Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 247 of 410
Found at i:76410120 original size:49 final size:49
Alignment explanation
Indices: 76410016--76410129 Score: 124
Period size: 49 Copynumber: 2.3 Consensus size: 49
76410006 ACATGGGAAG
** * * *
76410016 ACCACACATCCGTGTCTATTTAACAGATTGTAACATAGCCTAAGCCCAC
1 ACCACACGGCCGTGTCTATTTAACAGACTCTAACACAGCCTAAGCCCAC
* *
76410065 ACCACACGGCCGTGTCTATTTAGCAGACTCTAAACACGGCCTAAG-CCAC
1 ACCACACGGCCGTGTCTATTTAACAGACTCT-AACACAGCCTAAGCCCAC
*
76410114 -CTCACACGGGCGTGTC
1 AC-CACACGGCCGTGTC
76410130 ACACGGGCGT
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
48 1 0.02
49 43 0.78
50 11 0.20
ACGTcount: A:0.28, C:0.33, G:0.18, T:0.21
Consensus pattern (49 bp):
ACCACACGGCCGTGTCTATTTAACAGACTCTAACACAGCCTAAGCCCAC
Found at i:76410133 original size:13 final size:13
Alignment explanation
Indices: 76410115--76410142 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
76410105 CTAAGCCACC
76410115 TCACACGGGCGTG
1 TCACACGGGCGTG
76410128 TCACACGGGCGTG
1 TCACACGGGCGTG
76410141 TC
1 TC
76410143 CCTGTTGAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.14, C:0.32, G:0.36, T:0.18
Consensus pattern (13 bp):
TCACACGGGCGTG
Found at i:76411515 original size:24 final size:25
Alignment explanation
Indices: 76411488--76411539 Score: 97
Period size: 24 Copynumber: 2.1 Consensus size: 25
76411478 GTAATTAGGA
76411488 TGTAAATTTTTAGAAAT-GTCATTT
1 TGTAAATTTTTAGAAATGGTCATTT
76411512 TGTAAATTTTTAGAAATGGTCATTT
1 TGTAAATTTTTAGAAATGGTCATTT
76411537 TGT
1 TGT
76411540 GTATAATTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 17 0.63
25 10 0.37
ACGTcount: A:0.31, C:0.04, G:0.15, T:0.50
Consensus pattern (25 bp):
TGTAAATTTTTAGAAATGGTCATTT
Found at i:76411549 original size:25 final size:24
Alignment explanation
Indices: 76411488--76411549 Score: 61
Period size: 24 Copynumber: 2.5 Consensus size: 24
76411478 GTAATTAGGA
**
76411488 TGTAAATTTTTAGAAATGTCATTT
1 TGTAAATAATTAGAAATGTCATTT
**
76411512 TGTAAATTTTTAGAAATGGTCATTT
1 TGTAAATAATTAGAAAT-GTCATTT
**
76411537 TGTGTATAATTAG
1 TGTAAATAATTAG
76411550 TTCCTTTTGA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
24 17 0.52
25 16 0.48
ACGTcount: A:0.32, C:0.03, G:0.16, T:0.48
Consensus pattern (24 bp):
TGTAAATAATTAGAAATGTCATTT
Found at i:76419725 original size:40 final size:40
Alignment explanation
Indices: 76419598--76419727 Score: 129
Period size: 40 Copynumber: 3.2 Consensus size: 40
76419588 ATGCTGGAAA
* * * *
76419598 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
76419638 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
* *
76419678 TTCTATCCGGGCCAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
76419718 TTATATCCGG
1 TTATATCCGG
76419728 TTATATTCCG
Statistics
Matches: 70, Mismatches: 18, Indels: 4
0.76 0.20 0.04
Matches are distributed among these distances:
39 2 0.03
40 68 0.97
ACGTcount: A:0.25, C:0.25, G:0.28, T:0.23
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:76421690 original size:80 final size:80
Alignment explanation
Indices: 76421606--76421754 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
76421596 TATGGTAACC
* * * *
76421606 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
76421670 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
76421686 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
76421751 CCGG
66 CCGG
76421755 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:76421696 original size:40 final size:38
Alignment explanation
Indices: 76421647--76421754 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
76421637 ATCACGATTT
*
76421647 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
76421687 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
76421727 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
76421755 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:76429811 original size:40 final size:38
Alignment explanation
Indices: 76429762--76429869 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
76429752 ATCACGATTT
*
76429762 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
76429802 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
76429842 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
76429870 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:76429831 original size:80 final size:80
Alignment explanation
Indices: 76429721--76429869 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
76429711 TATGGTAACC
* * * *
76429721 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
76429785 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
76429801 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
76429866 CCGG
66 CCGG
76429870 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:76439428 original size:22 final size:23
Alignment explanation
Indices: 76439403--76439448 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
76439393 CAACCAAATC
76439403 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
76439425 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
76439448 A
1 A
76439449 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:76439454 original size:23 final size:23
Alignment explanation
Indices: 76439410--76439454 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
76439400 ATCAATTCAA
*
76439410 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
76439433 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
76439455 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:76450454 original size:40 final size:39
Alignment explanation
Indices: 76450363--76450473 Score: 127
Period size: 40 Copynumber: 2.8 Consensus size: 39
76450353 ATAACCATGT
* *
76450363 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
*
76450403 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTA-GCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATAGAATG--ACTA
*
76450443 GCACAATTGCCTTCGGGTCTTAACCCGGATA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATA
76450474 TAATTTCCAG
Statistics
Matches: 62, Mismatches: 5, Indels: 7
0.84 0.07 0.09
Matches are distributed among these distances:
38 1 0.02
39 4 0.06
40 57 0.92
ACGTcount: A:0.22, C:0.29, G:0.25, T:0.24
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTA
Found at i:76450497 original size:80 final size:80
Alignment explanation
Indices: 76450363--76450512 Score: 196
Period size: 80 Copynumber: 1.9 Consensus size: 80
76450353 ATAACCATGT
* * *
76450363 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATACCTTCGGGGCTTAGCC
76450428 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * * * *
76450443 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTATCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TACCTTCGGGGCTTAG
76450506 CCCGGAT
64 CCCGGAT
76450513 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
79 3 0.05
80 57 0.95
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATACCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:76463244 original size:18 final size:17
Alignment explanation
Indices: 76463191--76463245 Score: 65
Period size: 19 Copynumber: 3.1 Consensus size: 17
76463181 TGAATAAATT
76463191 ACTCATCTTAGTTAAGTGA
1 ACTCATCTTAGTTAA-T-A
**
76463210 GTTCATCTTAGTTAATA
1 ACTCATCTTAGTTAATA
76463227 ACTCATCTTAGATTAATA
1 ACTCATCTTAG-TTAATA
76463245 A
1 A
76463246 ATGAGTTGCT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
17 10 0.32
18 8 0.26
19 13 0.42
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.40
Consensus pattern (17 bp):
ACTCATCTTAGTTAATA
Found at i:76467732 original size:19 final size:19
Alignment explanation
Indices: 76467703--76467753 Score: 84
Period size: 19 Copynumber: 2.7 Consensus size: 19
76467693 AATAAATTAC
76467703 TCATCTTAGTTAATTGAGT
1 TCATCTTAGTTAATTGAGT
* *
76467722 TTATTTTAGTTAATTGAGT
1 TCATCTTAGTTAATTGAGT
76467741 TCATCTTAGTTAA
1 TCATCTTAGTTAA
76467754 CAACTAATCT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.27, C:0.08, G:0.14, T:0.51
Consensus pattern (19 bp):
TCATCTTAGTTAATTGAGT
Found at i:76475191 original size:29 final size:29
Alignment explanation
Indices: 76475159--76475290 Score: 246
Period size: 29 Copynumber: 4.5 Consensus size: 29
76475149 ATAGTGAATC
76475159 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
76475188 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
76475218 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
76475247 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
76475276 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
76475291 GTACAATTTT
Statistics
Matches: 101, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
29 72 0.71
30 29 0.29
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:76475300 original size:59 final size:59
Alignment explanation
Indices: 76475159--76475290 Score: 248
Period size: 59 Copynumber: 2.3 Consensus size: 59
76475149 ATAGTGAATC
