Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 112 of 250
Found at i:35958481 original size:37 final size:37
Alignment explanation
Indices: 35958405--35958483 Score: 97
Period size: 37 Copynumber: 2.1 Consensus size: 37
35958395 CCGAGCTCTA
* *
35958405 AAGACCCGATGACTACGTGTGGGAATTTTGTCCGAGT
1 AAGACCCGATAACTACGTGTGGGAATTATGTCCGAGT
* * *
35958442 AAGACCCGATAACTTCGTGT-GGAGATTATGTCTGGGT
1 AAGACCCGATAACTACGTGTGGGA-ATTATGTCCGAGT
35958479 AAGAC
1 AAGAC
35958484 TTCGTAATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
36 3 0.08
37 33 0.92
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGGAATTATGTCCGAGT
Found at i:35960085 original size:27 final size:27
Alignment explanation
Indices: 35959845--35960085 Score: 338
Period size: 27 Copynumber: 8.9 Consensus size: 27
35959835 GGGTGTTACA
*
35959845 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTCCG
35959872 GTAATTCTACCCTACAGGGGTATTCCG
1 GTAATTCTACCCTACAGGGGTATTCCG
* ** * *
35959899 GTAATTCTACCCTACTGGAATATTTCA
1 GTAATTCTACCCTACAGGGGTATTCCG
* *
35959926 ATAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTCCG
***
35959953 GTAATTCTACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTCCG
* *
35959980 GTAATTCTACGCTACAGGGGTATTCTG
1 GTAATTCTACCCTACAGGGGTATTCCG
*
35960007 GTAATTCTACCCTACAAGGGTATTCCG
1 GTAATTCTACCCTACAGGGGTATTCCG
35960034 GTAATTCTACCCTACAGGGGTATTCCG
1 GTAATTCTACCCTACAGGGGTATTCCG
* *
35960061 TTAATTCTACCCTACATGGGTATTC
1 GTAATTCTACCCTACAGGGGTATTC
35960086 TGATAATTTT
Statistics
Matches: 191, Mismatches: 23, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 191 1.00
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.34
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTCCG
Found at i:35960147 original size:81 final size:81
Alignment explanation
Indices: 35959846--35960147 Score: 223
Period size: 81 Copynumber: 3.7 Consensus size: 81
35959836 GGTGTTACAG
** * * * ** **
35959846 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTCCGGTAATTCTACCC
1 TAATTCTACCAAACAAGGGTATTCCAGTAATTCTACCAAACAGGGGTATTTTGGTAATTCTACCC
* ** *
35959911 TACTGGAATATT-TCAA
66 TACAGGGGTATTCT-GA
** * * * ** * *
35959927 TAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTAGTAATTCTACGC
1 TAATTCTACCAAACAAGGGTATTCCAGTAATTCTACCAAACAGGGGTATTTTGGTAATTCTACCC
*
35959992 TACAGGGGTATTCTGG
66 TACAGGGGTATTCTGA
** * ** ** *
35960008 TAATTCTACCCTACAAGGGTATTCCGGTAATTCTACCCTACAGGGGTATTCCGTTAATTCTACCC
1 TAATTCTACCAAACAAGGGTATTCCAGTAATTCTACCAAACAGGGGTATTTTGGTAATTCTACCC
*
35960073 TACATGGGTATTCTGA
66 TACAGGGGTATTCTGA
* * ** *
35960089 TAATTTTA-TAAACAAAGGGTATTTTAGTAATTTTA-CAAACTAGGGGTATTTTGGTAATT
1 TAATTCTACCAAAC-AAGGGTATTCCAGTAATTCTACCAAAC-AGGGGTATTTTGGTAATT
35960148 TTGTAAACCA
Statistics
Matches: 187, Mismatches: 31, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
80 5 0.03
81 181 0.97
82 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (81 bp):
TAATTCTACCAAACAAGGGTATTCCAGTAATTCTACCAAACAGGGGTATTTTGGTAATTCTACCC
TACAGGGGTATTCTGA
Found at i:35960263 original size:27 final size:27
Alignment explanation
Indices: 35960078--35960256 Score: 216
Period size: 27 Copynumber: 6.6 Consensus size: 27
35960068 TACCCTACAT
* * *
35960078 GGGTATTCTGATAATTTTATAAACAAA
1 GGGTATTTTGGTAATTTTATAAACCAA
* * * *
35960105 GGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAA
*
35960132 GGGTATTTTGGTAATTTTGTAAACCAA
1 GGGTATTTTGGTAATTTTATAAACCAA
*
35960159 GGGTATTTTGGTAATTTTACAAACC-A
1 GGGTATTTTGGTAATTTTATAAACCAA
*
35960185 GGGATATTTTGGTGATTTTATAAACCAA
1 GGG-TATTTTGGTAATTTTATAAACCAA
* * * *
35960213 TGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAA
35960240 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
35960257 GGTAAACTAA
Statistics
Matches: 128, Mismatches: 22, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
26 4 0.03
27 121 0.95
28 3 0.02
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTATAAACCAA
Found at i:35960263 original size:54 final size:54
Alignment explanation
Indices: 35960078--35960256 Score: 277
Period size: 54 Copynumber: 3.3 Consensus size: 54
35960068 TACCCTACAT
* * * *
35960078 GGGTATTCTGATAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* *
35960132 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
* * *
35960186 GGATATTTTGGTGATTTTATAAACCAATGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
35960240 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
35960257 GGTAAACTAA
Statistics
Matches: 112, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 112 1.00
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.41
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAACCAG
Found at i:35963474 original size:5 final size:5
Alignment explanation
Indices: 35963464--35963515 Score: 54
Period size: 5 Copynumber: 10.4 Consensus size: 5
35963454 TATACAATAT
* *
35963464 TGATA TGATA TGCACA TGATA TG-TA GGATA TGCATA TGATA TG-TA TGATA
1 TGATA TGATA TG-ATA TGATA TGATA TGATA TG-ATA TGATA TGATA TGATA
35963514 TG
1 TG
35963516 CACATGATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
4 7 0.18
5 23 0.59
6 9 0.23
ACGTcount: A:0.35, C:0.06, G:0.23, T:0.37
Consensus pattern (5 bp):
TGATA
Found at i:35963482 original size:11 final size:11
Alignment explanation
Indices: 35963466--35963523 Score: 61
Period size: 11 Copynumber: 5.6 Consensus size: 11
35963456 TACAATATTG
35963466 ATATGATATGC
1 ATATGATATGC
*
35963477 ACATGATATG-
1 ATATGATATGC
*
35963487 -TAGGATATGC
1 ATATGATATGC
35963497 ATATGATATG-
1 ATATGATATGC
35963507 -TATGATATGC
1 ATATGATATGC
*
35963517 ACATGAT
1 ATATGAT
35963524 GTATTCATAA
Statistics
Matches: 38, Mismatches: 5, Indels: 8
0.75 0.10 0.16
Matches are distributed among these distances:
9 16 0.42
11 22 0.58
ACGTcount: A:0.36, C:0.09, G:0.21, T:0.34
Consensus pattern (11 bp):
ATATGATATGC
Found at i:35963495 original size:20 final size:20
Alignment explanation
Indices: 35963470--35963523 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
35963460 ATATTGATAT
35963470 GATATGCACATGATATGTAG
1 GATATGCACATGATATGTAG
* *
35963490 GATATGCATATGATATGTAT
1 GATATGCACATGATATGTAG
35963510 GATATGCACATGAT
1 GATATGCACATGAT
35963524 GTATTCATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.35, C:0.09, G:0.22, T:0.33
Consensus pattern (20 bp):
GATATGCACATGATATGTAG
Found at i:35966478 original size:51 final size:51
Alignment explanation
Indices: 35966373--35966480 Score: 155
Period size: 51 Copynumber: 2.1 Consensus size: 51
35966363 AGATATGGTG
* *
35966373 AAATGGAGAAATAGGAAACATTTGGAAATGATTATGGTTTTCTCCAAAATGA
1 AAATGGAGAAATA-GAAACATTTGGAAATGACTATGGTTTTCTCAAAAATGA
* *
35966425 AAATGGGGAAAT-GAAATCATTTGGAAATGACTGTGGTTTTCTCAAAAATGA
1 AAATGGAGAAATAGAAA-CATTTGGAAATGACTATGGTTTTCTCAAAAATGA
35966476 AAATG
1 AAATG
35966481 ACATGAAAAA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
50 4 0.08
51 36 0.71
52 11 0.22
ACGTcount: A:0.42, C:0.07, G:0.22, T:0.29
Consensus pattern (51 bp):
AAATGGAGAAATAGAAACATTTGGAAATGACTATGGTTTTCTCAAAAATGA
Found at i:35984077 original size:15 final size:16
Alignment explanation
Indices: 35984043--35984080 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
35984033 TATCACATTT
35984043 ATAACCATTTCAAGATC
1 ATAA-CATTTCAAGATC
35984060 ATAACATTTCAA-ATC
1 ATAACATTTCAAGATC
35984075 ATAACA
1 ATAACA
35984081 ATATCCCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 9 0.43
16 8 0.38
17 4 0.19
ACGTcount: A:0.47, C:0.21, G:0.03, T:0.29
Consensus pattern (16 bp):
ATAACATTTCAAGATC
Found at i:35984891 original size:44 final size:43
Alignment explanation
Indices: 35984759--35984909 Score: 128
Period size: 42 Copynumber: 3.5 Consensus size: 43
35984749 CCATCATCCT
* * * *
35984759 AGACATGGTCTTACATGTAAT-TAAAAATCGATGCCACTGTCCC
1 AGACATGGTCTTACACGAAATCT-CAAATCGATGCCAATGTCCC
* * * ** *
35984802 AAACAGGGTCTTACAC-AAA-ATCAAATACGATGCTGATGCCCC
1 AGACATGGTCTTACACGAAATCTCAAAT-CGATGCCAATGTCCC
*
35984844 AGACATGGTCTTACACGTAAATCTCAAATCGATGCCAATGTCAC
1 AGACATGGTCTTACACG-AAATCTCAAATCGATGCCAATGTCCC
* * *
35984888 AGACGTGATCTTGCACGAAATC
1 AGACATGGTCTTACACGAAATC
35984910 ACATATCAAA
Statistics
Matches: 84, Mismatches: 19, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
41 4 0.05
42 28 0.33
43 18 0.21
44 28 0.33
45 6 0.07
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (43 bp):
AGACATGGTCTTACACGAAATCTCAAATCGATGCCAATGTCCC
Found at i:35992255 original size:44 final size:44
Alignment explanation
Indices: 35992124--35992274 Score: 134
Period size: 44 Copynumber: 3.5 Consensus size: 44
35992114 CCAATGTCCT
* * * *
35992124 AGACGTGGTCTTACATGTAAT-T-AAATATCGGTGCC-ACTATCCC
1 AGACATGGTCTTACACGAAATCTCAAATA-CGATGCCAAC-ATCCC
* * * **
35992167 AGACAGGGTCTTACAC-AAA-ATCAAATACGATGCCGATGTCCC
1 AGACATGGTCTTACACGAAATCTCAAATACGATGCCAACATCCC
*
35992209 AGACATGGTCTTACACGTAAATCTCAAAT-TGATGCCAACATCCC
1 AGACATGGTCTTACACG-AAATCTCAAATACGATGCCAACATCCC
*
35992253 AGACGTGGTCTTACACGAAATC
1 AGACATGGTCTTACACGAAATC
35992275 ACATATCGGA
Statistics
Matches: 88, Mismatches: 14, Indels: 12
0.77 0.12 0.11
Matches are distributed among these distances:
42 28 0.32
43 24 0.27
44 30 0.34
45 6 0.07
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (44 bp):
AGACATGGTCTTACACGAAATCTCAAATACGATGCCAACATCCC
Found at i:35992265 original size:86 final size:85
Alignment explanation
Indices: 35992111--35992275 Score: 203
Period size: 86 Copynumber: 1.9 Consensus size: 85
35992101 AGCTTGTACA
* * * *
35992111 ATGCCAATGTCCTAGACGTGGTCTTACATGTAATTAAATATCGGTGCCACTATCCCAGACAGGGT
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATTAAATATCGATGCCACTATCCCAGACAGGGT
35992176 CTTACACAAAATCAAATACG
66 CTTACACAAAATCAAATACG
*
35992196 ATGCCGATGTCCCAGACATGGTCTTACACGTAAATCTCAAAT-T-GATGCCAAC-ATCCCAGAC-
1 ATGCCAATGTCCCAGACATGGTCTTACACGT-AAT-T-AAATATCGATGCC-ACTATCCCAGACA
*
35992257 GTGGTCTTACACGAAATCA
62 G-GGTCTTACACAAAATCA
35992276 CATATCGGAA
Statistics
Matches: 69, Mismatches: 6, Indels: 9
0.82 0.07 0.11
Matches are distributed among these distances:
85 28 0.41
86 33 0.48
87 4 0.06
88 4 0.06
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (85 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAATTAAATATCGATGCCACTATCCCAGACAGGGT
CTTACACAAAATCAAATACG
Found at i:35992655 original size:8 final size:8
Alignment explanation
Indices: 35992644--35992668 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
35992634 AAATTAACCA
35992644 TCACATTT
1 TCACATTT
35992652 TCACATTT
1 TCACATTT
35992660 TCACATTT
1 TCACATTT
35992668 T
1 T
35992669 AACACTTTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.00, T:0.52
Consensus pattern (8 bp):
TCACATTT
Found at i:36000885 original size:23 final size:23
Alignment explanation
Indices: 36000858--36000932 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
36000848 CGAATGGCCA
36000858 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
* * **
36000881 ATGTG-TGATAAG-G-CCGAATGGCCA
1 ATGTGATGA-ATGTGAAC--AT-GCGT
36000905 ATGTGATGAATGTGAACATGCGT
1 ATGTGATGAATGTGAACATGCGT
36000928 ATGTG
1 ATGTG
36000933 TGATAAGGCC
Statistics
Matches: 37, Mismatches: 8, Indels: 14
0.63 0.14 0.24
Matches are distributed among these distances:
21 1 0.03
22 4 0.11
23 16 0.43
24 11 0.30
25 4 0.11
26 1 0.03
ACGTcount: A:0.29, C:0.11, G:0.32, T:0.28
Consensus pattern (23 bp):
ATGTGATGAATGTGAACATGCGT
Found at i:36000901 original size:47 final size:47
Alignment explanation
Indices: 36000833--36001240 Score: 645
Period size: 47 Copynumber: 8.6 Consensus size: 47
36000823 CCTGTATATA
*
36000833 TATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
36000880 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
***
36000927 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCTGTATATA
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-C---ATGCG
