Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 100 of 182
Found at i:30118938 original size:29 final size:29
Alignment explanation
Indices: 30118905--30118977 Score: 119
Period size: 29 Copynumber: 2.5 Consensus size: 29
30118895 ATGTATTAGT
* *
30118905 TTAGGACATATTTAAAACACTTGAACTAA
1 TTAGGACATATTTAAAACACCTAAACTAA
*
30118934 TTAGGACATAATTAAAACACCTAAACTAA
1 TTAGGACATATTTAAAACACCTAAACTAA
30118963 TTAGGACATATTTAA
1 TTAGGACATATTTAA
30118978 TAATATCTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.47, C:0.14, G:0.10, T:0.30
Consensus pattern (29 bp):
TTAGGACATATTTAAAACACCTAAACTAA
Found at i:30120260 original size:55 final size:56
Alignment explanation
Indices: 30120156--30120261 Score: 135
Period size: 56 Copynumber: 1.9 Consensus size: 56
30120146 ATTAATGCCG
* * *
30120156 TCCATGCATGGGAACATCTCATTAAATCCATGTCTTTGCTTCCCTTTAAATGCCAT
1 TCCATGCATGGGAACATCTCATTAAATCCATGGCTTTGCTTCACATTAAATGCCAT
* * *
30120212 TCCATGCATGGGAACATCTCCTT-AATTCGTGGCTTTGCTGT-ACATTAAAT
1 TCCATGCATGGGAACATCTCATTAAATCCATGGCTTTGCT-TCACATTAAAT
30120262 CAGCAAGCAG
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
55 20 0.47
56 23 0.53
ACGTcount: A:0.25, C:0.25, G:0.15, T:0.36
Consensus pattern (56 bp):
TCCATGCATGGGAACATCTCATTAAATCCATGGCTTTGCTTCACATTAAATGCCAT
Found at i:30120557 original size:23 final size:22
Alignment explanation
Indices: 30120523--30120587 Score: 103
Period size: 23 Copynumber: 2.9 Consensus size: 22
30120513 GAACACCTTT
*
30120523 AAAACATGCATTAAATTCGGCC
1 AAAACATACATTAAATTCGGCC
30120545 AGAAACATACATTAAATTCGGCC
1 A-AAACATACATTAAATTCGGCC
30120568 AAAGACATACATTAAATTCG
1 AAA-ACATACATTAAATTCG
30120588 TCTGGAAAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
22 3 0.08
23 37 0.93
ACGTcount: A:0.45, C:0.20, G:0.12, T:0.23
Consensus pattern (22 bp):
AAAACATACATTAAATTCGGCC
Found at i:30120825 original size:13 final size:13
Alignment explanation
Indices: 30120809--30120843 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
30120799 TTTAAACAAA
*
30120809 TTAATTAACTTAT
1 TTAATTAACTAAT
30120822 TTAATTAACTAAT
1 TTAATTAACTAAT
*
30120835 TTAACTAAC
1 TTAATTAAC
30120844 AACAACTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.43, C:0.11, G:0.00, T:0.46
Consensus pattern (13 bp):
TTAATTAACTAAT
Found at i:30121720 original size:47 final size:48
Alignment explanation
Indices: 30121662--30121755 Score: 172
Period size: 48 Copynumber: 2.0 Consensus size: 48
30121652 TTGGCCGAAC
30121662 TTCCCTATTAAATTTGTTAATTA-GTTTTTTTTAAGTTTTCCTAATGT
1 TTCCCTATTAAATTTGTTAATTAGGTTTTTTTTAAGTTTTCCTAATGT
*
30121709 TTCCCTCTTAAATTTGTTAATTAGGTTTTTTTTAAGTTTTCCTAATG
1 TTCCCTATTAAATTTGTTAATTAGGTTTTTTTTAAGTTTTCCTAATG
30121756 AGATTAGGAA
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
47 22 0.49
48 23 0.51
ACGTcount: A:0.22, C:0.12, G:0.10, T:0.56
Consensus pattern (48 bp):
TTCCCTATTAAATTTGTTAATTAGGTTTTTTTTAAGTTTTCCTAATGT
Found at i:30124299 original size:84 final size:84
Alignment explanation
Indices: 30124170--30124337 Score: 336
Period size: 84 Copynumber: 2.0 Consensus size: 84
30124160 ATTGCTGAAA
30124170 TCTAAAAACCTGAAAAGCTGCGAAGTAACTTGACAACTTCGTTTGAGGTGTTCCTCATCTCCAAA
1 TCTAAAAACCTGAAAAGCTGCGAAGTAACTTGACAACTTCGTTTGAGGTGTTCCTCATCTCCAAA
30124235 AATCACGAAATTAAATCTG
66 AATCACGAAATTAAATCTG
30124254 TCTAAAAACCTGAAAAGCTGCGAAGTAACTTGACAACTTCGTTTGAGGTGTTCCTCATCTCCAAA
1 TCTAAAAACCTGAAAAGCTGCGAAGTAACTTGACAACTTCGTTTGAGGTGTTCCTCATCTCCAAA
30124319 AATCACGAAATTAAATCTG
66 AATCACGAAATTAAATCTG
30124338 GAATGTCCTT
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 84 1.00
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.27
Consensus pattern (84 bp):
TCTAAAAACCTGAAAAGCTGCGAAGTAACTTGACAACTTCGTTTGAGGTGTTCCTCATCTCCAAA
AATCACGAAATTAAATCTG
Found at i:30128179 original size:21 final size:21
Alignment explanation
Indices: 30128145--30128185 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
30128135 AAAATACAAG
*
30128145 TGAAAAAGAAGAAAATGAAAA
1 TGAAAAAGAAGAAAAGGAAAA
**
30128166 TGAAAAAGGCGAAAAGGAAA
1 TGAAAAAGAAGAAAAGGAAA
30128186 GCGAGAGAGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.66, C:0.02, G:0.24, T:0.07
Consensus pattern (21 bp):
TGAAAAAGAAGAAAAGGAAAA
Found at i:30128284 original size:36 final size:33
Alignment explanation
Indices: 30128219--30128285 Score: 80
Period size: 33 Copynumber: 1.9 Consensus size: 33
30128209 GTGAATGAAG
*
30128219 TGAGTGAACAAGAGAGAGAGCTTAAACAAGGAA
1 TGAGTGAACAAGAGAGAGAGCTAAAACAAGGAA
* *
30128252 TGAGTGAAGAAGAAGAGAGTGCTCAAATACAAGG
1 TGAGTGAACAAG-AGAGAGAGCT-AAA-ACAAGG
30128286 GAGGAATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 11 0.39
34 9 0.32
35 2 0.07
36 6 0.21
ACGTcount: A:0.46, C:0.09, G:0.31, T:0.13
Consensus pattern (33 bp):
TGAGTGAACAAGAGAGAGAGCTAAAACAAGGAA
Found at i:30132454 original size:89 final size:89
Alignment explanation
Indices: 30132341--30132535 Score: 390
Period size: 89 Copynumber: 2.2 Consensus size: 89
30132331 TCAAGAAAAT
30132341 CAAGAAACCGAATCTTGGTCCATTTTTGCTGTTTGGAGCGATTTCAAGAATCAAGAAAATCAAGA
1 CAAGAAACCGAATCTTGGTCCATTTTTGCTGTTTGGAGCGATTTCAAGAATCAAGAAAATCAAGA
30132406 TTTCAAATCTTGGAAATCTTTGTC
66 TTTCAAATCTTGGAAATCTTTGTC
30132430 CAAGAAACCGAATCTTGGTCCATTTTTGCTGTTTGGAGCGATTTCAAGAATCAAGAAAATCAAGA
1 CAAGAAACCGAATCTTGGTCCATTTTTGCTGTTTGGAGCGATTTCAAGAATCAAGAAAATCAAGA
30132495 TTTCAAATCTTGGAAATCTTTGTC
66 TTTCAAATCTTGGAAATCTTTGTC
30132519 CAAGAAACCGAATCTTG
1 CAAGAAACCGAATCTTG
30132536 CAACTAAGGC
Statistics
Matches: 106, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
89 106 1.00
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.31
Consensus pattern (89 bp):
CAAGAAACCGAATCTTGGTCCATTTTTGCTGTTTGGAGCGATTTCAAGAATCAAGAAAATCAAGA
TTTCAAATCTTGGAAATCTTTGTC
Found at i:30146937 original size:6 final size:6
Alignment explanation
Indices: 30146926--30146951 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
30146916 AGTTGTAAAG
30146926 TTTTAT TTTTAT TTTTAT TTTTAT TT
1 TTTTAT TTTTAT TTTTAT TTTTAT TT
30146952 ACTTACTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:30155963 original size:206 final size:207
Alignment explanation
Indices: 30155609--30156021 Score: 756
Period size: 206 Copynumber: 2.0 Consensus size: 207
30155599 CCTAAATTTT
30155609 GGGGAATTTTGAATCGATTAGATGCTGCCAATAAAAGAACCGATTAAATGAAGAGTTCTTGGAGT
1 GGGGAATTTTGAATCGATTAGATGCTGCCAATAAAAGAACCGATTAAATGAAGAGTTCTTGGAGT
* *
30155674 TTGAATCAAGGCTGAAACACAAACAAAAATAGTAAAGAAATTAGATATAGATTCGGCATCAACAA
66 TTGAATCAAGGCTGAAACACAAACAAAAACAGCAAAGAAATTAGATATAGATTCGGCATCAACAA
30155739 AAATAAAGAAAAGAAATTGAACAGCAAGAAT-AAAGAAAAGTCCTAAAGATCCTTGAAATCCCGA
131 AAATAAAGAAAAGAAATTGAACAGCAAGAATAAAAGAAAAGTCCTAAAGATCCTTGAAATCCCGA
30155803 AAGATCTCACAA
196 AAGATCTCACAA
30155815 GGGGAATTTTGAATCGATTAGATGCTGCCAATAAAAGAACCGATTAAATGAAGAGTTCTTGGAGT
1 GGGGAATTTTGAATCGATTAGATGCTGCCAATAAAAGAACCGATTAAATGAAGAGTTCTTGGAGT
* * * *
30155880 TTGAATCAAGGTTGAAACACAAATAAAAACAGCAAAGATATTAGATATAGATTCGGCATCAACAG
66 TTGAATCAAGGCTGAAACACAAACAAAAACAGCAAAGAAATTAGATATAGATTCGGCATCAACAA
*
30155945 AAATAAAGAAAAGAAATTGAACAGCAAGAATAAAAGATAAGTCCTAAAGATCCTTGAAATCCCGA
131 AAATAAAGAAAAGAAATTGAACAGCAAGAATAAAAGAAAAGTCCTAAAGATCCTTGAAATCCCGA
30156010 AAGATCTCACAA
196 AAGATCTCACAA
30156022 ATCTCTTCAA
Statistics
Matches: 199, Mismatches: 7, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
206 155 0.78
207 44 0.22
ACGTcount: A:0.46, C:0.14, G:0.19, T:0.21
Consensus pattern (207 bp):
GGGGAATTTTGAATCGATTAGATGCTGCCAATAAAAGAACCGATTAAATGAAGAGTTCTTGGAGT
TTGAATCAAGGCTGAAACACAAACAAAAACAGCAAAGAAATTAGATATAGATTCGGCATCAACAA
AAATAAAGAAAAGAAATTGAACAGCAAGAATAAAAGAAAAGTCCTAAAGATCCTTGAAATCCCGA
AAGATCTCACAA
Found at i:30156904 original size:123 final size:123
Alignment explanation
Indices: 30156759--30157027 Score: 529
Period size: 123 Copynumber: 2.2 Consensus size: 123
30156749 TGAGCTTGGG
*
30156759 TTGGGCCTTTGTGACTCGTATCAACTTGGGCCACTTTGACAATTTGGCCTGATTTTCAACTAAGT
1 TTGGGCTTTTGTGACTCGTATCAACTTGGGCCACTTTGACAATTTGGCCTGATTTTCAACTAAGT
30156824 ATGTATGGATTTCTTGATTGGGCTGGGAATTTGCTTATTGGGCCTCGCCTTCAAGAAT
66 ATGTATGGATTTCTTGATTGGGCTGGGAATTTGCTTATTGGGCCTCGCCTTCAAGAAT
30156882 TTGGGCTTTTGTGACTCGTATCAACTTGGGCCACTTTGACAATTTGGCCTGATTTTCAACTAAGT
1 TTGGGCTTTTGTGACTCGTATCAACTTGGGCCACTTTGACAATTTGGCCTGATTTTCAACTAAGT
30156947 ATGTATGGATTTCTTGATTGGGCTGGGAATTTGCTTATTGGGCCTCGCCTTCAAGAAT
66 ATGTATGGATTTCTTGATTGGGCTGGGAATTTGCTTATTGGGCCTCGCCTTCAAGAAT
30157005 TTGGGCTTTTGTGACTCGTATCA
1 TTGGGCTTTTGTGACTCGTATCA
30157028 TTCCCCCTTC
Statistics
Matches: 145, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
123 145 1.00
ACGTcount: A:0.19, C:0.18, G:0.25, T:0.38
Consensus pattern (123 bp):
TTGGGCTTTTGTGACTCGTATCAACTTGGGCCACTTTGACAATTTGGCCTGATTTTCAACTAAGT
ATGTATGGATTTCTTGATTGGGCTGGGAATTTGCTTATTGGGCCTCGCCTTCAAGAAT
Found at i:30159386 original size:62 final size:62
Alignment explanation
Indices: 30159319--30159442 Score: 239
Period size: 62 Copynumber: 2.0 Consensus size: 62
30159309 CTGATTCCTT
*
30159319 GAGATAGAAAAAGGCTGAAAACACAATAAGAACAGAAAATAAATTAGATAAAAGATTCAGCA
1 GAGATAGAAAAAGGCTAAAAACACAATAAGAACAGAAAATAAATTAGATAAAAGATTCAGCA
30159381 GAGATAGAAAAAGGCTAAAAACACAATAAGAACAGAAAATAAATTAGATAAAAGATTCAGCA
1 GAGATAGAAAAAGGCTAAAAACACAATAAGAACAGAAAATAAATTAGATAAAAGATTCAGCA
30159443 CAAGAAGAAA
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 61 1.00
ACGTcount: A:0.59, C:0.10, G:0.17, T:0.15
Consensus pattern (62 bp):
GAGATAGAAAAAGGCTAAAAACACAATAAGAACAGAAAATAAATTAGATAAAAGATTCAGCA
Found at i:30171757 original size:14 final size:14
Alignment explanation
Indices: 30171738--30171764 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
30171728 TACATTGGAC
30171738 AGATTCATGCATGT
1 AGATTCATGCATGT
30171752 AGATTCATGCATG
1 AGATTCATGCATG
30171765 GGAAGATGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (14 bp):
AGATTCATGCATGT
Found at i:30174170 original size:31 final size:33
Alignment explanation
