Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr9
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: 48574783
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2023350 characters in sequence are not A, C, G, or T
File 124 of 135
Found at i:44828299 original size:94 final size:94
Alignment explanation
Indices: 44828085--44828697 Score: 586
Period size: 94 Copynumber: 6.6 Consensus size: 94
44828075 AACAGATCAG
* * *
44828085 TGAAGCTACAATTCCTATACCCTTAAAGTTGCAGTAGGTC-GAAATGAAACTACAATGGTGAAT-
1 TGAAGCTACAATTCCTATACCCCTGAAGTTGCAGTGGGTCAG-AATGAAACTACAATGGTGAATC
* * * * *
44828148 TTATATCCCTAAAATTGCAGTAGATTGGAT
65 CTATATCCCTGAAGTTGCAGTGGATCGGAT
* * * *
44828178 TGAAGCTACAATTCTTATACCCTTGAAGTTGCAGTGGGTCAGAATAAAACTACAACGGTGAATCC
1 TGAAGCTACAATTCCTATACCCCTGAAGTTGCAGTGGGTCAGAATGAAACTACAATGGTGAATCC
** *
44828243 TATATCCCTGAAGTTATAGTGGATCAGAT
66 TATATCCCTGAAGTTGCAGTGGATCGGAT
* * * * *
44828272 TAAATCTACAATTCCTATACCCCTGAAGTT-CTAATGGGTC-GAAATAAAACTACAATAGTGAAT
1 TGAAGCTACAATTCCTATACCCCTGAAGTTGC-AGTGGGTCAG-AATGAAACTACAATGGTGAAT
** * *
44828335 ATTATATTCCTAAAGTTGCAGTGGATCGGAT
64 CCTATATCCCTGAAGTTGCAGTGGATCGGAT
* * * * * * *
44828366 TGAAGCTACAATTCCTATACCCCTAAAGTTGTAGTGGGTCGGATTGAAATTACAATGGCGAATCT
1 TGAAGCTACAATTCCTATACCCCTGAAGTTGCAGTGGGTCAGAATGAAACTACAATGGTGAATCC
** * * * *
44828431 TACCTCTCTGAAGTTGCAATGGAGCAAGA-
66 TATATCCCTGAAGTTGCAGTGGATC-GGAT
* * * * * * *
44828460 TGAAGTTACGATTCTTATACCCCTGAAGTTGCAGTGGGTCAAAATGAAATTACAAAGGCGAATCC
1 TGAAGCTACAATTCCTATACCCCTGAAGTTGCAGTGGGTCAGAATGAAACTACAATGGTGAATCC
* *
44828525 TATATCCCT-AACGTTACAGTGAATCGGAT
66 TATATCCCTGAA-GTTGCAGTGGATCGGAT
* * *
44828554 TGAAGCTACAATTCCTATACCCCTGAAGTTGCAGTGGGTCGGATTGAAGCTACAA---T---TCC
1 TGAAGCTACAATTCCTATACCCCTGAAGTTGCAGTGGGTCAGAATGAAACTACAATGGTGAATCC
* *
44828613 TATA-CCTCTGAAGTTGTAGTGGGTCGGAT
66 TATATCC-CTGAAGTTGCAGTGGATCGGAT
* * * *
44828642 TGAAGCTACAATTCCTATACCCCTGAAGTTACAATGGGTCAGATTGAAGCTACAAT
1 TGAAGCTACAATTCCTATACCCCTGAAGTTGCAGTGGGTCAGAATGAAACTACAAT
44828698 TTCTATACCC
Statistics
Matches: 428, Mismatches: 80, Indels: 28
0.80 0.15 0.05
Matches are distributed among these distances:
87 2 0.00
88 74 0.17
89 2 0.00
93 62 0.14
94 285 0.67
95 3 0.01
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (94 bp):
TGAAGCTACAATTCCTATACCCCTGAAGTTGCAGTGGGTCAGAATGAAACTACAATGGTGAATCC
TATATCCCTGAAGTTGCAGTGGATCGGAT
Found at i:44828408 original size:44 final size:44
Alignment explanation
Indices: 44828085--44828826 Score: 384
Period size: 44 Copynumber: 16.1 Consensus size: 44
44828075 AACAGATCAG
* * * * *
44828085 TGAAGCTACAATTCCTATACCCTTAAAGTTGCAGTAGGTCGAAA
1 TGAAGCTACAATTCCTATACCCCTGAAGTTGCAGTGGGTCGGAT
* ** * * * * * *
44828129 TGAAACTACAATGGTGAATTTATATCCCTAAAATTGCAGTAGATTGGAT
1 TGAAGCTACAAT--T---CCTATACCCCTGAAGTTGCAGTGGGTCGGAT
* * * *
44828178 TGAAGCTACAATTCTTATACCCTTGAAGTTGCAGTGGGTCAGAA
1 TGAAGCTACAATTCCTATACCCCTGAAGTTGCAGTGGGTCGGAT
* * * ** * *
44828222 TAAAACTACAACGGTGAATCCTATATCCCTGAAGTTATAGTGGATCAGAT
1 TGAAGCTACAA---T---TCCTATACCCCTGAAGTTGCAGTGGGTCGGAT
* * * * *
44828272 TAAATCTACAATTCCTATACCCCTGAAGTT-CTAATGGGTCGAAA
1 TGAAGCTACAATTCCTATACCCCTGAAGTTGC-AGTGGGTCGGAT
* * ** ** * *
44828316 TAAAACTACAATAGTGAATATTATATTCCTAAAGTTGCAGTGGATCGGAT
1 TGAAGCTAC-A-A-T---TCCTATACCCCTGAAGTTGCAGTGGGTCGGAT
* *
44828366 TGAAGCTACAATTCCTATACCCCTAAAGTTGTAGTGGGTCGGAT
1 TGAAGCTACAATTCCTATACCCCTGAAGTTGCAGTGGGTCGGAT
** * * *
44828410 TGAAATTACAATGGCGAATCT-TACCTCTCTGAAGTTGCAATGGAG-CAAGA-
1 TGAAGCTACAAT-TC----CTATACC-C-CTGAAGTTGCAGTGG-GTC-GGAT
* * * ** *
44828460 TGAAGTTACGATTCTTATACCCCTGAAGTTGCAGTGGGTCAAAA
1 TGAAGCTACAATTCCTATACCCCTGAAGTTGCAGTGGGTCGGAT
** * * * **
44828504 TGAAATTACAAAGGCGAATCCTATATCCCT-AACGTTACAGTGAATCGGAT
1 TGAAGCTAC--A----ATTCCTATACCCCTGAA-GTTGCAGTGGGTCGGAT
44828554 TGAAGCTACAATTCCTATACCCCTGAAGTTGCAGTGGGTCGGAT
1 TGAAGCTACAATTCCTATACCCCTGAAGTTGCAGTGGGTCGGAT
* *
44828598 TGAAGCTACAATTCCTATACCTCTGAAGTTGTAGTGGGTCGGAT
1 TGAAGCTACAATTCCTATACCCCTGAAGTTGCAGTGGGTCGGAT
* * *
44828642 TGAAGCTACAATTCCTATACCCCTGAAGTTACAATGGGTCAGAT
1 TGAAGCTACAATTCCTATACCCCTGAAGTTGCAGTGGGTCGGAT
* * *
44828686 TGAAGCTACAATTTCTATACCCCTGAAGTTGTAGTGGGTCGAAT
1 TGAAGCTACAATTCCTATACCCCTGAAGTTGCAGTGGGTCGGAT
* * * *
44828730 TGAAGTTACCATAGCAAATCTTAT-CTCCCAGAAGTTGCAGTGGAGT-AGA-
1 TGAAG----C-TA-CAATTCCTATAC-CCCTGAAGTTGCAGTGG-GTCGGAT
* * * *
44828779 TGAAGCTACAAATCTTATACCCTTGAAGTTGTAGTGGGTCGGAT
1 TGAAGCTACAATTCCTATACCCCTGAAGTTGCAGTGGGTCGGAT
44828823 TGAA
1 TGAA
44828827 TTTACATTAG
Statistics
Matches: 537, Mismatches: 111, Indels: 100
0.72 0.15 0.13
Matches are distributed among these distances:
42 2 0.00
43 29 0.05
44 289 0.54
45 7 0.01
46 6 0.01
47 5 0.01
48 7 0.01
49 48 0.09
50 138 0.26
51 6 0.01
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (44 bp):
TGAAGCTACAATTCCTATACCCCTGAAGTTGCAGTGGGTCGGAT
Found at i:44828912 original size:94 final size:94
Alignment explanation
Indices: 44828574--44829237 Score: 604
Period size: 94 Copynumber: 7.1 Consensus size: 94
44828564 ATTCCTATAC
** * *
44828574 CCCTGAAGTTGCAGTGG-GTCGGATTGAAGCTACAATTCCTATACCTCTGAAGTTGTAGTGGGTC
1 CCCTGAAGTTGCAGTGGAGTAAGA-TGAAGCTACAAATCCTATACCCCTGAAGTTGTAGTGGGTC
* * *
44828638 GGATTG-A---AGC-TA-CAATTCCTATAC-
65 GGATTGAATCTACCATAGCAAATCTTAT-CT
* * * * *
44828662 CCCTGAAGTTACAATGG-GTCAGATTGAAGCTACAATTTCTATACCCCTGAAGTTGTAGTGGGTC
1 CCCTGAAGTTGCAGTGGAGTAAGA-TGAAGCTACAAATCCTATACCCCTGAAGTTGTAGTGGGTC
*
44828726 GAATTGAAGT-TACCATAGCAAATCTTATCT
65 GGATTGAA-TCTACCATAGCAAATCTTATCT
* * *
44828756 CCCAGAAGTTGCAGTGGAGT-AGATGAAGCTACAAATCTTATACCCTTGAAGTTGTAGTGGGTCG
1 CCCTGAAGTTGCAGTGGAGTAAGATGAAGCTACAAATCCTATACCCCTGAAGTTGTAGTGGGTCG
* *
44828820 GATTGAATTTA-CATTAGCGAATCTTATCT
66 GATTGAATCTACCA-TAGCAAATCTTATCT
* * * * * *
44828849 CCTTGAAGTTGCAGTGGAGAAAGAAGTAGCTACAAATCCTATACCCCTGAAGTTGGAGTGGGTCA
1 CCCTGAAGTTGCAGTGGAGTAAGATGAAGCTACAAATCCTATACCCCTGAAGTTGTAGTGGGTCG
* **
44828914 GATTAAATCTACCATAATAAATCTTATCT
66 GATTGAATCTACCATAGCAAATCTTATCT
* * ** *
44828943 CCCTGAA-TATGCAGTGAAGCAAGATGAAGCTACAAATTTTATACCCCTAAAGTTGCT-GTGGGT
1 CCCTGAAGT-TGCAGTGGAGTAAGATGAAGCTACAAATCCTATACCCCTGAAGTTG-TAGTGGGT
* *
44829006 TGGATTGAATCTACCATAAG-GAATCTTATCT
64 CGGATTGAATCTACCAT-AGCAAATCTTATCT
* * * * * * ** **
44829037 CCTTGACGTTGCAATGGAGTAAGATGAAGCTAAAAATCCTATATCCCTGAAGTTGCAGTAAGTTA
1 CCCTGAAGTTGCAGTGGAGTAAGATGAAGCTACAAATCCTATACCCCTGAAGTTGTAGTGGGTCG
* * *
44829102 GATTGAATATACCATAACGAATCTTATCT
66 GATTGAATCTACCATAGCAAATCTTATCT
* * * * * * *
44829131 CCCTGAAGATGCAGTGAAGTAAGATGAACCTACAAATCATATATCCCTGAAATTGTAGTGGAAT-
1 CCCTGAAGTTGCAGTGGAGTAAGATGAAGCTACAAATCCTATACCCCTGAAGTTGTAGTGG-GTC
* * * *
44829195 GGATTGAAACTACAACATCAAATCTTATCT
65 GGATTGAATCTACCATAGCAAATCTTATCT
*
44829225 CCTTGAAGTTGCA
1 CCCTGAAGTTGCA
44829238 ATTGAACAAG
Statistics
Matches: 473, Mismatches: 84, Indels: 32
0.80 0.14 0.05
Matches are distributed among these distances:
88 64 0.14
89 1 0.00
92 5 0.01
93 81 0.17
94 315 0.67
95 7 0.01
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (94 bp):
CCCTGAAGTTGCAGTGGAGTAAGATGAAGCTACAAATCCTATACCCCTGAAGTTGTAGTGGGTCG
GATTGAATCTACCATAGCAAATCTTATCT
Found at i:44830788 original size:12 final size:12
Alignment explanation
Indices: 44830755--44830796 Score: 57
Period size: 12 Copynumber: 3.2 Consensus size: 12
44830745 TACTTATTTT
44830755 TTTATTTTTATTA
1 TTTA-TTTTATTA
44830768 TCGTTATTTTATTA
1 T--TTATTTTATTA
44830782 TTTATTTTATTA
1 TTTATTTTATTA
44830794 TTT
1 TTT
44830797 CTGGCACTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 14 0.52
13 1 0.04
14 9 0.33
15 3 0.11
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (12 bp):
TTTATTTTATTA
Found at i:44830925 original size:25 final size:25
Alignment explanation
Indices: 44830896--44830946 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
44830886 TATGATAATA
*
44830896 TGATTATTGTTATTATTATTACCAT
1 TGATTAATGTTATTATTATTACCAT
*
44830921 TGATTAATGTTATTATTATTATCAT
1 TGATTAATGTTATTATTATTACCAT
44830946 T
1 T
44830947 ATAGTTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.29, C:0.06, G:0.08, T:0.57
Consensus pattern (25 bp):
TGATTAATGTTATTATTATTACCAT
Found at i:44835545 original size:316 final size:317
Alignment explanation
Indices: 44835144--44835776 Score: 1259
Period size: 316 Copynumber: 2.0 Consensus size: 317
44835134 TTTCTTAAAT
44835144 TATAAAAATATATAAAAAAATTTTATAGAGAACCTAAAAAAATATAAAATTTCCGAAACATGTCA
1 TATAAAAATATATAAAAAAATTTTATAGAGAACCTAAAAAAATATAAAATTTCCGAAACATGTCA
44835209 AAGAAAAAAAAACAAAAACTTACTCTTAATCATTACTAGAGATTTTAATATGCAATTCTAATTCA
66 AAGAAAAAAAAACAAAAACTTACTCTTAATCATTACTAGAGATTTTAATATGCAATTCTAATTCA
44835274 ACAACAACAAATACGTGTGTATTTTTAACAAAAATCATAAGAAATTTAGCGTTGATGAATCTAAA
131 ACAACAACAAATACGTGTGTATTTTTAACAAAAATCATAAGAAATTTAGCGTTGATGAATCTAAA
44835339 TGTTAGCAAATAATGTTTTTCAAAATAAATTTGAACTGCCTTCATTAAGACAATAGGCATTCTAT
196 TGTTAGCAAATAATGTTTTTCAAAATAAATTTGAACTGCCTTCATTAAGACAATAGGCATTCTAT
44835404 TGATCATAAACCATTAAAATTCATTTATAGGGTATGAAGTACTCCAAGACCCAAAGA
261 TGATCATAAACCATTAAAATTCATTTATAGGGTATGAAGTACTCCAAGACCCAAAGA
44835461 TATAAAAATA-ATAAAAAAATTTTATAGAGAACCTAAAAAAATATAAAATTTCCGAAACATGTCA
1 TATAAAAATATATAAAAAAATTTTATAGAGAACCTAAAAAAATATAAAATTTCCGAAACATGTCA
44835525 AAGAAAAAAAAACAAAAACTTACTCTTAATCATTACTAGAGATTTTAATATGCAATTCTAATTCA
66 AAGAAAAAAAAACAAAAACTTACTCTTAATCATTACTAGAGATTTTAATATGCAATTCTAATTCA
44835590 ACAACAACAAATACGTGTGTATTTTTAACAAAAATCATAAGAAATTTAGCGTTGATGAATCTAAA
131 ACAACAACAAATACGTGTGTATTTTTAACAAAAATCATAAGAAATTTAGCGTTGATGAATCTAAA
44835655 TGTTAGCAAATAATGTTTTTCAAAATAAATTTGAACTGCCTTCATTAAGACAATAGGCATTCTAT
196 TGTTAGCAAATAATGTTTTTCAAAATAAATTTGAACTGCCTTCATTAAGACAATAGGCATTCTAT
44835720 TGATCATAAACCATTAAAATTCATTTATAGGGTATGAAGTACTCCAAGACCCAAAGA
261 TGATCATAAACCATTAAAATTCATTTATAGGGTATGAAGTACTCCAAGACCCAAAGA
44835777 GGCAAGTGTT
Statistics
Matches: 316, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
316 306 0.97
317 10 0.03
ACGTcount: A:0.46, C:0.13, G:0.10, T:0.30
Consensus pattern (317 bp):
TATAAAAATATATAAAAAAATTTTATAGAGAACCTAAAAAAATATAAAATTTCCGAAACATGTCA
AAGAAAAAAAAACAAAAACTTACTCTTAATCATTACTAGAGATTTTAATATGCAATTCTAATTCA
ACAACAACAAATACGTGTGTATTTTTAACAAAAATCATAAGAAATTTAGCGTTGATGAATCTAAA
TGTTAGCAAATAATGTTTTTCAAAATAAATTTGAACTGCCTTCATTAAGACAATAGGCATTCTAT
TGATCATAAACCATTAAAATTCATTTATAGGGTATGAAGTACTCCAAGACCCAAAGA
Found at i:44837397 original size:13 final size:13
Alignment explanation
Indices: 44837381--44837405 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
44837371 TATATATTTT
44837381 TTGATAAATTTAA
1 TTGATAAATTTAA
44837394 TTGATAAATTTA
1 TTGATAAATTTA
44837406 TTTTTTTAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TTGATAAATTTAA
Found at i:44842035 original size:24 final size:24
Alignment explanation
Indices: 44842007--44842058 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
44841997 TTCGTAGGTC
*
44842007 AAATAAATTATGCTAATAAATACT
1 AAATAAATTATACTAATAAATACT
* * * *
44842031 AAATATATTGTACTAGTAAATATT
1 AAATAAATTATACTAATAAATACT
44842055 AAAT
1 AAAT
44842059 CTTCTAGAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.37
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:44844007 original size:24 final size:24
Alignment explanation
Indices: 44843979--44844030 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
44843969 TTCGTATGTC
* *
44843979 AAATAAATTATGCTAATAAATGCT
1 AAATAAATTATACTAATAAATACT
*
44844003 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACT
44844027 AAAT
1 AAAT
44844031 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.54, C:0.08, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:44845684 original size:21 final size:20
Alignment explanation
Indices: 44845659--44845714 Score: 53
Period size: 22 Copynumber: 2.7 Consensus size: 20
