Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168037.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_29, whole genome shotgun sequence
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: 14313602
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 50000 characters in sequence are not A, C, G, or T
File 16 of 74
Found at i:4259692 original size:170 final size:170
Alignment explanation
Indices: 4259475--4259786 Score: 403
Period size: 170 Copynumber: 1.8 Consensus size: 170
4259465 GTCTTCTATT
* ** ** *
4259475 GGAAAACACCTTTAATATTTCTTTTTAAGCTCGGTGTATTATTACTAAAAGCGTATATTAATAAC
1 GGAAAACACCTTTAATATTTCTTTATAAGCTCAATACATAATTACTAAAAGCGTATATTAATAAC
* ** * *
4259540 AAATGCCTACACATC-TTTCTTTCGTGCTAATTTTGGGATTATTAAA-GACATCTTCTATTGAAA
66 AAACGCCTACACATCTTTTC-CCCATGCTAATTTTGGGATTATTAAATG-CATCTTCTACTGAAA
4259603 AATGCCTTCAATATACTACGATTATAAAAGGCATTTATTCTA
129 AATGCCTTCAATATACTACGATTATAAAAGGCATTTATTCTA
* * * * * *
4259645 GGAAAACACTTTTAATATTTCTTTATAGGCTCAATACATAATTACTAAAGGTGTTTGTTAATAAC
1 GGAAAACACCTTTAATATTTCTTTATAAGCTCAATACATAATTACTAAAAGCGTATATTAATAAC
* * *
4259710 AAACGCCTACATATCTTTTCCCCATGCTAATTTTGGGATTATTAAATGCGTCTTCTACTGGAAAA
66 AAACGCCTACACATCTTTTCCCCATGCTAATTTTGGGATTATTAAATGCATCTTCTACTGAAAAA
*
4259775 TGCCTTTAATAT
131 TGCCTTCAATAT
4259787 TTTTTTTTAG
Statistics
Matches: 119, Mismatches: 21, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
170 114 0.96
171 5 0.04
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.38
Consensus pattern (170 bp):
GGAAAACACCTTTAATATTTCTTTATAAGCTCAATACATAATTACTAAAAGCGTATATTAATAAC
AAACGCCTACACATCTTTTCCCCATGCTAATTTTGGGATTATTAAATGCATCTTCTACTGAAAAA
TGCCTTCAATATACTACGATTATAAAAGGCATTTATTCTA
Found at i:4259783 original size:526 final size:526
Alignment explanation
Indices: 4258871--4259928 Score: 1448
Period size: 526 Copynumber: 2.0 Consensus size: 526
4258861 CATAATTACT
* *
4258871 GAAGGCGTTTGTTAATAACAAATGCCTATACATCCTTCCCTCATGCTAATTTTAGGATTATTAAA
1 GAAGGCGTTTGTTAATAACAAACGCCTACACATCCTTCCCTCATGCTAATTTTAGGATTATTAAA
* *
4258936 GGCATCTTCTATTGAAAAACATCTTTAATATTTCCTTTTAGGCTCAATACATTATTACTAAAAGC
66 GGCATCTTCTATTGAAAAACACCTTTAATATTTCCTTTTAAGCTCAATACATTATTACTAAAAGC
* * * *
4259001 GTTTATTAATAACAAATAACTACACATCATTTCTTTTAAAAAATTTTAGTATTTTTAAAGGCATC
131 GTATATTAATAACAAATAACTACACATCATTTCTTTTAAAAAATTTTAGGATTATTAAAGACATC
* * * * *
4259066 TTTTACTAGAAAACACCTTCAATAAACTATGGTTATAGAAGCCATTTATTCTAGGAAAACGCTTT
196 TTCTACTAGAAAACACCTTCAATAAACTACGATTATAAAAGCCATTTATTCTAGGAAAACACTTT
* * * *
4259131 TAATATTTCTTTTTAGGCTTAGTACATAATTACTGAAGGTGTTTGTTAATAACAAACGCCTACAC
261 TAATATTTCTTTATAGGCTCAATACATAATTACTAAAGGTGTTTGTTAATAACAAACGCCTACAC
*
4259196 ATCTTTCTCTAATGCTAATTTTGAGATTATTAAAGGCGTCTTCTACTGAAAAATACCTTTAATAT
326 ATCTTTCTCCAATGCTAATTTTGAGATTATTAAAGGCGTCTTCTACTGAAAAATACCTTTAATAT
* * *
4259261 TTTCTTTTAGGCTCGGTACATTATTACTGAAAGCT-TATATTAATAACAAATGCCTACACATTTT
391 TTTCTTTTAGGCTCAGTACATAATTACTG-AAGCTGTATATTAATAACAAATGCCTACACATCTT
*** *
4259325 TCCCT-TATGCTAATTTTGAGATTATTAAAGGCATC-TTCTATTAGAAAATGCCTTCAATATACT
455 TCCCTCTA-AAAAATTTTGAGATTATTAAAGGCATCATT-TACTAGAAAATGCCTTCAATATACT
4259388 ATGGTTATA
518 ATGGTTATA
* ** *
4259397 GAAGGCGTTTGTTAATAACAAACGCCTACACATCTTTCTTTCATGCTAATTTTGGGATTATTAAA
1 GAAGGCGTTTGTTAATAACAAACGCCTACACATCCTTCCCTCATGCTAATTTTAGGATTATTAAA
* * * ** **
4259462 GGCGTCTTCTATTGGAAAACACCTTTAATATTTCTTTTTAAGCTCGGTGTATTATTACTAAAAGC
66 GGCATCTTCTATTGAAAAACACCTTTAATATTTCCTTTTAAGCTCAATACATTATTACTAAAAGC
** *** *
4259527 GTATATTAATAACAAATGCCTACACATC-TTTCTTTCGT-GCTAATTTTGGGATTATTAAAGACA
131 GTATATTAATAACAAATAACTACACATCATTTCTTT--TAAAAAATTTTAGGATTATTAAAGACA
* * *
4259590 TCTTCTA-TTGAAAA-ATGCCTTCAATATACTACGATTATAAAAGGCATTTATTCTAGGAAAACA
194 TCTTCTACTAGAAAACA--CCTTCAATAAACTACGATTATAAAAGCCATTTATTCTAGGAAAACA
4259653 CTTTTAATATTTCTTTATAGGCTCAATACATAATTACTAAAGGTGTTTGTTAATAACAAACGCCT
257 CTTTTAATATTTCTTTATAGGCTCAATACATAATTACTAAAGGTGTTTGTTAATAACAAACGCCT
* * * * * *
4259718 ACATATCTTT-TCCCCATGCTAATTTTGGGATTATTAAATGCGTCTTCTACTGGAAAATGCCTTT
322 ACACATCTTTCT-CCAATGCTAATTTTGAGATTATTAAAGGCGTCTTCTACTGAAAAATACCTTT
* * * * *
4259782 AATATTTTTTTTTAGGTTCAGTACATAATTACTGAAGGTGTTTGTTAATAACAAATGCCTACACA
386 AATATTTTCTTTTAGGCTCAGTACATAATTACTGAAGCTGTATATTAATAACAAATGCCTACACA
* *
4259847 TCTTTCCCTCTAAAAAATTTTGGGATTATTAAAGGTATCATTTACTAGAAAATGCCTTCAATATA
451 TCTTTCCCTCTAAAAAATTTTGAGATTATTAAAGGCATCATTTACTAGAAAATGCCTTCAATATA
*
4259912 TTATGGTTATA
516 CTATGGTTATA
*
4259923 TAAGGC
1 GAAGGC
4259929 ATTTATTCTA
Statistics
Matches: 464, Mismatches: 60, Indels: 16
0.86 0.11 0.03
Matches are distributed among these distances:
524 1 0.00
525 18 0.04
526 440 0.95
527 5 0.01
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (526 bp):
GAAGGCGTTTGTTAATAACAAACGCCTACACATCCTTCCCTCATGCTAATTTTAGGATTATTAAA
GGCATCTTCTATTGAAAAACACCTTTAATATTTCCTTTTAAGCTCAATACATTATTACTAAAAGC
GTATATTAATAACAAATAACTACACATCATTTCTTTTAAAAAATTTTAGGATTATTAAAGACATC
TTCTACTAGAAAACACCTTCAATAAACTACGATTATAAAAGCCATTTATTCTAGGAAAACACTTT
TAATATTTCTTTATAGGCTCAATACATAATTACTAAAGGTGTTTGTTAATAACAAACGCCTACAC
ATCTTTCTCCAATGCTAATTTTGAGATTATTAAAGGCGTCTTCTACTGAAAAATACCTTTAATAT
TTTCTTTTAGGCTCAGTACATAATTACTGAAGCTGTATATTAATAACAAATGCCTACACATCTTT
CCCTCTAAAAAATTTTGAGATTATTAAAGGCATCATTTACTAGAAAATGCCTTCAATATACTATG
GTTATA
Found at i:4259832 original size:294 final size:294
Alignment explanation
Indices: 4259398--4259990 Score: 759
Period size: 294 Copynumber: 2.0 Consensus size: 294
4259388 ATGGTTATAG
**
4259398 AAGGCGTTTGTTAATAACAAACGCCTACACATCTTTCTTTCATGCTAATTTTGGGATTATTAAAG
1 AAGGCGTTTGTTAATAACAAACGCCTACACATCTTTCTCCCATGCTAATTTTGGGATTATTAAAG
* * ** *
4259463 GCGTCTTCTATTGGAAAACACCTTTAATATTTCTTTTTAAGCTCGGTGTATTATTACTAAAAGCG
66 GCGTCTTCTACTGGAAAACACCTTTAATATTTCTTTTTAAGCTCAGTACATAATTACTAAAAGCG
** ***
4259528 TATATTAATAACAAATGCCTACACATCTTTCTTTCGT-GCTAATTTTGGGATTATTAAAGACATC
131 TATATTAATAACAAATGCCTACACATCTTTCCCTC-TAAAAAATTTTGGGATTATTAAAGACATC
*
4259592 -TTCTA-TTGAAAAATGCCTTCAATATACTACGATTATAAAAGGCATTTATTCTAGGAAA-A-CA
195 ATT-TACTAG-AAAATGCCTTCAATATACTACGATTATAAAAGGCATTTATTCTAGGAAAGATC-
4259653 CTTTTAATATTT-CTTTATAGGCTCAATACATAATTACTA
257 C-TTTAATATTTCCTTT-TAGGCTCAATACATAATTACTA
* *
4259692 AAGGTGTTTGTTAATAACAAACGCCTACATATCTTT-TCCCCATGCTAATTTTGGGATTATTAAA
1 AAGGCGTTTGTTAATAACAAACGCCTACACATCTTTCT-CCCATGCTAATTTTGGGATTATTAAA
* ** * * * * * *
4259756 TGCGTCTTCTACTGGAAAATGCCTTTAATATTTTTTTTTAGGTTCAGTACATAATTACTGAAGGT
65 GGCGTCTTCTACTGGAAAACACCTTTAATATTTCTTTTTAAGCTCAGTACATAATTACTAAAAGC
* * **
4259821 GTTTGTTAATAACAAATGCCTACACATCTTTCCCTCTAAAAAATTTTGGGATTATTAAAGGTATC
130 GTATATTAATAACAAATGCCTACACATCTTTCCCTCTAAAAAATTTTGGGATTATTAAAGACATC
* * * *
4259886 ATTTACTAGAAAATGCCTTCAATATATTATGGTTATATAAGGCATTTATTCTAGGAAAGATCCTT
195 ATTTACTAGAAAATGCCTTCAATATACTACGATTATAAAAGGCATTTATTCTAGGAAAGATCCTT
* * *
4259951 TAATATTTCCTTTTGGGCTCAGTACATAATTACTG
260 TAATATTTCCTTTTAGGCTCAATACATAATTACTA
4259986 AAGGC
1 AAGGC
4259991 ATACGTTAAT
Statistics
Matches: 256, Mismatches: 36, Indels: 14
0.84 0.12 0.05
Matches are distributed among these distances:
293 2 0.01
294 243 0.95
295 10 0.04
296 1 0.00
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (294 bp):
AAGGCGTTTGTTAATAACAAACGCCTACACATCTTTCTCCCATGCTAATTTTGGGATTATTAAAG
GCGTCTTCTACTGGAAAACACCTTTAATATTTCTTTTTAAGCTCAGTACATAATTACTAAAAGCG
TATATTAATAACAAATGCCTACACATCTTTCCCTCTAAAAAATTTTGGGATTATTAAAGACATCA
TTTACTAGAAAATGCCTTCAATATACTACGATTATAAAAGGCATTTATTCTAGGAAAGATCCTTT
AATATTTCCTTTTAGGCTCAATACATAATTACTA
Found at i:4259866 original size:124 final size:124
Alignment explanation
Indices: 4259655--4259910 Score: 329
Period size: 124 Copynumber: 2.1 Consensus size: 124
4259645 GGAAAACACT
4259655 TTTAATATTTCTTTATAGGCTCAATACATAATTACTAAAGGTGTTTGTTAATAACAAACGCCTAC
1 TTTAATATTTCTTTATAGGCTCAATACATAATTACTAAAGGTGTTTGTTAATAACAAACGCCTAC
* *** * * *
4259720 ATATCTTTTCCCCATGCTAATTTTGGGATTATTAAATGCGTC-TTCTACTGGAAAATGCC
66 ACATCTTTTCCCCATAAAAATTTTGGGATTATTAAAGGCATCATT-TACTAGAAAATGCC
* * * * * *
4259779 TTTAATATTTTTTTTTAGGTTCAGTACATAATTACTGAAGGTGTTTGTTAATAACAAATGCCTAC
1 TTTAATATTTCTTTATAGGCTCAATACATAATTACTAAAGGTGTTTGTTAATAACAAACGCCTAC
*
4259844 ACATC-TTTCCCTC-TAAAAAATTTTGGGATTATTAAAGGTATCATTTACTAGAAAATGCC
66 ACATCTTTTCCC-CAT-AAAAATTTTGGGATTATTAAAGGCATCATTTACTAGAAAATGCC
*
4259903 TTCAATAT
1 TTTAATAT
4259911 ATTATGGTTA
Statistics
Matches: 114, Mismatches: 15, Indels: 6
0.84 0.11 0.04
Matches are distributed among these distances:
123 7 0.06
124 105 0.92
125 2 0.02
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (124 bp):
TTTAATATTTCTTTATAGGCTCAATACATAATTACTAAAGGTGTTTGTTAATAACAAACGCCTAC
ACATCTTTTCCCCATAAAAATTTTGGGATTATTAAAGGCATCATTTACTAGAAAATGCC
Found at i:4261030 original size:79 final size:80
Alignment explanation
Indices: 4260787--4261046 Score: 380
Period size: 80 Copynumber: 3.3 Consensus size: 80
4260777 GATAGAATCG
* * * *
4260787 TATGCTGAATGGTTTGTTGAACTTTGTTGTCTGATATTGTTTTGCTAAATGGATTTGTATGATAT
1 TATGCTGAATGGTTTGCTGAACATTGTTGTCTGATATTATTTTGCTGAATGGATTTGTATGATAT
4260852 TGGGGGACTGAATAC
66 TGGGGGACTGAATAC
* *
4260867 TATGCTGAATGGTTTGCTGAACATTGTTGTCTGATATTATTTTGTTGAATGGATTTGTATAATAT
1 TATGCTGAATGGTTTGCTGAACATTGTTGTCTGATATTATTTTGCTGAATGGATTTGTATGATAT
** *
4260932 TGGGGGGTTGAATAG
66 TGGGGGACTGAATAC
* *
4260947 TATGCTAAATGGTTTGCTGAACCTTGTTGTCTGATA-TATTTTGCTGAATGGATTTGTATGATAT
1 TATGCTGAATGGTTTGCTGAACATTGTTGTCTGATATTATTTTGCTGAATGGATTTGTATGATAT
*
4261011 TGGGGGCCTGAAT-C
66 TGGGGGACTGAATAC
*
4261025 ATATGCTGAATGATTTGCTGAA
1 -TATGCTGAATGGTTTGCTGAA
4261047 TGGTGTTTCT
Statistics
Matches: 161, Mismatches: 18, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
79 56 0.35
80 105 0.65
ACGTcount: A:0.23, C:0.08, G:0.26, T:0.42
Consensus pattern (80 bp):
TATGCTGAATGGTTTGCTGAACATTGTTGTCTGATATTATTTTGCTGAATGGATTTGTATGATAT
TGGGGGACTGAATAC
Found at i:4265577 original size:18 final size:18
Alignment explanation
Indices: 4265511--4265577 Score: 64
Period size: 18 Copynumber: 3.7 Consensus size: 18
4265501 TAGTGTCTTC
*
4265511 TTGAAACCCTAAACTTAC
1 TTGAAACCCTAAACTTAT
* * *
4265529 CTGAAACCCTAAACCTCT
1 TTGAAACCCTAAACTTAT
*
4265547 TT-AAAGCCCTAAACTTGT
1 TTGAAA-CCCTAAACTTAT
*
4265565 TTGAAACCTTAAA
1 TTGAAACCCTAAA
4265578 TCTTCACCAA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
17 3 0.08
18 33 0.85
19 3 0.08
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.28
Consensus pattern (18 bp):
TTGAAACCCTAAACTTAT
Found at i:4268309 original size:25 final size:24
Alignment explanation
Indices: 4268281--4268328 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
4268271 CAATTCTAGG
*
4268281 TATTTTGCTATATTAAAAGAAAATT
1 TATTTTG-TATACTAAAAGAAAATT
*
4268306 TATTTTGTATGCTAAAAGAAAAT
1 TATTTTGTATACTAAAAGAAAAT
4268329 ATTTTCAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.44, C:0.04, G:0.10, T:0.42
Consensus pattern (24 bp):
TATTTTGTATACTAAAAGAAAATT
Found at i:4274052 original size:20 final size:20
Alignment explanation
Indices: 4274027--4274072 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 20
4274017 TTTAGTCATA
4274027 TTATTTTAATGA-ATTTTTAC
1 TTATTTTAAT-ATATTTTTAC
4274047 TTATTTTAATATATTTTTAC
1 TTATTTTAATATATTTTTAC
4274067 TGTATT
1 T-TATT
4274073 AATTTCATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 19 0.79
21 4 0.17
ACGTcount: A:0.28, C:0.04, G:0.04, T:0.63
Consensus pattern (20 bp):
TTATTTTAATATATTTTTAC
Found at i:4276797 original size:21 final size:21
Alignment explanation
Indices: 4276772--4276822 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
4276762 CAAAATATAG
* *
4276772 ATTTTATTTTTTTAATAAATA
1 ATTTTATTTGTTTAACAAATA
* *
4276793 ATTTTAGTTGTTTACCAAATA
1 ATTTTATTTGTTTAACAAATA
4276814 ATTTTATTT
1 ATTTTATTT
4276823 AAAAAATTAT
