAATTACCCCCGAAGGGTAAAATGAACTGAATTACCCTCGAAGGGTA
** *
16599480 AAATGATTGAAATACCCCCGAAGGGTAAAAT-AACTGAATTACCCTCGAAGGGTA
1 AAATGACCGAATTACCCCCGAAGGGTAAAATGAACTGAATTACCCTCGAAGGGTA
* * *
16599534 AAATGATCGAATTACCCTCGAAGGGTAAAA-GAACTGAAATACCCTC-ATAGGGTA
1 AAATGACCGAATTACCCCCGAAGGGTAAAATGAACTGAATTACCCTCGA-AGGGTA
16599588 AAATGAC
1 AAATGAC
16599595 TATTATACCC
Statistics
Matches: 192, Mismatches: 24, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
53 43 0.22
54 149 0.78
ACGTcount: A:0.42, C:0.20, G:0.19, T:0.20
Consensus pattern (55 bp):
AAATGACCGAATTACCCCCGAAGGGTAAAATGAACTGAATTACCCTCGAAGGGTA
Found at i:16599510 original size:81 final size:80
Alignment explanation
Indices: 16599345--16599591 Score: 318
Period size: 81 Copynumber: 3.1 Consensus size: 80
16599335 CTTGAAAGGA
* * * * * *
16599345 AAAATAACTGAATTACCCCTGAAGGGTAAAATAACCTAATTA-CCCCGAAAGGTAAAATGATCGA
1 AAAATAACTGAATTACCCCCGAAGGGTAAAATGATCGAATTACCCCCGAAGGGTAAAATGATTGA
* *
16599409 ATTACCCTCAAAAGGT
66 AATACCCTC-AAGGGT
* *
16599425 AAAATGACCGAATTACCCCCGAAGGGTAAAATGATCGAATTACCCCCGAAGGGTAAAATGATTGA
1 AAAATAACTGAATTACCCCCGAAGGGTAAAATGATCGAATTACCCCCGAAGGGTAAAATGATTGA
*
16599490 AATACCCCCGAAGGGT
66 AATACCCTC-AAGGGT
* * *
16599506 AAAATAACTGAATTACCCTCGAAGGGTAAAATGATCGAATTACCCTCGAAGGGTAAAA-GAACTG
1 AAAATAACTGAATTACCCCCGAAGGGTAAAATGATCGAATTACCCCCGAAGGGTAAAATG-ATTG
16599570 AAATACCCTCATAGGGT
65 AAATACCCTCA-AGGGT
16599587 AAAAT
1 AAAAT
16599592 GACTATTATA
Statistics
Matches: 146, Mismatches: 18, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
80 38 0.26
81 108 0.74
ACGTcount: A:0.42, C:0.20, G:0.19, T:0.20
Consensus pattern (80 bp):
AAAATAACTGAATTACCCCCGAAGGGTAAAATGATCGAATTACCCCCGAAGGGTAAAATGATTGA
AATACCCTCAAGGGT
Found at i:16599604 original size:27 final size:27
Alignment explanation
Indices: 16599319--16599595 Score: 282
Period size: 27 Copynumber: 10.3 Consensus size: 27
16599309 AATCATGGGC
* * * *
16599319 AAATGACCGAATTACCCTTGAAAGGAA
1 AAATGACTGAATTACCCTCGAAGGGTA
*
16599346 AAATAACTGAATTACCC-CTGAAGGGTA
1 AAATGACTGAATTACCCTC-GAAGGGTA
* *
16599373 AAATAACCT-AATTACCC-CGAAAGGTA
1 AAATGA-CTGAATTACCCTCGAAGGGTA
* *
16599399 AAATGA-TCGAATTACCCTCAAAAGGTA
1 AAATGACT-GAATTACCCTCGAAGGGTA
* *
16599426 AAATGACCGAATTACCCCCGAAGGGTA
1 AAATGACTGAATTACCCTCGAAGGGTA
*
16599453 AAATGA-TCGAATTACCCCCGAAGGGTA
1 AAATGACT-GAATTACCCTCGAAGGGTA
* * *
16599480 AAATGATTGAAATACCCCCGAAGGGTA
1 AAATGACTGAATTACCCTCGAAGGGTA
*
16599507 AAATAACTGAATTACCCTCGAAGGGTA
1 AAATGACTGAATTACCCTCGAAGGGTA
16599534 AAATGA-TCGAATTACCCTCGAAGGGTA
1 AAATGACT-GAATTACCCTCGAAGGGTA
*
16599561 AAA-GAACTGAAATACCCTC-ATAGGGTA
1 AAATG-ACTGAATTACCCTCGA-AGGGTA
16599588 AAATGACT
1 AAATGACT
16599596 ATTATACCCC
Statistics
Matches: 217, Mismatches: 20, Indels: 26
0.83 0.08 0.10
Matches are distributed among these distances:
24 1 0.00
26 23 0.11
27 188 0.87
28 5 0.02
ACGTcount: A:0.42, C:0.20, G:0.19, T:0.20
Consensus pattern (27 bp):
AAATGACTGAATTACCCTCGAAGGGTA
Found at i:16600327 original size:32 final size:32
Alignment explanation
Indices: 16600291--16600354 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
16600281 GGTTTTTCCT
16600291 TGAATATTTTAAACTACTAGATTAGGAGATGA
1 TGAATATTTTAAACTACTAGATTAGGAGATGA
*
16600323 TGAATATTTTAAACTGCTAGATTAGGAGATGA
1 TGAATATTTTAAACTACTAGATTAGGAGATGA
16600355 CGACTTTTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.39, C:0.06, G:0.20, T:0.34
Consensus pattern (32 bp):
TGAATATTTTAAACTACTAGATTAGGAGATGA
Found at i:16605171 original size:32 final size:32
Alignment explanation
Indices: 16605116--16605193 Score: 104
Period size: 32 Copynumber: 2.5 Consensus size: 32
16605106 GAATGGCTAC
* **
16605116 AAGCCATAAGTA-CAGTAATATGATTGGCACA
1 AAGCCATCAGTAGCAGTAATATGATCAGCACA
*
16605147 AAGCCATCAGTAGCAGTGATATGATCAGCACA
1 AAGCCATCAGTAGCAGTAATATGATCAGCACA
*
16605179 CAGCCATCAGTAGCA
1 AAGCCATCAGTAGCA
16605194 TCGCAGAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
31 11 0.27
32 30 0.73
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.19
Consensus pattern (32 bp):
AAGCCATCAGTAGCAGTAATATGATCAGCACA
Found at i:16605245 original size:26 final size:26
Alignment explanation
