Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 98 of 240
Found at i:30696951 original size:43 final size:43
Alignment explanation
Indices: 30696917--30697000 Score: 141
Period size: 43 Copynumber: 2.0 Consensus size: 43
30696907 ATATACATGG
*
30696917 TTTGGCACACGACCGTGTGGCCCTATTTCTAATATACACACGA
1 TTTGGCACACGACCGTGTGGCCCTATTTCAAATATACACACGA
* *
30696960 TTTGGCACACGACCATGTGGCCCTATTTCAAATATTCACAC
1 TTTGGCACACGACCGTGTGGCCCTATTTCAAATATACACAC
30697001 AGGTGGACAC
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.29
Consensus pattern (43 bp):
TTTGGCACACGACCGTGTGGCCCTATTTCAAATATACACACGA
Found at i:30697012 original size:43 final size:43
Alignment explanation
Indices: 30696919--30697013 Score: 129
Period size: 43 Copynumber: 2.2 Consensus size: 43
30696909 ATACATGGTT
* * **
30696919 TGGCACACGACCGTGTGGCCCTATTTCTAATATACACACGATT
1 TGGCACACGACCATGTGGCCCTATTTCAAATATACACACGAGG
*
30696962 TGGCACACGACCATGTGGCCCTATTTCAAATATTCACAC-AGG
1 TGGCACACGACCATGTGGCCCTATTTCAAATATACACACGAGG
30697004 TGGACACACG
1 TGG-CACACG
30697014 GGCTGAGACA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
42 4 0.09
43 42 0.91
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (43 bp):
TGGCACACGACCATGTGGCCCTATTTCAAATATACACACGAGG
Found at i:30699056 original size:44 final size:44
Alignment explanation
Indices: 30698982--30699188 Score: 158
Period size: 44 Copynumber: 4.8 Consensus size: 44
30698972 GGCATTACAT
* * ** *
30698982 GATTTCATATAAGACCATAGATGGGCTATGGCATCGATATATGA
1 GATTTCGTGTAAGACCATATCTGGGATATGGCATCGATATATGA
* * *
30699026 GACTTTC-TATAAGACCATATCTGGGATATGGCATTGATATATGT
1 GA-TTTCGTGTAAGACCATATCTGGGATATGGCATCGATATATGA
* * * * **
30699070 GATTACGTGTAAGACCATGTTTGGGACATTGGCATTAATATAT--
1 GATTTCGTGTAAGACCATATCTGGGATA-TGGCATCGATATATGA
* *
30699113 GA-TTCGTGTAAGACCAT-TGCTGGGCTATTGGCATCGATATGTGA
1 GATTTCGTGTAAGACCATAT-CTGGGATA-TGGCATCGATATATGA
* * *
30699157 TA-AT-ATGTAAGACCATATCTGGGATATGGCAT
1 GATTTCGTGTAAGACCATATCTGGGATATGGCAT
30699189 TGTATGTGAT
Statistics
Matches: 134, Mismatches: 22, Indels: 16
0.78 0.13 0.09
Matches are distributed among these distances:
41 1 0.01
42 37 0.28
43 23 0.17
44 56 0.42
45 17 0.13
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.33
Consensus pattern (44 bp):
GATTTCGTGTAAGACCATATCTGGGATATGGCATCGATATATGA
Found at i:30699187 original size:42 final size:43
Alignment explanation
Indices: 30699035--30699199 Score: 162
Period size: 42 Copynumber: 3.9 Consensus size: 43
30699025 AGACTTTCTA
* *
30699035 TAAGACCATATCTGGGATA-TGGCATTGATATATGTGATTACGTG
1 TAAGACCATATCTGGGATATTGGCATTG--ATATGTGATAATGTG
* * * * *
30699079 TAAGACCATGTTTGGGACATTGGCATTAATATATGAT--TCGTG
1 TAAGACCATATCTGGGATATTGGCATTGATATGTGATAAT-GTG
* * *
30699121 TAAGACCAT-TGCTGGGCTATTGGCATCGATATGTGATAATATG
1 TAAGACCATAT-CTGGGATATTGGCATTGATATGTGATAATGTG
30699164 TAAGACCATATCTGGGATA-TGGCATTG-TATGTGATA
1 TAAGACCATATCTGGGATATTGGCATTGATATGTGATA
30699200 CACGAGACTT
Statistics
Matches: 100, Mismatches: 15, Indels: 15
0.77 0.12 0.12
Matches are distributed among these distances:
41 10 0.10
42 39 0.39
43 26 0.26
44 18 0.18
45 7 0.07
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.34
Consensus pattern (43 bp):
TAAGACCATATCTGGGATATTGGCATTGATATGTGATAATGTG
Found at i:30699727 original size:15 final size:16
Alignment explanation
Indices: 30699707--30699744 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
30699697 ACTTGATGCA
*
30699707 ATTATTT-GTAATGTG
1 ATTATTTAGTAATATG
30699722 ATTATTTAGTAATATG
1 ATTATTTAGTAATATG
30699738 AGTTATT
1 A-TTATT
30699745 ATATTACAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 7 0.35
16 8 0.40
17 5 0.25
ACGTcount: A:0.32, C:0.00, G:0.16, T:0.53
Consensus pattern (16 bp):
ATTATTTAGTAATATG
Found at i:30702995 original size:27 final size:26
Alignment explanation
Indices: 30702942--30702998 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
30702932 CAATATCTGC
*
30702942 ACCGAAATACCCCACAAGATAACATG
1 ACCGAAATACCCCACAAGATAAAATG
*
30702968 ACCGAAATACCCC-CATAGGGTAAAATG
1 ACCGAAATACCCCACA-A-GATAAAATG
30702995 ACCG
1 ACCG
30702999 TGTAATAGCC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 2 0.07
26 14 0.52
27 11 0.41
ACGTcount: A:0.42, C:0.30, G:0.16, T:0.12
Consensus pattern (26 bp):
ACCGAAATACCCCACAAGATAAAATG
Found at i:30705806 original size:27 final size:26
Alignment explanation
Indices: 30705763--30705871 Score: 137
Period size: 27 Copynumber: 4.1 Consensus size: 26
30705753 GGATGTTACA
** *
30705763 GACCGAAATACTTCATAGGATAAAAT
1 GACCGAAATACCCCATAGGGTAAAAT
*
30705789 GACCAAAATACCCCCATAGGGTAAAAT
1 GACCGAAATA-CCCCATAGGGTAAAAT
* *
30705816 AATCGAAATACCCCATAGGGTAAAAT
1 GACCGAAATACCCCATAGGGTAAAAT
*
30705842 GACTGAAATATCCCCATAGGGTAAAAT
1 GACCGAAATA-CCCCATAGGGTAAAAT
30705869 GAC
1 GAC
30705872 TGTTATACCC
Statistics
Matches: 71, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
26 32 0.45
27 39 0.55
ACGTcount: A:0.44, C:0.20, G:0.17, T:0.19
Consensus pattern (26 bp):
GACCGAAATACCCCATAGGGTAAAAT
Found at i:30705872 original size:27 final size:26
Alignment explanation
Indices: 30705767--30705886 Score: 127
Period size: 27 Copynumber: 4.6 Consensus size: 26
30705757 GTTACAGACC
** * *
30705767 GAAATACTTCATAGGATAAAATGACC
1 GAAATACCCCATAGGGTAAAATGACT
* *
30705793 AAAATACCCCCATAGGGTAAAAT-AAT
1 GAAATA-CCCCATAGGGTAAAATGACT
30705819 CGAAATACCCCATAGGGTAAAATGACT
1 -GAAATACCCCATAGGGTAAAATGACT
30705846 GAAATATCCCCATAGGGTAAAATGACT
1 GAAATA-CCCCATAGGGTAAAATGACT
**
30705873 GTTATACCCC-TAGG
1 GAAATACCCCATAGG
30705887 AGATGAAATG
Statistics
Matches: 80, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
25 4 0.05
26 32 0.40
27 44 0.55
ACGTcount: A:0.42, C:0.20, G:0.17, T:0.22
Consensus pattern (26 bp):
GAAATACCCCATAGGGTAAAATGACT
Found at i:30705882 original size:53 final size:53
Alignment explanation
Indices: 30705766--30705868 Score: 152
Period size: 53 Copynumber: 1.9 Consensus size: 53
30705756 TGTTACAGAC
**
30705766 CGAAATACTTCATAGGATAAAATGACCAAAATACCCCCATAGGGTAAAATAAT
1 CGAAATACCCCATAGGATAAAATGACCAAAATACCCCCATAGGGTAAAATAAT
* ** *
30705819 CGAAATACCCCATAGGGTAAAATGACTGAAATATCCCCATAGGGTAAAAT
1 CGAAATACCCCATAGGATAAAATGACCAAAATACCCCCATAGGGTAAAAT
30705869 GACTGTTATA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
53 44 1.00
ACGTcount: A:0.45, C:0.19, G:0.16, T:0.20
Consensus pattern (53 bp):
CGAAATACCCCATAGGATAAAATGACCAAAATACCCCCATAGGGTAAAATAAT
Found at i:30709185 original size:4 final size:4
Alignment explanation
Indices: 30709176--30709224 Score: 98
Period size: 4 Copynumber: 12.2 Consensus size: 4
30709166 TCAATTATTC
30709176 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT TTAT
30709224 T
1 T
30709225 ACAAGAGCCT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 45 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:30709740 original size:21 final size:21
Alignment explanation
Indices: 30709715--30709754 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
30709705 CCATCACTCA
30709715 TTTTAACCAT-TTATTAATATT
1 TTTTAACCATATT-TTAATATT
*
30709736 TTTTAATCATATTTTAATA
1 TTTTAACCATATTTTAATA
30709755 CCGTGTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTTAACCATATTTTAATATT
Found at i:30710085 original size:44 final size:43
Alignment explanation
Indices: 30710037--30710129 Score: 105
Period size: 44 Copynumber: 2.1 Consensus size: 43
30710027 TAGTTAAAAA
* *
30710037 TAAAATATAATAAAAGTTGTCATAATTATACATTTAAAAATGAT
1 TAAAATATAATAAAAGTTGTCATAATTATACAATT-AAAATAAT
* * ** * *
30710081 TAAAATTTAATAGATTTTGTGATAATTATATAATTAAAATAAT
1 TAAAATATAATAAAAGTTGTCATAATTATACAATTAAAATAAT
30710124 TAAAAT
1 TAAAAT
30710130 TAAAATTAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
43 13 0.32
44 28 0.68
ACGTcount: A:0.52, C:0.02, G:0.06, T:0.40
Consensus pattern (43 bp):
TAAAATATAATAAAAGTTGTCATAATTATACAATTAAAATAAT
Found at i:30710132 original size:15 final size:17
Alignment explanation
Indices: 30710102--30710153 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 17
30710092 AGATTTTGTG
30710102 ATAATTATATAATTAAA
1 ATAATTATATAATTAAA
30710119 ATAATTA-A-AATTAAA
1 ATAATTATATAATTAAA
30710134 ATTAAAATTAT-TAATTAAA
1 A-T--AATTATATAATTAAA
30710153 A
1 A
30710154 AAAGTTGTGC
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
15 8 0.27
16 2 0.07
17 7 0.23
18 5 0.17
19 8 0.27
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
ATAATTATATAATTAAA
Found at i:30710138 original size:12 final size:13
Alignment explanation
Indices: 30710121--30710153 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
30710111 TAATTAAAAT
30710121 AATTAAAATTA-A
1 AATTAAAATTATA
*
30710133 AATTAAAATTATT
1 AATTAAAATTATA
30710146 AATTAAAA
1 AATTAAAA
30710154 AAAGTTGTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
AATTAAAATTATA
Found at i:30718665 original size:20 final size:21
Alignment explanation
Indices: 30718636--30718687 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
30718626 TTAGGAAGAA
*
30718636 TTAAATTTTTTTA-TATGTTCT
1 TTAAA-TTTTTTAGAATGTTCT
*
30718657 TTAAATTTTTTAGAATTTTCT
1 TTAAATTTTTTAGAATGTTCT
*
30718678 TTTAATTTTT
1 TTAAATTTTT
30718688 ATAATTTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 7 0.26
21 20 0.74
ACGTcount: A:0.25, C:0.04, G:0.04, T:0.67
Consensus pattern (21 bp):
TTAAATTTTTTAGAATGTTCT
Found at i:30718688 original size:20 final size:21
Alignment explanation
Indices: 30718636--30718701 Score: 66
Period size: 20 Copynumber: 3.2 Consensus size: 21
30718626 TTAGGAAGAA
* *
30718636 TTAAATTTTTTTA-TATGTTCT
1 TTAAA-TTTTTTAGAATTTTCT
30718657 TTAAATTTTTTAGAATTTTCT
1 TTAAATTTTTTAGAATTTTCT
* *
30718678 TTTAA-TTTTTATAATTTT-T
1 TTAAATTTTTTAGAATTTTCT
30718697 TTAAA
1 TTAAA
30718702 ATATAAATTT
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
19 5 0.13
20 19 0.49
21 15 0.38
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (21 bp):
TTAAATTTTTTAGAATTTTCT
Found at i:30724496 original size:42 final size:42
Alignment explanation
Indices: 30724428--30724551 Score: 153
Period size: 42 Copynumber: 3.0 Consensus size: 42
30724418 ACTGAGATGT
* * * *
30724428 GATTTGTGTAAGACCATGTCTAGGACATTGGCATCGGTATGA
1 GATTCGTGTAAGACCATGTCTAGGACATTAGCACCGATATGA
* *
30724470 GATTCGTGTAAGACCATGTTTGGGACATTAGCACCGATATGA
1 GATTCGTGTAAGACCATGTCTAGGACATTAGCACCGATATGA
*
30724512 GATTCGTGTAAGACCATAG-CTAGG-CTATTAGCATCGATAT
1 GATTCGTGTAAGACCAT-GTCTAGGAC-ATTAGCACCGATAT
30724552 ATGATAGTAT
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
41 1 0.01
42 69 0.97
43 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (42 bp):
GATTCGTGTAAGACCATGTCTAGGACATTAGCACCGATATGA
Found at i:30727484 original size:2 final size:2
Alignment explanation
Indices: 30727477--30727510 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
30727467 ATATAGGCAT
*
30727477 CA CA CA CA CA TA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
30727511 TATATATATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.47, G:0.00, T:0.03
Consensus pattern (2 bp):
CA
Found at i:30730028 original size:11 final size:11
Alignment explanation
Indices: 30730006--30730063 Score: 80
Period size: 11 Copynumber: 5.2 Consensus size: 11
30729996 AACTAATCCT
30730006 CTCTCAAATTTC
1 CTCTC-AATTTC
30730018 CTCTCAATTTC
1 CTCTCAATTTC
*
30730029 CTCTAAATTTC
1 CTCTCAATTTC
*
30730040 CTCTCAATTTG
1 CTCTCAATTTC
*
30730051 CTCTCAAATTC
1 CTCTCAATTTC
30730062 CT
1 CT
30730064 TCCAAATTTC
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
11 36 0.88
12 5 0.12
ACGTcount: A:0.22, C:0.33, G:0.02, T:0.43
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:30730039 original size:22 final size:23
Alignment explanation
Indices: 30730006--30730081 Score: 97
Period size: 22 Copynumber: 3.4 Consensus size: 23
30729996 AACTAATCCT
30730006 CTCTCAAATTTCCTCTCAATTTC
1 CTCTCAAATTTCCTCTCAATTTC
*
30730029 CTCT-AAATTTCCTCTCAATTTG
1 CTCTCAAATTTCCTCTCAATTTC
30730051 CTCTCAAA-TTCCT-TCCAAATTT-