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:0.33, C:0.04, G:0.04, T:0.59
Consensus pattern (21 bp):
ATTTTATTTGTTTAACAAATA
Found at i:4276927 original size:98 final size:98
Alignment explanation
Indices: 4276819--4277030 Score: 424
Period size: 98 Copynumber: 2.2 Consensus size: 98
4276809 AAATAATTTT
4276819 ATTTAAAAAATTATTTAATTATCAAAATCTTTCAAACATGTTTAAAAATTACAAAGATTAAGTTT
1 ATTTAAAAAATTATTTAATTATCAAAATCTTTCAAACATGTTTAAAAATTACAAAGATTAAGTTT
4276884 ATCTGAATTTTTCAATAATATTTTTTTATCTTG
66 ATCTGAATTTTTCAATAATATTTTTTTATCTTG
4276917 ATTTAAAAAATTATTTAATTATCAAAATCTTTCAAACATGTTTAAAAATTACAAAGATTAAGTTT
1 ATTTAAAAAATTATTTAATTATCAAAATCTTTCAAACATGTTTAAAAATTACAAAGATTAAGTTT
4276982 ATCTGAATTTTTCAATAATATTTTTTTATCTTG
66 ATCTGAATTTTTCAATAATATTTTTTTATCTTG
4277015 ATTTAAAAAATTATTT
1 ATTTAAAAAATTATTT
4277031 TTTAAGAAAA
Statistics
Matches: 114, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
98 114 1.00
ACGTcount: A:0.42, C:0.08, G:0.05, T:0.46
Consensus pattern (98 bp):
ATTTAAAAAATTATTTAATTATCAAAATCTTTCAAACATGTTTAAAAATTACAAAGATTAAGTTT
ATCTGAATTTTTCAATAATATTTTTTTATCTTG
Found at i:4277413 original size:48 final size:51
Alignment explanation
Indices: 4277340--4277435 Score: 144
Period size: 49 Copynumber: 1.9 Consensus size: 51
4277330 ACATCATTTT
*
4277340 ATTTTATTTTTTTAGTAATTTTTTTCAAAG-TATATTTTATTACTATTGCA
1 ATTTTATTTGTTTAGTAATTTTTTTCAAAGATATATTTTATTACTATTGCA
* *
4277390 ATTTT-TTTGTTTA-TAATTTTTTTCTAAGATATATTTTATTATTATT
1 ATTTTATTTGTTTAGTAATTTTTTTCAAAGATATATTTTATTACTATT
4277436 ACAGTTTCAT
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
48 14 0.33
49 23 0.55
50 5 0.12
ACGTcount: A:0.27, C:0.04, G:0.05, T:0.64
Consensus pattern (51 bp):
ATTTTATTTGTTTAGTAATTTTTTTCAAAGATATATTTTATTACTATTGCA
Found at i:4278243 original size:39 final size:39
Alignment explanation
Indices: 4278199--4278313 Score: 105
Period size: 39 Copynumber: 2.9 Consensus size: 39
4278189 AAATAATTCC
4278199 ATTTAATAAATTATTTAAATTTAATATTTTTAGATAATT
1 ATTTAATAAATTATTTAAATTTAATATTTTTAGATAATT
* ** *
4278238 ATTTAAATTCAAATTA--AAAATTATCAA-A-AATTA-AAAATT
1 ATTT-AA-T-AAATTATTTAAATT-T-AATATTTTTAGATAATT
*
4278277 ATTTAATAGATTATTTAAATTTAATATTTTTAGATAA
1 ATTTAATAAATTATTTAAATTTAATATTTTTAGATAA
4278314 GTTAATAAAT
Statistics
Matches: 57, Mismatches: 9, Indels: 20
0.66 0.10 0.23
Matches are distributed among these distances:
36 7 0.12
37 3 0.05
38 10 0.18
39 16 0.28
40 10 0.18
41 3 0.05
42 8 0.14
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.47
Consensus pattern (39 bp):
ATTTAATAAATTATTTAAATTTAATATTTTTAGATAATT
Found at i:4279556 original size:27 final size:28
Alignment explanation
Indices: 4279519--4279577 Score: 102
Period size: 27 Copynumber: 2.1 Consensus size: 28
4279509 CTACGATTAG
*
4279519 ACATAGACTCCTAATCCAACAAAACACA
1 ACATAGACTCCTAATCCAAAAAAACACA
4279547 ACATA-ACTCCTAATCCAAAAAAACACA
1 ACATAGACTCCTAATCCAAAAAAACACA
4279574 ACAT
1 ACAT
4279578 TAACCACGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 25 0.83
28 5 0.17
ACGTcount: A:0.53, C:0.31, G:0.02, T:0.15
Consensus pattern (28 bp):
ACATAGACTCCTAATCCAAAAAAACACA
Found at i:4287404 original size:15 final size:16
Alignment explanation
Indices: 4287373--4287405 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4287363 AATATGATAT
*
4287373 AATGATATAATATAAA
1 AATGATACAATATAAA
4287389 AATGATACAA-ATAAA
1 AATGATACAATATAAA
4287404 AA
1 AA
4287406 AATAAAACTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.67, C:0.03, G:0.06, T:0.24
Consensus pattern (16 bp):
AATGATACAATATAAA
Found at i:4290976 original size:86 final size:87
Alignment explanation
Indices: 4290773--4291020 Score: 286
Period size: 86 Copynumber: 2.8 Consensus size: 87
4290763 TGGCCTCACC
* *
4290773 TTTTATACCCCAGTGACCCTCCTATTATGTTCGATGTGAGATTCAGGACTCTTCTTTAGGTCC-T
1 TTTTATACCCCAGTGACCTTCCTATTATGTTCGATGTGGGATTCAGGACTCTTCTTTAGGTCCGT
* ***** *
4290837 CACAAGGAAGAGATAGTGTAAACCT
66 GAC-A--TTCTCACAGTGTAAACCT
* *
4290862 TTTTATACCCCAGTGACCCTT-CTATTATGTTCGATATGGGATTCAGGACTCTTCTTTAAGTCCG
1 TTTTATACCCCAGTGA-CCTTCCTATTATGTTCGATGTGGGATTCAGGACTCTTCTTTAGGTCCG
* *
4290926 TGACATTCTCCCA-TGTAAACTT
65 TGACATTCTCACAGTGTAAACCT
* * * *
4290948 TTTTATACCCTAGTGACCTTCCTATTATGTTCGATGTCGGATTCAAGACTCTTCCTTAGGTCCGT
1 TTTTATACCCCAGTGACCTTCCTATTATGTTCGATGTGGGATTCAGGACTCTTCTTTAGGTCCGT
4291013 GACATTCT
66 GACATTCT
4291021 TCCGCACCCA
Statistics
Matches: 137, Mismatches: 19, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
85 4 0.03
86 70 0.51
87 1 0.01
89 56 0.41
90 6 0.04
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.37
Consensus pattern (87 bp):
TTTTATACCCCAGTGACCTTCCTATTATGTTCGATGTGGGATTCAGGACTCTTCTTTAGGTCCGT
GACATTCTCACAGTGTAAACCT
Found at i:4291429 original size:23 final size:23
Alignment explanation
Indices: 4291399--4291447 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
4291389 TTAAGACATC
4291399 CCTAACACACCGCTTCAAGTTCT
1 CCTAACACACCGCTTCAAGTTCT
4291422 CCTAACACACCGCTTCAAGTTCT
1 CCTAACACACCGCTTCAAGTTCT
4291445 CCT
1 CCT
4291448 GCATACATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.24, C:0.41, G:0.08, T:0.27
Consensus pattern (23 bp):
CCTAACACACCGCTTCAAGTTCT
Found at i:4294391 original size:22 final size:22
Alignment explanation
Indices: 4294365--4294406 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
4294355 TATATTTATA
**
4294365 TTTGTATCTTTAGAATTAAGTT
1 TTTGTATCCCTAGAATTAAGTT
4294387 TTTGTATCCCTAGAATTAAG
1 TTTGTATCCCTAGAATTAAG
4294407 GAAGATTTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.29, C:0.10, G:0.14, T:0.48
Consensus pattern (22 bp):
TTTGTATCCCTAGAATTAAGTT
Found at i:4298289 original size:22 final size:22
Alignment explanation
Indices: 4298263--4298305 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
4298253 TGTATATTTA
* *
4298263 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAAAATTAAG
4298285 TATTTGTATCCCTAAAATTAA
1 TATTTGTATCCCTAAAATTAA
4298306 AGAAGATTTA
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:0.35, C:0.12, G:0.09, T:0.44
Consensus pattern (22 bp):
TATTTGTATCCCTAAAATTAAG
Found at i:4312038 original size:2 final size:2
Alignment explanation
Indices: 4312031--4312067 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
4312021 TAATATAAAA
*
4312031 AG AG AG AG AA AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
4312068 AAGAAACTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (2 bp):
AG
Found at i:4312044 original size:10 final size:10
Alignment explanation
Indices: 4312029--4312071 Score: 63
Period size: 10 Copynumber: 4.5 Consensus size: 10
4312019 TGTAATATAA
4312029 AAAGAGAGAG
1 AAAGAGAGAG
4312039 AAAGAGAGAG
1 AAAGAGAGAG
4312049 --AGAGAGAG
1 AAAGAGAGAG
*
4312057 AGAGAGAGAG
1 AAAGAGAGAG
4312067 AAAGA
1 AAAGA
4312072 AACTCTGACA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
8 8 0.27
10 22 0.73
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (10 bp):
AAAGAGAGAG
Found at i:4317171 original size:159 final size:156
Alignment explanation
Indices: 4316855--4317175 Score: 428
Period size: 159 Copynumber: 2.0 Consensus size: 156
4316845 CGGCTAAATT
* * * *
4316855 AATTTTTTGCAAGACTCAATATCCTCCATCTTTTCCTTCCCTTATCAATTAAACAAGTAGCTGAA
1 AATTTTTTGCAAGACTCAATATCCTCCATCATTTCCTTCCCTTATCAATCAAACAACTAACTGAA
* *
4316920 AAAGTCACAAAAGATATAAATCCCTCTTTCCCACCAACAAATAAGAGAAAAAATAAAAGCAATTG
66 AAAGTCACAAAAAATATAAATCCCTCTCTCCCACCAACAAATAAGAGAAAAAATAAAAGCAATTG
4316985 GAACCAAAAAAAATAAATAAATAAAATAA
131 GAA-CAAAAAAAATAAAT--ATAAAATAA
* * *
4317014 AATTTTTTGCAAGACTCGATATTCTCCATCATTTCCTTCTCTTATCAATCAAACAACTAACTGAA
1 AATTTTTTGCAAGACTCAATATCCTCCATCATTTCCTTCCCTTATCAATCAAACAACTAACTGAA
*
4317079 AAAGTCACAAAAAAAATTATAAATCCCTGTCTCCTCTACCAACAAATAAGAGAAACAAATAAAAG
66 AAAGTCAC--AAAAAA-TATAAATCCCTCTCTCC-C-ACCAACAAATAAGAGAAA-AAATAAAAG
*
4317144 CAATTTGGAAACAAAAGAAAATTAA-ATAAAAT
125 CAA-TTGG-AACAAAA-AAAATAAATATAAAAT
4317176 GAATTTGGTT
Statistics
Matches: 142, Mismatches: 11, Indels: 13
0.86 0.07 0.08
Matches are distributed among these distances:
159 66 0.46
161 5 0.04
162 15 0.11
163 1 0.01
164 25 0.18
165 12 0.08
166 9 0.06
167 9 0.06
ACGTcount: A:0.47, C:0.19, G:0.07, T:0.26
Consensus pattern (156 bp):
AATTTTTTGCAAGACTCAATATCCTCCATCATTTCCTTCCCTTATCAATCAAACAACTAACTGAA
AAAGTCACAAAAAATATAAATCCCTCTCTCCCACCAACAAATAAGAGAAAAAATAAAAGCAATTG
GAACAAAAAAAATAAATATAAAATAA
Found at i:4325383 original size:2 final size:2
Alignment explanation
Indices: 4325376--4325405 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
4325366 TCTTACAAGG
*
4325376 TC TC TC TC TC TC TC TC TC TC TC TA TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
4325406 AAGTATATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.03, C:0.47, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:4329468 original size:2 final size:2
Alignment explanation
Indices: 4329461--4329493 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
4329451 GCTATTACTC
4329461 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4329494 TTTATGTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4335228 original size:4 final size:4
Alignment explanation
Indices: 4335219--4335264 Score: 67
Period size: 4 Copynumber: 11.8 Consensus size: 4
4335209 GAATTTTTAA
* *
4335219 TATT TATT TATT TATT TATT TATT TATT TATT CATT T-TA TATT TAT
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TAT
4335265 ATCATTCATG
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
3 2 0.05
4 35 0.95
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (4 bp):
TATT
Found at i:4335726 original size:20 final size:20
Alignment explanation
Indices: 4335682--4335728 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
4335672 TTTCTTATTA
* *
4335682 CATTCATGCATACATGCTTT
1 CATTCATGCATACATACATT
* *
4335702 AATTCATGCATTCATACATT
1 CATTCATGCATACATACATT
4335722 CATTCAT
1 CATTCAT
4335729 ATATTATTCC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.23, G:0.06, T:0.40
Consensus pattern (20 bp):
CATTCATGCATACATACATT
Found at i:4336153 original size:133 final size:136
Alignment explanation
Indices: 4335948--4336244 Score: 376
Period size: 133 Copynumber: 2.2 Consensus size: 136
4335938 AAATTCTTAC
* *
4335948 TATGCATTACATACATGTATTTGCATATGCATACATCCATGTAAATATCTTTGTATGTATGTTAT
1 TATGCATTACATACATGTATTTGCATATGCATACAT-CATGTAAACATCTTTATATGTATGTTAT
* *
4336013 TTCATTTGTTT-GAGAAAATATTTACCTTTTCAATTTTGTACATAGTTTTGGACATGAATTTTTG
65 TTCATTTGTTTAG-GAAAATATTTACCGTTTCAATTTTGTACATAGTTTTGAACATGAATTTTTG
4336077 TTTTCATT
129 TTTTCATT
**
4336085 TATGCATTGTATACATGTATTTGCATATAG-AT-C-T-ATGTAAACATCTTTATATGTATGTTAT
1 TATGCATTACATACATGTATTTGCATAT-GCATACATCATGTAAACATCTTTATATGTATGTTAT
* * * *
4336146 TTCATTTGTTTAGGAAAATCTTTGCCGTTTCAATTTTGTATATAGTTTTGAATATGAATTATTT-
65 TTCATTTGTTTAGGAAAATATTTACCGTTTCAATTTTGTACATAGTTTTGAACATGAATT-TTTG
4336210 TTGTT-A-T
129 TT-TTCATT
* * *
4336217 TATACAATACATACATGTATTTGTATAT
1 TATGCATTACATACATGTATTTGCATAT
4336245 ATATATATAT
Statistics
Matches: 141, Mismatches: 15, Indels: 13
0.83 0.09 0.08
Matches are distributed among these distances:
132 24 0.17
133 80 0.57
134 6 0.04
135 1 0.01
136 1 0.01
137 28 0.20
138 1 0.01
ACGTcount: A:0.29, C:0.10, G:0.12, T:0.48
Consensus pattern (136 bp):
TATGCATTACATACATGTATTTGCATATGCATACATCATGTAAACATCTTTATATGTATGTTATT
TCATTTGTTTAGGAAAATATTTACCGTTTCAATTTTGTACATAGTTTTGAACATGAATTTTTGTT
TTCATT
Found at i:4336371 original size:2 final size:2
Alignment explanation
Indices: 4336366--4336394 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
4336356 TGTGTGTGTG
4336366 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4336395 TTCATCTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4339213 original size:44 final size:43
Alignment explanation
Indices: 4339119--4339384 Score: 139