Indices: 16605193--16605246 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
16605183 CATCAGTAGC
* *
16605193 ATCGCAGAAAATCTGCCAGCAATAGT
1 ATCGCAGAAAAGCTGCCAGCAACAGT
* * *
16605219 ATCGCAGCAAAGCTGCTAGTAACAGT
1 ATCGCAGAAAAGCTGCCAGCAACAGT
16605245 AT
1 AT
16605247 ATGTGGCCAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.20
Consensus pattern (26 bp):
ATCGCAGAAAAGCTGCCAGCAACAGT
Found at i:16605395 original size:24 final size:24
Alignment explanation
Indices: 16605367--16605422 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
16605357 CTCAGAATTG
16605367 GTCATACAAATCACAGAAAAATCA
1 GTCATACAAATCACAGAAAAATCA
* *
16605391 GTCATAAAAATCACAGACAAATCA
1 GTCATACAAATCACAGAAAAATCA
16605415 GTCATACA
1 GTCATACA
16605423 TAACATAAGG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.52, C:0.21, G:0.09, T:0.18
Consensus pattern (24 bp):
GTCATACAAATCACAGAAAAATCA
Found at i:16605631 original size:27 final size:27
Alignment explanation
Indices: 16605601--16605838 Score: 211
Period size: 27 Copynumber: 8.8 Consensus size: 27
16605591 CATCACGGTC
16605601 ATTTTACCCTATAAGGGTATTTTGGTA
1 ATTTTACCCTATAAGGGTATTTTGGTA
* *
16605628 ATTTTACCC-ATCGAGGGTATTTTTGTA
1 ATTTTACCCTAT-AAGGGTATTTTGGTA
*
16605655 ATTTTA-CCTATCAGGGGTATTTTGGTA
1 ATTTTACCCTAT-AAGGGTATTTTGGTA
* *
16605682 ATTTTA-CCTAATAGGGGTATTTTAGTA
1 ATTTTACCCT-ATAAGGGTATTTTGGTA
* ** **
16605709 A-TTTAACCTAATGGGGGTATTTCAGTA
1 ATTTTACCCT-ATAAGGGTATTTTGGTA
* *
16605736 ATTTTA-CATATCGAGGGTATTTTGGTA
1 ATTTTACCCTAT-AAGGGTATTTTGGTA
*
16605763 ATTTTACCC-ATTAGGGGTATTTTGGTA
1 ATTTTACCCTA-TAAGGGTATTTTGGTA
* *
16605790 ATTTTACCCT-TCGAGGGTATTTTAGTA
1 ATTTTACCCTAT-AAGGGTATTTTGGTA
**
16605817 ATTTTACCCTGCAAGGGTATTT
1 ATTTTACCCTATAAGGGTATTT
16605839 CGATATTTGC
Statistics
Matches: 180, Mismatches: 20, Indels: 22
0.81 0.09 0.10
Matches are distributed among these distances:
26 11 0.06
27 161 0.89
28 8 0.04
ACGTcount: A:0.25, C:0.12, G:0.20, T:0.43
Consensus pattern (27 bp):
ATTTTACCCTATAAGGGTATTTTGGTA
Found at i:16605674 original size:54 final size:53
Alignment explanation
Indices: 16605601--16605824 Score: 279
Period size: 54 Copynumber: 4.2 Consensus size: 53
16605591 CATCACGGTC
* *
16605601 ATTTTACCCTATAAGGGTATTTTGGTAATTTTACCCATCGAGGGTATTTTTGTA
1 ATTTTA-CCTATAGGGGTATTTTGGTAATTTTACCCATCGAGGGTATTTTAGTA
* *
16605655 ATTTTACCTATCAGGGGTATTTTGGTAATTTTACCTAATAG-GGGTATTTTAGTA
1 ATTTTACCTAT-AGGGGTATTTTGGTAATTTTACC-CATCGAGGGTATTTTAGTA
* * ** ** *
16605709 ATTTAACCTAATGGGGGTATTTCAGTAATTTTACATATCGAGGGTATTTTGGTA
1 ATTTTACCT-ATAGGGGTATTTTGGTAATTTTACCCATCGAGGGTATTTTAGTA
* *
16605763 ATTTTACCCATTAGGGGTATTTTGGTAATTTTACCCTTCGAGGGTATTTTAGTA
1 ATTTTACCTA-TAGGGGTATTTTGGTAATTTTACCCATCGAGGGTATTTTAGTA
16605817 ATTTTACC
1 ATTTTACC
16605825 CTGCAAGGGT
Statistics
Matches: 144, Mismatches: 21, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
53 9 0.06
54 130 0.90
55 5 0.03
ACGTcount: A:0.25, C:0.12, G:0.20, T:0.44
Consensus pattern (53 bp):
ATTTTACCTATAGGGGTATTTTGGTAATTTTACCCATCGAGGGTATTTTAGTA
Found at i:16605710 original size:81 final size:81
Alignment explanation
Indices: 16605601--16605824 Score: 301
Period size: 81 Copynumber: 2.8 Consensus size: 81
16605591 CATCACGGTC
* *
16605601 ATTTTACCCT-ATAAGGGTATTTTGGTAATTTTACCCATCGAGGGTATTTTTGTAATTTTACCTA
1 ATTTTA-CCTAATAGGGGTATTTTGGTAATTTTACCCATCGAGGGTATTTTAGTAATTTTACCTA
16605665 TC-AGGGGTATTTTGGTA
65 TCGA-GGGTATTTTGGTA
* * * * * *
16605682 ATTTTACCTAATAGGGGTATTTTAGTAATTTAACCTAAT-GGGGGTATTTCAGTAATTTTACATA
1 ATTTTACCTAATAGGGGTATTTTGGTAATTTTACC-CATCGAGGGTATTTTAGTAATTTTACCTA
16605746 TCGAGGGTATTTTGGTA
65 TCGAGGGTATTTTGGTA
* * *
16605763 ATTTTACCCATTAGGGGTATTTTGGTAATTTTACCCTTCGAGGGTATTTTAGTAATTTTACC
1 ATTTTACCTAATAGGGGTATTTTGGTAATTTTACCCATCGAGGGTATTTTAGTAATTTTACC
16605825 CTGCAAGGGT
Statistics
Matches: 122, Mismatches: 17, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
80 4 0.03
81 115 0.94
82 3 0.02
ACGTcount: A:0.25, C:0.12, G:0.20, T:0.44
Consensus pattern (81 bp):
ATTTTACCTAATAGGGGTATTTTGGTAATTTTACCCATCGAGGGTATTTTAGTAATTTTACCTAT
CGAGGGTATTTTGGTA
Found at i:16612443 original size:43 final size:45
Alignment explanation
Indices: 16612382--16612489 Score: 131
