Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 282 of 311
Found at i:92313402 original size:19 final size:18
Alignment explanation
Indices: 92313375--92313424 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
92313365 TTTCGTGGTG
92313375 TATATTGTAT-TATGTACA
1 TATATTGTATATATGTA-A
*
92313393 TATATGTGTATATATTTAA
1 TATAT-TGTATATATGTAA
92313412 TATATT-TATATAT
1 TATATTGTATATAT
92313425 TTATGAAACA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 7 0.24
18 6 0.21
19 11 0.38
20 5 0.17
ACGTcount: A:0.36, C:0.02, G:0.08, T:0.54
Consensus pattern (18 bp):
TATATTGTATATATGTAA
Found at i:92313614 original size:11 final size:11
Alignment explanation
Indices: 92313589--92313620 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
92313579 CAATAGTTAT
92313589 TATTAT-TAT-
1 TATTATGTATA
92313598 TATTATGTATA
1 TATTATGTATA
92313609 TATTATGTATA
1 TATTATGTATA
92313620 T
1 T
92313621 TTACTAACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 6 0.29
10 3 0.14
11 12 0.57
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.59
Consensus pattern (11 bp):
TATTATGTATA
Found at i:92313782 original size:15 final size:14
Alignment explanation
Indices: 92313760--92313805 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 14
92313750 ATCATTTCTA
92313760 ATGTATATGTATAT
1 ATGTATATGTATAT
*
92313774 ATCGTATATGTTTAT
1 AT-GTATATGTATAT
*
92313789 ATATATTATGTATAT
1 ATGTA-TATGTATAT
92313804 AT
1 AT
92313806 ATTTTCAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 4 0.15
15 23 0.85
ACGTcount: A:0.35, C:0.02, G:0.11, T:0.52
Consensus pattern (14 bp):
ATGTATATGTATAT
Found at i:92313784 original size:21 final size:21
Alignment explanation
Indices: 92313761--92313803 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
92313751 TCATTTCTAA
*
92313761 TGTATATGTATA-TATCGTATA
1 TGTATATATATATTAT-GTATA
*
92313782 TGTTTATATATATTATGTATA
1 TGTATATATATATTATGTATA
92313803 T
1 T
92313804 ATATTTTCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.33, C:0.02, G:0.12, T:0.53
Consensus pattern (21 bp):
TGTATATATATATTATGTATA
Found at i:92322634 original size:15 final size:15
Alignment explanation
Indices: 92322590--92322635 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
92322580 TCTTGTTACA
*
92322590 TTTTAGTCACTTATG
1 TTTTAATCACTTATG
*
92322605 TTTGAA--ACGTTATG
1 TTTTAATCAC-TTATG
92322619 TTTTAATCACTTATG
1 TTTTAATCACTTATG
92322634 TT
1 TT
92322636 ATCATGTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
13 2 0.08
14 10 0.40
15 11 0.44
16 2 0.08
ACGTcount: A:0.24, C:0.11, G:0.13, T:0.52
Consensus pattern (15 bp):
TTTTAATCACTTATG
Found at i:92323278 original size:29 final size:31
Alignment explanation
Indices: 92323211--92323287 Score: 104
Period size: 29 Copynumber: 2.5 Consensus size: 31
92323201 TTAATGACTC
*
92323211 AATGACTAAAATGTTACAATACAATAACATA
1 AATGACTAAAATGTAACAATACAATAACATA
* *
92323242 AGTGACTAAAATGTAACAATTC-A-AACATA
1 AATGACTAAAATGTAACAATACAATAACATA
*
92323271 AATGACTAAAATATAAC
1 AATGACTAAAATGTAAC
92323288 TGGAAACAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
29 21 0.51
30 1 0.02
31 19 0.46
ACGTcount: A:0.55, C:0.13, G:0.08, T:0.25
Consensus pattern (31 bp):
AATGACTAAAATGTAACAATACAATAACATA
Found at i:92325309 original size:16 final size:16
Alignment explanation
Indices: 92325262--92325310 Score: 59
Period size: 14 Copynumber: 3.2 Consensus size: 16
92325252 AATTGTGTAT
92325262 ATATCATATTTGAT--
1 ATATCATATTTGATAC
* *
92325276 ATATCAAATATG-TAC
1 ATATCATATTTGATAC
92325291 ATATCATATTTGATAC
1 ATATCATATTTGATAC
92325307 ATAT
1 ATAT
92325311 TTACAACATA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
13 1 0.04
14 10 0.36
15 10 0.36
16 7 0.25
ACGTcount: A:0.41, C:0.10, G:0.06, T:0.43
Consensus pattern (16 bp):
ATATCATATTTGATAC
Found at i:92325855 original size:31 final size:31
Alignment explanation
Indices: 92325816--92325887 Score: 101
Period size: 31 Copynumber: 2.4 Consensus size: 31
92325806 CTATGAAAAT
*
92325816 TTTC-ATTTTAGTCACAAATGTTTTAGATCA
1 TTTCTATTTTAGTCACAAACGTTTTAGATCA
* **
92325846 TTTCTATTTTGGTCACTCACGTTTTAGATCA
1 TTTCTATTTTAGTCACAAACGTTTTAGATCA
92325877 TTTCTATTTTA
1 TTTCTATTTTA
92325888 ACCACTCTCC
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
30 4 0.11
31 32 0.89
ACGTcount: A:0.24, C:0.15, G:0.10, T:0.51
Consensus pattern (31 bp):
TTTCTATTTTAGTCACAAACGTTTTAGATCA
Found at i:92325894 original size:31 final size:31
Alignment explanation
Indices: 92325835--92325894 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
92325825 AGTCACAAAT
***
92325835 GTTTTAGATCATTTCTATTTTGGTCACTCAC
1 GTTTTAGATCATTTCTATTTTAACCACTCAC
92325866 GTTTTAGATCATTTCTATTTTAACCACTC
1 GTTTTAGATCATTTCTATTTTAACCACTC
92325895 TCCTTATGGT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.22, C:0.20, G:0.10, T:0.48
Consensus pattern (31 bp):
GTTTTAGATCATTTCTATTTTAACCACTCAC
Found at i:92328114 original size:12 final size:13
Alignment explanation
Indices: 92328099--92328154 Score: 53
Period size: 13 Copynumber: 4.3 Consensus size: 13
92328089 AAATATGAGT
92328099 ATAAGT-ATAATG
1 ATAAGTAATAATG
92328111 ATAATAGTAATAATG
1 AT-A-AGTAATAATG
*
92328126 ATAA-TAATAATA
1 ATAAGTAATAATG
* *
92328138 ATAAATAATAATA
1 ATAAGTAATAATG
92328151 ATAA
1 ATAA
92328155 TAAAGTAGTA
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
12 13 0.33
13 14 0.36
14 4 0.10
15 8 0.21
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.32
Consensus pattern (13 bp):
ATAAGTAATAATG
Found at i:92328132 original size:3 final size:3
Alignment explanation
Indices: 92328105--92328157 Score: 70
Period size: 3 Copynumber: 17.3 Consensus size: 3
92328095 GAGTATAAGT
* * *
92328105 ATA ATG ATA ATA GTA ATA ATG ATA ATA ATA ATA ATAA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA
92328151 ATA ATA A
1 ATA ATA A
92328158 AGTAGTAATG
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
3 40 0.93
4 3 0.07
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:92328147 original size:16 final size:16
Alignment explanation
Indices: 92328111--92328196 Score: 72
Period size: 16 Copynumber: 5.4 Consensus size: 16
92328101 AAGTATAATG
* *
92328111 ATAATAGTAATAAT-G
1 ATAATAATAATAATAA
92328126 ATAATAATAATAATAA
1 ATAATAATAATAATAA
92328142 ATAATAATAATAATAA
1 ATAATAATAATAATAA
*
92328158 AGTAGTAATGAA-AATAA
1 A-TAATAAT-AATAATAA
*
92328175 GA-AGA-AATGATAATAA
1 -ATA-ATAATAATAATAA
92328191 ATAATA
1 ATAATA
92328197 GCAAGAAAAT
Statistics
Matches: 58, Mismatches: 5, Indels: 15
0.74 0.06 0.19
Matches are distributed among these distances:
15 16 0.28
16 28 0.48
17 11 0.19
18 3 0.05
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.28
Consensus pattern (16 bp):
ATAATAATAATAATAA
Found at i:92338539 original size:5 final size:5
Alignment explanation
Indices: 92338529--92338553 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
92338519 TTCCAACTCC
92338529 CTTTT CTTTT CTTTT CTTTT CTTTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT
92338554 TTATTGTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
CTTTT
Found at i:92340227 original size:39 final size:40
Alignment explanation
Indices: 92340172--92340264 Score: 116
Period size: 39 Copynumber: 2.4 Consensus size: 40
92340162 CGTTTGAATG
* *
92340172 AAAAACACCGCTAAAGAAAGAGCATTAGCGACGCTTTTTT
1 AAAAACGCCGCTAAAGAAAGAGCACTAGCGACGCTTTTTT
** * *
92340212 -AAAACGCCGCTAAAGATCGAGTACTAGCGGCGCTTTTTT
1 AAAAACGCCGCTAAAGAAAGAGCACTAGCGACGCTTTTTT
*
92340251 AAAAACGCCACTAA
1 AAAAACGCCGCTAA
92340265 TGCTTAATAT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
39 33 0.73
40 12 0.27
ACGTcount: A:0.38, C:0.23, G:0.18, T:0.22
Consensus pattern (40 bp):
AAAAACGCCGCTAAAGAAAGAGCACTAGCGACGCTTTTTT
Found at i:92340427 original size:39 final size:39
Alignment explanation
Indices: 92340332--92340443 Score: 120
Period size: 40 Copynumber: 2.8 Consensus size: 39
92340322 GCCTTTAATG
*
92340332 GCTTTAGCGGCGCTTTTTAAAAACGCCGCTAAAGATCAA
1 GCTTTAGCGGCGTTTTTTAAAAACGCCGCTAAAGATCAA
* * * *
92340371 GCATTAGC-GCTGTTTTTTAAAAAGCGCCGCTATA-TTTACA
1 GCTTTAGCGGC-GTTTTTTAAAAA-CGCCGCTAAAGATCA-A
*
92340411 TCTTTAGCGGCGTTTTTTAAAAAACGCCGCTAA
1 GCTTTAGCGGCGTTTTTT-AAAAACGCCGCTAA
92340444 TGCTTGACCT
Statistics
Matches: 60, Mismatches: 8, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
38 2 0.03
39 20 0.33
40 31 0.52
41 7 0.12
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (39 bp):
GCTTTAGCGGCGTTTTTTAAAAACGCCGCTAAAGATCAA
Found at i:92340456 original size:40 final size:38
Alignment explanation
Indices: 92340333--92340479 Score: 113
Period size: 40 Copynumber: 3.8 Consensus size: 38
92340323 CCTTTAATGG
* * * *
92340333 CTTTAGCGGCGCTTTTT-AAAAACGCCGCTAAAGATCAAG
1 CTTTAGCGGCGTTTTTTAAAAAACGCCGCTAATG-T-TAC
* *
92340372 CATTAGC-GCTGTTTTTTAAAAAGCGCCGCTATAT-TTAC
1 CTTTAGCGGC-GTTTTTTAAAAAACGCCGCTA-ATGTTAC
92340410 ATCTTTAGCGGCGTTTTTTAAAAAACGCCGCTAATGCTTGAC
1 --CTTTAGCGGCGTTTTTTAAAAAACGCCGCTAATG-TT-AC
* * *
92340452 CTTTAGCAGCG-TTTTCAGAAAACGCCGC
1 CTTTAGCGGCGTTTTTTAAAAAACGCCGC
92340480 AAACGAATTT
Statistics
Matches: 88, Mismatches: 11, Indels: 18
0.75 0.09 0.15
Matches are distributed among these distances:
38 3 0.03
39 30 0.34
40 48 0.55
41 5 0.06
42 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (38 bp):
CTTTAGCGGCGTTTTTTAAAAAACGCCGCTAATGTTAC
Found at i:92341326 original size:22 final size:22
Alignment explanation
Indices: 92341241--92341326 Score: 63
Period size: 22 Copynumber: 4.0 Consensus size: 22
92341231 AATCTCAAGT
92341241 CATAAACCCTTAAAACTCTAAAC
1 CATAAACCCTTAAAACTC-AAAC
* * *
92341264 AATAAA-CCTT-AATC-CCAAC
1 CATAAACCCTTAAAACTCAAAC
** * *
92341283 CCCAAGCCC-TAAATCTCAAAC
1 CATAAACCCTTAAAACTCAAAC
*
92341304 CATAAACCCTTAAAACTCCAAC
1 CATAAACCCTTAAAACTCAAAC
92341326 C
1 C
92341327 CCGAAACCCC
Statistics
Matches: 46, Mismatches: 13, Indels: 9
0.68 0.19 0.13
Matches are distributed among these distances:
19 6 0.13
20 7 0.15