Period size: 44 Copynumber: 6.0 Consensus size: 43
4339109 ATTTTTATTT
* * * *
4339119 TTTTTTGAATGAA-AATCTTTAAAATTTTGATGTGAAGCCATAAA
1 TTTTTTGAA-AAAGAATCTTTGAAATTTGGATGTGAATCCA-AAA
** *
4339163 -GGTTTGAAAAAGAACCTTTGAAACTTTGGATGTGAATCCAAAA
1 TTTTTTGAAAAAGAATCTTTGAAA-TTTGGATGTGAATCCAAAA
* * * * * *
4339206 TTTTTTGAATATGAATATTTGAAATGTTGGATATGAAACTTAAAA
1 TTTTTTGAAAAAGAATCTTTGAAAT-TTGGATGTGAATC-CAAAA
* * ** * * * *
4339251 ATTTTCGAATGAGAATTTTTGAAATTTTTGATATTAATTCCAAAA
1 TTTTTTGAAAAAGAATCTTTGAAA-TTTGGATGTGAA-TCCAAAA
* * *
4339296 -TTTTTCAAATGAA-AAT-TTTGAAATGTTGAATGTGAAAACCAAAA
1 TTTTTTGAAA--AAGAATCTTTGAAAT-TTGGATGTG-AATCCAAAA
*
4339340 TTTTTT-AAATAAGAATCTTTGAAATTTTGGATGCGAATACCAAAA
1 TTTTTTGAAA-AAGAATCTTTGAAA-TTTGGATGTGAAT-CCAAAA
4339385 ATCTTTAAAA
Statistics
Matches: 168, Mismatches: 38, Indels: 31
0.71 0.16 0.13
Matches are distributed among these distances:
42 2 0.01
43 22 0.13
44 74 0.44
45 66 0.39
46 4 0.02
ACGTcount: A:0.40, C:0.07, G:0.15, T:0.38
Consensus pattern (43 bp):
TTTTTTGAAAAAGAATCTTTGAAATTTGGATGTGAATCCAAAA
Found at i:4339272 original size:89 final size:88
Alignment explanation
Indices: 4339172--4339384 Score: 223
Period size: 89 Copynumber: 2.4 Consensus size: 88
4339162 AGGTTTGAAA
* * * * *
4339172 AAGAACCTTTGAAACTTTGGATGTGAATCCAAAATTTTTTGAATATGAATA-TTTGAAATGTTGG
1 AAGAATCTTTGAAATTTTGGATGTGAATCCAAAA-TTTTTCAA-ATGAAAATTTTGAAATGTTGA
* *
4339236 ATATG-AAACTTAAAAATTTTCGAAT
64 ATATGAAAAC-CAAAAATTTTCAAAT
* * * * *
4339261 GAGAATTTTTGAAATTTTTGATATTAATTCCAAAATTTTTCAAATGAAAATTTTGAAATGTTGAA
1 AAGAATCTTTGAAATTTTGGATGTGAA-TCCAAAATTTTTCAAATGAAAATTTTGAAATGTTGAA
* * *
4339326 TGTGAAAACCAAAATTTTTTAAAT
65 TATGAAAACCAAAAATTTTCAAAT
*
4339350 AAGAATCTTTGAAATTTTGGATGCGAATACCAAAA
1 AAGAATCTTTGAAATTTTGGATGTGAAT-CCAAAA
4339385 ATCTTTAAAA
Statistics
Matches: 99, Mismatches: 21, Indels: 8
0.77 0.16 0.06
Matches are distributed among these distances:
88 7 0.07
89 81 0.82
90 11 0.11
ACGTcount: A:0.41, C:0.08, G:0.14, T:0.38
Consensus pattern (88 bp):
AAGAATCTTTGAAATTTTGGATGTGAATCCAAAATTTTTCAAATGAAAATTTTGAAATGTTGAAT
ATGAAAACCAAAAATTTTCAAAT
Found at i:4339382 original size:45 final size:45
Alignment explanation
Indices: 4339119--4339393 Score: 188
Period size: 45 Copynumber: 6.2 Consensus size: 45
4339109 ATTTTTATTT
* * *
4339119 TTTTTTGAATGAA-AATCTTTAAAATTTT-GATGTGAA-GCCATAAA
1 TTTTTTAAAT-AAGAATCTTTGAAATTTTGGATGTGAATACCA-AAA
** * * *
4339163 GGTTTGAAA-AAGAACCTTTGAAACTTTGGATGTGAAT-CCAAAA
1 TTTTTTAAATAAGAATCTTTGAAATTTTGGATGTGAATACCAAAA
* * * * * *
4339206 TTTTTTGAATATGAATATTTGAAATGTTGGATATGAA-ACTTAAAA
1 TTTTTTAAATAAGAATCTTTGAAATTTTGGATGTGAATAC-CAAAA
* ** * * * * * *
4339251 ATTTTCGAATGAGAATTTTTGAAATTTTTGATATTAATTCCAAAA
1 TTTTTTAAATAAGAATCTTTGAAATTTTGGATGTGAATACCAAAA
* * * *
4339296 TTTTTCAAATGAA-AAT-TTTGAAATGTTGAATGTGAAAACCAAAA
1 TTTTTTAAAT-AAGAATCTTTGAAATTTTGGATGTGAATACCAAAA
*
4339340 TTTTTTAAATAAGAATCTTTGAAATTTTGGATGCGAATACCAAAA
1 TTTTTTAAATAAGAATCTTTGAAATTTTGGATGTGAATACCAAAA
* *
4339385 ATCTTTAAA
1 TTTTTTAAA
4339394 ATTTTGATGT
Statistics
Matches: 176, Mismatches: 45, Indels: 19
0.73 0.19 0.08
Matches are distributed among these distances:
42 2 0.01
43 22 0.12
44 71 0.40
45 79 0.45
46 2 0.01
ACGTcount: A:0.40, C:0.07, G:0.14, T:0.38
Consensus pattern (45 bp):
TTTTTTAAATAAGAATCTTTGAAATTTTGGATGTGAATACCAAAA
Found at i:4339552 original size:22 final size:23
Alignment explanation
Indices: 4339488--4339552 Score: 55
Period size: 22 Copynumber: 2.9 Consensus size: 23
4339478 CAAATGTTAG
4339488 ATGTGAAAT-ATAAAATTTTTCGA
1 ATGTG-AATCATAAAATTTTTCGA
** * *
4339511 ATGAAAATCTTTGAAA-TTTT-GA
1 ATGTGAATC-ATAAAATTTTTCGA
4339533 ATGTGAATCATAAAATTTTT
1 ATGTGAATCATAAAATTTTT
4339553 TTAATGAGAA
Statistics
Matches: 31, Mismatches: 8, Indels: 7
0.67 0.17 0.15
Matches are distributed among these distances:
21 4 0.13
22 16 0.52
23 7 0.23
24 4 0.13
ACGTcount: A:0.42, C:0.05, G:0.12, T:0.42
Consensus pattern (23 bp):
ATGTGAATCATAAAATTTTTCGA
Found at i:4339593 original size:75 final size:76
Alignment explanation
Indices: 4339500--4339639 Score: 174
Period size: 75 Copynumber: 1.9 Consensus size: 76
4339490 GTGAAATATA
* * * * *
4339500 AAATTTTTCGAATGAAAATCTTTGAAATTTTGAATGTGAA-TCATAAAATTTTTTTAATGAGAAT
1 AAATTTTTCAAATGAAAATCTTTAAAACTTTGAATGTAAATTCATAAAATTTTTTGAATGAGAAT
4339564 CTTTTACCCAG
66 CTTTTACCCAG
* * * ** *
4339575 AAATTTTTTAAATTAAAATCTTTAAAACTTTGGATGTAAATTTTTAAAATTTTTTGAATGTGAAT
1 AAATTTTTCAAATGAAAATCTTTAAAACTTTGAATGTAAATTCATAAAATTTTTTGAATGAGAAT
4339640 ATCTAACTTT
Statistics
Matches: 53, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
75 33 0.62
76 20 0.38
ACGTcount: A:0.39, C:0.06, G:0.11, T:0.44
Consensus pattern (76 bp):
AAATTTTTCAAATGAAAATCTTTAAAACTTTGAATGTAAATTCATAAAATTTTTTGAATGAGAAT
CTTTTACCCAG
Found at i:4339784 original size:46 final size:44
Alignment explanation
Indices: 4339431--4339824 Score: 152
Period size: 46 Copynumber: 8.5 Consensus size: 44
4339421 AAAAAGAACC
* * * * *
4339431 TTTGAAACTTTGGATGTGAATC-CAAAATTTTTTGAATATGAATA
1 TTTGAAATTTTGGATGTAAATCTTAAAA-TTTTTGAATGTGAATT
* * * * ** *
4339475 TTTCAAATGTTAGATGTGAAAT-ATAAAATTTTTCGAATGAAAATC
1 TTTGAAATTTTGGATGT-AAATCTTAAAATTTTT-GAATGTGAATT
* * * * *
4339520 TTTGAAATTTTGAATGTGAATCATAAAATTTTTTTAATGAGAATCT
1 TTTGAAATTTTGGATGTAAATCTTAAAA-TTTTTGAATGTGAAT-T
** * * *
4339566 TTTACCCAGAAATTTTTTAAAT-TAAAATCTTTAAAA-CTTTGGATGTAAATT
1 TTT-----GAAA--TTTTGGATGT-AAATC-TTAAAATTTTTGAATGTGAATT
* * * * * *
4339617 TTTAAAATTTTTTGAATGTGAATATC-T-AACTTTTCGAATATGAGTT
1 TTTGAAA--TTTTGGATGT-AA-ATCTTAAAATTTTTGAATGTGAATT
* * *
4339663 TTTGAAACTTTAGATGTAAATCTCTAAAAATTTTTGAAGGTGAATAAT
1 TTTGAAATTTTGGATGTAAATCT-T-AAAATTTTTGAATGTGAAT--T
* **
4339711 TTTTAAATTTTGGATGGGAATCCTTAAAATTTTTCGAATGTGAATT
1 TTTGAAATTTTGGATGTAAAT-CTTAAAATTTTT-GAATGTGAATT
* * * *
4339757 TTTGAAATTTTGGTTGTAAAATGTTAAAGTTTTTAAATGTGAATT
1 TTTGAAATTTTGGATGT-AAATCTTAAAATTTTTGAATGTGAATT
* * *
4339802 TTTAAAATTTTTGATGTGAATCT
1 TTTGAAATTTTGGATGTAAATCT
4339825 CTAAGTTTTT
Statistics
Matches: 260, Mismatches: 63, Indels: 54
0.69 0.17 0.14
Matches are distributed among these distances:
42 3 0.01
43 2 0.01
44 33 0.13
45 67 0.26
46 74 0.28
47 15 0.06
48 30 0.12
49 2 0.01
51 8 0.03
52 10 0.04
53 11 0.04
54 5 0.02
ACGTcount: A:0.36, C:0.06, G:0.14, T:0.44
Consensus pattern (44 bp):
TTTGAAATTTTGGATGTAAATCTTAAAATTTTTGAATGTGAATT
Found at i:4339806 original size:23 final size:22
Alignment explanation
Indices: 4339689--4339822 Score: 70
Period size: 22 Copynumber: 5.8 Consensus size: 22
4339679 TAAATCTCTA
*
4339689 AAAATTTTTGAAGGTGAATAATTTT
1 AAAATTTTT-AATGTGAAT--TTTT
* ** * **
4339714 TAAATTTTGGATGGGAATCCTT
1 AAAATTTTTAATGTGAATTTTT
4339736 AAAATTTTTCGAATGTGAATTTTT
1 AAAATTTTT--AATGTGAATTTTT
* *** * * *
4339760 GAAATTTTGGTTGTAAAATGTT
1 AAAATTTTTAATGTGAATTTTT
*
4339782 AAAGTTTTTAAATGTGAATTTTT
1 AAAATTTTT-AATGTGAATTTTT
*
4339805 AAAATTTTTGATGTGAAT
1 AAAATTTTTAATGTGAAT
4339823 CTCTAAGTTT
Statistics
Matches: 76, Mismatches: 30, Indels: 9
0.66 0.26 0.08
Matches are distributed among these distances:
22 31 0.41
23 16 0.21
24 22 0.29
25 7 0.09
ACGTcount: A:0.34, C:0.02, G:0.17, T:0.46
Consensus pattern (22 bp):
AAAATTTTTAATGTGAATTTTT
Found at i:4339901 original size:79 final size:80
Alignment explanation
Indices: 4339806--4339962 Score: 203
Period size: 79 Copynumber: 2.0 Consensus size: 80
4339796 TGAATTTTTA
* * * * ** *
4339806 AAATTTTTGATGTGAATCTCTAAGTTTTTTTAAT-AGAAATCTTTAACTTTT-GA-GTGAATCTC
1 AAATTTTGGATATGAATCCCTAAATTTTTCAAATGA-AAATCTTTAACTTTTGGATGTGAATATC
*
4339868 TAAAAGTTTTTGAATAT
65 TAAAA-TTTTCGAATAT
4339885 AAATTTTGGATATGAATCCCTAAATTTTTCAAATGAAAATCTTTAACTTTTGGATGTGAATATCT
1 AAATTTTGGATATGAATCCCTAAATTTTTCAAATGAAAATCTTTAACTTTTGGATGTGAATATCT
4339950 AAAATTTTCGAAT
66 AAAATTTTCGAAT
4339963 GAGAATTTTA
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
79 43 0.64
80 11 0.16
81 13 0.19
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.44
Consensus pattern (80 bp):
AAATTTTGGATATGAATCCCTAAATTTTTCAAATGAAAATCTTTAACTTTTGGATGTGAATATCT
AAAATTTTCGAATAT
Found at i:4339952 original size:44 final size:43
Alignment explanation
Indices: 4339888--4339973 Score: 109
Period size: 44 Copynumber: 2.0 Consensus size: 43
4339878 TGAATATAAA
* *
4339888 TTTTGGATATGAATCCCTAAATTTTTCAAATGAAAATCTTTAAC
1 TTTTGGATATGAATACCTAAAATTTTCAAATGAAAAT-TTTAAC
* * * *
4339932 TTTTGGATGTGAATATCTAAAATTTTCGAATGAGAATTTTAA
1 TTTTGGATATGAATACCTAAAATTTTCAAATGAAAATTTTAA
4339974 ATTCTTAAGG
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
43 5 0.14
44 31 0.86
ACGTcount: A:0.36, C:0.09, G:0.13, T:0.42
Consensus pattern (43 bp):
TTTTGGATATGAATACCTAAAATTTTCAAATGAAAATTTTAAC
Found at i:4340160 original size:17 final size:17
Alignment explanation
Indices: 4340113--4340162 Score: 64
Period size: 18 Copynumber: 2.9 Consensus size: 17
4340103 TATAGTTTGG
*
4340113 AAATCTTGCTAATCTAA
1 AAATCTTGCGAATCTAA
*
4340130 AAATTCTTGTGAATCTAA
1 AAA-TCTTGCGAATCTAA
*
4340148 AAATCTTACGAATCT
1 AAATCTTGCGAATCT
4340163 TTTATCTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
17 13 0.46
18 15 0.54
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (17 bp):
AAATCTTGCGAATCTAA
Found at i:4343976 original size:2 final size:2
Alignment explanation
Indices: 4343971--4343995 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4343961 TATATATATA
4343971 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
4343996 TATAACAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:4347129 original size:25 final size:25
Alignment explanation
Indices: 4347091--4347138 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
4347081 TAGATGCCTA
*
4347091 TGTGTCCATAGAAACTAAGTTTATC
1 TGTGTACATAGAAACTAAGTTTATC
*
4347116 TGTGTACATGGAAACTAAGTTTA
1 TGTGTACATAGAAACTAAGTTTA
4347139 GACATAATTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.35
Consensus pattern (25 bp):
TGTGTACATAGAAACTAAGTTTATC
Found at i:4347697 original size:294 final size:287
Alignment explanation
Indices: 4347179--4348029 Score: 1001
Period size: 294 Copynumber: 3.0 Consensus size: 287
4347169 ATTAAATTGC
* *
4347179 TGTCTTGTTTATTGAAAGATGAGGGAAATGAAATGTCAGCCGAACAAGTTGATAAATACTAAGTT
1 TGTCTTGTTTATTGAAAGATGAGGGAAATGAAATGTCAGCCGAACAAGTTAACAAATACTAAGTT
** ** *
4347244 AATGTTTGATATTTGACTAT--AGTTTAACTTAGTTTGAGATGATTATTGCA---TTT-TTGT--
66 -ATGTTCAATATTCAAC-ATGCAGTTGAACTTAGTTTGAGATGATTATTGCATTTTTTGTTGTAC
* * *
4347301 T-ATTGTAAAGCATGTAATGATGCAGTCTTGGATGATCATTGTCGTGTTGTGTGTTAACT-TGT-
129 TCATTGTAAAGCATGTAATGATGCAGTCTTGGATGATCATTGTCATGTTGTGTGTTAGCTCTCTC
4347363 TTACCAGTAGGTAATGGTCAAAAGTGATGATCCCATTCATATGCCTCTCCTCTTTCCCTACTCCT
194 TTA-C--TAGGTAATGGTCAAAAGTGATGATCCCATTCATATGCCT-TCCTCTTTCCCTACTCCT
* * *
4347428 AGGGTCAGGTGCTAAGGTTGGTGTGTAGCTAAG
255 AGGGTCAGGTGCTAAGGTTAGTGCGTAGCAAAG
*
4347461 TGTCTTGTTTATTGAAAGATGAGGGAAATGAAATGTCAGCCGAACAAGTTCACAAATACTAAGTT
1 TGTCTTGTTTATTGAAAGATGAGGGAAATGAAATGTCAGCCGAACAAGTTAACAAATACTAAGTT
4347526 GATGTTCAATATTCAACATGCAGTTGAACTTAGTTTGAGATGATTATTGCATTTTTTATTGTTGT
66 -ATGTTCAATATTCAACATGCAGTTGAACTTAGTTTGAGATGATTATTGCA--TTTT-TTGTTGT
* * *
4347591 AACGTCATTGTGAAGCAT-TAATGATGCAGTCGTGGATGATCATTGTCATGTTGTCTGTTAGCTC
127 -AC-TCATTGTAAAGCATGTAATGATGCAGTCTTGGATGATCATTGTCATGTTGTGTGTTAGCTC
*
4347655 ATCTCTTACTAGGTAATGGTCAAAAGTGATGATCCCATTCATATGCCTATCCTCTTTCCCTACAC
190 -TCTCTTACTAGGTAATGGTCAAAAGTGATGATCCCATTCATATGCCT-TCCTCTTTCCCTACTC
* * *
4347720 CTACGATCAGGTGCTAAGGTTAGTGCGTGGCAAAG
253 CTAGGGTCAGGTGCTAAGGTTAGTGCGTAGCAAAG
* ** *
4347755 TGTCTTGTTTATTGAATGACAAGGGAAAT-AAA-G-C-GTCTG--C-AG--AACAAATACTAAGT
1 TGTCTTGTTTATTGAAAGATGAGGGAAATGAAATGTCAG-CCGAACAAGTTAACAAATACTAAGT
* * ** * * *
