Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032248.1 Gossypioides kirkii chromosome KI_06
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: 60359545
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 900 characters in sequence are not A, C, G, or T
File 141 of 193
Found at i:44078209 original size:19 final size:18
Alignment explanation
Indices: 44078176--44078215 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
44078166 TCACTATAGT
*
44078176 ATACTACCTATTTATTAA
1 ATACTACCCATTTATTAA
*
44078194 ATACTAACCCATTTATTTA
1 ATACT-ACCCATTTATTAA
44078213 ATA
1 ATA
44078216 GTGTAATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.42
Consensus pattern (18 bp):
ATACTACCCATTTATTAA
Found at i:44082877 original size:21 final size:20
Alignment explanation
Indices: 44082838--44082888 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
44082828 CCTAGAACAT
*
44082838 CAAAGTTTAAACTCAAACCC
1 CAAAGTTTAAACCCAAACCC
* *
44082858 TAAATTTTAAACCCCAAACCC
1 CAAAGTTTAAA-CCCAAACCC
44082879 CAAAGTTTAA
1 CAAAGTTTAA
44082889 GGTATGGATT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 9 0.36
21 16 0.64
ACGTcount: A:0.45, C:0.27, G:0.04, T:0.24
Consensus pattern (20 bp):
CAAAGTTTAAACCCAAACCC
Found at i:44082933 original size:20 final size:20
Alignment explanation
Indices: 44082908--44082953 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
44082898 TTGGATCCAG
**
44082908 GGTTCAGGGTTTTGGTTTAA
1 GGTTCAGGGTTCGGGTTTAA
44082928 GGTTCAGGGTTCGGGTTTAA
1 GGTTCAGGGTTCGGGTTTAA
44082948 GGTTCA
1 GGTTCA
44082954 ACAGTCTAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.15, C:0.09, G:0.37, T:0.39
Consensus pattern (20 bp):
GGTTCAGGGTTCGGGTTTAA
Found at i:44086815 original size:25 final size:24
Alignment explanation
Indices: 44086772--44086824 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
44086762 GTGCTAATAT
* *
44086772 AATATAAATCATTACATAAATATTA
1 AATATAAATAATTACATAAA-AGTA
44086797 AATATAAATTAATTA-ATAAAAGTA
1 AATATAAA-TAATTACATAAAAGTA
44086821 AATA
1 AATA
44086825 AATAACAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 7 0.28
25 13 0.52
26 5 0.20
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (24 bp):
AATATAAATAATTACATAAAAGTA
Found at i:44087241 original size:18 final size:18
Alignment explanation
Indices: 44087218--44087256 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
44087208 AAAAATCAAA
*
44087218 TTTCACTTCAATTCT-ATT
1 TTTCACATC-ATTCTCATT
44087236 TTTCACATCATTCTCATT
1 TTTCACATCATTCTCATT
44087254 TTT
1 TTT
44087257 GGTCTCGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.21, C:0.23, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTCACATCATTCTCATT
Found at i:44088327 original size:18 final size:18
Alignment explanation
Indices: 44088284--44088329 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
44088274 ATATAAATAA
*
44088284 TAATATATTACTATTTAT
1 TAATATATTACTATTAAT
*
44088302 T-ATAATATTATTATTAAT
1 TAAT-ATATTACTATTAAT
44088320 TAATATATTA
1 TAATATATTA
44088330 GTTAAAAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
17 2 0.08
18 20 0.83
19 2 0.08
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (18 bp):
TAATATATTACTATTAAT
Found at i:44089828 original size:30 final size:29
Alignment explanation
Indices: 44089794--44089908 Score: 126
Period size: 29 Copynumber: 3.9 Consensus size: 29
44089784 GGTTAACTCA
44089794 AAATTTTTGGAAAGTTTGGGAGTCAAATTC
1 AAATTTTTGGAAAGTTTGGG-GTCAAATTC
* * *
44089824 AAATTTTTGGAAAGTTTGAGGTTAAATTT
1 AAATTTTTGGAAAGTTTGGGGTCAAATTC
* * *
44089853 GAATTTTTGGAAAATTTGGGGTCAAA-AC
1 AAATTTTTGGAAAGTTTGGGGTCAAATTC
44089881 ATAATTTTTAGG-AAGTTTGGAGGTCAAA
1 A-AATTTTT-GGAAAGTTTGG-GGTCAAA
44089909 AAAATTTTAA
Statistics
Matches: 71, Mismatches: 11, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
29 43 0.61
30 28 0.39
ACGTcount: A:0.35, C:0.04, G:0.23, T:0.37
Consensus pattern (29 bp):
AAATTTTTGGAAAGTTTGGGGTCAAATTC
Found at i:44089851 original size:29 final size:29
Alignment explanation
Indices: 44089755--44089908 Score: 125
Period size: 30 Copynumber: 5.2 Consensus size: 29
44089745 TTAAAACCAA
** *
44089755 GTCAAATTTGAATTTTTGGAAAGTTTAAAG
1 GTCAAATTCAAATTTTTGGAAAGTTT-GAG
* * *
44089785 GT-TAACTCAAAATTTTTGGAAAGTTTGGG
1 GTCAAATTC-AAATTTTTGGAAAGTTTGAG
44089814 AGTCAAATTCAAATTTTTGGAAAGTTTGAG
1 -GTCAAATTCAAATTTTTGGAAAGTTTGAG
* ** * *
44089844 GTTAAATTTGAATTTTTGGAAAATTTGGG
1 GTCAAATTCAAATTTTTGGAAAGTTTGAG
*
44089873 GTCAAA-ACATAATTTTTAGG-AAGTTTGGAG
1 GTCAAATTCA-AATTTTT-GGAAAGTTT-GAG
44089903 GTCAAA
1 GTCAAA
44089909 AAAATTTTAA
Statistics
Matches: 98, Mismatches: 20, Indels: 12
0.75 0.15 0.09
Matches are distributed among these distances:
29 45 0.46
30 49 0.50
31 4 0.04
ACGTcount: A:0.35, C:0.05, G:0.22, T:0.38
Consensus pattern (29 bp):
GTCAAATTCAAATTTTTGGAAAGTTTGAG
Found at i:44089872 original size:59 final size:60
Alignment explanation
Indices: 44089754--44089916 Score: 167
Period size: 59 Copynumber: 2.8 Consensus size: 60
44089744 ATTAAAACCA
** * * *
44089754 AGTCAAATTTGAATTTTTGGAAAGTTTAAAGGTTAACTCAAAATTTTTGGAAAGTTTGGG
1 AGTCAAATTCAAATTTTTGGAAAGTTTAGAGGTTAAATCAAAATTTTTGGAAAATTTGGG
***
44089814 AGTCAAATTCAAATTTTTGGAAAGTTT-GAGGTTAAATTTGAATTTTTGGAAAATTTGGG
1 AGTCAAATTCAAATTTTTGGAAAGTTTAGAGGTTAAATCAAAATTTTTGGAAAATTTGGG
* * *
44089873 -GTCAAA-ACATAATTTTTAGG-AAGTTTGGAGGTCAAA--AAAATTTT
1 AGTCAAATTCA-AATTTTT-GGAAAGTTTAGAGGTTAAATCAAAATTTT
44089917 AAAAGCAGAA
Statistics
Matches: 88, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
57 8 0.09
58 19 0.22
59 36 0.41
60 25 0.28
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (60 bp):
AGTCAAATTCAAATTTTTGGAAAGTTTAGAGGTTAAATCAAAATTTTTGGAAAATTTGGG
Found at i:44091692 original size:79 final size:79
Alignment explanation
Indices: 44091561--44092256 Score: 675
Period size: 79 Copynumber: 8.7 Consensus size: 79
44091551 TAACTTTAGA
** * * *
44091561 GGTAAAAGATTGGATGATCTTCAATCTGCCTTCT-AGTTAAGGTAAAAGATTGGATTGTTTCAAT
1 GGTAAAAGATTAAATGGTCTTCAATCTGCCCTCTGA-TTAGGGTAAAAGATTGGATTGTTTCAAT
*
44091625 CTGCCCCATGGTTGG
65 CTGCCCCATGGTCGG
* * ** *
44091640 GGTAAAAGATTAAATGGTCTTCAATCTGCCCTCTAATTAGGGTAAAATATTGGATTACTTCAATT
1 GGTAAAAGATTAAATGGTCTTCAATCTGCCCTCTGATTAGGGTAAAAGATTGGATTGTTTCAATC
* * *
44091705 TCCCCCATGATCGA
66 TGCCCCATGGTCGG
* *
44091719 GGTAAAAGATTAAATGGTCTTCAATATGCCCTCTGATTAGGGTAAAATATTGGATTGCTTT-AAT
1 GGTAAAAGATTAAATGGTCTTCAATCTGCCCTCTGATTAGGGTAAAAGATTGGATTG-TTTCAAT
* * *
44091783 CTTCCCCATGGTTGA
65 CTGCCCCATGGTCGG
* * *
44091798 GGTAAAAGATTAAATGGTCTTCAATCTACCCTCTGATTAGGGTAAAATATTGGATTGCTTCAATC
1 GGTAAAAGATTAAATGGTCTTCAATCTGCCCTCTGATTAGGGTAAAAGATTGGATTGTTTCAATC
*
44091863 TACCCCATGGTCGG
66 TGCCCCATGGTCGG
* * * *
44091877 GGTAAAATATTAAATGGTCTTCAATCTGCCCTCTGATTAGGGTAAAAAATTAGATTGTTTCAATT
1 GGTAAAAGATTAAATGGTCTTCAATCTGCCCTCTGATTAGGGTAAAAGATTGGATTGTTTCAATC
* **
44091942 TGCCTCATGGTTAG
66 TGCCCCATGGTCGG
* * * * *
44091956 GGTAAAAGATTAAATGGTCTTCAATCTGTCTTCTAATTAGGGTAAGAGATTGGATTGCTTCAATC
1 GGTAAAAGATTAAATGGTCTTCAATCTGCCCTCTGATTAGGGTAAAAGATTGGATTGTTTCAATC
44092021 TGCCCCATGGTCGG
66 TGCCCCATGGTCGG
* * *** * * * **
44092035 GATAAGAGATCGGATGATCTTCAATCTGCCTTTTGATTAGGGTAAAAGATCAGATGATGTCTTCA
1 GGTAAAAGATTAAATGGTCTTCAATCTGCCCTCTGATTAGGGTAAAAGATTGGAT--TGT-TTCA
* *
44092100 ATCTACCCCATGATCGG
63 ATCTGCCCCATGGTCGG
* * ** * * * *
44092117 GGTAAGACATTGGATGACGCCTTCCATCTGCCC-CGTGA-TCGAGGTAAGAGATTGGATGATGTC
1 GGTAAAAGATTAAATG--GTCTTCAATCTGCCCTC-TGATTAG-GGTAAAAGATTGGAT--TGT-
*
44092180 TTCAATCTGCCCCATGATCGG
59 TTCAATCTGCCCCATGGTCGG
** *
44092201 GGTAAAAGATTGGATGATGTCTTCAATCTG-CCTCATGA-TCGAGGTAAAAGATTGGA
1 GGTAAAAGATTAAATG--GTCTTCAATCTGCCCTC-TGATTAG-GGTAAAAGATTGGA
44092257 CGGTGATGCA
Statistics
Matches: 522, Mismatches: 84, Indels: 17
0.84 0.13 0.03
Matches are distributed among these distances:
78 2 0.00
79 381 0.73
80 3 0.01
81 2 0.00
82 32 0.06
83 4 0.01
84 98 0.19
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.32
Consensus pattern (79 bp):
GGTAAAAGATTAAATGGTCTTCAATCTGCCCTCTGATTAGGGTAAAAGATTGGATTGTTTCAATC
TGCCCCATGGTCGG
Found at i:44092120 original size:42 final size:42
Alignment explanation
Indices: 44091601--44092256 Score: 365
Period size: 40 Copynumber: 16.3 Consensus size: 42
44091591 TTCTAGTTAA
* *
44091601 GGTAAAAGATTGGAT--TGT-TTCAATCTGCCCCATGGTTGG
1 GGTAAAAGATTGGATGATGTCTTCAATCTGCCCCATGATCGG
** * **
44091640 GGTAAAAGATTAAATG--GTCTTCAATCTGCCCTC-TAATTAG
1 GGTAAAAGATTGGATGATGTCTTCAATCTGCCC-CATGATCGG
* * * * *
44091680 GGTAAAATATTGGAT--T-ACTTCAATTTCCCCCATGATCGA
1 GGTAAAAGATTGGATGATGTCTTCAATCTGCCCCATGATCGG
** * **
44091719 GGTAAAAGATTAAATG--GTCTTCAATATGCCCTC-TGATTAG
1 GGTAAAAGATTGGATGATGTCTTCAATCTGCCC-CATGATCGG
* * * * * *
44091759 GGTAAAATATTGGAT--TG-CTTTAATCTTCCCCATGGTTGA
1 GGTAAAAGATTGGATGATGTCTTCAATCTGCCCCATGATCGG
** * **
44091798 GGTAAAAGATTAAATG--GTCTTCAATCTACCCTC-TGATTAG
1 GGTAAAAGATTGGATGATGTCTTCAATCTGCCC-CATGATCGG
* * *
44091838 GGTAAAATATTGGAT--TG-CTTCAATCTACCCCATGGTCGG
1 GGTAAAAGATTGGATGATGTCTTCAATCTGCCCCATGATCGG
* ** **
44091877 GGTAAAATATTAAATG--GTCTTCAATCTGCCCTC-TGATTAG
1 GGTAAAAGATTGGATGATGTCTTCAATCTGCCC-CATGATCGG
* * * * * **
44091917 GGTAAAAAATTAGAT--TGT-TTCAATTTGCCTCATGGTTAG
1 GGTAAAAGATTGGATGATGTCTTCAATCTGCCCCATGATCGG
** ** * **
44091956 GGTAAAAGATTAAATG--GTCTTCAATCTGTCTTC-TAATTAG
1 GGTAAAAGATTGGATGATGTCTTCAATCTG-CCCCATGATCGG
* *
44091996 GGTAAGAGATTGGAT--TG-CTTCAATCTGCCCCATGGTCGG
1 GGTAAAAGATTGGATGATGTCTTCAATCTGCCCCATGATCGG
* * * *** **
44092035 GATAAGAGATCGGATGA--TCTTCAATCTGCCTTTTGATTAG
1 GGTAAAAGATTGGATGATGTCTTCAATCTGCCCCATGATCGG
** *
44092075 GGTAAAAGATCAGATGATGTCTTCAATCTACCCCATGATCGG
1 GGTAAAAGATTGGATGATGTCTTCAATCTGCCCCATGATCGG
* * * * * * *
44092117 GGTAAGACATTGGATGACGCCTTCCATCTGCCCCGTGATCGA
1 GGTAAAAGATTGGATGATGTCTTCAATCTGCCCCATGATCGG
*
44092159 GGTAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCGG
1 GGTAAAAGATTGGATGATGTCTTCAATCTGCCCCATGATCGG
* *
44092201 GGTAAAAGATTGGATGATGTCTTCAATCTGCCTCATGATCGA
1 GGTAAAAGATTGGATGATGTCTTCAATCTGCCCCATGATCGG
44092243 GGTAAAAGATTGGA
1 GGTAAAAGATTGGA
44092257 CGGTGATGCA
Statistics
Matches: 478, Mismatches: 109, Indels: 57
0.74 0.17 0.09
Matches are distributed among these distances:
38 6 0.01
39 156 0.33
40 171 0.36
41 7 0.01
42 138 0.29
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.32
Consensus pattern (42 bp):
GGTAAAAGATTGGATGATGTCTTCAATCTGCCCCATGATCGG
Found at i:44092217 original size:126 final size:124
Alignment explanation
Indices: 44092013--44092256 Score: 310
Period size: 126 Copynumber: 2.0 Consensus size: 124
44092003 GATTGGATTG
* *** *
44092013 CTTCAATCTGCCCCATGGTCGGGATAAGAGATCGGATGATCTTCAATCTGCCTTTTGATTAGGGT
1 CTTCAATCTGCCCCATGATCGGGATAAGAGATCGGATGATCTTCAATCTGCCCCATGATCAGGGT
* *
44092078 AAAAGATCAGATGATGTCTTCAATCTACCCCATGATCGGGGTAAGACATTGGATGACGC
66 AAAAGATCAGATGATGTCTTCAATCTACCCCATGATCGAGGTAAAACATTGGATGACGC
* * * *
44092137 CTTCCATCTGCCCCGTGATCGAGG-TAAGAGATTGGATGATGTCTTCAATCTGCCCCATGATCGG