* * *
36000978 TATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATATGTG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
36001025 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
*
36001072 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACACGCG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
*
36001119 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACACGCG
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
* **
36001166 TATGTGTGATAAGGCCGAATTGCCAATGTGATGAATGTGAACATGTA
1 TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
* * *
36001213 TATATGTGGTAAGGCCGAATGGCTAATG
1 TATGTGTGATAAGGCCGAATGGCCAATG
36001241 CGAAATGTGT
Statistics
Matches: 337, Mismatches: 20, Indels: 8
0.92 0.05 0.02
Matches are distributed among these distances:
47 294 0.87
48 1 0.00
51 42 0.12
ACGTcount: A:0.30, C:0.13, G:0.31, T:0.26
Consensus pattern (47 bp):
TATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCG
Found at i:36000960 original size:145 final size:145
Alignment explanation
Indices: 36000807--36001240 Score: 716
Period size: 145 Copynumber: 3.0 Consensus size: 145
36000797 TTAGGATTTT
36000807 ATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
1 ATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
36000872 AACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGAT
66 AACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGAT
36000937 AAGGCCGAATGGCCA
131 AAGGCCGAATGGCCA
36000952 ATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
1 ATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
* *
36001017 AATATGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGAT
66 AACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGAT
36001082 AAGGCCGAATGGCCA
131 AAGGCCGAATGGCCA
** *
36001097 ATGTGATGAATGTGAACAC-G----CGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGT
1 ATGTGATGAATGTGAAC-CTGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGT
* * ** * *
36001157 GAACACGCGTATGTGTGATAAGGCCGAATTGCCAATGTGATGAATGTGAACATGTATATATGTGG
65 GAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGA
*
36001222 TAAGGCCGAATGGCTA
130 TAAGGCCGAATGGCCA
36001238 ATG
1 ATG
36001241 CGAAATGTGT
Statistics
Matches: 274, Mismatches: 14, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
141 112 0.41
145 161 0.59
146 1 0.00
ACGTcount: A:0.30, C:0.12, G:0.30, T:0.27
Consensus pattern (145 bp):
ATGTGATGAATGTGAACCTGTATATATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
AACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGAT
AAGGCCGAATGGCCA
Found at i:36001312 original size:141 final size:141
Alignment explanation
Indices: 36000832--36001286 Score: 591
Period size: 145 Copynumber: 3.2 Consensus size: 141
36000822 ACCTGTATAT
*
36000832 ATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCG
1 ATATGAGTGATAAGGCCGAATGGCCAATGTGA-GAATGTGAACATGCGTATGTGTGATAAGGCCG
36000897 AATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAA
65 AATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGA-GAA
* *
36000962 TGTGAACCTG-TATAT
129 TGTG-A--TGACATAG
* * *
36000977 ATATGCGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAATATGTGTATGTGTGATAAGGCCG
1 ATATGAGTGATAAGGCCGAATGGCCAATGTGA-GAATGTGAACATGCGTATGTGTGATAAGGCCG
36001042 AATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAA
65 AATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGA-GAA
*
36001107 TGTGA--ACA-CG
129 TGTGATGACATAG
* * *
36001117 CGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACACGCGTATGTGTGATAAGGCC
1 -ATATGAGTGATAAGGCCGAATGGCCAATGTGA-GAATGTGAACATGCGTATGTGTGATAAGGCC
* ** * * * *
36001182 GAATTGCCAATGTGATGAATGTGAACATGTATATATGTGGTAAGGCCGAATGGCTAATGCGA-AA
64 GAATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGAGAA
*
36001246 TGTGTATGAGATAG
129 TGTG-ATGACATAG
* *
36001260 ATATGAG-G-TAAAGCCGAATGGCTAATG
1 ATATGAGTGATAAGGCCGAATGGCCAATG
36001287 CGAAACGTGT
Statistics
Matches: 281, Mismatches: 23, Indels: 17
0.88 0.07 0.05
Matches are distributed among these distances:
139 6 0.02
140 18 0.06
141 116 0.41
142 7 0.02
143 1 0.00
144 1 0.00
145 132 0.47
ACGTcount: A:0.31, C:0.12, G:0.31, T:0.26
Consensus pattern (141 bp):
ATATGAGTGATAAGGCCGAATGGCCAATGTGAGAATGTGAACATGCGTATGTGTGATAAGGCCGA
ATGGCCAATGTGATGAATGTGAACATGCGTATGTGTGATAAGGCCGAATGGCCAATGTGAGAATG
TGATGACATAG
Found at i:36001350 original size:46 final size:46
Alignment explanation
Indices: 36001214--36001350 Score: 202
Period size: 46 Copynumber: 3.0 Consensus size: 46
36001204 GAACATGTAT
* *
36001214 ATATGTGGTAAGGCCGAATGGCTAATGCGAAATGTGTATGAGATAG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* *
36001260 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * * *
36001306 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATG
36001351 TGTATATATA
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 81 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:36001574 original size:37 final size:37
Alignment explanation
Indices: 36001533--36001643 Score: 177
Period size: 37 Copynumber: 3.0 Consensus size: 37
36001523 GTGGTGACTA
*
36001533 TGTCCGGGTAAGACCCGATGACTACGCGTGGAGATTT
1 TGTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
*
36001570 TGTCCGGGTAAAACCCGATGACTACGTGTGGAGATTT
1 TGTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
* * *
36001607 TGTCCGAGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TGTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
36001644 CATCTGAGCT
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (37 bp):
TGTCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
Found at i:36002622 original size:27 final size:27
Alignment explanation
Indices: 36002583--36002693 Score: 147
Period size: 27 Copynumber: 4.1 Consensus size: 27
36002573 TGGCTGCCAA
* *
36002583 AACAGATA-TTGTGACAGAGTCACCAG
1 AACAGATATTTGTGGCAGAGCCACCAG
36002609 ATACAGATA-TTGTGGCAGAGCCACCAG
1 A-ACAGATATTTGTGGCAGAGCCACCAG
36002636 AACAGATATTTGTGGC-GTAGCCACCAG
1 AACAGATATTTGTGGCAG-AGCCACCAG
*
36002663 AAACAGATATTTGTGGCATAGCCACCAG
1 -AACAGATATTTGTGGCAGAGCCACCAG
36002691 AAC
1 AAC
36002694 GCTTCCTCCA
Statistics
Matches: 77, Mismatches: 3, Indels: 9
0.87 0.03 0.10
Matches are distributed among these distances:
26 9 0.12
27 43 0.56
28 25 0.32
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (27 bp):
AACAGATATTTGTGGCAGAGCCACCAG
Found at i:36009307 original size:80 final size:80
Alignment explanation
Indices: 36009171--36009359 Score: 238
Period size: 80 Copynumber: 2.4 Consensus size: 80
36009161 GCCCTACATA
* * * * * *
36009171 GGTATTTCGGTAATTTTACACTACAAGGGTATTTGAGTAATTTTACACTATAAGGGTATTTCGAT
1 GGTATTTCGATAATTTTACA-AACAGGGGTATTTCAATAATTTTACACAATAAGGGTATTTCGAT
*
36009236 AATTTTACACTA-TAAG
65 AATTTTACA-AACTAAG
* * *
36009252 GGTATTTTGATAATTTTACAAACTGGGGTATTTCAATAATTTTACA-AACTGAGGGTATTTCGAT
1 GGTATTTCGATAATTTTACAAACAGGGGTATTTCAATAATTTTACACAA-TAAGGGTATTTCGAT
*
36009316 AATTTTACAAACTGAG
65 AATTTTACAAACTAAG
36009332 GGTATTTCGATAATTTTACAAACAGGGG
1 GGTATTTCGATAATTTTACAAACAGGGG
36009360 CTTTCCTTGT
Statistics
Matches: 93, Mismatches: 13, Indels: 5
0.84 0.12 0.05
Matches are distributed among these distances:
79 2 0.02
80 73 0.78
81 18 0.19
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.38
Consensus pattern (80 bp):
GGTATTTCGATAATTTTACAAACAGGGGTATTTCAATAATTTTACACAATAAGGGTATTTCGATA
ATTTTACAAACTAAG
Found at i:36009352 original size:27 final size:27
Alignment explanation
Indices: 36009171--36009354 Score: 216
Period size: 27 Copynumber: 6.9 Consensus size: 27
36009161 GCCCTACATA
* *
36009171 GGTATTTCGGTAATTTTACACTAC-AAG
1 GGTATTTCGATAATTTTACA-AACTAAG
*
36009198 GGTATTT-GAGTAATTTTACACTA-TAAG
1 GGTATTTCGA-TAATTTTACA-AACTAAG
*
36009225 GGTATTTCGATAATTTTACACTA-TAAG
1 GGTATTTCGATAATTTTACA-AACTAAG
* *
36009252 GGTATTTTGATAATTTTACAAACT-GG
1 GGTATTTCGATAATTTTACAAACTAAG
* *
36009278 GGTATTTCAATAATTTTACAAACTGAG
1 GGTATTTCGATAATTTTACAAACTAAG
*
36009305 GGTATTTCGATAATTTTACAAACTGAG
1 GGTATTTCGATAATTTTACAAACTAAG
36009332 GGTATTTCGATAATTTTACAAAC
1 GGTATTTCGATAATTTTACAAAC
36009355 AGGGGCTTTC
Statistics
Matches: 144, Mismatches: 8, Indels: 10
0.89 0.05 0.06
Matches are distributed among these distances:
26 25 0.17
27 117 0.81
28 2 0.01
ACGTcount: A:0.33, C:0.11, G:0.17, T:0.39
Consensus pattern (27 bp):
GGTATTTCGATAATTTTACAAACTAAG
Found at i:36015169 original size:17 final size:17
Alignment explanation
Indices: 36015148--36015195 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
36015138 TGGTTTACTG
36015148 ATTTTAGTTGTTTATTGT
1 ATTTTAGTTGTTTATT-T
**
36015166 -TTTTTCTTGTTTATTT
1 ATTTTAGTTGTTTATTT
*
36015182 ATTTTAGTTATTTA
1 ATTTTAGTTGTTTA
36015196 AATTCTCTTA
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
16 1 0.04
17 23 0.96
ACGTcount: A:0.17, C:0.02, G:0.10, T:0.71
Consensus pattern (17 bp):
ATTTTAGTTGTTTATTT
Found at i:36016842 original size:25 final size:25
Alignment explanation
Indices: 36016808--36016858 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
36016798 TGACTTCCCG
36016808 GAAGACTTCTTCTCCAATCTATTTT
1 GAAGACTTCTTCTCCAATCTATTTT
36016833 GAAGACTTCTTCTCCAATCTATTTT
1 GAAGACTTCTTCTCCAATCTATTTT
36016858 G
1 G
36016859 TTTTTCTTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.24, C:0.24, G:0.10, T:0.43
Consensus pattern (25 bp):
GAAGACTTCTTCTCCAATCTATTTT
Found at i:36021020 original size:7 final size:7
Alignment explanation
Indices: 36021008--36021032 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
36020998 CGGCTCGATA
36021008 TAAGGTG
1 TAAGGTG
36021015 TAAGGTG
1 TAAGGTG
36021022 TAAGGTG
1 TAAGGTG
36021029 TAAG
1 TAAG
36021033 ACCGTAGATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.40, T:0.28
Consensus pattern (7 bp):
TAAGGTG
Found at i:36030357 original size:39 final size:39
Alignment explanation
Indices: 36030177--36030339 Score: 245
Period size: 39 Copynumber: 4.2 Consensus size: 39
36030167 CAGCGATGTT
* * *
36030177 TATCCGGACTTAGGGTCCGCAAGCTATGTGCTGGAATTA
1 TATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAATTA
* *
36030216 TATCTGGACTTAGGGTCCGCAGGCTACGTGCTGGAATTA
1 TATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAATTA
*
36030255 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTA
1 TATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAATTA
* *
36030294 TAACCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAATA
1 TATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAATTA
*
36030333 TGTCCGG
1 TATCCGG
36030340 GCTAAAGTCC
Statistics
Matches: 113, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 113 1.00
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.26
Consensus pattern (39 bp):
TATCCGGACTTAAGGTCCGCAGGCTACGTGCTGGAATTA
Found at i:36030366 original size:78 final size:78
Alignment explanation
Indices: 36030177--36030373 Score: 227
Period size: 78 Copynumber: 2.5 Consensus size: 78
36030167 CAGCGATGTT
** * * * * * *
36030177 TATCCGGACTTAGGGTCCGCAAGCTATGTGCTGGAATTATATCTGGACTTAGGGTCCGCAGGCTA
1 TATCCGGACTTAAAGTCCACAGGCTATGAGCTGGAATTATAACCGGACTTAAGGTCCGCAGGCTA
*
36030242 CGTGCTGGAATTA
66 CGTGCTGGAAATA
* * *
36030255 TATCCGGACTTAAGGTCCGCAGGCTATGTGCTGGAATTATAACCGGACTTAAGGTCCGCAGGCTA
1 TATCCGGACTTAAAGTCCACAGGCTATGAGCTGGAATTATAACCGGACTTAAGGTCCGCAGGCTA
36030320 CGTGCTGGAAATA
66 CGTGCTGGAAATA
* * *
36030333 TGTCCGGGC-TAAAGTCCCACAGGCT-TCGAGCTGGTATTATA
1 TATCCGGACTTAAAGT-CCACAGGCTAT-GAGCTGGAATTATA
36030374 CCGTGTTTAA
Statistics
Matches: 105, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
77 6 0.06
78 99 0.94
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.26
Consensus pattern (78 bp):
TATCCGGACTTAAAGTCCACAGGCTATGAGCTGGAATTATAACCGGACTTAAGGTCCGCAGGCTA
CGTGCTGGAAATA
Found at i:36032937 original size:30 final size:30
