Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12
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: 24583705
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1509421 characters in sequence are not A, C, G, or T
File 14 of 75
Found at i:3940151 original size:31 final size:31
Alignment explanation
Indices: 3940116--3940186 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
3940106 TATTTAAATG
*
3940116 TATACAATTGAATCCA-GATTAAAATTTTATA
1 TATACAATTGAA-CCACAATTAAAATTTTATA
* *
3940147 TATACATTTGAACCACAATTAAAATTTTATT
1 TATACAATTGAACCACAATTAAAATTTTATA
*
3940178 TATATAATT
1 TATACAATT
3940187 ATACAAAATT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
30 3 0.09
31 31 0.91
ACGTcount: A:0.44, C:0.10, G:0.04, T:0.42
Consensus pattern (31 bp):
TATACAATTGAACCACAATTAAAATTTTATA
Found at i:3944159 original size:10 final size:10
Alignment explanation
Indices: 3944146--3944179 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
3944136 TTTTTAAATT
3944146 AAAAATTTAA
1 AAAAATTTAA
*
3944156 AAAATTTTAA
1 AAAAATTTAA
3944166 AAAAATATTAA
1 AAAAAT-TTAA
3944177 AAA
1 AAA
3944180 TATAAGAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 14 0.67
11 7 0.33
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (10 bp):
AAAAATTTAA
Found at i:3944180 original size:20 final size:21
Alignment explanation
Indices: 3944146--3944193 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
3944136 TTTTTAAATT
*
3944146 AAAAAT-TTAAAAAATTTTAA-
1 AAAAATATTAAAAAA-TATAAG
3944166 AAAAATATT-AAAAATATAAG
1 AAAAATATTAAAAAATATAAG
3944186 AAAAATAT
1 AAAAATAT
3944194 CTTTTAGTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 4 0.16
20 19 0.76
21 2 0.08
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (21 bp):
AAAAATATTAAAAAATATAAG
Found at i:3944764 original size:11 final size:11
Alignment explanation
Indices: 3944746--3944779 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
3944736 GCACACAAAC
3944746 AATAATAAAAT
1 AATAATAAAAT
*
3944757 ATTAAT-AAAT
1 AATAATAAAAT
3944767 AATAATAAAAT
1 AATAATAAAAT
3944778 AA
1 AA
3944780 GCAAATCTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
10 9 0.45
11 11 0.55
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
AATAATAAAAT
Found at i:3948402 original size:21 final size:20
Alignment explanation
Indices: 3948377--3948417 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
3948367 TGTCCCAACA
*
3948377 AAACAGTTAGAACTATAAATC
1 AAACAATTAGAA-TATAAATC
*
3948398 AAACAATTAGTATATAAATC
1 AAACAATTAGAATATAAATC
3948418 TCTGAAAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.54, C:0.12, G:0.07, T:0.27
Consensus pattern (20 bp):
AAACAATTAGAATATAAATC
Found at i:3952410 original size:20 final size:20
Alignment explanation
Indices: 3952381--3952420 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
3952371 ATTAAACAAG
3952381 AAGAAAATAG-TAAGAAAATA
1 AAGAAAATAGATAA-AAAATA
*
3952401 AAGAAGATAGATAAAAAATA
1 AAGAAAATAGATAAAAAATA
3952421 TATATGAATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.70, C:0.00, G:0.15, T:0.15
Consensus pattern (20 bp):
AAGAAAATAGATAAAAAATA
Found at i:3952717 original size:18 final size:19
Alignment explanation
Indices: 3952694--3952731 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
3952684 AACAAAAATG
3952694 AATGAAT-TG-ATTCTATAT
1 AATGAATATGCATT-TATAT
3952712 AATGAATATGCATTTATAT
1 AATGAATATGCATTTATAT
3952731 A
1 A
3952732 GGCAAATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.39
19 8 0.44
20 3 0.17
ACGTcount: A:0.42, C:0.05, G:0.11, T:0.42
Consensus pattern (19 bp):
AATGAATATGCATTTATAT
Found at i:3954170 original size:20 final size:20
Alignment explanation
Indices: 3954127--3954170 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
3954117 ATAAATAAAT
*
3954127 TAAATTTTATAAAAATATTC
1 TAAATTTTATAAAAATATCC
*
3954147 TAAATTTTTTAAAAA-ATCC
1 TAAATTTTATAAAAATATCC
3954166 ATAAA
1 -TAAA
3954171 CAGCTCAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 3 0.14
20 18 0.86
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (20 bp):
TAAATTTTATAAAAATATCC
Found at i:3954538 original size:153 final size:154
Alignment explanation
Indices: 3954380--3954696 Score: 609
Period size: 153 Copynumber: 2.1 Consensus size: 154
3954370 GAGCTTGAAA
3954380 AAAAATTAAGTCCATTTAAAATATAGGTTGGGCTTGATTTTTTTTTTTTTGAGTTTGTATTGTTT
1 AAAAATTAAGTCCATTTAAAATATAGGTTGGGCTTGATTTTTTTTTTTTTGAGTTTGTATTGTTT
3954445 TATATTATATAATTTATAACACTCCTAGAATATAAACATTATAAAAAACGTTAAGATGATTACAT
66 TATATTATATAATTTATAACACTCCTAGAATATAAACATTATAAAAAACGTTAAGATGATTACAT
3954510 ATAAAATTTTAAT-AATAAAGAAT
131 ATAAAATTTTAATAAATAAAGAAT
3954533 AAAAATTAAGTCCATTTAAAATATAGGTTGGGCTTGATTTTTTTTTTTTTGAGTTTGTATTGTTT
1 AAAAATTAAGTCCATTTAAAATATAGGTTGGGCTTGATTTTTTTTTTTTTGAGTTTGTATTGTTT
3954598 TATATTATATAATTTATAACACTCCTAGAATATAAACATTATAAAAAACGTTAAGATGATTACAT
66 TATATTATATAATTTATAACACTCCTAGAATATAAACATTATAAAAAACGTTAAGATGATTACAT
3954663 ATAAAATTTTAATAAATAAAGAAT
131 ATAAAATTTTAATAAATAAAGAAT
*
3954687 ATTAAATTAA
1 A-AAAATTAA
3954697 AAATAATATA
Statistics
Matches: 161, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
153 143 0.89
154 11 0.07
155 7 0.04
ACGTcount: A:0.41, C:0.06, G:0.10, T:0.42
Consensus pattern (154 bp):
AAAAATTAAGTCCATTTAAAATATAGGTTGGGCTTGATTTTTTTTTTTTTGAGTTTGTATTGTTT
TATATTATATAATTTATAACACTCCTAGAATATAAACATTATAAAAAACGTTAAGATGATTACAT
ATAAAATTTTAATAAATAAAGAAT
Found at i:3954739 original size:153 final size:151
Alignment explanation
Indices: 3954429--3954739 Score: 385
Period size: 153 Copynumber: 2.0 Consensus size: 151
3954419 TTTTTTTTTT
3954429 TGAGTTTGTATTGTTTTATATTATATAATTTATAACACTCCTAGAATATAAACATTATAAAAAAC
1 TGAGTTTGTATTGTTTTATATTATATAATTTATAACACTCCTAGAATATAAACATTATAAAAAAC
* * *
3954494 GTTAAGATGATTACATATAAAATTTTAATAATAAAGAATAAAAATTAAGTCCATTTAAAATATAG
66 GTTAAGATGATTACATATAAAATTTTAATAATAAAGAATAAAAATTAAATCAATATAAAATATA-
**** ***** ** *
3954559 GTTGGGCTTGATTTTTTTTTTTT
130 GTTAAAATT-ATTAAAAATAATA
3954582 TGAGTTTGTATTGTTTTATATTATATAATTTATAACACTCCTAGAATATAAACATTATAAAAAAC
1 TGAGTTTGTATTGTTTTATATTATATAATTTATAACACTCCTAGAATATAAACATTATAAAAAAC
*
3954647 GTTAAGATGATTACATATAAAATTTTAATAAATAAAGAATATTAAATTAAAAAT-AATATAAACA
66 GTTAAGATGATTACATATAAAATTTTAAT-AATAAAGAATA-AAAATT--AAATCAATATAAA-A
*
3954711 TAT-TTTAAAATT-TTAAAAATAATA
126 TATAGTTAAAATTATTAAAAATAATA
3954735 TGAGT
1 TGAGT
3954740 GAGACCTAAA
Statistics
Matches: 136, Mismatches: 17, Indels: 10
0.83 0.10 0.06
Matches are distributed among these distances:
153 103 0.76
154 11 0.08
155 9 0.07
156 6 0.04
157 7 0.05
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.41
Consensus pattern (151 bp):
TGAGTTTGTATTGTTTTATATTATATAATTTATAACACTCCTAGAATATAAACATTATAAAAAAC
GTTAAGATGATTACATATAAAATTTTAATAATAAAGAATAAAAATTAAATCAATATAAAATATAG
TTAAAATTATTAAAAATAATA
Found at i:3960602 original size:22 final size:24
Alignment explanation
Indices: 3960576--3960619 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
3960566 GAAAAATATT
3960576 AAATAT-ATA-TTTTTTATTTTTA
1 AAATATAATAGTTTTTTATTTTTA
3960598 AAATATAATAGTTTTTTATTTT
1 AAATATAATAGTTTTTTATTTT
3960620 AAGTTTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 6 0.30
23 3 0.15
24 11 0.55
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
AAATATAATAGTTTTTTATTTTTA
Found at i:3960730 original size:9 final size:9
Alignment explanation
Indices: 3960716--3960743 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
3960706 TTTTGTTACA
3960716 ACAATTAAT
1 ACAATTAAT
3960725 ACAATTAAT
1 ACAATTAAT
3960734 ACAATTAAT
1 ACAATTAAT
3960743 A
1 A
3960744 ATTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:3960765 original size:68 final size:66
Alignment explanation
Indices: 3960686--3960827 Score: 248
Period size: 68 Copynumber: 2.1 Consensus size: 66
3960676 TCAAGTTTGT
*
3960686 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATT-A-ACAATTAATAATTTGAT
3960751 AAA
64 AAA
3960754 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTAATAATTTGATAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTAATAATTTGATAA
*
3960819 T
66 A
3960820 TTTACTAA
1 TTTACTAA
3960828 CAATTAATTT
Statistics
Matches: 72, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
66 27 0.38
67 1 0.01
68 44 0.61
ACGTcount: A:0.45, C:0.09, G:0.05, T:0.41
Consensus pattern (66 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTAATAATTTGATAA
A
Found at i:3960837 original size:16 final size:16
Alignment explanation
Indices: 3960816--3960857 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
3960806 AATAATTTGA
* *
3960816 TAATTTTACTAACAAT
1 TAATTTTAATAAAAAT
3960832 TAATTTTAATAAAAAT
1 TAATTTTAATAAAAAT
*
3960848 TAGTTTTAAT
1 TAATTTTAAT
3960858 TTTATTTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.45, C:0.05, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAAAAAT
Found at i:3960849 original size:59 final size:67
Alignment explanation
Indices: 3960686--3960849 Score: 218
Period size: 68 Copynumber: 2.5 Consensus size: 67
3960676 TCAAGTTTGT
**
3960686 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATACAATTAATAATTTGAT
1 TTTACTAATCAAA-GTTAGATTTTAATACAACAATTAATACAATTAATACAATTAATAATTTGAT
3960751 AAA
65 AAA
*
3960754 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATT-A-ACAATTAATAATTTGAT
1 TTTACTAATCAAA-GTTAGATTTTAATACAACAATTAATACAATTAATACAATTAATAATTTGAT
*
3960817 AAT
65 AAA
3960820 TTTACTAA-C-AA-TTA-ATTTTAATA-AA-AATTA
1 TTTACTAATCAAAGTTAGATTTTAATACAACAATTA
3960850 GTTTTAATTT
Statistics
Matches: 93, Mismatches: 3, Indels: 9
0.89 0.03 0.09
Matches are distributed among these distances:
59 5 0.05
60 2 0.02
61 8 0.09
62 3 0.03
64 2 0.02
65 1 0.01
66 27 0.29
67 1 0.01
68 44 0.47
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.41
Consensus pattern (67 bp):
TTTACTAATCAAAGTTAGATTTTAATACAACAATTAATACAATTAATACAATTAATAATTTGATA
AA
Found at i:3960877 original size:23 final size:22
Alignment explanation
Indices: 3960831--3960886 Score: 76
Period size: 23 Copynumber: 2.5 Consensus size: 22
3960821 TTACTAACAA
* *
3960831 TTAATTTTAATAAAAATTAGTT
1 TTAATTTTAATAAAAAATAATT
*
3960853 TTAATTTTATTTAAAAAATAATT
1 TTAATTTTA-ATAAAAAATAATT
3960876 TTAATTTTAAT
1 TTAATTTTAAT
3960887 TTTAATTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 10 0.34
23 19 0.66
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.54
Consensus pattern (22 bp):
TTAATTTTAATAAAAAATAATT
Found at i:3962146 original size:23 final size:25
Alignment explanation
Indices: 3962114--3962159 Score: 78
Period size: 24 Copynumber: 1.9 Consensus size: 25
3962104 GTGGAAATTG
3962114 AATTAGAAGCTGAAT-AATATATGA
1 AATTAGAAGCTGAATGAATATATGA
3962138 AATTA-AAGCTGAATGAATATAT
1 AATTAGAAGCTGAATGAATATAT
3962160 TTTAACATAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.50, C:0.04, G:0.15, T:0.30
Consensus pattern (25 bp):
AATTAGAAGCTGAATGAATATATGA
Found at i:3967332 original size:32 final size:32
Alignment explanation
Indices: 3967287--3967363 Score: 93
Period size: 32 Copynumber: 2.4 Consensus size: 32
3967277 TTGCCTCCTA
*
3967287 AACTTGTC-CAAAAGTATCTAGTTGATACCGG
1 AACTTGTCAAAAAAGTATCTAGTTGATACCGG
* * * **
3967318 AACTTGTCAAAAAAGTATGTAGTTGGTTCTTG
1 AACTTGTCAAAAAAGTATCTAGTTGATACCGG
3967350 AACTTGTCAAAAAA
1 AACTTGTCAAAAAA
3967364 ATATTATATT
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
31 8 0.21
32 31 0.79
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.31
Consensus pattern (32 bp):
AACTTGTCAAAAAAGTATCTAGTTGATACCGG
Found at i:3968578 original size:77 final size:77
Alignment explanation
Indices: 3968492--3968646 Score: 310
Period size: 77 Copynumber: 2.0 Consensus size: 77
3968482 AAAGAATAAT
3968492 TTATTTTTGGGTATTTTACTAAAAAAGGCCCATTTCCAACATTATTTTCAAAAATGAGTCATTTA