76475159 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
*
76475218 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATAT-ATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
76475276 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
76475291 GTACAATTTT
Statistics
Matches: 72, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
58 24 0.33
59 48 0.67
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (59 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:76477718 original size:71 final size:71
Alignment explanation
Indices: 76477635--76477798 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
76477625 CGATTTGTCT
*
76477635 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGTGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
76477700 CTTTCA
66 CTTTCA
76477706 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
76477771 CTTTCA
66 CTTTCA
76477777 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
76477799 GATACATCTC
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 92 1.00
ACGTcount: A:0.19, C:0.27, G:0.18, T:0.36
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:76477836 original size:71 final size:70
Alignment explanation
Indices: 76477635--76477832 Score: 267
Period size: 71 Copynumber: 2.8 Consensus size: 70
76477625 CGATTTGTCT
* * *
76477635 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGTGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGTGACCTAGCTACATTTAT
76477700 CTTTCA
65 CTTTCA
* * * *
76477706 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACGCATGTGACCTAGCTACATTTAT
76477771 CTTTCA
65 CTTTCA
* *
76477777 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACGCATGTGACCTAGCTAC
76477833 TACAGGGTGT
Statistics
Matches: 119, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 95 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACGCATGTGACCTAGCTACATTTATC
TTTCA
Found at i:76485507 original size:29 final size:29
Alignment explanation
Indices: 76485475--76485606 Score: 246
Period size: 29 Copynumber: 4.5 Consensus size: 29
76485465 ATAGTGAATC
76485475 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
76485504 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAT-ATTTTCAGCT
76485534 CGCACACTTAGTGCTATATATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCT
*
76485563 CGCACACTTAGTGCTATATATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCT
76485592 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
76485607 GTACAATTTT
Statistics
Matches: 101, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
29 72 0.71
30 29 0.29
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATATTTTCAGCT
Found at i:76485616 original size:59 final size:59
Alignment explanation
Indices: 76485475--76485606 Score: 248
Period size: 59 Copynumber: 2.3 Consensus size: 59
76485465 ATAGTGAATC
76485475 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
*
76485534 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATAT-ATTTTCAGTT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
76485592 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
76485607 GTACAATTTT
Statistics
Matches: 72, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
58 24 0.33
59 48 0.67
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.37
Consensus pattern (59 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:76492568 original size:28 final size:29
Alignment explanation
Indices: 76492536--76492649 Score: 126
Period size: 29 Copynumber: 4.0 Consensus size: 29
76492526 TATCTATATC
* * *
76492536 TGGCCCATTAAG-CCAAGTCATATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
*
76492564 TGGCCCATTAGGCCCAAATCACCTGT-ATA
1 TGGCCCATTAGGCCCAAATCACAT-TCATA
* *
76492593 TGGCCCATTGGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
* *
76492622 TGGCCCGTTAGGCCC-AGTCACATTCATA
1 TGGCCCATTAGGCCCAAATCACATTCATA
76492650 ATCATGCTCA
Statistics
Matches: 73, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
28 23 0.32
29 49 0.67
30 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (29 bp):
TGGCCCATTAGGCCCAAATCACATTCATA
Found at i:76492882 original size:16 final size:16
Alignment explanation
Indices: 76492841--76492878 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
76492831 GTAGCCAAAC
76492841 TTTCGGCTTTTTGGCA
1 TTTCGGCTTTTTGGCA
**
76492857 TTTCAACTTTTTGGCA
1 TTTCGGCTTTTTGGCA
76492873 -TTCGGC
1 TTTCGGC
76492879 CTTTGCCGAT
Statistics
Matches: 18, Mismatches: 4, Indels: 1
0.78 0.17 0.04
Matches are distributed among these distances:
15 4 0.22
16 14 0.78
ACGTcount: A:0.11, C:0.21, G:0.21, T:0.47
Consensus pattern (16 bp):
TTTCGGCTTTTTGGCA
Found at i:76492968 original size:38 final size:38
Alignment explanation
Indices: 76492917--76492996 Score: 142
Period size: 38 Copynumber: 2.1 Consensus size: 38
76492907 GTATGTACAC
76492917 ACCTGGTAAGCAAGCATGCTGCGATTCCCTTAGTCCAA
1 ACCTGGTAAGCAAGCATGCTGCGATTCCCTTAGTCCAA
* *
76492955 ACCTGGTAAGCAAGCGTGCTGTGATTCCCTTAGTCCAA
1 ACCTGGTAAGCAAGCATGCTGCGATTCCCTTAGTCCAA
76492993 ACCT
1 ACCT
76492997 ACAAACGATA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (38 bp):
ACCTGGTAAGCAAGCATGCTGCGATTCCCTTAGTCCAA
Found at i:76501717 original size:6 final size:6
Alignment explanation
Indices: 76501690--76501736 Score: 51
Period size: 6 Copynumber: 7.7 Consensus size: 6
76501680 CATATATGTT
* *
76501690 TCTGTAA TCTGAA TCT-AGA TCTGAA TCTGAA TTTGAA TCTGTA TCTG
1 TCTG-AA TCTGAA TCTGA-A TCTGAA TCTGAA TCTGAA TCTGAA TCTG
76501737 CTTCTGACCG
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
5 1 0.03
6 29 0.83
7 5 0.14
ACGTcount: A:0.28, C:0.15, G:0.17, T:0.40
Consensus pattern (6 bp):
TCTGAA
Found at i:76503726 original size:18 final size:18
Alignment explanation
Indices: 76503705--76503741 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
76503695 TGATTTGGAC
76503705 TAAGTCTTTGATACTTGA
1 TAAGTCTTTGATACTTGA
76503723 TAAGTCTTTGATACTTGA
1 TAAGTCTTTGATACTTGA
76503741 T
1 T
76503742 GACATTGAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.11, G:0.16, T:0.46
Consensus pattern (18 bp):
TAAGTCTTTGATACTTGA
Found at i:76517679 original size:24 final size:24
Alignment explanation
Indices: 76517634--76517679 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
76517624 ATATACAATG
* * *
76517634 CAATCATTCTTTAATTCATTCATT
1 CAATCAATCATTAATACATTCATT
*
76517658 CAATCAATCATTAATACTTTCA
1 CAATCAATCATTAATACATTCA
76517680 ACATTCTATT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.35, C:0.22, G:0.00, T:0.43
Consensus pattern (24 bp):
CAATCAATCATTAATACATTCATT
Found at i:76525076 original size:37 final size:37
Alignment explanation
Indices: 76525023--76525125 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
76525013 CGAATAGTCC
*
76525023 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
76525060 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
76525097 CCACATGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
76525126 ATATATTTCC
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.24
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:76525324 original size:48 final size:48
Alignment explanation
Indices: 76525266--76525618 Score: 652
Period size: 48 Copynumber: 7.4 Consensus size: 48
76525256 ATATACACAC
* *
76525266 ATCTCCTACATATTTCACACTAGCCATTCGGTTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
76525314 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
76525362 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
76525410 ATCTCATTCATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
76525458 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
76525506 ATCTCATACATATTTCACACTAGCCACTCAGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
76525554 ATCTCATTCATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
76525602 ATCTCATACATATTTCA
1 ATCTCATACATATTTCA
76525619 TATACATATC
Statistics
Matches: 295, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 295 1.00
ACGTcount: A:0.31, C:0.29, G:0.06, T:0.34
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:76525612 original size:11 final size:11
Alignment explanation
Indices: 76525596--76525638 Score: 59
Period size: 11 Copynumber: 3.7 Consensus size: 11
76525586 TTTACCACAT
76525596 ATACATATCTC
1 ATACATATCTC
*
76525607 ATACATATTTC
1 ATACATATCTC
76525618 ATATACATATCTC
1 --ATACATATCTC
76525631 ATACATAT
1 ATACATAT
76525639 TTCACACTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 18 0.64
13 10 0.36
ACGTcount: A:0.40, C:0.21, G:0.00, T:0.40
Consensus pattern (11 bp):
ATACATATCTC
Found at i:76525625 original size:24 final size:24
Alignment explanation
Indices: 76525593--76525642 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
76525583 GGCTTTACCA
76525593 CATATACATATCTCATACATATTT
1 CATATACATATCTCATACATATTT
76525617 CATATACATATCTCATACATATTT
1 CATATACATATCTCATACATATTT
76525641 CA
1 CA