Alignment explanation
Indices: 36032901--36032962 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
36032891 TTGTGTTTAT
36032901 TTCATATCTTGCATGATTCAAAAAATAAAC
1 TTCATATCTTGCATGATTCAAAAAATAAAC
**
36032931 TTCATATCTTGCATGATTCAATTAATAAAC
1 TTCATATCTTGCATGATTCAAAAAATAAAC
36032961 TT
1 TT
36032963 ATTTATTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.39, C:0.16, G:0.06, T:0.39
Consensus pattern (30 bp):
TTCATATCTTGCATGATTCAAAAAATAAAC
Found at i:36033330 original size:90 final size:91
Alignment explanation
Indices: 36033176--36033355 Score: 344
Period size: 90 Copynumber: 2.0 Consensus size: 91
36033166 CTTAGTGAAG
*
36033176 ATGAACCGAAAAGGTTGTAACAGCACCATTTTTCAGTGAAATCAGAACAGTGGTTTAGGGACCAC
1 ATGAACCGAAAAGGTTGTAACAGCACCATTTTTCAGTGAAATCAGAACAGTGATTTAGGGACCAC
36033241 AAATTCGATCCAAAAATAAAATTTAA
66 AAATTCGATCCAAAAATAAAATTTAA
36033267 ATGAACCG-AAAGGTTGTAACAGCACCATTTTTCAGTGAAATCAGAACAGTGATTTAGGGACCAC
1 ATGAACCGAAAAGGTTGTAACAGCACCATTTTTCAGTGAAATCAGAACAGTGATTTAGGGACCAC
36033331 AAATTCGATCCAAAAATAAAATTTA
66 AAATTCGATCCAAAAATAAAATTTA
36033356 CTTTTATTTT
Statistics
Matches: 88, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
90 80 0.91
91 8 0.09
ACGTcount: A:0.42, C:0.17, G:0.17, T:0.24
Consensus pattern (91 bp):
ATGAACCGAAAAGGTTGTAACAGCACCATTTTTCAGTGAAATCAGAACAGTGATTTAGGGACCAC
AAATTCGATCCAAAAATAAAATTTAA
Found at i:36037699 original size:55 final size:56
Alignment explanation
Indices: 36037539--36037713 Score: 325
Period size: 56 Copynumber: 3.1 Consensus size: 56
36037529 ACAAGGGATG
* *
36037539 ATGGGAAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
36037595 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
36037651 ATGGGCAAAACATGTCATG-AACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
36037706 ATGGGCAA
1 ATGGGCAA
36037714 TAAACTAATA
Statistics
Matches: 117, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
55 44 0.38
56 73 0.62
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
Found at i:36039084 original size:40 final size:40
Alignment explanation
Indices: 36038846--36039070 Score: 296
Period size: 40 Copynumber: 5.7 Consensus size: 40
36038836 TCGAATGATG
* * * *
36038846 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
36038886 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
36038926 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
36038965 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
36039005 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
36039046 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
36039071 AACGAGTAGC
Statistics
Matches: 165, Mismatches: 15, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
39 34 0.21
40 121 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:36039092 original size:119 final size:119
Alignment explanation
Indices: 36038846--36039103 Score: 292
Period size: 119 Copynumber: 2.2 Consensus size: 119
36038836 TCGAATGATG
* *
36038846 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* **
36038911 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
* * * **
36038965 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
36039028 TTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
64 TTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAAA
* *
36039085 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
36039104 TACGTGATTT
Statistics
Matches: 118, Mismatches: 16, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
118 3 0.03
119 84 0.71
120 31 0.26
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
Found at i:36045567 original size:39 final size:40
Alignment explanation
Indices: 36045513--36045591 Score: 142
Period size: 39 Copynumber: 2.0 Consensus size: 40
36045503 ACTAGTGGCC
36045513 GATGGGCAAAACATGTCATG-ACATGTTGTGTTAATGGAT
1 GATGGGCAAAACATGTCATGAACATGTTGTGTTAATGGAT
36045552 GATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGA
1 GATGGGCAAAACATGTCATG-AACATGTTGTGTTAATGGA
36045592 AAATAAAATA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
39 20 0.53
41 18 0.47
ACGTcount: A:0.33, C:0.10, G:0.28, T:0.29
Consensus pattern (40 bp):
GATGGGCAAAACATGTCATGAACATGTTGTGTTAATGGAT
Found at i:36045616 original size:55 final size:56
Alignment explanation
Indices: 36045553--36045671 Score: 231
Period size: 55 Copynumber: 2.1 Consensus size: 56
36045543 TTAATGGATG
36045553 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAA-AATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
36045608 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
36045664 ATGGGCAA
1 ATGGGCAA
36045672 TAAACTAATA
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
55 40 0.63
56 23 0.37
ACGTcount: A:0.45, C:0.09, G:0.24, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
Found at i:36046883 original size:40 final size:40
Alignment explanation
Indices: 36046799--36047023 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
36046789 TCGAATGATG
* * * *
36046799 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
36046839 TCCGGACTAAGAT-CTGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
36046879 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
36046918 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
36046958 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
36046999 -CCAGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
36047024 AACGAGTAGC
Statistics
Matches: 162, Mismatches: 18, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
39 33 0.20
40 119 0.73
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:36047030 original size:80 final size:79
Alignment explanation
Indices: 36046854--36047056 Score: 250
Period size: 80 Copynumber: 2.6 Consensus size: 79
36046844 ACTAAGATCT
* *
36046854 GAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 GAAGGCATTTGTGCGAG-TACTAAATCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAA
* *
36046918 TCCGGGTTAAGTCCC
65 TCCAGGCTAAGTCCC
*
36046933 GAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 GAAGGCATTTGTGCGAG-TACTAAATCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTA-A
*
36046998 A-CCAGGCTATGTCCC
64 ATCCAGGCTAAGTCCC
** * * *
36047013 GAAGGCATTTGAACGAGTAGCTATATCC-GGTTAAATTCCGAAGG
1 GAAGGCATTTGTGCGAGTA-CTAAATCCGGGTTAAGTCCCGAAGG
36047057 TACGTGATTT
Statistics
Matches: 109, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
79 49 0.45
80 58 0.53
81 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.26
Consensus pattern (79 bp):
GAAGGCATTTGTGCGAGTACTAAATCCGGGTTAAGTCCCGAAGGCATTGGTGCGAGTTACTAAAT
CCAGGCTAAGTCCC
Found at i:36047045 original size:119 final size:119
Alignment explanation
Indices: 36046799--36047056 Score: 274
Period size: 119 Copynumber: 2.2 Consensus size: 119
36046789 TCGAATGATG
* * *
36046799 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCTGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
* * **
36046864 GTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
66 GTGCGAGATACTAATACCAGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
* * * **
36046918 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* * * *
36046981 TTGTGCGAGTTACT-ATAACCAGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATA
64 TTGTGCGAGATACTAAT-ACCAGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-CTAAA
* *
36047038 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
36047057 TACGTGATTT
Statistics
Matches: 116, Mismatches: 18, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
118 3 0.03
119 82 0.71
120 31 0.27
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAATACCAGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAAA
Found at i:36049506 original size:38 final size:38
Alignment explanation
Indices: 36049455--36049551 Score: 113
Period size: 40 Copynumber: 2.5 Consensus size: 38
36049445 ACCAACTTCG
* * **
36049455 TCCAACCCGACACACCATGTGAGGATAAAATTGACCCA
1 TCCAACCCTACACACCATATGAGGATAAAATCAACCCA
* **
36049493 TCCATCCCTACACAGTAAATATGAGGATAAAATCAACCCA
1 TCCAACCCTACACA--CCATATGAGGATAAAATCAACCCA
36049533 TCCAACCCTACACACCATA
1 TCCAACCCTACACACCATA
36049552 AAGTACCGTA
Statistics
Matches: 47, Mismatches: 10, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
38 15 0.32
40 32 0.68
ACGTcount: A:0.39, C:0.33, G:0.10, T:0.18
Consensus pattern (38 bp):
TCCAACCCTACACACCATATGAGGATAAAATCAACCCA
Found at i:36053079 original size:16 final size:16
Alignment explanation
Indices: 36053027--36053086 Score: 68
Period size: 16 Copynumber: 3.7 Consensus size: 16
36053017 CTGTTTTGAT
*
36053027 TATTTTTATTTTGAAA
1 TATTTTTATTTTTAAA
*
36053043 T-TTTTTAGTTAATTAAA
1 TATTTTTA-TT-TTTAAA
*
36053060 TATTTTTATTTTTTAA
1 TATTTTTATTTTTAAA
36053076 TATTTTTATTT
1 TATTTTTATTT
36053087 ACCTTGTTGA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
15 6 0.16
16 18 0.49
17 7 0.19
18 6 0.16
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.68
Consensus pattern (16 bp):
TATTTTTATTTTTAAA
Found at i:36063514 original size:24 final size:24
Alignment explanation
Indices: 36063464--36063514 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
36063454 GGTTAAGATC
* * *
36063464 TTTTAGAGTTTAAGATTTTATGTT
1 TTTTAAAGTTTAAGATTTTAGGAT
36063488 TTTTAAAGTTT-AGAGTTTTAGGAT
1 TTTTAAAGTTTAAGA-TTTTAGGAT
36063512 TTT
1 TTT
36063515 AGGGTTTTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 3 0.13
24 20 0.87
ACGTcount: A:0.25, C:0.00, G:0.18, T:0.57
Consensus pattern (24 bp):
TTTTAAAGTTTAAGATTTTAGGAT
Found at i:36063978 original size:49 final size:46
Alignment explanation
Indices: 36063878--36063984 Score: 133
Period size: 49 Copynumber: 2.3 Consensus size: 46
36063868 TAATATAATG
**
36063878 ATTTTGCCTTTTAACTTAATGGGTAAACATTTATCAAAACGAAGTA
1 ATTTTGCCTTTTAACTTAAACGGTAAACATTTATCAAAACGAAGTA
* * *
36063924 ATTTTGCCTTTTAACTTTAGAAACGGTAAACATTTATTAAAATGACGTA
1 ATTTTGCCTTTTAAC-TT--AAACGGTAAACATTTATCAAAACGAAGTA
*
36063973 GTTTTGCCTTTT
1 ATTTTGCCTTTT
36063985 CTTATTTAGA
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
46 15 0.29
47 2 0.04
49 35 0.67
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (46 bp):
ATTTTGCCTTTTAACTTAAACGGTAAACATTTATCAAAACGAAGTA
Found at i:36068956 original size:57 final size:57
Alignment explanation
Indices: 36068887--36069077 Score: 240
Period size: 57 Copynumber: 3.4 Consensus size: 57
36068877 TAAATCACCA
* * * * *
36068887 GGAAAGGTAAGCCTCTGTGAAGAACATGTTAAAGGAGAACCTTTGTGGAAAAACTTT
1 GGAAAGGTAAGCCTTTGTGGAGAACATGTTAAAGGACAACCTTTATGGCAAAACTTT
* * * * *
36068944 GGAAAGGTAAGCCTTTATGGCGAA-ATTGTTAAAGGACAGCCTTTATGGCACAACTCT
1 GGAAAGGTAAGCCTTTGTGGAGAACA-TGTTAAAGGACAACCTTTATGGCAAAACTTT
* * * *
36069001 AGAAAGGTAAGCCTTTGTGGTGAACTTGTTAAAGGACAACCTTTATGCCAAAACTTT
1 GGAAAGGTAAGCCTTTGTGGAGAACATGTTAAAGGACAACCTTTATGGCAAAACTTT
36069058 GGAAAGGTAAGCCTTTGTGG
1 GGAAAGGTAAGCCTTTGTGG
36069078 CATCTCTGTA
Statistics
Matches: 113, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
56 1 0.01
57 112 0.99
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.27
Consensus pattern (57 bp):
GGAAAGGTAAGCCTTTGTGGAGAACATGTTAAAGGACAACCTTTATGGCAAAACTTT
Found at i:36068958 original size:29 final size:29
Alignment explanation
Indices: 36068926--36069079 Score: 104
Period size: 29 Copynumber: 5.4 Consensus size: 29
36068916 TAAAGGAGAA
* *
36068926 CCTTTGTGGAAAAACTTTGGAAAGGTAAG
1 CCTTTATGGCAAAACTTTGGAAAGGTAAG
* *
36068955 CCTTTATGGCGAAA--TTGTTAAAGG-ACAG
1 CCTTTATGGCAAAACTTTG-GAAAGGTA-AG
* * *
36068983 CCTTTATGGCACAACTCTAGAAAGGTAAG
1 CCTTTATGGCAAAACTTTGGAAAGGTAAG
* ** * *
36069012 CCTTTGTGG-TGAAC-TTGTTAAAGG-ACAA
1 CCTTTATGGCAAAACTTTG-GAAAGGTA-AG
*
36069040 CCTTTATGCCAAAACTTTGGAAAGGTAAG
1 CCTTTATGGCAAAACTTTGGAAAGGTAAG
*
36069069 CCTTTGTGGCA
1 CCTTTATGGCA
36069080 TCTCTGTAAA
Statistics