1 CTTCAATCTGCCCCATGATCG-GGATAAGAGATCGGATGA--TCTTCAATCTGCCCCATGATCAG
** * * *
44092201 GGTAAAAGATTGGATGATGTCTTCAATCTGCCTCATGATCGAGGTAAAAGATTGGA
63 GGTAAAAGATCAGATGATGTCTTCAATCTACCCCATGATCGAGGTAAAACATTGGA
44092257 CGGTGATGCA
Statistics
Matches: 101, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
124 32 0.32
125 2 0.02
126 67 0.66
ACGTcount: A:0.26, C:0.20, G:0.25, T:0.28
Consensus pattern (124 bp):
CTTCAATCTGCCCCATGATCGGGATAAGAGATCGGATGATCTTCAATCTGCCCCATGATCAGGGT
AAAAGATCAGATGATGTCTTCAATCTACCCCATGATCGAGGTAAAACATTGGATGACGC
Found at i:44093576 original size:112 final size:112
Alignment explanation
Indices: 44093379--44093590 Score: 311
Period size: 112 Copynumber: 1.9 Consensus size: 112
44093369 TTGTTAAACC
*
44093379 ACTAACCGTCATTTAATGTAAAAAATGCTTGAACAGGGTTGTAAAGTGGATAAAATTGAATTTGA
1 ACTAACCGTAATTTAATGTAAAAAATGCTTGAACAGGGTTGTAAAGTGGATAAAATTGAATTTGA
*
44093444 TTGGAGGCAAAGCTTACATGAATGA-AAAGATTAAAAACCATTAGTCG
66 TTGGAGGCAAAGCTCACATGAATGAGAAA-ATTAAAAACCATTAGTCG
* * * * *
44093491 ACTAACCGTAATTTCAATG-CAAAAATGCTTGAACGGGGTTGTGAGGTGGATAAAATTGAATTTT
1 ACTAACCGTAATTT-AATGTAAAAAATGCTTGAACAGGGTTGTAAAGTGGATAAAATTGAATTTG
* *
44093555 ATTGGAGGGAAAGCTCGCATGAATGAGAAAATTAAA
65 ATTGGAGGCAAAGCTCACATGAATGAGAAAATTAAA
44093591 CACTGATCAA
Statistics
Matches: 89, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
112 82 0.92
113 7 0.08
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.27
Consensus pattern (112 bp):
ACTAACCGTAATTTAATGTAAAAAATGCTTGAACAGGGTTGTAAAGTGGATAAAATTGAATTTGA
TTGGAGGCAAAGCTCACATGAATGAGAAAATTAAAAACCATTAGTCG
Found at i:44098490 original size:30 final size:30
Alignment explanation
Indices: 44098456--44098517 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
44098446 TAAAATCCAA
*
44098456 GTCAAATTTGAATTTTTGGAAAGTTTAGGG
1 GTCAAATTGGAATTTTTGGAAAGTTTAGGG
* *
44098486 GTCAAATTGGATTTTTTGGAAAGTTTATGG
1 GTCAAATTGGAATTTTTGGAAAGTTTAGGG
44098516 GT
1 GT
44098518 TAAAACATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.27, C:0.03, G:0.27, T:0.42
Consensus pattern (30 bp):
GTCAAATTGGAATTTTTGGAAAGTTTAGGG
Found at i:44098532 original size:30 final size:30
Alignment explanation
Indices: 44098465--44098552 Score: 86
Period size: 30 Copynumber: 2.9 Consensus size: 30
44098455 AGTCAAATTT
* ***
44098465 GAATTTTTGGAAAGTTTAGGGGTCAAATTG
1 GAATTTTTGGAAAGTTTAGGGGTTAAAACA
* *
44098495 GATTTTTTGGAAAGTTTATGGGTTAAAACA
1 GAATTTTTGGAAAGTTTAGGGGTTAAAACA
* ** *
44098525 TAATTTTTTTAAAGTTTGGGGGTTAAAA
1 GAATTTTTGGAAAGTTTAGGGGTTAAAA
44098553 AATTTTAAAA
Statistics
Matches: 46, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.32, C:0.02, G:0.25, T:0.41
Consensus pattern (30 bp):
GAATTTTTGGAAAGTTTAGGGGTTAAAACA
Found at i:44099503 original size:20 final size:20
Alignment explanation
Indices: 44099474--44099511 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
44099464 GTATTAAGTT
*
44099474 ATTTAATTGGGTTTGTTTTA
1 ATTTAATTGGATTTGTTTTA
*
44099494 ATTTATTTGGATTTGTTT
1 ATTTAATTGGATTTGTTT
44099512 GTGAATTTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.00, G:0.18, T:0.63
Consensus pattern (20 bp):
ATTTAATTGGATTTGTTTTA
Found at i:44099557 original size:11 final size:12
Alignment explanation
Indices: 44099541--44099570 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
44099531 AATAATAGAG
44099541 TTTATTTTTTT-
1 TTTATTTTTTTA
44099552 TTTATTTTTTTA
1 TTTATTTTTTTA
44099564 TTTATTT
1 TTTATTT
44099571 ACATTTATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (12 bp):
TTTATTTTTTTA
Found at i:44103343 original size:29 final size:30
Alignment explanation
Indices: 44103311--44103376 Score: 107
Period size: 29 Copynumber: 2.2 Consensus size: 30
44103301 TAGAATCAAA
*
44103311 TTAAAAATAAACAAATTAAAGGAATT-TTT
1 TTAAAAATAAACAAATCAAAGGAATTCTTT
*
44103340 TTAAAAATAAATAAATCAAAGGAATTCTTT
1 TTAAAAATAAACAAATCAAAGGAATTCTTT
44103370 TTAAAAA
1 TTAAAAA
44103377 AAAGAAAATT
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
29 24 0.71
30 10 0.29
ACGTcount: A:0.56, C:0.05, G:0.06, T:0.33
Consensus pattern (30 bp):
TTAAAAATAAACAAATCAAAGGAATTCTTT
Found at i:44103729 original size:12 final size:13
Alignment explanation
Indices: 44103700--44103740 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 13
44103690 AAAACTTCAC
*
44103700 CTCTCTCTCTTTT
1 CTCTCTCTTTTTT
44103713 CTCTC-CTTTTTT
1 CTCTCTCTTTTTT
*
44103725 TTCTCTC-TTTTT
1 CTCTCTCTTTTTT
44103737 CTCT
1 CTCT
44103741 TCCGTCCGTC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
12 18 0.75
13 6 0.25
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (13 bp):
CTCTCTCTTTTTT
Found at i:44105325 original size:114 final size:114
Alignment explanation
Indices: 44105177--44105603 Score: 602
Period size: 114 Copynumber: 3.7 Consensus size: 114
44105167 TCGCTATTTG
*
44105177 TTTTAACCCACTTCTCTGTACCTCACCAGGAAGATGGGATTTGAAGTCTCACTCCACTCCACTGT
1 TTTTGACCCACTTCTCTGTACCTCACCAGGAAGATGGGATTTGAAGTCTCACTCCACTCCACTGT
*
44105242 ATCCTTAGGGACGTTGAGCTCGACTTCGTTGTTTTGATTCAACACACTA
66 ATCCTCAGGGACGTTGAGCTCGACTTCGTTGTTTTGATTCAACACACTA
* * * * *
44105291 TTTTGACCCACTTCTCTGTACCTCACTAGAAAGATGGGATTTAAAGTCTTACTCCACTCCACTAT
1 TTTTGACCCACTTCTCTGTACCTCACCAGGAAGATGGGATTTGAAGTCTCACTCCACTCCACTGT
* * * * *
44105356 ATCCTCATGGACGTTGAGCTCTACTTCATCGTTTTGATTCAACACACTG
66 ATCCTCAGGGACGTTGAGCTCGACTTCGTTGTTTTGATTCAACACACTA
* * * *
44105405 TATTGACCCACTTCTCTGTACCTCACTAGGAAGATGAGATTTGAAGTCTCACTCCACTCTACTGT
1 TTTTGACCCACTTCTCTGTACCTCACCAGGAAGATGGGATTTGAAGTCTCACTCCACTCCACTGT
* * *
44105470 ATCCTCAGGGACGTTGAGCTTGGCTTTGTTGTTTTGATTCAACACACTA
66 ATCCTCAGGGACGTTGAGCTCGACTTCGTTGTTTTGATTCAACACACTA
** * * *
44105519 TTTTGACTTACTTCTCTGTACTTCACCAGGAAGATGGGATTTGAAGTCTTACTCCACTCCATTGT
1 TTTTGACCCACTTCTCTGTACCTCACCAGGAAGATGGGATTTGAAGTCTCACTCCACTCCACTGT
** * *
44105584 ATTATCAGGGATGTTAAGCT
66 ATCCTCAGGGACGTTGAGCT
44105604 TTGCTTCATT
Statistics
Matches: 273, Mismatches: 40, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
114 273 1.00
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.34
Consensus pattern (114 bp):
TTTTGACCCACTTCTCTGTACCTCACCAGGAAGATGGGATTTGAAGTCTCACTCCACTCCACTGT
ATCCTCAGGGACGTTGAGCTCGACTTCGTTGTTTTGATTCAACACACTA
Found at i:44105690 original size:96 final size:96
Alignment explanation
Indices: 44105517--44105891 Score: 491
Period size: 96 Copynumber: 3.9 Consensus size: 96
44105507 TTCAACACAC
** * * *
44105517 TATTTTGACTTACTTCTCTGTACTTCACCAGGAAGATGGGATTTGAAGTCTTACTCCACTCCATT
1 TATTTTGACCCACTTCTCTGTACCTCACCAGGAAGATGGGATTTGAAGTCTCACTCCACTCCACT
** *
44105582 GTATTATCAGGGATGTTAAGCTTTGCTTCAT
66 GTATCCTCAGGGATGTTGAGCTTTGCTTCAT
** * *
44105613 TATTTTGACCCACTTCTCTGTACCTCACCAAAAAGATGAGATTTGAAGTCTCACTCCACTCTACT
1 TATTTTGACCCACTTCTCTGTACCTCACCAGGAAGATGGGATTTGAAGTCTCACTCCACTCCACT
* * *
44105678 GTACCCTTAGGGACGTTGAGCTTTGCTTCAT
66 GTATCCTCAGGGATGTTGAGCTTTGCTTCAT
* * *
44105709 TATTTTGACCCACTTCTCTATACCTCACCAGGAAGATGGGATTTGAAGTCTTACTTCACTCCACT
1 TATTTTGACCCACTTCTCTGTACCTCACCAGGAAGATGGGATTTGAAGTCTCACTCCACTCCACT
* * *
44105774 ATATCCTCAGAGATGTTGAGCTTTACTTCAT
66 GTATCCTCAGGGATGTTGAGCTTTGCTTCAT
* * * *
44105805 TATTTTGACTCACTTCTCTGTACCTAACCAGGAAGATGGGATTTGAAGTTTCACTCCACTCCACA
1 TATTTTGACCCACTTCTCTGTACCTCACCAGGAAGATGGGATTTGAAGTCTCACTCCACTCCACT
* *
44105870 GTAACCTC-GGAGACGTTGAGCT
66 GTATCCTCAGG-GATGTTGAGCT
44105892 CTACTTCGTT
Statistics
Matches: 239, Mismatches: 39, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
95 1 0.00
96 238 1.00
ACGTcount: A:0.24, C:0.24, G:0.17, T:0.35
Consensus pattern (96 bp):
TATTTTGACCCACTTCTCTGTACCTCACCAGGAAGATGGGATTTGAAGTCTCACTCCACTCCACT
GTATCCTCAGGGATGTTGAGCTTTGCTTCAT
Found at i:44106371 original size:99 final size:99
Alignment explanation
Indices: 44106249--44106689 Score: 451
Period size: 97 Copynumber: 4.5 Consensus size: 99
44106239 CCCTTCATGT
* * **
44106249 TTCTAAGGTACTAGGTTCGCCGTTGCGGCCTCAACATTTCCCTTTATATTTTTATGGTATTAGAT
1 TTCTAAGGTACAAGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTTATATTTCCATGGTATTAGAT
* * * *
44106314 CCACCGTTACAGCCTCGATCCTTCCCGTCACATC
66 TCACCGTTACGGCCTCAATCCTTCCCATCACATC
* * ** ** * * *
44106348 TTCTAAGGGACAAGGTTCACCGTTATGGCCTCAACCTTTCCCTTTATATTTTTATGGTACTAAAA
1 TTCTAAGGTACAAGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTTATATTTCCATGGTATTAGAT
** *
44106413 TCGTCATTACGGCCTCAATCCTTCCCATCACATC
66 TCACCGTTACGGCCTCAATCCTTCCCATCACATC
* * * * * *
44106447 TTCTAAGGTACAGGGTTCACTGTTACAGCCTCAACCTTTCCC-TT-TATTTCCATGATATTAGAT
1 TTCTAAGGTACAAGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTTATATTTCCATGGTATTAGAT
* * * * * * **
44106510 TCGCCGTTGCGACCTCGATCTTTCCAATCATGTC
66 TCACCGTTACGGCCTCAATCCTTCCCATCACATC
* ** *
44106544 TTCTAAGGTAC-AGGATTCGTCGTTGCAACCTCAACCTTTCCC-TT-TATTTCCATGGTACTAGA
1 TTCTAAGGTACAAGG-TTCGCCGTTGCGGCCTCAACCTTTCCCTTTATATTTCCATGGTATTAGA
44106606 TTCACCGTTACGGCCTCAATCCTTCCCATCACATC
65 TTCACCGTTACGGCCTCAATCCTTCCCATCACATC
* * * * *
44106641 TTCTAAGGTATAAGGTTCGCCATTGCGACCTCAATCTTTCCCTTCATAT
1 TTCTAAGGTACAAGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTTATAT
44106690 CTTCATGTTT
Statistics
Matches: 280, Mismatches: 58, Indels: 8
0.81 0.17 0.02
Matches are distributed among these distances:
96 2 0.01
97 149 0.53
98 6 0.02
99 123 0.44
ACGTcount: A:0.22, C:0.29, G:0.15, T:0.35
Consensus pattern (99 bp):
TTCTAAGGTACAAGGTTCGCCGTTGCGGCCTCAACCTTTCCCTTTATATTTCCATGGTATTAGAT
TCACCGTTACGGCCTCAATCCTTCCCATCACATC
Found at i:44109491 original size:6 final size:6
Alignment explanation
Indices: 44109471--44109565 Score: 74
Period size: 6 Copynumber: 16.2 Consensus size: 6
44109461 CTCAACTCAT
* * *
44109471 TTTAAA TTT-AT TTTAAA TTTAAA TTT-AT TTCTAAAA TTTAAA -TTGAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TT-T-AAA TTTAAA TTTAAA
* * *
44109518 TTTAAG TTTAAA TTTATA TTTAAA TTTAAA ATT--A TTATAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TT-TAAA TTTAAA
44109565 T
1 T
44109566 AAGTAAAAGT
Statistics
Matches: 69, Mismatches: 12, Indels: 16
0.71 0.12 0.16
Matches are distributed among these distances:
4 2 0.03
5 12 0.17
6 48 0.70
7 4 0.06
8 3 0.04
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (6 bp):
TTTAAA
Found at i:44109493 original size:17 final size:17
Alignment explanation
Indices: 44109471--44109565 Score: 118
Period size: 17 Copynumber: 5.4 Consensus size: 17
44109461 CTCAACTCAT
44109471 TTTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
44109488 TTTAAATTTATTTCTAAAA
1 TTTAAATTTATTT-T-AAA
* * *
44109507 TTTAAATTGAATTTAAG
1 TTTAAATTTATTTTAAA
44109524 TTTAAATTTATATTTAAA
1 TTTAAATTTAT-TTTAAA
* *
44109542 TTTAAAATTATTATAAA
1 TTTAAATTTATTTTAAA
44109559 TTTAAAT
1 TTTAAAT
44109566 AAGTAAAAGT
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
17 35 0.53
18 17 0.26
19 14 0.21
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:44109511 original size:36 final size:35
Alignment explanation
Indices: 44109471--44109565 Score: 120
Period size: 36 Copynumber: 2.7 Consensus size: 35