Indices: 30174109--30174177 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
30174099 AAGCCTATTT
30174109 AATGTGTCTGGCCGAATTAATTGTGTGTGTCTA
1 AATGTGTCTGGCCGAATTAATTGTGTGTGTCTA
30174142 AATGTGTCTGGCCGAATTAA-T-TGTGTGTCTA
1 AATGTGTCTGGCCGAATTAATTGTGTGTGTCTA
30174173 AATGT
1 AATGT
30174178 TAAATTAATG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
31 15 0.42
32 1 0.03
33 20 0.56
ACGTcount: A:0.23, C:0.12, G:0.26, T:0.39
Consensus pattern (33 bp):
AATGTGTCTGGCCGAATTAATTGTGTGTGTCTA
Found at i:30181024 original size:16 final size:16
Alignment explanation
Indices: 30180995--30181038 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
30180985 TTTTTCAGCT
30180995 TTCTTTTCTTGCTCACA
1 TTCTTTT-TTGCTCACA
*
30181012 TTCTTTTTTGCTCTCA
1 TTCTTTTTTGCTCACA
*
30181028 ATCTCTTTTTG
1 TTCT-TTTTTG
30181039 ATCTCTTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 11 0.46
17 13 0.54
ACGTcount: A:0.09, C:0.25, G:0.07, T:0.59
Consensus pattern (16 bp):
TTCTTTTTTGCTCACA
Found at i:30181036 original size:17 final size:16
Alignment explanation
Indices: 30180996--30181043 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
30180986 TTTTCAGCTT
* *
30180996 TCTTTTCTTGCTCACAT
1 TCTTTT-TTGCTCTCAA
30181013 TCTTTTTTGCTCTCAA
1 TCTTTTTTGCTCTCAA
*
30181029 TCTCTTTTTGATCTC
1 TCT-TTTTTGCTCTC
30181044 TTTCATTCTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
16 11 0.41
17 16 0.59
ACGTcount: A:0.10, C:0.27, G:0.06, T:0.56
Consensus pattern (16 bp):
TCTTTTTTGCTCTCAA
Found at i:30187986 original size:21 final size:19
Alignment explanation
Indices: 30187943--30187986 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
30187933 GAGCTCAAAT
* *
30187943 GAGCTGAAATGAGTTCATG
1 GAGCTGAAATGAGCTAATG
30187962 GAGCTGGAAATGAGCTAATTG
1 GAGCT-GAAATGAGCTAA-TG
30187983 GAGC
1 GAGC
30187987 CCAATGAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.24
20 10 0.48
21 6 0.29
ACGTcount: A:0.32, C:0.11, G:0.34, T:0.23
Consensus pattern (19 bp):
GAGCTGAAATGAGCTAATG
Found at i:30191289 original size:13 final size:13
Alignment explanation
Indices: 30191271--30191297 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
30191261 AAATACAACC
30191271 TTTTTTTTACAAA
1 TTTTTTTTACAAA
30191284 TTTTTTTTACAAA
1 TTTTTTTTACAAA
30191297 T
1 T
30191298 CTACTTACTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (13 bp):
TTTTTTTTACAAA
Found at i:30193091 original size:20 final size:20
Alignment explanation
Indices: 30193027--30193080 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
30193017 CATGTGGTTC
* * *
30193027 AGCTCATTTGAGCTCAAGTA
1 AGCTCATTCGAGCTCAATTT
30193047 AGCTCATTCGAGCTCAATTT
1 AGCTCATTCGAGCTCAATTT
30193067 AGCTCATT-GAGCTC
1 AGCTCATTCGAGCTC
30193081 GTTATTAGCT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
19 6 0.19
20 25 0.81
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (20 bp):
AGCTCATTCGAGCTCAATTT
Found at i:30202827 original size:21 final size:22
Alignment explanation
Indices: 30202798--30202848 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
30202788 TCTCTCTCGC
*
30202798 TTTCCTTTTCACCTTTTTCA-T
1 TTTCATTTTCACCTTTTTCACT
**
30202819 TTTCATTTTCTTCTTTTTCACT
1 TTTCATTTTCACCTTTTTCACT
30202841 TTT-ATTTT
1 TTTCATTTT
30202849 TCTCTTCTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 22 0.85
22 4 0.15
ACGTcount: A:0.10, C:0.22, G:0.00, T:0.69
Consensus pattern (22 bp):
TTTCATTTTCACCTTTTTCACT
Found at i:30202854 original size:21 final size:21
Alignment explanation
Indices: 30202810--30202870 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
30202800 TCCTTTTCAC
30202810 CTTTTTCATTTTCATTTTCTT
1 CTTTTTCATTTTCATTTTCTT
30202831 CTTTTTCACTTTT-ATTTT-TCT
1 CTTTTTCA-TTTTCATTTTCT-T
* * *
30202852 CTTCTTCTTTTTCTTTTTC
1 CTTTTTCATTTTCATTTTC
30202871 CTCACTTGTT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
20 5 0.15
21 24 0.73
22 4 0.12
ACGTcount: A:0.07, C:0.21, G:0.00, T:0.72
Consensus pattern (21 bp):
CTTTTTCATTTTCATTTTCTT
Found at i:30206106 original size:46 final size:46
Alignment explanation
Indices: 30206055--30206146 Score: 166
Period size: 46 Copynumber: 2.0 Consensus size: 46
30206045 GTGTGGCGTT
30206055 CATCATATACCAAGGATCCTATCATCCTTGATAGTGGGTCGAGGTC
1 CATCATATACCAAGGATCCTATCATCCTTGATAGTGGGTCGAGGTC
* *
30206101 CATCATATACCAAGGTTCCTATCATTCTTGATAGTGGGTCGAGGTC
1 CATCATATACCAAGGATCCTATCATCCTTGATAGTGGGTCGAGGTC
30206147 TTTTCTTTGT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (46 bp):
CATCATATACCAAGGATCCTATCATCCTTGATAGTGGGTCGAGGTC
Found at i:30206635 original size:10 final size:10
Alignment explanation
Indices: 30206620--30206654 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
30206610 AATAATAATT
30206620 TTTTTGAATA
1 TTTTTGAATA
*
30206630 TTTTTGAATT
1 TTTTTGAATA
*
30206640 TTTTTGAATG
1 TTTTTGAATA
30206650 TTTTT
1 TTTTT
30206655 TTCAAATACT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.20, C:0.00, G:0.11, T:0.69
Consensus pattern (10 bp):
TTTTTGAATA
Found at i:30206641 original size:20 final size:20
Alignment explanation
Indices: 30206616--30206654 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
30206606 ACGAAATAAT
30206616 AATTTTTTTGAATATTTTTG
1 AATTTTTTTGAATATTTTTG
*
30206636 AATTTTTTTGAATGTTTTT
1 AATTTTTTTGAATATTTTT
30206655 TTCAAATACT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (20 bp):
AATTTTTTTGAATATTTTTG
Found at i:30206866 original size:24 final size:25
Alignment explanation
Indices: 30206820--30206866 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
30206810 AAGAATTTGG
*
30206820 CTAAATGAATTGATGATGGAAATGA
1 CTAAATGAATTGATGATGAAAATGA
* *
30206845 CTAAGTGAA-TGATGGTGAAAAT
1 CTAAATGAATTGATGATGAAAAT
30206867 TCGGCTAAGG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 11 0.58
25 8 0.42
ACGTcount: A:0.43, C:0.04, G:0.26, T:0.28
Consensus pattern (25 bp):
CTAAATGAATTGATGATGAAAATGA
Found at i:30225104 original size:13 final size:12
Alignment explanation
Indices: 30225086--30225129 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
30225076 TAAAAAAAAT
* *
30225086 AAAAAAACTTGA
1 AAAAAAAATTCA
*
30225098 AAAAAAAATTTTA
1 AAAAAAAA-TTCA
30225111 AAAAAAAATTCA
1 AAAAAAAATTCA
30225123 AAAAAAA
1 AAAAAAA
30225130 GTTTGTATTC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
12 17 0.61
13 11 0.39
ACGTcount: A:0.75, C:0.05, G:0.02, T:0.18
Consensus pattern (12 bp):
AAAAAAAATTCA
Found at i:30225193 original size:14 final size:14
Alignment explanation
Indices: 30225174--30225223 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
30225164 AGTATTTAAG
30225174 AAAAAAAGAAGAAA
1 AAAAAAAGAAGAAA
**
30225188 AAAAAATTCAGAATTAA
1 AAAAAA---AGAAGAAA
30225205 AAAAAAAGAAGAAA
1 AAAAAAAGAAGAAA
30225219 AAAAA
1 AAAAA
30225224 TCGAAATTGA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
14 17 0.59
17 12 0.41
ACGTcount: A:0.80, C:0.02, G:0.10, T:0.08
Consensus pattern (14 bp):
AAAAAAAGAAGAAA
Found at i:30225219 original size:29 final size:29
Alignment explanation
Indices: 30225173--30225241 Score: 88
Period size: 29 Copynumber: 2.3 Consensus size: 29
30225163 TAGTATTTAA
*
30225173 GAAAAAAAGAAGAAAAAAAAATTC-AGAATT
1 GAAAAAAA-AAGAAAAAAAAAATCGA-AATT
30225203 -AAAAAAAAAGAAGAAAAAAAATCGAAATT
1 GAAAAAAAAAGAA-AAAAAAAATCGAAATT
30225232 GAAAAAAAAA
1 GAAAAAAAAA
30225242 AGAGTGATTG
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
28 5 0.14
29 20 0.57
30 10 0.29
ACGTcount: A:0.75, C:0.03, G:0.12, T:0.10
Consensus pattern (29 bp):
GAAAAAAAAAGAAAAAAAAAATCGAAATT
Found at i:30225244 original size:28 final size:29
Alignment explanation
Indices: 30225173--30225244 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 29
30225163 TAGTATTTAA
*
30225173 GAAAAAAAGAAGAAAAAAAAATTCAGAATT
1 GAAAAAAAAAAG-AAAAAAAATTCAGAATT
*
30225203 AAAAAAAAAGAAGAAAAAAAA-TC-GAAATT
1 GAAAAAAAA-AAGAAAAAAAATTCAG-AATT
30225232 GAAAAAAAAAAGA
1 GAAAAAAAAAAGA
30225245 GTGATTGAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
28 5 0.14
29 14 0.38
30 15 0.41
31 3 0.08
ACGTcount: A:0.75, C:0.03, G:0.12, T:0.10
Consensus pattern (29 bp):
GAAAAAAAAAAGAAAAAAAATTCAGAATT
Found at i:30226115 original size:15 final size:16
Alignment explanation
Indices: 30226095--30226126 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
30226085 AGAAAATGAA
30226095 AAAGAAAAAGAA-ATG
1 AAAGAAAAAGAAGATG
30226110 AAAGAAAAAGAAGATG
1 AAAGAAAAAGAAGATG
30226126 A
1 A
30226127 GTGTGAGATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.72, C:0.00, G:0.22, T:0.06
Consensus pattern (16 bp):
AAAGAAAAAGAAGATG
Found at i:30226188 original size:48 final size:46
Alignment explanation
Indices: 30226125--30226254 Score: 169
Period size: 42 Copynumber: 2.8 Consensus size: 46
30226115 AAAAGAAGAT
* * *
30226125 GAGTGTGAGATAGAAAAGAAAATTGAAAATGAGATTGAGAATAAAAAC
1 GAGTGTGAAAAAGAAAAGAAAACTGAAAA-GAGA-TGAGAATAAAAAC
30226173 GAGTGTGAAAAAGAAAAGAAAACTG-AAA-A-A-GAGAATAAAAAC
1 GAGTGTGAAAAAGAAAAGAAAACTGAAAAGAGATGAGAATAAAAAC
30226215 GAGTGTGAAAAAGAAAAGAAAACTGAAAAAGAGAGTGAGA
1 GAGTGTGAAAAAGAAAAGAAAACTG-AAAAGAGA-TGAGA
30226255 TTGAAGAAAG
Statistics
Matches: 73, Mismatches: 3, Indels: 12
0.83 0.03 0.14
Matches are distributed among these distances:
42 37 0.51
44 4 0.05
45 2 0.03
46 1 0.01
47 3 0.04
48 26 0.36
ACGTcount: A:0.58, C:0.03, G:0.25, T:0.13
Consensus pattern (46 bp):
GAGTGTGAAAAAGAAAAGAAAACTGAAAAGAGATGAGAATAAAAAC
Found at i:30226194 original size:24 final size:24
Alignment explanation
Indices: 30226167--30226236 Score: 80
Period size: 24 Copynumber: 3.2 Consensus size: 24
30226157 GATTGAGAAT
30226167 AAAAACGAGTGTGAAAAAGAAAAG
1 AAAAACGAGTGTGAAAAAGAAAAG
* *
30226191 -AAAAC-----TGAAAAAGAGAAT
1 AAAAACGAGTGTGAAAAAGAAAAG
30226209 AAAAACGAGTGTGAAAAAGAAAAG
1 AAAAACGAGTGTGAAAAAGAAAAG
30226233 AAAA
1 AAAA
30226237 CTGAAAAAGA
Statistics
Matches: 36, Mismatches: 4, Indels: 12
0.69 0.08 0.23
Matches are distributed among these distances:
18 11 0.31
19 5 0.14
23 5 0.14
24 15 0.42
ACGTcount: A:0.66, C:0.04, G:0.21, T:0.09