1 TTATTTTTGGGTATTTTACTAAAAAAGGCCCATTTCCAACATTATTTTCAAAAATGAGTCATTTA
3968557 AAAGATTATTTC
66 AAAGATTATTTC
3968569 TTATTTTTGGGTATTTTACTAAAAAAGGCCCATTTCCAACATTATTTTCAAAAATGAGTCATTTA
1 TTATTTTTGGGTATTTTACTAAAAAAGGCCCATTTCCAACATTATTTTCAAAAATGAGTCATTTA
3968634 AAAGATTATTTC
66 AAAGATTATTTC
3968646 T
1 T
3968647 CAGAATGGGC
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 78 1.00
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (77 bp):
TTATTTTTGGGTATTTTACTAAAAAAGGCCCATTTCCAACATTATTTTCAAAAATGAGTCATTTA
AAAGATTATTTC
Found at i:3968907 original size:28 final size:29
Alignment explanation
Indices: 3968861--3968927 Score: 82
Period size: 28 Copynumber: 2.3 Consensus size: 29
3968851 GAGTTTAGGG
*
3968861 TTAAGGTTTTTAAAAAAATAAATTAAGGT
1 TTAAGGTTTTTAAAAAAATAAAGTAAGGT
* * * *
3968890 TTAGGGTTTTT-AATAAATATAGTAGGGT
1 TTAAGGTTTTTAAAAAAATAAAGTAAGGT
3968918 TTAAGGTTTT
1 TTAAGGTTTT
3968928 AAGATTTTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
28 22 0.69
29 10 0.31
ACGTcount: A:0.37, C:0.00, G:0.19, T:0.43
Consensus pattern (29 bp):
TTAAGGTTTTTAAAAAAATAAAGTAAGGT
Found at i:3969246 original size:156 final size:157
Alignment explanation
Indices: 3969083--3969390 Score: 469
Period size: 156 Copynumber: 2.0 Consensus size: 157
3969073 GCTTCTAGCA
* *
3969083 GGACGCTTTTTTTGTGCAATTGATTCTGAAAAAATAATTT-TAAGAAGATGGTTCTGAAAAAATA
1 GGACGCTTTTTTTGTACAATTGATTCTGAAAAAATAATTTCGAA-AAGATGGTTCTGAAAAAATA
* *
3969147 TCTCGGAATTCACGGGAAATCTTATAGTTAGGGATGAAAAACGCTTCAAG-CAGGATACACTGTC
65 TCTCGGAATTCACGGGAAATCTGATAGTTAGGGATGAAAAACACTTCAAGTC-GGATACACTGTC
3969211 AGCAAAAGTACTG-AAAAAGCTCCCAGTT
129 AGCAAAAGTACTGAAAAAAGCTCCCAGTT
* *
3969239 GGACGCTTTTTTTGTACAGTTGATTCTGAAAAAATAATTTCGAAAAGATGGTTTTGAAAAAATAT
1 GGACGCTTTTTTTGTACAATTGATTCTGAAAAAATAATTTCGAAAAGATGGTTCTGAAAAAATAT
* * * * *
3969304 CTCGGGATTCATGGGAAATCTGATAGTTGGGGTTGAAAAACACTTCAAGTCGGATGCACTGTCAG
66 CTCGGAATTCACGGGAAATCTGATAGTTAGGGATGAAAAACACTTCAAGTCGGATACACTGTCAG
*
3969369 CAAATGTACTGAAAAAAGCTCC
131 CAAAAGTACTGAAAAAAGCTCC
3969391 TAATTGGATG
Statistics
Matches: 137, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
156 124 0.91
157 13 0.09
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.29
Consensus pattern (157 bp):
GGACGCTTTTTTTGTACAATTGATTCTGAAAAAATAATTTCGAAAAGATGGTTCTGAAAAAATAT
CTCGGAATTCACGGGAAATCTGATAGTTAGGGATGAAAAACACTTCAAGTCGGATACACTGTCAG
CAAAAGTACTGAAAAAAGCTCCCAGTT
Found at i:3973409 original size:30 final size:29
Alignment explanation
Indices: 3973347--3973409 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
3973337 ACTATTCCAG
** * *
3973347 TAAATAATATTTTAAGTGGCCCATTTTCA
1 TAAATAATATTAGAAATGGCCCATTTTAA
*
3973376 TAAATAATATTAGAAATGGGCCCTTTTTAA
1 TAAATAATATTAGAAAT-GGCCCATTTTAA
3973406 TAAA
1 TAAA
3973410 ATACCCTTTG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 14 0.50
30 14 0.50
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.38
Consensus pattern (29 bp):
TAAATAATATTAGAAATGGCCCATTTTAA
Found at i:3981982 original size:21 final size:20
Alignment explanation
Indices: 3981944--3981983 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
3981934 CTAGGCAAAA
**
3981944 AGTCAATTTATTTTATTCTT
1 AGTCAATTTATTAAATTCTT
3981964 AGTCAAATTTATTAAATTCT
1 AGTC-AATTTATTAAATTCT
3981984 CATTTGGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.33, C:0.10, G:0.05, T:0.53
Consensus pattern (20 bp):
AGTCAATTTATTAAATTCTT
Found at i:3985472 original size:20 final size:20
Alignment explanation
Indices: 3985447--3985485 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
3985437 TGATTTTTTA
3985447 TTTGATTCTAATCAAATTGG
1 TTTGATTCTAATCAAATTGG
* *
3985467 TTTGATTTTAATTAAATTG
1 TTTGATTCTAATCAAATTG
3985486 ATTTAATTGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.05, G:0.13, T:0.51
Consensus pattern (20 bp):
TTTGATTCTAATCAAATTGG
Found at i:3986267 original size:20 final size:20
Alignment explanation
Indices: 3986242--3986280 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
3986232 TGATTTTTTA
3986242 TTTGATTCTAATCAAATTGG
1 TTTGATTCTAATCAAATTGG
* *
3986262 TTTGATTTTAATTAAATTG
1 TTTGATTCTAATCAAATTG
3986281 ATTTAATTGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.05, G:0.13, T:0.51
Consensus pattern (20 bp):
TTTGATTCTAATCAAATTGG
Found at i:3986506 original size:795 final size:795
Alignment explanation
Indices: 3984976--3986565 Score: 3180
Period size: 795 Copynumber: 2.0 Consensus size: 795
3984966 TATATATATG
3984976 CTAGTGTTGGAAAAATTGTAATTTATGGGAACTTTGAGGCATATTCTTAATTGATAAAAGTTGAG
1 CTAGTGTTGGAAAAATTGTAATTTATGGGAACTTTGAGGCATATTCTTAATTGATAAAAGTTGAG
3985041 AGTTGAGTCATAAAATTATGATTTTATATTCAACTCCTTGAAACCTTTACAATGGTATATCATAT
66 AGTTGAGTCATAAAATTATGATTTTATATTCAACTCCTTGAAACCTTTACAATGGTATATCATAT
3985106 GCTCAAAATGGTTCAGTGATGAATGAGAAATTGATGCTCAAATTAAGCTGCTTATGAATATTTGT
131 GCTCAAAATGGTTCAGTGATGAATGAGAAATTGATGCTCAAATTAAGCTGCTTATGAATATTTGT
3985171 TGAGGAAAAGAAAGCTTAAATCCCACATTAGTTAAATACCAAGTGTGAGATGTGTATATATATAT
196 TGAGGAAAAGAAAGCTTAAATCCCACATTAGTTAAATACCAAGTGTGAGATGTGTATATATATAT
3985236 GAGAACCACTTAAAAAGTGATTGAATGATAAAGTTTGGAACCTTACCTCACGTGCAAAGGGGTGT
261 GAGAACCACTTAAAAAGTGATTGAATGATAAAGTTTGGAACCTTACCTCACGTGCAAAGGGGTGT
3985301 AGGTCCAAACCCTTGCATGACATAGGCGACGCAAAATGTCAGGCCCAAAATAGGTTTGTGGATAT
326 AGGTCCAAACCCTTGCATGACATAGGCGACGCAAAATGTCAGGCCCAAAATAGGTTTGTGGATAT
3985366 TTTAGCCCAACACGAAGTTTATTTTTTTTGAATACATATACACAAAATGTGATTTAAAAGATCAT
391 TTTAGCCCAACACGAAGTTTATTTTTTTTGAATACATATACACAAAATGTGATTTAAAAGATCAT
3985431 ATATCCTGATTTTTTATTTGATTCTAATCAAATTGGTTTGATTTTAATTAAATTGATTTAATTGC
456 ATATCCTGATTTTTTATTTGATTCTAATCAAATTGGTTTGATTTTAATTAAATTGATTTAATTGC
3985496 CCCTTTAAATGTAGATTTTGTCTCCTTATACATAGATAATTCCAAAATTCCTCCACTTTGAATGC
521 CCCTTTAAATGTAGATTTTGTCTCCTTATACATAGATAATTCCAAAATTCCTCCACTTTGAATGC
3985561 CTATAAAAGGAAAAGACTTCTTTAGAATTTTTTGTTCAATCTCACTCTATCACACCGAGATTATT
586 CTATAAAAGGAAAAGACTTCTTTAGAATTTTTTGTTCAATCTCACTCTATCACACCGAGATTATT
3985626 TCTCTCCAAAATTCTTCTCTTTTCTCCCCATATTTTCCAACATTTCGATGATAGAAAAAGGCATC
651 TCTCTCCAAAATTCTTCTCTTTTCTCCCCATATTTTCCAACATTTCGATGATAGAAAAAGGCATC
3985691 GTTTATTCGTTGACCATTGCAGTGGTGCTACTGCTTTGATCATCGTGTTGTTGTATCCTAGGAGA
716 GTTTATTCGTTGACCATTGCAGTGGTGCTACTGCTTTGATCATCGTGTTGTTGTATCCTAGGAGA
3985756 CATTAGACCAACGTT
781 CATTAGACCAACGTT
3985771 CTAGTGTTGGAAAAATTGTAATTTATGGGAACTTTGAGGCATATTCTTAATTGATAAAAGTTGAG
1 CTAGTGTTGGAAAAATTGTAATTTATGGGAACTTTGAGGCATATTCTTAATTGATAAAAGTTGAG
3985836 AGTTGAGTCATAAAATTATGATTTTATATTCAACTCCTTGAAACCTTTACAATGGTATATCATAT
66 AGTTGAGTCATAAAATTATGATTTTATATTCAACTCCTTGAAACCTTTACAATGGTATATCATAT
3985901 GCTCAAAATGGTTCAGTGATGAATGAGAAATTGATGCTCAAATTAAGCTGCTTATGAATATTTGT
131 GCTCAAAATGGTTCAGTGATGAATGAGAAATTGATGCTCAAATTAAGCTGCTTATGAATATTTGT
3985966 TGAGGAAAAGAAAGCTTAAATCCCACATTAGTTAAATACCAAGTGTGAGATGTGTATATATATAT
196 TGAGGAAAAGAAAGCTTAAATCCCACATTAGTTAAATACCAAGTGTGAGATGTGTATATATATAT
3986031 GAGAACCACTTAAAAAGTGATTGAATGATAAAGTTTGGAACCTTACCTCACGTGCAAAGGGGTGT
261 GAGAACCACTTAAAAAGTGATTGAATGATAAAGTTTGGAACCTTACCTCACGTGCAAAGGGGTGT
3986096 AGGTCCAAACCCTTGCATGACATAGGCGACGCAAAATGTCAGGCCCAAAATAGGTTTGTGGATAT
326 AGGTCCAAACCCTTGCATGACATAGGCGACGCAAAATGTCAGGCCCAAAATAGGTTTGTGGATAT
3986161 TTTAGCCCAACACGAAGTTTATTTTTTTTGAATACATATACACAAAATGTGATTTAAAAGATCAT
391 TTTAGCCCAACACGAAGTTTATTTTTTTTGAATACATATACACAAAATGTGATTTAAAAGATCAT
3986226 ATATCCTGATTTTTTATTTGATTCTAATCAAATTGGTTTGATTTTAATTAAATTGATTTAATTGC
456 ATATCCTGATTTTTTATTTGATTCTAATCAAATTGGTTTGATTTTAATTAAATTGATTTAATTGC
3986291 CCCTTTAAATGTAGATTTTGTCTCCTTATACATAGATAATTCCAAAATTCCTCCACTTTGAATGC
521 CCCTTTAAATGTAGATTTTGTCTCCTTATACATAGATAATTCCAAAATTCCTCCACTTTGAATGC
3986356 CTATAAAAGGAAAAGACTTCTTTAGAATTTTTTGTTCAATCTCACTCTATCACACCGAGATTATT
586 CTATAAAAGGAAAAGACTTCTTTAGAATTTTTTGTTCAATCTCACTCTATCACACCGAGATTATT
3986421 TCTCTCCAAAATTCTTCTCTTTTCTCCCCATATTTTCCAACATTTCGATGATAGAAAAAGGCATC
651 TCTCTCCAAAATTCTTCTCTTTTCTCCCCATATTTTCCAACATTTCGATGATAGAAAAAGGCATC
3986486 GTTTATTCGTTGACCATTGCAGTGGTGCTACTGCTTTGATCATCGTGTTGTTGTATCCTAGGAGA
716 GTTTATTCGTTGACCATTGCAGTGGTGCTACTGCTTTGATCATCGTGTTGTTGTATCCTAGGAGA
3986551 CATTAGACCAACGTT
781 CATTAGACCAACGTT
3986566 TCTCCAAGTA
Statistics
Matches: 795, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
795 795 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (795 bp):
CTAGTGTTGGAAAAATTGTAATTTATGGGAACTTTGAGGCATATTCTTAATTGATAAAAGTTGAG
AGTTGAGTCATAAAATTATGATTTTATATTCAACTCCTTGAAACCTTTACAATGGTATATCATAT
GCTCAAAATGGTTCAGTGATGAATGAGAAATTGATGCTCAAATTAAGCTGCTTATGAATATTTGT
TGAGGAAAAGAAAGCTTAAATCCCACATTAGTTAAATACCAAGTGTGAGATGTGTATATATATAT
GAGAACCACTTAAAAAGTGATTGAATGATAAAGTTTGGAACCTTACCTCACGTGCAAAGGGGTGT
AGGTCCAAACCCTTGCATGACATAGGCGACGCAAAATGTCAGGCCCAAAATAGGTTTGTGGATAT
TTTAGCCCAACACGAAGTTTATTTTTTTTGAATACATATACACAAAATGTGATTTAAAAGATCAT
ATATCCTGATTTTTTATTTGATTCTAATCAAATTGGTTTGATTTTAATTAAATTGATTTAATTGC
CCCTTTAAATGTAGATTTTGTCTCCTTATACATAGATAATTCCAAAATTCCTCCACTTTGAATGC
CTATAAAAGGAAAAGACTTCTTTAGAATTTTTTGTTCAATCTCACTCTATCACACCGAGATTATT
TCTCTCCAAAATTCTTCTCTTTTCTCCCCATATTTTCCAACATTTCGATGATAGAAAAAGGCATC
GTTTATTCGTTGACCATTGCAGTGGTGCTACTGCTTTGATCATCGTGTTGTTGTATCCTAGGAGA
CATTAGACCAACGTT
Found at i:3986766 original size:22 final size:23
Alignment explanation
Indices: 3986728--3986773 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
3986718 ATTCAATTCA
3986728 ATTTATTATATATATATTTGTTT
1 ATTTATTATATATATATTTGTTT
* *
3986751 ATTTA-TATTTATATATTTTTTT
1 ATTTATTATATATATATTTGTTT
3986773 A
1 A
3986774 CTCGCTAACC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (23 bp):
ATTTATTATATATATATTTGTTT
Found at i:3989489 original size:10 final size:9
Alignment explanation
Indices: 3989460--3989485 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
3989450 ATTTTATATT
3989460 AATATTTTA
1 AATATTTTA
3989469 AATATTTTA
1 AATATTTTA
3989478 AATATTTT
1 AATATTTT
3989486 TAAAAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
AATATTTTA
Found at i:3992370 original size:41 final size:42
Alignment explanation
Indices: 3992308--3992440 Score: 168
Period size: 41 Copynumber: 3.2 Consensus size: 42
3992298 NNNNNNNGCC
* *
3992308 TATAGCCTGATTCAGTTCACCGGCACTTAGCCTGCTAGGCTTG
1 TATAGCCTGATTCAATTCACCGGCACTTAGCCTGCTAGG-ATG
*
3992351 TA-A-CCTGATTCAACTCACCGGCACTTAGCCTGCT-GGATG
1 TATAGCCTGATTCAATTCACCGGCACTTAGCCTGCTAGGATG
*
3992390 TATAGTCC-GATTCAATTCACCGGCACTTAGCCTGCTA-GACG
1 TATAG-CCTGATTCAATTCACCGGCACTTAGCCTGCTAGGATG
*
3992431 TATAGTCTGA
1 TATAGCCTGA
3992441 ATAATTTCAC
Statistics
Matches: 79, Mismatches: 6, Indels: 12
0.81 0.06 0.12
Matches are distributed among these distances:
39 4 0.05
40 4 0.05
41 66 0.84
42 3 0.04
43 2 0.03
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.29
Consensus pattern (42 bp):
TATAGCCTGATTCAATTCACCGGCACTTAGCCTGCTAGGATG
Found at i:4006534 original size:2 final size:2
Alignment explanation
Indices: 4006527--4006551 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4006517 TAGAAATAAA
4006527 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 A
4006552 AATTGCGAAG
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4018622 original size:26 final size:24
Alignment explanation
Indices: 4018559--4018629 Score: 63
Period size: 24 Copynumber: 2.8 Consensus size: 24
4018549 CAATCTTTAT
*
4018559 ATTAAATAATTTTTAATTAAAAATA
1 ATTAAAT-ATTATTAATTAAAAATA
* * *
4018584 A-TAAAAATAATTAGTTATAAAATA
1 ATTAAATATTATTAATTA-AAAATA
4018608 ATTTAAATATTATTAAATTAAA
1 A-TTAAATATTATT-AATTAAA
4018630 TTATAAATTG
Statistics
Matches: 35, Mismatches: 7, Indels: 7
0.71 0.14 0.14
Matches are distributed among these distances:
23 8 0.23
24 11 0.31
25 1 0.03
26 11 0.31
27 4 0.11
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (24 bp):