44109461 CTCAACTCAT
44109471 TTTAAATTTATTTTAAATTTAAATTTAT-TTCTAAAA
1 TTTAAATTTATTTTAAATTTAAATTTATATT-T-AAA
* * *
44109507 TTTAAATTGAATTTAAGTTTAAATTTATATTTAAA
1 TTTAAATTTATTTTAAATTTAAATTTATATTTAAA
* *
44109542 TTTAAAATTATTATAAATTTAAAT
1 TTTAAATTTATTTTAAATTTAAAT
44109566 AAGTAAAAGT
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
35 22 0.44
36 26 0.52
37 2 0.04
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (35 bp):
TTTAAATTTATTTTAAATTTAAATTTATATTTAAA
Found at i:44110197 original size:9 final size:9
Alignment explanation
Indices: 44110185--44110234 Score: 64
Period size: 9 Copynumber: 5.6 Consensus size: 9
44110175 AAAACATGAA
*
44110185 AATAATTTT
1 AATAATATT
*
44110194 AATAATACT
1 AATAATATT
* *
44110203 AATAACAAT
1 AATAATATT
44110212 AATAATATT
1 AATAATATT
44110221 AATAATATT
1 AATAATATT
44110230 AATAA
1 AATAA
44110235 AAGAAGGAAG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (9 bp):
AATAATATT
Found at i:44111318 original size:29 final size:29
Alignment explanation
Indices: 44111277--44111604 Score: 108
Period size: 29 Copynumber: 11.3 Consensus size: 29
44111267 AAACTATTCA
* * *
44111277 AAAAATT-TATTTTGACCTTGAAGCTTCC
1 AAAAATTATGTTTTGACCTCGAAACTTCC
* * *
44111305 AAAAATTATGTTTTTATCCTCG-GATTTCC
1 AAAAATTATGTTTTGA-CCTCGAAACTTCC
*
44111334 AAAAATTCTAT-TTTTGACCTCGAAACTTTC
1 AAAAA-T-TATGTTTTGACCTCGAAACTTCC
* * *
44111364 AAAAATTATGTTTTTACC-CTAAACTCCC
1 AAAAATTATGTTTTGACCTCGAAACTTCC
* * * **
44111392 AAAAATTACAT-TTTTAACCCCAAAACTTAT
1 AAAAATT--ATGTTTTGACCTCGAAACTTCC
* ** * * *
44111422 AAAATTTACATTTTTACCCCTG-AACTTTC
1 AAAAATTATGTTTTGACCTC-GAAACTTCC
* * *
44111451 AAAAATTCCAT-TTTTAACC-CTAAAACTTCT
1 AAAAATT--ATGTTTTGACCTC-GAAACTTCC
* *
44111481 AAAAATTACT-TTTT-ACCCCTAAACTTCC
1 AAAAATTA-TGTTTTGACCTCGAAACTTCC
*
44111509 AAAAATTCTAT-TTTTGACCCCGAAACTTCC
1 AAAAA-T-TATGTTTTGACCTCGAAACTTCC
* ** * *
44111539 AAACATTACCATTTT-ACC-CCAAACTTTCA
1 AAAAATTA-TGTTTTGACCTCGAAAC-TTCC
* * *
44111568 AAAAATCCAT-TTTTAACCTCGAAACTTTC
1 AAAAAT-TATGTTTTGACCTCGAAACTTCC
44111597 AAAAATTA
1 AAAAATTA
44111605 CCATTTTACC
Statistics
Matches: 230, Mismatches: 45, Indels: 50
0.71 0.14 0.15
Matches are distributed among these distances:
28 53 0.23
29 92 0.40
30 81 0.35
31 4 0.02
ACGTcount: A:0.37, C:0.23, G:0.04, T:0.37
Consensus pattern (29 bp):
AAAAATTATGTTTTGACCTCGAAACTTCC
Found at i:44111612 original size:30 final size:30
Alignment explanation
Indices: 44111345--44111617 Score: 178
Period size: 30 Copynumber: 9.3 Consensus size: 30
44111335 AAAATTCTAT
* * **
44111345 TTTTGACCTCGAAACTTTCAAAAATTA-TG
1 TTTTAACCCCGAAACTTTCAAAAATTACCA
* * **
44111374 TTTTTA-CCCTAAACTCCCAAAAATTA-CA
1 TTTTAACCCCGAAACTTTCAAAAATTACCA
* *
44111402 TTTTTAACCCCAAAACTTAT-AAAATTTA-CA
1 -TTTTAACCCCGAAACTT-TCAAAAATTACCA
*
44111432 TTTTTACCCCTG-AACTTTCAAAAATT-CCA
1 TTTTAACCCC-GAAACTTTCAAAAATTACCA
**
44111461 TTTTTAACCCTAAAAC-TTCTAAAAATTA-C-
1 -TTTTAACCCCGAAACTTTC-AAAAATTACCA
* * * *
44111490 TTTTTACCCCTAAACTTCCAAAAATT-CTA
1 TTTTAACCCCGAAACTTTCAAAAATTACCA
* * *
44111519 TTTTTGACCCCGAAACTTCCAAACATTACCA
1 -TTTTAACCCCGAAACTTTCAAAAATTACCA
*
44111550 TTTT-ACCCC-AAACTTTCAAAAAAT-CCA
1 TTTTAACCCCGAAACTTTCAAAAATTACCA
*
44111577 TTTTTAACCTCGAAACTTTCAAAAATTACCA
1 -TTTTAACCCCGAAACTTTCAAAAATTACCA
*
44111608 TTTTACCCCC
1 TTTTAACCCC
44111618 CGAGAGTCCA
Statistics
Matches: 191, Mismatches: 34, Indels: 37
0.73 0.13 0.14
Matches are distributed among these distances:
27 3 0.02
28 52 0.27
29 46 0.24
30 85 0.45
31 5 0.03
ACGTcount: A:0.36, C:0.26, G:0.03, T:0.35
Consensus pattern (30 bp):
TTTTAACCCCGAAACTTTCAAAAATTACCA
Found at i:44111612 original size:117 final size:117
Alignment explanation
Indices: 44111333--44111616 Score: 348
Period size: 117 Copynumber: 2.4 Consensus size: 117
44111323 CTCGGATTTC
* * *
44111333 CAAAAATTCTATTTTTGACCTCGAAACTTTCAAAAATTATGTTTTTA-CCCTAAACTCCCAAAAA
1 CAAAAATTCCATTTTTAACCTCGAAACTTTCAAAAATTA-CTTTTTACCCCTAAACTCCCAAAAA
* *
44111397 TTACATTTTTAACCCCAAAACTTATAAAATTTACATTTTTACCCCTGAACTTT
65 TTACATTTTTAACCCCAAAACTTACAAAATTTACATTTTTACCCCTAAACTTT
* *
44111450 CAAAAATTCCATTTTTAACC-CTAAAAC-TTCTAAAAATTACTTTTTACCCCTAAACTTCCAAAA
1 CAAAAATTCCATTTTTAACCTC-GAAACTTTC-AAAAATTACTTTTTACCCCTAAACTCCCAAAA
* * *
44111513 ATT-CTATTTTTGACCCCGAAACTTCCAAACA-TTACCA-TTTTACCCC-AAACTTT
64 ATTAC-ATTTTTAACCCCAAAACTTACAAA-ATTTA-CATTTTTACCCCTAAACTTT
* *
44111566 CAAAAAATCCATTTTTAACCTCGAAACTTTCAAAAATTACCATTTTACCCC
1 CAAAAATTCCATTTTTAACCTCGAAACTTTCAAAAATTA-CTTTTTACCCC
44111617 CCGAGAGTCC
Statistics
Matches: 145, Mismatches: 13, Indels: 18
0.82 0.07 0.10
Matches are distributed among these distances:
116 48 0.33
117 94 0.65
118 3 0.02
ACGTcount: A:0.37, C:0.25, G:0.02, T:0.35
Consensus pattern (117 bp):
CAAAAATTCCATTTTTAACCTCGAAACTTTCAAAAATTACTTTTTACCCCTAAACTCCCAAAAAT
TACATTTTTAACCCCAAAACTTACAAAATTTACATTTTTACCCCTAAACTTT
Found at i:44111616 original size:58 final size:58
Alignment explanation
Indices: 44111330--44111616 Score: 303
Period size: 58 Copynumber: 4.9 Consensus size: 58
44111320 ATCCTCGGAT
* * * **
44111330 TTCCAAAAATTCTATTTTTGACCTCGAAACTTTCAAAAATTATGTTTTTA-CCCTAAAC
1 TTCCAAAAATTCCATTTTTAACCCCGAAACTTTCAAAAATTA-CATTTTACCCCTAAAC
* * * * *
44111388 TCCCAAAAATTACATTTTTAACCCCAAAACTTAT-AAAATTTACATTTTTACCCCTGAAC
1 TTCCAAAAATTCCATTTTTAACCCCGAAACTT-TCAAAAATTACA-TTTTACCCCTAAAC
* ** *
44111447 TTTCAAAAATTCCATTTTTAACCCTAAAAC-TTCTAAAAATTACTTTTTACCCCTAAAC
1 TTCCAAAAATTCCATTTTTAACCCCGAAACTTTC-AAAAATTACATTTTACCCCTAAAC
* * * *
44111505 TTCCAAAAATTCTATTTTTGACCCCGAAACTTCCAAACATTACCATTTTACCCC-AAAC
1 TTCCAAAAATTCCATTTTTAACCCCGAAACTTTCAAAAATTA-CATTTTACCCCTAAAC
* * *
44111563 TTTCAAAAAATCCATTTTTAACCTCGAAACTTTCAAAAATTACCATTTTACCCC
1 TTCCAAAAATTCCATTTTTAACCCCGAAACTTTCAAAAATTA-CATTTTACCCC
44111617 CCGAGAGTCC
Statistics
Matches: 190, Mismatches: 32, Indels: 14
0.81 0.14 0.06
Matches are distributed among these distances:
57 1 0.01
58 135 0.71
59 54 0.28
ACGTcount: A:0.37, C:0.25, G:0.02, T:0.36
Consensus pattern (58 bp):
TTCCAAAAATTCCATTTTTAACCCCGAAACTTTCAAAAATTACATTTTACCCCTAAAC
Found at i:44117188 original size:7 final size:7
Alignment explanation
Indices: 44117176--44117218 Score: 54
Period size: 7 Copynumber: 6.3 Consensus size: 7
44117166 TGAATAAAAG
44117176 AAAAGAA
1 AAAAGAA
44117183 AAAAG-A
1 AAAAGAA
*
44117189 AGAAGAA
1 AAAAGAA
44117196 AAACA-AA
1 AAA-AGAA
44117203 AAAAGAA
1 AAAAGAA
44117210 AAAAGAA
1 AAAAGAA
44117217 AA
1 AA
44117219 GGAGAGGTCG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
6 6 0.19
7 24 0.77
8 1 0.03
ACGTcount: A:0.84, C:0.02, G:0.14, T:0.00
Consensus pattern (7 bp):
AAAAGAA
Found at i:44118559 original size:100 final size:99
Alignment explanation
Indices: 44118372--44118715 Score: 422
Period size: 100 Copynumber: 3.4 Consensus size: 99
44118362 GCACCATGAA
* * * * *
44118372 ACACGATGGGAAAGATCTAAGACCGCAACGACGGATCCAATACCGCAAGGATAAAAAAGGGAAAC
1 ACACGACGGGAAAGATCTAAGACCGCAACGACGGATCCAGTACCGCAAAGATACAAAAGGGAAAG
*
44118437 GTGACGATCGTAACGACTAACCTTATACCTCAAAG
66 GTGACAATCGTAACGA-TAACCTTATACCTCAAAG
* *
44118472 ACAGGACGGGAAAGATCTAAGACCGCAACGACGAATCCAGTACCGCAAAGATACAAAAGGGAAAG
1 ACACGACGGGAAAGATCTAAGACCGCAACGACGGATCCAGTACCGCAAAGATACAAAAGGGAAAG
*
44118537 GTGACAATCGTAACGGTGAACCTTATACCTCAAAG
66 GTGACAATCGTAACGAT-AACCTTATACCTCAAAG
* * * * *
44118572 ACATGACGTGAAAGATCTAAGATCGCAACGGCGGATCCAGTACCGCAAAGATACAAAAGGGAAGG
1 ACACGACGGGAAAGATCTAAGACCGCAACGACGGATCCAGTACCGCAAAGATACAAAAGGGAAAG
* * * * * *
44118637 GTTTA-AGTCGCAACGACAAACCTTGTACCTCAGAG
66 G-TGACAATCGTAACGA-TAACCTTATACCTCAAAG
** *
44118672 ACACGACTAGAAAGATCTAAGGA-CGCAACGGCGGATCCAGTACC
1 ACACGACGGGAAAGATCTAA-GACCGCAACGACGGATCCAGTACC
44118716 ACGAAGACAT
Statistics
Matches: 215, Mismatches: 25, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
99 1 0.00
100 210 0.98
101 4 0.02
ACGTcount: A:0.39, C:0.23, G:0.24, T:0.14
Consensus pattern (99 bp):
ACACGACGGGAAAGATCTAAGACCGCAACGACGGATCCAGTACCGCAAAGATACAAAAGGGAAAG
GTGACAATCGTAACGATAACCTTATACCTCAAAG
Found at i:44118621 original size:50 final size:50
Alignment explanation
Indices: 44118462--44118742 Score: 148
Period size: 50 Copynumber: 5.6 Consensus size: 50
44118452 ACTAACCTTA
* * * * *
44118462 TACCTCAAAGACAGGACGGGAAAGATCTAAGACCGCAACGACGAATCCAG
1 TACCTCAAAGACATGAAGGGAAAGATCTAAGATCGCAACGGCGGATCCAG
* * * * * * *
44118512 TACCGCAAAGATACA-AAAGGGAAAGGT-GACA-ATCGTAACGG-TGAACCTTA-
1 TACCTCAAAG--ACATGAAGGGAAAGATCTA-AGATCGCAACGGCGGATCC--AG
* *
44118562 TACCTCAAAGACATGACGTGAAAGATCTAAGATCGCAACGGCGGATCCAG
1 TACCTCAAAGACATGAAGGGAAAGATCTAAGATCGCAACGGCGGATCCAG
* * * * * * * * *
44118612 TACCGCAAAGATACA-AAAGGGAAGGGTTTAAG-TCGCAACGAC-AAACCTTG
1 TACCTCAAAG--ACATGAAGGGAAAGATCTAAGATCGCAACGGCGGATCC-AG
* * ***
44118662 TACCTCAGAGACACGACTAGAAAGATCTAAGGA-CGCAACGGCGGATCCAG
1 TACCTCAAAGACATGAAGGGAAAGATCTAA-GATCGCAACGGCGGATCCAG
* *
44118712 TACCACGAAGACATGAAGGGAAAGATCTAAG
1 TACCTCAAAGACATGAAGGGAAAGATCTAAG
44118743 CCGAGTCAAC
Statistics
Matches: 163, Mismatches: 51, Indels: 35
0.65 0.20 0.14
Matches are distributed among these distances:
48 6 0.04
49 26 0.16
50 96 0.59
51 29 0.18
52 6 0.04
ACGTcount: A:0.40, C:0.22, G:0.25, T:0.14
Consensus pattern (50 bp):
TACCTCAAAGACATGAAGGGAAAGATCTAAGATCGCAACGGCGGATCCAG
Found at i:44118833 original size:49 final size:46
Alignment explanation
Indices: 44118681--44118833 Score: 144
Period size: 49 Copynumber: 3.1 Consensus size: 46
44118671 GACACGACTA
*
44118681 GAAAGATCTAAGGACGCAACGGCGGATCCAGTACCACGAAGACATGAAGG
1 GAAAGATCTAA-GCCGCAA--G-GGATCCAGTACCACGAAGACATGAAGG
* * * * *
44118731 GAAAGATCTAAGCCGAGTCAACGGACCCAGTACTACGAAGACAGGAAGA
1 GAAAGATCTAAGCC--G-CAAGGGATCCAGTACCACGAAGACATGAAGG
**
44118780 GAAAGATCTAAGCCGCAATGGTAGATCCAGTACCACGAAGATTTGAAGG
1 GAAAGATCTAAGCCGCAA-GG--GATCCAGTACCACGAAGACATGAAGG
44118829 GAAAG
1 GAAAG
44118834 TTTTAAGTCG
Statistics
Matches: 84, Mismatches: 13, Indels: 13
0.76 0.12 0.12
Matches are distributed among these distances:
46 3 0.04
47 2 0.02
49 64 0.76
50 11 0.13
51 1 0.01
52 3 0.04
ACGTcount: A:0.39, C:0.20, G:0.28, T:0.12
Consensus pattern (46 bp):
GAAAGATCTAAGCCGCAAGGGATCCAGTACCACGAAGACATGAAGG
Found at i:44119782 original size:206 final size:206
Alignment explanation
Indices: 44119213--44119879 Score: 945
Period size: 206 Copynumber: 3.3 Consensus size: 206
44119203 TAGTTATCCA
*
44119213 AAACAAGCGATGCGGTCATCTTCCTGATGAGATACTGAGAAA-AAGACCAAATCAAACCCACGAT
1 AAACAAGCGATGCGGTCATCTTCCTGATGAGATACTGA-AAAGAAGACCAAATCAAACCCACGCT
* * * *
44119277 CGATGTGAGCAAATCTTTGAA-TCCCAACTTCTTGATGAGATACTAAGAAGCAGGTCGAAGCAAT
65 CGATATGAGCAAATCTTCGAACT-CCAACTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAAT
* * * *
44119341 AAAATGGTTAGCTTCTTGATGAGATACTGAGAAATGGACCAAATTCGTCTTCCTGATGAGGTACA
129 AAAATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCTTGATGAGATACA
44119406 GAGAAGCGGATTG
194 GAGAAGCGGATTG
* * ** * * * * * * * *
44119419 AAAGAAACGGGGAGGTTATCTTCCTGATGAGATACAGAAAAGTATACC-AA-C---TCGAGGCTC