21 13 0.28
22 15 0.33
23 5 0.11
ACGTcount: A:0.44, C:0.36, G:0.01, T:0.19
Consensus pattern (22 bp):
CATAAACCCTTAAAACTCAAAC
Found at i:92341357 original size:14 final size:14
Alignment explanation
Indices: 92341308--92341360 Score: 61
Period size: 14 Copynumber: 3.7 Consensus size: 14
92341298 TCAAACCATA
*
92341308 AACCCTTAAAACTCC
1 AACCCTT-AAACCCC
**
92341323 AACCCCGAAACCCC
1 AACCCTTAAACCCC
92341337 AACCCTTAAACCCC
1 AACCCTTAAACCCC
*
92341351 AAGCCTTAAA
1 AACCCTTAAA
92341361 ACTAACCTCT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
14 27 0.84
15 5 0.16
ACGTcount: A:0.40, C:0.43, G:0.04, T:0.13
Consensus pattern (14 bp):
AACCCTTAAACCCC
Found at i:92342134 original size:9 final size:8
Alignment explanation
Indices: 92342118--92342202 Score: 56
Period size: 8 Copynumber: 10.9 Consensus size: 8
92342108 TATTTTATAT
92342118 AATTTAAA
1 AATTTAAA
92342126 AATTATAAA
1 AATT-TAAA
92342135 AATTTTCAAAA
1 AA-TTT--AAA
*
92342146 AAATT-AA
1 AATTTAAA
92342153 AATTTAAA
1 AATTTAAA
92342161 AA--TAAA
1 AATTTAAA
92342167 AA--TAAA
1 AATTTAAA
92342173 AATTTAAA
1 AATTTAAA
*
92342181 AA-TAAAA
1 AATTTAAA
*
92342188 AACTTAAA
1 AATTTAAA
*
92342196 TATTTAA
1 AATTTAA
92342203 TATTTTAGTC
Statistics
Matches: 63, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
6 12 0.19
7 12 0.19
8 23 0.37
9 7 0.11
10 4 0.06
11 5 0.08
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (8 bp):
AATTTAAA
Found at i:92342169 original size:20 final size:21
Alignment explanation
Indices: 92342143--92342202 Score: 86
Period size: 20 Copynumber: 2.8 Consensus size: 21
92342133 AAAATTTTCA
92342143 AAAAAATTAAAATTTAAAAAT
1 AAAAAATTAAAATTTAAAAAT
*
92342164 -AAAAATAAAAATTTAAAAAT
1 AAAAAATTAAAATTTAAAAAT
92342184 AAAAAACTTAAATATTTAA
1 AAAAAA-TTAAA-ATTTAA
92342203 TATTTTAGTC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 19 0.56
21 5 0.15
22 4 0.12
23 6 0.18
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (21 bp):
AAAAAATTAAAATTTAAAAAT
Found at i:92346660 original size:12 final size:12
Alignment explanation
Indices: 92346643--92346676 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
92346633 AATTTAAATG
92346643 TATTAAATTACA
1 TATTAAATTACA
92346655 TATTAAATTACA
1 TATTAAATTACA
*
92346667 TATTGAATTA
1 TATTAAATTA
92346677 ATGTTTATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (12 bp):
TATTAAATTACA
Found at i:92346728 original size:29 final size:29
Alignment explanation
Indices: 92346654--92346729 Score: 73
Period size: 29 Copynumber: 2.6 Consensus size: 29
92346644 ATTAAATTAC
* *
92346654 ATATTAAATTACATATTGAATTAATGTTTAT
1 ATATTAAATTA-AAATT-CATTAATGTTTAT
* * *
92346685 GTATTAAATTTAAATTCATTAATTTTTAT
1 ATATTAAATTAAAATTCATTAATGTTTAT
92346714 AT-TTAAAGTTAAAATT
1 ATATTAAA-TTAAAATT
92346730 TTAATATAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
28 5 0.14
29 19 0.51
30 4 0.11
31 9 0.24
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (29 bp):
ATATTAAATTAAAATTCATTAATGTTTAT
Found at i:92346941 original size:43 final size:43
Alignment explanation
Indices: 92346837--92347022 Score: 216
Period size: 43 Copynumber: 4.3 Consensus size: 43
92346827 TTTTTAATGT
* *
92346837 ATTGTTCTTTAGTGGCGTTTGTGGA-AAAAGTGCCGCTAAAAGTT
1 ATTGTT-TTTAGCGGCGTTTGT-GACAAAAGTGCCGCTAAAAGTC
* **
92346881 A-T-TTTTTAGCGGCGTTTGTGACAAAAGCGTTGCTAAAAGTC
1 ATTGTTTTTAGCGGCGTTTGTGACAAAAGTGCCGCTAAAAGTC
* * *
92346922 ATTGTTTTTAGTGGCGTTTGTGACAAAAGTGCCACTAAAAGCC
1 ATTGTTTTTAGCGGCGTTTGTGACAAAAGTGCCGCTAAAAGTC
* **
92346965 ATGGTTTTTAGCGGCGTTTGTGTGAAAAGTGCCGCTAAAAGTC
1 ATTGTTTTTAGCGGCGTTTGTGACAAAAGTGCCGCTAAAAGTC
* *
92347008 ATGGCTTTTAGCGGC
1 ATTGTTTTTAGCGGC
92347023 ATTTTTTTTT
Statistics
Matches: 121, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
40 2 0.02
41 30 0.25
42 3 0.02
43 85 0.70
44 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.27, T:0.34
Consensus pattern (43 bp):
ATTGTTTTTAGCGGCGTTTGTGACAAAAGTGCCGCTAAAAGTC
Found at i:92353374 original size:38 final size:38
Alignment explanation
Indices: 92353323--92353398 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
92353313 TAACCGAAAG
92353323 TACAGTTCCCTATAAGTTATCTGTCTTTTACAAATTAT
1 TACAGTTCCCTATAAGTTATCTGTCTTTTACAAATTAT
92353361 TACAGTTCCCTATAAGTTATCTGTCTTTTACAAATTAT
1 TACAGTTCCCTATAAGTTATCTGTCTTTTACAAATTAT
92353399 ATGAGCACCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.29, C:0.18, G:0.08, T:0.45
Consensus pattern (38 bp):
TACAGTTCCCTATAAGTTATCTGTCTTTTACAAATTAT
Found at i:92355670 original size:21 final size:21
Alignment explanation
Indices: 92355633--92355672 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
92355623 TGACAAATGC
*
92355633 TTTTATTAAAATTATTTAAAA
1 TTTTATTAAAATAATTTAAAA
92355654 TTTTAATTAAAA-AATTTAA
1 TTTT-ATTAAAATAATTTAA
92355673 CACCCACAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TTTTATTAAAATAATTTAAAA
Found at i:92356018 original size:27 final size:28
Alignment explanation
Indices: 92355982--92356040 Score: 86
Period size: 27 Copynumber: 2.1 Consensus size: 28
92355972 TACTGATCCG
*
92355982 AAAATAAAAAA-ATAATATTTT-ATTTAA
1 AAAATAAAAAATAT-ATATTTTAATATAA
92356009 AAAATAAAAAATATATATTTTAATATAA
1 AAAATAAAAAATATATATTTTAATATAA
92356037 AAAA
1 AAAA
92356041 AGAGTCCTGC
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 18 0.62
28 11 0.38
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (28 bp):
AAAATAAAAAATATATATTTTAATATAA
Found at i:92361071 original size:14 final size:14
Alignment explanation
Indices: 92361052--92361079 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
92361042 ATGGCAGAGT
92361052 TAGCTTGTCTCAGA
1 TAGCTTGTCTCAGA
92361066 TAGCTTGTCTCAGA
1 TAGCTTGTCTCAGA
92361080 AGCAGTATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.36
Consensus pattern (14 bp):
TAGCTTGTCTCAGA
Found at i:92363911 original size:19 final size:19
Alignment explanation
Indices: 92363887--92363928 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
92363877 CTCCTATTAA
92363887 AAAAGAATAAAAATAACAT
1 AAAAGAATAAAAATAACAT
92363906 AAAAGAATAAAAATAACAT
1 AAAAGAATAAAAATAACAT
92363925 AAAA
1 AAAA
92363929 TCACAGTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.76, C:0.05, G:0.05, T:0.14
Consensus pattern (19 bp):
AAAAGAATAAAAATAACAT
Found at i:92370517 original size:18 final size:16
Alignment explanation
Indices: 92370486--92370520 Score: 52
Period size: 18 Copynumber: 2.1 Consensus size: 16
92370476 AAAATTTTTG
92370486 TTTTATTTTTTTAATA
1 TTTTATTTTTTTAATA
92370502 TTTTAATTTTTATTAATA
1 TTTT-ATTTTT-TTAATA
92370520 T
1 T
92370521 ATAAAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 6 0.35
18 7 0.41
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTATTTTTTTAATA
Found at i:92370732 original size:19 final size:18
Alignment explanation
Indices: 92370692--92370734 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
92370682 TTTGTGATAC
*
92370692 ATTATATTTTTTAATTAAA
1 ATTA-ATTTTTTAAATAAA
*
92370711 ATTAATTTTTTAAAATAGA
1 ATTAATTTTTT-AAATAAA
92370730 ATTAA
1 ATTAA
92370735 ATTAAATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (18 bp):
ATTAATTTTTTAAATAAA
Found at i:92373432 original size:20 final size:19
Alignment explanation
Indices: 92373378--92373434 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 19
92373368 GTATTGTATT
*
92373378 TATATTTTAATATTACGTTA
1 TATATTTTAATATTATG-TA
**
92373398 TATATGTTTTGTATTATGTA
1 TATAT-TTTAATATTATGTA
92373418 TATATTTTAAATATTAT
1 TATATTTT-AATATTAT
92373435 ATACTAAGTA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
19 3 0.10
20 18 0.60
21 9 0.30
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.58
Consensus pattern (19 bp):
TATATTTTAATATTATGTA
Found at i:92373488 original size:21 final size:22
Alignment explanation
Indices: 92373420--92373490 Score: 56
Period size: 21 Copynumber: 3.3 Consensus size: 22
92373410 ATTATGTATA
* *
92373420 TATTTTAAATATTATATACTAAG
1 TATTTTAAATATTAT-TAGTTAG
* *** *
92373443 TATTTTTAATATCCCTA-TTAT
1 TATTTTAAATATTATTAGTTAG
92373464 TATTTTAAATATTATTAGTTA-
1 TATTTTAAATATTATTAGTTAG
92373485 TATTTT
1 TATTTT
92373491 TGTATATATT
Statistics
Matches: 37, Mismatches: 10, Indels: 4
0.73 0.20 0.08
Matches are distributed among these distances:
21 21 0.57
22 5 0.14
23 11 0.30
ACGTcount: A:0.35, C:0.06, G:0.03, T:0.56
Consensus pattern (22 bp):
TATTTTAAATATTATTAGTTAG
Found at i:92382137 original size:21 final size:21
Alignment explanation
Indices: 92382105--92382145 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
92382095 AGGCTCGAGG
92382105 GGCCTGTTTTAGGCC-ATACAA
1 GGCCTGTTTTA-GCCTATACAA
92382126 GGCCT-TTCTTAGCCTATACA
1 GGCCTGTT-TTAGCCTATACA
92382146 CCAATTGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (21 bp):
GGCCTGTTTTAGCCTATACAA
Found at i:92387233 original size:56 final size:56
Alignment explanation
Indices: 92387147--92387277 Score: 226
Period size: 56 Copynumber: 2.3 Consensus size: 56
92387137 GGAGCAAGGC
*
92387147 AAATTAAAGATACAAGGTAATGAATCTGATATCTCAGCTCATTTTCAGAGAAAACA
1 AAATTAAAGATATAAGGTAATGAATCTGATATCTCAGCTCATTTTCAGAGAAAACA
* * *
92387203 AAATTAAAGATATAAGTTAGTGAATCTGATATCTCAGCTCATTTTTAGAGAAAACA
1 AAATTAAAGATATAAGGTAATGAATCTGATATCTCAGCTCATTTTCAGAGAAAACA
92387259 AAATTAAAGATATAAGGTA
1 AAATTAAAGATATAAGGTA
92387278 GCTCTCTTGT
Statistics
Matches: 70, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 70 1.00
ACGTcount: A:0.46, C:0.11, G:0.15, T:0.29
Consensus pattern (56 bp):
AAATTAAAGATATAAGGTAATGAATCTGATATCTCAGCTCATTTTCAGAGAAAACA
Found at i:92396423 original size:2 final size:2
Alignment explanation
Indices: 92396416--92396444 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
92396406 TTAAGTTGGG
92396416 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
92396445 ATAGTAGAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:92398041 original size:22 final size:22
Alignment explanation