44845649 TATTCACTAA
44845659 TTAATTTCCATAATAGATGTT
1 TTAATTTCCATAATAG-TGTT
44845680 TTAA-TTCCTTGATAATAGTGTT
1 TTAATTTCC---ATAATAGTGTT
*
44845702 TT-ATTTCAATAAT
1 TTAATTTCCATAAT
44845715 TTCACTTAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 10
0.73 0.02 0.24
Matches are distributed among these distances:
19 5 0.17
20 4 0.13
21 5 0.17
22 9 0.30
23 7 0.23
ACGTcount: A:0.32, C:0.09, G:0.09, T:0.50
Consensus pattern (20 bp):
TTAATTTCCATAATAGTGTT
Found at i:44846720 original size:17 final size:17
Alignment explanation
Indices: 44846700--44846753 Score: 76
Period size: 17 Copynumber: 3.3 Consensus size: 17
44846690 TAAAAGAGTT
44846700 ATTAATTAAAAATATGA
1 ATTAATTAAAAATATGA
**
44846717 ATTAA--AAAAATATTT
1 ATTAATTAAAAATATGA
44846732 ATTAATTAAAAATATGA
1 ATTAATTAAAAATATGA
44846749 ATTAA
1 ATTAA
44846754 AAAACATTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
15 13 0.42
17 18 0.58
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (17 bp):
ATTAATTAAAAATATGA
Found at i:44846721 original size:13 final size:13
Alignment explanation
Indices: 44846703--44846772 Score: 50
Period size: 13 Copynumber: 4.8 Consensus size: 13
44846693 AAGAGTTATT
44846703 AATTAAAAATATG
1 AATTAAAAATATG
*
44846716 AATTAAAAAAATATTTATT
1 AATT---AAAA-A--TATG
44846735 AATTAAAAATATG
1 AATTAAAAATATG
* *
44846748 AATTAAAAAACATT
1 AATT-AAAAATATG
44846762 AATTAAAAATA
1 AATTAAAAATA
44846773 AAAAAAGCTT
Statistics
Matches: 45, Mismatches: 5, Indels: 14
0.70 0.08 0.22
Matches are distributed among these distances:
13 17 0.38
14 11 0.24
15 1 0.02
16 8 0.18
17 1 0.02
19 7 0.16
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (13 bp):
AATTAAAAATATG
Found at i:44846727 original size:15 final size:15
Alignment explanation
Indices: 44846707--44846770 Score: 69
Period size: 15 Copynumber: 4.2 Consensus size: 15
44846697 GTTATTAATT
44846707 AAAAATATGAATTAA
1 AAAAATATGAATTAA
**
44846722 AAAAATATTTATTAA
1 AAAAATATGAATTAA
44846737 TTAAAAATATGAATTAA
1 --AAAAATATGAATTAA
44846754 AAAACAT-T-AATTAA
1 AAAA-ATATGAATTAA
44846768 AAA
1 AAA
44846771 TAAAAAAAGC
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
14 9 0.21
15 18 0.43
16 2 0.05
17 13 0.31
ACGTcount: A:0.64, C:0.02, G:0.03, T:0.31
Consensus pattern (15 bp):
AAAAATATGAATTAA
Found at i:44846765 original size:14 final size:14
Alignment explanation
Indices: 44846732--44846770 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
44846722 AAAAATATTT
*
44846732 ATTAATT-AAAAAT
1 ATTAATTAAAAAAC
*
44846745 ATGAATTAAAAAAC
1 ATTAATTAAAAAAC
44846759 ATTAATTAAAAA
1 ATTAATTAAAAA
44846771 TAAAAAAAGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 6 0.27
14 16 0.73
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (14 bp):
ATTAATTAAAAAAC
Found at i:44847743 original size:27 final size:26
Alignment explanation
Indices: 44847705--44847759 Score: 60
Period size: 27 Copynumber: 2.1 Consensus size: 26
44847695 TTAAGTGTTT
*
44847705 TTCTTTCTTCAA-TTATTTTTCATCTAG
1 TTCTTTCTTCAAGTT-TTTTT-ATCAAG
44847732 TTCTTT-TATCAAGTTTTTTTATCAAG
1 TTCTTTCT-TCAAGTTTTTTTATCAAG
44847758 TT
1 TT
44847760 TTGCAGCAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
26 8 0.32
27 15 0.60
28 2 0.08
ACGTcount: A:0.20, C:0.15, G:0.05, T:0.60
Consensus pattern (26 bp):
TTCTTTCTTCAAGTTTTTTTATCAAG
Found at i:44847751 original size:13 final size:13
Alignment explanation
Indices: 44847720--44847761 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
44847710 TCTTCAATTA
* *
44847720 TTTTTCATCTAGT
1 TTTTTTATCAAGT
*
44847733 TCTTTTATCAAGT
1 TTTTTTATCAAGT
44847746 TTTTTTATCAAGT
1 TTTTTTATCAAGT
44847759 TTT
1 TTT
44847762 GCAGCAAGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.19, C:0.12, G:0.07, T:0.62
Consensus pattern (13 bp):
TTTTTTATCAAGT
Found at i:44847761 original size:12 final size:12
Alignment explanation
Indices: 44847720--44847822 Score: 73
Period size: 12 Copynumber: 8.3 Consensus size: 12
44847710 TCTTCAATTA
*
44847720 TTTTTCATCTAG
1 TTTTTCATCAAG
*
44847732 TTCTTTTATCAAG
1 TT-TTTCATCAAG
*
44847745 TTTTTTTATCAAG
1 -TTTTTCATCAAG
* *
44847758 TTTTGCAGCAAG
1 TTTTTCATCAAG
* *
44847770 TTCTTT-TTAAAG
1 TT-TTTCATCAAG
44847782 TTTTTCATCAAG
1 TTTTTCATCAAG
* *
44847794 TCTTTTCATAAAA
1 T-TTTTCATCAAG
*
44847807 TTTTCCATCAAG
1 TTTTTCATCAAG
44847819 TTTT
1 TTTT
44847823 GAATCATTTC
Statistics
Matches: 70, Mismatches: 16, Indels: 10
0.73 0.17 0.10
Matches are distributed among these distances:
11 3 0.04
12 35 0.50
13 30 0.43
14 2 0.03
ACGTcount: A:0.24, C:0.15, G:0.09, T:0.52
Consensus pattern (12 bp):
TTTTTCATCAAG
Found at i:44847769 original size:25 final size:24
Alignment explanation
Indices: 44847739--44847822 Score: 80
Period size: 25 Copynumber: 3.4 Consensus size: 24
44847729 TAGTTCTTTT
*
44847739 ATCAAGTTTTTTTATCAAGTTTTGC
1 ATCAAGTTTTTTTAT-AAGTTTTCC
* *
44847764 AGCAAGTTCTTTTTA-AAGTTTTTC
1 ATCAAGTT-TTTTTATAAGTTTTCC
* * *
44847788 ATCAAGTCTTTTCATAAAATTTTCC
1 ATCAAGTTTTTTTAT-AAGTTTTCC
44847813 ATCAAGTTTT
1 ATCAAGTTTT
44847823 GAATCATTTC
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
23 5 0.10
24 14 0.29
25 23 0.48
26 6 0.12
ACGTcount: A:0.27, C:0.14, G:0.10, T:0.49
Consensus pattern (24 bp):
ATCAAGTTTTTTTATAAGTTTTCC
Found at i:44862626 original size:12 final size:12
Alignment explanation
Indices: 44862609--44862634 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
44862599 CGTGAGTTGA
44862609 TTATAATTTCCT
1 TTATAATTTCCT
44862621 TTATAATTTCCT
1 TTATAATTTCCT
44862633 TT
1 TT
44862635 CTCTAACTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.15, G:0.00, T:0.62
Consensus pattern (12 bp):
TTATAATTTCCT
Found at i:44865847 original size:20 final size:22
Alignment explanation
Indices: 44865808--44865847 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
44865798 GAAAAATATT
*
44865808 AAATATATATATTTTATTTTTA
1 AAATATATATAGTTTATTTTTA
44865830 AAATATA-ATAGTTT-TTTT
1 AAATATATATAGTTTATTTT
44865848 ATTTTAAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 6 0.35
22 7 0.41
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (22 bp):
AAATATATATAGTTTATTTTTA
Found at i:44866001 original size:16 final size:15
Alignment explanation
Indices: 44865980--44866019 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
44865970 TATAATTTGA
44865980 TAATTTTACTAACAAT
1 TAATTTTA-TAACAAT
44865996 TAATTTTTATAACAAT
1 TAA-TTTTATAACAAT
*
44866012 TAGTTTTA
1 TAATTTTA
44866020 ATTTTATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 5 0.23
16 12 0.55
17 5 0.23
ACGTcount: A:0.40, C:0.07, G:0.03, T:0.50
Consensus pattern (15 bp):
TAATTTTATAACAAT
Found at i:44866022 original size:22 final size:23
Alignment explanation
Indices: 44865995--44866055 Score: 63
Period size: 22 Copynumber: 2.7 Consensus size: 23
44865985 TTACTAACAA
* * *
44865995 TTAATTTTTA-TAACAATTAGTT
1 TTAATTTTTATTAAAAAATAATT
44866017 TTAA-TTTTATTAAAAAATAATT
1 TTAATTTTTATTAAAAAATAATT
* *
44866039 TTAATTTTAATTTAAAA
1 TTAATTTTTATTAAAAA
44866056 CGGGCCGGGC
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
21 5 0.16
22 17 0.53
23 10 0.31
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (23 bp):
TTAATTTTTATTAAAAAATAATT
Found at i:44868345 original size:4 final size:4
Alignment explanation
Indices: 44868331--44868390 Score: 50
Period size: 4 Copynumber: 14.0 Consensus size: 4
44868321 TAACCATATG
* *
44868331 TTTA GTTA TTTA TTTA TTTGA TTTGA TTTGA TTTGA TTT- TTTGT TTTA
1 TTTA TTTA TTTA TTTA TTT-A TTT-A TTT-A TTT-A TTTA TTT-A TTTA
44868379 TTTA TTTA TTTA
1 TTTA TTTA TTTA
44868391 CATAATATTA
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
3 3 0.06
4 25 0.50
5 22 0.44
ACGTcount: A:0.20, C:0.00, G:0.10, T:0.70
Consensus pattern (4 bp):
TTTA
Found at i:44868356 original size:5 final size:5
Alignment explanation
Indices: 44868338--44868369 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
44868328 ATGTTTAGTT
44868338 ATTT- ATTT- ATTTG ATTTG ATTTG ATTTG ATTT
1 ATTTG ATTTG ATTTG ATTTG ATTTG ATTTG ATTT
44868370 TTTGTTTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 8 0.30
5 19 0.70
ACGTcount: A:0.22, C:0.00, G:0.12, T:0.66
Consensus pattern (5 bp):
ATTTG
Found at i:44868366 original size:15 final size:13
Alignment explanation
Indices: 44868338--44868389 Score: 61
Period size: 13 Copynumber: 3.9 Consensus size: 13
44868328 ATGTTTAGTT
44868338 ATTTATTTATTTG
1 ATTTATTTATTTG
44868351 ATTTGATTTGATTTG
1 ATTT-ATTT-ATTTG
* *
44868366 ATTT-TTTGTTTT
1 ATTTATTTATTTG
44868378 ATTTATTTATTT
1 ATTTATTTATTT
44868390 ACATAATATT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
12 7 0.21
13 13 0.39
14 4 0.12
15 9 0.27
ACGTcount: A:0.19, C:0.00, G:0.10, T:0.71
Consensus pattern (13 bp):
ATTTATTTATTTG
Found at i:44870327 original size:10 final size:10
Alignment explanation
Indices: 44870312--44870343 Score: 64
Period size: 10 Copynumber: 3.2 Consensus size: 10
44870302 TTCATAAGTC
44870312 TCTTACCAAA
1 TCTTACCAAA
44870322 TCTTACCAAA
1 TCTTACCAAA
44870332 TCTTACCAAA
1 TCTTACCAAA
44870342 TC
1 TC
44870344 AGAGAACGGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.38, C:0.31, G:0.00, T:0.31
Consensus pattern (10 bp):
TCTTACCAAA
Found at i:44870445 original size:42 final size:42
Alignment explanation
Indices: 44870393--44870549 Score: 116
Period size: 42 Copynumber: 3.7 Consensus size: 42
44870383 GCCCGAAGAC
* * **
44870393 TGAATAGAAGCTCATGAGAGTTAAACAGAAACTTATAAGGGT
1 TGAATAGAAGCTCATAAGAGCTAAACAGAAACCCATAAGGGT
* * *
44870435 TGAATGGAAGCTCGTAAGAGCTAAACGGAAACCCATAAGGGT
1 TGAATAGAAGCTCATAAGAGCTAAACAGAAACCCATAAGGGT
* * * * * * ** * *
44870477 TAAACAGAAGCTCAAAAAAGCTGATCAGAAACTTATATGAGT
1 TGAATAGAAGCTCATAAGAGCTAAACAGAAACCCATAAGGGT
* * * * *
44870519 TAAACAGAAGCTCGTGAGAGCTAAACGGAAA
1 TGAATAGAAGCTCATAAGAGCTAAACAGAAA
44870550 GTAAACACAA
Statistics
Matches: 88, Mismatches: 27, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
42 88 1.00
ACGTcount: A:0.43, C:0.14, G:0.24, T:0.19
Consensus pattern (42 bp):
TGAATAGAAGCTCATAAGAGCTAAACAGAAACCCATAAGGGT
Found at i:44878650 original size:37 final size:37
Alignment explanation
Indices: 44878584--44879570 Score: 1879
Period size: 37 Copynumber: 26.7 Consensus size: 37
44878574 TACGTATGAT
** * *
44878584 CACTTATCAC-TTGTCCCTGGAT-AGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAAC
*
44878619 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAAC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAAC
44878656 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAAC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAAC
44878693 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAAC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAAC
44878730 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAAC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAAC
44878767 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAAC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAAC
44878804 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAAC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAAC
44878841 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAAC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAAC
44878878 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAAC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAAC
44878915 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAAC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAAC
44878952 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAAC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAAC
44878989 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAAC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAAC
44879026 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAAC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAAC
44879063 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAAC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAAC
44879100 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAAC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAAC
44879137 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAAC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAAC
44879174 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAAC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAAC
44879211 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAAC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAAC
44879248 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAAC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAAC
44879285 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAAC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAAC
44879322 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAAC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAAC
44879359 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAAC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAAC
44879396 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAAC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAAC
44879433 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAAC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAAC
44879470 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAAC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAAC
*
44879507 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAAC
* **
44879544 CACTAATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTTTCTTGATCAGA
44879571 AGTACTCAAA
Statistics
Matches: 940, Mismatches: 10, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
35 9 0.01
36 9 0.01
37 922 0.98
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.40
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAAC
Found at i:44885437 original size:25 final size:25
Alignment explanation
Indices: 44885332--44885450 Score: 84
Period size: 25 Copynumber: 4.8 Consensus size: 25
44885322 AGCTGTATAA
* * *
44885332 CGGGAAGCTCTTGCGAGCCAATTAT
1 CGGGAAGCTCATGAGAGCCAAATAT
*
44885357 CGGGAATCTCAT-ACGAGCCATAA-A-
1 CGGGAAGCTCATGA-GAGCCA-AATAT
* * *
44885381 CGGGAAGCTCAAGAGAACC-ATTACT
1 CGGGAAGCTCATGAGAGCCAAATA-T
* *
44885406 CGAGAAGCTTATGAGAGCCAAATAT
1 CGGGAAGCTCATGAGAGCCAAATAT
* *
44885431 CGGGAAGATCGTGAGAGCCA
1 CGGGAAGCTCATGAGAGCCA
44885451 TATAACATGA
Statistics
Matches: 70, Mismatches: 17, Indels: 14
0.69 0.17 0.14
Matches are distributed among these distances:
22 1 0.01
23 1 0.01
24 14 0.20
25 50 0.71
26 4 0.06
ACGTcount: A:0.34, C:0.22, G:0.27, T:0.18
Consensus pattern (25 bp):
CGGGAAGCTCATGAGAGCCAAATAT
Found at i:44895074 original size:11 final size:11
Alignment explanation
Indices: 44895058--44895082 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
44895048 TTCAATTCAA
44895058 ATAATCAATAT
1 ATAATCAATAT
44895069 ATAATCAATAT
1 ATAATCAATAT
44895080 ATA
1 ATA
44895083 TACCAATTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (11 bp):
ATAATCAATAT
Found at i:44895829 original size:21 final size:21
Alignment explanation
Indices: 44895789--44895835 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
44895779 TAATTTCTCC
* ** *
44895789 TTTCTTTCTTTCCCTTTTTCT
1 TTTCTTTCTCTCCCGGTTTCG
44895810 TTTCTTTCTCTCCCGGTTTCG
1 TTTCTTTCTCTCCCGGTTTCG
44895831 TTTCT
1 TTTCT
44895836 ATTTCTTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.00, C:0.30, G:0.06, T:0.64
Consensus pattern (21 bp):
TTTCTTTCTCTCCCGGTTTCG
Found at i:44897128 original size:626 final size:627
Alignment explanation
Indices: 44895926--44897181 Score: 2505
Period size: 626 Copynumber: 2.0 Consensus size: 627
44895916 AATATTATAA
44895926 TATTATAATATATATATTAACTTTTAAGTTTTATAAATATCTATTTTATGCCGTCTCATTTATAA
1 TATTATAATATATATATTAACTTTTAAGTTTTATAAATATCTATTTTATGCCGTCTCATTTATAA
44895991 GCAATGGCATAATTGTTTATTTAGTCCCTTTAATTTTTCTTTAATCTATAATTCAACTTTCACCC
66 GCAATGGCATAATTGTTTATTTAGTCCCTTTAATTTTTCTTTAATCTATAATTCAACTTTCACCC
44896056 TTTATGCAATTTAGTCATTGTACCTAATTTCTCTTCATTCATGCAAATTCACCTAACAAAAACCT
131 TTTATGCAATTTAGTCATTGTACCTAATTTCTCTTCATTCATGCAAATTCACCTAACAAAAACCT
44896121 AATTAACCACACAACTAGCTTCATAAATATTTTTAATGAAGGGGTTTGTAAGAGGAAACTAAGAA
196 AATTAACCACACAACTAGCTTCATAAATATTTTTAATGAAGGGGTTTGTAAGAGGAAACTAAGAA
44896186 ATAAACACAATAACATCTTTTTTTATGGTAAAATATATAAATAATTACTAACATTTTTTAATACT
261 ATAAACACAATAACATCTTTTTTTATGGTAAAATATATAAATAATTACTAACATTTTTTAATACT
44896251 TTTATATATAATTGTATGTATTAAATAAAATATACTTAATTATTTTTATGAATCTATTTAATTTC
326 TTTATATATAATTGTATGTATTAAATAAAATATACTTAATTATTTTTATGAATCTATTTAATTTC
44896316 TATAATATTTCATTCATAATTTGATTACGAAATTAAATAATGTTGGTATGTCAGCATGTAATAAG
391 TATAATATTTCATTCATAATTTGATTACGAAATTAAATAATGTTGGTATGTCAGCATGTAATAAG
44896381 TGAAAAATGTCTTAAAATTGGTTTAGAACTAAGGCCACGTTTGATTTAGTTGATGTAAAAGAGAG
456 TGAAAAATGTCTTAAAATTGGTTTAGAACTAAGGCCACGTTTGATTTAGTTGATGTAAAAGAGAG
44896446 TGTCGTGTTAAATAACACCAAATTTCAAAATGATGGATGAAAGATAGAGATTATTGTTTGGTTGA
521 TGTCGTGTTAAATAACACCAAATTTCAAAATGATGGATGAAAGATAGAGATTATTGTTTGGTTGA
44896511 TGAAAATTGTGATATGTATTACTCCTCTTATCTCATATTTGC
586 TGAAAATTGTGATATGTATTACTCCTCTTATCTCATATTTGC
44896553 TATTATAATA-ATATATTAACTTTTAAGTTTTATAAATATCTATTTTATGCCGTCTCATTTATAA
1 TATTATAATATATATATTAACTTTTAAGTTTTATAAATATCTATTTTATGCCGTCTCATTTATAA
44896617 GCAATGGCATAATTGTTTATTTAGTCCCTTTAATTTTTCTTTAATCTATAATTCAACTTTCACCC
66 GCAATGGCATAATTGTTTATTTAGTCCCTTTAATTTTTCTTTAATCTATAATTCAACTTTCACCC
44896682 TTTATGCAATTTAGTCATTGTACCTAATTTCTCTTCATTCATGCAAATTCACCTAACAAAAACCT
131 TTTATGCAATTTAGTCATTGTACCTAATTTCTCTTCATTCATGCAAATTCACCTAACAAAAACCT
44896747 AATTAACCACACAACTAGCTTCATAAATATTTTTAATGAAGGGGTTTGTAAGAGGAAACTAAGAA
196 AATTAACCACACAACTAGCTTCATAAATATTTTTAATGAAGGGGTTTGTAAGAGGAAACTAAGAA
44896812 ATAAACACAATAACATCTTTTTTTATGGTAAAATATATAAATAATTACTAACATTTTTTAATACT
261 ATAAACACAATAACATCTTTTTTTATGGTAAAATATATAAATAATTACTAACATTTTTTAATACT
44896877 TTTATATATAATTGTATGTATTAAATAAAATATACTTAATTATTTTTATGAATCTATTTAATTTC
326 TTTATATATAATTGTATGTATTAAATAAAATATACTTAATTATTTTTATGAATCTATTTAATTTC
44896942 TATAATATTTCATTCATAATTTGATTACGAAATTAAATAATGTTGGTATGTCAGCATGTAATAAG
391 TATAATATTTCATTCATAATTTGATTACGAAATTAAATAATGTTGGTATGTCAGCATGTAATAAG
44897007 TGAAAAATGTCTTAAAATTGGTTTAGAACTAAGGCCACGTTTGATTTAGTTGATGTAAAAGAGAG
456 TGAAAAATGTCTTAAAATTGGTTTAGAACTAAGGCCACGTTTGATTTAGTTGATGTAAAAGAGAG
44897072 TGTCGTGTTAAATAACACCAAATTTCAAAATGATGGATGAAAGATAGAGATTATTGTTTGGTTGA
521 TGTCGTGTTAAATAACACCAAATTTCAAAATGATGGATGAAAGATAGAGATTATTGTTTGGTTGA
44897137 TGAAAATTGTGATATGTATTACTCCTCTTATCTCATATTTGC
586 TGAAAATTGTGATATGTATTACTCCTCTTATCTCATATTTGC
44897179 TAT
1 TAT
44897182 GGGATAAAAG
Statistics
Matches: 629, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
626 619 0.98
627 10 0.02
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.41
Consensus pattern (627 bp):
TATTATAATATATATATTAACTTTTAAGTTTTATAAATATCTATTTTATGCCGTCTCATTTATAA
GCAATGGCATAATTGTTTATTTAGTCCCTTTAATTTTTCTTTAATCTATAATTCAACTTTCACCC
TTTATGCAATTTAGTCATTGTACCTAATTTCTCTTCATTCATGCAAATTCACCTAACAAAAACCT
AATTAACCACACAACTAGCTTCATAAATATTTTTAATGAAGGGGTTTGTAAGAGGAAACTAAGAA
ATAAACACAATAACATCTTTTTTTATGGTAAAATATATAAATAATTACTAACATTTTTTAATACT
TTTATATATAATTGTATGTATTAAATAAAATATACTTAATTATTTTTATGAATCTATTTAATTTC
TATAATATTTCATTCATAATTTGATTACGAAATTAAATAATGTTGGTATGTCAGCATGTAATAAG
TGAAAAATGTCTTAAAATTGGTTTAGAACTAAGGCCACGTTTGATTTAGTTGATGTAAAAGAGAG
TGTCGTGTTAAATAACACCAAATTTCAAAATGATGGATGAAAGATAGAGATTATTGTTTGGTTGA
TGAAAATTGTGATATGTATTACTCCTCTTATCTCATATTTGC
Found at i:44897407 original size:70 final size:71
Alignment explanation
Indices: 44897321--44897461 Score: 275
Period size: 70 Copynumber: 2.0 Consensus size: 71
44897311 TATGACTTTT
44897321 CCTTTATAATTTTATTTATGAAATTTAACTTTAAACTATAGTCTTTGTAATTACATTTTTTGAAT
1 CCTTTATAATTTTATTTATGAAATTTAACTTTAAACTATAGTCTTTGTAATTACATTTTTTGAAT
44897386 TTTTAA
66 TTTTAA
44897392 CCTTTATAA-TTTATTTATGAAATTTAACTTTAAACTATAGTCTTTGTAATTACATTTTTTGAAT
1 CCTTTATAATTTTATTTATGAAATTTAACTTTAAACTATAGTCTTTGTAATTACATTTTTTGAAT
44897456 TTTTAA
66 TTTTAA
44897462 AAATTTAAAA
Statistics
Matches: 70, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
70 61 0.87
71 9 0.13
ACGTcount: A:0.33, C:0.09, G:0.06, T:0.53
Consensus pattern (71 bp):
CCTTTATAATTTTATTTATGAAATTTAACTTTAAACTATAGTCTTTGTAATTACATTTTTTGAAT
TTTTAA
Found at i:44898355 original size:20 final size:19
Alignment explanation
Indices: 44898318--44898359 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
44898308 GATATCCTCT
*
44898318 TAAATTAAAATGATATATGA
1 TAAATTAAAATGAAATAT-A
44898338 TAAATTAAAAAT-AAATATA
1 TAAATT-AAAATGAAATATA
44898357 TAA
1 TAA
44898360 TCCGATAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 4 0.20
20 11 0.55
21 5 0.25
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (19 bp):
TAAATTAAAATGAAATATA
Found at i:44899646 original size:17 final size:18
Alignment explanation
Indices: 44899614--44899647 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
44899604 ATAAGTATTA
*
44899614 AAAGTAAAATCTAAAAAT
1 AAAGCAAAATCTAAAAAT
44899632 AAAGCAAAA-CTAAAAA
1 AAAGCAAAATCTAAAAA
44899648 AAAAAAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.71, C:0.09, G:0.06, T:0.15
Consensus pattern (18 bp):
AAAGCAAAATCTAAAAAT
Found at i:44904197 original size:34 final size:34
Alignment explanation
Indices: 44904144--44904209 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 34
44904134 TTTAGTTCTT
44904144 TTATATATTTACATATTTTTCATAAATTTATAAG
1 TTATATATTTACATATTTTTCATAAATTTATAAG
* *
44904178 TTATATA-TTATATATTTTTTTATAAATTTATA
1 TTATATATTTACATA-TTTTTCATAAATTTATA
44904210 TATTTTCAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 6 0.21
34 23 0.79
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.58
Consensus pattern (34 bp):
TTATATATTTACATATTTTTCATAAATTTATAAG
Found at i:44905414 original size:48 final size:48
Alignment explanation
Indices: 44905352--44905679 Score: 294
Period size: 48 Copynumber: 7.0 Consensus size: 48
44905342 AAAAGTTGCT
* * * *
44905352 AATATGTTGTGGATGAACCACTAGTCGTGTAGATAAACTGCCGACTAA
1 AATACGTTATGGATGAACCACTGGTCGTGCAGATAAACTGCCGACTAA
* * * * * *
44905400 AGTATGTTATGGATGAACCACTTGTCTTGCATATAAATTGCCGACTAA
1 AATACGTTATGGATGAACCACTGGTCGTGCAGATAAACTGCCGACTAA
* ** * * * * ** *
44905448 AATATGTCCTGGATGAACCACTTGTCATGTAGATAAAAT-TTG--T-T
1 AATACGTTATGGATGAACCACTGGTCGTGCAGATAAACTGCCGACTAA
* * * * *
44905492 AATACATTATGGATAAACCACTTGTCGTGCAGATAAA-AGCTG-CT--
1 AATACGTTATGGATGAACCACTGGTCGTGCAGATAAACTGCCGACTAA
* *
44905536 AATAAGTTATGGATGAACCACTGGTTGTGCAGATAAACTGCCGACTAA
1 AATACGTTATGGATGAACCACTGGTCGTGCAGATAAACTGCCGACTAA
* * * *
44905584 AATACGTTGTGGATGAACCACTGGTCGTGCAGTTAAACTACTGACTAAA
1 AATACGTTATGGATGAACCACTGGTCGTGCAGATAAACTGCCGACT-AA
* *
44905633 AATACGTTGTGGATGAACCACTGGTCGTGCAGACAAACTGCCGACTA
1 AATACGTTATGGATGAACCACTGGTCGTGCAGATAAACTGCCGACTA
44905680 CTCCCTCCCT
Statistics
Matches: 230, Mismatches: 43, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
44 64 0.28
45 5 0.02
46 2 0.01
47 1 0.00
48 114 0.50
49 44 0.19
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (48 bp):
AATACGTTATGGATGAACCACTGGTCGTGCAGATAAACTGCCGACTAA
Found at i:44905828 original size:34 final size:34
Alignment explanation
Indices: 44905747--44906053 Score: 195
Period size: 34 Copynumber: 9.1 Consensus size: 34
44905737 ATCAATATGA
* **
44905747 TAGCAA-TAACATGCTTATACTA-AGTCGGTACAG
1 TAGCAATTAACATGCTTATAATAGA-TCAATACAG
* * **
44905780 TATCAATTATCATGCTTATAATAGATCAATATGG
1 TAGCAATTAACATGCTTATAATAGATCAATACAG
* * **
44905814 TAGCAATAAACATGCTTGTGACA-AG-TTGATACAG