76525643 CACTAGCCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.38, C:0.22, G:0.00, T:0.40
Consensus pattern (24 bp):
CATATACATATCTCATACATATTT
Found at i:76525643 original size:120 final size:120
Alignment explanation
Indices: 76525497--76525714 Score: 384
Period size: 120 Copynumber: 1.8 Consensus size: 120
76525487 GGCTTTACCA
76525497 CATATACATATCTCATACATATTTCACACTAGCCACTCAGCTTTACCACATATACATATCTCAT-
1 CATATACATATCTCATACATATTTCACACTAGCCACTCAGCTTTACCACATATACATATCTCATA
76525561 TCATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTT
66 T-ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTT
* * *
76525617 CATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACTACATATACATATCTCATA
1 CATATACATATCTCATACATATTTCACACTAGCCACTCAGCTTTACCACATATACATATCTCATA
*
76525682 TATATTTCACATTAGCCATTCGGCTTTACCACA
66 TATATTTCACACTAGCCATTCGGCTTTACCACA
76525715 CACATATATA
Statistics
Matches: 93, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
120 92 0.99
121 1 0.01
ACGTcount: A:0.32, C:0.28, G:0.05, T:0.35
Consensus pattern (120 bp):
CATATACATATCTCATACATATTTCACACTAGCCACTCAGCTTTACCACATATACATATCTCATA
TATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTT
Found at i:76525688 original size:48 final size:48
Alignment explanation
Indices: 76525617--76525710 Score: 170
Period size: 48 Copynumber: 2.0 Consensus size: 48
76525607 ATACATATTT
76525617 CATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACTA
1 CATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACTA
* *
76525665 CATATACATATCTCATATATATTTCACATTAGCCATTCGGCTTTAC
1 CATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTAC
76525711 CACACACATA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.37
Consensus pattern (48 bp):
CATATACATATCTCATACATATTTCACACTAGCCATTCGGCTTTACTA
Found at i:76528084 original size:13 final size:13
Alignment explanation
Indices: 76528054--76528078 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
76528044 CTAAATCATA
76528054 ATTTTAGTAAAAT
1 ATTTTAGTAAAAT
76528067 ATTTTAGTAAAA
1 ATTTTAGTAAAA
76528079 CTTTTTTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (13 bp):
ATTTTAGTAAAAT
Found at i:76528534 original size:21 final size:21
Alignment explanation
Indices: 76528509--76528550 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
76528499 GCATGAATTA
76528509 ATTAT-TTGTATTTATTAAAAT
1 ATTATATT-TATTTATTAAAAT
*
76528530 ATTATATTTATTTATTTAAAT
1 ATTATATTTATTTATTAAAAT
76528551 TTTTTATACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
ATTATATTTATTTATTAAAAT
Found at i:76528653 original size:73 final size:75
Alignment explanation
Indices: 76528519--76528667 Score: 230
Period size: 73 Copynumber: 2.0 Consensus size: 75
76528509 ATTATTTGTA
**
76528519 TTTATTAAAATATTATATTTATTTATTTAAATTTTTTATACAAAAACTTTTGGTATTTAATAATT
1 TTTATTAAAATATTATATTTATTTATTTAAATTTTTTATACAAAAACTTTCAGTATTTAATAATT
76528584 AGAATCACTT
66 AGAATCACTT
* * * *
76528594 TTTATTAGAATGTTATATTTA-TTATTTAAATTTTTTGTA-TAAAACTTTCAGTATTTAATAATT
1 TTTATTAAAATATTATATTTATTTATTTAAATTTTTTATACAAAAACTTTCAGTATTTAATAATT
76528657 AGAATCACTT
66 AGAATCACTT
76528667 T
1 T
76528668 AATAAACCAA
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
73 32 0.47
74 17 0.25
75 19 0.28
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.52
Consensus pattern (75 bp):
TTTATTAAAATATTATATTTATTTATTTAAATTTTTTATACAAAAACTTTCAGTATTTAATAATT
AGAATCACTT
Found at i:76529830 original size:2 final size:2
Alignment explanation
Indices: 76529812--76529848 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
76529802 TATTAAAATT
* *
76529812 TA TA TA CA TA TA CA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
76529849 TCACTTGATA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:76537552 original size:46 final size:46
Alignment explanation
Indices: 76537485--76537613 Score: 231
Period size: 46 Copynumber: 2.8 Consensus size: 46
76537475 TGTAACCCGC
* * *
76537485 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
76537531 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
76537577 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
76537614 TGCCCAAATA
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 80 1.00
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:76540040 original size:30 final size:30
Alignment explanation
Indices: 76539996--76540084 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
76539986 CAAAGATAAC
76539996 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
76540025 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
76540055 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
76540085 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:76540044 original size:15 final size:15
Alignment explanation
Indices: 76539996--76540075 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
76539986 CAAAGATAAC
*
76539996 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
76540010 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
76540025 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
76540040 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
76540055 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
76540070 AAGAAA
1 AAGAAA
76540076 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:76540084 original size:15 final size:15
Alignment explanation
Indices: 76540007--76540084 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
76539997 AGAAAACCGA
76540007 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
76540022 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
76540036 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
76540051 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
76540067 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
76540082 ATA
1 ATA
76540085 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:76543146 original size:93 final size:93
Alignment explanation
Indices: 76543034--76543205 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
76543024 GCCCATAAGT
* *
76543034 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
76543099 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
76543127 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
76543192 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
76543206 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:76543201 original size:46 final size:46
Alignment explanation
Indices: 76543026--76543201 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
76543016 TGTAACCCGC
* * *
76543026 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
76543072 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
76543122 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
76543165 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
76543202 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:76544635 original size:21 final size:21
Alignment explanation
Indices: 76544611--76544664 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
76544601 TATAGGGGTC
76544611 ACACGCCCGTGTAGCCAAGGG
1 ACACGCCCGTGTAGCCAAGGG
*
76544632 ACACGCCTGTGTAGCCAAGGG
1 ACACGCCCGTGTAGCCAAGGG
76544653 ACACGCCCGTGT
1 ACACGCCCGTGT
76544665 GGTCCCATGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.22, C:0.33, G:0.31, T:0.13
Consensus pattern (21 bp):
ACACGCCCGTGTAGCCAAGGG
Found at i:76545760 original size:21 final size:21
Alignment explanation
Indices: 76545694--76545760 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 21
76545684 ACATAAATGC
*
76545694 TAAATGGAAACCCATAAGGGT
1 TAAACGGAAACCCATAAGGGT
* * * * * * *
76545715 TGAACAGAAGCTCGTAAGAGC
1 TAAACGGAAACCCATAAGGGT
76545736 TAAACGGAAACCCATAAGGGT
1 TAAACGGAAACCCATAAGGGT
76545757 TAAA
1 TAAA
76545761 TTGAAACTGA
Statistics
Matches: 31, Mismatches: 15, Indels: 0
0.67 0.33 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.43, C:0.16, G:0.24, T:0.16
Consensus pattern (21 bp):
TAAACGGAAACCCATAAGGGT
Found at i:76550303 original size:14 final size:15
Alignment explanation
Indices: 76550286--76550319 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
76550276 AAAAGACTAT
*
76550286 AAATAAAA-TTATAA
1 AAATAAAATTTACAA
76550300 AAATAAAATTTACAA
1 AAATAAAATTTACAA
76550315 AAATA
1 AAATA
76550320 TGATAATTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (15 bp):
AAATAAAATTTACAA
Found at i:76551266 original size:18 final size:17
Alignment explanation
Indices: 76551239--76551272 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
76551229 ATTTTTCCAA
76551239 TTTCTTTATATATTTAT
1 TTTCTTTATATATTTAT
*
76551256 TTTCATTTATATTTTTA
1 TTTC-TTTATATATTTA
76551273 ATGTGTATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTCTTTATATATTTAT
Found at i:76552296 original size:39 final size:39
Alignment explanation
Indices: 76552218--76552298 Score: 92
Period size: 39 Copynumber: 2.1 Consensus size: 39
76552208 GAAATTCAAA
*
76552218 AAAAAATTTATAAAATATTATAAAAATCGTGAAAAATAT