Matches: 91, Mismatches: 24, Indels: 20
0.67 0.18 0.15
Matches are distributed among these distances:
27 6 0.07
28 35 0.38
29 44 0.48
30 6 0.07
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.29
Consensus pattern (29 bp):
CCTTTATGGCAAAACTTTGGAAAGGTAAG
Found at i:36068984 original size:28 final size:28
Alignment explanation
Indices: 36068953--36069047 Score: 86
Period size: 28 Copynumber: 3.4 Consensus size: 28
36068943 TGGAAAGGTA
36068953 AGCCTTTATGGCGAAATTGTTAAAGGAC
1 AGCCTTTATGGCGAAATTGTTAAAGGAC
* * *
36068981 AGCCTTTATGGC-ACAACTCTAGAAAGGTA-
1 AGCCTTTATGGCGA-AATTGT-TAAAGG-AC
* * *
36069010 AGCCTTTGTGGTGAACTTGTTAAAGGAC
1 AGCCTTTATGGCGAAATTGTTAAAGGAC
*
36069038 AACCTTTATG
1 AGCCTTTATG
36069048 CCAAAACTTT
Statistics
Matches: 51, Mismatches: 11, Indels: 10
0.71 0.15 0.14
Matches are distributed among these distances:
27 2 0.04
28 29 0.57
29 18 0.35
30 2 0.04
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (28 bp):
AGCCTTTATGGCGAAATTGTTAAAGGAC
Found at i:36076695 original size:27 final size:28
Alignment explanation
Indices: 36076642--36076695 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 28
36076632 TAAAATTTTA
*
36076642 AAAAAAATAAAATATTATAAAGGTCATG
1 AAAAAAATAAAATATTATAAAAGTCATG
* * *
36076670 AAAAATATAAAA-ATTTTAAAATTCAT
1 AAAAAAATAAAATATTATAAAAGTCAT
36076696 TATCAAAATA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
27 11 0.50
28 11 0.50
ACGTcount: A:0.61, C:0.04, G:0.06, T:0.30
Consensus pattern (28 bp):
AAAAAAATAAAATATTATAAAAGTCATG
Found at i:36080448 original size:146 final size:151
Alignment explanation
Indices: 36080161--36080460 Score: 493
Period size: 146 Copynumber: 2.0 Consensus size: 151
36080151 GAATCATCCC
* *
36080161 CATTTTGCAGAATATAAGATAAAATAAAAACTATACAACACAGAATGCTATCAAAGGTATCAATG
1 CATTCTGCAGAATATAAGATAAAATAAAAACTATACAACACAGAATGCTACCAAAGGTATCAATG
36080226 TTTGCTACCATATAAAATGACAGTTGATGAAGGAAGCAAACTTTTTCTTTGAAGAACGTAAAATT
66 -TTGCTACCATAT--AATGACAGTTGATGAAGGAAGCAAACTTTTTCTTTGAAGAACGTAAAATT
36080291 CAAGCCTAAAATCAGTGAAATCAA
128 CAAGCCTAAAATCAGTGAAATCAA
* *
36080315 CATTCTGCAGAATATAAGATAAAATAAAAACTATACACCATAGAATGCTACCAAAGGTATCAATG
1 CATTCTGCAGAATATAAGATAAAATAAAAACTATACAACACAGAATGCTACCAAAGGTATCAATG
*
36080380 -T-CT-GC-TAT-ATGACAGTTGATGAAGGAAGCAAACTTTTTCTTTGAAGAACGTAAAATTCAA
66 TTGCTACCATATAATGACAGTTGATGAAGGAAGCAAACTTTTTCTTTGAAGAACGTAAAATTCAA
36080440 GCCTAAAATCAGTGAAATCAA
131 GCCTAAAATCAGTGAAATCAA
36080461 TCTATCTTAC
Statistics
Matches: 141, Mismatches: 5, Indels: 8
0.92 0.03 0.05
Matches are distributed among these distances:
146 73 0.52
149 3 0.02
150 1 0.01
151 2 0.01
152 1 0.01
154 61 0.43
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.26
Consensus pattern (151 bp):
CATTCTGCAGAATATAAGATAAAATAAAAACTATACAACACAGAATGCTACCAAAGGTATCAATG
TTGCTACCATATAATGACAGTTGATGAAGGAAGCAAACTTTTTCTTTGAAGAACGTAAAATTCAA
GCCTAAAATCAGTGAAATCAA
Found at i:36081358 original size:28 final size:26
Alignment explanation
Indices: 36081326--36081380 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 26
36081316 GCGTTTTTAA
* *
36081326 TTTTAATTTTTTTCATTTCTAACATTTT
1 TTTTAAATTTTTTC-TTTC-AAAATTTT
36081354 TTTTAAATTTTTTCTTTCAAAATTTT
1 TTTTAAATTTTTTCTTTCAAAATTTT
36081380 T
1 T
36081381 GTGCTGAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 8 0.32
27 4 0.16
28 13 0.52
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.67
Consensus pattern (26 bp):
TTTTAAATTTTTTCTTTCAAAATTTT
Found at i:36081491 original size:16 final size:15
Alignment explanation
Indices: 36081472--36081514 Score: 68
Period size: 15 Copynumber: 2.8 Consensus size: 15
36081462 AATATTAAAA
*
36081472 TTTTAAGTTTTTAATT
1 TTTTAATTTTTTAA-T
36081488 TTTTAATTTTTTAAT
1 TTTTAATTTTTTAAT
36081503 TTTTAATTTTTT
1 TTTTAATTTTTT
36081515 GAAGATTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
15 13 0.50
16 13 0.50
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (15 bp):
TTTTAATTTTTTAAT
Found at i:36081498 original size:9 final size:8
Alignment explanation
Indices: 36081472--36081538 Score: 73
Period size: 8 Copynumber: 8.0 Consensus size: 8
36081462 AATATTAAAA
*
36081472 TTTTAAGT
1 TTTTAATT
36081480 TTTTAATT
1 TTTTAATT
36081488 TTTTAATT
1 TTTTAATT
36081496 TTTTAA-T
1 TTTTAATT
36081503 TTTTAATT
1 TTTTAATT
36081511 TTTTGAAGATT
1 TTTT--A-ATT
36081522 TTTATAATT
1 TTT-TAATT
*
36081531 TTTAAATT
1 TTTTAATT
36081539 AACATATAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
7 7 0.13
8 30 0.58
9 6 0.12
10 2 0.04
11 6 0.12
12 1 0.02
ACGTcount: A:0.28, C:0.00, G:0.04, T:0.67
Consensus pattern (8 bp):
TTTTAATT
Found at i:36081745 original size:28 final size:28
Alignment explanation
Indices: 36081688--36081755 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
36081678 ATTTTTAGAT
* * *
36081688 TTTAGGGTTTATGATTTATGGGTTATAG
1 TTTAGGGTTTAGGATTTATGGATTACAG
*
36081716 TTTAGGGTTTGGGATTTAT-GATCTACAG
1 TTTAGGGTTTAGGATTTATGGAT-TACAG
36081744 TTTATGGGTTTA
1 TTTA-GGGTTTA
36081756 AAAATTAGTT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
27 2 0.06
28 25 0.76
29 6 0.18
ACGTcount: A:0.21, C:0.03, G:0.28, T:0.49
Consensus pattern (28 bp):
TTTAGGGTTTAGGATTTATGGATTACAG
Found at i:36081816 original size:21 final size:21
Alignment explanation
Indices: 36081777--36081816 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
36081767 TAGGGCTTGG
* *
36081777 GGTTTAAGGATTGGGGTTTAT
1 GGTTTAAGGATTAGAGTTTAT
*
36081798 GGTTTAAGGGTTAGAGTTT
1 GGTTTAAGGATTAGAGTTT
36081817 TAAGGGTTTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.38, T:0.42
Consensus pattern (21 bp):
GGTTTAAGGATTAGAGTTTAT
Found at i:36081842 original size:22 final size:22
Alignment explanation
Indices: 36081815--36081909 Score: 83
Period size: 21 Copynumber: 4.4 Consensus size: 22
36081805 GGGTTAGAGT
36081815 TTTAAGGGTTTATGATTTGAGA
1 TTTAAGGGTTTATGATTTGAGA
* * *
36081837 TTTAA-GGTTTAGGGTGTTGGGA
1 TTTAAGGGTTTATGAT-TTGAGA
* *
36081859 -TTAA-GGTTTATCG-TTTATAGT
1 TTTAAGGGTTTAT-GATTT-GAGA
36081880 TTTAAGGGTTTATGATTTGAGA
1 TTTAAGGGTTTATGATTTGAGA
36081902 TTT-AGGGT
1 TTTAAGGGT
36081910 CTGGTGCTTA
Statistics
Matches: 58, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
20 2 0.03
21 25 0.43
22 21 0.36
23 10 0.17
ACGTcount: A:0.23, C:0.01, G:0.29, T:0.46
Consensus pattern (22 bp):
TTTAAGGGTTTATGATTTGAGA
Found at i:36081968 original size:66 final size:66
Alignment explanation
Indices: 36081871--36081995 Score: 214
Period size: 66 Copynumber: 1.9 Consensus size: 66
36081861 AAGGTTTATC
* *
36081871 GTTTATAGTTTTAAGGGTTTATGATTTGAGATTTAGGGTCTGGTGCTTAAAGAGTTATTAATTAG
1 GTTTATAGTTTTAAGGGTTTATGATTAGAGATTTAGGGTCTGGAGCTTAAAGAGTTATTAATTAG
36081936 T
66 T
* *
36081937 GTTTATAGTTTTAAGGGTTTATGATTAGAGATTTAGGGTCTGGAGGTTAAAGGGTTATT
1 GTTTATAGTTTTAAGGGTTTATGATTAGAGATTTAGGGTCTGGAGCTTAAAGAGTTATT
36081996 GATTTAAGAG
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
66 55 1.00
ACGTcount: A:0.26, C:0.02, G:0.28, T:0.44
Consensus pattern (66 bp):
GTTTATAGTTTTAAGGGTTTATGATTAGAGATTTAGGGTCTGGAGCTTAAAGAGTTATTAATTAG
T
Found at i:36082023 original size:66 final size:66
Alignment explanation
Indices: 36081881--36082009 Score: 159
Period size: 66 Copynumber: 1.9 Consensus size: 66
36081871 GTTTATAGTT
* * * * *
36081881 TTAAGGGTTTATGATTTGAGATTTAGGGTCTGGTGCTTAAAGAGTTATTAATTAGTGTTTATAGT
1 TTAAGGGTTTATGATTAGAGATTTAGGGTCTGGAGCTTAAAGAGTTATTAATTAGAGGTTATAGG
*
36081946 T
66 G
* * *
36081947 TTAAGGGTTTATGATTAGAGATTTAGGGTCTGGAGGTTAAAGGGTTATTGATTTAAGAGGTTA
1 TTAAGGGTTTATGATTAGAGATTTAGGGTCTGGAGCTTAAAGAGTTATT-AATT-AGAGGTTA
36082010 GGGGTTAGTG
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
66 45 0.83
67 3 0.06
68 6 0.11
ACGTcount: A:0.27, C:0.02, G:0.29, T:0.42
Consensus pattern (66 bp):
TTAAGGGTTTATGATTAGAGATTTAGGGTCTGGAGCTTAAAGAGTTATTAATTAGAGGTTATAGG
G
Found at i:36082027 original size:23 final size:24
Alignment explanation
Indices: 36081979--36082024 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
36081969 TTAGGGTCTG
*
36081979 GAGGTTAAAGGGTTATTGATTTAA
1 GAGGTTAAAGGGTTAGTGATTTAA
*
36082003 GAGGTT-AGGGGTTAGTG-TTTAA
1 GAGGTTAAAGGGTTAGTGATTTAA
36082025 AGAAAGCCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 5 0.25
23 9 0.45
24 6 0.30
ACGTcount: A:0.28, C:0.00, G:0.35, T:0.37
Consensus pattern (24 bp):
GAGGTTAAAGGGTTAGTGATTTAA
Found at i:36082741 original size:41 final size:40
Alignment explanation
Indices: 36082657--36082951 Score: 351
Period size: 41 Copynumber: 7.2 Consensus size: 40
36082647 TGCTTAATCT
* *
36082657 TTTAGTGGCG-TTT-TTAAAAAAGCGCCGCTAATGCTCGACC
1 TTTAGCGGCGCTTTCTT-AAAAA-CGCCGCTAATGCTCGATC
* *
36082697 TTTAGCGACGCTTTCTTAAAAACACCGCTAATGCTCAGATC
1 TTTAGCGGCGCTTTCTTAAAAACGCCGCTAATGCTC-GATC
* * ** * *
36082738 TTTAGCGGTGATTTCTTAAAAGTGCCTCTAGTGCTCGATC
1 TTTAGCGGCGCTTTCTTAAAAACGCCGCTAATGCTCGATC
*
36082778 TTTAGCGGCGCTTTCTTAAAAACGCCGCTTATGCTCAGATC
1 TTTAGCGGCGCTTTCTTAAAAACGCCGCTAATGCTC-GATC
* *
36082819 TTTAGCGGCGCTTTCTTAAAAAAGTGCCGCTAGTGCTCGATC
1 TTTAGCGGCGCTTTCTT-AAAAA-CGCCGCTAATGCTCGATC
* *
36082861 TTTAGTGGCGCTTTCTTAAAAACGCCGCTAATGCTCACATC
1 TTTAGCGGCGCTTTCTTAAAAACGCCGCTAATGCTC-GATC
* * *
36082902 TTTAGTGGCGCTTTTTTAAAAACGCCGCTAATACTCGATC
1 TTTAGCGGCGCTTTCTTAAAAACGCCGCTAATGCTCGATC
36082942 TTTAGCGGCG
1 TTTAGCGGCG
36082952 TTTTAAAAAA
Statistics
Matches: 218, Mismatches: 30, Indels: 14
0.83 0.11 0.05
Matches are distributed among these distances:
40 78 0.36
41 102 0.47
42 27 0.12
43 11 0.05
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.32
Consensus pattern (40 bp):
TTTAGCGGCGCTTTCTTAAAAACGCCGCTAATGCTCGATC
Found at i:36082773 original size:81 final size:82
Alignment explanation
Indices: 36082657--36082982 Score: 383
Period size: 81 Copynumber: 4.0 Consensus size: 82
36082647 TGCTTAATCT
* * * * *
36082657 TTTAGTGGCG-TTT-TTAAAAAAGCGCCGCTAATGCTCGACCTTTAGCGACGCTTTCTTAAAAAC
1 TTTAGCGGCGATTTCTT-AAAAAGTGCCGCTAGTGCTCGATCTTTAGCGGCGCTTTCTTAAAAAC
*
36082720 ACCGCTAATGCTCAGATC
65 GCCGCTAATGCTCAGATC
* *
36082738 TTTAGCGGTGATTTCTT-AAAAGTGCCTCTAGTGCTCGATCTTTAGCGGCGCTTTCTTAAAAACG
1 TTTAGCGGCGATTTCTTAAAAAGTGCCGCTAGTGCTCGATCTTTAGCGGCGCTTTCTTAAAAACG
*
36082802 CCGCTTATGCTCAGATC
66 CCGCTAATGCTCAGATC
* *
36082819 TTTAGCGGCGCTTTCTTAAAAAAGTGCCGCTAGTGCTCGATCTTTAGTGGCGCTTTCTTAAAAAC
1 TTTAGCGGCGATTTCTT-AAAAAGTGCCGCTAGTGCTCGATCTTTAGCGGCGCTTTCTTAAAAAC
*
36082884 GCCGCTAATGCTCACATC
65 GCCGCTAATGCTCAGATC
* * * * * * * *** *
36082902 TTTAGTGGCGCTTTTTTAAAAA-CGCCGCTAATACTCGATCTTTAGCGGCGTTTTAAAAAAAAGG
1 TTTAGCGGCGATTTCTTAAAAAGTGCCGCTAGTGCTCGATCTTTAGCGGCGCTTTCTTAAAAACG
*
36082966 CCGCTAATACTCA-ATC
66 CCGCTAATGCTCAGATC
36082982 T
1 T
36082983 ATTCGATTTT
Statistics
Matches: 214, Mismatches: 27, Indels: 9
0.86 0.11 0.04
Matches are distributed among these distances:
80 4 0.02
81 125 0.58
82 8 0.04
83 77 0.36
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (82 bp):
TTTAGCGGCGATTTCTTAAAAAGTGCCGCTAGTGCTCGATCTTTAGCGGCGCTTTCTTAAAAACG
CCGCTAATGCTCAGATC
Found at i:36082941 original size:164 final size:162
Alignment explanation
Indices: 36082657--36082951 Score: 419
Period size: 164 Copynumber: 1.8 Consensus size: 162
36082647 TGCTTAATCT
*
36082657 TTTAGTGGCGTTTTTAAAAAAGCGCCGCTAATGCTCGACCTTTAGCGACGCTTTCTTAAAAACAC
1 TTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCGACCTTTAGCGACGCTTTCTTAAAAACAC
* * ** * * *
36082722 CGCTAATGCTCAGATCTTTAGCGGTGATTTCTTAAAAGTGCCTCTAGTGCTCGATCTTTAGCGGC
66 CGCTAATGCTCACATCTTTAGCGGCGATTTCTTAAAAACGCCGCTAATACTCGATCTTTAGCGGC
36082787 GCTTTCTTAAAAACGCCGCTTATGCTCAGATC
131 GCTTTCTTAAAAACGCCGCTTATGCTCAGATC
* * * * *
36082819 TTTAGCGGCGCTTTCTTAAAAAAGTGCCGCTAGTGCTCGATCTTTAGTGGCGCTTTCTTAAAAAC
1 TTTAGCGGCG-TTT-TTAAAAAAGCGCCGCTAATGCTCGACCTTTAGCGACGCTTTCTTAAAAAC
* * * *
36082884 GCCGCTAATGCTCACATCTTTAGTGGCGCTTTTTTAAAAACGCCGCTAATACTCGATCTTTAGCG