1 CTCTCAAATTTCCTCT-C-AATTTC
30730073 CTCTCAAAT
1 CTCTCAAAT
30730082 CCATATTTAA
Statistics
Matches: 48, Mismatches: 1, Indels: 8
0.84 0.02 0.14
Matches are distributed among these distances:
21 1 0.02
22 35 0.73
23 12 0.25
ACGTcount: A:0.25, C:0.32, G:0.01, T:0.42
Consensus pattern (23 bp):
CTCTCAAATTTCCTCTCAATTTC
Found at i:30730055 original size:33 final size:33
Alignment explanation
Indices: 30730005--30730079 Score: 98
Period size: 33 Copynumber: 2.2 Consensus size: 33
30729995 AAACTAATCC
* *
30730005 TCTCTCAAATTTCCTCTCAATTTCC-TCTAAATT
1 TCTCTC-AATTTCCTCTCAAATTCCTTCCAAATT
*
30730038 TCCTCTCAATTTGCTCTCAAATTCCTTCCAAATT
1 T-CTCTCAATTTCCTCTCAAATTCCTTCCAAATT
30730072 TCTCTCAA
1 TCTCTCAA
30730080 ATCCATATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
33 24 0.65
34 13 0.35
ACGTcount: A:0.24, C:0.32, G:0.01, T:0.43
Consensus pattern (33 bp):
TCTCTCAATTTCCTCTCAAATTCCTTCCAAATT
Found at i:30730080 original size:11 final size:11
Alignment explanation
Indices: 30730005--30730081 Score: 72
Period size: 11 Copynumber: 6.9 Consensus size: 11
30729995 AAACTAATCC
30730005 TCTCTCAAATT
1 TCTCTCAAATT
30730016 TCCTCTC-AATT
1 T-CTCTCAAATT
30730027 TC-CTCTAAATT
1 TCTCTC-AAATT
30730038 TCCTCTC-AATT
1 T-CTCTCAAATT
30730049 TGCTCTCAAATT
1 T-CTCTCAAATT
*
30730061 CCT-TCCAAATT
1 TCTCT-CAAATT
30730072 TCTCTCAAAT
1 TCTCTCAAAT
30730082 CCATATTTAA
Statistics
Matches: 55, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
9 3 0.05
10 2 0.04
11 36 0.65
12 11 0.20
13 3 0.05
ACGTcount: A:0.25, C:0.31, G:0.01, T:0.43
Consensus pattern (11 bp):
TCTCTCAAATT
Found at i:30731202 original size:7 final size:7
Alignment explanation
Indices: 30731190--30731215 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
30731180 TAGTCGATTG
30731190 GTATTTA
1 GTATTTA
30731197 GTATTTA
1 GTATTTA
30731204 GTATTTA
1 GTATTTA
30731211 GTATT
1 GTATT
30731216 ATGTATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (7 bp):
GTATTTA
Found at i:30732397 original size:25 final size:25
Alignment explanation
Indices: 30732361--30732443 Score: 121
Period size: 25 Copynumber: 3.3 Consensus size: 25
30732351 TATTTTGATA
* * *
30732361 TTATTTGTTGTAATAAAATGGACGT
1 TTATTTGATGTAATAAAATAGAAGT
30732386 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
*
30732411 TTATTTGATGTAATAAAATAGAAAT
1 TTATTTGATGTAATAAAATAGAAGT
*
30732436 TTTTTTGA
1 TTATTTGA
30732444 GTTATTTTGA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 53 1.00
ACGTcount: A:0.39, C:0.01, G:0.16, T:0.45
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:30732514 original size:95 final size:94
Alignment explanation
Indices: 30732317--30732487 Score: 231
Period size: 95 Copynumber: 1.8 Consensus size: 94
30732307 ATTTTGATTT
*
30732317 TATTTT-ATGTAATAAAATAAAAAAATTTTTGAGTTATTTTGATATTATTTGTTGTAATAAAATG
1 TATTTTGATGTAATAAAATAAAAAAATTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATG
* * *
30732381 GACGTTTATTTGATGTAATAAAATAGAAG
66 GACGATTAATTAATGTAATAAAATAGAAG
* * ** *
30732410 TTTATTTGATGTAATAAAATAGAAATTTTTTTGAGTTATTTTGATATTATTTGATGTAATAACAT
1 TAT-TTTGATGTAATAAAATAAAAAAATTTTTGAGTTATTTTGATATTATTTGATGTAATAAAAT
30732475 -GA-GATTAATTAAT
65 GGACGATTAATTAAT
30732488 TTGTACAAAT
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
93 10 0.15
94 5 0.07
95 52 0.78
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.46
Consensus pattern (94 bp):
TATTTTGATGTAATAAAATAAAAAAATTTTTGAGTTATTTTGATATTATTTGATGTAATAAAATG
GACGATTAATTAATGTAATAAAATAGAAG
Found at i:30735875 original size:124 final size:124
Alignment explanation
Indices: 30735630--30736001 Score: 586
Period size: 124 Copynumber: 3.0 Consensus size: 124
30735620 CAAACATGCT
30735630 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGGTA
1 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGGTA
*
30735695 GAAGGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCTAGGACCA
66 GAAGCATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCTAGGACCA
* * * *
30735754 ACTGTAGCAAAAGTGCGTCCACGAGGGCGCGATTTCAGAAATTCTTCTCA-AATAGCATCCTGCT
1 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAA-AGCATCCTGGT
* * * *
30735818 TGAAGCATTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATAATTTTTTC-AGGACCT
65 AGAAGCA-TTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCTAGGACCA
*
30735878 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTAACAAATTCTTCTCATAAAGCATCCTGGTA
1 ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGGTA
* * *
30735943 AAAGCGATTTTATACTATTTGCTCAGAAACGTCAAATCGAAATTATTTCTTATAGGACC
66 GAAGC-ATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCTAGGACC
30736002 TAAAAACCCT
Statistics
Matches: 223, Mismatches: 20, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
123 2 0.01
124 169 0.76
125 52 0.23
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.30
Consensus pattern (124 bp):
ACTGTAGCAAAAGCGCGTCCACGTGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGGTA
GAAGCATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCTAGGACCA
Found at i:30740173 original size:7 final size:7
Alignment explanation
Indices: 30740161--30740213 Score: 88
Period size: 7 Copynumber: 7.6 Consensus size: 7
30740151 AAATATATAT
*
30740161 TTTTTTA
1 TTTTTAA
*
30740168 TTTTTTA
1 TTTTTAA
30740175 TTTTTAA
1 TTTTTAA
30740182 TTTTTAA
1 TTTTTAA
30740189 TTTTTAA
1 TTTTTAA
30740196 TTTTTAA
1 TTTTTAA
30740203 TTTTTAA
1 TTTTTAA
30740210 TTTT
1 TTTT
30740214 AAAACACTTT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
7 45 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTTTAA
Found at i:30740251 original size:23 final size:26
Alignment explanation
Indices: 30740221--30740278 Score: 79
Period size: 26 Copynumber: 2.4 Consensus size: 26
30740211 TTTAAAACAC
*
30740221 TTTT-AAAAT-ATTTTTT-AT-TTTT
1 TTTTAAAAATAATTTTTTAATGTTTA
30740243 TTTTAAAAATAATTTTTTAATGTTTA
1 TTTTAAAAATAATTTTTTAATGTTTA
30740269 TTTTAAAAAT
1 TTTTAAAAAT
30740279 GGGCCAGGCC
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
22 4 0.13
23 5 0.16
24 7 0.23
25 2 0.06
26 13 0.42
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (26 bp):
TTTTAAAAATAATTTTTTAATGTTTA
Found at i:30740641 original size:31 final size:31
Alignment explanation
Indices: 30740597--30740685 Score: 101
Period size: 31 Copynumber: 2.8 Consensus size: 31
30740587 CCGAATATAA
30740597 TAAATATATTTTTTATTTTTATTTTTTAATTT
1 TAAA-ATATTTTTTATTTTTATTTTTTAATTT
*
30740629 TAAAATACTTTTTT-TTTATT-TTTTTTATTTT
1 TAAAATA-TTTTTTATTT-TTATTTTTTAATTT
*
30740660 TAAAATGATTTTTTAATGTTTATTTT
1 TAAAAT-ATTTTTT-ATTTTTATTTT
30740686 AAAAATGGGC
Statistics
Matches: 49, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
31 28 0.57
32 15 0.31
33 6 0.12
ACGTcount: A:0.27, C:0.01, G:0.02, T:0.70
Consensus pattern (31 bp):
TAAAATATTTTTTATTTTTATTTTTTAATTT
Found at i:30741534 original size:19 final size:21
Alignment explanation
Indices: 30741510--30741554 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
30741500 ACATCATTTC
*
30741510 CAGAAGC-CCGAAG-GCTAAA
1 CAGAAGCACAGAAGTGCTAAA
*
30741529 CAGAAGCACATAAGTGCTAAA
1 CAGAAGCACAGAAGTGCTAAA
30741550 CAGAA
1 CAGAA
30741555 ACCCATAAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 7 0.32
20 4 0.18
21 11 0.50
ACGTcount: A:0.47, C:0.22, G:0.22, T:0.09
Consensus pattern (21 bp):
CAGAAGCACAGAAGTGCTAAA
Found at i:30741574 original size:42 final size:42
Alignment explanation
Indices: 30741525--30741677 Score: 180
Period size: 42 Copynumber: 3.6 Consensus size: 42
30741515 GCCCGAAGGC
* *
30741525 TAAACAGAAGCACATAAGTGCTAAACAGAAACCCATAAGGGT
1 TAAACAGAAGCTCATAAGAGCTAAACAGAAACCCATAAGGGT
* ** * *
30741567 TGAACAGAAGCTTGTAAGAGCTGAACAAAAACCCATAAGGGT
1 TAAACAGAAGCTCATAAGAGCTAAACAGAAACCCATAAGGGT
* * *
30741609 TAAACAGAAACTCAAAAGAGCTAAACGGAAACCCATAAGGGT
1 TAAACAGAAGCTCATAAGAGCTAAACAGAAACCCATAAGGGT
* * * *
30741651 TAAACATAAACTCATATGAGTTAAACA
1 TAAACAGAAGCTCATAAGAGCTAAACA
30741678 AAAGCTCGTG
Statistics
Matches: 91, Mismatches: 20, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 91 1.00
ACGTcount: A:0.48, C:0.18, G:0.18, T:0.16
Consensus pattern (42 bp):
TAAACAGAAGCTCATAAGAGCTAAACAGAAACCCATAAGGGT
Found at i:30741661 original size:21 final size:21
Alignment explanation
Indices: 30741525--30741677 Score: 108
Period size: 21 Copynumber: 7.3 Consensus size: 21
30741515 GCCCGAAGGC
* * * *
30741525 TAAACAGAAGCACATAAGTGC
1 TAAACAGAAACCCATAAGAGT
*
30741546 TAAACAGAAACCCATAAGGGT
1 TAAACAGAAACCCATAAGAGT
* * *** *
30741567 TGAACAGAAGCTTGTAAGAGC
1 TAAACAGAAACCCATAAGAGT
* * *
30741588 TGAACAAAAACCCATAAGGGT
1 TAAACAGAAACCCATAAGAGT
* * *
30741609 TAAACAGAAACTCAAAAGAGC
1 TAAACAGAAACCCATAAGAGT
* *
30741630 TAAACGGAAACCCATAAGGGT
1 TAAACAGAAACCCATAAGAGT
* * *
30741651 TAAACATAAACTCATATGAGT
1 TAAACAGAAACCCATAAGAGT
30741672 TAAACA
1 TAAACA
30741678 AAAGCTCGTG
Statistics
Matches: 98, Mismatches: 34, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
21 98 1.00
ACGTcount: A:0.48, C:0.18, G:0.18, T:0.16
Consensus pattern (21 bp):
TAAACAGAAACCCATAAGAGT
Found at i:30743308 original size:19 final size:19
Alignment explanation
Indices: 30743280--30743326 Score: 87
Period size: 19 Copynumber: 2.5 Consensus size: 19
30743270 GGCATAGTTA
30743280 TAAAAA-ATATGTATATAT
1 TAAAAATATATGTATATAT
30743298 TAAAAATATATGTATATAT
1 TAAAAATATATGTATATAT
30743317 TAAAAATATA
1 TAAAAATATA
30743327 CGTAAGAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
18 6 0.21
19 22 0.79
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.38
Consensus pattern (19 bp):
TAAAAATATATGTATATAT
Found at i:30752985 original size:21 final size:21
Alignment explanation
Indices: 30752944--30752985 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
30752934 AAAATTTTAG
* *
30752944 AAATTTCTAAAATATATAAAT
1 AAATTTCAAAAATATAAAAAT
30752965 AAATATTCAAAAATA-AAAAAT
1 AAAT-TTCAAAAATATAAAAAT
30752986 TAGTTAAACC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (21 bp):
AAATTTCAAAAATATAAAAAT
Found at i:30754573 original size:11 final size:11
Alignment explanation
Indices: 30754539--30754582 Score: 52
Period size: 11 Copynumber: 3.7 Consensus size: 11
30754529 ATTTTAAAAA
*
30754539 TAAAAATTTTT
1 TAAAAATATTT
30754550 TACAAAAAGTATTT
1 T--AAAAA-TATTT
30754564 TAAAAATATTT
1 TAAAAATATTT
30754575 TAAAAATA
1 TAAAAATA
30754583 AAAAAATATT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
11 14 0.48
12 5 0.17
13 5 0.17
14 5 0.17
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (11 bp):
TAAAAATATTT
Found at i:30758089 original size:81 final size:79
Alignment explanation
Indices: 30757938--30758093 Score: 242
Period size: 81 Copynumber: 1.9 Consensus size: 79
30757928 TAAGAATGTT
* * *
30757938 TAGAAGTTCCATTTTTAAGTTGTGAGTTACTAAAGAAAATAAAAGTTGACAGACACAAAAAAACT
1 TAGAAGTGCCATTTTTAAGTTGTGAGTTACTAAAAAAAATAAAAGTTGAAAGACACAAAAAAACT
30758003 CCTTGATTGAAGAC
66 CCTTGATTGAAGAC
30758017 TAGAAGTGCCATTTTTAAGTTGTGTGAGTTACTAAAAAAAAATAAAAGTTGAAAGACAC-AAAAA
1 TAGAAGTGCCATTTTTAAG-T-TGTGAGTTACT-AAAAAAAATAAAAGTTGAAAGACACAAAAAA
*
30758081 ACTTCTTGATTGA
63 ACTCCTTGATTGA
30758094 TGAGCAAGTA
Statistics
Matches: 70, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
79 18 0.26
80 1 0.01
81 28 0.40
82 23 0.33
ACGTcount: A:0.44, C:0.11, G:0.17, T:0.29
Consensus pattern (79 bp):
TAGAAGTGCCATTTTTAAGTTGTGAGTTACTAAAAAAAATAAAAGTTGAAAGACACAAAAAAACT
CCTTGATTGAAGAC
Found at i:30768014 original size:45 final size:45
Alignment explanation
Indices: 30767961--30768051 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
30767951 AAATAAATGA
30767961 ATTTCAAGTTGCTATAACATATGGATTATGACATATAAACTAAAG
1 ATTTCAAGTTGCTATAACATATGGATTATGACATATAAACTAAAG
*
30768006 ATTTCAAGTTGCTATAACATATGGATTTTGACATATAAACTAAAG
1 ATTTCAAGTTGCTATAACATATGGATTATGACATATAAACTAAAG
30768051 A
1 A
30768052 AATTATATAA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.34
Consensus pattern (45 bp):
ATTTCAAGTTGCTATAACATATGGATTATGACATATAAACTAAAG