4347811 TATTTTTCAACATTCTTCA-GTCAGTTGAACTTAGTTTGAGATGATTATTATGAATTTGTTGTCG
65 TA-TGTTCAATATTCAACATG-CAGTTGAACTTAGTTTGAGATGATTA-T-TGCATTTTTTGTTG
*
4347875 TAGCTTCATTGTAAAGCATGTAATGATGCAGTCTTGGATGATCATTGTCATGTTGTGTGTTAGCC
126 TA-C-TCATTGTAAAGCATGTAATGATGCAGTCTTGGATGATCATTGTCATGTTGTGTGTTAGCT
* * * *
4347940 CGTCTCTCAGTGGGTAATGGTCAAAAGTGATGATCCCATTCATATG-CTTACCTCTTTCCTTACT
189 C-TCTCTTACTAGGTAATGGTCAAAAGTGATGATCCCATTCATATGCCTT-CCTCTTTCCCTACT
4348004 CCTAGGGTCAGGTGCTAAGGTTAGTG
252 CCTAGGGTCAGGTGCTAAGGTTAGTG
4348030 GATAGGGAAG
Statistics
Matches: 497, Mismatches: 47, Indels: 47
0.84 0.08 0.08
Matches are distributed among these distances:
281 2 0.00
282 75 0.15
283 29 0.06
284 2 0.00
285 60 0.12
286 139 0.28
287 1 0.00
288 6 0.01
289 3 0.01
290 5 0.01
291 3 0.01
292 1 0.00
293 3 0.01
294 151 0.30
295 11 0.02
296 3 0.01
297 3 0.01
ACGTcount: A:0.27, C:0.15, G:0.22, T:0.36
Consensus pattern (287 bp):
TGTCTTGTTTATTGAAAGATGAGGGAAATGAAATGTCAGCCGAACAAGTTAACAAATACTAAGTT
ATGTTCAATATTCAACATGCAGTTGAACTTAGTTTGAGATGATTATTGCATTTTTTGTTGTACTC
ATTGTAAAGCATGTAATGATGCAGTCTTGGATGATCATTGTCATGTTGTGTGTTAGCTCTCTCTT
ACTAGGTAATGGTCAAAAGTGATGATCCCATTCATATGCCTTCCTCTTTCCCTACTCCTAGGGTC
AGGTGCTAAGGTTAGTGCGTAGCAAAG
Found at i:4355946 original size:15 final size:14
Alignment explanation
Indices: 4355928--4355974 Score: 55
Period size: 13 Copynumber: 3.5 Consensus size: 14
4355918 TAATTTTATT
4355928 AATATAATACATATA
1 AATATAATA-ATATA
4355943 AATATAA-AAT-TA
1 AATATAATAATATA
*
4355955 AATAAAATAATA-A
1 AATATAATAATATA
4355968 AATATAA
1 AATATAA
4355975 ATTTTATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
12 8 0.29
13 12 0.43
14 1 0.04
15 7 0.25
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (14 bp):
AATATAATAATATA
Found at i:4355954 original size:26 final size:24
Alignment explanation
Indices: 4355925--4355984 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 24
4355915 TAATAATTTT
4355925 ATTAATATAATACATATAAATATAAA
1 ATTAATATAATA-ATA-AAATATAAA
*
4355951 ATTAAATAAAATAATAAAATATAAA
1 ATT-AATATAATAATAAAATATAAA
* *
4355976 TTTTATATA
1 ATTAATATA
4355985 TATTACGATG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
24 4 0.14
25 11 0.38
26 6 0.21
27 8 0.28
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (24 bp):
ATTAATATAATAATAAAATATAAA
Found at i:4356551 original size:21 final size:20
Alignment explanation
Indices: 4356514--4356553 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
4356504 ACAAAAAACC
* *
4356514 AAAAAATGATAAAAAAAGAG
1 AAAAAATAAAAAAAAAAGAG
4356534 AAAAAATAAAAAATAAAAGA
1 AAAAAATAAAAAA-AAAAGA
4356554 TGACATGTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.80, C:0.00, G:0.10, T:0.10
Consensus pattern (20 bp):
AAAAAATAAAAAAAAAAGAG
Found at i:4359911 original size:27 final size:26
Alignment explanation
Indices: 4359881--4359988 Score: 116
Period size: 24 Copynumber: 4.2 Consensus size: 26
4359871 AATCAAGCAA
* *
4359881 AAAAATTATGCAAATAAAATCCAAAAT
1 AAAAATTATACAAAT-AAATCCATAAT
** * *
4359908 AAAAACCATGCAACTAAATACCATAAT
1 AAAAATTATACAAATAAAT-CCATAAT
4359935 AAAAATTATACAAATAAAT--ATAAT
1 AAAAATTATACAAATAAATCCATAAT
4359959 AAAAATTATACAAATAAAT--ATAAT
1 AAAAATTATACAAATAAATCCATAAT
4359983 AAAAAT
1 AAAAAT
4359989 CATGAAAATA
Statistics
Matches: 72, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
24 35 0.49
26 4 0.06
27 33 0.46
ACGTcount: A:0.64, C:0.10, G:0.02, T:0.24
Consensus pattern (26 bp):
AAAAATTATACAAATAAATCCATAAT
Found at i:4359999 original size:24 final size:24
Alignment explanation
Indices: 4359930--4359988 Score: 118
Period size: 24 Copynumber: 2.5 Consensus size: 24
4359920 ACTAAATACC
4359930 ATAATAAAAATTATACAAATAAAT
1 ATAATAAAAATTATACAAATAAAT
4359954 ATAATAAAAATTATACAAATAAAT
1 ATAATAAAAATTATACAAATAAAT
4359978 ATAATAAAAAT
1 ATAATAAAAAT
4359989 CATGAAAATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (24 bp):
ATAATAAAAATTATACAAATAAAT
Found at i:4360634 original size:18 final size:18
Alignment explanation
Indices: 4360611--4360691 Score: 69
Period size: 18 Copynumber: 4.4 Consensus size: 18
4360601 ATTTTTTATT
4360611 TTATTATATTATATTTTA
1 TTATTATATTATATTTTA
*
4360629 TTATTATCGTTAT-TTTTA
1 TTATTAT-ATTATATTTTA
*
4360647 -TATTTAAATATATATTTTA
1 TTA-TTATAT-TATATTTTA
* *
4360666 TTATTA-ATTTTAATCTTA
1 TTATTATATTAT-ATTTTA
4360684 TTATTATA
1 TTATTATA
4360692 ATAATTAATT
Statistics
Matches: 51, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
17 5 0.10
18 31 0.61
19 13 0.25
20 2 0.04
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.63
Consensus pattern (18 bp):
TTATTATATTATATTTTA
Found at i:4360699 original size:21 final size:19
Alignment explanation
Indices: 4360675--4360713 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 19
4360665 ATTATTAATT
4360675 TTAATCTTATTATTATAATAA
1 TTAATCTTA-TATT-TAATAA
*
4360696 TTAATTTTATATTTAATA
1 TTAATCTTATATTTAATA
4360714 TTATTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 4 0.24
21 8 0.47
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (19 bp):
TTAATCTTATATTTAATAA
Found at i:4362682 original size:17 final size:17
Alignment explanation
Indices: 4362637--4362691 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
4362627 AATTATTATT
4362637 TAATAT-TTTAATTTAAAA
1 TAATATATTTAA--TAAAA
*
4362655 T-ATAAATTTAATAAAA
1 TAATATATTTAATAAAA
4362671 TAATATATTTAATATAAA
1 TAATATATTTAATA-AAA
4362689 TAA
1 TAA
4362692 AATGTAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
16 6 0.19
17 14 0.44
18 12 0.38
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATATATTTAATAAAA
Found at i:4362693 original size:39 final size:38
Alignment explanation
Indices: 4362650--4362728 Score: 92
Period size: 38 Copynumber: 2.1 Consensus size: 38
4362640 TATTTTAATT
4362650 TAAAATATAAATTTA-A-T-AAAATAATATATTTAATATAAA
1 TAAAATAT-AATTTATATTAAAAATAATAT-TTT--TATAAA
*
4362689 TAAAATGTAATTTATATTAAAAATAATATTTTTATAAA
1 TAAAATATAATTTATATTAAAAATAATATTTTTATAAA
4362727 TA
1 TA
4362729 TTATATTAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
38 14 0.39
39 8 0.22
40 4 0.11
41 10 0.28
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (38 bp):
TAAAATATAATTTATATTAAAAATAATATTTTTATAAA
Found at i:4363456 original size:79 final size:80
Alignment explanation
Indices: 4363342--4363495 Score: 247
Period size: 79 Copynumber: 1.9 Consensus size: 80
4363332 TAATTTGAAT
4363342 ATCAAATTGAAATAAAAAATAAAAATAATAACTCAGAAGTGAAAATGAATTGAAATCAAATAAAA
1 ATCAAATTGAAATAAAAAATAAAAATAATAACTCAGAAGTGAAAATGAATTGAAATCAAATAAAA
4363407 TATTTAAAAAACAGG
66 TATTTAAAAAACAGG
* * * **
4363422 ATCAAATTGAAAT-AAATATAAAAATAATAGCTCAGACGTGAAAATGAATTGAAATTTAATAAAA
1 ATCAAATTGAAATAAAAAATAAAAATAATAACTCAGAAGTGAAAATGAATTGAAATCAAATAAAA
*
4363486 TATTTTAAAA
66 TATTTAAAAA
4363496 GCCGGGTTGC
Statistics
Matches: 68, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
79 55 0.81
80 13 0.19
ACGTcount: A:0.58, C:0.06, G:0.10, T:0.26
Consensus pattern (80 bp):
ATCAAATTGAAATAAAAAATAAAAATAATAACTCAGAAGTGAAAATGAATTGAAATCAAATAAAA
TATTTAAAAAACAGG
Found at i:4368199 original size:48 final size:51
Alignment explanation
Indices: 4368140--4368236 Score: 155
Period size: 51 Copynumber: 2.0 Consensus size: 51
4368130 TTTAAGCCCA
*
4368140 TGATACTTGCTTAATGTTC-T-T-ATATCAAAGAAGTCTTTGTTTAAAAAG
1 TGATACCTGCTTAATGTTCTTCTCATATCAAAGAAGTCTTTGTTTAAAAAG
*
4368188 TGATACCTGCTTAATGTTCTTCTCATATCAAGGAAGTCTTTGTTTAAAA
1 TGATACCTGCTTAATGTTCTTCTCATATCAAAGAAGTCTTTGTTTAAAA
4368237 CGTTTGGAAC
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
48 18 0.41
49 1 0.02
50 1 0.02
51 24 0.55
ACGTcount: A:0.31, C:0.13, G:0.14, T:0.41
Consensus pattern (51 bp):
TGATACCTGCTTAATGTTCTTCTCATATCAAAGAAGTCTTTGTTTAAAAAG
Found at i:4383810 original size:2 final size:2
Alignment explanation
Indices: 4383803--4383833 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
4383793 ATTGATATGT
4383803 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4383834 TTTTTTTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4389029 original size:14 final size:15
Alignment explanation
Indices: 4389012--4389041 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4389002 TTTCTTGTAT
4389012 TCATT-TTTTTAAAA
1 TCATTATTTTTAAAA
4389026 TCATTATTTTTAAAA
1 TCATTATTTTTAAAA
4389041 T
1 T
4389042 GTATTGATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.57
Consensus pattern (15 bp):
TCATTATTTTTAAAA
Found at i:4389659 original size:219 final size:216
Alignment explanation
Indices: 4388985--4389758 Score: 901
Period size: 219 Copynumber: 3.5 Consensus size: 216
4388975 ATATTTTTTG
* * *
4388985 GATTATTGATTTTTGATTTTCTTGTATTCATTTTTTTAAAATCATTATTT-TTAAAATGTATTGA
1 GATTATTGA-TTTTGATTTTCTTATATTCATTTTTTTAAAACCATTATTTGTTAAAATTTATTGA
* * **** * * *
4389049 TTAACCCTTT-AGTTTTGTTGTGTTTATATTTTTGAGTTTTGATTTTCTTATAAC-TTATGATCT
65 TCAAACCTTTGA-TTTTGTAACATTTATATTTTTGACTTTTAATTTTCTTATGACTTTATGATCT
* * *
4389112 TTTATTTCTTTTAAGAGTGCGAGTTATATAAGTATTTTTCATGTCTCTGTTACACTTTTTTCTTT
129 TTTATTTCTTTTAAGA--GAGAGTTATATAAGTATCTTTCATGTCTCTATTACACTTTTTTCTTT
*
4389177 CAATTATTGTTTATCATATTACTTT
192 CAATTATTGTTTGTCATATTACTTT
* * *
4389202 GATTATTGATTAATGATTTT-TTGTATTTATTGTTTTTAAAACCATTATTTGTTAAAATTTATTG
1 GATTATTGATT-TTGATTTTCTTATATTCATT-TTTTTAAAACCATTATTTGTTAAAATTTATTG
* * * * *
4389266 ATCAAACCTTTGATTTTGTAACATTTATATTTTTGACTTTTGATTTTGTTTTGTAATTTATGGTT
64 ATCAAACCTTTGATTTTGTAACATTTATATTTTTGACTTTTAATTTTCTTATG-ACTTTAT-G-A
* * * * *
4389331 TTTTTTATTTGTTTTAAGGGTGAGAGTTATATAAGTTTCTTTCATGTCTCTTTTACACTTTTTTC
126 TCTTTTATTTCTTTTAA--GAGAGAGTTATATAAGTATCTTTCATGTCTCTATTACACTTTTTTC
* * * * *
4389396 -TCCAAATTCTTATTTGTTATATTACTTG
189 TTTC-AATTATTGTTTGTCATATTACTTT
* * *
4389424 GATTATTTACTTTTGATTTTCTTATATTCATTTTCTTTAAAATCATTATTTGTTAAAATTTATTT
1 GATTATTGA-TTTTGATTTTCTTATATTCATTTT-TTTAAAACCATTATTTGTTAAAATTTATTG
* * * * *
4389489 ATCAAACCTTTGGTTTTATAACATTTATATTCTTAACTTTTAATTTTCTTGTGACTTTTATGATC
64 ATCAAACCTTTGATTTTGTAACATTTATATTTTTGACTTTTAATTTTCTTATGAC-TTTATGATC
* * *
4389554 TTCTATTTCTTTTAAGAGAGAGTTATATAAGTATGTTTCATGTCTCCATTACACTTTTTTCTTTC
128 TTTTATTTCTTTTAAGAGAGAGTTATATAAGTATCTTTCATGTCTCTATTACACTTTTTTCTTTC
4389619 AATTATTGTTTGTCATATTACTTT
193 AATTATTGTTTGTCATATTACTTT
* *
4389643 AATTATTGAGTTTTGATTTTCTTATATTCATTTTATTTCAAACCATTATTTGTTAAAATTTATTG
1 GATTATTGA-TTTTGATTTTCTTATATTCATTTT-TTTAAAACCATTATTTGTTAAAATTTATTG
* * *
4389708 ATCAAACCTTTGATTTTGTAACATATATCTTTTTTACTTTTGAATTTTCTT
64 ATCAAACCTTTGATTTTGTAACATTTATATTTTTGACTTTT-AATTTTCTT
4389759 TTGTAATTTA
Statistics
Matches: 470, Mismatches: 70, Indels: 31
0.82 0.12 0.05
Matches are distributed among these distances:
216 12 0.03
217 33 0.07
218 53 0.11
219 156 0.33
220 15 0.03
221 17 0.04
222 93 0.20
223 90 0.19
224 1 0.00
ACGTcount: A:0.25, C:0.10, G:0.10, T:0.56
Consensus pattern (216 bp):
GATTATTGATTTTGATTTTCTTATATTCATTTTTTTAAAACCATTATTTGTTAAAATTTATTGAT
CAAACCTTTGATTTTGTAACATTTATATTTTTGACTTTTAATTTTCTTATGACTTTATGATCTTT
TATTTCTTTTAAGAGAGAGTTATATAAGTATCTTTCATGTCTCTATTACACTTTTTTCTTTCAAT
TATTGTTTGTCATATTACTTT
Found at i:4390259 original size:35 final size:35
Alignment explanation
Indices: 4390188--4390311 Score: 149
Period size: 35 Copynumber: 3.5 Consensus size: 35
4390178 AATATCAAGC
* *
4390188 AATCATGCAATAAATATTAAATCATACCATGTAATA
1 AATCATGCAAT-AATATAAAATCATACCATGCAATA
* * *
4390224 AATCATGCTATAATATAAAATTATATCATGCAATA
1 AATCATGCAATAATATAAAATCATACCATGCAATA
* * *
4390259 AATCATACAATAATATAAAATCATACCATACAAAA
1 AATCATGCAATAATATAAAATCATACCATGCAATA
4390294 ATTATCATGCAATAATAT
1 A--ATCATGCAATAATAT
4390312 TAATGATCAT
Statistics
Matches: 74, Mismatches: 12, Indels: 3
0.83 0.13 0.03
Matches are distributed among these distances:
35 50 0.68
36 10 0.14
37 14 0.19
ACGTcount: A:0.52, C:0.14, G:0.04, T:0.31
Consensus pattern (35 bp):