1 AAACAAGCGATGCGGTCATCTTCCTGATGAGATACTGAAAAGAAGACCAAATCAAACCCACGCTC
* * *
44119479 AATACGAGCAAATCTTCGAAC-CCAACTTCCTGATGAGATACTGAGAAGCGGGTCGAAGCAATAA
66 GATATGAGCAAATCTTCGAACTCCAACTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAA
44119543 AATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCTTGATGAGATACAGA
131 AATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCTTGATGAGATACAGA
44119608 GAAGCGGATTG
196 GAAGCGGATTG
*
44119619 AAACAAGCGATGCGATCATCTTCCTGATGAGATACTGAAAAGAAGACCAAATCAAACCCACGCTC
1 AAACAAGCGATGCGGTCATCTTCCTGATGAGATACTGAAAAGAAGACCAAATCAAACCCACGCTC
* *
44119684 GATATGAGCAAATCTTCGAACTCCAGCTTCCTGATGAGATACTGAGAAGCAGGTCGAAGTAATAA
66 GATATGAGCAAATCTTCGAACTCCAACTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAA
* * * *
44119749 AATGGCTAGCTTCCTGATGAGATACTAAGAAGTGGACCAAATTCGCCTTCTTGATGAGATACAAA
131 AATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCTTGATGAGATACAGA
44119814 GAAGCGGATTG
196 GAAGCGGATTG
* * * *
44119825 AAACAAGTGATGCGGTCAACTTCCTGATAAGATACTGAGAAGAAGACCAAATCAA
1 AAACAAGCGATGCGGTCATCTTCCTGATGAGATACTGAAAAGAAGACCAAATCAA
44119880 TGAAACAAGA
Statistics
Matches: 402, Mismatches: 51, Indels: 16
0.86 0.11 0.03
Matches are distributed among these distances:
200 150 0.37
201 23 0.06
202 1 0.00
204 1 0.00
205 30 0.07
206 197 0.49
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.22
Consensus pattern (206 bp):
AAACAAGCGATGCGGTCATCTTCCTGATGAGATACTGAAAAGAAGACCAAATCAAACCCACGCTC
GATATGAGCAAATCTTCGAACTCCAACTTCCTGATGAGATACTGAGAAGCAGGTCGAAGCAATAA
AATGGTTAGCTTCCTGATGAGATACTGAGAAGTGGACCAAATTCGTCTTCTTGATGAGATACAGA
GAAGCGGATTG
Found at i:44120228 original size:17 final size:18
Alignment explanation
Indices: 44120205--44120316 Score: 117
Period size: 17 Copynumber: 6.4 Consensus size: 18
44120195 CTTAACTCAT
44120205 TTTAAATTTATTTTAAGA
1 TTTAAATTTATTTTAAGA
44120223 -TTAAATTTATTTTAA-A
1 TTTAAATTTATTTTAAGA
*
44120239 TTTAAATTTATTTCTAACA
1 TTTAAATTTATTT-TAAGA
* *
44120258 TTTAAATATAATTTAAG-
1 TTTAAATTTATTTTAAGA
*
44120275 TTTAAATTTACATTTAA-A
1 TTTAAATTTA-TTTTAAGA
* *
44120293 TTTAAAATTATTATAA-A
1 TTTAAATTTATTTTAAGA
44120310 TTTAAAT
1 TTTAAAT
44120317 AAGTAAAAGT
Statistics
Matches: 81, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
16 1 0.01
17 47 0.58
18 21 0.26
19 12 0.15
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.52
Consensus pattern (18 bp):
TTTAAATTTATTTTAAGA
Found at i:44120242 original size:6 final size:6
Alignment explanation
Indices: 44120205--44120316 Score: 76
Period size: 6 Copynumber: 19.2 Consensus size: 6
44120195 CTTAACTCAT
* * *
44120205 TTTAAA TTT-AT TTTAAGA -TTAAA TTT-AT TTTAAA TTTAAA TTT-AT
1 TTTAAA TTTAAA TTTAA-A TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* * *
44120250 TTCTAACA TTTAAA TAT-AA TTTAAG TTTAAA TTTACA TTTAAA TTTAAA
1 TT-TAA-A TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
*
44120299 ATT--A TTATAAA TTTAAA T
1 TTTAAA TT-TAAA TTTAAA T
44120317 AAGTAAAAGT
Statistics
Matches: 81, Mismatches: 14, Indels: 22
0.69 0.12 0.19
Matches are distributed among these distances:
4 2 0.02
5 17 0.21
6 53 0.65
7 7 0.09
8 2 0.02
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.52
Consensus pattern (6 bp):
TTTAAA
Found at i:44120273 original size:53 final size:52
Alignment explanation
Indices: 44120205--44120317 Score: 147
Period size: 53 Copynumber: 2.2 Consensus size: 52
44120195 CTTAACTCAT
* * * * *
44120205 TTTAAATTTATTTTAAGATTAAATTTA-TTTTAAATTTAAATTTATTTCTAACA
1 TTTAAATATAATTTAAGATTAAATTTACATTTAAATTTAAAATTA-TTATAA-A
*
44120258 TTTAAATATAATTTAAGTTTAAATTTACATTTAAATTTAAAATTATTATAAA
1 TTTAAATATAATTTAAGATTAAATTTACATTTAAATTTAAAATTATTATAAA
44120310 TTTAAATA
1 TTTAAATA
44120318 AGTAAAAGTC
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
52 9 0.17
53 29 0.55
54 15 0.28
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (52 bp):
TTTAAATATAATTTAAGATTAAATTTACATTTAAATTTAAAATTATTATAAA
Found at i:44120965 original size:18 final size:18
Alignment explanation
Indices: 44120944--44120985 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
44120934 AAAATAATTT
*
44120944 TAATAATACTAATAACAA
1 TAATAATACTAATAAAAA
*
44120962 TAATAATATTAATAAAAA
1 TAATAATACTAATAAAAA
44120980 TAATAA
1 TAATAA
44120986 AAGAAGGAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (18 bp):
TAATAATACTAATAAAAA
Found at i:44122066 original size:29 final size:29
Alignment explanation
Indices: 44122022--44122394 Score: 291
Period size: 29 Copynumber: 12.7 Consensus size: 29
44122012 CCTTGAAGGT
* *
44122022 CCCTAAACTATTCAAAAATTATATTTTGAC
1 CCCTAAACT-TCCAAAAATTATATTTTTAC
* *
44122052 CCTTAAACTTCCAAAAATTACATTTTTAC
1 CCCTAAACTTCCAAAAATTATATTTTTAC
* *
44122081 CCCCAAACTTCCAAAAATTACATTTTTAC
1 CCCTAAACTTCCAAAAATTATATTTTTAC
* ** *
44122110 CCCCAAACTTCCAAAAATTCCATGTTTAAC
1 CCCTAAACTTCCAAAAATTATAT-TTTTAC
* * *
44122140 CCCGAAGCTTCCAAAAATTATATTTTTAT
1 CCCTAAACTTCCAAAAATTATATTTTTAC
* * * *
44122169 CCTTGAATTTCCAAAAATTACATTTTTAAC
1 CCCTAAACTTCCAAAAATTATATTTTT-AC
* *
44122199 CCCGAAACTTCTAAAAATTATATTTTTAC
1 CCCTAAACTTCCAAAAATTATATTTTTAC
* * * * *
44122228 CCTTAAATTTTCAAAAATTACATTTTTAA
1 CCCTAAACTTCCAAAAATTATATTTTTAC
* * *
44122257 CCCTAAAACTTCTAAAAATTA-CTTCTTAC
1 CCCT-AAACTTCCAAAAATTATATTTTTAC
* * ** *
44122286 CCCTAAACTTTCTAAAATTCCATTTTTGAT
1 CCCTAAACTTCCAAAAATTATATTTTT-AC
*
44122316 CCCAAAACTTCCAAAAATTATCA-TTTTAC
1 CCCTAAACTTCCAAAAATTAT-ATTTTTAC
** * * **
44122345 CCCCGAACTTTCAAAAACTCCATTTTTAAC
1 CCCTAAACTTCCAAAAATTATATTTTT-AC
* * *
44122375 CTCAAAACTTTCAAAAATTA
1 CCCTAAACTTCCAAAAATTA
44122395 CCATTTTACC
Statistics
Matches: 270, Mismatches: 65, Indels: 16
0.77 0.19 0.05
Matches are distributed among these distances:
28 13 0.05
29 151 0.56
30 105 0.39
31 1 0.00
ACGTcount: A:0.38, C:0.24, G:0.02, T:0.36
Consensus pattern (29 bp):
CCCTAAACTTCCAAAAATTATATTTTTAC
Found at i:44122165 original size:59 final size:59
Alignment explanation
Indices: 44122034--44122394 Score: 386
Period size: 59 Copynumber: 6.2 Consensus size: 59
44122024 CTAAACTATT
* * *
44122034 CAAAAATTATATTTTGACCCTTAAACTTCCAAAAATTACATTTTT-ACCCCCAAACTTC
1 CAAAAATTATATTTTTACCCCTAAACTTCCAAAAATTACATTTTTAACCCCAAAACTTC
* * * * * *
44122092 CAAAAATTACATTTTTACCCCCAAACTTCCAAAAATTCCATGTTTAACCCCGAAGCTTC
1 CAAAAATTATATTTTTACCCCTAAACTTCCAAAAATTACATTTTTAACCCCAAAACTTC
* * * * *
44122151 CAAAAATTATATTTTTATCCTTGAATTTCCAAAAATTACATTTTTAACCCCGAAACTTC
1 CAAAAATTATATTTTTACCCCTAAACTTCCAAAAATTACATTTTTAACCCCAAAACTTC
* * * * *
44122210 TAAAAATTATATTTTTACCCTTAAATTTTCAAAAATTACATTTTTAACCCTAAAACTTC
1 CAAAAATTATATTTTTACCCCTAAACTTCCAAAAATTACATTTTTAACCCCAAAACTTC
* * * * * * * *
44122269 TAAAAATTA-CTTCTTACCCCTAAACTTTCTAAAATTCCATTTTTGATCCCAAAACTTC
1 CAAAAATTATATTTTTACCCCTAAACTTCCAAAAATTACATTTTTAACCCCAAAACTTC
** * * * * *
44122327 CAAAAATTATCA-TTTTACCCCCGAACTTTCAAAAACTCCATTTTTAACCTCAAAACTTT
1 CAAAAATTAT-ATTTTTACCCCTAAACTTCCAAAAATTACATTTTTAACCCCAAAACTTC
44122386 CAAAAATTA
1 CAAAAATTA
44122395 CCATTTTACC
Statistics
Matches: 257, Mismatches: 43, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
58 87 0.34
59 170 0.66
ACGTcount: A:0.38, C:0.24, G:0.02, T:0.36
Consensus pattern (59 bp):
CAAAAATTATATTTTTACCCCTAAACTTCCAAAAATTACATTTTTAACCCCAAAACTTC
Found at i:44137816 original size:2 final size:2
Alignment explanation
Indices: 44137809--44137833 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
44137799 ATGTACATGG
44137809 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
44137834 GGCAGCGTGG
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:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:44138204 original size:31 final size:31
Alignment explanation
Indices: 44138135--44138218 Score: 93
Period size: 31 Copynumber: 2.8 Consensus size: 31
44138125 GAAATTTTTA
* * *
44138135 AATTTAAAAATTAAAAAAATTAAATTTGATC
1 AATTTAAAAAGTAAAAAAATTAAAATTAATC
*
44138166 AATTTAAAAAGTGAAAAAATTAAAATTAATC
1 AATTTAAAAAGTAAAAAAATTAAAATTAATC
*
44138197 GAA-TT--AAAGTATAAAAATTAAA
1 -AATTTAAAAAGTAAAAAAATTAAA
44138219 TCCTACAATG
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
29 15 0.33
31 29 0.63
32 2 0.04
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (31 bp):
AATTTAAAAAGTAAAAAAATTAAAATTAATC
Found at i:44139624 original size:13 final size:13
Alignment explanation
Indices: 44139603--44139653 Score: 59
Period size: 13 Copynumber: 3.9 Consensus size: 13
44139593 TAATCCAAAT
44139603 TTTTTAAAAATAC
1 TTTTTAAAAATAC
*
44139616 -TTTTCAAAATCAC
1 TTTTTAAAAAT-AC
* *
44139629 TTTTTTAAAATAT
1 TTTTTAAAAATAC
44139642 TTTTTAAAAATA
1 TTTTTAAAAATA
44139654 TTTCTCAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
12 9 0.28
13 14 0.44
14 9 0.28
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.49
Consensus pattern (13 bp):
TTTTTAAAAATAC
Found at i:44139654 original size:13 final size:13
Alignment explanation
Indices: 44139601--44139656 Score: 62
Period size: 12 Copynumber: 4.3 Consensus size: 13
44139591 CTTAATCCAA
44139601 ATTTTTTAAAAAT
1 ATTTTTTAAAAAT
* *
44139614 A-CTTTTCAAAAT
1 ATTTTTTAAAAAT
44139626 CACTTTTTT-AAAAT
1 -A-TTTTTTAAAAAT
44139640 ATTTTTTAAAAAT
1 ATTTTTTAAAAAT
44139653 ATTT
1 ATTT
44139657 CTCAAAAACA
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
12 15 0.42
13 12 0.33
14 5 0.14
15 4 0.11
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (13 bp):
ATTTTTTAAAAAT
Found at i:44140262 original size:25 final size:27
Alignment explanation
Indices: 44140224--44140273 Score: 77
Period size: 25 Copynumber: 1.9 Consensus size: 27
44140214 GTCACATCAC
*
44140224 TTTTTAACAGT-AAAAAT-AGATGAAA
1 TTTTTAACAATAAAAAATGAGATGAAA
44140249 TTTTTAACAATAAAAAATGAGATGA
1 TTTTTAACAATAAAAAATGAGATGA
44140274 TAGTTGCTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 10 0.45
26 6 0.27
27 6 0.27
ACGTcount: A:0.52, C:0.04, G:0.12, T:0.32
Consensus pattern (27 bp):
TTTTTAACAATAAAAAATGAGATGAAA
Found at i:44141987 original size:13 final size:14
Alignment explanation
Indices: 44141963--44141992 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
44141953 TTGAAGAATA
44141963 TTTTAACTTTTTTT
1 TTTTAACTTTTTTT
44141977 TTTTAACTTTTTTT
1 TTTTAACTTTTTTT
44141991 TT
1 TT
44141993 AGTGAATTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.13, C:0.07, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTTAACTTTTTTT
Found at i:44142423 original size:20 final size:20
Alignment explanation
Indices: 44142383--44142428 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
44142373 TTAATTGTTT
*
44142383 TTATT-TTTTTTTCCTTTCC
1 TTATTCTTTTTTTCCTTGCC
44142402 TTATTCTTTTTTAT-CTTGCC
1 TTATTCTTTTTT-TCCTTGCC
*
44142422 TTTTTCT
1 TTATTCT
44142429 CATCTTCCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 5 0.22
20 17 0.74
21 1 0.04
ACGTcount: A:0.07, C:0.20, G:0.02, T:0.72
Consensus pattern (20 bp):
TTATTCTTTTTTTCCTTGCC
Found at i:44146003 original size:193 final size:193
Alignment explanation
Indices: 44145674--44146044 Score: 697