Found at i:30768032 original size:24 final size:24
Alignment explanation
Indices: 30767961--30768033 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 24
30767951 AAATAAATGA
30767961 ATTTCAAGTTGCTATAACATATGG
1 ATTTCAAGTTGCTATAACATATGG
**
30767985 A-TT--A--TGACATATAA-ACTAAAG
1 ATTTCAAGTTG-C-TATAACA-TATGG
30768006 ATTTCAAGTTGCTATAACATATGG
1 ATTTCAAGTTGCTATAACATATGG
30768030 ATTT
1 ATTT
30768034 TGACATATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 18
0.62 0.07 0.31
Matches are distributed among these distances:
19 2 0.06
20 2 0.06
21 10 0.28
22 2 0.06
23 2 0.06
24 14 0.39
25 2 0.06
26 2 0.06
ACGTcount: A:0.38, C:0.11, G:0.14, T:0.37
Consensus pattern (24 bp):
ATTTCAAGTTGCTATAACATATGG
Found at i:30768575 original size:16 final size:16
Alignment explanation
Indices: 30768554--30768589 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
30768544 CTGAATTACT
* *
30768554 ATTACAGCTCTATTTC
1 ATTACACCTCTATTCC
30768570 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
30768586 ATTA
1 ATTA
30768590 TAGTGAACCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.03, T:0.42
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:30768980 original size:9 final size:9
Alignment explanation
Indices: 30768966--30768996 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
30768956 GTTAAACGAA
30768966 TCGAGTTAT
1 TCGAGTTAT
*
30768975 TCGAGTTAA
1 TCGAGTTAT
30768984 TCGAGTTAT
1 TCGAGTTAT
30768993 TCGA
1 TCGA
30768997 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:30769066 original size:9 final size:9
Alignment explanation
Indices: 30769052--30769085 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
30769042 GTTTTCGAAT
30769052 TCGAATAAC
1 TCGAATAAC
*
30769061 TCGAATAAT
1 TCGAATAAC
*
30769070 TCGAATAAG
1 TCGAATAAC
30769079 TCGAATA
1 TCGAATA
30769086 TCAAACTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:30769070 original size:18 final size:18
Alignment explanation
Indices: 30769049--30769085 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
30769039 TGAGTTTTCG
30769049 AATTCGAATAACTCGAAT
1 AATTCGAATAACTCGAAT
*
30769067 AATTCGAATAAGTCGAAT
1 AATTCGAATAACTCGAAT
30769085 A
1 A
30769086 TCAAACTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.27
Consensus pattern (18 bp):
AATTCGAATAACTCGAAT
Found at i:30769346 original size:30 final size:31
Alignment explanation
Indices: 30769298--30769357 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
30769288 AAACCTTTTA
* *
30769298 TTTTCCCCCCAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
30769328 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
30769358 TCTCAGCTCT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.18, C:0.42, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:30771140 original size:21 final size:21
Alignment explanation
Indices: 30771116--30771155 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
30771106 TTTAAAATTA
30771116 GATTGTTTTCTA-AATTTTAAG
1 GATT-TTTTCTAGAATTTTAAG
*
30771137 GATTTTTTTTAGAATTTTA
1 GATTTTTTCTAGAATTTTA
30771156 GATATTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.28, C:0.03, G:0.12, T:0.57
Consensus pattern (21 bp):
GATTTTTTCTAGAATTTTAAG
Found at i:30772660 original size:12 final size:12
Alignment explanation
Indices: 30772643--30772675 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
30772633 ATTTTAACAC
30772643 TATTATTATCAT
1 TATTATTATCAT
30772655 TATTATTATCAT
1 TATTATTATCAT
30772667 TATTATTAT
1 TATTATTAT
30772676 ACTTACGTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (12 bp):
TATTATTATCAT
Found at i:30772858 original size:27 final size:24
Alignment explanation
Indices: 30772791--30772858 Score: 64
Period size: 27 Copynumber: 2.7 Consensus size: 24
30772781 TTCGTAGTTT
*
30772791 TTATATATATGTATATACATTTATA
1 TTATATA-ATATATATACATTTATA
* *
30772816 TTTTATAATATTTATACATTTTCCATA
1 TTATATAATATATATACA-TTT--ATA
*
30772843 TTATATAATCTATATA
1 TTATATAATATATATA
30772859 TATGTTTATA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
24 9 0.26
25 9 0.26
27 16 0.47
ACGTcount: A:0.38, C:0.07, G:0.01, T:0.53
Consensus pattern (24 bp):
TTATATAATATATATACATTTATA
Found at i:30772945 original size:8 final size:8
Alignment explanation
Indices: 30772932--30772984 Score: 54
Period size: 8 Copynumber: 6.4 Consensus size: 8
30772922 TTTCTTAGTT
30772932 TTTATATA
1 TTTATATA
30772940 TTTATATA
1 TTTATATA
*
30772948 TGTATATACA
1 T-T-TATATA
30772958 TTTATAT-
1 TTTATATA
30772965 TTTATAATA
1 TTTAT-ATA
*
30772974 TCTATATA
1 TTTATATA
30772982 TTT
1 TTT
30772985 TCCATATTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
7 5 0.14
8 20 0.54
9 6 0.16
10 6 0.16
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (8 bp):
TTTATATA
Found at i:30772961 original size:26 final size:26
Alignment explanation
Indices: 30772932--30773008 Score: 77
Period size: 27 Copynumber: 2.9 Consensus size: 26
30772922 TTTCTTAGTT
*
30772932 TTTATATATTTAT-ATATGTATATACA
1 TTTATAT-TTTATAATATCTATATACA
*
30772958 TTTATATTTTATAATATCTATATA-T
1 TTTATATTTTATAATATCTATATACA
* *
30772983 TTTCCATATTTTATAATCTATATATA
1 TTT--ATATTTTATAATATCTATATA
30773009 TATGTTTATA
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
25 8 0.18
26 17 0.39
27 19 0.43
ACGTcount: A:0.36, C:0.06, G:0.01, T:0.56
Consensus pattern (26 bp):
TTTATATTTTATAATATCTATATACA
Found at i:30772985 original size:148 final size:143
Alignment explanation
Indices: 30772766--30773040 Score: 426
Period size: 148 Copynumber: 1.9 Consensus size: 143
30772756 ATTATTATCA
*
30772766 TATTATTATTTTATTTTCGTAGTTTTTATATATATGTATATACATTTATATTTTATAATATTTAT
1 TATTATTATTTTATTTTCGTAGTTTTTATATATATGTATATACATTTATATTTTATAATATCTAT
*
30772831 ACATTTTCCATATTATATAATC-TATATATATGTTTATACATTTTTTATAATATGAATATATATA
66 ACATTTTCCATATTATATAATCATATATATATGTTTATACATTCTTTATAATATGAATATATATA
30772895 CATATACATCTTT
131 CATATACATCTTT
*
30772908 TATTATTATTTTATTTTCTTAGTTTTTATATATTTATATATGTATATACATTTATATTTTATAAT
1 TATTATTATTTTATTTTCGTAG--TTT-T-TA--TATATATGTATATACATTTATATTTTATAAT
* * *
30772973 ATCTATATATTTTCCATATTTTATAATCTATATATATATGTTTATACATTCTTTATAATATGTAT
60 ATCTATACATTTTCCATATTATATAATC-ATATATATATGTTTATACATTCTTTATAATATGAAT
30773038 ATA
124 ATA
30773041 CATATTTTCT
Statistics
Matches: 119, Mismatches: 6, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
142 21 0.18
144 3 0.03
145 1 0.01
146 2 0.02
148 56 0.47
150 36 0.30
ACGTcount: A:0.34, C:0.07, G:0.03, T:0.56
Consensus pattern (143 bp):
TATTATTATTTTATTTTCGTAGTTTTTATATATATGTATATACATTTATATTTTATAATATCTAT
ACATTTTCCATATTATATAATCATATATATATGTTTATACATTCTTTATAATATGAATATATATA
CATATACATCTTT
Found at i:30774864 original size:16 final size:16
Alignment explanation
Indices: 30774839--30774869 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
30774829 TGTGTTTTGT
*
30774839 TTTGATTGCATGACAC
1 TTTGACTGCATGACAC
30774855 TTTGACTGCATGACA
1 TTTGACTGCATGACA
30774870 TTTCATTATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.35
Consensus pattern (16 bp):
TTTGACTGCATGACAC
Found at i:30779663 original size:41 final size:40
Alignment explanation
Indices: 30779563--30780097 Score: 354
Period size: 41 Copynumber: 12.7 Consensus size: 40
30779553 AAACCGGTGA
* * * * *
30779563 AATCAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAA
1 AATCAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGA-TAG
* * *
30779604 AATCAGATCTTATCTCTCTGAAGTTGCAGAAGAGCAGATCG
1 AATCAG-TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATAG
* * * * *
30779645 CATCCAGTCTTATCTCTCTGAAGTTGCAGTGGAGCGGATTAA
1 AAT-CAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGA-TAG
* * *
30779687 AATCAGATCTTATCTCTCTGAAGTTGCAATAGAGCAGATCG
1 AATCAG-TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATAG
* *
30779728 CATCCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGA-AG
1 AAT-CAGTCTTATCTCCCTGAAGTTGCAGT--AG-AG-CAGATAG
* * * * * *
30779772 AAATCAATCCTATCTCCCTAAAGTTGCAGTGGAGCGGATTAA
1 -AATCAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGA-TAG
** * *
30779814 AATCAGATCTTATCTCTTTGAAGTTGCAGAAGAGCAGATCG
1 AATCAG-TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATAG
* *
30779855 CATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAGAAG
1 AAT-CAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGAT---AG
* * * *
30779899 AAATCAATCCTATCTCCCTGAAGTTGCAGT-GAAGCGGATTAA
1 -AATCAGTCTTATCTCCCTGAAGTTGCAGTAG-AGCAGA-TAG
* * * *
30779941 AATCAGATCTTATCTCTCTGAAGTTGCAGAAGAGTAGATCG
1 AATCAG-TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATAG
* * * * ** *
30779982 CATCCAGTCCTATCTCCCTGAGGTTGCAGTGGAGTGGATTAAA
1 AAT-CAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGA-T-AG
** * *
30780025 AATTACAGATCTTATCTCTTTGAAGTTGCATTAGAGCAGATCG
1 AA-T-CAG-TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATAG
*
30780068 CATCCAGTCTTATCTCCCTGAAGTTGCAGT
1 AAT-CAGTCTTATCTCCCTGAAGTTGCAGT
30780098 GGAGTAGACT
Statistics
Matches: 381, Mismatches: 86, Indels: 54
0.73 0.17 0.10
Matches are distributed among these distances:
40 3 0.01
41 154 0.40
42 124 0.33
43 6 0.02
44 62 0.16
45 32 0.08
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.28
Consensus pattern (40 bp):
AATCAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGATAG
Found at i:30779711 original size:83 final size:83
Alignment explanation
Indices: 30779572--30780101 Score: 559
Period size: 83 Copynumber: 6.3 Consensus size: 83
30779562 AAATCAATCC
30779572 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCAGATCTTATCTCTCTGAAGTTGCAGAAGA
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCAGATCTTATCTCTCTGAAGTTGCAGAAGA
30779637 GCAGATCGCATCCAGTCT
66 GCAGATCGCATCCAGTCT
*
30779655 TATCTCTCTGAAGTTGCAGTGGAGCGGATTAAAATCAGATCTTATCTCTCTGAAGTTGCA-ATAG
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCAGATCTTATCTCTCTGAAGTTGCAGA-AG
*
30779719 AGCAGATCGCATCCAATCT
65 AGCAGATCGCATCCAGTCT
* ** * * * *
30779738 TATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAATCA-ATCCTATCTCCCTAAAGTTGCAGT
1 TATCTCCCTGAAGTTGCAGTGGAGC-G-GATTA-AAATCAGATCTTATCTCTCTGAAGTTGCAGA
* * ***
30779802 GGAGCGGATTAAAAT-CAGATCT
63 AGAGCAGA-TCGCATCCAG-TCT
** ** * *** * **
30779824 TATCTCTTTGAAGTTGCAGAAGAGCAGA-TCGCATCCAG-TCTTATCTCCCTGAAGTTGCAGTGG
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAAT-CAGATCTTATCTCTCTGAAGTTGCAGAAG
* * * *
30779887 AGCAGATAGAAGAAAT-CAATCC
65 AGCAGAT---CG-CATCCAGTCT
*
30779909 TATCTCCCTGAAGTTGCAGTGAAGCGGATTAAAATCAGATCTTATCTCTCTGAAGTTGCAGAAGA
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCAGATCTTATCTCTCTGAAGTTGCAGAAGA
* *
30779974 GTAGATCGCATCCAGTCC
66 GCAGATCGCATCCAGTCT
* * * **
30779992 TATCTCCCTGAGGTTGCAGTGGAGTGGATTAAAAATTACAGATCTTATCTCTTTGAAGTTGCATT
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATT-AAAA-T-CAGATCTTATCTCTCTGAAGTTGCAGA
30780057 AGAGCAGATCGCATCCAGTCT
63 AGAGCAGATCGCATCCAGTCT
30780078 TATCTCCCTGAAGTTGCAGTGGAG
1 TATCTCCCTGAAGTTGCAGTGGAG
30780102 TAGACTAGAG
Statistics
Matches: 371, Mismatches: 57, Indels: 35
0.80 0.12 0.08
Matches are distributed among these distances:
82 6 0.02
83 166 0.45
84 6 0.02
85 58 0.16
86 135 0.36
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (83 bp):
TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCAGATCTTATCTCTCTGAAGTTGCAGAAGA
GCAGATCGCATCCAGTCT
Found at i:30779796 original size:44 final size:43
Alignment explanation
Indices: 30779561--30779969 Score: 255
Period size: 42 Copynumber: 9.7 Consensus size: 43
30779551 ACAAACCGGT
* * **
30779561 GAAATCAATCCTATCTCCCTGAAGTTGCAGTGGAGC-GGATTA
1 GAAATCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGCAGAA
* * *
30779603 -AAATCAGATCTTATCTCTCTGAAGTTGCA--GAAG-AGCAGATC
1 GAAATCA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGCAGA-A
* * * * **
30779644 G-CATCCAGTCTTATCTCTCTGAAGTTGCAGTGGAGC-GGATTA
1 GAAAT-CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGCAGAA
* * *
30779686 -AAATCAGATCTTATCTCTCTGAAGTTGCAAT--AG-AGCAGATC