Consensus pattern (24 bp):
AAAAACGAGTGTGAAAAAGAAAAG
Found at i:30226199 original size:18 final size:18
Alignment explanation
Indices: 30226178--30226246 Score: 68
Period size: 18 Copynumber: 3.5 Consensus size: 18
30226168 AAAACGAGTG
30226178 TGAAAAAGAAAAGAAAAC
1 TGAAAAAGAAAAGAAAAC
30226196 TGAAAAAGAGAATA-AAAAC
1 TGAAAAAGA-AA-AGAAAAC
30226215 GAGTGTGAAAAAGAAAAGAAAAC
1 -----TGAAAAAGAAAAGAAAAC
30226238 TGAAAAAGA
1 TGAAAAAGA
30226247 GAGTGAGATT
Statistics
Matches: 43, Mismatches: 0, Indels: 16
0.73 0.00 0.27
Matches are distributed among these distances:
18 18 0.42
19 7 0.16
20 1 0.02
22 1 0.02
23 7 0.16
24 9 0.21
ACGTcount: A:0.67, C:0.04, G:0.20, T:0.09
Consensus pattern (18 bp):
TGAAAAAGAAAAGAAAAC
Found at i:30226207 original size:42 final size:42
Alignment explanation
Indices: 30226161--30226248 Score: 176
Period size: 42 Copynumber: 2.1 Consensus size: 42
30226151 AAATGAGATT
30226161 GAGAATAAAAACGAGTGTGAAAAAGAAAAGAAAACTGAAAAA
1 GAGAATAAAAACGAGTGTGAAAAAGAAAAGAAAACTGAAAAA
30226203 GAGAATAAAAACGAGTGTGAAAAAGAAAAGAAAACTGAAAAA
1 GAGAATAAAAACGAGTGTGAAAAAGAAAAGAAAACTGAAAAA
30226245 GAGA
1 GAGA
30226249 GTGAGATTGA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.64, C:0.05, G:0.23, T:0.09
Consensus pattern (42 bp):
GAGAATAAAAACGAGTGTGAAAAAGAAAAGAAAACTGAAAAA
Found at i:30226301 original size:21 final size:18
Alignment explanation
Indices: 30226277--30226321 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 18
30226267 ACGAGAGTAC
30226277 AAAAGAAATGAGTGATGTGA
1 AAAAGAAA-GAG-GATGTGA
*
30226297 TAAAAGAAAGAGGATTTGA
1 -AAAAGAAAGAGGATGTGA
30226316 AAAAGA
1 AAAAGA
30226322 GTTTGAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 6 0.26
19 6 0.26
20 3 0.13
21 8 0.35
ACGTcount: A:0.56, C:0.00, G:0.27, T:0.18
Consensus pattern (18 bp):
AAAAGAAAGAGGATGTGA
Found at i:30230147 original size:40 final size:40
Alignment explanation
Indices: 30230064--30230366 Score: 387
Period size: 40 Copynumber: 7.6 Consensus size: 40
30230054 TTGAATGCTG
* * * * * *
30230064 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
30230104 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
30230144 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
30230184 TCCGGGTTAAGTCCTGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
30230224 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
30230264 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
30230304 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
30230343 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
30230367 TGAACGAGGA
Statistics
Matches: 239, Mismatches: 21, Indels: 7
0.90 0.08 0.03
Matches are distributed among these distances:
39 35 0.15
40 196 0.82
41 8 0.03
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:30232806 original size:26 final size:27
Alignment explanation
Indices: 30232724--30232816 Score: 111
Period size: 27 Copynumber: 3.5 Consensus size: 27
30232714 GATTCGTGGG
*
30232724 AAAATGACTGAAATACCCTCAGAGGGT
1 AAAATGACTGAAATACCCTCGGAGGGT
* * *
30232751 AAAATGA-TCGAAATACCTTCGAAGGAT
1 AAAATGACT-GAAATACCCTCGGAGGGT
30232778 AAAATGACTG-AATACCC-CTGGAGGGT
1 AAAATGACTGAAATACCCTC-GGAGGGT
30232804 AAAATGACTGAAA
1 AAAATGACTGAAA
30232817 AGGGTAAAAT
Statistics
Matches: 55, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
25 1 0.02
26 22 0.40
27 31 0.56
28 1 0.02
ACGTcount: A:0.43, C:0.16, G:0.22, T:0.19
Consensus pattern (27 bp):
AAAATGACTGAAATACCCTCGGAGGGT
Found at i:30232877 original size:27 final size:28
Alignment explanation
Indices: 30232816--30232883 Score: 93
Period size: 28 Copynumber: 2.5 Consensus size: 28
30232806 AATGACTGAA
* *
30232816 AAGGGTAAAATGATCGAAATACCCCCCG
1 AAGGGTAAAATGAACGAAATACCCCCAG
* *
30232844 AAGGGTAAACTGAACGAAATACCCCCAT
1 AAGGGTAAAATGAACGAAATACCCCCAG
30232872 AA-GGTAAAATGA
1 AAGGGTAAAATGA
30232884 CTGTTATACT
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
27 9 0.26
28 26 0.74
ACGTcount: A:0.44, C:0.21, G:0.21, T:0.15
Consensus pattern (28 bp):
AAGGGTAAAATGAACGAAATACCCCCAG
Found at i:30233279 original size:27 final size:28
Alignment explanation
Indices: 30233238--30233319 Score: 112
Period size: 27 Copynumber: 3.0 Consensus size: 28
30233228 ACTGTACTGG
30233238 TTACTGTATTGGGCTAAGGCCCACACTA
1 TTACTGTATTGGGCTAAGGCCCACACTA
* *
30233266 TT-CTGTATTGGGCTAAGGCCCACATTT
1 TTACTGTATTGGGCTAAGGCCCACACTA
* * *
30233293 TTATTGTTTTGGGTTAAGGCCCACACT
1 TTACTGTATTGGGCTAAGGCCCACACT
30233320 GTACTGTTAC
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
27 25 0.53
28 22 0.47
ACGTcount: A:0.21, C:0.22, G:0.22, T:0.35
Consensus pattern (28 bp):
TTACTGTATTGGGCTAAGGCCCACACTA
Found at i:30238152 original size:35 final size:35
Alignment explanation
Indices: 30238093--30238174 Score: 128
Period size: 35 Copynumber: 2.3 Consensus size: 35
30238083 TAGGCAATCC
*
30238093 AACACACCAGAAGCTCATAAGAGCTAATCCATCCGA
1 AACACACCA-AAGCTCATAAGAGCTAATCCATCCAA
* *
30238129 AACACACCAATGCTCATACGAGCTAATCCATCCAA
1 AACACACCAAAGCTCATAAGAGCTAATCCATCCAA
30238164 AACACACCAAA
1 AACACACCAAA
30238175 ACAGAGAGTA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
35 33 0.79
36 9 0.21
ACGTcount: A:0.44, C:0.33, G:0.10, T:0.13
Consensus pattern (35 bp):
AACACACCAAAGCTCATAAGAGCTAATCCATCCAA
Found at i:30239775 original size:24 final size:22
Alignment explanation
Indices: 30239734--30239777 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
30239724 CATTATTCAA
*
30239734 ATTTCATATACATGTATCATAC
1 ATTTCATATACATATATCATAC
30239756 ATTTCATATATCAATATATCAT
1 ATTTCATATA-C-ATATATCAT
30239778 GTAACATCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 1 0.05
24 8 0.42
ACGTcount: A:0.39, C:0.16, G:0.02, T:0.43
Consensus pattern (22 bp):
ATTTCATATACATATATCATAC
Found at i:30247468 original size:24 final size:22
Alignment explanation
Indices: 30247427--30247470 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 22
30247417 CATTATTCAA
*
30247427 ATTTCATATATATGTATCATAC
1 ATTTCATATATATATATCATAC
30247449 ATTTCATATATCAATATATCAT
1 ATTTCATATAT--ATATATCAT
30247471 GTAACATCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 11 0.58
24 8 0.42
ACGTcount: A:0.39, C:0.14, G:0.02, T:0.45
Consensus pattern (22 bp):
ATTTCATATATATATATCATAC
Found at i:30247973 original size:14 final size:15
Alignment explanation
Indices: 30247954--30247982 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
30247944 GAAGAAGAAA
30247954 ACTTATTTTT-TTTT
1 ACTTATTTTTGTTTT
30247968 ACTTATTTTTGTTTT
1 ACTTATTTTTGTTTT
30247983 GATTTTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.14, C:0.07, G:0.03, T:0.76
Consensus pattern (15 bp):
ACTTATTTTTGTTTT
Found at i:30254089 original size:25 final size:24
Alignment explanation
Indices: 30254058--30254104 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 24
30254048 TTTTCTTTAA
30254058 TTTTA-TTAACCTTTATTTAATAATT
1 TTTTATTTAACC-TTA-TTAATAATT
30254083 TTTTATTTAACCTTATTAATAA
1 TTTTATTTAACCTTATTAATAA
30254105 CCTTTAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 7 0.33
25 8 0.38
26 6 0.29
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.57
Consensus pattern (24 bp):
TTTTATTTAACCTTATTAATAATT
Found at i:30260544 original size:27 final size:27
Alignment explanation
Indices: 30260506--30260736 Score: 254
Period size: 27 Copynumber: 8.4 Consensus size: 27
30260496 TCAGATTCGT
*
30260506 GGGTAAAATGATCGAAATACCCCCGAA
1 GGGTAAAATGATCGAAATACCCTCGAA
*
30260533 GGGTAAAATGATCGACCGAAATACCCTCAAA
1 GGGTAAAATGAT----CGAAATACCCTCGAA
* *
30260564 GGGTAAAATGACCGAAATACCCCCGAA
1 GGGTAAAATGATCGAAATACCCTCGAA
**
30260591 GGGTAAAATGA-CTGAAATACCCTTAAA
1 GGGTAAAATGATC-GAAATACCCTCGAA
* * *
30260618 GGGTAAAAT-AACAAAAATACCCTTGAA
1 GGGTAAAATGATC-GAAATACCCTCGAA
*
30260645 GGGTAAAATGATCGAAATACCCTTGAA
1 GGGTAAAATGATCGAAATACCCTCGAA
*
30260672 GGGTAAAATGATCGAAATACCC-CCACA
1 GGGTAAAATGATCGAAATACCCTCGA-A
*
30260699 GGGTAAAATGACCGAAATACCCTC-ATA
1 GGGTAAAATGATCGAAATACCCTCGA-A
30260726 GGGTAAAATGA
1 GGGTAAAATGA
30260737 CCATTATACC
Statistics
Matches: 178, Mismatches: 17, Indels: 18
0.84 0.08 0.08
Matches are distributed among these distances:
26 3 0.02
27 148 0.83
28 3 0.02
31 24 0.13
ACGTcount: A:0.43, C:0.19, G:0.20, T:0.17
Consensus pattern (27 bp):
GGGTAAAATGATCGAAATACCCTCGAA
Found at i:30260735 original size:54 final size:54
Alignment explanation
Indices: 30260506--30260736 Score: 295
Period size: 54 Copynumber: 4.2 Consensus size: 54
30260496 TCAGATTCGT
30260506 GGGTAAAATGATCGAAATACCCCCGAAGGGTAAAATGATCGACCGAAATACCCTCAAA
1 GGGTAAAATGATCGAAATACCCCCGAAGGGT-AAA--AT-GACCGAAATACCCTCAAA
* * *
30260564 GGGTAAAATGACCGAAATACCCCCGAAGGGTAAAATGACTGAAATACCCTTAAA
1 GGGTAAAATGATCGAAATACCCCCGAAGGGTAAAATGACCGAAATACCCTCAAA
* * ** * **
30260618 GGGTAAAAT-AACAAAAATACCCTTGAAGGGTAAAATGATCGAAATACCCTTGAA
1 GGGTAAAATGATC-GAAATACCCCCGAAGGGTAAAATGACCGAAATACCCTCAAA
*
30260672 GGGTAAAATGATCGAAATACCCCC-ACAGGGTAAAATGACCGAAATACCCTCATA
1 GGGTAAAATGATCGAAATACCCCCGA-AGGGTAAAATGACCGAAATACCCTCAAA
30260726 GGGTAAAATGA
1 GGGTAAAATGA
30260737 CCATTATACC
Statistics
Matches: 152, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
53 3 0.02
54 112 0.74
55 4 0.03
57 3 0.02
58 30 0.20
ACGTcount: A:0.43, C:0.19, G:0.20, T:0.17
Consensus pattern (54 bp):
GGGTAAAATGATCGAAATACCCCCGAAGGGTAAAATGACCGAAATACCCTCAAA
Found at i:30261087 original size:28 final size:28
Alignment explanation
Indices: 30261055--30261143 Score: 110
Period size: 28 Copynumber: 3.2 Consensus size: 28
30261045 GGTTGCATTA
30261055 CCACATTGTTACTATAATGGGCTAAGGC
1 CCACATTGTTACTATAATGGGCTAAGGC
* *
30261083 CCACATTGTTTCTATATTGGGCTAAGGC
1 CCACATTGTTACTATAATGGGCTAAGGC
* *
30261111 CCTCATTATTAC-AGT-ATCGGGCTAAGGC
1 CCACATTGTTACTA-TAAT-GGGCTAAGGC
30261139 CCACA
1 CCACA
30261144 CTGTGCTATT
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
27 2 0.04
28 50 0.96
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (28 bp):
CCACATTGTTACTATAATGGGCTAAGGC
Found at i:30273538 original size:21 final size:20