Indices: 92397982--92398042 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 22
92397972 GATTATTAGT
* * *
92397982 ACATTACTGCTTTCCGTTTAGC
1 ACATTAGTGCTTTCTGTATAGC
* *
92398004 ACATTCGTGCTCTCTGTATAGC
1 ACATTAGTGCTTTCTGTATAGC
*
92398026 ACTTTAGTGCTTTCTGT
1 ACATTAGTGCTTTCTGT
92398043 TCAATAGTGC
Statistics
Matches: 31, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.16, C:0.25, G:0.16, T:0.43
Consensus pattern (22 bp):
ACATTAGTGCTTTCTGTATAGC
Found at i:92401353 original size:31 final size:31
Alignment explanation
Indices: 92401311--92401374 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
92401301 CCTTTTCATA
*
92401311 TTTCATTTTTCATAACACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
**
92401342 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCGAAGCCT
92401373 TT
1 TT
92401375 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.22, C:0.23, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCGAAGCCT
Found at i:92401633 original size:24 final size:24
Alignment explanation
Indices: 92401583--92401662 Score: 128
Period size: 23 Copynumber: 3.4 Consensus size: 24
92401573 CTGGAGGGCT
*
92401583 AGCCTCTTTTAATGACTGGGGCA-A
1 AGCC-CTTTTAATAACTGGGGCATA
92401607 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
92401631 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
92401654 AGCCCTTTT
1 AGCCCTTTT
92401663 GCACTTCCTC
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
23 40 0.75
24 13 0.25
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:92401736 original size:20 final size:20
Alignment explanation
Indices: 92401708--92401758 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
92401698 GCATTTATGA
*
92401708 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
92401728 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
92401748 ACATATCATGT
1 ACATATCATGT
92401759 TTATCAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:92403060 original size:27 final size:27
Alignment explanation
Indices: 92403001--92403075 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 27
92402991 CATATTCGTT
92403001 ATTTTACCATACAGGGGTATTACGGTC
1 ATTTTACCATACAGGGGTATTACGGTC
* *
92403028 ACTTTACCCTACAGGGGCT-TTACGGTC
1 ATTTTACCATACAGGGG-TATTACGGTC
* *
92403055 TTTTTACC-TATTAGGGGTATT
1 ATTTTACCATA-CAGGGGTATT
92403076 TTAGTCATTT
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
26 3 0.08
27 36 0.90
28 1 0.03
ACGTcount: A:0.21, C:0.20, G:0.21, T:0.37
Consensus pattern (27 bp):
ATTTTACCATACAGGGGTATTACGGTC
Found at i:92403146 original size:27 final size:27
Alignment explanation
Indices: 92403113--92403362 Score: 132
Period size: 27 Copynumber: 9.2 Consensus size: 27
92403103 TTGGTAAATC
92403113 TACAAACCAAGGGTATTTCAGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
** * *
92403140 TGTAAACCAATGATATTTCTA-TAATTTT
1 TACAAACCAAGGGTATTTC-AGTAA-TTT
* * * *
92403168 TAGAAAGTCAAGGGTATTTCTGCAATTT
1 TACAAA-CCAAGGGTATTTCAGTAATTT
** * **
92403196 TGTAAATC-AGTGGTATTTTGGTAATTT
1 TACAAACCAAG-GGTATTTCAGTAATTT
***
92403223 TACAAATTGAGGGTATTT-ATGTAATTT
1 TACAAACCAAGGGTATTTCA-GTAATTT
* *
92403250 CACAAACC-AGTGGTATTTCGGTAATTT
1 TACAAACCAAG-GGTATTTCAGTAATTT
* * **
92403277 TACAAACTATGGGTATTTTGGTAATTT
1 TACAAACCAAGGGTATTTCAGTAATTT
* * * *
92403304 TACAAACTAGGGGTATTTTAGTAATTC
1 TACAAACCAAGGGTATTTCAGTAATTT
** *
92403331 TATCCTA-CAGGGGTATTTCAGTAATTT
1 TA-CAAACCAAGGGTATTTCAGTAATTT
*
92403358 CACAA
1 TACAA
92403363 TCGAGGGTAA
Statistics
Matches: 173, Mismatches: 39, Indels: 23
0.74 0.17 0.10
Matches are distributed among these distances:
26 5 0.03
27 136 0.79
28 20 0.12
29 12 0.07
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (27 bp):
TACAAACCAAGGGTATTTCAGTAATTT
Found at i:92403261 original size:54 final size:54
Alignment explanation
Indices: 92403203--92403329 Score: 168
Period size: 54 Copynumber: 2.4 Consensus size: 54
92403193 TTTTGTAAAT
*
92403203 CAGTGGTATTTTGGTAATTTTACAAATTGA-GGGTATTTAT-GTAATTTCACAAAC
1 CAGTGGTATTTTGGTAATTTTACAAACT-ATGGGTATTT-TGGTAATTTCACAAAC
* *
92403257 CAGTGGTATTTCGGTAATTTTACAAACTATGGGTATTTTGGTAATTTTACAAAC
1 CAGTGGTATTTTGGTAATTTTACAAACTATGGGTATTTTGGTAATTTCACAAAC
* * *
92403311 TAGGGGTATTTTAGTAATT
1 CAGTGGTATTTTGGTAATT
92403330 CTATCCTACA
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
53 2 0.03
54 62 0.97
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.42
Consensus pattern (54 bp):
CAGTGGTATTTTGGTAATTTTACAAACTATGGGTATTTTGGTAATTTCACAAAC
Found at i:92403346 original size:81 final size:81
Alignment explanation
Indices: 92403207--92403362 Score: 194
Period size: 81 Copynumber: 1.9 Consensus size: 81
92403197 GTAAATCAGT
* * *
92403207 GGTATTTTGGTAATTTTACAAATTGAGGGTATTTATGTAATTTCACAAACCAGTGGTATTTCGGT
1 GGTATTTTGGTAATTTTACAAATAGAGGGTATTTATGTAATTTCACAAACCAGGGGTATTTCAGT
*
92403272 AATTTTACAAACTATG
66 AATTTCACAAACTATG
**
92403288 GGTATTTTGGTAATTTTACAAACTAG-GGGTATTT-TAGTAA-TTCTATCCTA-CAGGGGTATTT
1 GGTATTTTGGTAATTTTACAAA-TAGAGGGTATTTAT-GTAATTTC-A-CAAACCAGGGGTATTT
92403349 CAGTAATTTCACAA
62 CAGTAATTTCACAA
92403363 TCGAGGGTAA
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
80 4 0.06
81 57 0.88
82 4 0.06
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.40
Consensus pattern (81 bp):
GGTATTTTGGTAATTTTACAAATAGAGGGTATTTATGTAATTTCACAAACCAGGGGTATTTCAGT
AATTTCACAAACTATG
Found at i:92403494 original size:27 final size:27
Alignment explanation
Indices: 92403361--92403492 Score: 169
Period size: 27 Copynumber: 4.9 Consensus size: 27
92403351 GTAATTTCAC
* *
92403361 AATCGAGGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
92403388 AA-CTGAGGGTAAAACGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
92403415 AA-CTGAGGGTAAAATGGTAATTCTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
* *
92403442 AATCGAGAGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
92403469 AATCGAGGGTAAAACGATAATTCT
1 AATCGAGGGTAAAACGGTAATTCT
92403493 ATCTTACAGG
Statistics
Matches: 95, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
26 1 0.01
27 93 0.98
28 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.23, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:92403534 original size:27 final size:27
Alignment explanation
Indices: 92403504--92403599 Score: 129
Period size: 27 Copynumber: 3.6 Consensus size: 27
92403494 TCTTACAGGA
92403504 GTATTTTAGTAATTTTACAAATCGAGG
1 GTATTTTAGTAATTTTACAAATCGAGG
* * *
92403531 GTATTTCAGTAATTTTATAAATCGGGG
1 GTATTTTAGTAATTTTACAAATCGAGG
* * * *
92403558 GTACTTTGGTAATTTTACAAGTCGAAG
1 GTATTTTAGTAATTTTACAAATCGAGG
92403585 GTATTTTAGTAATTT
1 GTATTTTAGTAATTT
92403600 GGTAAACTAA
Statistics
Matches: 57, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (27 bp):
GTATTTTAGTAATTTTACAAATCGAGG
Found at i:92404978 original size:10 final size:10
Alignment explanation
Indices: 92404965--92405022 Score: 62
Period size: 10 Copynumber: 5.4 Consensus size: 10
92404955 TTTTTATTTC
92404965 TATTAAATTA
1 TATTAAATTA
*
92404975 TATTAAAATA
1 TATTAAATTA
92404985 TGATTAAATTA
1 T-ATTAAATTA
*
92404996 TTTATTATAATTT
1 --TATTA-AATTA
92405009 TATTAAATTA
1 TATTAAATTA
92405019 TATT
1 TATT
92405023 TAATAATAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
10 18 0.45
11 13 0.32
12 4 0.10
13 5 0.12
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (10 bp):
TATTAAATTA
Found at i:92405239 original size:16 final size:16
Alignment explanation
Indices: 92405220--92405256 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
92405210 ATTATAGTTT
92405220 TATTCCATTATAACCC
1 TATTCCATTATAACCC
* *
92405236 TATTCTATTATAGCCC
1 TATTCCATTATAACCC
92405252 TATTC
1 TATTC
92405257 AATTCCAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.03, T:0.43
Consensus pattern (16 bp):
TATTCCATTATAACCC
Found at i:92405468 original size:16 final size:17
Alignment explanation
Indices: 92405436--92405468 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
92405426 AATTTATATT
*
92405436 TTAATTGAATTTTTTTA
1 TTAATTGAATGTTTTTA
92405453 TTAATT-AATGTTTTTA
1 TTAATTGAATGTTTTTA
92405469 ATCGTCAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (17 bp):
TTAATTGAATGTTTTTA
Found at i:92405898 original size:29 final size:30
Alignment explanation
Indices: 92405852--92405919 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
92405842 GAACGAAAAA
**
92405852 TAAAATTTCGTATATAT-ATGA-ACTATAAT
1 TAAAATTTTATATATATAATGATACTA-AAT
* *
92405881 TAAAATTTTATATGTATAATTATACTAAAT
1 TAAAATTTTATATATATAATGATACTAAAT
92405911 TAAAATTTT
1 TAAAATTTT
92405920 GTATCAAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 14 0.42
30 15 0.45
31 4 0.12
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (30 bp):
TAAAATTTTATATATATAATGATACTAAAT
Found at i:92409453 original size:13 final size:14
Alignment explanation
Indices: 92409415--92409458 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
92409405 ATATATTTGA
92409415 TAAATTATTTAAAAT
1 TAAA-TATTTAAAAT
* *
92409430 TAAATAATTAAATT
1 TAAATATTTAAAAT
92409444 TAAAT-TTTAAAAT
1 TAAATATTTAAAAT
92409457 TA
1 TA
92409459 GATTTAAAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
13 8 0.32
14 13 0.52
15 4 0.16
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TAAATATTTAAAAT
Found at i:92409457 original size:19 final size:20
Alignment explanation
Indices: 92409421--92409466 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
92409411 TTGATAAATT
92409421 ATTTAAAATTAAATAATTAA
1 ATTTAAAATTAAATAATTAA
* * *
92409441 ATTTAAATTTTAA-AATTAG
1 ATTTAAAATTAAATAATTAA
92409460 ATTTAAA
1 ATTTAAA
92409467 GAATCATGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
ATTTAAAATTAAATAATTAA
Found at i:92410111 original size:22 final size:20
Alignment explanation
Indices: 92410083--92410125 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 20
92410073 TAAATTAAAT
92410083 ATATTAAAAAACATAAAAATAA
1 ATATT-AAAAA-ATAAAAATAA
92410105 ATATTAAAAAATAAAAATAA
1 ATATTAAAAAATAAAAATAA
92410125 A
1 A