AATCATGCAATAATATAAAATCATACCATGCAATA
Found at i:4390432 original size:24 final size:24
Alignment explanation
Indices: 4390398--4390509 Score: 94
Period size: 24 Copynumber: 5.0 Consensus size: 24
4390388 CACAAGTATA
* *
4390398 TAAATATATTAATAATCATGTAAT
1 TAAATAGATTAATAATCATGCAAT
*
4390422 TAAATAGATTAATAATGATGCAA-
1 TAAATAGATTAATAATCATGCAAT
* *
4390445 T-AA-A-A-T-ATAATCATACAAA
1 TAAATAGATTAATAATCATGCAAT
* *
4390464 TAAATATATTAATAATCATGCAAA
1 TAAATAGATTAATAATCATGCAAT
* *
4390488 TAAATATATCAATAA-CATGCAA
1 TAAATAGATTAATAATCATGCAA
4390510 CCACACACAT
Statistics
Matches: 75, Mismatches: 7, Indels: 13
0.79 0.07 0.14
Matches are distributed among these distances:
18 10 0.13
19 2 0.03
20 3 0.04
21 2 0.03
22 3 0.04
23 9 0.12
24 46 0.61
ACGTcount: A:0.54, C:0.08, G:0.05, T:0.32
Consensus pattern (24 bp):
TAAATAGATTAATAATCATGCAAT
Found at i:4394767 original size:22 final size:22
Alignment explanation
Indices: 4394712--4394767 Score: 53
Period size: 22 Copynumber: 2.5 Consensus size: 22
4394702 TATTCAAATC
*
4394712 ATATAACGTAATCATATTATTA
1 ATATAAAGTAATCATATTATTA
*
4394734 A-AAAAAGTTAATCAT-TTATTA
1 ATATAAAG-TAATCATATTATTA
*
4394755 TATATAATGTAAT
1 -ATATAAAGTAAT
4394768 AATTAAATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
21 10 0.37
22 13 0.48
23 4 0.15
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.41
Consensus pattern (22 bp):
ATATAAAGTAATCATATTATTA
Found at i:4396003 original size:21 final size:21
Alignment explanation
Indices: 4395979--4396019 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4395969 CTGATTTCAA
*
4395979 TAACCTTTAATAAAATTTTGT
1 TAACCTTCAATAAAATTTTGT
*
4396000 TAACCTTCAATACAATTTTG
1 TAACCTTCAATAAAATTTTG
4396020 GTAATATTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.15, G:0.05, T:0.44
Consensus pattern (21 bp):
TAACCTTCAATAAAATTTTGT
Found at i:4396501 original size:22 final size:22
Alignment explanation
Indices: 4396476--4396521 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
4396466 AGCATTGAAG
**
4396476 TACTATTAATTTATGAATAATT
1 TACTATTAAGCTATGAATAATT
*
4396498 TACTATTAAGCTATGAATGATT
1 TACTATTAAGCTATGAATAATT
4396520 TA
1 TA
4396522 TTAATAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.39, C:0.07, G:0.09, T:0.46
Consensus pattern (22 bp):
TACTATTAAGCTATGAATAATT
Found at i:4396546 original size:66 final size:65
Alignment explanation
Indices: 4396429--4396610 Score: 159
Period size: 66 Copynumber: 2.8 Consensus size: 65
4396419 TTTATCTTTG
* ** *** ** * *
4396429 ATTTACTATTAAGCTATACATGATATATTGCTAAATTAGCATTGAAGTACTATTAATTTA-TGAA
1 ATTTACTATTAAGCTATA-ATGATTTATTAATAAATTATTGTTGATTTACTACTAAGTTACTG-A
4396493 TA
64 TA
4396495 ATTTACTATTAAGCTATGAATGATTTATTAATAAATTATTGTTGATTTACTACTAAGTTACTGAT
1 ATTTACTATTAAGCTAT-AATGATTTATTAATAAATTATTGTTGATTTACTACTAAGTTACTGAT
4396560 A
65 A
* * * * * * * *
4396561 ATTTATTATAAAGTTACAACTGATTTATTATTAATTTATTGATAATTTAC
1 ATTTACTATTAAGCTATAA-TGATTTATTAATAAATTATTGTTGATTTAC
4396611 AATAAAGTAT
Statistics
Matches: 95, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
65 2 0.02
66 90 0.95
67 3 0.03
ACGTcount: A:0.38, C:0.08, G:0.09, T:0.45
Consensus pattern (65 bp):
ATTTACTATTAAGCTATAATGATTTATTAATAAATTATTGTTGATTTACTACTAAGTTACTGATA
Found at i:4396574 original size:22 final size:22
Alignment explanation
Indices: 4396549--4396627 Score: 61
Period size: 22 Copynumber: 3.5 Consensus size: 22
4396539 ATTTACTACT
4396549 AAGTTACTGATAATTTATTATA
1 AAGTTACTGATAATTTATTATA
* * *
4396571 AAGTTAC-AACTGATTTATTATT
1 AAGTTACTGA-TAATTTATTATA
* * **
4396593 AATTTATTGATAATTTACAATA
1 AAGTTACTGATAATTTATTATA
4396615 AAGTATTACTGAT
1 AAG--TTACTGAT
4396628 TAACTAATTT
Statistics
Matches: 41, Mismatches: 12, Indels: 6
0.69 0.20 0.10
Matches are distributed among these distances:
21 1 0.02
22 32 0.78
23 1 0.02
24 7 0.17
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (22 bp):
AAGTTACTGATAATTTATTATA
Found at i:4396611 original size:33 final size:32
Alignment explanation
Indices: 4396515--4396612 Score: 81
Period size: 33 Copynumber: 3.0 Consensus size: 32
4396505 AAGCTATGAA
* * * *
4396515 TGATTTATTAATAAATTATTGTTGATTTACTAC
1 TGATTTATT-ATAATTTATTGATAATTTACAAC
* * * *
4396548 TAAGTTACTGATAATTTATT-ATAAAGTTACAAC
1 TGATTTA-TTATAATTTATTGAT-AATTTACAAC
4396581 TGATTTATTATTAATTTATTGATAATTTACAA
1 TGATTTATTA-TAATTTATTGATAATTTACAA
4396613 TAAAGTATTA
Statistics
Matches: 49, Mismatches: 12, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
32 3 0.06
33 43 0.88
34 3 0.06
ACGTcount: A:0.38, C:0.06, G:0.08, T:0.48
Consensus pattern (32 bp):
TGATTTATTATAATTTATTGATAATTTACAAC
Found at i:4396703 original size:22 final size:22
Alignment explanation
Indices: 4396630--4396703 Score: 67
Period size: 22 Copynumber: 3.4 Consensus size: 22
4396620 TTACTGATTA
* * *
4396630 ACTAATTTACTACAAAATTATC
1 ACTAATTTACAACTAAATTATT
* * *
4396652 ACTAATTTATAAATAAATTAGT
1 ACTAATTTACAACTAAATTATT
* * *
4396674 AATGATTTGCAACTAAATTATT
1 ACTAATTTACAACTAAATTATT
4396696 ACTAATTT
1 ACTAATTT
4396704 TTTACTAAGT
Statistics
Matches: 38, Mismatches: 14, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.45, C:0.11, G:0.04, T:0.41
Consensus pattern (22 bp):
ACTAATTTACAACTAAATTATT
Found at i:4396887 original size:22 final size:22
Alignment explanation
Indices: 4396848--4396889 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
4396838 CACTAATTTA
*
4396848 TATTAAATTATCCTTGATTTGT
1 TATTAAATTATCCATGATTTGT
* *
4396870 TATTAAGTTATCGATGATTT
1 TATTAAATTATCCATGATTT
4396890 ACTACTAGTT
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:0.29, C:0.07, G:0.12, T:0.52
Consensus pattern (22 bp):
TATTAAATTATCCATGATTTGT
Found at i:4397100 original size:22 final size:22
Alignment explanation
Indices: 4397034--4397093 Score: 86
Period size: 21 Copynumber: 2.8 Consensus size: 22
4397024 TTGAAATTGG
*
4397034 TTTATTATTAAGTTATCAGTAA
1 TTTATTATTAAGTTATCAGTGA
* *
4397056 TTT-TTATTAAATTATTAGTGA
1 TTTATTATTAAGTTATCAGTGA
4397077 TTTATTATTAAGTTATC
1 TTTATTATTAAGTTATC
4397094 CATGATTAAC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
21 18 0.56
22 14 0.44
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.55
Consensus pattern (22 bp):
TTTATTATTAAGTTATCAGTGA
Found at i:4397423 original size:22 final size:22
Alignment explanation
Indices: 4397398--4397633 Score: 129
Period size: 22 Copynumber: 10.8 Consensus size: 22
4397388 ATAATTGACA
*
4397398 ATTAAGTTATCAGTGATTTATT
1 ATTAAGTTATCAATGATTTATT
* *
4397420 ATTAAGTTATCAATAATTTAAT
1 ATTAAGTTATCAATGATTTATT
*
4397442 ATTAAATTATCAATGATTTATT
1 ATTAAGTTATCAATGATTTATT
* * * *
4397464 ATTAATTTATGAATAATTTATC
1 ATTAAGTTATCAATGATTTATT
* * * *
4397486 A-TAAATTATGAATAATTTATC
1 ATTAAGTTATCAATGATTTATT
* * *
4397507 ATTAAATTATGAATGATTT-CT
1 ATTAAGTTATCAATGATTTATT
* * *** *
4397528 ATTAAATTGTTGTTGATTTACT
1 ATTAAGTTATCAATGATTTATT
* *
4397550 GTTAAGTTA-CTGATGATTTATT
1 ATTAAGTTATC-AATGATTTATT
* * *
4397572 ATAAATTTAT-AATTGATTTACT
1 ATTAAGTTATCAA-TGATTTATT
* * **
4397594 ACTAATTTATGGATGATTTATT
1 ATTAAGTTATCAATGATTTATT
** *
4397616 AAAAAATTATCAATGATT
1 ATTAAGTTATCAATGATT
4397634 AAATAATTTA
Statistics
Matches: 170, Mismatches: 38, Indels: 12
0.77 0.17 0.05
Matches are distributed among these distances:
21 36 0.21
22 133 0.78
23 1 0.01
ACGTcount: A:0.39, C:0.05, G:0.09, T:0.48
Consensus pattern (22 bp):
ATTAAGTTATCAATGATTTATT
Found at i:4397428 original size:44 final size:44
Alignment explanation
Indices: 4397379--4397516 Score: 138
Period size: 44 Copynumber: 3.2 Consensus size: 44
4397369 TTCGAGTAAA
* * *
4397379 AAGTTATTAATAATTGACA-ATTAAGTTATCAGTGATTTATTATT
1 AAGTTATCAATAATTGA-ATATTAAATTATCAATGATTTATTATT
*
4397423 AAGTTATCAATAATTTAATATTAAATTATCAATGATTTATTATT
1 AAGTTATCAATAATTGAATATTAAATTATCAATGATTTATTATT
* * * * * *
4397467 AATTTATGAATAATT-TATCA-TAAATTATGAATAATTTATCATT
1 AAGTTATCAATAATTGAAT-ATTAAATTATCAATGATTTATTATT
*
4397510 AAATTAT
1 AAGTTAT
4397517 GAATGATTTC
Statistics
Matches: 81, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
43 29 0.36
44 52 0.64
ACGTcount: A:0.43, C:0.04, G:0.07, T:0.46
Consensus pattern (44 bp):
AAGTTATCAATAATTGAATATTAAATTATCAATGATTTATTATT
Found at i:4397516 original size:11 final size:11
Alignment explanation
Indices: 4397426--4397507 Score: 69
Period size: 11 Copynumber: 7.5 Consensus size: 11
4397416 TATTATTAAG
4397426 TTATCAATAAT
1 TTATCAATAAT
* *
4397437 TTAAT-ATTAAA
1 TT-ATCAATAAT
*
4397448 TTATCAATGAT
1 TTATCAATAAT
* *
4397459 TTATTATTAAT
1 TTATCAATAAT
*
4397470 TTATGAATAAT
1 TTATCAATAAT
*
4397481 TTATC-ATAAA
1 TTATCAATAAT
*
4397491 TTATGAATAAT
1 TTATCAATAAT
4397502 TTATCA
1 TTATCA
4397508 TTAAATTATG
Statistics
Matches: 53, Mismatches: 15, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
10 10 0.19
11 41 0.77
12 2 0.04
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.48
Consensus pattern (11 bp):
TTATCAATAAT
Found at i:4397533 original size:21 final size:21
Alignment explanation
Indices: 4397413--4397535 Score: 131
Period size: 22 Copynumber: 5.7 Consensus size: 21
4397403 GTTATCAGTG
* *
4397413 ATTTATTATTAAGTTATCAATA
1 ATTTA-TATTAAATTATGAATA
* *
4397435 ATTTAATATTAAATTATCAATG
1 ATTT-ATATTAAATTATGAATA
*
4397457 ATTTATTATTAATTTATGAATA
1 ATTTA-TATTAAATTATGAATA
4397479 ATTTATCA-TAAATTATGAATA
1 ATTTAT-ATTAAATTATGAATA
*
4397500 ATTTATCATTAAATTATGAATG
1 ATTTAT-ATTAAATTATGAATA
*
4397522 ATTTCTATTAAATT
1 ATTTATATTAAATT
4397536 GTTGTTGATT
Statistics
Matches: 89, Mismatches: 8, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
21 30 0.34
22 58 0.65
23 1 0.01
ACGTcount: A:0.42, C:0.04, G:0.05, T:0.49
Consensus pattern (21 bp):
ATTTATATTAAATTATGAATA
Found at i:4397534 original size:43 final size:43
Alignment explanation
Indices: 4397398--4397535 Score: 152
Period size: 43 Copynumber: 3.2 Consensus size: 43
4397388 ATAATTGACA
* * * * *
4397398 ATTAAGTTATCAGTGATTTATTATTAAGTTATCAATAATTTAAT
1 ATTAAATTATCAATAATTTATTATTAAATTATGAATAATTT-AT
* *
4397442 ATTAAATTATCAATGATTTATTATTAATTTATGAATAATTTAT
1 ATTAAATTATCAATAATTTATTATTAAATTATGAATAATTTAT
* * * *
4397485 CA-TAAATTATGAATAATTTATCATTAAATTATGAATGATTTCT
1 -ATTAAATTATCAATAATTTATTATTAAATTATGAATAATTTAT
4397528 ATTAAATT
1 ATTAAATT
4397536 GTTGTTGATT
Statistics
Matches: 82, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
42 1 0.01
43 43 0.52
44 38 0.46
ACGTcount: A:0.41, C:0.04, G:0.07, T:0.48
Consensus pattern (43 bp):
ATTAAATTATCAATAATTTATTATTAAATTATGAATAATTTAT
Found at i:4397664 original size:22 final size:22
Alignment explanation
Indices: 4397639--4398037 Score: 135
Period size: 22 Copynumber: 18.5 Consensus size: 22
4397629 TGATTAAATA
4397639 ATTTACTATTAAATTATCATTG
1 ATTTACTATTAAATTATCATTG
* * * * *
4397661 ATTTACAATTAAGTTATTAGTA
1 ATTTACTATTAAATTATCATTG
* ***
4397683 ATTTACTATT-AGTTATTGGTG
1 ATTTACTATTAAATTATCATTG
* *
4397704 ATTTACTACT-AATT-T-ATTA
1 ATTTACTATTAAATTATCATTG
* *
4397723 ATTTACTATTAAATTATTAATG
1 ATTTACTATTAAATTATCATTG
* * *
4397745 ATTTACTATTATATTTTTATAT-
1 ATTTACTATTAAATTATCAT-TG
* * ** *
4397767 ATTT-TTACTATGTTATTATTG
1 ATTTACTATTAAATTATCATTG
* * *
4397788 ATTTACTATTTAATTTTTTATT-
1 ATTTACTA-TTAAATTATCATTG
* * *
4397810 ATTTACTATGAAATTATGACTG
1 ATTTACTATTAAATTATCATTG
** * **
4397832 ATTTA-TCGCTAAATTA-CCTAAA
1 ATTTACT-ATTAAATTATCAT-TG
* ** * *
4397854 ATTCACTACCAAATTATTACTG
1 ATTTACTATTAAATTATCATTG
*
4397876 ATTTA-TATTAAATTATGCA-TA
1 ATTTACTATTAAATTAT-CATTG
** *
4397897 ATTTACTATTAAGCTATCACTG
1 ATTTACTATTAAATTATCATTG
* * *
4397919 ATTAACTATTAAATTATCAATA
1 ATTTACTATTAAATTATCATTG
* * * *
4397941 ATTTA-TACTAAATAAT-ACTA
1 ATTTACTATTAAATTATCATTG
* *
4397961 ATTTACT-TCTAAATTTTCAATG
1 ATTTACTAT-TAAATTATCATTG
* *
4397983 ATTAACTACTAAATTATCATTG
1 ATTTACTATTAAATTATCATTG
* * *