Period size: 44 Copynumber: 2.5 Consensus size: 45
16612372 AACGCCATCA
16612382 TCCCAGAC-GTGGTCTTACATGT-AATCACATA-TCGATGCC-ACTG
1 TCCCAGACAGTGGTCTTACATGTAAATCACA-AGTCGATGCCAAC-G
*
16612425 TCCCAGACAG-GGTCTTACACGTAAATCACAAGTCGATGCCAACG
1 TCCCAGACAGTGGTCTTACATGTAAATCACAAGTCGATGCCAACG
16612469 TCCCA-A-ATGTGGTCTTACATG
1 TCCCAGACA-GTGGTCTTACATG
16612490 ACAACACATA
Statistics
Matches: 57, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
42 1 0.02
43 22 0.39
44 32 0.56
45 2 0.04
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (45 bp):
TCCCAGACAGTGGTCTTACATGTAAATCACAAGTCGATGCCAACG
Found at i:16618135 original size:12 final size:12
Alignment explanation
Indices: 16618110--16618148 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
16618100 ACTCACTTCT
* *
16618110 TTACTTACTCAC
1 TTACTTGCTTAC
*
16618122 TTACTTGTTTAC
1 TTACTTGCTTAC
16618134 TTACTTGCTTAC
1 TTACTTGCTTAC
16618146 TTA
1 TTA
16618149 AATAACTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.05, T:0.51
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:16618491 original size:50 final size:50
Alignment explanation
Indices: 16618398--16618640 Score: 245
Period size: 50 Copynumber: 4.7 Consensus size: 50
16618388 TTTTCTGTAC
* * * ** * *
16618398 TGCCAATGTCATATCCCAGATATGGTCTTACACT-GGAGTTCTCATGTTGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACA-TGGGACCTCTCATCTCGG
* **
16618448 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* *
16618498 TGCCAACGCGATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
* * * * *
16618548 TGTCAATGCCATGTCTCAGACATGGTTTTACATGGGACCTTTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACC--TC-TCATCTC---GG
* *
16618604 TGTCAATGCCATGTCCCATACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
16618641 TCTCATTCCT
Statistics
Matches: 161, Mismatches: 25, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
50 118 0.73
52 2 0.01
53 6 0.04
56 35 0.22
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.29
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:16623227 original size:43 final size:44
Alignment explanation
Indices: 16623158--16623274 Score: 143
Period size: 44 Copynumber: 2.7 Consensus size: 44
16623148 GTTTCATACA
* * *
16623158 ATGCCATCGTCCCAGACATGGTCTTACATGT-AATCACATA-TCG
1 ATGCCAACGTCCCAGACAGGGTCTTACACGTAAATCACA-AGTCG
*
16623201 ATGTC-ACTGTCCCAGACAGGGTCTTACACGTAAATCACAAGTCG
1 ATGCCAAC-GTCCCAGACAGGGTCTTACACGTAAATCACAAGTCG
16623245 ATGCCAACGTCCCAGAC-GTGGTCTTACACG
1 ATGCCAACGTCCCAGACAG-GGTCTTACACG
16623275 ACAACACATA
Statistics
Matches: 64, Mismatches: 5, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
42 1 0.02
43 27 0.42
44 34 0.53
45 2 0.03
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (44 bp):
ATGCCAACGTCCCAGACAGGGTCTTACACGTAAATCACAAGTCG
Found at i:16624106 original size:5 final size:6
Alignment explanation
Indices: 16624087--16624116 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
16624077 CGAATGTGGC
16624087 TTTCTT TTTCTT TTTCTT TTTC-T TTTCTT T
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT T
16624117 AGCTAGTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTCTT
Found at i:16627923 original size:28 final size:29
Alignment explanation
Indices: 16627891--16627969 Score: 81
Period size: 29 Copynumber: 2.8 Consensus size: 29
16627881 TTTTGTTCCG
*
16627891 ATTGCA-TTCTGGTGC-CCTTTATTCTGAC
1 ATTGCACTTC-GGTGCACCTCTATTCTGAC
**
16627919 ATTGCACTTCGGTGCACCTCTATTCTGTT
1 ATTGCACTTCGGTGCACCTCTATTCTGAC
* * *
16627948 AATGCACTTTGGTGCAACTCTA
1 ATTGCACTTCGGTGCACCTCTA
16627970 CATATGTTTC
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
28 11 0.26
29 32 0.74
ACGTcount: A:0.18, C:0.25, G:0.18, T:0.39
Consensus pattern (29 bp):
ATTGCACTTCGGTGCACCTCTATTCTGAC
Found at i:16628619 original size:41 final size:42
Alignment explanation
Indices: 16628573--16628815 Score: 181
Period size: 42 Copynumber: 5.8 Consensus size: 42
16628563 TTACAGAAAT
* *
16628573 AAACGCTACTAAAGGTCATGTTCTTTAGCAGCGCTT-CAAAA
1 AAACGCTGCTAAAGGTCATGTTCTTTAGCGGCGCTTCCAAAA
* ** *
16628614 AAACGCTGCAAAAGGTCATGTTCTTTAGCGGCGCTTCCTCAG
1 AAACGCTGCTAAAGGTCATGTTCTTTAGCGGCGCTTCCAAAA
* * * *