64 ACCGCTAATGCTCACATCTTTAGCGGCGATTTCTTAAAAACGCCGCTAATACTCGATCTTTAGCG
36082949 GCG
129 GCG
36082952 TTTTAAAAAA
Statistics
Matches: 114, Mismatches: 17, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
162 9 0.08
163 3 0.03
164 102 0.89
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.32
Consensus pattern (162 bp):
TTTAGCGGCGTTTTTAAAAAAGCGCCGCTAATGCTCGACCTTTAGCGACGCTTTCTTAAAAACAC
CGCTAATGCTCACATCTTTAGCGGCGATTTCTTAAAAACGCCGCTAATACTCGATCTTTAGCGGC
GCTTTCTTAAAAACGCCGCTTATGCTCAGATC
Found at i:36082974 original size:40 final size:39
Alignment explanation
Indices: 36082657--36082982 Score: 268
Period size: 40 Copynumber: 8.0 Consensus size: 39
36082647 TGCTTAATCT
* *
36082657 TTTAGTGGCGTTTTTAAAAAAGCGCCGCTAATGCTCGACC
1 TTTAGCGGCGTTTTTAAAAAAG-GCCGCTAATGCTCGATC
*
36082697 TTTAGCGACGCTTTCTTAAAAACA--CCGCTAATGCTCAGATC
1 TTTAGCGGCG-TTT-TTAAAAA-AGGCCGCTAATGCTC-GATC
* * *
36082738 TTTAGCGGTGATTTCTT--AAAAGTGCCTCTAGTGCTCGATC
1 TTTAGCGGCG-TTT-TTAAAAAAG-GCCGCTAATGCTCGATC
* *
36082778 TTTAGCGGCGCTTTCTT-AAAAACGCCGCTTATGCTCAGATC
1 TTTAGCGGCG-TTT-TTAAAAAAGGCCGCTAATGCTC-GATC
*
36082819 TTTAGCGGCGCTTTCTTAAAAAAGTGCCGCTAGTGCTCGATC
1 TTTAGCGGCG-TTT-TTAAAAAAG-GCCGCTAATGCTCGATC
* * *
36082861 TTTAGTGGCGCTTTCTT-AAAAACGCCGCTAATGCTCACATC
1 TTTAGCGGCG-TTT-TTAAAAAAGGCCGCTAATGCTC-GATC
* * * *
36082902 TTTAGTGGCGCTTTTTTAAAAACGCCGCTAATACTCGATC
1 TTTAGCGGCG-TTTTTAAAAAAGGCCGCTAATGCTCGATC
* * *
36082942 TTTAGCGGCGTTTTAAAAAAAAGGCCGCTAATACTCAATC
1 TTTAGCGGCGTTTT-TAAAAAAGGCCGCTAATGCTCGATC
36082982 T
1 T
36082983 ATTCGATTTT
Statistics
Matches: 244, Mismatches: 28, Indels: 28
0.81 0.09 0.09
Matches are distributed among these distances:
38 1 0.00
39 7 0.03
40 97 0.40
41 95 0.39
42 32 0.13
43 12 0.05
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (39 bp):
TTTAGCGGCGTTTTTAAAAAAGGCCGCTAATGCTCGATC
Found at i:36084760 original size:22 final size:22
Alignment explanation
Indices: 36084718--36084761 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
36084708 AATTATTTAC
* *
36084718 GACTAAAGTATAGCGTTCATAT
1 GACTAAAGAATAGCGTGCATAT
36084740 GACTAAATGAATAGC-TGCATAT
1 GACTAAA-GAATAGCGTGCATAT
36084762 ACGCATATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.30
Consensus pattern (22 bp):
GACTAAAGAATAGCGTGCATAT
Found at i:36085062 original size:40 final size:40
Alignment explanation
Indices: 36084988--36085209 Score: 349
Period size: 40 Copynumber: 5.6 Consensus size: 40
36084978 AACCCAAGTA
* *
36084988 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAA-TAGCACAAATG
* *
36085027 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
36085067 CCTTTGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
36085107 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
* *
36085147 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
36085187 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
36085210 CATTCGAATA
Statistics
Matches: 169, Mismatches: 12, Indels: 3
0.92 0.07 0.02
Matches are distributed among these distances:
39 12 0.07
40 154 0.91
41 3 0.02
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAATG
Found at i:36091404 original size:22 final size:22
Alignment explanation
Indices: 36091364--36091405 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
36091354 AAGAACTAAT
* **
36091364 AAAGAAATCTAAACCCTAAAAA
1 AAAGAAAACTAAAAACTAAAAA
36091386 AAAGAAAACTAAAAACTAAA
1 AAAGAAAACTAAAAACTAAA
36091406 TTATAAGGAA
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:0.69, C:0.14, G:0.05, T:0.12
Consensus pattern (22 bp):
AAAGAAAACTAAAAACTAAAAA
Found at i:36094317 original size:30 final size:30
Alignment explanation
Indices: 36094283--36094343 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
36094273 TCCTTAACTC
36094283 AAACTTTGGCAAAATTACAATTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
* * * *
36094313 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGCAAAATTACAATTTTGCCCCT
36094343 A
1 A
36094344 GGCTCTAGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACAATTTTGCCCCT
Found at i:36098740 original size:43 final size:42
Alignment explanation
Indices: 36098647--36098752 Score: 133
Period size: 43 Copynumber: 2.5 Consensus size: 42
36098637 GAAGTCTGAA
* * * *
36098647 CTCGTTGAGTGGTCCGGGTTCGTGAGGTATGTAGCATCCGAT
1 CTCGTTGAGAGGTCCGAGTTCGTGAGGTATGAAGCATCCGAG
* *
36098689 CTCATTGAGAGGTCCGAGTTCGTTATGG-ATGCAAGCATCCGAG
1 CTCGTTGAGAGGTCCGAGTTCGTGA-GGTATG-AAGCATCCGAG
36098732 CTCGTTGAGAGGTCCGAGTTC
1 CTCGTTGAGAGGTCCGAGTTC
36098753 ATGGTGGATG
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
42 24 0.44
43 31 0.56
ACGTcount: A:0.18, C:0.21, G:0.33, T:0.28
Consensus pattern (42 bp):
CTCGTTGAGAGGTCCGAGTTCGTGAGGTATGAAGCATCCGAG
Found at i:36098761 original size:43 final size:43
Alignment explanation
Indices: 36098679--36098763 Score: 125
Period size: 43 Copynumber: 2.0 Consensus size: 43
36098669 TGAGGTATGT
* * *
36098679 AGCATCCGATCTCATTGAGAGGTCCGAGTTCGTTATGGATGCA
1 AGCATCCGAGCTCATTGAGAGGTCCGAGTTCATGATGGATGCA
* *
36098722 AGCATCCGAGCTCGTTGAGAGGTCCGAGTTCATGGTGGATGC
1 AGCATCCGAGCTCATTGAGAGGTCCGAGTTCATGATGGATGC
36098764 GATTCATGTA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.21, C:0.21, G:0.32, T:0.26
Consensus pattern (43 bp):
AGCATCCGAGCTCATTGAGAGGTCCGAGTTCATGATGGATGCA
Found at i:36102216 original size:27 final size:28
Alignment explanation
Indices: 36102148--36102216 Score: 70
Period size: 28 Copynumber: 2.5 Consensus size: 28
36102138 GACTGTGGAA
*
36102148 TGGGTTTTTGAAATTTTTTTCTCAAAAT
1 TGGGTTTTTGAAAGTTTTTTCTCAAAAT
* ** *
36102176 TGGGTATTCAAAAGTTTTTTCT-AAACCT
1 TGGGTTTTTGAAAGTTTTTTCTCAAA-AT
36102204 T-GGTTTTTGAAAG
1 TGGGTTTTTGAAAG
36102217 AGATGATTTT
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
27 12 0.38
28 20 0.62
ACGTcount: A:0.26, C:0.09, G:0.17, T:0.48
Consensus pattern (28 bp):
TGGGTTTTTGAAAGTTTTTTCTCAAAAT
Found at i:36104586 original size:40 final size:39
Alignment explanation
Indices: 36104542--36104717 Score: 219
Period size: 39 Copynumber: 4.4 Consensus size: 39
36104532 CATATCCAGA
* *
36104542 CTAAGATCCAAAGGCATTTGTGCGAGTTACTAATTCCGGG
1 CTAAG-TCCGAAGGCATTGGTGCGAGTTACTAATTCCGGG
*
36104582 CTAAGCCCGAAGGCATTGGTGCGAGTTACTAATTCCGGG
1 CTAAGTCCGAAGGCATTGGTGCGAGTTACTAATTCCGGG
* *
36104621 CTAAGGCCGAAGGCATTGGTGCGAGTTACTAAATCCGGG
1 CTAAGTCCGAAGGCATTGGTGCGAGTTACTAATTCCGGG
* * * *
36104660 TTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACTGGG
1 CTAAGT-CCGAAGGCATTGGTGCGAGTTACTAAT-TCCGGG
*
36104700 CTATGTCCCGAAGGCATT
1 CTAAGT-CCGAAGGCATT
36104718 TGAACGAGTA
Statistics
Matches: 121, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
39 73 0.60
40 48 0.40
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CTAAGTCCGAAGGCATTGGTGCGAGTTACTAATTCCGGG
Found at i:36104726 original size:40 final size:40
Alignment explanation
Indices: 36104496--36104719 Score: 251
Period size: 40 Copynumber: 5.7 Consensus size: 40
36104486 TCGAATGATG
* * * *
36104496 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
36104536 TCCAGACTAAGAT-CCAAAGGCATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
36104576 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
36104615 TCCGGGCTAAG-GCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
36104654 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
* *
36104695 -CTGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
36104720 AACGAGTAGC
Statistics
Matches: 159, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
39 72 0.45
40 77 0.48
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:36104741 original size:79 final size:78
Alignment explanation
Indices: 36104564--36104742 Score: 202
Period size: 79 Copynumber: 2.3 Consensus size: 78
36104554 GGCATTTGTG
* * * *
36104564 CGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAATTCCGGGCTAAGGCC
1 CGAGTTACTAAATCCGGGTTAAGCCCGAAGGCATTGGTGCGAGTTACTAATACCGGGCTAAGCCC
**
36104629 GAAGGCATTGGTG
66 GAAGGCATTGGAA
* * *
36104642 CGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACTGGGCTATGT
1 CGAGTTACTAAATCCGGGTTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAT-ACCGGGCTAAG-
*
36104706 CCCGAAGGCATTTGAA
63 CCCGAAGGCATTGGAA
*
36104722 CGAG-TAGCTATATCC-GGTTAA
1 CGAGTTA-CTAAATCCGGGTTAA
36104743 ATTTTGAAGG
Statistics
Matches: 86, Mismatches: 11, Indels: 7
0.83 0.11 0.07
Matches are distributed among these distances:
78 23 0.27
79 40 0.47
80 23 0.27
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (78 bp):
CGAGTTACTAAATCCGGGTTAAGCCCGAAGGCATTGGTGCGAGTTACTAATACCGGGCTAAGCCC
GAAGGCATTGGAA
Found at i:36109561 original size:26 final size:27
Alignment explanation
Indices: 36109495--36109561 Score: 66
Period size: 27 Copynumber: 2.5 Consensus size: 27
36109485 GACTGTGGAA
*
36109495 TGGGTTTTTGAAAATATTTCTCAAAAT
1 TGGGTTTTTGAAAGTATTTCTCAAAAT
** * *
36109522 TGGGTTTTCAAAAGTTTTTCT-AAACCT
1 TGGGTTTTTGAAAGTATTTCTCAAA-AT
36109549 T-GGTTTTTGAAAG
1 TGGGTTTTTGAAAG
36109562 AGATGATTTT
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
26 13 0.41
27 19 0.59
ACGTcount: A:0.28, C:0.09, G:0.18, T:0.45
Consensus pattern (27 bp):
TGGGTTTTTGAAAGTATTTCTCAAAAT
Found at i:36112262 original size:18 final size:17
Alignment explanation
Indices: 36112239--36112273 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
36112229 GATGGGTTGA
36112239 AATGGGCCATGTGGGCCC
1 AATGGG-CATGTGGGCCC
*
36112257 AATGGGCTTGTGGGCCC
1 AATGGGCATGTGGGCCC
36112274 CACACAGGGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.14, C:0.26, G:0.40, T:0.20
Consensus pattern (17 bp):
AATGGGCATGTGGGCCC
Found at i:36116144 original size:59 final size:59
Alignment explanation
Indices: 36116051--36116167 Score: 182
Period size: 59 Copynumber: 2.0 Consensus size: 59
36116041 GTGCCACAAA
* *
36116051 TCACAGAAACACATGCCTCTCAACGGGGCTACTCAAAAGC-ACTCGGACCCTAGCATGTC
1 TCACAGAAACACATGCCTCTCAACGGGGCAACTCAAAAGCAAC-AGGACCCTAGCATGTC
* *
36116110 TCACATAATCACATGCCTCTCAACGGGGCAACTCAAAAGCAACAGGACCCTAGCATGT
1 TCACAGAAACACATGCCTCTCAACGGGGCAACTCAAAAGCAACAGGACCCTAGCATGT
36116168 ATTACGTATC
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
59 51 0.96
60 2 0.04
ACGTcount: A:0.32, C:0.32, G:0.18, T:0.17
Consensus pattern (59 bp):
TCACAGAAACACATGCCTCTCAACGGGGCAACTCAAAAGCAACAGGACCCTAGCATGTC
Found at i:36117478 original size:13 final size:13
Alignment explanation
Indices: 36117452--36117488 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
36117442 AATTAGGCAC
36117452 TTTTCACATAAAA
1 TTTTCACATAAAA
* *
36117465 TTTTCGCATGAAA
1 TTTTCACATAAAA
36117478 TTTTCACATAA
1 TTTTCACATAA
36117489 GCATAGAAAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.38, C:0.16, G:0.05, T:0.41
Consensus pattern (13 bp):
TTTTCACATAAAA
Found at i:36120645 original size:24 final size:24
Alignment explanation
Indices: 36120604--36120655 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
36120594 CCTTCATACC
*
36120604 CATATACACATGAACACAT-CTATA
1 CATATACACATAAACACATAC-ATA
36120628 CATATACACA-AAAGCACATACATA
1 CATATACACATAAA-CACATACATA
36120652 CATA
1 CATA
36120656 CCTTCCACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
23 2 0.08
24 22 0.88
25 1 0.04
ACGTcount: A:0.50, C:0.25, G:0.04, T:0.21
Consensus pattern (24 bp):
CATATACACATAAACACATACATA
Found at i:36121941 original size:126 final size:125
Alignment explanation
Indices: 36121716--36122086 Score: 616
Period size: 126 Copynumber: 2.9 Consensus size: 125
36121706 GTTTTAGCCT
* *
36121716 TAAGAGGATATTCGAATATTCAAAACCAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
1 TAAGAGGATATTCGAATATTCAAGACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
* *
36121781 CTTCGAATTATTTAAATACCAAACATTGCCTTTATTTTGAAAATTTTTGAGAGTGAACTGG
66 CTTCGAATTCTTTAAATA-CAAACATTGCCTTTATTTTGAAAAATTTTGAGAGTGAACTGG