Alignment explanation
Indices: 30273514--30273568 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
30273504 AAATAAAATA
30273514 TTTTATATTTAAATATTATTC
1 TTTTATA-TTAAATATTATTC
**
30273535 TTTTGATAGAAAATATTATTC
1 TTTT-ATATTAAATATTATTC
*
30273556 TTTAATATTAAAT
1 TTTTATATTAAAT
30273569 TGATGTGGAA
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
20 7 0.25
21 18 0.64
22 3 0.11
ACGTcount: A:0.38, C:0.04, G:0.04, T:0.55
Consensus pattern (20 bp):
TTTTATATTAAATATTATTC
Found at i:30277083 original size:12 final size:13
Alignment explanation
Indices: 30277066--30277094 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
30277056 AATTTAATTT
30277066 CTTTAA-TTTTAA
1 CTTTAATTTTTAA
30277078 CTTTAATTTTTAA
1 CTTTAATTTTTAA
30277091 CTTT
1 CTTT
30277095 TTACTAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.28, C:0.10, G:0.00, T:0.62
Consensus pattern (13 bp):
CTTTAATTTTTAA
Found at i:30278537 original size:9 final size:9
Alignment explanation
Indices: 30278520--30278556 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
30278510 TGAGTTTTCG
30278520 AATTCGAAT
1 AATTCGAAT
*
30278529 AACTCGAAT
1 AATTCGAAT
30278538 AATTCGAAT
1 AATTCGAAT
30278547 AATTCGAAT
1 AATTCGAAT
30278556 A
1 A
30278557 TCAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:30278804 original size:30 final size:31
Alignment explanation
Indices: 30278770--30278829 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
30278760 AAACCTTTTA
*
30278770 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* * *
30278800 TTTTCGCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
30278830 TCCCACCTCT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.20, C:0.38, G:0.02, T:0.40
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:30278950 original size:19 final size:19
Alignment explanation
Indices: 30278904--30278964 Score: 58
Period size: 19 Copynumber: 3.4 Consensus size: 19
30278894 ACTCCTCCTA
30278904 TTTACTTTCCCTC--AAACT
1 TTTACTTTCCC-CAAAAACT
*
30278922 TTT-C-TTCCCCAAAAATT
1 TTTACTTTCCCCAAAAACT
**
30278939 TTTACTTTCCCCCTAAACT
1 TTTACTTTCCCCAAAAACT
30278958 TTTACTT
1 TTTACTT
30278965 CTTACCCTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
15 1 0.03
16 5 0.14
17 8 0.23
18 4 0.11
19 17 0.49
ACGTcount: A:0.23, C:0.31, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTACTTTCCCCAAAAACT
Found at i:30279915 original size:22 final size:22
Alignment explanation
Indices: 30279867--30279934 Score: 57
Period size: 22 Copynumber: 3.0 Consensus size: 22
30279857 ATCTACTTCT
* **
30279867 AAAAATTATAAAAAATCTATGTGA
1 AAAAATTATAAAAAAAC-AT-AAA
30279891 AAAAATTATAAAAAAACATAAA
1 AAAAATTATAAAAAAACATAAA
* * *
30279913 AAAATTTAGAAAACAACA-AAA
1 AAAAATTATAAAAAAACATAAA
30279934 A
1 A
30279935 TATGATTTCC
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
21 4 0.11
22 16 0.42
23 2 0.05
24 16 0.42
ACGTcount: A:0.69, C:0.06, G:0.04, T:0.21
Consensus pattern (22 bp):
AAAAATTATAAAAAAACATAAA
Found at i:30284795 original size:23 final size:24
Alignment explanation
Indices: 30284769--30284821 Score: 99
Period size: 23 Copynumber: 2.2 Consensus size: 24
30284759 CAAAGTAAAC
30284769 ATCAATTCATTCAAGCAATACCT-
1 ATCAATTCATTCAAGCAATACCTA
30284792 ATCAATTCATTCAAGCAATACCTA
1 ATCAATTCATTCAAGCAATACCTA
30284816 ATCAAT
1 ATCAAT
30284822 ACCTAACAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 23 0.79
24 6 0.21
ACGTcount: A:0.42, C:0.25, G:0.04, T:0.30
Consensus pattern (24 bp):
ATCAATTCATTCAAGCAATACCTA
Found at i:30290558 original size:37 final size:37
Alignment explanation
Indices: 30290500--30290572 Score: 112
Period size: 37 Copynumber: 2.0 Consensus size: 37
30290490 TAATTGCAAC
30290500 AAAAAAAGATGTACGGAGAGACCTATTCAATGAACAT
1 AAAAAAAGATGTACGGAGAGACCTATTCAATGAACAT
* *
30290537 AAAAAAAGATGTGCAGG-GAGACGTATTCAATGAACA
1 AAAAAAAGATGTAC-GGAGAGACCTATTCAATGAACA
30290573 GCCTTGTATC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
37 31 0.94
38 2 0.06
ACGTcount: A:0.48, C:0.12, G:0.22, T:0.18
Consensus pattern (37 bp):
AAAAAAAGATGTACGGAGAGACCTATTCAATGAACAT
Found at i:30290927 original size:176 final size:176
Alignment explanation
Indices: 30290626--30290979 Score: 665
Period size: 176 Copynumber: 2.0 Consensus size: 176
30290616 TCTAGCATTA
*
30290626 ATGAAATTTTGCCTAGTGTGTTTCAATGTTTTTAGCAGGATTATGAGGATGTTTTTAGTGAGGCC
1 ATGAAAATTTGCCTAGTGTGTTTCAATGTTTTTAGCAGGATTATGAGGATGTTTTTAGTGAGGCC
30290691 CCTAAAGGTTTACCACCTTTGCGTGGGATAGAACACTTCCATTGGCCACATATGAAAGATAACTT
66 CCTAAAGGTTTACCACCTTTGCGTGGGATAGAACACTTCCATTGGCCACATATGAAAGATAACTT
30290756 CCAAATTCAATACCTTTCCAATGAAAGACGCTTTCATACGATCAAT
131 CCAAATTCAATACCTTTCCAATGAAAGACGCTTTCATACGATCAAT
* *
30290802 ATGAAAATTTGCCTAGTGTGTTTCAATGTTTTTCGTAGGATTATGAGGATGTTTTCT-GTGAGGC
1 ATGAAAATTTGCCTAGTGTGTTTCAATGTTTTTAGCAGGATTATGAGGATGTTTT-TAGTGAGGC
30290866 CCCTAAAGGTTTACCACCTTTGCGTGGGATAGAACACTTCCATTGGCCACATATGAAAGATAACT
65 CCCTAAAGGTTTACCACCTTTGCGTGGGATAGAACACTTCCATTGGCCACATATGAAAGATAACT
30290931 TCCAAATTCAATACCTTTCCAATGAAAGACGCTTTCATACGATCAAT
130 TCCAAATTCAATACCTTTCCAATGAAAGACGCTTTCATACGATCAAT
30290978 AT
1 AT
30290980 AGGCAAAGAT
Statistics
Matches: 174, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
176 173 0.99
177 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (176 bp):
ATGAAAATTTGCCTAGTGTGTTTCAATGTTTTTAGCAGGATTATGAGGATGTTTTTAGTGAGGCC
CCTAAAGGTTTACCACCTTTGCGTGGGATAGAACACTTCCATTGGCCACATATGAAAGATAACTT
CCAAATTCAATACCTTTCCAATGAAAGACGCTTTCATACGATCAAT
Found at i:30293725 original size:22 final size:24
Alignment explanation
Indices: 30293678--30293730 Score: 67
Period size: 22 Copynumber: 2.3 Consensus size: 24
30293668 TTTAAATATT
*
30293678 TTTAAA-AGTATAACCATTATAAA
1 TTTAAATAGTATAACCATTACAAA
*
30293701 TTTAAATA-TATAA-CATTACATA
1 TTTAAATAGTATAACCATTACAAA
30293723 TTTAAATA
1 TTTAAATA
30293731 AATCCTAACC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 15 0.56
23 11 0.41
24 1 0.04
ACGTcount: A:0.51, C:0.08, G:0.02, T:0.40
Consensus pattern (24 bp):
TTTAAATAGTATAACCATTACAAA
Found at i:30295047 original size:150 final size:150
Alignment explanation
Indices: 30294878--30295184 Score: 551
Period size: 150 Copynumber: 2.0 Consensus size: 150
30294868 GAGGAGGAAG
* *
30294878 AGGAAGAGGTGGGAGAGGTTGTTAGGTTGAAAAGAGAACGGATATCTTCGGTAAGGGAGAGGAAG
1 AGGAAGAGGTGAGAGAGGTTGTTAGGTTGAAAAGAGAACGGATATCTTCGGAAAGGGAGAGGAAG
*
30294943 ATTGTGGATAAAAAATCTGTAAAGCAGGAAACCGTGTCTGTTGAAGAAGATGAAGACAAGGATTA
66 ATTGCGGATAAAAAATCTGTAAAGCAGGAAACCGTGTCTGTTGAAGAAGATGAAGACAAGGATTA
30295008 TGAGGAGGAAGAAGAAGAAA
131 TGAGGAGGAAGAAGAAGAAA
30295028 AGGAAGAGGTGAGAGAGGTTGTTAGGTTGAAAAGAGAACGGATATCTTCGGAAAGGGAGAGGAAG
1 AGGAAGAGGTGAGAGAGGTTGTTAGGTTGAAAAGAGAACGGATATCTTCGGAAAGGGAGAGGAAG
* * * *
30295093 ATTGCGGATAAAAAATCTGTCAAGCGGGAAAGCTTGTCTGTTGAAGAAGATGAAGACAAGGATTA
66 ATTGCGGATAAAAAATCTGTAAAGCAGGAAACCGTGTCTGTTGAAGAAGATGAAGACAAGGATTA
30295158 TGAGGAGGAAGAAGAAGAAA
131 TGAGGAGGAAGAAGAAGAAA
30295178 AGGAAGA
1 AGGAAGA
30295185 TGATGATGAG
Statistics
Matches: 150, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
150 150 1.00
ACGTcount: A:0.40, C:0.06, G:0.36, T:0.18
Consensus pattern (150 bp):
AGGAAGAGGTGAGAGAGGTTGTTAGGTTGAAAAGAGAACGGATATCTTCGGAAAGGGAGAGGAAG
ATTGCGGATAAAAAATCTGTAAAGCAGGAAACCGTGTCTGTTGAAGAAGATGAAGACAAGGATTA
TGAGGAGGAAGAAGAAGAAA
Found at i:30295230 original size:36 final size:36
Alignment explanation
Indices: 30295189--30295305 Score: 153
Period size: 36 Copynumber: 3.2 Consensus size: 36
30295179 GGAAGATGAT
* * ** *
30295189 GATGAGGAGTTCACTCCAGATTTAGAAGATTGTTTG
1 GATGAGGAATTCACTCCGGATGAAGAGGATTGTTTG
* *
30295225 GATGAGGAATTTACTCTGGATGAAGAGGATTGTTTG
1 GATGAGGAATTCACTCCGGATGAAGAGGATTGTTTG
* *
30295261 GATGAAGAATTCACTCCGGATGAAGAGGATTGTTTA
1 GATGAGGAATTCACTCCGGATGAAGAGGATTGTTTG
30295297 GATGAGGAA
1 GATGAGGAA
30295306 GAGGAATTGA
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 69 1.00
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.30
Consensus pattern (36 bp):
GATGAGGAATTCACTCCGGATGAAGAGGATTGTTTG
Found at i:30297803 original size:33 final size:33
Alignment explanation
Indices: 30297761--30297825 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
30297751 AGTCAATTTT
30297761 CTGCTTCTCAGTGCTGATTGCTTTTACTGCTTC
1 CTGCTTCTCAGTGCTGATTGCTTTTACTGCTTC
30297794 CTGCTTCTCAGTGCTGATTGCTTTTACTGCTT
1 CTGCTTCTCAGTGCTGATTGCTTTTACTGCTT
30297826 GAGTTCTTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.09, C:0.26, G:0.18, T:0.46
Consensus pattern (33 bp):
CTGCTTCTCAGTGCTGATTGCTTTTACTGCTTC
Found at i:30297815 original size:17 final size:17
Alignment explanation
Indices: 30297762--30297816 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 17
30297752 GTCAATTTTC
30297762 TGCTTCTCAGTGCTGAT
1 TGCTTCTCAGTGCTGAT
* * ***
30297779 TGCTT-TTACTGCTTCC
1 TGCTTCTCAGTGCTGAT
30297795 TGCTTCTCAGTGCTGAT
1 TGCTTCTCAGTGCTGAT
30297812 TGCTT
1 TGCTT
30297817 TTACTGCTTG
Statistics
Matches: 27, Mismatches: 10, Indels: 2
0.69 0.26 0.05
Matches are distributed among these distances:
16 11 0.41
17 16 0.59
ACGTcount: A:0.09, C:0.25, G:0.20, T:0.45
Consensus pattern (17 bp):
TGCTTCTCAGTGCTGAT
Found at i:30303141 original size:18 final size:17
Alignment explanation
Indices: 30303108--30303149 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
30303098 AGCTTCTCAG
* *
30303108 AAATACTTTTGGGATAA
1 AAATATTTTTGAGATAA
30303125 AAAGTATTTTTGAGATAA
1 AAA-TATTTTTGAGATAA
30303143 AAATATT
1 AAATATT
30303150 GTTAAATAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.45, C:0.02, G:0.14, T:0.38
Consensus pattern (17 bp):
AAATATTTTTGAGATAA
Found at i:30305332 original size:19 final size:20
Alignment explanation
Indices: 30305310--30305349 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
30305300 AAAAAGTATG
*
30305310 TATAAAATCTAAAAA-AAAA
1 TATAAAATATAAAAATAAAA
*
30305329 TATAAATTATAAAAATAAAA
1 TATAAAATATAAAAATAAAA
30305349 T
1 T
30305350 TTACAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.28