1 AAAAAATTTATAAAATATTATAAAAATAGTGAAAAATAT
* * * **
76552257 AAAAAATTTA-AAATTCATTATCAAAATATTGAATGATAT
1 AAAAAATTTATAAAAT-ATTATAAAAATAGTGAAAAATAT
76552296 AAA
1 AAA
76552299 TATAAAAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
38 4 0.11
39 31 0.89
ACGTcount: A:0.59, C:0.04, G:0.05, T:0.32
Consensus pattern (39 bp):
AAAAAATTTATAAAATATTATAAAAATAGTGAAAAATAT
Found at i:76557256 original size:20 final size:18
Alignment explanation
Indices: 76557211--76557248 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
76557201 GAAAGGCTGA
*
76557211 GAAAGAAAAGGGAATTGG
1 GAAAGAAAAGGGAATGGG
76557229 GAAAGAAAAGGGAATCGGG
1 GAAAGAAAAGGGAAT-GGG
76557248 G
1 G
76557249 GAGAGAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.47, C:0.03, G:0.42, T:0.08
Consensus pattern (18 bp):
GAAAGAAAAGGGAATGGG
Found at i:76557497 original size:40 final size:40
Alignment explanation
Indices: 76557414--76557497 Score: 134
Period size: 40 Copynumber: 2.1 Consensus size: 40
76557404 ATAAATTACT
*
76557414 TTTTGCGGCGTTTTTATCATAAACGCCGCTATTGATTGCC
1 TTTTGCGGCGTTTTTATCATAAACGCCGCTATTGATTGAC
*
76557454 TTTTGCGGCGTTTTTATCATAAACGCCGCTAATT-TTTGAC
1 TTTTGCGGCGTTTTTATCATAAACGCCGCT-ATTGATTGAC
76557494 TTTT
1 TTTT
76557498 TTATAATTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
40 38 0.93
41 3 0.07
ACGTcount: A:0.18, C:0.20, G:0.18, T:0.44
Consensus pattern (40 bp):
TTTTGCGGCGTTTTTATCATAAACGCCGCTATTGATTGAC
Found at i:76557520 original size:22 final size:21
Alignment explanation
Indices: 76557495--76557552 Score: 73
Period size: 22 Copynumber: 2.7 Consensus size: 21
76557485 ATTTTTGACT
76557495 TTTTTATAATTTTTATATTGAA
1 TTTTTATAATTTTTATATT-AA
76557517 TTTTTAT-ATCTTTTATATTAA
1 TTTTTATAAT-TTTTATATTAA
*
76557538 TTTTAAATAATTTTT
1 TTTT-TATAATTTTT
76557553 TTAAAAATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
21 8 0.25
22 22 0.69
23 2 0.06
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (21 bp):
TTTTTATAATTTTTATATTAA
Found at i:76557944 original size:15 final size:15
Alignment explanation
Indices: 76557909--76557950 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 15
76557899 AGAAATTTTT
76557909 TTTATTAATATATAAA
1 TTTATTAATATAT-AA
76557925 TTTA--AA-ATATAA
1 TTTATTAATATATAA
76557937 TTTATTAATATATA
1 TTTATTAATATATA
76557951 TATATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
12 6 0.26
13 4 0.17
14 4 0.17
15 5 0.22
16 4 0.17
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TTTATTAATATATAA
Found at i:76557951 original size:2 final size:2
Alignment explanation
Indices: 76557944--76557978 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
76557934 TAATTTATTA
76557944 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
76557979 AGTAAACTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:76558154 original size:15 final size:14
Alignment explanation
Indices: 76558124--76558176 Score: 61
Period size: 14 Copynumber: 3.7 Consensus size: 14
76558114 CCAGAAAAGT
*
76558124 AAATCATTTTCCAG
1 AAATCATTTTCAAG
76558138 AAATCATTTTTCAAG
1 AAATCA-TTTTCAAG
* *
76558153 AAATTATTTTCTAG
1 AAATCATTTTCAAG
*
76558167 AAAACATTTT
1 AAATCATTTT
76558177 ACCTGCAAAC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
14 21 0.64
15 12 0.36
ACGTcount: A:0.40, C:0.13, G:0.06, T:0.42
Consensus pattern (14 bp):
AAATCATTTTCAAG
Found at i:76558344 original size:7 final size:7
Alignment explanation
Indices: 76558318--76558444 Score: 51
Period size: 7 Copynumber: 17.7 Consensus size: 7
76558308 AATCATACAA
76558318 CATAACC
1 CATAACC
* *
76558325 CTTAAATC
1 CAT-AACC
76558333 CATAACC
1 CATAACC
76558340 CATAATCC
1 CATAA-CC
76558348 C-TAACC
1 CATAACC
76558354 CATAACCC
1 CATAA-CC
* *
76558362 CTTAAAC
1 CATAACC
*
76558369 CTTAAACC
1 CAT-AACC
*
76558377 C-CAACC
1 CATAACC
* *
76558383 CTTAAAC
1 CATAACC
*
76558390 CATAAAC
1 CATAACC
** *
76558397 TGTAAAC
1 CATAACC
*
76558404 CATAATC
1 CATAACC
*
76558411 CATAATC
1 CATAACC
76558418 CATAAACC
1 CAT-AACC
*
76558426 CATAATC
1 CATAACC
*
76558433 CATAATC
1 CATAACC
76558440 CATAA
1 CATAA
76558445 ACCTTAAAAT
Statistics
Matches: 95, Mismatches: 18, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
6 8 0.08
7 63 0.66
8 24 0.25
ACGTcount: A:0.43, C:0.35, G:0.01, T:0.22
Consensus pattern (7 bp):
CATAACC
Found at i:76558352 original size:29 final size:28
Alignment explanation
Indices: 76558320--76558430 Score: 78
Period size: 29 Copynumber: 3.9 Consensus size: 28
76558310 TCATACAACA
* *
76558320 TAACCCTTAAATCCATAACCCATAATCCC
1 TAACCCTTAAA-CCATAAACCATAAACCC
* * * *
76558349 TAACCCATAACCCCTTAAACCTTAAACCC
1 TAACCCTTAA-ACCATAAACCATAAACCC
* ** *
76558378 CAACCCTTAAACCATAAACTGTAAACCA
1 TAACCCTTAAACCATAAACCATAAACCC
* * *
76558406 TAATCCATAATCCATAAACCCATAA
1 TAACCCTTAAACCATAAA-CCATAA
76558431 TCCATAATCC
Statistics
Matches: 61, Mismatches: 19, Indels: 4
0.73 0.23 0.05
Matches are distributed among these distances:
28 27 0.44
29 34 0.56
ACGTcount: A:0.42, C:0.35, G:0.01, T:0.22
Consensus pattern (28 bp):
TAACCCTTAAACCATAAACCATAAACCC
Found at i:76558431 original size:22 final size:22
Alignment explanation
Indices: 76558329--76558447 Score: 91
Period size: 22 Copynumber: 5.5 Consensus size: 22
76558319 ATAACCCTTA
*
76558329 AATCCAT-AACCCATAATCCCT
1 AATCCATAAACCCATAATCCAT
* * * * *
76558350 AACCCATAACCCCTTAAACCTT
1 AATCCATAAACCCATAATCCAT
* ** * *
76558372 AAACC-CCAACCCTTAAACCAT
1 AATCCATAAACCCATAATCCAT
* **
76558393 AAACTGTAAA-CCATAATCCAT
1 AATCCATAAACCCATAATCCAT
76558414 AATCCATAAACCCATAATCCAT
1 AATCCATAAACCCATAATCCAT
76558436 AATCCATAAACC
1 AATCCATAAACC
76558448 TTAAAATAGT
Statistics
Matches: 77, Mismatches: 18, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
21 38 0.49
22 39 0.51
ACGTcount: A:0.43, C:0.35, G:0.01, T:0.21
Consensus pattern (22 bp):
AATCCATAAACCCATAATCCAT
Found at i:76558757 original size:24 final size:24
Alignment explanation
Indices: 76558730--76558778 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
76558720 TTAAAATAAC
*
76558730 AATTAATTTTTATATAGACTTTTA
1 AATTAATTTTTATATAAACTTTTA
76558754 AATTAATTTTTATATAAACTTTTA
1 AATTAATTTTTATATAAACTTTTA
76558778 A
1 A
76558779 TAAATATACG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.53
Consensus pattern (24 bp):
AATTAATTTTTATATAAACTTTTA
Found at i:76559448 original size:40 final size:41
Alignment explanation
Indices: 76559395--76559481 Score: 115
Period size: 40 Copynumber: 2.1 Consensus size: 41
76559385 AGTTATATGA
76559395 GTTTTAGCGGCG-TTTTACCAAAAGCGCCGCTATTGCTCAGT
1 GTTTTAGCGGCGTTTTTACCAAAA-CGCCGCTATTGCTCAGT
*** *
76559436 -TTTTAGCGGCGTTTTTGGTAAAACGCCGCTATTGCTCTGT
1 GTTTTAGCGGCGTTTTTACCAAAACGCCGCTATTGCTCAGT
76559476 GTTTTA
1 GTTTTA
76559482 CAATTTTTGC
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
40 27 0.68
41 13 0.32
ACGTcount: A:0.17, C:0.21, G:0.24, T:0.38
Consensus pattern (41 bp):
GTTTTAGCGGCGTTTTTACCAAAACGCCGCTATTGCTCAGT
Found at i:76561990 original size:42 final size:42
Alignment explanation
Indices: 76561931--76562042 Score: 161
Period size: 43 Copynumber: 2.6 Consensus size: 42
76561921 TGAGTTTACG
**
76561931 TGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTCA
1 TGTAAGACCATATCTGGGATATGGCATCGATATGAGATCCCA
* * * *
76561973 TGTAAGACCATAGCTGGGCTATTAGCATCGATCTGAGATCCCA
1 TGTAAGACCATATCTGGGATA-TGGCATCGATATGAGATCCCA
76562016 TGTAAGACCATATCTGGGATATGGCAT
1 TGTAAGACCATATCTGGGATATGGCAT
76562043 TGGTATGGTA
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
42 24 0.40
43 36 0.60
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCGATATGAGATCCCA
Found at i:76565282 original size:36 final size:36
Alignment explanation
Indices: 76565235--76565307 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
76565225 CAGGGCACTT
*
76565235 AATCAAGGAACACACTCTTGAGCCACATATCGTATA
1 AATCAAGGAACACACTCTTGAGCCACATATCGAATA
76565271 AATCAAGGAACACACTCTTGAGCCACATATCGAATA
1 AATCAAGGAACACACTCTTGAGCCACATATCGAATA
76565307 A
1 A
76565308 CAGGATTACC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.41, C:0.25, G:0.14, T:0.21
Consensus pattern (36 bp):
AATCAAGGAACACACTCTTGAGCCACATATCGAATA
Found at i:76570510 original size:27 final size:26
Alignment explanation
Indices: 76570475--76570586 Score: 143
Period size: 27 Copynumber: 4.2 Consensus size: 26
76570465 AGTACGGCTG
* *
76570475 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
76570501 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
76570529 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
76570556 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
76570583 CCAG
1 CCAG
76570587 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
26 6 0.08
27 53 0.70
28 17 0.22
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:76570567 original size:54 final size:54
Alignment explanation
Indices: 76570475--76570586 Score: 163
Period size: 54 Copynumber: 2.1 Consensus size: 54
76570465 AGTACGGCTG
* *
76570475 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