1 GAAATCA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGCAGA-A
*
30779727 G-CATCCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAA
1 GAAAT-CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG-CAGAA
* * * **
30779771 GAAATCAATCCTATCTCCCTAAAGTTGCAGTGGAGC-GGATTA
1 GAAATCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGCAGAA
** * *
30779813 -AAATCAGATCTTATCTCTTTGAAGTTGCA--GAAG-AGCAGATC
1 GAAATCA-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGCAGA-A
* * *
30779854 G-CATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAGAA
1 GAAAT-CAATCTTATCTCCCTGAAGTTGCAGTGGAGCAG-CAGAA
* * * **
30779898 GAAATCAATCCTATCTCCCTGAAGTTGCAGTGAAGC-GGATTA
1 GAAATCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGCAGAA
*
30779940 -AAATCAGATCTTATCTCTCTGAAGTTGCAG
1 GAAATCA-ATCTTATCTCCCTGAAGTTGCAG
30779970 AAGAGTAGAT
Statistics
Matches: 281, Mismatches: 56, Indels: 60
0.71 0.14 0.15
Matches are distributed among these distances:
40 14 0.05
41 88 0.31
42 93 0.33
43 12 0.04
44 63 0.22
45 11 0.04
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (43 bp):
GAAATCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGCAGAA
Found at i:30779815 original size:127 final size:127
Alignment explanation
Indices: 30779655--30780015 Score: 625
Period size: 127 Copynumber: 2.8 Consensus size: 127
30779645 CATCCAGTCT
*
30779655 TATCTCTCTGAAGTTGCAGTGGAGCGGATTAAAATCAGATCTTATCTCTCTGAAGTTGCA-ATAG
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCAGATCTTATCTCTCTGAAGTTGCAGA-AG
*
30779719 AGCAGATCGCATCCAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAATCAATCC
65 AGCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAATCAATCC
* *
30779782 TATCTCCCTAAAGTTGCAGTGGAGCGGATTAAAATCAGATCTTATCTCTTTGAAGTTGCAGAAGA
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCAGATCTTATCTCTCTGAAGTTGCAGAAGA
*
30779847 GCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGATAGAAGAAATCAATCC
66 GCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAATCAATCC
*
30779909 TATCTCCCTGAAGTTGCAGTGAAGCGGATTAAAATCAGATCTTATCTCTCTGAAGTTGCAGAAGA
1 TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCAGATCTTATCTCTCTGAAGTTGCAGAAGA
* * *
30779974 GTAGATCGCATCCAGTCCTATCTCCCTGAGGTTGCAGTGGAG
66 GCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAG
30780016 TGGATTAAAA
Statistics
Matches: 222, Mismatches: 11, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
127 221 1.00
128 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.27
Consensus pattern (127 bp):
TATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAATCAGATCTTATCTCTCTGAAGTTGCAGAAGA
GCAGATCGCATCCAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACAGAAGAAATCAATCC
Found at i:30781380 original size:3 final size:3
Alignment explanation
Indices: 30781372--30781420 Score: 80
Period size: 3 Copynumber: 16.0 Consensus size: 3
30781362 ATTTTTACAC
*
30781372 TAT TAT TAT CAT TAT TAT TAT TAT TATT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT
30781418 TAT
1 TAT
30781421 ACTTACGTAT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
3 40 0.93
4 3 0.07
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:30781588 original size:27 final size:26
Alignment explanation
Indices: 30781534--30781635 Score: 73
Period size: 27 Copynumber: 3.7 Consensus size: 26
30781524 TTTTCATAGT
30781534 TTTTATATATATGTATATACATTTATA
1 TTTTATA-ATATGTATATACATTTATA
30781561 TTTTATAATAT-T-TATACATTTTCCATA
1 TTTTATAATATGTATATACA-TTT--ATA
* * * **
30781588 TTATATAATCTATATATATGTTTATACA
1 TTTTATAATATGTATATACATTTAT--A
30781616 TTTTTTATAATATGTATATA
1 --TTTTATAATATGTATATA
30781636 TATATACATA
Statistics
Matches: 59, Mismatches: 7, Indels: 15
0.73 0.09 0.19
Matches are distributed among these distances:
24 6 0.10
25 4 0.07
26 6 0.10
27 19 0.32
28 5 0.08
29 4 0.07
30 15 0.25
ACGTcount: A:0.36, C:0.06, G:0.03, T:0.55
Consensus pattern (26 bp):
TTTTATAATATGTATATACATTTATA
Found at i:30781718 original size:24 final size:24
Alignment explanation
Indices: 30781687--30781754 Score: 75
Period size: 27 Copynumber: 2.6 Consensus size: 24
30781677 TTTCATAGTT
30781687 TTTATATATTTAT-ATATGCATATACA
1 TTTATAT-TTTATAATAT-C-TATACA
30781713 TTTATATTTTATAATATCTATACA
1 TTTATATTTTATAATATCTATACA
30781737 TTTTCCATATTTTATAAT
1 -TTT--ATATTTTATAAT
30781755 CTATATATAA
Statistics
Matches: 38, Mismatches: 0, Indels: 7
0.84 0.00 0.16
Matches are distributed among these distances:
24 6 0.16
25 9 0.24
26 11 0.29
27 12 0.32
ACGTcount: A:0.35, C:0.09, G:0.01, T:0.54
Consensus pattern (24 bp):
TTTATATTTTATAATATCTATACA
Found at i:30781770 original size:158 final size:154
Alignment explanation
Indices: 30781484--30781798 Score: 490
Period size: 158 Copynumber: 2.0 Consensus size: 154
30781474 ATGTTTTTAA
*
30781484 ATACATATACATATTTTATTATTATCATATTATTATTTTATTTTCATAGTTTTTATATATATGTA
1 ATACATATACATATTTTATTATTAT-ATATTATTATTTTATTTTCATAGTTTTTATATATATGCA
* **
30781549 TATACATTTATATTTTATAATATTTATACATTTTCCATATTATATAATCTATATATATGTTTATA
65 TATACATTTATATTTTATAATATCTATACATTTTCCATATTATATAATCTATATATAAATTTATA
* *
30781614 CATTTTTTATAATATGTATATATAT
130 CATTCTTTATAATATGCATATATAT
30781639 ATACATATACATATTTTATTATTAT-T-TTATTATTTTATTTTCATAGTTTTTATATATTTATAT
1 ATACATATACATATTTTATTATTATATATTATTATTTTATTTTCATAG--TTT-T-TA--TATAT
*
30781702 ATGCATATACATTTATATTTTATAATATCTATACATTTTCCATATTTTATAATCTATATATAAAT
60 ATGCATATACATTTATATTTTATAATATCTATACATTTTCCATATTATATAATCTATATATAAAT
30781767 TTATACATTCTTTATAATATGCATATATAT
125 TTATACATTCTTTATAATATGCATATATAT
30781797 AT
1 AT
30781799 TCTTACACTA
Statistics
Matches: 147, Mismatches: 7, Indels: 9
0.90 0.04 0.06
Matches are distributed among these distances:
152 20 0.14
153 1 0.01
154 3 0.02
155 26 0.18
156 2 0.01
158 95 0.65
ACGTcount: A:0.36, C:0.07, G:0.02, T:0.55
Consensus pattern (154 bp):
ATACATATACATATTTTATTATTATATATTATTATTTTATTTTCATAGTTTTTATATATATGCAT
ATACATTTATATTTTATAATATCTATACATTTTCCATATTATATAATCTATATATAAATTTATAC
ATTCTTTATAATATGCATATATAT
Found at i:30781793 original size:30 final size:28
Alignment explanation
Indices: 30781719--30781793 Score: 57
Period size: 30 Copynumber: 2.6 Consensus size: 28
30781709 TACATTTATA
30781719 TTTTATAATAT-C-TATACATTT-TCCAT
1 TTTTATAATATGCATATACATTTAT-CAT
* ** *
30781745 ATTTTATAATCTATATATAAATTTATACAT
1 -TTTTATAATATGCATATACATTTAT-CAT
30781775 TCTTTATAATATGCATATA
1 T-TTTATAATATGCATATA
30781794 TATATTCTTA
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
27 10 0.27
29 9 0.24
30 18 0.49
ACGTcount: A:0.37, C:0.11, G:0.01, T:0.51
Consensus pattern (28 bp):
TTTTATAATATGCATATACATTTATCAT
Found at i:30781851 original size:158 final size:157
Alignment explanation
Indices: 30781539--30781867 Score: 396
Period size: 158 Copynumber: 2.1 Consensus size: 157
30781529 ATAGTTTTTA
* *
30781539 TATATATGTATATACATTTATATTTTATAATATTTATACATTTTCCATATTATATAATCTATATA
1 TATATATGCATATACATTTATATTTTATAATATCTATACATTTTCCATATTATATAATCTATATA
** * * * ** *
30781604 TATGTTTATACATTTTTTATAATATGTATATATATATACATATACATATTTTATTATTATTTTAT
66 TAAATTTATACATTCTTTATAATATGCATATATATATACATATACATATTTCAAAACTA-TTTAT
* * * **
30781669 TATTTTATTTTCATAGTTTTTATATATT
130 AAATATATTTTCATAGTTTTTATATACG
*
30781697 TATATATGCATATACATTTATATTTTATAATATCTATACATTTTCCATATTTTATAATCTATATA
1 TATATATGCATATACATTTATATTTTATAATATCTATACATTTTCCATATTATATAATCTATATA
*
30781762 TAAATTTATACATTCTTTATAATATGCATATATATATTC-T-TACACTA-TTCAAAACTA-TTAT
66 TAAATTTATACATTCTTTATAATATGCATATATATATACATATACA-TATTTCAAAACTATTTAT
**
30781823 AAATATATTTTCCACATTTTTTTATATATACG
130 AAATATATTTT---CATAGTTTT-TATATACG
*
30781855 TATATATCCATAT
1 TATATATGCATAT
30781868 TTTCATAATT
Statistics
Matches: 146, Mismatches: 20, Indels: 10
0.83 0.11 0.06
Matches are distributed among these distances:
154 12 0.08
156 10 0.07
157 10 0.07
158 114 0.78
ACGTcount: A:0.36, C:0.09, G:0.02, T:0.53
Consensus pattern (157 bp):
TATATATGCATATACATTTATATTTTATAATATCTATACATTTTCCATATTATATAATCTATATA
TAAATTTATACATTCTTTATAATATGCATATATATATACATATACATATTTCAAAACTATTTATA
AATATATTTTCATAGTTTTTATATACG
Found at i:30781893 original size:158 final size:155
Alignment explanation
Indices: 30781522--30781893 Score: 375
Period size: 158 Copynumber: 2.4 Consensus size: 155
30781512 ATTATTATTT
* * * *
30781522 TATTTTCATAGTTTTTATATA--TATGTAT--ATACATTTATATTTTATAATATTTATACATTTT
1 TATTTTCACAGTTTTTATATATGTATATATCCATATATTTATAATTTATAATATTTATACATTTT
** * *
30781583 CCATATTATATAATCTATATATATGTTTATACATTTTTTATAATATGTATATATATATACATATA
66 CCATATTATATAATCTATATATAAATTTATACATTCTTTATAATATGCATATATATATACATATA
* ** * * * *
30781648 CATATTTTATTATTATTTTATTATTT
131 CATATTTCAAAACTA-TTTATAAATA
* * * * *
30781674 TATTTTCATAGTTTTTATATATTTATATATGCATATACATTTATATTTTATAATATCTATACATT
1 TATTTTCACAGTTTTTATATATGTATATATCCATAT--ATTTATAATTTATAATATTTATACATT
* *
30781739 TTCCATATTTTATAATCTATATATAAATTTATACATTCTTTATAATATGCATATATATATTC-T-
64 TTCCATATTATATAATCTATATATAAATTTATACATTCTTTATAATATGCATATATATATACATA
30781802 TACACTA-TTCAAAACTA-TTATAAATA
129 TACA-TATTTCAAAACTATTTATAAATA
*
30781828 TATTTTCCACATTTTTTTATATATACGTATATATCCATAT-TTTCATAATTTACTAATATATTAT
1 TATTTT-CACA-GTTTTTATATAT--GTATATATCCATATATTT-ATAATTTA-TAATAT-TTAT
30781892 AC
59 AC
30781894 TTATATATAT
Statistics
Matches: 184, Mismatches: 22, Indels: 22
0.81 0.10 0.10
Matches are distributed among these distances:
152 21 0.11
154 18 0.10
155 6 0.03
156 31 0.17
157 9 0.05
158 99 0.54
ACGTcount: A:0.36, C:0.09, G:0.02, T:0.53
Consensus pattern (155 bp):
TATTTTCACAGTTTTTATATATGTATATATCCATATATTTATAATTTATAATATTTATACATTTT
CCATATTATATAATCTATATATAAATTTATACATTCTTTATAATATGCATATATATATACATATA
CATATTTCAAAACTATTTATAAATA
Found at i:30781932 original size:2 final size:2
Alignment explanation
Indices: 30781925--30781949 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
30781915 ATGCATCTAT
30781925 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
30781950 TATTGTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:30785996 original size:17 final size:17
Alignment explanation
Indices: 30785971--30786009 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
30785961 CAGAATTAAA
*
30785971 ATTTGATTGAGAAATTT
1 ATTTAATTGAGAAATTT
30785988 ATTTAATTGAGAAATTT
1 ATTTAATTGAGAAATTT
30786005 ATTTA
1 ATTTA
30786010 GTTAATTAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (17 bp):
ATTTAATTGAGAAATTT
Found at i:30793327 original size:7 final size:7
Alignment explanation
Indices: 30793315--30793342 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
30793305 AAGTCCATAT
30793315 ATATTTA
1 ATATTTA
30793322 ATATTTA
1 ATATTTA
30793329 ATATTTA
1 ATATTTA
30793336 ATATTTA
1 ATATTTA
30793343 CGAGTTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
ATATTTA
Found at i:30794845 original size:76 final size:76
Alignment explanation
Indices: 30794701--30794847 Score: 174
Period size: 76 Copynumber: 1.9 Consensus size: 76
30794691 GCGCTGGGCA
* * * *
30794701 CAACTCATTATTGGTACATCCAACTAGTGCTGAGCACACATTTGATATTGTCAATTTACTCGATT
1 CAACTCATTATTGGTACATCCAACTAGTGCTGAGCACACATATGATATCGTCAATTTACTCAACT
30794766 AGCACTAGGCG
66 AGCACTAGGCG
* ** *
30794777 CAACTCATTGTTGGTACATTTAACTAAG-GCTCGA-CACACATATGATATCGTCGATTTA-TCTA
1 CAACTCATTATTGGTACATCCAACT-AGTGCT-GAGCACACATATGATATCGTCAATTTACTC-A
30794839 ACTAGCACT
63 ACTAGCACT
30794848 GGGGGCAAGC
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
75 2 0.03
76 54 0.90
77 4 0.07
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (76 bp):
CAACTCATTATTGGTACATCCAACTAGTGCTGAGCACACATATGATATCGTCAATTTACTCAACT
AGCACTAGGCG
Found at i:30805811 original size:76 final size:75
Alignment explanation
Indices: 30805595--30805828 Score: 216
Period size: 76 Copynumber: 3.1 Consensus size: 75
30805585 GGTACATCAA
* * * ** *
30805595 ACTAGTGTTGGGCACACATTTGGTATCATCAGTTTACCCGACTAGCGTTGGGCACAACTCATTAT
1 ACTAGTGCTGGGCACACATTTGATATCATCAGTTTA-CTGACTAGCACTGGGCACAACTCATTGT
** *
30805660 TGGTACATCCA
65 TGGTTTATCCG