16628656 AAACGCCGCTAAAGGTAATGTTCTTTAGCGGCGCATACC-AAC
1 AAACGCTGCTAAAGGTCATGTTCTTTAGCGGCGC-TTCCAAAA
* ** ** * *
16628698 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTCTC-CAC
1 AAACGCTGCTAAAGGTCATGTTCTTTAGCGGCGC-TTC-CAAAA
* * * ** *
16628741 AAACGCCGCTAAAAGTAATGTTCTTTAGCGGCATTTTTTCC--AC
1 AAACGCTGCTAAAGGTCATGTTCTTTAGCGGC---GCTTCCAAAA
*
16628784 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGC
1 AAACGCTGCTAAAGGTCATGTTCTTTAGCGGC
16628816 AATTTTTTCC
Statistics
Matches: 166, Mismatches: 30, Indels: 10
0.81 0.15 0.05
Matches are distributed among these distances:
41 33 0.20
42 65 0.39
43 64 0.39
44 1 0.01
45 3 0.02
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (42 bp):
AAACGCTGCTAAAGGTCATGTTCTTTAGCGGCGCTTCCAAAA
Found at i:16628677 original size:42 final size:42
Alignment explanation
Indices: 16628581--16628815 Score: 224
Period size: 43 Copynumber: 5.6 Consensus size: 42
16628571 ATAAACGCTA
* * ** * *
16628581 CTAAAGGTCATGTTCTTTAGCAGCGCTT-CAAAAAAACGCTG
1 CTAAAGGTAATGTTCTTTAGCGGCGCTTCCTCACAAACGCCG
* * *
16628622 CAAAAGGTCATGTTCTTTAGCGGCGCTTCCTCAGAAACGCCG
1 CTAAAGGTAATGTTCTTTAGCGGCGCTTCCTCACAAACGCCG
* *
16628664 CTAAAGGTAATGTTCTTTAGCGGCGCATACC-AACAAACGCCG
1 CTAAAGGTAATGTTCTTTAGCGGCGC-TTCCTCACAAACGCCG
* ** *
16628706 CTAAA-GAACATGACCTTTAGCGGCGCTTTCTCCACAAACGCCG
1 CTAAAGGTA-ATGTTCTTTAGCGGCGCTTCCT-CACAAACGCCG
* ** **
16628749 CTAAAAGTAATGTTCTTTAGCGGCATTTTTTCCACAAACGCCG
1 CTAAAGGTAATGTTCTTTAGCGGCGCTTCCT-CACAAACGCCG
*
16628792 CTAAAGGTCATGTTCTTTAGCGGC
1 CTAAAGGTAATGTTCTTTAGCGGC
16628816 AATTTTTTCC
Statistics
Matches: 163, Mismatches: 25, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
41 30 0.18
42 62 0.38
43 69 0.42
44 2 0.01
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (42 bp):
CTAAAGGTAATGTTCTTTAGCGGCGCTTCCTCACAAACGCCG
Found at i:16628753 original size:43 final size:42
Alignment explanation
Indices: 16628631--16628864 Score: 204
Period size: 43 Copynumber: 5.5 Consensus size: 42
16628621 GCAAAAGGTC
* * *
16628631 ATGTTCTTTAGCGGCGCTTCCT-CAGAAACGCCGCTAAAGGTA
1 ATGTTCTTTAGCGGCGCTTTCTCCACAAACGCCGCTAAA-GAA
* * *
16628673 ATGTTCTTTAGCGGCGCATAC-CAACAAACGCCGCTAAAGAA
1 ATGTTCTTTAGCGGCGCTTTCTCCACAAACGCCGCTAAAGAA
** *
16628714 CATGACCTTTAGCGGCGCTTTCTCCACAAACGCCGCTAAAAGTA
1 -ATGTTCTTTAGCGGCGCTTTCTCCACAAACGCCGCT-AAAGAA
** * **
16628758 ATGTTCTTTAGCGGCATTTTTTCCACAAACGCCGCTAAAGGTC
1 ATGTTCTTTAGCGGCGCTTTCTCCACAAACGCCGCTAAA-GAA
** * * *
16628801 ATGTTCTTTAGCGGCAATTTTTTCCACAAACGCCTCTATAGAA
1 ATGTTCTTTAGCGGC-GCTTTCTCCACAAACGCCGCTAAAGAA
*
16628844 TATG-ACTTTTAGCGGCGCTTT
1 -ATGTTC-TTTAGCGGCGCTTT
16628865 TATAAAAATG
Statistics
Matches: 160, Mismatches: 24, Indels: 15
0.80 0.12 0.08
Matches are distributed among these distances:
41 2 0.01
42 53 0.33
43 66 0.41
44 39 0.24
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (42 bp):
ATGTTCTTTAGCGGCGCTTTCTCCACAAACGCCGCTAAAGAA
Found at i:16629272 original size:21 final size:21
Alignment explanation
Indices: 16629248--16629294 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
16629238 TTCTTTTGAA
* *
16629248 CCTCTACTTCTCTCGCTGTAG
1 CCTCTACTTCCCTCACTGTAG
*
16629269 CCTCTACTTCCCTCACTGTCG
1 CCTCTACTTCCCTCACTGTAG
16629290 CCTCT
1 CCTCT
16629295 GCTTTAAGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.09, C:0.45, G:0.11, T:0.36
Consensus pattern (21 bp):
CCTCTACTTCCCTCACTGTAG
Found at i:16632309 original size:9 final size:9
Alignment explanation
Indices: 16632292--16632705 Score: 181
Period size: 9 Copynumber: 48.4 Consensus size: 9
16632282 TAAGTATAAT
*
16632292 TAAGCTATG
1 TAAGTTATG
16632301 TAAGTTATG
1 TAAGTTATG
16632310 TAAGTTATG
1 TAAGTTATG
16632319 T-A-TTATG
1 TAAGTTATG
16632326 TAAGTTAT-
1 TAAGTTATG
*
16632334 TTA-TTATG
1 TAAGTTATG
* *
16632342 AAAATTATG
1 TAAGTTATG
16632351 TAAGTTATG
1 TAAGTTATG
16632360 T-A-TTATG
1 TAAGTTATG
*
16632367 -AATATTATG
1 TAA-GTTATG
*
16632376 TAAGTTCTG
1 TAAGTTATG
16632385 -AA-TTATG
1 TAAGTTATG
**
16632392 TAAGTGCTG
1 TAAGTTATG
16632401 T-A-TTATG
1 TAAGTTATG
16632408 ATCAA-TTATG
1 -T-AAGTTATG
16632418 TAAGTTATG
1 TAAGTTATG
16632427 T-A-TTATG
1 TAAGTTATG
* *
16632434 AAAATTATG
1 TAAGTTATG
*
16632443 TAAGTTGTG