ATTAAATATTATTAATTAAAAATA
Found at i:4023328 original size:15 final size:17
Alignment explanation
Indices: 4023295--4023328 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
4023285 ATTAGCTTTA
*
4023295 TTATATATATATGGTTT
1 TTATATATAAATGGTTT
4023312 TTATATATAAAT-GTTT
1 TTATATATAAATGGTTT
4023328 T
1 T
4023329 GTTTCTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.32, C:0.00, G:0.09, T:0.59
Consensus pattern (17 bp):
TTATATATAAATGGTTT
Found at i:4026709 original size:146 final size:147
Alignment explanation
Indices: 4026554--4026849 Score: 569
Period size: 146 Copynumber: 2.0 Consensus size: 147
4026544 ATATATATAA
4026554 AAAGCTTTGAAATTTTGTCAAATATTATTCAAAAGGTTTAAAACAAAGCTCA-TTTATTTAAAAA
1 AAAGCTTTGAAATTTTGTCAAATATTATTCAAAAGGTTTAAAACAAAGCTCATTTTA-TTAAAAA
4026618 TAAGTCTAAAATTTTAAAATAAAAAATTGATATGAAAAAATCAAGAACTAAACTGAATTATTAAT
65 TAAGTCTAAAATTTTAAAATAAAAAATTGATATGAAAAAATCAAGAACTAAACTGAATTATTAAT
4026683 AAAGATTC-AAAATATCT
130 AAAGATTCAAAAATATCT
4026700 AAAGCTTTGAAATTTTGTCAAATATTATTCAAAAGGTTTAAAACAAAGCTCATTTTATTAAAAAT
1 AAAGCTTTGAAATTTTGTCAAATATTATTCAAAAGGTTTAAAACAAAGCTCATTTTATTAAAAAT
4026765 AAGTCTAAAATTTTAAAATAAAAAATTGATATGAAAAAATCAAGAACTAAACTGAATTATTAATA
66 AAGTCTAAAATTTTAAAATAAAAAATTGATATGAAAAAATCAAGAACTAAACTGAATTATTAATA
4026830 AAGATTCAAAAATATCT
131 AAGATTCAAAAATATCT
4026847 AAA
1 AAA
4026850 AATCAAATTC
Statistics
Matches: 148, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
146 132 0.89
147 16 0.11
ACGTcount: A:0.51, C:0.08, G:0.08, T:0.32
Consensus pattern (147 bp):
AAAGCTTTGAAATTTTGTCAAATATTATTCAAAAGGTTTAAAACAAAGCTCATTTTATTAAAAAT
AAGTCTAAAATTTTAAAATAAAAAATTGATATGAAAAAATCAAGAACTAAACTGAATTATTAATA
AAGATTCAAAAATATCT
Found at i:4029743 original size:16 final size:16
Alignment explanation
Indices: 4029719--4029754 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
4029709 TAACCACTTC
* *
4029719 AAAATATAATTAAAAT
1 AAAAAATAAATAAAAT
4029735 AAAAAATAAATAAAAT
1 AAAAAATAAATAAAAT
4029751 AAAA
1 AAAA
4029755 TAAGATTTTT
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:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (16 bp):
AAAAAATAAATAAAAT
Found at i:4040745 original size:37 final size:37
Alignment explanation
Indices: 4040695--4040785 Score: 173
Period size: 37 Copynumber: 2.5 Consensus size: 37
4040685 ACCAGTTTGG
4040695 CACCCAGTGCCTCATCGGCTAAACCGAAGTAAATTGA
1 CACCCAGTGCCTCATCGGCTAAACCGAAGTAAATTGA
*
4040732 CACCCAGTGCCTCATCGGCTAAACCGAAGTAAATTGG
1 CACCCAGTGCCTCATCGGCTAAACCGAAGTAAATTGA
4040769 CACCCAGTGCCTCATCG
1 CACCCAGTGCCTCATCG
4040786 AATATATCCG
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 53 1.00
ACGTcount: A:0.29, C:0.33, G:0.20, T:0.19
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGCTAAACCGAAGTAAATTGA
Found at i:4040824 original size:41 final size:37
Alignment explanation
Indices: 4040695--4040825 Score: 154
Period size: 37 Copynumber: 3.4 Consensus size: 37
4040685 ACCAGTTTGG
**
4040695 CACCCAGTGCCTCATCGGCTAAACCGAAGTAAATTGA
1 CACCCAGTGCCTCATCGAATAAACCGAAGTAAATTGA
** *
4040732 CACCCAGTGCCTCATCGGCTAAACCGAAGTAAATTGG
1 CACCCAGTGCCTCATCGAATAAACCGAAGTAAATTGA
*
4040769 CACCCAGTGCCTCATCGAATATATCCGAAGTAATAATTTGA
1 CACCCAGTGCCTCATCGAATA-AACCGAAGT-A-AA-TTGA
* *
4040810 CACCCAATGTCTCATC
1 CACCCAGTGCCTCATC
4040826 AACTCGAAGT
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
37 55 0.66
38 8 0.10
39 1 0.01
40 2 0.02
41 17 0.20
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGAATAAACCGAAGTAAATTGA
Found at i:4041018 original size:24 final size:24
Alignment explanation
Indices: 4040974--4041019 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 24
4040964 ATATATACCT
4040974 ATTCAATCAATATAAATTCAATAA
1 ATTCAATCAATATAAATTCAATAA
4040998 ATTC-ATCACATACTAAA-TCAAT
1 ATTCAATCA-ATA-TAAATTCAAT
4041020 TCATTTCAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 4 0.20
24 12 0.60
25 4 0.20
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (24 bp):
ATTCAATCAATATAAATTCAATAA
Found at i:4050297 original size:18 final size:18
Alignment explanation
Indices: 4050274--4050308 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
4050264 CAGCCGAATA
4050274 CCATC-ATTCGGCCCAAAG
1 CCATCAATT-GGCCCAAAG
4050292 CCATCAATTGGCCCAAA
1 CCATCAATTGGCCCAAA
4050309 ATTACTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.81
19 3 0.19
ACGTcount: A:0.31, C:0.37, G:0.14, T:0.17
Consensus pattern (18 bp):
CCATCAATTGGCCCAAAG
Found at i:4050574 original size:51 final size:51
Alignment explanation
Indices: 4050498--4050601 Score: 190
Period size: 51 Copynumber: 2.0 Consensus size: 51
4050488 CACAAAAATT
*
4050498 ATTAACACCATCAGCACAATAATTTTGACCAAGTGGAAAGCTATTTTGACC
1 ATTAAAACCATCAGCACAATAATTTTGACCAAGTGGAAAGCTATTTTGACC
*
4050549 ATTAAAACCATCAGCACAATGATTTTGACCAAGTGGAAAGCTATTTTGACC
1 ATTAAAACCATCAGCACAATAATTTTGACCAAGTGGAAAGCTATTTTGACC
4050600 AT
1 AT
4050602 AGCCATAATG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.38, C:0.20, G:0.14, T:0.28
Consensus pattern (51 bp):
ATTAAAACCATCAGCACAATAATTTTGACCAAGTGGAAAGCTATTTTGACC
Found at i:4062610 original size:19 final size:20
Alignment explanation
Indices: 4062586--4062629 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
4062576 AAAATTATAC
** *
4062586 TTTTTTAAAATTAATTTATT
1 TTTTTTAAAAAAAATTAATT
4062606 TTTTTTAAAAAAAATTAATT
1 TTTTTTAAAAAAAATTAATT
4062626 TTTT
1 TTTT
4062630 AATGTGTCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTTTTAAAAAAAATTAATT
Found at i:4062990 original size:176 final size:176
Alignment explanation
Indices: 4062696--4063039 Score: 688
Period size: 176 Copynumber: 2.0 Consensus size: 176
4062686 TATTAGTGCC
4062696 ACGTGAGCATAAATTAATGATACTAGTGTGGAGGTACCAACCTAGATGACGAAATATACGTTGAG
1 ACGTGAGCATAAATTAATGATACTAGTGTGGAGGTACCAACCTAGATGACGAAATATACGTTGAG
4062761 GTATCAAGTAGGTGTAGAAAAAAGTTCATAGGACAAGTAGGTACCTACAAGGTACTTTTGGACAA
66 GTATCAAGTAGGTGTAGAAAAAAGTTCATAGGACAAGTAGGTACCTACAAGGTACTTTTGGACAA
4062826 GTTCATATGACAAGTTTTATATTAACCTAGTATTTTTTTAACATTA
131 GTTCATATGACAAGTTTTATATTAACCTAGTATTTTTTTAACATTA
4062872 ACGTGAGCATAAATTAATGATACTAGTGTGGAGGTACCAACCTAGATGACGAAATATACGTTGAG
1 ACGTGAGCATAAATTAATGATACTAGTGTGGAGGTACCAACCTAGATGACGAAATATACGTTGAG
4062937 GTATCAAGTAGGTGTAGAAAAAAGTTCATAGGACAAGTAGGTACCTACAAGGTACTTTTGGACAA
66 GTATCAAGTAGGTGTAGAAAAAAGTTCATAGGACAAGTAGGTACCTACAAGGTACTTTTGGACAA
4063002 GTTCATATGACAAGTTTTATATTAACCTAGTATTTTTT
131 GTTCATATGACAAGTTTTATATTAACCTAGTATTTTTT
4063040 AATCATTTAT
Statistics
Matches: 168, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
176 168 1.00
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (176 bp):
ACGTGAGCATAAATTAATGATACTAGTGTGGAGGTACCAACCTAGATGACGAAATATACGTTGAG
GTATCAAGTAGGTGTAGAAAAAAGTTCATAGGACAAGTAGGTACCTACAAGGTACTTTTGGACAA
GTTCATATGACAAGTTTTATATTAACCTAGTATTTTTTTAACATTA
Found at i:4063113 original size:5 final size:5
Alignment explanation
Indices: 4063103--4063128 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
4063093 TATAAATTAC
4063103 ATAAT ATAAT ATAAT ATAAT ATAAT A
1 ATAAT ATAAT ATAAT ATAAT ATAAT A
4063129 CAAACTTAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
ATAAT
Found at i:4068078 original size:16 final size:17
Alignment explanation
Indices: 4068052--4068085 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
4068042 TGAACAAATT
*
4068052 AATTAAAAAATCATAAA
1 AATTAAAAAATAATAAA
4068069 AATT-AAAAATAATAAA
1 AATTAAAAAATAATAAA
4068085 A
1 A
4068086 TCGGTTCAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (17 bp):
AATTAAAAAATAATAAA
Found at i:4071896 original size:19 final size:20
Alignment explanation
Indices: 4071869--4071915 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
4071859 ATATATAAAA
*
4071869 TTTGAAATTTTTATAAA-TAT
1 TTTG-AATTTTTAAAAATTAT
4071889 TTTGAA-TTTTAAAAATTAT
1 TTTGAATTTTTAAAAATTAT
4071908 TTTGAATT
1 TTTGAATT
4071916 ATTTTGTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
18 8 0.33
19 11 0.46
20 5 0.21
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.55
Consensus pattern (20 bp):
TTTGAATTTTTAAAAATTAT
Found at i:4077842 original size:33 final size:33
Alignment explanation
Indices: 4077805--4077870 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
4077795 TGAATTGTCA
* *
4077805 TCTGG-GTTCCTCTTTTGGAATATGTTGTTAGTC
1 TCTGGAGTT-CTCTTCTGGAATATATTGTTAGTC
*
4077838 TCTGGAGTTCTCTTCTGGAATCTATTGTTAGTC
1 TCTGGAGTTCTCTTCTGGAATATATTGTTAGTC
4077871 ATTTTGAACT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 26 0.90
34 3 0.10
ACGTcount: A:0.14, C:0.17, G:0.23, T:0.47
Consensus pattern (33 bp):
TCTGGAGTTCTCTTCTGGAATATATTGTTAGTC
Found at i:4080049 original size:2 final size:2
Alignment explanation
Indices: 4080036--4080067 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
4080026 TGGGAGGATC
*
4080036 CT CT CC CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
4080068 TTTCATCTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (2 bp):
CT
Found at i:4080456 original size:28 final size:31
Alignment explanation
Indices: 4080409--4080473 Score: 82
Period size: 29 Copynumber: 2.2 Consensus size: 31
4080399 ACTTTTTATT
* * *
4080409 TTTACACTTTGATCCCAAAA-TTTTGA-ATA
1 TTTACACTTTGAGCCAAAAACTTTTCACATA
4080438 TTTACAC-TTGAGCCAAAAACTTTTCACATA
1 TTTACACTTTGAGCCAAAAACTTTTCACATA
4080468 TTTACA
1 TTTACA
4080474 ATTTAGTCCT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 10 0.32
29 12 0.39
30 9 0.29
ACGTcount: A:0.35, C:0.20, G:0.06, T:0.38
Consensus pattern (31 bp):
TTTACACTTTGAGCCAAAAACTTTTCACATA
Found at i:4080526 original size:3 final size:3
Alignment explanation
Indices: 4080518--4080547 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
4080508 CTACTTCTTA
4080518 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
4080548 TTAATACTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:4082564 original size:13 final size:14
Alignment explanation
Indices: 4082515--4082567 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 14
4082505 AAACATTATC
4082515 AAAATAAATATTATAA
1 AAAATAAA-A-TATAA
4082531 AGAATATTAAAATATAA
1 A-AA-A-TAAAATATAA
4082548 AAAATAAAATA-AA
1 AAAATAAAATATAA
4082561 AAAATAA
1 AAAATAA
4082568 CGTTGAATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 9
0.79 0.00 0.21
Matches are distributed among these distances:
13 9 0.26
14 7 0.21
15 1 0.03
16 3 0.09
17 8 0.24
18 2 0.06
19 4 0.12
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.25
Consensus pattern (14 bp):
AAAATAAAATATAA
Found at i:4085506 original size:25 final size:22
Alignment explanation
Indices: 4085478--4085523 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 22
4085468 AACAATAAAA
4085478 ACATATTTTTTATTCTCTAATTTTT
1 ACATA-TTTTTATT-T-TAATTTTT
4085503 ACATATTTTTATTTTAATTTT
1 ACATATTTTTATTTTAATTTT
4085524 CCAACAATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 7 0.33
23 1 0.05
24 8 0.38
25 5 0.24
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.65
Consensus pattern (22 bp):
ACATATTTTTATTTTAATTTTT
Found at i:4086321 original size:10 final size:10
Alignment explanation
Indices: 4086306--4086371 Score: 52
Period size: 10 Copynumber: 6.7 Consensus size: 10
4086296 TTTTTTTTAA
4086306 AATTAAAAAT
1 AATTAAAAAT
4086316 AATTAAAAAT
1 AATTAAAAAT
4086326 -ATATAAAAAT
1 AAT-TAAAAAT
*
4086336 AA-CAAAAAT
1 AATTAAAAAT
4086345 -A-TATAAAAT
1 AATTA-AAAAT
4086354 -ATATAAAAATT
1 AAT-TAAAAA-T
4086365 AATTAAA
1 AATTAAA
4086372 TGTTGACATG
Statistics
Matches: 47, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
8 2 0.04
9 14 0.30
10 21 0.45
11 8 0.17
12 2 0.04
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.29
Consensus pattern (10 bp):
AATTAAAAAT
Found at i:4086361 original size:19 final size:19