92410126 AAATGAGACT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 11 0.52
21 5 0.24
22 5 0.24
ACGTcount: A:0.74, C:0.02, G:0.00, T:0.23
Consensus pattern (20 bp):
ATATTAAAAAATAAAAATAA
Found at i:92410974 original size:19 final size:19
Alignment explanation
Indices: 92410947--92410992 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
92410937 AAATATCAAC
* *
92410947 TAAAAATATTTTATATTTT
1 TAAAAATATTTAAAATTTT
*
92410966 TAAATATATTTAAAATTTT
1 TAAAAATATTTAAAATTTT
*
92410985 TAATAATA
1 TAAAAATA
92410993 AAATGTGCTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
TAAAAATATTTAAAATTTT
Found at i:92414127 original size:19 final size:20
Alignment explanation
Indices: 92414103--92414151 Score: 75
Period size: 19 Copynumber: 2.5 Consensus size: 20
92414093 TATAAAAAAA
*
92414103 TTTGAATTTTTATAAA-TAT
1 TTTGAATTTTTAAAAATTAT
92414122 TTTGAA-TTTTAAAAATTAT
1 TTTGAATTTTTAAAAATTAT
92414141 TTTGAATTTTT
1 TTTGAATTTTT
92414152 TTTATAATAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 8 0.30
19 15 0.56
20 4 0.15
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (20 bp):
TTTGAATTTTTAAAAATTAT
Found at i:92416144 original size:15 final size:16
Alignment explanation
Indices: 92416114--92416150 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
92416104 TTTCTGAGCC
92416114 AATTAATTATAATTAT
1 AATTAATTATAATTAT
*
92416130 AATTATTTA-AATTAT
1 AATTAATTATAATTAT
92416145 -ATTAAT
1 AATTAAT
92416151 ATATTTTTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
14 5 0.26
15 6 0.32
16 8 0.42
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
AATTAATTATAATTAT
Found at i:92417735 original size:14 final size:14
Alignment explanation
Indices: 92417707--92417748 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
92417697 ACAAATCTTC
92417707 TAAAATAAT-TTAT
1 TAAAATAATATTAT
* *
92417720 TAAGATGATATTAT
1 TAAAATAATATTAT
92417734 TAAAATAATATTAT
1 TAAAATAATATTAT
92417748 T
1 T
92417749 TTTAAAATAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
13 7 0.29
14 17 0.71
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (14 bp):
TAAAATAATATTAT
Found at i:92423439 original size:20 final size:20
Alignment explanation
Indices: 92423414--92423451 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
92423404 TGATGGGGAG
92423414 CAAGAATATC-AAGTTGGATT
1 CAAGAA-ATCGAAGTTGGATT
92423434 CAAGAAATCGAAGTTGGA
1 CAAGAAATCGAAGTTGGA
92423452 GGAGAGAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.42, C:0.11, G:0.24, T:0.24
Consensus pattern (20 bp):
CAAGAAATCGAAGTTGGATT
Found at i:92425401 original size:46 final size:46
Alignment explanation
Indices: 92425349--92425622 Score: 415
Period size: 46 Copynumber: 6.0 Consensus size: 46
92425339 AGTGTGCTCT
92425349 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
92425395 CTGATATGAAATGTGGAAGACCATGGTTGAAAGATATCATGGCAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
92425441 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
92425487 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ***
92425533 GTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
92425579 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
92425623 TCATGTCAAA
Statistics
Matches: 210, Mismatches: 17, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
45 1 0.00
46 209 1.00
ACGTcount: A:0.39, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:92429137 original size:21 final size:21
Alignment explanation
Indices: 92429111--92429151 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
92429101 AGACAAGCGA
* *
92429111 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
92429132 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
92429152 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:92432018 original size:17 final size:17
Alignment explanation
Indices: 92431998--92432052 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
92431988 TTAAATACTT
92431998 ATAATTTTTAAAAATAA
1 ATAATTTTTAAAAATAA
* *
92432015 ATAATTATGAAAAATAA
1 ATAATTTTTAAAAATAA
*
92432032 AAAATGATTTTAAAATATAA
1 ATAAT--TTTTAAAA-ATAA
92432052 A
1 A
92432053 CAAAAATTTC
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
17 19 0.63
19 6 0.20
20 5 0.17
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.35
Consensus pattern (17 bp):
ATAATTTTTAAAAATAA
Found at i:92432296 original size:17 final size:17
Alignment explanation
Indices: 92432269--92432302 Score: 52
Period size: 16 Copynumber: 2.0 Consensus size: 17
92432259 CGATTCAAAG
92432269 TAAATAAATTATTAAAAA
1 TAAATAAATTA-TAAAAA
92432287 TAAA-AAATTATAAAAA
1 TAAATAAATTATAAAAA
92432303 CCAATTCAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 6 0.38
18 4 0.25
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAATAAATTATAAAAA
Found at i:92436492 original size:24 final size:24
Alignment explanation
Indices: 92436465--92436516 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
92436455 TTAGTAAGTC
*
92436465 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
92436489 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
92436513 AAAT
1 AAAT
92436517 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:92438459 original size:24 final size:24
Alignment explanation
Indices: 92438432--92438483 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
92438422 TTAGTAAGTC
*
92438432 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
92438456 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
92438480 AAAT
1 AAAT
92438484 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:92449102 original size:16 final size:14
Alignment explanation
Indices: 92449076--92449127 Score: 59
Period size: 15 Copynumber: 3.6 Consensus size: 14
92449066 TAGTATTGCA
*
92449076 TATTTTTATATTATT
1 TATTTTTATATCA-T
92449091 TATTTTTAATATCAT
1 TATTTTT-ATATCAT
* *
92449106 TATTTTTTTATCAC
1 TATTTTTATATCAT
92449120 TATTTTTA
1 TATTTTTA
92449128 AACTTATTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
14 12 0.38
15 15 0.47
16 5 0.16
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (14 bp):
TATTTTTATATCAT
Found at i:92452226 original size:30 final size:29
Alignment explanation
Indices: 92452181--92452295 Score: 80
Period size: 30 Copynumber: 4.0 Consensus size: 29
92452171 AAAATTTTTA
* * *
92452181 ATTTAATAATAATAAAATTATATTTTTATT
1 ATTTAAAAAT-ATAAAATTATAATTTAATT
*
92452211 TTTTAAAAATGATAAAAATT-TAATTTAATT
1 ATTTAAAAAT-AT-AAAATTATAATTTAATT
* *
92452241 ATTTAAAAACTATAAAAATATAA---AACT
1 ATTTAAAAA-TATAAAATTATAATTTAATT
*
92452268 A-TT-AAAATAATAAAATTACAATTTAATT
1 ATTTAAAAAT-ATAAAATTATAATTTAATT
92452296 TCGAGTCAGA
Statistics
Matches: 67, Mismatches: 11, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
24 1 0.01
25 14 0.21
26 2 0.03
27 4 0.06
28 3 0.04
29 5 0.07
30 31 0.46
31 7 0.10
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.43
Consensus pattern (29 bp):
ATTTAAAAATATAAAATTATAATTTAATT
Found at i:92452267 original size:16 final size:17
Alignment explanation
Indices: 92452246--92452282 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
92452236 TAATTATTTA
92452246 AAAACTATAAAAAT-AT
1 AAAACTATAAAAATAAT
*
92452262 AAAACTATTAAAATAAT
1 AAAACTATAAAAATAAT
92452279 AAAA
1 AAAA
92452283 TTACAATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.24
Consensus pattern (17 bp):
AAAACTATAAAAATAAT
Found at i:92466827 original size:21 final size:21
Alignment explanation
Indices: 92466795--92466835 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
92466785 GAACAGTTGG
92466795 TGTATAGGCTAAGAA-AGGCCT
1 TGTATAGGCTAA-AACAGGCCT
92466816 TGTAT-GGCCTAAAACAGGCC
1 TGTATAGG-CTAAAACAGGCC
92466836 CCTCGAGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.22
Consensus pattern (21 bp):
TGTATAGGCTAAAACAGGCCT
Found at i:92480127 original size:12 final size:12
Alignment explanation
Indices: 92480105--92480133 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
92480095 CAAATACTTC
92480105 TAAAA-TAATAA
1 TAAAATTAATAA
92480116 TAAAATTAATAA
1 TAAAATTAATAA
92480128 TAAAAT
1 TAAAAT
92480134 AAGTTTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
TAAAATTAATAA
Found at i:92482752 original size:21 final size:18
Alignment explanation
Indices: 92482704--92482759 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 18
92482694 AGTATAAACC
92482704 TATAAAAA-TTTAAAAAT
1 TATAAAAATTTTAAAAAT
92482721 TATAAATAATTGTTAAAAAT
1 TATAAA-AATT-TTAAAAAT
*
92482741 ATATTAAAAATTATAAAAA
1 -TA-TAAAAATTTTAAAAA
92482760 AAAACCCAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
17 6 0.18
18 2 0.06
19 1 0.03
20 14 0.42
21 6 0.18
22 4 0.12
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (18 bp):
TATAAAAATTTTAAAAAT
Found at i:92483439 original size:175 final size:175
Alignment explanation
Indices: 92483148--92483489 Score: 684
Period size: 175 Copynumber: 2.0 Consensus size: 175
92483138 TTATATTTAA
92483148 ATTTTAATAACTATGTCGATTGAGTCTTAGTTTAATTGGTATGAGTATTGTTGTCAATGCAAGAA
1 ATTTTAATAACTATGTCGATTGAGTCTTAGTTTAATTGGTATGAGTATTGTTGTCAATGCAAGAA
92483213 GACGTGAGTTTAAGTATTTTGAAGTGCATCTTTCTCCTATTTATGGGTTGAGGAGGGGCTATAAA
66 GACGTGAGTTTAAGTATTTTGAAGTGCATCTTTCTCCTATTTATGGGTTGAGGAGGGGCTATAAA
92483278 TAAACATTGTGTCAAAAAGATTAGATATTAATAATTGGTATGAGT
131 TAAACATTGTGTCAAAAAGATTAGATATTAATAATTGGTATGAGT
92483323 ATTTTAATAACTATGTCGATTGAGTCTTAGTTTAATTGGTATGAGTATTGTTGTCAATGCAAGAA
1 ATTTTAATAACTATGTCGATTGAGTCTTAGTTTAATTGGTATGAGTATTGTTGTCAATGCAAGAA
92483388 GACGTGAGTTTAAGTATTTTGAAGTGCATCTTTCTCCTATTTATGGGTTGAGGAGGGGCTATAAA
66 GACGTGAGTTTAAGTATTTTGAAGTGCATCTTTCTCCTATTTATGGGTTGAGGAGGGGCTATAAA
92483453 TAAACATTGTGTCAAAAAGATTAGATATTAATAATTG
131 TAAACATTGTGTCAAAAAGATTAGATATTAATAATTG
92483490 TTACTAGTTT
Statistics
Matches: 167, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
175 167 1.00
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (175 bp):
ATTTTAATAACTATGTCGATTGAGTCTTAGTTTAATTGGTATGAGTATTGTTGTCAATGCAAGAA