Consensus pattern (20 bp):
TATAAAATATAAAAATAAAA
Found at i:30305452 original size:17 final size:18
Alignment explanation
Indices: 30305410--30305452 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
30305400 TTATTACAAA
*
30305410 AAAATTAT-AAAAATTGT
1 AAAATTATAAAAAAATGT
*
30305427 AAAAATATAAAAAAATGT
1 AAAATTATAAAAAAATGT
30305445 -AAATTATA
1 AAAATTATA
30305453 TTTTTAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (18 bp):
AAAATTATAAAAAAATGT
Found at i:30305453 original size:19 final size:18
Alignment explanation
Indices: 30305409--30305447 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
30305399 ATTATTACAA
*
30305409 AAAAAT-TATAAAAATTGT
1 AAAAATATA-AAAAAATGT
30305427 AAAAATATAAAAAAATGT
1 AAAAATATAAAAAAATGT
30305445 AAA
1 AAA
30305448 TTATATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 17 0.89
19 2 0.11
ACGTcount: A:0.69, C:0.00, G:0.05, T:0.26
Consensus pattern (18 bp):
AAAAATATAAAAAAATGT
Found at i:30305495 original size:24 final size:24
Alignment explanation
Indices: 30305435--30305481 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
30305425 GTAAAAATAT
*
30305435 AAAAAAATGTAAATTATATTTTTA
1 AAAAAAATTTAAATTATATTTTTA
*
30305459 AAAAAAATTTAAATTATTTTTTT
1 AAAAAAATTTAAATTATATTTTT
30305482 TATAAAATTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (24 bp):
AAAAAAATTTAAATTATATTTTTA
Found at i:30308890 original size:20 final size:20
Alignment explanation
Indices: 30308867--30308907 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
30308857 CTTAAACAAA
*
30308867 TTAAGATTTATTTAA-TTAAT
1 TTAAG-TTTAATTAACTTAAT
30308887 TTAAGTTTAATTAACTTAAT
1 TTAAGTTTAATTAACTTAAT
30308907 T
1 T
30308908 AACAAATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (20 bp):
TTAAGTTTAATTAACTTAAT
Found at i:30309503 original size:49 final size:50
Alignment explanation
Indices: 30309431--30309560 Score: 183
Period size: 49 Copynumber: 2.6 Consensus size: 50
30309421 TGCCTTTGGT
* * * *
30309431 TGAAAATCATCATTGTCGGGCTATCCGAGATGA-TAGGATAAGTAAATTG
1 TGAAAACCATCATTTTCAGGCTATCCGTGATGAGTAGGATAAGTAAATTG
** *
30309480 TGAAAACCATTGTTTTCAGGCTATCTGTGAT-AGTAGGATAAGTAAATTG
1 TGAAAACCATCATTTTCAGGCTATCCGTGATGAGTAGGATAAGTAAATTG
30309529 TGAAAACCATCATTTTCAGGCTATCCGTGATG
1 TGAAAACCATCATTTTCAGGCTATCCGTGATG
30309561 GTAAAATGTA
Statistics
Matches: 69, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
48 1 0.01
49 68 0.99
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.32
Consensus pattern (50 bp):
TGAAAACCATCATTTTCAGGCTATCCGTGATGAGTAGGATAAGTAAATTG
Found at i:30309645 original size:23 final size:23
Alignment explanation
Indices: 30309618--30309664 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
30309608 TGATAATGTA
30309618 TTGTATAGTGCGAACCATCGTTG
1 TTGTATAGTGCGAACCATCGTTG
30309641 TTGTATAGTGCGAACCATCGTTG
1 TTGTATAGTGCGAACCATCGTTG
30309664 T
1 T
30309665 CGGGCCACTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.21, C:0.17, G:0.26, T:0.36
Consensus pattern (23 bp):
TTGTATAGTGCGAACCATCGTTG
Found at i:30316966 original size:32 final size:32
Alignment explanation
Indices: 30316910--30316977 Score: 100
Period size: 32 Copynumber: 2.1 Consensus size: 32
30316900 TTTTTGGAGG
* * *
30316910 TTGATTAATGCAAATCCTTAAAGAAATTAGAA
1 TTGATTAATACAAACCCCTAAAGAAATTAGAA
*
30316942 TTGATTAATACAAACCCCTGAAGAAATTAGAA
1 TTGATTAATACAAACCCCTAAAGAAATTAGAA
30316974 TTGA
1 TTGA
30316978 ATAGAAAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.46, C:0.12, G:0.13, T:0.29
Consensus pattern (32 bp):
TTGATTAATACAAACCCCTAAAGAAATTAGAA
Found at i:30318503 original size:4 final size:4
Alignment explanation
Indices: 30318496--30318601 Score: 185
Period size: 4 Copynumber: 26.5 Consensus size: 4
30318486 GTTAAAATAA
*
30318496 ATGT ATGT GTGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
* *
30318544 ATGT ATGT GTGT ATGT GTGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
30318592 ATGT ATGT AT
1 ATGT ATGT AT
30318602 ATGTTTGAAT
Statistics
Matches: 96, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 96 1.00
ACGTcount: A:0.23, C:0.00, G:0.27, T:0.50
Consensus pattern (4 bp):
ATGT
Found at i:30328187 original size:125 final size:125
Alignment explanation
Indices: 30327965--30328236 Score: 476
Period size: 125 Copynumber: 2.2 Consensus size: 125
30327955 TTATTTCGAG
* **
30327965 TTGACGTTTCTG-GTCAAATAGTATAAAATCGCTTCTACCAAGATGCTATCAGAGAAGAAATTGT
1 TTGACGTTTCTGAG-CAAATAGTATAAAATCACTGATACCAAGATGCTATCAGAGAAGAAATTGT
30328029 GAAATTGCGCCCTTGTGGACGCGATTTCGCTACAGTTGGTCATGTAGGAAATAATTATTTT
65 GAAATTGCGCCCTTGTGGACGCGATTTCGCTACAGTTGGTCATGTAGGAAATAATTATTTT
*
30328090 TTGACGTTTCTGAGCAAATAGTATAAAATCACTGATACCAGGATGCTAT-ATGAGAAGAAATTGT
1 TTGACGTTTCTGAGCAAATAGTATAAAATCACTGATACCAAGATGCTATCA-GAGAAGAAATTGT
30328154 GAAATTGCGCCCTTGTGGACGCGATTTCGCTACAGTTGGTCATGTAGGAAATAATTATTTT
65 GAAATTGCGCCCTTGTGGACGCGATTTCGCTACAGTTGGTCATGTAGGAAATAATTATTTT
30328215 TTGACGTTTCTGAGCAAATAGT
1 TTGACGTTTCTGAGCAAATAGT
30328237 GTCAGATCGC
Statistics
Matches: 141, Mismatches: 4, Indels: 4
0.95 0.03 0.03
Matches are distributed among these distances:
124 1 0.01
125 139 0.99
126 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (125 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCACTGATACCAAGATGCTATCAGAGAAGAAATTGTG
AAATTGCGCCCTTGTGGACGCGATTTCGCTACAGTTGGTCATGTAGGAAATAATTATTTT
Found at i:30331224 original size:29 final size:29
Alignment explanation
Indices: 30331182--30331267 Score: 145
Period size: 29 Copynumber: 3.0 Consensus size: 29
30331172 TAATTAAAAT
*
30331182 GGGCTTTTAATTAAATTAGTTTAGGGTTA
1 GGGCTTTTAATTAAATTAGGTTAGGGTTA
30331211 GGGCTTTTAATTAAATTAGGTTAGGGTTA
1 GGGCTTTTAATTAAATTAGGTTAGGGTTA
* *
30331240 GGGTTTTTAATTAAGTTAGGTTAGGGTT
1 GGGCTTTTAATTAAATTAGGTTAGGGTT
30331268 TTCAATTAAA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 54 1.00
ACGTcount: A:0.26, C:0.02, G:0.28, T:0.44
Consensus pattern (29 bp):
GGGCTTTTAATTAAATTAGGTTAGGGTTA
Found at i:30331236 original size:23 final size:22
Alignment explanation
Indices: 30331235--30331282 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 22
30331225 ATTAGGTTAG
*
30331235 GGTTAGGGTTTTTAATTAAGTTA
1 GGTTAGGG-TTTTAATTAAATTA
30331258 GGTTAGGGTTTTCAATTAAATTA
1 GGTTAGGGTTTT-AATTAAATTA
30331281 GG
1 GG
30331283 GTTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 4 0.17
23 19 0.83
ACGTcount: A:0.27, C:0.02, G:0.27, T:0.44
Consensus pattern (22 bp):
GGTTAGGGTTTTAATTAAATTA
Found at i:30331520 original size:24 final size:23
Alignment explanation
Indices: 30331488--30331544 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
30331478 CGGCGGCGGT
*
30331488 TGTTCTTCCTCTAGTGGTGATTG
1 TGTTCTTCCTCCAGTGGTGATTG
* *
30331511 TGTTCCTTCCTCCGGTGGTGGTTG
1 TGTT-CTTCCTCCAGTGGTGATTG
30331535 TGGTTCTTCC
1 T-GTTCTTCC
30331545 GGTTCGGCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
23 4 0.14
24 22 0.76
25 3 0.10
ACGTcount: A:0.04, C:0.23, G:0.28, T:0.46
Consensus pattern (23 bp):
TGTTCTTCCTCCAGTGGTGATTG
Found at i:30338230 original size:29 final size:29
Alignment explanation
Indices: 30338189--30339074 Score: 1109
Period size: 29 Copynumber: 30.0 Consensus size: 29
30338179 TAATTGTATT
30338189 AATTAGGGTTAGGGTTTTTAATTAAATTA
1 AATTAGGGTTAGGGTTTTTAATTAAATTA
* * *
30338218 AACTAGGGTTAGGGTTTTTAATTAAAATG
1 AATTAGGGTTAGGGTTTTTAATTAAATTA
**
30338247 GGTTAGGGTTAGGGTTTTTAATTAAATTA
1 AATTAGGGTTAGGGTTTTTAATTAAATTA
*
30338276 GATTAGGGTTTAGGGTTTTTAATTAAATTA
1 AATTAGGG-TTAGGGTTTTTAATTAAATTA
** *
30338306 GGTTAGGGTTTAGTG-TTTTAATTAAATTA
1 AATTAGGG-TTAGGGTTTTTAATTAAATTA
* *
30338335 AACTAGGGTTAGGGTTTTTAATTAACTTA
1 AATTAGGGTTAGGGTTTTTAATTAAATTA
**
30338364 GGTTAGGGTTTAGGG-TTTTAATTAAATTA
1 AATTAGGG-TTAGGGTTTTTAATTAAATTA
30338393 AATTAGGGTTAGGGTTTTTAATTAAATTA
1 AATTAGGGTTAGGGTTTTTAATTAAATTA
* *
30338422 AACTAGGGTTAGGGTTTTTAATTAACTTA
1 AATTAGGGTTAGGGTTTTTAATTAAATTA
**
30338451 GGTTAGGGTTTAGGG-TTTTAATTAAATTA
1 AATTAGGG-TTAGGGTTTTTAATTAAATTA
30338480 AATTAGGGTTAGGGTTTTTAATTAAATTA
1 AATTAGGGTTAGGGTTTTTAATTAAATTA
* * *
30338509 AACTAGGGTTAGGGTTTTTAATTAAAATG
1 AATTAGGGTTAGGGTTTTTAATTAAATTA
*
30338538 AGTTAGGGTTAGGGTTTTTAATTAAATTA
1 AATTAGGGTTAGGGTTTTTAATTAAATTA
*
30338567 AATTAGGGTTAAGGTTTTTAATTAAATTA
1 AATTAGGGTTAGGGTTTTTAATTAAATTA
30338596 AATTAAACTAGGGTTAGGGTTTTTAATTAAATTA
1 AA-T----TAGGGTTAGGGTTTTTAATTAAATTA
* *
30338630 AACTAGGGTTAGGGTTTTTATTTAAATTA
1 AATTAGGGTTAGGGTTTTTAATTAAATTA
**
30338659 GGTTAGGGTTTAGGG-TTTTAATTAAATTA
1 AATTAGGG-TTAGGGTTTTTAATTAAATTA
*
30338688 AATTAGGGTTAGGGTTTTTACTTAAATTA
1 AATTAGGGTTAGGGTTTTTAATTAAATTA
*
30338717 AATTAGGGTTAGGGTTTTTAATT-AATATG
1 AATTAGGGTTAGGGTTTTTAATTAAAT-TA
**
30338746 GGTTAGGGTTAGGGTTTTTAATTAAATTA
1 AATTAGGGTTAGGGTTTTTAATTAAATTA
30338775 AATTAAACTAGGGTTAGGGTTTTTAATTAAATTA
1 AA-T----TAGGGTTAGGGTTTTTAATTAAATTA
* ** *
30338809 AACTAGGGTTAGAATTTTTATTTAAATTA
1 AATTAGGGTTAGGGTTTTTAATTAAATTA
**
30338838 GGTTAGGGTTTAGGG-TTTTAATTAAATTA
1 AATTAGGG-TTAGGGTTTTTAATTAAATTA
30338867 AATTAGGGTTAGGGTTTTTAATTAAATTA
1 AATTAGGGTTAGGGTTTTTAATTAAATTA
* * *
30338896 AACTAGGGTTAGGGTTTTTAATTAAAATG
1 AATTAGGGTTAGGGTTTTTAATTAAATTA
*
30338925 AGTTAGGGTTAGGGTTTTTAATTAAATTA
1 AATTAGGGTTAGGGTTTTTAATTAAATTA
*
30338954 AATTAGGGTTAAGGTTTTTAATTAAATTA
1 AATTAGGGTTAGGGTTTTTAATTAAATTA
30338983 AATTAAACTAGGGTTAGGGTTTTTAATTAAATTA
1 AA-T----TAGGGTTAGGGTTTTTAATTAAATTA
* * *
30339017 AACTAGGGTTAGGGTTTTTAATTAAAATG
1 AATTAGGGTTAGGGTTTTTAATTAAATTA
** *
30339046 GGTTAGGGTTAGAGTTTTTAATTAAATTA
1 AATTAGGGTTAGGGTTTTTAATTAAATTA
30339075 CGATGATCCA
Statistics
Matches: 743, Mismatches: 87, Indels: 54
0.84 0.10 0.06
Matches are distributed among these distances:
28 32 0.04
29 567 0.76
30 62 0.08
34 82 0.11
ACGTcount: A:0.33, C:0.02, G:0.22, T:0.43
Consensus pattern (29 bp):
AATTAGGGTTAGGGTTTTTAATTAAATTA
Found at i:30339966 original size:7 final size:7
Alignment explanation
Indices: 30339956--30339987 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