Alignment explanation
Indices: 4086309--4086363 Score: 76
Period size: 19 Copynumber: 2.8 Consensus size: 19
4086299 TTTTTAAAAT
4086309 TAAAAATAATTAAAAATATA
1 TAAAAATAA-TAAAAATATA
*
4086329 TAAAAATAACAAAAATATA
1 TAAAAATAATAAAAATATA
4086348 T-AAAATATATAAAAAT
1 TAAAAATA-ATAAAAAT
4086364 TAATTAAATG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
18 6 0.19
19 17 0.53
20 9 0.28
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (19 bp):
TAAAAATAATAAAAATATA
Found at i:4126667 original size:20 final size:20
Alignment explanation
Indices: 4126630--4126687 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
4126620 AGTTCCCCCA
*
4126630 AAAAACACATAATGAAATTAG
1 AAAAACATATAAT-AAATTAG
*
4126651 AAAATCATGATAA-AAATTAG
1 AAAAACAT-ATAATAAATTAG
4126671 AAAAACATATAATAAAT
1 AAAAACATATAATAAAT
4126688 AATTCCAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
19 4 0.12
20 18 0.56
21 6 0.19
22 4 0.12
ACGTcount: A:0.64, C:0.07, G:0.07, T:0.22
Consensus pattern (20 bp):
AAAAACATATAATAAATTAG
Found at i:4129214 original size:43 final size:43
Alignment explanation
Indices: 4129052--4129226 Score: 192
Period size: 43 Copynumber: 4.1 Consensus size: 43
4129042 TTTATGTGAA
* * * *
4129052 AAACACCGCTATAGAACATGACATTTAACGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCAC
* * * *
4129095 AAATGCTGCTAAAGAACATGACCTTTAGCGGCAC-TTTCCCAG
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCAC
* * *
4129137 AAATGCCGTTAAAGAACATGACCTTTAGCGGCGCTTTCCCCAC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCAC
* * * *
4129180 AAACGCCGCTAAATG-TCATGTCCTTTAGCAGCGCTTTTCCCAA
1 AAACGCCGCTAAA-GAACATGACCTTTAGCGGCGCTTTTCCCAC
4129223 AAAC
1 AAAC
4129227 TTGCATTTAA
Statistics
Matches: 110, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
42 38 0.35
43 71 0.65
44 1 0.01
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTCCCAC
Found at i:4130091 original size:25 final size:27
Alignment explanation
Indices: 4130050--4130117 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 27
4130040 AAAAACTTAC
* *
4130050 ACGGCGATG-AGGCAGAGGAG-T-GTCG
1 ACGGCGATGCA-GTAGAGGAGATAGTCA
*
4130075 ACGGCGATGCAGTAGAGGGGATAGTCA
1 ACGGCGATGCAGTAGAGGAGATAGTCA
*
4130102 ACGGTGATGCAGTAGA
1 ACGGCGATGCAGTAGA
4130118 CGGTCAGGGA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
25 16 0.44
26 2 0.06
27 18 0.50
ACGTcount: A:0.28, C:0.15, G:0.43, T:0.15
Consensus pattern (27 bp):
ACGGCGATGCAGTAGAGGAGATAGTCA
Found at i:4130163 original size:14 final size:14
Alignment explanation
Indices: 4130144--4130188 Score: 72
Period size: 14 Copynumber: 3.2 Consensus size: 14
4130134 AAGGGATTTT
*
4130144 GGATTTTGATTTGG
1 GGATTTCGATTTGG
*
4130158 GGATTTCGATGTGG
1 GGATTTCGATTTGG
4130172 GGATTTCGATTTGG
1 GGATTTCGATTTGG
4130186 GGA
1 GGA
4130189 AAATTAAGGG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.16, C:0.04, G:0.40, T:0.40
Consensus pattern (14 bp):
GGATTTCGATTTGG
Found at i:4130266 original size:28 final size:29
Alignment explanation
Indices: 4130216--4130274 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 29
4130206 GGTTTCAATT
* **
4130216 TTTAGGGGTGAAAATAAGGGATTTTAGGG
1 TTTAGGGATGAAAATAAAAGATTTTAGGG
*
4130245 TTTAGGGAT-AAAATAAAAGATTTTGGGG
1 TTTAGGGATGAAAATAAAAGATTTTAGGG
4130273 TT
1 TT
4130275 ATGGTTTAGG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
28 18 0.69
29 8 0.31
ACGTcount: A:0.34, C:0.00, G:0.32, T:0.34
Consensus pattern (29 bp):
TTTAGGGATGAAAATAAAAGATTTTAGGG
Found at i:4130817 original size:2 final size:2
Alignment explanation
Indices: 4130812--4130836 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4130802 TCTAAAAAAC
4130812 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
4130837 TAATATTTAC
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:4132063 original size:14 final size:14
Alignment explanation
Indices: 4132046--4132074 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
4132036 AGGGTTAGGG
4132046 TTAAGGTTTGAAGT
1 TTAAGGTTTGAAGT
4132060 TTAAGGTTTGAAGT
1 TTAAGGTTTGAAGT
4132074 T
1 T
4132075 CATGGTTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.45
Consensus pattern (14 bp):
TTAAGGTTTGAAGT
Found at i:4132081 original size:14 final size:14
Alignment explanation
Indices: 4132048--4132081 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
4132038 GGTTAGGGTT
*
4132048 AAGGTTTGAAGTTT
1 AAGGTTTGAAGTTC
4132062 AAGGTTTGAAGTTC
1 AAGGTTTGAAGTTC
*
4132076 ATGGTT
1 AAGGTT
4132082 CAAGGTAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.26, C:0.03, G:0.29, T:0.41
Consensus pattern (14 bp):
AAGGTTTGAAGTTC
Found at i:4134301 original size:14 final size:15
Alignment explanation
Indices: 4134276--4134306 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4134266 GATAAAAAAT
4134276 AAATATTGGTTTTTA
1 AAATATTGGTTTTTA
*
4134291 AAATATTGTTTTTTA
1 AAATATTGGTTTTTA
4134306 A
1 A
4134307 TTTTAGTCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.55
Consensus pattern (15 bp):
AAATATTGGTTTTTA
Found at i:4134498 original size:21 final size:21
Alignment explanation
Indices: 4134444--4134504 Score: 54
Period size: 22 Copynumber: 2.9 Consensus size: 21
4134434 TCAAAATTTT
*
4134444 ATATTAAATA-AAAATTTAAA
1 ATATTAAATATTAAATTTAAA
* *
4134464 ATAATTATCA-ATTATATTTAAA
1 AT-ATTA-AATATTAAATTTAAA
4134486 ATATTAAATATTAAGATTT
1 ATATTAAATATTAA-ATTT
4134505 TCATTTCAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 8
0.70 0.11 0.18
Matches are distributed among these distances:
20 3 0.10
21 13 0.42
22 15 0.48
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (21 bp):
ATATTAAATATTAAATTTAAA
Found at i:4140440 original size:5 final size:5
Alignment explanation
Indices: 4140425--4140467 Score: 68
Period size: 5 Copynumber: 8.2 Consensus size: 5
4140415 TTTAAAAGAA
4140425 TATATT TATAT TATAT TATAT TATAT TATAT TATAT TAATAT T
1 TATA-T TATAT TATAT TATAT TATAT TATAT TATAT T-ATAT T
4140468 TAATAATTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
5 27 0.75
6 9 0.25
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:4141559 original size:45 final size:45
Alignment explanation
Indices: 4141506--4141693 Score: 170
Period size: 45 Copynumber: 4.2 Consensus size: 45
4141496 TATCTGCAAA
* *
4141506 ATTTGTTGTGTATCCACAGCCAAAGGCAGATTCCATTTACGGGTT
1 ATTTGTTGTGTATCCACAGCCAGAGGCAGATTCCATTTACGAGTT
* *
4141551 ATTTGTTGTGTATCCACATG-CAGAGGCAAATTCCATCTACGAGTT
1 ATTTGTTGTGTATCCACA-GCCAGAGGCAGATTCCATTTACGAGTT
* * * * * * *
4141596 ATTTGCTATGTAATCCACAACCAGAGGTAGATTTCATTTGCAAG--
1 ATTTGTTGTGT-ATCCACAGCCAGAGGCAGATTCCATTTACGAGTT
* * * *
4141640 ACTTTGTTGTGTA-CCAACAGCCAGAGACAGATTCCATCTGCGAGAT
1 A-TTTGTTGTGTATCC-ACAGCCAGAGGCAGATTCCATTTACGAGTT
4141686 -TTTGTTGT
1 ATTTGTTGT
4141694 ATGTCCATAG
Statistics
Matches: 115, Mismatches: 21, Indels: 15
0.76 0.14 0.10
Matches are distributed among these distances:
43 2 0.02
44 32 0.28
45 56 0.49
46 25 0.22
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.33
Consensus pattern (45 bp):
ATTTGTTGTGTATCCACAGCCAGAGGCAGATTCCATTTACGAGTT
Found at i:4142703 original size:19 final size:18
Alignment explanation
Indices: 4142666--4142708 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
4142656 ACCAAAAAAT
** *
4142666 ATTTTAAATTCATTTTTG
1 ATTTTAAATAAATTATTG
4142684 AGTTTTAAATAAATTATTG
1 A-TTTTAAATAAATTATTG
4142703 ATTTTA
1 ATTTTA
4142709 GTTTAATTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.35, C:0.02, G:0.07, T:0.56
Consensus pattern (18 bp):
ATTTTAAATAAATTATTG
Found at i:4148524 original size:45 final size:45
Alignment explanation
Indices: 4148465--4148552 Score: 131
Period size: 45 Copynumber: 2.0 Consensus size: 45
4148455 TCATACATGC
* * * *
4148465 GGATTCATAGAAGAAACTTCATGGATATAGCAGATTCAAACATAA
1 GGATACATAAAAGAAACTTCATGAACATAGCAGATTCAAACATAA
*
4148510 GGATACATAAAAGAAACTTCATGAACATAGCAGATTCATACAT
1 GGATACATAAAAGAAACTTCATGAACATAGCAGATTCAAACAT
4148553 GCGGACTTTG
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.45, C:0.15, G:0.16, T:0.24
Consensus pattern (45 bp):
GGATACATAAAAGAAACTTCATGAACATAGCAGATTCAAACATAA
Found at i:4156028 original size:5 final size:5
Alignment explanation
Indices: 4156018--4156045 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
4156008 TATCTCTTTA
4156018 TTAAT TTAAT TTAAT TTAAT TTAAT TTA
1 TTAAT TTAAT TTAAT TTAAT TTAAT TTA
4156046 TTAGAGATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TTAAT
Found at i:4156306 original size:5 final size:5
Alignment explanation
Indices: 4156296--4156323 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
4156286 TATCTCTTTA
4156296 TTAAT TTAAT TTAAT TTAAT TTAAT TTA
1 TTAAT TTAAT TTAAT TTAAT TTAAT TTA
4156324 TTAGAGATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TTAAT
Found at i:4156308 original size:278 final size:279
Alignment explanation
Indices: 4155811--4156367 Score: 1107
Period size: 278 Copynumber: 2.0 Consensus size: 279
4155801 TTTGAACTTA
4155811 TGAATGTGGGTTGAATGGCTTGGAGGCACCCCTTTTATAGTACCAATTAGTCAAGTAAAAGAGAG
1 TGAATGTGGGTTGAATGGCTTGGAGGCACCCCTTTTATAGTACCAATTAGTCAAGTAAAAGAGAG
4155876 TTTTTATAGAATTTAACTTCTTTCATTTGAGTGTTCTACAATGATTAAACTATTTTATTTATTAT
66 TTTTTATAGAATTTAACTTCTTTCATTTGAGTGTTCTACAATGATTAAACTATTTTATTTATTAT
4155941 TTATCTCATATTAAAAATAATATGATTTCTTTAAGAGAGAGTTATAAAAGAATTTAATTTCTTCA
131 TTATCTCATATTAAAAATAATATGATTTCTTTAAGAGAGAGTTATAAAAGAATTTAATTTCTTCA
4156006 TTTATCTCTTTATTAATTTAATTTAATTTAATTTAATTTATTAGAGATAAACAATATTAACAAAT
196 TTTATCTCTTTATTAATTTAATTTAATTTAATTTAATTTATTAGAGATAAACAATATTAACAAAT
4156071 GATGAA-TTTGATTGGTCT
261 GATGAATTTTGATTGGTCT
4156089 TGAATGTGGGTTGAATGGCTTGGAGGCACCCCTTTTATAGTACCAATTAGTCAAGTAAAAGAGAG
1 TGAATGTGGGTTGAATGGCTTGGAGGCACCCCTTTTATAGTACCAATTAGTCAAGTAAAAGAGAG
4156154 TTTTTATAGAATTTAACTTCTTTCATTTGAGTGTTCTACAATGATTAAACTATTTTATTTATTAT
66 TTTTTATAGAATTTAACTTCTTTCATTTGAGTGTTCTACAATGATTAAACTATTTTATTTATTAT
4156219 TTATCTCATATTAAAAATAATATGATTTCTTTAAGAGAGAGTTATAAAAGAATTTAATTTCTTCA
131 TTATCTCATATTAAAAATAATATGATTTCTTTAAGAGAGAGTTATAAAAGAATTTAATTTCTTCA
4156284 TTTATCTCTTTATTAATTTAATTTAATTTAATTTAATTTATTAGAGATAAACAATATTAACAAAT
196 TTTATCTCTTTATTAATTTAATTTAATTTAATTTAATTTATTAGAGATAAACAATATTAACAAAT
4156349 GATGAATTTTGATTGGTCT
261 GATGAATTTTGATTGGTCT
4156368 AAAATATCTA
Statistics
Matches: 278, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
278 266 0.96
279 12 0.04
ACGTcount: A:0.35, C:0.09, G:0.13, T:0.43
Consensus pattern (279 bp):
TGAATGTGGGTTGAATGGCTTGGAGGCACCCCTTTTATAGTACCAATTAGTCAAGTAAAAGAGAG
TTTTTATAGAATTTAACTTCTTTCATTTGAGTGTTCTACAATGATTAAACTATTTTATTTATTAT
TTATCTCATATTAAAAATAATATGATTTCTTTAAGAGAGAGTTATAAAAGAATTTAATTTCTTCA
TTTATCTCTTTATTAATTTAATTTAATTTAATTTAATTTATTAGAGATAAACAATATTAACAAAT
GATGAATTTTGATTGGTCT
Found at i:4162403 original size:219 final size:219
Alignment explanation
Indices: 4162016--4162424 Score: 678
Period size: 219 Copynumber: 1.9 Consensus size: 219
4162006 CATACTTTGA
* * *
4162016 AAACAGTACCAAATGAGTTCAACACATAAACAGTAACAAAGCATGTGTTCTGTACCTTCAGAATG
1 AAACAGTACCAAATGAGTTCAACAAATAAACAGTAACAAAGCATGTGTTCTGTACCTTAAGAACG
* *
4162081 ATGACGAAAACTGAAATTAAAGCAATGAAATGGATTGACCAAAATCTGGAGAAGAAAAAAAAAAG
66 ATGAAGAAAACTGAAATTAAAGCAATGAAATGGATTGACCAAAAACTGGAGAAGAAAAAAAAAAG
* * *
4162146 TTAAAATCAGTTCCTAACAAATTAAACCGCAGACAAAAACAGTAATGAACAATAGAAGCAGTACC
131 TTAAAATCAGTTCCTAACAAACTAAACCACACACAAAAACAGTAATGAACAATAGAAGCAGTACC
4162211 AAATTGACTGAAAATAACCATGTC
196 AAATTGACTGAAAATAACCATGTC
4162235 AAACAGTACCAAATGAGTTCAACAAATAAACAGTAACAAAGCATGTGTTCTGTACCTTAAGAACG
1 AAACAGTACCAAATGAGTTCAACAAATAAACAGTAACAAAGCATGTGTTCTGTACCTTAAGAACG
4162300 ATGAAGAAAACTGAAATTAAAGCAATGAAATGGATTGACCAAAAACTGGAGAA-AAAAAACAAAA
66 ATGAAGAAAACTGAAATTAAAGCAATGAAATGGATTGACCAAAAACTGGAGAAGAAAAAA-AAAA