36121842 TAAGAGGATATTCGAATATTCAAGACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
1 TAAGAGGATATTCGAATATTCAAGACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
*
36121907 CTTCGAATTCTTTAAATATCAAACATTGCCTTTATTTTAAAAAATTTTGAGAGTGAACTGG
66 CTTCGAATTCTTTAAATA-CAAACATTGCCTTTATTTTGAAAAATTTTGAGAGTGAACTGG
* * *
36121968 TAAGAGGATATTCGAATATTCAAGACAAACAAAGAAAGTGAAACCCAGTACGTTACGGTACGATT
1 TAAGAGGATATTCGAATATTCAAGACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
* *
36122033 CTTCGAATTCTTTAAATACTGAACATTGCCTTTATTTTGAAAAAAATTTGAGAG
66 CTTCGAATTCTTTAAATAC-AAACATTGCCTTTATTTTG-AAAAATTTTGAGAG
36122087 AAGATCAATG
Statistics
Matches: 231, Mismatches: 12, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
125 1 0.00
126 217 0.94
127 13 0.06
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (125 bp):
TAAGAGGATATTCGAATATTCAAGACAAACAAAGAAAGCGAAACCCAGTACGTTAGGGCACGATT
CTTCGAATTCTTTAAATACAAACATTGCCTTTATTTTGAAAAATTTTGAGAGTGAACTGG
Found at i:36122335 original size:21 final size:21
Alignment explanation
Indices: 36122296--36122346 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
36122286 TAATAATATT
*
36122296 AAAAATATGATGATAATAACA
1 AAAAATATGATGACAATAACA
* *
36122317 AAAAATATGTTGACGATAACA
1 AAAAATATGATGACAATAACA
**
36122338 TTAAATATG
1 AAAAATATG
36122347 GGGGATAATA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.55, C:0.06, G:0.12, T:0.27
Consensus pattern (21 bp):
AAAAATATGATGACAATAACA
Found at i:36122562 original size:14 final size:14
Alignment explanation
Indices: 36122543--36122573 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
36122533 ATATATTTAC
*
36122543 ATAATAAATATATA
1 ATAATAAATAAATA
36122557 ATAATAAATAAATA
1 ATAATAAATAAATA
36122571 ATA
1 ATA
36122574 TAATAATATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
ATAATAAATAAATA
Found at i:36122574 original size:19 final size:18
Alignment explanation
Indices: 36122545--36122581 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
36122535 ATATTTACAT
36122545 AATAAATATATAATAATA
1 AATAAATATATAATAATA
36122563 AATAAATAATATAATAATA
1 AATAAAT-ATATAATAATA
36122582 TGAAACATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AATAAATATATAATAATA
Found at i:36122995 original size:18 final size:18
Alignment explanation
Indices: 36122972--36123044 Score: 69
Period size: 18 Copynumber: 4.0 Consensus size: 18
36122962 ATAACAAGTA
*
36122972 GGGTGATGGAGTTAGTGG
1 GGGTGATGGAGGTAGTGG
36122990 GGGTGATGGAGGTAGTGG
1 GGGTGATGGAGGTAGTGG
* * *
36123008 ATGGT-TTAGTAGGGT-GTGG
1 -GGGTGAT-GGA-GGTAGTGG
36123027 GGGTGATGGAGGTAGTGG
1 GGGTGATGGAGGTAGTGG
36123045 ATAGTTTAGT
Statistics
Matches: 43, Mismatches: 7, Indels: 10
0.72 0.12 0.17
Matches are distributed among these distances:
17 3 0.07
18 27 0.63
19 10 0.23
20 3 0.07
ACGTcount: A:0.16, C:0.00, G:0.56, T:0.27
Consensus pattern (18 bp):
GGGTGATGGAGGTAGTGG
Found at i:36123023 original size:29 final size:29
Alignment explanation
Indices: 36122990--36123089 Score: 85
Period size: 29 Copynumber: 3.2 Consensus size: 29
36122980 GAGTTAGTGG
36122990 GGGTGATGGAGGTAGTGGATGGTTTAGTA
1 GGGTGATGGAGGTAGTGGATGGTTTAGTA
*
36123019 GGGTGTGGGGGTGATGGAGGTAGTGGATAGTTTAGTA
1 --------GGGTGATGGAGGTAGTGGATGGTTTAGTA
* *
36123056 GGGTGATGGAGTTAGTGG-TCGGTTTAGTG
1 GGGTGATGGAGGTAGTGGAT-GGTTTAGTA
36123085 GGGTG
1 GGGTG
36123090 TTTAATTTGG
Statistics
Matches: 58, Mismatches: 4, Indels: 10
0.81 0.06 0.14
Matches are distributed among these distances:
28 1 0.02
29 29 0.50
37 28 0.48
ACGTcount: A:0.17, C:0.01, G:0.51, T:0.31
Consensus pattern (29 bp):
GGGTGATGGAGGTAGTGGATGGTTTAGTA
Found at i:36123036 original size:37 final size:37
Alignment explanation
Indices: 36122986--36123060 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
36122976 GATGGAGTTA
*
36122986 GTGGGGGTGATGGAGGTAGTGGATGGTTTAGTAGGGT
1 GTGGGGGTGATGGAGGTAGTGGATAGTTTAGTAGGGT
36123023 GTGGGGGTGATGGAGGTAGTGGATAGTTTAGTAGGGT
1 GTGGGGGTGATGGAGGTAGTGGATAGTTTAGTAGGGT
36123060 G
1 G
36123061 ATGGAGTTAG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.17, C:0.00, G:0.53, T:0.29
Consensus pattern (37 bp):
GTGGGGGTGATGGAGGTAGTGGATAGTTTAGTAGGGT
Found at i:36123557 original size:85 final size:85
Alignment explanation
Indices: 36123335--36123715 Score: 629
Period size: 85 Copynumber: 4.5 Consensus size: 85
36123325 TAAGATTTGT
* **
36123335 AATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTTGACCTGCTCTACCACTGC
1 AATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGCTCCGCCACTGC
*
36123400 TCGGCGAGCCCA-AGTCTGTA
66 TCGGCGAGCCCAGA-TCTATA
* *
36123420 AACTTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGCCTTTGACCTGCTCCGCCACTG
1 AA-TTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGCTCCGCCACTG
36123485 CTCGGCGAGCCCAGATCTATA
65 CTCGGCGAGCCCAGATCTATA
* * *
36123506 AATTTTAGCTTGTTTCCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGCTCCGTCACTGC
1 AATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGCTCCGCCACTGC
*
36123571 TCGGCGAGCCCAGATCTGTA
66 TCGGCGAGCCCAGATCTATA
36123591 AATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGCTCCGCCACTGC
1 AATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGCTCCGCCACTGC
*
36123656 TTGGCGAGCCCAGATCTATA
66 TCGGCGAGCCCAGATCTATA
*
36123676 AATTTTAGCCTGTTACCCTACTGCTTTGGGGGTTAAGGCG
1 AATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCG
36123716 TGTATCTTTG
Statistics
Matches: 278, Mismatches: 16, Indels: 4
0.93 0.05 0.01
Matches are distributed among these distances:
85 198 0.71
86 79 0.28
87 1 0.00
ACGTcount: A:0.18, C:0.27, G:0.25, T:0.29
Consensus pattern (85 bp):
AATTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCGAGTCTTCGACCTGCTCCGCCACTGC
TCGGCGAGCCCAGATCTATA
Found at i:36123788 original size:87 final size:87
Alignment explanation
Indices: 36123686--36123886 Score: 267
Period size: 87 Copynumber: 2.3 Consensus size: 87
36123676 AATTTTAGCC
* * * * ** *
36123686 TGTTACCCTACTGCTTTGGGGGTTAAGGCGTGTATCTTTGATTTGCTCCACTATTACTTAGGGAG
1 TGTTACCTTATTGCTTAGGGCGTTAAAACGTGTATCTTTGATCTGCTCCACTATTACTTAGGGAG
36123751 ATAAGATCTATAATCTGCAACT
66 ATAAGATCTATAATCTGCAACT
* *
36123773 TGTTACCTTATTGCTTAGGGCGTTAAAATGTGTATCTTTGATCTGCTCCACTATTGCTTAGGGAG
1 TGTTACCTTATTGCTTAGGGCGTTAAAACGTGTATCTTTGATCTGCTCCACTATTACTTAGGGAG
* ** *
36123838 ATAAGATCTGTAATCTTTAGCT
66 ATAAGATCTATAATCTGCAACT
* *
36123860 TGTTACCTTATTGCTTAGAGAGTTAAA
1 TGTTACCTTATTGCTTAGGGCGTTAAA
36123887 GCCTGCAATC
Statistics
Matches: 99, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
87 99 1.00
ACGTcount: A:0.24, C:0.16, G:0.21, T:0.39
Consensus pattern (87 bp):
TGTTACCTTATTGCTTAGGGCGTTAAAACGTGTATCTTTGATCTGCTCCACTATTACTTAGGGAG
ATAAGATCTATAATCTGCAACT
Found at i:36123873 original size:44 final size:44
Alignment explanation
Indices: 36123736--36124010 Score: 160
Period size: 44 Copynumber: 6.3 Consensus size: 44
36123726 ATTTGCTCCA
* * **
36123736 CTATTACTTAGGGAGATAAGATCTATAATCTGCA-ACTTGTTACC
1 CTATTGCTTAGGGAGATAAGATCTGTAATCTTTAGA-TTGTTACC
* * * * * *
36123780 TTATTGCTTAGGGCGTTAAAATGTGT-ATCTTT-GATCTGCT-CC
1 CTATTGCTTAGGGAGATAAGATCTGTAATCTTTAGAT-TGTTACC
*
36123822 ACTATTGCTTAGGGAGATAAGATCTGTAATCTTTAGCTTGTTACC
1 -CTATTGCTTAGGGAGATAAGATCTGTAATCTTTAGATTGTTACC
* * * * *
36123867 TTATTGCTTAGAGAGTTAA-AGCCTGCAATC--TA-ATTGTTACC
1 CTATTGCTTAGGGAGATAAGA-TCTGTAATCTTTAGATTGTTACC
* * * * * * * * *
36123908 CTTTTGCTTAGGGAGTTAA-AGCCTGCAGT-TCTCGATCT-ATCCC
1 CTATTGCTTAGGGAGATAAGA-TCTGTAATCTTTAGAT-TGTTACC
*
36123951 ACTATTGCTTAGGGAGATAAGATCTGTAAT-TTTCAGCTTGTTACC
1 -CTATTGCTTAGGGAGATAAGATCTGTAATCTTT-AGATTGTTACC
36123996 CTATTGCTTAGGGAG
1 CTATTGCTTAGGGAG
36124011 TTAAAGCCGG
Statistics
Matches: 176, Mismatches: 40, Indels: 30
0.72 0.16 0.12
Matches are distributed among these distances:
41 33 0.19
42 6 0.03
43 35 0.20
44 92 0.52
45 10 0.06
ACGTcount: A:0.25, C:0.18, G:0.20, T:0.37
Consensus pattern (44 bp):
CTATTGCTTAGGGAGATAAGATCTGTAATCTTTAGATTGTTACC
Found at i:36131764 original size:21 final size:21
Alignment explanation
Indices: 36131724--36131764 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
36131714 GCTGGCTCAT
*
36131724 CATGTTGTTCTGTGACTCCAC
1 CATGTTGTTCTGGGACTCCAC
* *
36131745 CATGTTTTTCTGGGATTCCA
1 CATGTTGTTCTGGGACTCCA
36131765 ACATTTGATC
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:0.15, C:0.24, G:0.20, T:0.41
Consensus pattern (21 bp):
CATGTTGTTCTGGGACTCCAC
Found at i:36135624 original size:125 final size:125
Alignment explanation
Indices: 36135265--36135633 Score: 639
Period size: 126 Copynumber: 2.9 Consensus size: 125
36135255 GTTTTAGCCT
* * *
36135265 TAAGAGGATATTCGAATATTCAAAACCAACAAAGAAAGCGAAACTCAGTACGTTAGGGCACGATT
1 TAAGAGGATATTCGAATATTCAAGACAAACAAAGAAAGCG-AACCCAGTACGTTAGGGCACGATT
* * *
36135330 CTTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAATTTTTTAGAATGAACTGG
65 CTTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAAATTTTGAGAGTGAACTGG
* *
36135391 TAAGAGGATATTCGAATATTCAAGACAAACAAAGAAAGCAAAACCTAGTACGTTAGGGCACGATT
1 TAAGAGGATATTCGAATATTCAAGACAAACAAAGAAAGC-GAACCCAGTACGTTAGGGCACGATT
36135456 CTTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAAATTTTGAGAGTGAACTGG
65 CTTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAAATTTTGAGAGTGAACTGG
*
36135517 TAAGAGGATATTCAAATATTCAAGACAAACAAAGAAAGCGAACCCAGTACGTTAGGGCACGATTC
1 TAAGAGGATATTCGAATATTCAAGACAAACAAAGAAAGCGAACCCAGTACGTTAGGGCACGATTC
36135582 TTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAAATTTTGAGAG
66 TTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAAATTTTGAGAG
36135634 ATGATCAATG
Statistics
Matches: 231, Mismatches: 11, Indels: 3
0.94 0.04 0.01
Matches are distributed among these distances:
125 76 0.33
126 155 0.67
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (125 bp):
TAAGAGGATATTCGAATATTCAAGACAAACAAAGAAAGCGAACCCAGTACGTTAGGGCACGATTC
TTCGAATTCTTTAAATACCGAACATTGCCTTTATTTTGAAAAATTTTGAGAGTGAACTGG
Found at i:36135794 original size:21 final size:21
Alignment explanation
Indices: 36135764--36135803 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
36135754 AATAGTAATT
*
36135764 AATAGAAATAATTAATAAAAC
1 AATAGAAATAATAAATAAAAC
*
36135785 AATAGTAATAATAAATAAA
1 AATAGAAATAATAAATAAA
36135804 TAATGTAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.25
Consensus pattern (21 bp):
AATAGAAATAATAAATAAAAC
Found at i:36135882 original size:21 final size:21
Alignment explanation
Indices: 36135844--36135894 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
36135834 TAATAATATT
* *
36135844 AAAAACATGATGATAATAACA
1 AAAAATATGATGACAATAACA
*
36135865 AAAAATATGTTGACAATAACA
1 AAAAATATGATGACAATAACA
**
36135886 TTAAATATG
1 AAAAATATG
36135895 GGGGATAATA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.57, C:0.08, G:0.10, T:0.25
Consensus pattern (21 bp):
AAAAATATGATGACAATAACA
Found at i:36136107 original size:14 final size:14
Alignment explanation
Indices: 36136088--36136118 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
36136078 ATATATTTAC
*
36136088 ATAATAAATATATA
1 ATAATAAATAAATA
36136102 ATAATAAATAAATA
1 ATAATAAATAAATA
36136116 ATA
1 ATA
36136119 TAATAATATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
ATAATAAATAAATA
Found at i:36136119 original size:19 final size:18
Alignment explanation
Indices: 36136090--36136126 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
36136080 ATATTTACAT
36136090 AATAAATATATAATAATA
1 AATAAATATATAATAATA
36136108 AATAAATAATATAATAATA
1 AATAAAT-ATATAATAATA
36136127 TGAAACATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AATAAATATATAATAATA
Found at i:36136169 original size:56 final size:58
Alignment explanation
Indices: 36136108--36136240 Score: 159
Period size: 58 Copynumber: 2.3 Consensus size: 58
36136098 TATAATAATA
* *
36136108 AATAAATAATATAATAAT-ATGAAACAT-AA-CTCAAATTAATTAAATTAATAG-AAAAT