Period size: 193 Copynumber: 1.9 Consensus size: 193
44145664 AGATCATAAT
*
44145674 GTAGTTAATATTATTACAAGGATAATACTAAAATTACTAAAATCGCATCTATACTATATGTAAAA
1 GTAGTTAATATTATTACAAGGATAATACTAAAATTACTAAAATCACATCTATACTATATGTAAAA
*
44145739 TTTTTGGCTCAATTGTGAAATTATTAAAATACTTTTATTTTAAATGGTAGTTAATATTATTACAA
66 TTTTTGGCTCAATTGTGAAATTACTAAAATACTTTTATTTTAAATGGTAGTTAATATTATTACAA
44145804 GGGTATTATTATTTTCTAATACTTTTATATAATATTTCAAATAAAATACTTTTATTTTAAATG
131 GGGTATTATTATTTTCTAATACTTTTATATAATATTTCAAATAAAATACTTTTATTTTAAATG
*
44145867 GTAGTTAATATTATTACAAGGATAATACTAAAATTACTAAAATCACATTTATACTATATGTAAAA
1 GTAGTTAATATTATTACAAGGATAATACTAAAATTACTAAAATCACATCTATACTATATGTAAAA
* *
44145932 TTTTTGGCTCAATTGTGAAATTACTAAAGTATTTTTATTTTAAATGGTAGTTAATATTATTACAA
66 TTTTTGGCTCAATTGTGAAATTACTAAAATACTTTTATTTTAAATGGTAGTTAATATTATTACAA
44145997 GGGTATTATTATTTTCTAATACTTTTATATAATATTTCAAATAAAATA
131 GGGTATTATTATTTTCTAATACTTTTATATAATATTTCAAATAAAATA
44146045 ATTGAAAAAA
Statistics
Matches: 173, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
193 173 1.00
ACGTcount: A:0.40, C:0.08, G:0.09, T:0.44
Consensus pattern (193 bp):
GTAGTTAATATTATTACAAGGATAATACTAAAATTACTAAAATCACATCTATACTATATGTAAAA
TTTTTGGCTCAATTGTGAAATTACTAAAATACTTTTATTTTAAATGGTAGTTAATATTATTACAA
GGGTATTATTATTTTCTAATACTTTTATATAATATTTCAAATAAAATACTTTTATTTTAAATG
Found at i:44147210 original size:15 final size:16
Alignment explanation
Indices: 44147174--44147213 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 16
44147164 ATAGTAAAAA
44147174 TATAATTTTATCATTTT
1 TATAA-TTTATCATTTT
*
44147191 AATAATTTAT-ATTTT
1 TATAATTTATCATTTT
44147206 TATAATTT
1 TATAATTT
44147214 TTAAATAGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
15 12 0.57
16 5 0.24
17 4 0.19
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (16 bp):
TATAATTTATCATTTT
Found at i:44155130 original size:2 final size:2
Alignment explanation
Indices: 44155125--44155188 Score: 128
Period size: 2 Copynumber: 32.0 Consensus size: 2
44155115 TAACCCCCCC
44155125 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
44155167 CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT
44155189 TGCTCTCAAA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:44155563 original size:32 final size:30
Alignment explanation
Indices: 44155490--44155564 Score: 91
Period size: 29 Copynumber: 2.5 Consensus size: 30
44155480 AATTGAAATT
44155490 AAAATTATTT-AATAATTTTATTATTTCAA
1 AAAATTATTTAAATAATTTTATTATTTCAA
* *
44155519 AAAATAATTTAAATAA-TTTATTATTTTTTAA
1 AAAATTATTTAAATAATTTTATTA--TTTCAA
44155550 AAAATTATATTAAAT
1 AAAATTAT-TTAAAT
44155565 TTTTTTGTTG
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
29 16 0.41
30 5 0.13
31 12 0.31
32 6 0.15
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (30 bp):
AAAATTATTTAAATAATTTTATTATTTCAA
Found at i:44157315 original size:14 final size:14
Alignment explanation
Indices: 44157274--44157315 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
44157264 AATAGAGATA
44157274 ATAAAATATACATAT
1 ATAAAATATA-ATAT
*
44157289 -TAAAATGAAAATAT
1 ATAAAAT-ATAATAT
44157303 ATAAAATATAATA
1 ATAAAATATAATA
44157316 AAATAAAACT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
14 15 0.65
15 8 0.35
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (14 bp):
ATAAAATATAATAT
Found at i:44166892 original size:22 final size:22
Alignment explanation
Indices: 44166857--44166902 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
44166847 AAAAAACATC
*
44166857 GAGACACAATTTGTAGTGTCTT
1 GAGACACAAGTTGTAGTGTCTT
*
44166879 GAGACATAAGTTGTAGTGTCTT
1 GAGACACAAGTTGTAGTGTCTT
44166901 GA
1 GA
44166903 AATATGTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.28, C:0.11, G:0.26, T:0.35
Consensus pattern (22 bp):
GAGACACAAGTTGTAGTGTCTT
Found at i:44171223 original size:33 final size:33
Alignment explanation
Indices: 44171180--44171292 Score: 124
Period size: 33 Copynumber: 3.4 Consensus size: 33
44171170 AGCCACCTCT
44171180 GAGATCTTTTCATCAACCTCTGAAGTCTCTTCTA
1 GAGATCTTTTCATCAACCTCTGAAG-CTCTTCTA
* ** *
44171214 -AGATCTTTTCATCAGCCTCCAAAGC-CATCTCA
1 GAGATCTTTTCATCAACCTCTGAAGCTCTTCT-A
* *
44171246 GAGATATTTTCATCAACCTTTGAAGCTACTTC-A
1 GAGATCTTTTCATCAACCTCTGAAGCT-CTTCTA
44171279 GAGATCTTTTCATC
1 GAGATCTTTTCATC
44171293 TGCCCCATCC
Statistics
Matches: 64, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
31 4 0.06
32 2 0.03
33 55 0.86
35 3 0.05
ACGTcount: A:0.27, C:0.27, G:0.12, T:0.35
Consensus pattern (33 bp):
GAGATCTTTTCATCAACCTCTGAAGCTCTTCTA
Found at i:44171256 original size:66 final size:66
Alignment explanation
Indices: 44171168--44171292 Score: 182
Period size: 66 Copynumber: 1.9 Consensus size: 66
44171158 ATCCGCTTCT
* *
44171168 AAAGCCACCTCTGAGATCTTTTCATCAACCTCTGAAGTCT-CTTCTA-AGATCTTTTCATCAGCC
1 AAAGCCACCTCAGAGATATTTTCATCAACCTCTGAAG-CTACTTC-AGAGATCTTTTCATCAGCC
44171231 TCC
64 TCC
* *
44171234 AAAGCCATCTCAGAGATATTTTCATCAACCTTTGAAGCTACTTCAGAGATCTTTTCATC
1 AAAGCCACCTCAGAGATATTTTCATCAACCTCTGAAGCTACTTCAGAGATCTTTTCATC
44171293 TGCCCCATCC
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
65 3 0.06
66 50 0.94
ACGTcount: A:0.27, C:0.28, G:0.11, T:0.34
Consensus pattern (66 bp):
AAAGCCACCTCAGAGATATTTTCATCAACCTCTGAAGCTACTTCAGAGATCTTTTCATCAGCCTC
C
Found at i:44173081 original size:38 final size:40
Alignment explanation
Indices: 44173002--44173081 Score: 128
Period size: 41 Copynumber: 2.0 Consensus size: 40
44172992 TAGAGACCGG
44173002 AACATCCACTAATTAAAAATCTAAGGTCTTCTATAATTGAT
1 AACATCCACTAATTAAAAATCTAAGG-CTTCTATAATTGAT
*
44173043 AACATCCACTAATTAAAAGTCTAA-G-TTCTATAATTGAT
1 AACATCCACTAATTAAAAATCTAAGGCTTCTATAATTGAT
44173081 A
1 A
44173082 CCTCGCATGG
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
38 14 0.37
40 1 0.03
41 23 0.61
ACGTcount: A:0.42, C:0.16, G:0.07, T:0.34
Consensus pattern (40 bp):
AACATCCACTAATTAAAAATCTAAGGCTTCTATAATTGAT
Found at i:44179876 original size:6 final size:6
Alignment explanation
Indices: 44179865--44179893 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
44179855 TTAAAAATAT
44179865 TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
44179894 CAAAAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTTA
Found at i:44179956 original size:20 final size:21
Alignment explanation
Indices: 44179909--44179951 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
44179899 AAAAATTTCA
*
44179909 ATTAAAAATAAAATATTATAT
1 ATTAAAAATAAAATATCATAT
44179930 ATTTAAAAATAATAATATCATA
1 A-TTAAAAATAA-AATATCATA
44179952 ATAAACAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 1 0.05
22 10 0.53
23 8 0.42
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (21 bp):
ATTAAAAATAAAATATCATAT
Found at i:44180562 original size:16 final size:16
Alignment explanation
Indices: 44180541--44180597 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 16
44180531 ATACCTATAC
44180541 CAATCGAATTAAAACT
1 CAATCGAATTAAAACT
44180557 CAATCGATAATTATAATA-T
1 CAATCG--AATTA-AA-ACT
**
44180576 CAATCGAGCTAAAACT
1 CAATCGAATTAAAACT
44180592 CAATCG
1 CAATCG
44180598 GCAATTATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
15 1 0.03
16 15 0.44
17 3 0.09
18 5 0.15
19 9 0.26
20 1 0.03
ACGTcount: A:0.46, C:0.19, G:0.09, T:0.26
Consensus pattern (16 bp):
CAATCGAATTAAAACT
Found at i:44191452 original size:16 final size:18
Alignment explanation
Indices: 44191413--44191446 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
44191403 TAAGTTTATA
44191413 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
44191430 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
44191447 AATTTAGAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:44192159 original size:30 final size:31
Alignment explanation
Indices: 44192122--44192192 Score: 85
Period size: 31 Copynumber: 2.3 Consensus size: 31
44192112 CATTTAACAC
44192122 AACAGTCACTCAAC-TT-T-GAAAATATGACAA
1 AACAGTCACT-AACGTTATCGAAAA-ATGACAA
* *
44192152 AATAGTCACTAACGTTATCGAAAACTGACAA
1 AACAGTCACTAACGTTATCGAAAAATGACAA
44192183 AACAGTCACT
1 AACAGTCACT
44192193 GATTAACAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
29 3 0.09
30 11 0.31
31 16 0.46
32 5 0.14
ACGTcount: A:0.45, C:0.21, G:0.11, T:0.23
Consensus pattern (31 bp):
AACAGTCACTAACGTTATCGAAAAATGACAA
Found at i:44193427 original size:26 final size:24
Alignment explanation
Indices: 44193391--44193439 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
44193381 GGTAAAATTT
*
44193391 TATAATAATTAATAGTAAAAATAAAA
1 TATAAAAATTAATA--AAAAATAAAA
*
44193417 TATAAAAATTATTAAAAAATAAA
1 TATAAAAATTAATAAAAAATAAA
44193440 GTTAATAGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 9 0.43
26 12 0.57
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (24 bp):
TATAAAAATTAATAAAAAATAAAA
Found at i:44193681 original size:47 final size:47
Alignment explanation
Indices: 44193612--44193705 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
44193602 TCTCTTCTAC
*
44193612 TACTTTCATTTTAAGGAGCTTTATTTAGAAGCTTATTTGCATTCAAT
1 TACTTTCATTTTAAGGAGCTTTATTTAAAAGCTTATTTGCATTCAAT
44193659 TACTTTCATTTTAAGGAGCTTTATTTAAAAGCTTATTTGCATTCAAT
1 TACTTTCATTTTAAGGAGCTTTATTTAAAAGCTTATTTGCATTCAAT
44193706 GAAATACATG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.29, C:0.13, G:0.12, T:0.47
Consensus pattern (47 bp):
TACTTTCATTTTAAGGAGCTTTATTTAAAAGCTTATTTGCATTCAAT
Found at i:44202279 original size:23 final size:22
Alignment explanation
Indices: 44202232--44202281 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 22
44202222 TAATTGATAT
44202232 TTTAATTAATTTTTATAAATAA
1 TTTAATTAATTTTTATAAATAA
44202254 TTTATATTAATTGCTTTA-AAAT-A
1 TTTA-ATTAATT--TTTATAAATAA
44202277 TTTAA
1 TTTAA
44202282 AATTGATATT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
22 5 0.20
23 12 0.48
24 4 0.16
25 4 0.16
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (22 bp):
TTTAATTAATTTTTATAAATAA
Found at i:44205130 original size:212 final size:212
Alignment explanation
Indices: 44204763--44205194 Score: 864
Period size: 212 Copynumber: 2.0 Consensus size: 212
44204753 TGTTGATACT
44204763 TTAAAAATTATAAAGGTATATAAATATTAATTAGAATTTTTATCATACGCGTATCATGTAGAAAT
1 TTAAAAATTATAAAGGTATATAAATATTAATTAGAATTTTTATCATACGCGTATCATGTAGAAAT
44204828 CATGTATTTAGAATACATATTTACATTTAAAAATTACATATAAATAATAAAATGTAAGATTTGAA
66 CATGTATTTAGAATACATATTTACATTTAAAAATTACATATAAATAATAAAATGTAAGATTTGAA
44204893 ACTAATAATAACACATATTCAATAGGTAAAAAATAAAAAGTAATTTAAATTATGAATAAAAAATT
131 ACTAATAATAACACATATTCAATAGGTAAAAAATAAAAAGTAATTTAAATTATGAATAAAAAATT
44204958 TTAAAAAATATATTAGA
196 TTAAAAAATATATTAGA
44204975 TTAAAAATTATAAAGGTATATAAATATTAATTAGAATTTTTATCATACGCGTATCATGTAGAAAT
1 TTAAAAATTATAAAGGTATATAAATATTAATTAGAATTTTTATCATACGCGTATCATGTAGAAAT
44205040 CATGTATTTAGAATACATATTTACATTTAAAAATTACATATAAATAATAAAATGTAAGATTTGAA
66 CATGTATTTAGAATACATATTTACATTTAAAAATTACATATAAATAATAAAATGTAAGATTTGAA
44205105 ACTAATAATAACACATATTCAATAGGTAAAAAATAAAAAGTAATTTAAATTATGAATAAAAAATT
131 ACTAATAATAACACATATTCAATAGGTAAAAAATAAAAAGTAATTTAAATTATGAATAAAAAATT