1 TAGCAATTAACATGCTTAT-A-ATAGATCAATACAG
* *
44905848 TAGCAATTAGCATGCTTATAACT-GATCAATACGG
1 TAGCAATTAACATGCTTATAA-TAGATCAATACAG
* * *
44905882 TAGCAATTATCATGCTTATAATAAATCAATGCAG
1 TAGCAATTAACATGCTTATAATAGATCAATACAG
* *
44905916 TAGCAATAAACATGCTTGTGACA-AG-TCAATATC-G
1 TAGCAATTAACATGCTTAT-A-ATAGATCAATA-CAG
* *
44905950 TAGCAATTAACATGC-TATTAACATATCAATACAG
1 TAGCAATTAACATGCTTA-TAATAGATCAATACAG
* * * * * *
44905984 TGGTAATAAACATGCTTGTGACA-AG-TCGATACAA
1 TAGCAATTAACATGCTTAT-A-ATAGATCAATACAG
* *
44906018 TAGCAATTAACATGCTTATAATAGACCATTACAG
1 TAGCAATTAACATGCTTATAATAGATCAATACAG
44906052 TA
1 TA
44906054 TCATTAAACT
Statistics
Matches: 206, Mismatches: 48, Indels: 39
0.70 0.16 0.13
Matches are distributed among these distances:
32 3 0.01
33 15 0.07
34 175 0.85
35 10 0.05
36 3 0.01
ACGTcount: A:0.39, C:0.16, G:0.15, T:0.30
Consensus pattern (34 bp):
TAGCAATTAACATGCTTATAATAGATCAATACAG
Found at i:44905862 original size:68 final size:67
Alignment explanation
Indices: 44905723--44905965 Score: 224
Period size: 68 Copynumber: 3.6 Consensus size: 67
44905713 TGCAACATGA
* * * * * *
44905723 CATGTTTATAACATATCAATATGATAGCAATAACATGCTTATACTAAGTCGGTACAGTATCAATT
1 CATGCTTATAATAGATCAATATGGTAGCAATAACATGCTTATACTAAGTCGATACAGTAGCAATT
*
44905788 AT
66 AG
* *
44905790 CATGCTTATAATAGATCAATATGGTAGCAATAAACATGCTTGTGAC-AAGTTGATACAGTAGCAA
1 CATGCTTATAATAGATCAATATGGTAGCAAT-AACATGCTTAT-ACTAAGTCGATACAGTAGCAA
44905854 TTAG
64 TTAG
* * * * * *
44905858 CATGCTTATAACT-GATCAATACGGTAGCAATTATCATGCTTATAATAAATCAATGCAGTAGCAA
1 CATGCTTATAA-TAGATCAATATGGTAGCAA-TAACATGCTTATACTAAGTCGATACAGTAGCAA
* *
44905922 TAAA
64 TTAG
* *
44905926 CATGCTTGTGACA-AG-TCAATATCGTAGCAATTAACATGCT
1 CATGCTTAT-A-ATAGATCAATATGGTAGCAA-TAACATGCT
44905966 ATTAACATAT
Statistics
Matches: 145, Mismatches: 23, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
67 28 0.19
68 110 0.76
69 6 0.04
70 1 0.01
ACGTcount: A:0.38, C:0.16, G:0.15, T:0.31
Consensus pattern (67 bp):
CATGCTTATAATAGATCAATATGGTAGCAATAACATGCTTATACTAAGTCGATACAGTAGCAATT
AG
Found at i:44905890 original size:102 final size:102
Alignment explanation
Indices: 44905783--44905981 Score: 287
Period size: 102 Copynumber: 2.0 Consensus size: 102
44905773 GGTACAGTAT
* ** **
44905783 CAATTATCATGCTTATAATAGATCAATATGGTAGCAATAAACATGCTTGTGACAAGTTGATA-CA
1 CAATTATCATGCTTATAATAAATCAATACAGTAGCAATAAACATGCTTGTGACAAGTCAATATC-
*
44905847 GTAGCAATTAGCATGCT-TATAAC-TGATCAATACGGTAG
65 GTAGCAATTAACATGCTAT-TAACAT-ATCAATACGGTAG
*
44905885 CAATTATCATGCTTATAATAAATCAATGCAGTAGCAATAAACATGCTTGTGACAAGTCAATATCG
1 CAATTATCATGCTTATAATAAATCAATACAGTAGCAATAAACATGCTTGTGACAAGTCAATATCG
44905950 TAGCAATTAACATGCTATTAACATATCAATAC
66 TAGCAATTAACATGCTATTAACATATCAATAC
44905982 AGTGGTAATA
Statistics
Matches: 87, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
102 84 0.97
103 3 0.03
ACGTcount: A:0.39, C:0.16, G:0.15, T:0.30
Consensus pattern (102 bp):
CAATTATCATGCTTATAATAAATCAATACAGTAGCAATAAACATGCTTGTGACAAGTCAATATCG
TAGCAATTAACATGCTATTAACATATCAATACGGTAG
Found at i:44905978 original size:68 final size:68
Alignment explanation
Indices: 44905813--44906038 Score: 224
Period size: 68 Copynumber: 3.3 Consensus size: 68
44905803 GATCAATATG
* * * * ** * * * * *
44905813 GTAGCAATAAACATGCTTGTGACAAGTTGATACAGTAGCAATTAGCATGCTTATAAC-TGATCAA
1 GTAGCAATTAACATGCTTATAACAAATCAATACAGTAGCAATAAACATGCTTGTGACAAG-TCAA
*
44905877 TACG
65 TACA
* * *
44905881 GTAGCAATTATCATGCTTATAATAAATCAATGCAGTAGCAATAAACATGCTTGTGACAAGTCAAT
1 GTAGCAATTAACATGCTTATAACAAATCAATACAGTAGCAATAAACATGCTTGTGACAAGTCAAT
44905946 ATC-
66 A-CA
* * * *
44905949 GTAGCAATTAACATGC-TATTAACATATCAATACAGTGGTAATAAACATGCTTGTGACAAGTCGA
1 GTAGCAATTAACATGCTTA-TAACAAATCAATACAGTAGCAATAAACATGCTTGTGACAAGTCAA
44906013 TACA
65 TACA
*
44906017 ATAGCAATTAACATGCTTATAA
1 GTAGCAATTAACATGCTTATAA
44906039 TAGACCATTA
Statistics
Matches: 131, Mismatches: 22, Indels: 10
0.80 0.13 0.06
Matches are distributed among these distances:
67 3 0.02
68 124 0.95
69 4 0.03
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.29
Consensus pattern (68 bp):
GTAGCAATTAACATGCTTATAACAAATCAATACAGTAGCAATAAACATGCTTGTGACAAGTCAAT
ACA
Found at i:44905998 original size:102 final size:102
Alignment explanation
Indices: 44905747--44906034 Score: 280
Period size: 102 Copynumber: 2.8 Consensus size: 102
44905737 ATCAATATGA
* ** * * * *
44905747 TAGCAA-TAACATGCTTAT-ACTAAGTCGGTACAGTATCAATTATCATGCTTATAATAGATCAAT
1 TAGCAATTAACATGCTTATAACTGA-TCAATACAGTAGCAATAAACATGCTTATAATAAATCAAT
** **
44905810 ATGGTAGCAATAAACATGCTTGTGACAAGTTGATACAG
65 ACAGTAGCAATAAACATGCTTGTGACAAGTCAATACAG
* * * * *
44905848 TAGCAATTAGCATGCTTATAACTGATCAATACGGTAGCAATTATCATGCTTATAATAAATCAATG
1 TAGCAATTAACATGCTTATAACTGATCAATACAGTAGCAATAAACATGCTTATAATAAATCAATA
44905913 CAGTAGCAATAAACATGCTTGTGACAAGTCAATATC-G
66 CAGTAGCAATAAACATGCTTGTGACAAGTCAATA-CAG
* * * * * * *
44905950 TAGCAATTAACATGC-TATTAACAT-ATCAATACAGTGGTAATAAACATGCTTGTGACAAGTCGA
1 TAGCAATTAACATGCTTA-TAAC-TGATCAATACAGTAGCAATAAACATGCTTATAATAAATCAA
* *
44906013 TACAATAGCAATTAACATGCTT
64 TACAGTAGCAATAAACATGCTT
44906035 ATAATAGACC
Statistics
Matches: 156, Mismatches: 26, Indels: 9
0.82 0.14 0.05
Matches are distributed among these distances:
101 8 0.05
102 142 0.91
103 6 0.04
ACGTcount: A:0.39, C:0.16, G:0.16, T:0.30
Consensus pattern (102 bp):
TAGCAATTAACATGCTTATAACTGATCAATACAGTAGCAATAAACATGCTTATAATAAATCAATA
CAGTAGCAATAAACATGCTTGTGACAAGTCAATACAG
Found at i:44906051 original size:68 final size:68
Alignment explanation
Indices: 44905738--44906068 Score: 217
Period size: 68 Copynumber: 4.9 Consensus size: 68
44905728 TTATAACATA
* * * ** * * * *
44905738 TCAATATGATAGCAA-TAACATGCTTATACTAAGTCGGTACAGTATCAATTATCATGCTTAT-A-
1 TCAATATCATAGCAATTAACATGCTTATAATAAATCAATACAGTAGCAATAAACATGCTTGTGAC
44905800 ATAG
66 A-AG
** * * * * * ** * * * *
44905804 ATCAATATGGTAGCAATAAACATGCTTGTGACAAGTTGATACAGTAGCAATTAGCATGCTTATAA
1 -TCAATATCATAGCAATTAACATGCTTATAATAAATCAATACAGTAGCAATAAACATGCTTGTGA
*
44905869 C-TG
65 CAAG
* * *
44905872 ATCAATA-CGGTAGCAATTATCATGCTTATAATAAATCAATGCAGTAGCAATAAACATGCTTGTG
1 -TCAATATC-ATAGCAATTAACATGCTTATAATAAATCAATACAGTAGCAATAAACATGCTTGTG
44905936 ACAAG
64 ACAAG
* * * * *
44905941 TCAATATCGTAGCAATTAACATGC-TATTAACATATCAATACAGTGGTAATAAACATGCTTGTGA
1 TCAATATCATAGCAATTAACATGCTTA-TAATAAATCAATACAGTAGCAATAAACATGCTTGTGA
44906005 CAAG
65 CAAG
* * * * * * *
44906009 TCGATA-CAATAGCAATTAACATGCTTATAATAGACCATTACAGTATCATTAAACTTGCTT
1 TCAATATC-ATAGCAATTAACATGCTTATAATAAATCAATACAGTAGCAATAAACATGCTT
44906069 TTATCATGTA
Statistics
Matches: 212, Mismatches: 43, Indels: 17
0.78 0.16 0.06
Matches are distributed among these distances:
67 17 0.08
68 190 0.90
69 5 0.02
ACGTcount: A:0.39, C:0.16, G:0.15, T:0.31
Consensus pattern (68 bp):
TCAATATCATAGCAATTAACATGCTTATAATAAATCAATACAGTAGCAATAAACATGCTTGTGAC
AAG
Found at i:44907943 original size:17 final size:17
Alignment explanation
Indices: 44907921--44907967 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
44907911 ATTATTTTTT
44907921 TAAAATTAAAAAATATA
1 TAAAATTAAAAAATATA
**
44907938 TAAAATTTTAAAATATA
1 TAAAATTAAAAAATATA
44907955 T-AAATTAATAAAA
1 TAAAATTAA-AAAA
44907968 AATGGTTTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
16 5 0.20
17 20 0.80
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
TAAAATTAAAAAATATA
Found at i:44907959 original size:25 final size:25
Alignment explanation
Indices: 44907918--44907967 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
44907908 TATATTATTT
44907918 TTTTAAAATTAAAAAA-TATATAAAA
1 TTTTAAAATTAAAAAATTA-ATAAAA
*
44907943 TTTTAAAA-TATATAAATTAATAAAA
1 TTTTAAAATTA-AAAAATTAATAAAA
44907968 AATGGTTTTC
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
24 2 0.09
25 18 0.82
26 2 0.09
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (25 bp):
TTTTAAAATTAAAAAATTAATAAAA
Found at i:44908977 original size:150 final size:151
Alignment explanation
Indices: 44908804--44909107 Score: 583
Period size: 150 Copynumber: 2.0 Consensus size: 151
44908794 TAAAAAATTT
*
44908804 ATAAGTGTATCTTATTTTTTATATATATAGGAGTGTAATAAAATATTCAAAAAAAGAGAGATATG
1 ATAAGTGTATC-TATTTTTTATATATATAGGAGTCTAATAAAATATTCAAAAAAAGAGAGATATG
44908869 ATAATTTTTTTAAGACTAGAATAAAAAAAAGTACACTTCTATTGTATCAAATATTAACCCTTTTA
65 ATAATTTTTTTAAGACTAGAATAAAAAAAAGTACACTTCTATTGTATCAAATATTAACCCTTTTA
44908934 CTATTCTCTATATACACTTGTC
130 CTATTCTCTATATACACTTGTC
44908956 ATAAGTGTATC-ATTTTTTATATATATAGGAGTCTAATAAAATATTCAAAAAAAGAGAGATATGA
1 ATAAGTGTATCTATTTTTTATATATATAGGAGTCTAATAAAATATTCAAAAAAAGAGAGATATGA
44909020 TAATTTTTTTAAGACTAGAATAAAAAAAAGTACACTTCTATTGTATCAAATATTAACCCTTTTAC
66 TAATTTTTTTAAGACTAGAATAAAAAAAAGTACACTTCTATTGTATCAAATATTAACCCTTTTAC
44909085 TATTCTCTATATACACTTGTC
131 TATTCTCTATATACACTTGTC
44909106 AT
1 AT
44909108 CAACTGAATT
Statistics
Matches: 151, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
150 140 0.93
152 11 0.07
ACGTcount: A:0.41, C:0.11, G:0.10, T:0.38
Consensus pattern (151 bp):
ATAAGTGTATCTATTTTTTATATATATAGGAGTCTAATAAAATATTCAAAAAAAGAGAGATATGA
TAATTTTTTTAAGACTAGAATAAAAAAAAGTACACTTCTATTGTATCAAATATTAACCCTTTTAC
TATTCTCTATATACACTTGTC
Found at i:44916185 original size:25 final size:25
Alignment explanation
Indices: 44916157--44916206 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
44916147 TCATATGAGT
* *
44916157 CAAATATCGGGAAGCTCAAGAGAGC
1 CAAATAACAGGAAGCTCAAGAGAGC
*
44916182 CAAATAACAGGAAGCTCATGAGAGC
1 CAAATAACAGGAAGCTCAAGAGAGC
44916207 TATGGTGTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.42, C:0.20, G:0.26, T:0.12
Consensus pattern (25 bp):
CAAATAACAGGAAGCTCAAGAGAGC
Found at i:44923100 original size:15 final size:15
Alignment explanation
Indices: 44923080--44923120 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
44923070 CCGAGTTACT
44923080 ATAAAACA-AGGAAAA
1 ATAAAACAGA-GAAAA
44923095 ATAAAACAGAGAAAA
1 ATAAAACAGAGAAAA
*
44923110 ATAAATCAGAG
1 ATAAAACAGAG
44923121 TAGACATTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 23 0.96
16 1 0.04
ACGTcount: A:0.68, C:0.07, G:0.15, T:0.10
Consensus pattern (15 bp):
ATAAAACAGAGAAAA
Found at i:44923638 original size:25 final size:26
Alignment explanation
Indices: 44923610--44923675 Score: 64
Period size: 25 Copynumber: 2.6 Consensus size: 26
44923600 TTCTAACTGT
*
44923610 ATATCGGGAAGCTCATACA-AGCCAA
1 ATATCGGGAAGCTCATAAAGAGCCAA
** * *
44923635 ATATTAGAAAGCTTA-AAAGAGCCAA
1 ATATCGGGAAGCTCATAAAGAGCCAA
*
44923660 ATAACGGGAAGCTCAT
1 ATATCGGGAAGCTCAT
44923676 GAGAGTTGTG
Statistics
Matches: 29, Mismatches: 10, Indels: 3
0.69 0.24 0.07
Matches are distributed among these distances:
24 2 0.07
25 27 0.93
ACGTcount: A:0.44, C:0.18, G:0.20, T:0.18
Consensus pattern (26 bp):
ATATCGGGAAGCTCATAAAGAGCCAA
Found at i:44932214 original size:20 final size:22
Alignment explanation
Indices: 44932189--44932245 Score: 79
Period size: 20 Copynumber: 2.8 Consensus size: 22
44932179 AATTTTTTGT
44932189 TAAATTT-TAT-TTCAAATATA
1 TAAATTTATATATTCAAATATA
44932209 TAAATTTATATATTC-AA-ATA
1 TAAATTTATATATTCAAATATA
44932229 TAAA-TTATATATTCAAA
1 TAAATTTATATATTCAAA
44932246 CTAAATTTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
19 10 0.29
20 16 0.47
21 5 0.15
22 3 0.09
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (22 bp):
TAAATTTATATATTCAAATATA
Found at i:44934413 original size:13 final size:13
Alignment explanation
Indices: 44934395--44934422 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
44934385 TGTTAAGTTA
44934395 TTTGTGTGAAAAT
1 TTTGTGTGAAAAT
44934408 TTTGTGTGAAAAT
1 TTTGTGTGAAAAT
44934421 TT
1 TT
44934423 GATCGTTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (13 bp):
TTTGTGTGAAAAT
Found at i:44936302 original size:102 final size:102
Alignment explanation
Indices: 44936183--44936387 Score: 410