** **
4162364 GTTAAACA-CAGTTCCTAACACCCTAAACCATTCACAAAAACAGTAATGAACAATAGAAGCA
130 GTTAAA-ATCAGTTCCTAACAAACTAAACCACACACAAAAACAGTAATGAACAATAGAAGCA
4162425 ATAACTAACC
Statistics
Matches: 176, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
218 6 0.03
219 169 0.96
220 1 0.01
ACGTcount: A:0.49, C:0.17, G:0.15, T:0.19
Consensus pattern (219 bp):
AAACAGTACCAAATGAGTTCAACAAATAAACAGTAACAAAGCATGTGTTCTGTACCTTAAGAACG
ATGAAGAAAACTGAAATTAAAGCAATGAAATGGATTGACCAAAAACTGGAGAAGAAAAAAAAAAG
TTAAAATCAGTTCCTAACAAACTAAACCACACACAAAAACAGTAATGAACAATAGAAGCAGTACC
AAATTGACTGAAAATAACCATGTC
Found at i:4166685 original size:114 final size:113
Alignment explanation
Indices: 4166470--4166914 Score: 458
Period size: 114 Copynumber: 3.9 Consensus size: 113
4166460 AGCACCAATC
** * * ****
4166470 TACCTCAGGACCAAACGGTGCGTTTTGGTTAAGATA-TTTGCGGCGCTT-TTTGTAATACG-CAG
1 TACCTCAAAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGCGCTTACAAATAA-ACGCCA-
* * **
4166532 CTAAT-ACTATTC-TTTAGCGGCGTTTTATCGTAAACGCCACTAATTCTAATA
64 CTAATGA-TGTTCTTTTA-CGGCGTTTTTTAAT-AACGCCACTAATTCTAATA
*
4166583 TACCTCAAAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGCGATTACAAATAAACGCCACT
1 TACCTCAAAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGCGCTTACAAATAAACGCCACT
** *
4166648 AATGATGTTCTTTTACGGCGTTTTTTAATAAGCGCCACTAACACTAATC
66 AATGATGTTCTTTTACGGCGTTTTTTAATAA-CGCCACTAATTCTAATA
* * * * **** *
4166697 TACCTCAAGACTAAACGGTGCGTTTTGGTTAAGATA-TTTGCGGCGCTT-TTTGTAATACGCCGC
1 TACCTCAAAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGCGCTTACAAATAA-ACGCCAC
* * ** *
4166760 TAAT-ACTGTTC-TTTAGCGGCATTTTATCGTAAATGCCACTAATTCTAATA
65 TAATGA-TGTTCTTTTA-CGGCGTTTTTTAAT-AACGCCACTAATTCTAATA
4166810 TACCTCAAAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGCGCTTACAAATAAACGCCACT
1 TACCTCAAAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGCGCTTACAAATAAACGCCACT
4166875 AATGATGTTCTTTTACGGCGTTTTTTTAATAACGCCACTA
66 AATGATGTTCTTTTACGGCG-TTTTTTAATAACGCCACTA
4166915 GTTGTTCGGG
Statistics
Matches: 269, Mismatches: 48, Indels: 29
0.78 0.14 0.08
Matches are distributed among these distances:
112 8 0.03
113 115 0.43
114 122 0.45
115 24 0.09
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (113 bp):
TACCTCAAAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGCGCTTACAAATAAACGCCACT
AATGATGTTCTTTTACGGCGTTTTTTAATAACGCCACTAATTCTAATA
Found at i:4166803 original size:227 final size:226
Alignment explanation
Indices: 4166095--4166914 Score: 1401
Period size: 227 Copynumber: 3.7 Consensus size: 226
4166085 TAAAACCTAT
*
4166095 TGTTCTTTAGCGGCGTTTTATCGTAAATGCCACTAATTCTAATATACCTCAAAACTAAACGCTGC
1 TGTTCTTTAGCGGCGTTTTATCGTAAATGCCACTAATTCTAATATACCTCAAAACCAAACGCTGC
4166160 GTTTTGGTTAAGGTATTTTGCGGCGATTACAAATAAACGCCACTAATGATGTTCTTTTACGGCGT
66 GTTTTGGTTAAGGTATTTTGCGGCGATTACAAATAAACGCCACTAATGATGTTCTTTTACGGCGT
**
4166225 TTTTTAATAAGCGCCACTAACACTAATCTACCTCAAGACTAAA-GAAGCCGTTTTGGTTAAGATA
131 TTTTTAATAA-CGCCACTAACACTAATCTACCTCAAGACTAAACGGTG-CGTTTTGGTTAAGATA
*
4166289 TTTGCGGCGCTTTTTGTAATACGCCGCTAATAT
194 TTTGCGGCGCTTTTTGTAATACGCCGCTAATAC
*
4166322 TGTTCTTTAGCGGCGTTTTATCGTAAATGCCACTAATTCTAATATACCTCAAAACTAAACGCTGC
1 TGTTCTTTAGCGGCGTTTTATCGTAAATGCCACTAATTCTAATATACCTCAAAACCAAACGCTGC
*
4166387 GTTTTGGTTAAGGTATTTTGCGGC-ACTTACAAATAAACGCCACTAATGATGTTCTTTTATGGCG
66 GTTTTGGTTAAGGTATTTTGCGGCGA-TTACAAATAAACGCCACTAATGATGTTCTTTTACGGCG
* *
4166451 -TTTTTAATAA-G---C--AC-C-AATCTACCTCAGGACCAAACGGTGCGTTTTGGTTAAGATAT
130 TTTTTTAATAACGCCACTAACACTAATCTACCTCAAGACTAAACGGTGCGTTTTGGTTAAGATAT
*
4166507 TTGCGGCGCTTTTTGTAATACGCAGCTAATAC
195 TTGCGGCGCTTTTTGTAATACGCCGCTAATAC
* *
4166539 TATTCTTTAGCGGCGTTTTATCGTAAACGCCACTAATTCTAATATACCTCAAAACCAAACGCTGC
1 TGTTCTTTAGCGGCGTTTTATCGTAAATGCCACTAATTCTAATATACCTCAAAACCAAACGCTGC
4166604 GTTTTGGTTAAGGTATTTTGCGGCGATTACAAATAAACGCCACTAATGATGTTCTTTTACGGCGT
66 GTTTTGGTTAAGGTATTTTGCGGCGATTACAAATAAACGCCACTAATGATGTTCTTTTACGGCGT
4166669 TTTTTAATAAGCGCCACTAACACTAATCTACCTCAAGACTAAACGGTGCGTTTTGGTTAAGATAT
131 TTTTTAATAA-CGCCACTAACACTAATCTACCTCAAGACTAAACGGTGCGTTTTGGTTAAGATAT
4166734 TTGCGGCGCTTTTTGTAATACGCCGCTAATAC
195 TTGCGGCGCTTTTTGTAATACGCCGCTAATAC
*
4166766 TGTTCTTTAGCGGCATTTTATCGTAAATGCCACTAATTCTAATATACCTCAAAACCAAACGCTGC
1 TGTTCTTTAGCGGCGTTTTATCGTAAATGCCACTAATTCTAATATACCTCAAAACCAAACGCTGC
*
4166831 GTTTTGGTTAAGGTATTTTGCGGCGCTTACAAATAAACGCCACTAATGATGTTCTTTTACGGCGT
66 GTTTTGGTTAAGGTATTTTGCGGCGATTACAAATAAACGCCACTAATGATGTTCTTTTACGGCG-
4166896 TTTTTTAATAACGCCACTA
130 TTTTTTAATAACGCCACTA
4166915 GTTGTTCGGG
Statistics
Matches: 561, Mismatches: 18, Indels: 28
0.92 0.03 0.05
Matches are distributed among these distances:
217 187 0.33
218 14 0.02
219 2 0.00
220 1 0.00
221 1 0.00
223 1 0.00
224 1 0.00
225 2 0.00
226 12 0.02
227 329 0.59
228 11 0.02
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (226 bp):
TGTTCTTTAGCGGCGTTTTATCGTAAATGCCACTAATTCTAATATACCTCAAAACCAAACGCTGC
GTTTTGGTTAAGGTATTTTGCGGCGATTACAAATAAACGCCACTAATGATGTTCTTTTACGGCGT
TTTTTAATAACGCCACTAACACTAATCTACCTCAAGACTAAACGGTGCGTTTTGGTTAAGATATT
TGCGGCGCTTTTTGTAATACGCCGCTAATAC
Found at i:4166939 original size:444 final size:445
Alignment explanation
Indices: 4166097--4166899 Score: 1502
Period size: 444 Copynumber: 1.8 Consensus size: 445
4166087 AAACCTATTG
* *
4166097 TTCTTTAGCGGCGTTTTATCGTAAATGCCACTAATTCTAATATACCTCAAAACTAAACGCTGCGT
1 TTCTTTAGCGGCGTTTTATCGTAAACGCCACTAATTCTAATATACCTCAAAACCAAACGCTGCGT
4166162 TTTGGTTAAGGTATTTTGCGGCGATTACAAATAAACGCCACTAATGATGTTCTTTTACGGCGTTT
66 TTTGGTTAAGGTATTTTGCGGCGATTACAAATAAACGCCACTAATGATGTTCTTTTACGGCGTTT
4166227 TTTAATAAGCGCCACTAACACTAATCTACCTCAAGACTAAAGAAGCCGTTTTGGTTAAGATATTT
131 TTTAATAAGCGCCACTAACACTAATCTACCTCAAGACTAAAGAAGCCGTTTTGGTTAAGATATTT
* *
4166292 GCGGCGCTTTTTGTAATACGCCGCTAATATTGTTCTTTAGCGGCGTTTTATCGTAAATGCCACTA
196 GCGGCGCTTTTTGTAATACGCCGCTAATACTGTTCTTTAGCGGCATTTTATCGTAAATGCCACTA
*
4166357 ATTCTAATATACCTCAAAACTAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGCACTTACAAATA
261 ATTCTAATATACCTCAAAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGCACTTACAAATA
*
4166422 AACGCCACTAATGATGTTCTTTTATGGCGTTTTTAATAAGCACCAATCTACCTCAGGACCAAACG
326 AACGCCACTAATGATGTTCTTTTACGGCGTTTTTAATAAGCACCAATCTACCTCAGGACCAAACG
4166487 GTGCGTTTT-GGTTAAGATATTTGCGGCGCTTTTTGTAATACGCAGCTAATACTA
391 GTGCGTTTTAGGTTAAGATATTTGCGGCGCTTTTTGTAATACGCAGCTAATACTA
4166541 TTCTTTAGCGGCGTTTTATCGTAAACGCCACTAATTCTAATATACCTCAAAACCAAACGCTGCGT
1 TTCTTTAGCGGCGTTTTATCGTAAACGCCACTAATTCTAATATACCTCAAAACCAAACGCTGCGT
4166606 TTTGGTTAAGGTATTTTGCGGCGATTACAAATAAACGCCACTAATGATGTTCTTTTACGGCGTTT
66 TTTGGTTAAGGTATTTTGCGGCGATTACAAATAAACGCCACTAATGATGTTCTTTTACGGCGTTT
**
4166671 TTTAATAAGCGCCACTAACACTAATCTACCTCAAGACTAAACGGTG-CGTTTTGGTTAAGATATT
131 TTTAATAAGCGCCACTAACACTAATCTACCTCAAGACTAAA-GAAGCCGTTTTGGTTAAGATATT
4166735 TGCGGCGCTTTTTGTAATACGCCGCTAATACTGTTCTTTAGCGGCATTTTATCGTAAATGCCACT
195 TGCGGCGCTTTTTGTAATACGCCGCTAATACTGTTCTTTAGCGGCATTTTATCGTAAATGCCACT
*
4166800 AATTCTAATATACCTCAAAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGCGCTTACAAAT
260 AATTCTAATATACCTCAAAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGCACTTACAAAT
4166865 AAACGCCACTAATGATGTTCTTTTACGGCGTTTTT
325 AAACGCCACTAATGATGTTCTTTTACGGCGTTTTT
4166900 TTAATAACGC
Statistics
Matches: 349, Mismatches: 9, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
444 347 0.99
445 2 0.01
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (445 bp):
TTCTTTAGCGGCGTTTTATCGTAAACGCCACTAATTCTAATATACCTCAAAACCAAACGCTGCGT
TTTGGTTAAGGTATTTTGCGGCGATTACAAATAAACGCCACTAATGATGTTCTTTTACGGCGTTT
TTTAATAAGCGCCACTAACACTAATCTACCTCAAGACTAAAGAAGCCGTTTTGGTTAAGATATTT
GCGGCGCTTTTTGTAATACGCCGCTAATACTGTTCTTTAGCGGCATTTTATCGTAAATGCCACTA
ATTCTAATATACCTCAAAACCAAACGCTGCGTTTTGGTTAAGGTATTTTGCGGCACTTACAAATA
AACGCCACTAATGATGTTCTTTTACGGCGTTTTTAATAAGCACCAATCTACCTCAGGACCAAACG
GTGCGTTTTAGGTTAAGATATTTGCGGCGCTTTTTGTAATACGCAGCTAATACTA
Found at i:4171081 original size:23 final size:23
Alignment explanation
Indices: 4171055--4171106 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
4171045 ATTAATAATG
*
4171055 ATATTATTAATGAAATTTA-AATA
1 ATATTATTAATAAAATTTATAA-A
*
4171078 ATATTTTTAATAAAATTTATAAA
1 ATATTATTAATAAAATTTATAAA
4171101 ATATTA
1 ATATTA
4171107 CCAATAGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 23 0.92
24 2 0.08
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (23 bp):
ATATTATTAATAAAATTTATAAA
Found at i:4171320 original size:31 final size:29
Alignment explanation
Indices: 4171285--4171348 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 29
4171275 TCTTAAAAAA
*
4171285 TATATATAAACTTTGGTTTAATGTGTAATTT
1 TATATATAAACTTTGATTT--TGTGTAATTT
* * *
4171316 TATATGTGAATTTTGATTTTGTGTAATTT
1 TATATATAAACTTTGATTTTGTGTAATTT
4171345 TATA
1 TATA
4171349 CATGAATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 14 0.48
31 15 0.52
ACGTcount: A:0.30, C:0.02, G:0.14, T:0.55
Consensus pattern (29 bp):
TATATATAAACTTTGATTTTGTGTAATTT
Found at i:4171327 original size:13 final size:14
Alignment explanation
Indices: 4171301--4171348 Score: 55
Period size: 13 Copynumber: 3.4 Consensus size: 14
4171291 TAAACTTTGG
4171301 TTTA-ATGTGTAAT
1 TTTATATGTGTAAT
4171314 TTTATATGTG-AAT
1 TTTATATGTGTAAT
*
4171327 TTTGATTTTGTGTAAT
1 TTT-A-TATGTGTAAT
4171343 TTTATA
1 TTTATA
4171349 CATGAATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
13 10 0.34
14 7 0.24
15 6 0.21
16 6 0.21
ACGTcount: A:0.27, C:0.00, G:0.15, T:0.58
Consensus pattern (14 bp):
TTTATATGTGTAAT
Found at i:4174654 original size:43 final size:43
Alignment explanation
Indices: 4174561--4174733 Score: 195
Period size: 43 Copynumber: 4.0 Consensus size: 43
4174551 GTTTTTAGAA
***
4174561 ATAAACGCCGCTATAGATCACGACTTTTAGCGGCGCTTTTCCC
1 ATAAACGCCGCTATAGATCACGACTTTTAGCGGCGCTTTTTTT
* *
4174604 ACT-AACGCCGTTATAGATCATGACTTTTAGCGGCGCTTTTTTT
1 A-TAAACGCCGCTATAGATCACGACTTTTAGCGGCGCTTTTTTT
* * * * * *
4174647 ATAAACGCCGTTATAAATAATGACTTTTAGCGGTGATTTTTTT
1 ATAAACGCCGCTATAGATCACGACTTTTAGCGGCGCTTTTTTT
* * * *
4174690 ATAAACGCCGCTAAAGAACACGACCTTTAGCGGCGTTTTTTTT
1 ATAAACGCCGCTATAGATCACGACTTTTAGCGGCGCTTTTTTT
4174733 A
1 A
4174734 AAAAAACACC
Statistics
Matches: 110, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
42 1 0.01
43 108 0.98
44 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (43 bp):
ATAAACGCCGCTATAGATCACGACTTTTAGCGGCGCTTTTTTT
Found at i:4178111 original size:21 final size:21
Alignment explanation
Indices: 4178060--4178118 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
4178050 CCTCTGCTCA
*
4178060 GCTTCCCTCGCTGCAGCCTCT
1 GCTTCCCTCGCTGCTGCCTCT
* * *
4178081 GCTTCTCTCGCTGCTGTCTTT
1 GCTTCCCTCGCTGCTGCCTCT
*
4178102 GTTTCCCTCGCTGCTGC
1 GCTTCCCTCGCTGCTGC
4178119 ATTAACTTTA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.02, C:0.41, G:0.20, T:0.37
Consensus pattern (21 bp):
GCTTCCCTCGCTGCTGCCTCT
Found at i:4179331 original size:12 final size:12
Alignment explanation
Indices: 4179314--4179338 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4179304 CATGGTCTCA
4179314 TAAAAATCCAAT
1 TAAAAATCCAAT
4179326 TAAAAATCCAAT
1 TAAAAATCCAAT
4179338 T
1 T
4179339 CATTACCTGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.16, G:0.00, T:0.28
Consensus pattern (12 bp):
TAAAAATCCAAT
Found at i:4180821 original size:22 final size:22
Alignment explanation
Indices: 4180795--4180852 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
4180785 TCAAAAAAGT
*
4180795 AATTAAACCCTAAAACCCGTAA
1 AATTAAACCCTAAAACCCATAA
* * *
4180817 CATTAAACCTTTAAACCCATAA
1 AATTAAACCCTAAAACCCATAA
*
4180839 AATTAAAGCCTAAA
1 AATTAAACCCTAAA
4180853 GCCTAAACCT
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.50, C:0.24, G:0.03, T:0.22