1 TAAGTTATG
*
16632452 T-ACTGTA--
1 TAAGT-TATG
16632459 TAAGTTATG
1 TAAGTTATG
16632468 TAAGTTATG
1 TAAGTTATG
* *
16632477 AAAATTATG
1 TAAGTTATG
16632486 TAAGTTATG
1 TAAGTTATG
*
16632495 TAAGTT-TT
1 TAAGTTATG
*
16632503 TTA-TTATG
1 TAAGTTATG
* * *
16632511 AAAATTAAG
1 TAAGTTATG
*
16632520 TAACTTATG
1 TAAGTTATG
16632529 T-A-TTATG
1 TAAGTTATG
* *
16632536 AAAATTATG
1 TAAGTTATG
*
16632545 TAAGTTCA-A
1 TAAGTT-ATG
16632554 T-A-TTATG
1 TAAGTTATG
16632561 TAAGTTATG
1 TAAGTTATG
*
16632570 T-A-CTATG
1 TAAGTTATG
* *
16632577 AAAATTATG
1 TAAGTTATG
16632586 TAAGTTATG
1 TAAGTTATG
* *
16632595 TATGTTGTG
1 TAAGTTATG
*
16632604 T-ATTATATG
1 TAAGT-TATG
16632613 TAAGTTATG
1 TAAGTTATG
*
16632622 TATGTGTATAATG
1 TA--AGT-T-ATG
* *
16632635 AAAGTTACG
1 TAAGTTATG
*
16632644 TAAGTTGTG
1 TAAGTTATG
*
16632653 T-A-TAATG
1 TAAGTTATG
16632660 TAAGTTATG
1 TAAGTTATG
*
16632669 TAAGTTAAG
1 TAAGTTATG
*
16632678 T-A-TAAT-
1 TAAGTTATG
*
16632684 TAAGCTATG
1 TAAGTTATG
16632693 TAAGTTATG
1 TAAGTTATG
16632702 TAAG
1 TAAG
16632706 ATGTGATAGT
Statistics
Matches: 299, Mismatches: 65, Indels: 82
0.67 0.15 0.18
Matches are distributed among these distances:
6 2 0.01
7 52 0.17
8 37 0.12
9 187 0.63
10 12 0.04
11 4 0.01
12 1 0.00
13 4 0.01
ACGTcount: A:0.36, C:0.02, G:0.18, T:0.44
Consensus pattern (9 bp):
TAAGTTATG
Found at i:16632325 original size:25 final size:25
Alignment explanation
Indices: 16632297--16632550 Score: 123
Period size: 25 Copynumber: 10.4 Consensus size: 25
16632287 ATAATTAAGC
16632297 TATGTAAGTTATGTAAGTTATG-TAT
1 TATGTAAGTTATGTAA-TTATGATAT
* *
16632322 TATGTAAGTTAT-TTATTATGAAAAT
1 TATGTAAGTTATGTAATTATG-ATAT
16632347 TATGTAAGTTATGT-ATTATGAATAT
1 TATGTAAGTTATGTAATTATG-ATAT
*
16632372 TATGTAAGTTCTG-AATTATG-TA-
1 TATGTAAGTTATGTAATTATGATAT
* *
16632394 -A-GT--GCTGTAT-T-ATGATCA-AT
1 TATGTAAG-T-TATGTAATTATGATAT
*
16632414 TATGTAAGTTATGT-ATTATGAAAAT
1 TATGTAAGTTATGTAATTATG-ATAT
* *
16632439 TATGTAAGTTGTGTACTGTAT-A-AGT
1 TATGTAAGTTATGTAAT-TATGATA-T
*
16632464 TATGTAAGTTATGAAAATTATG-TAAGT
1 TATGTAAGTTATG-TAATTATGAT-A-T
* * *
16632491 TATGTAAGTT-TTTTATTATGAAAAT
1 TATGTAAGTTATGTAATTATG-ATAT
* * *
16632516 TAAGTAACTTATGT-ATTATGAAAAT
1 TATGTAAGTTATGTAATTATG-ATAT
16632541 TATGTAAGTT
1 TATGTAAGTT
16632551 CAATATTATG
Statistics
Matches: 180, Mismatches: 23, Indels: 52
0.71 0.09 0.20
Matches are distributed among these distances:
18 1 0.01
19 6 0.03
20 4 0.02
21 2 0.01
22 5 0.03
23 13 0.07
24 5 0.03
25 120 0.67
26 8 0.04
27 16 0.09
ACGTcount: A:0.36, C:0.02, G:0.17, T:0.45
Consensus pattern (25 bp):
TATGTAAGTTATGTAATTATGATAT
Found at i:16632326 original size:16 final size:16
Alignment explanation
Indices: 16632305--16632624 Score: 143
Period size: 16 Copynumber: 19.1 Consensus size: 16
16632295 GCTATGTAAG
16632305 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
*
16632321 TTATGTAAGTTATTTA
1 TTATGTAAGTTATGTA
* *
16632337 TTATGAAAATTATGTAA
1 TTATGTAAGTTATGT-A
16632354 GTTATGT-A-TTATGAATA
1 -TTATGTAAGTTATG--TA
* *
16632371 TTATGTAAGTTCTGAA
1 TTATGTAAGTTATGTA
**
16632387 TTATGTAAGTGCTGTA
1 TTATGTAAGTTATGTA
16632403 TTATGATCAA-TTATGTAA
1 TTATG-T-AAGTTATGT-A
*
16632421 GTTATGT-A-TTATGAAAA
1 -TTATGTAAGTTATG--TA
*
16632438 TTATGTAAGTTGTGTA
1 TTATGTAAGTTATGTA
* * *
16632454 CTGTATAAGTTATGTAA
1 TTATGTAAGTTATGT-A
* *
16632471 GTTATGAAAATTATGTAA
1 -TTATGTAAGTTATGT-A
* *
16632489 GTTATGTAAGTTTTTTA
1 -TTATGTAAGTTATGTA
* * *
16632506 TTATGAAAATTAAGTAA
1 TTATGTAAGTTATGT-A
*
16632523 CTTATGT-A-TTATGAAAA
1 -TTATGTAAGTTATG--TA
*
16632540 TTATGTAAGTTCA-ATA
1 TTATGTAAGTT-ATGTA
16632556 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
* * *
16632572 CTATGAAAATTATGTAA
1 TTATGTAAGTTATGT-A
* *
16632589 GTTATGTATGTTGTGTA
1 -TTATGTAAGTTATGTA
16632606 TTATATGTAAGTTATGTA
1 -T-TATGTAAGTTATGTA
16632624 T
1 T
16632625 GTGTATAATG
Statistics
Matches: 228, Mismatches: 49, Indels: 53
0.69 0.15 0.16
Matches are distributed among these distances:
15 1 0.00
16 128 0.56
17 21 0.09
18 72 0.32
19 6 0.03
ACGTcount: A:0.35, C:0.02, G:0.17, T:0.46
Consensus pattern (16 bp):
TTATGTAAGTTATGTA
Found at i:16632422 original size:92 final size:93
Alignment explanation