44205170 TTAAAAAATATATTAGA
196 TTAAAAAATATATTAGA
44205187 TTAAAAAT
1 TTAAAAAT
44205195 ATTGAATGTG
Statistics
Matches: 220, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
212 220 1.00
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.35
Consensus pattern (212 bp):
TTAAAAATTATAAAGGTATATAAATATTAATTAGAATTTTTATCATACGCGTATCATGTAGAAAT
CATGTATTTAGAATACATATTTACATTTAAAAATTACATATAAATAATAAAATGTAAGATTTGAA
ACTAATAATAACACATATTCAATAGGTAAAAAATAAAAAGTAATTTAAATTATGAATAAAAAATT
TTAAAAAATATATTAGA
Found at i:44209381 original size:9 final size:9
Alignment explanation
Indices: 44209367--44209399 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
44209357 ATAGACAAAA
44209367 TTTAATAAC
1 TTTAATAAC
*
44209376 TTTAATCAC
1 TTTAATAAC
44209385 TTTAATAA-
1 TTTAATAAC
44209393 TTTAATA
1 TTTAATA
44209400 CAATTAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 7 0.32
9 15 0.68
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (9 bp):
TTTAATAAC
Found at i:44210928 original size:22 final size:22
Alignment explanation
Indices: 44210903--44210956 Score: 72
Period size: 22 Copynumber: 2.5 Consensus size: 22
44210893 AAAGCACTAT
* *
44210903 AGTGCTAAACAGAGAGCGCTAA
1 AGTGCTAAACAAAGAGCGCAAA
* *
44210925 AGTGCTGAACAAAGAGTGCAAA
1 AGTGCTAAACAAAGAGCGCAAA
44210947 AGTGCTAAAC
1 AGTGCTAAAC
44210957 CCGTACAAGC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.43, C:0.17, G:0.26, T:0.15
Consensus pattern (22 bp):
AGTGCTAAACAAAGAGCGCAAA
Found at i:44216526 original size:29 final size:30
Alignment explanation
Indices: 44216489--44216557 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 30
44216479 AATTTACGTA
*
44216489 TTTATAATTT-TTAAAAAATTAAATT-AAAT
1 TTTAAAATTTATT-AAAAATTAAATTAAAAT
* *
44216518 TTTAAAATTTATTAAATATTAATTTAAAAT
1 TTTAAAATTTATTAAAAATTAAATTAAAAT
44216548 TTTATAAATT
1 TTTA-AAATT
44216558 ATAGAAAGGG
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
29 19 0.56
30 10 0.29
31 5 0.15
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (30 bp):
TTTAAAATTTATTAAAAATTAAATTAAAAT
Found at i:44216534 original size:22 final size:21
Alignment explanation
Indices: 44216506--44216558 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 21
44216496 TTTTTAAAAA
44216506 ATTAAATTAAATTTTAAAATTT
1 ATTAAATTAAA-TTTAAAATTT
*
44216528 ATTAAATATTAATTTAAAATTT
1 ATTAAAT-TAAATTTAAAATTT
44216550 -TATAAATTA
1 AT-TAAATTA
44216559 TAGAAAGGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 2 0.07
22 22 0.81
23 3 0.11
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
ATTAAATTAAATTTAAAATTT
Found at i:44229188 original size:60 final size:60
Alignment explanation
Indices: 44229102--44229394 Score: 280
Period size: 59 Copynumber: 5.0 Consensus size: 60
44229092 TGTTCATTGC
* * * * *
44229102 ATGGCCGAC-CCACTTTTAATCTGATAAAAAAAATCAAATTTTTGGGTGTTGGCCGTGCA
1 ATGGCCGACACCCCTTTTTATCTGATAAAAAAATTCAAATTTTTTGGTGTTGGCCATGCA
** * * *
44229161 ATGATCGACACCCCTTTTTATCAGAT-AAAAAATTCAATTTTTTTGGTGTTGGCCATGCC
1 ATGGCCGACACCCCTTTTTATCTGATAAAAAAATTCAAATTTTTTGGTGTTGGCCATGCA
* * *
44229220 ATGGTCGACA-CTCTTATTTA-CTGAT-AAAAAA-TCAAATTTTTTTGTGTTGGCCATGCA
1 ATGGCCGACACCCCTT-TTTATCTGATAAAAAAATTCAAATTTTTTGGTGTTGGCCATGCA
* * * * * * *
44229277 ATGGCCGACACCTCTTTTT-TCAGATAAATAATTTTAAATTTTTTTAGTGTTAGCCATTGC-
1 ATGGCCGACACCCCTTTTTATCTGATAAAAAAATTCAAA-TTTTTTGGTGTTGGCCA-TGCA
* * * *
44229337 ATGGCCGACACCCCTTTTTATTTGA-ATAAAAATTTAAATTTTTGGGTGTTGGCCATGC
1 ATGGCCGACACCCCTTTTTATCTGATAAAAAAATTCAAATTTTTTGGTGTTGGCCATGC
44229395 CCTTTTTGTC
Statistics
Matches: 193, Mismatches: 32, Indels: 19
0.79 0.13 0.08
Matches are distributed among these distances:
57 39 0.20
58 26 0.13
59 66 0.34
60 56 0.29
61 6 0.03
ACGTcount: A:0.28, C:0.18, G:0.17, T:0.38
Consensus pattern (60 bp):
ATGGCCGACACCCCTTTTTATCTGATAAAAAAATTCAAATTTTTTGGTGTTGGCCATGCA
Found at i:44229544 original size:59 final size:60
Alignment explanation
Indices: 44229394--44229544 Score: 148
Period size: 60 Copynumber: 2.5 Consensus size: 60
44229384 GTTGGCCATG
* *
44229394 CCCTTTTTGTCAGATAAAAAA-TTCGAATTTTTTTTATGTTGACCATGCCATGGTCGACAT
1 CCCTTTTTGTCAGATAAAAAATTTC-AATTTTTTTTATGTTGACCATGCAATGGCCGACAT
* * * * * **
44229454 CCCTTTTTTTCTGGTAAAAAA-ATCAATTTTTTTTTGTGTTGGTCATGCAAT-GCCGACA-
1 CCCTTTTTGTCAGATAAAAAATTTCAA-TTTTTTTTATGTTGACCATGCAATGGCCGACAT
* *
44229512 CCCATTTTTGTCAGACAAAAAATTTTAATTTTT
1 CCC-TTTTTGTCAGATAAAAAATTTCAATTTTT
44229545 GGTGTAAGCC
Statistics
Matches: 73, Mismatches: 15, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
58 3 0.04
59 27 0.37
60 43 0.59
ACGTcount: A:0.27, C:0.17, G:0.13, T:0.42
Consensus pattern (60 bp):
CCCTTTTTGTCAGATAAAAAATTTCAATTTTTTTTATGTTGACCATGCAATGGCCGACAT
Found at i:44229559 original size:223 final size:222
Alignment explanation
Indices: 44229172--44229579 Score: 583
Period size: 223 Copynumber: 1.8 Consensus size: 222
44229162 TGATCGACAC
* * *
44229172 CCCTTTTTATCAGATAAAAAATTCAATTTTTTTGGTGTTGGCCATGCCATGGTCGACACTCTTAT
1 CCCTTTTTATCAGATAAAAAATTCAATTTTTTTGATGTTGACCATGCCATGGTCGACACCCTTAT
*
44229237 TTACTGATAAAAAATCAAATTTTTTTGTGTTGGCCATGCAATGGCCGACACCTCTTTTTTCAGAT
66 TTACTGATAAAAAATCAAATTTTTTTGTGTTGGCCATGCAATGGCCGACACCTCTTTTTTCAGAC
* * *
44229302 AAATAATTTTAAATTTTTTTAGTGTTAGCCATTGCATGGCCGACACCC-CTTTTTATTTGAATAA
131 AAAAAATTTTAAA-TTTTTTAGTGTAAGCCATTGCATGACCGACACCCTCTTTTTATTTGAATAA
44229366 AAATTTAAATTTTTGGGTGTTGGCCATG
195 AAATTTAAATTTTTGGGTGTTGGCCATG
* *
44229394 CCCTTTTTGTCAGATAAAAAATTCGAATTTTTTTTATGTTGACCATGCCATGGTCGACATCCCTT
1 CCCTTTTTATCAGATAAAAAATTC-AATTTTTTTGATGTTGACCATGCCATGGTCGACA-CCCTT
* * * * *
44229459 TTTTTCTGGTAAAAAAATCAATTTTTTTTTGTGTTGGTCATGCAAT-GCCGACACC-CATTTTTG
64 ATTTACTGAT-AAAAAATCAA-ATTTTTTTGTGTTGGCCATGCAATGGCCGACACCTC-TTTTT-
*
44229522 TCAGACAAAAAATTTT-AA-TTTTTGGTGTAAGCCATTGCATGACCGACACCCTCTTTTT
125 TCAGACAAAAAATTTTAAATTTTTTAGTGTAAGCCATTGCATGACCGACACCCTCTTTTT
44229580 TATCCGGTAA
Statistics
Matches: 164, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
222 23 0.14
223 61 0.37
224 18 0.11
225 26 0.16
226 36 0.22
ACGTcount: A:0.26, C:0.18, G:0.15, T:0.40
Consensus pattern (222 bp):
CCCTTTTTATCAGATAAAAAATTCAATTTTTTTGATGTTGACCATGCCATGGTCGACACCCTTAT
TTACTGATAAAAAATCAAATTTTTTTGTGTTGGCCATGCAATGGCCGACACCTCTTTTTTCAGAC
AAAAAATTTTAAATTTTTTAGTGTAAGCCATTGCATGACCGACACCCTCTTTTTATTTGAATAAA
AATTTAAATTTTTGGGTGTTGGCCATG
Found at i:44230491 original size:62 final size:59
Alignment explanation
Indices: 44230287--44230579 Score: 235
Period size: 58 Copynumber: 4.9 Consensus size: 59
44230277 AAAATTCGAA
* * * * *
44230287 TTTTTATATGACAAAAAG-GGTGTC-AGCCATTGCATGGCCAACACAAAAAAAATT--AAT
1 TTTTTATCTGA-AAAAGGAGGTGTCGA-CCATGGCATGACCAACACAAAAAAATTTAAAAT
* ** * * *
44230344 TTTTTACCAAAAAAAAGGAGGTGTCAACCATGGCATGACCAACACAAAAAAAATTCAAAT
1 TTTTTATC-TGAAAAAGGAGGTGTCGACCATGGCATGACCAACACAAAAAAATTTAAAAT
* *
44230404 TTTTTATCTGACAAAATGAGAGTGTCGACCATGGCATGACTAACACGAAAAAAATTTAAAATT
1 TTTTTATCTGA-AAAAGGAG-GTGTCGACCATGGCATGACCAACAC-AAAAAAATTTAAAA-T
* * * * *
44230467 TTTTTATCTGAAAAAGGAGGGTGTC-AGCCATTGCATGGCTAACACCAAAAAATTT--GAT
1 TTTTTATCTGAAAAAGGA-GGTGTCGA-CCATGGCATGACCAACACAAAAAAATTTAAAAT
* * *
44230525 TTTTTAT-TAGTAAATAGGA-GTGTGGACCATGGCATGACCAACAAAAAAAAATTTA
1 TTTTTATCT-G-AAAAAGGAGGTGTCGACCATGGCATGACCAACACAAAAAAATTTA
44230580 TCTGACAAAA
Statistics
Matches: 194, Mismatches: 27, Indels: 29
0.78 0.11 0.12
Matches are distributed among these distances:
57 39 0.20
58 43 0.22
59 10 0.05
60 17 0.09
61 33 0.17
62 39 0.20
63 13 0.07
ACGTcount: A:0.42, C:0.15, G:0.17, T:0.27
Consensus pattern (59 bp):
TTTTTATCTGAAAAAGGAGGTGTCGACCATGGCATGACCAACACAAAAAAATTTAAAAT
Found at i:44231219 original size:20 final size:19
Alignment explanation
Indices: 44231194--44231231 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
44231184 TAACTAAGAA
44231194 TCTATTTCTTTATATTTTTC
1 TCTATTTCTTTA-ATTTTTC
*
44231214 TCTATTTTTTTAATTTTT
1 TCTATTTCTTTAATTTTT
44231232 AAATCAATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.16, C:0.11, G:0.00, T:0.74
Consensus pattern (19 bp):
TCTATTTCTTTAATTTTTC
Found at i:44235177 original size:115 final size:116
Alignment explanation
Indices: 44234950--44235181 Score: 369
Period size: 116 Copynumber: 2.0 Consensus size: 116
44234940 TCAAATTGAA
* *
44234950 ATCCAAACTTAGAACACCGTTAGAAAAAAAATTCAAACTTAAAACACCCATCAATCCATTAAAAA
1 ATCCAAACTTAGAACACCATTAGAAAAAAAATCCAAACTTAAAACACCCATCAATCCATTAAAAA
* * *
44235015 AACCAGAAACTTAACATTACAAATAAAACCCTAAAAATTAACATATCAAAC
66 AACCAAAAACATAACATCACAAATAAAACCCTAAAAATTAACATATCAAAC
* *
44235066 ATCCAAACTTAGAACACCCATTAG-AAAAAAATCCAGACTTAGAACACCCATCAATCCATTAAAA
1 ATCCAAACTTAGAACA-CCATTAGAAAAAAAATCCAAACTTAAAACACCCATCAATCCATTAAAA
*
44235130 AAA-CAAAAACATAACATCACAAATAAAACTCTAAAAATTAACATATCAAAC
65 AAACCAAAAACATAACATCACAAATAAAACCCTAAAAATTAACATATCAAAC
44235181 A
1 A
44235182 AAACCCATCA
Statistics
Matches: 107, Mismatches: 8, Indels: 3
0.91 0.07 0.03
Matches are distributed among these distances:
115 45 0.42
116 56 0.52
117 6 0.06
ACGTcount: A:0.55, C:0.23, G:0.03, T:0.19
Consensus pattern (116 bp):
ATCCAAACTTAGAACACCATTAGAAAAAAAATCCAAACTTAAAACACCCATCAATCCATTAAAAA
AACCAAAAACATAACATCACAAATAAAACCCTAAAAATTAACATATCAAAC
Found at i:44235718 original size:33 final size:31
Alignment explanation
Indices: 44235669--44235731 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 31
44235659 GAAATGGGAA
44235669 AAAATAAAAAAGGAAGGGAAAAA-GGGAAAAG
1 AAAATAAAAAAGGAA-GGAAAAATGGGAAAAG
44235700 AAAATAATAAAAGAGAAGGAAAAATGGGAAAA
1 AAAATAA-AAAAG-GAAGGAAAAATGGGAAAA
44235732 AAAGGAAACG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
31 7 0.24
32 12 0.41
33 10 0.34
ACGTcount: A:0.68, C:0.00, G:0.25, T:0.06
Consensus pattern (31 bp):
AAAATAAAAAAGGAAGGAAAAATGGGAAAAG
Found at i:44236354 original size:34 final size:35
Alignment explanation
Indices: 44236307--44236384 Score: 97
Period size: 35 Copynumber: 2.2 Consensus size: 35
44236297 ATCATTACTT
44236307 TCCTCTATCAACCACT-AAAACCCCATAGGG-ACTCA
1 TCCTC-ATCAACCACTGAAAACCCCA-AGGGAACTCA
* * *
44236342 TCCTCATTAACCACTGAAAATCCCACGGGAACTCA
1 TCCTCATCAACCACTGAAAACCCCAAGGGAACTCA
44236377 TCCTCATC
1 TCCTCATC
44236385 CACCCTCTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
34 12 0.32
35 25 0.68
ACGTcount: A:0.32, C:0.37, G:0.09, T:0.22
Consensus pattern (35 bp):
TCCTCATCAACCACTGAAAACCCCAAGGGAACTCA
Found at i:44238688 original size:40 final size:40
Alignment explanation
Indices: 44238600--44238690 Score: 96
Period size: 40 Copynumber: 2.2 Consensus size: 40
44238590 TTTAAAAAAT
*
44238600 TAATTATTTATATATTTAAATTAATTGTTATAGTGGAATAC
1 TAATT-TTTATATATTTAAATTAATTGTTATAGTGCAATAC
** * *
44238641 TGTTTTTTCTATTTTTAAATTAATTGTTAT-GTAGCACAT-C
1 TAATTTTTATATATTTAAATTAATTGTTATAGT-GCA-ATAC
44238681 TAATTTTTAT
1 TAATTTTTAT
44238691 TTAGCCTTTT
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
39 2 0.05
40 33 0.82
41 5 0.12
ACGTcount: A:0.32, C:0.05, G:0.09, T:0.54
Consensus pattern (40 bp):