Period size: 102 Copynumber: 2.0 Consensus size: 102
44936173 ATGTGTACGC
44936183 ATATATTTAACGTACATATACAAGGATACATATGGAAAGATGGAATGGAATATATCAATCAAAAA
1 ATATATTTAACGTACATATACAAGGATACATATGGAAAGATGGAATGGAATATATCAATCAAAAA
44936248 CCAATAAAAATGCATGTATATGTGTTTGAAAATCGTG
66 CCAATAAAAATGCATGTATATGTGTTTGAAAATCGTG
44936285 ATATATTTAACGTACATATACAAGGATACATATGGAAAGATGGAATGGAATATATCAATCAAAAA
1 ATATATTTAACGTACATATACAAGGATACATATGGAAAGATGGAATGGAATATATCAATCAAAAA
44936350 CCAATAAAAATGCATGTATATGTGTTTGAAAATCGTG
66 CCAATAAAAATGCATGTATATGTGTTTGAAAATCGTG
44936387 A
1 A
44936388 AAAAAAAAAT
Statistics
Matches: 103, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
102 103 1.00
ACGTcount: A:0.45, C:0.10, G:0.17, T:0.28
Consensus pattern (102 bp):
ATATATTTAACGTACATATACAAGGATACATATGGAAAGATGGAATGGAATATATCAATCAAAAA
CCAATAAAAATGCATGTATATGTGTTTGAAAATCGTG
Found at i:44936491 original size:6 final size:6
Alignment explanation
Indices: 44936480--44936518 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
44936470 GGTATATGTG
* *
44936480 TATATC TATATC TATATC TATATA TATATA TATAT- TATA
1 TATATC TATATC TATATC TATATC TATATC TATATC TATA
44936519 AAATATGAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
5 4 0.12
6 28 0.88
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (6 bp):
TATATC
Found at i:44936556 original size:25 final size:27
Alignment explanation
Indices: 44936506--44936566 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
44936496 TCTATATATA
44936506 TATATATATTATAAAATATGAAAAATG
1 TATATATATTATAAAATATGAAAAATG
* *
44936533 TATAAATATTATAAAA-AT-ATAAATG
1 TATATATATTATAAAATATGAAAAATG
44936558 TATATATAT
1 TATATATAT
44936567 AAAAACTAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
25 14 0.45
26 2 0.06
27 15 0.48
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (27 bp):
TATATATATTATAAAATATGAAAAATG
Found at i:44936694 original size:21 final size:22
Alignment explanation
Indices: 44936665--44936706 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
44936655 ATATATATGC
*
44936665 ATAAGTATAGTAATAATACTAT
1 ATAAGTATAATAATAATACTAT
44936687 ATAA-TATAATAATAATACTA
1 ATAAGTATAATAATAATACTA
44936707 CTACTACTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.36
Consensus pattern (22 bp):
ATAAGTATAATAATAATACTAT
Found at i:44936708 original size:3 final size:3
Alignment explanation
Indices: 44936702--44936733 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
44936692 ATAATAATAA
44936702 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
44936734 ATAATAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.31, G:0.00, T:0.34
Consensus pattern (3 bp):
TAC
Found at i:44937873 original size:97 final size:98
Alignment explanation
Indices: 44937707--44937895 Score: 371
Period size: 97 Copynumber: 1.9 Consensus size: 98
44937697 CGGCGCTGAT
44937707 TAGCTTTTATATAATATAAAATTACTAATAAAAGAATATTTTTTTGGAAAATGATTTAAGCTTTT
1 TAGCTTTTATATAATATAAAATTACTAATAAAAGAATATTTTTTTGGAAAATGATTTAAGCTTTT
44937772 TAAAAGGGTAAGTC-ATTTACAGGAAATTTAGA
66 TAAAAGGGTAAGTCAATTTACAGGAAATTTAGA
44937804 TAGCTTTTATATAATATAAAATTACTAATAAAAGAATATTTTTTTGGAAAATGATTTAAGCTTTT
1 TAGCTTTTATATAATATAAAATTACTAATAAAAGAATATTTTTTTGGAAAATGATTTAAGCTTTT
44937869 TAAAAGGGTAAGTCAATTTACAGGAAA
66 TAAAAGGGTAAGTCAATTTACAGGAAA
44937896 AGTACTTATT
Statistics
Matches: 91, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
97 79 0.87
98 12 0.13
ACGTcount: A:0.43, C:0.05, G:0.13, T:0.39
Consensus pattern (98 bp):
TAGCTTTTATATAATATAAAATTACTAATAAAAGAATATTTTTTTGGAAAATGATTTAAGCTTTT
TAAAAGGGTAAGTCAATTTACAGGAAATTTAGA
Found at i:44946593 original size:91 final size:92
Alignment explanation
Indices: 44946492--44946675 Score: 361
Period size: 91 Copynumber: 2.0 Consensus size: 92
44946482 CTTGACTAAT
44946492 TTATATATAAACATTTATTTTTATATTACAAATTTTCAAAATTAATTATAAATTAAATAAAAATA
1 TTATATATAAACATTTATTTTTATATTACAAATTTTCAAAATTAATTATAAATTAAATAAAAATA
44946557 AAAAATAATT-TAATTCACAAACCAAG
66 AAAAATAATTGTAATTCACAAACCAAG
44946583 TTATATATAAACATTTATTTTTATATTACAAATTTTCAAAATTAATTATAAATTAAATAAAAATA
1 TTATATATAAACATTTATTTTTATATTACAAATTTTCAAAATTAATTATAAATTAAATAAAAATA
44946648 AAAAATAATTGTAATTCACAAACCAAG
66 AAAAATAATTGTAATTCACAAACCAAG
44946675 T
1 T
44946676 AGAATATATT
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
91 75 0.82
92 17 0.18
ACGTcount: A:0.52, C:0.08, G:0.02, T:0.39
Consensus pattern (92 bp):
TTATATATAAACATTTATTTTTATATTACAAATTTTCAAAATTAATTATAAATTAAATAAAAATA
AAAAATAATTGTAATTCACAAACCAAG
Found at i:44949537 original size:11 final size:11
Alignment explanation
Indices: 44949517--44949559 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
44949507 NNNNNNNNTA
* *
44949517 TTATATTTTTT
1 TTATAATTTTG
44949528 TTATAATTTTG
1 TTATAATTTTG
*
44949539 TTATAATGTTG
1 TTATAATTTTG
*
44949550 TTATAGTTTT
1 TTATAATTTT
44949560 AATAAGTTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.23, C:0.00, G:0.09, T:0.67
Consensus pattern (11 bp):
TTATAATTTTG
Found at i:44955601 original size:15 final size:15
Alignment explanation
Indices: 44955583--44955618 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
44955573 TTATTATATT
44955583 ATAAAAAATAAATAA
1 ATAAAAAATAAATAA
*
44955598 ATAAAGAATAAATAA
1 ATAAAAAATAAATAA
44955613 ATAAAA
1 ATAAAA
44955619 TGAAAGAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (15 bp):
ATAAAAAATAAATAA
Found at i:44955661 original size:14 final size:14
Alignment explanation
Indices: 44955621--44955675 Score: 60
Period size: 14 Copynumber: 3.9 Consensus size: 14
44955611 AAATAAAATG
*
44955621 AAAG-AAAGATAGA
1 AAAGAAAAGAAAGA
*
44955634 AATGAAACAGAAAGA
1 AAAGAAA-AGAAAGA
44955649 AAA-AGAAAGAAAGA
1 AAAGA-AAAGAAAGA
44955663 AAAGAAAAGAAAG
1 AAAGAAAAGAAAG
44955676 GAAGGAGAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
13 3 0.09
14 21 0.60
15 11 0.31
ACGTcount: A:0.73, C:0.02, G:0.22, T:0.04
Consensus pattern (14 bp):
AAAGAAAAGAAAGA
Found at i:44955686 original size:29 final size:29
Alignment explanation
Indices: 44955621--44955675 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
44955611 AAATAAAATG
* *
44955621 AAAGAAAGATAGAAATGAAACAGAAAGAA
1 AAAGAAAGAAAGAAAAGAAACAGAAAGAA
44955650 AAAGAAAGAAAGAAAAGAAA-AGAAAG
1 AAAGAAAGAAAGAAAAGAAACAGAAAG
44955676 GAAGGAGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 6 0.25
29 18 0.75
ACGTcount: A:0.73, C:0.02, G:0.22, T:0.04
Consensus pattern (29 bp):
AAAGAAAGAAAGAAAAGAAACAGAAAGAA
Found at i:44956386 original size:24 final size:24
Alignment explanation
Indices: 44956359--44956405 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
44956349 ATTGAAATGG
44956359 ATTG-ATTTAATATGTGA-TGAATTT
1 ATTGAATTT-ATAT-TGATTGAATTT
44956383 ATTGAATTTATATTGATTGAATT
1 ATTGAATTTATATTGATTGAATT
44956406 GGTATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 3 0.14
24 14 0.67
25 4 0.19
ACGTcount: A:0.34, C:0.00, G:0.15, T:0.51
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:44961421 original size:30 final size:30
Alignment explanation
Indices: 44961385--44961445 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
44961375 GATCATGGAC
44961385 TTCAATAGTTTTTCCATAACATTTTGCCTT
1 TTCAATAGTTTTTCCATAACATTTTGCCTT
44961415 TTCAATAGTTTTTCCATAACATTTTGCCTT
1 TTCAATAGTTTTTCCATAACATTTTGCCTT
44961445 T
1 T
44961446 CCCTCTTCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.23, C:0.20, G:0.07, T:0.51
Consensus pattern (30 bp):
TTCAATAGTTTTTCCATAACATTTTGCCTT
Found at i:44962702 original size:9 final size:9
Alignment explanation
Indices: 44962688--44962772 Score: 116
Period size: 9 Copynumber: 9.4 Consensus size: 9
44962678 TTTGGTTAAA
44962688 AATTAACCG
1 AATTAACCG
44962697 AATTAACCG
1 AATTAACCG
*
44962706 AATTACCCG
1 AATTAACCG
*
44962715 AATTATCCG
1 AATTAACCG
*
44962724 AATTATCCG
1 AATTAACCG
44962733 AATTAACCG
1 AATTAACCG
*
44962742 AATTACCCG
1 AATTAACCG
*
44962751 AATTAACCA
1 AATTAACCG
*
44962760 AATTAACCA
1 AATTAACCG
44962769 AATT
1 AATT
44962773 GAATCACTAC
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 70 1.00
ACGTcount: A:0.42, C:0.24, G:0.08, T:0.26
Consensus pattern (9 bp):
AATTAACCG
Found at i:44965075 original size:72 final size:72
Alignment explanation
Indices: 44964996--44965130 Score: 216
Period size: 72 Copynumber: 1.9 Consensus size: 72
44964986 ACGTTGAATA
*
44964996 CTTCCAGAAATGTAAGATTTGTGAATTCTGGACATAGTTCACCAAAGAGCTTGTTATGGGAGACA
1 CTTCCAGAAATGTAAGATTTGTGAATTCTGGACACAGTTCACCAAAGAGCTTGTTATGGGAGACA
44965061 TCCAACG
66 TCCAACG
** * * *
44965068 CTTCCAGACCTGTAAGTTTTGTTAATTCTGGAGACAGTTCACCAAAGAGCTTGTTATGGGAGA
1 CTTCCAGAAATGTAAGATTTGTGAATTCTGGACACAGTTCACCAAAGAGCTTGTTATGGGAGA
44965131 GATTCAACAC
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
72 57 1.00
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.30
Consensus pattern (72 bp):
CTTCCAGAAATGTAAGATTTGTGAATTCTGGACACAGTTCACCAAAGAGCTTGTTATGGGAGACA
TCCAACG
Found at i:44965247 original size:15 final size:15
Alignment explanation
Indices: 44965227--44965256 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
44965217 AAGTACAAGA
44965227 GACCATGGGAGAAGT
1 GACCATGGGAGAAGT
44965242 GACCATGGGAGAAGT
1 GACCATGGGAGAAGT
44965257 CACTCCAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.13, G:0.40, T:0.13
Consensus pattern (15 bp):
GACCATGGGAGAAGT
Found at i:44973237 original size:18 final size:18
Alignment explanation
Indices: 44973216--44973251 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
44973206 TTTACTCTAC
44973216 ATTTTTCTTTTATAATTT
1 ATTTTTCTTTTATAATTT
*
44973234 ATTTTTCTTTTATTATTT
1 ATTTTTCTTTTATAATTT
44973252 GTTACCCCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (18 bp):
ATTTTTCTTTTATAATTT
Found at i:44981074 original size:3 final size:3
Alignment explanation
Indices: 44981061--44981090 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
44981051 TATACCTACA
*
44981061 TAT TCT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
44981091 ATTGGATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:44984479 original size:21 final size:21
Alignment explanation
Indices: 44984455--44984517 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
44984445 TTAATAAATT
44984455 CTCTATTTCTTTTACTTTCAA
1 CTCTATTTCTTTTACTTTCAA
* ***
44984476 CTCTA-TTATGCCA-TTTCAA
1 CTCTATTTCTTTTACTTTCAA
44984495 CTCT-TTTCCTTTTACTTTCAA
1 CTCTATTT-CTTTTACTTTCAA
44984516 CT
1 CT
44984518 TTTTGATTAA
Statistics
Matches: 31, Mismatches: 8, Indels: 6
0.69 0.18 0.13
Matches are distributed among these distances:
19 12 0.39
20 6 0.19
21 13 0.42
ACGTcount: A:0.19, C:0.27, G:0.02, T:0.52
Consensus pattern (21 bp):
CTCTATTTCTTTTACTTTCAA
Found at i:44991679 original size:19 final size:19
Alignment explanation
Indices: 44991655--44991692 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
44991645 TTTTTTTTTC
44991655 AATACATTACATTTAAACA
1 AATACATTACATTTAAACA
44991674 AATACATTACATTTAAACA
1 AATACATTACATTTAAACA
44991693 GAAGAGGGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.16, G:0.00, T:0.32
Consensus pattern (19 bp):
AATACATTACATTTAAACA
Found at i:44993273 original size:21 final size:21
Alignment explanation
Indices: 44993235--44993274 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
44993225 TTTTAAATTT
*
44993235 TAAAAATTATTTAAAAAATCA
1 TAAAAATTATTAAAAAAATCA
44993256 TAAAAATTA-TAAACAAAAT
1 TAAAAATTATTAAA-AAAAT
44993275 TTACAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (21 bp):
TAAAAATTATTAAAAAAATCA
Found at i:45011846 original size:27 final size:27
Alignment explanation
Indices: 45011816--45011891 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 27
45011806 GACTAACTCG
*
45011816 TGTTTATTGTCCCGACGGACTACCCTA
1 TGTTCATTGTCCCGACGGACTACCCTA
* ** * *
45011843 TGTTCATTATCTTGTCGGACTACCCTG