* * * * * ** ** *
30805671 ACTAGTGCAGTGCATATATTTGATATCGTTGGTTTACTCGACTAGCACTGGGTGCAACTTATTGT
1 ACTAGTGCTGGGCACACATTTGATATCATCAGTTTACT-GACTAGCACTGGGCACAACTCATTGT
* *
30805736 TTGTTTATCTG
65 TGGTTTATCCG
* **
30805747 ACTAGTGCTGGGCACACATTTGATATCATCAGTTTATCTGACTAGCCCTGGGCACAAAACATTGT
1 ACTAGTGCTGGGCACACATTTGATATCATCAGTTTA-CTGACTAGCACTGGGCACAACTCATTGT
*
30805812 TGGTTTCTCCG
65 TGGTTTATCCG
30805823 ACTAGT
1 ACTAGT
30805829 ACAAGGCAAA
Statistics
Matches: 119, Mismatches: 37, Indels: 4
0.74 0.23 0.03
Matches are distributed among these distances:
75 1 0.01
76 116 0.97
77 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (75 bp):
ACTAGTGCTGGGCACACATTTGATATCATCAGTTTACTGACTAGCACTGGGCACAACTCATTGTT
GGTTTATCCG
Found at i:30817381 original size:17 final size:17
Alignment explanation
Indices: 30817359--30817393 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
30817349 TAAGACAATT
30817359 CGGGCATATGGGCCACA
1 CGGGCATATGGGCCACA
* *
30817376 CGGGCATGTGGGCTACA
1 CGGGCATATGGGCCACA
30817393 C
1 C
30817394 AGGTAAGGCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.20, C:0.29, G:0.37, T:0.14
Consensus pattern (17 bp):
CGGGCATATGGGCCACA
Found at i:30820909 original size:46 final size:46
Alignment explanation
Indices: 30820856--30820948 Score: 186
Period size: 46 Copynumber: 2.0 Consensus size: 46
30820846 TTACCGAATT
30820856 TCATCTTTGACCACGTTGATCATTAAAATCAACTAATGGACTAATC
1 TCATCTTTGACCACGTTGATCATTAAAATCAACTAATGGACTAATC
30820902 TCATCTTTGACCACGTTGATCATTAAAATCAACTAATGGACTAATC
1 TCATCTTTGACCACGTTGATCATTAAAATCAACTAATGGACTAATC
30820948 T
1 T
30820949 GATAGCAACA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.34, C:0.22, G:0.11, T:0.33
Consensus pattern (46 bp):
TCATCTTTGACCACGTTGATCATTAAAATCAACTAATGGACTAATC
Found at i:30821007 original size:10 final size:9
Alignment explanation
Indices: 30820994--30821111 Score: 107
Period size: 10 Copynumber: 12.7 Consensus size: 9
30820984 CATTTTCATC
30820994 ATAAAAATT
1 ATAAAAATT
*
30821003 CAT-AAAACT
1 -ATAAAAATT
*
30821012 ATAAAAATC
1 ATAAAAATT
30821021 ATAAAAA-T
1 ATAAAAATT
* *
30821029 AAAAAAATC
1 ATAAAAATT
30821038 ATTAAAAACTT
1 A-TAAAAA-TT
*
30821049 ATAAAACTT
1 ATAAAAATT
30821058 ATAAAAATAT
1 ATAAAAAT-T
30821068 ATAAAAACTT
1 ATAAAAA-TT
30821078 AT-AAAATT
1 ATAAAAATT
30821086 ATAAAAAATT
1 AT-AAAAATT
30821096 ATAAAAAATT
1 AT-AAAAATT
30821106 ATAAAA
1 ATAAAA
30821112 TTGTAATATA
Statistics
Matches: 90, Mismatches: 10, Indels: 17
0.77 0.09 0.15
Matches are distributed among these distances:
8 12 0.13
9 34 0.38
10 41 0.46
11 3 0.03
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (9 bp):
ATAAAAATT
Found at i:30821017 original size:18 final size:17
Alignment explanation
Indices: 30820994--30821102 Score: 92
Period size: 18 Copynumber: 5.9 Consensus size: 17
30820984 CATTTTCATC
*
30820994 ATAAAAATTCATAAAACT
1 ATAAAAATT-ATAAAAAT
*
30821012 ATAAAAATCATAAAAAT
1 ATAAAAATTATAAAAAT
* *
30821029 AAAAAAATCATTAAAAACTT
1 ATAAAAATTA-TAAAAA--T
*
30821049 ATAAAACTTATAAAAATAT
1 ATAAAAATTAT-AAAA-AT
*
30821068 ATAAAAACTTATAAAATT
1 ATAAAAA-TTATAAAAAT
30821086 ATAAAAAATTATAAAAA
1 AT-AAAAATTATAAAAA
30821103 ATTATAAAAT
Statistics
Matches: 75, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
17 16 0.21
18 25 0.33
19 17 0.23
20 16 0.21
21 1 0.01
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (17 bp):
ATAAAAATTATAAAAAT
Found at i:30821052 original size:28 final size:27
Alignment explanation
Indices: 30821013--30821113 Score: 107
Period size: 28 Copynumber: 3.6 Consensus size: 27
30821003 CATAAAACTA
* *
30821013 TAAAAA-TCATAAAAATAAAAAAATCAT
1 TAAAAACTTATAAAATTAAAAAAAT-AT
*
30821040 TAAAAACTTATAAAACTTATAAAAATAT
1 TAAAAACTTATAAAA-TTAAAAAAATAT
30821068 ATAAAAACTTATAAAATTATAAAAAAT-T
1 -TAAAAACTTATAAAATTA-AAAAAATAT
*
30821096 ATAAAAAATTATAAAATT
1 -TAAAAACTTATAAAATT
30821114 GTAATATATT
Statistics
Matches: 65, Mismatches: 5, Indels: 7
0.84 0.06 0.09
Matches are distributed among these distances:
27 6 0.09
28 30 0.46
29 29 0.45
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (27 bp):
TAAAAACTTATAAAATTAAAAAAATAT
Found at i:30821062 original size:37 final size:38
Alignment explanation
Indices: 30820994--30821111 Score: 124
Period size: 38 Copynumber: 3.2 Consensus size: 38
30820984 CATTTTCATC
*
30820994 ATAAAAA-TTCATAAAAC-TATAAAAATCATAAAAATA-
1 ATAAAAACTT-ATAAAACTTATAAAAATTATAAAAATAT
*
30821030 A-AAAAATCATTA-AAAACTTATAAAACTTATAAAAATAT
1 ATAAAAA-C-TTATAAAACTTATAAAAATTATAAAAATAT
30821068 ATAAAAACTTATAAAA-TTATAAAAAATTATAAAAA-ATT
1 ATAAAAACTTATAAAACTTAT-AAAAATTATAAAAATA-T
30821106 ATAAAA
1 ATAAAA
30821112 TTGTAATATA
Statistics
Matches: 70, Mismatches: 3, Indels: 16
0.79 0.03 0.18
Matches are distributed among these distances:
35 5 0.07
36 6 0.09
37 26 0.37
38 28 0.40
39 5 0.07
ACGTcount: A:0.66, C:0.06, G:0.00, T:0.28
Consensus pattern (38 bp):
ATAAAAACTTATAAAACTTATAAAAATTATAAAAATAT
Found at i:30821847 original size:20 final size:19
Alignment explanation
Indices: 30821824--30821875 Score: 68
Period size: 20 Copynumber: 2.7 Consensus size: 19
30821814 TTTTTTTTAC
*
30821824 ATTTTTATAGGTTTTTGTGA
1 ATTTTTATAGGTTTTTAT-A
*
30821844 ATTTTTATAAGTTTTTATA
1 ATTTTTATAGGTTTTTATA
*
30821863 AGTTTTATAGGTT
1 ATTTTTATAGGTT
30821876 CATATATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 12 0.43
20 16 0.57
ACGTcount: A:0.25, C:0.00, G:0.15, T:0.60
Consensus pattern (19 bp):
ATTTTTATAGGTTTTTATA
Found at i:30821871 original size:9 final size:10
Alignment explanation
Indices: 30821825--30821868 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
30821815 TTTTTTTACA
*
30821825 TTTTTATAGG
1 TTTTTATAAG
*
30821835 TTTTTGTGAA-
1 TTTTTAT-AAG
30821845 TTTTTATAAG
1 TTTTTATAAG
30821855 TTTTTATAAG
1 TTTTTATAAG
30821865 TTTT
1 TTTT
30821869 ATAGGTTCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
9 2 0.07
10 26 0.90
11 1 0.03
ACGTcount: A:0.23, C:0.00, G:0.14, T:0.64
Consensus pattern (10 bp):
TTTTTATAAG
Found at i:30821919 original size:21 final size:20
Alignment explanation
Indices: 30821906--30821950 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 20
30821896 TTATGGTTTA
30821906 TTTATAAGCTTTTATGAATTT
1 TTTATAAG-TTTTATGAATTT
*
30821927 TTTATAAGTTTTAT-AATTA
1 TTTATAAGTTTTATGAATTT
30821946 TTTAT
1 TTTAT
30821951 TTATGATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 9 0.39
20 6 0.26
21 8 0.35
ACGTcount: A:0.31, C:0.02, G:0.07, T:0.60
Consensus pattern (20 bp):
TTTATAAGTTTTATGAATTT
Found at i:30821949 original size:19 final size:21
Alignment explanation
Indices: 30821903--30821950 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
30821893 TATTTATGGT
30821903 TTATTTATAAGCTTTTATGAA
1 TTATTTATAAGCTTTTATGAA
*
30821924 TTTTTTATAAG-TTTTAT-AA
1 TTATTTATAAGCTTTTATGAA
30821943 TTATTTAT
1 TTATTTAT
30821951 TTATGATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 9 0.36
20 6 0.24
21 10 0.40
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.60
Consensus pattern (21 bp):
TTATTTATAAGCTTTTATGAA
Found at i:30822145 original size:57 final size:57
Alignment explanation
Indices: 30822075--30822215 Score: 160
Period size: 60 Copynumber: 2.4 Consensus size: 57
30822065 TAATGGATAA
*
30822075 GCTTAATTAATTTTTTTTATTAACAAC-AACTCAATT-GAGTGCGAACTAAGTTGAGGG
1 GCTTAATTGATTTTTTTTATTAACAACAAACTCAATTAGAGT--GAACTAAGTTGAGGG
* * * *
30822132 GTTTAATTGATTTTTTTAATTAACAACAAAAATTCAATTAGGAGTGAAGTAAGTTGAGGG
1 GCTTAATTGATTTTTTTTATTAACAAC--AAACTCAATTA-GAGTGAACTAAGTTGAGGG
*
30822192 GCTTAATTGATTTATTTTTCTTAA
1 GCTTAATTGATTT-TTTTTATTAA
30822216 GAATCTCATA
Statistics
Matches: 70, Mismatches: 8, Indels: 8
0.81 0.09 0.09
Matches are distributed among these distances:
57 24 0.34
60 34 0.49
61 8 0.11
62 4 0.06
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.40
Consensus pattern (57 bp):
GCTTAATTGATTTTTTTTATTAACAACAAACTCAATTAGAGTGAACTAAGTTGAGGG
Found at i:30824301 original size:26 final size:26
Alignment explanation
Indices: 30824253--30824307 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
30824243 TTTGAAATTT
* * *
30824253 ATTCGAATCGAATCAAGTGGAATGAA
1 ATTCGAATCGAATCAAATCGAATAAA
* *
30824279 ATTCGAGTCGAGTCAAATCGAATAAA
1 ATTCGAATCGAATCAAATCGAATAAA
30824305 ATT
1 ATT
30824308 GTTTAAGTTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.42, C:0.13, G:0.20, T:0.25
Consensus pattern (26 bp):
ATTCGAATCGAATCAAATCGAATAAA
Found at i:30824558 original size:17 final size:18
Alignment explanation
Indices: 30824536--30824575 Score: 64
Period size: 17 Copynumber: 2.3 Consensus size: 18
30824526 TTTTTTAGAT
*
30824536 TTTTTTAAAAATTAT-AA
1 TTTTTTAAAAAATATAAA
30824553 TTTTTTAAAAAATATAAA
1 TTTTTTAAAAAATATAAA
30824571 TTTTT
1 TTTTT
30824576 GAATTTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 14 0.67
18 7 0.33
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TTTTTTAAAAAATATAAA
Found at i:30824602 original size:20 final size:19
Alignment explanation
Indices: 30824565--30824619 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
30824555 TTTTAAAAAA
30824565 TATAAAT-TTTTGAATTTT
1 TATAAATATTTTGAATTTT
*
30824583 TATAAATATTTTGATTTTT
1 TATAAATATTTTGAATTTT
*
30824602 TAAAAATTATTTTGAATT
1 TATAAA-TATTTTGAATT
30824620 ATTTTTTAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
18 7 0.22
19 15 0.47
20 10 0.31
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.58
Consensus pattern (19 bp):
TATAAATATTTTGAATTTT
Found at i:30826028 original size:19 final size:19
Alignment explanation
Indices: 30826006--30826056 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 19
30825996 ATGTTGTTTA
*
30826006 TATTTATATTTTTTATTTG
1 TATTTATATTTTTTATTTC
*
30826025 TATTTAT-TGTATTTATTTC
1 TATTTATAT-TTTTTATTTC
30826044 TA--TATATTTTTTA
1 TATTTATATTTTTTA
30826057 GATACCCATA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
17 8 0.30
18 2 0.07
19 17 0.63
ACGTcount: A:0.24, C:0.02, G:0.04, T:0.71
Consensus pattern (19 bp):
TATTTATATTTTTTATTTC
Found at i:30827440 original size:16 final size:16
Alignment explanation
Indices: 30827419--30827453 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
30827409 TTGTGTTTTG
30827419 TTTTGAATGCATGACA
1 TTTTGAATGCATGACA
* *
30827435 TTTTGACTGCATGGCA
1 TTTTGAATGCATGACA
30827451 TTT
1 TTT
30827454 CATTATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.23, C:0.14, G:0.20, T:0.43
Consensus pattern (16 bp):
TTTTGAATGCATGACA
Found at i:30830699 original size:22 final size:25
Alignment explanation
Indices: 30830674--30830730 Score: 73
Period size: 28 Copynumber: 2.2 Consensus size: 25
30830664 AAGAAAAACT
30830674 AAAAAACAAAAT-AAAA-AAAATCA
1 AAAAAACAAAATCAAAACAAAATCA
30830697 AAAATCAACAAAATCAAAATCAAAATCA
1 AAAA--AACAAAATCAAAA-CAAAATCA
30830725 AAAAAA
1 AAAAAA
30830731 TTAGAAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
23 4 0.14
25 8 0.28
26 6 0.21
28 11 0.38
ACGTcount: A:0.77, C:0.12, G:0.00, T:0.11
Consensus pattern (25 bp):
AAAAAACAAAATCAAAACAAAATCA
Found at i:30830730 original size:21 final size:22
Alignment explanation
Indices: 30830690--30830731 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
30830680 CAAAATAAAA
*
30830690 AAAATCAAAAATCAACAAAATC
1 AAAATCAAAAATCAAAAAAATC
30830712 AAAATC-AAAATCAAAAAAAT
1 AAAATCAAAAATCAAAAAAAT
30830732 TAGAAAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.71, C:0.14, G:0.00, T:0.14
Consensus pattern (22 bp):
AAAATCAAAAATCAAAAAAATC
Found at i:30830731 original size:15 final size:15
Alignment explanation
Indices: 30830674--30830721 Score: 62
Period size: 16 Copynumber: 3.2 Consensus size: 15
30830664 AAGAAAAACT
*
30830674 AAAAAA-CAAAATAA
1 AAAAAATCAAAATCA
30830688 AAAAAATCAAAAATCA
1 AAAAAATC-AAAATCA
*
30830704 ACAAAATCAAAATCA
1 AAAAAATCAAAATCA
30830719 AAA
1 AAA
30830722 TCAAAAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
14 6 0.21
15 10 0.34
16 13 0.45
ACGTcount: A:0.77, C:0.12, G:0.00, T:0.10
Consensus pattern (15 bp):