Indices: 16632320--16632490 Score: 258
Period size: 92 Copynumber: 1.8 Consensus size: 93
16632310 TAAGTTATGT
* *
16632320 ATTATGTAAGTTATTTATTATGAAAATTATGTAAGTTATGTA-T-TATGAATATTATGTAAGTTC
1 ATTATGTAAGTTATGTATTATGAAAATTATGTAAGTTATGTACTGTAT-AA-ATTATGTAAGTTA
16632383 TG-AATTATGTAAGTGCTGTATTATGATCA
64 TGAAATTATGTAAGTGCTGTATTATGATCA
* *
16632412 ATTATGTAAGTTATGTATTATGAAAATTATGTAAGTTGTGTACTGTATAAGTTATGTAAGTTATG
1 ATTATGTAAGTTATGTATTATGAAAATTATGTAAGTTATGTACTGTATAAATTATGTAAGTTATG
16632477 AAAATTATGTAAGT
66 -AAATTATGTAAGT
16632491 TATGTAAGTT
Statistics
Matches: 71, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
92 53 0.75
93 3 0.04
94 15 0.21
ACGTcount: A:0.36, C:0.02, G:0.18, T:0.44
Consensus pattern (93 bp):
ATTATGTAAGTTATGTATTATGAAAATTATGTAAGTTATGTACTGTATAAATTATGTAAGTTATG
AAATTATGTAAGTGCTGTATTATGATCA
Found at i:16632577 original size:41 final size:41
Alignment explanation
Indices: 16632514--16632591 Score: 129
Period size: 41 Copynumber: 1.9 Consensus size: 41
16632504 TATTATGAAA
*
16632514 ATTAAGTAACTTATGTATTATGAAAATTATGTAAGTTCAAT
1 ATTAAGTAACTTATGTACTATGAAAATTATGTAAGTTCAAT
* *
16632555 ATTATGTAAGTTATGTACTATGAAAATTATGTAAGTT
1 ATTAAGTAACTTATGTACTATGAAAATTATGTAAGTT
16632592 ATGTATGTTG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 34 1.00
ACGTcount: A:0.40, C:0.04, G:0.14, T:0.42
Consensus pattern (41 bp):
ATTAAGTAACTTATGTACTATGAAAATTATGTAAGTTCAAT
Found at i:16632608 original size:25 final size:25
Alignment explanation
Indices: 16632387--16632703 Score: 207
Period size: 25 Copynumber: 12.6 Consensus size: 25
16632377 AAGTTCTGAA
16632387 TTATGTAAG-TGCTGTATTATGATCAA-
1 TTATGTAAGTTG-TGTATTATG-T-AAG
* * *
16632413 TTATGTAAGTTATGTATTATGAAAA
1 TTATGTAAGTTGTGTATTATGTAAG
* * *
16632438 TTATGTAAGTTGTGTACTGTATAAG
1 TTATGTAAGTTGTGTATTATGTAAG
* *
16632463 TTATGTAAGTTATGAAAATTATGTAAG
1 TTATGTAAGTTGTG--TATTATGTAAG
* * * *
16632490 TTATGTAAGTTTTTTATTATGAAAA
1 TTATGTAAGTTGTGTATTATGTAAG
* * * * *
16632515 TTAAGTAACTTATGTATTATGAAAA
1 TTATGTAAGTTGTGTATTATGTAAG
***
16632540 TTATGTAAGTTCAATATTATGTAAG
1 TTATGTAAGTTGTGTATTATGTAAG
* ***
16632565 TTATGT-ACTATGAAAATTATGTAAG
1 TTATGTAAGT-TGTGTATTATGTAAG
*
16632590 TTATGTATGTTGTGTATTATATGTAAG
1 TTATGTAAGTTGTGTA-T-TATGTAAG
* *
16632617 TTATGT-A--TGTGTATAATGAAAG
1 TTATGTAAGTTGTGTATTATGTAAG
* *
16632639 TTACGTAAGTTGTGTATAATGTAAG
1 TTATGTAAGTTGTGTATTATGTAAG
** *
16632664 TTATGTAAGTTAAGTATAAT-TAAG
1 TTATGTAAGTTGTGTATTATGTAAG
* *
16632688 CTATGTAAGTTATGTA
1 TTATGTAAGTTGTGTA
16632704 AGATGTGATA
Statistics
Matches: 233, Mismatches: 47, Indels: 24
0.77 0.15 0.08
Matches are distributed among these distances:
22 11 0.05
23 2 0.01
24 28 0.12
25 138 0.59
26 20 0.09
27 34 0.15
ACGTcount: A:0.36, C:0.03, G:0.18, T:0.44
Consensus pattern (25 bp):
TTATGTAAGTTGTGTATTATGTAAG
Found at i:16633522 original size:21 final size:21
Alignment explanation
Indices: 16633498--16633570 Score: 67
Period size: 21 Copynumber: 3.3 Consensus size: 21
16633488 AGATGTTTAT
16633498 ATAAATACGCTGAAAATATAA
1 ATAAATACGCTGAAAATATAA
*** *
16633519 ATAAATAATAT-AATATCAATAA
1 ATAAATACGCTGAAAAT--ATAA
16633541 TATTAAATACGCTGAAAATATAA
1 -A-TAAATACGCTGAAAATATAA
16633564 ATAAATA
1 ATAAATA
16633571 GTCCCAAAAC
Statistics
Matches: 39, Mismatches: 8, Indels: 10
0.68 0.14 0.18
Matches are distributed among these distances:
20 4 0.10
21 14 0.36
22 5 0.13
23 5 0.13
24 7 0.18
25 4 0.10
ACGTcount: A:0.59, C:0.07, G:0.05, T:0.29
Consensus pattern (21 bp):
ATAAATACGCTGAAAATATAA
Found at i:16634042 original size:16 final size:18
Alignment explanation
Indices: 16633965--16634032 Score: 95
Period size: 19 Copynumber: 3.8 Consensus size: 18
16633955 AACTCATCTT
16633965 CTTAACATTC-AAA-ATG
1 CTTAACATTCAAAACATG
*
16633981 TTTAACATTCAAAACATAG
1 CTTAACATTCAAAACAT-G
16634000 CTTAACATTCAAAACTATG
1 CTTAACATTCAAAAC-ATG
16634019 CTTAACATTCAAAA
1 CTTAACATTCAAAA
16634033 TGTTTAACAT
Statistics
Matches: 46, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
16 9 0.20
17 3 0.07
18 2 0.04
19 30 0.65
20 2 0.04
ACGTcount: A:0.46, C:0.19, G:0.04, T:0.31
Consensus pattern (18 bp):
CTTAACATTCAAAACATG
Found at i:16636204 original size:15 final size:16