* * *
76570529 CCAGAACAGAAATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGAAA-ATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
76570583 CCAG
1 CCAG
76570587 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
54 34 0.65
55 18 0.35
ACGTcount: A:0.38, C:0.23, G:0.24, T:0.15
Consensus pattern (54 bp):
CCAGAACAGAAAATGTGACAGAGCCACCAGATACAGATAATCGTGGCAGAGCCA
Found at i:76575943 original size:6 final size:6
Alignment explanation
Indices: 76575934--76575958 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
76575924 TCGACCTCGA
76575934 CCATTT CCATTT CCATTT CCATTT C
1 CCATTT CCATTT CCATTT CCATTT C
76575959 TGCCCCTACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.36, G:0.00, T:0.48
Consensus pattern (6 bp):
CCATTT
Found at i:76578025 original size:40 final size:39
Alignment explanation
Indices: 76577980--76578185 Score: 209
Period size: 40 Copynumber: 5.2 Consensus size: 39
76577970 CGGAATACAA
* *
76577980 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACTAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
76578020 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACTAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
76578060 CCGGAT-TTACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACTAC-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
76578099 CCGGATGT-AGTACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACTACT-GCACAAATGCCTTCGGGTCTTAGC
* * * *
76578138 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACTACT-GCACAAATGCCTTCGGGTCTTAGC
76578178 CCGGATAT
1 CCGGATAT
76578186 CATTCAATTG
Statistics
Matches: 141, Mismatches: 22, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
38 1 0.01
39 65 0.46
40 75 0.53
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACTACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:76578086 original size:39 final size:39
Alignment explanation
Indices: 76577995--76578183 Score: 193
Period size: 39 Copynumber: 4.8 Consensus size: 39
76577985 TATAACCACA
* *
76577995 TGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACGACT
1 TGCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTACAACT
* * *
76578035 TGCACAAATGCCTTCGGGTATTAGCCCGGATTTACAACT
1 TGCACGAATGCCTTCGGGTCTTAGCCCGGATGTACAACT
**
76578074 TGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGTACT
1 TGCACGAATGCCTTCGGGTCTTAGCCCGGATGTACAACT
* * *
76578113 AGCAC-AATTGCCTTCGGGTCTTAACCCGGATATA-ATTACT
1 TGCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTACA--ACT
* ** * *
76578153 AGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 TGCACGAATGCCTTCGGGTCTTAGCCCGGAT
76578184 ATCATTCAAT
Statistics
Matches: 127, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
38 2 0.02
39 67 0.53
40 56 0.44
41 2 0.02
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (39 bp):
TGCACGAATGCCTTCGGGTCTTAGCCCGGATGTACAACT
Found at i:76578098 original size:79 final size:79
Alignment explanation
Indices: 76577980--76578184 Score: 236
Period size: 79 Copynumber: 2.6 Consensus size: 79
76577970 CGGAATACAA
* * *
76577980 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAACG-ACTTGCACAAAT
1 CCGGATATAA-TACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAA-GTACTAGCACAAAT
*
76578044 GCCTTCGGGTATTAGC
64 GCCTTCGGGTATTAAC
* * *
76578060 CCGGATTTACA-ACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTAGTACTAGCACAATTG
1 CCGGATATA-ATACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAAGTACTAGCACAAATG
*
76578123 CCTTCGGGTCTTAAC
65 CCTTCGGGTATTAAC
* ** * *
76578138 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGATA
1 CCGGATATAA-TACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATA
76578185 TCATTCAATT
Statistics
Matches: 107, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
77 2 0.02
78 34 0.32
79 62 0.58
80 8 0.07
81 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (79 bp):
CCGGATATAATACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATAGAAGTACTAGCACAAATGC
CTTCGGGTATTAAC
Found at i:76581718 original size:27 final size:25
Alignment explanation
Indices: 76581678--76581786 Score: 105
Period size: 26 Copynumber: 4.2 Consensus size: 25
76581668 AGTACGGCTG
*
76581678 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAG-CA
76581704 CCAGATACAGATAATCGTGGCAGAGCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCA
*
76581731 CCAGAACAGAAATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAG-CA
* *
76581758 CCA-ATCA-ATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAG-CA
76581783 CCAG
1 CCAG
76581787 GACGCTTCCT
Statistics
Matches: 72, Mismatches: 5, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
24 1 0.01
25 17 0.24
26 23 0.32
27 23 0.32
28 8 0.11
ACGTcount: A:0.39, C:0.23, G:0.23, T:0.16
Consensus pattern (25 bp):
CCAGAACAGATAATGTGGCAGAGCA
Found at i:76586531 original size:40 final size:40
Alignment explanation
Indices: 76586486--76586652 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
76586476 CGGAATATAA
76586486 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
76586526 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
76586566 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
76586606 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
76586645 CCGGATAT
1 CCGGATAT
76586653 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:76586636 original size:80 final size:79
Alignment explanation
Indices: 76586486--76586652 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
76586476 CGGAATATAA
* *
76586486 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
76586551 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
76586566 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
76586628 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
76586645 CCGGATAT
1 CCGGATAT
76586653 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:76587500 original size:17 final size:19
Alignment explanation
Indices: 76587477--76587522 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
76587467 AAGAAGCATG
76587477 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
76587495 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
76587513 AATCATGCTC
1 AATCATGCTC
76587523 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:76594536 original size:40 final size:40
Alignment explanation
Indices: 76594491--76594658 Score: 178
Period size: 40 Copynumber: 4.2 Consensus size: 40
76594481 CGGAATACAA
76594491 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
76594531 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
76594571 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
*** * ** * *
76594611 CCGGATATAATTTCCAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
76594651 CCGGATAT
1 CCGGATAT
76594659 CATTCAATTG
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
39 3 0.03
40 102 0.95
41 2 0.02
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:76596382 original size:42 final size:42
Alignment explanation
Indices: 76596335--76596425 Score: 112
Period size: 42 Copynumber: 2.2 Consensus size: 42
76596325 GATATGACGT
* * *
76596335 TGGCATCGATATGTGATTTCGTATAAAACCAT-GTCTGGGACA
1 TGGCATCGATATGAGACTTCGTATAAAACCATAGT-TGGAACA
* * *
76596377 TGGCATCGATATGAGACTTCGTGTAAGACCATAGTTGGAATA
1 TGGCATCGATATGAGACTTCGTATAAAACCATAGTTGGAACA
76596419 TGGCATC
1 TGGCATC
76596426 AAATAAACGA
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
42 40 0.95
43 2 0.05
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (42 bp):
TGGCATCGATATGAGACTTCGTATAAAACCATAGTTGGAACA
Found at i:76615143 original size:16 final size:16
Alignment explanation
Indices: 76615117--76615156 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
76615107 TTAAGAAATA
*
76615117 ATAATTATTATGTTAAT
1 ATAA-TATTATATTAAT
*
76615134 ATTATATTATATTAAT
1 ATAATATTATATTAAT
76615150 ATAATAT
1 ATAATAT
76615157 AATAAACATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 17 0.85
17 3 0.15
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
ATAATATTATATTAAT
Found at i:76623097 original size:42 final size:43
Alignment explanation
Indices: 76622994--76623132 Score: 119
Period size: 43 Copynumber: 3.3 Consensus size: 43
76622984 GTCTGAGACA
* * *
76622994 TCGTGTAAGA-TCGTGTCTGGGACACAGGCCTCG-ATTGAGATT
1 TCGTGTAAGACTCATGTTTGGGACAC-GGCATCGTATTGAGATT
* *
76623036 TACGTATAAGAC-CATGTTTGGGACATCGGCATCGTATT-TGATT
1 T-CGTGTAAGACTCATGTTTGGGACA-CGGCATCGTATTGAGATT
*
76623079 TCGTGTAAGACTC-TGTTTGGGACAGAGGCATCGATATTGAG-TT
1 TCGTGTAAGACTCATGTTTGGGACA-CGGCATCG-TATTGAGATT
* *
76623122 ACATGTAAGAC
1 TCGTGTAAGAC
76623133 CACGTCCGGG
Statistics
Matches: 79, Mismatches: 11, Indels: 13
0.77 0.11 0.13
Matches are distributed among these distances:
42 28 0.35
43 46 0.58
44 5 0.06
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (43 bp):
TCGTGTAAGACTCATGTTTGGGACACGGCATCGTATTGAGATT