GACGTGAGTTTAAGTATTTTGAAGTGCATCTTTCTCCTATTTATGGGTTGAGGAGGGGCTATAAA
TAAACATTGTGTCAAAAAGATTAGATATTAATAATTGGTATGAGT
Found at i:92484133 original size:29 final size:30
Alignment explanation
Indices: 92484068--92484136 Score: 95
Period size: 30 Copynumber: 2.3 Consensus size: 30
92484058 ATTTATTTGT
*
92484068 GGGTTAAAATTATATTATAAATTTTTAAAA
1 GGGTTAAAATTAAATTATAAATTTTTAAAA
** *
92484098 GAATTAAAATTAAATTATAAA-TTTTAAAG
1 GGGTTAAAATTAAATTATAAATTTTTAAAA
92484127 GGGTTAAAAT
1 GGGTTAAAAT
92484137 ATACTTTTAT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 15 0.45
30 18 0.55
ACGTcount: A:0.49, C:0.00, G:0.12, T:0.39
Consensus pattern (30 bp):
GGGTTAAAATTAAATTATAAATTTTTAAAA
Found at i:92506997 original size:80 final size:77
Alignment explanation
Indices: 92506876--92507029 Score: 209
Period size: 80 Copynumber: 2.0 Consensus size: 77
92506866 AAAGTTTATT
** * *
92506876 TATTTAAATTGAAAAAAAAACCCATAAAATTGATAAATAAAATGGCAAAAAAGTCATTACATAAA
1 TATTTAAATTGAAAAAAAAACAAATAAAATTGATAAATAAAATGCCAAAAAAGTCAGTACATAAA
92506941 TACAAAGTTGAC
66 TACAAAGTTGAC
* * *
92506953 TATTTAAATTGAAAAAAAAATAACAAATTAAATTGATTAATAAAATGCCAAAAAATTCAGTACAT
1 TATTTAAATTG--AAAAAAA-AACAAATAAAATTGATAAATAAAATGCCAAAAAAGTCAGTACAT
*
92507018 AAATACTAAGTT
63 AAATACAAAGTT
92507030 ATTTATATTA
Statistics
Matches: 66, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
77 11 0.17
79 7 0.11
80 48 0.73
ACGTcount: A:0.56, C:0.09, G:0.08, T:0.27
Consensus pattern (77 bp):
TATTTAAATTGAAAAAAAAACAAATAAAATTGATAAATAAAATGCCAAAAAAGTCAGTACATAAA
TACAAAGTTGAC
Found at i:92507270 original size:32 final size:33
Alignment explanation
Indices: 92507208--92507304 Score: 124
Period size: 33 Copynumber: 3.0 Consensus size: 33
92507198 CGATGAACTT
*
92507208 AAGCCAGGAGGAGTGGAGTACGGCGGTGGATAC
1 AAGCCGGGAGGAGTGGAGTACGGCGGTGGATAC
*
92507241 AAGCCGGGAGGAGTGGAGT-TGGCGGTGGATAC
1 AAGCCGGGAGGAGTGGAGTACGGCGGTGGATAC
** * * *
92507273 GGGCCGAGAGGAGTAGAGTACAGCGGTGGATA
1 AAGCCGGGAGGAGTGGAGTACGGCGGTGGATA
92507305 TGGGTCAGAA
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
32 27 0.49
33 28 0.51
ACGTcount: A:0.26, C:0.13, G:0.47, T:0.13
Consensus pattern (33 bp):
AAGCCGGGAGGAGTGGAGTACGGCGGTGGATAC
Found at i:92508943 original size:40 final size:42
Alignment explanation
Indices: 92508878--92508969 Score: 125
Period size: 40 Copynumber: 2.2 Consensus size: 42
92508868 AAAAAAGTAT
* * * *
92508878 TTATATAAAAAAAACACTACCATAAATATAATAAATATTTTA
1 TTATATTAAAAAAACACTACAATAAATATAACAAATATCTTA
92508920 TTATATTAAAAAAACAC-A-AATAAATATAACAAATATCTTA
1 TTATATTAAAAAAACACTACAATAAATATAACAAATATCTTA
*
92508960 TTGTATTAAA
1 TTATATTAAA
92508970 TCTAATTTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
40 28 0.62
41 1 0.02
42 16 0.36
ACGTcount: A:0.57, C:0.09, G:0.01, T:0.34
Consensus pattern (42 bp):
TTATATTAAAAAAACACTACAATAAATATAACAAATATCTTA
Found at i:92531006 original size:22 final size:22
Alignment explanation
Indices: 92530958--92530999 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
92530948 ATAATAATGG
* *
92530958 TATTTTAATTTTAGGATATATA
1 TATTTTAATTTTAAGATAAATA
*
92530980 TATTTTATTTTTAAGATAAA
1 TATTTTAATTTTAAGATAAA
92531000 ATTATTTGCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (22 bp):
TATTTTAATTTTAAGATAAATA
Found at i:92534855 original size:8 final size:8
Alignment explanation
Indices: 92534842--92534870 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
92534832 TCAATCTAAT
92534842 TTAAATAA
1 TTAAATAA
92534850 TTAAATAA
1 TTAAATAA
92534858 TTAAATAA
1 TTAAATAA
92534866 TTAAA
1 TTAAA
92534871 ATATATTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
TTAAATAA
Found at i:92535576 original size:23 final size:23
Alignment explanation
Indices: 92535548--92535600 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 23
92535538 ATAAAAATAT
*
92535548 TAAAATAAAA-TTTTAGTCTAATGG
1 TAAATTAAAAGTTTT-G-CTAATGG
92535572 TAAATTAAAAGTTTTGCTAAT-G
1 TAAATTAAAAGTTTTGCTAATGG
92535594 -AAATTAA
1 TAAATTAA
92535601 CGTGGGTTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 7 0.26
22 1 0.04
23 5 0.19
24 10 0.37
25 4 0.15
ACGTcount: A:0.47, C:0.04, G:0.11, T:0.38
Consensus pattern (23 bp):
TAAATTAAAAGTTTTGCTAATGG
Found at i:92538027 original size:14 final size:14
Alignment explanation
Indices: 92538008--92538054 Score: 69
Period size: 14 Copynumber: 3.4 Consensus size: 14
92537998 AAAGAAAGAA
92538008 TAATAGAACATAAT
1 TAATAGAACATAAT
* *
92538022 TAATAGCACAGAA-
1 TAATAGAACATAAT
92538035 TAATAGAACATAAT
1 TAATAGAACATAAT
92538049 TAATAG
1 TAATAG
92538055 CACAAATAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
13 11 0.39
14 17 0.61
ACGTcount: A:0.55, C:0.09, G:0.11, T:0.26
Consensus pattern (14 bp):
TAATAGAACATAAT
Found at i:92538040 original size:13 final size:13
Alignment explanation
Indices: 92538000--92538065 Score: 64
Period size: 14 Copynumber: 5.1 Consensus size: 13
92537990 GACAACCAAA
92538000 AGAA-AGAATAAT
1 AGAACAGAATAAT
*
92538012 AGAACATAATTAAT
1 AGAACAGAA-TAAT
*
92538026 AGCACAGAATAAT
1 AGAACAGAATAAT
*
92538039 AGAACATAATTAAT
1 AGAACAGAA-TAAT
*
92538053 AGCACA-AATAAT
1 AGAACAGAATAAT
92538065 A
1 A
92538066 CAATGTCAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
12 9 0.20
13 16 0.36
14 20 0.44
ACGTcount: A:0.59, C:0.09, G:0.11, T:0.21
Consensus pattern (13 bp):
AGAACAGAATAAT
Found at i:92538042 original size:27 final size:27
Alignment explanation
Indices: 92538004--92538065 Score: 117
Period size: 27 Copynumber: 2.3 Consensus size: 27
92537994 ACCAAAAGAA
92538004 AGAATAATAGAACATAATTAATAGCAC
1 AGAATAATAGAACATAATTAATAGCAC
92538031 AGAATAATAGAACATAATTAATAGCAC
1 AGAATAATAGAACATAATTAATAGCAC
92538058 A-AATAATA
1 AGAATAATA
92538066 CAATGTCAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 7 0.20
27 28 0.80
ACGTcount: A:0.58, C:0.10, G:0.10, T:0.23
Consensus pattern (27 bp):
AGAATAATAGAACATAATTAATAGCAC
Found at i:92538397 original size:18 final size:18
Alignment explanation
Indices: 92538370--92538437 Score: 66
Period size: 18 Copynumber: 3.6 Consensus size: 18
92538360 AAATAGTGAT
*
92538370 AATAACAATAAATTAAAA
1 AATAATAATAAATTAAAA
92538388 AATAATAATAGTACATTAAAA
1 AATAATAATA--A-ATTAAAA
*
92538409 AATAATAGTAAA-TAAAA
1 AATAATAATAAATTAAAA
*
92538426 TAATAAAAATAA
1 -AATAATAATAA
92538438 TAAAAATAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
17 5 0.12
18 19 0.45
19 1 0.02
20 1 0.02
21 16 0.38
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.25
Consensus pattern (18 bp):
AATAATAATAAATTAAAA
Found at i:92538431 original size:39 final size:39
Alignment explanation
Indices: 92538378--92538458 Score: 94
Period size: 39 Copynumber: 2.1 Consensus size: 39
92538368 ATAATAACAA
* * * *
92538378 TAAATTAAAAAATAATAATAGT-ACATTAAAAAATAATAG
1 TAAATTAAAAAATAAAAATAATAAAAAT-AAAAATAATAG
92538417 TAAA-TAAAATAATAAAAATAATAAAAATAAAAATAATAG
1 TAAATTAAAA-AATAAAAATAATAAAAATAAAAATAATAG
92538456 TAA
1 TAA
92538459 TAATATTAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
38 5 0.14
39 28 0.78
40 3 0.08
ACGTcount: A:0.69, C:0.01, G:0.04, T:0.26
Consensus pattern (39 bp):
TAAATTAAAAAATAAAAATAATAAAAATAAAAATAATAG
Found at i:92538433 original size:24 final size:24
Alignment explanation
Indices: 92538406--92538464 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
92538396 TAGTACATTA
92538406 AAAAATAATAGTAAAT-AAAATAAT
1 AAAAATAATA-TAAATAAAAATAAT
*
92538430 AAAAATAATAAAAATAAAAATAAT
1 AAAAATAATATAAATAAAAATAAT
**
92538454 AGTAATAATAT
1 AAAAATAATAT
92538465 TAAACTTAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 4 0.13
24 26 0.87
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.25
Consensus pattern (24 bp):
AAAAATAATATAAATAAAAATAAT
Found at i:92538436 original size:9 final size:9
Alignment explanation
Indices: 92538422--92538468 Score: 51
Period size: 9 Copynumber: 5.2 Consensus size: 9
92538412 AATAGTAAAT
92538422 AAAATAATA
1 AAAATAATA
92538431 AAAATAATA
1 AAAATAATA
92538440 AAAATAA-A
1 AAAATAATA
*
92538448 AATAATAGTA
1 AA-AATAATA
* *
92538458 ATAATATTA
1 AAAATAATA
92538467 AA
1 AA
92538469 CTTAATTAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
8 3 0.09
9 27 0.84
10 2 0.06
ACGTcount: A:0.72, C:0.00, G:0.02, T:0.26
Consensus pattern (9 bp):
AAAATAATA
Found at i:92538460 original size:15 final size:15
Alignment explanation
Indices: 92538358--92538461 Score: 65
Period size: 15 Copynumber: 7.1 Consensus size: 15
92538348 ATAGTATGAA
* *
92538358 AAAAATAGTGATAAT
1 AAAAATAATAATAAT
* * *
92538373 AACAATAA-ATTAAA
1 AAAAATAATAATAAT
*
92538387 AAATAATAATAGTACAT
1 AAA-AATAATAATA-AT
* *
92538404 TAAAA-AATAATAGT
1 AAAAATAATAATAAT
92538418 --AAATAA-AATAAT
1 AAAAATAATAATAAT
*
92538430 AAAAATAATAAAAAT
1 AAAAATAATAATAAT
*
92538445 AAAAATAATAGTAAT
1 AAAAATAATAATAAT
92538460 AA
1 AA
92538462 TATTAAACTT
Statistics
Matches: 67, Mismatches: 15, Indels: 14
0.70 0.16 0.15
Matches are distributed among these distances:
12 8 0.12
13 2 0.03
14 12 0.18
15 37 0.55
16 5 0.07
17 3 0.04
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.25
Consensus pattern (15 bp):
AAAAATAATAATAAT
Found at i:92538468 original size:21 final size:20
Alignment explanation
Indices: 92538368--92538468 Score: 82
Period size: 21 Copynumber: 5.0 Consensus size: 20
92538358 AAAAATAGTG
*
92538368 ATAATAACAATAAATTAAAAA
1 ATAATAATAATAAATT-AAAA
* *
92538389 ATAATAATAGTACATTAAAAA
1 ATAATAATAATAAATT-AAAA
* *
92538410 ATAATAGTAAATAAAATAATAA
1 ATAATAAT-AATAAATTAA-AA
92538432 A-AATAATAA-AAA-TAAAA
1 ATAATAATAATAAATTAAAA
*
92538449 ATAATAGTAATAATATTAAA
1 ATAATAATAATAA-ATTAAA
92538469 CTTAATTAAT
Statistics
Matches: 65, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
17 3 0.05
18 10 0.15
19 5 0.08
20 3 0.05
21 36 0.55
22 8 0.12
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.27
Consensus pattern (20 bp):
ATAATAATAATAAATTAAAA
Found at i:92539886 original size:88 final size:88
Alignment explanation
Indices: 92539732--92540062 Score: 430