1 AATAAA-AATATAAAAATAATGAAA-ATAAAGCTCAAATTAATTAAATTAACAGTAAAAT
* *
36136164 AATAAAAAATATAAAAATAATGAGAATAAAGCTCAAATTAATTAATTTAACAGTAAAAT
1 AAT-AAAAATATAAAAATAATGAAAATAAAGCTCAAATTAATTAAATTAACAGTAAAAT
*
36136223 AACAAAAATA-AAAAATAA
1 AATAAAAATATAAAAATAA
36136241 AAAGGGGTTA
Statistics
Matches: 67, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
56 15 0.22
57 18 0.27
58 27 0.40
59 7 0.10
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.26
Consensus pattern (58 bp):
AATAAAAATATAAAAATAATGAAAATAAAGCTCAAATTAATTAAATTAACAGTAAAAT
Found at i:36136532 original size:17 final size:18
Alignment explanation
Indices: 36136510--36136547 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
36136500 ACTTATAAAA
*
36136510 AGTA-GGGTGATGGAGTT
1 AGTAGGGGTGATGGAGGT
36136527 AGTAGGGGTGATGGAGGT
1 AGTAGGGGTGATGGAGGT
36136545 AGT
1 AGT
36136548 GGATGGTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.24, C:0.00, G:0.50, T:0.26
Consensus pattern (18 bp):
AGTAGGGGTGATGGAGGT
Found at i:36136581 original size:37 final size:37
Alignment explanation
Indices: 36136531--36136602 Score: 144
Period size: 37 Copynumber: 1.9 Consensus size: 37
36136521 GGAGTTAGTA
36136531 GGGGTGATGGAGGTAGTGGATGGTTTAGTAGGGTGTG
1 GGGGTGATGGAGGTAGTGGATGGTTTAGTAGGGTGTG
36136568 GGGGTGATGGAGGTAGTGGATGGTTTAGTAGGGTG
1 GGGGTGATGGAGGTAGTGGATGGTTTAGTAGGGTG
36136603 ATGGAGTTAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.17, C:0.00, G:0.54, T:0.29
Consensus pattern (37 bp):
GGGGTGATGGAGGTAGTGGATGGTTTAGTAGGGTGTG
Found at i:36136602 original size:29 final size:29
Alignment explanation
Indices: 36136569--36136631 Score: 92
Period size: 29 Copynumber: 2.2 Consensus size: 29
36136559 TAGGGTGTGG
36136569 GGGTGATGGAGGTAGTGGAT-GGTTTAGTA
1 GGGTGATGGAGGTAGTGG-TCGGTTTAGTA
* *
36136598 GGGTGATGGAGTTAGTGGTCGGTTTAGTG
1 GGGTGATGGAGGTAGTGGTCGGTTTAGTA
36136627 GGGTG
1 GGGTG
36136632 TTTAATTTGG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
28 1 0.03
29 30 0.97
ACGTcount: A:0.16, C:0.02, G:0.51, T:0.32
Consensus pattern (29 bp):
GGGTGATGGAGGTAGTGGTCGGTTTAGTA
Found at i:36137710 original size:23 final size:23
Alignment explanation
Indices: 36137680--36137732 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
36137670 ACAAGCATAG
36137680 AAACATATCATAGACTTTATGAT
1 AAACATATCATAGACTTTATGAT
36137703 AAACATATCATAGACTTTATGAT
1 AAACATATCATAGACTTTATGAT
*
36137726 AATCATA
1 AAACATA
36137733 AAATAAATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.45, C:0.13, G:0.08, T:0.34
Consensus pattern (23 bp):
AAACATATCATAGACTTTATGAT
Found at i:36139733 original size:40 final size:40
Alignment explanation
Indices: 36139689--36139790 Score: 109
Period size: 40 Copynumber: 2.5 Consensus size: 40
36139679 GTGCGATTCA
*
36139689 AAATAGCTTCGGCTATAAAT-A-GCACTAAGTGTGCAAAATG
1 AAATAGCTTCAGCTAT--ATGAGGCACTAAGTGTGCAAAATG
* *
36139729 AAATAGCTTTAGCTATATGAGGCACTAAGTGTGCAATACTG
1 AAATAGCTTCAGCTATATGAGGCACTAAGTGTGCAA-AATG
** *
36139770 AGGTAGCTTCAGCTATTTGAG
1 AAATAGCTTCAGCTATATGAG
36139791 ATAGCACTGA
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.04
39 1 0.02
40 29 0.56
41 20 0.38
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (40 bp):
AAATAGCTTCAGCTATATGAGGCACTAAGTGTGCAAAATG
Found at i:36147319 original size:51 final size:52
Alignment explanation
Indices: 36147242--36147375 Score: 193
Period size: 51 Copynumber: 2.6 Consensus size: 52
36147232 CGGATACCGG
* *
36147242 GTGGCCTGCACATAGTACCACCCTTGTAGTCAAAGCTACCTTT-TTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTAGTCAAAGCTACCTTTCTTCACAAA
* * *
36147293 GTGGCCTTCACATAGTACCACACTTGT-GACCAAAGCTATCTTTCTTCATAAA
1 GTGGCCTTCACATAGTACCACACTTGTAG-TCAAAGCTACCTTTCTTCACAAA
36147345 GTGGCCTTCACATAGTACCACACTTG-AGTCA
1 GTGGCCTTCACATAGTACCACACTTGTAGTCA
36147376 TTAGTGACAT
Statistics
Matches: 74, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
50 1 0.01
51 39 0.53
52 34 0.46
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (52 bp):
GTGGCCTTCACATAGTACCACACTTGTAGTCAAAGCTACCTTTCTTCACAAA
Found at i:36148639 original size:22 final size:21
Alignment explanation
Indices: 36148577--36148641 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 21
36148567 GTCACTAGGA
36148577 ATTATGTGATTTGAACTCATTG
1 ATTATGTGATTTGAACTCA-TG
* **
36148599 AGT-TGTGATTTGAGTTCATG
1 ATTATGTGATTTGAACTCATG
*
36148619 ATTTATGTGATTTGACCTCATG
1 A-TTATGTGATTTGAACTCATG
36148641 A
1 A
36148642 GTTGGCATCG
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
20 3 0.09
21 14 0.40
22 18 0.51
ACGTcount: A:0.25, C:0.09, G:0.22, T:0.45
Consensus pattern (21 bp):
ATTATGTGATTTGAACTCATG
Found at i:36148639 original size:43 final size:41
Alignment explanation
Indices: 36148578--36148662 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 41
36148568 TCACTAGGAA
*
36148578 TTATGTGATTTGAACTCATTGAGTTGTG-ATTTGAGTTCATGAT
1 TTATGTGATTTGAACTCA-TGAGTTG-GCA-TCGAGTTCATGAT
*
36148621 TTATGTGATTTGACCTCATGAGTTGGCATCGAGTTCATGAT
1 TTATGTGATTTGAACTCATGAGTTGGCATCGAGTTCATGAT
36148662 T
1 T
36148663 ATGACACACA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
41 14 0.36
42 8 0.21
43 17 0.44
ACGTcount: A:0.22, C:0.11, G:0.24, T:0.44
Consensus pattern (41 bp):
TTATGTGATTTGAACTCATGAGTTGGCATCGAGTTCATGAT
Found at i:36148983 original size:28 final size:28
Alignment explanation
Indices: 36148943--36148999 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
36148933 ACGAGAAAGT
36148943 AAGTTATTATGTGCAAGTGGGCACAGGA
1 AAGTTATTATGTGCAAGTGGGCACAGGA
36148971 AAGTTATTATGTGCAAGTGGGCACAGGA
1 AAGTTATTATGTGCAAGTGGGCACAGGA
36148999 A
1 A
36149000 TGTACATTGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.33, C:0.11, G:0.32, T:0.25
Consensus pattern (28 bp):
AAGTTATTATGTGCAAGTGGGCACAGGA
Found at i:36151128 original size:41 final size:39
Alignment explanation
Indices: 36151050--36151168 Score: 107
Period size: 41 Copynumber: 2.9 Consensus size: 39
36151040 CCTGGCCAGG
* * *
36151050 CCATGTGGCCCACAAGGCTGGCACACAACCT-CACACAC-A
1 CCATGTGACCCACATGGCTGACACAC-ACCTAC-CACACGA
36151089 TCCATGTGACCCACATGAGCTGACACACGACCTACCACACGA
1 -CCATGTGACCCACATG-GCTGACACAC-ACCTACCACACGA
* * *
36151131 CTATGTGACCTACATGGGCTGTCACACAGCCTACCACA
1 CCATGTGACCCACAT-GGCTGACACACA-CCTACCACA
36151169 TGGCCGTATG
Statistics
Matches: 67, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
40 15 0.22
41 49 0.73
42 3 0.04
ACGTcount: A:0.29, C:0.38, G:0.18, T:0.15
Consensus pattern (39 bp):
CCATGTGACCCACATGGCTGACACACACCTACCACACGA
Found at i:36153750 original size:25 final size:25
Alignment explanation
Indices: 36153720--36153771 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
36153710 ATACATTATT
36153720 CAATAGCATTTTAAATACATATTAA
1 CAATAGCATTTTAAATACATATTAA
36153745 CAATAGCATTTTAAATACATATTAA
1 CAATAGCATTTTAAATACATATTAA
36153770 CA
1 CA
36153772 TTTAATTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.48, C:0.13, G:0.04, T:0.35
Consensus pattern (25 bp):
CAATAGCATTTTAAATACATATTAA
Found at i:36158664 original size:48 final size:48
Alignment explanation
Indices: 36158523--36158702 Score: 210
Period size: 48 Copynumber: 3.9 Consensus size: 48
36158513 GGTTATGTAC
* *
36158523 GATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCATCGATAAGT
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
* **** *
36158571 AATTTTGTGTAAGACCATAG-CTGGG-C-T---ATCGGCATCGATATGT
1 GATCCCATGTAAGACCAT-GTCTGGGACATGGCATTGGCATCGATATGT
36158614 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
* * *
36158662 GATCCCATGTAAGACCATATCTGGGATATGGCAGTGGCATC
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC
36158703 CTACCATGTG
Statistics
Matches: 108, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
42 1 0.01
43 31 0.29
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 71 0.66
49 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.28
Consensus pattern (48 bp):
GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
Found at i:36158678 original size:91 final size:90
Alignment explanation
Indices: 36158523--36158694 Score: 254
Period size: 91 Copynumber: 1.9 Consensus size: 90
36158513 GGTTATGTAC
* ****
36158523 GATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCATCGATAAGTAATTTTGTGTAAGACCA
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATAAGTAATCCCATGTAAGACCA
*
36158588 TAGCTGGGCTATCGGCATCGATATGT
66 TAGCTGGGATAT-GGCATCGATATGT
* *
36158614 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGTGATCCCATGTAAGACCA
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATAAGTAATCCCATGTAAGACCA
*
36158679 TATCTGGGATATGGCA
66 TAGCTGGGATATGGCA
36158695 GTGGCATCCT
Statistics
Matches: 72, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
90 4 0.06
91 68 0.94
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.28
Consensus pattern (90 bp):
GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATAAGTAATCCCATGTAAGACCA
TAGCTGGGATATGGCATCGATATGT
Found at i:36160643 original size:367 final size:364
Alignment explanation
Indices: 36159916--36160643 Score: 960
Period size: 367 Copynumber: 2.0 Consensus size: 364
36159906 GTCTTGGCCA
* * * * * * ** *
36159916 TGTGACCCTAATTGTATTGATGATGTCATAAATAGAGAGTTACACGGGTTGAGGACACGGTCATG
1 TGTGACCCTAATTATATTAATGACGTCATAAACAGAGAGTTACACGGGCTAAACACACGGGCATG
* ** * * *
36159981 TCCCAAGCCACATGGGCATGTGTGACCACACGGCTTGCCCATACGAGCGTGTGACCTTGTTTCAT
66 TCCCAAGCCACATGGGCATGTGTGACCACACGGCCTAACCACACGAGCATGTGACCCTGTTTCAT
* * *
36160046 GAAAATTTTCTAAGTTTTCCCAAAGTTTTCTAAAGTTCTCGGTTTAGTCCCGAACAATACCCAAT
131 GAAAATTTTCTAAGTGTTCCCAAAGTTTTCTAAAGTTCTCGGATCAGTCCCGAACAATACCCAAT
* ** * *
36160111 GTATGTTTTGGGCCTCGTAGGACCATATAAGGGACAATTTGCATATGCGTGAATGGATTTAATTG
196 GTATGTTTTGAGCCTCGTAGGACCATATAAGGGACAATTTGCATATGAATGAATGAATTCAATTG
** * *
36160176 GAACAAAGTTTTTATGGCCTGGTTTTGTATGTTTCTTGTGATTAAGTCAGGTAATGCCTTATATC
261 GAACAAAG-TTTTATGGCCCAGTTTTGTATGTTGCTTGTGATTAAGTCAGGTAATGCCTCATATC
36160241 ATGTCCTGGCATCGAGCACGGGTAAGGGGTGTTACAAGCCG
325 ATGTCCTGGCA-CGAGCACGGGTAAGGGGTGTTACAAGCCG
* * *
36160282 TGTGACCCTAATTATGTTAATGACGTCATAAACAGAGAGTTACACGGGCTAAACACCCGGGCGTG
1 TGTGACCCTAATTATATTAATGACGTCATAAACAGAGAGTTACACGGGCTAAACACACGGGCATG
* *
36160347 TCCCAAGCCACATGGGCGTGTGTGACCACACGGCCTAACCGCACGAGCATGTGACCCTGTTTCAT
66 TCCCAAGCCACATGGGCATGTGTGACCACACGGCCTAACCACACGAGCATGTGACCCTGTTTCAT
* * *
36160412 GAAAATTTCTCTAAGTGTTCCCAAAGTTTTCTAAAGTTCTCGGATCAGTCCCGAACTATTCCCGA
131 GAAAATTT-TCTAAGTGTTCCCAAAGTTTTCTAAAGTTCTCGGATCAGTCCCGAACAATACCCAA
* *
36160477 TGTGTGTTTTGAGCCTCGTAGGCCCATATAAGGGACAATTTGCATATGAATGAATGAATTCAATT
195 TGTATGTTTTGAGCCTCGTAGGACCATATAAGGGACAATTTGCATATGAATGAATGAATTCAATT
* * * *
36160542 TGAATGAAA-TTTTATGGCCCAGTTTTGTATGTCTGCTTGTG-TATAAGTCCGGTAATGCCTCGT
260 GGAA-CAAAGTTTTATGGCCCAGTTTTGTATGT-TGCTTGTGAT-TAAGTCAGGTAATGCCTCAT
* *
36160605 ATCCTGTCTCGATGTCA-GA-CACGGGTAAGGGGTGTTACA
322 ATCATGTC-C--TGGCACGAGCACGGGTAAGGGGTGTTACA
36160644 CTTAGTGGTA
Statistics
Matches: 312, Mismatches: 43, Indels: 13
0.85 0.12 0.04
Matches are distributed among these distances:
366 140 0.45
367 162 0.52
368 6 0.02
370 4 0.01
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (364 bp):
TGTGACCCTAATTATATTAATGACGTCATAAACAGAGAGTTACACGGGCTAAACACACGGGCATG
TCCCAAGCCACATGGGCATGTGTGACCACACGGCCTAACCACACGAGCATGTGACCCTGTTTCAT
GAAAATTTTCTAAGTGTTCCCAAAGTTTTCTAAAGTTCTCGGATCAGTCCCGAACAATACCCAAT
GTATGTTTTGAGCCTCGTAGGACCATATAAGGGACAATTTGCATATGAATGAATGAATTCAATTG
GAACAAAGTTTTATGGCCCAGTTTTGTATGTTGCTTGTGATTAAGTCAGGTAATGCCTCATATCA
TGTCCTGGCACGAGCACGGGTAAGGGGTGTTACAAGCCG
Found at i:36171643 original size:10 final size:10
Alignment explanation
Indices: 36171628--36171661 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
36171618 TTGATTATTC
36171628 ATCTTATTTT
1 ATCTTATTTT
36171638 ATCTTATTTT