Found at i:76623144 original size:85 final size:83
Alignment explanation
Indices: 76622994--76623163 Score: 191
Period size: 85 Copynumber: 2.0 Consensus size: 83
76622984 GTCTGAGACA
* * * **
76622994 TCGTGTAAGATCGTGTCTGGGACACAGGCCTCGATTGAGATTTACGTATAAGACCATGTTTGGGA
1 TCGTGTAAGATCGTGTCTGGGACACAGGCATCGATTGAGA-TTACATATAAGACCACGTCCGGGA
76623059 CATCGGCATCGTATTTGATT
65 CATCGGCATCGTATTT-ATT
* * *
76623079 TCGTGTAAGACTC-TGTTTGGGACAGAGGCATCGATATTGAG-TTACATGTAAGACCACGTCCGG
1 TCGTGTAAGA-TCGTGTCTGGGACACAGGCATCG--ATTGAGATTACATATAAGACCACGTCCGG
* *
76623142 GACGTCGGCATTGTATTTATT
63 GACATCGGCATCGTATTTATT
76623163 T
1 T
76623164 ATGAGCATCT
Statistics
Matches: 72, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
84 4 0.06
85 60 0.83
86 2 0.03
87 6 0.08
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.32
Consensus pattern (83 bp):
TCGTGTAAGATCGTGTCTGGGACACAGGCATCGATTGAGATTACATATAAGACCACGTCCGGGAC
ATCGGCATCGTATTTATT
Found at i:76626738 original size:67 final size:67
Alignment explanation
Indices: 76626659--76626786 Score: 247
Period size: 67 Copynumber: 1.9 Consensus size: 67
76626649 ATTCAGACCG
*
76626659 TATTTAGATAAATTTGTTGTAGTATTCCTTGATGATATTTTGATTTATTCACGTGATTAATCTAC
1 TATTTAGATAAATTTATTGTAGTATTCCTTGATGATATTTTGATTTATTCACGTGATTAATCTAC
76626724 CT
66 CT
76626726 TATTTAGATAAATTTATTGTAGTATTCCTTGATGATATTTTGATTTATTCACGTGATTAAT
1 TATTTAGATAAATTTATTGTAGTATTCCTTGATGATATTTTGATTTATTCACGTGATTAAT
76626787 TTGAGCATGC
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
67 60 1.00
ACGTcount: A:0.28, C:0.09, G:0.13, T:0.50
Consensus pattern (67 bp):
TATTTAGATAAATTTATTGTAGTATTCCTTGATGATATTTTGATTTATTCACGTGATTAATCTAC
CT
Found at i:76628848 original size:43 final size:43
Alignment explanation
Indices: 76628801--76628903 Score: 122
Period size: 42 Copynumber: 2.4 Consensus size: 43
76628791 CCTCGATTGA
* **
76628801 GATTTACGTATAAGACCATGTTTGGGACATCGGCATCG-TATTT
1 GATTTACGTGTAAGACCATGTTTGGGACAGAGGCATCGATA-TT
76628844 GATTT-CGTGTAAGACTC-TGTTTGGGACAGAGGCATCGATATT
1 GATTTACGTGTAAGAC-CATGTTTGGGACAGAGGCATCGATATT
* *
76628886 GAGTTACATGTAAGACCA
1 GATTTACGTGTAAGACCA
76628904 CATCCGGGAC
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
42 34 0.67
43 17 0.33
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (43 bp):
GATTTACGTGTAAGACCATGTTTGGGACAGAGGCATCGATATT
Found at i:76631405 original size:2 final size:2
Alignment explanation
Indices: 76631398--76631433 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
76631388 GCTTCGCCAC
76631398 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
76631434 CTGTTCTGGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:76631482 original size:27 final size:26
Alignment explanation
Indices: 76631430--76631489 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
76631420 ATATATATAT
*
76631430 ATATCTGTTCTGGTGGCCTAGCCACA
1 ATATCTGTTCTGGTGACCTAGCCACA
* * *
76631456 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGT-TCTGGTGACCTAGCCACA
76631483 ATATCTG
1 ATATCTG
76631490 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (26 bp):
ATATCTGTTCTGGTGACCTAGCCACA
Found at i:76635345 original size:22 final size:21
Alignment explanation
Indices: 76635307--76635358 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 21
76635297 TCCTTTTCCC
76635307 AAAAATAAAAATAAAAATAAT
1 AAAAATAAAAATAAAAATAAT
* *
76635328 AAAAATAACCAATCAAAATAAT
1 AAAAATAA-AAATAAAAATAAT
76635350 AAAAATAAA
1 AAAAATAAA
76635359 GTTAAAAAGC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 8 0.30
22 19 0.70
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.17
Consensus pattern (21 bp):
AAAAATAAAAATAAAAATAAT
Found at i:76644166 original size:17 final size:17
Alignment explanation
Indices: 76644144--76644185 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
76644134 TTTGAATTAA
76644144 GATTAAATAAGTATAAG
1 GATTAAATAAGTATAAG
*
76644161 GATTAAATAGGTATAAG
1 GATTAAATAAGTATAAG
76644178 GATTAAAT
1 GATTAAAT
76644186 TGAATAAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.19, T:0.31
Consensus pattern (17 bp):
GATTAAATAAGTATAAG
Found at i:76644429 original size:25 final size:25
Alignment explanation
Indices: 76644379--76644450 Score: 74
Period size: 25 Copynumber: 2.8 Consensus size: 25
76644369 ATTATATTAT
*
76644379 ATAAATATAATATAATAAACATAAAGTAA
1 ATAAA-ATAATA-AATAAAC--AAAGAAA
76644408 ATAAAATAATAAATAAACAAAGAAA
1 ATAAAATAATAAATAAACAAAGAAA
* *
76644433 ATGAAATAA-AAAGAAACA
1 ATAAAATAATAAATAAACA
76644451 TAGCAAACGA
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
24 8 0.20
25 14 0.35
27 7 0.17
28 6 0.15
29 5 0.12
ACGTcount: A:0.71, C:0.04, G:0.06, T:0.19
Consensus pattern (25 bp):
ATAAAATAATAAATAAACAAAGAAA
Found at i:76644462 original size:24 final size:25
Alignment explanation
Indices: 76644411--76644462 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
76644401 AAAGTAAATA
* *
76644411 AAATAATAAATAAACAAAGAAAATG
1 AAATAATAAAGAAACAAAGAAAACG
* *
76644436 AAATAA-AAAGAAACATAGCAAACG
1 AAATAATAAAGAAACAAAGAAAACG
76644460 AAA
1 AAA
76644463 CAGAGAAGGG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 17 0.74
25 6 0.26
ACGTcount: A:0.71, C:0.08, G:0.10, T:0.12
Consensus pattern (25 bp):
AAATAATAAAGAAACAAAGAAAACG
Found at i:76644611 original size:18 final size:18
Alignment explanation
Indices: 76644585--76644619 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
76644575 TGATTTATGT
76644585 TGAAATTTTAGAAGTTGG
1 TGAAATTTTAGAAGTTGG
* *
76644603 TGAATTTTTAGATGTTG
1 TGAAATTTTAGAAGTTG
76644620 TTCATGTTGA
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:0.29, C:0.00, G:0.26, T:0.46
Consensus pattern (18 bp):
TGAAATTTTAGAAGTTGG
Found at i:76645633 original size:23 final size:23
Alignment explanation
Indices: 76645575--76645634 Score: 102
Period size: 23 Copynumber: 2.6 Consensus size: 23
76645565 GGTTATGCCT
*
76645575 CACACGCCCGTGCGGAGGCAAAG
1 CACACGCCCGTGTGGAGGCAAAG
76645598 CACACGCCCGTGTGGAGGCAAAG
1 CACACGCCCGTGTGGAGGCAAAG
*
76645621 CACACGCCTGTGTG
1 CACACGCCCGTGTG
76645635 CTTAGGGACA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.23, C:0.33, G:0.33, T:0.10
Consensus pattern (23 bp):
CACACGCCCGTGTGGAGGCAAAG
Found at i:76647186 original size:63 final size:63
Alignment explanation
Indices: 76647078--76647217 Score: 253
Period size: 63 Copynumber: 2.2 Consensus size: 63
76647068 CAATCGGATT
*
76647078 ACCCGTCCGGGCTAAACCCTTAATGCACCCATATTCTTCGGGAGGCTCGATCACTCAAGGAAC
1 ACCCGTCCGGGCTAAACCCTTAATGCACCCATATTCTTCGAGAGGCTCGATCACTCAAGGAAC
* *
76647141 ACCTGTCCGGGCTAAACCCTTAATGCACCCATATTCTTTGAGAGGCTCGATCACTCAAGGAAC
1 ACCCGTCCGGGCTAAACCCTTAATGCACCCATATTCTTCGAGAGGCTCGATCACTCAAGGAAC
76647204 ACCCGTCCGGGCTA
1 ACCCGTCCGGGCTA
76647218 GATCCTTTCT
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 73 1.00
ACGTcount: A:0.25, C:0.33, G:0.21, T:0.21
Consensus pattern (63 bp):
ACCCGTCCGGGCTAAACCCTTAATGCACCCATATTCTTCGAGAGGCTCGATCACTCAAGGAAC
Found at i:76650116 original size:16 final size:16
Alignment explanation
Indices: 76650090--76650129 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
76650080 TTAATAAATA
*
76650090 ATAATTATTATGTTAAT
1 ATAA-TATTATATTAAT
*
76650107 ATTATATTATATTAAT
1 ATAATATTATATTAAT
76650123 ATAATAT
1 ATAATAT
76650130 AATAAACATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 17 0.85
17 3 0.15
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
ATAATATTATATTAAT
Found at i:76650167 original size:25 final size:25
Alignment explanation
Indices: 76650123--76650188 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
76650113 TTATATTAAT
*
76650123 ATAATATAATAAACATAAAGTAAATAAA
1 ATAATA-AATAAAC--AAAGAAAATAAA
*
76650151 ATAATAAATAAACAAAGAAAATGAA
1 ATAATAAATAAACAAAGAAAATAAA
*
76650176 ATAA-AAAGAAACA
1 ATAATAAATAAACA
76650189 TAGCAAACGA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
24 8 0.23
25 14 0.40
27 7 0.20
28 6 0.17
ACGTcount: A:0.71, C:0.05, G:0.06, T:0.18
Consensus pattern (25 bp):
ATAATAAATAAACAAAGAAAATAAA
Found at i:76650200 original size:24 final size:25
Alignment explanation
Indices: 76650149--76650200 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
76650139 AAAGTAAATA
* *
76650149 AAATAATAAATAAACAAAGAAAATG
1 AAATAATAAAGAAACAAAGAAAACG
* *
76650174 AAATAA-AAAGAAACATAGCAAACG
1 AAATAATAAAGAAACAAAGAAAACG
76650198 AAA
1 AAA
76650201 CAGAGAAGGG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 17 0.74
25 6 0.26
ACGTcount: A:0.71, C:0.08, G:0.10, T:0.12
Consensus pattern (25 bp):
AAATAATAAAGAAACAAAGAAAACG
Found at i:76650369 original size:18 final size:18
Alignment explanation
Indices: 76650343--76650377 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
76650333 TGATTTATGT
76650343 TGAAATTTTAGAAGTTGG
1 TGAAATTTTAGAAGTTGG
* *
76650361 TGAATTTTTAGATGTTG
1 TGAAATTTTAGAAGTTG
76650378 TTCATGTTGA
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:0.29, C:0.00, G:0.26, T:0.46
Consensus pattern (18 bp):
TGAAATTTTAGAAGTTGG