AAAAAATCAAAATCA
Found at i:30830768 original size:16 final size:17
Alignment explanation
Indices: 30830749--30830782 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
30830739 TAAGAATGAT
30830749 GAAAAAAAAGAA-AAAA
1 GAAAAAAAAGAAGAAAA
*
30830765 GAAAAGAAAGAAGAAAA
1 GAAAAAAAAGAAGAAAA
30830782 G
1 G
30830783 GAGAGGCCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (17 bp):
GAAAAAAAAGAAGAAAA
Found at i:30830771 original size:12 final size:12
Alignment explanation
Indices: 30830750--30830782 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
30830740 AAGAATGATG
30830750 AAAA-AAAAGAA
1 AAAAGAAAAGAA
30830761 AAAAGAAAAGAA
1 AAAAGAAAAGAA
*
30830773 AGAAGAAAAG
1 AAAAGAAAAG
30830783 GAGAGGCCAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
11 4 0.20
12 16 0.80
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (12 bp):
AAAAGAAAAGAA
Found at i:30832149 original size:88 final size:88
Alignment explanation
Indices: 30832037--30832204 Score: 257
Period size: 88 Copynumber: 1.9 Consensus size: 88
30832027 TTCAGCCTTA
* *
30832037 TCTCCCTGAGCAGCAGTGGAATAGGTTGAAAAT-AGCAGATCTTGTCTTCCTGTATTGGCAGCGA
1 TCTCCCTGAGCAGCAGTGGAATAGGTTGAAAATGA-CAGATCTTGCCTTCCTGTACTGGCAGCGA
*
30832101 AGTAGATCGAAGATACGAGTATTT
65 AGCAGATCGAAGATACGAGTATTT
* * * *
30832125 TCTCCCTGGGTAGCAGTGGAATAGGTTGAAAATGACAGATCTTGCCTTTCTGTACTGGCGGCGAA
1 TCTCCCTGAGCAGCAGTGGAATAGGTTGAAAATGACAGATCTTGCCTTCCTGTACTGGCAGCGAA
30832190 GCAGATCGAAGATAC
66 GCAGATCGAAGATAC
30832205 CCGTCTTATC
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
88 71 0.99
89 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.27
Consensus pattern (88 bp):
TCTCCCTGAGCAGCAGTGGAATAGGTTGAAAATGACAGATCTTGCCTTCCTGTACTGGCAGCGAA
GCAGATCGAAGATACGAGTATTT
Found at i:30832507 original size:167 final size:167
Alignment explanation
Indices: 30832224--30832644 Score: 601
Period size: 167 Copynumber: 2.5 Consensus size: 167
30832214 CGCCTTGACG
* *
30832224 TTGCAATGGAAAAGACTGAAGCCACAACGGCGGATCTTATTTTCCTGGTGTCT-TAGCGGAGTAG
1 TTGCAATGGAAAAGATTGAAGCCACAACGGCGGATCTTATTTTCCTGGCGT-TGTAGCGGAGTAG
* *
30832288 ATTGAAGCCACGACGGCGGATCTTATCTTCCTGGTGTTAAGACTTGGATTAGCTGAAGTGGAGCG
65 ATTGAAGCCACGACGGCGGATCTTATCTCCCTGGTGTTAAGACTTCGATTAGCTGAAGTGGAGCG
* *
30832353 GATTAAAGCTGTGGGCAGCGAATCCTATCTCTTTTGCA
130 GATTAAAGCTGTGGGCAGCAAATCCTATCTCTTTAGCA
** * * *
30832391 TTGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTATTTTCCTGGCATTGCAGCGGAGCAGA
1 TTGCAATGGAAAAGATTGAAGCCACAACGGCGGATCTTATTTTCCTGGCGTTGTAGCGGAGTAGA
* *
30832456 TTGAAGCCACGACGGCGGATCTTATCTCCCTGGTGTTAAGGCTTCGATTAGCTGAAGTGGAGTGG
66 TTGAAGCCACGACGGCGGATCTTATCTCCCTGGTGTTAAGACTTCGATTAGCTGAAGTGGAGCGG
* *
30832521 ATTGAAGCTGTGGGCAGCAAATTCTATCTCTTTAGCA
131 ATTAAAGCTGTGGGCAGCAAATCCTATCTCTTTAGCA
** * * * * * *
30832558 TTATAGTGGAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGTAGTGGAATAGA
1 TTGCAATGGAAAAGATTGAAGCCACAACGGCGGATCTTATTTTCCTGGCGTTGTAGCGGAGTAGA
* *
30832623 TTGAAGCTACGACAGCGGATCT
66 TTGAAGCCACGACGGCGGATCT
30832645 GGTTTCCCTG
Statistics
Matches: 223, Mismatches: 30, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
166 1 0.00
167 222 1.00
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.27
Consensus pattern (167 bp):
TTGCAATGGAAAAGATTGAAGCCACAACGGCGGATCTTATTTTCCTGGCGTTGTAGCGGAGTAGA
TTGAAGCCACGACGGCGGATCTTATCTCCCTGGTGTTAAGACTTCGATTAGCTGAAGTGGAGCGG
ATTAAAGCTGTGGGCAGCAAATCCTATCTCTTTAGCA
Found at i:30832624 original size:50 final size:50
Alignment explanation
Indices: 30832561--30832939 Score: 238
Period size: 50 Copynumber: 7.6 Consensus size: 50
30832551 TTTAGCATTA
30832561 TAGTGGAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTG
1 TAGTGGAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTG
* * * * *** * **
30832611 TAGTGGAATAGATTGAAGCTACGACAGCGGATCTGGTTTCCCTGACATTG
1 TAGTGGAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTG
* * ** * * *
30832661 AAAATTAAAAAGATTTAAGCCACAATGGCGGATCTTACTTCCCTGGCGATG
1 -TAGTGGAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTG
* ** * *** * ****
30832712 TAGTGGAACAGATTGAAGCTTCGACGGCGGATCTGGTTTCCCCGATATTG
1 TAGTGGAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTG
* * * * ** *
30832762 CAAT-TAAAAGGATTGAAGCCACAATGGTAGATCTTACTTCCCTAGCGGTG
1 TAGTGGAAAA-GATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTG
* * * * * ** * * **
30832812 CAGTGGAACAGATTGAAGCTACGACGGCGAATCTTGTTTCCCAGACATTG
1 TAGTGGAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTG
* * ** *
30832862 CAATTAAAAAGATTGAAGCCACAACGGTGGATCTTACTTCCCTGGCGGTG
1 TAGTGGAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTG
* * *
30832912 TAGTGGAATAGATTGAAGTCACGACGGC
1 TAGTGGAAAAGATTGAAGCCACAACGGC
30832940 TAATCTTGTT
Statistics
Matches: 225, Mismatches: 101, Indels: 6
0.68 0.30 0.02
Matches are distributed among these distances:
49 3 0.01
50 185 0.82
51 37 0.16
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (50 bp):
TAGTGGAAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTG
Found at i:30832817 original size:100 final size:100
Alignment explanation
Indices: 30832567--30832969 Score: 556
Period size: 100 Copynumber: 4.0 Consensus size: 100
30832557 ATTATAGTGG
*
30832567 AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGTAGTGGAATAGATTGAAGCTA
1 AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
* * * *
30832632 CGACAGCGGATCTGGTTTCCCTGACATTGAAAATTA
66 CGACGGCGAATCTGGTTTCCCCGACATTG-CAATTA
* * * *
30832668 AAAAGATTTAAGCCACAATGGCGGATCTTACTTCCCTGGCGATGTAGTGGAACAGATTGAAGCTT
1 AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
* *
30832733 CGACGGCGGATCTGGTTTCCCCGATATTGCAATTA
66 CGACGGCGAATCTGGTTTCCCCGACATTGCAATTA
* * ** * *
30832768 AAAGGATTGAAGCCACAATGGTAGATCTTACTTCCCTAGCGGTGCAGTGGAACAGATTGAAGCTA
1 AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
* *
30832833 CGACGGCGAATCTTGTTTCCCAGACATTGCAATTA
66 CGACGGCGAATCTGGTTTCCCCGACATTGCAATTA
* *
30832868 AAAAGATTGAAGCCACAACGGTGGATCTTACTTCCCTGGCGGTGTAGTGGAATAGATTGAAG-TC
1 AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCT-
* * * *
30832932 ACGACGGCTAATCTTGTTTCCTCGACATTGCAGTTA
65 ACGACGGCGAATCTGGTTTCCCCGACATTGCAATTA
30832968 AA
1 AA
30832970 CAATTTGAAA
Statistics
Matches: 270, Mismatches: 31, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
99 1 0.00
100 183 0.68
101 86 0.32
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (100 bp):
AAAAGATTGAAGCCACAACGGCGGATCTTACTTCCCTGGCGGTGTAGTGGAACAGATTGAAGCTA
CGACGGCGAATCTGGTTTCCCCGACATTGCAATTA
Found at i:30834671 original size:10 final size:10
Alignment explanation
Indices: 30834649--30834694 Score: 67
Period size: 10 Copynumber: 4.7 Consensus size: 10
30834639 TGTTTATATT
30834649 TTTATTT-TA
1 TTTATTTGTA
30834658 TTTATTTGTA
1 TTTATTTGTA
30834668 TTTATTTGTA
1 TTTATTTGTA
*
30834678 TTTATTTCTA
1 TTTATTTGTA
*
30834688 TATATTT
1 TTTATTT
30834695 TTTAGATACC
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
9 7 0.21
10 27 0.79
ACGTcount: A:0.22, C:0.02, G:0.04, T:0.72
Consensus pattern (10 bp):
TTTATTTGTA
Found at i:30854778 original size:40 final size:40
Alignment explanation
Indices: 30854721--30854806 Score: 127
Period size: 40 Copynumber: 2.1 Consensus size: 40
30854711 CTCGAGAGAG
* *
30854721 TAAGGTTGTTTTCAAAAACTGACCTTCAATCGGGATATTA
1 TAAGGTTGTTTTAAAAAACTGACCTTCAATCGAGATATTA
* *
30854761 TAAGGTTGTTTTAAAAAATTGACCTTCGATCGAGATATTA
1 TAAGGTTGTTTTAAAAAACTGACCTTCAATCGAGATATTA
*
30854801 TCAGGT
1 TAAGGT
30854807 CAAAATTAAG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.36
Consensus pattern (40 bp):
TAAGGTTGTTTTAAAAAACTGACCTTCAATCGAGATATTA
Found at i:30859438 original size:27 final size:27
Alignment explanation
Indices: 30859311--30859441 Score: 181
Period size: 27 Copynumber: 4.9 Consensus size: 27
30859301 AACATGTCAA
* * *
30859311 GAAATAGTAGCCTTTTTGGGGAAATAT
1 GAAAGAGTAGCCTTTGTGGTGAAATAT
*
30859338 GAAAGAGTAGCCTTTGTGGCGAAATAT
1 GAAAGAGTAGCCTTTGTGGTGAAATAT
** *
30859365 GAAAGAGTAGCCTTTGTGGAAAAATAA
1 GAAAGAGTAGCCTTTGTGGTGAAATAT
*
30859392 GAACGAGTAGCCTTTGTGGTGAAATAT
1 GAAAGAGTAGCCTTTGTGGTGAAATAT
*
30859419 GAAATAGTAGCCTTTGTGGTGAA
1 GAAAGAGTAGCCTTTGTGGTGAA
30859442 CCCTGTAAGG
Statistics
Matches: 92, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 92 1.00
ACGTcount: A:0.34, C:0.09, G:0.28, T:0.28
Consensus pattern (27 bp):
GAAAGAGTAGCCTTTGTGGTGAAATAT
Found at i:30860914 original size:30 final size:30
Alignment explanation
Indices: 30860878--30860939 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
30860868 GTTTCATTCA
*
30860878 AACTCTTTTGTCTTAGAAAGGATTTTAAAT
1 AACTCTTTGGTCTTAGAAAGGATTTTAAAT
30860908 AACTCTTTGGTCTTAGAAAGGATTTTAAAT
1 AACTCTTTGGTCTTAGAAAGGATTTTAAAT
30860938 AA
1 AA
30860940 ATAAGAAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.35, C:0.10, G:0.15, T:0.40
Consensus pattern (30 bp):
AACTCTTTGGTCTTAGAAAGGATTTTAAAT
Found at i:30883282 original size:22 final size:22
Alignment explanation
Indices: 30883257--30883302 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
30883247 ACTCATAATT
30883257 TAATCTAGTTTTTTTAGTTTAG
1 TAATCTAGTTTTTTTAGTTTAG
30883279 TAATCTAGTTTTTTTAGTTTAG
1 TAATCTAGTTTTTTTAGTTTAG
30883301 TA
1 TA
30883303 TCATACATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.24, C:0.04, G:0.13, T:0.59
Consensus pattern (22 bp):
TAATCTAGTTTTTTTAGTTTAG
Found at i:30886719 original size:14 final size:14
Alignment explanation
Indices: 30886672--30886719 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
30886662 ACATGAAAAA
*
30886672 ATAAAAAAAATGTA-
1 ATAAAAAATAT-TAT
30886686 ATAAAAAATATTAAT
1 ATAAAAAATATT-AT
*
30886701 CTAAAAAATATTAT
1 ATAAAAAATATTAT
30886715 ATAAA
1 ATAAA
30886720 TATATAACAC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
13 1 0.03
14 17 0.59
15 11 0.38
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (14 bp):
ATAAAAAATATTAT
Found at i:30887594 original size:45 final size:44
Alignment explanation
Indices: 30887545--30887632 Score: 142
Period size: 45 Copynumber: 2.0 Consensus size: 44
30887535 TTCACTGTAA
30887545 TGGAATAGAGCTGTAATAGTAATTCAAT-TGTTTGGTTGAATGGAT
1 TGGAATAGAGCTGTAATAGT-ATT-AATATGTTTGGTTGAATGGAT
*
30887590 TGGAATAGAGCTGTAATAGTATTATTATGTTTGGTTGAATGGA
1 TGGAATAGAGCTGTAATAGTATTAATATGTTTGGTTGAATGGA
30887633 ATGATGTTGT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
43 2 0.05
44 19 0.46
45 20 0.49
ACGTcount: A:0.31, C:0.03, G:0.27, T:0.39
Consensus pattern (44 bp):
TGGAATAGAGCTGTAATAGTATTAATATGTTTGGTTGAATGGAT
Found at i:30887633 original size:39 final size:40
Alignment explanation
Indices: 30887543--30887650 Score: 114
Period size: 45 Copynumber: 2.6 Consensus size: 40
30887533 GGTTCACTGT
30887543 AATGGAATAGAGCTGTAATAGTAATTCAATTGTTTGGTTGA
1 AATGGAATAGAGCTGTAATAGT-ATTCAATTGTTTGGTTGA
*
30887584 ATGGATTGGAATAGAGCTGTAATAGTATT-ATTATGTTTGGTTG-
1 A---A-TGGAATAGAGCTGTAATAGTATTCAAT-TGTTTGGTTGA
*
30887627 AATGGAAT-GATGTTGTAATAGTAT
1 AATGGAATAGA-GCTGTAATAGTAT
30887651 AAGGAAAAAA
Statistics
Matches: 59, Mismatches: 2, Indels: 14
0.79 0.03 0.19
Matches are distributed among these distances:
38 2 0.03
39 18 0.31
40 1 0.02
41 1 0.02
43 3 0.05
44 14 0.24
45 20 0.34
ACGTcount: A:0.32, C:0.03, G:0.26, T:0.39
Consensus pattern (40 bp):
AATGGAATAGAGCTGTAATAGTATTCAATTGTTTGGTTGA
Found at i:30888473 original size:47 final size:47
Alignment explanation
Indices: 30888422--30888517 Score: 174
Period size: 47 Copynumber: 2.0 Consensus size: 47
30888412 TTTTGTAGTG
*
30888422 TTAATTATAATTTTTAATCAAACAATATAAGTAATATAAAATATTTT
1 TTAATTATAATTTTCAATCAAACAATATAAGTAATATAAAATATTTT
*
30888469 TTAATTATAATTTTCAATCATACAATATAAGTAATATAAAATATTTT
1 TTAATTATAATTTTCAATCAAACAATATAAGTAATATAAAATATTTT
30888516 TT
1 TT
30888518 TGAAGATCAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.46
Consensus pattern (47 bp):
TTAATTATAATTTTCAATCAAACAATATAAGTAATATAAAATATTTT
Found at i:30889561 original size:13 final size:13
Alignment explanation