Alignment explanation
Indices: 16636168--16636209 Score: 54
Period size: 14 Copynumber: 2.8 Consensus size: 16
16636158 GGCCTAAACC
16636168 CCAAACCCCAAACATT
1 CCAAACCCCAAACATT
16636184 --AAACCCCAAAC-TT
1 CCAAACCCCAAACATT
*
16636197 CCAAACCCTAAAC
1 CCAAACCCCAAAC
16636210 CCAAAATACT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
13 2 0.09
14 11 0.48
15 10 0.43
ACGTcount: A:0.45, C:0.43, G:0.00, T:0.12
Consensus pattern (16 bp):
CCAAACCCCAAACATT
Found at i:16636855 original size:113 final size:111
Alignment explanation
Indices: 16636641--16636909 Score: 258
Period size: 113 Copynumber: 2.4 Consensus size: 111
16636631 ATAAGCATTA
* * * * * *
16636641 TATTGCGGCG-TTTGTTAGTAAGCGCCACAAAAGAAATCAAATGGAAATAAAACGAAGTCATATT
1 TATTGCGGCGTTTTATTA--AAGCGCCACTAAAGAAAT-AAAAGGAAAAAAAACAAAGCCATATT
16636705 ACTAAAATTATTTTGCGGCGTTTCTGCATAAGCGCCGCTAAAGGC-CCATC
63 ACTAAAATTATTTTGCGGCGTTTCT-CATAAGCGCCGCTAAA-GCACCATC
*
16636755 TATTGCGGCGATTTTATTAAAGCGCCACTAAAGAAATAAAAGGAAAAAAAACAAAGCCGT-TTAG
1 TATTGCGGCG-TTTTATTAAAGCGCCACTAAAGAAATAAAAGGAAAAAAAACAAAGCCATATTA-
* * ** * ***
16636819 CTCAAATTATTTTGCGGCATTT-TCTATGTTGCGCCGCTAAATCATGTTC
64 CTAAAATTATTTTGCGGCGTTTCTC-AT-AAGCGCCGCTAAAGCACCATC
* * *
16636868 TATTGCGGCGTTTTTTTAAAAGCGCCTCTAAAGAAATGAAAG
1 TATTGCGGCGTTTTATT-AAAGCGCCACTAAAGAAATAAAAG
16636910 AAGCATAGAA
Statistics
Matches: 130, Mismatches: 18, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
111 1 0.01
112 13 0.10
113 83 0.64
114 27 0.21
116 6 0.05
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.29
Consensus pattern (111 bp):
TATTGCGGCGTTTTATTAAAGCGCCACTAAAGAAATAAAAGGAAAAAAAACAAAGCCATATTACT
AAAATTATTTTGCGGCGTTTCTCATAAGCGCCGCTAAAGCACCATC
Found at i:16640304 original size:20 final size:21
Alignment explanation
Indices: 16640245--16640304 Score: 52
Period size: 20 Copynumber: 2.8 Consensus size: 21
16640235 CTTCTAAAGT
16640245 TACCAAA-TTTGAAGCTAAGCATA
1 TACCAAACTTT-AAGCTAAGC--A
* * *
16640268 TACCAAGCATTATGCTAAGC-
1 TACCAAACTTTAAGCTAAGCA
16640288 TACCAAACTTTAAGCTA
1 TACCAAACTTTAAGCTA
16640305 TCACATACCA
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
20 14 0.47
23 14 0.47
24 2 0.07
ACGTcount: A:0.40, C:0.22, G:0.12, T:0.27
Consensus pattern (21 bp):
TACCAAACTTTAAGCTAAGCA
Found at i:16640824 original size:25 final size:25
Alignment explanation
Indices: 16640796--16640853 Score: 98
Period size: 25 Copynumber: 2.3 Consensus size: 25
16640786 TTCTTGAATT
**
16640796 CATTTCAATATTTTCTCATCTTTTC
1 CATTTCAATATTTTCTCATCTTAGC
16640821 CATTTCAATATTTTCTCATCTTAGC
1 CATTTCAATATTTTCTCATCTTAGC
16640846 CATTTCAA
1 CATTTCAA
16640854 AATCAATAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.24, C:0.24, G:0.02, T:0.50
Consensus pattern (25 bp):
CATTTCAATATTTTCTCATCTTAGC
Found at i:16641980 original size:9 final size:9
Alignment explanation
Indices: 16641966--16642001 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
16641956 CGTTCTCTCC
16641966 TTCTTTTCT
1 TTCTTTTCT
16641975 TTC-TTTCT
1 TTCTTTTCT
16641983 TTCCTTTTCT
1 TT-CTTTTCT
16641993 TTCTTTTCT
1 TTCTTTTCT
16642002 AATTTGCATG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 7 0.28
9 11 0.44
10 7 0.28
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (9 bp):
TTCTTTTCT
Found at i:16643867 original size:24 final size:25
Alignment explanation
Indices: 16643815--16643868 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 25
16643805 AATTCGTAAC
*
16643815 TTAAATAAATTATGCTAATAAATGA
1 TTAAATAAATTATACTAATAAATGA
*
16643840 -TAAATATATTATACTAATAAAT-A
1 TTAAATAAATTATACTAATAAATGA
16643863 TTAAAT
1 TTAAAT
16643869 CTTCTAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 1 0.04
24 25 0.96
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.39
Consensus pattern (25 bp):
TTAAATAAATTATACTAATAAATGA
Found at i:16644845 original size:46 final size:46
Alignment explanation
Indices: 16644792--16644889 Score: 135
Period size: 46 Copynumber: 2.1 Consensus size: 46
16644782 TATAATCTAC
*
16644792 GTAGGGGCAAGCTAAAATGTAATGTCGATG-TAGCGATTTCAAATAT
1 GTAGGGGCAAGCTAAAATGTAATATCGATGCT-GCGATTTCAAATAT
* **
16644838 GTAGGGGCAAGCTGAAATGTAATATCGATGCTGTTATTTCAAATAT