Period size: 88 Copynumber: 3.8 Consensus size: 88
92539722 ACTCGTTTCA
* * * * * *
92539732 ATCTGCTCCACTACCGCTTAGGGAGATAAAATCCGTAATTTTCTA-CCTGTTACTCTACTGCTTA
1 ATCTACTCCACTACTGTTTAGGGAGATAAGATCTGTAATTTT-TAGCCTGTTACCCTACTGCTTA
*
92539796 GGGGGTTAAGGCTCACTGTCTTTG
65 GGGGGTTAAGGCTCACTGTCTTCG
* ** * **
92539820 ATCTACTCCACTACTATTTAAAGAGATAAGATCTGTAATTTTTAGCCTATTTTCCTACTGCTTAG
1 ATCTACTCCACTACTGTTTAGGGAGATAAGATCTGTAATTTTTAGCCTGTTACCCTACTGCTTAG
* *
92539885 GGGGTTAAGGCTCACCGTCTTCA
66 GGGGTTAAGGCTCACTGTCTTCG
* * * * * *
92539908 ATCTGCTCCGCTACTGCTTAGGGAGACAAGATTTGTAATTTCTAGCCTGTTACCCTACTGCTTAG
1 ATCTACTCCACTACTGTTTAGGGAGATAAGATCTGTAATTTTTAGCCTGTTACCCTACTGCTTAG
* *
92539973 AGGGTTAAGGTTCACTGTCTTCG
66 GGGGTTAAGGCTCACTGTCTTCG
*
92539996 ATCTACTCCACTACTGTTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAG
1 ATCTACTCCACTACTGTTTAGGGAGATAAGATCTGTAATTTTTAGCCTGTTACCCTACTGCTTAG
92540061 GG
66 GG
92540063 AGATAAGATC
Statistics
Matches: 203, Mismatches: 39, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
87 2 0.01
88 201 0.99
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.35
Consensus pattern (88 bp):
ATCTACTCCACTACTGTTTAGGGAGATAAGATCTGTAATTTTTAGCCTGTTACCCTACTGCTTAG
GGGGTTAAGGCTCACTGTCTTCG
Found at i:92540024 original size:176 final size:176
Alignment explanation
Indices: 92539728--92540062 Score: 501
Period size: 176 Copynumber: 1.9 Consensus size: 176
92539718 AGGAACTCGT
* *
92539728 TTCAATCTGCTCCACTACCGCTTAGGGAGATAAAATCCGTAATTTTCTACCTGTTACTCTACTGC
1 TTCAATCTGCTCCACTACCGCTTAGGGAGACAAAATCCGTAATTTTCTACCTGTTACCCTACTGC
* *
92539793 TTAGGGGGTTAAGGCTCACTGTCTTTGATCTACTCCACTACTATTTAAAGAGATAAGATCTGTAA
66 TTAGAGGGTTAAGGCTCACTGTCTTCGATCTACTCCACTACTATTTAAAGAGATAAGATCTGTAA
* **
92539858 TTTTTAGCCTATTTTCCTACTGCTTAGGGGGTTAAGGCTCACCGTC
131 TTTTCAGCCTATTACCCTACTGCTTAGGGGGTTAAGGCTCACCGTC
* * * **
92539904 TTCAATCTGCTCCGCTACTGCTTAGGGAGACAAGATTTGTAA-TTTCTAGCCTGTTACCCTACTG
1 TTCAATCTGCTCCACTACCGCTTAGGGAGACAAAATCCGTAATTTTCTA-CCTGTTACCCTACTG
* * **
92539968 CTTAGAGGGTTAAGGTTCACTGTCTTCGATCTACTCCACTACTGTTTAGGGAGATAAGATCTGTA
65 CTTAGAGGGTTAAGGCTCACTGTCTTCGATCTACTCCACTACTATTTAAAGAGATAAGATCTGTA
*
92540033 ATTTTCAGCCTGTTACCCTACTGCTTAGGG
130 ATTTTCAGCCTATTACCCTACTGCTTAGGG
92540063 AGATAAGATC
Statistics
Matches: 141, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
175 6 0.04
176 135 0.96
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (176 bp):
TTCAATCTGCTCCACTACCGCTTAGGGAGACAAAATCCGTAATTTTCTACCTGTTACCCTACTGC
TTAGAGGGTTAAGGCTCACTGTCTTCGATCTACTCCACTACTATTTAAAGAGATAAGATCTGTAA
TTTTCAGCCTATTACCCTACTGCTTAGGGGGTTAAGGCTCACCGTC
Found at i:92540069 original size:44 final size:44
Alignment explanation
Indices: 92540006--92540280 Score: 246
Period size: 44 Copynumber: 6.3 Consensus size: 44
92539996 ATCTACTCCA
*
92540006 CTACTGTTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTACC
1 CTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTACC
92540050 CTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTACC
1 CTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTACC
* * * ** *
92540094 CTACTGCTTAGGGGGTATAGGAACTCG----TTTCAATCTGCT-CC
1 CTACTGCTTAGGGAG-ATAAGATCT-GTAATTTTCAGCCTGTTACC
* *
92540135 ACTACTGCTTAGGGAGATAAGATCTATAATTTTCAGCTTGTTACC
1 -CTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTACC
* * * * * * *
92540180 CTACTGCTTAGATG-GTTAAG-GCT-CACTGTCTTC-GATCTGCTT-CG
1 CTACTGCTTAG-GGAGATAAGATCTGTAAT-T-TTCAG-CCTG-TTACC
* *
92540224 CTACTACTTAAGGAGATAAGATCTGTAATTTTCAGCCTGTTACC
1 CTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTACC
92540268 CTACTGCTTAGGG
1 CTACTGCTTAGGG
92540281 GGTTAAGGCT
Statistics
Matches: 179, Mismatches: 34, Indels: 36
0.72 0.14 0.14
Matches are distributed among these distances:
41 9 0.05
42 25 0.14
43 7 0.04
44 119 0.66
45 16 0.09
46 3 0.02
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.35
Consensus pattern (44 bp):
CTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTACC
Found at i:92540098 original size:88 final size:84
Alignment explanation
Indices: 92540006--92540343 Score: 274
Period size: 88 Copynumber: 3.9 Consensus size: 84
92539996 ATCTACTCCA
* * *
92540006 CTACTGTTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGAGATAAGA
1 CTACTGCTTAGGG-GATAAGAACTG--ATTTTCAGTCTGTT-CCCTACTGCTTAGGGAGATAAGA
92540071 TCTGTAATTTTCAGCCTGTTACC
62 TCTGTAATTTTCAGCCTGTTACC
* * *
92540094 CTACTGCTTAGGGGGTATAGGAACTCG--TTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGA
1 CTACTGCTTA-GGGG-ATAAGAACT-GATTTTCAGTCTGTTCC-CTACTGCTTAGGGAGATAAGA
* *
92540157 TCTATAATTTTCAGCTTGTTACC
62 TCTGTAATTTTCAGCCTGTTACC
* * * * * * *
92540180 CTACTGCTTAGATGGTTAAGGCTCACTG-TCTTC-GATCTGCTTCGCTACTACTTAAGGAGATAA
1 CTACTGCTTAG-GGGATAA-G--AACTGATTTTCAG-TCTG-TTCCCTACTGCTTAGGGAGATAA
92540243 GATCTGTAATTTTCAGCCTGTTACC
60 GATCTGTAATTTTCAGCCTGTTACC
* * * * *
92540268 CTACTGCTTAGGGGGTTAAG-GCTCACAGTCTTC-GATCTGCTCCACTACTGCTTAGGGAGATAA
1 CTACTGCTTA-GGGGATAAGAACT--GA-TTTTCAG-TCTGTTCC-CTACTGCTTAGGGAGATAA
92540331 GATCTGTAATTTT
60 GATCTGTAATTTT
92540344 TACCGATGTT
Statistics
Matches: 206, Mismatches: 27, Indels: 34
0.77 0.10 0.13
Matches are distributed among these distances:
84 2 0.01
85 5 0.02
86 64 0.31
87 4 0.02
88 117 0.57
89 13 0.06
90 1 0.00
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (84 bp):
CTACTGCTTAGGGGATAAGAACTGATTTTCAGTCTGTTCCCTACTGCTTAGGGAGATAAGATCTG
TAATTTTCAGCCTGTTACC
Found at i:92540184 original size:130 final size:131
Alignment explanation
Indices: 92539918--92540190 Score: 401
Period size: 130 Copynumber: 2.1 Consensus size: 131
92539908 ATCTGCTCCG
*
92539918 CTACTGCTTAGGGAGACAAGATTTGTAATTTCTAGCCTGTTACCCTACTGCTTAGAGGGTTAAGG
1 CTACTGCTTAGGGAGACAAGATCTGTAATTTCTAGCCTGTTACCCTACTGCTTAGAGGGTTAAGG
* * * *
92539983 TTCACTGTCTTCGATCTACTCCACTACTGTTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTA
66 -TAACTGTCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTATAATTTTCAGCCTGTTA
92540048 CC
130 CC
* *
92540050 CTACTGCTTAGGGAGATAAGATCTGTAATTT-TCAGCCTGTTACCCTACTGCTTAG-GGGGTATA
1 CTACTGCTTAGGGAGACAAGATCTGTAATTTCT-AGCCTGTTACCCTACTGCTTAGAGGGTTA-A
* *
92540113 GG-AACTCGT-TTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATTTTCAGCTTGT
64 GGTAACT-GTCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTATAATTTTCAGCCTGT
92540176 TACC
128 TACC
92540180 CTACTGCTTAG
1 CTACTGCTTAG
92540191 ATGGTTAAGG
Statistics
Matches: 129, Mismatches: 9, Indels: 8
0.88 0.06 0.05
Matches are distributed among these distances:
130 67 0.52
131 8 0.06
132 54 0.42
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (131 bp):
CTACTGCTTAGGGAGACAAGATCTGTAATTTCTAGCCTGTTACCCTACTGCTTAGAGGGTTAAGG
TAACTGTCTTCAATCTACTCCACTACTGCTTAGGGAGATAAGATCTATAATTTTCAGCCTGTTAC
C
Found at i:92540241 original size:218 final size:219
Alignment explanation
Indices: 92539842--92540280 Score: 652
Period size: 218 Copynumber: 2.0 Consensus size: 219
92539832 ACTATTTAAA
* ** *
92539842 GAGATAAGATCTGTAATTTTTAGCCTATTTTCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTC
1 GAGATAAGATCTGTAATTTTCAGCCTATTACCCTACTGCTTAGGGGGTTAAGGC-AACCGTCTTC
* * *
92539907 AATCTGCTCCGCTACTGCTTAGGGAGACAAGATTTGTAATTTCTAGCCTGTTACCCTACTGCTTA
65 AATCTGCTCCACTACTGCTTAGGGAGACAAGATCTATAATTTCTAGCCTGTTACCCTACTGCTTA
* ** *
92539972 GAGGGTTAAGGTTCACTGTCTTCGATCTACTCCACTACTGTTTAGGGAGATAAGATCTGTAATTT
130 GAGGGTTAAGGCTCACTGTCTTCGATCTACTCCACTACTACTTAAGGAGATAAGATCTGTAATTT
92540037 TCAGCCTGTTACCCTACTGCTTAGG
195 TCAGCCTGTTACCCTACTGCTTAGG
*
92540062 GAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGG-TATAGG-AACTCGT-TT
1 GAGATAAGATCTGTAATTTTCAGCCTATTACCCTACTGCTTAGGGGGTTA-AGGCAAC-CGTCTT
* *
92540124 CAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATTT-TCAGCTTGTTACCCTACTGCT
64 CAATCTGCTCCACTACTGCTTAGGGAGACAAGATCTATAATTTCT-AGCCTGTTACCCTACTGCT
* * * *
92540188 TAGATGGTTAAGGCTCACTGTCTTCGATCTGCTTCGCTACTACTTAAGGAGATAAGATCTGTAAT
128 TAGAGGGTTAAGGCTCACTGTCTTCGATCTACTCCACTACTACTTAAGGAGATAAGATCTGTAAT
92540253 TTTCAGCCTGTTACCCTACTGCTTAGG
193 TTTCAGCCTGTTACCCTACTGCTTAGG
92540280 G
1 G
92540281 GGTTAAGGCT
Statistics
Matches: 198, Mismatches: 18, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
217 1 0.01
218 146 0.74
219 5 0.03
220 46 0.23
ACGTcount: A:0.23, C:0.22, G:0.21, T:0.35
Consensus pattern (219 bp):
GAGATAAGATCTGTAATTTTCAGCCTATTACCCTACTGCTTAGGGGGTTAAGGCAACCGTCTTCA
ATCTGCTCCACTACTGCTTAGGGAGACAAGATCTATAATTTCTAGCCTGTTACCCTACTGCTTAG
AGGGTTAAGGCTCACTGTCTTCGATCTACTCCACTACTACTTAAGGAGATAAGATCTGTAATTTT
CAGCCTGTTACCCTACTGCTTAGG
Found at i:92540302 original size:306 final size:307
Alignment explanation
Indices: 92539742--92540343 Score: 836
Period size: 306 Copynumber: 2.0 Consensus size: 307
92539732 ATCTGCTCCA
*
92539742 CTACCGCTTAGGGAGATAAAATCCGTAATTTTCTACCTGTTACTCTACTGCTTAGGGGGTTAAGG
1 CTACCGCTTAGGGAGATAAAATCCGTAATTTTCTACCTGTTACCCTACTGCTTAGGGGGTTAAGG
* ** * * * *
92539807 CTCACTGTCTTTGATCTACTCCACTACTATTTAAAGAGATAAGATCTGTAATTTTTAGCCTATTT
66 C-AACTGTCTTCAATCTACTCCACTACTACTTAAAGAGATAAGATCTATAATTTTCAGCCTATTA
* * * *
92539872 TCCTACTGCTTAGGGGGTTAAGGCTCACCGTCTTCAATCTGCTCCGCTACTGCTTAGGGAGACAA
130 CCCTACTGCTTAGAGGGTTAAGGCTCACCGTCTTCAATCTGCTCCGCTACTACTTAAGGAGACAA
* * *
92539937 GATTTGTAATTTCTAGCCTGTTACCCTACTGCTTAGAGGGTTAAGGTTCACTGTCTTCGATCTAC
195 GATCTGTAATTTCTAGCCTGTTACCCTACTGCTTAGAGGGTTAAGGCTCACAGTCTTCGATCTAC
*
92540002 TCCACTACTGTTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTACC
260 TCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTACC
* * *
92540050 CTACTGCTTAGGGAGATAAGATCTGTAATTTTC-AGCCTGTTACCCTACTGCTTAGGGGG-TATA
1 CTACCGCTTAGGGAGATAAAATCCGTAATTTTCTA-CCTGTTACCCTACTGCTTAGGGGGTTA-A
* * ** * *
92540113 GG-AACTCGT-TTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTATAATTTTCAGCTTGT
64 GGCAACT-GTCTTCAATCTACTCCACTACTACTTAAAGAGATAAGATCTATAATTTTCAGCCTAT
* * * * *
92540176 TACCCTACTGCTTAGATGGTTAAGGCTCACTGTCTTCGATCTGCTTCGCTACTACTTAAGGAGAT