30339946 TTATATACAT
30339956 AATACTA
1 AATACTA
30339963 AATACTA
1 AATACTA
30339970 AATACTA
1 AATACTA
30339977 AATACTA
1 AATACTA
30339984 AATA
1 AATA
30339988 TCAATCCACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.59, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:30340753 original size:14 final size:15
Alignment explanation
Indices: 30340736--30340769 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
30340726 AATAATTATC
30340736 TAAAAATA-CATAAA
1 TAAAAATATCATAAA
*
30340750 TAAAAATATCTTAAA
1 TAAAAATATCATAAA
30340765 TAAAA
1 TAAAA
30340770 TTTAAAATTT
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:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAAAATATCATAAA
Found at i:30340918 original size:28 final size:28
Alignment explanation
Indices: 30340867--30340922 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
30340857 TTGAAACTAT
*
30340867 TAAAAATTTTAAAATTATTTTTAAAAAA
1 TAAAAATTTTAAAATTATTCTTAAAAAA
30340895 TAAAAATATTTAAAATT-TTCTTAAAAAA
1 TAAAAAT-TTTAAAATTATTCTTAAAAAA
30340923 ATGAAATTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 17 0.65
29 9 0.35
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (28 bp):
TAAAAATTTTAAAATTATTCTTAAAAAA
Found at i:30340929 original size:28 final size:28
Alignment explanation
Indices: 30340867--30340924 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 28
30340857 TTGAAACTAT
*
30340867 TAAAAATTTTAAAATTATTTTTAAAAAA
1 TAAAAATTTTAAAATTATTTTAAAAAAA
30340895 TAAAAATATTTAAAATT-TTCTTAAAAAAA
1 TAAAAAT-TTTAAAATTATT-TTAAAAAAA
30340924 T
1 T
30340925 GAAATTGAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 9 0.33
29 18 0.67
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (28 bp):
TAAAAATTTTAAAATTATTTTAAAAAAA
Found at i:30340986 original size:22 final size:21
Alignment explanation
Indices: 30340958--30341008 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 21
30340948 AAATATGGAT
*
30340958 TTGAGAGATTTTTTGAAGGAAA
1 TTGAGAGA-TTTTGGAAGGAAA
*
30340980 TTGAGAGGATTTTGGAAGGAAT
1 TTGAGA-GATTTTGGAAGGAAA
30341002 TTGAGAG
1 TTGAGAG
30341009 TTTAAGAGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 1 0.04
22 23 0.88
23 2 0.08
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (21 bp):
TTGAGAGATTTTGGAAGGAAA
Found at i:30341031 original size:52 final size:52
Alignment explanation
Indices: 30340961--30341060 Score: 164
Period size: 52 Copynumber: 1.9 Consensus size: 52
30340951 TATGGATTTG
* * * *
30340961 AGAGATTTTTTGAAGGAAATTGAGAGGATTTTGGAAGGAATTTGAGAGTTTA
1 AGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAAATTGAGAGTTTA
30341013 AGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAAATTGAGAG
1 AGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAAATTGAGAG
30341061 AATATTTGTT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.38, C:0.00, G:0.32, T:0.30
Consensus pattern (52 bp):
AGAGAATTTTGGAAGGAAATTGAGAGAATTTTGGAAGGAAATTGAGAGTTTA
Found at i:30341077 original size:24 final size:22
Alignment explanation
Indices: 30341013--30341068 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
30341003 TGAGAGTTTA
30341013 AGAGAATTTTGGAAGGAAATTG
1 AGAGAATTTTGGAAGGAAATTG
30341035 AGAGAATTTTGGAAGGAAATTG
1 AGAGAATTTTGGAAGGAAATTG
30341057 AGAGAATATTTG
1 AGAGAAT-TTTG
30341069 TTTGTGAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 29 0.88
23 4 0.12
ACGTcount: A:0.41, C:0.00, G:0.30, T:0.29
Consensus pattern (22 bp):
AGAGAATTTTGGAAGGAAATTG
Found at i:30352632 original size:21 final size:21
Alignment explanation
Indices: 30352608--30352677 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 21
30352598 TCTTTTGAGC
*
30352608 TTCTGTTTAACCCTTATGGGT
1 TTCTGTTCAACCCTTATGGGT
* * * * *
30352629 TTCTGTTCAGCTCTTACGAGC
1 TTCTGTTCAACCCTTATGGGT
*
30352650 TTCCGTTCAACCCTTATGGGT
1 TTCTGTTCAACCCTTATGGGT
*
30352671 TTTTGTT
1 TTCTGTT
30352678 TAGCTTTCAT
Statistics
Matches: 35, Mismatches: 14, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.13, C:0.23, G:0.19, T:0.46
Consensus pattern (21 bp):
TTCTGTTCAACCCTTATGGGT
Found at i:30352643 original size:42 final size:42
Alignment explanation
Indices: 30352553--30352700 Score: 138
Period size: 42 Copynumber: 3.5 Consensus size: 42
30352543 CTTTCCATTT
* * * * * * *
30352553 AGCTCTCACGAGCTTTTGTTCAACTCATATGAGTTT-TCGTTT
1 AGCTCTTATGAGCTTCTGTTCAACCCTTATGGGTTTCT-GTTC
* * *
30352595 AACTCTTTTGAGCTTCTGTTTAACCCTTATGGGTTTCTGTTC
1 AGCTCTTATGAGCTTCTGTTCAACCCTTATGGGTTTCTGTTC
* * * *
30352637 AGCTCTTACGAGCTTCCGTTCAACCCTTATGGGTTTTTGTTT
1 AGCTCTTATGAGCTTCTGTTCAACCCTTATGGGTTTCTGTTC
30352679 AGCT-TTCATGAGCTTCTGTTCA
1 AGCTCTT-ATGAGCTTCTGTTCA
30352701 GCCTTCAGGC
Statistics
Matches: 85, Mismatches: 19, Indels: 4
0.79 0.18 0.04
Matches are distributed among these distances:
41 2 0.02
42 82 0.96
43 1 0.01
ACGTcount: A:0.16, C:0.22, G:0.18, T:0.44
Consensus pattern (42 bp):
AGCTCTTATGAGCTTCTGTTCAACCCTTATGGGTTTCTGTTC
Found at i:30352707 original size:21 final size:20
Alignment explanation
Indices: 30352603--30352705 Score: 62
Period size: 21 Copynumber: 5.0 Consensus size: 20
30352593 TTAACTCTTT
* *
30352603 TGAGCTTCTGTTTAACCCTTA
1 TGAGCTTCTG-TTCAGCCTTA
* *
30352624 TGGGTTTCTGTTCAGCTCTTA
1 TGAGCTTCTGTTCAGC-CTTA
* * *
30352645 CGAGCTTCCGTTCAACCCTTA
1 TGAGCTTCTGTTC-AGCCTTA
* * * * *
30352666 TGGGTTTTTGTTTAGCTTTCA
1 TGAGCTTCTGTTCAGCCTT-A
30352687 TGAGCTTCTGTTCAGCCTT
1 TGAGCTTCTGTTCAGCCTT
30352706 CAGGCTTCTA
Statistics
Matches: 57, Mismatches: 22, Indels: 6
0.67 0.26 0.07
Matches are distributed among these distances:
20 8 0.14
21 47 0.82
22 2 0.04
ACGTcount: A:0.14, C:0.23, G:0.19, T:0.44
Consensus pattern (20 bp):
TGAGCTTCTGTTCAGCCTTA
Found at i:30355115 original size:50 final size:50
Alignment explanation
Indices: 30355039--30355236 Score: 173
Period size: 50 Copynumber: 3.8 Consensus size: 50
30355029 CTTCTTGTAC
* * * ** *
30355039 TGCCAATGCCATATCCCAAATATGGTCTTACATGGGAGTTCTCATATTGG
1 TGCCAACGCCATGTCCCAGATATGGTCTTACATGGGACCTCTCATATCGG
* * * ** *
30355089 TG-CACATGTCATGTCTCAGATATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCA-ACGCCATGTCCCAGATATGGTCTTACATGGGACCTCTCATATCGG
* *
30355139 TGCCAACGCCATGTCCCAGAAATGGTCTTACATGGGACCTCTCATAACCTCAATGA
1 TGCCAACGCCATGTCCCAGATATGGTCTTACATGGGACCTCTCAT-A--TC---GG
* * *
30355195 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 TGCCAACGCCATGTCCCAGATATGGTCTTACATGGGACCTCT
30355237 TTACCCAAAT
Statistics
Matches: 119, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
49 2 0.02
50 73 0.61
51 2 0.02
53 2 0.02
56 40 0.34
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGATATGGTCTTACATGGGACCTCTCATATCGG
Found at i:30365594 original size:15 final size:15
Alignment explanation
Indices: 30365559--30365720 Score: 58
Period size: 15 Copynumber: 10.9 Consensus size: 15
30365549 TTAAGAATTT
*
30365559 TATTAAATTAT-ATA
1 TATTTAATTATAATA
30365573 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
30365587 TATTTAATAATAAT-
1 TATTTAATTATAATA
30365601 TATATTAATT-T-ATA
1 TAT-TTAATTATAATA
* *
30365615 T-TTTACAGTATCATA
1 TATTTA-ATTATAATA
* *
30365630 TATTATGATT-TCAGTA
1 TATT-TAATTAT-AATA
* *
30365646 -ATTTCA-TATAAGA
1 TATTTAATTATAATA
*
30365659 -ATATTAATTATTAAGA
1 TAT-TTAATTA-TAATA
* *
30365675 -ATTTTATTAAATTATA
1 TATTTAATT--ATAATA
30365691 TATTTTAATTATAATA
1 TA-TTTAATTATAATA
*
30365707 TATTTAATAATAAT
1 TATTTAATTATAAT
30365721 TATGTTTAAA
Statistics
Matches: 112, Mismatches: 18, Indels: 35
0.68 0.11 0.21
Matches are distributed among these distances:
12 3 0.03
13 18 0.16
14 17 0.15
15 42 0.38
16 23 0.21
17 3 0.03
18 6 0.05
ACGTcount: A:0.44, C:0.02, G:0.03, T:0.51
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:30365688 original size:120 final size:120
Alignment explanation
Indices: 30365495--30365723 Score: 431
Period size: 120 Copynumber: 1.9 Consensus size: 120
30365485 TTTTGTAAAC
* *
30365495 TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTT
1 TTTTACAGTATCATATATTATGATTTCAGTAAATTCATATAAGAATATTAATTATTAAGAATTTT
30365560 ATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATATTAATTTATA
66 ATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATATTAATTTATA
*
30365615 TTTTACAGTATCATATATTATGATTTCAGTAATTTCATATAAGAATATTAATTATTAAGAATTTT
1 TTTTACAGTATCATATATTATGATTTCAGTAAATTCATATAAGAATATTAATTATTAAGAATTTT
30365680 ATTAAATTATATATTTTAATTATAATATATTTAATAATAATTAT
66 ATTAAATTATATATTTTAATTATAATATATTTAATAATAATTAT
30365724 GTTTAAATAT
Statistics
Matches: 106, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 106 1.00
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.50
Consensus pattern (120 bp):
TTTTACAGTATCATATATTATGATTTCAGTAAATTCATATAAGAATATTAATTATTAAGAATTTT
ATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATATTAATTTATA
Found at i:30365709 original size:16 final size:16
Alignment explanation
Indices: 30365688--30365729 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
30365678 TTATTAAATT
*
30365688 ATATATTTTAATTATA
1 ATATATTTTAATAATA
30365704 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
30365719 AT-TATGTTTAA
1 ATATAT-TTTAA
30365730 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:30366221 original size:50 final size:50
Alignment explanation
Indices: 30366106--30366340 Score: 215
Period size: 50 Copynumber: 4.6 Consensus size: 50
30366096 CCAAAGCTAG
* * * *
30366106 GTCCCAGACATGGTCTTACATGGGATG-TTTCTTGTAC--TGCCAATGTCAT
1 GTCCCAGACATGGTCTTACATGGGA-GCTCTCATAT-CGGTGCCAATGCCAT
* * * *
30366155 ATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCCCATGCCAT
1 GTCCCAGACATGGTCTTACATGGGAGCTCTCATATCGGTGCCAATGCCAT
* ** * *
30366205 GTCCCAGATATGGTCTTACGGGGGAACTCTCATCTCGGTGCCAATGCCAT
1 GTCCCAGACATGGTCTTACATGGGAGCTCTCATATCGGTGCCAATGCCAT
* * *
30366255 GTCCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAATGATGCCACTGCCAT
1 GTCCCAGACATGGTCTTACATGGGAGCTCTCAT-A--TC---GGTGCCAATGCCAT
* *
30366311 GTCCCAGACATGGTTTTACATGGGATCTCT
1 GTCCCAGACATGGTCTTACATGGGAGCTCT