Consensus pattern (22 bp):
AATTAAACCCTAAAACCCATAA
Found at i:4181095 original size:41 final size:41
Alignment explanation
Indices: 4181023--4181273 Score: 331
Period size: 41 Copynumber: 6.1 Consensus size: 41
4181013 TAAATTATTT
* *
4181023 TAAATCCCTGAGCATTAGCGGCGCTTTCTCAAAAACGCCGC
1 TAAAGCCCTGAGCATTAGCGACGCTTTCTCAAAAACGCCGC
* ** *
4181064 TAAAGCCCTGAGCATTAGCGTCGCTACCTCAAAAACACCGC
1 TAAAGCCCTGAGCATTAGCGACGCTTTCTCAAAAACGCCGC
* * * *
4181105 TAAAGCCCTGAGCACTCGCGACGCTTTTTCAAAAACGTCGC
1 TAAAGCCCTGAGCATTAGCGACGCTTTCTCAAAAACGCCGC
* * * * *
4181146 TAAATCCCTGAGCACTAGCGACGCTTTCTCAAAAAAGTCAC
1 TAAAGCCCTGAGCATTAGCGACGCTTTCTCAAAAACGCCGC
* * *
4181187 TAAATCCCTGAGCATTAGCGGCGCTTTCTTAAAAACGCCGC
1 TAAAGCCCTGAGCATTAGCGACGCTTTCTCAAAAACGCCGC
*
4181228 TAAAGCCCTGAGCATTAGCGACGCTTTCGCAAAAACGCCGC
1 TAAAGCCCTGAGCATTAGCGACGCTTTCTCAAAAACGCCGC
4181269 TAAAG
1 TAAAG
4181274 TCCCGAAAGC
Statistics
Matches: 182, Mismatches: 28, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 182 1.00
ACGTcount: A:0.30, C:0.31, G:0.19, T:0.21
Consensus pattern (41 bp):
TAAAGCCCTGAGCATTAGCGACGCTTTCTCAAAAACGCCGC
Found at i:4184019 original size:13 final size:14
Alignment explanation
Indices: 4183986--4184020 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
4183976 TTAACGATCT
4183986 TAAAGAAAAAAATA
1 TAAAGAAAAAAATA
*
4184000 TAAAGAATAAAATA
1 TAAAGAAAAAAATA
4184014 -AAAGAAA
1 TAAAGAAA
4184021 GATATGCTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.14
Consensus pattern (14 bp):
TAAAGAAAAAAATA
Found at i:4187532 original size:131 final size:130
Alignment explanation
Indices: 4187312--4187959 Score: 697
Period size: 131 Copynumber: 5.0 Consensus size: 130
4187302 GTTTAACATG
* * ** * *
4187312 AACAACTCACTGATTAAAGATCACAACTGATATTATTAAGGCTCATTGATTTATGATCATAGTCT
1 AACAACTCGCTGATTTAAGATCACAACTGATATTATTAAGGCTCGCTGATTTATGATCACA-ACT
* * * *
4187377 AAGTTCATTTGATTTACTAACATGAACAATTTTATCTGAGTTAGATGATTTTCTATCGTTTCTCC
65 AAGTTCATTTGATTTACTATCATGAACAATTTTATCTGAGTTAGCTGATTTTCTATCGCTGCTCC
4187442 A
130 A
* *
4187443 AACAACTCGCTGATTTAAGATAACAACTGATATTATTAAGGCTCGCTGATTAATGATCACAACAT
1 AACAACTCGCTGATTTAAGATCACAACTGATATTATTAAGGCTCGCTGATTTATGATCACAAC-T
* * * * *
4187508 AAGTTCATTTGATTTATTATCATGAACAATTTCATTTGAGTTAGCTAATTTTCTATCACTGCTCC
65 AAGTTCATTTGATTTACTATCATGAACAATTTTATCTGAGTTAGCTGATTTTCTATCGCTGCTCC
4187573 A
130 A
** * * * * *
4187574 AACAACTCATTGATTTAAGA-CGACAACTAATATTATTAAGGCTCGCTGATTTACGGTTACATTC
1 AACAACTCGCTGATTTAAGATC-ACAACTGATATTATTAAGGCTCGCTGATTTATGATCACA-AC
* * * *
4187638 TAAGTTCATTTGATTTACTATCATGAACAATTTTATTTAAGTTAGTTGATTTTCTATCACTGCTC
64 TAAGTTCATTTGATTTACTATCATGAACAATTTTATCTGAGTTAGCTGATTTTCTATCGCTGCTC
*
4187703 TA
129 CA
* * * * ** * * *
4187705 AATAGCTCGTTGATTTAAGATCACAACTGATATTATTCAGGCTAACTAATTTACGATCAAAACCT
1 AACAACTCGCTGATTTAAGATCACAACTGATATTATTAAGGCTCGCTGATTTATGATCACAA-CT
* * ** * * * *
4187770 AAGTTCA-TTGATTTACTATCATGAACACTTTAATCAAAGTTAGTTTATTTTCTATCGCTACTCA
65 AAGTTCATTTGATTTACTATCATGAACAATTTTATCTGAGTTAGCTGATTTTCTATCGCTGCTCC
4187834 A
130 A
** * * ** * * * *
4187835 AACAGTTTGCTAATTTAAGATCACAACTGGCATTATTAAGGTTTGTTGATTTGTGATCACAACTT
1 AACAACTCGCTGATTTAAGATCACAACTGATATTATTAAGGCTCGCTGATTTATGATCACAAC-T
* * *
4187900 AAATTTATTTGATTTACTATCATGAACAATTTTCTCTGAGTTAGCTGATTTTCTATCGCT
65 AAGTTCATTTGATTTACTATCATGAACAATTTTATCTGAGTTAGCTGATTTTCTATCGCT
4187960 ATCCCGAACA
Statistics
Matches: 433, Mismatches: 77, Indels: 14
0.83 0.15 0.03
Matches are distributed among these distances:
129 1 0.00
130 103 0.24
131 327 0.76
132 2 0.00
ACGTcount: A:0.32, C:0.16, G:0.12, T:0.39
Consensus pattern (130 bp):
AACAACTCGCTGATTTAAGATCACAACTGATATTATTAAGGCTCGCTGATTTATGATCACAACTA
AGTTCATTTGATTTACTATCATGAACAATTTTATCTGAGTTAGCTGATTTTCTATCGCTGCTCCA
Found at i:4189762 original size:24 final size:24
Alignment explanation
Indices: 4189735--4189799 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 24
4189725 AGCTCATGCG
*
4189735 AGCCAATATCGGGTAGCTCCGAAA
1 AGCCAATATCGGGAAGCTCCGAAA
* * * *
4189759 AGCCATTAACAGGAAGCTCCGAAT
1 AGCCAATATCGGGAAGCTCCGAAA
4189783 AGCCATATATCGGGAAG
1 AGCCA-ATATCGGGAAG
4189800 TTCAAGTGAG
Statistics
Matches: 32, Mismatches: 8, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
24 24 0.75
25 8 0.25
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.17
Consensus pattern (24 bp):
AGCCAATATCGGGAAGCTCCGAAA
Found at i:4193724 original size:72 final size:73
Alignment explanation
Indices: 4193605--4193745 Score: 257
Period size: 72 Copynumber: 1.9 Consensus size: 73
4193595 ACTAAATTGA
* *
4193605 CTAACCAATTGAACTTTGAACAATTGAAGCCCCTAAGGCCATTGCTTTCTCCTTCCTTTCTTT-C
1 CTAACCAATTAAACTTTGAACAATTGAAGCCCCTAAGGCCATGGCTTTCTCCTTCCTTTCTTTCC
4193669 TTTTCATT
66 TTTTCATT
4193677 CTAACCAATTAAACTTTGAACAATTGAAGCCCCTAAGGCCATGGCTTTCTCCTTCCTTTCTTTCC
1 CTAACCAATTAAACTTTGAACAATTGAAGCCCCTAAGGCCATGGCTTTCTCCTTCCTTTCTTTCC
4193742 TTTT
66 TTTT
4193746 TCTTTTCTTT
Statistics
Matches: 66, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
72 61 0.92
73 5 0.08
ACGTcount: A:0.23, C:0.28, G:0.10, T:0.39
Consensus pattern (73 bp):
CTAACCAATTAAACTTTGAACAATTGAAGCCCCTAAGGCCATGGCTTTCTCCTTCCTTTCTTTCC
TTTTCATT
Found at i:4193739 original size:4 final size:4
Alignment explanation
Indices: 4193732--4193800 Score: 63
Period size: 4 Copynumber: 17.0 Consensus size: 4
4193722 TTTCTCCTTC
*
4193732 CTTT CTTT CCTT -TTT CTTTT CTTT CTTT CTTT C-TT -TTT CTTT CTGTTT
1 CTTT CTTT CTTT CTTT C-TTT CTTT CTTT CTTT CTTT CTTT CTTT C--TTT
*
4193780 CATTT CTAT CTTT CTTT CTTT
1 C-TTT CTTT CTTT CTTT CTTT
4193801 TTATTTATTC
Statistics
Matches: 54, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
3 6 0.11
4 36 0.67
5 8 0.15
6 4 0.07
ACGTcount: A:0.03, C:0.23, G:0.01, T:0.72
Consensus pattern (4 bp):
CTTT
Found at i:4193792 original size:33 final size:34
Alignment explanation
Indices: 4193733--4193802 Score: 106
Period size: 33 Copynumber: 2.1 Consensus size: 34
4193723 TTCTCCTTCC
* * *
4193733 TTTCTTTCCTTTTTCTTTTCTTTCTTTCTTTCTT
1 TTTCTTTCCTGTTTCATTTCTATCTTTCTTTCTT
4193767 TTTCTTT-CTGTTTCATTTCTATCTTTCTTTCTT
1 TTTCTTTCCTGTTTCATTTCTATCTTTCTTTCTT
4193800 TTT
1 TTT
4193803 ATTTATTCTT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
33 26 0.79
34 7 0.21
ACGTcount: A:0.03, C:0.21, G:0.01, T:0.74
Consensus pattern (34 bp):
TTTCTTTCCTGTTTCATTTCTATCTTTCTTTCTT
Found at i:4196994 original size:25 final size:25
Alignment explanation
Indices: 4196966--4197016 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
4196956 TATCTAGATT
4196966 TAGTTCAATTTATCATGCCATAATA
1 TAGTTCAATTTATCATGCCATAATA
4196991 TAGTTCAATTTATCATGCCATAATA
1 TAGTTCAATTTATCATGCCATAATA
4197016 T
1 T
4197017 GGCTTCAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.35, C:0.16, G:0.08, T:0.41
Consensus pattern (25 bp):
TAGTTCAATTTATCATGCCATAATA
Found at i:4216085 original size:133 final size:130
Alignment explanation
Indices: 4215886--4216265 Score: 363
Period size: 133 Copynumber: 2.8 Consensus size: 130
4215876 GCGCTTCCCC
* * * * * * *
4215886 AAAAACGCCGCAAAAAATTGGAATATAGCGGCGTTTTCTGAGAAACACTGGTAACGATAAT-GAA
1 AAAAACGCCGCAAAGAA-TGGCATATAGCGGCGTTTTC-GGGAAACGCCGGTAAAGAT-ATCTAA
* *
4215950 TTTGAGGAAAATATCTGAGCAAAACAGTACCGTTTTGTTGTTTCATTTTATTTCTTTAGTGGCAC
63 TTTGAGGAAAA-ATTTG-GCAAAAC-GTACCGTTTTGTTGTTTCATTTTATTTCCTTAGTGGCAC
*
4216015 ATTTTA
125 ATTGTA
** * *
4216021 AAAAACGATGGCGAAGAAT-GCA-GTAGCGGCGTTTTCAGGGAAACGCCGGTAAAGATATCTAAT
1 AAAAACG-CCGCAAAGAATGGCATATAGCGGCGTTTTC-GGGAAACGCCGGTAAAGATATCTAAT
* * *
4216084 TTGAGGAAAAAATTTGGACAAAACGCTACCGTTTTATTGCTTCATTTTATTTCCTTAGTGGCGCA
64 TTGAGG-AAAAATTTGG-CAAAACG-TACCGTTTTGTTGTTTCATTTTATTTCCTTAGTGGCACA
4216149 TTGTA
126 TTGTA
* * * ** *
4216154 AAAAACGCCGCAAATATTGGGATATAATGGCGTTATT-GGAGAAACGCCGGTAAAGAAATCTAAT
1 AAAAACGCCGCAAAGAATGGCATATAGCGGCGTT-TTCGG-GAAACGCCGGTAAAGATATCTAAT
* *
4216218 TTGAGGAAAAATTTAGGGCAAAACGGTACAGTTTTGTTGTTTCCTTTT
64 TTGAGGAAAAATTT--GGCAAAAC-GTACCGTTTTGTTGTTTCATTTT
4216266 TATGCTTTAG
Statistics
Matches: 201, Mismatches: 32, Indels: 25
0.78 0.12 0.10
Matches are distributed among these distances:
132 10 0.05
133 105 0.52
134 67 0.33
135 13 0.06
136 6 0.03
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (130 bp):
AAAAACGCCGCAAAGAATGGCATATAGCGGCGTTTTCGGGAAACGCCGGTAAAGATATCTAATTT
GAGGAAAAATTTGGCAAAACGTACCGTTTTGTTGTTTCATTTTATTTCCTTAGTGGCACATTGTA
Found at i:4220250 original size:9 final size:9
Alignment explanation
Indices: 4220228--4220280 Score: 52
Period size: 9 Copynumber: 5.8 Consensus size: 9
4220218 TATAAGCTTG
*
4220228 CATAACTTA
1 CATAAATTA
4220237 CATAAATTA
1 CATAAATTA
* *
4220246 AATAACTTA
1 CATAAATTA
*
4220255 CATAACTTA
1 CATAAATTA
*
4220264 CATAAAATTG
1 CAT-AAATTA
4220274 CATAAAT
1 CATAAAT
4220281 ATTTTTATCA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
9 30 0.81
10 7 0.19
ACGTcount: A:0.51, C:0.15, G:0.02, T:0.32
Consensus pattern (9 bp):
CATAAATTA
Found at i:4220268 original size:18 final size:18
Alignment explanation
Indices: 4220205--4220268 Score: 65
Period size: 18 Copynumber: 3.4 Consensus size: 18
4220195 TATGTTATAA
*
4220205 TACATAACTTGTATATAAGCT
1 TACATAAC-T-TACATAA-CT
* *
4220226 TGCATAACTTACATAAAT
1 TACATAACTTACATAACT
*
4220244 TAAATAACTTACATAACT
1 TACATAACTTACATAACT
4220262 TACATAA
1 TACATAA
4220269 AATTGCATAA
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
18 22 0.61
19 6 0.17
20 1 0.03
21 7 0.19
ACGTcount: A:0.45, C:0.16, G:0.05, T:0.34
Consensus pattern (18 bp):
TACATAACTTACATAACT
Found at i:4220646 original size:42 final size:42
Alignment explanation
Indices: 4220549--4221514 Score: 1828
Period size: 42 Copynumber: 23.0 Consensus size: 42
4220539 TTTGTGAAAT
4220549 AAGCGCCGCTAAAGAACACT-A-CTTTTAGCGGCGTTTTCTTCCC
1 AAGCGCCGCTAAAGAACA-TGATC-TTTAGCGGCGTTTT-TTCCC
4220592 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCC
4220634 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCC
4220676 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCC
4220718 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCC
4220760 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCC
4220802 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCC
4220844 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCC
4220886 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCC
4220928 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCC
4220970 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCC
4221012 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCC
4221054 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCC
4221096 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCC
4221138 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCC
4221180 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCC
4221222 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCC
4221264 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCC
4221306 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCC
4221348 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCC
* *
4221390 AAGCGCCGCTAAAGAACATGATATTTAGCGGCGTTTTCTTCCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTT-TTCCC
* *
4221433 AAGCGCCGCTAAAGAATATGATCTTTAGCGGCGTTTTTTCCT
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCC
* *
4221475 AAGCGCCGCTAAAGAACATGTTCTTTAGCGGCTTTTTTTC
1 AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTC
4221515 TGTAAGCGCC
Statistics
Matches: 913, Mismatches: 7, Indels: 7
0.98 0.01 0.01
Matches are distributed among these distances:
42 840 0.92
43 72 0.08
44 1 0.00
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (42 bp):
AAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTCCC
Found at i:4221738 original size:26 final size:26
Alignment explanation
Indices: 4221709--4221758 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
4221699 TCTAGCAAAT
*
4221709 AACCCATTTCGATATTTATTTTTGTA
1 AACCCATCTCGATATTTATTTTTGTA
*
4221735 AACCCATCTCGGTATTTATTTTTG
1 AACCCATCTCGATATTTATTTTTG
4221759 AGTTTTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.24, C:0.18, G:0.10, T:0.48
Consensus pattern (26 bp):
AACCCATCTCGATATTTATTTTTGTA
Found at i:4226253 original size:254 final size:255
Alignment explanation
Indices: 4225803--4226310 Score: 820
Period size: 254 Copynumber: 2.0 Consensus size: 255
4225793 CAACTGCAGC
* *
4225803 TCAACATGTGTTTTGAAAGACAAGAAGGCTTGTAATGCATCAAACTTTTTCATAAGAAAATTAAA
1 TCAACATGTGTTTTGAAAGACAAGAAGGCTTGCAATGCATCAAACTTTTGCATAAGAAAATTAAA
* * *
4225868 TCCAAGCATGAATTTAAAATGTATCCACAAAGGAGATATAGTATTAATAGCCTGAAGAGTAACAA
66 TCCAAGCATGAATTGAAAATGCATCAACAAAGGAGATATAGTATTAATAGCCTGAAGAGTAACAA
* * * * * * *
4225933 GAGGCTAGACCCCACAAGTCAGTAACAATTAACTCGAGAGGAGTAGAGTACACTGATTTAATGGA
131 GAGGCCAGACCCCAAAACTCAGTAACAATAAACTCAAGAGGAGCAGAGTACACTAATTTAATGGA
* *
4225998 CATAAATGGCAGTTTGTGGCTTTTACCAAGCTCACAAACATTACATAAAGAGAATGACTG
196 CATAAATGGCAGTTTGTGGCGTTTACCAAGCTCACAAACATTACACAAAGAGAATGACTG
*
4226058 TCAACATGTGTTTTGAAAGACAAGAAGGCTTGCAATGCATCAAACTTTTGCTTAAGAAAATT-AA
1 TCAACATGTGTTTTGAAAGACAAGAAGGCTTGCAATGCATCAAACTTTTGCATAAGAAAATTAAA
* * *
4226122 TCCAAGTATGAATTGAAAATGCATCAATAAAGGAGATATAGTATTGATAGCCTGAAGAGTAACAA
66 TCCAAGCATGAATTGAAAATGCATCAACAAAGGAGATATAGTATTAATAGCCTGAAGAGTAACAA
* *
4226187 GGGGCCAGACCCCAAAACTCAGTCACAATAAACTCAAGAGGAGCAGAGTACACTAATTTAATGGA
131 GAGGCCAGACCCCAAAACTCAGTAACAATAAACTCAAGAGGAGCAGAGTACACTAATTTAATGGA
*
4226252 CATAAATGGCAGTTTGTGGCGTTTACCAAGCTCACAAGCATTACACAAAGAGAATGACT
196 CATAAATGGCAGTTTGTGGCGTTTACCAAGCTCACAAACATTACACAAAGAGAATGACT
4226311 TATTCTTGGG
Statistics
Matches: 232, Mismatches: 21, Indels: 1
0.91 0.08 0.00
Matches are distributed among these distances:
254 173 0.75
255 59 0.25
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.24
Consensus pattern (255 bp):
TCAACATGTGTTTTGAAAGACAAGAAGGCTTGCAATGCATCAAACTTTTGCATAAGAAAATTAAA
TCCAAGCATGAATTGAAAATGCATCAACAAAGGAGATATAGTATTAATAGCCTGAAGAGTAACAA
GAGGCCAGACCCCAAAACTCAGTAACAATAAACTCAAGAGGAGCAGAGTACACTAATTTAATGGA
CATAAATGGCAGTTTGTGGCGTTTACCAAGCTCACAAACATTACACAAAGAGAATGACTG
Found at i:4238304 original size:10 final size:10
Alignment explanation
Indices: 4238289--4238323 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
4238279 TTTTATTAGT
4238289 ATATATAAAA
1 ATATATAAAA
4238299 ATATATTAAAA
1 ATATA-TAAAA
*
4238310 ATATAAAAAA
1 ATATATAAAA
4238320 ATAT
1 ATAT
4238324 TTTTTTATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 13 0.57
11 10 0.43
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (10 bp):
ATATATAAAA
Found at i:4238347 original size:20 final size:20
Alignment explanation
Indices: 4238310--4238358 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
4238300 TATATTAAAA
* * *
4238310 ATATAAAAAAATATTTTTTT
1 ATATCAAAAAATAGTTTTTC
*
4238330 ATATCAAAAATTAGTTTTTC
1 ATATCAAAAAATAGTTTTTC
*
4238350 ATGTCAAAA
1 ATATCAAAA
4238359 TTTAATTTTG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.43
Consensus pattern (20 bp):
ATATCAAAAAATAGTTTTTC
Found at i:4239475 original size:32 final size:33
Alignment explanation
Indices: 4239426--4239496 Score: 78
Period size: 33 Copynumber: 2.2 Consensus size: 33
4239416 CCGTTTTGAC
*
4239426 ATTTTTAGATTCCTT-AAAGCTT-G-AAGAAAAAA
1 ATTTTTAGATTCATTAAAAG-TTGGTAA-AAAAAA
4239458 ATTTTTA-AGTTCATTAAAAGTTGGTAAAAAAAA
1 ATTTTTAGA-TTCATTAAAAGTTGGTAAAAAAAA
4239491 ATTTTT
1 ATTTTT
4239497 TGACCCTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
31 1 0.03
32 14 0.41
33 17 0.50
34 2 0.06
ACGTcount: A:0.44, C:0.06, G:0.11, T:0.39
Consensus pattern (33 bp):
ATTTTTAGATTCATTAAAAGTTGGTAAAAAAAA
Found at i:4239508 original size:33 final size:33
Alignment explanation
Indices: 4239471--4239551 Score: 92
Period size: 33 Copynumber: 2.5 Consensus size: 33
4239461 TTTAAGTTCA
** ** *
4239471 TTAAAAGTTGGTAAAAAAAAATTTTTTGACCCT
1 TTAAAAGTTGCAAAAAAAAAAAATTTTAACCCT
*
4239504 TTAAAAGTTTCAAAAAAAAAAAATTTTAACCCT
1 TTAAAAGTTGCAAAAAAAAAAAATTTTAACCCT
*
4239537 TTAAAAATTG-AAAAA
1 TTAAAAGTTGCAAAAA
4239552 CAATATTTTG
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
32 5 0.12
33 35 0.88
ACGTcount: A:0.52, C:0.09, G:0.07, T:0.32
Consensus pattern (33 bp):
TTAAAAGTTGCAAAAAAAAAAAATTTTAACCCT
Found at i:4242077 original size:26 final size:26
Alignment explanation
Indices: 4242027--4242079 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
4242017 TTATATGATG
*
4242027 AAATAAATAATAAATTATATAATATT
1 AAATAAATAATAAATTAAATAATATT
*
4242053 AAATAAATAAATAAA-TAAATTATATT
1 AAATAAAT-AATAAATTAAATAATATT
4242079 A
1 A
4242080 TATATAACTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 18 0.75
27 6 0.25
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (26 bp):
AAATAAATAATAAATTAAATAATATT
Found at i:4242343 original size:23 final size:25
Alignment explanation
Indices: 4242317--4242368 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 25
4242307 ATGATAAAAA
4242317 TTTAAT-AATGAG-AAAATTATTAT
1 TTTAATCAATGAGTAAAATTATTAT
* *
4242340 TTT-ATCAATGAGTAAAATTGTTGT
1 TTTAATCAATGAGTAAAATTATTAT
4242364 TTTAA
1 TTTAA
4242369 GTATCAAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
22 2 0.08
23 9 0.38
24 12 0.50
25 1 0.04
ACGTcount: A:0.40, C:0.02, G:0.12, T:0.46
Consensus pattern (25 bp):
TTTAATCAATGAGTAAAATTATTAT
Found at i:4245378 original size:14 final size:15
Alignment explanation
Indices: 4245349--4245404 Score: 78
Period size: 15 Copynumber: 3.8 Consensus size: 15
4245339 CAAACACACC
*
4245349 CTTAGTTTTTCAATA
1 CTTAATTTTTCAATA
4245364 CTTAATTTTTC-ATA
1 CTTAATTTTTCAATA
* *
4245378 CTTAAATTTTCAACA
1 CTTAATTTTTCAATA
4245393 CTTAATTTTTCA
1 CTTAATTTTTCA
4245405 CTTTATCAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
14 13 0.36
15 23 0.64
ACGTcount: A:0.30, C:0.16, G:0.02, T:0.52
Consensus pattern (15 bp):
CTTAATTTTTCAATA
Found at i:4246394 original size:8 final size:8
Alignment explanation
Indices: 4246381--4246405 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
4246371 AATTATTATT
4246381 TTTTAAAA
1 TTTTAAAA
4246389 TTTTAAAA
1 TTTTAAAA
4246397 TTTTAAAA
1 TTTTAAAA
4246405 T
1 T
4246406 ATTGATGTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (8 bp):
TTTTAAAA
Found at i:4248031 original size:19 final size:18
Alignment explanation
Indices: 4248004--4248039 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
4247994 CCTATTTGTT
*
4248004 ATTAGTTATTTATTACTAA
1 ATTAATTATTT-TTACTAA
4248023 ATTAATTATTTTTACTA
1 ATTAATTATTTTTACTA
4248040 TTATTCTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.36, C:0.06, G:0.03, T:0.56
Consensus pattern (18 bp):
ATTAATTATTTTTACTAA
Found at i:4248124 original size:23 final size:24
Alignment explanation
Indices: 4248098--4248149 Score: 79
Period size: 23 Copynumber: 2.2 Consensus size: 24
4248088 ATAACCATAT
*
4248098 TTATACATACATTTTCTATAA-TA
1 TTATACATACATTTTCTAAAATTA
*
4248121 TTATACATACATTTTTTAAAATTA
1 TTATACATACATTTTCTAAAATTA
4248145 TTATA
1 TTATA
4248150 AATATATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 19 0.73
24 7 0.27
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (24 bp):
TTATACATACATTTTCTAAAATTA
Found at i:4256763 original size:88 final size:88
Alignment explanation
Indices: 4256614--4257594 Score: 1399
Period size: 88 Copynumber: 11.2 Consensus size: 88
4256604 TGGAACCACA
* * * *
4256614 AGCCTAATTTCCCTGAGCAACAGTGGAGTAGGTTGAAAATAGCAGATTTTGTCTTCCTGTATTGG
1 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGG
*
4256679 CAGCGAAGTAGATCGAAGATACC
66 CAGCGAAGTAGATCGAAGACACC
* * * * *
4256702 AGCCTTATTTCCCTAAGCAGCAGTGGAGTAGGTTAAAAATAGTAGATCTTGTCTTTCTGTATTGG
1 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGG
4256767 CAGCGAAGTAGATCGAAGACACC
66 CAGCGAAGTAGATCGAAGACACC
* *
4256790 AGCCTTATCT-CTTAAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGG
1 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGG
*
4256854 CAGCGAAGTAGATCGAAGATACC
66 CAGCGAAGTAGATCGAAGACACC
* * *
4256877 AGCCTTATTTCCCTAAGCAGCAGTGAAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGG
1 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGG
*
4256942 CAGTGAAGTAGATCGAAGACACC
66 CAGCGAAGTAGATCGAAGACACC
** **
4256965 AGCCTTATCTCCCTGAGCAATAGTGGAGTAGGTTGAAAATAATAGATCTTGTCTTCCTGTATTGG
1 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGG
* *
4257030 CGGCGAAGTAGATCGAAGATACC
66 CAGCGAAGTAGATCGAAGACACC
** * * *
4257053 AGCCTTATCTCTATGAGCAGCAGTGGAGTTGGTTGAAAATAGCAAATTTTGTCTTCCTGTATTGG
1 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGG
* *
4257118 TAGCGAAGTAGATCGAAGATACC
66 CAGCGAAGTAGATCGAAGACACC
* * * *
4257141 AGCCTTATCTCCCTGAGCAGTAGTGGAATAGGTTAAAAATAGCAGATCTTGTCTTCTTGTATTGG
1 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGG
4257206 CAGCGAAGTAGATCGAAGACACC
66 CAGCGAAGTAGATCGAAGACACC
* * * * *
4257229 AGCCTTATCTCCCTGAGCAGCAATAGAGTAGGTTGAAAATAACAGATCTTGTCTTCCTATATTAG
1 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGG
* *
4257294 CAGCAAAATAGATCGAAGACACC
66 CAGCGAAGTAGATCGAAGACACC
* * * *
4257317 AGCCTTATCTCCTTGAGCAGTAGTGGAGTTGGTTAAAAATAGCAGATCTTGTCTTCCTGTATTGG
1 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGG
*
4257382 CAGCAAAGTAGATCGAAGACACC
66 CAGCGAAGTAGATCGAAGACACC
* * * *
4257405 AGCCTTATCTCCTTGAGCAGCAGTGGAGTAGGTTGAAAATAACAGATCTTGTCTTCCTATATTAG
1 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGG
* *
4257470 CAGCAAAATAGATCGAAGACACC
66 CAGCGAAGTAGATCGAAGACACC
* * * *
4257493 AGCCTTATCTCCTTGAGCAGCAGTGGAGTAGGTTGAAAATAACAGATCTTATCTTCCTTTATTGG
1 AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGG
* * *
4257558 CAGCGAAGTAGGTTGAAG-CAACA
66 CAGCGAAGTAGATCGAAGAC-ACC
*
4257581 AGTCTTATCTCCCT
1 AGCCTTATCTCCCT
4257595 AAAGTTGCAG
Statistics
Matches: 802, Mismatches: 89, Indels: 4
0.90 0.10 0.00
Matches are distributed among these distances:
87 82 0.10
88 720 0.90
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (88 bp):
AGCCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATAGCAGATCTTGTCTTCCTGTATTGG
CAGCGAAGTAGATCGAAGACACC
Found at i:4257651 original size:44 final size:44
Alignment explanation
Indices: 4257567--4257652 Score: 138
Period size: 44 Copynumber: 2.0 Consensus size: 44
4257557 GCAGCGAAGT
*
4257567 AGGTTGAAGCAACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGC
1 AGGTTAAAGCAACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGC
*
4257611 AGGTTAAAGCAACAAGTCTTATCTCCCTGAAA-TTGTAGTGGA
1 AGGTTAAAGCAACAAGTCTTATCTCCCT-AAAGTTGCAGTGGA
4257653 ACAGACACAA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
44 36 0.92
45 3 0.08
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (44 bp):
AGGTTAAAGCAACAAGTCTTATCTCCCTAAAGTTGCAGTGGAGC
Found at i:4258092 original size:18 final size:18
Alignment explanation
Indices: 4258069--4258104 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
4258059 CAGCGCTCCA
4258069 CACGTTTTTCTTCCCTCG
1 CACGTTTTTCTTCCCTCG
4258087 CACGTTTTTCTTCCCTCG
1 CACGTTTTTCTTCCCTCG
4258105 TATGCCTCTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.06, C:0.39, G:0.11, T:0.44
Consensus pattern (18 bp):
CACGTTTTTCTTCCCTCG
Found at i:4261822 original size:11 final size:11
Alignment explanation
Indices: 4261806--4261845 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
4261796 TGGGGATTTT
4261806 TACTAAAATAA
1 TACTAAAATAA
4261817 TACTAAAA-AA
1 TACTAAAATAA
*
4261827 TA--AAAAAAA
1 TACTAAAATAA
4261836 TACTAAAATA
1 TACTAAAATA
4261846 GTATAACTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