4398005 ATTTACTAATAAGTTAT-TTATG
1 ATTTACTATTAAATTATCAT-TG
4398027 ATTTACTATTA
1 ATTTACTATTA
4398038 TCAATTAATT
Statistics
Matches: 277, Mismatches: 80, Indels: 40
0.70 0.20 0.10
Matches are distributed among these distances:
19 10 0.04
20 14 0.05
21 80 0.29
22 162 0.58
23 11 0.04
ACGTcount: A:0.37, C:0.10, G:0.06, T:0.48
Consensus pattern (22 bp):
ATTTACTATTAAATTATCATTG
Found at i:4397728 original size:19 final size:19
Alignment explanation
Indices: 4397704--4397743 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
4397694 GTTATTGGTG
*
4397704 ATTTACTACTAATTTATTA
1 ATTTACTACTAAATTATTA
*
4397723 ATTTACTATTAAATTATTA
1 ATTTACTACTAAATTATTA
4397742 AT
1 AT
4397744 GATTTACTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (19 bp):
ATTTACTACTAAATTATTA
Found at i:4397782 original size:84 final size:85
Alignment explanation
Indices: 4397637--4397836 Score: 212
Period size: 84 Copynumber: 2.3 Consensus size: 85
4397627 AATGATTAAA
* *
4397637 TAATTTACTATTAAATTATCATTGATTTACAATTAAGTTATTAGTAATTTACTATTAGTTATTGG
1 TAATTTACTATTAAATTATCAATGATTTACAATTAAGTTATTAGTAATTTACTATTAGTTATTAG
4397702 TGATTTACTA-CTAATTTAT
66 TGATTTACTATCTAATTTAT
* * *
4397721 TAATTTACTATTAAATTATTAATGATTTACTATTATA-TTTTTA-TATATTTTTACTA-T-GTTA
1 TAATTTACTATTAAATTATCAATGATTTACAATTA-AGTTATTAGTA-A--TTTACTATTAGTTA
* * *
4397782 TTATTGATTTACTATTTAATTTTT
62 TTAGTGATTTACTATCTAATTTAT
* * *
4397806 TATTATTTACTATGAAATTATGACTGATTTA
1 TA--ATTTACTATTAAATTATCAATGATTTA
4397837 TCGCTAAATT
Statistics
Matches: 98, Mismatches: 11, Indels: 11
0.82 0.09 0.09
Matches are distributed among these distances:
83 2 0.02
84 54 0.55
85 11 0.11
86 7 0.07
87 24 0.24
ACGTcount: A:0.34, C:0.06, G:0.07, T:0.54
Consensus pattern (85 bp):
TAATTTACTATTAAATTATCAATGATTTACAATTAAGTTATTAGTAATTTACTATTAGTTATTAG
TGATTTACTATCTAATTTAT
Found at i:4397793 original size:43 final size:41
Alignment explanation
Indices: 4397736--4397819 Score: 116
Period size: 43 Copynumber: 2.0 Consensus size: 41
4397726 TACTATTAAA
*
4397736 TTATTAATGATTTACTA-TTATATTTTTATATATTTTTACTATG
1 TTATTAATGATTTACTATTTA-ATTTTT-TAT-TATTTACTATG
*
4397779 TTATTATTGATTTACTATTTAATTTTTTATTATTTACTATG
1 TTATTAATGATTTACTATTTAATTTTTTATTATTTACTATG
4397820 AAATTATGAC
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
41 10 0.26
42 3 0.08
43 22 0.58
44 3 0.08
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.62
Consensus pattern (41 bp):
TTATTAATGATTTACTATTTAATTTTTTATTATTTACTATG
Found at i:4398009 original size:64 final size:65
Alignment explanation
Indices: 4397858--4398009 Score: 164
Period size: 64 Copynumber: 2.4 Consensus size: 65
4397848 CCTAAAATTC
* * * * * * * *
4397858 ACTACCAAATTATTACTGATTTATATTAAATTATGCATAATTTACTATTAAGCTATCACTGATTA
1 ACTACTAAATTATCAATGATTTATACTAAATAATACATAATTTACTATTAAACTATCAATGATTA
* * * *
4397923 ACTATTAAATTATCAATAATTTATACTAAATAATAC-TAATTTACT-TCTAAATTTTCAATGATT
1 ACTACTAAATTATCAATGATTTATACTAAATAATACATAATTTACTAT-TAAACTATCAATGATT
4397986 A
65 A
*
4397987 ACTACTAAATTATCATTGATTTA
1 ACTACTAAATTATCAATGATTTA
4398010 CTAATAAGTT
Statistics
Matches: 71, Mismatches: 15, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
63 1 0.01
64 42 0.59
65 28 0.39
ACGTcount: A:0.41, C:0.12, G:0.04, T:0.43
Consensus pattern (65 bp):
ACTACTAAATTATCAATGATTTATACTAAATAATACATAATTTACTATTAAACTATCAATGATTA
Found at i:4398104 original size:22 final size:22
Alignment explanation
Indices: 4398074--4398134 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
4398064 TTATTTACCA
*
4398074 ATAAA-TTATCAATAATTTATT
1 ATAAAGTTATCAATAATTTAAT
* *
4398095 ATAAAGTTATCATTGATTTAAT
1 ATAAAGTTATCAATAATTTAAT
4398117 ACT-AAGTTATCAATAATT
1 A-TAAAGTTATCAATAATT
4398135 AACGACTAAG
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
21 5 0.15
22 27 0.82
23 1 0.03
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (22 bp):
ATAAAGTTATCAATAATTTAAT
Found at i:4398610 original size:34 final size:34
Alignment explanation
Indices: 4398572--4398636 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
4398562 AACAGATAAT
4398572 AATATGTTAAAATCATAAT-CATTTATACTAATAC
1 AATATGTTAAAATCAT-ATCCATTTATACTAATAC
4398606 AATATGTTAAAATCATATCCATTTATACTAA
1 AATATGTTAAAATCATATCCATTTATACTAA
4398637 CAAAACTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
33 2 0.07
34 28 0.93
ACGTcount: A:0.46, C:0.12, G:0.03, T:0.38
Consensus pattern (34 bp):
AATATGTTAAAATCATATCCATTTATACTAATAC
Found at i:4400424 original size:17 final size:17
Alignment explanation
Indices: 4400371--4400424 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
4400361 TTGAAAACTT
* * *
4400371 AATTTTTTTTATTTGAA
1 AATTTTTATTATATAAA
* * *
4400388 AAGTTTTATTATACATA
1 AATTTTTATTATATAAA
4400405 AATTTTTATTATATAAA
1 AATTTTTATTATATAAA
4400422 AAT
1 AAT
4400425 ATTAAAATGC
Statistics
Matches: 28, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
17 28 1.00
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.54
Consensus pattern (17 bp):
AATTTTTATTATATAAA
Found at i:4403017 original size:31 final size:30
Alignment explanation
Indices: 4402982--4403073 Score: 94
Period size: 31 Copynumber: 3.0 Consensus size: 30
4402972 TAAATGTTTC
*
4402982 TTGTACTCTTATGAAATTTAAAATTTAGTCA
1 TTGTA-TCTTATGAAATTTGAAATTTAGTCA
* * * **
4403013 TTGTATTTATATAAAATTTGAAATTTAATTT
1 TTGTATCT-TATGAAATTTGAAATTTAGTCA
*
4403044 TTGTATTCTCATGAAATTTGAAATTTAGTC
1 TTGTA-TCTTATGAAATTTGAAATTTAGTC
4403074 CTTTTAATAT
Statistics
Matches: 48, Mismatches: 11, Indels: 4
0.76 0.17 0.06
Matches are distributed among these distances:
30 2 0.04
31 44 0.92
32 2 0.04
ACGTcount: A:0.35, C:0.07, G:0.10, T:0.49
Consensus pattern (30 bp):
TTGTATCTTATGAAATTTGAAATTTAGTCA
Found at i:4403243 original size:29 final size:28
Alignment explanation
Indices: 4403164--4403251 Score: 79
Period size: 29 Copynumber: 3.0 Consensus size: 28
4403154 TTTATTTTAT
*
4403164 ATAATTAATTATTAATAATATCATATTAATA
1 ATAA-TAA-TATTAATAAT-TTATATTAATA
* *
4403195 ATAATACTATT-ATCATTTTATATTAATCA
1 ATAATAATATTAAT-AATTTATATTAAT-A
* *
4403224 ATTATAATATTAATAATTTAAATTAATA
1 ATAATAATATTAATAATTTATATTAATA
4403252 TATCAAAGTT
Statistics
Matches: 47, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
28 12 0.26
29 27 0.57
30 4 0.09
31 4 0.09
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.47
Consensus pattern (28 bp):
ATAATAATATTAATAATTTATATTAATA
Found at i:4408041 original size:2 final size:2
Alignment explanation
Indices: 4408030--4408064 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
4408020 AAATAACAAC
4408030 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4408065 AAACAATTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:4409906 original size:57 final size:56
Alignment explanation
Indices: 4409784--4410048 Score: 300
Period size: 57 Copynumber: 4.7 Consensus size: 56
4409774 TGCTTTTATA
* * *
4409784 CAAGGAAAATTGATACTTTTAACTTTT-TTTAAAGTATTTTTAGAAATTTTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCTTCAAAATATTTTT-GAAATTTTTATTTT
* * * * *
4409840 CAAGAAAAATTGACACTTTCCACTTTTCTTCAAAATGCTTTTGGAAATTTTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCTTCAAAAT-ATTTTTGAAATTTTTATTTT
* * **
4409897 TAAGGAAAATTGATACTTTCAACTTTTCCTCAAAATATATTTTTTTAA-TTTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCTTC-AAA-ATATTTTTGAAATTTTTATTTT
* * **
4409954 CAAGAAAAATTGATACTTTCAACTTTTCTTCAAAAATATTTTTTAAAAATTTATTTT
1 CAAGGAAAATTGATACTTTCAACTTTTCTTC-AAAATATTTTTGAAATTTTTATTTT
* * *
4410011 TAAGGAAAATTGATACTTTCAATTTTTCCTCAAAATAT
1 CAAGGAAAATTGATACTTTCAACTTTTCTTCAAAATAT
4410049 ATATATATTT
Statistics
Matches: 178, Mismatches: 26, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
56 41 0.23
57 122 0.69
58 13 0.07
59 2 0.01
ACGTcount: A:0.35, C:0.11, G:0.07, T:0.47
Consensus pattern (56 bp):
CAAGGAAAATTGATACTTTCAACTTTTCTTCAAAATATTTTTGAAATTTTTATTTT
Found at i:4409984 original size:114 final size:115
Alignment explanation
Indices: 4409785--4410050 Score: 360
Period size: 114 Copynumber: 2.3 Consensus size: 115
4409775 GCTTTTATAC
* * * *
4409785 AAGGAAAATTGATACTTTTAACTTTT-TTTAAAGTAT-TTTTAGAAATTTTTATTTTCAAGAAAA
1 AAGGAAAATTGATACTTTCAACTTTTCCTCAAAATATATTTTAGAAATTTTTATTTTCAAGAAAA
* * **
4409848 ATTGACACTTTCCACTTTTCTTC-AAAATGCTTTTGGAAATTTTTATTTTT
66 ATTGACACTTTCAACTTTTCTTCAAAAAT-ATTTTGGAAAAATTTATTTTT
***
4409898 AAGGAAAATTGATACTTTCAACTTTTCCTCAAAATATATTTTTTTAA-TTTTATTTTCAAGAAAA
1 AAGGAAAATTGATACTTTCAACTTTTCCTCAAAATATATTTTAGAAATTTTTATTTTCAAGAAAA
* **
4409962 ATTGATACTTTCAACTTTTCTTCAAAAATATTTTTTAAAAATTTATTTTT
66 ATTGACACTTTCAACTTTTCTTCAAAAATATTTTGGAAAAATTTATTTTT
*
4410012 AAGGAAAATTGATACTTTCAATTTTTCCTCAAAATATAT
1 AAGGAAAATTGATACTTTCAACTTTTCCTCAAAATATAT
4410051 ATATATTTTT
Statistics
Matches: 135, Mismatches: 15, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
113 25 0.19
114 99 0.73
115 11 0.08
ACGTcount: A:0.36, C:0.11, G:0.07, T:0.47
Consensus pattern (115 bp):
AAGGAAAATTGATACTTTCAACTTTTCCTCAAAATATATTTTAGAAATTTTTATTTTCAAGAAAA
ATTGACACTTTCAACTTTTCTTCAAAAATATTTTGGAAAAATTTATTTTT
Found at i:4409986 original size:30 final size:29
Alignment explanation
Indices: 4409902--4409989 Score: 76
Period size: 30 Copynumber: 3.1 Consensus size: 29
4409892 ATTTTTAAGG
*
4409902 AAAATTGATACTTTCAACTTTTCCTCAAA
1 AAAATTGATACTTTCAACTTTTCTTCAAA
* * * *
4409931 ATATATT--T--TTTTAATTTTATTTTCAAGA
1 A-AAATTGATACTTTCAACTTT-TCTTCAA-A
4409959 AAAATTGATACTTTCAACTTTTCTTCAAA
1 AAAATTGATACTTTCAACTTTTCTTCAAA
4409988 AA
1 AA
4409990 TATTTTTTAA
Statistics
Matches: 43, Mismatches: 9, Indels: 14
0.65 0.14 0.21
Matches are distributed among these distances:
26 8 0.19
27 9 0.21
28 3 0.07
29 5 0.12
30 10 0.23
31 8 0.19
ACGTcount: A:0.38, C:0.14, G:0.03, T:0.45
Consensus pattern (29 bp):
AAAATTGATACTTTCAACTTTTCTTCAAA
Found at i:4411136 original size:6 final size:6
Alignment explanation
Indices: 4411115--4411176 Score: 92
Period size: 6 Copynumber: 10.5 Consensus size: 6
4411105 CTAATATCCT
4411115 AAAAT- AAAAT- AAAATA AAAATA AAAATA AAAATA AAAATA AAAATAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAAT-A
*
4411162 AAAATA AGAATA AAA
1 AAAATA AAAATA AAA
4411177 TAACAAACAC
Statistics
Matches: 53, Mismatches: 2, Indels: 3
0.91 0.03 0.05
Matches are distributed among these distances:
5 10 0.19
6 37 0.70
7 6 0.11
ACGTcount: A:0.82, C:0.00, G:0.02, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:4411466 original size:44 final size:44
Alignment explanation
Indices: 4411418--4411606 Score: 221
Period size: 44 Copynumber: 4.4 Consensus size: 44
4411408 ATAAAGTTTC
* * *
4411418 TCTAAGTAGAGGCTCAACGACTTTGAAAAAATAAATAAAACTCT
1 TCTAAATAGAGGCTCAACGACTTTGAAAAAATAAACAAAGCTCT
*
4411462 TCTAAACAGAGGCTCAACGACTTTGAAAAAATAAACAAAGCTTCT
1 TCTAAATAGAGGCTCAACGACTTTGAAAAAATAAACAAAGC-TCT
* *
4411507 T-TAAATAGAGGCTCAACGACTTTGGAAAAATAAACAAAGCTCC
1 TCTAAATAGAGGCTCAACGACTTTGAAAAAATAAACAAAGCTCT
* *
4411550 TCT-AATCAGAGGTTCAACGACTTT---AAAATAAACAAGGCTCAT
1 TCTAAAT-AGAGGCTCAACGACTTTGAAAAAATAAACAAAGCTC-T
4411592 T-T-AATCAGAGGCTCA
1 TCTAAAT-AGAGGCTCA
4411607 TAACTTTTAA
Statistics
Matches: 130, Mismatches: 11, Indels: 11
0.86 0.07 0.07
Matches are distributed among these distances:
41 28 0.22
42 1 0.01
43 6 0.05
44 91 0.70
45 4 0.03
ACGTcount: A:0.43, C:0.19, G:0.15, T:0.24
Consensus pattern (44 bp):
TCTAAATAGAGGCTCAACGACTTTGAAAAAATAAACAAAGCTCT
Found at i:4411554 original size:88 final size:88
Alignment explanation
Indices: 4411395--4411606 Score: 254
Period size: 88 Copynumber: 2.4 Consensus size: 88
4411385 TTATTTTATT
* * * * * * *
4411395 TTTGAACAAGTAAATAAAGTTTCTCTAAGTAGAGGCTCAACGACTTTGAAAAAATAAATAAAACT
1 TTTGAAAAAATAAACAAAGCTTCTTTAAATAGAGGCTCAACGACTTTGAAAAAATAAACAAAACT
*
4411460 CTTCTAAACAGAGGCTCAACGAC
66 CCTCTAAACAGAGGCTCAACGAC
* *