128 TACCCTACTGCTTAGAGGGTTAAGGCTCACCGTCTTCAATCTGCTCCGCTACTACTTAAGGAGAC
*
92540241 AAGATCTGTAATTT-TCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACAGTCTTCGATC
193 AAGATCTGTAATTTCT-AGCCTGTTACCCTACTGCTTAGAGGGTTAAGGCTCACAGTCTTCGATC
*
92540305 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTT
257 TACTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTT
92540344 TACCGATGTT
Statistics
Matches: 258, Mismatches: 32, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
305 1 0.00
306 196 0.76
307 5 0.02
308 56 0.22
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (307 bp):
CTACCGCTTAGGGAGATAAAATCCGTAATTTTCTACCTGTTACCCTACTGCTTAGGGGGTTAAGG
CAACTGTCTTCAATCTACTCCACTACTACTTAAAGAGATAAGATCTATAATTTTCAGCCTATTAC
CCTACTGCTTAGAGGGTTAAGGCTCACCGTCTTCAATCTGCTCCGCTACTACTTAAGGAGACAAG
ATCTGTAATTTCTAGCCTGTTACCCTACTGCTTAGAGGGTTAAGGCTCACAGTCTTCGATCTACT
CCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTACC
Found at i:92552372 original size:21 final size:21
Alignment explanation
Indices: 92552347--92552392 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
92552337 AATAGTAAAA
*
92552347 AATAAGAATAAAAACAAGAAT
1 AATAAAAATAAAAACAAGAAT
* *
92552368 AATAAAAATAAGAATAAGAAT
1 AATAAAAATAAAAACAAGAAT
92552389 AATA
1 AATA
92552393 GTCATAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.72, C:0.02, G:0.09, T:0.17
Consensus pattern (21 bp):
AATAAAAATAAAAACAAGAAT
Found at i:92552373 original size:15 final size:15
Alignment explanation
Indices: 92552353--92552384 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
92552343 AAAAAATAAG
92552353 AATAAAAACAAGAAT
1 AATAAAAACAAGAAT
*
92552368 AATAAAAATAAGAAT
1 AATAAAAACAAGAAT
92552383 AA
1 AA
92552385 GAATAATAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.75, C:0.03, G:0.06, T:0.16
Consensus pattern (15 bp):
AATAAAAACAAGAAT
Found at i:92552392 original size:15 final size:15
Alignment explanation
Indices: 92552344--92552392 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 15
92552334 AATAATAGTA
92552344 AAAAATAAGAAT---
1 AAAAATAAGAATAAG
* *
92552356 AAAAACAAGAATAAT
1 AAAAATAAGAATAAG
92552371 AAAAATAAGAATAAG
1 AAAAATAAGAATAAG
*
92552386 AATAATA
1 AAAAATA
92552393 GTCATAATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
12 11 0.37
15 19 0.63
ACGTcount: A:0.73, C:0.02, G:0.08, T:0.16
Consensus pattern (15 bp):
AAAAATAAGAATAAG
Found at i:92554481 original size:48 final size:48
Alignment explanation
Indices: 92554425--92554522 Score: 187
Period size: 48 Copynumber: 2.0 Consensus size: 48
92554415 ACATTTACAT
*
92554425 AGTTTCCTCGTTTGTCTTTATCATCTTCATCAAATCTTGAATGTATAA
1 AGTTTCCTCGTTTGTCTTCATCATCTTCATCAAATCTTGAATGTATAA
92554473 AGTTTCCTCGTTTGTCTTCATCATCTTCATCAAATCTTGAATGTATAA
1 AGTTTCCTCGTTTGTCTTCATCATCTTCATCAAATCTTGAATGTATAA
92554521 AG
1 AG
92554523 GGATTGGATT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.26, C:0.19, G:0.11, T:0.44
Consensus pattern (48 bp):
AGTTTCCTCGTTTGTCTTCATCATCTTCATCAAATCTTGAATGTATAA
Found at i:92558533 original size:3 final size:3
Alignment explanation
Indices: 92558527--92558578 Score: 95
Period size: 3 Copynumber: 17.0 Consensus size: 3
92558517 ATATCAAAAC
92558527 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TATA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA-A
92558576 TAA
1 TAA
92558579 ATGTATACGT
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 45 0.94
4 3 0.06
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:92560674 original size:46 final size:46
Alignment explanation
Indices: 92560621--92560796 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
92560611 TATTTGGGCA
92560621 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
92560667 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
* * *
92560714 TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
92560760 CCCGAGCTTGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
92560797 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 65 0.60
47 31 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.19, C:0.20, G:0.31, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:92560776 original size:93 final size:93
Alignment explanation
Indices: 92560617--92560789 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
92560607 GGGATATTTG
* *
92560617 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
92560682 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* * * *
92560710 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGCCCGAGCTTGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
92560775 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
92560790 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.20, C:0.21, G:0.31, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:92562266 original size:24 final size:23
Alignment explanation
Indices: 92562233--92562278 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
92562223 GGGTCTGGGT
*
92562233 TTAGTAGGTTTTGGGGTTATTGGC
1 TTAGTAGGTTTAGGGGTT-TTGGC
*
92562257 TTAGTGGGTTTAGGGGTTTTGG
1 TTAGTAGGTTTAGGGGTTTTGG
92562279 GCCCAAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.11, C:0.02, G:0.41, T:0.46
Consensus pattern (23 bp):
TTAGTAGGTTTAGGGGTTTTGGC
Found at i:92562722 original size:45 final size:45
Alignment explanation
Indices: 92562655--92562761 Score: 130
Period size: 45 Copynumber: 2.4 Consensus size: 45
92562645 CCTACTGCTT
* * * *
92562655 AGGGTGATAAG-ATCTGTAGATTCAGTCTGTTCCATTATAACTTC
1 AGGGAGATAAGAATCTGTAGATTCAATCTGTTCCACTACAACTTC
*
92562699 AGGGAGATAAGAAT-TGCTAGATTCAATCTGTTCCACTGCAACTTC
1 AGGGAGATAAGAATCTG-TAGATTCAATCTGTTCCACTACAACTTC
*
92562744 AGGGAGACAAG-ATCTGTA
1 AGGGAGATAAGAATCTGTA
92562762 ACTTTCAGCC
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
44 16 0.30
45 38 0.70
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (45 bp):
AGGGAGATAAGAATCTGTAGATTCAATCTGTTCCACTACAACTTC
Found at i:92563093 original size:44 final size:43
Alignment explanation
Indices: 92563037--92563189 Score: 114
Period size: 45 Copynumber: 3.5 Consensus size: 43
92563027 TGGCTTCTTA
*
92563037 CCCTACTACTTAGGTGGTTAAAGCTCATCATCTTCGATCTATTT
1 CCCTACTACTTAGGTGGTTAAAGCT-GTCATCTTCGATCTATTT
* * * * * * *
92563081 CCCTACTGCTTAGGGTGATAAAATCTGTAGATCTTC-AGCCTGTTAT
1 CCCTACTACTTA-GGTGGTTAAAGCTGT-CATCTTCGA-TCTATT-T
* * * *
92563127 -CCTACTGCTTAGG-GGTTAAGGCTTGTCATCTTTGATCTATAT
1 CCCTACTACTTAGGTGGTTAAAGC-TGTCATCTTCGATCTATTT
*
92563169 CCCTACTACTTAGGGGGTTAA
1 CCCTACTACTTAGGTGGTTAA
92563190 GATCTGTAAA
Statistics
Matches: 83, Mismatches: 18, Indels: 16
0.71 0.15 0.14
Matches are distributed among these distances:
42 1 0.01
43 25 0.30
44 25 0.30
45 31 0.37
46 1 0.01
ACGTcount: A:0.22, C:0.22, G:0.19, T:0.37
Consensus pattern (43 bp):
CCCTACTACTTAGGTGGTTAAAGCTGTCATCTTCGATCTATTT
Found at i:92563093 original size:218 final size:221
Alignment explanation
Indices: 92562597--92563106 Score: 669
Period size: 217 Copynumber: 2.3 Consensus size: 221
92562587 TTTCAGCCTG
* *
92562597 TTACCCTACTGCTTAGGGGGTTAAGGCCCATTATCTGT-GATCTGTTTCCCTACTGCTTAGGGTG
1 TTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCT-TCGATCTGTTTCCCTACTGCTTAGGGTG
* * * * * * *
92562661 ATAAGATCTGTAGATTCAGTCTGTTCCATTATAACTTCAGGGAGATAAGAATTGCTAGATTCAAT
65 ATAAGATCTATAAATTCAGTCTGCTCCACTACAACTTCAGGGAGATAAGAATAGCTAGATGCAAT
* *
92562726 CTGTTCCACTGCAACTTCAGGGAGACAAGATCTGTAACTTTCAGCCTATTACCCTACTACTTAGG
130 CTGTTCCACTGCAACTTCAGGAAGACAAGATCTGTAACTTTCAGCCCATTACCCTACTACTTAGG
92562791 GGGTTAAGGTCTGTAAATTTGGCTTGC
195 GGGTTAAGGTCTGTAAATTTGGCTTGC
* *
92562818 -TACCTTACTGCTTAGGGGGTT-AAGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGG-GT
1 TTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGGTGA
* * *
92562880 TAAGATCTATAAATTCAGTCTGCTCCACTGCAACTTCAGGGAGATAGGACTAG-T-GACTGCAAT
66 TAAGATCTATAAATTCAGTCTGCTCCACTACAACTTCAGGGAGATAAGAATAGCTAGA-TGCAAT
* * * ** *
92562943 CTGCTT-CACTGCAACTTCAGGAAGGCTAGATTTGTAGTTTTCAGCCCATTACCCTACTGCTTAG
130 CTG-TTCCACTGCAACTTCAGGAAGACAAGATCTGTAACTTTCAGCCCATTACCCTACTACTTAG
*
92563007 GGGGTTAAGG-CTTGTAACTTTGGCTT-C
194 GGGGTTAAGGTC-TGTAAATTTGGCTTGC
* * * *
92563034 TTACCCTACTACTTAGGTGGTTAAAGCTCATCATCTTCGATCTATTTCCCTACTGCTTAGGGTGA
1 TTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGGTGA
*
92563099 TAAAATCT
66 TAAGATCT
92563107 GTAGATCTTC
Statistics
Matches: 252, Mismatches: 30, Indels: 16
0.85 0.10 0.05
Matches are distributed among these distances:
216 4 0.02
217 100 0.40
218 85 0.34
219 43 0.17
220 20 0.08
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.34
Consensus pattern (221 bp):
TTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATCTGTTTCCCTACTGCTTAGGGTGA
TAAGATCTATAAATTCAGTCTGCTCCACTACAACTTCAGGGAGATAAGAATAGCTAGATGCAATC
TGTTCCACTGCAACTTCAGGAAGACAAGATCTGTAACTTTCAGCCCATTACCCTACTACTTAGGG
GGTTAAGGTCTGTAAATTTGGCTTGC
Found at i:92563164 original size:88 final size:87
Alignment explanation
Indices: 92563034--92563240 Score: 236
Period size: 88 Copynumber: 2.3 Consensus size: 87
92563024 CTTTGGCTTC
* * ** * * *
92563034 TTACCCTACTACTTAGGTGGTTAAAGCTCATCATCTTCGATCTATTTCCCTACTGCTTAGGGTGA
1 TTACCCTACTGCTTAGG-GGTTAAGGCTTGTCATCTTCGATCTATATCCCTACTACTTAGGGGGA
*
92563099 TAAAATCTGTAGATCTTCAGCCT-G
65 TAAAATCTGTA-AACTTCAG-CTGG
* * *
92563123 TTATCCTACTGCTTAGGGGTTAAGGCTTGTCATCTTTGATCTATATCCCTACTACTTAGGGGGTT
1 TTACCCTACTGCTTAGGGGTTAAGGCTTGTCATCTTCGATCTATATCCCTACTACTTAGGGGGAT
* **
92563188 AAGATCTGTAAACTTTTGCTGG
66 AAAATCTGTAAACTTCAGCTGG
92563210 TTACCCTACTGCTTAGGGGGTTTAAGGCTTG
1 TTACCCTACTGCTTA-GGGG-TTAAGGCTTG
92563241 GTGGTTTGAA
Statistics
Matches: 100, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
86 2 0.02
87 20 0.20
88 53 0.53
89 25 0.25
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (87 bp):
TTACCCTACTGCTTAGGGGTTAAGGCTTGTCATCTTCGATCTATATCCCTACTACTTAGGGGGAT
AAAATCTGTAAACTTCAGCTGG
Found at i:92563447 original size:43 final size:42