Indices: 30889543--30889568 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
30889533 ATAGCATAAC
30889543 ATTTTATCAGAAT
1 ATTTTATCAGAAT
30889556 ATTTTATCAGAAT
1 ATTTTATCAGAAT
30889569 CTGCTCACTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (13 bp):
ATTTTATCAGAAT
Found at i:30908234 original size:45 final size:45
Alignment explanation
Indices: 30908159--30908364 Score: 312
Period size: 45 Copynumber: 4.6 Consensus size: 45
30908149 TACGTATGAT
* *
30908159 CACTTATCAC-TTGTTC-C-TGATCAGATAAGTGTAGCTAGGCTAT
1 CACTTATCACTTTG-TCACTTGATCAGATAAGTGTAGCTAAGCTAC
30908202 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AGACTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAG-CTAC
*
30908247 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AAGCTAC
* *
30908293 CACTTATCACTTTGTCACTTGATCAGATAAGAGTAGCTAAGTTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTAC
30908338 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
30908365 AGTACTCAAA
Statistics
Matches: 151, Mismatches: 6, Indels: 10
0.90 0.04 0.06
Matches are distributed among these distances:
43 12 0.08
44 5 0.03
45 92 0.61
46 40 0.26
47 2 0.01
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (45 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAGCTAC
Found at i:30908312 original size:91 final size:90
Alignment explanation
Indices: 30908159--30908364 Score: 319
Period size: 91 Copynumber: 2.3 Consensus size: 90
30908149 TACGTATGAT
* * *
30908159 CACTTATCACTTGTTC-C-TGATCAGATAAGTGTAGCTAGGCTATCACTTATCACTTTGTCACTT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTGTCACTT
*
30908222 GATCAGATAAGTGTAGCT-AGACTAC
66 GATCAGATAAGAGTAGCTAAG-CTAC
30908247 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCACTTTGTCACT
1 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCT-AAGCTACCACTTATCACTTTGTCACT
*
30908312 TGATCAGATAAGAGTAGCTAAGTTAC
65 TGATCAGATAAGAGTAGCTAAGCTAC
*
30908338 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTTTCACTTGATCAGA
30908365 AGTACTCAAA
Statistics
Matches: 108, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
88 15 0.14
89 1 0.01
90 19 0.18
91 71 0.66
92 2 0.02
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (90 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAGCTACCACTTATCACTTTGTCACTT
GATCAGATAAGAGTAGCTAAGCTAC
Found at i:30914541 original size:12 final size:12
Alignment explanation
Indices: 30914526--30914556 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
30914516 AATTCAAATT
*
30914526 TTATTTTTAGGA
1 TTATTATTAGGA
30914538 TTATTATTAGGA
1 TTATTATTAGGA
30914550 TTATTAT
1 TTATTAT
30914557 GATATTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.13, T:0.58
Consensus pattern (12 bp):
TTATTATTAGGA
Found at i:30918276 original size:5 final size:5
Alignment explanation
Indices: 30918266--30918319 Score: 58
Period size: 5 Copynumber: 11.0 Consensus size: 5
30918256 AGGTAGCCTA
* * *
30918266 ATTTT ATTTT ATTTT ATTTT A-TTT A-TAT ATTTT ATTTT CTGTTT TTTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT ATTTT AT-TTT ATTTT
30918315 ATTTT
1 ATTTT
30918320 CTTACATGTT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
4 7 0.17
5 31 0.74
6 4 0.10
ACGTcount: A:0.19, C:0.02, G:0.02, T:0.78
Consensus pattern (5 bp):
ATTTT
Found at i:30932921 original size:84 final size:84
Alignment explanation
Indices: 30932823--30933168 Score: 447
Period size: 84 Copynumber: 4.2 Consensus size: 84
30932813 CAACTTCAAT
* *
30932823 GAGATAGGAT-TGGTTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATT
1 GAGATAAGATCTGGTTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATC
30932887 TGCTCCACTACTGCTTAGG
66 TGCTCCACTACTGCTTAGG
*
30932906 GAGATAAGATCTGGTTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGTGATC
1 GAGATAAGATCTGGTTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATC
30932971 TGCTCCACTACTGCTTAGG
66 TGCTCCACTACTGCTTAGG
* * * * * *
30932990 GAGATAAGATCTGGTTT-TTTCGTCTGTTCCACTACTACTTAGGGAGATAAGACTGGTTTCTTTC
1 GAGATAAGATCTGGTTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGC---G
*
30933054 ATCTACTCCACTACTGCTTAGG
63 ATCTGCTCCACTACTGCTTAGG
** * * *
30933076 GAGATAAGA-C---TTGATGT-GATCTGCTCCACTACTGCTTAGGGAGATAAGA-TCTGGTGTGA
1 GAGATAAGATCTGGTTTCTTTCG-TCTGCTCCACTACTGCTTAGGGAGATAAGACT-TGATGCGA
*
30933135 TCTGCTCCACTACTCCTTAGG
64 TCTGCTCCACTACTGCTTAGG
30933156 GAGATAAGATCTG
1 GAGATAAGATCTG
30933169 CAATCTTCAA
Statistics
Matches: 231, Mismatches: 22, Indels: 20
0.85 0.08 0.07
Matches are distributed among these distances:
80 29 0.13
81 1 0.00
82 4 0.02
83 78 0.34
84 88 0.38
85 1 0.00
86 30 0.13
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.33
Consensus pattern (84 bp):
GAGATAAGATCTGGTTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATC
TGCTCCACTACTGCTTAGG
Found at i:30933076 original size:126 final size:127
Alignment explanation
Indices: 30932845--30933168 Score: 493
Period size: 126 Copynumber: 2.6 Consensus size: 127
30932835 GTTTCTTTCG
** * * *
30932845 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CT--TGATGCGATTTGCTCCACTACTGCTTAGGG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTTTCGATCTGCTCCACTACTACTTAGGG
* *
30932907 AGATAAGATCTGGTTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGTGA
66 AGATAAGATCTGGTTTCTTTCATCTACTCCACTACTGCTTAGGGAGATAAGACTTGATGTGA
*
30932969 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTTTTCG-TCTGTTCCACTACTACTTAGG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGG-TTTTTCGATCTGCTCCACTACTACTTAGG
30933033 GAGATAAGA-CTGGTTTCTTTCATCTACTCCACTACTGCTTAGGGAGATAAGACTTGATGTGA
65 GAGATAAGATCTGGTTTCTTTCATCTACTCCACTACTGCTTAGGGAGATAAGACTTGATGTGA
* *
30933095 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGG--TGT-GATCTGCTCCACTACTCCTTAGGG
1 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTTTCGATCTGCTCCACTACTACTTAGGG
30933157 AGATAAGATCTG
66 AGATAAGATCTG
30933169 CAATCTTCAA
Statistics
Matches: 183, Mismatches: 11, Indels: 12
0.89 0.05 0.06
Matches are distributed among these distances:
122 1 0.01
123 30 0.16
124 33 0.18
125 2 0.01
126 86 0.47
127 27 0.15
128 4 0.02
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (127 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTTTCGATCTGCTCCACTACTACTTAGGG
AGATAAGATCTGGTTTCTTTCATCTACTCCACTACTGCTTAGGGAGATAAGACTTGATGTGA
Found at i:30933168 original size:40 final size:39
Alignment explanation
Indices: 30932845--30933164 Score: 338
Period size: 40 Copynumber: 7.8 Consensus size: 39
30932835 GTTTCTTTCG
* *
30932845 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGAC-TGGTGTGA
* *
30932885 TTTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTCG-
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CTGG----TGT-GA
*
30932929 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGTGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGAC-TGGTGTGA
*
30932969 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTTTTCG-
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CTGG---TGT-GA
* * * *
30933012 TCTGTTCCACTACTACTTAGGGAGATAAGACTGGTTTCTTTCA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTGG----TGTGA
* *
30933055 TCTACTCCACTACTGCTTAGGGAGATAAGACTTGATGTGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGAC-TGGTGTGA
30933095 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTGTGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CTGGTGTGA
*
30933135 TCTGCTCCACTACTCCTTAGGGAGATAAGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA
30933165 TCTGCAATCT
Statistics
Matches: 241, Mismatches: 22, Indels: 34
0.81 0.07 0.11
Matches are distributed among these distances:
39 1 0.00
40 133 0.55
41 3 0.01
42 4 0.02
43 64 0.27
44 35 0.15
45 1 0.00
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (39 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGACTGGTGTGA
Found at i:30933204 original size:44 final size:44
Alignment explanation
Indices: 30933155--30933337 Score: 102
Period size: 44 Copynumber: 4.2 Consensus size: 44
30933145 TACTCCTTAG
*
30933155 GGAGATAAGATCTGCAATCTTCAATCTATTCCACTGCTGCCCAA
1 GGAGATAAGATCTGCAATCTTCAATCTACTCCACTGCTGCCCAA
* * **** * * *
30933199 GGAGAT-AGAACTACTGGATTCAATGTACTCCACTG-TAATCTC-A
1 GGAGATAAGATCTGCAATCTTCAATCTACTCCACTGCT--GCCCAA
* * * * * * * * ** *
30933242 GAAAGGTAAAATCCGCCATCTTCGATCTGCTCCACTACTGCTTAG
1 G-GAGATAAGATCTGCAATCTTCAATCTACTCCACTGCTGCCCAA
* * *
30933287 GGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCAG
1 GGAGATAAGATCTGCAATCTTCAATCTACTCCACTGCTGCCCAA
30933331 GGAGATA
1 GGAGATA
30933338 GAACTACCGG
Statistics
Matches: 94, Mismatches: 39, Indels: 12
0.65 0.27 0.08
Matches are distributed among these distances:
42 1 0.01
43 23 0.24
44 51 0.54
45 18 0.19
46 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.27
Consensus pattern (44 bp):
GGAGATAAGATCTGCAATCTTCAATCTACTCCACTGCTGCCCAA
Found at i:30933205 original size:210 final size:207
Alignment explanation
Indices: 30932823--30933205 Score: 520
Period size: 210 Copynumber: 1.8 Consensus size: 207
30932813 CAACTTCAAT
* * * * *
30932823 GAGATAGGATTGGTTTCTTTCGTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATTT
1 GAGATAAGACTGGTTTCTTTCATCTACTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCT
* *
30932888 GCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTCTTTCGTCTGCTCCACTACTGCTTAGGGAG
66 GCTCCACTACTGCTTAGGGAGATAAGATCTGG--T-TGTCGTCTGCTCCACTACTCCTTAGGGAG
* * ** *
30932953 ATAAGACTTGATGTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGGTTTTTTCGTCTGTT
128 ATAAGACTTGATGTAATCTACTCCACTACTGCCCAAGGAGATAAGATCTGGTTTTTTCGTCTGTT
30933018 CCACTACTACTTAGG
193 CCACTACTACTTAGG
*
30933033 GAGATAAGACTGGTTTCTTTCATCTACTCCACTACTGCTTAGGGAGATAAGACTTGATGTGATCT
1 GAGATAAGACTGGTTTCTTTCATCTACTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCT
30933098 GCTCCACTACTGCTTAGGGAGATAAGATCTGG-TGT-GATCTGCTCCACTACTCCTTAGGGAGAT
66 GCTCCACTACTGCTTAGGGAGATAAGATCTGGTTGTCG-TCTGCTCCACTACTCCTTAGGGAGAT
* * *
30933161 AAGA-TCTGCAATCTTCAATCTATTCCACTGCTGCCCAAGGAGATA
130 AAGACT-TG--AT-GT-AATCTACTCCACTACTGCCCAAGGAGATA
30933206 GAACTACTGG
Statistics
Matches: 151, Mismatches: 16, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
205 2 0.01
206 33 0.22
208 2 0.01
209 1 0.01
210 113 0.75
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (207 bp):
GAGATAAGACTGGTTTCTTTCATCTACTCCACTACTGCTTAGGGAGATAAGACTTGATGCGATCT
GCTCCACTACTGCTTAGGGAGATAAGATCTGGTTGTCGTCTGCTCCACTACTCCTTAGGGAGATA
AGACTTGATGTAATCTACTCCACTACTGCCCAAGGAGATAAGATCTGGTTTTTTCGTCTGTTCCA
CTACTACTTAGG
Found at i:30933295 original size:132 final size:132
Alignment explanation
Indices: 30933133--30933439 Score: 515
Period size: 132 Copynumber: 2.3 Consensus size: 132
30933123 GATCTGGTGT
* *
30933133 GATCTGCTCCACTACTCCTTAGGGAGATAAGATCTGCAATCTTCAATCTATTCCACTGCTGCCCA
1 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCA
*
30933198 AGGAGATAGAACTACTGGATTCAATGTACTCCACTGTAATCTCAGAAAGGTAAAATCCGCCATCT
66 AGGAGATAGAACTACCGGATTCAATGTACTCCACTGTAATCTCAGAAAGGTAAAATCCGCCATCT
30933263 TC
131 TC
30933265 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCA
1 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCA
* * * * * ** *
30933330 GGGAGATAGAACTACCGGCTTTAGTGTACTCTACTGTAATCTCAGGGAGGTAAAATCCTCCATCT
66 AGGAGATAGAACTACCGGATTCAATGTACTCCACTGTAATCTCAGAAAGGTAAAATCCGCCATCT
30933395 TC
131 TC
30933397 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTT
1 GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTT
30933440 AGATCTGCTT
Statistics
Matches: 164, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
132 164 1.00
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (132 bp):
GATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGCTGCCCA
AGGAGATAGAACTACCGGATTCAATGTACTCCACTGTAATCTCAGAAAGGTAAAATCCGCCATCT
TC
Found at i:30933642 original size:88 final size:88
Alignment explanation
Indices: 30933436--30934456 Score: 1065