4411483 TTTGAAAAAATAAACAAAGCTTCTTTAAATAGAGGCTCAACGACTTTGGAAAAATAAACAAAGCT
1 TTTGAAAAAATAAACAAAGCTTCTTTAAATAGAGGCTCAACGACTTTGAAAAAATAAACAAAACT
* *
4411548 CCTCTAATCAGAGGTTCAACGAC
66 CCTCTAAACAGAGGCTCAACGAC
*
4411571 TTT---AAAATAAACAAGGC-TCATTT-AATCAGAGGCTCA
1 TTTGAAAAAATAAACAAAGCTTC-TTTAAAT-AGAGGCTCA
4411607 TAACTTTTAA
Statistics
Matches: 109, Mismatches: 13, Indels: 7
0.84 0.10 0.05
Matches are distributed among these distances:
84 5 0.05
85 25 0.23
88 79 0.72
ACGTcount: A:0.43, C:0.17, G:0.15, T:0.25
Consensus pattern (88 bp):
TTTGAAAAAATAAACAAAGCTTCTTTAAATAGAGGCTCAACGACTTTGAAAAAATAAACAAAACT
CCTCTAAACAGAGGCTCAACGAC
Found at i:4411898 original size:42 final size:42
Alignment explanation
Indices: 4411851--4411945 Score: 104
Period size: 42 Copynumber: 2.3 Consensus size: 42
4411841 TAAGACTCGT
* *
4411851 ATCCAACA-TTTAA-ATATTCTCATTTGAATTTTGGAGATTCAC
1 ATCCAAAAGTTTAAGAT-TTCTCATTTGAA-CTTGGAGATTCAC
* *
4411893 ATCCAAAAGTTTAAGCTTTTTCATTTGAACTTGGAGATTCAC
1 ATCCAAAAGTTTAAGATTTCTCATTTGAACTTGGAGATTCAC
**
4411935 ATTGAAAAGTT
1 ATCCAAAAGTT
4411946 CAAAGCTTCT
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
42 28 0.62
43 16 0.36
44 1 0.02
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.39
Consensus pattern (42 bp):
ATCCAAAAGTTTAAGATTTCTCATTTGAACTTGGAGATTCAC
Found at i:4411906 original size:43 final size:41
Alignment explanation
Indices: 4411851--4411959 Score: 103
Period size: 42 Copynumber: 2.6 Consensus size: 41
4411841 TAAGACTCGT
* *
4411851 ATCCAACA-TTTAAATATTCTCATTTGAATTTTGGAGATTCAC
1 ATCCAAAAGTTTAAAT-TTCTCATTTGAA-CTTGGAGATTCAC
* *
4411893 ATCCAAAAGTTTAAGCTTTTTCATTTGAACTTGGAGATTCAC
1 ATCCAAAAGTTTAA-ATTTCTCATTTGAACTTGGAGATTCAC
** * *
4411935 ATTGAAAAGTTCAAAGCTTCTCATT
1 ATCCAAAAGTTTAAA-TTTCTCATT
4411960 CTAGTTCAAA
Statistics
Matches: 54, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
42 37 0.69
43 16 0.30
44 1 0.02
ACGTcount: A:0.33, C:0.17, G:0.12, T:0.39
Consensus pattern (41 bp):
ATCCAAAAGTTTAAATTTCTCATTTGAACTTGGAGATTCAC
Found at i:4411959 original size:42 final size:43
Alignment explanation
Indices: 4411867--4411959 Score: 118
Period size: 42 Copynumber: 2.2 Consensus size: 43
4411857 CATTTAAATA
* *
4411867 TTCTCATTTGAATTTTGGAGATTCACATCCAAAAGTTTAAGCT
1 TTCTCATTTGAATCTTGGAGATTCACATCCAAAAGTTAAAGCT
* **
4411910 TTTTCATTTGAA-CTTGGAGATTCACATTGAAAAGTTCAAAGC-
1 TTCTCATTTGAATCTTGGAGATTCACATCCAAAAGTT-AAAGCT
4411952 TTCTCATT
1 TTCTCATT
4411960 CTAGTTCAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
42 28 0.65
43 15 0.35
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.40
Consensus pattern (43 bp):
TTCTCATTTGAATCTTGGAGATTCACATCCAAAAGTTAAAGCT
Found at i:4412102 original size:79 final size:79
Alignment explanation
Indices: 4411968--4412297 Score: 464
Period size: 79 Copynumber: 4.2 Consensus size: 79
4411958 TTCTAGTTCA
** * * * *
4411968 AAGATTCACATCTTAACAAACTTTAGGGTTTCACATCTTAAAGATTCTCATTTGAAATTCAAAGA
1 AAGATTCACAT-TCGACAAATTTTA-GGTTTCACACCTCAAAGATTCTCATTTGAAATTCAAAAA
*
4412033 TTCTCATTTGAATTTG
64 TTCTCATTTGAATTCG
*
4412049 AAGATTCACATTCGATAAATTTTAGGTTTCACACCTCAAAGATTCTCATTTGAAATTCAAAAATT
1 AAGATTCACATTCGACAAATTTTAGGTTTCACACCTCAAAGATTCTCATTTGAAATTCAAAAATT
*
4412114 CTCATTTGAATTCA
66 CTCATTTGAATTCG
* * * *
4412128 AAGATTCACATTCGACAATTTTTTGGTTTCACACCTCAAATATTTTCATTTGAAATTCAAAAATT
1 AAGATTCACATTCGACAAATTTTAGGTTTCACACCTCAAAGATTCTCATTTGAAATTCAAAAATT
4412193 CTCATTTGAATTCG
66 CTCATTTGAATTCG
* *
4412207 AAGATTCACATTCGACAAATTTT-GGTTTCACACCTCAAAGATTCTCATTTGAAATTCTAAGATT
1 AAGATTCACATTCGACAAATTTTAGGTTTCACACCTCAAAGATTCTCATTTGAAATTCAAAAATT
* *
4412271 CGCATTTGAAATTCA
66 CTCATTTG-AATTCG
*
4412286 AAGATTCTCATT
1 AAGATTCACATT
4412298 TGAATTCGAA
Statistics
Matches: 225, Mismatches: 23, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
78 44 0.20
79 161 0.72
80 9 0.04
81 11 0.05
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.38
Consensus pattern (79 bp):
AAGATTCACATTCGACAAATTTTAGGTTTCACACCTCAAAGATTCTCATTTGAAATTCAAAAATT
CTCATTTGAATTCG
Found at i:4412114 original size:21 final size:20
Alignment explanation
Indices: 4412084--4412480 Score: 138
Period size: 21 Copynumber: 19.8 Consensus size: 20
4412074 GTTTCACACC
4412084 TCAAAGATTCTCATTTGAAAT
1 TCAAAGATTCTCATTTG-AAT
*
4412105 TCAAAAATTCTCATTTGAAT
1 TCAAAGATTCTCATTTGAAT
* *
4412125 TCAAAGATTCACATTCG-A-
1 TCAAAGATTCTCATTTGAAT
** * ** * *
4412143 -C-AATTTTTTGGTTTCACACC
1 TCAAAGATTCTCATTTGA-A-T
* *
4412163 TCAAATATTTTCATTTGAAAT
1 TCAAAGATTCTCATTTG-AAT
*
4412184 TCAAAAATTCTCATTTGAAT
1 TCAAAGATTCTCATTTGAAT
* * *
4412204 TCGAAGATTCACATTCG-A-
1 TCAAAGATTCTCATTTGAAT
* ** * *
4412222 -C-AA-ATTTTGGTTTCACACC
1 TCAAAGATTCTCATTTGA-A-T
4412241 TCAAAGATTCTCATTTGAAAT
1 TCAAAGATTCTCATTTG-AAT
* *
4412262 TCTAAGATTCGCATTTGAAAT
1 TCAAAGATTCTCATTTG-AAT
4412283 TCAAAGATTCTCATTTGAAT
1 TCAAAGATTCTCATTTGAAT
* * *
4412303 TCGAAGATTCACATTCG-A-
1 TCAAAGATTCTCATTTGAAT
* * * *
4412321 T--AA-ATTTTGAATTTCACACC
1 TCAAAGATTCT-CATTTGA-A-T
* *
4412341 TCAAAGTTTGTCATTTGAAAT
1 TCAAAGATTCTCATTTG-AAT
* *
4412362 TCAAAGATTCTCATTTAACAC
1 TCAAAGATTCTCATTTGA-AT
*
4412383 TCAAAGATTCTCATTTAAGAT
1 TCAAAGATTCTCATTTGA-AT
* *
4412404 TCAAAGATTCTTATTTAAAAT
1 TCAAAGATTCTCATTT-GAAT
* * *
4412425 TCAAATATCCTCATTTAAAAT
1 TCAAAGATTCTCATTT-GAAT
* * *
4412446 TCAAAAATTATGATTTGAAT
1 TCAAAGATTCTCATTTGAAT
** *
4412466 TTGAAGATTCACATT
1 TCAAAGATTCTCATT
4412481 CAACAAATTT
Statistics
Matches: 278, Mismatches: 72, Indels: 53
0.69 0.18 0.13
Matches are distributed among these distances:
15 8 0.03
16 13 0.05
17 3 0.01
18 3 0.01
19 3 0.01
20 65 0.23
21 149 0.54
22 28 0.10
23 6 0.02
ACGTcount: A:0.36, C:0.16, G:0.09, T:0.38
Consensus pattern (20 bp):
TCAAAGATTCTCATTTGAAT
Found at i:4412127 original size:20 final size:21
Alignment explanation
Indices: 4412084--4412139 Score: 87
Period size: 20 Copynumber: 2.7 Consensus size: 21
4412074 GTTTCACACC
4412084 TCAAAGATTCTCATTTGAAAT
1 TCAAAGATTCTCATTTGAAAT
*
4412105 TCAAAAATTCTCATTTG-AAT
1 TCAAAGATTCTCATTTGAAAT
*
4412125 TCAAAGATTCACATT
1 TCAAAGATTCTCATT
4412140 CGACAATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
20 16 0.50
21 16 0.50
ACGTcount: A:0.39, C:0.16, G:0.07, T:0.38
Consensus pattern (21 bp):
TCAAAGATTCTCATTTGAAAT
Found at i:4412218 original size:20 final size:21
Alignment explanation
Indices: 4412174--4412218 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 21
4412164 CAAATATTTT
*
4412174 CATTTGAAATTCAAAAATTCT
1 CATTTGAAATTCAAAAATTCA
* *
4412195 CATTTG-AATTCGAAGATTCA
1 CATTTGAAATTCAAAAATTCA
4412215 CATT
1 CATT
4412219 CGACAAATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (21 bp):
CATTTGAAATTCAAAAATTCA
Found at i:4412285 original size:99 final size:100
Alignment explanation
Indices: 4412174--4412413 Score: 358
Period size: 100 Copynumber: 2.4 Consensus size: 100
4412164 CAAATATTTT
* *
4412174 CATTTGAAATTCAAAAATTCTCATTTGAATTCGAAGATTCACATTCGACAAATTTTG-GTTTCAC
1 CATTTGAAATTCAAAGATTCTCATTTGAATTCGAAGATTCACATTCGACAAATTTTGAATTTCAC
*
4412238 ACCTCAAAGATTCTCATTTGAAATTCTAAGATTCG
66 ACCTCAAAGATTCTCATTTGAAATTCAAAGATTCG
*
4412273 CATTTGAAATTCAAAGATTCTCATTTGAATTCGAAGATTCACATTCGATAAATTTTGAATTTCAC
1 CATTTGAAATTCAAAGATTCTCATTTGAATTCGAAGATTCACATTCGACAAATTTTGAATTTCAC
* * *
4412338 ACCTCAAAGTTTGTCATTTGAAATTCAAAGATTCT
66 ACCTCAAAGATTCTCATTTGAAATTCAAAGATTCG
* * *
4412373 CATTT-AACACTCAAAGATTCTCATTTAAGATTCAAAGATTC
1 CATTTGAA-ATTCAAAGATTCTCATTTGA-ATTCGAAGATTC
4412414 TTATTTAAAA
Statistics
Matches: 128, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
99 57 0.45
100 60 0.47
101 11 0.09
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.37
Consensus pattern (100 bp):
CATTTGAAATTCAAAGATTCTCATTTGAATTCGAAGATTCACATTCGACAAATTTTGAATTTCAC
ACCTCAAAGATTCTCATTTGAAATTCAAAGATTCG
Found at i:4412309 original size:20 final size:21
Alignment explanation
Indices: 4412241--4412464 Score: 160
Period size: 21 Copynumber: 10.9 Consensus size: 21
4412231 GTTTCACACC
4412241 TCAAAGATTCTCATTTGAAAT
1 TCAAAGATTCTCATTTGAAAT
* *
4412262 TCTAAGATTCGCATTTGAAAT
1 TCAAAGATTCTCATTTGAAAT
4412283 TCAAAGATTCTCATTTG-AAT
1 TCAAAGATTCTCATTTGAAAT
* * *
4412303 TCGAAGATTCACATTCG--A-
1 TCAAAGATTCTCATTTGAAAT
* * * **
4412321 T--AA-ATTTTGAATTTCACACC
1 TCAAAGATTCT-CATTTGA-AAT
* *
4412341 TCAAAGTTTGTCATTTGAAAT
1 TCAAAGATTCTCATTTGAAAT
*
4412362 TCAAAGATTCTCATTT-AACAC
1 TCAAAGATTCTCATTTGAA-AT
4412383 TCAAAGATTCTCATTT-AAGAT
1 TCAAAGATTCTCATTTGAA-AT
* *
4412404 TCAAAGATTCTTATTTAAAAT
1 TCAAAGATTCTCATTTGAAAT
* * *
4412425 TCAAATATCCTCATTTAAAAT
1 TCAAAGATTCTCATTTGAAAT
* * *
4412446 TCAAAAATTATGATTTGAA
1 TCAAAGATTCTCATTTGAA
4412465 TTTGAAGATT
Statistics
Matches: 160, Mismatches: 33, Indels: 20
0.75 0.15 0.09
Matches are distributed among these distances:
15 3 0.02
16 5 0.03
18 1 0.01
19 1 0.01
20 20 0.12
21 118 0.74
22 9 0.06
23 3 0.02
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.38
Consensus pattern (21 bp):
TCAAAGATTCTCATTTGAAAT
Found at i:4412527 original size:21 final size:21
Alignment explanation
Indices: 4412503--4412588 Score: 73
Period size: 21 Copynumber: 3.9 Consensus size: 21
4412493 AGTTTCACAC
*
4412503 CTCAAAGATTCTTATTTGACA
1 CTCAAAGATTCTCATTTGACA
* *
4412524 CTCAAATATTCTCATTTGAGGA
1 CTCAAAGATTCTCATTTGA-CA
* * * *
4412546 TTTTTTAAAGATTCTCATTTAAGA
1 ---CTCAAAGATTCTCATTTGACA
4412570 CTCAAAGATTCTCATTTGA
1 CTCAAAGATTCTCATTTGA
4412589 AGATTTCTTA
Statistics
Matches: 51, Mismatches: 10, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
21 33 0.65
22 1 0.02
24 2 0.04
25 15 0.29
ACGTcount: A:0.33, C:0.16, G:0.10, T:0.41
Consensus pattern (21 bp):
CTCAAAGATTCTCATTTGACA
Found at i:4412565 original size:25 final size:25
Alignment explanation
Indices: 4412531--4412615 Score: 108
Period size: 25 Copynumber: 3.6 Consensus size: 25
4412521 ACACTCAAAT
* *
4412531 ATTCTCATTTGAGGATTTTTTAAAG
1 ATTCTCATTTGAAGATTTCTTAAAG
*
4412556 ATTCTCATTT-AAGA---CTCAAAG
1 ATTCTCATTTGAAGATTTCTTAAAG
4412577 ATTCTCATTTGAAGATTTCTTAAAG
1 ATTCTCATTTGAAGATTTCTTAAAG
4412602 ATTCTCATTT-AAGA
1 ATTCTCATTTGAAGA
4412616 AATCAGGATT
Statistics
Matches: 52, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
21 15 0.29
22 4 0.08
24 7 0.13
25 26 0.50
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.42
Consensus pattern (25 bp):
ATTCTCATTTGAAGATTTCTTAAAG
Found at i:4412593 original size:14 final size:13
Alignment explanation
Indices: 4412553--4412615 Score: 59
Period size: 13 Copynumber: 5.3 Consensus size: 13
4412543 GGATTTTTTA
4412553 AAGATTCTCATTT
1 AAGATTCTCATTT
4412566 AAGA--CTCA---
1 AAGATTCTCATTT
4412574 AAGATTCTCATTT
1 AAGATTCTCATTT
*
4412587 GAAGATT-TC-TTA
1 -AAGATTCTCATTT
4412599 AAGATTCTCATTT
1 AAGATTCTCATTT
4412612 AAGA
1 AAGA
4412616 AATCAGGATT
Statistics
Matches: 40, Mismatches: 2, Indels: 16
0.69 0.03 0.28
Matches are distributed among these distances:
8 4 0.10
10 4 0.10
11 10 0.25
12 4 0.10
13 12 0.30
14 6 0.15
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.38
Consensus pattern (13 bp):
AAGATTCTCATTT
Found at i:4412614 original size:46 final size:46
Alignment explanation
Indices: 4412506--4412615 Score: 166
Period size: 46 Copynumber: 2.4 Consensus size: 46
4412496 TTCACACCTC
* * * * * *
4412506 AAAGATTCTTATTTGACACTCAAATATTCTCATTTGAGGATTTTTT
1 AAAGATTCTCATTTAAGACTCAAAGATTCTCATTTGAAGATTTCTT
4412552 AAAGATTCTCATTTAAGACTCAAAGATTCTCATTTGAAGATTTCTT
1 AAAGATTCTCATTTAAGACTCAAAGATTCTCATTTGAAGATTTCTT
4412598 AAAGATTCTCATTTAAGA
1 AAAGATTCTCATTTAAGA
4412616 AATCAGGATT
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 58 1.00
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.41
Consensus pattern (46 bp):
AAAGATTCTCATTTAAGACTCAAAGATTCTCATTTGAAGATTTCTT
Found at i:4413069 original size:78 final size:79