Alignment explanation
Indices: 92563307--92563457 Score: 133
Period size: 44 Copynumber: 3.5 Consensus size: 42
92563297 ATCTGCTTTA
* * * * * *
92563307 CTACTGCTTAGGGTGATAAGATCTATGAACTTTAGCTTGTTACC
1 CTACTGCTTAGGGGGTTAAGATCT-CGAA-TTCAACCTGTTACC
* * * * * *
92563351 CTACTGCTTAGGGGGCTAA-AGCTCGTCACCTTCGATCTGTTTCC
1 CTACTGCTTAGGGGGTTAAGATCTCG--A-ATTCAACCTGTTACC
92563395 CTACTGCTTAGGGGGTTAAGATCTGCGAATTCAACCTGTTACC
1 CTACTGCTTAGGGGGTTAAGATCT-CGAATTCAACCTGTTACC
92563438 CTACTGCTTAGGGGGTTAAG
1 CTACTGCTTAGGGGGTTAAG
92563458 GCCTGGTGAA
Statistics
Matches: 85, Mismatches: 17, Indels: 11
0.75 0.15 0.10
Matches are distributed among these distances:
42 1 0.01
43 34 0.40
44 45 0.53
45 3 0.04
46 2 0.02
ACGTcount: A:0.21, C:0.23, G:0.24, T:0.32
Consensus pattern (42 bp):
CTACTGCTTAGGGGGTTAAGATCTCGAATTCAACCTGTTACC
Found at i:92576036 original size:3 final size:3
Alignment explanation
Indices: 92576030--92576067 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
92576020 ATATCAAAAC
92576030 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
92576068 TAAATGTATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:92579105 original size:17 final size:17
Alignment explanation
Indices: 92579085--92579144 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
92579075 ATTTATATGA
*
92579085 ATAAACAATTTAATAAT
1 ATAAATAATTTAATAAT
*
92579102 ATAAATAATATAA-AAT
1 ATAAATAATTTAATAAT
*
92579118 GTGAAATTTAATTTAATAAT
1 AT-AAA--TAATTTAATAAT
92579138 ATAAATA
1 ATAAATA
92579145 CTAGATATGA
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
16 4 0.12
17 16 0.47
19 10 0.29
20 4 0.12
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.37
Consensus pattern (17 bp):
ATAAATAATTTAATAAT
Found at i:92581369 original size:50 final size:50
Alignment explanation
Indices: 92581277--92581522 Score: 355
Period size: 50 Copynumber: 5.0 Consensus size: 50
92581267 GATCAATGAC
* * * *
92581277 AAGTGATAAGTGGTAGCCTCAGCTACACTTATCTGATTAGTGATAAGTGAC
1 AAGTGATAAGTGGTAG-CTTAGCTACACTTATCTGATCAGTGACAAGTGAT
92581328 AAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACAAGTGAT
1 AAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACAAGTGAT
* *
92581378 AAATGATAA---GT-G----GCTACACTTATCTGATCAGCGACAAGTGAT
1 AAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACAAGTGAT
*
92581420 AAATGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACAAGTGAT
1 AAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACAAGTGAT
92581470 AAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGAT
1 AAGTGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAGTGACAAGTGAT
92581521 AA
1 AA
92581523 ATGTGATCAG
Statistics
Matches: 178, Mismatches: 8, Indels: 18
0.87 0.04 0.09
Matches are distributed among these distances:
42 38 0.21
45 2 0.01
46 2 0.01
47 2 0.01
50 83 0.47
51 51 0.29
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (50 bp):
AAGTGATAAGTGGTAGCTTAGCTACACTTATCTGATCAGTGACAAGTGAT
Found at i:92581427 original size:92 final size:92
Alignment explanation
Indices: 92581298--92581482 Score: 316
Period size: 92 Copynumber: 2.0 Consensus size: 92
92581288 GGTAGCCTCA
* * * *
92581298 GCTACACTTATCTGATTAGTGATAAGTGACAAGTGATAAGTGGTAGCTTAGCTACACTTATCTGA
1 GCTACACTTATCTGATCAGCGACAAGTGACAAATGATAAGTGGTAGCTTAGCTACACTTATCTGA
92581363 TCAGTGACAAGTGATAAATGATAAGTG
66 TCAGTGACAAGTGATAAATGATAAGTG
*
92581390 GCTACACTTATCTGATCAGCGACAAGTGATAAATGATAAGTGGTAGCTTAGCTACACTTATCTGA
1 GCTACACTTATCTGATCAGCGACAAGTGACAAATGATAAGTGGTAGCTTAGCTACACTTATCTGA
*
92581455 TCAGTGACAAGTGATAAGTGATAAGTG
66 TCAGTGACAAGTGATAAATGATAAGTG
92581482 G
1 G
92581483 TAGCTTTAGC
Statistics
Matches: 87, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
92 87 1.00
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (92 bp):
GCTACACTTATCTGATCAGCGACAAGTGACAAATGATAAGTGGTAGCTTAGCTACACTTATCTGA
TCAGTGACAAGTGATAAATGATAAGTG
Found at i:92588264 original size:101 final size:102
Alignment explanation
Indices: 92588100--92588313 Score: 349
Period size: 101 Copynumber: 2.1 Consensus size: 102
92588090 ACTTTTGATC
* * *
92588100 AGTGACAAGTGATAAGTGGTAGCCTCAACTACACTTATCTGATCAGTGATAAGTGACAAGTGATA
1 AGTGATAAATGATAAGTGGTAGCCTCAACTACACTTATCTGATCAGTGACAAGTGACAAGTGATA
* *
92588165 AGTGGTATCTTTAGCTACACTTATCTGATCAGTGACA
66 AGTGGCAGCTTTAGCTACACTTATCTGATCAGTGACA
* * *
92588202 AGTGATAAATGATAAGTGGTAG-CTTAGCTACACTTATCTGATCAGTGACAAGTGATAAGTGATA
1 AGTGATAAATGATAAGTGGTAGCCTCAACTACACTTATCTGATCAGTGACAAGTGACAAGTGATA
92588266 AGTGGCAGCTTTAGCTACACTTATCTGATCAGTGACA
66 AGTGGCAGCTTTAGCTACACTTATCTGATCAGTGACA
92588303 AGTGATAAATG
1 AGTGATAAATG
92588314 TGATCAATGT
Statistics
Matches: 104, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
101 84 0.81
102 20 0.19
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.29
Consensus pattern (102 bp):
AGTGATAAATGATAAGTGGTAGCCTCAACTACACTTATCTGATCAGTGACAAGTGACAAGTGATA
AGTGGCAGCTTTAGCTACACTTATCTGATCAGTGACA
Found at i:92588308 original size:51 final size:51
Alignment explanation
Indices: 92588100--92588310 Score: 334
Period size: 51 Copynumber: 4.2 Consensus size: 51
92588090 ACTTTTGATC
* * * * *
92588100 AGTGACAAGTGATAAGTGGTAGCCTCAACTACACTTATCTGATCAGTGATA
1 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
* *
92588151 AGTGACAAGTGATAAGTGGTATCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
*
92588202 AGTGATAAATGATAAGTGGTAGC-TTAGCTACACTTATCTGATCAGTGACA
1 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
*
92588252 AGTGATAAGTGATAAGTGGCAGCTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
92588303 AGTGATAA
1 AGTGATAA
92588311 ATGTGATCAA
Statistics
Matches: 149, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
50 48 0.32
51 101 0.68
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.29
Consensus pattern (51 bp):
AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACA
Found at i:92590593 original size:5 final size:5
Alignment explanation
Indices: 92590570--92590624 Score: 74
Period size: 5 Copynumber: 10.6 Consensus size: 5
92590560 AAGAATTTAC
* *
92590570 TTATA TTATAA GTAAA TTATA TTATA TTATA TTATA TTATA TTATA TTATTA
1 TTATA TTAT-A TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTA-TA
92590622 TTA
1 TTA
92590625 AAATGTATTA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
5 36 0.82
6 8 0.18
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (5 bp):
TTATA
Found at i:92593690 original size:4 final size:4
Alignment explanation
Indices: 92593681--92593722 Score: 57
Period size: 4 Copynumber: 10.0 Consensus size: 4
92593671 GTGAGTCTGC
*
92593681 TTCT TTCT TTCT TTCT CTTTT TTCT TTCT TTCTT TTCT TTCT
1 TTCT TTCT TTCT TTCT -TTCT TTCT TTCT TTC-T TTCT TTCT
92593723 AATTTTGGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 27 0.79
5 7 0.21
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTCT
Found at i:92593706 original size:13 final size:13
Alignment explanation
Indices: 92593682--92593722 Score: 57
Period size: 13 Copynumber: 3.1 Consensus size: 13
92593672 TGAGTCTGCT
92593682 TCTTTCTTTCTTTC
1 TCTTT-TTTCTTTC
92593696 TCTTTTTTCTTTC
1 TCTTTTTTCTTTC
92593709 T-TTCTTTTCTTTC
1 TCTT-TTTTCTTTC
92593722 T
1 T
92593723 AATTTTGGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
12 2 0.08
13 19 0.73
14 5 0.19
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (13 bp):
TCTTTTTTCTTTC
Found at i:92593706 original size:17 final size:17
Alignment explanation
Indices: 92593681--92593722 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
92593671 GTGAGTCTGC
92593681 TTCTTTCTTTCTTTCTCT
1 TTCTTTCTTTCTTTCT-T
92593699 TT-TTTCTTTCTTTCTT
1 TTCTTTCTTTCTTTCTT
92593715 TTCTTTCT
1 TTCTTTCT
92593723 AATTTTGGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.13
17 18 0.78
18 2 0.09
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (17 bp):
TTCTTTCTTTCTTTCTT
Found at i:92593707 original size:21 final size:20
Alignment explanation
Indices: 92593681--92593720 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
92593671 GTGAGTCTGC
92593681 TTCTTTCTTTCTTTCTCTTTT
1 TTCTTTCTTTCTTT-TCTTTT
92593702 TTCTTTCTTTCTTTTCTTT
1 TTCTTTCTTTCTTTTCTTT
92593721 CTAATTTTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.78
Consensus pattern (20 bp):
TTCTTTCTTTCTTTTCTTTT
Found at i:92599070 original size:3 final size:3
Alignment explanation
Indices: 92599062--92599112 Score: 50
Period size: 3 Copynumber: 17.0 Consensus size: 3
92599052 CAAGCCTGTT
* * * *
92599062 TCA TCA TCA ACA TCA TCA TCG TCCA -CA CCA TTA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA T-CA TCA TCA TCA TCA TCA TCA TCA
92599107 TCA TCA
1 TCA TCA
92599113 CTGTCATCTC
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
2 2 0.05
3 36 0.92
4 1 0.03
ACGTcount: A:0.33, C:0.35, G:0.02, T:0.29
Consensus pattern (3 bp):
TCA
Found at i:92611582 original size:27 final size:27
Alignment explanation
Indices: 92611524--92611583 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 27
92611514 CTTTTACCTA
**
92611524 AATAAAAAAAAATAAAAATAACATGCC
1 AATAAAAAAAAATAAAAATAACATAAC
92611551 AATAAAAAAAATATAACAAA-AACATAAC
1 AATAAAAAAAA-ATAA-AAATAACATAAC
92611579 -ATAAA
1 AATAAA
92611584 CTATCTCAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
27 16 0.55
28 10 0.34
29 3 0.10
ACGTcount: A:0.73, C:0.10, G:0.02, T:0.15
Consensus pattern (27 bp):
AATAAAAAAAAATAAAAATAACATAAC
Found at i:92612511 original size:27 final size:27
Alignment explanation
Indices: 92612458--92612512 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
92612448 TAATATTTTT
* *
92612458 TTTAAGGAAATAATTTTTTATTGTTAA
1 TTTAAGGAAATAATTATTTATTATTAA
92612485 TTTAAGGAAATAAATTATTTA-TATTAA
1 TTTAAGGAAAT-AATTATTTATTATTAA
92612512 T
1 T
92612513 GGTTAATGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 17 0.68
28 8 0.32
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.49
Consensus pattern (27 bp):
TTTAAGGAAATAATTATTTATTATTAA
Done.