1 TGTTCATTGTCCCGACGGACTACCCTA
* *
45011870 TGTTCATTGTCCCAACAGACTA
1 TGTTCATTGTCCCGACGGACTA
45011892 TTCATTGTTT
Statistics
Matches: 37, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.20, C:0.28, G:0.17, T:0.36
Consensus pattern (27 bp):
TGTTCATTGTCCCGACGGACTACCCTA
Found at i:45019196 original size:285 final size:286
Alignment explanation
Indices: 45018678--45019215 Score: 918
Period size: 285 Copynumber: 1.9 Consensus size: 286
45018668 TTTAACAGCG
*
45018678 AACTTGACGCAAGTTTTACATTAAAATTAGAAAAACAAAAAAACTGTTAAAACGTATTGCATCGT
1 AACTTGACGCAAGTTTTACATTAAAATAAGAAAAACAAAAAAACTGTTAAAACGTATTGCATCGT
* * *
45018743 CATTTTTATGTAGTATTTGTGTTTTCAAATGAATGTGTTTAGATATGTATTTTTCGATTTCGTGT
66 CATTTTTATGTAGTATTTATGTTTCCAAATGAATGTGTTTAGATATGTATTTTTCGATTCCGTGT
*
45018808 TTGAACGACACATTTCTCAAAGCTAAATTGAACATTTTGCAACATTGAATTTATTATAAATAACT
131 TTGAACGACACATTTCTCAAAGCTAAATTGAACATTTTGCAACATCGAATTTATTATAAATAACT
45018873 TGTCAAAATATATTACTCATATTATTTTATACAATTTTGGATATTATAAATAAAATGGACCCAAG
196 TGTCAAAATATATTACTCATATTATTTTATACAATTTTGGATATTATAAATAAAATGGACCCAAG
45018938 TATCCAAAATCAGAGTTTTCACATCA
261 TATCCAAAATCAGAGTTTTCACATCA
* * * *
45018964 AACTTGACGCAAGTTTTATATTAAAATAAGGAAAAC-AAAACACTGTTAAAACGTGTTGCATCGT
1 AACTTGACGCAAGTTTTACATTAAAATAAGAAAAACAAAAAAACTGTTAAAACGTATTGCATCGT
* *
45019028 CATTTTTATGTAGTATTTATGTTTCCAAA-GAAATGTGTTTAGATATGTATTTTTTGGTTCCGTG
66 CATTTTTATGTAGTATTTATGTTTCCAAATG-AATGTGTTTAGATATGTATTTTTCGATTCCGTG
*
45019092 TTTGAACGACACATTTCTCAAAGCTAAATTGAACATTTTGCAACATCGAATTTATTGTAAATAAC
130 TTTGAACGACACATTTCTCAAAGCTAAATTGAACATTTTGCAACATCGAATTTATTATAAATAAC
** *
45019157 TTGTCAAAATATATTACTCATATTATTTTATGTAATTTTGGATATTATTAATAAAATGG
195 TTGTCAAAATATATTACTCATATTATTTTATACAATTTTGGATATTATAAATAAAATGG
45019216 TTGATGGAAA
Statistics
Matches: 236, Mismatches: 15, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
284 1 0.00
285 202 0.86
286 33 0.14
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.39
Consensus pattern (286 bp):
AACTTGACGCAAGTTTTACATTAAAATAAGAAAAACAAAAAAACTGTTAAAACGTATTGCATCGT
CATTTTTATGTAGTATTTATGTTTCCAAATGAATGTGTTTAGATATGTATTTTTCGATTCCGTGT
TTGAACGACACATTTCTCAAAGCTAAATTGAACATTTTGCAACATCGAATTTATTATAAATAACT
TGTCAAAATATATTACTCATATTATTTTATACAATTTTGGATATTATAAATAAAATGGACCCAAG
TATCCAAAATCAGAGTTTTCACATCA
Found at i:45023164 original size:21 final size:21
Alignment explanation
Indices: 45023140--45023183 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
45023130 ATGTCCCCTC
* *
45023140 CACACAAGCGTGTGTGTCCTT
1 CACACAAGCATGTGTGGCCTT
**
45023161 CACACGGGCATGTGTGGCCTT
1 CACACAAGCATGTGTGGCCTT
45023182 CA
1 CA
45023184 TATGAGCGTG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.18, C:0.30, G:0.27, T:0.25
Consensus pattern (21 bp):
CACACAAGCATGTGTGGCCTT
Found at i:45036730 original size:37 final size:37
Alignment explanation
Indices: 45036689--45036806 Score: 89
Period size: 37 Copynumber: 3.1 Consensus size: 37
45036679 ATATATTTCA
45036689 ATTTCACCGAATAATTATTACATTTTTATTCTATTTT
1 ATTTCACCGAATAATTATTACATTTTTATTCTATTTT
* * * *
45036726 ATTTCAACGAACTGAA-CA-TAC-TCTATTATTTTATATTCT
1 ATTTCACCGAA-T-AATTATTACAT-TTTTATTCTAT-TT-T
** * *
45036765 ATTTCTACTTAATAATTATTACATTTTTACTCTATTCT
1 ATTTC-ACCGAATAATTATTACATTTTTATTCTATTTT
45036803 ATTT
1 ATTT
45036807 TGTAAATACG
Statistics
Matches: 60, Mismatches: 12, Indels: 17
0.67 0.13 0.19
Matches are distributed among these distances:
36 1 0.02
37 22 0.37
38 11 0.18
39 11 0.18
40 14 0.23
41 1 0.02
ACGTcount: A:0.31, C:0.15, G:0.03, T:0.52
Consensus pattern (37 bp):
ATTTCACCGAATAATTATTACATTTTTATTCTATTTT
Found at i:45043914 original size:21 final size:20
Alignment explanation
Indices: 45043890--45043938 Score: 53
Period size: 22 Copynumber: 2.3 Consensus size: 20
45043880 TTTTCTACTG
45043890 TATTAAATTGACATTTAAAAA
1 TATTAAATTGA-ATTTAAAAA
* *
45043911 TATTTATAATTTAATTTAAAAT
1 TA-TTA-AATTGAATTTAAAAA
45043933 TATTAA
1 TATTAA
45043939 TTATAATTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
20 1 0.04
21 5 0.21
22 13 0.54
23 5 0.21
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (20 bp):
TATTAAATTGAATTTAAAAA
Found at i:45043928 original size:22 final size:22
Alignment explanation
Indices: 45043902--45043960 Score: 66
Period size: 25 Copynumber: 2.5 Consensus size: 22
45043892 TTAAATTGAC
*
45043902 ATTTAAAAATATTTATAATT-T
1 ATTTAAAAATAATTATAATTCT
45043923 AATTTAAAATTATTAATTATAATTCT
1 -ATTTAAAA--A-TAATTATAATTCT
45043949 ATTTAAAAATAA
1 ATTTAAAAATAA
45043961 ATTGTGATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
22 11 0.34
23 1 0.03
24 1 0.03
25 18 0.56
26 1 0.03
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (22 bp):
ATTTAAAAATAATTATAATTCT
Found at i:45044484 original size:18 final size:18
Alignment explanation
Indices: 45044461--45044496 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
45044451 TTACCACCAC
45044461 TATCAT-CATCATTTTCTT
1 TATCATGCAT-ATTTTCTT
45044479 TATCATGCATATTTTCTT
1 TATCATGCATATTTTCTT
45044497 GGTCAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.82
19 3 0.18
ACGTcount: A:0.22, C:0.19, G:0.03, T:0.56
Consensus pattern (18 bp):
TATCATGCATATTTTCTT
Found at i:45045077 original size:26 final size:26
Alignment explanation
Indices: 45045048--45045097 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
45045038 CTTTTTAAAC
*
45045048 AAAAGTGATTTTA-AAAAGTGTGATGG
1 AAAAGTGA-TGTAGAAAAGTGTGATGG
45045074 AAAAGTGATGTAGAAAAGTGTGAT
1 AAAAGTGATGTAGAAAAGTGTGAT
45045098 TTATTAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 3 0.14
26 19 0.86
ACGTcount: A:0.44, C:0.00, G:0.28, T:0.28
Consensus pattern (26 bp):
AAAAGTGATGTAGAAAAGTGTGATGG
Found at i:45045275 original size:61 final size:61
Alignment explanation
Indices: 45045203--45045514 Score: 581
Period size: 61 Copynumber: 5.1 Consensus size: 61
45045193 TTTAAATGAT
* *
45045203 ATTTAAAAATAATAATCTAGTGATAAGATAAG-TAAGAAAATAATTCCTTTTTAAATAATTA
1 ATTTAAAAATAATAATCTAGTGGT-ATATAAGATAAGAAAATAATTCCTTTTTAAATAATTA
45045264 ATTTAAAAATAATAATCTAGTGGTATATAAGATAAGAAAATAATTCCTTTTTAAATAATTA
1 ATTTAAAAATAATAATCTAGTGGTATATAAGATAAGAAAATAATTCCTTTTTAAATAATTA
45045325 ATTTAAAAATAATAATCTAGTGGTATATAAGATAAGAAAATAATTCCTTTTTAAATAATTA
1 ATTTAAAAATAATAATCTAGTGGTATATAAGATAAGAAAATAATTCCTTTTTAAATAATTA
45045386 ATTTAAAAATAATAATCTAGTGGTATATAAGATAAGAAAATAATTCCTTTTTAAATAATTA
1 ATTTAAAAATAATAATCTAGTGGTATATAAGATAAGAAAATAATTCCTTTTTAAATAATTA
45045447 ATTTAAAAATAATAATCTAGTGGTATATAAGATAAGAAAATAATTCCTTTTTAAATAATTA
1 ATTTAAAAATAATAATCTAGTGGTATATAAGATAAGAAAATAATTCCTTTTTAAATAATTA
*
45045508 ATATAAA
1 ATTTAAA
45045515 TTACTTTTTA
Statistics
Matches: 247, Mismatches: 3, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
60 6 0.02
61 241 0.98
ACGTcount: A:0.50, C:0.05, G:0.08, T:0.37
Consensus pattern (61 bp):
ATTTAAAAATAATAATCTAGTGGTATATAAGATAAGAAAATAATTCCTTTTTAAATAATTA
Found at i:45046575 original size:16 final size:16
Alignment explanation
Indices: 45046554--45046589 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
45046544 TTTGGTTCGC
45046554 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
45046570 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
45046586 TGTA
1 TGTA
45046590 ATAGCAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:45053319 original size:17 final size:17
Alignment explanation
Indices: 45053293--45053335 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
45053283 TAAGCCATCC
*
45053293 ATACAAAGCTAACAATG
1 ATACATAGCTAACAATG
45053310 ATACATAGCTAACAATG
1 ATACATAGCTAACAATG
45053327 ATACATAGC
1 ATACATAGC
45053336 AAATCATCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.49, C:0.19, G:0.12, T:0.21
Consensus pattern (17 bp):
ATACATAGCTAACAATG
Found at i:45053837 original size:20 final size:20
Alignment explanation
Indices: 45053799--45053837 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
45053789 GCAAATTTCA
* *
45053799 GAGTTTTAATTTTGAAAATC
1 GAGTTCTAATTTGGAAAATC
*
45053819 GAGTTCTAATTTGGTAAAT
1 GAGTTCTAATTTGGAAAAT
45053838 TGTATAATCT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.33, C:0.05, G:0.18, T:0.44
Consensus pattern (20 bp):
GAGTTCTAATTTGGAAAATC
Found at i:45073190 original size:41 final size:41
Alignment explanation
Indices: 45073145--45073266 Score: 105
Period size: 41 Copynumber: 3.1 Consensus size: 41
45073135 CCACACATCT
45073145 ATGTGCCAGGTCGTGTATGGCATTAAGAGGGATATACGTGC
1 ATGTGCCAGGTCGTGTATGGCATTAAGAGGGATATACGTGC
** * * * ** * *
45073186 ATGTGTTAGG-CCTGTGTGG--TT-TGA--GCCACACAT-C
1 ATGTGCCAGGTCGTGTATGGCATTAAGAGGGATATACGTGC
45073220 TATGTGCCAGGTCGTGTATGGCATTAAGAGGGATATACGTGC
1 -ATGTGCCAGGTCGTGTATGGCATTAAGAGGGATATACGTGC
45073262 ATGTG
1 ATGTG
45073267 TTAGGCCGTG
Statistics
Matches: 55, Mismatches: 18, Indels: 16
0.62 0.20 0.18
Matches are distributed among these distances:
34 1 0.02
35 13 0.24
36 7 0.13
37 2 0.04
38 4 0.07
39 2 0.04
40 7 0.13
41 18 0.33
42 1 0.02
ACGTcount: A:0.22, C:0.16, G:0.33, T:0.30
Consensus pattern (41 bp):
ATGTGCCAGGTCGTGTATGGCATTAAGAGGGATATACGTGC
Found at i:45073255 original size:76 final size:75
Alignment explanation
Indices: 45073129--45073279 Score: 293
Period size: 76 Copynumber: 2.0 Consensus size: 75
45073119 AACTCATTAC
45073129 TTTGAGCCACACATCTATGTGCCAGGTCGTGTATGGCATTAAGAGGGATATACGTGCATGTGTTA
1 TTTGAGCCACACATCTATGTGCCAGGTCGTGTATGGCATTAAGAGGGATATACGTGCATGTGTTA
45073194 GGCCTGTGTGG
66 GGCC-GTGTGG
45073205 TTTGAGCCACACATCTATGTGCCAGGTCGTGTATGGCATTAAGAGGGATATACGTGCATGTGTTA
1 TTTGAGCCACACATCTATGTGCCAGGTCGTGTATGGCATTAAGAGGGATATACGTGCATGTGTTA
45073270 GGCCGTGTGG
66 GGCCGTGTGG
45073280 GCCACACAGG
Statistics
Matches: 75, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
75 6 0.08
76 69 0.92
ACGTcount: A:0.21, C:0.17, G:0.32, T:0.30
Consensus pattern (75 bp):
TTTGAGCCACACATCTATGTGCCAGGTCGTGTATGGCATTAAGAGGGATATACGTGCATGTGTTA
GGCCGTGTGG
Found at i:45081427 original size:42 final size:42
Alignment explanation
Indices: 45081381--45081483 Score: 161
Period size: 42 Copynumber: 2.5 Consensus size: 42
45081371 ACAATCATGT
*
45081381 TGGCACATAAGTGCATCATCGAATGTATCGAAGCAAATATAC
1 TGGCACATAAGTGCATCATCGAATATATCGAAGCAAATATAC
* * * *
45081423 TGGCACGTAAGTACATCATCGGATATATCGAAGCAATTATAC
1 TGGCACATAAGTGCATCATCGAATATATCGAAGCAAATATAC
45081465 TGGCACATAAGTGCATCAT
1 TGGCACATAAGTGCATCAT
45081484 TGGCTAAATT
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 54 1.00
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.25
Consensus pattern (42 bp):
TGGCACATAAGTGCATCATCGAATATATCGAAGCAAATATAC
Found at i:45085502 original size:22 final size:22
Alignment explanation
Indices: 45085477--45085519 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
45085467 ATTACTATAC
* *
45085477 TTATGGCTTGTAGCTATTCTGG
1 TTATAGCTTATAGCTATTCTGG
45085499 TTATAGCTTATAGCTATTCTG
1 TTATAGCTTATAGCTATTCTG
45085520 TTTACGACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.19, C:0.14, G:0.21, T:0.47
Consensus pattern (22 bp):
TTATAGCTTATAGCTATTCTGG
Found at i:45085593 original size:26 final size:26
Alignment explanation
Indices: 45085542--45085593 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
45085532 AGCCATTCTG
** * *
45085542 ACTACTGGCAGCTCTGCTGTATTATT
1 ACTACTGGCAGCAATGCTGCAATATT
45085568 ACTACTGGCAGCAATGCTGCAATATT
1 ACTACTGGCAGCAATGCTGCAATATT
45085594 GGTGTGAGGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.25, C:0.23, G:0.19, T:0.33
Consensus pattern (26 bp):
ACTACTGGCAGCAATGCTGCAATATT
Found at i:45086232 original size:11 final size:11
Alignment explanation
Indices: 45086216--45086241 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
45086206 AATAACACGA
45086216 AAGTATTGGAG
1 AAGTATTGGAG
45086227 AAGTATTGGAG
1 AAGTATTGGAG
45086238 AAGT
1 AAGT