1 GTAGGGGCAAGCTAAAATGTAATATCGATGCTGCGATTTCAAATAT
*
16644884 GAAGGG
1 GTAGGG
16644890 TTGACGAGCT
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
46 45 0.98
47 1 0.02
ACGTcount: A:0.34, C:0.10, G:0.28, T:0.29
Consensus pattern (46 bp):
GTAGGGGCAAGCTAAAATGTAATATCGATGCTGCGATTTCAAATAT
Found at i:16652117 original size:12 final size:12
Alignment explanation
Indices: 16652100--16652130 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
16652090 CCTCAGACAC
16652100 CCGTGTGCCAGG
1 CCGTGTGCCAGG
*
16652112 CCGTGTGCTAGG
1 CCGTGTGCCAGG
16652124 CCGTGTG
1 CCGTGTG
16652131 AAGCTACTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.06, C:0.29, G:0.42, T:0.23
Consensus pattern (12 bp):
CCGTGTGCCAGG
Found at i:16654139 original size:40 final size:40
Alignment explanation
Indices: 16653901--16654125 Score: 305
Period size: 40 Copynumber: 5.7 Consensus size: 40
16653891 TTGAATGATG
* * * *
16653901 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
16653941 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
16653981 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
16654020 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
16654060 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
16654101 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
16654126 AACGAGGAGC
Statistics
Matches: 167, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
39 35 0.21
40 122 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:16654147 original size:119 final size:119
Alignment explanation
Indices: 16653901--16654158 Score: 292
Period size: 119 Copynumber: 2.2 Consensus size: 119
16653891 TTGAATGATG
* *
16653901 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* ** *
16653966 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAA
* * * **
16654020 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * *
16654083 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-CTAAA
* *
16654140 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
16654159 TACGTGATTT
Statistics
Matches: 118, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
118 3 0.03
119 83 0.70
120 32 0.27
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAAA
Found at i:16661207 original size:40 final size:37
Alignment explanation
Indices: 16661150--16661373 Score: 207
Period size: 40 Copynumber: 5.7 Consensus size: 37
16661140 TTGAATGATG
* * *
16661150 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGACTAAG-CCCGAAGGCATTTGTGC-GAGT-ACTA-A
*
16661190 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
1 TCCGGACTAAG-CCCGAAGGCATTTGTGCGAG-TACTAA
*
16661229 TTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 -TCCGGACTAAGCCCGAAGGCATTTGTGCGAG-TACT-AA
16661269 TCCGGACTAAGACCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-CCCGAAGGCATTTGTGCGAG-TACT-AA
**
16661309 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGACTAAG-CCCGAAGGCATTTGTGCGAG-TACTA-A
* * * *
16661349 ACCGGGCTATGTCCGAAGGCATTTG
1 TCCGGACTAAGCCCGAAGGCATTTG
16661374 AACGAGGAGC
Statistics
Matches: 162, Mismatches: 16, Indels: 13
0.85 0.08 0.07
Matches are distributed among these distances:
39 48 0.30
40 106 0.65
41 8 0.05
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (37 bp):
TCCGGACTAAGCCCGAAGGCATTTGTGCGAGTACTAA
Found at i:16661286 original size:79 final size:80
Alignment explanation
Indices: 16661150--16661373 Score: 312
Period size: 79 Copynumber: 2.8 Consensus size: 80
16661140 TTGAATGATG
* * * *
16661150 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGACTAAGATCCGAAGGCATT
*
16661214 TGTGCGAGATACTAAT
65 TGTGCGAGATACTAAA
*
16661230 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGACCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTT
*
16661294 GTGCGAGTTACTAAA
66 GTGCGAGATACTAAA
* * *
16661309 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATG-TCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGACTAAGATCCGAAGGCATT
16661372 TG
65 TG
16661374 AACGAGGAGC
Statistics
Matches: 130, Mismatches: 11, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
79 76 0.58
80 52 0.40
81 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAAA
Done.