1 ATCTTATTTT
*
36171648 ATTTTATTTT
1 ATCTTATTTT
36171658 -TCTT
1 ATCTT
36171662 TTATTAAGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 3 0.14
10 19 0.86
ACGTcount: A:0.18, C:0.09, G:0.00, T:0.74
Consensus pattern (10 bp):
ATCTTATTTT
Found at i:36177293 original size:179 final size:180
Alignment explanation
Indices: 36176959--36177316 Score: 454
Period size: 179 Copynumber: 2.0 Consensus size: 180
36176949 GAGCTACAAA
* * * * *
36176959 ACTCCAAATTAAGATCTGTTAATTTTCACAGAAACTATACTCACATATATTCTTACCATAAGATT
1 ACTCCAAATTAAGAACCGCTAATTTTCACAGAAACTAGACTCACATATACTCTTACCATAAGATT
* * * * *
36177024 TTCATAATTTTTTGTTTAGCCAATTAGTACAGTTTATTCATTAAAGTTACCCCTATTTCACTGCC
66 TTAAGAATATTTGGTTTACCCAATTAGTACAGTTTATTCATTAAAGTTACCCCTATTTCACTGCC
* *
36177089 CAACAGTTCTGACCTCTCTTCACTAAAATTTATTTATCTCATGGTACAGG
131 CAACAGTTCCGACCTCTCTTCACTAAAAATTATTTATCTCATGGTACAGG
* **
36177139 ACTCCAAATTAAGAACCGCTAATTTTC-CAAGAAACTAGACTTACATATACTCTTATTATAA-AT
1 ACTCCAAATTAAGAACCGCTAATTTTCAC-AGAAACTAGACTCACATATACTCTTACCATAAGAT
* * *
36177202 TTTAAGAATATTTGGTTTACCCTATTAGTATAGTTTATTCATTAAA-TATTCCCCTATTTCACT-
65 TTTAAGAATATTTGGTTTACCCAATTAGTACAGTTTATTCATTAAAGT-TACCCCTATTTCACTG
* * * * *
36177265 CTCCGATAGTTCCGATCTTTCTTCACTAAAAATTATTTGTCTCATGGTACAG
129 C-CCAACAGTTCCGACCTCTCTTCACTAAAAATTATTTATCTCATGGTACAG
36177317 ATCTCGGATG
Statistics
Matches: 152, Mismatches: 23, Indels: 7
0.84 0.13 0.04
Matches are distributed among these distances:
178 2 0.01
179 99 0.65
180 51 0.34
ACGTcount: A:0.32, C:0.20, G:0.09, T:0.39
Consensus pattern (180 bp):
ACTCCAAATTAAGAACCGCTAATTTTCACAGAAACTAGACTCACATATACTCTTACCATAAGATT
TTAAGAATATTTGGTTTACCCAATTAGTACAGTTTATTCATTAAAGTTACCCCTATTTCACTGCC
CAACAGTTCCGACCTCTCTTCACTAAAAATTATTTATCTCATGGTACAGG
Found at i:36177927 original size:50 final size:50
Alignment explanation
Indices: 36177873--36178313 Score: 397
Period size: 50 Copynumber: 8.7 Consensus size: 50
36177863 ACCGAAGCTC
* * * * *
36177873 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGATCTCTCAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
* * * *
36177923 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACTCACGTGACTTATCCA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
* * ** *
36177973 TCTGATACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-CCTA-TCAA
* * * * *
36178025 -CGGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCTATCAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
* * * *
36178074 TCTGGTACACGTAGGAGCCTGCACTTAGTACTACACACGTGACCTAACCA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
* * * * ** *
36178124 TTTGATACACGTAGTATG-CTGCACTTAATACTACACACGTGATCGAAACTAA
1 TCTGGTACACATAGTA-GCCTGCACTTAGTACTACACACGTGA-CCTATC-AA
* * * * * *
36178176 -CGGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCTAACAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
* *
36178225 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACGCGTGACCTA--AA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
* * *
36178273 ACTGTCTTAAACACATAGTAGCCTGCACATAGTACTACACA
1 TCTG--GT--ACACATAGTAGCCTGCACTTAGTACTACACA
36178314 TGTGTTCTCA
Statistics
Matches: 315, Mismatches: 64, Indels: 22
0.79 0.16 0.05
Matches are distributed among these distances:
48 5 0.02
49 5 0.02
50 201 0.64
51 73 0.23
52 31 0.10
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (50 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCTATCAA
Found at i:36178077 original size:101 final size:100
Alignment explanation
Indices: 36177873--36178313 Score: 324
Period size: 101 Copynumber: 4.4 Consensus size: 100
36177863 ACCGAAGCTC
* * * * *
36177873 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGATCTCTCAATCTGGTACACGTAGT
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCACTCAATCGGGTACACATAGT
* * * * *
36177938 AGCCTGCACTTAGTACTACTCACGTGACTTATCCA
66 AGCCTACACTTAGTACTACACACGCGACCTATCAA
* * * *
36177973 TCTGATACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAA-CGGGTACGCATA
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATC--ACTCAATCGGGTACACATA
*
36178037 GTAGCCTACACTTAGTACTACACATGCGACCTATCAA
64 GTAGCCTACACTTAGTACTACACACGCGACCTATCAA
* * * * ** * *
36178074 TCTGGTACACGTAGGAGCCTGCACTTAGTACTACACACGTGA-C-CTAACCATTTGATACACGTA
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCACT--CAATCGGGTACACATA
* * * ** *
36178137 GTATG-CTGCACTTAATACTACACACGTGATCGAAACTAA
64 GTA-GCCTACACTTAGTACTACACACGCGA-CCTATC-AA
* * * * * *
36178176 -CGGGTACGCATAGTAGCCTACACTTAGTACTACACATGCGA-C-CTAACAATCTGGTACACGTA
1 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCACT--CAATCGGGTACACATA
* * *
36178238 GTAGCCTGCACTTAGTACTACACGCGTGACCTA--AA
64 GTAGCCTACACTTAGTACTACACACGCGACCTATCAA
* * * *
36178273 ACTGTCTTAAACACATAGTAGCCTGCACATAGTACTACACA
1 TCTG--GT--ACGCATAGTAGCCTGCACTTAGTACTACACA
36178314 TGTGTTCTCA
Statistics
Matches: 274, Mismatches: 53, Indels: 26
0.78 0.15 0.07
Matches are distributed among these distances:
97 3 0.01
98 2 0.01
99 1 0.00
100 76 0.28
101 159 0.58
102 33 0.12
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (100 bp):
TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCACTCAATCGGGTACACATAGT
AGCCTACACTTAGTACTACACACGCGACCTATCAA
Found at i:36178139 original size:151 final size:151
Alignment explanation
Indices: 36177876--36178313 Score: 655
Period size: 151 Copynumber: 2.9 Consensus size: 151
36177866 GAAGCTCTCT
* * *
36177876 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGATCTCTCAATCTGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
* * * * *
36177941 CTGCACTTAGTACTACTCACGTGACTTATCCATCTGATACGCATAGTAGCCTGCACTTAGTACTA
66 CTGCACTTAGTACTACACACGTGACCTAACCATTTGATACACATAGTAGCCTGCACTTAGTACTA
**
36178006 CACACGTGATCGAAGTTAACG
131 CACACGTGATCGAAACTAACG
*
36178027 GGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGGAGC
1 GGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
* *
36178092 CTGCACTTAGTACTACACACGTGACCTAACCATTTGATACACGTAGTATG-CTGCACTTAATACT
66 CTGCACTTAGTACTACACACGTGACCTAACCATTTGATACACATAGTA-GCCTGCACTTAGTACT
36178156 ACACACGTGATCGAAACTAACG
130 ACACACGTGATCGAAACTAACG
*
36178178 GGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCTAACAATCTGGTACACGTAGTAGC
1 GGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
* * * * *
36178243 CTGCACTTAGTACTACACGCGTGACCTAA-AACTGTCTTAAACACATAGTAGCCTGCACATAGTA
66 CTGCACTTAGTACTACACACGTGACCTAACCA-T-T-TGATACACATAGTAGCCTGCACTTAGTA
36178307 CTACACA
128 CTACACA
36178314 TGTGTTCTCA
Statistics
Matches: 260, Mismatches: 22, Indels: 8
0.90 0.08 0.03
Matches are distributed among these distances:
150 1 0.00
151 228 0.88
152 3 0.01
153 28 0.11
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (151 bp):
GGTACGCATAGTAGCCTACACTTAGTACTACACATGCGACCTATCAATCTGGTACACGTAGTAGC
CTGCACTTAGTACTACACACGTGACCTAACCATTTGATACACATAGTAGCCTGCACTTAGTACTA
CACACGTGATCGAAACTAACG
Found at i:36181663 original size:29 final size:29
Alignment explanation
Indices: 36181643--36181702 Score: 102
Period size: 29 Copynumber: 2.1 Consensus size: 29
36181633 CCACTTGGGT
*
36181643 CGAGTAATGGGCCTTAGGCCCATTTGCAC
1 CGAGTAATGGGCCTTAGGCCCACTTGCAC
*
36181672 CGAGTAATGGGCCTTAGGCCCATTTGCAC
1 CGAGTAATGGGCCTTAGGCCCACTTGCAC
36181701 CG
1 CG
36181703 TTATGTCTGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.20, C:0.28, G:0.28, T:0.23
Consensus pattern (29 bp):
CGAGTAATGGGCCTTAGGCCCACTTGCAC
Found at i:36181855 original size:27 final size:26
Alignment explanation
Indices: 36181817--36181882 Score: 69
Period size: 27 Copynumber: 2.5 Consensus size: 26
36181807 AAATTACTGA
*
36181817 AATACCCATGTAGTGCAAAATGACCAT
1 AATACCCCTGTAG-GCAAAATGACCAT
* * *
36181844 AATGCCCCTGTAAGGTAAAATGACCGT
1 AATACCCCTGT-AGGCAAAATGACCAT
*
36181871 ATTACCCCTGTA
1 AATACCCCTGTA
36181883 TGGTAGAATG
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
26 1 0.03
27 29 0.91
28 2 0.06
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (26 bp):
AATACCCCTGTAGGCAAAATGACCAT
Found at i:36181887 original size:27 final size:27
Alignment explanation
Indices: 36181833--36181894 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
36181823 CATGTAGTGC
*
36181833 AAAATGACCATAATGCCCCTGTAAGGT
1 AAAATGACCATAATACCCCTGTAAGGT
* * *
36181860 AAAATGACCGTATTACCCCTGTATGGT
1 AAAATGACCATAATACCCCTGTAAGGT
*
36181887 AGAATGAC
1 AAAATGAC
36181895 GATTATGCCC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.24
Consensus pattern (27 bp):
AAAATGACCATAATACCCCTGTAAGGT
Found at i:36182163 original size:22 final size:22
Alignment explanation
Indices: 36182128--36182170 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
36182118 CTGCTATATT
*
36182128 TACGGCCTTTAGCCGTTCTGTC
1 TACGGCCTTGAGCCGTTCTGTC
*
36182150 TACGGCGTTGAGCCGTTCTGT
1 TACGGCCTTGAGCCGTTCTGT
36182171 TGACTTAGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.09, C:0.28, G:0.28, T:0.35
Consensus pattern (22 bp):
TACGGCCTTGAGCCGTTCTGTC
Found at i:36182345 original size:27 final size:28
Alignment explanation
Indices: 36182314--36182367 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
36182304 TCTGATACTG
* *
36182314 ATTCTG-TATTGGGCTTAGGCCTACCTA
1 ATTCTGTTATTGGGCTAAGGCCCACCTA
36182341 ATTCTGTTATTGGGCTAAGGCCCACCT
1 ATTCTGTTATTGGGCTAAGGCCCACCT
36182368 GATACTATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 6 0.25
28 18 0.75
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (28 bp):
ATTCTGTTATTGGGCTAAGGCCCACCTA
Found at i:36183004 original size:7 final size:7
Alignment explanation
Indices: 36182994--36183026 Score: 57
Period size: 7 Copynumber: 4.6 Consensus size: 7
36182984 TTTTAAAGCA
36182994 GTTAAAT
1 GTTAAAT
36183001 GTTAAAT
1 GTTAAAT
36183008 GTTAAAT
1 GTTAAAT
36183015 GTTAAATT
1 GTTAAA-T
36183023 GTTA
1 GTTA
36183027 TACATAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 20 0.80
8 5 0.20
ACGTcount: A:0.39, C:0.00, G:0.15, T:0.45
Consensus pattern (7 bp):
GTTAAAT
Found at i:36191200 original size:18 final size:17
Alignment explanation
Indices: 36191173--36191208 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
36191163 TCATTTCTTC
36191173 AAAAAAGAAAAAAAGAA
1 AAAAAAGAAAAAAAGAA
*
36191190 AAAAAAGGAAACAAAGAA
1 AAAAAA-GAAAAAAAGAA
36191208 A
1 A
36191209 GCTTCATCCG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.83, C:0.03, G:0.14, T:0.00
Consensus pattern (17 bp):
AAAAAAGAAAAAAAGAA
Found at i:36203050 original size:42 final size:42
Alignment explanation
Indices: 36202939--36203094 Score: 172
Period size: 42 Copynumber: 3.7 Consensus size: 42
36202929 TATCATACCA
* * * * ** *
36202939 ATGCCATATCCTACATATGGTTTTACATGGGATCTCGTATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
* *
36202981 ATG-CAAATTGCCCAGCTATGGTCTTACACGAAATCTCATATCG
1 ATGCCATA-T-CCCAGATATGGTCTTACACGAAATCTCATATCG
*
36203024 ATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATA-CTG
1 ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATC-G
*
36203066 ATGCCATATCCTAGATATGGTCTTACACG
1 ATGCCATATCCCAGATATGGTCTTACACG
36203095 TAGTCTTAGA
Statistics
Matches: 97, Mismatches: 13, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
41 4 0.04
42 61 0.63
43 29 0.30
44 3 0.03
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAAATCTCATATCG
Found at i:36213220 original size:43 final size:43
Alignment explanation
Indices: 36213159--36213245 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
36213149 TAAAGCTATG
36213159 CGTTTATTTCTCAATTCTTTAACGTCTCGAGCTAGAATTCTGA
1 CGTTTATTTCTCAATTCTTTAACGTCTCGAGCTAGAATTCTGA
36213202 CGTTTATTTCTCAATTCTTTAACGTCTCGAGCTAGAATTCTGA
1 CGTTTATTTCTCAATTCTTTAACGTCTCGAGCTAGAATTCTGA
36213245 C
1 C
36213246 CGGTTCTTCA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.23, C:0.22, G:0.14, T:0.41
Consensus pattern (43 bp):
CGTTTATTTCTCAATTCTTTAACGTCTCGAGCTAGAATTCTGA
Done.