8 4 0.16
9 4 0.16
10 4 0.16
11 13 0.52
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (11 bp):
TACTAAAATAA
Found at i:4262000 original size:3 final size:3
Alignment explanation
Indices: 4261987--4262051 Score: 85
Period size: 3 Copynumber: 21.3 Consensus size: 3
4261977 CAGCCCAGCT
* ** *
4261987 GAA GGA GAA GAA GAA GAA GAGA GCT GAA GGA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GA-A GAA GAA GAA GAA GAA GAA GAA GAA
4262033 GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA G
4262052 GTGGTGCCGG
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
3 51 0.96
4 2 0.04
ACGTcount: A:0.58, C:0.02, G:0.38, T:0.02
Consensus pattern (3 bp):
GAA
Found at i:4262473 original size:76 final size:77
Alignment explanation
Indices: 4262268--4262479 Score: 225
Period size: 76 Copynumber: 2.7 Consensus size: 77
4262258 GTTTAGTTAT
* *
4262268 TAATAATTATTGTTACTTAGTATTATTGTTAGTAAAAAACTAATATTATTATTATGGTTAGTTAT
1 TAATTATTATTGTTAGTTAGTATTATTGTTAGTAAAAAAC---TATTATTA-T-T-GTTAGTTAT
4262333 TAGGATTAGTAAAAACCC
60 TAGGATTAGTAAAAACCC
* *** * * ***
4262351 TAATTATTATT-TTAGTTAGTATGATTGTTAGTTTTTACATTA-TATTATTGTTAGTTATTATTT
1 TAATTATTATTGTTAGTTAGTATTATTGTTAG-TAAAAAACTATTATTATTGTTAGTTATTAGGA
4262414 TTAGT-AAAACCC
65 TTAGTAAAAACCC
4262426 TAATTATTATTGTTAGTTAGTATTATT-TTGAGTAAAAAACTATTATTATTGTTA
1 TAATTATTATTGTTAGTTAGTATTATTGTT-AGTAAAAAACTATTATTATTGTTA
4262480 TTGTGTTAGT
Statistics
Matches: 108, Mismatches: 17, Indels: 15
0.77 0.12 0.11
Matches are distributed among these distances:
75 25 0.23
76 43 0.40
77 1 0.01
78 1 0.01
79 5 0.05
80 2 0.02
82 18 0.17
83 13 0.12
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.50
Consensus pattern (77 bp):
TAATTATTATTGTTAGTTAGTATTATTGTTAGTAAAAAACTATTATTATTGTTAGTTATTAGGAT
TAGTAAAAACCC
Found at i:4266460 original size:26 final size:26
Alignment explanation
Indices: 4266430--4266510 Score: 73
Period size: 26 Copynumber: 3.2 Consensus size: 26
4266420 TTCGATCACG
4266430 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
* *
4266456 TGTGTA-T-CGGATG-GTAATGG-TCAC-A
1 TGTGTAGTAC-TATGTG-CA-GGCT-ACTA
4266481 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
4266507 TGTG
1 TGTG
4266511 AACCGAACAT
Statistics
Matches: 42, Mismatches: 4, Indels: 18
0.66 0.06 0.28
Matches are distributed among these distances:
24 2 0.05
25 17 0.40
26 21 0.50
27 2 0.05
ACGTcount: A:0.22, C:0.14, G:0.30, T:0.35
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:4266509 original size:51 final size:49
Alignment explanation
Indices: 4266329--4266510 Score: 197
Period size: 51 Copynumber: 3.6 Consensus size: 49
4266319 GATGGTCATG
* * **
4266329 TGTGTAGTACTCTGTGCAGGCTACTACGTGTACCGGAT-TGATAGGTTGCA
1 TGTGTAGTACTATGTGCAGGCTACTATGTGTA-CGGATGT-ATAGGTCACA
* * * * * *
4266379 TGTGTAGTACTATGTGCAGGCTACTATGCGTACTGAATAGTTTCGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTATGTGTAC-GGAT-GTATAGGTCACA
4266430 TGTGTAGTACTATGTGCAGGCTACTATGTGTATCGGATGGTA-ATGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTATGTGTA-CGGAT-GTATA-GGTCACA
4266481 TGTGTAGTACTATGTGCAGGCTACTATGTG
1 TGTGTAGTACTATGTGCAGGCTACTATGTG
4266511 AACCGAACAT
Statistics
Matches: 110, Mismatches: 17, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
49 1 0.01
50 32 0.29
51 75 0.68
52 2 0.02
ACGTcount: A:0.22, C:0.16, G:0.29, T:0.34
Consensus pattern (49 bp):
TGTGTAGTACTATGTGCAGGCTACTATGTGTACGGATGTATAGGTCACA
Found at i:4266568 original size:45 final size:45
Alignment explanation
Indices: 4266512--4266597 Score: 127
Period size: 45 Copynumber: 1.9 Consensus size: 45
4266502 TACTATGTGA
* * *
4266512 ACCGAACATCATTGATTAGTAAGGTTGTTACTATGTGCTGATTCT
1 ACCGAACATCATTGATTAATAAGGTGGTTACCATGTGCTGATTCT
* *
4266557 ACCGGACATCATTGATTAATAAGGTGGTTGCCATGTGCTGA
1 ACCGAACATCATTGATTAATAAGGTGGTTACCATGTGCTGA
4266598 ATCCATCGAG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (45 bp):
ACCGAACATCATTGATTAATAAGGTGGTTACCATGTGCTGATTCT
Found at i:4270488 original size:158 final size:158
Alignment explanation
Indices: 4270220--4271286 Score: 1720
Period size: 158 Copynumber: 6.8 Consensus size: 158
4270210 ATTAGTAAAA
* *
4270220 AACTCTTATTTCGGCCCTTTGTTCGTATTTTT-TTCCTTG-ATTTTATTAC--T---TAAAAATA
1 AACTCTTATTTCAGCCCTTTGTTCGTATTTTTCTT-CTCGAATTTTATTACTTTCAATAAAAATA
*
4270278 TACTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTTAAATGTATTAATTTA
65 TATTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTTAAATGTATTAATTTA
4270343 GTGTGTTTTTTAAATAAATTTCAATAATT
130 GTGTGTTTTTTAAATAAATTTCAATAATT
4270372 AACTCTTATTTCAGCCCTTTGTTCGTATTTTTCTTCTCGAATTTTATTACTTTCAATAAAAATAT
1 AACTCTTATTTCAGCCCTTTGTTCGTATTTTTCTTCTCGAATTTTATTACTTTCAATAAAAATAT
4270437 ATTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTTAAATGTATTAATTTAG
66 ATTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTTAAATGTATTAATTTAG
4270502 TGTGTTTTTTAAATAAATTTCAATAATT
131 TGTGTTTTTTAAATAAATTTCAATAATT
4270530 AACTCTTATTTCAGCCCTTTGTTCGTATTTTTCTTCTCGAATTTTATTACTTTCAATAAAAATAT
1 AACTCTTATTTCAGCCCTTTGTTCGTATTTTTCTTCTCGAATTTTATTACTTTCAATAAAAATAT
4270595 ATTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTTAAATGTATTAATTTAG
66 ATTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTTAAATGTATTAATTTAG
4270660 TGTGTTTTTTAAATAAATTTCAATAATT
131 TGTGTTTTTTAAATAAATTTCAATAATT
4270688 AACTCTTATTTCAGCCCTTTGTTCGTATTTTTCTTCTCGAATTTTATTACTTTCAATAAAAATAT
1 AACTCTTATTTCAGCCCTTTGTTCGTATTTTTCTTCTCGAATTTTATTACTTTCAATAAAAATAT
4270753 ATTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTTAAATGTATTAATTTAG
66 ATTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTTAAATGTATTAATTTAG
4270818 TGTGTTTTTTAAATAAATTTCAATAATT
131 TGTGTTTTTTAAATAAATTTCAATAATT
4270846 AACTCTTATTTCAGCCCTTTGTTCGTATTTTTCTTCTCGAATTTTATTACTTTCAATAAAAATAT
1 AACTCTTATTTCAGCCCTTTGTTCGTATTTTTCTTCTCGAATTTTATTACTTTCAATAAAAATAT
* * *
4270911 ATTATTTTCTAATTTTATTATTTTACATTATTTTAGTAAATTATGTTTGAAATGTATTAATTTAA
66 ATTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTTAAATGTATTAATTTAG
*
4270976 TGTGTTTTTTAAATAAATTTCAAAAATT
131 TGTGTTTTTTAAATAAATTTCAATAATT
* ** * *
4271004 AACCCTTATTTTGGCCCTTTGTTCGAATTTTT-TTCTCGAATTTTATTACTTTCAATCAAAATAT
1 AACTCTTATTTCAGCCCTTTGTTCGTATTTTTCTTCTCGAATTTTATTACTTTCAATAAAAATAT
* *
4271068 ATTATTTTCGT-ATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTACTAATTTA
66 ATTATTTTC-TAATTTTATTATTTTACATTATTTTAGTACATTATGTTTTAAATGTATTAATTTA
* **
4271132 GTGTGTTTTTCAAATAAATTT-AGA-AAAA
130 GTGTGTTTTTTAAATAAATTTCA-ATAATT
* * * ** *
4271160 AAC-CTTATTTCGGCCATTTGTTCATATTTTT-TTAC-CGAAGCCTTATT-GTTTC-A-AAAAAT
1 AACTCTTATTTCAGCCCTTTGTTCGTATTTTTCTT-CTCGAA-TTTTATTACTTTCAATAAAAAT
* * *
4271219 ATATTATTTTC-ATATTTTATTATTTTACGTTATTTTAGTACATTATGTTTGAAATGCATTAATT
64 ATATTATTTTCTA-ATTTTATTATTTTACATTATTTTAGTACATTATGTTTTAAATGTATTAATT
4271283 TAGT
128 TAGT
4271287 AAAAAACCCT
Statistics
Matches: 873, Mismatches: 29, Indels: 25
0.94 0.03 0.03
Matches are distributed among these distances:
152 34 0.04
153 80 0.09
154 1 0.00
155 35 0.04
156 12 0.01
157 111 0.13
158 600 0.69
ACGTcount: A:0.30, C:0.10, G:0.07, T:0.53
Consensus pattern (158 bp):
AACTCTTATTTCAGCCCTTTGTTCGTATTTTTCTTCTCGAATTTTATTACTTTCAATAAAAATAT
ATTATTTTCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTTAAATGTATTAATTTAG
TGTGTTTTTTAAATAAATTTCAATAATT
Found at i:4271398 original size:130 final size:131
Alignment explanation
Indices: 4271148--4271384 Score: 329
Period size: 130 Copynumber: 1.8 Consensus size: 131
4271138 TTTTCAAATA
*
4271148 AATTTAGAAAAAAACCTTATTTCGGCCATTTGTTCATATTTTTTTACCGAAGCCTTATTGTTTCA
1 AATTTAGAAAAAAACCTTATTTCGGCCATTTGTTCATATTTTTTTACCGAAGCCTTATTCTTTCA
4271213 AAAAATATATTATTTTCATATTTTATTATTTTACGTTATTTTAGTACATTATGTTTGAAATGCAT
66 AAAAATATATTATTTTCATATTTTATTATTTTACGTTATTTTAGTACATTATGTTTGAAATGCAT
4271278 T
131 T
* * * **
4271279 AATTTAGTAAAAAACCCTTATTTCGGCCCTTTGTTCGTA-TTTTTT-CC--AGATTTTATTACTT
1 AATTTAG-AAAAAAACCTTATTTCGGCCATTTGTTCATATTTTTTTACCGAAG-CCTTATT-CTT
* * * *
4271340 TTAAAAAATATTTTATTTTCGTATTTTATTATTTTACGTTCTTTT
63 TCAAAAAATATATTATTTTCATATTTTATTATTTTACGTTATTTT
4271385 CATATTTTAT
Statistics
Matches: 93, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
128 2 0.02
129 5 0.05
130 45 0.48
131 13 0.14
132 28 0.30
ACGTcount: A:0.29, C:0.12, G:0.08, T:0.51
Consensus pattern (131 bp):
AATTTAGAAAAAAACCTTATTTCGGCCATTTGTTCATATTTTTTTACCGAAGCCTTATTCTTTCA
AAAAATATATTATTTTCATATTTTATTATTTTACGTTATTTTAGTACATTATGTTTGAAATGCAT
T
Found at i:4271585 original size:28 final size:29
Alignment explanation
Indices: 4271529--4271586 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
4271519 GGGTTTTTTC
* * * *
4271529 ATGCTAAATAAATTTCATAAAATATATAT
1 ATGCTAAATAAATATAATAAAACACATAT
4271558 ATGCTAAATAAA-ATAATAAAACACATAT
1 ATGCTAAATAAATATAATAAAACACATAT
4271586 A
1 A
4271587 ATGTACATAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
28 13 0.52
29 12 0.48
ACGTcount: A:0.57, C:0.09, G:0.03, T:0.31
Consensus pattern (29 bp):
ATGCTAAATAAATATAATAAAACACATAT
Found at i:4271663 original size:10 final size:10
Alignment explanation
Indices: 4271648--4271784 Score: 124
Period size: 10 Copynumber: 14.2 Consensus size: 10
4271638 TACTTATTTT
4271648 TTTTTCTTTC
1 TTTTTCTTTC
*
4271658 TTTTTCCTTC
1 TTTTTCTTTC
*
4271668 CTTTTC-TTC
1 TTTTTCTTTC
* *
4271677 TTCTCCTTTC
1 TTTTTCTTTC
*
4271687 CTTTTCTTTC
1 TTTTTCTTTC
4271697 TTTTTCTTTC
1 TTTTTCTTTC
4271707 ---TTC--TC
1 TTTTTCTTTC
4271712 TTTTTCTTCTC
1 TTTTTCTT-TC
*
4271723 CTTTTCTTTC
1 TTTTTCTTTC
4271733 TTTTTCTTTC
1 TTTTTCTTTC
* *
4271743 TTCTCCTTTC
1 TTTTTCTTTC
* *
4271753 CTTTCCTTTC
1 TTTTTCTTTC
*
4271763 CTTTTCTTTC
1 TTTTTCTTTC
4271773 TTTTTCTTTC
1 TTTTTCTTTC
4271783 TT
1 TT
4271785 CTCCTTCTTT
Statistics
Matches: 103, Mismatches: 17, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
5 2 0.02
7 3 0.03
8 3 0.03
9 6 0.06
10 80 0.78
11 9 0.09
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (10 bp):
TTTTTCTTTC
Found at i:4271774 original size:76 final size:77
Alignment explanation
Indices: 4271649--4271800 Score: 231
Period size: 76 Copynumber: 2.0 Consensus size: 77
4271639 ACTTATTTTT
*
4271649 TTTTCTTTCTTTTTCCTTCCTTTTCTTCTTCTCCTTTCCTTTTCTTTCTTTTTCTTTCTTCT-CT
1 TTTTCTTTCTTTTTCCTTCCTTTCCTTCTTCTCCTTTCCTTTTCTTTCTTTTTCTTTCTTCTCCT
4271713 T-TTTCTTCTCC
66 TCTTTCTTCTCC
*
4271724 TTTTCTTTCTTTTT-CTTTCTTCTCCTTTCCTT-TCCTTTCCTTTTCTTTCTTTTTCTTTCTTCT
1 TTTTCTTTCTTTTTCCTTCCTT-TCC-TT-CTTCTCCTTTCCTTTTCTTTCTTTTTCTTTCTTCT
4271787 CCTTCTTTCTTCTC
63 CCTTCTTTCTTCTC
4271801 TCCAGCTGAA
Statistics
Matches: 70, Mismatches: 2, Indels: 7
0.89 0.03 0.09
Matches are distributed among these distances:
74 6 0.09
75 16 0.23
76 33 0.47
77 6 0.09
78 9 0.13
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (77 bp):
TTTTCTTTCTTTTTCCTTCCTTTCCTTCTTCTCCTTTCCTTTTCTTTCTTTTTCTTTCTTCTCCT
TCTTTCTTCTCC
Found at i:4279219 original size:6 final size:6
Alignment explanation
Indices: 4279208--4279233 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
4279198 ATATACACAG
4279208 TCAGAT TCAGAT TCAGAT TCAGAT TC
1 TCAGAT TCAGAT TCAGAT TCAGAT TC
4279234 GAACTTAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.35
Consensus pattern (6 bp):
TCAGAT
Found at i:4279440 original size:27 final size:27
Alignment explanation
Indices: 4279402--4279460 Score: 109
Period size: 27 Copynumber: 2.2 Consensus size: 27
4279392 TCTTTTCGAT
*
4279402 ACATACTAGATAATATGCACTTCCTCC
1 ACATACCAGATAATATGCACTTCCTCC
4279429 ACATACCAGATAATATGCACTTCCTCC
1 ACATACCAGATAATATGCACTTCCTCC
4279456 ACATA
1 ACATA
4279461 TACAAAACCC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.36, C:0.31, G:0.07, T:0.27
Consensus pattern (27 bp):
ACATACCAGATAATATGCACTTCCTCC
Done.