30366341 TTACCCAAAT
Statistics
Matches: 154, Mismatches: 23, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
48 2 0.01
49 28 0.18
50 82 0.53
53 2 0.01
56 40 0.26
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.29
Consensus pattern (50 bp):
GTCCCAGACATGGTCTTACATGGGAGCTCTCATATCGGTGCCAATGCCAT
Found at i:30368823 original size:54 final size:54
Alignment explanation
Indices: 30368749--30368879 Score: 160
Period size: 54 Copynumber: 2.4 Consensus size: 54
30368739 AAATTGTTTT
* * * *
30368749 TTTTTTG-TGTTGCCGATGTGTTAAGTGGCACT-G-GTGTCAGTTTAAAAAAAAAA
1 TTTTTTGTTGTCGCCGGTGTGTCAAGTGGCACTAGTGTGT-A-TGTAAAAAAAAAA
* * *
30368802 TTTTTTGTTGTCGTCTGTGTGTCAAGTGGCACTAGTGTGTATGTAAAAAAATAA
1 TTTTTTGTTGTCGCCGGTGTGTCAAGTGGCACTAGTGTGTATGTAAAAAAAAAA
30368856 TTTTTTGTTGTCGCCGGTGTGTCA
1 TTTTTTGTTGTCGCCGGTGTGTCA
30368880 GGCGACACCT
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
53 7 0.11
54 53 0.80
55 2 0.03
56 4 0.06
ACGTcount: A:0.23, C:0.11, G:0.25, T:0.41
Consensus pattern (54 bp):
TTTTTTGTTGTCGCCGGTGTGTCAAGTGGCACTAGTGTGTATGTAAAAAAAAAA
Found at i:30372241 original size:21 final size:21
Alignment explanation
Indices: 30372217--30372283 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 21
30372207 GAGTATTCTG
30372217 TCGAATACTCGTTTGTATCAT
1 TCGAATACTCGTTTGTATCAT
** **
30372238 TCG-ATCAC-AATGAGTATTCTAT
1 TCGAAT-ACTCGTTTGTA-TC-AT
30372260 -CGAATACTCGTTTGTATCAT
1 TCGAATACTCGTTTGTATCAT
30372280 TCGA
1 TCGA
30372284 TCACAATTTA
Statistics
Matches: 32, Mismatches: 8, Indels: 12
0.62 0.15 0.23
Matches are distributed among these distances:
20 8 0.25
21 16 0.50
22 8 0.25
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.39
Consensus pattern (21 bp):
TCGAATACTCGTTTGTATCAT
Found at i:30372266 original size:42 final size:42
Alignment explanation
Indices: 30372207--30372290 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
30372197 AGAGTGCTAC
*
30372207 GAGTATTCTGTCGAATACTCGTTTGTATCATTCGATCACAAT
1 GAGTATTCTATCGAATACTCGTTTGTATCATTCGATCACAAT
30372249 GAGTATTCTATCGAATACTCGTTTGTATCATTCGATCACAAT
1 GAGTATTCTATCGAATACTCGTTTGTATCATTCGATCACAAT
30372291 TTAAAATAGC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.38
Consensus pattern (42 bp):
GAGTATTCTATCGAATACTCGTTTGTATCATTCGATCACAAT
Found at i:30372629 original size:13 final size:13
Alignment explanation
Indices: 30372613--30372638 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
30372603 CCAATCCATC
30372613 CCTCAACTCCAGT
1 CCTCAACTCCAGT
30372626 CCTCAACTCCAGT
1 CCTCAACTCCAGT
30372639 GCTGCAACAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.46, G:0.08, T:0.23
Consensus pattern (13 bp):
CCTCAACTCCAGT
Found at i:30376602 original size:18 final size:18
Alignment explanation
Indices: 30376552--30376604 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
30376542 CATAAATTCA
*
30376552 TTTTTCA-TGTCATTTTTC
1 TTTTTCATTTTCA-TTTTC
*
30376570 TTTTTC-TTTCCCATTTTC
1 TTTTTCATTT-TCATTTTC
30376588 TTTTTCATTTTCATTTT
1 TTTTTCATTTTCATTTT
30376605 GGAGAAACCC
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
18 24 0.83
19 5 0.17
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (18 bp):
TTTTTCATTTTCATTTTC
Found at i:30384777 original size:40 final size:42
Alignment explanation
Indices: 30384701--30384779 Score: 117
Period size: 40 Copynumber: 1.9 Consensus size: 42
30384691 CCGAATATAA
* *
30384701 TAAATATATTTTTTATTTTTATTTTTTAATTTTAAAATACTT
1 TAAAAATATTTTTTATTTATATTTTTTAATTTTAAAATACTT
*
30384743 TAAAAATATTTTTT-TTTAT-TTTTTTATTTTTAAAATA
1 TAAAAATATTTTTTATTTATATTTTTTAATTTTAAAATA
30384780 ATTTTTTTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 17 0.50
41 4 0.12
42 13 0.38
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (42 bp):
TAAAAATATTTTTTATTTATATTTTTTAATTTTAAAATACTT
Found at i:30389308 original size:22 final size:21
Alignment explanation
Indices: 30389274--30389342 Score: 57
Period size: 22 Copynumber: 2.9 Consensus size: 21
30389264 AGGCAACCCA
30389274 ATTTTTATTTTTATTATTTACT
1 ATTTTT-TTTTTATTATTTACT
*
30389296 ATTTTTTTCTTTACTTTATTTATT
1 ATTTTTTT-TTTA--TTATTTACT
30389320 ACTTTATTTTATTTTATTATTTA
1 A--TT-TTTT-TTTTATTATTTA
30389343 TTACTTATTT
Statistics
Matches: 39, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
21 2 0.05
22 10 0.26
24 9 0.23
25 7 0.18
26 2 0.05
27 8 0.21
28 1 0.03
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (21 bp):
ATTTTTTTTTTATTATTTACT
Found at i:30389323 original size:12 final size:12
Alignment explanation
Indices: 30389306--30389352 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 12
30389296 ATTTTTTTCT
30389306 TTACTTTATTTA
1 TTACTTTATTTA
30389318 TTACTTTATTTTA
1 TTACTTTA-TTTA
*
30389331 TT-TTATTATTTA
1 TTACT-TTATTTA
30389343 TTAC-TTATTT
1 TTACTTTATTT
30389353 GGATATTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
11 6 0.20
12 15 0.50
13 9 0.30
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.70
Consensus pattern (12 bp):
TTACTTTATTTA
Found at i:30389342 original size:17 final size:17
Alignment explanation
Indices: 30389276--30389344 Score: 63
Period size: 17 Copynumber: 4.1 Consensus size: 17
30389266 GCAACCCAAT
30389276 TTTTATTTTTATTATTTA
1 TTTTA-TTTTATTATTTA
* * *
30389294 --CTATTTTTTTCTTTA
1 TTTTATTTTATTATTTA
*
30389309 CTTTA-TTTATTACTTTA
1 TTTTATTTTATTA-TTTA
30389326 TTTTATTTTATTATTTA
1 TTTTATTTTATTATTTA
30389343 TT
1 TT
30389345 ACTTATTTGG
Statistics
Matches: 40, Mismatches: 7, Indels: 9
0.71 0.12 0.16
Matches are distributed among these distances:
15 10 0.25
16 7 0.17
17 16 0.40
18 7 0.17
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTATTTTATTATTTA
Found at i:30389345 original size:25 final size:25
Alignment explanation
Indices: 30389276--30389352 Score: 81
Period size: 24 Copynumber: 3.1 Consensus size: 25
30389266 GCAACCCAAT
*
30389276 TTTTATTTTTATTATTTACTA-TTT-
1 TTTTA-TTTTATTATTTATTACTTTA
*
30389300 TTTT-CTTTACTTTATTTATTACTTTA
1 TTTTATTTTA--TTATTTATTACTTTA
30389326 TTTTATTTTATTATTTATTAC-TTA
1 TTTTATTTTATTATTTATTACTTTA
30389350 TTT
1 TTT
30389353 GGATATTAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
22 4 0.09
24 19 0.42
25 14 0.31
26 4 0.09
27 4 0.09
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (25 bp):
TTTTATTTTATTATTTATTACTTTA
Found at i:30390289 original size:101 final size:100
Alignment explanation
Indices: 30390101--30390287 Score: 241
Period size: 101 Copynumber: 1.8 Consensus size: 100
30390091 GAACATGTTG
* * * *
30390101 GGCTGAGTAACCAATGTGGGGTGCTTGGCTGTCATCTCTTTTCGCATCAAAAGGTTCGATGTGTT
1 GGCTGAGTAACCAAGGTGGGGTGCTTGGCTGTCATCTCTCTTCGCATCAAAAGGTTCGATATGTC
*
30390166 CTTAAGAAAAAATTATAATAAATTAGGAGTCTGCTT
66 CTAAAGAAAAAA-TATAATAAATTAGGAGTCTGCTT
** *
30390202 GGCTGAGTAACCGGGGTGGGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTTCAGTATAT-
1 GGCTGAGTAACCAAGGTGGGGTGCTTGGCTGTCATCTCTCTTCGCATCAAAAGGTTC-G-ATATG
30390266 TCCTAAAGCATAAAAAATATAA
64 TCCTAAAG---AAAAAATATAA
30390288 ATAATAAATA
Statistics
Matches: 73, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
101 52 0.71
102 7 0.10
103 3 0.04
104 5 0.07
105 6 0.08
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.31
Consensus pattern (100 bp):
GGCTGAGTAACCAAGGTGGGGTGCTTGGCTGTCATCTCTCTTCGCATCAAAAGGTTCGATATGTC
CTAAAGAAAAAATATAATAAATTAGGAGTCTGCTT
Found at i:30390306 original size:17 final size:16
Alignment explanation
Indices: 30390275--30390324 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
30390265 TTCCTAAAGC
*
30390275 ATAAAAAATATAAATA
1 ATAAAAAATAAAAATA
30390291 ATAAATAAATAAAAATA
1 ATAAA-AAATAAAAATA
*
30390308 A-AAAAAGACAAAAATA
1 ATAAAAA-ATAAAAATA
30390324 A
1 A
30390325 AGAAAAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 2 0.07
16 17 0.57
17 11 0.37
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (16 bp):
ATAAAAAATAAAAATA
Found at i:30393662 original size:101 final size:100
Alignment explanation
Indices: 30393474--30393660 Score: 241
Period size: 101 Copynumber: 1.8 Consensus size: 100
30393464 GAACATGTTG
* * * *
30393474 GGCTGAGTAACCAATGTGGGGTGCTTGGCTGTCATCTCTTTTCGCATCAAAAGGTTCGATGTGTT
1 GGCTGAGTAACCAAGGTGGGGTGCTTGGCTGTCATCTCTCTTCGCATCAAAAGGTTCGATATGTC
*
30393539 CTTAAGAAAAAATTATAATAAATTAGGAGTCTGCTT
66 CTAAAGAAAAAA-TATAATAAATTAGGAGTCTGCTT
** *
30393575 GGCTGAGTAACCGGGGTGGGGTGCTTGGCTGTCATCTCTCTTCGCGTCAAAAGGTTCAGTATAT-
1 GGCTGAGTAACCAAGGTGGGGTGCTTGGCTGTCATCTCTCTTCGCATCAAAAGGTTC-G-ATATG
30393639 TCCTAAAGCATAAAAAATATAA
64 TCCTAAAG---AAAAAATATAA
30393661 ATAATAAATA
Statistics
Matches: 73, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
101 52 0.71
102 7 0.10
103 3 0.04
104 5 0.07
105 6 0.08
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.31
Consensus pattern (100 bp):
GGCTGAGTAACCAAGGTGGGGTGCTTGGCTGTCATCTCTCTTCGCATCAAAAGGTTCGATATGTC
CTAAAGAAAAAATATAATAAATTAGGAGTCTGCTT
Found at i:30393679 original size:17 final size:16
Alignment explanation
Indices: 30393648--30393697 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
30393638 TTCCTAAAGC
*
30393648 ATAAAAAATATAAATA
1 ATAAAAAATAAAAATA
30393664 ATAAATAAATAAAAATA
1 ATAAA-AAATAAAAATA
*
30393681 A-AAAAAGACAAAAATA
1 ATAAAAA-ATAAAAATA
30393697 A
1 A
30393698 AGAAAAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 2 0.07
16 17 0.57
17 11 0.37
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.18
Consensus pattern (16 bp):
ATAAAAAATAAAAATA
Found at i:30394842 original size:25 final size:27
Alignment explanation
Indices: 30394808--30394883 Score: 93
Period size: 25 Copynumber: 2.8 Consensus size: 27
30394798 AATTTTTTTT
30394808 CTACCACAACCATGAGCCACTAAA-C-
1 CTACCACAACCATGAGCCACTAAACCA
* *
30394833 CTACCACAACTATGAGCTACTAAACCCA
1 CTACCACAACCATGAGCCACTAAA-CCA
30394861 TCTAGCCACAACCATGAGCCACT
1 -CTA-CCACAACCATGAGCCACT
30394884 CTACCTCCTC
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
25 22 0.52
27 1 0.02
29 3 0.07
30 16 0.38
ACGTcount: A:0.37, C:0.38, G:0.09, T:0.16
Consensus pattern (27 bp):
CTACCACAACCATGAGCCACTAAACCA