45086242 CCTGGGTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.38, C:0.00, G:0.35, T:0.27
Consensus pattern (11 bp):
AAGTATTGGAG
Found at i:45088420 original size:32 final size:32
Alignment explanation
Indices: 45088379--45088581 Score: 219
Period size: 32 Copynumber: 6.4 Consensus size: 32
45088369 GCTACGATGC
*
45088379 TACTGATGGCTTTGTGCCGATCATGTTACCGT
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
* * *
45088411 TACTGATGGCTATGTGCCGTTCATGTTACCGT
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
* * * *
45088443 TACTGATGACTTTGTGTCAAACATATTACCGT
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
* *
45088475 TACTGATGGCTTTGTGCCGGTGATATTACCGT
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
* * * * * *
45088507 TACTAATGGCTGTGTACCGATCATATCACTGC
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
* * *
45088539 TACTGATGGCTTTGTGTCAATCATATTACTG-
1 TACTGATGGCTTTGTGCCGATCATATTACCGT
*
45088570 TACTTATGGCTT
1 TACTGATGGCTT
45088582 GTAGCCATTC
Statistics
Matches: 141, Mismatches: 30, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
31 11 0.08
32 130 0.92
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.38
Consensus pattern (32 bp):
TACTGATGGCTTTGTGCCGATCATATTACCGT
Found at i:45088543 original size:96 final size:95
Alignment explanation
Indices: 45088379--45088581 Score: 262
Period size: 96 Copynumber: 2.1 Consensus size: 95
45088369 GCTACGATGC
* * * * * * *
45088379 TACTGATGGCTTTGTGCCGATCATGTTACCGTTACTGATGGCTATGTGCCGTTCATGTTACCGTT
1 TACTGATGGCTTTGTGCCGATCATATTACCGTTACTAATGGCTATGTACCGATCATATCACCGCT
45088444 ACTGATGACTTTGTGTCAAACATATTACCG
66 ACTGATGACTTTGTGTCAAACATATTACCG
* * * *
45088474 TTACTGATGGCTTTGTGCCGGTGATATTACCGTTACTAATGGCTGTGTACCGATCATATCACTGC
1 -TACTGATGGCTTTGTGCCGATCATATTACCGTTACTAATGGCTATGTACCGATCATATCACCGC
* * *
45088539 TACTGATGGCTTTGTGTCAATCATATTACTG
65 TACTGATGACTTTGTGTCAAACATATTACCG
*
45088570 TACTTATGGCTT
1 TACTGATGGCTT
45088582 GTAGCCATTC
Statistics
Matches: 92, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
95 11 0.12
96 81 0.88
ACGTcount: A:0.20, C:0.20, G:0.22, T:0.38
Consensus pattern (95 bp):
TACTGATGGCTTTGTGCCGATCATATTACCGTTACTAATGGCTATGTACCGATCATATCACCGCT
ACTGATGACTTTGTGTCAAACATATTACCG
Found at i:45088598 original size:22 final size:22
Alignment explanation
Indices: 45088573--45088637 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 22
45088563 ATTACTGTAC
*
45088573 TTATGGCTTGTAGCCATTCTGT
1 TTATGGCTTATAGCCATTCTGT
* * *
45088595 TTATAGCTTATAGCTATCCTGT
1 TTATGGCTTATAGCCATTCTGT
* * *
45088617 TTACGGGTTTTAGCCATTCTG
1 TTATGGCTTATAGCCATTCTG
45088638 ACTACTGGCA
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.17, C:0.18, G:0.20, T:0.45
Consensus pattern (22 bp):
TTATGGCTTATAGCCATTCTGT
Found at i:45088810 original size:28 final size:28
Alignment explanation
Indices: 45088777--45088830 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
45088767 CATACTGATA
*
45088777 CTGTATCGGGCTTAGGCCCACACTGTTT
1 CTGTATCGGGCTAAGGCCCACACTGTTT
*
45088805 CTGTATTGGGCTAAGGCCCACACTGT
1 CTGTATCGGGCTAAGGCCCACACTGT
45088831 ACTGTTACTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.17, C:0.28, G:0.26, T:0.30
Consensus pattern (28 bp):
CTGTATCGGGCTAAGGCCCACACTGTTT
Found at i:45090577 original size:18 final size:17
Alignment explanation
Indices: 45090544--45090582 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
45090534 TTTTATAAAT
45090544 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
45090562 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
45090579 TGTG
1 TGTG
45090583 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:45090834 original size:23 final size:23
Alignment explanation
Indices: 45090808--45090860 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
45090798 AGTGTTATTG
*
45090808 ATCAGTGGTAGCTTCGGCTACGT
1 ATCAGTGGTAGCTTCGGCTACAT
45090831 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
45090854 ATCAGTG
1 ATCAGTG
45090861 NNNNNNNNNN
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:45094150 original size:21 final size:21
Alignment explanation
Indices: 45094124--45094176 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
45094114 CGACACATAA
45094124 GTGCCTGAAATGACACACGAG
1 GTGCCTGAAATGACACACGAG
* *
45094145 GTGCCTGATACGACACACGAG
1 GTGCCTGAAATGACACACGAG
*
45094166 GTGCTTGAAAT
1 GTGCCTGAAAT
45094177 ATGACACATA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.30, C:0.23, G:0.28, T:0.19
Consensus pattern (21 bp):
GTGCCTGAAATGACACACGAG
Found at i:45094182 original size:23 final size:21
Alignment explanation
Indices: 45094124--45094184 Score: 77
Period size: 21 Copynumber: 2.8 Consensus size: 21
45094114 CGACACATAA
*
45094124 GTGCCTGAAATGACACACGAG
1 GTGCCTGATATGACACACGAG
*
45094145 GTGCCTGATACGACACACGAG
1 GTGCCTGATATGACACACGAG
*
45094166 GTGCTTGAAATATGACACA
1 GTGCCTG--ATATGACACA
45094185 TAAAGTGCCT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
21 25 0.74
23 9 0.26
ACGTcount: A:0.33, C:0.23, G:0.26, T:0.18
Consensus pattern (21 bp):
GTGCCTGATATGACACACGAG
Found at i:45096607 original size:33 final size:33
Alignment explanation
Indices: 45096567--45096631 Score: 121
Period size: 33 Copynumber: 2.0 Consensus size: 33
45096557 ATATAGTACA
45096567 TACATATATTAATTAAAAATGTATACATATATG
1 TACATATATTAATTAAAAATGTATACATATATG
*
45096600 TACATATATTAATTACAAATGTATACATATAT
1 TACATATATTAATTAAAAATGTATACATATAT
45096632 TTATTACACA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.48, C:0.08, G:0.05, T:0.40
Consensus pattern (33 bp):
TACATATATTAATTAAAAATGTATACATATATG
Found at i:45096616 original size:23 final size:23
Alignment explanation
Indices: 45096590--45096639 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
45096580 TAAAAATGTA
* *
45096590 TACATATATGTACATATATTAAT
1 TACAAATATATACATATATTAAT
* *
45096613 TACAAATGTATACATATATTTAT
1 TACAAATATATACATATATTAAT
45096636 TACA
1 TACA
45096640 CATGTATTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.44, C:0.10, G:0.04, T:0.42
Consensus pattern (23 bp):
TACAAATATATACATATATTAAT
Found at i:45096644 original size:23 final size:23
Alignment explanation
Indices: 45096600--45096646 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
45096590 TACATATATG
45096600 TACATATATTAATTACAAATGTA
1 TACATATATTAATTACAAATGTA
* *
45096623 TACATATATTTATTACACATGTA
1 TACATATATTAATTACAAATGTA
45096646 T
1 T
45096647 TTATAATTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.43, C:0.11, G:0.04, T:0.43
Consensus pattern (23 bp):
TACATATATTAATTACAAATGTA
Found at i:45097397 original size:108 final size:108
Alignment explanation
Indices: 45097208--45097422 Score: 367
Period size: 108 Copynumber: 2.0 Consensus size: 108
45097198 TCACATTTGC
* *
45097208 AATTCACTATAATTTTGTAATTATGATGAGTATTATTTTTATGCGCGCTCAACGTTTATTTCATT
1 AATTCACTATAATTTTGTAATTATGACGAGTATTATTTGTATGCGCGCTCAACGTTTATTTCATT
**
45097273 AAATTTTACATTTTACCTTATTGGGTCAAGTGGGAGAATGTGT
66 AAATTTTACATTTTACCACATTGGGTCAAGTGGGAGAATGTGT
* * *
45097316 AATTCACTATAATTTTGTAATTGTGACGAGTGTTATTTGTATGCGCGCTCAATGTTTATTTCATT
1 AATTCACTATAATTTTGTAATTATGACGAGTATTATTTGTATGCGCGCTCAACGTTTATTTCATT
45097381 AAATTTTACATTTTACCACATTGGGTCAAGTGGGAGAATGTG
66 AAATTTTACATTTTACCACATTGGGTCAAGTGGGAGAATGTG
45097423 AGATTTTAGC
Statistics
Matches: 100, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
108 100 1.00
ACGTcount: A:0.27, C:0.12, G:0.18, T:0.43
Consensus pattern (108 bp):
AATTCACTATAATTTTGTAATTATGACGAGTATTATTTGTATGCGCGCTCAACGTTTATTTCATT
AAATTTTACATTTTACCACATTGGGTCAAGTGGGAGAATGTGT
Found at i:45100015 original size:24 final size:23
Alignment explanation
Indices: 45099986--45100033 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
45099976 TATGTTAGCG
45099986 AACAAAAATATATAAATATAAATA
1 AACAAAAATATATAAATA-AAATA
* * *
45100010 AACAAATATTTATATATAAAATA
1 AACAAAAATATATAAATAAAATA
45100033 A
1 A
45100034 GATAAATTGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (23 bp):
AACAAAAATATATAAATAAAATA
Found at i:45100424 original size:23 final size:20
Alignment explanation
Indices: 45100393--45100436 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 20
45100383 AAATTTTTGG
45100393 AAATATTCATGTATAAGGAGACA
1 AAATATTCAT-TA-AAGG-GACA
*
45100416 AAATTTTCATTAAAGGGACA
1 AAATATTCATTAAAGGGACA
45100436 A
1 A
45100437 TTAAATCAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 5 0.25
21 4 0.20
22 2 0.10
23 9 0.45
ACGTcount: A:0.48, C:0.09, G:0.16, T:0.27
Consensus pattern (20 bp):
AAATATTCATTAAAGGGACA
Found at i:45100473 original size:20 final size:21
Alignment explanation
Indices: 45100444--45100487 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
45100434 CAATTAAATC
*
45100444 AATTTGATTAAAATCAAATTA
1 AATTTGATTAAAATCAAATAA
*
45100465 AATTT-ATTAGAATCAAATAA
1 AATTTGATTAAAATCAAATAA
45100485 AAT
1 AAT
45100488 CAGGATATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.36
Consensus pattern (21 bp):
AATTTGATTAAAATCAAATAA
Found at i:45102666 original size:20 final size:20
Alignment explanation
Indices: 45102643--45102682 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
45102633 TTTTAAAATG
45102643 TATAATTAACACAACTTCTA
1 TATAATTAACACAACTTCTA
* *
45102663 TATAATTATCTCAACTTCTA
1 TATAATTAACACAACTTCTA
45102683 CAATCATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (20 bp):
TATAATTAACACAACTTCTA
Found at i:45110958 original size:132 final size:132
Alignment explanation
Indices: 45110799--45111186 Score: 557
Period size: 131 Copynumber: 2.9 Consensus size: 132
45110789 CTGCAACTTT
* * * * * *
45110799 AGGGAGATAAGACTGATAGCTTAAATCTACTTCCCTACTACTTCAGGAAGATAAGACTCGTCGTC
1 AGGGAGATAGGACTGGTGGCTTAAATCTACTTCCCTACTACTTCGGGAAGATAAGATTTGTCGTC
* ** *
45110864 TTTGATTTGCTCCACTACTATTTAGGGAGACAGGATATACAATCTTCAACCTACTCCACTACTGC
66 TTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTACTGC
45110929 TC
131 TC
*
45110931 AGGGAGATAGGACTGGTGGCTTAAATCTACTT-CCTATTA-TCTCGGGAAGATAAGATTTGTCGT
1 AGGGAGATAGGACTGGTGGCTTAAATCTACTTCCCTACTACT-TCGGGAAGATAAGATTTGTCGT
* * *
45110994 CTTTGATCTGCTCCGCTACTGCTTAGGGAGACAGGATCTACAATTTTCAACCTACTCCACTGCTG
65 CTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTACTG
*
45111059 CTT
130 CTC
* * * * *
45111062 AAGGAGATAGGACTAGTGGCTTAAATCTGCTTCCCTACTATCTT-GGGAAGATAAGATTTGCCAT
1 AGGGAGATAGGACTGGTGGCTTAAATCTACTTCCCTACTA-CTTCGGGAAGATAAGATTTGTCGT
45111126 CTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACT
65 CTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACT
45111187 GCAAACTCAG
Statistics
Matches: 229, Mismatches: 23, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
130 1 0.00
131 114 0.50
132 112 0.49
133 1 0.00
134 1 0.00
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.30
Consensus pattern (132 bp):
AGGGAGATAGGACTGGTGGCTTAAATCTACTTCCCTACTACTTCGGGAAGATAAGATTTGTCGTC
TTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTACTGC
TC
Found at i:45111184 original size:44 final size:44
Alignment explanation
Indices: 45111004--45111186 Score: 120
Period size: 44 Copynumber: 4.2 Consensus size: 44
45110994 CTTTGATCTG
* *
45111004 CTCCGCTACTGCTTAGGGAGACAGGATCTACAATTTTCAACCTA
1 CTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTA
* * * **** * * *
45111048 CTCCACTGCTGCTTAAGGAGATAGGA-CTAGTGGCTTAAATCTG
1 CTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTA
* * * * * * ** * *
45111091 CTTCC-CTACTATCTT-GGGAAGATAAGATTTGCCATCTTTGATCTG
1 C-TCCACTACT-GCTTAGGG-AGACAGGATCTACAATCTTCAACCTA
45111136 CTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTA
1 CTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTA
45111180 CTCCACT
1 CTCCACT
45111187 GCAAACTCAG
Statistics
Matches: 99, Mismatches: 34, Indels: 12
0.68 0.23 0.08
Matches are distributed among these distances:
43 16 0.16
44 65 0.66
45 18 0.18
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.30
Consensus pattern (44 bp):
CTCCACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTA
Found at i:45111187 original size:132 final size:131
Alignment explanation
Indices: 45110775--45111188 Score: 571
Period size: 132 Copynumber: 3.1 Consensus size: 131
45110765 AATTGGTAAT
* ** * *
45110775 TTCAACCTGCTCCACTGCAACTTTAGGGAGATAAGACTGATAGCTTAAATCTACTTCCCTACTA-
1 TTCAACCTACTCCACTGCTGC-TTAGGGAGATAGGACTG-TGGCTTAAATCTACTTCCCTACTAT
* * * * ** *
45110839 CTTCAGGAAGATAAGACTCGTCGTCTTTGATTTGCTCCACTACTATTTAGGGAGACAGGATATAC
64 CTT-GGGAAGATAAGATTTGTCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTAC
45110904 AATC
128 AATC
* * *
45110908 TTCAACCTACTCCACTACTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTACTT-CCTATTATC
1 TTCAACCTACTCCACTGCTGCTTAGGGAGATAGGACT-GTGGCTTAAATCTACTTCCCTACTATC
* *
45110972 TCGGGAAGATAAGATTTGTCGTCTTTGATCTGCTCCGCTACTGCTTAGGGAGACAGGATCTACAA
65 TTGGGAAGATAAGATTTGTCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAA
*
45111037 TT
130 TC
* *
45111039 TTCAACCTACTCCACTGCTGCTTAAGGAGATAGGACTAGTGGCTTAAATCTGCTTCCCTACTATC
1 TTCAACCTACTCCACTGCTGCTTAGGGAGATAGGACT-GTGGCTTAAATCTACTTCCCTACTATC
* *
45111104 TTGGGAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAA
65 TTGGGAAGATAAGATTTGTCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAA
45111169 TC
130 TC
45111171 TTCAACCTACTCCACTGC
1 TTCAACCTACTCCACTGC
45111189 AAACTCAGAG
Statistics
Matches: 249, Mismatches: 29, Indels: 7
0.87 0.10 0.02
Matches are distributed among these distances:
131 112 0.45
132 119 0.48
133 18 0.07
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.30
Consensus pattern (131 bp):
TTCAACCTACTCCACTGCTGCTTAGGGAGATAGGACTGTGGCTTAAATCTACTTCCCTACTATCT
TGGGAAGATAAGATTTGTCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGACAGGATCTACAAT
C
Found at i:45111341 original size:88 final size:89
Alignment explanation
Indices: 45111180--45111474 Score: 387
Period size: 89 Copynumber: 3.3 Consensus size: 89
45111170 CTTCAACCTA
* * * * *
45111180 CTCCACTGCAAACTC-AGAGAGGCAAGGCTGGTGTTTTCGATCTGCTTCACTGCCAGTACAGGAA
1 CTCCGCTGCAAACTCAAG-GAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGCCAATACAGGAA
* * * *
45111244 GATAAGATCTGCTGTTTTTAGTTTG
65 GACAAGATCTGCTATCTTCAGTTTG
* * *
45111269 CTCCGCTGCAAACTCAAGGAGGCAAGGCT-GTGTCTTCGATCTACTTCGCTGCCAACATAGGAAG
1 CTCCGCTGCAAACTCAAGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGCCAATACAGGAAG
*
45111333 ACAAGATCTGCTATCTTCAGTCTG
66 ACAAGATCTGCTATCTTCAGTTTG
* *
45111357 CTTCGCTGCAAACTCAAGGAGGCAAGGCTAGTGTCTTCGATCTGCTTTGCTGCCAATACAGGAAG
1 CTCCGCTGCAAACTCAAGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGCCAATACAGGAAG
* *
45111422 ACAAGATTTGCTATCGTCAGTTTG
66 ACAAGATCTGCTATCTTCAGTTTG
* * *
45111446 CTTCGCTGTAAACTCAGGGAGGCAAGGCT
1 CTCCGCTGCAAACTCAAGGAGGCAAGGCT
45111475 TCACTTCAAT
Statistics
Matches: 182, Mismatches: 22, Indels: 4
0.88 0.11 0.02
Matches are distributed among these distances:
88 76 0.42
89 104 0.57
90 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.27
Consensus pattern (89 bp):
CTCCGCTGCAAACTCAAGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGCTGCCAATACAGGAAG
ACAAGATCTGCTATCTTCAGTTTG
Found at i:45111361 original size:45 final size:45
Alignment explanation
Indices: 45111312--45111453 Score: 123
Period size: 45 Copynumber: 3.2 Consensus size: 45
45111302 CTTCGATCTA
45111312 CTTCGCTGCCAACATAGGAAGACAAGATCTGCTATCTTCAGTCTG
1 CTTCGCTGCCAACATAGGAAGACAAGATCTGCTATCTTCAGTCTG
* * * *
45111357 CTTCGCTGCAAAC-TCAAGG-AGGCAAG-GCTAG-TGTCTTC-GATCTG
1 CTTCGCTGCCAACAT--AGGAAGACAAGATCT-GCTATCTTCAG-TCTG
* * * * * *
45111401 CTTTGCTGCCAATACAGGAAGACAAGATTTGCTATCGTCAGTTTG
1 CTTCGCTGCCAACATAGGAAGACAAGATCTGCTATCTTCAGTCTG
45111446 CTTCGCTG
1 CTTCGCTG
45111454 TAAACTCAGG
Statistics
Matches: 73, Mismatches: 15, Indels: 18
0.69 0.14 0.17
Matches are distributed among these distances:
43 4 0.05
44 30 0.41
45 35 0.48
46 4 0.05
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.28
Consensus pattern (45 bp):
CTTCGCTGCCAACATAGGAAGACAAGATCTGCTATCTTCAGTCTG
Found at i:45112211 original size:45 final size:45
Alignment explanation
Indices: 45112007--45112365 Score: 232
Period size: 45 Copynumber: 8.0 Consensus size: 45
45111997 CAAGATCTGT
* * * * ** *
45112007 TATCTTCAGTCTACTCCGCTGCAAAC-TCAAGGAGGCAAGACTTGT
1 TATCTTCAGTCTGCTCCACTGC-AACTTTAGGGAGATAAGACTTGC
* * * *
45112052 TTTCTTCAGTCTGCTCCACTGCAACTTCAAGGATATAAGACTTG-
1 TATCTTCAGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTTGC
* * * *
45112096 TAACTTTAATCTGCTCCACTGCAACCTCT-GGGAGATAAGA-TTCGC
1 TATCTTCAGTCTGCTCCACTGCAA-CTTTAGGGAGATAAGACTT-GC
*
45112141 CATCTTCAGTCTGC-CTCACTGCAACTTTAGAGG-GATAAGACTTGC
1 TATCTTCAGTCTGCTC-CACTGCAACTTTAG-GGAGATAAGACTTGC
* * * *
45112186 TTTCTTCAGTCTGCTCCATTACAACTTAAGGGAGATAAGACTTG-
1 TATCTTCAGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTTGC
* * * * * * * ** **
45112230 TAACTTTAATCCGCTCCTACTGTAACTTCAAGGAGAT-AGGTTTAT
1 TATCTTCAGTCTGCTCC-ACTGCAACTTTAGGGAGATAAGACTTGC
** * * * * *
45112275 TGGCTTTAATCTGCCCCACTACAACTTCAGGGAGATAAGA-TTCGC
1 TATCTTCAGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTT-GC
* *
45112320 CATCTTCAGTCTGCTCCACTGCAACTTTAGGGGGATAAGACTTGC
1 TATCTTCAGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTTGC
45112365 T
1 T
45112366 TTATCACCGA
Statistics
Matches: 242, Mismatches: 57, Indels: 30
0.74 0.17 0.09
Matches are distributed among these distances:
43 2 0.01
44 73 0.30
45 160 0.66
46 7 0.03
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.31
Consensus pattern (45 bp):
TATCTTCAGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTTGC
Found at i:45112288 original size:134 final size:134
Alignment explanation
Indices: 45112043--45112363 Score: 359
Period size: 134 Copynumber: 2.4 Consensus size: 134
45112033 TCAAGGAGGC
* *
45112043 AAGACTTGTTTTCTTCAGTCTGCTCCACTGCAACTTCAA-GGATATAAGACTTGTAACTTTAATC
1 AAGACTTGCTTTCTTCAGTCTGCTCCACTGCAACTT-AAGGGAGATAAGACTTGTAACTTTAATC
* ** * * * *
45112107 TGCTCCACTGCAACCTCTGGGAGATAAGATTCGCCATCTTCAGTCTGCCTCACTGCAACTTTAGA
65 CGCTCCACTGCAACCTCAAGGAGATAAGATTCGCCATCTTCAATCTGCCCCACTACAACTTCAG-
45112172 GG-GAT
129 GGAGAT
* *
45112177 AAGACTTGCTTTCTTCAGTCTGCTCCATTACAACTTAAGGGAGATAAGACTTGTAACTTTAATCC
1 AAGACTTGCTTTCTTCAGTCTGCTCCACTGCAACTTAAGGGAGATAAGACTTGTAACTTTAATCC
* * * *
45112242 GCTCCTACTGTAACTTCAAGGAGATAGGTTTATT-GGC-T-TT-AATCTGCCCCACTACAACTTC
66 GCTCC-ACTGCAACCTCAAGGAGATAAG---ATTCGCCATCTTCAATCTGCCCCACTACAACTTC
45112303 AGGGAGAT
127 AGGGAGAT
** * *
45112311 AAGA-TTCGCCATCTTCAGTCTGCTCCACTGCAACTTTAGGGGGATAAGACTTG
1 AAGACTT-GCTTTCTTCAGTCTGCTCCACTGCAACTTAAGGGAGATAAGACTTG
45112364 CTTTATCACC
Statistics
Matches: 159, Mismatches: 21, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
133 6 0.04
134 128 0.81
135 19 0.12
136 1 0.01
137 2 0.01
138 3 0.02
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (134 bp):
AAGACTTGCTTTCTTCAGTCTGCTCCACTGCAACTTAAGGGAGATAAGACTTGTAACTTTAATCC
GCTCCACTGCAACCTCAAGGAGATAAGATTCGCCATCTTCAATCTGCCCCACTACAACTTCAGGG
AGAT
Found at i:45117255 original size:22 final size:23
Alignment explanation
Indices: 45117227--45117291 Score: 100
Period size: 22 Copynumber: 3.0 Consensus size: 23
45117217 TATGCACTAT
45117227 TAAACAGAGAGCACTAAA-GTGC
1 TAAACAGAGAGCACTAAATGTGC
*
45117249 TATACAGAGAGCAC-AAATGTGC
1 TAAACAGAGAGCACTAAATGTGC
45117271 TAAACAGAGAGCACT-AATGTG
1 TAAACAGAGAGCACTAAATGTG
45117292 ATAATAATCA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
21 3 0.08
22 36 0.92
ACGTcount: A:0.43, C:0.17, G:0.23, T:0.17
Consensus pattern (23 bp):
TAAACAGAGAGCACTAAATGTGC
Found at i:45117306 original size:25 final size:25
Alignment explanation
Indices: 45117231--45117453 Score: 213
Period size: 25 Copynumber: 9.4 Consensus size: 25
45117221 CACTATTAAA
*
45117231 CAGAGAGCACTAAAGTGCT-AT-A-
1 CAGAGAGCACTAATGTGCTAATAAT
*
45117253 CAGAGAGCACAAATGTGCT-A-AA-
1 CAGAGAGCACTAATGTGCTAATAAT
*
45117275 CAGAGAGCACTAATGTGATAATAAT
1 CAGAGAGCACTAATGTGCTAATAAT
* *
45117300 CAGAGAGC-GT-AT-TG---GTAAT
1 CAGAGAGCACTAATGTGCTAATAAT
* * *
45117319 CGGAGAGCACTGACGTGCTAATAAT
1 CAGAGAGCACTAATGTGCTAATAAT
45117344 CAGAGAGCAC-AGATGTGCTAATAAT
1 CAGAGAGCACTA-ATGTGCTAATAAT
*
45117369 CAGAGAGCACTGGA-GTGCTAATAAT
1 CAGAGAGCACT-AATGTGCTAATAAT
**
45117394 CAGAGAGCACTGTTGTGCTAATAAT
1 CAGAGAGCACTAATGTGCTAATAAT
* *
45117419 CAGATAGCACTGATGTGCTAATAAT
1 CAGAGAGCACTAATGTGCTAATAAT
45117444 CAGAGAGCAC
1 CAGAGAGCAC
45117454 GCTAAACTCT
Statistics
Matches: 169, Mismatches: 18, Indels: 25
0.80 0.08 0.12
Matches are distributed among these distances:
19 11 0.07
20 1 0.01
21 1 0.01
22 40 0.24
23 3 0.02
24 4 0.02
25 108 0.64
26 1 0.01
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.21
Consensus pattern (25 bp):
CAGAGAGCACTAATGTGCTAATAAT
Found at i:45123929 original size:25 final size:25
Alignment explanation
Indices: 45123896--45123944 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
45123886 AAATGAAAGA
45123896 AAAAAATGCCACCGAAGAGCATACG
1 AAAAAATGCCACCGAAGAGCATACG
*
45123921 AAAAAATGCTACCGAAGAGCATAC
1 AAAAAATGCCACCGAAGAGCATAC
45123945 TCATTTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.49, C:0.22, G:0.18, T:0.10
Consensus pattern (25 bp):
AAAAAATGCCACCGAAGAGCATACG
Found at i:45129062 original size:16 final size:18
Alignment explanation
Indices: 45129026--45129062 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
45129016 AAATAAATTT
*
45129026 AGAACTAAAAAAAATTCA
1 AGAACTAAAAAAAATTAA
45129044 AGAA-TAAAAAAAA-TAA
1 AGAACTAAAAAAAATTAA
45129060 AGA
1 AGA
45129063 TTCAAAGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 5 0.28
17 9 0.50
18 4 0.22
ACGTcount: A:0.73, C:0.05, G:0.08, T:0.14
Consensus pattern (18 bp):
AGAACTAAAAAAAATTAA
Found at i:45129066 original size:23 final size:23
Alignment explanation
Indices: 45129032--45129085 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
45129022 ATTTAGAACT
45129032 AAAA-AAA-ATTC-AAGAATAAAA
1 AAAATAAAGATTCAAAGAAT-AAA
45129053 AAAATAAAGATTCAAAGAATAAA
1 AAAATAAAGATTCAAAGAATAAA
*
45129076 CAAATAAAGA
1 AAAATAAAGA
45129086 AAATTAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 4 0.14
22 3 0.10
23 16 0.55
24 6 0.21
ACGTcount: A:0.72, C:0.06, G:0.07, T:0.15
Consensus pattern (23 bp):
AAAATAAAGATTCAAAGAATAAA
Found at i:45137151 original size:17 final size:15
Alignment explanation
Indices: 45137098--45137165 Score: 64
Period size: 17 Copynumber: 4.1 Consensus size: 15
45137088 TAAGTTTAAG
45137098 AAAATAAAAAAATAA
1 AAAATAAAAAAATAA
* *
45137113 AGCAACAAAAACAAAATTA
1 A--AA-ATAAA-AAAATAA
45137132 AAAATAAAGATAAATAA
1 AAAATAAA-A-AAATAA
45137149 AAAATAAAAAAATAA
1 AAAATAAAAAAATAA
45137164 AA
1 AA
45137166 TAAAACAACA
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
15 9 0.21
16 6 0.14
17 17 0.40
18 4 0.09
19 7 0.16
ACGTcount: A:0.79, C:0.04, G:0.03, T:0.13
Consensus pattern (15 bp):
AAAATAAAAAAATAA
Found at i:45137337 original size:16 final size:15
Alignment explanation
Indices: 45137255--45137350 Score: 70
Period size: 15 Copynumber: 6.3 Consensus size: 15
45137245 AAAAAAATAC
45137255 TAAAAAT-AATAGAAA
1 TAAAAATAAATA-AAA
**
45137270 TAGCAA-AAATAAAA
1 TAAAAATAAATAAAA
* * *
45137284 TAAAATCTAAGTATAA
1 TAAAA-ATAAATAAAA
* * *
45137300 GAAAAATTAGTAAAA
1 TAAAAATAAATAAAA
*
45137315 TAAAAATAAATAATA
1 TAAAAATAAATAAAA
45137330 TAACAAATAAATAAAA
1 TAA-AAATAAATAAAA
45137346 TAAAA
1 TAAAA
45137351 TGGGTGGCTT
Statistics
Matches: 61, Mismatches: 16, Indels: 8
0.72 0.19 0.09
Matches are distributed among these distances:
14 6 0.10
15 31 0.51
16 24 0.39
ACGTcount: A:0.70, C:0.03, G:0.05, T:0.22
Consensus pattern (15 bp):
TAAAAATAAATAAAA
Done.