Found at i:76651381 original size:20 final size:20
Alignment explanation
Indices: 76651356--76651402 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
76651346 AAGGCAAAGC
76651356 ACACGCCTGTGTGCTTAGGG
1 ACACGCCTGTGTGCTTAGGG
76651376 ACACGCCTGTGTGCTTAGGG
1 ACACGCCTGTGTGCTTAGGG
76651396 ACACGCC
1 ACACGCC
76651403 CATGTCTCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.17, C:0.30, G:0.32, T:0.21
Consensus pattern (20 bp):
ACACGCCTGTGTGCTTAGGG
Found at i:76660785 original size:22 final size:23
Alignment explanation
Indices: 76660734--76660785 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
76660724 GTCTAAATTC
* *
76660734 TTCTTCTCAAAATCGTTAATAAT
1 TTCTTTTCAAAAACGTTAATAAT
76660757 TTCTTTTCAAAAACGTTAAT-AT
1 TTCTTTTCAAAAACGTTAATAAT
*
76660779 TTTTTTT
1 TTCTTTT
76660786 ACATTTTGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 8 0.31
23 18 0.69
ACGTcount: A:0.31, C:0.13, G:0.04, T:0.52
Consensus pattern (23 bp):
TTCTTTTCAAAAACGTTAATAAT
Found at i:76662830 original size:21 final size:20
Alignment explanation
Indices: 76662790--76662828 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
76662780 GATACTTGAT
76662790 AAAAGGTATCGATATTTTTG
1 AAAAGGTATCGATATTTTTG
*
76662810 AAAAGGTATTGATATTTTT
1 AAAAGGTATCGATATTTTT
76662829 TGTGATTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.36, C:0.03, G:0.18, T:0.44
Consensus pattern (20 bp):
AAAAGGTATCGATATTTTTG
Found at i:76665100 original size:18 final size:18
Alignment explanation
Indices: 76665077--76665112 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
76665067 TGAGAATTTT
*
76665077 TGATACCGTGACTGAATG
1 TGATACCATGACTGAATG
*
76665095 TGATACTATGACTGAATG
1 TGATACCATGACTGAATG
76665113 CGTTACTGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.31
Consensus pattern (18 bp):
TGATACCATGACTGAATG
Found at i:76665119 original size:18 final size:19
Alignment explanation
Indices: 76665085--76665130 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 19
76665075 TTTGATACCG
*
76665085 TGACTGAATGTGATACT-A
1 TGACTGAATGCGATACTGA
*
76665103 TGACTGAATGCGTTACTGA
1 TGACTGAATGCGATACTGA
76665122 TCGACTGAA
1 T-GACTGAA
76665131 ATGCACTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 15 0.62
19 2 0.08
20 7 0.29
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.30
Consensus pattern (19 bp):
TGACTGAATGCGATACTGA
Found at i:76666069 original size:30 final size:31
Alignment explanation
Indices: 76666029--76666093 Score: 80
Period size: 30 Copynumber: 2.1 Consensus size: 31
76666019 TTTTTGAACT
* *
76666029 TTTTCCAAAAT-TTTCGAAGTGTTCAAAAT-A
1 TTTTCCAAAATGTTTAGAAGTCTT-AAAATGA
*
76666059 TTTTCTAAAATGTTTAGAAGTCTTAAAATGA
1 TTTTCCAAAATGTTTAGAAGTCTTAAAATGA
76666090 TTTT
1 TTTT
76666094 TATGCTTTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
30 15 0.50
31 15 0.50
ACGTcount: A:0.35, C:0.09, G:0.11, T:0.45
Consensus pattern (31 bp):
TTTTCCAAAATGTTTAGAAGTCTTAAAATGA
Found at i:76666852 original size:12 final size:12
Alignment explanation
Indices: 76666813--76666846 Score: 68
Period size: 12 Copynumber: 2.8 Consensus size: 12
76666803 TTGTGGATAA
76666813 AACTACTTTTTC
1 AACTACTTTTTC
76666825 AACTACTTTTTC
1 AACTACTTTTTC
76666837 AACTACTTTT
1 AACTACTTTT
76666847 GGAACTCCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.26, C:0.24, G:0.00, T:0.50
Consensus pattern (12 bp):
AACTACTTTTTC
Found at i:76675174 original size:31 final size:32
Alignment explanation
Indices: 76675120--76675180 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 32
76675110 TAAATATTTT
*
76675120 AAAAAATTATTAGAAATAGTAAAAGATTGTAC
1 AAAAAATTATTAGAAATAGTAAAAAATTGTAC
*
76675152 AAAAAATTATTA-AAAGT-TTAAAAAATTGT
1 AAAAAATTATTAGAAA-TAGTAAAAAATTGT
76675181 TGTATATCGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
31 13 0.50
32 13 0.50
ACGTcount: A:0.57, C:0.02, G:0.10, T:0.31
Consensus pattern (32 bp):
AAAAAATTATTAGAAATAGTAAAAAATTGTAC
Found at i:76682515 original size:2 final size:2
Alignment explanation
Indices: 76682508--76682536 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
76682498 ATGGATGTGC
76682508 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
76682537 AAAGGAAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:76684614 original size:15 final size:15
Alignment explanation
Indices: 76684594--76684627 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
76684584 GATCACCTTT
76684594 CGAACAAAGTGATAA
1 CGAACAAAGTGATAA
76684609 CGAACAAAGTGATAA
1 CGAACAAAGTGATAA
76684624 CGAA
1 CGAA
76684628 TGTTTATGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.53, C:0.15, G:0.21, T:0.12
Consensus pattern (15 bp):
CGAACAAAGTGATAA
Found at i:76687491 original size:49 final size:50
Alignment explanation
Indices: 76687427--76687522 Score: 149
Period size: 49 Copynumber: 1.9 Consensus size: 50
76687417 TCCATATAGA
* * * *
76687427 ACTATACTTCTTTTATTTTACATTGATTAGAATAAGGTTTT-TCAACTTT
1 ACTACACTTCATTTATTTGACATTGATTAGAATAAGCTTTTCTCAACTTT
76687476 ACTACACTTCATTTATTTGACATTGATTAGAATAAGCTTTTCTCAAC
1 ACTACACTTCATTTATTTGACATTGATTAGAATAAGCTTTTCTCAAC
76687523 CTATAAATAG
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
49 37 0.88
50 5 0.12
ACGTcount: A:0.30, C:0.16, G:0.08, T:0.46
Consensus pattern (50 bp):
ACTACACTTCATTTATTTGACATTGATTAGAATAAGCTTTTCTCAACTTT
Found at i:76696359 original size:38 final size:38
Alignment explanation
Indices: 76696308--76696384 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
76696298 TCTCACACAC
76696308 ATAGTACCTTACCAATTCCATATCCCAGATATGGTCTT
1 ATAGTACCTTACCAATTCCATATCCCAGATATGGTCTT
76696346 ATAGTACCTTACCAATTCCATATCCCAGATATGGTCTT
1 ATAGTACCTTACCAATTCCATATCCCAGATATGGTCTT
76696384 A
1 A
76696385 CATAGGATCT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.30, C:0.26, G:0.10, T:0.34
Consensus pattern (38 bp):
ATAGTACCTTACCAATTCCATATCCCAGATATGGTCTT
Found at i:76696439 original size:43 final size:42
Alignment explanation
Indices: 76696358--76696481 Score: 126
Period size: 43 Copynumber: 2.9 Consensus size: 42
76696348 AGTACCTTAC
* * * *
76696358 CAATTCCATATCCCAGATATGGTCTTACA-TAGGATCTCATAT
1 CAATGCCATAGCCCAGATATGGTCTTACACGAAG-TCTCATAT
*
76696400 CAATGCCAATAGCCCAGCTATGGTCTTACACGAAGTCTCATAT
1 CAATGCC-ATAGCCCAGATATGGTCTTACACGAAGTCTCATAT
** **
76696443 TGATGCCATATTCCAGATATGGTCTTACACGTAA-TCTCA
1 CAATGCCATAGCCCAGATATGGTCTTACACG-AAGTCTCA
76696482 ACTAACCTTA
Statistics
Matches: 69, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
42 32 0.46
43 35 0.51
44 2 0.03
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.31
Consensus pattern (42 bp):
CAATGCCATAGCCCAGATATGGTCTTACACGAAGTCTCATAT
Found at i:76696473 original size:42 final size:42
Alignment explanation
Indices: 76696320--76696481 Score: 138
Period size: 42 Copynumber: 3.9 Consensus size: 42
76696310 AGTACCTTAC
* * * * *
76696320 CAATTCCATATCCCAGATATGGTCTTATA-GTA--C-CTTAC
1 CAATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATAT
* * *
76696358 CAATTCCATATCCCAGATATGGTCTTACA-TAGGATCTCATAT
1 CAATGCCATATCCCAGATATGGTCTTACACGAAG-TCTCATAT
* *
76696400 CAATGCCAATAGCCCAGCTATGGTCTTACACGAAGTCTCATAT
1 CAATGCC-ATATCCCAGATATGGTCTTACACGAAGTCTCATAT
** *
76696443 TGATGCCATATTCCAGATATGGTCTTACACGTAA-TCTCA
1 CAATGCCATATCCCAGATATGGTCTTACACG-AAGTCTCA
76696482 ACTAACCTTA
Statistics
Matches: 101, Mismatches: 16, Indels: 10
0.80 0.13 0.08
Matches are distributed among these distances:
38 28 0.28
41 1 0.01
42 35 0.35
43 35 0.35
44 2 0.02
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (42 bp):
CAATGCCATATCCCAGATATGGTCTTACACGAAGTCTCATAT
Found at i:76700028 original size:48 final size:48
Alignment explanation
Indices: 76699974--76700292 Score: 221
Period size: 48 Copynumber: 6.6 Consensus size: 48
76699964 AAAATTGCAG
* * * *
76699974 ATGCCATGTCCTAGACATGGTCTTACACTGGCT-TACATGTCGAGGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCT-CATCTCAAGGCCA
* *
76700022 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAAGGCCA
* * * **
76700070 ATCCCATGTCCCAGACATGGTCTTACACTAGCTCTGATAAT-GTGGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCAT-CTCAAGGCCA
* * * * * * *** * *
76700118 TTGCCATGTCCCAGACATGGTCGTACGCTAGCGCACCTAAAAACGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAAGGCCA
* ** ** ***
76700166 ATGCCATGTCCC-GAACATGGTCTTACACTGGCTCTCATAACATTGATG
1 ATGCCATGTCCCAG-ACATGGTCTTACACTAGCTCTCATCTCAAGGCCA
* * * * * * **
76700214 ATGCCATGTTCCAAACATGGTCTTATACTGGCTCTCATATCATGGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAAGGCCA
* * *
76700262 ATGCCATGTCCCAAATATGGCCTTACACTAG
1 ATGCCATGTCCCAGACATGGTCTTACACTAG
76700293 TACACATATC
Statistics
Matches: 217, Mismatches: 49, Indels: 10
0.79 0.18 0.04
Matches are distributed among these distances:
47 2 0.01
48 213 0.98
49 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.27
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCATCTCAAGGCCA
Found at i:76700149 original size:96 final size:96
Alignment explanation