Found at i:30401660 original size:132 final size:132
Alignment explanation
Indices: 30401488--30402750 Score: 2193
Period size: 132 Copynumber: 9.6 Consensus size: 132
30401478 CTGCAACTTT
*
30401488 AGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCAACTATCTTGGAAAGATAAGATTTGTCATC
1 AGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCATC
*
30401553 TTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCTCTGCTGC
66 TTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGC
30401618 TC
131 TC
*
30401620 AGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCAACTATCTTGGAAAGATAAGATTTGTCATC
1 AGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCATC
30401685 TTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGC
66 TTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGC
30401750 TC
131 TC
*
30401752 AGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCATC
1 AGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCATC
* * *
30401817 TTTGATCTGCTCCACTACTGCCTAGGGAGATAAGATCTACAATCTTCAGCCTACTCTGCTGCTGC
66 TTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGC
30401882 TC
131 TC
* * *
30401884 AGGGAGACAAGGCTTGGTGGCTTAAATATGCTTCCCACTATCTTGGAAAGATAATATTTGTCGTC
1 AGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCATC
** * *
30401949 TTTGATCTGCTCCACTACTGCTTACAGAGATAAGATATACAATCTTCAACCTACTCCGCTACTGC
66 TTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGC
30402014 TC
131 TC
*
30402016 AGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCGTC
1 AGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCATC
* * * * *
30402081 TTTAATTTGCTCCACTACTGCTTAGGGAGATAAGATCTGCTATCTTCAACCTACTCCACTGCTGC
66 TTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGC
30402146 TC
131 TC
* *
30402148 AGGGAGACAAGGCTGGGTGGCTTAAATCTGCTTCCAACTATCTTGGAAAGATAAGATTTGTCATC
1 AGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCATC
30402213 TTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGC
66 TTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGC
30402278 TC
131 TC
*
30402280 AGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCATC
1 AGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCATC
* * *
30402345 TTTGATCTGCTCCACTACTGCCTAGGGAGATAAGATCTACAATCTTCAGCCTACTCTGCTGCTGC
66 TTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGC
30402410 TC
131 TC
* * *
30402412 AGGGAGACAAGGCTTGGTGGCTTAAATATGCTTCCCACTATCTTGGAAAGATAATATTTGTCGTC
1 AGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCATC
** * *
30402477 TTTGATCTGCTCCACTACTGCTTACAGAGATAAGATATACAATCTTCAACCTACTCCGCTACTGC
66 TTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGC
30402542 TC
131 TC
*
30402544 AGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCGTC
1 AGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCATC
* *
30402609 TTTGATCTGCTCCATTACTGCTTAGGGAGATAAGATCTACAATATTCAACCTACTCCGCTGCTGC
66 TTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGC
30402674 TC
131 TC
*
30402676 AGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCATC
1 AGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCATC
30402741 TTTGATCTGC
66 TTTGATCTGC
30402751 CTCGCTGTCA
Statistics
Matches: 1068, Mismatches: 63, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 1068 1.00
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (132 bp):
AGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTCATC
TTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCGCTGCTGC
TC
Found at i:30410821 original size:24 final size:24
Alignment explanation
Indices: 30410792--30410837 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
30410782 ATCATCTTTT
* *
30410792 GCTGCTCATTCATTTGCTTTTGAA
1 GCTGCTCATGCATTTCCTTTTGAA
*
30410816 GCTGCTCCTGCATTTCCTTTTG
1 GCTGCTCATGCATTTCCTTTTG
30410838 GGATTGTTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.11, C:0.26, G:0.17, T:0.46
Consensus pattern (24 bp):
GCTGCTCATGCATTTCCTTTTGAA
Found at i:30414916 original size:16 final size:17
Alignment explanation
Indices: 30414878--30414920 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
30414868 TAGAAAGTAT
30414878 AATATATATACGTACATA
1 AATATATA-ACGTACATA
* *
30414896 TATATATAAGGTA-ATA
1 AATATATAACGTACATA
30414912 AATATATAA
1 AATATATAA
30414921 ATCATAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 11 0.50
17 4 0.18
18 7 0.32
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.35
Consensus pattern (17 bp):
AATATATAACGTACATA
Found at i:30415505 original size:19 final size:20
Alignment explanation
Indices: 30415478--30415521 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
30415468 CGGGCATCGA
*
30415478 CCGGTCGTCGACCACC-GCG
1 CCGGCCGTCGACCACCAGCG
* *
30415497 CCGGCCGTCGATCTCCAGCG
1 CCGGCCGTCGACCACCAGCG
30415517 CCGGC
1 CCGGC
30415522 ACCGCCGTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.09, C:0.48, G:0.32, T:0.11
Consensus pattern (20 bp):
CCGGCCGTCGACCACCAGCG
Found at i:30417572 original size:15 final size:14
Alignment explanation
Indices: 30417547--30417582 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
30417537 GACTCTATTT
*
30417547 TAATTATATTAGGA
1 TAATTATATTAAGA
30417561 TAATTGATATTAAGA
1 TAATT-ATATTAAGA
30417576 TAATTAT
1 TAATTAT
30417583 TAAGGATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (14 bp):
TAATTATATTAAGA
Found at i:30420901 original size:13 final size:13
Alignment explanation
Indices: 30420875--30420960 Score: 52
Period size: 13 Copynumber: 6.5 Consensus size: 13
30420865 ATCGAGTGAA
* *
30420875 AAATGAATAAATG
1 AAATGATTATATG
30420888 AAATGATTATATG
1 AAATGATTATATG
*
30420901 -AATCGGTTATATGG
1 AAAT-GATTATAT-G
*
30420915 AAGTAGA-TATATG
1 AAAT-GATTATATG
*
30420928 AAATGGTTATATGG
1 AAATGATTATAT-G
*
30420942 AACTAGA-TATATG
1 AAAT-GATTATATG
30420955 AAATGA
1 AAATGA
30420961 AATATTGGAT
Statistics
Matches: 56, Mismatches: 11, Indels: 13
0.70 0.14 0.16
Matches are distributed among these distances:
12 6 0.11
13 31 0.55
14 15 0.27
15 4 0.07
ACGTcount: A:0.45, C:0.02, G:0.21, T:0.31
Consensus pattern (13 bp):
AAATGATTATATG
Found at i:30420927 original size:14 final size:14
Alignment explanation
Indices: 30420908--30420958 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 14
30420898 ATGAATCGGT
*
30420908 TATATGGAAGTAGA
1 TATATGGAAATAGA
* *
30420922 TATAT-GAAATGGT
1 TATATGGAAATAGA
*
30420935 TATATGGAACTAGA
1 TATATGGAAATAGA
30420949 TATAT-GAAAT
1 TATATGGAAAT
30420959 GAAATATTGG
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
13 14 0.48
14 15 0.52
ACGTcount: A:0.43, C:0.02, G:0.22, T:0.33
Consensus pattern (14 bp):
TATATGGAAATAGA
Found at i:30420957 original size:27 final size:27
Alignment explanation
Indices: 30420895--30420959 Score: 105
Period size: 27 Copynumber: 2.4 Consensus size: 27
30420885 ATGAAATGAT
*
30420895 TATATG-AATCGGTTATATGGAAGTAGA
1 TATATGAAAT-GGTTATATGGAACTAGA
30420922 TATATGAAATGGTTATATGGAACTAGA
1 TATATGAAATGGTTATATGGAACTAGA
30420949 TATATGAAATG
1 TATATGAAATG
30420960 AAATATTGGA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 33 0.92
28 3 0.08
ACGTcount: A:0.40, C:0.03, G:0.23, T:0.34
Consensus pattern (27 bp):
TATATGAAATGGTTATATGGAACTAGA
Found at i:30420969 original size:27 final size:27
Alignment explanation
Indices: 30420908--30420990 Score: 82
Period size: 27 Copynumber: 3.1 Consensus size: 27
30420898 ATGAATCGGT
* **
30420908 TATATGGAAGTAGATATATGAAATGGT
1 TATATGGAACTAGATATATGAAATGAA
30420935 TATATGGAACTAGATATATGAAATGAA
1 TATATGGAACTAGATATATGAAATGAA
* *
30420962 -ATATTGGATA-TAAATATTTGAAAT-AA
1 TATA-TGGA-ACTAGATATATGAAATGAA
30420988 TAT
1 TAT
30420991 GTGAATTGTT
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
26 5 0.10
27 42 0.88
28 1 0.02
ACGTcount: A:0.46, C:0.01, G:0.18, T:0.35
Consensus pattern (27 bp):
TATATGGAACTAGATATATGAAATGAA
Found at i:30424652 original size:28 final size:28
Alignment explanation
Indices: 30424620--30424674 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
30424610 CCTTTTTACA
*
30424620 ATTTAGTTTTTTTCACCTAATTAACCAG
1 ATTTAGTCTTTTTCACCTAATTAACCAG
30424648 ATTTAGTCTTTTTCACCTAATTAACCA
1 ATTTAGTCTTTTTCACCTAATTAACCA
30424675 TTTAAACTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.29, C:0.20, G:0.05, T:0.45
Consensus pattern (28 bp):
ATTTAGTCTTTTTCACCTAATTAACCAG
Found at i:30433704 original size:31 final size:30
Alignment explanation
Indices: 30433664--30433739 Score: 73
Period size: 31 Copynumber: 2.5 Consensus size: 30
30433654 ATAAAATTTG
* * *
30433664 AAAAGTTAAAATAA-TATATAATTTTTTTATA
1 AAAATTTAAAAAAAGTATATAA-ATTTTTA-A
*
30433695 AAAATTTAAAAAAAGTATTTAAATTTTTAA
1 AAAATTTAAAAAAAGTATATAAATTTTTAA
**
30433725 AAAATTGCAAAAAAG
1 AAAATTTAAAAAAAG
30433740 AAAACTTAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
30 14 0.37
31 18 0.47
32 6 0.16
ACGTcount: A:0.57, C:0.01, G:0.05, T:0.37
Consensus pattern (30 bp):
AAAATTTAAAAAAAGTATATAAATTTTTAA
Found at i:30433905 original size:17 final size:17
Alignment explanation
Indices: 30433885--30433931 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
30433875 ATTTAAGGTT
30433885 TTTTTAATATTTTTTAA
1 TTTTTAATATTTTTTAA
* * * *
30433902 TTTTAAATAATTTATAT
1 TTTTTAATATTTTTTAA
30433919 TTTTTAA-ATTTTT
1 TTTTTAATATTTTT
30433932 ATATATTATT
Statistics
Matches: 23, Mismatches: 7, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
16 4 0.17
17 19 0.83
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTTAATATTTTTTAA
Found at i:30433932 original size:17 final size:17
Alignment explanation
Indices: 30433884--30433935 Score: 54
Period size: 16 Copynumber: 3.1 Consensus size: 17
30433874 AATTTAAGGT
30433884 TTTTTTAATATTTTT-TA
1 TTTTTTAA-ATTTTTATA
* *
30433901 -ATTTTAAATAATTTATA
1 TTTTTTAAAT-TTTTATA
30433918 TTTTTTAAATTTTTATA
1 TTTTTTAAATTTTTATA
30433935 T
1 T
30433936 ATTATTTTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
15 2 0.07
16 9 0.32
17 9 0.32
18 8 0.29
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTTTTAAATTTTTATA
Done.