Period size: 88 Copynumber: 11.6 Consensus size: 88
30933426 AGATCTGTAA
* * * * ** * * *
30933436 TCTTAGATCTGCTTCGCTGTCAATGCAGGAAGGCAAAATCTGCTATCTTCAGTCTGCTCCGCTGT
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTTCGCT-A
* * *
30933501 CAGTA-C-ATGA-AGGCAAGACTGGTT
65 CA--ACCGA-GAGAGGCAAGGCTTGTG
* * * * * * * ** *
30933525 TCTTCGATCTGCTTCACCGTCAGTACAGGAAGGCAAGATTTGCTATCTTTGACCAGCTTCACTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTTCGCTAC
* * *
30933590 AAACGAGGGAGGCAAGACTTGTG
66 AACCGAGAGAGGCAAGGCTTGTG
*
30933613 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAAC-TCTGCTA
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTTC-GCTA
*
30933677 CAACCGAGAGAGGCAAGGTTTGTG
65 CAACCGAGAGAGGCAAGGCTTGTG
* * * *
30933701 TCTTTGATCTGCTTCGCTGTCAATGCAGGAAGGCAATATCTGTTGTCTTTAACCAGCTTTGCTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTTCGCTAC
*
30933766 AACCGAGAGAGGCAAGGTTTGTG
66 AACCGAGAGAGGCAAGGCTTGTG
* * * * *
30933789 TCTTTGATCTGCTTCGCTGTCAATGCAAGAAGGCAAGATCTGTTGTATTCAACCAGCTCCACTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTTCGCTAC
30933854 AACCGAGAGAGGCAAGGCTTGTG
66 AACCGAGAGAGGCAAGGCTTGTG
** * **
30933877 TCTTCGATCTGCTTCGCTGTCAGGGTAGGAAGGCAAGATCTGTTGTCTTCAAATAGC-TCTGCTA
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTTC-GCTA
** *
30933941 CAACCGAGAGATACAAGGTTTGTG
65 CAACCGAGAGAGGCAAGGCTTGTG
* * * * * *
30933965 TCTTTGATCTGCTTCGCTATCAATGCAGGAAGGCAATATCTGTTGTATTCAACCAGCTCCACTAC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTTCGCTAC
30934030 AACCGAGAGAGGCAAGGCTTGTG
66 AACCGAGAGAGGCAAGGCTTGTG
* * ** * * *
30934053 TCTTCGATTTGCTTCGTTGTCAGGGTAGGAAGACAAGATCTGTTGTCTTCAAACAGC-TCTGCTA
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTTC-GCTA
** *
30934117 CAACCGAGAGATACAAGGTTTGTG
65 CAACCGAGAGAGGCAAGGCTTGTG
* * * *
30934141 TCTTTGATCTGCTTCGCTATCAATGCAGGAAGACAAGATCTATTGTCTTCAACCAGC-TCTGCTA
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTTC-GCTA
*
30934205 CAACCGAGAGAGGCAAGGTTTGTG
65 CAACCGAGAGAGGCAAGGCTTGTG
* *
30934229 TCTTCGATCTACTTCGCTGTCAATGCAAGAAGGCAAGATCTGTTGTCTTCAACCAGC-TCTGCTA
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTTC-GCTA
* *
30934293 CAACCGAGAGAGGTAAGG-TTTTG
65 CAACCGAGAGAGGCAAGGCTTGTG
* * * * * ** * * * *
30934316 TTTTCGATCTGCTTCGCTGTTAATGCAGAAAGGCAAGATCTGCTATCTTTGACTAGCTCCACTGC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTTCGCTAC
** *
30934381 AACCGATG-GAGGCAATACTT-TA
66 AACCGA-GAGAGGCAAGGCTTGTG
* * * * * *
30934403 TTTTCAATCTGCTTCGCTGTTAATGTAGGAAGGCAAGATCTGCTGTCCTCAACC
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACC
30934457 GGCTCCACTG
Statistics
Matches: 788, Mismatches: 133, Indels: 24
0.83 0.14 0.03
Matches are distributed among these distances:
86 1 0.00
87 119 0.15
88 617 0.78
89 51 0.06
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.29
Consensus pattern (88 bp):
TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTTCGCTAC
AACCGAGAGAGGCAAGGCTTGTG
Found at i:30933647 original size:44 final size:44
Alignment explanation
Indices: 30933436--30933926 Score: 199
Period size: 44 Copynumber: 11.1 Consensus size: 44
30933426 AGATCTGTAA
* * * *
30933436 TCTTAGATCTGCTTCGCTGTCAATGCAGGAAGGCAAAATCTGCTA
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGAT-TGTTG
* * * * *
30933481 TCTTC-AGTCTGCTCCGCTGTCAGTACATGAAGGCAAGACTGGTT-
1 TCTTCGA-TCTGCTTCGCTGTCAATGCAGGAAGGCAAGA-TTGTTG
* * * * * *
30933525 TCTTCGATCTGCTTCACCGTCAGTACAGGAAGGCAAGATTTGCTA
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGA-TTGTTG
* * * * * * *
30933570 TCTTTGACCAGCTTCACT-ACAA-ACGAGGGAGGCAAGACTTG-TG
1 TCTTCGATCTGCTTCGCTGTCAATGC-AGGAAGGCAAGA-TTGTTG
30933613 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTGTTG
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGAT-TGTTG
* * ** * * *
30933658 TCTTCAACCAAC-TCTGCT-ACAA--CCGAGAGAGGCAAGGTT-TGTG
1 TCTTCGATCTGCTTC-GCTGTCAATGCAG-GA-AGGCAAGATTGT-TG
* *
30933701 TCTTTGATCTGCTTCGCTGTCAATGCAGGAAGGCAATATCTGTTG
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGAT-TGTTG
** * * * * * *
30933746 TCTTTAACCAGCTTTGCT-ACAA--CCGAGAGAGGCAAGGTT-TGTG
1 TCTTCGATCTGCTTCGCTGTCAATGCAG-GA-AGGCAAGATTGT-TG
* *
30933789 TCTTTGATCTGCTTCGCTGTCAATGCAAGAAGGCAAGATCTGTTG
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGAT-TGTTG
* * * * * * * * *
30933834 TATTCAACCAGCTCCACT-ACAA--CCGAGAGAGGCAAGGCTTG-TG
1 TCTTCGATCTGCTTCGCTGTCAATGCAG-GA-AGGCAA-GATTGTTG
** *
30933877 TCTTCGATCTGCTTCGCTGTCAGGGTAGGAAGGCAAGATCTGTTG
1 TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGAT-TGTTG
30933922 TCTTC
1 TCTTC
30933927 AAATAGCTCT
Statistics
Matches: 326, Mismatches: 85, Indels: 70
0.68 0.18 0.15
Matches are distributed among these distances:
42 7 0.02
43 70 0.21
44 135 0.41
45 107 0.33
46 7 0.02
ACGTcount: A:0.24, C:0.23, G:0.25, T:0.29
Consensus pattern (44 bp):
TCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATTGTTG
Found at i:30933912 original size:264 final size:264
Alignment explanation
Indices: 30933436--30934502 Score: 1180
Period size: 264 Copynumber: 4.0 Consensus size: 264
30933426 AGATCTGTAA
* * * * ** * * *
30933436 TCTTAGATCTGCTTCGCTGTCAATGCAGGAAGGCAAAATCTGCTATCTTCAGTCTGCTCCGCTGT
1 TCTTTGATCTGCTTCGCTGTCAATGCAGGAAGGCAATATCTGTTGTCTTCAACCAGCTCTGCT-A
** * * * * * * * *
30933501 CAGTA-C-ATGA-AGGCAAGACTGGTTTCTTCGATCTGCTTCACCGTCAGTACAGGAAGGCAAGA
65 CA--ACCGA-GAGAGGCAAGGTTTGTGTCTTTGATCTGCTTCGCTGTCAATGCAAGAAGGCAAGA
* * * ** * * *
30933563 TTTGCTATCTTTGACCAGCTTCACTACAAACGAGGGAGGCAAGACTTGTGTCTTCGATCTGCTTC
127 TCTGTTGTCTTCAACCAGCTCCACTACAACCGAGAGAGGCAAGACTTGTGTCTTCGATCTGCTTC
*
30933628 GCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAACTCTGCTACAACCGAGAGAGGCAA
192 GCTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCTGCTACAACCGAGAGAGGCAA
30933693 GGTTTGTG
257 GGTTTGTG
* *
30933701 TCTTTGATCTGCTTCGCTGTCAATGCAGGAAGGCAATATCTGTTGTCTTTAACCAGCTTTGCTAC
1 TCTTTGATCTGCTTCGCTGTCAATGCAGGAAGGCAATATCTGTTGTCTTCAACCAGCTCTGCTAC
30933766 AACCGAGAGAGGCAAGGTTTGTGTCTTTGATCTGCTTCGCTGTCAATGCAAGAAGGCAAGATCTG
66 AACCGAGAGAGGCAAGGTTTGTGTCTTTGATCTGCTTCGCTGTCAATGCAAGAAGGCAAGATCTG
* *
30933831 TTGTATTCAACCAGCTCCACTACAACCGAGAGAGGCAAGGCTTGTGTCTTCGATCTGCTTCGCTG
131 TTGTCTTCAACCAGCTCCACTACAACCGAGAGAGGCAAGACTTGTGTCTTCGATCTGCTTCGCTG
** * ** **
30933896 TCAGGGTAGGAAGGCAAGATCTGTTGTCTTCAAATAGCTCTGCTACAACCGAGAGATACAAGGTT
196 TCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCTGCTACAACCGAGAGAGGCAAGGTT
30933961 TGTG
261 TGTG
* * **
30933965 TCTTTGATCTGCTTCGCTATCAATGCAGGAAGGCAATATCTGTTGTATTCAACCAGCTCCACTAC
1 TCTTTGATCTGCTTCGCTGTCAATGCAGGAAGGCAATATCTGTTGTCTTCAACCAGCTCTGCTAC
* * * * ** * * *
30934030 AACCGAGAGAGGCAAGGCTTGTGTCTTCGATTTGCTTCGTTGTCAGGGTAGGAAGACAAGATCTG
66 AACCGAGAGAGGCAAGGTTTGTGTCTTTGATCTGCTTCGCTGTCAATGCAAGAAGGCAAGATCTG
* ** ** ** * *
30934095 TTGTCTTCAAACAGCTCTGCTACAACCGAGAGATACAAGGTTTGTGTCTTTGATCTGCTTCGCTA
131 TTGTCTTCAACCAGCTCCACTACAACCGAGAGAGGCAAGACTTGTGTCTTCGATCTGCTTCGCTG
* *
30934160 TCAATGCAGGAAGACAAGATCTATTGTCTTCAACCAGCTCTGCTACAACCGAGAGAGGCAAGGTT
196 TCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCTGCTACAACCGAGAGAGGCAAGGTT
30934225 TGTG
261 TGTG
* * * *
30934229 TCTTCGATCTACTTCGCTGTCAATGCAAGAAGGCAAGATCTGTTGTCTTCAACCAGCTCTGCTAC
1 TCTTTGATCTGCTTCGCTGTCAATGCAGGAAGGCAATATCTGTTGTCTTCAACCAGCTCTGCTAC
* *
30934294 AACCGAGAGAGGTAAGGTTT-TGT-TTTCGATCTGCTTCGCTGTTAATGC-AGAAAGGCAAGATC
66 AACCGAGAGAGGCAAGGTTTGTGTCTTT-GATCTGCTTCGCTGTCAATGCAAG-AAGGCAAGATC
* * ** * * * * * *
30934356 TGCTATCTTTGACTAGCTCCACTGCAACCGATG-GAGGCAATACTT-TATTTTCAATCTGCTTCG
129 TGTTGTCTTCAACCAGCTCCACTACAACCGA-GAGAGGCAAGACTTGTGTCTTCGATCTGCTTCG
* * * * * ** * *
30934419 CTGTTAATGTAGGAAGGCAAGATCTGCTGTCCTCAACCGGCTCCACTGCAACTGATG-GAGGCAA
193 CTGTCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCTGCTACAACCGA-GAGAGGCAA
* *
30934483 GGATCTGTT
257 GG-TTTGTG
30934492 TCTTTGATCTG
1 TCTTTGATCTG
30934503 TTCTCTAGGG
Statistics
Matches: 669, Mismatches: 125, Indels: 18
0.82 0.15 0.02
Matches are distributed among these distances:
262 70 0.10
263 74 0.11
264 472 0.71
265 53 0.08
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.29
Consensus pattern (264 bp):
TCTTTGATCTGCTTCGCTGTCAATGCAGGAAGGCAATATCTGTTGTCTTCAACCAGCTCTGCTAC
AACCGAGAGAGGCAAGGTTTGTGTCTTTGATCTGCTTCGCTGTCAATGCAAGAAGGCAAGATCTG
TTGTCTTCAACCAGCTCCACTACAACCGAGAGAGGCAAGACTTGTGTCTTCGATCTGCTTCGCTG
TCAATGCAGGAAGGCAAGATCTGTTGTCTTCAACCAGCTCTGCTACAACCGAGAGAGGCAAGGTT
TGTG
Found at i:30935116 original size:108 final size:108
Alignment explanation
Indices: 30934927--30935122 Score: 286
Period size: 108 Copynumber: 1.8 Consensus size: 108
30934917 GAAAAATGCT
30934927 TGAAAAAGATTATCAAAATGGACAAAATGAAATTTTATTAAGAGCAAAGCTCTAAACAAACAAAT
1 TGAAAAAGATTATCAAAATGGACAAAATGAAATTTTATTAAGAGCAAAGCTCTAAACAAACAAAT
*
30934992 CAATCAAGACATCAAATTTTGCTGAGATACGAGATGTATAAGA
66 CAATCAAGACAGCAAATTTTGCTGAGATACGAGATGTATAAGA
* * * * * **
30935035 TGAAAAAGATTATCACAATGGATAAGATGGAAA-TTTGTTGAGAGCAAAGCTCTAAATGAACAAA
1 TGAAAAAGATTATCAAAATGGACAAAAT-GAAATTTTATTAAGAGCAAAGCTCTAAACAAACAAA
* *
30935099 TTAATCAAGATAGCAAATTTTGCT
65 TCAATCAAGACAGCAAATTTTGCT
30935123 AGAATACAAA
Statistics
Matches: 77, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
108 73 0.95
109 4 0.05
ACGTcount: A:0.47, C:0.11, G:0.16, T:0.26
Consensus pattern (108 bp):
TGAAAAAGATTATCAAAATGGACAAAATGAAATTTTATTAAGAGCAAAGCTCTAAACAAACAAAT
CAATCAAGACAGCAAATTTTGCTGAGATACGAGATGTATAAGA
Found at i:30935186 original size:45 final size:43
Alignment explanation
Indices: 30935088--30935188 Score: 112
Period size: 45 Copynumber: 2.3 Consensus size: 43
30935078 GCAAAGCTCT
* * *
30935088 AAATGAACAAATTAATCAAGATAGCAAATTTTGCTAGAATACA
1 AAATGAATAAATTAATCAAGATAGCAAATTTTGCAAAAATACA
* **
30935131 AAATGAGAATAAATTAATCAAGATGGCGTATTTTGTCAAAAATACAA
1 AAAT--GAATAAATTAATCAAGATAGCAAATTTTG-CAAAAATAC-A
30935178 AAATGAATAAA
1 AAATGAATAAA
30935189 ATAGAAATAG
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
43 4 0.08
45 32 0.67
46 7 0.15
47 5 0.10
ACGTcount: A:0.52, C:0.09, G:0.13, T:0.26
Consensus pattern (43 bp):
AAATGAATAAATTAATCAAGATAGCAAATTTTGCAAAAATACA
Found at i:30935482 original size:12 final size:12
Alignment explanation
Indices: 30935467--30935504 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
30935457 CATTTTTCTC
30935467 TTTTCTTTTCGT
1 TTTTCTTTTCGT
*
30935479 TTTTCTTTTCTT
1 TTTTCTTTTCGT
*
30935491 TTTTCTTTTTGT
1 TTTTCTTTTCGT
30935503 TT
1 TT
30935505 GTTTTTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.00, C:0.13, G:0.05, T:0.82
Consensus pattern (12 bp):
TTTTCTTTTCGT
Found at i:30935511 original size:24 final size:23
Alignment explanation
Indices: 30935459--30935511 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 23
30935449 TGGCCTCTCA
30935459 TTTTTCTCTTTTCTTTTCGTTTT
1 TTTTTCTCTTTTCTTTTCGTTTT
* *
30935482 TCTTTTCTTTTTTCTTTTTGTTTGT
1 T-TTTTCTCTTTTCTTTTCGTTT-T
30935507 TTTTT
1 TTTTT
30935512 TTTCTCAAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 1 0.04
24 23 0.88
25 2 0.08
ACGTcount: A:0.00, C:0.13, G:0.06, T:0.81
Consensus pattern (23 bp):
TTTTTCTCTTTTCTTTTCGTTTT
Found at i:30953345 original size:18 final size:18
Alignment explanation
Indices: 30953311--30953345 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
30953301 AAATTAATAA
*
30953311 TTATAATTATAATTTAAT
1 TTATAATTATAAGTTAAT
*
30953329 TTATAATTATTAGTTAA
1 TTATAATTATAAGTTAA
30953346 AATTTTGAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (18 bp):
TTATAATTATAAGTTAAT
Found at i:30953829 original size:19 final size:19
Alignment explanation
Indices: 30953793--30953829 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
30953783 GCTCTTACAA
* *
30953793 CTATTTGTTTTTTTTTTGT
1 CTATTTGTTATTTATTTGT
30953812 CTATTTGTTATTTATTTG
1 CTATTTGTTATTTATTTG
30953830 GTGTGGATGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.11, C:0.05, G:0.11, T:0.73
Consensus pattern (19 bp):
CTATTTGTTATTTATTTGT
Done.