Indices: 76699977--76700205 Score: 259
Period size: 96 Copynumber: 2.4 Consensus size: 96
76699967 ATTGCAGATG
* *
76699977 CCATGTCCTAGACATGGTCTTACACTGGCT-TA-CATGTCGAGGCCAATGCCATGTCCCAGACAT
1 CCATGTCCCAGACATGGTCTTACACTGGCTCTATAATGT--AGGCCAATGCCATGTCCCAGACAT
* * * *** *
76700040 GGTCTTACACTAGCTCTCATCTCAATGCCGATC
64 GGTCGTACACTAGCGCACATAAAAACGCCGATC
* *
76700073 CCATGTCCCAGACATGGTCTTACACTAGCTCTGATAATGT-GGCCATTGCCATGTCCCAGACATG
1 CCATGTCCCAGACATGGTCTTACACTGGCTCT-ATAATGTAGGCCAATGCCATGTCCCAGACATG
* * *
76700137 GTCGTACGCTAGCGCACCTAAAAACGCCGATG
65 GTCGTACACTAGCGCACATAAAAACGCCGATC
76700169 CCATGTCCC-GAACATGGTCTTACACTGGCTCTCATAA
1 CCATGTCCCAG-ACATGGTCTTACACTGGCTCT-ATAA
76700206 CATTGATGAT
Statistics
Matches: 113, Mismatches: 16, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
95 1 0.01
96 106 0.94
97 1 0.01
98 1 0.01
99 4 0.04
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.25
Consensus pattern (96 bp):
CCATGTCCCAGACATGGTCTTACACTGGCTCTATAATGTAGGCCAATGCCATGTCCCAGACATGG
TCGTACACTAGCGCACATAAAAACGCCGATC
Found at i:76701410 original size:17 final size:17
Alignment explanation
Indices: 76701388--76701420 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
76701378 TCATATAATC
76701388 ATGATA-TAAAACATAAA
1 ATGATATTAAAA-ATAAA
76701405 ATGATATTAAAAATAA
1 ATGATATTAAAAATAA
76701421 TTTCTTTGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.64, C:0.03, G:0.06, T:0.27
Consensus pattern (17 bp):
ATGATATTAAAAATAAA
Found at i:76707568 original size:13 final size:13
Alignment explanation
Indices: 76707550--76707576 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
76707540 GCTCAGCAAG
76707550 GACATGCCCGTGT
1 GACATGCCCGTGT
76707563 GACATGCCCGTGT
1 GACATGCCCGTGT
76707576 G
1 G
76707577 CGATTACTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.30, G:0.33, T:0.22
Consensus pattern (13 bp):
GACATGCCCGTGT
Found at i:76711384 original size:155 final size:153
Alignment explanation
Indices: 76711197--76711504 Score: 474
Period size: 155 Copynumber: 2.0 Consensus size: 153
76711187 TTTCCTCCTC
* * * * *
76711197 CTTCTGTTCTTTATCTTCCTTCTCCTTTTTCATCCACTTCCTTTCCTGAATCTCAATCAAGGTAA
1 CTTCGGTTCTTTATCTTCCTTCTCCTTCTTCATCCACTCCCCTTCCTAAATCTCAATCAAGGTAA
* *
76711262 CTTTTTTATGCTTTATTTAATCTGCCTTTACTTCATTC-AATTCCTTTTAAATCTTCTTCTTCCC
66 CTTTTTTATACTTTATTTAATCTACCTTTACTTCATTCAAATT-CTTTTAAATCTTCTTCTT-CC
*
76711326 TTTTTTTTTTGGTTGAAGAATCTGTT
129 -TTTTTTTTTAGTTGAAGAATCTGTT
*
76711352 CTTCGGTTCTTTATCTTCCTTCTCCTTCTTCATCCACTCCCCTTCCTAAATCTCAATTAAGGTAA
1 CTTCGGTTCTTTATCTTCCTTCTCCTTCTTCATCCACTCCCCTTCCTAAATCTCAATCAAGGTAA
* *
76711417 CTTTTTTATACTTTATTTAGTCTACCTTTATTTCATTCAAATTCTTTTAAATCTTCTTCTTCCTT
66 CTTTTTTATACTTTATTTAATCTACCTTTACTTCATTCAAATTCTTTTAAATCTTCTTCTTCCTT
*
76711482 TTTTTTTAGTTGAAGTATCTGTT
131 TTTTTTTAGTTGAAGAATCTGTT
76711505 TGGATTTTAC
Statistics
Matches: 140, Mismatches: 12, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
153 23 0.16
154 2 0.01
155 111 0.79
156 4 0.03
ACGTcount: A:0.18, C:0.24, G:0.06, T:0.52
Consensus pattern (153 bp):
CTTCGGTTCTTTATCTTCCTTCTCCTTCTTCATCCACTCCCCTTCCTAAATCTCAATCAAGGTAA
CTTTTTTATACTTTATTTAATCTACCTTTACTTCATTCAAATTCTTTTAAATCTTCTTCTTCCTT
TTTTTTTAGTTGAAGAATCTGTT
Found at i:76718783 original size:46 final size:46
Alignment explanation
Indices: 76718730--76718902 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 46
76718720 TGGTTGAGCA
* *
76718730 TCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * * *
76718776 TCTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * * *
76718823 TCCGAACTCGCTGAGTTGAGTCTGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
76718869 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
76718903 GGGGCGGGTT
Statistics
Matches: 100, Mismatches: 20, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 57 0.57
47 26 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:76718886 original size:93 final size:93
Alignment explanation
Indices: 76718727--76718897 Score: 263
Period size: 93 Copynumber: 1.8 Consensus size: 93
76718717 GGATGGTTGA
* * * *
76718727 GCATCCGAACTCGTTGAGTTGAGTTCGAGTTCACTTATGGATGCAAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGCTGAGTTGAGTTCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
76718792 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
76718820 GCATCCGAACTCGCTGAGTTGAG-TCTGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GCATCCGAACTCGCTGAGTTGAGTTC-GAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAG
76718884 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
76718898 ACTTAGGGGC
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 2 0.03
93 68 0.97
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGCTGAGTTGAGTTCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:76719809 original size:21 final size:20
Alignment explanation
Indices: 76719771--76719814 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
76719761 CTGTTCTGAC
*
76719771 TTTAAAAATTCATAATAAAT
1 TTTAAAAATTAATAATAAAT
* *
76719791 TTTAAAAATATAATTATAAGT
1 TTTAAAAAT-TAATAATAAAT
76719812 TTT
1 TTT
76719815 TATTTATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (20 bp):
TTTAAAAATTAATAATAAAT
Found at i:76720748 original size:32 final size:32
Alignment explanation
Indices: 76720711--76720792 Score: 103
Period size: 32 Copynumber: 2.6 Consensus size: 32
76720701 TTGAAATTAG
*
76720711 TTTGTTGGATTTTGAAATTATTATG-TCTTAAA
1 TTTGTTGGATATTGAAATTATTATGCT-TTAAA
* * *
76720743 TTTGTTAGATATTGAATTTATTATGCTTTAAG
1 TTTGTTGGATATTGAAATTATTATGCTTTAAA
*
76720775 CTTGTTGGATATTGAAAT
1 TTTGTTGGATATTGAAAT
76720793 GATTGACAAT
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
32 41 0.98
33 1 0.02
ACGTcount: A:0.28, C:0.04, G:0.17, T:0.51
Consensus pattern (32 bp):
TTTGTTGGATATTGAAATTATTATGCTTTAAA
Found at i:76722212 original size:19 final size:20
Alignment explanation
Indices: 76722188--76722229 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
76722178 CAAACATCAC
76722188 AAAAGTAAATCA-CTTCCAG
1 AAAAGTAAATCATCTTCCAG
*
76722207 AAAAGTAAATCATTTTCCAG
1 AAAAGTAAATCATCTTCCAG
76722227 AAA
1 AAA
76722230 CTATTTTCTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.50, C:0.17, G:0.10, T:0.24
Consensus pattern (20 bp):
AAAAGTAAATCATCTTCCAG
Found at i:76725491 original size:20 final size:20
Alignment explanation
Indices: 76725456--76725496 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
76725446 GAAAGTGTAT
* *
76725456 ACAGAGGCATCAAAGTGCAA
1 ACAGAGGCACCAAAGTACAA
*
76725476 ACAGAGGCACCGAAGTACAA
1 ACAGAGGCACCAAAGTACAA
76725496 A
1 A
76725497 TCATGTACAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.46, C:0.22, G:0.24, T:0.07
Consensus pattern (20 bp):
ACAGAGGCACCAAAGTACAA
Found at i:76729566 original size:15 final size:15
Alignment explanation
Indices: 76729546--76729575 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
76729536 TTCACTATTA
*
76729546 TGTCTTTTGTATTTT
1 TGTCTTTTATATTTT
76729561 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
76729576 GCATACATAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.10, C:0.07, G:0.10, T:0.73
Consensus pattern (15 bp):
TGTCTTTTATATTTT
Found at i:76731261 original size:25 final size:25
Alignment explanation
Indices: 76731169--76731267 Score: 64
Period size: 25 Copynumber: 3.9 Consensus size: 25
76731159 CAAAAAATAA
*
76731169 TATTATTTTAATAGTTTAATATTAAA-
1 TATTA-TTTAATA-CTTAATATTAAAG
*
76731195 T-TTAATTTAATACTT-ATCTTAATAG
1 TATT-ATTTAATACTTAATATTAA-AG
* *
76731220 TATT-TTTATTAATTTAATATTAAAG
1 TATTATTTAAT-ACTTAATATTAAAG
*
76731245 TATTATCTTAATA-TTAATTTTAA
1 TATTAT-TTAATACTTAATATTAA
76731268 TTTAATGTTT
Statistics
Matches: 58, Mismatches: 7, Indels: 17
0.71 0.09 0.21
Matches are distributed among these distances:
23 6 0.10
24 8 0.14
25 28 0.48
26 12 0.21
27 4 0.07
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (25 bp):
TATTATTTAATACTTAATATTAAAG
Found at i:76731334 original size:16 final size:17
Alignment explanation
Indices: 76731315--76731353 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
76731305 TAATAAGATT
76731315 TAATATTAAATT-AATA
1 TAATATTAAATTAAATA
**
76731331 TAATATTAGGTTAAATA
1 TAATATTAAATTAAATA
76731348 TAATAT
1 TAATAT
76731354 AGTGATTAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (17 bp):
TAATATTAAATTAAATA
Found at i:76732482 original size:28 final size:30
Alignment explanation
Indices: 76732451--76732518 Score: 77
Period size: 31 Copynumber: 2.3 Consensus size: 30
76732441 TTTTCGCCCT
*
76732451 ATTTTGTTACCATTTT-A-CAATTACGTTA
1 ATTTTGTTACCATTTTAAGAAATTACGTTA
* **
76732479 ATTTTATTATTATTTTAAAGAAATTACGTTA
1 ATTTTGTTACCATTTT-AAGAAATTACGTTA
76732510 ATTTTGTTA
1 ATTTTGTTA
76732519 TTATTTTAGG
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
28 13 0.41
30 1 0.03
31 18 0.56
ACGTcount: A:0.32, C:0.07, G:0.07, T:0.53
Consensus pattern (30 bp):
ATTTTGTTACCATTTTAAGAAATTACGTTA
Done.