Alignment explanation
Indices: 4412927--4413087 Score: 180
Period size: 78 Copynumber: 2.1 Consensus size: 79
4412917 TTTCATCAAC
* * * * * * *
4412927 TGATCTCTATTATTTTCATCACTTTACCCCCATTCATAGGCTTTTCAATAATAATTATTTTAGAA
1 TGATCTATACTATTTTCATCACTTGACCACCATTCATAGGCTTTTCAACAATAACTATTCTAGAA
4412992 -AAATTCTATCTAT
66 TAAATTCTATCTAT
* * * * * *
4413005 TGATCTATACTATTTTCATCGCTTGATCACCATTTATAGGTTTTTCAACACTAGCTATTCTAGAA
1 TGATCTATACTATTTTCATCACTTGACCACCATTCATAGGCTTTTCAACAATAACTATTCTAGAA
* *
4413070 TAAATTTTGTCTAT
66 TAAATTCTATCTAT
4413084 TGAT
1 TGAT
4413088 TCTCATCATT
Statistics
Matches: 67, Mismatches: 15, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
78 52 0.78
79 15 0.22
ACGTcount: A:0.29, C:0.18, G:0.08, T:0.45
Consensus pattern (79 bp):
TGATCTATACTATTTTCATCACTTGACCACCATTCATAGGCTTTTCAACAATAACTATTCTAGAA
TAAATTCTATCTAT
Found at i:4413729 original size:19 final size:17
Alignment explanation
Indices: 4413707--4413751 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
4413697 TCAATTTAAG
*
4413707 TTTTTTTTTTCTTTTCA
1 TTTTTTTTTTTTTTTCA
*
4413724 TCTTTTTTTCATTTTTTCA
1 T-TTTTTTT-TTTTTTTCA
4413743 TTTTTTTTT
1 TTTTTTTTT
4413752 CATCTATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
17 1 0.04
18 14 0.61
19 8 0.35
ACGTcount: A:0.07, C:0.11, G:0.00, T:0.82
Consensus pattern (17 bp):
TTTTTTTTTTTTTTTCA
Found at i:4413750 original size:29 final size:29
Alignment explanation
Indices: 4413712--4413772 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 29
4413702 TTAAGTTTTT
* *
4413712 TTTTTCTTTTCATCTTTTTTTCATTTTTTCA
1 TTTTT-TTTTCATC-TATTTTCACTTTTTCA
*
4413743 TTTTTTTTTCATCTATTTTCCCTTTTTCA
1 TTTTTTTTTCATCTATTTTCACTTTTTCA
4413772 T
1 T
4413773 CTTGTTTCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 14 0.52
30 8 0.30
31 5 0.19
ACGTcount: A:0.10, C:0.18, G:0.00, T:0.72
Consensus pattern (29 bp):
TTTTTTTTTCATCTATTTTCACTTTTTCA
Found at i:4413752 original size:19 final size:19
Alignment explanation
Indices: 4413718--4413754 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
4413708 TTTTTTTTTC
4413718 TTTTCATCTTTTTTTCATT
1 TTTTCATCTTTTTTTCATT
*
4413737 TTTTCATTTTTTTTTCAT
1 TTTTCATCTTTTTTTCAT
4413755 CTATTTTCCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.11, C:0.14, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTCATCTTTTTTTCATT
Found at i:4413769 original size:30 final size:31
Alignment explanation
Indices: 4413712--4413769 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
4413702 TTAAGTTTTT
* *
4413712 TTTTTCTTTTCATCTTTTTTTCATTTTTTCA
1 TTTTTCTTTTCATCTATTTTCCATTTTTTCA
*
4413743 TTTTT-TTTTCATCTATTTTCCCTTTTT
1 TTTTTCTTTTCATCTATTTTCCATTTTT
4413770 CATCTTGTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 19 0.79
31 5 0.21
ACGTcount: A:0.09, C:0.17, G:0.00, T:0.74
Consensus pattern (31 bp):
TTTTTCTTTTCATCTATTTTCCATTTTTTCA
Found at i:4414187 original size:13 final size:13
Alignment explanation
Indices: 4414136--4414198 Score: 60
Period size: 13 Copynumber: 4.8 Consensus size: 13
4414126 GTGGCATTCA
4414136 TTTCTTT-TTTT-
1 TTTCTTTCTTTTC
4414147 TTTCTCTT-TTTTC
1 TTTCT-TTCTTTTC
*
4414160 TTTGTTTTGCTTTTC
1 TTT-CTTT-CTTTTC
4414175 TTTCTTTCTTTTC
1 TTTCTTTCTTTTC
*
4414188 TTTCTATCTTT
1 TTTCTTTCTTT
4414199 GAAACCTTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
11 5 0.11
12 6 0.14
13 21 0.48
14 4 0.09
15 8 0.18
ACGTcount: A:0.02, C:0.17, G:0.03, T:0.78
Consensus pattern (13 bp):
TTTCTTTCTTTTC
Found at i:4414192 original size:9 final size:8
Alignment explanation
Indices: 4414143--4414190 Score: 51
Period size: 9 Copynumber: 5.4 Consensus size: 8
4414133 TCATTTCTTT
4414143 TTTTTTTC
1 TTTTTTTC
4414151 TCTTTTTTC
1 T-TTTTTTC
4414160 TTTGTTTTGC
1 TTT-TTTT-C
4414170 TTTTCTTTC
1 TTTT-TTTC
4414179 TTTCTTTTC
1 TTT-TTTTC
4414188 TTT
1 TTT
4414191 CTATCTTTGA
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
8 3 0.09
9 24 0.69
10 8 0.23
ACGTcount: A:0.00, C:0.17, G:0.04, T:0.79
Consensus pattern (8 bp):
TTTTTTTC
Found at i:4417881 original size:78 final size:74
Alignment explanation
Indices: 4417676--4417882 Score: 215
Period size: 78 Copynumber: 2.7 Consensus size: 74
4417666 TTTATACAAA
** * *
4417676 AAAAATTGATACTTTCAACTTTTCCTC-AAAAT-GCTTTTGAAAAT-TT-TTATTTTAGAAATTT
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAAATGTTATT-TTTTAAAAAATT
* *
4417737 TGTTTTTAAG
65 TATTTCTAAG
* *
4417747 AAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTAGAAATTGAAAATATTTTTTAAAAA
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT-GAAAATG---TTATTTTTTAAAAA
4417812 ATTTATTTCTAAG
62 ATTTATTTCTAAG
* *
4417825 GAAAATTGATACTTTCAACTTTTTCTCAAAAATATATATTTTTCGAAAATGTTATTTT
1 AAAAATTGATACTTTCAACTTTTCCTC-AAAA-ATAT-TTTTT-GAAAATGTTATTTT
4417883 AGGAAAATCA
Statistics
Matches: 112, Mismatches: 13, Indels: 15
0.80 0.09 0.11
Matches are distributed among these distances:
71 27 0.24
72 5 0.04
73 4 0.04
74 5 0.04
78 50 0.45
79 6 0.05
80 4 0.04
81 11 0.10
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.46
Consensus pattern (74 bp):
AAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAAATGTTATTTTTTAAAAAATTT
ATTTCTAAG
Found at i:4418945 original size:16 final size:17
Alignment explanation
Indices: 4418923--4418968 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
4418913 CTAATATCCT
4418923 AAAATAA-AATAAATAA
1 AAAATAACAATAAATAA
*
4418939 TAAATAACAA-AAATAA
1 AAAATAACAATAAATAA
*
4418955 AAAATAAGAATAAA
1 AAAATAACAATAAA
4418969 ATAACAAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
16 20 0.80
17 5 0.20
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.17
Consensus pattern (17 bp):
AAAATAACAATAAATAA
Found at i:4418970 original size:27 final size:25
Alignment explanation
Indices: 4418923--4418976 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
4418913 CTAATATCCT
* *
4418923 AAAATAAAATAAATAATAAATAACA
1 AAAATAAAAAAAAGAATAAATAACA
4418948 AAAATAAAAAATAAGAATAAAATAACA
1 AAAATAAAAAA-AAGAAT-AAATAACA
4418975 AA
1 AA
4418977 CACCTAGGCC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 10 0.40
26 5 0.20
27 10 0.40
ACGTcount: A:0.78, C:0.04, G:0.02, T:0.17
Consensus pattern (25 bp):
AAAATAAAAAAAAGAATAAATAACA
Found at i:4419293 original size:21 final size:20
Alignment explanation
Indices: 4419269--4419311 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
4419259 TTACCTGAAA
4419269 TCTTTACTTTTTTCTTTTCTT
1 TCTTTACTTTTTT-TTTTCTT
* *
4419290 TCTTTTCTTTTTTTTTTTTT
1 TCTTTACTTTTTTTTTTCTT
4419310 TC
1 TC
4419312 CTTTTTCATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.81
Consensus pattern (20 bp):
TCTTTACTTTTTTTTTTCTT
Found at i:4419351 original size:21 final size:20
Alignment explanation
Indices: 4419327--4419390 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 20
4419317 TCATTATCTC
4419327 AATTCATCCTTTCTCTCTAAA
1 AATTCAT-CTTTCTCTCTAAA
* *
4419348 AATTTATCTTCTCCCTCTAAA
1 AATTCATCTT-TCTCTCTAAA
* *
4419369 AATTCATTATTTTTCTCTAAA
1 AATTCA-TCTTTCTCTCTAAA
4419390 A
1 A
4419391 CTAAATCGAT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
20 3 0.09
21 29 0.83
22 3 0.09
ACGTcount: A:0.31, C:0.23, G:0.00, T:0.45
Consensus pattern (20 bp):
AATTCATCTTTCTCTCTAAA
Found at i:4420073 original size:21 final size:21
Alignment explanation
Indices: 4420048--4420103 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
4420038 TGTTGTTTGG
*
4420048 TTTTAAAGAAAGAGAACGAAT
1 TTTTAAAGAAAGAAAACGAAT
* *
4420069 TTTTAAAGAGAGAAAATGAAT
1 TTTTAAAGAAAGAAAACGAAT
4420090 TTTT-AA-AAAGAAAA
1 TTTTAAAGAAAGAAAA
4420104 GATGAATTGA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 7 0.23
20 2 0.06
21 22 0.71
ACGTcount: A:0.55, C:0.02, G:0.16, T:0.27
Consensus pattern (21 bp):
TTTTAAAGAAAGAAAACGAAT
Found at i:4420108 original size:21 final size:21
Alignment explanation
Indices: 4420048--4420111 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 21
4420038 TGTTGTTTGG
* *
4420048 TTTTAAAGAA-AGAGAACGAAT
1 TTTTAAA-AAGAGAAAATGAAT
*
4420069 TTTTAAAGAGAGAAAATGAAT
1 TTTTAAAAAGAGAAAATGAAT
4420090 TTTTAAAAAGA-AAAGATGAAT
1 TTTTAAAAAGAGAAA-ATGAAT
4420111 T
1 T
4420112 GAGATGAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
20 4 0.11
21 33 0.89
ACGTcount: A:0.53, C:0.02, G:0.17, T:0.28
Consensus pattern (21 bp):
TTTTAAAAAGAGAAAATGAAT
Found at i:4423334 original size:19 final size:19
Alignment explanation
Indices: 4423274--4423335 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
4423264 ATGCATAAAT
*
4423274 ATAAAATAATAAATATTTC
1 ATAAAATAATAAAAATTTC
** *
4423293 ATGCAATCA-AAAAATTTC
1 ATAAAATAATAAAAATTTC
*
4423311 AATAAAATAATAAAAAATTC
1 -ATAAAATAATAAAAATTTC
4423331 ATAAA
1 ATAAA
4423336 TAAAATTCCA
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
18 8 0.24
19 17 0.52
20 8 0.24
ACGTcount: A:0.61, C:0.08, G:0.02, T:0.29
Consensus pattern (19 bp):
ATAAAATAATAAAAATTTC
Found at i:4425503 original size:78 final size:77
Alignment explanation
Indices: 4425410--4425573 Score: 188
Period size: 77 Copynumber: 2.1 Consensus size: 77
4425400 AAATTTTTTA
* * ** * *
4425410 AAAACATATAGAAAATTTTGAATTTATTCATATAAGACT-CATATCCATATTAATATTCA-CAAA
1 AAAACATCTAAAAAATTTTGAA-GAATTCATATAAGA-TACATATCCACATCAATATTCATC-AA
4425473 AATACCTTCACATTT
63 AATACCTTCACATTT
* * * *
4425488 AAAACATCTAAAAAATTTTGAAGAATTTATGTAAGATATATATCCACATCGATATTCATCAAAAT
1 AAAACATCTAAAAAATTTTGAAGAATTCATATAAGATACATATCCACATCAATATTCATCAAAAT
*
4425553 ATCTTCACATTT
66 ACCTTCACATTT
4425565 AAAACATCT
1 AAAACATCT
4425574 CATGAGCCAT
Statistics
Matches: 73, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
76 1 0.01
77 51 0.70
78 21 0.29
ACGTcount: A:0.45, C:0.15, G:0.05, T:0.35
Consensus pattern (77 bp):
AAAACATCTAAAAAATTTTGAAGAATTCATATAAGATACATATCCACATCAATATTCATCAAAAT
ACCTTCACATTT
Found at i:4425950 original size:2 final size:2
Alignment explanation
Indices: 4425943--4425977 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
4425933 AAAACTCCCC
4425943 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
4425978 CAACAAAATC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:4426113 original size:23 final size:25
Alignment explanation
Indices: 4426067--4426115 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
4426057 TTTCTCTCTC
*
4426067 TCTCTTTATATTTATTTTTGTTGGG
1 TCTCTTTATATTTATTTCTGTTGGG
*
4426092 TCTCTTTTTATTT-TTTCT-TTGGG
1 TCTCTTTATATTTATTTCTGTTGGG
4426115 T
1 T
4426116 GTTCGTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 6 0.27
24 4 0.18
25 12 0.55
ACGTcount: A:0.08, C:0.10, G:0.14, T:0.67
Consensus pattern (25 bp):
TCTCTTTATATTTATTTCTGTTGGG
Found at i:4429842 original size:26 final size:25
Alignment explanation
Indices: 4429795--4429860 Score: 80
Period size: 26 Copynumber: 2.6 Consensus size: 25
4429785 TTAATATAAT
4429795 TATTAAAATATTAAAAATTATTTAC
1 TATTAAAATATTAAAAATTATTTAC
*
4429820 TATTAAAGTATATT-AAAATTATTTAT
1 TATTAAA--ATATTAAAAATTATTTAC
*
4429846 TATAAAAATTATTAA
1 TATTAAAA-TATTAA
4429861 TATTAAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
24 1 0.03
25 11 0.31
26 18 0.51
27 5 0.14
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (25 bp):
TATTAAAATATTAAAAATTATTTAC
Found at i:4429865 original size:25 final size:25
Alignment explanation
Indices: 4429793--4429865 Score: 85
Period size: 25 Copynumber: 2.9 Consensus size: 25
4429783 TATTAATATA
4429793 ATTATTAAAA-TATTAAAAATTATTT
1 ATTATTAAAATTATT-AAAATTATTT
* *
4429818 ACTATTAAAGTATATTAAAATTATTT
1 ATTATTAAAAT-TATTAAAATTATTT
* *
4429844 ATTATAAAAATTATTAATATTA
1 ATTATTAAAATTATTAAAATTA
4429866 AAAAATAGTT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
25 18 0.45
26 18 0.45
27 4 0.10
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (25 bp):
ATTATTAAAATTATTAAAATTATTT
Done.