TAATTTTTATATATTTAAATTAATTGTTATAGTGCAATAC
Found at i:44242723 original size:22 final size:22
Alignment explanation
Indices: 44242704--44242746 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
44242694 TAAAATTGTT
44242704 GATACA-TGGGAGACTTATTGAG
1 GATACAGT-GGAGACTTATTGAG
*
44242726 GATAGAGTGGAGACTTATTGA
1 GATACAGTGGAGACTTATTGA
44242747 ATAAGGTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.33, C:0.07, G:0.33, T:0.28
Consensus pattern (22 bp):
GATACAGTGGAGACTTATTGAG
Found at i:44253216 original size:24 final size:24
Alignment explanation
Indices: 44253180--44253233 Score: 56
Period size: 24 Copynumber: 2.2 Consensus size: 24
44253170 AATAAATACA
*
44253180 AAAAAATTGTAATACAAAATTAATT
1 AAAAAACTGTAATACAAAATTAA-T
* **
44253205 AAAAAACT-TAATGCAATTTTAAT
1 AAAAAACTGTAATACAAAATTAAT
44253228 AAAAAA
1 AAAAAA
44253234 TGAGAGTTGA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
23 7 0.28
24 11 0.44
25 7 0.28
ACGTcount: A:0.61, C:0.06, G:0.04, T:0.30
Consensus pattern (24 bp):
AAAAAACTGTAATACAAAATTAAT
Found at i:44255259 original size:5 final size:5
Alignment explanation
Indices: 44255243--44255274 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
44255233 CACTCTTCTT
*
44255243 CTCTG CTTTG CTCTG CTCTG CTCTG CTCTG CT
1 CTCTG CTCTG CTCTG CTCTG CTCTG CTCTG CT
44255275 TTGCATCCAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.00, C:0.38, G:0.19, T:0.44
Consensus pattern (5 bp):
CTCTG
Found at i:44263829 original size:5 final size:5
Alignment explanation
Indices: 44263819--44263843 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
44263809 ACTATTCATA
44263819 TTATT TTATT TTATT TTATT TTATT
1 TTATT TTATT TTATT TTATT TTATT
44263844 ATCTAATGAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTATT
Found at i:44264565 original size:18 final size:16
Alignment explanation
Indices: 44264525--44264571 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 16
44264515 TGCCTTATCC
*
44264525 TTATCTTATTTATATT
1 TTATTTTATTTATATT
*
44264541 TTATTTTATTTATTTAT
1 TTATTTTATTTATAT-T
44264558 TTATTTTTATTTAT
1 TTA-TTTTATTTAT
44264572 CCATCTTCCA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 13 0.48
17 4 0.15
18 10 0.37
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (16 bp):
TTATTTTATTTATATT
Found at i:44264566 original size:14 final size:14
Alignment explanation
Indices: 44264525--44264571 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
44264515 TGCCTTATCC
*
44264525 TTATCTTATTTATATT
1 TTAT-TTATTTTTA-T
*
44264541 TTATTT-TATTTAT
1 TTATTTATTTTTAT
44264554 TTATTTATTTTTAT
1 TTATTTATTTTTAT
44264568 TTAT
1 TTAT
44264572 CCATCTTCCA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
13 7 0.26
14 14 0.52
15 2 0.07
16 4 0.15
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.74
Consensus pattern (14 bp):
TTATTTATTTTTAT
Found at i:44269052 original size:20 final size:19
Alignment explanation
Indices: 44269003--44269054 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
44268993 TCTTCTGACC
*
44269003 AAAATAGAAAATATATCAA
1 AAAATAAAAAATATATCAA
*
44269022 AAAATTAAAAAGTATAAT-AA
1 AAAA-TAAAAAATAT-ATCAA
44269042 AAAATAAAAAATA
1 AAAATAAAAAATA
44269055 AAAAATTTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
19 12 0.43
20 14 0.50
21 2 0.07
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.21
Consensus pattern (19 bp):
AAAATAAAAAATATATCAA
Found at i:44270521 original size:19 final size:19
Alignment explanation
Indices: 44270499--44270543 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
44270489 TTATATTAGG
44270499 ATTTAATATTTAAGATAT-T
1 ATTTAATATTTAA-ATATGT
* *
44270518 ATTTATTATTTAAATTTGT
1 ATTTAATATTTAAATATGT
44270537 ATTTAAT
1 ATTTAAT
44270544 TTATGTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
ATTTAATATTTAAATATGT
Found at i:44271392 original size:21 final size:22
Alignment explanation
Indices: 44271356--44271402 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
44271346 TTTCTATTTC
*
44271356 TTTTAATTATACTTTCTTTTAT
1 TTTTAATTATACTTTCTTCTAT
*
44271378 TTTTAATTCTA-TTTCTTCTAT
1 TTTTAATTATACTTTCTTCTAT
44271399 TTTT
1 TTTT
44271403 TCTCAGACCG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.19, C:0.11, G:0.00, T:0.70
Consensus pattern (22 bp):
TTTTAATTATACTTTCTTCTAT
Found at i:44271402 original size:22 final size:23
Alignment explanation
Indices: 44271347--44271403 Score: 64
Period size: 22 Copynumber: 2.5 Consensus size: 23
44271337 CTTATTTATT
44271347 TTCTATTTCTTTTAATTATACTTTC
1 TTCTA-TT-TTTTAATTATACTTTC
* *
44271372 TTTTA-TTTTTAATTCTA-TTTC
1 TTCTATTTTTTAATTATACTTTC
44271393 TTCTATTTTTT
1 TTCTATTTTTT
44271404 CTCAGACCGC
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
21 8 0.29
22 15 0.54
23 1 0.04
25 4 0.14
ACGTcount: A:0.18, C:0.12, G:0.00, T:0.70
Consensus pattern (23 bp):
TTCTATTTTTTAATTATACTTTC
Found at i:44272976 original size:21 final size:21
Alignment explanation
Indices: 44272952--44272991 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
44272942 GCACTCTATA
*
44272952 GATTTCCAAAAGCAAACTGTG
1 GATTTCCAAAAGAAAACTGTG
*
44272973 GATTTTCAAAAGAAAACTG
1 GATTTCCAAAAGAAAACTG
44272992 AGGCATCTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.42, C:0.15, G:0.17, T:0.25
Consensus pattern (21 bp):
GATTTCCAAAAGAAAACTGTG
Found at i:44277037 original size:6 final size:6
Alignment explanation
Indices: 44277026--44277058 Score: 57
Period size: 6 Copynumber: 5.3 Consensus size: 6
44277016 GGCAACCCAA
44277026 TTATTT TTATTT TTATTT TTATTTT TTATTT TT
1 TTATTT TTATTT TTATTT TTA-TTT TTATTT TT
44277059 CTATCTTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 20 0.77
7 6 0.23
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTATTT
Found at i:44277051 original size:13 final size:13
Alignment explanation
Indices: 44277026--44277091 Score: 64
Period size: 13 Copynumber: 5.0 Consensus size: 13
44277016 GGCAACCCAA
44277026 TTATTTTTA-TTT
1 TTATTTTTATTTT
44277038 TTATTTTTATTTT
1 TTATTTTTATTTT
* * *
44277051 TTATTTTTCTATC
1 TTATTTTTATTTT
44277064 TTA-TTTTATTTAT
1 TTATTTTTATTT-T
44277077 TTATTCATTTATTTT
1 TTATT--TTTATTTT
44277092 GTCCAGGAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
12 15 0.35
13 19 0.44
14 1 0.02
15 1 0.02
16 7 0.16
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (13 bp):
TTATTTTTATTTT
Found at i:44277956 original size:105 final size:102
Alignment explanation
Indices: 44277777--44277968 Score: 253
Period size: 105 Copynumber: 1.9 Consensus size: 102
44277767 ATTTGTTAGA
* * *
44277777 CTGAGTAACCGGGGTGGAGTGCTTGGTTGTCATTTCACTTCGCGTCAAAAGGGCTAATGCATTGT
1 CTGAGTAACCGGGATGGAGTGCTTGGTTGTCATTTCACTTCGCATCAAAAGGGCCAATGCATTGT
44277842 ACAAAAAAAAAGAGAAGAAAAAAATTGAGAGTATGTTGGG
66 ACAAAAAAAAA-AG--GAAAAAAATTGAGAGTATGTTGGG
* * *
44277882 CTGAGTAACCGGGATGGAGTGCTTAGG-TGTCATTTCATTTCGCATCAAAAGGTCCAATGTATTC
1 CTGAGTAACCGGGATGGAGTGCTT-GGTTGTCATTTCACTTCGCATCAAAAGGGCCAATGCATT-
* *
44277946 TTA-AAGAAAAAAAGGAAAAAAAT
64 GTACAAAAAAAAAAGGAAAAAAAT
44277969 CACAAAATAA
Statistics
Matches: 77, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
102 9 0.12
104 2 0.03
105 62 0.81
106 4 0.05
ACGTcount: A:0.36, C:0.13, G:0.26, T:0.26
Consensus pattern (102 bp):
CTGAGTAACCGGGATGGAGTGCTTGGTTGTCATTTCACTTCGCATCAAAAGGGCCAATGCATTGT
ACAAAAAAAAAAGGAAAAAAATTGAGAGTATGTTGGG
Found at i:44278541 original size:19 final size:19
Alignment explanation
Indices: 44278519--44278563 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
44278509 TTATATTAGG
44278519 ATTTAATATTTAAGATAT-T
1 ATTTAATATTTAA-ATATGT
* *
44278538 ATTTATTATTTAAATTTGT
1 ATTTAATATTTAAATATGT
44278557 ATTTAAT
1 ATTTAAT
44278564 TTATGTTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
ATTTAATATTTAAATATGT
Found at i:44279398 original size:21 final size:22
Alignment explanation
Indices: 44279362--44279408 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
44279352 TTTCTATTTC
*
44279362 TTTTAATTATACTTTCTTTTAT
1 TTTTAATTATACTTTCTTCTAT
*
44279384 TTTTAATTCTA-TTTCTTCTAT
1 TTTTAATTATACTTTCTTCTAT
44279405 TTTT
1 TTTT
44279409 CCTCAGATTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.19, C:0.11, G:0.00, T:0.70
Consensus pattern (22 bp):
TTTTAATTATACTTTCTTCTAT
Found at i:44279408 original size:22 final size:23
Alignment explanation
Indices: 44279353--44279408 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 23
44279343 CTTCTTTATT
44279353 TTCTATTTCTTTTAATTATACTTTC
1 TTCTA-TT-TTTTAATTATACTTTC
* *
44279378 TTTTA-TTTTTAATTCTA-TTTC
1 TTCTATTTTTTAATTATACTTTC
44279399 TTCTATTTTT
1 TTCTATTTTT
44279409 CCTCAGATTG
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
21 8 0.30
22 14 0.52
23 1 0.04
25 4 0.15
ACGTcount: A:0.18, C:0.12, G:0.00, T:0.70
Consensus pattern (23 bp):
TTCTATTTTTTAATTATACTTTC
Found at i:44289535 original size:2 final size:2
Alignment explanation
Indices: 44289528--44289571 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
44289518 ATTTAAATAA
44289528 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
44289570 AT
1 AT
44289572 CAAAATAATG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:44290681 original size:3 final size:3
Alignment explanation
Indices: 44290675--44290717 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
44290665 TTTCACTTGT
44290675 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
44290718 ATTAAAATTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:44291595 original size:3 final size:3
Alignment explanation
Indices: 44291587--44291613 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
44291577 CATCTGCAAC
44291587 TGA TGA TGA TGA TGA TGA TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA
44291614 ACACGACGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
TGA
Found at i:44310957 original size:25 final size:26
Alignment explanation
Indices: 44310916--44310985 Score: 90
Period size: 25 Copynumber: 2.7 Consensus size: 26
44310906 TTAATTGGGG
*
44310916 TTTTAAGTCTATATAAAATT-A-AAA
1 TTTTAAGTCTATTTAAAATTAATAAA
*
44310940 TTTTAAAGTTTATTTAAAATTAAATAAA
1 TTTT-AAGTCTATTTAAAATT-AATAAA
44310968 TTTTAAGTCTATTTAAAA
1 TTTTAAGTCTATTTAAAA
44310986 AAATTCATGA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
24 4 0.10
25 14 0.36
27 14 0.36
28 7 0.18
ACGTcount: A:0.47, C:0.03, G:0.04, T:0.46
Consensus pattern (26 bp):
TTTTAAGTCTATTTAAAATTAATAAA
Found at i:44311227 original size:21 final size:20
Alignment explanation
Indices: 44311198--44311241 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
44311188 AAATAATAAT
*
44311198 AAAATTAAAAAAATTTAAAAC
1 AAAAATAAAAAAA-TTAAAAC
*
44311219 AAAAATAAAAAAATTGAAAC
1 AAAAATAAAAAAATTAAAAC
44311239 AAA
1 AAA
44311242 GGGTCTTGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.75, C:0.05, G:0.02, T:0.18
Consensus pattern (20 bp):
AAAAATAAAAAAATTAAAAC
Found at i:44311533 original size:17 final size:17
Alignment explanation
Indices: 44311500--44311534 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
44311490 CATTTGGAGA
* *
44311500 TTAAATTTACTTTAAAT
1 TTAAATTTAATTAAAAT
44311517 TTAAATTTAATTAAAAT
1 TTAAATTTAATTAAAAT
44311534 T
1 T
44311535 AAAAGTCCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (17 bp):
TTAAATTTAATTAAAAT
Found at i:44313524 original size:29 final size:30
Alignment explanation
Indices: 44313395--44313527 Score: 123
Period size: 29 Copynumber: 4.5 Consensus size: 30
44313385 GAAGGTCCCT
*
44313395 AAACTATCCAAAAATTATA-TTTTGACCCC-
1 AAACT-TCCAAAAATTACATTTTTGACCCCA
* * *
44313424 ATACTTCTCCAAAATTACATTTTTGACCCTA
1 AAACTTC-CAAAAATTACATTTTTGACCCCA
* * * *
44313455 AGACTTCCAAAATTTACATTTTT-ATCCCT
1 AAACTTCCAAAAATTACATTTTTGACCCCA
* *
44313484 AAACTTCC-AAAATTCCACTTTT-ACCCCA
1 AAACTTCCAAAAATTACATTTTTGACCCCA
44313512 AAACTTCCAAAAATTA
1 AAACTTCCAAAAATTA
44313528 TTATTTTACC
Statistics
Matches: 83, Mismatches: 17, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
28 25 0.30
29 29 0.35
30 23 0.28
31 6 0.07
ACGTcount: A:0.38, C:0.26, G:0.02, T:0.34
Consensus pattern (30 bp):
AAACTTCCAAAAATTACATTTTTGACCCCA
Found at i:44313534 original size:58 final size:59
Alignment explanation
Indices: 44313395--44313539 Score: 154
Period size: 57 Copynumber: 2.5 Consensus size: 59
44313385 GAAGGTCCCT
* * *
44313395 AAACTATCCAAAAATTATATTTTGACCCCATACTTCTCCAAAATTACATTTTTGACCCTA
1 AAACT-TCCAAAAATTATATTTTGACCCCAAACTTCTCCAAAATTACACTTTTGACCCCA
* * * * * *
44313455 AGACTTCCAAAATTTACATTTTTATCCCTAAAC-T-TCCAAAATTCCACTTTT-ACCCCA
1 AAACTTCCAAAAATTATATTTTGA-CCCCAAACTTCTCCAAAATTACACTTTTGACCCCA
44313512 AAACTTCCAAAAATTATTATTTT-ACCCC
1 AAACTTCCAAAAATTA-TATTTTGACCCC
44313540 TGGATGTTCA
Statistics
Matches: 70, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
56 3 0.04
57 20 0.29
58 20 0.29
59 17 0.24
60 10 0.14
ACGTcount: A:0.36, C:0.27, G:0.02, T:0.35
Consensus pattern (59 bp):
AAACTTCCAAAAATTATATTTTGACCCCAAACTTCTCCAAAATTACACTTTTGACCCCA
Found at i:44313700 original size:28 final size:28
Alignment explanation
Indices: 44313581--44313700 Score: 66
Period size: 28 Copynumber: 4.1 Consensus size: 28
44313571 ATTTTTTCTA
*
44313581 AAAATTACCA-TTTTACCCCCGAATATTC
1 AAAATTACCATTTTTACCCCC-AATATCC
* * *
44313609 AAAA-TATCATTTTTAGCCCTCAAATTTTGCC
1 AAAATTACCATTTTTA-CCC-CCAA-TAT-CC
* ** * * *
44313640 AAATTTGTCATTTTTACCCTCAAGAGTCT
1 AAAATTACCATTTTTACCCCCAATA-TCC
44313669 AAAATTACCA-TTTTACCCCCAATTATCC
1 AAAATTACCATTTTTACCCCCAA-TATCC
44313697 AAAA
1 AAAA
44313701 AGTCTCATTT
Statistics
Matches: 67, Mismatches: 17, Indels: 16
0.67 0.17 0.16
Matches are distributed among these distances:
27 4 0.06
28 26 0.39
29 14 0.21
30 6 0.09
31 7 0.10
32 10 0.15
ACGTcount: A:0.35, C:0.25, G:0.05, T:0.35
Consensus pattern (28 bp):
AAAATTACCATTTTTACCCCCAATATCC
Found at i:44315067 original size:42 final size:43
Alignment explanation
Indices: 44314983--44315066 Score: 150
Period size: 43 Copynumber: 2.0 Consensus size: 43
44314973 TGATTTAGAT
*
44314983 TTTTTTTTATTTTGTTACTATTTCGGTTTAAAATCGATTTTTA
1 TTTTTTTTATTTTGTTACTATTTCAGTTTAAAATCGATTTTTA
*
44315026 TTTTTTTTATTTTTTTACTATTTCAGTTTAAAATCGATTTT
1 TTTTTTTTATTTTGTTACTATTTCAGTTTAAAATCGATTTT
44315067 AATTAAAATT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.21, C:0.07, G:0.07, T:0.64
Consensus pattern (43 bp):
TTTTTTTTATTTTGTTACTATTTCAGTTTAAAATCGATTTTTA
Found at i:44317616 original size:47 final size:47
Alignment explanation
Indices: 44317547--44317641 Score: 181
Period size: 47 Copynumber: 2.0 Consensus size: 47
44317537 ACATAATAAG
44317547 TCTATATCATCTCTAATACAAACAAAAGATAATATCATCCTAGTACA
1 TCTATATCATCTCTAATACAAACAAAAGATAATATCATCCTAGTACA
*
44317594 TCTATATCATCTTTAATACAAACAAAAGATAATATCATCCTAGTACA
1 TCTATATCATCTCTAATACAAACAAAAGATAATATCATCCTAGTACA
44317641 T
1 T
44317642 GCCATAAGAT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.44, C:0.20, G:0.04, T:0.32
Consensus pattern (47 bp):
TCTATATCATCTCTAATACAAACAAAAGATAATATCATCCTAGTACA
Found at i:44319401 original size:6 final size:6
Alignment explanation
Indices: 44319390--44319516 Score: 53
Period size: 6 Copynumber: 20.2 Consensus size: 6
44319380 CACAAAAAAA
* * *
44319390 TATGTT TATGTT TATGTT TATATT TAAT-TAAT TATATT TATATT TATGTT
1 TATGTT TATGTT TATGTT TATGTT T-ATGT--T TATGTT TATGTT TATGTT
* * * * * *
44319440 TGTATT TAAT-TAAT TATGTT CATGTT TACGTT TATGTT TGTATT TA-GTTAAT
1 TATGTT T-ATGT--T TATGTT TATGTT TATGTT TATGTT TATGTT TATG-T--T
* *
44319492 TATATT TATGCT TATGTT TATGTT T
1 TATGTT TATGTT TATGTT TATGTT T
44319517 GGGGTATAAG
Statistics
Matches: 92, Mismatches: 17, Indels: 24
0.69 0.13 0.18
Matches are distributed among these distances:
6 75 0.82
7 7 0.08
8 10 0.11
ACGTcount: A:0.25, C:0.02, G:0.11, T:0.61
Consensus pattern (6 bp):
TATGTT
Found at i:44319436 original size:32 final size:32
Alignment explanation
Indices: 44319394--44319512 Score: 114
Period size: 32 Copynumber: 3.5 Consensus size: 32
44319384 AAAAAATATG
*
44319394 TTTATGTTTATGTTTATATTTAATTAATTATA
1 TTTATATTTATGTTTATATTTAATTAATTATA
*
44319426 TTTATATTTATGTTTGTATTTAATTAATTATGTTCA
1 TTTATATTTATGTTTATATTTAATTAATTA---T-A
* *
44319462 TGTT-TACGTTTATGTTTGTATTTAGTTAATTATA
1 T-TTATA--TTTATGTTTATATTTAATTAATTATA
**
44319496 TTTATGCTTATGTTTAT
1 TTTATATTTATGTTTAT
44319513 GTTTGGGGTA
Statistics
Matches: 73, Mismatches: 6, Indels: 16
0.77 0.06 0.17
Matches are distributed among these distances:
32 37 0.51
33 2 0.03
34 3 0.04
35 2 0.03
36 4 0.05
37 2 0.03
38 23 0.32
ACGTcount: A:0.26, C:0.03, G:0.10, T:0.61
Consensus pattern (32 bp):
TTTATATTTATGTTTATATTTAATTAATTATA
Found at i:44319474 original size:38 final size:36
Alignment explanation
Indices: 44319390--44319517 Score: 147
Period size: 38 Copynumber: 3.6 Consensus size: 36
44319380 CACAAAAAAA
*
44319390 TATGTTTATGTTTATGTTTATATTTAATTAATTA--
1 TATGTTTATGTTTATGTTTGTATTTAATTAATTATT
*
44319424 TA--TTTATATTTATGTTTGTATTTAATTAATTATGT
1 TATGTTTATGTTTATGTTTGTATTTAATTAATTAT-T
* *
44319459 TCATGTTTACGTTTATGTTTGTATTTAGTTAATTATATT
1 T-ATGTTTATGTTTATGTTTGTATTTAATTAA-T-TATT
*
44319498 TATGCTTATGTTTATGTTTG
1 TATGTTTATGTTTATGTTTG
44319518 GGGTATAAGG
Statistics
Matches: 79, Mismatches: 7, Indels: 12
0.81 0.07 0.12
Matches are distributed among these distances:
32 28 0.35
34 2 0.03
35 1 0.01
36 1 0.01
38 41 0.52
39 3 0.04
40 3 0.04
ACGTcount: A:0.25, C:0.02, G:0.12, T:0.61
Consensus pattern (36 bp):
TATGTTTATGTTTATGTTTGTATTTAATTAATTATT
Found at i:44319690 original size:6 final size:6
Alignment explanation
Indices: 44319679--44319794 Score: 56
Period size: 6 Copynumber: 18.3 Consensus size: 6
44319669 CCCTATACCT
* * * * *
44319679 TAAACA TAAACA TAAGCA TAAATA TAATTA-A TTAAATA CAAACA GAAACA
1 TAAACA TAAACA TAAACA TAAACA TAA--ACA -TAAACA TAAACA TAAACA
* * * *
44319729 TAAACA TAATTA-A TTAAATA CAAACA TAAACA TAAACA TAATCAA TTAAATA
1 TAAACA TAA--ACA -TAAACA TAAACA TAAACA TAAACA TAAAC-A -TAAACA
*
44319781 CAAACA TAAACA TA
1 TAAACA TAAACA TA
44319795 TTTTTTTGTG
Statistics
Matches: 84, Mismatches: 16, Indels: 20
0.70 0.13 0.17
Matches are distributed among these distances:
6 67 0.80
7 6 0.07
8 11 0.13
ACGTcount: A:0.62, C:0.13, G:0.02, T:0.23
Consensus pattern (6 bp):
TAAACA
Found at i:44319714 original size:32 final size:32
Alignment explanation
Indices: 44319686--44319794 Score: 182
Period size: 32 Copynumber: 3.4 Consensus size: 32
44319676 CCTTAAACAT
* *
44319686 AAACATAAGCATAAATATAATTAATTAAATAC
1 AAACATAAACATAAACATAATTAATTAAATAC
*
44319718 AAACAGAAACATAAACATAATTAATTAAATAC
1 AAACATAAACATAAACATAATTAATTAAATAC
*
44319750 AAACATAAACATAAACATAATCAATTAAATAC
1 AAACATAAACATAAACATAATTAATTAAATAC
44319782 AAACATAAACATA
1 AAACATAAACATA
44319795 TTTTTTTGTG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 72 1.00
ACGTcount: A:0.62, C:0.13, G:0.02, T:0.23
Consensus pattern (32 bp):
AAACATAAACATAAACATAATTAATTAAATAC
Found at i:44332144 original size:2 final size:2
Alignment explanation
Indices: 44332137--44332164 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
44332127 GACTTAATCC
44332137 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
44332165 TAACTTATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:44337179 original size:2 final size:2
Alignment explanation
Indices: 44337172--44337198 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
44337162 AAGTTATTCT
44337172 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 T
44337199 GAAATTAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:44359607 original size:6 final size:6
Alignment explanation
Indices: 44359596--44359623 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
44359586 ACAATTTCTA
44359596 TTCTCT TTCTCT TTCTCT TTCTCT TTCT
1 TTCTCT TTCTCT TTCTCT TTCTCT TTCT
44359624 TTCTTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (6 bp):
TTCTCT
Found at i:44361060 original size:3 final size:3
Alignment explanation
Indices: 44361052--44361093 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
44361042 CAAATACTTT
44361052 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
44361094 GAAGAAGAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:44361098 original size:3 final size:3
Alignment explanation
Indices: 44361092--44361134 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
44361082 TAATAATAAT
44361092 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
44361135 TGTTTAGAAG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:44363401 original size:38 final size:38
Alignment explanation
Indices: 44363344--44363451 Score: 153
Period size: 38 Copynumber: 2.8 Consensus size: 38
44363334 ATTTATAAAG
*
44363344 AGATCTAGCATTTGTTGTAGATTCTCGGGTTACTTAACA
1 AGATCTAGC-CTTGTTGTAGATTCTCGGGTTACTTAACA
* * * *
44363383 AGATCTAGCCTTGTTGTAGATTCTCGAGTGATTTAACG
1 AGATCTAGCCTTGTTGTAGATTCTCGGGTTACTTAACA
*
44363421 AGATCAAGCCTTGTTGTAGATTCTCGGGTTA
1 AGATCTAGCCTTGTTGTAGATTCTCGGGTTA
44363452 TAAGTAATAT
Statistics
Matches: 61, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
38 52 0.85
39 9 0.15
ACGTcount: A:0.24, C:0.16, G:0.23, T:0.37
Consensus pattern (38 bp):
AGATCTAGCCTTGTTGTAGATTCTCGGGTTACTTAACA
Found at i:44370359 original size:21 final size:21
Alignment explanation
Indices: 44370334--44370374 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
44370324 TGGGTTGCAA
44370334 AAAT-AATTTAATTGAATAAAC
1 AAATAAATTTAATT-AATAAAC
44370355 AAATAAATTTAATTAATAAA
1 AAATAAATTTAATTAATAAA
44370375 AATTTCGAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (21 bp):
AAATAAATTTAATTAATAAAC
Found at i:44372308 original size:17 final size:17
Alignment explanation
Indices: 44372266--44372308 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
44372256 TTATTAATTT
44372266 TTTTTAGTTGACTTATTA
1 TTTTTA-TTGACTTATTA
* * *
44372284 TATGTATTTACTTATTA
1 TTTTTATTGACTTATTA
44372301 TTTTTATT
1 TTTTTATT
44372309 ATATATGATT
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.23, C:0.05, G:0.07, T:0.65
Consensus pattern (17 bp):
TTTTTATTGACTTATTA
Done.